Citrus Sinensis ID: 013093

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-------400-------410-------420-------430-------440-------45
Protein Sequence
MAMTADSTSNHVTPRGSGFSGDGLSSPQLRRKNSPSQWSEVVRGEHDPASTTVNHSQSSPSPPLTTTSLPEPTGSVSPSKAVASAPSSPPPDNPIAAGSSDADKGNAARPKKLAWNKPSNGVVEVGPVMGAASWPALSESTKPSPKSSSADSSSSKPVADGSVSGTQKVSNANANPNSNANRTMPARQRLKRSGGGVSNAGSGPAQTRPTQPPPPPPPPPFPVFPMPPNSFANLVTAMPDPSPREPLYRGSNWDARPVGGFVSQSHPMNDQRNSSRRGNYGQRGDGNYNNNFGGRHDQDRGNYSNARDAHVQPQRGPPRGFVRPAPPNAAAFAPPQPMRPFPNPMGFPEFIYIPPMPVEAAALRGVTGMPPFIPPAPVLMPVPEPSLAAMLIHQIDYYFSDANLVKDEFLKSNMDDQGWVPITLIASFPRVSFYSQISYFLITCSQFSL
Secondary Structure (PSIPRED)
ccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHcccccccccHHHHHcccccccEEcHHHccccHHHHHcccHHHHHHHHHHcc
Secondary Structure Prediction (SSPRO)
cccccccccccccccccccccccccccccccccccccccEEEcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHccHHHHHHHHHHHHHccccccEEEEEEEccccEEEccHHHHHHHHHHHccc
Coil and Loop (DISEMBL)
mamtadstsnhvtprgsgfsgdglsspqlrrknspsqwsevvrgehdpasttvnhsqsspsppltttslpeptgsvspskavasapsspppdnpiaagssdadkgnaarpkklawnkpsngvvevgpvmgaaswpalsestkpspksssadsssskpvadgsvsgtqkvsnananpnsnanrtmparqrlkrsgggvsnagsgpaqtrptqpppppppppfpvfpmppnsfanlvtampdpspreplyrgsnwdarpvggfvsqshpmndqrnssrrgnygqrgdgnynnnfggrhdqdrgnysnardahvqpqrgpprgfvrpappnaaafappqpmrpfpnpmgfpefiyippmpveAAALrgvtgmppfippapvlmpvpepsLAAMLIHQIDyyfsdanlvkdeflksnmddqgwvpitliasfprvsfysQISYFLITCSQFSL
Flexible Loop (DISEMBL)
mamtadstsnhvtprgsgfsgdglsspqlrrknspsqWSEVVRGEHDPASttvnhsqsspspplTTTSLPEPTGSVSPSKAVASAPSSPPPDNPIAAGSSDADKGNAARpkklawnkpsngvVEVGPVMGAASWPAlsestkpspksssadsssskpvadgsvsgtqkvsnananpnsnanrtmpARQRLKRSGGGVSNAGSGPAQTRPTQPPPPPPPPPFPVFPMPPNSFANLVTAMPDPSPREPLYRGSNWDARPVGGFvsqshpmndqrnssrrgnygqrgDGNYNNNFGGRHDQDRGNYSNARDAHVQPQRGPPRGFVRPAPPNAAAFAPPQPMRPFPNPMGFPEFIYIPPMPVEAAALRGVTGMPPFIPPAPVLMPVPEPSLAAMLIHQIDYYFSDANLVKDEFLKSNMDDQGWVPITLIASFPRVSFYSQISYFLITCSQFSL
Low Complexity Region (SEG)
MAMTADSTSNHVTPRGSGFSGDGLSSPQLRRKNSPSQWSEVVRGEHDPASTTVNHSQsspsppltttslpeptGsvspskavasapsspppdnpiaaGSSDADKGNAARPKKLAWNKPSNGVVEVGPVMGAASWPALsestkpspksssadsssskpVADGSVSGTQKVsnananpnsnanRTMPARQRLKRSGGGVSNAGSGPAQTRPTQpppppppppfpvfpmppNSFANLVTAMPDPSPREPLYRGSNWDARPVGGFVSQSHPMNDQRNSSRRGNYGQRGDGNYNNNFGGRHDQDRGNYSNARDAHVQPQRGPPRGFVRpappnaaafappqpmrpfpnpmGFPEFIYIPPMPVEAAALRGVTGMppfippapvlmpvpepSLAAMLIHQIDYYFSDANLVKDEFLKSNMDDQGWVPITLIASFPRVSFYSQISYFLITCSQFSL
Disordered region (IsUnstruct)
*********************************************************************************************************************************************************************************************************************************************************************************************************************************************************GFPEFIYIPPMPVEAAALRGVTGMPPFIPPAPVLMPVPEPSLAAMLIHQIDYYFSDANLVKDEFLKSNMDDQGWVPITLIASFPRVSFYSQISYFLITCS****
Disordered Region (DISOPRED)
***********************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************FIPPAPVLMPVPEPSLAAMLIHQIDYYFSDANLVKDEFLKSNMDDQGWVPITLIASFPRVSFYSQISYFLITCSQFS*
Disordered Region (DISEMBL)
**************************************************************************************************************KKLAWNKPSNGVVEVGPVMGAASW********************************QKVSNANANPNSNANRTMP******************************PPPPPFPVFPMPPNSFANLVTAMPDPSPREPLYRGSNWDARPVGGFVSQS*************NYGQRGDGNYNNNFGGRHDQDRGNYSNARDAHVQPQRGPPRGFVRPAPPNAAAFAPPQPMRPFPNPMGFPEFIYIPPMPVEAAALRGVTGMPPFIPPAPVLMPVPEPSLAAMLIHQIDYYFSDANLVKDEFLKSNMDDQGWVPITLIASFPRVSFYSQISYFLITCSQFSL
Disordered Region (DISPRO)
************************************************************************************************************************************************************************************************************************************************************************************************************************PQRGPPRGFVRPAPPNAAAFAPPQPMRPFPNPMGFPEFIYIPPMPVEAAALRGVTGMPPFIPPAPVLMPVPEPSLAAMLIHQIDYYFSDANLVKDEFLKSNMDDQGWVPITLIASFPRVSFYSQISYFLITCSQF**
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
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Transmembrane Helix (MEMSAT)
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TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MAMTADSTSNHVTPRGSGFSGDGLSSPQLRRKNSPSQWSEVVRGEHDPASTTVNHSQSSPSPPLTTTSLPEPTGSVSPSKAVASAPSSPPPDNPIAAGSSDADKGNAARPKKLAWNKPSNGVVEVGPVMGAASWPALSESTKPSPKSSSADSSSSKPVADGSVSGTQKVSNANANPNSNANRTMPARQRLKRSGGGVSNAGSGPAQTRPTQPPPPPPPPPFPVFPMPPNSFANLVTAMPDPSPREPLYRGSNWDARPVGGFVSQSHPMNDQRNSSRRGNYGQRGDGNYNNNFGGRHDQDRGNYSNARDAHVQPQRGPPRGFVRPAPPNAAAFAPPQPMRPFPNPMGFPEFIYIPPMPVEAAALRGVTGMPPFIPPAPVLMPVPEPSLAAMLIHQIDYYFSDANLVKDEFLKSNMDDQGWVPITLIASFPRVSFYSQISYFLITCSQFSL
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	449	2.2.26 [Sep-21-2011]
Q9P6K0	475	Uncharacterized HTH La-ty	yes	no	0.129	0.122	0.440	3e-09
Q659C4	914	La-related protein 1B OS=	yes	no	0.118	0.057	0.509	6e-09
Q6PKG0	1096	La-related protein 1 OS=H	no	no	0.118	0.048	0.509	2e-07
Q9VAW5	1673	La-related protein OS=Dro	yes	no	0.102	0.027	0.5	4e-07
P10881	404	Lupus La protein homolog	no	no	0.104	0.116	0.458	5e-07
P05455	408	Lupus La protein OS=Homo	no	no	0.104	0.115	0.458	5e-07
Q26457	383	La protein homolog OS=Aed	N/A	no	0.113	0.133	0.423	5e-07
Q6ZQ58	1072	La-related protein 1 OS=M	no	no	0.100	0.041	0.555	5e-07
P32067	415	Lupus La protein homolog	no	no	0.104	0.113	0.458	1e-06
P38656	415	Lupus La protein homolog	no	no	0.104	0.113	0.458	1e-06

>sp|Q9P6K0|YLA3_SCHPO Uncharacterized HTH La-type RNA-binding protein C1527.03 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=SPAC1527.03 PE=1 SV=1

 Score = 63.9 bits (154), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 26/59 (44%), Positives = 39/59 (66%), Gaps = 1/59 (1%)

Query: 387 LAAMLIHQIDYYFSDANLVKDEFLKSNMDDQGWVPITLIASFPRV-SFYSQISYFLITC 444
           + A L  Q++YYFS  NL KD FL+ +MDD+G+VP+  +ASF R+ SF + ++     C
Sbjct: 325 VQAFLTSQLEYYFSIENLCKDMFLRKHMDDEGYVPLAFLASFNRIKSFSTDLNLLHAAC 383

Schizosaccharomyces pombe (strain 972 / ATCC 24843) (taxid: 284812)

>sp|Q659C4|LAR1B_HUMAN La-related protein 1B OS=Homo sapiens GN=LARP1B PE=1 SV=2

 Score = 62.8 bits (151), Expect = 6e-09,   Method: Compositional matrix adjust.
 Identities = 27/53 (50%), Positives = 36/53 (67%)

Query: 379 LMPVPEPSLAAMLIHQIDYYFSDANLVKDEFLKSNMDDQGWVPITLIASFPRV 431
           + PV E  L   +  QI+YYFS  NL +D FL+  MD+QG++PI+LIA F RV
Sbjct: 207 VYPVEEALLKEYIKRQIEYYFSVENLERDFFLRGKMDEQGFLPISLIAGFQRV 259

Homo sapiens (taxid: 9606)

>sp|Q6PKG0|LARP1_HUMAN La-related protein 1 OS=Homo sapiens GN=LARP1 PE=1 SV=2

 Score = 57.8 bits (138), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 27/53 (50%), Positives = 34/53 (64%)

Query: 379 LMPVPEPSLAAMLIHQIDYYFSDANLVKDEFLKSNMDDQGWVPITLIASFPRV 431
           L  V +  L   +  QI+YYFS  NL +D FL+  MD  G++PITLIASF RV
Sbjct: 395 LYSVDQELLKDYIKRQIEYYFSVDNLERDFFLRRKMDADGFLPITLIASFHRV 447

Homo sapiens (taxid: 9606)

>sp|Q9VAW5|LARP_DROME La-related protein OS=Drosophila melanogaster GN=larp PE=1 SV=5

 Score = 56.2 bits (134), Expect = 4e-07,   Method: Compositional matrix adjust.
 Identities = 23/46 (50%), Positives = 32/46 (69%)

Query: 386 SLAAMLIHQIDYYFSDANLVKDEFLKSNMDDQGWVPITLIASFPRV 431
           S+   +  Q++YYFS  NL  D FL+  MD +G++P+TLIASF RV
Sbjct: 728 SIKEAIKKQVEYYFSVDNLTGDFFLRRKMDPEGYIPVTLIASFHRV 773

Drosophila melanogaster (taxid: 7227)

>sp|P10881|LA_BOVIN Lupus La protein homolog OS=Bos taurus GN=SSB PE=2 SV=2

 Score = 56.2 bits (134), Expect = 5e-07,   Method: Compositional matrix adjust.
 Identities = 22/48 (45%), Positives = 34/48 (70%), Gaps = 1/48 (2%)

Query: 386 SLAAMLIHQIDYYFSDANLVKDEFLKSNMD-DQGWVPITLIASFPRVS 432
           +L A + HQI+YYF D NL +D+FLK  +  D+GWVP+ ++  F R++
Sbjct: 12  ALEAKICHQIEYYFGDFNLPRDKFLKEQIKLDEGWVPLEIMIKFNRLN 59

Binds to the 3' poly(U) terminii of nascent RNA polymerase III transcripts, protecting them from exonuclease digestion and facilitating their folding and maturation.

Bos taurus (taxid: 9913)

>sp|P05455|LA_HUMAN Lupus La protein OS=Homo sapiens GN=SSB PE=1 SV=2

 Score = 56.2 bits (134), Expect = 5e-07,   Method: Compositional matrix adjust.
 Identities = 22/48 (45%), Positives = 34/48 (70%), Gaps = 1/48 (2%)

Query: 386 SLAAMLIHQIDYYFSDANLVKDEFLKSNMD-DQGWVPITLIASFPRVS 432
           +L A + HQI+YYF D NL +D+FLK  +  D+GWVP+ ++  F R++
Sbjct: 12  ALEAKICHQIEYYFGDFNLPRDKFLKEQIKLDEGWVPLEIMIKFNRLN 59

Binds to the 3' poly(U) terminii of nascent RNA polymerase III transcripts, protecting them from exonuclease digestion and facilitating their folding and maturation.

Homo sapiens (taxid: 9606)

>sp|Q26457|LA_AEDAL La protein homolog OS=Aedes albopictus PE=1 SV=1

 Score = 56.2 bits (134), Expect = 5e-07,   Method: Compositional matrix adjust.
 Identities = 22/52 (42%), Positives = 35/52 (67%), Gaps = 1/52 (1%)

Query: 386 SLAAMLIHQIDYYFSDANLVKDEFLKSNM-DDQGWVPITLIASFPRVSFYSQ 436
            L A  I Q++YYF DANL +D+FL+  +  D+GWVP+ ++ +F R+   S+
Sbjct: 42  KLEASTIRQLEYYFGDANLARDKFLQEQISKDEGWVPVDVLLTFKRLKSLSE 93

May be involved in transcription termination by RNA polymerase III. Binds RNA and DNA. Binds to the 3' end of the minus strand of Sindbis virus RNA. This may be significant for Sindbis virus RNA replication.

Aedes albopictus (taxid: 7160)

>sp|Q6ZQ58|LARP1_MOUSE La-related protein 1 OS=Mus musculus GN=Larp1 PE=1 SV=2

 Score = 56.2 bits (134), Expect = 5e-07,   Method: Compositional matrix adjust.
 Identities = 25/45 (55%), Positives = 31/45 (68%)

Query: 387 LAAMLIHQIDYYFSDANLVKDEFLKSNMDDQGWVPITLIASFPRV 431
           L   +  QI+YYFS  NL +D FL+  MD  G++PITLIASF RV
Sbjct: 378 LKDYIKRQIEYYFSVDNLERDFFLRRKMDADGFLPITLIASFHRV 422

Mus musculus (taxid: 10090)

>sp|P32067|LA_MOUSE Lupus La protein homolog OS=Mus musculus GN=Ssb PE=2 SV=1

 Score = 55.1 bits (131), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 22/48 (45%), Positives = 33/48 (68%), Gaps = 1/48 (2%)

Query: 386 SLAAMLIHQIDYYFSDANLVKDEFLKSNMD-DQGWVPITLIASFPRVS 432
           +L A + HQI+YYF D NL +D+FLK  +  D+GWVP+  +  F R++
Sbjct: 12  ALEAKICHQIEYYFGDFNLPRDKFLKEQIKLDEGWVPLETMIKFNRLN 59

Binds to the 3' poly(U) terminii of nascent RNA polymerase III transcripts, protecting them from exonuclease digestion and facilitating their folding and maturation.

Mus musculus (taxid: 10090)

>sp|P38656|LA_RAT Lupus La protein homolog OS=Rattus norvegicus GN=Ssb PE=2 SV=1

 Score = 54.7 bits (130), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 22/48 (45%), Positives = 33/48 (68%), Gaps = 1/48 (2%)

Query: 386 SLAAMLIHQIDYYFSDANLVKDEFLKSNMD-DQGWVPITLIASFPRVS 432
           +L A + HQI+YYF D NL +D+FLK  +  D+GWVP+  +  F R++
Sbjct: 12  ALEAKICHQIEYYFGDFNLPRDKFLKEQIKLDEGWVPLETMIKFNRLN 59

Binds to the 3' poly(U) terminii of nascent RNA polymerase III transcripts, protecting them from exonuclease digestion and facilitating their folding and maturation.

