Details
-
Type: Bug
-
Status: Open
-
Priority: Major
-
Resolution: Unresolved
-
Affects Version/s: 2.11.4.0
-
Fix Version/s: None
-
Component/s: Structures
-
Labels:None
Description
Import the following alignment, select all sequences, open the structure chooser, then *select all* sequences that are discovered from 3d-beacons.
Some of the structures have multple models, and/or alternate conformations, which seems to confuse Jalview, causing NPEs in the Jmol structure viewer binding code (JalviewJmolBinding.java:~788) :
PDBEntry ppe=getPdbEntry(pe);
if (ppe==null) {
Console.warn("Unexpected null entry for PDBEntry for a structure");
continue;
}
if (ppe.getFile()==null)
{
Console.warn("Unexpected null entry for file that we just tried to load into Jmol: pdbEntry: "+ppe.toString());
continue;
}
Problem alignment is at:
>HNRPK_BOVIN/1-276 Heterogeneous nuclear ribonucleoprotein K
-----------------------METEQPEETFP--------------------------------------
------NTETNGEFGK--------------------------------------------RPAEDME-EEQA
FKRSRNTDEMVELRILLQSKNAGAVIG---------------------------------------------
--KGGKN---------------------IKALRTDYNA--------------------------------SV
SVPDSSG-------------------------------------------PERILSISA-------------
-------------------------DI---------------------------------------ETIGEI
LKKIIPTLEEGLQLPSPTATSQL---------------------------------------P---------
-------LESDAV-------------------------------------------------ECLNYQHY--
--------KG--SDFDC-----------------------ELRLLIHQSLAGGIIGVKGAKI-KELRENTQT
TIK-----LFQECCPQS-TDRVVLIG--GKPDRVVECIKIILDLISESPIK---------------------
---GRAQPYD-PNFYDETYDYGGFTMM-FDDRRGRPVG---FPMRGRGGFDRMPPGRGG------RPMPPS-
-----------------------------------------------------
>HNRPK_RABIT/1-276 Heterogeneous nuclear ribonucleoprotein K
-----------------------METEQPEETFP--------------------------------------
------NTETNGEFGK--------------------------------------------RPAEDME-EEQA
FKRSRNTDEMVELRILLQSKNAGAVIG---------------------------------------------
--KGGKN---------------------IKALRTDYNA--------------------------------SV
SVPDSSG-------------------------------------------PERILSISA-------------
-------------------------DI---------------------------------------ETIGEI
LKKIIPTLEEGLQLPSPTATSQL---------------------------------------P---------
-------LESDAV-------------------------------------------------ECLNYQHF--
--------KG--SDFDC-----------------------ELRLLIHQSLAGGIIGVKGAKI-KELRENTQT
TIK-----LFQECCPHS-TDRVVLIG--GKPDRVVECIKIILDLISESPIK---------------------
---GRAQPYD-PNFYDETYDYGGFTMM-FDDRRGRPVG---FPMRGRGGFDRMPPGRGG------RPMPPS-
-----------------------------------------------------
>HNRPK_MACFA/1-276 Heterogeneous nuclear ribonucleoprotein K
-----------------------METEQPEETFP--------------------------------------
------NTETNGEFGK--------------------------------------------RPAEDME-EEQA
FKRSRNTDEMVELRILLQSKNAGAVIG---------------------------------------------
--KGGKN---------------------IKALRTDYNA--------------------------------SV
SVPDSSG-------------------------------------------PERILSISA-------------
-------------------------DI---------------------------------------ETIGEI
LKKIIPTLEEGLQLPSPTATSQL---------------------------------------P---------
-------LESDAV-------------------------------------------------ECLNYQHY--
--------KG--SDFDC-----------------------ELRLLIHQSLAGGIIGVKGAKI-KELRENTQT
TIK-----LFQECCPHS-TDRVVLIG--GKPDRVVECIKIILDLISESPIK---------------------
---GRAQPYD-PNFYDETYDYGGFTMM-FDDRRGRPVG---FPMRGRGGFDRMPPGRGG------RPMPPS-
-----------------------------------------------------
>DDX1_RAT/1-740 ATP-dependent RNA helicase DDX1
MAAFSEMGVMPEIAQAVEEMDWLLPTDIQAESIPLILGGGDVLMAAETGSGKTGAFSIPVIQIVYETLKDQQ
E----------GKKGKATIKTGASVLNKWQMNPYDRGSAFAIGSDGLCCQSREVKEWHGCRATRGLL-RGKH
YYEVSCHDQGL-CRVGWSTMQASLDLGTDKFGFGFGGTGKKSHNKQFDNYGEEFTMHDTIGCYLDIDKGHVK
FSKNGKDLGLAFEIPAHIKNQALFPACVLKNAELKFNFGEEEFKFPPKDGFVALSKAPDSYVVKSQHTG-NA
QVSQTKF--------------------------------LPNAPKALIVEPSRELAEQTLNNVKQFKKYIDN
PKLRELLIIGGVAARDQLSVLDNGVDIVVGTPGRLDDLVSTGKLNLSQVRFLVLDEADGLLSQGYSDFINRM
HNQIPQITSDGKRLQVIVCSATLHSFDVKKLSEKIMHFPTWVDLKGEDSVPDTVHHVVVPVNP-KTDRLWER
LGKNH--IRTDDVHAKDNTRPGA-NSPEMWSEAIKILKGEYAVRAIKEHKMDQAIIFCRTKIDCDNLEQYFM
QQGGGPDKKG--HQFSCVCLH-GDRKPHERKQNLERFKKGDVRFLICTDVAARGIDIHGVPY----------
--------VINVTLPDEKQNYVHRIGRVGRAER----MGLAISLVATEKEKVWYH--VCSNRGKGCYNTRLK
EDGGCTIWYNEMQLLSEIEEHLNCTISQVEPDIKVPVD----EFDGKVTYGQKRAAGGGNYKGHVDILAPTV
QELAALEKEAQTSFL------------------------HLGYLPNQLFRTF-
