Citrus Sinensis ID: 012097

---

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-------450-------460-------470-
Protein Sequence
MAMTADSTSNHVTPRGSGFSGDGLSSPQLRRKNSPSQWSEVVRGEHDPASTTVNHSQSSPSPPLTTTSLPEPTGSVSPSKAVASAPSSPPPDNPIAAGSSDADKGNAARPKKLAWNKPSNGVVEVGPVMGAASWPALSESTKPSPKSSSADSSSSKPVADGSVSGTQVPLIPHLPQKVSNANANPNSNANRTMPARQRLKRSGGGVSNAGSGPAQTRPTQPPPPPPPPPFPVFPMPPNSFANLVTAMPDPSPREPLYRGSNWDARPVGGFVSQSHPMNDQRNSSRRGNYGQRGDGNYNNNFGGRHDQDRGNYSNARDAHVQPQRGPPRGFVRPAPPNAAAFAPPQPMRPFPNPMGFPEFIYIPPMPVEAAALRGVTGMPPFIPPAPVLMPVPEPSLAAMLIHQIDYYFSDANLVKDEFLKSNMDDQGWVPITLIASFPRVKNLTSNIQLILDSLRTSTVVEVQSYLFIDSG
Secondary Structure (PSIPRED)
ccEEcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHcccccccccccccccccccccHHHHHHHHHHHHHcccccccccccHHHHHHccccccEEHHHHcccHHHHHHcccHHHHHHHHHccccEEEccccccccc
Secondary Structure Prediction (SSPRO)
ccccccccccccccccccccccccccccccccccccccHEEEcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHccccccHHHHHHHHHcccccccEEHEEEcHHHHHHHHHHHHHHHHHHHcccEEEEcccEEEccc
Coil and Loop (DISEMBL)
mamtadstsnhvtprgsgfsgdglsspqlrrknspsqwsevvrgehdpasttvnhsqsspsppltttslpeptgsvspskavasapsspppdnpiaagssdadkgnaarpkklawnkpsngvvevgpvmgaaswpalsestkpspksssadsssskpvadgsvsgtqvpliphlpqkvsnananpnsnanrtmparqrlkrsgggvsnagsgpaqtrptqpppppppppfpvfpmppnsfanlvtampdpspreplyrgsnwdarpvggfvsqshpmndqrnssrrgnygqrgdgnynnnfggrhdqdrgnysnardahvqpqrgpprgfvrpappnaaafappqpmrpfpnpmgfpefiyippmpveAAALrgvtgmppfippapvlmpvpepsLAAMLIHQIDyyfsdanlvkdeflksnmddqgwvpitliasfprvknlTSNIQLILDSLRTSTVVEVQSYLFIDSG
Flexible Loop (DISEMBL)
mamtadstsnhvtprgsgfsgdglsspqlrrknspsqWSEVVRGEHDPASttvnhsqsspspplTTTSLPEPTGSVSPSKAVASAPSSPPPDNPIAAGSSDADKGNAARpkklawnkpsngvVEVGPVMGAASWPALSESTKPSPKSSSADSSSSKPVADGSVSGTQVPLIPHLPQKVSnananpnsnanrtmpARQRLKRSGGGVSNAGSGPAQTRPTQPPPPPPPPPFPVFPMPPNSFANLVTAMPDPSPREPLYRGSNWDARPVGGFvsqshpmndqrnssrrgnygqrgDGNYNNNFGGRHDQDRGNYSNARDAHVQPQRGPPRGFVRPAPPNAAAFAPPQPMRPFPNPMGFPEFIYIPPMPVEAAALRGVTGMPPFIPPAPVLMPVPEPSLAAMLIHQIDYYFSDANLVKDEFLKSNMDDQGWVPITLIASFPRVKNLTSNIQLIldslrtstvveVQSYLFIDSG
Low Complexity Region (SEG)
MAMTADSTSNHVTPRGSGFSGDGLSSPQLRRKNSPSQWSEVVRGEHDPASTTVNHSQsspsppltttslpeptGsvspskavasapsspppdnpiaaGSSDADKGNAARPKKLAWNKPSNGVVEVGPVMGAASWPALsestkpspksssadsssskpVADGSVSGTQVPLIPHLPQKVsnananpnsnanRTMPARQRLKRSGGGVSNAGSGPAQTRPTQpppppppppfpvfpmppNSFANLVTAMPDPSPREPLYRGSNWDARPVGGFVSQSHPMNDQRNSSRRGNYGQRGDGNYNNNFGGRHDQDRGNYSNARDAHVQPQRGPPRGFVRpappnaaafappqpmrpfpnpmGFPEFIYIPPMPVEAAALRGVTGMppfippapvlmpvpepSLAAMLIHQIDYYFSDANLVKDEFLKSNMDDQGWVPITLIASFPRVKNLTSNIQLILDSLRTSTVVEVQSYLFIDSG
Disordered region (IsUnstruct)
******************************************************************************************************************************************************************************************************************************************************************************************************************************************************************GFPEFIYIPPMPVEAAALRGVTGMPPFIPPAPVLMPVPEPSLAAMLIHQIDYYFSDANLVKDEFLKSNMDDQGWVPITLIASFPRVKNLTSNIQLILDSLRTSTVVEVQSYLFI***
Disordered Region (DISOPRED)
*******************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************PFIPPAPVLMPVPEPSLAAMLIHQIDYYFSDANLVKDEFLKSNMDDQGWVPITLIASFPRVKNLTSNIQLILDSLRTSTVVEVQSYL*****
Disordered Region (DISEMBL)
**************************************************************************************************************KKLAWNKPSNGVVEVGPVMGAASW*******************************TQVPLIPHLPQKVSNANANPNSNANRTMP******************************PPPPPFPVFPMPPNSFANLVTAMPDPSPREPLYRGSNWDARPVGGFVSQS*************NYGQRGDGNYNNNFGGRHDQDRGNYSNARDAHVQPQRGPPRGFVRPAPPNAAAFAPPQPMRPFPNPMGFPEFIYIPPMPVEAAALRGVTGMPPFIPPAPVLMPVPEPSLAAMLIHQIDYYFSDANLVKDEFLKSNMDDQGWVPITLIASFPRVKNLTSNIQLILDSLRTSTVVEVQSYLFIDSG
Disordered Region (DISPRO)
*************************************************************************************************************************************************************************************************************************************************************************************************************************************PPRGFVRPAPPNAAAFAPPQPMRPFPNPMGFPEFIYIPPMPVEAAALRGVTGMPPFIPPAPVLMPVPEPSLAAMLIHQIDYYFSDANLVKDEFLKSNMDDQGWVPITLIASFPRVKNLTSNIQLILDSLRTSTVVEVQSYLFI***
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MAMTADSTSNHVTPRGSGFSGDGLSSPQLRRKNSPSQWSEVVRGEHDPASTTVNHSQSSPSPPLTTTSLPEPTGSVSPSKAVASAPSSPPPDNPIAAGSSDADKGNAARPKKLAWNKPSNGVVEVGPVMGAASWPALSESTKPSPKSSSADSSSSKPVADGSVSGTQVPLIPHLPQKVSNANANPNSNANRTMPARQRLKRSGGGVSNAGSGPAQTRPTQPPPPPPPPPFPVFPMPPNSFANLVTAMPDPSPREPLYRGSNWDARPVGGFVSQSHPMNDQRNSSRRGNYGQRGDGNYNNNFGGRHDQDRGNYSNARDAHVQPQRGPPRGFVRPAPPNAAAFAPPQPMRPFPNPMGFPEFIYIPPMPVEAAALRGVTGMPPFIPPAPVLMPVPEPSLAAMLIHQIDYYFSDANLVKDEFLKSNMDDQGWVPITLIASFPRVKNLTSNIQLILDSLRTSTVVEVQSYLFIDSG
Positional Conservation
no confident homologs detected

---

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	471	2.2.26 [Sep-21-2011]
Q659C4	914	La-related protein 1B OS=	yes	no	0.159	0.082	0.506	4e-16
Q6PKG0	1096	La-related protein 1 OS=H	no	no	0.159	0.068	0.493	8e-14
Q6ZQ58	1072	La-related protein 1 OS=M	no	no	0.142	0.062	0.522	4e-13
Q9P6K0	475	Uncharacterized HTH La-ty	yes	no	0.142	0.141	0.402	3e-12
Q9VAW5	1673	La-related protein OS=Dro	yes	no	0.144	0.040	0.411	6e-11
Q9I7T7	1531	La-related protein CG1150	no	no	0.152	0.047	0.444	1e-10
Q26457	383	La protein homolog OS=Aed	N/A	no	0.144	0.177	0.394	1e-10
P05455	408	Lupus La protein OS=Homo	no	no	0.133	0.154	0.421	5e-10
P10881	404	Lupus La protein homolog	no	no	0.133	0.155	0.421	5e-10
P32067	415	Lupus La protein homolog	no	no	0.144	0.163	0.408	2e-09

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

 Score = 86.7 bits (213), Expect = 4e-16,   Method: Compositional matrix adjust.
 Identities = 38/75 (50%), Positives = 54/75 (72%)

Query: 388 LMPVPEPSLAAMLIHQIDYYFSDANLVKDEFLKSNMDDQGWVPITLIASFPRVKNLTSNI 447
           + PV E  L   +  QI+YYFS  NL +D FL+  MD+QG++PI+LIA F RV+ LT+N+
Sbjct: 207 VYPVEEALLKEYIKRQIEYYFSVENLERDFFLRGKMDEQGFLPISLIAGFQRVQALTTNL 266

Query: 448 QLILDSLRTSTVVEV 462
            LIL++L+ ST VE+
Sbjct: 267 NLILEALKDSTEVEI 281

Homo sapiens (taxid: 9606)

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

 Score = 79.0 bits (193), Expect = 8e-14,   Method: Compositional matrix adjust.
 Identities = 37/75 (49%), Positives = 50/75 (66%)

Query: 388 LMPVPEPSLAAMLIHQIDYYFSDANLVKDEFLKSNMDDQGWVPITLIASFPRVKNLTSNI 447
           L  V +  L   +  QI+YYFS  NL +D FL+  MD  G++PITLIASF RV+ LT++I
Sbjct: 395 LYSVDQELLKDYIKRQIEYYFSVDNLERDFFLRRKMDADGFLPITLIASFHRVQALTTDI 454

Query: 448 QLILDSLRTSTVVEV 462
            LI  +L+ S VVE+
Sbjct: 455 SLIFAALKDSKVVEI 469

Homo sapiens (taxid: 9606)

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

 Score = 76.6 bits (187), Expect = 4e-13,   Method: Compositional matrix adjust.
 Identities = 35/67 (52%), Positives = 47/67 (70%)

Query: 396 LAAMLIHQIDYYFSDANLVKDEFLKSNMDDQGWVPITLIASFPRVKNLTSNIQLILDSLR 455
           L   +  QI+YYFS  NL +D FL+  MD  G++PITLIASF RV+ LT++I LI  +L+
Sbjct: 378 LKDYIKRQIEYYFSVDNLERDFFLRRKMDADGFLPITLIASFHRVQALTTDISLIFAALK 437

Query: 456 TSTVVEV 462
            S VVE+
Sbjct: 438 DSKVVEM 444

Mus musculus (taxid: 10090)

>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 = 73.6 bits (179), Expect = 3e-12,   Method: Compositional matrix adjust.
 Identities = 27/67 (40%), Positives = 48/67 (71%)

Query: 396 LAAMLIHQIDYYFSDANLVKDEFLKSNMDDQGWVPITLIASFPRVKNLTSNIQLILDSLR 455
           + A L  Q++YYFS  NL KD FL+ +MDD+G+VP+  +ASF R+K+ ++++ L+  + +
Sbjct: 325 VQAFLTSQLEYYFSIENLCKDMFLRKHMDDEGYVPLAFLASFNRIKSFSTDLNLLHAACK 384

Query: 456 TSTVVEV 462
            S +++V
Sbjct: 385 ASDIIDV 391

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

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

 Score = 69.3 bits (168), Expect = 6e-11,   Method: Compositional matrix adjust.
 Identities = 28/68 (41%), Positives = 48/68 (70%)

Query: 395 SLAAMLIHQIDYYFSDANLVKDEFLKSNMDDQGWVPITLIASFPRVKNLTSNIQLILDSL 454
           S+   +  Q++YYFS  NL  D FL+  MD +G++P+TLIASF RV  LT+++ +I++++
Sbjct: 728 SIKEAIKKQVEYYFSVDNLTGDFFLRRKMDPEGYIPVTLIASFHRVLALTTDVAVIVNAI 787

Query: 455 RTSTVVEV 462
           + S  +E+
Sbjct: 788 KESDKLEL 795

Drosophila melanogaster (taxid: 7227)

>sp|Q9I7T7|Y1505_DROME La-related protein CG11505 OS=Drosophila melanogaster GN=CG11505 PE=1 SV=2

 Score = 68.2 bits (165), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 32/72 (44%), Positives = 43/72 (59%)

Query: 391 VPEPSLAAMLIHQIDYYFSDANLVKDEFLKSNMDDQGWVPITLIASFPRVKNLTSNIQLI 450
           +P   L  ML  Q++YYFS  NL  D +L S MD   +VPI  +A F  V+ LT++I LI
Sbjct: 263 IPLDKLKQMLATQLEYYFSRENLANDTYLLSQMDSDQYVPIYTVARFNLVRKLTNDINLI 322

Query: 451 LDSLRTSTVVEV 462
            + LR S  V+V
Sbjct: 323 TEVLRESPNVQV 334

Drosophila melanogaster (taxid: 7227)

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

 Score = 68.2 bits (165), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 28/71 (39%), Positives = 50/71 (70%), Gaps = 3/71 (4%)

Query: 395 SLAAMLIHQIDYYFSDANLVKDEFLKSNM-DDQGWVPITLIASFPRVKNLTSNIQLILDS 453
            L A  I Q++YYF DANL +D+FL+  +  D+GWVP+ ++ +F R+K+L+ + ++I+D+
Sbjct: 42  KLEASTIRQLEYYFGDANLARDKFLQEQISKDEGWVPVDVLLTFKRLKSLSEDKKVIVDA 101

Query: 454 LRTST--VVEV 462
           +  S   ++EV
Sbjct: 102 IEKSDEGLIEV 112

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

 Score = 66.2 bits (160), Expect = 5e-10,   Method: Compositional matrix adjust.
 Identities = 27/64 (42%), Positives = 44/64 (68%), Gaps = 1/64 (1%)

Query: 395 SLAAMLIHQIDYYFSDANLVKDEFLKSNMD-DQGWVPITLIASFPRVKNLTSNIQLILDS 453
           +L A + HQI+YYF D NL +D+FLK  +  D+GWVP+ ++  F R+  LT++  +I+++
Sbjct: 12  ALEAKICHQIEYYFGDFNLPRDKFLKEQIKLDEGWVPLEIMIKFNRLNRLTTDFNVIVEA 71

Query: 454 LRTS 457
           L  S
Sbjct: 72  LSKS 75

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

 Score = 66.2 bits (160), Expect = 5e-10,   Method: Compositional matrix adjust.
 Identities = 27/64 (42%), Positives = 44/64 (68%), Gaps = 1/64 (1%)

Query: 395 SLAAMLIHQIDYYFSDANLVKDEFLKSNMD-DQGWVPITLIASFPRVKNLTSNIQLILDS 453
           +L A + HQI+YYF D NL +D+FLK  +  D+GWVP+ ++  F R+  LT++  +I+++
Sbjct: 12  ALEAKICHQIEYYFGDFNLPRDKFLKEQIKLDEGWVPLEIMIKFNRLNRLTTDFNVIVEA 71

Query: 454 LRTS 457
           L  S
Sbjct: 72  LSKS 75

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

 Score = 64.3 bits (155), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 29/71 (40%), Positives = 46/71 (64%), Gaps = 3/71 (4%)

Query: 395 SLAAMLIHQIDYYFSDANLVKDEFLKSNMD-DQGWVPITLIASFPRVKNLTSNIQLILDS 453
           +L A + HQI+YYF D NL +D+FLK  +  D+GWVP+  +  F R+  LT++  +I+ +
Sbjct: 12  ALEAKICHQIEYYFGDFNLPRDKFLKEQIKLDEGWVPLETMIKFNRLNRLTTDFNVIVQA 71

Query: 454 LRTS--TVVEV 462
           L  S   ++EV
Sbjct: 72  LSKSKAKLMEV 82

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)

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	471
359492285	565	PREDICTED: uncharacterized protein LOC10	0.929	0.775	0.513	1e-100
317106588	536	JHL20J20.1 [Jatropha curcas]	0.910	0.800	0.545	6e-99
356552054	527	PREDICTED: uncharacterized protein LOC10	0.940	0.840	0.515	6e-92
302142718	559	unnamed protein product [Vitis vinifera]	0.740	0.624	0.543	3e-91
449437412	540	PREDICTED: uncharacterized protein LOC10	0.946	0.825	0.482	8e-90
224085930	502	predicted protein [Populus trichocarpa]	0.861	0.808	0.484	4e-81
356517961	511	PREDICTED: uncharacterized protein LOC10	0.883	0.814	0.484	1e-79
357438541	681	La-related protein [Medicago truncatula]	0.876	0.606	0.456	4e-69
302143562	568	unnamed protein product [Vitis vinifera]	0.881	0.730	0.409	1e-65
357467029	585	NAD(P)H-quinone oxidoreductase chain [Me	0.719	0.579	0.448	7e-61

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

 Score =  370 bits (951), Expect = e-100,   Method: Compositional matrix adjust.
 Identities = 251/489 (51%), Positives = 310/489 (63%), Gaps = 51/489 (10%)

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 AWNKPSNGVVEVGPVMGAASWPALSESTKPSPKSSSADSSSSKPVADGSVSGTQVPLIPH 173
           AWNKPSN VVEVGPVMGA SWPALSEST+ SP+SSS    S KP  DGS +  Q P+IPH
Sbjct: 111 AWNKPSNDVVEVGPVMGAVSWPALSESTRASPRSSS---DSPKPAVDGSAASIQGPVIPH 167

Query: 174 LPQKVSNANANPNSNANRTMPARQRLKRSGGGVSNAGSGPAQTRPTQPPPPPPPPPFPVF 233
            PQK   AN NPNS+ N   P RQR  +SGGG S    G   ++P  PPPP P     +F
Sbjct: 168 SPQKQVPANTNPNSSQNHASPFRQRSIKSGGGSSQTVHGHLPSQPPPPPPPYP-----LF 222

Query: 234 PMPPNSFANLVTAMPDPSPREPLYRGSNWDARPVGGFVSQSHPMNDQ---RNSSRRGNYG 290
            MP N +A +   + D S REP YR + W+ RP+GGFV Q   ++D    RNS RRGN+G
Sbjct: 223 EMPQNKYAKMAPQVLDSSTREPPYRNNTWETRPIGGFVPQPRGLSDHPLPRNS-RRGNFG 281

Query: 291 Q--RGDGNYNNNFGGRHDQDRGNY------SNARDAHVQPQRGPPRGFVRPAPPNAA-AF 341
              RGDG ++NN+GGR DQDRGNY      SN RD H+QPQR PPRGF+R AP +++  F
Sbjct: 282 PHPRGDGPHHNNYGGRRDQDRGNYEWNSRSSNVRDIHMQPQRAPPRGFIRAAPQSSSPRF 341