Rattus norvegicus (taxid: 10116)

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	449
317106588	536	JHL20J20.1 [Jatropha curcas]	0.926	0.776	0.522	2e-86
359492285	565	PREDICTED: uncharacterized protein LOC10	0.904	0.718	0.489	9e-85
449437412	540	PREDICTED: uncharacterized protein LOC10	0.944	0.785	0.457	9e-79
302142718	559	unnamed protein product [Vitis vinifera]	0.706	0.567	0.513	6e-76
356552054	527	PREDICTED: uncharacterized protein LOC10	0.915	0.779	0.486	4e-75
224085930	502	predicted protein [Populus trichocarpa]	0.861	0.770	0.462	4e-70
356517961	511	PREDICTED: uncharacterized protein LOC10	0.875	0.769	0.461	4e-67
357438541	681	La-related protein [Medicago truncatula]	0.850	0.560	0.457	1e-63
302143562	568	unnamed protein product [Vitis vinifera]	0.895	0.707	0.378	5e-56
255539032	449	lupus la ribonucleoprotein, putative [Ri	0.351	0.351	0.628	2e-51

>gi|317106588|dbj|BAJ53096.1| JHL20J20.1 [Jatropha curcas]

 Score =  325 bits (834), Expect = 2e-86,   Method: Compositional matrix adjust.
 Identities = 239/457 (52%), Positives = 301/457 (65%), Gaps = 41/457 (8%)

Query: 1   MAMTADSTSNHVTPRGSGFSGDGLSSPQLRRKNSPSQWSEVVRGEHDPASTTVNHSQSSP 60
           MAMTADS+ +  +  GS  S DG++SPQ + K+  S W+++VRGE +      +     P
Sbjct: 1   MAMTADSSQSPRSGSGSVLSVDGVNSPQ-KHKSLHSPWAQIVRGEPESVPPLNHSPPPPP 59

Query: 61  SPPLTTTSLPEPTGSVSPSKAVASAPSSPPPDNPIAAGSSDADKGNAARPKKLAWNKPSN 120
               +  S+      ++ ++    +  SP           +  + NA +PKKLAW KPSN
Sbjct: 60  LQSSSPPSI------LTSNEQSTFSDCSP-----------ENFESNAEKPKKLAWKKPSN 102

Query: 121 GVVE-VGPVMGAASWPALSESTKPSPKSSSADSSSSKPVADGSVSGTQ-KVSNANANPNS 178
           GV E V PVMGA SWPALSESTK SPKSSSADSS    +A+  V     K +++NA  N+
Sbjct: 103 GVAEAVSPVMGAVSWPALSESTKSSPKSSSADSSDGS-IANNQVPVIPPKQTSSNAKSNA 161

Query: 179 NANRTMPARQR-LKRSGGGVSNAGSGPAQ--------TRPTQPPPPPPPPPFPVFPMPPN 229
            +N++MPARQR +KR G G S    G           T P  PPPPPPPPPFP+F MPPN
Sbjct: 162 TSNQSMPARQRSIKRGGSGSSTTSGGGHSHSHSQSNFTHPPPPPPPPPPPPFPLFAMPPN 221

Query: 230 SFANLVTAMPDPSPREPLYRGSN-WDARPVGGFVSQSHPMNDQRNSSRRGNYGQRGDGNY 288
            + N+V AMPD SPR+P YRG+N W+ RPVGGFV+Q   +ND R+SSRRGN+G RGDG Y
Sbjct: 222 GYGNMVPAMPDRSPRDPPYRGNNNWEPRPVGGFVTQPPAVNDHRHSSRRGNFGSRGDGTY 281

Query: 289 NNNFGGRHDQDRGNYSNARDAHVQPQRGPPRGFVRPAPPNAAAFAPPQPMRPFPNPMGFP 348
           ++NFGGR DQDRG+Y N RDA VQ QR  PRGFVRP PPN   F PPQP+RPF NP+GFP
Sbjct: 282 HHNFGGRRDQDRGHYGNVRDAPVQQQRS-PRGFVRPPPPNTTTFVPPQPVRPFANPIGFP 340

Query: 349 EFIYIPPMPVEAAALRGVTGMPPFIPPAP---VLMPVPEPSLAAMLIHQIDYYFSDANLV 405
           + +YIP +P+E    RGV    PFI  AP   +++PVPEP L AML+HQI+YYFSDANL+
Sbjct: 341 DVVYIPTLPLE--PFRGV----PFITHAPAPGIIVPVPEPPLPAMLVHQIEYYFSDANLI 394

Query: 406 KDEFLKSNMDDQGWVPITLIASFPRVSFYSQISYFLI 442
           KD+FLKSNMDDQGWV ITLIA F RV   ++    ++
Sbjct: 395 KDDFLKSNMDDQGWVSITLIAGFNRVKSMTKDVQLIL 431

Source: Jatropha curcas

Species: Jatropha curcas

Genus: Jatropha

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359492285|ref|XP_002279250.2| PREDICTED: uncharacterized protein LOC100243746 [Vitis vinifera]

 Score =  320 bits (820), Expect = 9e-85,   Method: Compositional matrix adjust.
 Identities = 228/466 (48%), Positives = 282/466 (60%), Gaps = 60/466 (12%)

Query: 1   MAMTADSTSNHVTPRGSGFSGDGLSSPQLRRKNSPSQWSEVVRGEHDPASTTVNHSQSSP 60
           MA T DS+     PRGSGFS DG+ SP LRR+N  S W+++VRGE +  S+ V HS +S 
Sbjct: 1   MATTTDSS-----PRGSGFSADGVHSP-LRRRNLSSPWAQIVRGETESMSS-VPHSPTSS 53

Query: 61  SPPLTTTSLPEPTG--SVSPSKAVASAPSSPPPDNPIAAG-----SSDADKGNAARPKKL 113
           S     TS PE       SP+K ++ +PS  P  +    G     +SD    NA R KK 
Sbjct: 54  S---PVTSCPEQISFSECSPTKPLSPSPSRSPAPDNSGVGEALLENSDGCGSNAGRQKKP 110

Query: 114 AWNKPSNGVVEVGPVMGAASWPALSESTKPSPKSSSADSSSSKPVADGSVSGTQ------ 167
           AWNKPSN VVEVGPVMGA SWPALSEST+ SP+SSS    S KP  DGS +  Q      
Sbjct: 111 AWNKPSNDVVEVGPVMGAVSWPALSESTRASPRSSS---DSPKPAVDGSAASIQGPVIPH 167

Query: 168 ---KVSNANANPNSNANRTMPARQRLKRSGGGVSNAGSGPAQTRPTQPPPPPPPPPFPVF 224
              K   AN NPNS+ N   P RQR  +SGGG S    G   ++P  PPPP P     +F
Sbjct: 168 SPQKQVPANTNPNSSQNHASPFRQRSIKSGGGSSQTVHGHLPSQPPPPPPPYP-----LF 222

Query: 225 PMPPNSFANLVTAMPDPSPREPLYRGSNWDARPVGGFVSQSHPMNDQ---RNSSRRGNYG 281
            MP N +A +   + D S REP YR + W+ RP+GGFV Q   ++D    RNS RRGN+G
Sbjct: 223 EMPQNKYAKMAPQVLDSSTREPPYRNNTWETRPIGGFVPQPRGLSDHPLPRNS-RRGNFG 281

Query: 282 Q--RGDGNYNNNFGGRHDQDRGNY------SNARDAHVQPQRGPPRGFVRPAPPNAA-AF 332
              RGDG ++NN+GGR DQDRGNY      SN RD H+QPQR PPRGF+R AP +++  F
Sbjct: 282 PHPRGDGPHHNNYGGRRDQDRGNYEWNSRSSNVRDIHMQPQRAPPRGFIRAAPQSSSPRF 341

Query: 333 APPQPMRPFPNPMGFP----EFIYIPPMPVEAAALRGVTGMPPFIPPAPVLMPVP---EP 385
             PQP+RPF NP G+P    +  Y P +P E    R V    PF+  AP         +P
Sbjct: 342 MTPQPIRPFMNPAGYPDMPSQMYYFPALPSEP--FRSV----PFVAHAPPPPMFIPVPDP 395

Query: 386 SLAAMLIHQIDYYFSDANLVKDEFLKSNMDDQGWVPITLIASFPRV 431
            L  +L++QI+YYFSD NL+KD++L+S MDDQGWVPITLIA FPRV
Sbjct: 396 PLPTLLVNQIEYYFSDVNLIKDDYLRSYMDDQGWVPITLIAGFPRV 441

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449437412|ref|XP_004136486.1| PREDICTED: uncharacterized protein LOC101220887 [Cucumis sativus] gi|449505790|ref|XP_004162569.1| PREDICTED: uncharacterized LOC101220887 [Cucumis sativus]

 Score =  300 bits (769), Expect = 9e-79,   Method: Compositional matrix adjust.
 Identities = 207/452 (45%), Positives = 266/452 (58%), Gaps = 28/452 (6%)

Query: 1   MAMTADSTSNHVTPRGSGFSGDGLSSPQLRRKNSPSQWSEVVRGEHDPASTTVNHSQSSP 60
           M    D +SNH +P G+  +GD  +S + RRKN  S W++VVRGE  P S        SP
Sbjct: 1   MGKATDFSSNHRSPSGTSLAGDNTNSSEFRRKNLQSPWAQVVRGE--PESI-------SP 51

Query: 61  SPPLTTTSLPEPTGSVSPSKAVASAPSSPPPDNPIAAGSSDADKGNAARPKKLAWNKPSN 120
                 +S      S++ S     AP+SPP DN  ++ + DA+ GNAA  KK AWNKP+N
Sbjct: 52  VDQSQLSSSSSSLSSLAVSATETPAPASPPSDNFTSSENCDANDGNAAS-KKQAWNKPTN 110

Query: 121 GVVEVGPVMGAASWPALSESTKPSPKSS-----SADSSSSKPVADGSVS---GTQKVSNA 172
           GVVE G VMGA SWPAL+ES + SPK +           + P + G ++     Q  +NA
Sbjct: 111 GVVEGGSVMGADSWPALAESARASPKLTVDSPPKVTVEVAVPPSQGPINVPPQRQATNNA 170

Query: 173 NANPNSNANRTMPARQRLKRSGGGVSNAGSGPAQTRPTQPPPPPPPPPFPVFPMPPNSFA 232
            +NP            R    GGG S  G      RP  PPPPPPPPPFPVF + PNS+ 
Sbjct: 171 KSNPTLKNPVVARRSSRRGGGGGGSSVGGPRGGYYRPPPPPPPPPPPPFPVFQVSPNSYC 230

Query: 233 NLVTAMPDPSPREPLYRGSNWDARPVGGFVSQSHPMNDQRNSSRRGNY--GQRGDGNYNN 290
           N++ A+PDPS  EPL+R  NWD R V GFV Q +   D RN   RGN+    RGD +Y+N
Sbjct: 231 NMIPAIPDPSSGEPLFRSPNWDPRAVAGFVPQLNFGTDHRNFFPRGNFPLHPRGDSHYHN 290

Query: 291 NFGGRHDQDRGNYSNARDAHVQPQRGPPRGFVRPAPPNAAAFAPPQPMRPFPNPMGFPEF 350
           N GG+  QDRG Y NARDAH Q  R   RGF+RP PP    F  PQ +RP  NPM  PEF
Sbjct: 291 NRGGKRGQDRGIYFNARDAHFQQHRPHTRGFMRPLPPFTGQF--PQGVRPHLNPMAHPEF 348

Query: 351 IYIPPMPVEAAALRGVTGMPPFIPPAPVLMPVPEPSLAAMLIHQIDYYFSDANLVKDEFL 410
           +Y+P +P+EA       G  PF+P   +  P  +P+L+A ++ QI+YYFSD NLVKD++L
Sbjct: 349 VYVPTLPLEA-----YRGGLPFMPRPAMNYPTVDPTLSASIVKQIEYYFSDGNLVKDDYL 403

Query: 411 KSNMDDQGWVPITLIASFPRV-SFYSQISYFL 441
           +S MDDQGWVPI+LIA+FP V S  + I + +
Sbjct: 404 RSQMDDQGWVPISLIATFPMVLSLTNNIQWIV 435

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|302142718|emb|CBI19921.3| unnamed protein product [Vitis vinifera]

 Score =  291 bits (744), Expect = 6e-76,   Method: Compositional matrix adjust.
 Identities = 185/360 (51%), Positives = 224/360 (62%), Gaps = 43/360 (11%)

Query: 100 SDADKGNAARPKKLAWNKPSNGVVEVGPVMGAASWPALSESTKPSPKSSSADSSSSKPVA 159
           SD    NA R KK AWNKPSN VVEVGPVMGA SWPALSEST+ SP+SSS    S KP  
Sbjct: 91  SDGCGSNAGRQKKPAWNKPSNDVVEVGPVMGAVSWPALSESTRASPRSSS---DSPKPAV 147

Query: 160 DGSVSGTQ---------KVSNANANPNSNANRTMPARQRLKRSGGGVSNAGSGPAQTRPT 210
           DGS +  Q         K   AN NPNS+ N   P RQR  +SGGG S    G   ++P 
Sbjct: 148 DGSAASIQGPVIPHSPQKQVPANTNPNSSQNHASPFRQRSIKSGGGSSQTVHGHLPSQPP 207

Query: 211 QPPPPPPPPPFPVFPMPPNSFANLVTAMPDPSPREPLYRGSNWDARPVGGFVSQSHPMND 270
            PPPP P     +F MP N +A +   + D S REP YR + W+ RP+GGFV Q   ++D
Sbjct: 208 PPPPPYP-----LFEMPQNKYAKMAPQVLDSSTREPPYRNNTWETRPIGGFVPQPRGLSD 262

Query: 271 Q---RNSSRRGNYGQ--RGDGNYNNNFGGRHDQDRGNY------SNARDAHVQPQRGPPR 319
               RNS RRGN+G   RGDG ++NN+GGR DQDRGNY      SN RD H+QPQR PPR
Sbjct: 263 HPLPRNS-RRGNFGPHPRGDGPHHNNYGGRRDQDRGNYEWNSRSSNVRDIHMQPQRAPPR 321

Query: 320 GFVRPAPPNAA-AFAPPQPMRPFPNPMGFP----EFIYIPPMPVEAAALRGVTGMPPFIP 374
           GF+R AP +++  F  PQP+RPF NP G+P    +  Y P +P E    R V    PF+ 
Sbjct: 322 GFIRAAPQSSSPRFMTPQPIRPFMNPAGYPDMPSQMYYFPALPSEP--FRSV----PFVA 375

Query: 375 PAPVLMPVP---EPSLAAMLIHQIDYYFSDANLVKDEFLKSNMDDQGWVPITLIASFPRV 431
            AP         +P L  +L++QI+YYFSD NL+KD++L+S MDDQGWVPITLIA FPRV
Sbjct: 376 HAPPPPMFIPVPDPPLPTLLVNQIEYYFSDVNLIKDDYLRSYMDDQGWVPITLIAGFPRV 435

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356552054|ref|XP_003544386.1| PREDICTED: uncharacterized protein LOC100785504 [Glycine max]

 Score =  288 bits (737), Expect = 4e-75,   Method: Compositional matrix adjust.
 Identities = 221/454 (48%), Positives = 269/454 (59%), Gaps = 43/454 (9%)

Query: 3   MTADSTSNH---VTPRGSGFSGDGLSSPQLRRKNSPSQWSEVVRGEHDPASTTVNHSQSS 59
           +TA  +SNH    +       GDG +SP+  RKN PS W++VVRG  +P S    H    
Sbjct: 2   VTAAKSSNHHSPPSAPSPAQPGDG-NSPKFPRKNLPSPWAQVVRGG-EPESAGGIHQSPP 59

Query: 60  PSPPLTTTSLPEPTGSVSPSKAVASAPSSPPPDNPIAAG---SSDADKGNAARPKKLAWN 116
            S   +++SL       +PS  V   P S P DN    G   SSD  +GNA   KK  WN
Sbjct: 60  SSSSSSSSSL---VADQAPSSEVI--PVSSPVDNSNTVGDVDSSDGAEGNADCSKKPVWN 114

Query: 117 KPSNGVV--EVGPVMGAA-SWPALSESTKPSPKSSSADSSSSKPVADGSVSGTQ------ 167
           KPSNGVV  E GPVMGAA SWP L  STK S K   A+SSS     DGS+S +Q      
Sbjct: 115 KPSNGVVVVETGPVMGAAESWPTLLASTKGSAKLP-AESSSKTVTDDGSLSTSQWPMTSQ 173

Query: 168 ---KVSNANANPNSNANRTMPARQRLKRSGGGVSNAGSGPAQTRPTQPPPPPPPPPFPVF 224
              K +   A P+S  N  +P+RQR  +  GG S             PP PPPPPPFPV+
Sbjct: 174 SPQKQATTIAKPSSAPNYNVPSRQRSMKRVGGSSTGSGPSQSNFSNPPPTPPPPPPFPVY 233

Query: 225 PMPPNSFANLVTAMPDPSPREPLYRGSNWDARP-VGGFVSQSHPMNDQRNSSRRGNYGQ- 282
            +PP S+ N+V  +PD +PR+  YR +NWDARP VGGFV     MN+ R SSRRG +G  
Sbjct: 234 QLPPVSYGNMVPGVPDHAPRD-HYRNNNWDARPLVGGFVPA---MNEYRGSSRRGYFGPH 289

Query: 283 -RGDGNYNNNFGGRHD-QDRGNYSNARDAHVQPQRGPPRGFVRPAPPNAAAFAPPQPMRP 340
            RGDG+Y+N++G R D QDRGNY NARDA +   R PPRG +R  PPN AAF  PQP+ P
Sbjct: 290 PRGDGSYHNSYGSRRDHQDRGNYVNARDAFLPQPRMPPRGLLRHPPPNTAAFVGPQPIGP 349

Query: 341 FPNPMGFPEFIYIPPMPVEAAALRGVTGMPPFI---PPAPVLMPVPEPSLAAMLIHQIDY 397
           F NP+ FPEF Y  P+ VE       TGMP F    PP P       P L+ M+++QI+Y
Sbjct: 350 FANPISFPEFYYYQPVTVEQ-----FTGMPFFTHSPPPTPFFSAAESP-LSNMIVYQIEY 403

Query: 398 YFSDANLVKDEFLKSNMDDQGWVPITLIASFPRV 431
           YFSDANLVKD FL+S MD+QGWVP+TLIA FPRV
Sbjct: 404 YFSDANLVKDAFLRSKMDEQGWVPVTLIADFPRV 437

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224085930|ref|XP_002307743.1| predicted protein [Populus trichocarpa] gi|222857192|gb|EEE94739.1| predicted protein [Populus trichocarpa]

 Score =  271 bits (694), Expect = 4e-70,   Method: Compositional matrix adjust.
 Identities = 216/467 (46%), Positives = 276/467 (59%), Gaps = 80/467 (17%)

Query: 1   MAMTADSTSNHVTPRGSGFSGDGLSSPQLRRKNSPSQWSEVVRGEHDPASTTVNHSQSSP 60
           M  T DS++   +PR   F  DG+ S Q RR+ S S  SE V GE +  ++ +  S    
Sbjct: 1   MVYTVDSSN---SPR---FPRDGVRSSQ-RREKSSSPKSETVSGEAESINSMLEQS---- 49

Query: 61  SPPLTTTSLPEPTGSVSPSKAVASAPSSPPPDNPIAAGSSDADKGNAARPKKLAWNKPS- 119
                                          ++  A  SSD+ KGNA + KK AWNKP+ 
Sbjct: 50  -------------------------------NDWAAIESSDSKKGNAGKAKKPAWNKPTS 78

Query: 120 NGVVEV-GPVMGAASWPALSESTKPSPKSSSADSSSSKPVADGSVSGTQ---------KV 169
           NGV E+  PVM A SWPALSESTKPSPK S A+ SSSK V+DGS+  +Q         K 
Sbjct: 79  NGVAEITSPVMDATSWPALSESTKPSPKPSPAE-SSSKIVSDGSIPTSQGPVIANSPKKQ 137

Query: 170 SNANANPNSNANRTMPARQR-LKR--SGGGVSNAGSGPAQTRPTQPPPPPPPPPFPVFPM 226
            N+NA   S  N TMP RQR ++R   G   S++G G +Q   T PPPPPPPPPFP+FPM
Sbjct: 138 GNSNAKSISATNHTMPVRQRPVRRGSGGSSGSSSGGGHSQNSFTHPPPPPPPPPFPIFPM 197

Query: 227 PPNSFANLVTAMPDPSPREPLYRGSNWDARPVGGFVSQSHPMNDQRNSSRRGNYGQ-RGD 285
           PPN F NLV AMPD SPRE LYRG+NW+ RP+GGFV     +++ R  SRRGN+GQ  GD
Sbjct: 198 PPNGFTNLVPAMPDQSPRETLYRGNNWEPRPIGGFVPPPPVVSEHRRPSRRGNFGQPPGD 257

Query: 286 GNYNNNFGGRHDQDRGNYSNARDAHVQPQRGPPRGFVRPAPPNAAAFAPPQPMRPFPNPM 345
           G++ NN+ GR +QDRG++ N+RD HVQ QR P RGF RP+P N+  F PPQ +RPF NPM
Sbjct: 258 GSHRNNYVGRREQDRGHHGNSRDVHVQQQRAPTRGFPRPSPQNSGTFIPPQSVRPFANPM 317