>DDX1_BOVIN/1-740 ATP-dependent RNA helicase DDX1
MAAFSEMGVMPEIAQAVEEMDWLLPTDIQAESIPLILGGGDVLMAAETGSGKTGAFSIPVIQIVYETLKDQQ
E----------GKKGKATIKTGASVLNKWQMNPYDRGSAFAIGSDGLCCQSREVKEWHGCRATKGLT-KGKH
YYEVSCHDQGL-CRVGWSSMQASLDLGTDKFGFGFGGTGKKSHNKQFDNYGEEFTMHDTIGCYLDIDKGHVK
FSKNGKDLGLAFEIPPHMKNQALFPACVLKNAELKFNFGEEEFKFPPKDGFVALSKAPESFVVKSQHTG-SA
QVAQTKF--------------------------------LPNAPKALIVEPSRELAEQTLNNVKQFKKYIDN
PKLRELLIIGGVAARDQLSVLDNGVDIVVGTPGRLDDLVSTGKLNLSQVRFLVLDEADGLLSQGYSDFINRI
HNQIPQITSDGKRLQVIVCSATLHSFDVKKLSEKIMHFPTWVDLKGEDSVPDTVHHVVVPVNP-KTDRLWER
LGKSH--IRTDEVHAKDNTRPGA-NSPEMWSEAIKILKGEYAVRAIKEHKMDQAIIFCRTKIDCDNLEQYFM
QQGGGPDKKG--HQFSCVCLH-GDRKPHERKQNLERFKKGDVRFLICTDVAARGIDIHGVPY----------
--------VINVTLPDEKQNYVHRIGRVGRAER----MGLAISLVATEKEKVWYH--VCSSRGKGCYNTRLK
EDGGCTIWYNEMQLLSEIEEHLNCTISQVEPDIKVPVD----EFDGKVTYGQKRTLGGGNYKGHVDVLAPTV
QELAALEKEAQTSFL------------------------HLGYLPNQLFRTF-
>HNRPK_PONAB/1-276 Heterogeneous nuclear ribonucleoprotein K
-----------------------METEQPEETFP--------------------------------------
------NTETNGEFGK--------------------------------------------RPAEDME-EEQA
FKRSRNTDEMVELRILLQSKNAGAVIG---------------------------------------------
--KGGKN---------------------IKALRTDYNA--------------------------------SV
SVPDSSG-------------------------------------------PERILSISA-------------
-------------------------DI---------------------------------------ETIGEI
LKKIIPTLEEGLQLPSPTATSQL---------------------------------------P---------
-------LESDAV-------------------------------------------------ECLNYQHY--
--------KG--SDFDC-----------------------ELRLLIHQSLAGGIIGVKGAKI-KELRENTQT
TIK-----LFQECCPHS-TDRVVLIG--GKPDRVVECIKIILDLISESPIK---------------------
---GRAQPYD-PNFYDETYDYGGFTMM-FDDRRGRPVG---FPMRGRGGFDRMPPGRGG------RPMPPS-
-----------------------------------------------------
>DDX1_DROME/1-727 ATP-dependent RNA helicase Ddx1
MTAFEEFGVLPELGMATDELDWTLPTDVQAEAIPLILGGGDVLMAAETGSGKTGAFCLPILQIVWETLRDLE
E----------GKAGKGGAIGGA--VTPWTMSFFDRGNALAVTPDGLRCQSREFKEWHGCRATTGVRGKGKF
YFEATVTDEGL-CRVGWSTQQANLDLGTCRMGFGFGGTGKKSNNRQFDDYGEAFGKADVIGCLLDLKNQEVS
FTKNGQNLGVAFRLPDNLAKETFYPAVVLKNAEMQFNFGKTDFKYAPGNGFVGACQAGPEHSKANPITGPAA
GAPSAKP--------------------------------APNAPQAIIMEPSRELAEQTYNQIEKFKYHLSN
PEVRSLLLIGGVRLEEQKAQLMQGTHIVVGTPGRLEEMINSGLVLLTHCRFFVLDEADALLKQGYTELIDRL
HKQIPKITSDGRRLQMVVCSATLHAFEVKKMAERLMHFPTWVDLKGEDAVPETVHHVVCLVDP-QMDTTWQS
L-RQP--IGTDGVHDRDNVHPGN-HSKETLSQAVKLLKGEYCVHAIDKHNMDRAIIFCRTKQDCDNLERFLR
QRG------G--KHYSCVCLH-GDRKPQERKENLEMFKRQQVKFLICTDVAARGLDITGLPF----------
--------MINVTLPDDKTNYVHRIGRVGRAER----MGLAISLVATVPEKVWYHGEWCKSRGRSCNNTNLT
EVRGCCIWYNEPNLLAEVEDHLNITIQQVDKTMDVPVN----DFDGKVVYGQKNLRTGSGYEDHVEQLVPTV
RKLTELELQSQSLFLKRLKV---------------------------------
>DDX1_MACFA/1-740 ATP-dependent RNA helicase DDX1
MAAFSEMGVMPEIAQAVEEMDWLLPTDIQAESIPLILGGGDVLMAAETGSGKTGAFSIPVIQIVYETLKDQQ
E----------GKKGKTTIKTGASVLNKWQMNPYDRGSAFAIGSDGLCCQSREVKEWHGCRATKGLM-KGKH
YYEVSCHDQGL-CRVGWSTMQASLDLGTDKFGFGFGGTGKKSHNKQFDNYGEEFTMHDTIGCYLDIDKGHVK
FSKNGKDLGLAFEIPPHMKNQALFPACVLKNAELKFNFGEEEFKFPPKDGFVALSKAPDGYIVKSQHSG-NA
QVTQTKF--------------------------------LPNAPKALIVEPSRELAEQTLNNIKQFKKYIDN
PKLRELLIIGGVAARDQLSVLENGVDIVVGTPGRLDDLVSTGKLNLSQVRFLVLDEADGLLTQGYSDFINRM
HNQIPQVTSDGKRLQVIVCSATLHSFDVKKLSEKIMHFPTWVDLKGEDSVPDTVHHVVVPVNP-KTDRLWER
LGKNH--IRTDDVHAKDNTRPGA-NSPEMWSEAIKILKGEYAVRAIKEHKMDQAIIFCRTKIDCDNLEQYFM
QQGGGPDKKG--HQFSCVCLH-GDRKPHERKQNLERFKKGDVRFLICTDVAARGIDIHGVPY----------
--------VINVTLPDEKQNYVHRIGRVGRAER----MGLAISLVATEKEKVWYH--VCSSRGKGCYNTRLK
EDGGCTIWYNEMQLLSEIEEHLNCTISQVEPDIKVPVD----EFDGKVTYGQKRAAGGGSYKGHVDILAPTV
QELAALEKEAQTSFL------------------------HLGYLPNQLFRTF-
>HNRPK_HUMAN/1-276 Heterogeneous nuclear ribonucleoprotein K
-----------------------METEQPEETFP--------------------------------------
------NTETNGEFGK--------------------------------------------RPAEDME-EEQA
FKRSRNTDEMVELRILLQSKNAGAVIG---------------------------------------------
--KGGKN---------------------IKALRTDYNA--------------------------------SV
SVPDSSG-------------------------------------------PERILSISA-------------
-------------------------DI---------------------------------------ETIGEI
LKKIIPTLEEGLQLPSPTATSQL---------------------------------------P---------
-------LESDAV-------------------------------------------------ECLNYQHY--
--------KG--SDFDC-----------------------ELRLLIHQSLAGGIIGVKGAKI-KELRENTQT
TIK-----LFQECCPHS-TDRVVLIG--GKPDRVVECIKIILDLISESPIK---------------------
---GRAQPYD-PNFYDETYDYGGFTMM-FDDRRGRPVG---FPMRGRGGFDRMPPGRGG------RPMPPS-