Query: 342 APPQPMRPFPNPMGFP----EFIYIPPMPVEAAALRGVTGMPPFIPPAPVLMPVP---EP 394
             PQP+RPF NP G+P    +  Y P +P E    R V    PF+  AP         +P
Sbjct: 342 MTPQPIRPFMNPAGYPDMPSQMYYFPALPSEP--FRSV----PFVAHAPPPPMFIPVPDP 395

Query: 395 SLAAMLIHQIDYYFSDANLVKDEFLKSNMDDQGWVPITLIASFPRVKNLTSNIQLILDSL 454
            L  +L++QI+YYFSD NL+KD++L+S MDDQGWVPITLIA FPRV++LT++I LILDSL
Sbjct: 396 PLPTLLVNQIEYYFSDVNLIKDDYLRSYMDDQGWVPITLIAGFPRVQSLTNSIPLILDSL 455

Query: 455 RTSTVVEVQ 463
           RTST VEVQ
Sbjct: 456 RTSTSVEVQ 464

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  367 bits (942), Expect = 6e-99,   Method: Compositional matrix adjust.
 Identities = 260/477 (54%), Positives = 325/477 (68%), Gaps = 48/477 (10%)

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-VGPVMGAASWPALSESTKPSPKSSSADSSSSKPVADGSVSGTQVPLIPHLPQKVS 179
           GV E V PVMGA SWPALSESTK SPKSSSADSS        S++  QVP+IP  P++ S
Sbjct: 103 GVAEAVSPVMGAVSWPALSESTKSSPKSSSADSSDG------SIANNQVPVIP--PKQTS 154

Query: 180 NANANPNSNANRTMPARQR-LKRSGGGVSNAGSGPAQ--------TRPTQPPPPPPPPPF 230
            +NA  N+ +N++MPARQR +KR G G S    G           T P  PPPPPPPPPF
Sbjct: 155 -SNAKSNATSNQSMPARQRSIKRGGSGSSTTSGGGHSHSHSQSNFTHPPPPPPPPPPPPF 213

Query: 231 PVFPMPPNSFANLVTAMPDPSPREPLYRGSN-WDARPVGGFVSQSHPMNDQRNSSRRGNY 289
           P+F MPPN + N+V AMPD SPR+P YRG+N W+ RPVGGFV+Q   +ND R+SSRRGN+
Sbjct: 214 PLFAMPPNGYGNMVPAMPDRSPRDPPYRGNNNWEPRPVGGFVTQPPAVNDHRHSSRRGNF 273

Query: 290 GQRGDGNYNNNFGGRHDQDRGNYSNARDAHVQPQRGPPRGFVRPAPPNAAAFAPPQPMRP 349
           G RGDG Y++NFGGR DQDRG+Y N RDA VQ QR P RGFVRP PPN   F PPQP+RP
Sbjct: 274 GSRGDGTYHHNFGGRRDQDRGHYGNVRDAPVQQQRSP-RGFVRPPPPNTTTFVPPQPVRP 332

Query: 350 FPNPMGFPEFIYIPPMPVEAAALRGVTGMPPFIPPAP---VLMPVPEPSLAAMLIHQIDY 406
           F NP+GFP+ +YIP +P+E    RGV    PFI  AP   +++PVPEP L AML+HQI+Y
Sbjct: 333 FANPIGFPDVVYIPTLPLEP--FRGV----PFITHAPAPGIIVPVPEPPLPAMLVHQIEY 386

Query: 407 YFSDANLVKDEFLKSNMDDQGWVPITLIASFPRVKNLTSNIQLILDSLRTSTVVEVQ 463
           YFSDANL+KD+FLKSNMDDQGWV ITLIA F RVK++T ++QLILDSLRTST++EVQ
Sbjct: 387 YFSDANLIKDDFLKSNMDDQGWVSITLIAGFNRVKSMTKDVQLILDSLRTSTILEVQ 443

Source: Jatropha curcas

Species: Jatropha curcas

Genus: Jatropha

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  344 bits (882), Expect = 6e-92,   Method: Compositional matrix adjust.
 Identities = 246/477 (51%), Positives = 296/477 (62%), Gaps = 34/477 (7%)

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-SWPALSESTKPSPKSSSADSSSSKPVADGSVSGTQVPLIPH 173
           KPSNGVV  E GPVMGAA SWP L  STK S K   A+SSS     DGS+S +Q P+   
Sbjct: 115 KPSNGVVVVETGPVMGAAESWPTLLASTKGSAKLP-AESSSKTVTDDGSLSTSQWPMTSQ 173

Query: 174 LPQKVSNANANPNSNANRTMPARQRLKRSGGGVSNAGSGPAQTRPTQPPPPPPPPPFPVF 233
            PQK +   A P+S  N  +P+RQR  +  GG S             PP PPPPPPFPV+
Sbjct: 174 SPQKQATTIAKPSSAPNYNVPSRQRSMKRVGGSSTGSGPSQSNFSNPPPTPPPPPPFPVY 233

Query: 234 PMPPNSFANLVTAMPDPSPREPLYRGSNWDARP-VGGFVSQSHPMNDQRNSSRRGNYGQ- 291
            +PP S+ N+V  +PD +PR+  YR +NWDARP VGGFV     MN+ R SSRRG +G  
Sbjct: 234 QLPPVSYGNMVPGVPDHAPRD-HYRNNNWDARPLVGGFVPA---MNEYRGSSRRGYFGPH 289

Query: 292 -RGDGNYNNNFGGRHD-QDRGNYSNARDAHVQPQRGPPRGFVRPAPPNAAAFAPPQPMRP 349
            RGDG+Y+N++G R D QDRGNY NARDA +   R PPRG +R  PPN AAF  PQP+ P
Sbjct: 290 PRGDGSYHNSYGSRRDHQDRGNYVNARDAFLPQPRMPPRGLLRHPPPNTAAFVGPQPIGP 349

Query: 350 FPNPMGFPEFIYIPPMPVEAAALRGVTGMPPFI---PPAPVLMPVPEPSLAAMLIHQIDY 406
           F NP+ FPEF Y  P+ VE       TGMP F    PP P       P L+ M+++QI+Y
Sbjct: 350 FANPISFPEFYYYQPVTVEQ-----FTGMPFFTHSPPPTPFFSAAESP-LSNMIVYQIEY 403

Query: 407 YFSDANLVKDEFLKSNMDDQGWVPITLIASFPRVKNLTSNIQLILDSLRTSTVVEVQ 463
           YFSDANLVKD FL+S MD+QGWVP+TLIA FPRVKNLT+NIQLILDSLRTSTVVEVQ
Sbjct: 404 YFSDANLVKDAFLRSKMDEQGWVPVTLIADFPRVKNLTTNIQLILDSLRTSTVVEVQ 460

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  342 bits (876), Expect = 3e-91,   Method: Compositional matrix adjust.
 Identities = 208/383 (54%), Positives = 252/383 (65%), Gaps = 34/383 (8%)

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

Query: 160 DGSVSGTQVPLIPHLPQKVSNANANPNSNANRTMPARQRLKRSGGGVSNAGSGPAQTRPT 219
           DGS +  Q P+IPH PQK   AN NPNS+ N   P RQR  +SGGG S    G   ++P 
Sbjct: 148 DGSAASIQGPVIPHSPQKQVPANTNPNSSQNHASPFRQRSIKSGGGSSQTVHGHLPSQPP 207

Query: 220 QPPPPPPPPPFPVFPMPPNSFANLVTAMPDPSPREPLYRGSNWDARPVGGFVSQSHPMND 279
            PPPP P     +F MP N +A +   + D S REP YR + W+ RP+GGFV Q   ++D
Sbjct: 208 PPPPPYP-----LFEMPQNKYAKMAPQVLDSSTREPPYRNNTWETRPIGGFVPQPRGLSD 262

Query: 280 Q---RNSSRRGNYGQ--RGDGNYNNNFGGRHDQDRGNY------SNARDAHVQPQRGPPR 328
               RNS RRGN+G   RGDG ++NN+GGR DQDRGNY      SN RD H+QPQR PPR
Sbjct: 263 HPLPRNS-RRGNFGPHPRGDGPHHNNYGGRRDQDRGNYEWNSRSSNVRDIHMQPQRAPPR 321

Query: 329 GFVRPAPPNAA-AFAPPQPMRPFPNPMGFP----EFIYIPPMPVEAAALRGVTGMPPFIP 383
           GF+R AP +++  F  PQP+RPF NP G+P    +  Y P +P E    R V    PF+ 
Sbjct: 322 GFIRAAPQSSSPRFMTPQPIRPFMNPAGYPDMPSQMYYFPALPSEP--FRSV----PFVA 375

Query: 384 PAPVLMPVP---EPSLAAMLIHQIDYYFSDANLVKDEFLKSNMDDQGWVPITLIASFPRV 440
            AP         +P L  +L++QI+YYFSD NL+KD++L+S MDDQGWVPITLIA FPRV
Sbjct: 376 HAPPPPMFIPVPDPPLPTLLVNQIEYYFSDVNLIKDDYLRSYMDDQGWVPITLIAGFPRV 435

Query: 441 KNLTSNIQLILDSLRTSTVVEVQ 463
           ++LT++I LILDSLRTST VEVQ
Sbjct: 436 QSLTNSIPLILDSLRTSTSVEVQ 458

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 =  337 bits (864), Expect = 8e-90,   Method: Compositional matrix adjust.
 Identities = 226/468 (48%), Positives = 287/468 (61%), Gaps = 22/468 (4%)

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 GVVEVGPVMGAASWPALSESTKPSPKSSSADSSSSKPVADGSVSGTQVPL-IPHLPQKVS 179
           GVVE G VMGA SWPAL+ES + SPK +    S  K   + +V  +Q P+ +P   Q  +
Sbjct: 111 GVVEGGSVMGADSWPALAESARASPKLTV--DSPPKVTVEVAVPPSQGPINVPPQRQATN 168

Query: 180 NANANPNSNANRTMPARQRLKRSGGGVSNAGSGPAQTRPTQPPPPPPPPPFPVFPMPPNS 239
           NA +NP            R    GGG S  G      RP  PPPPPPPPPFPVF + PNS
Sbjct: 169 NAKSNPTLKNPVVARRSSRRGGGGGGSSVGGPRGGYYRPPPPPPPPPPPPFPVFQVSPNS 228

Query: 240 FANLVTAMPDPSPREPLYRGSNWDARPVGGFVSQSHPMNDQRNSSRRGNY--GQRGDGNY 297
           + N++ A+PDPS  EPL+R  NWD R V GFV Q +   D RN   RGN+    RGD +Y
Sbjct: 229 YCNMIPAIPDPSSGEPLFRSPNWDPRAVAGFVPQLNFGTDHRNFFPRGNFPLHPRGDSHY 288

Query: 298 NNNFGGRHDQDRGNYSNARDAHVQPQRGPPRGFVRPAPPNAAAFAPPQPMRPFPNPMGFP 357
           +NN GG+  QDRG Y NARDAH Q  R   RGF+RP PP    F  PQ +RP  NPM  P
Sbjct: 289 HNNRGGKRGQDRGIYFNARDAHFQQHRPHTRGFMRPLPPFTGQF--PQGVRPHLNPMAHP 346

Query: 358 EFIYIPPMPVEAAALRGVTGMPPFIPPAPVLMPVPEPSLAAMLIHQIDYYFSDANLVKDE 417
           EF+Y+P +P+EA       G  PF+P   +  P  +P+L+A ++ QI+YYFSD NLVKD+
Sbjct: 347 EFVYVPTLPLEA-----YRGGLPFMPRPAMNYPTVDPTLSASIVKQIEYYFSDGNLVKDD 401

Query: 418 FLKSNMDDQGWVPITLIASFPRVKNLTSNIQLILDSLRTSTVVEVQSY 465
           +L+S MDDQGWVPI+LIA+FP V +LT+NIQ I++SLRTST VEVQ Y
Sbjct: 402 YLRSQMDDQGWVPISLIATFPMVLSLTNNIQWIVESLRTSTEVEVQDY 449

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  308 bits (789), Expect = 4e-81,   Method: Compositional matrix adjust.
 Identities = 231/477 (48%), Positives = 297/477 (62%), Gaps = 71/477 (14%)

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-GPVMGAASWPALSESTKPSPKSSSADSSSSKPVADGSVSGTQVPLIPHLPQKV 178
           NGV E+  PVM A SWPALSESTKPSPK S A+ SSSK V+DGS+  +Q P+I + P+K 
Sbjct: 79  NGVAEITSPVMDATSWPALSESTKPSPKPSPAE-SSSKIVSDGSIPTSQGPVIANSPKKQ 137

Query: 179 SNANANPNSNANRTMPARQR-LKR--SGGGVSNAGSGPAQTRPTQPPPPPPPPPFPVFPM 235
            N+NA   S  N TMP RQR ++R   G   S++G G +Q   T PPPPPPPPPFP+FPM
Sbjct: 138 GNSNAKSISATNHTMPVRQRPVRRGSGGSSGSSSGGGHSQNSFTHPPPPPPPPPFPIFPM 197

Query: 236 PPNSFANLVTAMPDPSPREPLYRGSNWDARPVGGFVSQSHPMNDQRNSSRRGNYGQ-RGD 294
           PPN F NLV AMPD SPRE LYRG+NW+ RP+GGFV     +++ R  SRRGN+GQ  GD
Sbjct: 198 PPNGFTNLVPAMPDQSPRETLYRGNNWEPRPIGGFVPPPPVVSEHRRPSRRGNFGQPPGD 257

Query: 295 GNYNNNFGGRHDQDRGNYSNARDAHVQPQRGPPRGFVRPAPPNAAAFAPPQPMRPFPNPM 354
           G++ NN+ GR +QDRG++ N+RD HVQ QR P RGF RP+P N+  F PPQ +RPF NPM
Sbjct: 258 GSHRNNYVGRREQDRGHHGNSRDVHVQQQRAPTRGFPRPSPQNSGTFIPPQSVRPFANPM 317

Query: 355 GFPEFIYIPPMPVEAAALRGVTGMPPFIPPAPVLMPVPEPSL--------AAMLIHQIDY 406
           G+ + ++IPP              P  + P PV+  +  P++          +L++QI+Y
Sbjct: 318 GYHDMLFIPP--------------PITLEPYPVVPHMQSPTMLMPIPQPLPLLLLNQIEY 363

Query: 407 YFSDANLVKDEFLKSNMDDQGWVPITLIASFPRVKNLTSNIQLILDSLRTSTVVEVQ 463
           YFSD NL KD FLKS MDD+GWVPITLIA F RV+ +T+NIQ IL+ LRTST++EVQ
Sbjct: 364 YFSDMNLSKDGFLKSKMDDEGWVPITLIAGFNRVRIMTNNIQFILECLRTSTLLEVQ 420

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 =  303 bits (777), Expect = 1e-79,   Method: Compositional matrix adjust.
 Identities = 231/477 (48%), Positives = 284/477 (59%), Gaps = 61/477 (12%)

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 NGVVEVGPVMGAASWPALSESTKPSPKSSSADSSSSKPVADGSVSGTQVPLIPHLPQKVS 179
           NGV EVGPVMGA SWP LSESTKP+ K +S DSS      + S +  Q P+    PQK +
Sbjct: 85  NGVAEVGPVMGAHSWPDLSESTKPTAKLTS-DSSVKTAADEESTTTPQGPVTSDPPQKQA 143

Query: 180 NANANPNSN--ANRTMPARQRLKRSGGGVS--NAGSGPAQTR----PTQPPPPPPPPPFP 231
            ANA P+     N  M  RQR  +  GG +  N GSGP Q          PPPPPPPPFP
Sbjct: 144 TANAKPSPTPAMNYGMANRQRSMKQRGGANGNNVGSGPVQNNFSGTTPNLPPPPPPPPFP 203

Query: 232 VFPMPPNSFANLVTAMPDPSPREPLYRGSNWDARPV-GGFVSQSHPMNDQRNSSRRGNYG 290
           V  MPP++FA+ +   P P+PR+P YR +NWDARP  GGF+    PMN+ R+ S RGN G
Sbjct: 204 VLLMPPSTFAHGIPGAPVPTPRDP-YRNNNWDARPQHGGFMP---PMNEHRSPSHRGNAG 259

Query: 291 Q--RGDGNYNNNFGGRHDQDRGNYSNARDAHVQPQRGPPRGFVRPAPPNAAAFAPPQPMR 348
              RG+G Y+N++G R DQDR  Y+N RDAHV  QR PPRG +RP PPN A F  PQPMR
Sbjct: 260 HHPRGEGPYHNSYGNRRDQDRVGYANTRDAHVNQQRMPPRGLMRPPPPNPAPFMGPQPMR 319

Query: 349 PFPNPMGFPEFIYIPPMPVEAAALRGVTGMPPFI--PPAPVLMPVPEPSLAAMLIHQIDY 406
           P  NP GFPE+ Y P +  E        GMP F   PP  +  PV E  L   + +QIDY
Sbjct: 320 PLANPAGFPEYYYFPTLQFEPFG-----GMPFFTHAPPPAMFYPVAETPLTNTIANQIDY 374

Query: 407 YFSDANLVKDEFLKSNMDDQGWVPITLIASFPRVKNLTSNIQLILDSLRTSTVVEVQ 463
           YFSDANLVKDE+L+SNMD+QGWVPI+LIASFPRV++LTSNI+LILDSLRTST VEVQ
Sbjct: 375 YFSDANLVKDEYLRSNMDEQGWVPISLIASFPRVRSLTSNIKLILDSLRTSTFVEVQ 431

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 =  268 bits (685), Expect = 4e-69,   Method: Compositional matrix adjust.
 Identities = 215/471 (45%), Positives = 275/471 (58%), Gaps = 58/471 (12%)

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----PVADGSVSGTQVPLIPHLPQKV- 178
           E+GPVMGA SWPALSES K  P     +SSSSK       DGS S +Q P+I H PQ+  
Sbjct: 145 EIGPVMGAESWPALSESAK-IPGKLPPESSSSKIAPPAAVDGSPSTSQGPIISHSPQRQG 203

Query: 179 SNANANPNSNANRTMPARQRLKRSGGGVSNAGSGPAQTRPTQPPPPPPPPPFPVFPMPPN 238
           S +N   +S AN  +P R R  R   G SN G  PAQ+  + PP PPP PP+PV+ +PP 
Sbjct: 204 STSNTKSSSMANNNLPNRPRPMRRISG-SNIGPCPAQSSLSNPPTPPPLPPYPVYQLPPA 262

Query: 239 -SFANLVTAMPDPSPREPLYRGSNWDARP-VGGFVSQSHPMNDQRNSSRRGNYGQ--RGD 294
            S+ N++ ++PD SPR+  +R +NWDARP VGG             SSRRG++G   RGD
Sbjct: 263 VSYPNMLPSIPDSSPRD-HHRNNNWDARPFVGG-------------SSRRGHFGSHPRGD 308