Query: 346 GFPEFIYIPPMPVEAAALRGVTGMPPFIPPAPVLMPVPEPSL--------AAMLIHQIDY 397
           G+ + ++IPP              P  + P PV+  +  P++          +L++QI+Y
Sbjct: 318 GYHDMLFIPP--------------PITLEPYPVVPHMQSPTMLMPIPQPLPLLLLNQIEY 363

Query: 398 YFSDANLVKDEFLKSNMDDQGWVPITLIASFPRVSFYSQISYFLITC 444
           YFSD NL KD FLKS MDD+GWVPITLIA F RV   +    F++ C
Sbjct: 364 YFSDMNLSKDGFLKSKMDDEGWVPITLIAGFNRVRIMTNNIQFILEC 410

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356517961|ref|XP_003527653.1| PREDICTED: uncharacterized protein LOC100792549 [Glycine max]

 Score =  261 bits (668), Expect = 4e-67,   Method: Compositional matrix adjust.
 Identities = 215/466 (46%), Positives = 263/466 (56%), Gaps = 73/466 (15%)

Query: 1   MAMTADSTSNHVTPRGSGFSGDGLSSPQLRRKNSPSQWSEVVRGEHDPASTTVNHSQSSP 60
           +  T DS+SNH +P  +  S +        +K  PS W++VVRG                
Sbjct: 2   VTTTVDSSSNHHSPTAADTSNN------FPQKTMPSPWAQVVRG---------------- 39

Query: 61  SPPLTTTSLPEPTGSVSPSKAVASAPSSPPPDNPIAAGSSDADKGNAARPKKLAWNKP-S 119
                  +  EP     PS + +S+  S   + P A  +SD     A +P   AW KP +
Sbjct: 40  -------ADAEPNDQSPPSSSSSSSLDSINSNGP-AVQTSDI----AVKP---AWKKPEA 84

Query: 120 NGVVEVGPVMGAASWPALSESTKPSPKSSSADSSSSKPVADGSVSGT----------QKV 169
           NGV EVGPVMGA SWP LSESTKP+ K +S   SS K  AD   + T          QK 
Sbjct: 85  NGVAEVGPVMGAHSWPDLSESTKPTAKLTS--DSSVKTAADEESTTTPQGPVTSDPPQKQ 142

Query: 170 SNANANPNSN--ANRTMPARQRLKRSGGGVS--NAGSGPAQTR----PTQPPPPPPPPPF 221
           + ANA P+     N  M  RQR  +  GG +  N GSGP Q          PPPPPPPPF
Sbjct: 143 ATANAKPSPTPAMNYGMANRQRSMKQRGGANGNNVGSGPVQNNFSGTTPNLPPPPPPPPF 202

Query: 222 PVFPMPPNSFANLVTAMPDPSPREPLYRGSNWDARPV-GGFVSQSHPMNDQRNSSRRGNY 280
           PV  MPP++FA+ +   P P+PR+P YR +NWDARP  GGF+    PMN+ R+ S RGN 
Sbjct: 203 PVLLMPPSTFAHGIPGAPVPTPRDP-YRNNNWDARPQHGGFMP---PMNEHRSPSHRGNA 258

Query: 281 GQ--RGDGNYNNNFGGRHDQDRGNYSNARDAHVQPQRGPPRGFVRPAPPNAAAFAPPQPM 338
           G   RG+G Y+N++G R DQDR  Y+N RDAHV  QR PPRG +RP PPN A F  PQPM
Sbjct: 259 GHHPRGEGPYHNSYGNRRDQDRVGYANTRDAHVNQQRMPPRGLMRPPPPNPAPFMGPQPM 318

Query: 339 RPFPNPMGFPEFIYIPPMPVEAAALRGVTGMPPFI--PPAPVLMPVPEPSLAAMLIHQID 396
           RP  NP GFPE+ Y P +  E        GMP F   PP  +  PV E  L   + +QID
Sbjct: 319 RPLANPAGFPEYYYFPTLQFEPFG-----GMPFFTHAPPPAMFYPVAETPLTNTIANQID 373

Query: 397 YYFSDANLVKDEFLKSNMDDQGWVPITLIASFPRV-SFYSQISYFL 441
           YYFSDANLVKDE+L+SNMD+QGWVPI+LIASFPRV S  S I   L
Sbjct: 374 YYFSDANLVKDEYLRSNMDEQGWVPISLIASFPRVRSLTSNIKLIL 419

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357438541|ref|XP_003589546.1| La-related protein [Medicago truncatula] gi|355478594|gb|AES59797.1| La-related protein [Medicago truncatula]

 Score =  250 bits (639), Expect = 1e-63,   Method: Compositional matrix adjust.
 Identities = 205/448 (45%), Positives = 256/448 (57%), Gaps = 66/448 (14%)

Query: 27  PQLRRKNSPSQWSEVVRG------EHDPASTTVNHSQSSPSPP------LTTTSLPEPTG 74
           P   RKN PS W++VVRG      E    S T  H QS PS        LTT   P P+ 
Sbjct: 26  PNFIRKNLPSPWAQVVRGGSGWDTESQSQSPTGIH-QSLPSSSSSSSSSLTTVDQPPPSD 84

Query: 75  --------SVSPSKAVASAPS-SPPPDNPIAAGSSDADKGNAARPKKLAWNK-PSNGV-V 123
                   S SP   V S+P  +P   N     S   D GNA   KK AWNK P NGV V
Sbjct: 85  DSPKAAVVSSSPKAVVVSSPLPAPMEKNSNTIASDGGDGGNAGGSKKPAWNKQPLNGVAV 144

Query: 124 EVGPVMGAASWPALSESTKPSPKSSSADSSSSK----PVADGSVSGTQ----------KV 169
           E+GPVMGA SWPALSES K  P     +SSSSK       DGS S +Q          + 
Sbjct: 145 EIGPVMGAESWPALSESAK-IPGKLPPESSSSKIAPPAAVDGSPSTSQGPIISHSPQRQG 203

Query: 170 SNANANPNSNANRTMPARQRLKRSGGGVSNAGSGPAQTRPTQPPPPPPPPPFPVFPMPPN 229
           S +N   +S AN  +P R R  R   G SN G  PAQ+  + PP PPP PP+PV+ +PP 
Sbjct: 204 STSNTKSSSMANNNLPNRPRPMRRISG-SNIGPCPAQSSLSNPPTPPPLPPYPVYQLPPA 262

Query: 230 -SFANLVTAMPDPSPREPLYRGSNWDARP-VGGFVSQSHPMNDQRNSSRRGNYGQ--RGD 285
            S+ N++ ++PD SPR+  +R +NWDARP VGG             SSRRG++G   RGD
Sbjct: 263 VSYPNMLPSIPDSSPRD-HHRNNNWDARPFVGG-------------SSRRGHFGSHPRGD 308

Query: 286 GNYN-NNFGGRHDQDRGNYSNARDAHVQPQRGPPRGFVRPAPPNAAAFAPPQPMRPFPNP 344
           G+Y+ N++  R + DRGNY+N RDAH    R PPRG +RP PP+ AAF  PQ + PFP P
Sbjct: 309 GSYHQNSYSSRREHDRGNYANTRDAHAPQPRMPPRGILRPPPPSTAAFLGPQTIGPFPAP 368

Query: 345 MGFPEFIYIPPMPVEAAALRGVTGMPPF--IPPAPVLMPVPEPSLAAMLIHQIDYYFSDA 402
           + +P+F Y P +P++        GMP F  +P      P  E SL+ ++++QIDYYFSD 
Sbjct: 369 VAYPDFYYFPTVPLDP-----FRGMPVFPHMPSPATFFPAAESSLSNVIVNQIDYYFSDI 423

Query: 403 NLVKDEFLKSNMDDQGWVPITLIASFPR 430
           NL  DEFLKSNMD++GWVPITLIA+FPR
Sbjct: 424 NLANDEFLKSNMDEEGWVPITLIANFPR 451

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|302143562|emb|CBI22123.3| unnamed protein product [Vitis vinifera]

 Score =  224 bits (572), Expect = 5e-56,   Method: Compositional matrix adjust.
 Identities = 181/478 (37%), Positives = 252/478 (52%), Gaps = 76/478 (15%)

Query: 11  HVTPRGSGFSGDGLSSPQLRRKNS----PSQWSEVVRGEHDPASTTVNHSQSSPSPPLTT 66
           H++PR   +S DG SSP+ RR  +     S W++VVRGE +  +       ++PS P+++
Sbjct: 13  HLSPR---YSPDGHSSPKSRRSAARGAVTSPWTQVVRGESESIT-------AAPSSPVSS 62

Query: 67  TSLPEPTGSVSPSKAVASAPSSPPPDNPIAAGSSDADKGNAARPKKLAWNKPSNGVVEVG 126
                 +   SP+KA + +P+SP   + + A    +D GN    K+ AWNKPSNGV EVG
Sbjct: 63  QEQIVVSSDCSPTKATSDSPASPEDSSQVEAQLESSDNGNGNAGKRPAWNKPSNGVAEVG 122

Query: 127 PVMGAASWPALSESTKPSPK------SSSADSSSSKPVADGSVSG-------TQKVSNAN 173
           PVMGA+SWPALSES + S K       S  D S S P A   V G       + K  N N
Sbjct: 123 PVMGASSWPALSESARASAKSASDSLKSPTDGSISTPPAQVHVQGSGNASSPSHKQVNNN 182

Query: 174 ANPNSNANRTMPARQRLKRSG---GGVSNAGSGPAQTRPTQPPPPPPPPPFPVFPMPPNS 230
             P+S  +  +P RQ+  + G   GG S+A +G          P P  P  PV  +PPN 
Sbjct: 183 PIPSSTPSHALPTRQKSMKRGDRSGGSSSANAG---------LPQPAAPQGPVMEVPPN- 232

Query: 231 FANLVTAMPDPSPREPLYRGSNWDARPVGGFVSQSHPMND---QRNSSRRGNYG--QRGD 285
                    + SPR+   R  + +    GGFV QSH  ND   QR S R+GN     RGD
Sbjct: 233 ---------NSSPRDHTNRSIHPEGGQRGGFVPQSHSGNDYPHQRGSYRKGNSAPHSRGD 283

Query: 286 GNYNNNFGGRHDQDRGNY------SNARDAHVQPQRGPPRGFVRPAPPNAAAFAPPQPMR 339
           G++++ +GGR DQDR N+      +  R+ H+QP R   RGF+RP   ++A F  P  +R
Sbjct: 284 GSHHHGYGGRRDQDRVNHDWNPHRNFNREPHMQP-RVVARGFIRPPSHSSAQFIAPPHLR 342

Query: 340 PFPNPMGFPEF-------IYIPPMPVEAAALRGVTGMPPFIPPAPVLMPVP--EPSLAAM 390
           PF NP+ + E        +Y+P     A  LR V    PF+ P P  M  P  +  L A 
Sbjct: 343 PFGNPILYQELASPVSQVVYVPAP--HADPLRTV----PFVAPMPHPMFFPPQDHQLHAK 396

Query: 391 LIHQIDYYFSDANLVKDEFLKSNMDDQGWVPITLIASFPRVSFYSQISYFLITCSQFS 448
           L+ QIDYYFS+ NL+KD +L+ NMD+QGWVP+ LIA F +V   ++    ++   + S
Sbjct: 397 LVAQIDYYFSNENLIKDIYLRQNMDEQGWVPVKLIAGFKKVKLLTENIQLILEAVRTS 454

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255539032|ref|XP_002510581.1| lupus la ribonucleoprotein, putative [Ricinus communis] gi|223551282|gb|EEF52768.1| lupus la ribonucleoprotein, putative [Ricinus communis]

 Score =  209 bits (533), Expect = 2e-51,   Method: Compositional matrix adjust.
 Identities = 105/167 (62%), Positives = 123/167 (73%), Gaps = 9/167 (5%)

Query: 278 GNYGQRGDGNYNNNFGGRHDQDRGNYSNARDAHVQPQRGPPRGFVRPAPPNAAAFAPPQP 337
           GN+G RGDG+YNNNFGGR DQDRG+Y N RD   QPQR P RGFV P P N A F P Q 
Sbjct: 187 GNFGPRGDGSYNNNFGGRRDQDRGHYGNGRDVPAQPQRSP-RGFVSPPPQNTAPFVPSQT 245

Query: 338 MRPFPNPMGFPEFIYIPPMPVEAAALRGVTGMPPFI--PPAPVLMPVPEPSLAAMLIHQI 395
           +RPF NPMGFP+ +YIP +P+E    RGV    PFI  PP+PV+MPV EP L  +L+ QI
Sbjct: 246 VRPFANPMGFPDLVYIPALPLEP--YRGV----PFIAHPPSPVMMPVSEPPLPDILVRQI 299

Query: 396 DYYFSDANLVKDEFLKSNMDDQGWVPITLIASFPRVSFYSQISYFLI 442
           +YYFSD NLVKD+FLKSNMDDQGWVPITLIASF RV   +   + ++
Sbjct: 300 EYYFSDGNLVKDDFLKSNMDDQGWVPITLIASFNRVRKMTNDIHLVL 346

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	449
TAIR|locus:2125334	523	LARP1c "La related protein 1c"	0.458	0.393	0.279	1.4e-18
TAIR|locus:2156912	453	LARP1b "AT5G66100" [Arabidopsi	0.093	0.092	0.476	8.8e-16
POMBASE|SPAC1527.03	475	SPAC1527.03 "RNA-binding prote	0.124	0.117	0.456	8.3e-08
UNIPROTKB|E9PFL9	134	SSB "Lupus La protein" [Homo s	0.104	0.350	0.458	2.5e-07
UNIPROTKB|E7ERC4	184	SSB "Lupus La protein" [Homo s	0.104	0.255	0.458	3.7e-06
UNIPROTKB|Q5ZKS1	137	SSB "Uncharacterized protein"	0.111	0.364	0.411	1.4e-05
UNIPROTKB|E9PFH8	361	SSB "Lupus La protein" [Homo s	0.104	0.130	0.458	4.7e-05
UNIPROTKB|F1S1V1	402	SSB "Uncharacterized protein"	0.104	0.116	0.458	5.8e-05
UNIPROTKB|P10881	404	SSB "Lupus La protein homolog"	0.104	0.116	0.458	5.8e-05
UNIPROTKB|E2RH09	406	SSB "Uncharacterized protein"	0.104	0.115	0.458	5.8e-05

TAIR|locus:2125334 LARP1c "La related protein 1c" [Arabidopsis thaliana (taxid:3702)]

 Score = 180 (68.4 bits), Expect = 1.4e-18, Sum P(2) = 1.4e-18
 Identities = 64/229 (27%), Positives = 87/229 (37%)

Query:   100 SDADKGNAARPKKLAWNKPSNGVVEVGPVMGAASWPALXXXXXXXXXXXXXXXXXXXXVA 159
             S+A  G     KK  W +PSNG  EVGPVMGA+SWPAL                      
Sbjct:   101 SEASGGQDNAGKKPVWKRPSNGASEVGPVMGASSWPALSETTKAPSNKSSSDSLKSL--- 157

Query:   160 DGSVSGTQKVXXXXXXXXXXXXRTMPARQRLKRSGGGVSNAGSGPAQTRPTQXXXXXXXX 219
              G V  +                ++PA ++      G +N    P  +R           
Sbjct:   158 -GDVPSSSSASSSVPVTQGIANASVPAPKQ-----AGRANPNPTPNHSRQRSFKQRNGAS 211

Query:   220 XXXXXXXXXNSFANLVTAMPDPSPREPLYRGSNWDARPVGGFVSQSHPMND---QRNSSR 276
                       S     T +P  +P  P  RG N       GF SQ+H   +   QR+S R
Sbjct:   212 GSANGTVSQPSAQGSFTELPSHNP-SP--RGQNQK----NGFASQNHGGTENPSQRDSYR 264

Query:   277 R--GNYGQRGDGNYNNNFGGRHDQDRGNYSNARDAHVQPQRGPPRGFVR 323
                GN+ Q   G  N   G ++   + ++ N R+ + Q QRG P  FVR
Sbjct:   265 NQNGNHHQSHGGRRNQEHGNQNWTFQRSF-NGREGNAQSQRGTP-AFVR 311

GO:0009507 "chloroplast" evidence=ISM

GO:0048523 "negative regulation of cellular process" evidence=RCA

GO:0005737 "cytoplasm" evidence=IDA

GO:0010150 "leaf senescence" evidence=IMP

TAIR|locus:2156912 LARP1b "AT5G66100" [Arabidopsis thaliana (taxid:3702)]

 Score = 123 (48.4 bits), Expect = 8.8e-16, Sum P(3) = 8.8e-16
 Identities = 20/42 (47%), Positives = 33/42 (78%)

Query:   391 LIHQIDYYFSDANLVKDEFLKSNMDDQGWVPITLIASFPRVS 432
             ++ Q++YYFS  NL +DE L+  M+D+GWVP+ +IA+F R++
Sbjct:   339 ILTQVEYYFSADNLSRDEHLRDQMNDEGWVPVRVIAAFRRLA 380

GO:0003674 "molecular_function" evidence=ND

GO:0009507 "chloroplast" evidence=ISM

GO:0010150 "leaf senescence" evidence=IMP

POMBASE|SPAC1527.03 SPAC1527.03 "RNA-binding protein (predicted)" [Schizosaccharomyces pombe (taxid:4896)]

 Score = 135 (52.6 bits), Expect = 8.3e-08, Sum P(2) = 8.3e-08
 Identities = 26/57 (45%), Positives = 38/57 (66%)

Query:   389 AMLIHQIDYYFSDANLVKDEFLKSNMDDQGWVPITLIASFPRV-SFYSQISYFLITC 444
             A L  Q++YYFS  NL KD FL+ +MDD+G+VP+  +ASF R+ SF + ++     C
Sbjct:   327 AFLTSQLEYYFSIENLCKDMFLRKHMDDEGYVPLAFLASFNRIKSFSTDLNLLHAAC 383

GO:0002181 "cytoplasmic translation" evidence=NAS

GO:0003723 "RNA binding" evidence=ISO

GO:0005737 "cytoplasm" evidence=ISO

GO:0005829 "cytosol" evidence=IDA

GO:0005844 "polysome" evidence=ISO

GO:0006412 "translation" evidence=ISO

UNIPROTKB|E9PFL9 SSB "Lupus La protein" [Homo sapiens (taxid:9606)]

 Score = 124 (48.7 bits), Expect = 2.5e-07, P = 2.5e-07
 Identities = 22/48 (45%), Positives = 34/48 (70%)