-----------------------------------------------------
>DDX1_CHICK/1-740 ATP-dependent RNA helicase DDX1
MAAFSEMGVMPEIAQAVEEMDWLLPTDIQAESIPLILGGGDVLMAAETGSGKTGAFSIPVIQIVYETLKDQM
E----------GKKGKATIKTGGAVLNKWQMNPYDRGSAFAIGSDGLCCQSREVKEWHGCRATRGVT-KGKY
YYEVSCHDQGL-CRVGWSTMQASLDLGTDKFGFGFGGTGKKSHNKQFDSYGEEFTMHDTIGCYLDIDKGQIK
FSKNGKDLGLAFEFPPHIRNQALFAACVLKNAELKFNFGEEDFKFPPKDGYIGLCKAPDGNVVKSQHTG-NA
QVVQTQN--------------------------------LPNAPKALIVEPSRELAEQTLNNVKQFKKYIDN
PKLRELLIIGGVAARDQLSVLEQGVDIVVGTPGRLDDLVSTGKLNLSQVRFLVLDEADGLLLQGYSDFINRI
HSQIPQITSDGKRLQVIVCSATLHSFDVKKLSEKIMHFPTWVDLKGEDSVPETVHHVVVIVNP-KTDKLWER
LGKNH--IRTDEVHAKDNTLPGA-NTPEMWSEAIKILKGEYTVRAIKEHKMDQAIIFCRTKIDCDNMEQYFI
QQGGGPDRKG--HQFSCVCLH-GDRKPQERKQNLERFKRGDVRFLICTDVAARGIDIHGVPY----------
--------VINVTLPDEKQNYVHRIGRVGRAER----MGLAISLVAKEKEKVWYH--VCSSRGKGCYNTRLK
EEGGCTIWYNEMQLLGEIEEHLNCTISQVEPDIKVPVD----DFDGKVTYGQKRALGGGLYKGHVDILAPTV
QELAALEKEAQTSFL------------------------HLGYLPNQLFRTF-
>HNRPK_MOUSE/1-276 Heterogeneous nuclear ribonucleoprotein K
-----------------------METEQPEETFP--------------------------------------
------NTETNGEFGK--------------------------------------------RPAEDME-EEQA
FKRSRNTDEMVELRILLQSKNAGAVIG---------------------------------------------
--KGGKN---------------------IKALRTDYNA--------------------------------SV
SVPDSSG-------------------------------------------PERILSISA-------------
-------------------------DI---------------------------------------ETIGEI
LKKIIPTLEEGLQLPSPTATSQL---------------------------------------P---------
-------LESDAV-------------------------------------------------ECLNYQHY--
--------KG--SDFDC-----------------------ELRLLIHQSLAGGIIGVKGAKI-KELRENTQT
TIK-----LFQECCPHS-TDRVVLIG--GKPDRVVECIKIILDLISESPIK---------------------
---GRAQPYD-PNFYDETYDYGGFTMM-FDDRRGRPVG---FPMRGRGGFDRMPPGRGG------RPMPPS-
-----------------------------------------------------
>DDX1_DROVI/1-400 ATP-dependent RNA helicase Ddx1
------------------------------------------------------------------------
------------------------------------------------------------------------
------------------------------------------------------------------------
------------------------------------------------------------------------
------------------------------------------------------------------------
-----------------------------------------------------DDEADRLLKQGYTDLIERL
HKQIPKITSDGCRLQMIVCSATLHAFEVKKMAERLMHFPTWGDLKGEDAVPETVHHVVCMVDP-HTDSSWQQ
L-RQP--IHTDGVHDHDNVHPTN-QSPETFSQAVKLLKGEYCIRAIDQHKMDRAIIFCRTKQDCDNLEQHLS
QRG------G--QRFSCVCLH-GDRKPQERKQNLEMFKRQEVKFLICTDVAARGLDITGLPFSKDLKYLSEN
TLNFPNLAVINITLPDDKSNYVHRIGRVGRPES----MGLAISLVSTVPEKVWYHGEWCKTRGRS-------
---GSCIWYNEPNLLAEVEDHLNITIQQVVKSLDVPVN----DFDGKVVYGQKNLNMGTGYEDHVEQLGPTV
RKQTDLELQSQSLFLKRLKRLNWFDFGLLHDPKYFHGYEYIKYINKLTLKSCV
>HNRPK_RAT/1-276 Heterogeneous nuclear ribonucleoprotein K
-----------------------METEQPEETFP--------------------------------------
------NTETNGEFGK--------------------------------------------RPAEDME-EEQA
FKRSRNTDEMVELRILLQSKNAGAVIG---------------------------------------------
--KGGKN---------------------IKALRTDYNA--------------------------------SV
SVPDSSG-------------------------------------------PERILSISA-------------
-------------------------DI---------------------------------------ETIGEI
LKKIIPTLEEGLQLPSPTATSQL---------------------------------------P---------
-------LESDAV-------------------------------------------------ECLNYQHY--
--------KG--SDFDC-----------------------ELRLLIHQSLAGGIIGVKGAKI-KELRENTQT
TIK-----LFQECCPHS-TDRVVLIG--GKPDRVVECIKIILDLISESPIK---------------------
---GRAQPYD-PNFYDETYDYGGFTMM-FDDRRGRPVG---FPMRGRGGFDRMPPGRGG------RPMPPS-
-----------------------------------------------------
>DDX1_MOUSE/1-740 ATP-dependent RNA helicase DDX1
MAAFSEMGVMPEIAQAVEEMDWLLPTDIQAESIPLILGGGDVLMAAETGSGKTGAFSIPVIQIVYETLKDQQ
E----------GKKGKTTIKTGASVLNKWQMNPYDRGSAFAIGSDGLCCQSREVKEWHGCRGTRGLL-KGKH
YYEVSCHDQGL-CRVGWSTMQASLDLGTDKFGFGFGGTGKKSHNKQFDNYGEEFTMHDTIGCYLDIDKGHVK
FSKNGKDLGLAFEIPAHIKNQALFPACVLKNAELKFNFGEEEFKFPPKDGFVALSKAPDNYIVKSQHTG-NA
QVSQTKF--------------------------------LPNAPKALIVEPSRELAEQTLNNVKQFKKYIDN
PKLRELLIIGGVAARDQLSVLDNGVDIVVGTPGRLDDLVSTGKLNLSQVRFLVLDEADGLLSQGYSDFINRM
HNQIPQITCDGKRLQVIVCSATLHSFDVKKLSEKIMHFPTWVDLKGEDSVPDTVHHVVVPVNP-KTDKLWER
LGKNH--IRTDDVHAKDNTRPGA-NSPEMWSEAIKILKGEYAVRAIKEHKMDQAIIFCRTKIDCDNLEQYFM
QQGGGPDKKG--HQFSCVCLH-GDRKPHERKQNLERFKKGDVRFLICTDVAARGIDIHGVPY----------
--------VINVTLPDEKQNYVHRIGRVGRAER----MGLAISLVATEKEKVWYH--VCSNRGKGCYNTRLK