Query: 295 GNYN-NNFGGRHDQDRGNYSNARDAHVQPQRGPPRGFVRPAPPNAAAFAPPQPMRPFPNP 353
           G+Y+ N++  R + DRGNY+N RDAH    R PPRG +RP PP+ AAF  PQ + PFP P
Sbjct: 309 GSYHQNSYSSRREHDRGNYANTRDAHAPQPRMPPRGILRPPPPSTAAFLGPQTIGPFPAP 368

Query: 354 MGFPEFIYIPPMPVEAAALRGVTGMPPF--IPPAPVLMPVPEPSLAAMLIHQIDYYFSDA 411
           + +P+F Y P +P++        GMP F  +P      P  E SL+ ++++QIDYYFSD 
Sbjct: 369 VAYPDFYYFPTVPLDP-----FRGMPVFPHMPSPATFFPAAESSLSNVIVNQIDYYFSDI 423

Query: 412 NLVKDEFLKSNMDDQGWVPITLIASFPRVKNLTSNIQLILDS-LRTSTVVE 461
           NL  DEFLKSNMD++GWVPITLIA+FPR   +T  ++ ++++ LR +  VE
Sbjct: 424 NLANDEFLKSNMDEEGWVPITLIANFPRSVGVTPLVEKMVETRLRWTGHVE 474

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 =  256 bits (655), Expect = 1e-65,   Method: Compositional matrix adjust.
 Identities = 199/486 (40%), Positives = 268/486 (55%), Gaps = 71/486 (14%)

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------SSSADSSSSKPVADGSVSGTQVPLIPHLPQKVSN 180
           PVMGA+SWPALSES + S K       S  D S S P A   V G+     P    K  N
Sbjct: 123 PVMGASSWPALSESARASAKSASDSLKSPTDGSISTPPAQVHVQGSGNASSP--SHKQVN 180

Query: 181 ANANPNSNANRTMPARQRLKRSG---GGVSNAGSGPAQTRPTQPPPPPPPPPFPVFPMPP 237
            N  P+S  +  +P RQ+  + G   GG S+A +G          P P  P  PV  +PP
Sbjct: 181 NNPIPSSTPSHALPTRQKSMKRGDRSGGSSSANAGL---------PQPAAPQGPVMEVPP 231

Query: 238 NSFANLVTAMPDPSPREPLYRGSNWDARPVGGFVSQSHPMND---QRNSSRRGNYG--QR 292
           N          + SPR+   R  + +    GGFV QSH  ND   QR S R+GN     R
Sbjct: 232 N----------NSSPRDHTNRSIHPEGGQRGGFVPQSHSGNDYPHQRGSYRKGNSAPHSR 281

Query: 293 GDGNYNNNFGGRHDQDRGNY------SNARDAHVQPQRGPPRGFVRPAPPNAAAFAPPQP 346
           GDG++++ +GGR DQDR N+      +  R+ H+QP R   RGF+RP   ++A F  P  
Sbjct: 282 GDGSHHHGYGGRRDQDRVNHDWNPHRNFNREPHMQP-RVVARGFIRPPSHSSAQFIAPPH 340

Query: 347 MRPFPNPMGFPEF-------IYIPPMPVEAAALRGVTGMPPFIPPAPVLMPVP--EPSLA 397
           +RPF NP+ + E        +Y+P     A  LR V    PF+ P P  M  P  +  L 
Sbjct: 341 LRPFGNPILYQELASPVSQVVYVPAP--HADPLRTV----PFVAPMPHPMFFPPQDHQLH 394

Query: 398 AMLIHQIDYYFSDANLVKDEFLKSNMDDQGWVPITLIASFPRVKNLTSNIQLILDSLRTS 457
           A L+ QIDYYFS+ NL+KD +L+ NMD+QGWVP+ LIA F +VK LT NIQLIL+++RTS
Sbjct: 395 AKLVAQIDYYFSNENLIKDIYLRQNMDEQGWVPVKLIAGFKKVKLLTENIQLILEAVRTS 454

Query: 458 TVVEVQ 463
           TVVEVQ
Sbjct: 455 TVVEVQ 460

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357467029|ref|XP_003603799.1| NAD(P)H-quinone oxidoreductase chain [Medicago truncatula] gi|355492847|gb|AES74050.1| NAD(P)H-quinone oxidoreductase chain [Medicago truncatula]

 Score =  241 bits (615), Expect = 7e-61,   Method: Compositional matrix adjust.
 Identities = 178/397 (44%), Positives = 222/397 (55%), Gaps = 58/397 (14%)

Query: 89  PPPDNPIAAGSSDADKGNAARPKKLAWNKPSNGVV--EVGPVMGAASWPALSESTKPSPK 146
           PPP++ I    +  +    A PKK AW   SNG+V  EV PVMGA SWPALS   KPS K
Sbjct: 78  PPPNHSIIIRHNVVN----ANPKKPAWKNTSNGLVVAEVNPVMGAVSWPALS--AKPSAK 131

Query: 147 SSSADSSSSKPVADGSVSGTQVPLIPHLPQK-------VSNANANPNSNANRTMPARQRL 199
            +S DS S    A GS+S +Q P+I + PQK        +NA   P  N + ++  RQ+ 
Sbjct: 132 LTS-DSIS----AVGSISISQGPVISNSPQKQATATATAANARHTPPMNHSHSVSNRQQK 186

Query: 200 KRSGGGVSNAGSGPAQTRPTQPPP----PPPPPPFPVFPMPPNSFANLVTAMPDPSPREP 255
               GGV+N   GP     + PP     P   PPFPV  +PPN+F  LV  +        
Sbjct: 187 PMERGGVNNNEPGPLSNNLSNPPQANHQPSVSPPFPVLQIPPNTF--LVDGVQS------ 238

Query: 256 LYRGSN-WDAR-PVGGFVSQSHPMNDQRNSSRRGNYGQRGDGNYNNNFGGRHDQDRGNYS 313
            Y+ +N W  R P GG+     P+++    S RGNYG R      NN+G R +QD GN  
Sbjct: 239 -YKNNNGWGPRSPAGGY---GLPVDEH---SHRGNYGHRP----RNNYGTRRNQDPGNTM 287

Query: 314 NARDAHVQPQRGPPRGFVRPAPPNAAAF-APPQPMRPFPNPMGFPEFIYIPPMPVEAAAL 372
           N RDAH    R    GF+RP  PN+A   + P PMRPF NP GF EF Y P +  E    
Sbjct: 288 NTRDAHPPQHRMHSEGFLRPTLPNSAYLGSQPMPMRPFLNPAGFHEFYYYPTLQFEPFG- 346

Query: 373 RGVTGMPPFI--PPAPVLMPVPEPSLAA-----MLIHQIDYYFSDANLVKDEFLKSNMDD 425
               GMP     PP  +  PV E +        +++ QIDYYFSD NL  DEFLKSNMD+
Sbjct: 347 ----GMPFLTHPPPPAMFFPVAEETPPTTPPTNIILKQIDYYFSDVNLTNDEFLKSNMDE 402

Query: 426 QGWVPITLIASFPRVKNLTSNIQLILDSLRTSTVVEV 462
            GWVP++LIA+FPRVKNLT+NI+LILDSLR S+VVEV
Sbjct: 403 HGWVPVSLIANFPRVKNLTNNIELILDSLRNSSVVEV 439

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

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	471
TAIR|locus:2156912	453	LARP1b "AT5G66100" [Arabidopsi	0.135	0.141	0.531	7e-24
TAIR|locus:2125334	523	LARP1c "La related protein 1c"	0.138	0.124	0.484	9.9e-21
UNIPROTKB|G3V0E9	358	LARP1B "La-related protein 1B"	0.127	0.167	0.566	6.2e-11
UNIPROTKB|G3XAJ5	522	LARP1B "La-related protein 1B"	0.127	0.114	0.566	1.5e-10
POMBASE|SPAC1527.03	475	SPAC1527.03 "RNA-binding prote	0.138	0.136	0.415	3.3e-10
UNIPROTKB|Q659C4	914	LARP1B "La-related protein 1B"	0.127	0.065	0.566	3.5e-10
UNIPROTKB|E7ERC4	184	SSB "Lupus La protein" [Homo s	0.133	0.342	0.421	5.1e-10
UNIPROTKB|E9PFL9	134	SSB "Lupus La protein" [Homo s	0.133	0.470	0.421	5.1e-10
WB|WBGene00020097	1150	larp-1 [Caenorhabditis elegans	0.127	0.052	0.533	1.7e-09
UNIPROTKB|F1P339	927	LARP1 "Uncharacterized protein	0.127	0.064	0.566	4.7e-09

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

 Score = 190 (71.9 bits), Expect = 7.0e-24, Sum P(3) = 7.0e-24
 Identities = 34/64 (53%), Positives = 51/64 (79%)

Query:   400 LIHQIDYYFSDANLVKDEFLKSNMDDQGWVPITLIASFPRVKNLTSNIQLILDSLRTSTV 459
             ++ Q++YYFS  NL +DE L+  M+D+GWVP+ +IA+F R+  LT+NIQ IL++LR+S V
Sbjct:   339 ILTQVEYYFSADNLSRDEHLRDQMNDEGWVPVRVIAAFRRLAELTNNIQTILEALRSSEV 398

Query:   460 VEVQ 463
             VE+Q
Sbjct:   399 VEIQ 402

GO:0003674 "molecular_function" evidence=ND

GO:0009507 "chloroplast" evidence=ISM

GO:0010150 "leaf senescence" evidence=IMP

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

 Score = 162 (62.1 bits), Expect = 9.9e-21, Sum P(2) = 9.9e-21
 Identities = 32/66 (48%), Positives = 48/66 (72%)

Query:   399 MLIH-QIDYYFSDANLVKDEFLKSNMDDQGWVPITLIASFPRVKNLTSNIQLILDSLRTS 457
             M +H QI YYFSD NL+ D +L+  M+++G+VP+ ++A F +V  LT NIQ I+++L+ S
Sbjct:   371 MKLHKQIQYYFSDENLITDIYLRGFMNNEGFVPLRVVAGFKKVAELTDNIQQIVEALQNS 430

Query:   458 TVVEVQ 463
               VEVQ
Sbjct:   431 PHVEVQ 436

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

UNIPROTKB|G3V0E9 LARP1B "La-related protein 1B" [Homo sapiens (taxid:9606)]

 Score = 176 (67.0 bits), Expect = 6.2e-11, P = 6.2e-11
 Identities = 34/60 (56%), Positives = 48/60 (80%)

Query:   403 QIDYYFSDANLVKDEFLKSNMDDQGWVPITLIASFPRVKNLTSNIQLILDSLRTSTVVEV 462
             QI+YYFS  NL +D FL+  MD+QG++PI+LIA F RV+ LT+N+ LIL++L+ ST VE+
Sbjct:   222 QIEYYFSVENLERDFFLRGKMDEQGFLPISLIAGFQRVQALTTNLNLILEALKDSTEVEI 281

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0030529 "ribonucleoprotein complex" evidence=IEA

UNIPROTKB|G3XAJ5 LARP1B "La-related protein 1B" [Homo sapiens (taxid:9606)]

 Score = 176 (67.0 bits), Expect = 1.5e-10, P = 1.5e-10
 Identities = 34/60 (56%), Positives = 48/60 (80%)

Query:   403 QIDYYFSDANLVKDEFLKSNMDDQGWVPITLIASFPRVKNLTSNIQLILDSLRTSTVVEV 462
             QI+YYFS  NL +D FL+  MD+QG++PI+LIA F RV+ LT+N+ LIL++L+ ST VE+
Sbjct:   222 QIEYYFSVENLERDFFLRGKMDEQGFLPISLIAGFQRVQALTTNLNLILEALKDSTEVEI 281

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0030529 "ribonucleoprotein complex" evidence=IEA

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

 Score = 157 (60.3 bits), Expect = 3.3e-10, Sum P(2) = 3.3e-10
 Identities = 27/65 (41%), Positives = 47/65 (72%)

Query:   398 AMLIHQIDYYFSDANLVKDEFLKSNMDDQGWVPITLIASFPRVKNLTSNIQLILDSLRTS 457
             A L  Q++YYFS  NL KD FL+ +MDD+G+VP+  +ASF R+K+ ++++ L+  + + S
Sbjct:   327 AFLTSQLEYYFSIENLCKDMFLRKHMDDEGYVPLAFLASFNRIKSFSTDLNLLHAACKAS 386

Query:   458 TVVEV 462
              +++V
Sbjct:   387 DIIDV 391

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|Q659C4 LARP1B "La-related protein 1B" [Homo sapiens (taxid:9606)]

 Score = 176 (67.0 bits), Expect = 3.5e-10, P = 3.5e-10
 Identities = 34/60 (56%), Positives = 48/60 (80%)

Query:   403 QIDYYFSDANLVKDEFLKSNMDDQGWVPITLIASFPRVKNLTSNIQLILDSLRTSTVVEV 462
             QI+YYFS  NL +D FL+  MD+QG++PI+LIA F RV+ LT+N+ LIL++L+ ST VE+
Sbjct:   222 QIEYYFSVENLERDFFLRGKMDEQGFLPISLIAGFQRVQALTTNLNLILEALKDSTEVEI 281

GO:0003723 "RNA binding" evidence=IEA

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

 Score = 149 (57.5 bits), Expect = 5.1e-10, P = 5.1e-10
 Identities = 27/64 (42%), Positives = 44/64 (68%)

Query:   395 SLAAMLIHQIDYYFSDANLVKDEFLKSNMD-DQGWVPITLIASFPRVKNLTSNIQLILDS 453
             +L A + HQI+YYF D NL +D+FLK  +  D+GWVP+ ++  F R+  LT++  +I+++
Sbjct:    12 ALEAKICHQIEYYFGDFNLPRDKFLKEQIKLDEGWVPLEIMIKFNRLNRLTTDFNVIVEA 71

Query:   454 LRTS 457
             L  S
Sbjct:    72 LSKS 75

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

 Score = 149 (57.5 bits), Expect = 5.1e-10, P = 5.1e-10
 Identities = 27/64 (42%), Positives = 44/64 (68%)

Query:   395 SLAAMLIHQIDYYFSDANLVKDEFLKSNMD-DQGWVPITLIASFPRVKNLTSNIQLILDS 453
             +L A + HQI+YYF D NL +D+FLK  +  D+GWVP+ ++  F R+  LT++  +I+++
Sbjct:    12 ALEAKICHQIEYYFGDFNLPRDKFLKEQIKLDEGWVPLEIMIKFNRLNRLTTDFNVIVEA 71

Query:   454 LRTS 457
             L  S
Sbjct:    72 LSKS 75

GO:0003723 "RNA binding" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0006396 "RNA processing" evidence=IEA

GO:0030529 "ribonucleoprotein complex" evidence=IEA

WB|WBGene00020097 larp-1 [Caenorhabditis elegans (taxid:6239)]

 Score = 171 (65.3 bits), Expect = 1.7e-09, Sum P(2) = 1.7e-09
 Identities = 32/60 (53%), Positives = 47/60 (78%)

Query:   403 QIDYYFSDANLVKDEFLKSNMDDQGWVPITLIASFPRVKNLTSNIQLILDSLRTSTVVEV 462
             QI+YYFS+ NL KD FL+  M  +G++P+ LIASFPRV++LT +  LIL++L+ ST V++
Sbjct:   586 QIEYYFSEENLQKDFFLRRKMGPEGYLPVALIASFPRVRSLTEDYSLILEALKDSTKVDM 645

GO:0009792 "embryo development ending in birth or egg hatching" evidence=IMP

GO:0040010 "positive regulation of growth rate" evidence=IMP

GO:0000003 "reproduction" evidence=IMP

GO:0040035 "hermaphrodite genitalia development" evidence=IMP

GO:0040007 "growth" evidence=IMP

GO:0002119 "nematode larval development" evidence=IMP

GO:0040018 "positive regulation of multicellular organism growth" evidence=IMP

GO:0002009 "morphogenesis of an epithelium" evidence=IMP

GO:0010171 "body morphogenesis" evidence=IMP

GO:0000932 "cytoplasmic mRNA processing body" evidence=IDA

GO:0034046 "poly(G) RNA binding" evidence=IDA

GO:0008266 "poly(U) RNA binding" evidence=IDA

UNIPROTKB|F1P339 LARP1 "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 166 (63.5 bits), Expect = 4.7e-09, P = 4.7e-09
 Identities = 34/60 (56%), Positives = 46/60 (76%)

Query:   403 QIDYYFSDANLVKDEFLKSNMDDQGWVPITLIASFPRVKNLTSNIQLILDSLRTSTVVEV 462
             QI+YYFS  NL +D FL+  MD  G++PITLIASF RV+ LT++I LI+ +L+ S VVE+
Sbjct:   249 QIEYYFSVDNLERDFFLRRKMDSDGFLPITLIASFHRVQALTTDISLIIKALKDSKVVEI 308

GO:0016239 "positive regulation of macroautophagy" 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

Fail to connect to STRING server

---

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	471
cd07323	75	cd07323, LAM, LA motif RNA-binding domain	3e-34
smart00715	80	smart00715, LA, Domain in the RNA-binding Lupus La	6e-29
pfam05383	59	pfam05383, La, La domain	3e-27
cd08034	73	cd08034, LARP_1_2, La RNA-binding domain proteins	1e-25
cd08038	73	cd08038, LARP_2, La RNA-binding domain of La-relat	2e-21
cd08031	75	cd08031, LARP_4_5_like, La RNA-binding domain of p	1e-20
cd08033	77	cd08033, LARP_6, La RNA-binding domain of La-relat	2e-20
cd08037	73	cd08037, LARP_1, La RNA-binding domain of La-relat	4e-20
cd08028	82	cd08028, LARP_3, La RNA-binding domain of La-relat	8e-17
cd08032	82	cd08032, LARP_7, La RNA-binding domain of La-relat	1e-15
cd08029	76	cd08029, LA_like_fungal, La-motif domain of fungal	7e-12
cd08035	75	cd08035, LARP_4, La RNA-binding domain of La-relat	4e-11
cd08030	90	cd08030, LA_like_plant, La-motif domain of plant p	5e-11
cd08036	75	cd08036, LARP_5, La RNA-binding domain of La-relat	2e-08
PHA03247	3151	PHA03247, PHA03247, large tegument protein UL36; P	3e-06
COG5193	438	COG5193, LHP1, La protein, small RNA-binding pol I	6e-06
PRK07764	824	PRK07764, PRK07764, DNA polymerase III subunits ga	2e-05
PHA03247	3151	PHA03247, PHA03247, large tegument protein UL36; P	2e-04
PRK07003	830	PRK07003, PRK07003, DNA polymerase III subunits ga	2e-04
PHA03247	3151	PHA03247, PHA03247, large tegument protein UL36; P	5e-04
PRK07003	830	PRK07003, PRK07003, DNA polymerase III subunits ga	6e-04
PHA03307	1352	PHA03307, PHA03307, transcriptional regulator ICP4	8e-04
PHA03247	3151	PHA03247, PHA03247, large tegument protein UL36; P	0.001
PRK14951	618	PRK14951, PRK14951, DNA polymerase III subunits ga	0.001
PHA03247	3151	PHA03247, PHA03247, large tegument protein UL36; P	0.002
PRK12323	700	PRK12323, PRK12323, DNA polymerase III subunits ga	0.002
COG5193	438	COG5193, LHP1, La protein, small RNA-binding pol I	0.003