Query:   386 SLAAMLIHQIDYYFSDANLVKDEFLKSNMD-DQGWVPITLIASFPRVS 432
             +L A + HQI+YYF D NL +D+FLK  +  D+GWVP+ ++  F R++
Sbjct:    12 ALEAKICHQIEYYFGDFNLPRDKFLKEQIKLDEGWVPLEIMIKFNRLN 59

GO:0003723 "RNA binding" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0006396 "RNA processing" evidence=IEA

GO:0030529 "ribonucleoprotein complex" evidence=IEA

UNIPROTKB|E7ERC4 SSB "Lupus La protein" [Homo sapiens (taxid:9606)]

 Score = 124 (48.7 bits), Expect = 3.7e-06, P = 3.7e-06
 Identities = 22/48 (45%), Positives = 34/48 (70%)

Query:   386 SLAAMLIHQIDYYFSDANLVKDEFLKSNMD-DQGWVPITLIASFPRVS 432
             +L A + HQI+YYF D NL +D+FLK  +  D+GWVP+ ++  F R++
Sbjct:    12 ALEAKICHQIEYYFGDFNLPRDKFLKEQIKLDEGWVPLEIMIKFNRLN 59

GO:0000166 "nucleotide binding" evidence=IEA

GO:0006396 "RNA processing" evidence=IEA

GO:0030529 "ribonucleoprotein complex" evidence=IEA

GO:0003723 "RNA binding" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

UNIPROTKB|Q5ZKS1 SSB "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 108 (43.1 bits), Expect = 1.4e-05, P = 1.4e-05
 Identities = 21/51 (41%), Positives = 33/51 (64%)

Query:   387 LAAMLIHQIDYYFSDANLVKDEFLKSNMD-DQGWVPITLIASFPRVSFYSQ 436
             L + +  QI+YYF + NL +D+FLK  +  D GWVP+ ++  F R+S  S+
Sbjct:    13 LESKICQQIEYYFGNHNLPRDKFLKEQIKLDDGWVPLEVMIKFNRLSRLSK 63

GO:0006396 "RNA processing" evidence=IEA

GO:0030529 "ribonucleoprotein complex" evidence=IEA

GO:0003723 "RNA binding" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

UNIPROTKB|E9PFH8 SSB "Lupus La protein" [Homo sapiens (taxid:9606)]

 Score = 124 (48.7 bits), Expect = 4.7e-05, P = 4.7e-05
 Identities = 22/48 (45%), Positives = 34/48 (70%)

Query:   386 SLAAMLIHQIDYYFSDANLVKDEFLKSNMD-DQGWVPITLIASFPRVS 432
             +L A + HQI+YYF D NL +D+FLK  +  D+GWVP+ ++  F R++
Sbjct:    12 ALEAKICHQIEYYFGDFNLPRDKFLKEQIKLDEGWVPLEIMIKFNRLN 59

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003723 "RNA binding" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0006396 "RNA processing" evidence=IEA

GO:0030529 "ribonucleoprotein complex" evidence=IEA

UNIPROTKB|F1S1V1 SSB "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 124 (48.7 bits), Expect = 5.8e-05, P = 5.8e-05
 Identities = 22/48 (45%), Positives = 34/48 (70%)

Query:   386 SLAAMLIHQIDYYFSDANLVKDEFLKSNMD-DQGWVPITLIASFPRVS 432
             +L A + HQI+YYF D NL +D+FLK  +  D+GWVP+ ++  F R++
Sbjct:    12 ALEAKICHQIEYYFGDFNLPRDKFLKEQIKLDEGWVPLEIMIKFNRLN 59

GO:0005634 "nucleus" evidence=IEA

GO:0003723 "RNA binding" evidence=IEA

GO:0030529 "ribonucleoprotein complex" evidence=IEA

GO:0006396 "RNA processing" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

UNIPROTKB|P10881 SSB "Lupus La protein homolog" [Bos taurus (taxid:9913)]

 Score = 124 (48.7 bits), Expect = 5.8e-05, P = 5.8e-05
 Identities = 22/48 (45%), Positives = 34/48 (70%)

Query:   386 SLAAMLIHQIDYYFSDANLVKDEFLKSNMD-DQGWVPITLIASFPRVS 432
             +L A + HQI+YYF D NL +D+FLK  +  D+GWVP+ ++  F R++
Sbjct:    12 ALEAKICHQIEYYFGDFNLPRDKFLKEQIKLDEGWVPLEIMIKFNRLN 59

GO:0005634 "nucleus" evidence=IEA

GO:0003723 "RNA binding" evidence=IEA

GO:0030529 "ribonucleoprotein complex" evidence=IEA

GO:0006396 "RNA processing" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

UNIPROTKB|E2RH09 SSB "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 124 (48.7 bits), Expect = 5.8e-05, P = 5.8e-05
 Identities = 22/48 (45%), Positives = 34/48 (70%)

Query:   386 SLAAMLIHQIDYYFSDANLVKDEFLKSNMD-DQGWVPITLIASFPRVS 432
             +L A + HQI+YYF D NL +D+FLK  +  D+GWVP+ ++  F R++
Sbjct:    12 ALEAKICHQIEYYFGDFNLPRDKFLKEQIKLDEGWVPLEIMIKFNRLN 59

GO:0030529 "ribonucleoprotein complex" evidence=IEA

GO:0006396 "RNA processing" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0003723 "RNA binding" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

No confident hit for EC number transfering in SWISSPROT detected by BLAST

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input: GSVIVG00014357001 SubName- Full=Chromosome chr18 scaffold_1, whole genome shotgun sequence; (548 aa) (Vitis vinifera)

Predicted Functional Partners:

Sorry, there are no predicted associations at the current settings.

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	449
cd07323	75	cd07323, LAM, LA motif RNA-binding domain	5e-22
smart00715	80	smart00715, LA, Domain in the RNA-binding Lupus La	1e-18
pfam05383	59	pfam05383, La, La domain	2e-18
cd08034	73	cd08034, LARP_1_2, La RNA-binding domain proteins	2e-16
cd08038	73	cd08038, LARP_2, La RNA-binding domain of La-relat	8e-13
cd08033	77	cd08033, LARP_6, La RNA-binding domain of La-relat	3e-12
cd08028	82	cd08028, LARP_3, La RNA-binding domain of La-relat	4e-12
cd08037	73	cd08037, LARP_1, La RNA-binding domain of La-relat	7e-12
cd08031	75	cd08031, LARP_4_5_like, La RNA-binding domain of p	5e-11
cd08030	90	cd08030, LA_like_plant, La-motif domain of plant p	6e-08
cd08029	76	cd08029, LA_like_fungal, La-motif domain of fungal	7e-08
cd08032	82	cd08032, LARP_7, La RNA-binding domain of La-relat	1e-06
PRK07764	824	PRK07764, PRK07764, DNA polymerase III subunits ga	2e-06
PHA03247	3151	PHA03247, PHA03247, large tegument protein UL36; P	9e-06
PRK07003	830	PRK07003, PRK07003, DNA polymerase III subunits ga	1e-04
PHA03247	3151	PHA03247, PHA03247, large tegument protein UL36; P	2e-04
PHA03247	3151	PHA03247, PHA03247, large tegument protein UL36; P	2e-04
PHA03247	3151	PHA03247, PHA03247, large tegument protein UL36; P	3e-04
COG5193	438	COG5193, LHP1, La protein, small RNA-binding pol I	5e-04
PHA03247	3151	PHA03247, PHA03247, large tegument protein UL36; P	9e-04
PRK12323	700	PRK12323, PRK12323, DNA polymerase III subunits ga	0.002

>gnl|CDD|153396 cd07323, LAM, LA motif RNA-binding domain

 Score = 88.7 bits (221), Expect = 5e-22
 Identities = 26/43 (60%), Positives = 33/43 (76%)

Query: 389 AMLIHQIDYYFSDANLVKDEFLKSNMDDQGWVPITLIASFPRV 431
             +  Q++YYFSD NL KD FL+S MDD GWVP++L+ASF RV
Sbjct: 2   EKIKKQVEYYFSDENLCKDRFLRSLMDDDGWVPLSLLASFNRV 44

This domain is found at the N-terminus of La RNA-binding proteins as well as in other related proteins. Typically, the domain co-occurs with an RNA-recognition motif (RRM), and together these domains function to bind primary transcripts of RNA polymerase III in the La autoantigen (Lupus La protein, LARP3, or Sjoegren syndrome type B antigen, SS-B). A variety of La-related proteins (LARPs or La ribonucleoproteins), with differing domain architecture, appear to function as RNA-binding proteins in eukaryotic cellular processes. Length = 75

>gnl|CDD|128955 smart00715, LA, Domain in the RNA-binding Lupus La protein; unknown function

 Score = 79.6 bits (197), Expect = 1e-18
 Identities = 24/46 (52%), Positives = 33/46 (71%), Gaps = 1/46 (2%)

Query: 387 LAAMLIHQIDYYFSDANLVKDEFLKSNMD-DQGWVPITLIASFPRV 431
           L   +  Q++YYFSD NL +D+FL+  MD + G+VPI+ IASF RV
Sbjct: 3   LKQKIKKQVEYYFSDENLPRDKFLRKKMDKNDGYVPISTIASFKRV 48

Length = 80

>gnl|CDD|203243 pfam05383, La, La domain

 Score = 78.4 bits (194), Expect = 2e-18
 Identities = 23/42 (54%), Positives = 32/42 (76%), Gaps = 1/42 (2%)

Query: 391 LIHQIDYYFSDANLVKDEFLKSNMD-DQGWVPITLIASFPRV 431
           +  Q++YYFSD NL +D+FL+  MD D G+VPI+ IASF R+
Sbjct: 1   IKKQVEYYFSDENLPRDKFLRKQMDKDPGYVPISTIASFKRI 42

This presumed domain is found at the N-terminus of La RNA-binding proteins as well as other proteins. The function of this region is uncertain. Length = 59

>gnl|CDD|153403 cd08034, LARP_1_2, La RNA-binding domain proteins similar to La-related proteins 1 and 2

 Score = 73.2 bits (180), Expect = 2e-16
 Identities = 24/38 (63%), Positives = 29/38 (76%)

Query: 394 QIDYYFSDANLVKDEFLKSNMDDQGWVPITLIASFPRV 431
           QI+YYFS  NL KD FL+  MD +G++PI LIASF RV
Sbjct: 7   QIEYYFSVDNLEKDFFLRRKMDPEGYLPIALIASFHRV 44

This domain is found in proteins similar to vertebrate La-related proteins 1 and 2 (LARP1, LARP2). A variety of La-related proteins (LARPs or La ribonucleoproteins), with differing domain architecture, appear to function as RNA-binding proteins in eukaryotic cellular processes. Length = 73

>gnl|CDD|153407 cd08038, LARP_2, La RNA-binding domain of La-related protein 2

 Score = 63.0 bits (153), Expect = 8e-13
 Identities = 23/38 (60%), Positives = 29/38 (76%)

Query: 394 QIDYYFSDANLVKDEFLKSNMDDQGWVPITLIASFPRV 431
           QI+YYFS  NL +D FL+  MD QG++PI+LIA F RV
Sbjct: 7   QIEYYFSTENLERDFFLRRKMDLQGFLPISLIAGFYRV 44

This domain is found in vertebrate La-related protein 2 (LARP2). A variety of La-related proteins (LARPs or La ribonucleoproteins), with differing domain architecture, appear to function as RNA-binding proteins in eukaryotic cellular processes. Length = 73

>gnl|CDD|153402 cd08033, LARP_6, La RNA-binding domain of La-related protein 6

 Score = 61.9 bits (151), Expect = 3e-12
 Identities = 22/43 (51%), Positives = 33/43 (76%), Gaps = 2/43 (4%)

Query: 391 LIHQIDYYFSDANLVKDEFLKSNM--DDQGWVPITLIASFPRV 431
           ++ Q++YYFSD NL+KD FL  ++  + +G+VPI LIASF +V
Sbjct: 4   IVKQVEYYFSDENLLKDAFLLKHVRRNKEGYVPIKLIASFKKV 46

This domain is found in animal and plant proteins related to the La autoantigen. A variety of La-related proteins (LARPs or La ribonucleoproteins), with differing domain architecture, appear to function as RNA-binding proteins in eukaryotic cellular processes. Length = 77

>gnl|CDD|153397 cd08028, LARP_3, La RNA-binding domain of La-related protein 3

 Score = 61.5 bits (150), Expect = 4e-12
 Identities = 21/47 (44%), Positives = 31/47 (65%), Gaps = 1/47 (2%)

Query: 387 LAAMLIHQIDYYFSDANLVKDEFLKSNM-DDQGWVPITLIASFPRVS 432
           L   +I QI+YYF D NL +D+FLK  + +D GWVP+ ++  F R+ 
Sbjct: 4   LEKKIIRQIEYYFGDFNLPRDKFLKEQIKEDDGWVPMEVMLKFNRLK 50

This domain is found at the N-terminus of the La autoantigen and similar proteins, and co-occurs with an RNA-recognition motif (RRM). Together these domains function to bind primary transcripts of RNA polymerase III at their 3' terminus and protect them from exonucleolytic degradation. Binding is specific for the 3'-terminal UUU-OH motif. The La autoantigen is also called Lupus La protein, LARP3, or Sjoegren syndrome type B antigen (SS-B). Length = 82

>gnl|CDD|153406 cd08037, LARP_1, La RNA-binding domain of La-related protein 1

 Score = 60.7 bits (147), Expect = 7e-12
 Identities = 23/38 (60%), Positives = 30/38 (78%)

Query: 394 QIDYYFSDANLVKDEFLKSNMDDQGWVPITLIASFPRV 431
           QI+YYFS  NL +D FL+  MD+ G++P+TLIASF RV
Sbjct: 7   QIEYYFSVDNLERDFFLRRKMDEDGFLPVTLIASFHRV 44

This domain is found in vertebrate La-related protein 1 (LARP1). A variety of La-related proteins (LARPs or La ribonucleoproteins), with differing domain architecture, appear to function as RNA-binding proteins in eukaryotic cellular processes. Length = 73

>gnl|CDD|153400 cd08031, LARP_4_5_like, La RNA-binding domain of proteins similar to La-related proteins 4 and 5

 Score = 58.2 bits (141), Expect = 5e-11
 Identities = 19/42 (45%), Positives = 27/42 (64%)

Query: 390 MLIHQIDYYFSDANLVKDEFLKSNMDDQGWVPITLIASFPRV 431
           +L  Q++YYFS  NL  D +L S MD   +VPI  IA+F ++
Sbjct: 3   LLKRQLEYYFSRENLANDAYLLSQMDSDQYVPIWTIANFNKI 44

This domain is found in proteins similar to La-related proteins 4 and 5 (LARP4, LARP5). A variety of La-related proteins (LARPs or La ribonucleoproteins), with differing domain architecture, appear to function as RNA-binding proteins in eukaryotic cellular processes. Length = 75

>gnl|CDD|153399 cd08030, LA_like_plant, La-motif domain of plant proteins similar to the La autoantigen

 Score = 49.7 bits (119), Expect = 6e-08
 Identities = 18/47 (38%), Positives = 29/47 (61%), Gaps = 2/47 (4%)

Query: 387 LAAMLIHQIDYYFSDANLVKDEFLKSNM--DDQGWVPITLIASFPRV 431
               ++ Q+++YFSD+NL +D+FL   +  D  G V + LI SF R+
Sbjct: 1   TKEKVLRQVEFYFSDSNLPRDDFLLEEVEEDPDGMVSLALICSFSRM 47

This domain is found in plant proteins related to the La autoantigen. A variety of La-related proteins (LARPs or La ribonucleoproteins), with differing domain architecture, appear to function as RNA-binding proteins in eukaryotic cellular processes. Length = 90

>gnl|CDD|153398 cd08029, LA_like_fungal, La-motif domain of fungal proteins similar to the La autoantigen

 Score = 49.2 bits (118), Expect = 7e-08
 Identities = 20/39 (51%), Positives = 27/39 (69%), Gaps = 2/39 (5%)

Query: 394 QIDYYFSDANLVKDEFL--KSNMDDQGWVPITLIASFPR 430
           Q+++YFSD+NL  D+FL   +   + GWVPI  IASF R
Sbjct: 7   QVEFYFSDSNLPTDKFLWTLTGGSNNGWVPIKTIASFKR 45

This domain is found in fungal proteins related to the La autoantigen. A variety of La-related proteins (LARPs or La ribonucleoproteins), with differing domain architecture, appear to function as RNA-binding proteins in eukaryotic cellular processes. Length = 76

>gnl|CDD|153401 cd08032, LARP_7, La RNA-binding domain of La-related protein 7

 Score = 46.1 bits (109), Expect = 1e-06
 Identities = 15/40 (37%), Positives = 27/40 (67%), Gaps = 2/40 (5%)

Query: 394 QIDYYFSDANLVKDEFLKSNMDDQ--GWVPITLIASFPRV 431
           Q+D++F D NL KD FL+  ++    G++ I+L+ SF ++
Sbjct: 12  QVDFWFGDVNLHKDRFLREQIEKSRDGYIDISLLVSFNKM 51

LARP7 is a component of the 7SK snRNP, a key factor in the regulation of RNA polymerase II transcription. 7SK functionality is dependent on the presence of LARP7, which is thought to stabilize the 7SK RNA by interacting with its 3' end. The release of 7SK RNA from P-TEFb/HEXIM/7SK complexes activates the cyclin-dependent kinase P-TEFb, which in turn phosphorylates the C-terminal domain of RNA pol II and mediates a transition into productive transcription elongation. Length = 82

>gnl|CDD|236090 PRK07764, PRK07764, DNA polymerase III subunits gamma and tau; Validated

 Score = 50.4 bits (121), Expect = 2e-06
 Identities = 30/194 (15%), Positives = 54/194 (27%), Gaps = 5/194 (2%)

Query: 56  SQSSPSPPLTTTSLPEPTGSVSPSKAVASAPSSPPPDNPIAAGSSDADKGNAARPKKLAW 115
              +P+          P    +P+   A AP+        A+ +            K   
Sbjct: 599 GPPAPASSGPPEEAARPAAPAAPAAPAAPAPAGAAAAPAEASAAPAPGVAAPEHHPKHVA 658

Query: 116 NKPSNGVVEVGPVMGAASWPALSESTKPSPKSSSADSSSSKPVADGSVSGTQKVSNANAN 175
              ++   +  P     + PA +    P+P + +A + ++      + + T     A+  
Sbjct: 659 VPDASDGGDGWPAKAGGAAPA-APPPAPAPAAPAAPAGAAPAQPAPAPAATPPAGQADDP 717

Query: 176 PNSNANRTMPARQRLKRSGGGVSNAGSGPAQTRPTQPPPPPPPPPFPVFPMPPNSFANLV 235
                     A      +   V           P   P  PPPPP P     P +     
Sbjct: 718 AAQPPQAAQGASAPSPAADDPVPLPPEPDDPPDPAGAPAQPPPPPAPAPAAAPAA----A 773