EDGGCTIWYNEMQLLSEIEEHLNCTISQVEPDIKVPVD----EFDGKVTYGQKRAAGGGNYKGHVDVLAPTV
QELAALEKEAQTSFL------------------------HLGYLPNQLFRTF-
>DDX1_HUMAN/1-740 ATP-dependent RNA helicase DDX1
MAAFSEMGVMPEIAQAVEEMDWLLPTDIQAESIPLILGGGDVLMAAETGSGKTGAFSIPVIQIVYETLKDQQ
E----------GKKGKTTIKTGASVLNKWQMNPYDRGSAFAIGSDGLCCQSREVKEWHGCRATKGLM-KGKH
YYEVSCHDQGL-CRVGWSTMQASLDLGTDKFGFGFGGTGKKSHNKQFDNYGEEFTMHDTIGCYLDIDKGHVK
FSKNGKDLGLAFEIPPHMKNQALFPACVLKNAELKFNFGEEEFKFPPKDGFVALSKAPDGYIVKSQHSG-NA
QVTQTKF--------------------------------LPNAPKALIVEPSRELAEQTLNNIKQFKKYIDN
PKLRELLIIGGVAARDQLSVLENGVDIVVGTPGRLDDLVSTGKLNLSQVRFLVLDEADGLLSQGYSDFINRM
HNQIPQVTSDGKRLQVIVCSATLHSFDVKKLSEKIMHFPTWVDLKGEDSVPDTVHHVVVPVNP-KTDRLWER
LGKSH--IRTDDVHAKDNTRPGA-NSPEMWSEAIKILKGEYAVRAIKEHKMDQAIIFCRTKIDCDNLEQYFI
QQGGGPDKKG--HQFSCVCLH-GDRKPHERKQNLERFKKGDVRFLICTDVAARGIDIHGVPY----------
--------VINVTLPDEKQNYVHRIGRVGRAER----MGLAISLVATEKEKVWYH--VCSSRGKGCYNTRLK
EDGGCTIWYNEMQLLSEIEEHLNCTISQVEPDIKVPVD----EFDGKVTYGQKRAAGGGSYKGHVDILAPTV
QELAALEKEAQTSFL------------------------HLGYLPNQLFRTF-
>DDX1_DICDI/1-765 Probable ATP-dependent RNA helicase ddx1
MSAFEDLGVLPEIIKAIEELDWLLPTPIQTEAIPLILGGGDVLAAAETGSGKTGAFALPILQITYETLNKKA
EIPIIAPTNTSGEDGTSGGGGGGGGGDTIELDQIDRDKNMAV--DGLICQSRS-SDWCGIKATKGIS-SGKF
YYESIVRDEGL-CRIGFALKKSSRNIGTDKFSWGYGGTGKKSHESKFIDYGKPFGNNDVIGCYINFDEEIIG
FTKNGQDFGEAFTF--NSKAGIFYPALVLKNAEMEFNFGSKPMKHDLK-GYKPINQA---ELLIDQQT--ST
QIDNSKNNNNNNNKKGSGNNKKNKGKDDDKMNDEDNNNKQPRKTLSLIIEPTRELADQAYSAILNFSKYLDS
PKIQVSLCIGGEKSNGGRNKIEG--DIIIGTPGRLESLVKEGSIDLSSIKFFVLDEADQLIDDNLA-IVNFI
YNKLPI----GQNLQVLFFSATLHSTKVIKFCEQITKNPTWVDLKGRDFIPDLITHAYVKADPIKFESLWRN
S-ENPLRIRTDGVHASDVQQFGKLKEPEQKSEAIKLLKAQLLLKCIQSFKMDQAIIFARTRLDCDHIHQFLK
DAGGG-NTSGLEGEFSSTVLHGGDNISRARKDNLEKFRNGDVRFLICTDVAARGIDIRGLPY----------
--------MINYTLPESFEDYIHRVGRVGRSDR----IGLAISLVAYEQEKVWYH--TCRDKGKGCHNTKLT
ENGGCCIWYDEPQLFTAIQE--NIGPIELDSDFQLPKDMKQLNFGGST----KLTGASADYKPHTEELRSRV
LQLSQLEETIQIDYLTLPKRII-----------------KLK-----------
>DDX1_XENTR/1-740 ATP-dependent RNA helicase DDX1
MAAFSEMGVMAEIAQAVEEMDWLLPTDIQAESIPLILGGGDVLMAAETGSGKTGAFSIPVIQIVYETLKDQQ
E----------GKKGKTSVKTGSTVLNKWQMNPYDRGSSFAIGSDGLCCQSREIKEWHGCRSTRGVN-KGKY
YYEVSCHDQGL-CRVGWSTLQASLDLGTDKFGFGFGGTGKKSHNKQFDNYGEEFTMHDTIGCYIDIDNGTVK
YSKNGKDLGLAFQIPAHLKNQAVFASCVLKNAELKFNFGEEDFKFPPKDGFVALSKAPDGHVVKSQNTG-SA
QVSQAKN--------------------------------LPNAPKALIIEPSRELAEQTLNNVKQFKKYVDS
PKLRELLIIGGVAAKEQLTLLENGVDIVVGTPGRIDDLISTGKLNLSQVRFLVLDEADGLLSQGYSDFINRI
HGQIPQVTSDGKRLQVIVCSATLHSFDVKKLSEKIMHFPTWVDLKGEDSVPETVHHVVVPVNP-KKDKQWER
LGKNH--IRTDGVHDKDNTRPGG-NSAEMWSEAIKVLKGEYTVRAIKEHKMDQAIIFCRTKLDCDNMEQYFI
QQGGGPDKKG--HQFSCVCLH-SDRKPQERKHNLERFKKCEVRFLICTDVAARGIDIHGVPY----------
--------VINVTLPDEKQNYVHRIGRVGRAER----MGLAISLVAAEKEKVWYH--VCSSRGKGCHNTRLK
EDGGCTIWYNETQLLSEIEEHLTCTISQVEPDIKVPLD----EFDGKVVYGQRRATGGGLYKGHVDILAPTV
QELAALEKEAQTSFL------------------------HLGYLSNQLFRTF-
>DDX1_XENLA/1-740 ATP-dependent RNA helicase DDX1
MAAFSEMGVMPEIAQAVEEMDWLLPTDIQAESIPLILGGGDVLMAAETGSGKTGAFSIPVIQIVYETLKDQQ
E----------GKKGKASVKTGSTVLNKWQMNPYDRGSAFAIGSDGLCCQSREIKEWHGCRSTRGVN-KGKY
YYEVSCHDQGL-CRVGWSTLSASLDLGTDKFGFGFGGTGKKSHNKQFDNYGEEFTMHDTIGCYLDIDNSIVK
FSKNGKDLGLAFQIPSHMKNQAFFTSCVLKNAELKFNFGEEDFKFPPKDGFVALSKAPDGHVVKSQNTG-SA
QVSQTKS--------------------------------LPNAPKALIIEPSRELAEQTLNNVKQFKKYVDN
PKLRELLIIGGVAAKEQLTILENGVDIVVGTPGRIDDLISTGKLSLSQVRFLVLDEADGLLSQGYSDFINRI
YGQIPQITSDGKRLQVIVCSATLHSFDVKKLSEKIMHFPTWVDLKGEDSVPETVHHVVVPVNP-KKDKQWEK
LAKNH--IRTDGVHDKDNTRPGG-NSAEVWSEAIKVLKGEYIVRAIKEHKMDQAIIFCRTKLDCDNMEQYFI
QQGGGPDKKG--HQFSCVCLH-SDRKPPERKHNLERFKKCEVRFLICTDVAARGIDIRGVPY----------
--------VINVTLPDEKQNYVHRIGRVGRAER----MGLAISLVASEKEKVWYH--VCSSRGKGCYNTRLK
EDGGCTIWYNEMQLLSEIEEHLTCTISQVEPDIKVPLD----DFDGKVVYGQRRATGGGLYKGHVDILAPTV
QELASLEKEAQTSFL------------------------HLGYLSNQLFRSF-
>DDX1_PONAB/1-740 ATP-dependent RNA helicase DDX1
MAAFSEMGVMPEIAQAVEEMDWLLPTDIQAESIPLILGGGDVLMAAETGSGKTGAFSIPVIQIVYETLKDQQ
E----------GKKGKTTIKTGASVLNKWQMNPYDRGSAFAIGSDGLCCQSREVKEWHGCRATKGLM-KGKH
YYEVSCHDQGL-CRVGWSTMQASLDLGTDKFGFGFGGTGKKSHNKQFDNYGEEFTMHDTIGCYLDIDKGHVK
FSKNGKDLGLAFEIPPHMKNQALFPACVLKNAELKFNFGEEEFKFPPKDGFVALSKAPDGYIVKSQHSG-NA
QVTQTKF--------------------------------LPNAPKALIVEPSRELAEQTLNNIKQFKKYIDN
PKLRELLIIGGVAARDQLSVLENGVDIVVGTPGRLDDLVSTGKLNLSQVRFLVLDEADGLLSQGYSDFINRM
HNQIPQVTSDGKRLQVIVCSATLHSFDVKKLSEKIMHFPTWVDLKGEDSVPDTVHHVVVPVNP-KTDRLWER
LGKSH--IRTDDVHAKDNTRPGA-NSPEMWSEAIKILKGEYAVRAIKEHKMDQAIIFCRTKIDCDNLEQYFI
QQGGGPDKKG--HQFSCVCLH-GDRKPHERKQNLERFKKGDVRFLICTDVAARGIDIHGVPY----------