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

 Score =  123 bits (310), Expect = 3e-34
 Identities = 39/67 (58%), Positives = 53/67 (79%)

Query: 398 AMLIHQIDYYFSDANLVKDEFLKSNMDDQGWVPITLIASFPRVKNLTSNIQLILDSLRTS 457
             +  Q++YYFSD NL KD FL+S MDD GWVP++L+ASF RVK LT++++LIL++LR S
Sbjct: 2   EKIKKQVEYYFSDENLCKDRFLRSLMDDDGWVPLSLLASFNRVKKLTTDVELILEALRDS 61

Query: 458 TVVEVQS 464
           +VVEV  
Sbjct: 62  SVVEVSE 68

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 =  108 bits (272), Expect = 6e-29
 Identities = 34/68 (50%), Positives = 52/68 (76%), Gaps = 1/68 (1%)

Query: 396 LAAMLIHQIDYYFSDANLVKDEFLKSNMD-DQGWVPITLIASFPRVKNLTSNIQLILDSL 454
           L   +  Q++YYFSD NL +D+FL+  MD + G+VPI+ IASF RVK+LT+++ LI+++L
Sbjct: 3   LKQKIKKQVEYYFSDENLPRDKFLRKKMDKNDGYVPISTIASFKRVKSLTTDVNLIVEAL 62

Query: 455 RTSTVVEV 462
           R+S  +EV
Sbjct: 63  RSSPKLEV 70

Length = 80

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

 Score =  103 bits (258), Expect = 3e-27
 Identities = 31/59 (52%), Positives = 47/59 (79%), Gaps = 1/59 (1%)

Query: 400 LIHQIDYYFSDANLVKDEFLKSNMD-DQGWVPITLIASFPRVKNLTSNIQLILDSLRTS 457
           +  Q++YYFSD NL +D+FL+  MD D G+VPI+ IASF R+K LT+++ LI+++LR+S
Sbjct: 1   IKKQVEYYFSDENLPRDKFLRKQMDKDPGYVPISTIASFKRIKKLTTDVNLIVEALRSS 59

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 = 99.0 bits (247), Expect = 1e-25
 Identities = 35/63 (55%), Positives = 48/63 (76%)

Query: 403 QIDYYFSDANLVKDEFLKSNMDDQGWVPITLIASFPRVKNLTSNIQLILDSLRTSTVVEV 462
           QI+YYFS  NL KD FL+  MD +G++PI LIASF RV+ LT+++ LIL++L+ STVVE+
Sbjct: 7   QIEYYFSVDNLEKDFFLRRKMDPEGYLPIALIASFHRVQALTTDVNLILEALKDSTVVEL 66

Query: 463 QSY 465
              
Sbjct: 67  VDE 69

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 = 87.3 bits (216), Expect = 2e-21
 Identities = 34/60 (56%), Positives = 47/60 (78%)

Query: 403 QIDYYFSDANLVKDEFLKSNMDDQGWVPITLIASFPRVKNLTSNIQLILDSLRTSTVVEV 462
           QI+YYFS  NL +D FL+  MD QG++PI+LIA F RV+ LT+N+ LIL++L+ ST VE+
Sbjct: 7   QIEYYFSTENLERDFFLRRKMDLQGFLPISLIAGFYRVQALTTNVDLILEALKDSTEVEI 66

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

 Score = 85.6 bits (212), Expect = 1e-20
 Identities = 30/66 (45%), Positives = 44/66 (66%)

Query: 399 MLIHQIDYYFSDANLVKDEFLKSNMDDQGWVPITLIASFPRVKNLTSNIQLILDSLRTST 458
           +L  Q++YYFS  NL  D +L S MD   +VPI  IA+F ++K LT++I LI+++LR S 
Sbjct: 3   LLKRQLEYYFSRENLANDAYLLSQMDSDQYVPIWTIANFNKIKKLTTDIDLIVEALRESP 62

Query: 459 VVEVQS 464
            V+V  
Sbjct: 63  NVQVDE 68

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

 Score = 84.6 bits (210), Expect = 2e-20
 Identities = 29/65 (44%), Positives = 47/65 (72%), Gaps = 2/65 (3%)

Query: 400 LIHQIDYYFSDANLVKDEFLKSNM--DDQGWVPITLIASFPRVKNLTSNIQLILDSLRTS 457
           ++ Q++YYFSD NL+KD FL  ++  + +G+VPI LIASF +VK LT + +++  +LR S
Sbjct: 4   IVKQVEYYFSDENLLKDAFLLKHVRRNKEGYVPIKLIASFKKVKALTRDWRVVAAALRRS 63

Query: 458 TVVEV 462
           + + V
Sbjct: 64  SKLVV 68

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

 Score = 83.8 bits (207), Expect = 4e-20
 Identities = 33/60 (55%), Positives = 47/60 (78%)

Query: 403 QIDYYFSDANLVKDEFLKSNMDDQGWVPITLIASFPRVKNLTSNIQLILDSLRTSTVVEV 462
           QI+YYFS  NL +D FL+  MD+ G++P+TLIASF RV+ LT++I LI+ +L+ S VVE+
Sbjct: 7   QIEYYFSVDNLERDFFLRRKMDEDGFLPVTLIASFHRVQALTTDISLIIKALKDSKVVEI 66

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

 Score = 74.6 bits (184), Expect = 8e-17
 Identities = 29/70 (41%), Positives = 48/70 (68%), Gaps = 3/70 (4%)

Query: 396 LAAMLIHQIDYYFSDANLVKDEFLKSNM-DDQGWVPITLIASFPRVKNLTSNIQLILDSL 454
           L   +I QI+YYF D NL +D+FLK  + +D GWVP+ ++  F R+K+L+S+ ++I  +L
Sbjct: 4   LEKKIIRQIEYYFGDFNLPRDKFLKEQIKEDDGWVPMEVMLKFNRLKSLSSDPEVIAKAL 63

Query: 455 RTST--VVEV 462
           + S   ++EV
Sbjct: 64  KKSKSGLIEV 73

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

 Score = 71.5 bits (175), Expect = 1e-15
 Identities = 25/63 (39%), Positives = 44/63 (69%), Gaps = 2/63 (3%)

Query: 403 QIDYYFSDANLVKDEFLKSNMDDQ--GWVPITLIASFPRVKNLTSNIQLILDSLRTSTVV 460
           Q+D++F D NL KD FL+  ++    G++ I+L+ SF ++K LT++ +LI  +L+ S+VV
Sbjct: 12  QVDFWFGDVNLHKDRFLREQIEKSRDGYIDISLLVSFNKMKKLTTDGKLIARALKNSSVV 71

Query: 461 EVQ 463
           E+ 
Sbjct: 72  ELN 74

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

 Score = 60.4 bits (147), Expect = 7e-12
 Identities = 25/62 (40%), Positives = 42/62 (67%), Gaps = 3/62 (4%)

Query: 403 QIDYYFSDANLVKDEFL--KSNMDDQGWVPITLIASFPRVKNLTSNIQLILDSLRTSTVV 460
           Q+++YFSD+NL  D+FL   +   + GWVPI  IASF R++     ++ ++++LR S ++
Sbjct: 7   QVEFYFSDSNLPTDKFLWTLTGGSNNGWVPIKTIASFKRMRRFQ-PLEAVVEALRESELL 65

Query: 461 EV 462
           EV
Sbjct: 66  EV 67

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|153404 cd08035, LARP_4, La RNA-binding domain of La-related protein 4

 Score = 58.5 bits (141), Expect = 4e-11
 Identities = 28/63 (44%), Positives = 42/63 (66%)

Query: 400 LIHQIDYYFSDANLVKDEFLKSNMDDQGWVPITLIASFPRVKNLTSNIQLILDSLRTSTV 459
           L  Q+++ FS  NL KD +L S MD   +VPI  +A+   +K LT+++ LILD LR+S +
Sbjct: 4   LKKQLEFCFSRENLSKDLYLISQMDSDQFVPIWTVANMEGIKKLTTDMDLILDVLRSSPM 63

Query: 460 VEV 462
           V+V
Sbjct: 64  VQV 66

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. Length = 75

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

 Score = 58.6 bits (142), Expect = 5e-11
 Identities = 25/81 (30%), Positives = 46/81 (56%), Gaps = 14/81 (17%)

Query: 396 LAAMLIHQIDYYFSDANLVKDEFLKSNM--DDQGWVPITLIASFPRVKNL---------- 443
               ++ Q+++YFSD+NL +D+FL   +  D  G V + LI SF R+++L          
Sbjct: 1   TKEKVLRQVEFYFSDSNLPRDDFLLEEVEEDPDGMVSLALICSFSRMRSLLGLGGGKPED 60

Query: 444 --TSNIQLILDSLRTSTVVEV 462
                ++ + ++LRTST+++V
Sbjct: 61  VPEDTLKAVAEALRTSTLLKV 81

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|153405 cd08036, LARP_5, La RNA-binding domain of La-related protein 5

 Score = 51.2 bits (122), Expect = 2e-08
 Identities = 21/59 (35%), Positives = 37/59 (62%)

Query: 404 IDYYFSDANLVKDEFLKSNMDDQGWVPITLIASFPRVKNLTSNIQLILDSLRTSTVVEV 462
           +++  S  NL  D +L S MD   +VPI  +A+   +K L++++ LI+D LR+  +V+V
Sbjct: 8   LEFCLSRENLASDMYLISQMDSDQYVPIMTVANLDHIKKLSTDVDLIVDVLRSLPLVQV 66

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. Length = 75

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

 Score = 49.6 bits (118), Expect = 3e-06
 Identities = 44/223 (19%), Positives = 68/223 (30%), Gaps = 6/223 (2%)

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

Query: 107  AARPKKLAWNKPSNGVVEVGPVMGAASWPALSESTKPSPKSSSADSSSSKPVADGSVSGT 166
            +  P       P   V+     +  A+ PA       S + ++       P     + G+
Sbjct: 2797 SL-PSPWDPADPPAAVLAPAAALPPAASPAGPLPPPTSAQPTAPPPPPGPPPPSLPLGGS 2855

Query: 167  QVPLIPHLPQKVSNANANPNSNANRTMPARQRLKRSGGGVSNAGSGPAQTRPTQPPPPPP 226
              P      ++   + +     A    P  +RL R    VS +    A        PP P
Sbjct: 2856 VAPGGDV--RRRPPSRSPAAKPAAPARPPVRRLARPA--VSRSTESFALPPDQPERPPQP 2911

Query: 227  PPPFPVFPMPPNSFANLVTAMPDPSPREPLYRGSNWDARPVGG 269
              P P  P P           P P PR         D    G 
Sbjct: 2912 QAPPPPQPQPQPPPPPQPQPPPPPPPRPQPPLAPTTDPAGAGE 2954

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 = 48.1 bits (114), Expect = 6e-06
 Identities = 40/170 (23%), Positives = 58/170 (34%), Gaps = 23/170 (13%)

Query: 296 NYNNNFGGRHDQDRGNYSNARDAHVQPQRGPPRGFVRPAPPNAAAFAPPQPMR-PFPNP- 353
            Y N FG     +        D  +Q             PP+  A       R  + N  
Sbjct: 177 VYQNGFGKEDVNNASRPEQQEDLEIQ------------FPPHYHAPPSQIRNRRDWLNKN 224

Query: 354 ---MGFPEFIYIPPMPVEAAALRGVTGMPPF--IPPAPVLMPVPEPSLAAMLI-HQIDYY 407
                F EF Y            G      +   P       V    L+ M    QI+YY
Sbjct: 225 FRGSVFVEFKYFR---EAQRFNNGFYRNKKYPNDPETVYYYSVEPILLSIMAKKEQIEYY 281

Query: 408 FSDANLVKDEFLKSNMDDQGWVPITLIASFPRVKNLTSNIQLILDSLRTS 457
           FS+ NL  DEFL+      G++P++ I  F R  +   +  LIL +++  
Sbjct: 282 FSEENLKSDEFLRKKFKKAGFIPLSFIGKFYRNLSFGGDKNLILAAMKEV 331

Length = 438

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

 Score = 46.9 bits (112), Expect = 2e-05
 Identities = 29/203 (14%), Positives = 48/203 (23%), Gaps = 14/203 (6%)

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

Query: 116 NKPSNGVVEVGPVMGAASWPALSESTKPSPKSSSADSSSSKPVADGSVSGTQVPLIPHLP 175
                      P          +++   +P +     + + P A    +  Q    P   
Sbjct: 659 ----------VPDASDGGDGWPAKAGGAAPAAPPPAPAPAAPAAPAGAAPAQPAPAPAAT 708

Query: 176 QKVSNANANPNSNANRTMPARQRLKRSGGGVSNAGSGPAQTRPTQPPPPPPPPPFPVFPM 235
                A+            A      +   V           P   P  PPPPP P    
Sbjct: 709 PPAGQADDPAAQPPQAAQGASAPSPAADDPVPLPPEPDDPPDPAGAPAQPPPPPAPAPAA 768

Query: 236 PPNSFANLVTAMPDPSPREPLYR 258
            P +          PS  E +  
Sbjct: 769 APAA----APPPSPPSEEEEMAE 787

Length = 824

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

 Score = 43.8 bits (103), Expect = 2e-04
 Identities = 35/211 (16%), Positives = 61/211 (28%), Gaps = 15/211 (7%)

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

Query: 119  SNGVVEVGPVMGAASWPALS------ESTKPSPKSSSADSSSSKPVADGSVSGTQVPLIP 172
            +             + PA++      ES       +   ++   P A    + +    +P
Sbjct: 2770 APPAAPAAGPPRRLTRPAVASLSESRESLPSPWDPADPPAAVLAPAAALPPAASPAGPLP 2829

Query: 173  HLPQKVSNANANPNSNANRTMPARQRLKRSGGGVSNAGSGPAQTRPTQPPPPP------- 225
                    A   P      ++P    +   G       S     +P  P  PP       
Sbjct: 2830 PPTSAQPTAPPPPPGPPPPSLPLGGSVAPGGDVRRRPPSRSPAAKPAAPARPPVRRLARP 2889

Query: 226  -PPPPFPVFPMPPNSFANLVTAMPDPSPREP 255
                    F +PP+           P P+  
Sbjct: 2890 AVSRSTESFALPPDQPERPPQPQAPPPPQPQ 2920

Length = 3151

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

 Score = 43.7 bits (103), Expect = 2e-04
 Identities = 39/230 (16%), Positives = 68/230 (29%), Gaps = 22/230 (9%)

Query: 48  PASTTVNHSQSSPSPPLTTTSLPEPTGSVSPSKAVASAP-SSPPPDNPIAAGSSDADKGN 106
            A+   +   +  +      +   P  + + +   A AP ++P P      G   AD   
Sbjct: 388 AAAVGASAVPAVTAVTGAAGAALAPKAAAAAAATRAEAPPAAPAPPATADRGDDAADGDA 447

Query: 107 AARPKKLAWNKPSNGVVEVGPVMGAASWPALSESTKPSPKSSSADSSSSKPVADGSVSGT 166
               K  A     +   E      A S  A + ++   P ++   +  +   +  + +  
Sbjct: 448 PVPAKANARASADSRCDERDAQPPADSGSASAPASDAPPDAAFEPAPRAAAPSAATPAAV 507

Query: 167 QVPLIPHLPQKVSN--ANANPNSNANRTMPARQRLKRSGGGVS-------NAG------- 210
                P    +     A A P   A    PA        GG +       NAG       
Sbjct: 508 PDARAPAAASREDAPAAAAPPAPEARPPTPAAAAPAARAGGAAAALDVLRNAGMRVSSDR 567

Query: 211 ----SGPAQTRPTQPPPPPPPPPFPVFPMP-PNSFANLVTAMPDPSPREP 255
               +  A+        P P  P     +P P + A    A P+ + R  
Sbjct: 568 GARAAAAAKPAAAPAAAPKPAAPRVAVQVPTPRARAATGDAPPNGAARAE 617

Length = 830

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

 Score = 42.6 bits (100), Expect = 5e-04
 Identities = 77/376 (20%), Positives = 100/376 (26%), Gaps = 52/376 (13%)

Query: 63   PLTTTSLPEPTGSVSPSKAVASAPSSPPPDNPIAAGSSDADKGNAARPKKLAWNK----- 117
            P    + P+P G   P      APS   P     A   D   G    P+ L W +     
Sbjct: 2489 PFAAGAAPDPGGGGPPDPDAPPAPSRLAP-----AILPDEPVGEPVHPRMLTWIRGLEEL 2543

Query: 118  PSNGVVEVGPVMGAASWPALSESTKPSPKSS---------------SADSSSSKPVADGS 162
             S+   +  P +  A+ PA  + + P P+ +                A   S++P A   
Sbjct: 2544 ASDDAGDPPPPLPPAAPPAAPDRSVPPPRPAPRPSEPAVTSRARRPDAPPQSARPRAPVD 2603

Query: 163  VSGT-------------QVPLIPHLPQKVSNANANPNSNANRT-MPARQRLKRSGGGVSN 208
              G                   P  P     AN            P R R   + G VS 
Sbjct: 2604 DRGDPRGPAPPSPLPPDTHAPDPPPPSPSPAANEPDPHPPPTVPPPERPRDDPAPGRVSR 2663

Query: 209  AGSGPAQTRPTQPPPPPPPPPFPVFPMPPNSFANLVTAMPDPSPREPLYRGSNW----DA 264
                    R  Q   PP  P          S  +L  A P P P  P             
Sbjct: 2664 PRRARRLGRAAQASSPPQRPRRRAARPTVGSLTSL--ADPPPPPPTPEPAPHALVSATPL 2721

Query: 265  RPVGGFVSQSHPMNDQRNSSRRGNYGQRGDGNYNNNFGGRHDQDRGNYSNARDAHVQPQR 324
             P      Q+ P      +      G    G        R     G  + A  A   P  
Sbjct: 2722 PPGPAAARQASPALPAAPAPPAVPAGPATPGGPARP--ARPPTTAGPPAPAPPA--APAA 2777

Query: 325  GPPRGFVRPAPPNAAAFAPPQPMRPFPNPMGFPEFIYIPPMPVEAAALRGVTGMPPFIPP 384
            GPPR   RPA  + +      P    P     P    + P      A      +PP    
Sbjct: 2778 GPPRRLTRPAVASLSESRESLPSPWDPAD---PPAAVLAPAAALPPAASPAGPLPPPTSA 2834

Query: 385  APVLMPVPEPSLAAML 400
             P   P P       L
Sbjct: 2835 QPTAPPPPPGPPPPSL 2850

Length = 3151

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

 Score = 42.1 bits (99), Expect = 6e-04
 Identities = 30/181 (16%), Positives = 50/181 (27%), Gaps = 9/181 (4%)

Query: 62  PPLTTTSLPEPTGSVSPSKAV----ASAPSSPPPDNPIAAGSSDADKGNAARPKKLAWNK 117
           P +T    P        + AV    A A ++       A  +     G A  PK  A   
Sbjct: 360 PAVTGGGAPGGGVPARVAGAVPAPGARAAAAVGASAVPAVTAVTGAAGAALAPKAAA--- 416