Query: 236 TAMPDPSPREPLYR 249
                PS  E +  
Sbjct: 774 PPPSPPSEEEEMAE 787

Length = 824

>gnl|CDD|223021 PHA03247, PHA03247, large tegument protein UL36; Provisional

 Score = 48.0 bits (114), Expect = 9e-06
 Identities = 46/219 (21%), Positives = 69/219 (31%), Gaps = 7/219 (3%)

Query: 47   DPASTTVNHSQSSPSPPLTTTSLPEPTGSVSPSKAVASAPSSPPPDNPIAAGSSDADKGN 106
             PA   V    ++P  P      P   G  +P+   A+  + PP      A +S ++   
Sbjct: 2738 APAPPAVPAGPATPGGPARPARPPTTAGPPAPA-PPAAPAAGPPRRLTRPAVASLSESRE 2796

Query: 107  AARPKKLAWNKPSNGVVEVGPVMGAASWPALSESTKPSPKSSSADSSSSKPVA----DGS 162
            +  P       P   V+     +  A+ PA       S + ++       P       GS
Sbjct: 2797 SL-PSPWDPADPPAAVLAPAAALPPAASPAGPLPPPTSAQPTAPPPPPGPPPPSLPLGGS 2855

Query: 163  VSGTQKVSNANANPNSNANRTMPARQRLKR-SGGGVSNAGSGPAQTRPTQPPPPPPPPPF 221
            V+    V     + +  A    PAR  ++R +   VS +    A        PP P  P 
Sbjct: 2856 VAPGGDVRRRPPSRSPAAKPAAPARPPVRRLARPAVSRSTESFALPPDQPERPPQPQAPP 2915

Query: 222  PVFPMPPNSFANLVTAMPDPSPREPLYRGSNWDARPVGG 260
            P  P P           P P PR         D    G 
Sbjct: 2916 PPQPQPQPPPPPQPQPPPPPPPRPQPPLAPTTDPAGAGE 2954

Length = 3151

>gnl|CDD|235906 PRK07003, PRK07003, DNA polymerase III subunits gamma and tau; Validated

 Score = 44.5 bits (105), Expect = 1e-04
 Identities = 36/218 (16%), Positives = 60/218 (27%), Gaps = 29/218 (13%)

Query: 48  PASTTVNHSQSSPSPPLTTTSLPEPTGSVSPSKAVASAPSSPPPDNPIAAGSSDADKGNA 107
            A      + ++ +        P  T       A   AP     +   +A S   ++   
Sbjct: 410 LAPKAAAAAAATRAEAPPAAPAPPATADRGDDAADGDAPVPAKANARASADSRCDERDAQ 469

Query: 108 ARPKKLAWNKPSNGVVEVGPVMGAASWPALSESTKPSPKSSSADSSSSKPVADGSVSGTQ 167
                     P++      P   A    A  E    +   S+A  ++       + +  +
Sbjct: 470 P---------PADSGSASAPASDAPP-DAAFEPAPRAAAPSAATPAAVPDARAPAAASRE 519

Query: 168 KVSNANANPNSNANRTMPARQRLKRSGGGVS-------NAG-----------SGPAQTRP 209
               A A P   A    PA        GG +       NAG           +  A+   
Sbjct: 520 DAPAAAAPPAPEARPPTPAAAAPAARAGGAAAALDVLRNAGMRVSSDRGARAAAAAKPAA 579

Query: 210 TQPPPPPPPPPFPVFPMP-PNSFANLVTAMPDPSPREP 246
                P P  P     +P P + A    A P+ + R  
Sbjct: 580 APAAAPKPAAPRVAVQVPTPRARAATGDAPPNGAARAE 617

Length = 830

>gnl|CDD|223021 PHA03247, PHA03247, large tegument protein UL36; Provisional

 Score = 44.2 bits (104), Expect = 2e-04
 Identities = 61/339 (17%), Positives = 88/339 (25%), Gaps = 46/339 (13%)

Query: 60   PSPPLTTTSLPEPTGSVSPSKAVASAPSSPP-------PDNPIAAGSSDADKGNAARPKK 112
            P PPL   + P       P    A  PS P        PD P  +    A   +   P+ 
Sbjct: 2551 PPPPLPPAAPPAAPDRSVPPPRPAPRPSEPAVTSRARRPDAPPQSARPRAPVDDRGDPRG 2610

Query: 113  LAWNKPSNGVVEVGPVMGAASWPALSESTKPSPKSSSADSSSSKPVADGSVSGTQKVSNA 172
             A   P             +  PA +E     P +           A G VS  ++    
Sbjct: 2611 PAPPSPLPPDTHAPDPPPPSPSPAANEPDPHPPPTVPPPERPRDDPAPGRVSRPRRARRL 2670

Query: 173  NANPNSNANRTMPARQRLKRSGGGVSNAGSGPAQTRPTQPPPPPPPPPFPVFPMPPNSFA 232
                 +++    P R+  + + G +++    P      +P P       P+ P P  +  
Sbjct: 2671 GRAAQASSPPQRPRRRAARPTVGSLTSLADPPPPPPTPEPAPHALVSATPLPPGPAAARQ 2730

Query: 233  NLVTAMPDPSPREPLYRGSNWDARPVGGFVSQSHPMNDQRNSSRRGNYGQRGDGNYNNNF 292
                    P+P             P G       P    R +      G           
Sbjct: 2731 ASPALPAAPAPPAV----------PAGPAT----PGGPARPARPPTTAG----------- 2765

Query: 293  GGRHDQDRGNYSNARDAHVQPQRGPPRGFVRPAPPNAAAFAPPQPMRPFPNPMGFPEFIY 352
                         A      P  GPPR   RPA  + +      P    P     P    
Sbjct: 2766 -----------PPAPAPPAAPAAGPPRRLTRPAVASLSESRESLPSPWDPAD---PPAAV 2811

Query: 353  IPPMPVEAAALRGVTGMPPFIPPAPVLMPVPEPSLAAML 391
            + P      A      +PP     P   P P       L
Sbjct: 2812 LAPAAALPPAASPAGPLPPPTSAQPTAPPPPPGPPPPSL 2850

Length = 3151

>gnl|CDD|223021 PHA03247, PHA03247, large tegument protein UL36; Provisional

 Score = 43.8 bits (103), Expect = 2e-04
 Identities = 36/211 (17%), Positives = 61/211 (28%), Gaps = 24/211 (11%)

Query: 60   PSPPLTTTSLPEPTGSVSPSKAVASAPSSP-PPDNPIAAGSSDADKGNAARPKKLAWNKP 118
            P+P    ++ P P G  +  +A  + P++P PP  P    +       A  P       P
Sbjct: 2710 PAPHALVSATPLPPGPAAARQASPALPAAPAPPAVPAGPATPGGPARPARPPTTAGPPAP 2769

Query: 119  SNGVVEVGPVMGAASWPALSESTKPSPKSSSADSSSSKPVADGSVSGTQKVSNANANPNS 178
            +             + PA++  ++      S    +  P A  + +     + + A P  
Sbjct: 2770 APPAAPAAGPPRRLTRPAVASLSESRESLPSPWDPADPPAAVLAPAAALPPAASPAGPLP 2829

Query: 179  NANRTMPARQRLKRS--------GGGVSNAG-------SGPAQTRPTQPPPPP------- 216
                  P                GG V+  G       S     +P  P  PP       
Sbjct: 2830 PPTSAQPTAPPPPPGPPPPSLPLGGSVAPGGDVRRRPPSRSPAAKPAAPARPPVRRLARP 2889

Query: 217  -PPPPFPVFPMPPNSFANLVTAMPDPSPREP 246
                    F +PP+           P P+  
Sbjct: 2890 AVSRSTESFALPPDQPERPPQPQAPPPPQPQ 2920

Length = 3151

>gnl|CDD|223021 PHA03247, PHA03247, large tegument protein UL36; Provisional

 Score = 43.4 bits (102), Expect = 3e-04
 Identities = 66/323 (20%), Positives = 86/323 (26%), Gaps = 62/323 (19%)

Query: 63   PLTTTSLPEPTGSVSPSKAVASAPSSPPPDNPIAAGSSDADKGNAARPKKLAWNKPSNGV 122
            P    + P+P G   P      APS   P     A   D   G    P+ L W +   G+
Sbjct: 2489 PFAAGAAPDPGGGGPPDPDAPPAPSRLAP-----AILPDEPVGEPVHPRMLTWIR---GL 2540

Query: 123  VEVGPVMGAASWPALSESTKPSPKSSSADSSSSKPVADGSVSGTQKVSNANANPNSNANR 182
             E+         P L  +  P+    S       P        ++               
Sbjct: 2541 EELASDDAGDPPPPLPPAAPPAAPDRSVPPPRPAPRPSEPAVTSRA-----------RRP 2589

Query: 183  TMPARQRLKRSGGGVSNAGSGPAQTRPTQPPPPPPPPPFPVFPMPPNSFANLVTAMPDPS 242
              P +    R+         GPA   P  P    P PP P  P P  +  +       P 
Sbjct: 2590 DAPPQSARPRAPVDDRGDPRGPAPPSPLPPDTHAPDPP-PPSPSPAANEPDPHPPPTVPP 2648

Query: 243  PREPLYRGSNWDARPVGGFVSQSHPMNDQRNSSRRGNYGQRGDGNYNNNFGGRHDQDRGN 302
            P  P          P  G VS+       R + R G   Q                    
Sbjct: 2649 PERP-------RDDPAPGRVSRP------RRARRLGRAAQAS------------------ 2677

Query: 303  YSNARDAHVQPQRGPPRGFVRPAPPNAAAFA--PPQPMRPFPNPMGFPEFIYIPPMPVEA 360
                      P + P R   RP   +  + A  PP P  P P P        +PP P  A
Sbjct: 2678 ---------SPPQRPRRRAARPTVGSLTSLADPPPPPPTPEPAPHALVSATPLPPGPAAA 2728

Query: 361  AALRGVTGMPPFIPPAPVLMPVP 383
                      P  P  P     P
Sbjct: 2729 RQASPALPAAPAPPAVPAGPATP 2751

Length = 3151

>gnl|CDD|227520 COG5193, LHP1, La protein, small RNA-binding pol III transcript stabilizing protein and related La-motif-containing proteins involved in translation [Posttranslational modification, protein turnover, chaperones / Translation, ribosomal structure and biogenesis]

 Score = 42.0 bits (98), Expect = 5e-04
 Identities = 37/157 (23%), Positives = 51/157 (32%), Gaps = 23/157 (14%)

Query: 287 NYNNNFGGRHDQDRGNYSNARDAHVQPQRGPPRGFVRPAPPNAAAFAPPQPMR-PFPNP- 344
            Y N FG     +        D  +Q             PP+  A       R  + N  
Sbjct: 177 VYQNGFGKEDVNNASRPEQQEDLEIQ------------FPPHYHAPPSQIRNRRDWLNKN 224

Query: 345 ---MGFPEFIYIPPMPVEAAALRGVTGMPPF--IPPAPVLMPVPEPSLAAMLI-HQIDYY 398
                F EF Y            G      +   P       V    L+ M    QI+YY
Sbjct: 225 FRGSVFVEFKYFR---EAQRFNNGFYRNKKYPNDPETVYYYSVEPILLSIMAKKEQIEYY 281

Query: 399 FSDANLVKDEFLKSNMDDQGWVPITLIASFPRVSFYS 435
           FS+ NL  DEFL+      G++P++ I  F R   + 
Sbjct: 282 FSEENLKSDEFLRKKFKKAGFIPLSFIGKFYRNLSFG 318

Length = 438

>gnl|CDD|223021 PHA03247, PHA03247, large tegument protein UL36; Provisional

 Score = 41.5 bits (97), Expect = 9e-04
 Identities = 62/337 (18%), Positives = 91/337 (27%), Gaps = 33/337 (9%)

Query: 47   DPASTTVNHSQSSPSPPLTTTSLPEPTGSV-SPSKAVASAPSSPPPDNPIAAGSSDADKG 105
            +PA T+      +P       +  +  G    P+      P +  PD P  + S  A++ 
Sbjct: 2579 EPAVTSRARRPDAPPQSARPRAPVDDRGDPRGPAPPSPLPPDTHAPDPPPPSPSPAANEP 2638

Query: 106  NAARPKKLAWNKPSNGVVEVGPVMGAASWPALSESTKPSPKSSSADSSSSKPVADGSVSG 165
            +   P       P        P  G  S P  +     + ++SS      +  A  +V  
Sbjct: 2639 DPHPPPT----VPPPERPRDDPAPGRVSRPRRARRLGRAAQASSPPQRPRRRAARPTVGS 2694

Query: 166  TQKVSNANANPNSNANRTMPARQRLKRSGGGVSNAGSGPAQTRPTQPPPPPPPPPFPVFP 225
               +++    P +                G  +   + PA      PP  P  P  P  P
Sbjct: 2695 LTSLADPPPPPPTPEPAPHALVSATPLPPGPAAARQASPALPAAPAPPAVPAGPATPGGP 2754

Query: 226  MPPNSFANLVTAMPDPSPREPLYRGSNWDARPVGGFVSQSHPMNDQRNSSRRGNYGQRGD 285
              P              P  P         RP    +S+S                    
Sbjct: 2755 ARPARPPTTAGPPAPAPPAAPAAGPPRRLTRPAVASLSESRESLPS-------------- 2800

Query: 286  GNYNNNFGGRHDQDRGNYSNARDAHVQPQRGPPRGFVRPAPPNAAAFAPPQPMRPFPNPM 345
                         D      A  A + P   P      P P +A   APP P  P P  +
Sbjct: 2801 --------PWDPADPPAAVLAPAAALPPAASPAGPL--PPPTSAQPTAPPPPPGPPPPSL 2850

Query: 346  GFPEFIYIPPMPVEAAALRGVTGMPPFIPPAPVLMPV 382
                    P   V     R  +  P   P AP   PV
Sbjct: 2851 P-LGGSVAPGGDV---RRRPPSRSPAAKPAAPARPPV 2883

Length = 3151

>gnl|CDD|237057 PRK12323, PRK12323, DNA polymerase III subunits gamma and tau; Provisional

 Score = 40.6 bits (95), Expect = 0.002
 Identities = 30/135 (22%), Positives = 41/135 (30%), Gaps = 12/135 (8%)

Query: 118 PSNGVVEVGPVMGAASWPALSESTKPSPKSSSADSSSSKPVADGSVSGTQKVSNANANPN 177
            +     V     AA+ PA +     +P ++ A + ++   A    +   + S A     
Sbjct: 375 ATAAAAPVAQPAPAAAAPAAAAPAPAAPPAAPAAAPAAAAAARAVAAAPARRSPAPE--- 431

Query: 178 SNANRTMPARQRLKRSGGGVSNAGSGPA-----QTRPTQPPPPPPPPPFPVFPMPPNSFA 232
                   ARQ   R  GG       PA       RP    P P        P      A
Sbjct: 432 ----ALAAARQASARGPGGAPAPAPAPAAAPAAAARPAAAGPRPVAAAAAAAPARAAPAA 487

Query: 233 NLVTAMPDPSPREPL 247
               A  DP P E L
Sbjct: 488 APAPADDDPPPWEEL 502

Length = 700

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	449
cd08036	75	LARP_5 La RNA-binding domain of La-related protein	99.94
cd08035	75	LARP_4 La RNA-binding domain of La-related protein	99.93
cd08038	73	LARP_2 La RNA-binding domain of La-related protein	99.93
cd08037	73	LARP_1 La RNA-binding domain of La-related protein	99.93
cd08034	73	LARP_1_2 La RNA-binding domain proteins similar to	99.92
cd08032	82	LARP_7 La RNA-binding domain of La-related protein	99.92
cd08031	75	LARP_4_5_like La RNA-binding domain of proteins si	99.92
cd08028	82	LARP_3 La RNA-binding domain of La-related protein	99.91
cd08033	77	LARP_6 La RNA-binding domain of La-related protein	99.91
smart00715	80	LA Domain in the RNA-binding Lupus La protein; unk	99.91
PF05383	61	La: La domain; InterPro: IPR006630 Human Ro ribonu	99.9
cd07323	75	LAM LA motif RNA-binding domain. This domain is fo	99.9
cd08029	76	LA_like_fungal La-motif domain of fungal proteins	99.89
cd08030	90	LA_like_plant La-motif domain of plant proteins si	99.88
KOG2590	448	consensus RNA-binding protein LARP/SRO9 and relate	99.73
KOG1855	484	consensus Predicted RNA-binding protein [General f	99.73
KOG2591	684	consensus c-Mpl binding protein, contains La domai	99.66
KOG4213	205	consensus RNA-binding protein La [RNA processing a	99.5
COG5193	438	LHP1 La protein, small RNA-binding pol III transcr	99.17
COG5193	438	LHP1 La protein, small RNA-binding pol III transcr	98.42
KOG2590	448	consensus RNA-binding protein LARP/SRO9 and relate	90.75
KOG2278	207	consensus RNA:NAD 2'-phosphotransferase TPT1 [Tran	85.09

>cd08036 LARP_5 La RNA-binding domain of La-related protein 5

Probab=99.94  E-value=1.3e-27  Score=195.30  Aligned_cols=62  Identities=23%  Similarity=0.371  Sum_probs=60.1

Q ss_pred             HHHHHhhhhhhcCCCCcCcchHHHhhhCCCCcEehhhhccchhhhhccCCHHHHHHHhhcCC
Q 013093          388 AAMLIHQIDYYFSDANLVKDEFLKSNMDDQGWVPITLIASFPRVSFYSQISYFLITCSQFSL  449 (449)
Q Consensus       388 ~~~I~kQIEYYFSDeNL~kD~FLr~~Md~dG~VPI~lIasFnRVK~LT~d~~~IleALr~St  449 (449)
                      ++.|++||||||||+||++|.||+++||+||||||++||+|||||+||+|+++|++|||.|+
T Consensus         1 ~e~i~kQvEyYFS~~NL~~D~fLr~~md~~g~Vpi~~ia~F~rik~Lt~D~~lI~~aL~~S~   62 (75)
T cd08036           1 RELLKKTLEFCLSRENLASDMYLISQMDSDQYVPIMTVANLDHIKKLSTDVDLIVDVLRSLP   62 (75)
T ss_pred             ChhhhcceeeeechhhccccHHHHHHhccCCCEehHHHhccHHHHHhcCCHHHHHHHHhhCC
Confidence            36899999999999999999999999999999999999999999999999999999999985

This domain is found in vertebrate La-related protein 5 (LARP5). A variety of La-related proteins (LARPs or La ribonucleoproteins), with differing domain architecture, appear to function as RNA-binding proteins in eukaryotic cellular processes.