--------VINVTLPDEKQNYVHRIGRVGRAER----MGLAISLVATEKEKVWYH--VCSSRGKGCYNTRLK
EDGGCTIWYNEMQLLSEIEEHLNCTISQVEPDIKVPVD----EFDGKVTYGQKRAAGGGSYKGHVDILAPTV
QGLAALEKEAQTSFL------------------------HLGYLPNQLFRTS-
Some of the structures have multple models, and/or alternate conformations, which seems to confuse Jalview, causing NPEs in the Jmol structure viewer binding code (JalviewJmolBinding.java:~788) :
PDBEntry ppe=getPdbEntry(pe);
if (ppe==null) {
Console.warn("Unexpected null entry for PDBEntry for a structure");
continue;
}
if (ppe.getFile()==null)
{
Console.warn("Unexpected null entry for file that we just tried to load into Jmol: pdbEntry: "+ppe.toString());
continue;
}
Problem alignment is at:
>HNRPK_BOVIN/1-276 Heterogeneous nuclear ribonucleoprotein K
-----------------------METEQPEETFP--------------------------------------
------NTETNGEFGK--------------------------------------------RPAEDME-EEQA
FKRSRNTDEMVELRILLQSKNAGAVIG---------------------------------------------
--KGGKN---------------------IKALRTDYNA--------------------------------SV
SVPDSSG-------------------------------------------PERILSISA-------------
-------------------------DI---------------------------------------ETIGEI
LKKIIPTLEEGLQLPSPTATSQL---------------------------------------P---------
-------LESDAV-------------------------------------------------ECLNYQHY--
--------KG--SDFDC-----------------------ELRLLIHQSLAGGIIGVKGAKI-KELRENTQT
TIK-----LFQECCPQS-TDRVVLIG--GKPDRVVECIKIILDLISESPIK---------------------
---GRAQPYD-PNFYDETYDYGGFTMM-FDDRRGRPVG---FPMRGRGGFDRMPPGRGG------RPMPPS-
-----------------------------------------------------
>HNRPK_RABIT/1-276 Heterogeneous nuclear ribonucleoprotein K
-----------------------METEQPEETFP--------------------------------------
------NTETNGEFGK--------------------------------------------RPAEDME-EEQA
FKRSRNTDEMVELRILLQSKNAGAVIG---------------------------------------------
--KGGKN---------------------IKALRTDYNA--------------------------------SV
SVPDSSG-------------------------------------------PERILSISA-------------
-------------------------DI---------------------------------------ETIGEI
LKKIIPTLEEGLQLPSPTATSQL---------------------------------------P---------
-------LESDAV-------------------------------------------------ECLNYQHF--
--------KG--SDFDC-----------------------ELRLLIHQSLAGGIIGVKGAKI-KELRENTQT
TIK-----LFQECCPHS-TDRVVLIG--GKPDRVVECIKIILDLISESPIK---------------------
---GRAQPYD-PNFYDETYDYGGFTMM-FDDRRGRPVG---FPMRGRGGFDRMPPGRGG------RPMPPS-
-----------------------------------------------------
>HNRPK_MACFA/1-276 Heterogeneous nuclear ribonucleoprotein K
-----------------------METEQPEETFP--------------------------------------
------NTETNGEFGK--------------------------------------------RPAEDME-EEQA
FKRSRNTDEMVELRILLQSKNAGAVIG---------------------------------------------
--KGGKN---------------------IKALRTDYNA--------------------------------SV
SVPDSSG-------------------------------------------PERILSISA-------------
-------------------------DI---------------------------------------ETIGEI
LKKIIPTLEEGLQLPSPTATSQL---------------------------------------P---------
-------LESDAV-------------------------------------------------ECLNYQHY--
--------KG--SDFDC-----------------------ELRLLIHQSLAGGIIGVKGAKI-KELRENTQT
TIK-----LFQECCPHS-TDRVVLIG--GKPDRVVECIKIILDLISESPIK---------------------
---GRAQPYD-PNFYDETYDYGGFTMM-FDDRRGRPVG---FPMRGRGGFDRMPPGRGG------RPMPPS-
-----------------------------------------------------
>DDX1_RAT/1-740 ATP-dependent RNA helicase DDX1
MAAFSEMGVMPEIAQAVEEMDWLLPTDIQAESIPLILGGGDVLMAAETGSGKTGAFSIPVIQIVYETLKDQQ
E----------GKKGKATIKTGASVLNKWQMNPYDRGSAFAIGSDGLCCQSREVKEWHGCRATRGLL-RGKH
YYEVSCHDQGL-CRVGWSTMQASLDLGTDKFGFGFGGTGKKSHNKQFDNYGEEFTMHDTIGCYLDIDKGHVK
FSKNGKDLGLAFEIPAHIKNQALFPACVLKNAELKFNFGEEEFKFPPKDGFVALSKAPDSYVVKSQHTG-NA
QVSQTKF--------------------------------LPNAPKALIVEPSRELAEQTLNNVKQFKKYIDN
PKLRELLIIGGVAARDQLSVLDNGVDIVVGTPGRLDDLVSTGKLNLSQVRFLVLDEADGLLSQGYSDFINRM
HNQIPQITSDGKRLQVIVCSATLHSFDVKKLSEKIMHFPTWVDLKGEDSVPDTVHHVVVPVNP-KTDRLWER
LGKNH--IRTDDVHAKDNTRPGA-NSPEMWSEAIKILKGEYAVRAIKEHKMDQAIIFCRTKIDCDNLEQYFM
QQGGGPDKKG--HQFSCVCLH-GDRKPHERKQNLERFKKGDVRFLICTDVAARGIDIHGVPY----------
--------VINVTLPDEKQNYVHRIGRVGRAER----MGLAISLVATEKEKVWYH--VCSNRGKGCYNTRLK
EDGGCTIWYNEMQLLSEIEEHLNCTISQVEPDIKVPVD----EFDGKVTYGQKRAAGGGNYKGHVDILAPTV
QELAALEKEAQTSFL------------------------HLGYLPNQLFRTF-
>DDX1_BOVIN/1-740 ATP-dependent RNA helicase DDX1
MAAFSEMGVMPEIAQAVEEMDWLLPTDIQAESIPLILGGGDVLMAAETGSGKTGAFSIPVIQIVYETLKDQQ
E----------GKKGKATIKTGASVLNKWQMNPYDRGSAFAIGSDGLCCQSREVKEWHGCRATKGLT-KGKH