Query: 118 PSNGVVEVGPVMGAASWPALSESTKPSPKSSSADSSSSKPVADGSVSG--TQVPLIPHLP 175
            +       P    A           +   +   + ++   +  S        P      
Sbjct: 417 AAAATRAEAPPAAPAPPATADRGDDAADGDAPVPAKANARASADSRCDERDAQPPADSGS 476

Query: 176 QKVSNANANPNSNANRTMPARQRLKRSGGGVSNAGSGPAQTRPTQPPPPPPPPPFPVFPM 235
                ++A P++       A      +   V +A +  A +R   P    PP P    P 
Sbjct: 477 ASAPASDAPPDAAFEPAPRAAAPSAATPAAVPDARAPAAASREDAPAAAAPPAPEARPPT 536

Query: 236 P 236
           P
Sbjct: 537 P 537

Length = 830

>gnl|CDD|223039 PHA03307, PHA03307, transcriptional regulator ICP4; Provisional

 Score = 41.7 bits (98), Expect = 8e-04
 Identities = 40/226 (17%), Positives = 69/226 (30%), Gaps = 18/226 (7%)

Query: 47  DPASTTVNHSQSSPSPPLTTTSLPEPTGSV--SPSKAVASAPSSPPPDNPIAAGSSDADK 104
              +     S  +  PP T  +   P      SP  A AS+P+  P  +      + +  
Sbjct: 179 PEETARAPSSPPAEPPPSTPPAAASPRPPRRSSPISASASSPAPAPGRSAADDAGASSSD 238

Query: 105 GNAARPKKLAWN------KPSNGVVEVGPVMGAASWPALSESTKPSPKSSSADSSSSKPV 158
            +++      W        P    + +   +  AS      S      SSS+    S   
Sbjct: 239 SSSSESSGCGWGPENECPLPRPAPITLPTRIWEASGWNGPSSRPGPASSSSSPRERSPSP 298

Query: 159 ADGSVSGTQVPLIPHLPQKVSNANANPNSNANRTMPARQRLKRSGGGVSNAGSGPAQTRP 218
           +  S         P  P+  S+++++  S+++ T         S      A   P  +  
Sbjct: 299 SPSSPGS---GPAPSSPRASSSSSSSRESSSSST-------SSSSESSRGAAVSPGPSPS 348

Query: 219 TQPPPPPPPPPFPVFPMPPNSFANLVTAMPDPSPREPLYRGSNWDA 264
             P P  PPPP            +   + P  S   P  R +    
Sbjct: 349 RSPSPSRPPPPADPSSPRKRPRPSRAPSSPAASAGRPTRRRARAAV 394

Length = 1352

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

 Score = 41.5 bits (97), Expect = 0.001
 Identities = 68/385 (17%), Positives = 94/385 (24%), Gaps = 28/385 (7%)

Query: 30   RRKNSPSQWSEVVRGEHDPASTTVNHSQSSPSPPLTT-----TSLPEPTGSVSPSKAVAS 84
            RR ++P Q S   R   D        +  SP PP T         P P  +        +
Sbjct: 2587 RRPDAPPQ-SARPRAPVDDRGDPRGPAPPSPLPPDTHAPDPPPPSPSPAANEPDPHPPPT 2645

Query: 85   APSSPPPDNPIAAGSSDADKGNAARPKKLAWNKPSNGVVE------VGPVMGAASWPALS 138
             P    P +  A G     +      +    + P            VG +   A  P   
Sbjct: 2646 VPPPERPRDDPAPGRVSRPRRARRLGRAAQASSPPQRPRRRAARPTVGSLTSLADPPPPP 2705

Query: 139  ESTKPSPKSSSADSSSSKPVADGSVSGTQVPLIPHLPQKVSNANANPNSNANRTMPARQR 198
             + +P+P +  + +      A    +   +P  P  P  V    A P   A    P    
Sbjct: 2706 PTPEPAPHALVSATPLPPGPAAARQASPALPAAP-APPAVPAGPATPGGPARPARPPTT- 2763

Query: 199  LKRSGGGVSNAGSGPAQTRPTQPPPPPPPPPFPVFPMPPNSFANLVTAMPDPSPREPLYR 258
                          P       PP     P          S  +       P+       
Sbjct: 2764 -------AGPPAPAPPAAPAAGPPRRLTRPAVASLSESRESLPSPWDPADPPAAVLAPAA 2816

Query: 259  GSNWDARPVGGFVSQSHPMNDQRNSSRRGNYGQRGDGNYNNNFGGRHDQDRGNYSNARDA 318
                 A P G     +                        +   G   + R    +    
Sbjct: 2817 ALPPAASPAGPLPPPTSAQ--PTAPPPPPGPPPPSLPLGGSVAPGGDVRRRPPSRSPAAK 2874

Query: 319  HVQPQRGPPRGFVRPAPPNAA---AFAPPQPMRPFPNPMGFP--EFIYIPPMPVEAAALR 373
               P R P R   RPA   +    A  P QP RP       P       PP P       
Sbjct: 2875 PAAPARPPVRRLARPAVSRSTESFALPPDQPERPPQPQAPPPPQPQPQPPPPPQPQPPPP 2934

Query: 374  GVTGMPPFIPPAPVLMPVPEPSLAA 398
                  P + P        EPS A 
Sbjct: 2935 PPPRPQPPLAPTTDPAGAGEPSGAV 2959

Length = 3151

>gnl|CDD|237865 PRK14951, PRK14951, DNA polymerase III subunits gamma and tau; Provisional

 Score = 40.9 bits (96), Expect = 0.001
 Identities = 26/148 (17%), Positives = 39/148 (26%), Gaps = 13/148 (8%)

Query: 117 KPSNGVVEVGPVMGAASWPALSESTKPSPKSSSADSSSSKPVADGSVSGTQVPLIPHLPQ 176
           KP+       P          + +   +P + +A + +       + S    P     P 
Sbjct: 365 KPAAAAEAAAPAEKKTPARPEAAAPAAAPVAQAAAAPAPAAAPAAAASAPAAPPAAAPPA 424

Query: 177 KVSNANANPNSNANRTMPARQRLKRSGGGVSNAGSGPAQTRPTQPPPPPPPPPFPVFPMP 236
            V+   A   + A    PA   L  +      A    A      P P          P P
Sbjct: 425 PVAAPAAAAPAAAPAAAPAAVALAPAPPAQ-AAPETVAIPVRVAPEPAVASAA----PAP 479

Query: 237 PNSFANLVTAMPDPSPREPLYRGSNWDA 264
                    A P  +   P   G  W A
Sbjct: 480 A--------AAPAAARLTPTEEGDVWHA 499

Length = 618

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

 Score = 40.7 bits (95), Expect = 0.002
 Identities = 70/393 (17%), Positives = 105/393 (26%), Gaps = 30/393 (7%)

Query: 5    ADSTSNHVTPRGSGFSGDGLSSPQLRRKNSPSQWSEVVRGEHDPASTTVNHSQSSPSPPL 64
              S S                  + R   +P + S   R      +   +     P    
Sbjct: 2628 PPSPSPAANEPDPHPPPTVPPPERPRDDPAPGRVSRPRRARRLGRAAQASSPPQRPRRR- 2686

Query: 65   TTTSLPEPTGSVSPSKAVASAPSSPPPDNPIAAGSSDADKGNAARPKKLAWNKPSNGVVE 124
               +     GS++        P +P P       ++    G AA  +      P+     
Sbjct: 2687 ---AARPTVGSLTSLADPPPPPPTPEPAPHALVSATPLPPGPAAARQA----SPALPAAP 2739

Query: 125  VGPVMGAASWPALSESTKPSPKSSSADSSSSKPVADGSVSGTQVPLIPHLPQKVS-NANA 183
              P + A        +    P +++   + + P A  +    ++          S  +  
Sbjct: 2740 APPAVPAGPATPGGPARPARPPTTAGPPAPAPPAAPAAGPPRRLTRPAVASLSESRESLP 2799

Query: 184  NPNSNANRTMPARQRLKRSGGGVSNAGSGPAQTRPTQPPPPPPPPPFPVFPMPPNSFANL 243
            +P   A+                S AG  P  T      PPPPP P P    P       
Sbjct: 2800 SPWDPADPPAAVLAPAAALPPAASPAGPLPPPTSAQPTAPPPPPGPPP----PSLPLGGS 2855

Query: 244  VTAMPDPSPREPLYRGSNWDARPVGGFVSQSHPMNDQRNSSRRGNYGQRGDGNYNNNFGG 303
            V    D   R P          P     + + P              +        +F  
Sbjct: 2856 VAPGGDVRRRPP-------SRSPAAKPAAPARP--------PVRRLARPAVSRSTESFAL 2900

Query: 304  RHDQDRGNYSNARDAHVQPQRGPPRGFVRPAPPNAAAFAPPQPMRPFPNPMGFPEFIYIP 363
              DQ             QPQ  PP    +P PP      P  P+ P  +P G  E     
Sbjct: 2901 PPDQPERPPQPQAPPPPQPQPQPPPP-PQPQPPPPPPPRPQPPLAPTTDPAGAGEPSGAV 2959

Query: 364  PMPVEAAALRGVTGMPPFIPPAPV-LMPVPEPS 395
            P P   A + G   +P F  P P      P  S
Sbjct: 2960 PQPWLGALVPGRVAVPRFRVPQPAPSREAPASS 2992

Length = 3151

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

 Score = 40.2 bits (94), Expect = 0.002
 Identities = 29/132 (21%), Positives = 41/132 (31%), Gaps = 5/132 (3%)

Query: 130 GAASWPALSESTKPSPKSSSADSSSSKPVADGSVSGTQVPLIPHLPQKVSNANANPNSNA 189
           GA    A +        +++A ++++   A    +    P      + V+ A A  +   
Sbjct: 371 GAGPATAAAAPVAQPAPAAAAPAAAAPAPAAPPAAPAAAPAAAAAARAVAAAPARRSPAP 430

Query: 190 NRTMPARQRLKRSGGGVSNAGSGPA-----QTRPTQPPPPPPPPPFPVFPMPPNSFANLV 244
                ARQ   R  GG       PA       RP    P P        P      A   
Sbjct: 431 EALAAARQASARGPGGAPAPAPAPAAAPAAAARPAAAGPRPVAAAAAAAPARAAPAAAPA 490

Query: 245 TAMPDPSPREPL 256
            A  DP P E L
Sbjct: 491 PADDDPPPWEEL 502

Length = 700

>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 = 39.6 bits (92), Expect = 0.003
 Identities = 29/89 (32%), Positives = 41/89 (46%), Gaps = 9/89 (10%)

Query: 386 PVLMPVPEPSLAAMLIHQIDYYFS-----DANLVKDEFLKS----NMDDQGWVPITLIAS 436
               P    S     + Q+++YFS     D+N  KD+FLK+    N     WVPI  IA+
Sbjct: 61  EDKNPSKLTSNTKWTLKQVEFYFSGSKDTDSNFPKDKFLKTTAPKNKKRDKWVPIKTIAT 120

Query: 437 FPRVKNLTSNIQLILDSLRTSTVVEVQSY 465
           F R+KN  S +  +  +LR S    V   
Sbjct: 121 FNRMKNSGSPVSAVSGALRKSLDARVLEV 149

Length = 438

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	471
cd08037	73	LARP_1 La RNA-binding domain of La-related protein	99.96
cd08038	73	LARP_2 La RNA-binding domain of La-related protein	99.96
cd08036	75	LARP_5 La RNA-binding domain of La-related protein	99.96
cd08035	75	LARP_4 La RNA-binding domain of La-related protein	99.96
cd08034	73	LARP_1_2 La RNA-binding domain proteins similar to	99.96
cd08031	75	LARP_4_5_like La RNA-binding domain of proteins si	99.95
cd08032	82	LARP_7 La RNA-binding domain of La-related protein	99.95
cd08033	77	LARP_6 La RNA-binding domain of La-related protein	99.95
smart00715	80	LA Domain in the RNA-binding Lupus La protein; unk	99.95
cd08028	82	LARP_3 La RNA-binding domain of La-related protein	99.94
cd08029	76	LA_like_fungal La-motif domain of fungal proteins	99.94
cd07323	75	LAM LA motif RNA-binding domain. This domain is fo	99.93
cd08030	90	LA_like_plant La-motif domain of plant proteins si	99.93
PF05383	61	La: La domain; InterPro: IPR006630 Human Ro ribonu	99.89
KOG1855	484	consensus Predicted RNA-binding protein [General f	99.82
KOG2590	448	consensus RNA-binding protein LARP/SRO9 and relate	99.79
KOG2591	684	consensus c-Mpl binding protein, contains La domai	99.75
KOG4213	205	consensus RNA-binding protein La [RNA processing a	99.6
COG5193	438	LHP1 La protein, small RNA-binding pol III transcr	99.18
COG5193	438	LHP1 La protein, small RNA-binding pol III transcr	98.68
KOG2590	448	consensus RNA-binding protein LARP/SRO9 and relate	93.72
PF01885	186	PTS_2-RNA: RNA 2'-phosphotransferase, Tpt1 / KptA	91.29
PRK00819	179	RNA 2'-phosphotransferase; Reviewed	91.14
PF09421	989	FRQ: Frequency clock protein; InterPro: IPR018554	89.51
KOG2278	207	consensus RNA:NAD 2'-phosphotransferase TPT1 [Tran	86.18

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

Probab=99.96  E-value=8.5e-31  Score=214.23  Aligned_cols=72  Identities=46%  Similarity=0.764  Sum_probs=70.8

Q ss_pred             HHHHhhhhhhcCcCCcCcchhhhhccCCCccEehhhhccchhhhhhccCHHHHHHHHhcCCcEEEcCCcccc
Q 012097          398 AMLIHQIDYYFSDANLVKDEFLKSNMDDQGWVPITLIASFPRVKNLTSNIQLILDSLRTSTVVEVQSYLFID  469 (471)
Q Consensus       398 ~~I~kQIEYYFSD~NL~kD~FLR~~Md~dG~VPIslIasFnRVK~LT~D~~lI~eALr~S~~LEVseDkiR~  469 (471)
                      ++|++||||||||+||++|.|||++|+.||||||++|++|||||+||.|+++|++||+.|++|||++|+||+
T Consensus         2 ~~I~~QvEyYFSd~NL~~D~fLr~~md~dG~Vpi~~ia~F~rmk~Lt~d~~~I~~Al~~S~~vev~~~~~r~   73 (73)
T cd08037           2 DYIKRQIEYYFSVDNLERDFFLRRKMDEDGFLPVTLIASFHRVQALTTDISLIIKALKDSKVVEIIDMKIRR   73 (73)
T ss_pred             hHHHHHHHHhccHhhhccCHHHHHHhccCCCEeHHHHhcchHHHHhcCCHHHHHHHHHcCCeEEEecchhcC
Confidence            689999999999999999999999999999999999999999999999999999999999999999999995

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.

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

Probab=99.96  E-value=1.4e-30  Score=212.99  Aligned_cols=72  Identities=47%  Similarity=0.743  Sum_probs=70.8

Q ss_pred             HHHHhhhhhhcCcCCcCcchhhhhccCCCccEehhhhccchhhhhhccCHHHHHHHHhcCCcEEEcCCcccc
Q 012097          398 AMLIHQIDYYFSDANLVKDEFLKSNMDDQGWVPITLIASFPRVKNLTSNIQLILDSLRTSTVVEVQSYLFID  469 (471)
Q Consensus       398 ~~I~kQIEYYFSD~NL~kD~FLR~~Md~dG~VPIslIasFnRVK~LT~D~~lI~eALr~S~~LEVseDkiR~  469 (471)
                      ++|++||||||||+||++|.|||++|+.||||||++|++|||||+|+.|+++|++||+.|+.|||++|+||+
T Consensus         2 e~I~~QvEfYFSd~NL~~D~fLr~~m~~~G~Vpl~~ia~F~rmk~lt~d~~~I~~Al~~S~~ve~~~~~~r~   73 (73)
T cd08038           2 EYIKRQIEYYFSTENLERDFFLRRKMDLQGFLPISLIAGFYRVQALTTNVDLILEALKDSTEVEIVDQKIRR   73 (73)
T ss_pred             hHHHhhHHhhcchhhhccCHHHHHHhCCCCCEeHHHHhcchHHHHhcCCHHHHHHHHHcCCeEEEeCCcccC
Confidence            689999999999999999999999999999999999999999999999999999999999999999999995

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.

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

Probab=99.96  E-value=1.1e-30  Score=214.47  Aligned_cols=71  Identities=31%  Similarity=0.544  Sum_probs=68.6

Q ss_pred             HHHHhhhhhhcCcCCcCcchhhhhccCCCccEehhhhccchhhhhhccCHHHHHHHHhcCCcEEEcCCccc
Q 012097          398 AMLIHQIDYYFSDANLVKDEFLKSNMDDQGWVPITLIASFPRVKNLTSNIQLILDSLRTSTVVEVQSYLFI  468 (471)
Q Consensus       398 ~~I~kQIEYYFSD~NL~kD~FLR~~Md~dG~VPIslIasFnRVK~LT~D~~lI~eALr~S~~LEVseDkiR  468 (471)
                      +.|++||||||||+||++|+|||++||.||||||++|++|||||+||.|+++|++||+.|++|||++|+.+
T Consensus         2 e~i~kQvEyYFS~~NL~~D~fLr~~md~~g~Vpi~~ia~F~rik~Lt~D~~lI~~aL~~S~~vevse~g~k   72 (75)
T cd08036           2 ELLKKTLEFCLSRENLASDMYLISQMDSDQYVPIMTVANLDHIKKLSTDVDLIVDVLRSLPLVQVDEKGEK   72 (75)
T ss_pred             hhhhcceeeeechhhccccHHHHHHhccCCCEehHHHhccHHHHHhcCCHHHHHHHHhhCCeEEECCCCCc
Confidence            68999999999999999999999999999999999999999999999999999999999999999888753

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=99.96  E-value=2e-30  Score=213.07  Aligned_cols=71  Identities=39%  Similarity=0.583  Sum_probs=68.8

Q ss_pred             HHHHHhhhhhhcCcCCcCcchhhhhccCCCccEehhhhccchhhhhhccCHHHHHHHHhcCCcEEEcCCcc
Q 012097          397 AAMLIHQIDYYFSDANLVKDEFLKSNMDDQGWVPITLIASFPRVKNLTSNIQLILDSLRTSTVVEVQSYLF  467 (471)
Q Consensus       397 ~~~I~kQIEYYFSD~NL~kD~FLR~~Md~dG~VPIslIasFnRVK~LT~D~~lI~eALr~S~~LEVseDki  467 (471)
                      +++|++||||||||+||++|.||+++||.||||||++|++|||||+||.|+++|++||+.|++|||+||+.
T Consensus         1 ~e~i~~QvEyYFSd~NL~~D~fL~~~md~~G~Vpi~~iasF~rik~lt~d~~~I~~AL~~S~~levsedg~   71 (75)
T cd08035           1 RECLKKQLEFCFSRENLSKDLYLISQMDSDQFVPIWTVANMEGIKKLTTDMDLILDVLRSSPMVQVDETGE   71 (75)
T ss_pred             ChHHHhhHHhhcCHhhcccCHHHHHhhCcCCCEehHHHhccHHHHHhcCCHHHHHHHHHcCCeEEEcCCCC
Confidence            36899999999999999999999999999999999999999999999999999999999999999998876

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.