>cd08035 LARP_4 La RNA-binding domain of La-related protein 4

Probab=99.93  E-value=2.5e-27  Score=193.69  Aligned_cols=62  Identities=27%  Similarity=0.387  Sum_probs=60.2

Q ss_pred             HHHHHhhhhhhcCCCCcCcchHHHhhhCCCCcEehhhhccchhhhhccCCHHHHHHHhhcCC
Q 013093          388 AAMLIHQIDYYFSDANLVKDEFLKSNMDDQGWVPITLIASFPRVSFYSQISYFLITCSQFSL  449 (449)
Q Consensus       388 ~~~I~kQIEYYFSDeNL~kD~FLr~~Md~dG~VPI~lIasFnRVK~LT~d~~~IleALr~St  449 (449)
                      +++|++||||||||+||++|.||+++||.||||||++|++|||||+||.|+++|++||+.|+
T Consensus         1 ~e~i~~QvEyYFSd~NL~~D~fL~~~md~~G~Vpi~~iasF~rik~lt~d~~~I~~AL~~S~   62 (75)
T cd08035           1 RECLKKQLEFCFSRENLSKDLYLISQMDSDQFVPIWTVANMEGIKKLTTDMDLILDVLRSSP   62 (75)
T ss_pred             ChHHHhhHHhhcCHhhcccCHHHHHhhCcCCCEehHHHhccHHHHHhcCCHHHHHHHHHcCC
Confidence            37899999999999999999999999999999999999999999999999999999999985

This domain is found in vertebrate La-related protein 4 (LARP4), also known as c-MPL binding protein. La-type domains often co-occur with RNA-recognition motifs (RRMs). A variety of La-related proteins (LARPs or La ribonucleoproteins), with differing domain architecture, appear to function as RNA-binding proteins in eukaryotic cellular processes.

>cd08038 LARP_2 La RNA-binding domain of La-related protein 2

Probab=99.93  E-value=1.5e-26  Score=188.33  Aligned_cols=61  Identities=39%  Similarity=0.608  Sum_probs=59.8

Q ss_pred             HHHHhhhhhhcCCCCcCcchHHHhhhCCCCcEehhhhccchhhhhccCCHHHHHHHhhcCC
Q 013093          389 AMLIHQIDYYFSDANLVKDEFLKSNMDDQGWVPITLIASFPRVSFYSQISYFLITCSQFSL  449 (449)
Q Consensus       389 ~~I~kQIEYYFSDeNL~kD~FLr~~Md~dG~VPI~lIasFnRVK~LT~d~~~IleALr~St  449 (449)
                      ++|++||||||||+||++|.||+++|+.||||||++|++|||||+|+.|+++|++||+.|+
T Consensus         2 e~I~~QvEfYFSd~NL~~D~fLr~~m~~~G~Vpl~~ia~F~rmk~lt~d~~~I~~Al~~S~   62 (73)
T cd08038           2 EYIKRQIEYYFSTENLERDFFLRRKMDLQGFLPISLIAGFYRVQALTTNVDLILEALKDST   62 (73)
T ss_pred             hHHHhhHHhhcchhhhccCHHHHHHhCCCCCEeHHHHhcchHHHHhcCCHHHHHHHHHcCC
Confidence            7899999999999999999999999999999999999999999999999999999999985

This domain is found in vertebrate La-related protein 2 (LARP2). A variety of La-related proteins (LARPs or La ribonucleoproteins), with differing domain architecture, appear to function as RNA-binding proteins in eukaryotic cellular processes.

>cd08037 LARP_1 La RNA-binding domain of La-related protein 1

Probab=99.93  E-value=1.6e-26  Score=188.15  Aligned_cols=61  Identities=41%  Similarity=0.635  Sum_probs=59.8

Q ss_pred             HHHHhhhhhhcCCCCcCcchHHHhhhCCCCcEehhhhccchhhhhccCCHHHHHHHhhcCC
Q 013093          389 AMLIHQIDYYFSDANLVKDEFLKSNMDDQGWVPITLIASFPRVSFYSQISYFLITCSQFSL  449 (449)
Q Consensus       389 ~~I~kQIEYYFSDeNL~kD~FLr~~Md~dG~VPI~lIasFnRVK~LT~d~~~IleALr~St  449 (449)
                      ++|++||||||||+||++|.||+++|+.||||||++|++|||||+||.|+++|++||+.|+
T Consensus         2 ~~I~~QvEyYFSd~NL~~D~fLr~~md~dG~Vpi~~ia~F~rmk~Lt~d~~~I~~Al~~S~   62 (73)
T cd08037           2 DYIKRQIEYYFSVDNLERDFFLRRKMDEDGFLPVTLIASFHRVQALTTDISLIIKALKDSK   62 (73)
T ss_pred             hHHHHHHHHhccHhhhccCHHHHHHhccCCCEeHHHHhcchHHHHhcCCHHHHHHHHHcCC
Confidence            6899999999999999999999999999999999999999999999999999999999995

This domain is found in vertebrate La-related protein 1 (LARP1). A variety of La-related proteins (LARPs or La ribonucleoproteins), with differing domain architecture, appear to function as RNA-binding proteins in eukaryotic cellular processes.

>cd08034 LARP_1_2 La RNA-binding domain proteins similar to La-related proteins 1 and 2

Probab=99.92  E-value=5e-26  Score=185.08  Aligned_cols=62  Identities=40%  Similarity=0.614  Sum_probs=60.1

Q ss_pred             HHHHHhhhhhhcCCCCcCcchHHHhhhCCCCcEehhhhccchhhhhccCCHHHHHHHhhcCC
Q 013093          388 AAMLIHQIDYYFSDANLVKDEFLKSNMDDQGWVPITLIASFPRVSFYSQISYFLITCSQFSL  449 (449)
Q Consensus       388 ~~~I~kQIEYYFSDeNL~kD~FLr~~Md~dG~VPI~lIasFnRVK~LT~d~~~IleALr~St  449 (449)
                      +++|++||||||||+||++|.||+++|+.||||||++|++|+|||+|+.|+++|++||+.|+
T Consensus         1 ~~~i~~QvEfYFSd~NL~~D~fLr~~m~~~G~Vpl~~i~~F~rmk~l~~d~~~i~~Al~~S~   62 (73)
T cd08034           1 KEYIKKQIEYYFSVDNLEKDFFLRRKMDPEGYLPIALIASFHRVQALTTDVNLILEALKDST   62 (73)
T ss_pred             ChHHHhhHHhhcCHhhhccCHHHHHHcCCCCCEeHHHHhccHHHHHHcCCHHHHHHHHHcCC
Confidence            36899999999999999999999999999999999999999999999999999999999985

This domain is found in proteins similar to vertebrate La-related proteins 1 and 2 (LARP1, LARP2). A variety of La-related proteins (LARPs or La ribonucleoproteins), with differing domain architecture, appear to function as RNA-binding proteins in eukaryotic cellular processes.

>cd08032 LARP_7 La RNA-binding domain of La-related protein 7

Probab=99.92  E-value=1.1e-25  Score=186.80  Aligned_cols=65  Identities=28%  Similarity=0.526  Sum_probs=62.6

Q ss_pred             HHHHHHHHhhhhhhcCCCCcCcchHHHhhhC--CCCcEehhhhccchhhhhccCCHHHHHHHhhcCC
Q 013093          385 PSLAAMLIHQIDYYFSDANLVKDEFLKSNMD--DQGWVPITLIASFPRVSFYSQISYFLITCSQFSL  449 (449)
Q Consensus       385 ~~L~~~I~kQIEYYFSDeNL~kD~FLr~~Md--~dG~VPI~lIasFnRVK~LT~d~~~IleALr~St  449 (449)
                      ++|+++|++||||||||+||++|.||+++|+  .||||||++|++|||||+||.|+++|++||+.|+
T Consensus         3 ~~l~~~I~~QvEfYFSd~NL~~D~fL~~~~~~~~dG~Vpl~~i~~F~rmk~lt~d~~~i~~Al~~S~   69 (82)
T cd08032           3 KQLLADIAKQVDFWFGDVNLHKDRFLREQIEKSRDGYIDISLLVSFNKMKKLTTDGKLIARALKNSS   69 (82)
T ss_pred             HHHHHHHHHHHHhhcchhhcccCHHHHHHhcCCCCCCEeHHHHhcchHHHHHcCCHHHHHHHHhcCC
Confidence            5789999999999999999999999999996  7999999999999999999999999999999985

LARP7 is a component of the 7SK snRNP, a key factor in the regulation of RNA polymerase II transcription. 7SK functionality is dependent on the presence of LARP7, which is thought to stabilize the 7SK RNA by interacting with its 3' end. The release of 7SK RNA from P-TEFb/HEXIM/7SK complexes activates the cyclin-dependent kinase P-TEFb, which in turn phosphorylates the C-terminal domain of RNA pol II and mediates a transition into productive transcription elongation.

>cd08031 LARP_4_5_like La RNA-binding domain of proteins similar to La-related proteins 4 and 5

Probab=99.92  E-value=7.8e-26  Score=184.69  Aligned_cols=61  Identities=33%  Similarity=0.535  Sum_probs=59.6

Q ss_pred             HHHHhhhhhhcCCCCcCcchHHHhhhCCCCcEehhhhccchhhhhccCCHHHHHHHhhcCC
Q 013093          389 AMLIHQIDYYFSDANLVKDEFLKSNMDDQGWVPITLIASFPRVSFYSQISYFLITCSQFSL  449 (449)
Q Consensus       389 ~~I~kQIEYYFSDeNL~kD~FLr~~Md~dG~VPI~lIasFnRVK~LT~d~~~IleALr~St  449 (449)
                      ++|++||||||||+||++|.||+++|+.||||+|++|++|||||+||.|+++|++||+.|+
T Consensus         2 ~~i~~QvEfYFSd~NL~~D~fL~~~m~~dG~Vpl~~i~~F~rmk~lt~d~~~i~~Al~~S~   62 (75)
T cd08031           2 ELLKRQLEYYFSRENLANDAYLLSQMDSDQYVPIWTIANFNKIKKLTTDIDLIVEALRESP   62 (75)
T ss_pred             hHHHHHHHHHcCHhhhccCHHHHHHhCCCCCEEHHHHhCchhHHHHcCCHHHHHHHHHhCC
Confidence            6899999999999999999999999999999999999999999999999999999999985

This domain is found in proteins similar to La-related proteins 4 and 5 (LARP4, LARP5). A variety of La-related proteins (LARPs or La ribonucleoproteins), with differing domain architecture, appear to function as RNA-binding proteins in eukaryotic cellular processes.

>cd08028 LARP_3 La RNA-binding domain of La-related protein 3

Probab=99.91  E-value=2.9e-25  Score=184.03  Aligned_cols=65  Identities=35%  Similarity=0.641  Sum_probs=62.3

Q ss_pred             HHHHHHHHhhhhhhcCCCCcCcchHHHhhhC-CCCcEehhhhccchhhhhccCCHHHHHHHhhcCC
Q 013093          385 PSLAAMLIHQIDYYFSDANLVKDEFLKSNMD-DQGWVPITLIASFPRVSFYSQISYFLITCSQFSL  449 (449)
Q Consensus       385 ~~L~~~I~kQIEYYFSDeNL~kD~FLr~~Md-~dG~VPI~lIasFnRVK~LT~d~~~IleALr~St  449 (449)
                      ++|.++|++||||||||+||++|+||+++|+ +||||||++|++|||||+|+.|.++|++||+.|+
T Consensus         2 ~~l~~~I~~QvEfYFSd~NL~~D~fLr~~m~~~~G~Vpl~~i~~F~rmk~l~~d~~~i~~Al~~S~   67 (82)
T cd08028           2 DDLEKKIIRQIEYYFGDFNLPRDKFLKEQIKEDDGWVPMEVMLKFNRLKSLSSDPEVIAKALKKSK   67 (82)
T ss_pred             hHHHHHHHHHHHhhcCHhhhccCHHHHHHHhccCCCEEhHHHhCChhHHHhcCCHHHHHHHHHhCC
Confidence            4689999999999999999999999999997 5999999999999999999999999999999985

This domain is found at the N-terminus of the La autoantigen and similar proteins, and co-occurs with an RNA-recognition motif (RRM). Together these domains function to bind primary transcripts of RNA polymerase III at their 3' terminus and protect them from exonucleolytic degradation. Binding is specific for the 3'-terminal UUU-OH motif. The La autoantigen is also called Lupus La protein, LARP3, or Sjoegren syndrome type B antigen (SS-B).

>cd08033 LARP_6 La RNA-binding domain of La-related protein 6

Probab=99.91  E-value=2.7e-25  Score=182.30  Aligned_cols=61  Identities=38%  Similarity=0.644  Sum_probs=59.1

Q ss_pred             HHHHhhhhhhcCCCCcCcchHHHhhh--CCCCcEehhhhccchhhhhccCCHHHHHHHhhcCC
Q 013093          389 AMLIHQIDYYFSDANLVKDEFLKSNM--DDQGWVPITLIASFPRVSFYSQISYFLITCSQFSL  449 (449)
Q Consensus       389 ~~I~kQIEYYFSDeNL~kD~FLr~~M--d~dG~VPI~lIasFnRVK~LT~d~~~IleALr~St  449 (449)
                      ++|++||||||||+||++|.||+++|  +.||||||++|++|||||+|+.|+++|++||+.|+
T Consensus         2 ~~i~~QvEfYFSd~NL~~D~fL~~~~~~~~dG~Vpl~~i~~F~rmk~l~~d~~~I~~Al~~S~   64 (77)
T cd08033           2 QKIVKQVEYYFSDENLLKDAFLLKHVRRNKEGYVPIKLIASFKKVKALTRDWRVVAAALRRSS   64 (77)
T ss_pred             hHHHhHHHhhcCHhhhccCHHHHHHhccCCCCcEehHHHhcchHHHHHcCCHHHHHHHHHhCC
Confidence            68999999999999999999999999  78999999999999999999999999999999985

This domain is found in animal and plant proteins related to the La autoantigen. A variety of La-related proteins (LARPs or La ribonucleoproteins), with differing domain architecture, appear to function as RNA-binding proteins in eukaryotic cellular processes.

>smart00715 LA Domain in the RNA-binding Lupus La protein; unknown function

Probab=99.91  E-value=4.3e-25  Score=181.93  Aligned_cols=65  Identities=38%  Similarity=0.652  Sum_probs=62.3

Q ss_pred             HHHHHHHHhhhhhhcCCCCcCcchHHHhhhCC-CCcEehhhhccchhhhhccCCHHHHHHHhhcCC
Q 013093          385 PSLAAMLIHQIDYYFSDANLVKDEFLKSNMDD-QGWVPITLIASFPRVSFYSQISYFLITCSQFSL  449 (449)
Q Consensus       385 ~~L~~~I~kQIEYYFSDeNL~kD~FLr~~Md~-dG~VPI~lIasFnRVK~LT~d~~~IleALr~St  449 (449)
                      +++.++|++||||||||+||++|.||+++|+. ||||||++|++|+|||+|+.|+++|++||+.|.
T Consensus         1 ~~~~~~i~~QvEfYFSd~NL~~D~fLr~~~~~~~g~Vpl~~i~~F~r~k~l~~d~~~i~~Al~~S~   66 (80)
T smart00715        1 EELKQKIKKQVEYYFSDENLPRDKFLRKKMDKNDGYVPISTIASFKRVKSLTTDVNLIVEALRSSP   66 (80)
T ss_pred             ChHHHHHHHHHHHHcCHhhhhhCHHHHHHhccCCCCEEhHHHhCchhHHHHcCCHHHHHHHHHhCC
Confidence            36889999999999999999999999999987 999999999999999999999999999999984

>PF05383 La: La domain; InterPro: IPR006630 Human Ro ribonucleoproteins (RNPs) are composed of one of the four small Y RNAs and at least two proteins, Ro60 and La

Probab=99.90  E-value=6.2e-25  Score=172.57  Aligned_cols=58  Identities=40%  Similarity=0.736  Sum_probs=53.6

Q ss_pred             HHhhhhhhcCCCCcCcchHHHhhhCC--CCcEehhhhccchhhhhcc-CCHHHHHHHhhcC
Q 013093          391 LIHQIDYYFSDANLVKDEFLKSNMDD--QGWVPITLIASFPRVSFYS-QISYFLITCSQFS  448 (449)
Q Consensus       391 I~kQIEYYFSDeNL~kD~FLr~~Md~--dG~VPI~lIasFnRVK~LT-~d~~~IleALr~S  448 (449)
                      |++||||||||+||++|+||+++|+.  ||||||++|++|+|||+|+ .|+++|++|||+|
T Consensus         1 I~~QvEfYFSd~NL~~D~fL~~~~~~~~~g~Vpi~~i~~F~r~k~l~~~~~~~I~~al~~S   61 (61)
T PF05383_consen    1 IKKQVEFYFSDENLPRDKFLRSQMDSNPDGWVPISTILSFNRMKALTNTDIELIVDALRDS   61 (61)
T ss_dssp             HHHHHHHHTSHHHHCC-HHHHHHHCTTTTTBEEHHHHTTSHHHHHH--S-HHHHHHHHHTS
T ss_pred             ChhHHHHhcCHHHhCcCHHHHHHHHhcCCCcEeHHHHHchHHHHHHhcCCHHHHHHHHHcC
Confidence            79999999999999999999999986  9999999999999999999 9999999999988

The La protein is a 47 kDa polypeptide that frequently acts as an autoantigen in systemic lupus erythematosus and Sjogren's syndrome []. In the nucleus, La acts as a RNA polymerase III (RNAP III) transcription factor, while in the cytoplasm, La acts as a translation factor []. In the nucleus, La binds to the 3'UTR of nascent RNAP III transcripts to assist in folding and maturation []. In the cytoplasm, La recognises specific classes of mRNAs that contain a 5'-terminal oligopyrimidine (5'TOP) motif known to control protein synthesis []. The specific recognition is mediated by the N-terminal domain of La, which comprises a La motif and a RNA recognition motif (RRM). The La motif adopts an alpha/beta fold that comprises a winged-helix motif []. Homologous La domain-containing proteins have been identified in a wide range of organisms except Archaea, bacteria and viruses [].; PDB: 1S29_A 1YTY_B 2VOO_B 1S7A_A 2VOP_A 2VON_B 1ZH5_B 2VOD_A 2CQK_A.