YYEVSCHDQGL-CRVGWSSMQASLDLGTDKFGFGFGGTGKKSHNKQFDNYGEEFTMHDTIGCYLDIDKGHVK
FSKNGKDLGLAFEIPPHMKNQALFPACVLKNAELKFNFGEEEFKFPPKDGFVALSKAPESFVVKSQHTG-SA
QVAQTKF--------------------------------LPNAPKALIVEPSRELAEQTLNNVKQFKKYIDN
PKLRELLIIGGVAARDQLSVLDNGVDIVVGTPGRLDDLVSTGKLNLSQVRFLVLDEADGLLSQGYSDFINRI
HNQIPQITSDGKRLQVIVCSATLHSFDVKKLSEKIMHFPTWVDLKGEDSVPDTVHHVVVPVNP-KTDRLWER
LGKSH--IRTDEVHAKDNTRPGA-NSPEMWSEAIKILKGEYAVRAIKEHKMDQAIIFCRTKIDCDNLEQYFM
QQGGGPDKKG--HQFSCVCLH-GDRKPHERKQNLERFKKGDVRFLICTDVAARGIDIHGVPY----------
--------VINVTLPDEKQNYVHRIGRVGRAER----MGLAISLVATEKEKVWYH--VCSSRGKGCYNTRLK
EDGGCTIWYNEMQLLSEIEEHLNCTISQVEPDIKVPVD----EFDGKVTYGQKRTLGGGNYKGHVDVLAPTV
QELAALEKEAQTSFL------------------------HLGYLPNQLFRTF-
>HNRPK_PONAB/1-276 Heterogeneous nuclear ribonucleoprotein K
-----------------------METEQPEETFP--------------------------------------
------NTETNGEFGK--------------------------------------------RPAEDME-EEQA
FKRSRNTDEMVELRILLQSKNAGAVIG---------------------------------------------
--KGGKN---------------------IKALRTDYNA--------------------------------SV
SVPDSSG-------------------------------------------PERILSISA-------------
-------------------------DI---------------------------------------ETIGEI
LKKIIPTLEEGLQLPSPTATSQL---------------------------------------P---------
-------LESDAV-------------------------------------------------ECLNYQHY--
--------KG--SDFDC-----------------------ELRLLIHQSLAGGIIGVKGAKI-KELRENTQT
TIK-----LFQECCPHS-TDRVVLIG--GKPDRVVECIKIILDLISESPIK---------------------
---GRAQPYD-PNFYDETYDYGGFTMM-FDDRRGRPVG---FPMRGRGGFDRMPPGRGG------RPMPPS-
-----------------------------------------------------
>DDX1_DROME/1-727 ATP-dependent RNA helicase Ddx1
MTAFEEFGVLPELGMATDELDWTLPTDVQAEAIPLILGGGDVLMAAETGSGKTGAFCLPILQIVWETLRDLE
E----------GKAGKGGAIGGA--VTPWTMSFFDRGNALAVTPDGLRCQSREFKEWHGCRATTGVRGKGKF
YFEATVTDEGL-CRVGWSTQQANLDLGTCRMGFGFGGTGKKSNNRQFDDYGEAFGKADVIGCLLDLKNQEVS
FTKNGQNLGVAFRLPDNLAKETFYPAVVLKNAEMQFNFGKTDFKYAPGNGFVGACQAGPEHSKANPITGPAA
GAPSAKP--------------------------------APNAPQAIIMEPSRELAEQTYNQIEKFKYHLSN
PEVRSLLLIGGVRLEEQKAQLMQGTHIVVGTPGRLEEMINSGLVLLTHCRFFVLDEADALLKQGYTELIDRL
HKQIPKITSDGRRLQMVVCSATLHAFEVKKMAERLMHFPTWVDLKGEDAVPETVHHVVCLVDP-QMDTTWQS
L-RQP--IGTDGVHDRDNVHPGN-HSKETLSQAVKLLKGEYCVHAIDKHNMDRAIIFCRTKQDCDNLERFLR
QRG------G--KHYSCVCLH-GDRKPQERKENLEMFKRQQVKFLICTDVAARGLDITGLPF----------
--------MINVTLPDDKTNYVHRIGRVGRAER----MGLAISLVATVPEKVWYHGEWCKSRGRSCNNTNLT
EVRGCCIWYNEPNLLAEVEDHLNITIQQVDKTMDVPVN----DFDGKVVYGQKNLRTGSGYEDHVEQLVPTV
RKLTELELQSQSLFLKRLKV---------------------------------
>DDX1_MACFA/1-740 ATP-dependent RNA helicase DDX1
MAAFSEMGVMPEIAQAVEEMDWLLPTDIQAESIPLILGGGDVLMAAETGSGKTGAFSIPVIQIVYETLKDQQ
E----------GKKGKTTIKTGASVLNKWQMNPYDRGSAFAIGSDGLCCQSREVKEWHGCRATKGLM-KGKH
YYEVSCHDQGL-CRVGWSTMQASLDLGTDKFGFGFGGTGKKSHNKQFDNYGEEFTMHDTIGCYLDIDKGHVK
FSKNGKDLGLAFEIPPHMKNQALFPACVLKNAELKFNFGEEEFKFPPKDGFVALSKAPDGYIVKSQHSG-NA
QVTQTKF--------------------------------LPNAPKALIVEPSRELAEQTLNNIKQFKKYIDN
PKLRELLIIGGVAARDQLSVLENGVDIVVGTPGRLDDLVSTGKLNLSQVRFLVLDEADGLLTQGYSDFINRM
HNQIPQVTSDGKRLQVIVCSATLHSFDVKKLSEKIMHFPTWVDLKGEDSVPDTVHHVVVPVNP-KTDRLWER
LGKNH--IRTDDVHAKDNTRPGA-NSPEMWSEAIKILKGEYAVRAIKEHKMDQAIIFCRTKIDCDNLEQYFM
QQGGGPDKKG--HQFSCVCLH-GDRKPHERKQNLERFKKGDVRFLICTDVAARGIDIHGVPY----------
--------VINVTLPDEKQNYVHRIGRVGRAER----MGLAISLVATEKEKVWYH--VCSSRGKGCYNTRLK
EDGGCTIWYNEMQLLSEIEEHLNCTISQVEPDIKVPVD----EFDGKVTYGQKRAAGGGSYKGHVDILAPTV
QELAALEKEAQTSFL------------------------HLGYLPNQLFRTF-
>HNRPK_HUMAN/1-276 Heterogeneous nuclear ribonucleoprotein K
-----------------------METEQPEETFP--------------------------------------
------NTETNGEFGK--------------------------------------------RPAEDME-EEQA
FKRSRNTDEMVELRILLQSKNAGAVIG---------------------------------------------
--KGGKN---------------------IKALRTDYNA--------------------------------SV
SVPDSSG-------------------------------------------PERILSISA-------------
-------------------------DI---------------------------------------ETIGEI
LKKIIPTLEEGLQLPSPTATSQL---------------------------------------P---------
-------LESDAV-------------------------------------------------ECLNYQHY--
--------KG--SDFDC-----------------------ELRLLIHQSLAGGIIGVKGAKI-KELRENTQT
TIK-----LFQECCPHS-TDRVVLIG--GKPDRVVECIKIILDLISESPIK---------------------
---GRAQPYD-PNFYDETYDYGGFTMM-FDDRRGRPVG---FPMRGRGGFDRMPPGRGG------RPMPPS-
-----------------------------------------------------
>DDX1_CHICK/1-740 ATP-dependent RNA helicase DDX1
MAAFSEMGVMPEIAQAVEEMDWLLPTDIQAESIPLILGGGDVLMAAETGSGKTGAFSIPVIQIVYETLKDQM