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

Probab=99.96  E-value=5.6e-30  Score=209.27  Aligned_cols=73  Identities=48%  Similarity=0.733  Sum_probs=71.0

Q ss_pred             HHHHHhhhhhhcCcCCcCcchhhhhccCCCccEehhhhccchhhhhhccCHHHHHHHHhcCCcEEEcCCcccc
Q 012097          397 AAMLIHQIDYYFSDANLVKDEFLKSNMDDQGWVPITLIASFPRVKNLTSNIQLILDSLRTSTVVEVQSYLFID  469 (471)
Q Consensus       397 ~~~I~kQIEYYFSD~NL~kD~FLR~~Md~dG~VPIslIasFnRVK~LT~D~~lI~eALr~S~~LEVseDkiR~  469 (471)
                      +++|++||||||||+||+||.||+++|+.+|||||++|++|+|||+|+.|.++|++||+.|+.|||++|+||+
T Consensus         1 ~~~i~~QvEfYFSd~NL~~D~fLr~~m~~~G~Vpl~~i~~F~rmk~l~~d~~~i~~Al~~S~~lev~e~kvR~   73 (73)
T cd08034           1 KEYIKKQIEYYFSVDNLEKDFFLRRKMDPEGYLPIALIASFHRVQALTTDVNLILEALKDSTVVELVDEKVRC   73 (73)
T ss_pred             ChHHHhhHHhhcCHhhhccCHHHHHHcCCCCCEeHHHHhccHHHHHHcCCHHHHHHHHHcCCeEEEecCeecC
Confidence            3689999999999999999999999999999999999999999999999999999999999999999999985

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.

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

Probab=99.95  E-value=4.4e-29  Score=204.87  Aligned_cols=71  Identities=42%  Similarity=0.670  Sum_probs=69.2

Q ss_pred             HHHHhhhhhhcCcCCcCcchhhhhccCCCccEehhhhccchhhhhhccCHHHHHHHHhcCCcEEEcCCccc
Q 012097          398 AMLIHQIDYYFSDANLVKDEFLKSNMDDQGWVPITLIASFPRVKNLTSNIQLILDSLRTSTVVEVQSYLFI  468 (471)
Q Consensus       398 ~~I~kQIEYYFSD~NL~kD~FLR~~Md~dG~VPIslIasFnRVK~LT~D~~lI~eALr~S~~LEVseDkiR  468 (471)
                      ++|++||||||||+||+||+||+++|+.||||+|++|++|||||+||.|.++|++||+.|+.|||++|+.|
T Consensus         2 ~~i~~QvEfYFSd~NL~~D~fL~~~m~~dG~Vpl~~i~~F~rmk~lt~d~~~i~~Al~~S~~lev~ed~~~   72 (75)
T cd08031           2 ELLKRQLEYYFSRENLANDAYLLSQMDSDQYVPIWTIANFNKIKKLTTDIDLIVEALRESPNVQVDEKGEK   72 (75)
T ss_pred             hHHHHHHHHHcCHhhhccCHHHHHHhCCCCCEEHHHHhCchhHHHHcCCHHHHHHHHHhCCeEEEcCCCCc
Confidence            68999999999999999999999999999999999999999999999999999999999999999999875

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.

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

Probab=99.95  E-value=8.4e-29  Score=206.37  Aligned_cols=74  Identities=36%  Similarity=0.631  Sum_probs=71.4

Q ss_pred             HHHHHHHHhhhhhhcCcCCcCcchhhhhccC--CCccEehhhhccchhhhhhccCHHHHHHHHhcCCcEEEcCCcc
Q 012097          394 PSLAAMLIHQIDYYFSDANLVKDEFLKSNMD--DQGWVPITLIASFPRVKNLTSNIQLILDSLRTSTVVEVQSYLF  467 (471)
Q Consensus       394 ~~L~~~I~kQIEYYFSD~NL~kD~FLR~~Md--~dG~VPIslIasFnRVK~LT~D~~lI~eALr~S~~LEVseDki  467 (471)
                      .+|+++|++||||||||+||++|+||+++|+  .||||||++|++|||||+||.|+++|++||+.|++|||++|+.
T Consensus         3 ~~l~~~I~~QvEfYFSd~NL~~D~fL~~~~~~~~dG~Vpl~~i~~F~rmk~lt~d~~~i~~Al~~S~~lev~ed~~   78 (82)
T cd08032           3 KQLLADIAKQVDFWFGDVNLHKDRFLREQIEKSRDGYIDISLLVSFNKMKKLTTDGKLIARALKNSSVVELNLEGT   78 (82)
T ss_pred             HHHHHHHHHHHHhhcchhhcccCHHHHHHhcCCCCCCEeHHHHhcchHHHHHcCCHHHHHHHHhcCCEEEEcCCCC
Confidence            4789999999999999999999999999996  7999999999999999999999999999999999999999876

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.

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

Probab=99.95  E-value=2e-28  Score=201.91  Aligned_cols=70  Identities=41%  Similarity=0.699  Sum_probs=67.9

Q ss_pred             HHHHhhhhhhcCcCCcCcchhhhhcc--CCCccEehhhhccchhhhhhccCHHHHHHHHhcCCcEEEcCCcc
Q 012097          398 AMLIHQIDYYFSDANLVKDEFLKSNM--DDQGWVPITLIASFPRVKNLTSNIQLILDSLRTSTVVEVQSYLF  467 (471)
Q Consensus       398 ~~I~kQIEYYFSD~NL~kD~FLR~~M--d~dG~VPIslIasFnRVK~LT~D~~lI~eALr~S~~LEVseDki  467 (471)
                      ++|++||||||||+||++|+||+++|  +.||||||++|++|||||+|+.|.++|++||+.|+.|||++|+.
T Consensus         2 ~~i~~QvEfYFSd~NL~~D~fL~~~~~~~~dG~Vpl~~i~~F~rmk~l~~d~~~I~~Al~~S~~lev~~d~~   73 (77)
T cd08033           2 QKIVKQVEYYFSDENLLKDAFLLKHVRRNKEGYVPIKLIASFKKVKALTRDWRVVAAALRRSSKLVVSEDGK   73 (77)
T ss_pred             hHHHhHHHhhcCHhhhccCHHHHHHhccCCCCcEehHHHhcchHHHHHcCCHHHHHHHHHhCCeEEEcCCCC
Confidence            68999999999999999999999999  78999999999999999999999999999999999999999865

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=99.95  E-value=3.3e-28  Score=201.56  Aligned_cols=74  Identities=46%  Similarity=0.793  Sum_probs=71.5

Q ss_pred             HHHHHHHHhhhhhhcCcCCcCcchhhhhccCC-CccEehhhhccchhhhhhccCHHHHHHHHhcCCcEEEcCCcc
Q 012097          394 PSLAAMLIHQIDYYFSDANLVKDEFLKSNMDD-QGWVPITLIASFPRVKNLTSNIQLILDSLRTSTVVEVQSYLF  467 (471)
Q Consensus       394 ~~L~~~I~kQIEYYFSD~NL~kD~FLR~~Md~-dG~VPIslIasFnRVK~LT~D~~lI~eALr~S~~LEVseDki  467 (471)
                      ++++++|++||||||||+||+||.|||++|+. +|||||++|++|+|||+|+.|.++|++||+.|..|||++|+.
T Consensus         1 ~~~~~~i~~QvEfYFSd~NL~~D~fLr~~~~~~~g~Vpl~~i~~F~r~k~l~~d~~~i~~Al~~S~~lel~~d~~   75 (80)
T smart00715        1 EELKQKIKKQVEYYFSDENLPRDKFLRKKMDKNDGYVPISTIASFKRVKSLTTDVNLIVEALRSSPKLEVSEDGL   75 (80)
T ss_pred             ChHHHHHHHHHHHHcCHhhhhhCHHHHHHhccCCCCEEhHHHhCchhHHHHcCCHHHHHHHHHhCCeEEEcCCCC
Confidence            36889999999999999999999999999987 999999999999999999999999999999999999999986

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

Probab=99.94  E-value=4.4e-28  Score=201.94  Aligned_cols=75  Identities=39%  Similarity=0.729  Sum_probs=71.6

Q ss_pred             HHHHHHHHhhhhhhcCcCCcCcchhhhhccC-CCccEehhhhccchhhhhhccCHHHHHHHHhcCC--cEEEcCCccc
Q 012097          394 PSLAAMLIHQIDYYFSDANLVKDEFLKSNMD-DQGWVPITLIASFPRVKNLTSNIQLILDSLRTST--VVEVQSYLFI  468 (471)
Q Consensus       394 ~~L~~~I~kQIEYYFSD~NL~kD~FLR~~Md-~dG~VPIslIasFnRVK~LT~D~~lI~eALr~S~--~LEVseDkiR  468 (471)
                      ++|..+|++||||||||+||++|+|||++|+ +||||||++|++|||||+|+.|.++|++||+.|+  +|||++|+.+
T Consensus         2 ~~l~~~I~~QvEfYFSd~NL~~D~fLr~~m~~~~G~Vpl~~i~~F~rmk~l~~d~~~i~~Al~~S~~~~lev~~d~~~   79 (82)
T cd08028           2 DDLEKKIIRQIEYYFGDFNLPRDKFLKEQIKEDDGWVPMEVMLKFNRLKSLSSDPEVIAKALKKSKSGLIEVSEDKTK   79 (82)
T ss_pred             hHHHHHHHHHHHhhcCHhhhccCHHHHHHHhccCCCEEhHHHhCChhHHHhcCCHHHHHHHHHhCCCCEEEEcCCCCc
Confidence            4689999999999999999999999999997 6999999999999999999999999999999999  9999999863

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).

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

Probab=99.94  E-value=2.4e-27  Score=194.91  Aligned_cols=69  Identities=36%  Similarity=0.649  Sum_probs=66.1

Q ss_pred             HHHHhhhhhhcCcCCcCcchhhhhcc--CCCccEehhhhccchhhhhhccCHHHHHHHHhcCCcEEEcCCcc
Q 012097          398 AMLIHQIDYYFSDANLVKDEFLKSNM--DDQGWVPITLIASFPRVKNLTSNIQLILDSLRTSTVVEVQSYLF  467 (471)
Q Consensus       398 ~~I~kQIEYYFSD~NL~kD~FLR~~M--d~dG~VPIslIasFnRVK~LT~D~~lI~eALr~S~~LEVseDki  467 (471)
                      ++|++||||||||+||++|+|||++|  +.||||||++|++|+|||+|+.+ ++|++||+.|++|||++|+.
T Consensus         2 ~~I~~QvEfYFSd~NL~~D~fLr~~~~~~~~G~Vpl~~i~~F~rmk~l~~~-~~i~~Al~~S~~lev~~d~~   72 (76)
T cd08029           2 EEIRKQVEFYFSDSNLPTDKFLWTLTGGSNNGWVPIKTIASFKRMRRFQPL-EAVVEALRESELLEVSEDGE   72 (76)
T ss_pred             hHHHhhHHhhcCHhhhccCHHHHHHhccCCCCcEehHHHhCchHHHHcCCH-HHHHHHHHhCCeEEEeCCCC
Confidence            58999999999999999999999999  69999999999999999999965 99999999999999999976

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.

>cd07323 LAM LA motif RNA-binding domain

Probab=99.93  E-value=5.1e-27  Score=192.02  Aligned_cols=70  Identities=56%  Similarity=0.929  Sum_probs=67.8

Q ss_pred             HHHHhhhhhhcCcCCcCcchhhhhccCCCccEehhhhccchhhhhhccCHHHHHHHHhcCCcEEEcCCcc
Q 012097          398 AMLIHQIDYYFSDANLVKDEFLKSNMDDQGWVPITLIASFPRVKNLTSNIQLILDSLRTSTVVEVQSYLF  467 (471)
Q Consensus       398 ~~I~kQIEYYFSD~NL~kD~FLR~~Md~dG~VPIslIasFnRVK~LT~D~~lI~eALr~S~~LEVseDki  467 (471)
                      ++|++||||||||+||++|.||+++|+++|||||++|++|+|||+|+.|.++|++||+.|..|||++|+.
T Consensus         2 ~~i~~QvEfYFSd~NL~~D~fL~~~~~~~g~Vpl~~i~~F~r~k~l~~~~~~i~~Al~~s~~lel~~~~~   71 (75)
T cd07323           2 EKIKKQVEYYFSDENLCKDRFLRSLMDDDGWVPLSLLASFNRVKKLTTDVELILEALRDSSVVEVSEDGT   71 (75)
T ss_pred             hHHHhhhHhccCHhhhCcCHHHHHhcCCCCCEEHHHHhCchHHHHHcCCHHHHHHHHHhCCeEEEeCCCC
Confidence            6899999999999999999999999999999999999999999999999999999999999999999754

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.

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

Probab=99.93  E-value=4.9e-27  Score=198.83  Aligned_cols=72  Identities=35%  Similarity=0.636  Sum_probs=68.0

Q ss_pred             HHHHHhhhhhhcCcCCcCcchhhhhcc--CCCccEehhhhccchhhhhhcc------------CHHHHHHHHhcCCcEEE
Q 012097          397 AAMLIHQIDYYFSDANLVKDEFLKSNM--DDQGWVPITLIASFPRVKNLTS------------NIQLILDSLRTSTVVEV  462 (471)
Q Consensus       397 ~~~I~kQIEYYFSD~NL~kD~FLR~~M--d~dG~VPIslIasFnRVK~LT~------------D~~lI~eALr~S~~LEV  462 (471)
                      +++|++||||||||+||++|+||+++|  +.||||+|++|++|||||+|+.            ++++|++||+.|++|||
T Consensus         2 ~~~i~~QvEfYFSd~NL~~D~fL~~~~~~~~dG~V~i~~i~~F~rmk~l~~~~~~~~~~~~~~~~~~I~~ALk~S~~lev   81 (90)
T cd08030           2 KEKVLRQVEFYFSDSNLPRDDFLLEEVEEDPDGMVSLALICSFSRMRSLLGLGGGKPEDVPEDTLKAVAEALRTSTLLKV   81 (90)
T ss_pred             hHHHHHHHHcccchhhcccCHHHHHHhccCCCCCEehHHHhcChHHHHHhhcccccccccchhHHHHHHHHHccCCEEEE
Confidence            589999999999999999999999999  7899999999999999999985            37899999999999999


Q ss_pred             cCCccc
Q 012097          463 QSYLFI  468 (471)
Q Consensus       463 seDkiR  468 (471)
                      ++|+.|
T Consensus        82 seD~~~   87 (90)
T cd08030          82 SEDGKR   87 (90)
T ss_pred             cCCCCc
Confidence            999874

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.

>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=99.89  E-value=1.7e-24  Score=171.14  Aligned_cols=58  Identities=55%  Similarity=1.016  Sum_probs=53.3

Q ss_pred             HHhhhhhhcCcCCcCcchhhhhccCC--CccEehhhhccchhhhhhc-cCHHHHHHHHhcC
Q 012097          400 LIHQIDYYFSDANLVKDEFLKSNMDD--QGWVPITLIASFPRVKNLT-SNIQLILDSLRTS  457 (471)
Q Consensus       400 I~kQIEYYFSD~NL~kD~FLR~~Md~--dG~VPIslIasFnRVK~LT-~D~~lI~eALr~S  457 (471)
                      |++||||||||+||++|+||+++|+.  ||||||++|++|+|||+|+ .|+++|++||+.|
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 8999999999987

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.

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

Probab=99.82  E-value=6.3e-21  Score=196.57  Aligned_cols=75  Identities=44%  Similarity=0.742  Sum_probs=72.0

Q ss_pred             cHHHHHHHHhhhhhhcCcCCcCcchhhhhcc--CCCccEehhhhccchhhhhhccCHHHHHHHHhcCCcEEEcCCcc
Q 012097          393 EPSLAAMLIHQIDYYFSDANLVKDEFLKSNM--DDQGWVPITLIASFPRVKNLTSNIQLILDSLRTSTVVEVQSYLF  467 (471)
Q Consensus       393 e~~L~~~I~kQIEYYFSD~NL~kD~FLR~~M--d~dG~VPIslIasFnRVK~LT~D~~lI~eALr~S~~LEVseDki  467 (471)
                      -++|..+|++||||||||+||.+|.||.++|  |.+|||+|++|++|||||+||.|+.+|.+|||.|.+|||+||+.
T Consensus       137 sedl~~kIv~QVEyyFSDenL~~d~fLlkhvrrnkeGyVpv~~vaSFKKvK~LTrd~~~va~ALr~S~kL~vseDgk  213 (484)
T KOG1855|consen  137 SEDLAAKIVDQVEYYFSDENLLKDAFLLKHVRRNKEGYVPVKLVASFKKVKALTRDWKLVADALRKSSKLEVSEDGK  213 (484)
T ss_pred             cHHHHHHHHHHhheeeccccccchHHHHHHHhcCCCCceeeehhhhHHHHHHHhhhhHHHHHHHhhcceEEEccCCc
Confidence            3699999999999999999999999999999  69999999999999999999999999999999999999999954

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

Probab=99.79  E-value=1.2e-17  Score=174.52  Aligned_cols=68  Identities=41%  Similarity=0.677  Sum_probs=64.0

Q ss_pred             HHHHHhhhhhhcCcCCcCcchhhhhccCCCccEehhhhccchhhhhhccCHHHHHHHHhcCCcEEEcCCcccc
Q 012097          397 AAMLIHQIDYYFSDANLVKDEFLKSNMDDQGWVPITLIASFPRVKNLTSNIQLILDSLRTSTVVEVQSYLFID  469 (471)
Q Consensus       397 ~~~I~kQIEYYFSD~NL~kD~FLR~~Md~dG~VPIslIasFnRVK~LT~D~~lI~eALr~S~~LEVseDkiR~  469 (471)
                      .+.|.+|||||||.||||+|.||+++|     |+|.||++|+||+.|+.|+++|++||+.+.+||+..|.+|+
T Consensus       301 ~~~~~~~ie~~FSeE~~~~d~~n~~k~-----~~l~~ia~F~r~ad~s~d~nli~~alr~s~ive~~~d~~~r  368 (448)
T KOG2590|consen  301 IAFIQEPIEFYFSEENLQRDRFNREKF-----VPLRVIAKFKRVADLSSDINLILAALRNSLIVEETGDLERR  368 (448)
T ss_pred             ccccccccccccchHHHhhhhhhhccc-----chhhhhhhhhhhhhcccCHHHHHHHHhhhhhhhccchhhhc
Confidence            367889999999999999999999876     66999999999999999999999999999999999999987

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

Probab=99.75  E-value=7.1e-19  Score=185.77  Aligned_cols=75  Identities=39%  Similarity=0.649  Sum_probs=72.5