>cd07323 LAM LA motif RNA-binding domain

Probab=99.90  E-value=2.3e-24  Score=175.34  Aligned_cols=61  Identities=44%  Similarity=0.749  Sum_probs=59.4

Q ss_pred             HHHHhhhhhhcCCCCcCcchHHHhhhCCCCcEehhhhccchhhhhccCCHHHHHHHhhcCC
Q 013093          389 AMLIHQIDYYFSDANLVKDEFLKSNMDDQGWVPITLIASFPRVSFYSQISYFLITCSQFSL  449 (449)
Q Consensus       389 ~~I~kQIEYYFSDeNL~kD~FLr~~Md~dG~VPI~lIasFnRVK~LT~d~~~IleALr~St  449 (449)
                      ++|++||||||||+||++|.||+++|++||||||++|++|+|||+|+.|.++|++||+.|.
T Consensus         2 ~~i~~QvEfYFSd~NL~~D~fL~~~~~~~g~Vpl~~i~~F~r~k~l~~~~~~i~~Al~~s~   62 (75)
T cd07323           2 EKIKKQVEYYFSDENLCKDRFLRSLMDDDGWVPLSLLASFNRVKKLTTDVELILEALRDSS   62 (75)
T ss_pred             hHHHhhhHhccCHhhhCcCHHHHHhcCCCCCEEHHHHhCchHHHHHcCCHHHHHHHHHhCC
Confidence            6899999999999999999999999999999999999999999999999999999999984

This domain is found at the N-terminus of La RNA-binding proteins as well as in other related proteins. Typically, the domain co-occurs with an RNA-recognition motif (RRM), and together these domains function to bind primary transcripts of RNA polymerase III in the La autoantigen (Lupus La protein, LARP3, or Sjoegren syndrome type B antigen, SS-B). A variety of La-related proteins (LARPs or La ribonucleoproteins), with differing domain architecture, appear to function as RNA-binding proteins in eukaryotic cellular processes.

>cd08029 LA_like_fungal La-motif domain of fungal proteins similar to the La autoantigen

Probab=99.89  E-value=3.9e-24  Score=175.01  Aligned_cols=60  Identities=35%  Similarity=0.622  Sum_probs=57.2

Q ss_pred             HHHHhhhhhhcCCCCcCcchHHHhhh--CCCCcEehhhhccchhhhhccCCHHHHHHHhhcCC
Q 013093          389 AMLIHQIDYYFSDANLVKDEFLKSNM--DDQGWVPITLIASFPRVSFYSQISYFLITCSQFSL  449 (449)
Q Consensus       389 ~~I~kQIEYYFSDeNL~kD~FLr~~M--d~dG~VPI~lIasFnRVK~LT~d~~~IleALr~St  449 (449)
                      ++|++||||||||+||++|.||+++|  +.||||||++|++|+|||+|+.+ ++|++||+.|.
T Consensus         2 ~~I~~QvEfYFSd~NL~~D~fLr~~~~~~~~G~Vpl~~i~~F~rmk~l~~~-~~i~~Al~~S~   63 (76)
T cd08029           2 EEIRKQVEFYFSDSNLPTDKFLWTLTGGSNNGWVPIKTIASFKRMRRFQPL-EAVVEALRESE   63 (76)
T ss_pred             hHHHhhHHhhcCHhhhccCHHHHHHhccCCCCcEehHHHhCchHHHHcCCH-HHHHHHHHhCC
Confidence            58999999999999999999999999  69999999999999999999966 99999999984

This domain is found in fungal proteins related to the La autoantigen. A variety of La-related proteins (LARPs or La ribonucleoproteins), with differing domain architecture, appear to function as RNA-binding proteins in eukaryotic cellular processes.

>cd08030 LA_like_plant La-motif domain of plant proteins similar to the La autoantigen

Probab=99.88  E-value=1.1e-23  Score=177.55  Aligned_cols=62  Identities=31%  Similarity=0.516  Sum_probs=58.5

Q ss_pred             HHHHHhhhhhhcCCCCcCcchHHHhhh--CCCCcEehhhhccchhhhhccC------------CHHHHHHHhhcCC
Q 013093          388 AAMLIHQIDYYFSDANLVKDEFLKSNM--DDQGWVPITLIASFPRVSFYSQ------------ISYFLITCSQFSL  449 (449)
Q Consensus       388 ~~~I~kQIEYYFSDeNL~kD~FLr~~M--d~dG~VPI~lIasFnRVK~LT~------------d~~~IleALr~St  449 (449)
                      +++|++||||||||+||++|+||+++|  +.||||+|++|++|||||+|+.            |+++|++||+.|+
T Consensus         2 ~~~i~~QvEfYFSd~NL~~D~fL~~~~~~~~dG~V~i~~i~~F~rmk~l~~~~~~~~~~~~~~~~~~I~~ALk~S~   77 (90)
T cd08030           2 KEKVLRQVEFYFSDSNLPRDDFLLEEVEEDPDGMVSLALICSFSRMRSLLGLGGGKPEDVPEDTLKAVAEALRTST   77 (90)
T ss_pred             hHHHHHHHHcccchhhcccCHHHHHHhccCCCCCEehHHHhcChHHHHHhhcccccccccchhHHHHHHHHHccCC
Confidence            689999999999999999999999999  7899999999999999999985            3789999999985

This domain is found in plant proteins related to the La autoantigen. A variety of La-related proteins (LARPs or La ribonucleoproteins), with differing domain architecture, appear to function as RNA-binding proteins in eukaryotic cellular processes.

>KOG2590 consensus RNA-binding protein LARP/SRO9 and related La domain proteins [Posttranslational modification, protein turnover, chaperones; Translation, ribosomal structure and biogenesis]

Probab=99.73  E-value=3.8e-16  Score=162.50  Aligned_cols=57  Identities=33%  Similarity=0.578  Sum_probs=52.8

Q ss_pred             HHHHHhhhhhhcCCCCcCcchHHHhhhCCCCcEehhhhccchhhhhccCCHHHHHHHhhcCC
Q 013093          388 AAMLIHQIDYYFSDANLVKDEFLKSNMDDQGWVPITLIASFPRVSFYSQISYFLITCSQFSL  449 (449)
Q Consensus       388 ~~~I~kQIEYYFSDeNL~kD~FLr~~Md~dG~VPI~lIasFnRVK~LT~d~~~IleALr~St  449 (449)
                      .+.|.+|||||||.|||++|.||+++|     |+|.||++|+||+.|+.|+++|++|||+|.
T Consensus       301 ~~~~~~~ie~~FSeE~~~~d~~n~~k~-----~~l~~ia~F~r~ad~s~d~nli~~alr~s~  357 (448)
T KOG2590|consen  301 IAFIQEPIEFYFSEENLQRDRFNREKF-----VPLRVIAKFKRVADLSSDINLILAALRNSL  357 (448)
T ss_pred             ccccccccccccchHHHhhhhhhhccc-----chhhhhhhhhhhhhcccCHHHHHHHHhhhh
Confidence            368899999999999999999999876     669999999999999999999999999873

>KOG1855 consensus Predicted RNA-binding protein [General function prediction only]

Probab=99.73  E-value=1.3e-18  Score=178.61  Aligned_cols=66  Identities=36%  Similarity=0.637  Sum_probs=63.0

Q ss_pred             cHHHHHHHHhhhhhhcCCCCcCcchHHHhhh--CCCCcEehhhhccchhhhhccCCHHHHHHHhhcCC
Q 013093          384 EPSLAAMLIHQIDYYFSDANLVKDEFLKSNM--DDQGWVPITLIASFPRVSFYSQISYFLITCSQFSL  449 (449)
Q Consensus       384 e~~L~~~I~kQIEYYFSDeNL~kD~FLr~~M--d~dG~VPI~lIasFnRVK~LT~d~~~IleALr~St  449 (449)
                      -++|..+|++||||||||+||.+|.||.++|  +.+|||+|++|++|||||+||.|+.+|.+|||+|.
T Consensus       137 sedl~~kIv~QVEyyFSDenL~~d~fLlkhvrrnkeGyVpv~~vaSFKKvK~LTrd~~~va~ALr~S~  204 (484)
T KOG1855|consen  137 SEDLAAKIVDQVEYYFSDENLLKDAFLLKHVRRNKEGYVPVKLVASFKKVKALTRDWKLVADALRKSS  204 (484)
T ss_pred             cHHHHHHHHHHhheeeccccccchHHHHHHHhcCCCCceeeehhhhHHHHHHHhhhhHHHHHHHhhcc
Confidence            3588999999999999999999999999999  68999999999999999999999999999999883

>KOG2591 consensus c-Mpl binding protein, contains La domain [Signal transduction mechanisms]

Probab=99.66  E-value=4.9e-17  Score=171.16  Aligned_cols=65  Identities=32%  Similarity=0.552  Sum_probs=63.5

Q ss_pred             HHHHHHHHhhhhhhcCCCCcCcchHHHhhhCCCCcEehhhhccchhhhhccCCHHHHHHHhhcCC
Q 013093          385 PSLAAMLIHQIDYYFSDANLVKDEFLKSNMDDQGWVPITLIASFPRVSFYSQISYFLITCSQFSL  449 (449)
Q Consensus       385 ~~L~~~I~kQIEYYFSDeNL~kD~FLr~~Md~dG~VPI~lIasFnRVK~LT~d~~~IleALr~St  449 (449)
                      .+|++.|++|||||||.|||..|.||+.+||+|.||||.+||+|++|++||+|+++|+|+||+|+
T Consensus        94 ~~~kq~lk~qlEy~fSreNlssD~YL~sQMDSDqyVPI~tva~~~~i~klttDvdLI~Evlresp  158 (684)
T KOG2591|consen   94 RDLKQLLKKQLEYYFSRENLSSDRYLISQMDSDQYVPINTVANFPEIMKLTTDVDLIVEVLRESP  158 (684)
T ss_pred             hhHHHHHHHHHHHhhccccccchhhhhhhcccccccchhhhccchhhhhhccchHHHHHHHhcCC
Confidence            39999999999999999999999999999999999999999999999999999999999999985

>KOG4213 consensus RNA-binding protein La [RNA processing and modification]

Probab=99.50  E-value=1.2e-14  Score=136.40  Aligned_cols=65  Identities=35%  Similarity=0.683  Sum_probs=61.4

Q ss_pred             HHHHHHHHhhhhhhcCCCCcCcchHHHhhh--CCCCcEehhhhccchhhhhccCCHHHHHHHhhcCC
Q 013093          385 PSLAAMLIHQIDYYFSDANLVKDEFLKSNM--DDQGWVPITLIASFPRVSFYSQISYFLITCSQFSL  449 (449)
Q Consensus       385 ~~L~~~I~kQIEYYFSDeNL~kD~FLr~~M--d~dG~VPI~lIasFnRVK~LT~d~~~IleALr~St  449 (449)
                      +.|.++|.+||||||.|-||.||.||+++|  ..+|||||.+++.|+|+..|++|++.|++||+.|.
T Consensus        11 a~lE~kii~qleyy~Gd~nl~rdkfl~eqi~k~~~gwvpi~i~i~FnRla~lttD~~~Iv~al~ksk   77 (205)
T KOG4213|consen   11 AALEAKIIHQLEYYFGDLNLPRDKFLREQIHKLDDGWVPIEIMIKFNRLASLTTDFNVIVEALSKSK   77 (205)
T ss_pred             hHHHHhhhhhhhhhhcccCchHHHHHHHHhhhhccCCccchhhhhhhhhhhccccHHHHHHHHhhCH
Confidence            467789999999999999999999999999  38999999999999999999999999999999883

>COG5193 LHP1 La protein, small RNA-binding pol III transcript stabilizing protein and related La-motif-containing proteins involved in translation [Posttranslational modification, protein turnover, chaperones / Translation, ribosomal structure and biogenesis]

Probab=99.17  E-value=6.4e-12  Score=129.16  Aligned_cols=60  Identities=28%  Similarity=0.555  Sum_probs=57.1

Q ss_pred             HHHHhhhhhhcCCCCcCcchHHHhhhCCCCcEehhhhccchhhhhccCCHHHHHHHhhcC
Q 013093          389 AMLIHQIDYYFSDANLVKDEFLKSNMDDQGWVPITLIASFPRVSFYSQISYFLITCSQFS  448 (449)
Q Consensus       389 ~~I~kQIEYYFSDeNL~kD~FLr~~Md~dG~VPI~lIasFnRVK~LT~d~~~IleALr~S  448 (449)
                      ..|++|||||||.+||+.|.|||++|+++||||+.+|..|.|++.+..|.++|+.|||.+
T Consensus       272 ~a~k~QiEyYFseenl~~d~~lrkk~~kaGf~plsfi~kf~Rn~Sf~gd~nLilaa~ke~  331 (438)
T COG5193         272 MAKKEQIEYYFSEENLKSDEFLRKKFKKAGFIPLSFIGKFYRNLSFGGDKNLILAAMKEV  331 (438)
T ss_pred             hhHHhhhHhhhhHHhhhhhhHHHhhhhhcccccHhhhhhhhhccccCCchhhhHHHHHHH
Confidence            567779999999999999999999999999999999999999999999999999999875

>COG5193 LHP1 La protein, small RNA-binding pol III transcript stabilizing protein and related La-motif-containing proteins involved in translation [Posttranslational modification, protein turnover, chaperones / Translation, ribosomal structure and biogenesis]

Probab=98.42  E-value=5.6e-08  Score=100.65  Aligned_cols=58  Identities=34%  Similarity=0.574  Sum_probs=55.3

Q ss_pred             HHhhhhhhcC-----CCCcCcchHHHhhhC----CCCcEehhhhccchhhhhccCCHHHHHHHhhcC
Q 013093          391 LIHQIDYYFS-----DANLVKDEFLKSNMD----DQGWVPITLIASFPRVSFYSQISYFLITCSQFS  448 (449)
Q Consensus       391 I~kQIEYYFS-----DeNL~kD~FLr~~Md----~dG~VPI~lIasFnRVK~LT~d~~~IleALr~S  448 (449)
                      +..|+|||||     |.|+.+|+||+..-.    .+|||+|.+|++|+|||.++..++.|..||++|
T Consensus        75 ~l~qvE~~fS~s~~~d~n~~~dk~~ktta~Kn~~~~kwVpIkt~~tfn~~k~~gs~~~~v~~a~rks  141 (438)
T COG5193          75 TLKQVEFYFSGSKDTDSNFPKDKFLKTTAPKNKKRDKWVPIKTIATFNRMKNSGSPVSAVSGALRKS  141 (438)
T ss_pred             cccceeEEeeccccccccccchhhhccccccccCCCCceeeeeeeeeccccccCCchhhhhhhhhcC
Confidence            9999999999     999999999999873    599999999999999999999999999999988

>KOG2590 consensus RNA-binding protein LARP/SRO9 and related La domain proteins [Posttranslational modification, protein turnover, chaperones; Translation, ribosomal structure and biogenesis]

Probab=90.75  E-value=0.045  Score=58.53  Aligned_cols=71  Identities=24%  Similarity=0.190  Sum_probs=62.4

Q ss_pred             CCCCCCcHHHHHHHHh--hhhhhcCCCCcCcchHHHhhhCCCC---cEehhhhccchhhhhccCCHHHHHHHhhcC
Q 013093          378 VLMPVPEPSLAAMLIH--QIDYYFSDANLVKDEFLKSNMDDQG---WVPITLIASFPRVSFYSQISYFLITCSQFS  448 (449)
Q Consensus       378 ~~~P~~e~~L~~~I~k--QIEYYFSDeNL~kD~FLr~~Md~dG---~VPI~lIasFnRVK~LT~d~~~IleALr~S  448 (449)
                      ..++.+...|.+.+..  +++|||+..++.+|.|++..++..|   +.+|+.+..|.++..++++...+..+++.|
T Consensus        88 ~~~~~ps~~l~e~~~~~k~~s~~~~~~~~~~~~~~~~k~~~t~~~~~~~~S~~~~s~~~~~~s~n~~~~~~~~~~s  163 (448)
T KOG2590|consen   88 QVISVPSPPLKEYSKSDKKKSWPASKPFTPRDSFKGSKPTNTGNGTFLPISKISSSGPVSGGSANNSNIRGPLKGS  163 (448)
T ss_pred             cccccccccccccccccccccCcccCCCCccccccCCCccccCCCccCCCccccccccccCcccccccccCcCCCC
Confidence            4555666677777766  9999999999999999999999888   999999999999999999999988887764

>KOG2278 consensus RNA:NAD 2'-phosphotransferase TPT1 [Translation, ribosomal structure and biogenesis]

Probab=85.09  E-value=0.72  Score=44.62  Aligned_cols=38  Identities=16%  Similarity=0.171  Sum_probs=33.1

Q ss_pred             HHHhhhCCCCcEehhhhccchhhhhccCCHHHHHHHhh
Q 013093          409 FLKSNMDDQGWVPITLIASFPRVSFYSQISYFLITCSQ  446 (449)
Q Consensus       409 FLr~~Md~dG~VPI~lIasFnRVK~LT~d~~~IleALr  446 (449)
                      -++=+|+.||||+|+.|++.|+.|...-.+++|.++++
T Consensus        24 ~~~L~m~~dGfvpv~~lL~lnq~r~~~~t~ddi~riVk   61 (207)
T KOG2278|consen   24 ELRLNMRGDGFVPVEDLLNLNQFRGANHTIDDIRRIVK   61 (207)
T ss_pred             HhcccccCCCceEHHHHhccchhcccCCcHHHHHHHHh
Confidence            35667899999999999999999998877888888775

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	449
2vod_A	193	Crystal Structure Of N-Terminal Domains Of Human La		3e-07
1s7a_A	103	Nmr Structure Of The La Motif Of Human La Protein L		4e-07
1zh5_A	195	Structural Basis For Recognition Of Uuuoh 3'-Termin		6e-07
1yty_A	194	Structural Basis For Recognition Of Uuuoh 3'-Termin		6e-07

>pdb|2VOD|A Chain A, Crystal Structure Of N-Terminal Domains Of Human La Protein Complexed With Rna Oligomer Auauuuu Length = 193

Iteration: 1
 Score = 53.1 bits (126), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 22/48 (45%), Positives = 34/48 (70%), Gaps = 1/48 (2%)
Query: 386 SLAAMLIHQIDYYFSDANLVKDEFLKSNMD-DQGWVPITLIASFPRVS 432
           +L A + HQI+YYF D NL +D+FLK  +  D+GWVP+ ++  F R++
Sbjct: 11  ALEAKICHQIEYYFGDFNLPRDKFLKEQIKLDEGWVPLEIMIKFNRLN 58

>pdb|1S7A|A Chain A, Nmr Structure Of The La Motif Of Human La Protein Length = 103

Iteration: 1
 Score = 52.8 bits (125), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 22/48 (45%), Positives = 34/48 (70%), Gaps = 1/48 (2%)
Query: 386 SLAAMLIHQIDYYFSDANLVKDEFLKSNMD-DQGWVPITLIASFPRVS 432
           +L A + HQI+YYF D NL +D+FLK  +  D+GWVP+ ++  F R++
Sbjct: 12  ALEAKICHQIEYYFGDFNLPRDKFLKEQIKLDEGWVPLEIMIKFNRLN 59