E----------GKKGKATIKTGGAVLNKWQMNPYDRGSAFAIGSDGLCCQSREVKEWHGCRATRGVT-KGKY
YYEVSCHDQGL-CRVGWSTMQASLDLGTDKFGFGFGGTGKKSHNKQFDSYGEEFTMHDTIGCYLDIDKGQIK
FSKNGKDLGLAFEFPPHIRNQALFAACVLKNAELKFNFGEEDFKFPPKDGYIGLCKAPDGNVVKSQHTG-NA
QVVQTQN--------------------------------LPNAPKALIVEPSRELAEQTLNNVKQFKKYIDN
PKLRELLIIGGVAARDQLSVLEQGVDIVVGTPGRLDDLVSTGKLNLSQVRFLVLDEADGLLLQGYSDFINRI
HSQIPQITSDGKRLQVIVCSATLHSFDVKKLSEKIMHFPTWVDLKGEDSVPETVHHVVVIVNP-KTDKLWER
LGKNH--IRTDEVHAKDNTLPGA-NTPEMWSEAIKILKGEYTVRAIKEHKMDQAIIFCRTKIDCDNMEQYFI
QQGGGPDRKG--HQFSCVCLH-GDRKPQERKQNLERFKRGDVRFLICTDVAARGIDIHGVPY----------
--------VINVTLPDEKQNYVHRIGRVGRAER----MGLAISLVAKEKEKVWYH--VCSSRGKGCYNTRLK
EEGGCTIWYNEMQLLGEIEEHLNCTISQVEPDIKVPVD----DFDGKVTYGQKRALGGGLYKGHVDILAPTV
QELAALEKEAQTSFL------------------------HLGYLPNQLFRTF-
>HNRPK_MOUSE/1-276 Heterogeneous nuclear ribonucleoprotein K
-----------------------METEQPEETFP--------------------------------------
------NTETNGEFGK--------------------------------------------RPAEDME-EEQA
FKRSRNTDEMVELRILLQSKNAGAVIG---------------------------------------------
--KGGKN---------------------IKALRTDYNA--------------------------------SV
SVPDSSG-------------------------------------------PERILSISA-------------
-------------------------DI---------------------------------------ETIGEI
LKKIIPTLEEGLQLPSPTATSQL---------------------------------------P---------
-------LESDAV-------------------------------------------------ECLNYQHY--
--------KG--SDFDC-----------------------ELRLLIHQSLAGGIIGVKGAKI-KELRENTQT
TIK-----LFQECCPHS-TDRVVLIG--GKPDRVVECIKIILDLISESPIK---------------------
---GRAQPYD-PNFYDETYDYGGFTMM-FDDRRGRPVG---FPMRGRGGFDRMPPGRGG------RPMPPS-
-----------------------------------------------------
>DDX1_DROVI/1-400 ATP-dependent RNA helicase Ddx1
------------------------------------------------------------------------
------------------------------------------------------------------------
------------------------------------------------------------------------
------------------------------------------------------------------------
------------------------------------------------------------------------
-----------------------------------------------------DDEADRLLKQGYTDLIERL
HKQIPKITSDGCRLQMIVCSATLHAFEVKKMAERLMHFPTWGDLKGEDAVPETVHHVVCMVDP-HTDSSWQQ
L-RQP--IHTDGVHDHDNVHPTN-QSPETFSQAVKLLKGEYCIRAIDQHKMDRAIIFCRTKQDCDNLEQHLS
QRG------G--QRFSCVCLH-GDRKPQERKQNLEMFKRQEVKFLICTDVAARGLDITGLPFSKDLKYLSEN
TLNFPNLAVINITLPDDKSNYVHRIGRVGRPES----MGLAISLVSTVPEKVWYHGEWCKTRGRS-------
---GSCIWYNEPNLLAEVEDHLNITIQQVVKSLDVPVN----DFDGKVVYGQKNLNMGTGYEDHVEQLGPTV
RKQTDLELQSQSLFLKRLKRLNWFDFGLLHDPKYFHGYEYIKYINKLTLKSCV
>HNRPK_RAT/1-276 Heterogeneous nuclear ribonucleoprotein K
-----------------------METEQPEETFP--------------------------------------
------NTETNGEFGK--------------------------------------------RPAEDME-EEQA
FKRSRNTDEMVELRILLQSKNAGAVIG---------------------------------------------
--KGGKN---------------------IKALRTDYNA--------------------------------SV
SVPDSSG-------------------------------------------PERILSISA-------------
-------------------------DI---------------------------------------ETIGEI
LKKIIPTLEEGLQLPSPTATSQL---------------------------------------P---------
-------LESDAV-------------------------------------------------ECLNYQHY--
--------KG--SDFDC-----------------------ELRLLIHQSLAGGIIGVKGAKI-KELRENTQT
TIK-----LFQECCPHS-TDRVVLIG--GKPDRVVECIKIILDLISESPIK---------------------
---GRAQPYD-PNFYDETYDYGGFTMM-FDDRRGRPVG---FPMRGRGGFDRMPPGRGG------RPMPPS-
-----------------------------------------------------
>DDX1_MOUSE/1-740 ATP-dependent RNA helicase DDX1
MAAFSEMGVMPEIAQAVEEMDWLLPTDIQAESIPLILGGGDVLMAAETGSGKTGAFSIPVIQIVYETLKDQQ
E----------GKKGKTTIKTGASVLNKWQMNPYDRGSAFAIGSDGLCCQSREVKEWHGCRGTRGLL-KGKH
YYEVSCHDQGL-CRVGWSTMQASLDLGTDKFGFGFGGTGKKSHNKQFDNYGEEFTMHDTIGCYLDIDKGHVK
FSKNGKDLGLAFEIPAHIKNQALFPACVLKNAELKFNFGEEEFKFPPKDGFVALSKAPDNYIVKSQHTG-NA
QVSQTKF--------------------------------LPNAPKALIVEPSRELAEQTLNNVKQFKKYIDN
PKLRELLIIGGVAARDQLSVLDNGVDIVVGTPGRLDDLVSTGKLNLSQVRFLVLDEADGLLSQGYSDFINRM
HNQIPQITCDGKRLQVIVCSATLHSFDVKKLSEKIMHFPTWVDLKGEDSVPDTVHHVVVPVNP-KTDKLWER
LGKNH--IRTDDVHAKDNTRPGA-NSPEMWSEAIKILKGEYAVRAIKEHKMDQAIIFCRTKIDCDNLEQYFM
QQGGGPDKKG--HQFSCVCLH-GDRKPHERKQNLERFKKGDVRFLICTDVAARGIDIHGVPY----------
--------VINVTLPDEKQNYVHRIGRVGRAER----MGLAISLVATEKEKVWYH--VCSNRGKGCYNTRLK
EDGGCTIWYNEMQLLSEIEEHLNCTISQVEPDIKVPVD----EFDGKVTYGQKRAAGGGNYKGHVDVLAPTV
QELAALEKEAQTSFL------------------------HLGYLPNQLFRTF-
>DDX1_HUMAN/1-740 ATP-dependent RNA helicase DDX1