Q ss_pred             HHHHHHHHhhhhhhcCcCCcCcchhhhhccCCCccEehhhhccchhhhhhccCHHHHHHHHhcCCcEEEcCCccc
Q 012097          394 PSLAAMLIHQIDYYFSDANLVKDEFLKSNMDDQGWVPITLIASFPRVKNLTSNIQLILDSLRTSTVVEVQSYLFI  468 (471)
Q Consensus       394 ~~L~~~I~kQIEYYFSD~NL~kD~FLR~~Md~dG~VPIslIasFnRVK~LT~D~~lI~eALr~S~~LEVseDkiR  468 (471)
                      .+|++.|++|||||||.+||..|+||+.+||+|.||||.+||.|++|++||+|++||+|+||+|+.|||+|++.|
T Consensus        94 ~~~kq~lk~qlEy~fSreNlssD~YL~sQMDSDqyVPI~tva~~~~i~klttDvdLI~Evlresp~VqvDekgek  168 (684)
T KOG2591|consen   94 RDLKQLLKKQLEYYFSRENLSSDRYLISQMDSDQYVPINTVANFPEIMKLTTDVDLIVEVLRESPNVQVDEKGEK  168 (684)
T ss_pred             hhHHHHHHHHHHHhhccccccchhhhhhhcccccccchhhhccchhhhhhccchHHHHHHHhcCCCceeccCccc
Confidence            399999999999999999999999999999999999999999999999999999999999999999999998763

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

Probab=99.60  E-value=2.5e-16  Score=148.33  Aligned_cols=74  Identities=38%  Similarity=0.781  Sum_probs=69.7

Q ss_pred             HHHHHHHHhhhhhhcCcCCcCcchhhhhcc--CCCccEehhhhccchhhhhhccCHHHHHHHHhcCC--cEEEcCCcc
Q 012097          394 PSLAAMLIHQIDYYFSDANLVKDEFLKSNM--DDQGWVPITLIASFPRVKNLTSNIQLILDSLRTST--VVEVQSYLF  467 (471)
Q Consensus       394 ~~L~~~I~kQIEYYFSD~NL~kD~FLR~~M--d~dG~VPIslIasFnRVK~LT~D~~lI~eALr~S~--~LEVseDki  467 (471)
                      .+|.++|++||||||.|.||.||.|||++|  ..+|||||.+++.|+|+..|++|++.|++||+.|.  ++||++|+.
T Consensus        11 a~lE~kii~qleyy~Gd~nl~rdkfl~eqi~k~~~gwvpi~i~i~FnRla~lttD~~~Iv~al~ksk~~l~eisedk~   88 (205)
T KOG4213|consen   11 AALEAKIIHQLEYYFGDLNLPRDKFLREQIHKLDDGWVPIEIMIKFNRLASLTTDFNVIVEALSKSKAELMEISEDKT   88 (205)
T ss_pred             hHHHHhhhhhhhhhhcccCchHHHHHHHHhhhhccCCccchhhhhhhhhhhccccHHHHHHHHhhCHHhhhhhhhchh
Confidence            478899999999999999999999999999  48999999999999999999999999999999886  799999975

>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=99.18  E-value=5.5e-12  Score=130.32  Aligned_cols=60  Identities=33%  Similarity=0.664  Sum_probs=57.1

Q ss_pred             HHHHhhhhhhcCcCCcCcchhhhhccCCCccEehhhhccchhhhhhccCHHHHHHHHhcC
Q 012097          398 AMLIHQIDYYFSDANLVKDEFLKSNMDDQGWVPITLIASFPRVKNLTSNIQLILDSLRTS  457 (471)
Q Consensus       398 ~~I~kQIEYYFSD~NL~kD~FLR~~Md~dG~VPIslIasFnRVK~LT~D~~lI~eALr~S  457 (471)
                      ..|+.|||||||.+|||.|.|||++|+++||||+++|..|.|++.+..|.++|+.|||.+
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            467779999999999999999999999999999999999999999999999999999976

>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=98.68  E-value=5.7e-09  Score=108.38  Aligned_cols=68  Identities=43%  Similarity=0.692  Sum_probs=63.6

Q ss_pred             HHhhhhhhcC-----cCCcCcchhhhhcc----CCCccEehhhhccchhhhhhccCHHHHHHHHhcC---CcEEEcCCcc
Q 012097          400 LIHQIDYYFS-----DANLVKDEFLKSNM----DDQGWVPITLIASFPRVKNLTSNIQLILDSLRTS---TVVEVQSYLF  467 (471)
Q Consensus       400 I~kQIEYYFS-----D~NL~kD~FLR~~M----d~dG~VPIslIasFnRVK~LT~D~~lI~eALr~S---~~LEVseDki  467 (471)
                      +++|+|||||     |.|+.+|+||+..-    ..+|||+|.+|++|+|||.++..+..|..||+.|   .++||+.++.
T Consensus        75 ~l~qvE~~fS~s~~~d~n~~~dk~~ktta~Kn~~~~kwVpIkt~~tfn~~k~~gs~~~~v~~a~rks~~~rv~e~Sssgs  154 (438)
T COG5193          75 TLKQVEFYFSGSKDTDSNFPKDKFLKTTAPKNKKRDKWVPIKTIATFNRMKNSGSPVSAVSGALRKSLDARVLEVSSSGS  154 (438)
T ss_pred             cccceeEEeeccccccccccchhhhccccccccCCCCceeeeeeeeeccccccCCchhhhhhhhhcCcccceeeeccccc
Confidence            8999999999     99999999999875    2599999999999999999999999999999999   7999998865

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

Probab=93.72  E-value=0.012  Score=63.25  Aligned_cols=81  Identities=22%  Similarity=0.219  Sum_probs=69.7

Q ss_pred             CCCCcHHHHHHHHh--hhhhhcCcCCcCcchhhhhccCCCc---cEehhhhccchhhhhhccCHHHHHHHHhcCCcEEEc
Q 012097          389 MPVPEPSLAAMLIH--QIDYYFSDANLVKDEFLKSNMDDQG---WVPITLIASFPRVKNLTSNIQLILDSLRTSTVVEVQ  463 (471)
Q Consensus       389 ~P~~e~~L~~~I~k--QIEYYFSD~NL~kD~FLR~~Md~dG---~VPIslIasFnRVK~LT~D~~lI~eALr~S~~LEVs  463 (471)
                      ++.+...|.+.+..  +++|||+..++.+|.|++..++..|   |.+|+.+..|.++..++++...++..++.|...+..
T Consensus        90 ~~~ps~~l~e~~~~~k~~s~~~~~~~~~~~~~~~~k~~~t~~~~~~~~S~~~~s~~~~~~s~n~~~~~~~~~~sa~~~~~  169 (448)
T KOG2590|consen   90 ISVPSPPLKEYSKSDKKKSWPASKPFTPRDSFKGSKPTNTGNGTFLPISKISSSGPVSGGSANNSNIRGPLKGSASSNPV  169 (448)
T ss_pred             cccccccccccccccccccCcccCCCCccccccCCCccccCCCccCCCccccccccccCcccccccccCcCCCCCcCCcC
Confidence            34444566666665  9999999999999999999999888   999999999999999999999999999998877777


Q ss_pred             CCcccc
Q 012097          464 SYLFID  469 (471)
Q Consensus       464 eDkiR~  469 (471)
                      ..+.|+
T Consensus       170 ~~~~~~  175 (448)
T KOG2590|consen  170 PNNSRA  175 (448)
T ss_pred             cccccc
Confidence            666654

>PF01885 PTS_2-RNA: RNA 2'-phosphotransferase, Tpt1 / KptA family; InterPro: IPR002745 The final step of tRNA splicing in Saccharomyces cerevisiae (Baker's yeast) requires 2'-phosphotransferase (Tpt1) to transfer the 2'-phosphate from ligated tRNA to NAD, producing mature tRNA and ADP ribose-1' '-2' '-cyclic phosphate

Probab=91.29  E-value=0.18  Score=48.16  Aligned_cols=48  Identities=23%  Similarity=0.318  Sum_probs=33.9

Q ss_pred             ccCCCccEehhhhccchhhhhhccCHHHHHHHHhcCCc--EEEc-----CCcccc
Q 012097          422 NMDDQGWVPITLIASFPRVKNLTSNIQLILDSLRTSTV--VEVQ-----SYLFID  469 (471)
Q Consensus       422 ~Md~dG~VPIslIasFnRVK~LT~D~~lI~eALr~S~~--LEVs-----eDkiR~  469 (471)
                      .||.+|||.|+.|+...+++.+.-+.+.|.+++++..+  .|+.     +++||.
T Consensus        26 ~~d~~G~v~v~dLL~~~~~~~~~~t~~~i~~vV~~~~K~Rfel~~~~~~~~~IRA   80 (186)
T PF01885_consen   26 VMDPDGWVSVDDLLRALRFKGLWVTEEDIREVVETDDKQRFELRYEDPGGWRIRA   80 (186)
T ss_dssp             ---TT--EEHHHHHHHHHHT-TT--HHHHHHHHHH-SS--EEEE-----TTEEEE
T ss_pred             ccCCCCCEeHHHHHHHHHHcCCCCCHHHHHHHHhhCCCCCeeEEcccccCceEEE
Confidence            37899999999999999999877789999999998764  6777     777775

Yeast and Mus musculus (Mouse) Tpt1 protein and bacterial KptA protein can catalyze the conversion of the generated intermediate to both product and the original substrate, these enzymes likely use the same reaction mechanism. Step 1 of this reaction is strikingly similar to the ADP-ribosylation of proteins catalyzed by a number of bacterial toxins. KptA, a functional Tpt1 protein homologue from Escherichia coli is strikingly similar to yeast Tpt1 in its kinetic parameters, although E. coli is not known to have a 2'-phosphorylated RNA substrate [,].; GO: 0016772 transferase activity, transferring phosphorus-containing groups, 0006388 tRNA splicing, via endonucleolytic cleavage and ligation; PDB: 1WFX_A.

>PRK00819 RNA 2'-phosphotransferase; Reviewed

Probab=91.14  E-value=0.24  Score=47.34  Aligned_cols=49  Identities=14%  Similarity=0.213  Sum_probs=39.0

Q ss_pred             ccCCCccEehhhhccchhhhhhccCHHHHHHHHhcCCc--EEEcCCccccC
Q 012097          422 NMDDQGWVPITLIASFPRVKNLTSNIQLILDSLRTSTV--VEVQSYLFIDS  470 (471)
Q Consensus       422 ~Md~dG~VPIslIasFnRVK~LT~D~~lI~eALr~S~~--LEVseDkiR~~  470 (471)
                      .||.+|||+|+.|+...+.+...-+.+.|.+++++..+  .|+++++||..
T Consensus        27 ~ld~~G~v~v~~Ll~~~~~~~~~~t~~~l~~vV~~d~K~Rf~l~~~~IRA~   77 (179)
T PRK00819         27 TLDEEGWVDIDALIEALAKAYKWVTRELLEAVVESDDKGRFEISGDRIRAR   77 (179)
T ss_pred             ccCCCCCEEHHHHHHHHHHccCCCCHHHHHHHHHcCCCcceEecCceEEec
Confidence            47899999999999877654333578999999998764  78888888864

>PF09421 FRQ: Frequency clock protein; InterPro: IPR018554 The frequency clock protein, is the central component of the frq-based circadian negative feedback loop, regulates various aspects of the circadian clock in Neurospora crassa []

Probab=89.51  E-value=0.33  Score=56.57  Aligned_cols=46  Identities=15%  Similarity=0.344  Sum_probs=41.2

Q ss_pred             cCCCccEehhhhccchhhhhhccCHHHHHHHHhc-CCcEEEcCC--ccc
Q 012097          423 MDDQGWVPITLIASFPRVKNLTSNIQLILDSLRT-STVVEVQSY--LFI  468 (471)
Q Consensus       423 Md~dG~VPIslIasFnRVK~LT~D~~lI~eALr~-S~~LEVseD--kiR  468 (471)
                      .|.+|||-|.|||+.-.|--|..+.++|+.||.+ |++|||+.|  |||
T Consensus       473 pDaeGWVYLNLL~NmAQLHiiNVTPdFVRsAV~E~StKfQLSpDGrKIR  521 (989)
T PF09421_consen  473 PDAEGWVYLNLLCNMAQLHIINVTPDFVRSAVSEKSTKFQLSPDGRKIR  521 (989)
T ss_pred             cccccceehHHHHHHHHHHhhccCHHHHHHHHHhcccceeeCCCCCeee
Confidence            4789999999999999999998999999999985 899999977  455

This protein has been shown to interact with itself via a coiled-coil [].

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

Probab=86.18  E-value=0.66  Score=45.12  Aligned_cols=40  Identities=20%  Similarity=0.395  Sum_probs=35.3

Q ss_pred             hhhccCCCccEehhhhccchhhhhhccCHHHHHHHHhcCC
Q 012097          419 LKSNMDDQGWVPITLIASFPRVKNLTSNIQLILDSLRTST  458 (471)
Q Consensus       419 LR~~Md~dG~VPIslIasFnRVK~LT~D~~lI~eALr~S~  458 (471)
                      ++=+|+.||||+|+.|++.|+.|-....+++|.++++.-.
T Consensus        25 ~~L~m~~dGfvpv~~lL~lnq~r~~~~t~ddi~riVk~nd   64 (207)
T KOG2278|consen   25 LRLNMRGDGFVPVEDLLNLNQFRGANHTIDDIRRIVKRND   64 (207)
T ss_pred             hcccccCCCceEHHHHhccchhcccCCcHHHHHHHHhccc
Confidence            3446789999999999999999999888999999998754

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	471
1s7a_A	103	Nmr Structure Of The La Motif Of Human La Protein L		3e-10
2vod_A	193	Crystal Structure Of N-Terminal Domains Of Human La		3e-10
1zh5_A	195	Structural Basis For Recognition Of Uuuoh 3'-Termin		6e-10
1yty_A	194	Structural Basis For Recognition Of Uuuoh 3'-Termin		7e-10
2cqk_A	101	Solution Structure Of The La Domain Of C-Mpl Bindin		2e-07
1s29_A	92	La Autoantigen N-Terminal Domain Length = 92		2e-04

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

Iteration: 1
 Score = 63.2 bits (152), Expect = 3e-10,   Method: Composition-based stats.
 Identities = 27/64 (42%), Positives = 44/64 (68%), Gaps = 1/64 (1%)
Query: 395 SLAAMLIHQIDYYFSDANLVKDEFLKSNMD-DQGWVPITLIASFPRVKNLTSNIQLILDS 453
           +L A + HQI+YYF D NL +D+FLK  +  D+GWVP+ ++  F R+  LT++  +I+++
Sbjct: 12  ALEAKICHQIEYYFGDFNLPRDKFLKEQIKLDEGWVPLEIMIKFNRLNRLTTDFNVIVEA 71
Query: 454 LRTS 457
           L  S
Sbjct: 72  LSKS 75

>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 = 63.2 bits (152), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 27/64 (42%), Positives = 44/64 (68%), Gaps = 1/64 (1%)
Query: 395 SLAAMLIHQIDYYFSDANLVKDEFLKSNMD-DQGWVPITLIASFPRVKNLTSNIQLILDS 453
           +L A + HQI+YYF D NL +D+FLK  +  D+GWVP+ ++  F R+  LT++  +I+++
Sbjct: 11  ALEAKICHQIEYYFGDFNLPRDKFLKEQIKLDEGWVPLEIMIKFNRLNRLTTDFNVIVEA 70
Query: 454 LRTS 457
           L  S
Sbjct: 71  LSKS 74

>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 = 62.0 bits (149), Expect = 6e-10,   Method: Compositional matrix adjust.
 Identities = 27/64 (42%), Positives = 43/64 (67%), Gaps = 1/64 (1%)
Query: 395 SLAAMLIHQIDYYFSDANLVKDEFLKSNMD-DQGWVPITLIASFPRVKNLTSNIQLILDS 453
           +L A + HQI+YYF D NL +D+FLK  +  D+GWVP+ +   F R+  LT++  +I+++
Sbjct: 13  ALEAKICHQIEYYFGDFNLPRDKFLKEQIKLDEGWVPLEIXIKFNRLNRLTTDFNVIVEA 72
Query: 454 LRTS 457
           L  S
Sbjct: 73  LSKS 76

>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 = 62.0 bits (149), Expect = 7e-10,   Method: Compositional matrix adjust.
 Identities = 27/64 (42%), Positives = 43/64 (67%), Gaps = 1/64 (1%)
Query: 395 SLAAMLIHQIDYYFSDANLVKDEFLKSNMD-DQGWVPITLIASFPRVKNLTSNIQLILDS 453
           +L A + HQI+YYF D NL +D+FLK  +  D+GWVP+ +   F R+  LT++  +I+++
Sbjct: 12  ALEAKICHQIEYYFGDFNLPRDKFLKEQIKLDEGWVPLEIXIKFNRLNRLTTDFNVIVEA 71
Query: 454 LRTS 457
           L  S
Sbjct: 72  LSKS 75

>pdb|2CQK|A Chain A, Solution Structure Of The La Domain Of C-Mpl Binding Protein Length = 101

Iteration: 1
 Score = 53.5 bits (127), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 27/67 (40%), Positives = 42/67 (62%)
Query: 396 LAAMLIHQIDYYFSDANLVKDEFLKSNMDDQGWVPITLIASFPRVKNLTSNIQLILDSLR 455
           L   L  Q+++ FS  NL KD +L S MD   ++PI  +A+   +K LT++  LIL+ LR
Sbjct: 14  LKECLKKQLEFCFSRENLSKDLYLISQMDSDQFIPIWTVANMEEIKKLTTDPDLILEVLR 73
Query: 456 TSTVVEV 462
           +S +V+V
Sbjct: 74  SSPMVQV 80

>pdb|1S29|A Chain A, La Autoantigen N-Terminal Domain Length = 92

Iteration: 1
 Score = 43.5 bits (101), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 19/60 (31%), Positives = 41/60 (68%), Gaps = 2/60 (3%)
Query: 400 LIHQIDYYFSDANLVKDEFLKSNMDD--QGWVPITLIASFPRVKNLTSNIQLILDSLRTS 457
           L  Q+++YFSD N+ +D FLK    +  +G+V +  + +F RV ++T++++ +++++R S
Sbjct: 14  LQKQVEFYFSDVNVQRDIFLKGKXAENAEGFVSLETLLTFKRVNSVTTDVKEVVEAIRPS 73

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	471
2cqk_A	101	C-MPL binding protein; LA domain, structural genom	9e-26
1s29_A	92	LA protein; winged helix-turn-helix, autoantigen,	1e-25
2voo_A	193	Lupus LA protein; RNA-binding protein, RNA recogni	1e-20

>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 =   99 bits (249), Expect = 9e-26
 Identities = 28/73 (38%), Positives = 43/73 (58%)

Query: 390 PVPEPSLAAMLIHQIDYYFSDANLVKDEFLKSNMDDQGWVPITLIASFPRVKNLTSNIQL 449
            V    L   L  Q+++ FS  NL KD +L S MD   ++PI  +A+   +K LT++  L
Sbjct: 8   AVSTEDLKECLKKQLEFCFSRENLSKDLYLISQMDSDQFIPIWTVANMEEIKKLTTDPDL 67

Query: 450 ILDSLRTSTVVEV 462
           IL+ LR+S +V+V
Sbjct: 68  ILEVLRSSPMVQV 80

>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 = 99.1 bits (247), Expect = 1e-25
 Identities = 20/75 (26%), Positives = 44/75 (58%), Gaps = 2/75 (2%)

Query: 391 VPEPSLAAMLIHQIDYYFSDANLVKDEFLKSNM--DDQGWVPITLIASFPRVKNLTSNIQ 448
                    L  Q+++YFSD N+ +D FLK  M  + +G+V +  + +F RV ++T++++
Sbjct: 5   PLSSENKQKLQKQVEFYFSDVNVQRDIFLKGKMAENAEGFVSLETLLTFKRVNSVTTDVK 64