>pdb|1ZH5|A Chain A, Structural Basis For Recognition Of Uuuoh 3'-Terminii Of Nascent Rna Pol Iii Transcripts By La Autoantigen Length = 195

Iteration: 1
 Score = 52.4 bits (124), Expect = 6e-07,   Method: Compositional matrix adjust.
 Identities = 22/48 (45%), Positives = 33/48 (68%), Gaps = 1/48 (2%)
Query: 386 SLAAMLIHQIDYYFSDANLVKDEFLKSNMD-DQGWVPITLIASFPRVS 432
           +L A + HQI+YYF D NL +D+FLK  +  D+GWVP+ +   F R++
Sbjct: 13  ALEAKICHQIEYYFGDFNLPRDKFLKEQIKLDEGWVPLEIXIKFNRLN 60

>pdb|1YTY|A Chain A, Structural Basis For Recognition Of Uuuoh 3'-Terminii Of Nascent Rna Pol Iii Transcripts By La Autoantigen Length = 194

Iteration: 1
 Score = 52.4 bits (124), Expect = 6e-07,   Method: Compositional matrix adjust.
 Identities = 22/48 (45%), Positives = 33/48 (68%), Gaps = 1/48 (2%)
Query: 386 SLAAMLIHQIDYYFSDANLVKDEFLKSNMD-DQGWVPITLIASFPRVS 432
           +L A + HQI+YYF D NL +D+FLK  +  D+GWVP+ +   F R++
Sbjct: 12  ALEAKICHQIEYYFGDFNLPRDKFLKEQIKLDEGWVPLEIXIKFNRLN 59

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	449
2voo_A	193	Lupus LA protein; RNA-binding protein, RNA recogni	3e-17
2cqk_A	101	C-MPL binding protein; LA domain, structural genom	7e-17
1s29_A	92	LA protein; winged helix-turn-helix, autoantigen,	1e-16

>2voo_A Lupus LA protein; RNA-binding protein, RNA recognition motif, systemic lupus erythematosus, phosphoprotein, RNA maturation; 1.8A {Homo sapiens} SCOP: a.4.5.46 d.58.7.1 PDB: 2von_A 2vod_A 2vop_A 1zh5_A 1yty_A 1s7a_A Length = 193

 Score = 78.7 bits (193), Expect = 3e-17
 Identities = 23/69 (33%), Positives = 38/69 (55%), Gaps = 1/69 (1%)

Query: 381 PVPEPSLAAMLIHQIDYYFSDANLVKDEFLKSNMD-DQGWVPITLIASFPRVSFYSQISY 439
                +L A + HQI+YYF D NL +D+FLK  +  D+GWVP+ ++  F R++  +    
Sbjct: 6   NEKMAALEAKICHQIEYYFGDFNLPRDKFLKEQIKLDEGWVPLEIMIKFNRLNRLTTDFN 65

Query: 440 FLITCSQFS 448
            ++     S
Sbjct: 66  VIVEALSKS 74

>2cqk_A C-MPL binding protein; LA domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: a.4.5.46 Length = 101

 Score = 74.9 bits (184), Expect = 7e-17
 Identities = 18/68 (26%), Positives = 31/68 (45%)

Query: 381 PVPEPSLAAMLIHQIDYYFSDANLVKDEFLKSNMDDQGWVPITLIASFPRVSFYSQISYF 440
            V    L   L  Q+++ FS  NL KD +L S MD   ++PI  +A+   +   +     
Sbjct: 8   AVSTEDLKECLKKQLEFCFSRENLSKDLYLISQMDSDQFIPIWTVANMEEIKKLTTDPDL 67

Query: 441 LITCSQFS 448
           ++   + S
Sbjct: 68  ILEVLRSS 75

>1s29_A LA protein; winged helix-turn-helix, autoantigen, RNA-binding, RNA binding protein; 1.60A {Trypanosoma brucei} SCOP: a.4.5.46 Length = 92

 Score = 74.0 bits (182), Expect = 1e-16
 Identities = 17/57 (29%), Positives = 30/57 (52%), Gaps = 2/57 (3%)

Query: 382 VPEPSLAAMLIHQIDYYFSDANLVKDEFLKSNM--DDQGWVPITLIASFPRVSFYSQ 436
                    L  Q+++YFSD N+ +D FLK  M  + +G+V +  + +F RV+  + 
Sbjct: 5   PLSSENKQKLQKQVEFYFSDVNVQRDIFLKGKMAENAEGFVSLETLLTFKRVNSVTT 61

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	449
2cqk_A	101	C-MPL binding protein; LA domain, structural genom	99.93
1s29_A	92	LA protein; winged helix-turn-helix, autoantigen,	99.92
2voo_A	193	Lupus LA protein; RNA-binding protein, RNA recogni	99.83

>2cqk_A C-MPL binding protein; LA domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: a.4.5.46

Probab=99.93  E-value=5.7e-27  Score=199.56  Aligned_cols=69  Identities=26%  Similarity=0.401  Sum_probs=66.2

Q ss_pred             CCCcHHHHHHHHhhhhhhcCCCCcCcchHHHhhhCCCCcEehhhhccchhhhhccCCHHHHHHHhhcCC
Q 013093          381 PVPEPSLAAMLIHQIDYYFSDANLVKDEFLKSNMDDQGWVPITLIASFPRVSFYSQISYFLITCSQFSL  449 (449)
Q Consensus       381 P~~e~~L~~~I~kQIEYYFSDeNL~kD~FLr~~Md~dG~VPI~lIasFnRVK~LT~d~~~IleALr~St  449 (449)
                      ++.+++|+++|++||||||||+||++|+||+++|+.||||||++|++|||||+||.|+++|++||+.|+
T Consensus         8 ~~~~~~l~~~I~~QvEyYFSd~NL~~D~fL~~~md~~G~Vpl~~iasF~r~k~lt~d~~~i~~al~~S~   76 (101)
T 2cqk_A            8 AVSTEDLKECLKKQLEFCFSRENLSKDLYLISQMDSDQFIPIWTVANMEEIKKLTTDPDLILEVLRSSP   76 (101)
T ss_dssp             SCCHHHHHHHHHHHHHHHTSHHHHHHCHHHHHHSCTTSCEEHHHHHHCHHHHHHCCCHHHHHHHHHHSS
T ss_pred             CCCHHHHHHHHHHHHHhhcchhhhccCHHHHHhhhcCCCEEhHHHhCChHHHHHcCCHHHHHHHHHhCC
Confidence            356789999999999999999999999999999999999999999999999999999999999999985

>1s29_A LA protein; winged helix-turn-helix, autoantigen, RNA-binding, RNA binding protein; 1.60A {Trypanosoma brucei} SCOP: a.4.5.46

Probab=99.92  E-value=3.8e-26  Score=191.35  Aligned_cols=66  Identities=27%  Similarity=0.442  Sum_probs=63.7

Q ss_pred             cHHHHHHHHhhhhhhcCCCCcCcchHHHhhh--CCCCcEehhhhccchhhhhccCCHHHHHHHhhcCC
Q 013093          384 EPSLAAMLIHQIDYYFSDANLVKDEFLKSNM--DDQGWVPITLIASFPRVSFYSQISYFLITCSQFSL  449 (449)
Q Consensus       384 e~~L~~~I~kQIEYYFSDeNL~kD~FLr~~M--d~dG~VPI~lIasFnRVK~LT~d~~~IleALr~St  449 (449)
                      +++++++|++||||||||+||+||+||+++|  +.||||||++|++|||||+||.|+++|++||+.|+
T Consensus         7 ~~~~~~~I~~QvEyYFSd~NL~~D~fL~~~m~~~~~G~Vpl~~i~sF~r~k~lt~d~~~i~~al~~S~   74 (92)
T 1s29_A            7 SSENKQKLQKQVEFYFSDVNVQRDIFLKGKMAENAEGFVSLETLLTFKRVNSVTTDVKEVVEAIRPSE   74 (92)
T ss_dssp             CHHHHHHHHHHHHHHTSHHHHTTCHHHHHHHTTSTTCCEEHHHHTTSHHHHTTCSCHHHHHHHHTTCS
T ss_pred             CHHHHHHHHHHHHhhcchhhhccCHHHHHHhccCCCCCEEhHHHhCChhHHHHcCCHHHHHHHHhhCC
Confidence            5689999999999999999999999999999  79999999999999999999999999999999985

>2voo_A Lupus LA protein; RNA-binding protein, RNA recognition motif, systemic lupus erythematosus, phosphoprotein, RNA maturation; 1.8A {Homo sapiens} SCOP: a.4.5.46 d.58.7.1 PDB: 2von_A 2vod_A 2vop_A 1zh5_A 1yty_A 1s7a_A

Probab=99.83  E-value=3e-21  Score=175.86  Aligned_cols=65  Identities=35%  Similarity=0.679  Sum_probs=62.6

Q ss_pred             cHHHHHHHHhhhhhhcCCCCcCcchHHHhhhC-CCCcEehhhhccchhhhhccCCHHHHHHHhhcC
Q 013093          384 EPSLAAMLIHQIDYYFSDANLVKDEFLKSNMD-DQGWVPITLIASFPRVSFYSQISYFLITCSQFS  448 (449)
Q Consensus       384 e~~L~~~I~kQIEYYFSDeNL~kD~FLr~~Md-~dG~VPI~lIasFnRVK~LT~d~~~IleALr~S  448 (449)
                      .++|+++|++||||||||+||++|.||+++|+ ++|||+|.+|++|+|||+|+.|+++|++||+.|
T Consensus         9 ~~~~~~~i~~q~e~yfs~~nl~~D~fl~~~~~~~~g~V~l~~i~sF~r~k~l~~d~~~I~~Al~~S   74 (193)
T 2voo_A            9 MAALEAKICHQIEYYFGDFNLPRDKFLKEQIKLDEGWVPLEIMIKFNRLNRLTTDFNVIVEALSKS   74 (193)
T ss_dssp             CHHHHHHHHHHHHHHTSTTTGGGCHHHHHHHHHTTTCEEHHHHTTSHHHHHHCCCHHHHHHHHHTC
T ss_pred             cHHHHHHHHHHhheecchhhcccCHHHHHHhcccCCcEEeHHHhhhhHHHHhcCCHHHHHHHHhhc
Confidence            35899999999999999999999999999997 799999999999999999999999999999988

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

ID	Length	Definition	E-value
Query	449
d2cqka1	88	a.4.5.46 (A:43-130) La-related protein 4 LARP4 {Hu	5e-21
d1zh5a1	99	a.4.5.46 (A:5-103) Lupus La autoantigen N-terminal	3e-17
d1s29a_	92	a.4.5.46 (A:) Lupus La autoantigen N-terminal doma	8e-15

>d2cqka1 a.4.5.46 (A:43-130) La-related protein 4 LARP4 {Human (Homo sapiens) [TaxId: 9606]} Length = 88

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: La domain
domain: La-related protein 4 LARP4
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 84.7 bits (210), Expect = 5e-21
 Identities = 17/50 (34%), Positives = 26/50 (52%)

Query: 382 VPEPSLAAMLIHQIDYYFSDANLVKDEFLKSNMDDQGWVPITLIASFPRV 431
           V    L   L  Q+++ FS  NL KD +L S MD   ++PI  +A+   +
Sbjct: 2   VSTEDLKECLKKQLEFCFSRENLSKDLYLISQMDSDQFIPIWTVANMEEI 51

>d1zh5a1 a.4.5.46 (A:5-103) Lupus La autoantigen N-terminal domain {Human (Homo sapiens) [TaxId: 9606]} Length = 99

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: La domain
domain: Lupus La autoantigen N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 74.8 bits (184), Expect = 3e-17
 Identities = 22/50 (44%), Positives = 33/50 (66%), Gaps = 1/50 (2%)

Query: 383 PEPSLAAMLIHQIDYYFSDANLVKDEFLKSNMD-DQGWVPITLIASFPRV 431
              +L A + HQI+YYF D NL +D+FLK  +  D+GWVP+ ++  F R+
Sbjct: 5   KMAALEAKICHQIEYYFGDFNLPRDKFLKEQIKLDEGWVPLEIMIKFNRL 54

>d1s29a_ a.4.5.46 (A:) Lupus La autoantigen N-terminal domain {Trypanosoma brucei [TaxId: 5691]} Length = 92

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: La domain
domain: Lupus La autoantigen N-terminal domain
species: Trypanosoma brucei [TaxId: 5691]

 Score = 67.5 bits (165), Expect = 8e-15
 Identities = 19/54 (35%), Positives = 31/54 (57%), Gaps = 3/54 (5%)

Query: 380 MPVPEPSLAAMLIHQIDYYFSDANLVKDEFLKSNM--DDQGWVPITLIASFPRV 431
           MP+        L  Q+++YFSD N+ +D FLK  M  + +G+V +  + +F RV
Sbjct: 4   MPLSS-ENKQKLQKQVEFYFSDVNVQRDIFLKGKMAENAEGFVSLETLLTFKRV 56

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	449
d2cqka1	88	La-related protein 4 LARP4 {Human (Homo sapiens) [	99.92
d1s29a_	92	Lupus La autoantigen N-terminal domain {Trypanosom	99.91
d1zh5a1	99	Lupus La autoantigen N-terminal domain {Human (Hom	99.91

>d2cqka1 a.4.5.46 (A:43-130) La-related protein 4 LARP4 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: La domain
domain: La-related protein 4 LARP4
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.92  E-value=1.9e-26  Score=189.98  Aligned_cols=68  Identities=26%  Similarity=0.405  Sum_probs=65.4

Q ss_pred             CCcHHHHHHHHhhhhhhcCCCCcCcchHHHhhhCCCCcEehhhhccchhhhhccCCHHHHHHHhhcCC
Q 013093          382 VPEPSLAAMLIHQIDYYFSDANLVKDEFLKSNMDDQGWVPITLIASFPRVSFYSQISYFLITCSQFSL  449 (449)
Q Consensus       382 ~~e~~L~~~I~kQIEYYFSDeNL~kD~FLr~~Md~dG~VPI~lIasFnRVK~LT~d~~~IleALr~St  449 (449)
                      +..++|+++|++||||||||+||++|.||+++|++||||+|++|++|||||+||.|+++|++||+.|+
T Consensus         2 v~~~~l~~~i~~QvEfYFSd~NL~~D~fL~~~m~~~G~V~l~~i~~F~r~k~lt~d~~~i~~Al~~S~   69 (88)
T d2cqka1           2 VSTEDLKECLKKQLEFCFSRENLSKDLYLISQMDSDQFIPIWTVANMEEIKKLTTDPDLILEVLRSSP   69 (88)
T ss_dssp             CCHHHHHHHHHHHHHHHTSHHHHHHCHHHHHHSCTTSCEEHHHHHHCHHHHHHCCCHHHHHHHHHHSS
T ss_pred             CChHHHHHHHHHHHHhhCCHhhhCcCHHHHHhhcCCCCEEhHHHhcChHHHHHcCCHHHHHHHHhcCC
Confidence            35689999999999999999999999999999999999999999999999999999999999999985

>d1s29a_ a.4.5.46 (A:) Lupus La autoantigen N-terminal domain {Trypanosoma brucei [TaxId: 5691]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: La domain
domain: Lupus La autoantigen N-terminal domain
species: Trypanosoma brucei [TaxId: 5691]

Probab=99.91  E-value=6.6e-26  Score=188.15  Aligned_cols=68  Identities=28%  Similarity=0.476  Sum_probs=63.5

Q ss_pred             CCCcHHHHHHHHhhhhhhcCCCCcCcchHHHhhh--CCCCcEehhhhccchhhhhccCCHHHHHHHhhcCC
Q 013093          381 PVPEPSLAAMLIHQIDYYFSDANLVKDEFLKSNM--DDQGWVPITLIASFPRVSFYSQISYFLITCSQFSL  449 (449)
Q Consensus       381 P~~e~~L~~~I~kQIEYYFSDeNL~kD~FLr~~M--d~dG~VPI~lIasFnRVK~LT~d~~~IleALr~St  449 (449)
                      |.. ++++++|++||||||||+||++|+||+++|  +.||||+|++|++|||||+|+.|+++|++||+.|.
T Consensus         5 p~~-~e~~~~I~~QvEfYFSd~NL~~D~fL~~~m~~~~~G~V~i~~i~~F~rmk~lt~d~~~i~~Al~~S~   74 (92)
T d1s29a_           5 PLS-SENKQKLQKQVEFYFSDVNVQRDIFLKGKMAENAEGFVSLETLLTFKRVNSVTTDVKEVVEAIRPSE   74 (92)
T ss_dssp             CCC-HHHHHHHHHHHHHHTSHHHHTTCHHHHHHHTTSTTCCEEHHHHTTSHHHHTTCSCHHHHHHHHTTCS
T ss_pred             CCC-HHHHHHHHHHHHHHccHhhhccCHHHHHHHhccCCCcEEhHHHhcCcCHHHhcCCHHHHHHHHhhCC
Confidence            444 467899999999999999999999999999  68999999999999999999999999999999984

>d1zh5a1 a.4.5.46 (A:5-103) Lupus La autoantigen N-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: La domain
domain: Lupus La autoantigen N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.91  E-value=1.9e-25  Score=187.32  Aligned_cols=65  Identities=35%  Similarity=0.678  Sum_probs=62.4

Q ss_pred             HHHHHHHHhhhhhhcCCCCcCcchHHHhhhC-CCCcEehhhhccchhhhhccCCHHHHHHHhhcCC
Q 013093          385 PSLAAMLIHQIDYYFSDANLVKDEFLKSNMD-DQGWVPITLIASFPRVSFYSQISYFLITCSQFSL  449 (449)
Q Consensus       385 ~~L~~~I~kQIEYYFSDeNL~kD~FLr~~Md-~dG~VPI~lIasFnRVK~LT~d~~~IleALr~St  449 (449)
                      +.|.++|++||||||||+||++|.||+++|+ +||||+|++|++|+|||+|+.|+++|++||+.|+
T Consensus         7 ~~l~~~I~~QvEfYFSd~NL~~D~fL~~~m~~~eG~Vpl~~i~~F~r~k~l~~~~~~i~~Al~~S~   72 (99)
T d1zh5a1           7 AALEAKICHQIEYYFGDFNLPRDKFLKEQIKLDEGWVPLEIMIKFNRLNRLTTDFNVIVEALSKSK   72 (99)
T ss_dssp             HHHHHHHHHHHHHHTSTTTGGGCHHHHHHHTTTTTCEEHHHHTTSHHHHHHCCCHHHHHHHHHTCS
T ss_pred             HHHHHHHHHHHHHhcCHhhhccCHHHHHHHhcCCCcccHHHHhcchHHHHHcCCHHHHHHHHHhCC
Confidence            4789999999999999999999999999998 6899999999999999999999999999999884