MAAFSEMGVMPEIAQAVEEMDWLLPTDIQAESIPLILGGGDVLMAAETGSGKTGAFSIPVIQIVYETLKDQQ
E----------GKKGKTTIKTGASVLNKWQMNPYDRGSAFAIGSDGLCCQSREVKEWHGCRATKGLM-KGKH
YYEVSCHDQGL-CRVGWSTMQASLDLGTDKFGFGFGGTGKKSHNKQFDNYGEEFTMHDTIGCYLDIDKGHVK
FSKNGKDLGLAFEIPPHMKNQALFPACVLKNAELKFNFGEEEFKFPPKDGFVALSKAPDGYIVKSQHSG-NA
QVTQTKF--------------------------------LPNAPKALIVEPSRELAEQTLNNIKQFKKYIDN
PKLRELLIIGGVAARDQLSVLENGVDIVVGTPGRLDDLVSTGKLNLSQVRFLVLDEADGLLSQGYSDFINRM
HNQIPQVTSDGKRLQVIVCSATLHSFDVKKLSEKIMHFPTWVDLKGEDSVPDTVHHVVVPVNP-KTDRLWER
LGKSH--IRTDDVHAKDNTRPGA-NSPEMWSEAIKILKGEYAVRAIKEHKMDQAIIFCRTKIDCDNLEQYFI
QQGGGPDKKG--HQFSCVCLH-GDRKPHERKQNLERFKKGDVRFLICTDVAARGIDIHGVPY----------
--------VINVTLPDEKQNYVHRIGRVGRAER----MGLAISLVATEKEKVWYH--VCSSRGKGCYNTRLK
EDGGCTIWYNEMQLLSEIEEHLNCTISQVEPDIKVPVD----EFDGKVTYGQKRAAGGGSYKGHVDILAPTV
QELAALEKEAQTSFL------------------------HLGYLPNQLFRTF-
>DDX1_DICDI/1-765 Probable ATP-dependent RNA helicase ddx1
MSAFEDLGVLPEIIKAIEELDWLLPTPIQTEAIPLILGGGDVLAAAETGSGKTGAFALPILQITYETLNKKA
EIPIIAPTNTSGEDGTSGGGGGGGGGDTIELDQIDRDKNMAV--DGLICQSRS-SDWCGIKATKGIS-SGKF
YYESIVRDEGL-CRIGFALKKSSRNIGTDKFSWGYGGTGKKSHESKFIDYGKPFGNNDVIGCYINFDEEIIG
FTKNGQDFGEAFTF--NSKAGIFYPALVLKNAEMEFNFGSKPMKHDLK-GYKPINQA---ELLIDQQT--ST
QIDNSKNNNNNNNKKGSGNNKKNKGKDDDKMNDEDNNNKQPRKTLSLIIEPTRELADQAYSAILNFSKYLDS
PKIQVSLCIGGEKSNGGRNKIEG--DIIIGTPGRLESLVKEGSIDLSSIKFFVLDEADQLIDDNLA-IVNFI
YNKLPI----GQNLQVLFFSATLHSTKVIKFCEQITKNPTWVDLKGRDFIPDLITHAYVKADPIKFESLWRN
S-ENPLRIRTDGVHASDVQQFGKLKEPEQKSEAIKLLKAQLLLKCIQSFKMDQAIIFARTRLDCDHIHQFLK
DAGGG-NTSGLEGEFSSTVLHGGDNISRARKDNLEKFRNGDVRFLICTDVAARGIDIRGLPY----------
--------MINYTLPESFEDYIHRVGRVGRSDR----IGLAISLVAYEQEKVWYH--TCRDKGKGCHNTKLT
ENGGCCIWYDEPQLFTAIQE--NIGPIELDSDFQLPKDMKQLNFGGST----KLTGASADYKPHTEELRSRV
LQLSQLEETIQIDYLTLPKRII-----------------KLK-----------
>DDX1_XENTR/1-740 ATP-dependent RNA helicase DDX1
MAAFSEMGVMAEIAQAVEEMDWLLPTDIQAESIPLILGGGDVLMAAETGSGKTGAFSIPVIQIVYETLKDQQ
E----------GKKGKTSVKTGSTVLNKWQMNPYDRGSSFAIGSDGLCCQSREIKEWHGCRSTRGVN-KGKY
YYEVSCHDQGL-CRVGWSTLQASLDLGTDKFGFGFGGTGKKSHNKQFDNYGEEFTMHDTIGCYIDIDNGTVK
YSKNGKDLGLAFQIPAHLKNQAVFASCVLKNAELKFNFGEEDFKFPPKDGFVALSKAPDGHVVKSQNTG-SA
QVSQAKN--------------------------------LPNAPKALIIEPSRELAEQTLNNVKQFKKYVDS
PKLRELLIIGGVAAKEQLTLLENGVDIVVGTPGRIDDLISTGKLNLSQVRFLVLDEADGLLSQGYSDFINRI
HGQIPQVTSDGKRLQVIVCSATLHSFDVKKLSEKIMHFPTWVDLKGEDSVPETVHHVVVPVNP-KKDKQWER
LGKNH--IRTDGVHDKDNTRPGG-NSAEMWSEAIKVLKGEYTVRAIKEHKMDQAIIFCRTKLDCDNMEQYFI
QQGGGPDKKG--HQFSCVCLH-SDRKPQERKHNLERFKKCEVRFLICTDVAARGIDIHGVPY----------
--------VINVTLPDEKQNYVHRIGRVGRAER----MGLAISLVAAEKEKVWYH--VCSSRGKGCHNTRLK
EDGGCTIWYNETQLLSEIEEHLTCTISQVEPDIKVPLD----EFDGKVVYGQRRATGGGLYKGHVDILAPTV
QELAALEKEAQTSFL------------------------HLGYLSNQLFRTF-
>DDX1_XENLA/1-740 ATP-dependent RNA helicase DDX1
MAAFSEMGVMPEIAQAVEEMDWLLPTDIQAESIPLILGGGDVLMAAETGSGKTGAFSIPVIQIVYETLKDQQ
E----------GKKGKASVKTGSTVLNKWQMNPYDRGSAFAIGSDGLCCQSREIKEWHGCRSTRGVN-KGKY
YYEVSCHDQGL-CRVGWSTLSASLDLGTDKFGFGFGGTGKKSHNKQFDNYGEEFTMHDTIGCYLDIDNSIVK
FSKNGKDLGLAFQIPSHMKNQAFFTSCVLKNAELKFNFGEEDFKFPPKDGFVALSKAPDGHVVKSQNTG-SA
QVSQTKS--------------------------------LPNAPKALIIEPSRELAEQTLNNVKQFKKYVDN
PKLRELLIIGGVAAKEQLTILENGVDIVVGTPGRIDDLISTGKLSLSQVRFLVLDEADGLLSQGYSDFINRI
YGQIPQITSDGKRLQVIVCSATLHSFDVKKLSEKIMHFPTWVDLKGEDSVPETVHHVVVPVNP-KKDKQWEK
LAKNH--IRTDGVHDKDNTRPGG-NSAEVWSEAIKVLKGEYIVRAIKEHKMDQAIIFCRTKLDCDNMEQYFI
QQGGGPDKKG--HQFSCVCLH-SDRKPPERKHNLERFKKCEVRFLICTDVAARGIDIRGVPY----------
--------VINVTLPDEKQNYVHRIGRVGRAER----MGLAISLVASEKEKVWYH--VCSSRGKGCYNTRLK
EDGGCTIWYNEMQLLSEIEEHLTCTISQVEPDIKVPLD----DFDGKVVYGQRRATGGGLYKGHVDILAPTV
QELASLEKEAQTSFL------------------------HLGYLSNQLFRSF-
>DDX1_PONAB/1-740 ATP-dependent RNA helicase DDX1
MAAFSEMGVMPEIAQAVEEMDWLLPTDIQAESIPLILGGGDVLMAAETGSGKTGAFSIPVIQIVYETLKDQQ
E----------GKKGKTTIKTGASVLNKWQMNPYDRGSAFAIGSDGLCCQSREVKEWHGCRATKGLM-KGKH
YYEVSCHDQGL-CRVGWSTMQASLDLGTDKFGFGFGGTGKKSHNKQFDNYGEEFTMHDTIGCYLDIDKGHVK
FSKNGKDLGLAFEIPPHMKNQALFPACVLKNAELKFNFGEEEFKFPPKDGFVALSKAPDGYIVKSQHSG-NA
QVTQTKF--------------------------------LPNAPKALIVEPSRELAEQTLNNIKQFKKYIDN
PKLRELLIIGGVAARDQLSVLENGVDIVVGTPGRLDDLVSTGKLNLSQVRFLVLDEADGLLSQGYSDFINRM
HNQIPQVTSDGKRLQVIVCSATLHSFDVKKLSEKIMHFPTWVDLKGEDSVPDTVHHVVVPVNP-KTDRLWER
LGKSH--IRTDDVHAKDNTRPGA-NSPEMWSEAIKILKGEYAVRAIKEHKMDQAIIFCRTKIDCDNLEQYFI
QQGGGPDKKG--HQFSCVCLH-GDRKPHERKQNLERFKKGDVRFLICTDVAARGIDIHGVPY----------
--------VINVTLPDEKQNYVHRIGRVGRAER----MGLAISLVATEKEKVWYH--VCSSRGKGCYNTRLK
EDGGCTIWYNEMQLLSEIEEHLNCTISQVEPDIKVPVD----EFDGKVTYGQKRAAGGGSYKGHVDILAPTV
QGLAALEKEAQTSFL------------------------HLGYLPNQLFRTS-