Query: 449 LILDSLRTSTVVEVQ 463
            +++++R S  + + 
Sbjct: 65  EVVEAIRPSEKLVLS 79

>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 = 88.4 bits (218), Expect = 1e-20
 Identities = 27/77 (35%), Positives = 46/77 (59%), Gaps = 1/77 (1%)

Query: 390 PVPEPSLAAMLIHQIDYYFSDANLVKDEFLKSNMD-DQGWVPITLIASFPRVKNLTSNIQ 448
                +L A + HQI+YYF D NL +D+FLK  +  D+GWVP+ ++  F R+  LT++  
Sbjct: 6   NEKMAALEAKICHQIEYYFGDFNLPRDKFLKEQIKLDEGWVPLEIMIKFNRLNRLTTDFN 65

Query: 449 LILDSLRTSTVVEVQSY 465
           +I+++L  S    ++  
Sbjct: 66  VIVEALSKSKAELMEIS 82

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	471
2cqk_A	101	C-MPL binding protein; LA domain, structural genom	99.96
1s29_A	92	LA protein; winged helix-turn-helix, autoantigen,	99.95
2voo_A	193	Lupus LA protein; RNA-binding protein, RNA recogni	99.87
1wfx_A	186	Probable RNA 2'-phosphotransferase; tRNA splicing,	91.56

>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=99.96  E-value=5.4e-30  Score=219.39  Aligned_cols=78  Identities=36%  Similarity=0.540  Sum_probs=74.5

Q ss_pred             CCCcHHHHHHHHhhhhhhcCcCCcCcchhhhhccCCCccEehhhhccchhhhhhccCHHHHHHHHhcCCcEEEcCCcc
Q 012097          390 PVPEPSLAAMLIHQIDYYFSDANLVKDEFLKSNMDDQGWVPITLIASFPRVKNLTSNIQLILDSLRTSTVVEVQSYLF  467 (471)
Q Consensus       390 P~~e~~L~~~I~kQIEYYFSD~NL~kD~FLR~~Md~dG~VPIslIasFnRVK~LT~D~~lI~eALr~S~~LEVseDki  467 (471)
                      ++.+++|+++|++||||||||+||+||+||+++||.||||||++|++|||||+||.|+++|++||+.|++|||++|+.
T Consensus         8 ~~~~~~l~~~I~~QvEyYFSd~NL~~D~fL~~~md~~G~Vpl~~iasF~r~k~lt~d~~~i~~al~~S~~levsedg~   85 (101)
T 2cqk_A            8 AVSTEDLKECLKKQLEFCFSRENLSKDLYLISQMDSDQFIPIWTVANMEEIKKLTTDPDLILEVLRSSPMVQVDEKGE   85 (101)
T ss_dssp             SCCHHHHHHHHHHHHHHHTSHHHHHHCHHHHHHSCTTSCEEHHHHHHCHHHHHHCCCHHHHHHHHHHSSSEEECSSSS
T ss_pred             CCCHHHHHHHHHHHHHhhcchhhhccCHHHHHhhhcCCCEEhHHHhCChHHHHHcCCHHHHHHHHHhCCcEEEcCCCC
Confidence            346789999999999999999999999999999999999999999999999999999999999999999999998854

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

Probab=99.95  E-value=3.1e-29  Score=211.24  Aligned_cols=77  Identities=26%  Similarity=0.518  Sum_probs=73.1

Q ss_pred             cHHHHHHHHhhhhhhcCcCCcCcchhhhhcc--CCCccEehhhhccchhhhhhccCHHHHHHHHhcCCcEEEcCCc--cc
Q 012097          393 EPSLAAMLIHQIDYYFSDANLVKDEFLKSNM--DDQGWVPITLIASFPRVKNLTSNIQLILDSLRTSTVVEVQSYL--FI  468 (471)
Q Consensus       393 e~~L~~~I~kQIEYYFSD~NL~kD~FLR~~M--d~dG~VPIslIasFnRVK~LT~D~~lI~eALr~S~~LEVseDk--iR  468 (471)
                      +++++++|++||||||||+||+||+||+++|  +.||||||++|++|||||+||.|+++|++||+.|+.|||++|+  ||
T Consensus         7 ~~~~~~~I~~QvEyYFSd~NL~~D~fL~~~m~~~~~G~Vpl~~i~sF~r~k~lt~d~~~i~~al~~S~~lev~edg~~VR   86 (92)
T 1s29_A            7 SSENKQKLQKQVEFYFSDVNVQRDIFLKGKMAENAEGFVSLETLLTFKRVNSVTTDVKEVVEAIRPSEKLVLSEDGLMVR   86 (92)
T ss_dssp             CHHHHHHHHHHHHHHTSHHHHTTCHHHHHHHTTSTTCCEEHHHHTTSHHHHTTCSCHHHHHHHHTTCSSEEECTTSSEEE
T ss_pred             CHHHHHHHHHHHHhhcchhhhccCHHHHHHhccCCCCCEEhHHHhCChhHHHHcCCHHHHHHHHhhCCeEEEeCCCCEEe
Confidence            5689999999999999999999999999999  7999999999999999999999999999999999999999885  45


Q ss_pred             c
Q 012097          469 D  469 (471)
Q Consensus       469 ~  469 (471)
                      +
T Consensus        87 R   87 (92)
T 1s29_A           87 R   87 (92)
T ss_dssp             E
T ss_pred             C
Confidence            4

>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=99.87  E-value=5.2e-23  Score=188.72  Aligned_cols=74  Identities=38%  Similarity=0.781  Sum_probs=71.4

Q ss_pred             HHHHHHHHhhhhhhcCcCCcCcchhhhhccC-CCccEehhhhccchhhhhhccCHHHHHHHHhcC--CcEEEcCCcc
Q 012097          394 PSLAAMLIHQIDYYFSDANLVKDEFLKSNMD-DQGWVPITLIASFPRVKNLTSNIQLILDSLRTS--TVVEVQSYLF  467 (471)
Q Consensus       394 ~~L~~~I~kQIEYYFSD~NL~kD~FLR~~Md-~dG~VPIslIasFnRVK~LT~D~~lI~eALr~S--~~LEVseDki  467 (471)
                      ++|+++|++||||||||+||++|.||+++|+ ++|||+|.+|++|+|||.|+.|+++|++||+.|  ..|||++|++
T Consensus        10 ~~~~~~i~~q~e~yfs~~nl~~D~fl~~~~~~~~g~V~l~~i~sF~r~k~l~~d~~~I~~Al~~S~~~~lev~ed~~   86 (193)
T 2voo_A           10 AALEAKICHQIEYYFGDFNLPRDKFLKEQIKLDEGWVPLEIMIKFNRLNRLTTDFNVIVEALSKSKAELMEISEDKT   86 (193)
T ss_dssp             HHHHHHHHHHHHHHTSTTTGGGCHHHHHHHHHTTTCEEHHHHTTSHHHHHHCCCHHHHHHHHHTCSSCCEEECTTSS
T ss_pred             HHHHHHHHHHhheecchhhcccCHHHHHHhcccCCcEEeHHHhhhhHHHHhcCCHHHHHHHHhhcccceEEEecccc
Confidence            5899999999999999999999999999997 799999999999999999999999999999999  9999999865

>1wfx_A Probable RNA 2'-phosphotransferase; tRNA splicing, NAD, structural GE riken structural genomics/proteomics initiative, RSGI; 2.80A {Aeropyrum pernix} SCOP: d.166.1.5

Probab=91.56  E-value=0.14  Score=47.77  Aligned_cols=47  Identities=11%  Similarity=0.063  Sum_probs=36.5

Q ss_pred             ccCCCccEehhhhccchhhh--hhccCHHHHHHHHhcCC--cEEEcCCcccc
Q 012097          422 NMDDQGWVPITLIASFPRVK--NLTSNIQLILDSLRTST--VVEVQSYLFID  469 (471)
Q Consensus       422 ~Md~dG~VPIslIasFnRVK--~LT~D~~lI~eALr~S~--~LEVseDkiR~  469 (471)
                      .||.+|||.|+.|+. -+.+  ....+.+.|.++++...  -.|+++++||.
T Consensus        23 ~ld~~G~v~v~~LL~-~~~~~~~~~~t~~~l~~vV~~~~K~Rf~l~~~~IRA   73 (186)
T 1wfx_A           23 RLTREGWARVSEVVE-GLRKAGWSWVEEWHIVGVALHDPKGRYELRNGEIRA   73 (186)
T ss_dssp             CCCTTCCEEHHHHHH-HHHHTTCTTCCHHHHHHHHHHCSSCCEEEETTEEEE
T ss_pred             ccCCCCCEEHHHHHh-hhhhcccCCCCHHHHHHHHhcCCCCceEeeccEEEe
Confidence            368999999999998 3333  23447888999998765  48999999986

---

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	471
d2cqka1	88	a.4.5.46 (A:43-130) La-related protein 4 LARP4 {Hu	3e-32
d1zh5a1	99	a.4.5.46 (A:5-103) Lupus La autoantigen N-terminal	1e-26
d1s29a_	92	a.4.5.46 (A:) Lupus La autoantigen N-terminal doma	7e-24

>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 =  115 bits (291), Expect = 3e-32
 Identities = 28/72 (38%), Positives = 43/72 (59%)

Query: 391 VPEPSLAAMLIHQIDYYFSDANLVKDEFLKSNMDDQGWVPITLIASFPRVKNLTSNIQLI 450
           V    L   L  Q+++ FS  NL KD +L S MD   ++PI  +A+   +K LT++  LI
Sbjct: 2   VSTEDLKECLKKQLEFCFSRENLSKDLYLISQMDSDQFIPIWTVANMEEIKKLTTDPDLI 61

Query: 451 LDSLRTSTVVEV 462
           L+ LR+S +V+V
Sbjct: 62  LEVLRSSPMVQV 73

>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 =  101 bits (252), Expect = 1e-26
 Identities = 27/73 (36%), Positives = 46/73 (63%), Gaps = 1/73 (1%)

Query: 392 PEPSLAAMLIHQIDYYFSDANLVKDEFLKSNMD-DQGWVPITLIASFPRVKNLTSNIQLI 450
              +L A + HQI+YYF D NL +D+FLK  +  D+GWVP+ ++  F R+  LT++  +I
Sbjct: 5   KMAALEAKICHQIEYYFGDFNLPRDKFLKEQIKLDEGWVPLEIMIKFNRLNRLTTDFNVI 64

Query: 451 LDSLRTSTVVEVQ 463
           +++L  S    ++
Sbjct: 65  VEALSKSKAELME 77

>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 = 93.3 bits (232), Expect = 7e-24
 Identities = 22/77 (28%), Positives = 47/77 (61%), Gaps = 3/77 (3%)

Query: 389 MPVPEPSLAAMLIHQIDYYFSDANLVKDEFLKSNM--DDQGWVPITLIASFPRVKNLTSN 446
           MP+        L  Q+++YFSD N+ +D FLK  M  + +G+V +  + +F RV ++T++
Sbjct: 4   MPLSS-ENKQKLQKQVEFYFSDVNVQRDIFLKGKMAENAEGFVSLETLLTFKRVNSVTTD 62

Query: 447 IQLILDSLRTSTVVEVQ 463
           ++ +++++R S  + + 
Sbjct: 63  VKEVVEAIRPSEKLVLS 79

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	471
d2cqka1	88	La-related protein 4 LARP4 {Human (Homo sapiens) [	99.95
d1s29a_	92	Lupus La autoantigen N-terminal domain {Trypanosom	99.95
d1zh5a1	99	Lupus La autoantigen N-terminal domain {Human (Hom	99.94
d1wfxa_	180	Probable RNA 2'-phosphotransferase KptA {Aeropyrum	92.38

>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=99.95  E-value=2.9e-29  Score=208.13  Aligned_cols=76  Identities=36%  Similarity=0.538  Sum_probs=73.5

Q ss_pred             CcHHHHHHHHhhhhhhcCcCCcCcchhhhhccCCCccEehhhhccchhhhhhccCHHHHHHHHhcCCcEEEcCCcc
Q 012097          392 PEPSLAAMLIHQIDYYFSDANLVKDEFLKSNMDDQGWVPITLIASFPRVKNLTSNIQLILDSLRTSTVVEVQSYLF  467 (471)
Q Consensus       392 ~e~~L~~~I~kQIEYYFSD~NL~kD~FLR~~Md~dG~VPIslIasFnRVK~LT~D~~lI~eALr~S~~LEVseDki  467 (471)
                      ..++|+++|++||||||||+||++|.||+++|+.||||+|++|++|||||+||.|+++|++||+.|+.|||++|+.
T Consensus         3 ~~~~l~~~i~~QvEfYFSd~NL~~D~fL~~~m~~~G~V~l~~i~~F~r~k~lt~d~~~i~~Al~~S~~lev~~d~~   78 (88)
T d2cqka1           3 STEDLKECLKKQLEFCFSRENLSKDLYLISQMDSDQFIPIWTVANMEEIKKLTTDPDLILEVLRSSPMVQVDEKGE   78 (88)
T ss_dssp             CHHHHHHHHHHHHHHHTSHHHHHHCHHHHHHSCTTSCEEHHHHHHCHHHHHHCCCHHHHHHHHHHSSSEEECSSSS
T ss_pred             ChHHHHHHHHHHHHhhCCHhhhCcCHHHHHhhcCCCCEEhHHHhcChHHHHHcCCHHHHHHHHhcCCeEEEeCCCC
Confidence            4679999999999999999999999999999999999999999999999999999999999999999999999965

>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=99.95  E-value=5.1e-29  Score=208.18  Aligned_cols=79  Identities=27%  Similarity=0.545  Sum_probs=73.2

Q ss_pred             CCCcHHHHHHHHhhhhhhcCcCCcCcchhhhhcc--CCCccEehhhhccchhhhhhccCHHHHHHHHhcCCcEEEcCCc-
Q 012097          390 PVPEPSLAAMLIHQIDYYFSDANLVKDEFLKSNM--DDQGWVPITLIASFPRVKNLTSNIQLILDSLRTSTVVEVQSYL-  466 (471)
Q Consensus       390 P~~e~~L~~~I~kQIEYYFSD~NL~kD~FLR~~M--d~dG~VPIslIasFnRVK~LT~D~~lI~eALr~S~~LEVseDk-  466 (471)
                      |.. ++++++|++||||||||+||++|+||+++|  +.||||+|++|++|||||+|+.|+++|++||+.|..|||++|+ 
T Consensus         5 p~~-~e~~~~I~~QvEfYFSd~NL~~D~fL~~~m~~~~~G~V~i~~i~~F~rmk~lt~d~~~i~~Al~~S~~lev~ed~~   83 (92)
T d1s29a_           5 PLS-SENKQKLQKQVEFYFSDVNVQRDIFLKGKMAENAEGFVSLETLLTFKRVNSVTTDVKEVVEAIRPSEKLVLSEDGL   83 (92)
T ss_dssp             CCC-HHHHHHHHHHHHHHTSHHHHTTCHHHHHHHTTSTTCCEEHHHHTTSHHHHTTCSCHHHHHHHHTTCSSEEECTTSS
T ss_pred             CCC-HHHHHHHHHHHHHHccHhhhccCHHHHHHHhccCCCcEEhHHHhcCcCHHHhcCCHHHHHHHHhhCCeEEEeCCCC
Confidence            444 468899999999999999999999999999  7899999999999999999999999999999999999999995 


Q ss_pred             -ccc
Q 012097          467 -FID  469 (471)
Q Consensus       467 -iR~  469 (471)
                       ||+
T Consensus        84 ~VRR   87 (92)
T d1s29a_          84 MVRR   87 (92)
T ss_dssp             EEEE
T ss_pred             EEee
Confidence             454

>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=99.94  E-value=1.1e-27  Score=202.19  Aligned_cols=74  Identities=38%  Similarity=0.782  Sum_probs=70.5

Q ss_pred             HHHHHHHHhhhhhhcCcCCcCcchhhhhccC-CCccEehhhhccchhhhhhccCHHHHHHHHhcCC--cEEEcCCcc
Q 012097          394 PSLAAMLIHQIDYYFSDANLVKDEFLKSNMD-DQGWVPITLIASFPRVKNLTSNIQLILDSLRTST--VVEVQSYLF  467 (471)
Q Consensus       394 ~~L~~~I~kQIEYYFSD~NL~kD~FLR~~Md-~dG~VPIslIasFnRVK~LT~D~~lI~eALr~S~--~LEVseDki  467 (471)
                      .+|+++|++||||||||+||++|.|||++|+ +||||+|++|++|+|||+|+.|+++|++||+.|.  +|||++|++
T Consensus         7 ~~l~~~I~~QvEfYFSd~NL~~D~fL~~~m~~~eG~Vpl~~i~~F~r~k~l~~~~~~i~~Al~~S~~~~lev~~d~~   83 (99)
T d1zh5a1           7 AALEAKICHQIEYYFGDFNLPRDKFLKEQIKLDEGWVPLEIMIKFNRLNRLTTDFNVIVEALSKSKAELMEISEDKT   83 (99)
T ss_dssp             HHHHHHHHHHHHHHTSTTTGGGCHHHHHHHTTTTTCEEHHHHTTSHHHHHHCCCHHHHHHHHHTCSSCCEEECTTSS
T ss_pred             HHHHHHHHHHHHHhcCHhhhccCHHHHHHHhcCCCcccHHHHhcchHHHHHcCCHHHHHHHHHhCCCCeEEEcCCCc
Confidence            5889999999999999999999999999998 6999999999999999999999999999999987  599999976

>d1wfxa_ d.166.1.5 (A:) Probable RNA 2'-phosphotransferase KptA {Aeropyrum pernix [TaxId: 56636]}

class: Alpha and beta proteins (a+b)
fold: ADP-ribosylation
superfamily: ADP-ribosylation
family: Tpt1/KptA
domain: Probable RNA 2'-phosphotransferase KptA
species: Aeropyrum pernix [TaxId: 56636]

Probab=92.38  E-value=0.044  Score=48.70  Aligned_cols=49  Identities=10%  Similarity=0.114  Sum_probs=38.7

Q ss_pred             ccCCCccEehhhhccchhhhhhc-cCHHHHHHHHhcCC--cEEEcCCccccC
Q 012097          422 NMDDQGWVPITLIASFPRVKNLT-SNIQLILDSLRTST--VVEVQSYLFIDS  470 (471)
Q Consensus       422 ~Md~dG~VPIslIasFnRVK~LT-~D~~lI~eALr~S~--~LEVseDkiR~~  470 (471)
                      .||.+|||+|+.|+...+.+.+. .+.+.|.+.+++..  -.|+.+++||..
T Consensus        21 ~~d~~G~v~v~dLl~~~~~~~~~~~~~~~i~~iV~~d~K~Rfel~~~~IRA~   72 (180)
T d1wfxa_          21 RLTREGWARVSEVVEGLRKAGWSWVEEWHIVGVALHDPKGRYELRNGEIRAR   72 (180)
T ss_dssp             CCCTTCCEEHHHHHHHHHHTTCTTCCHHHHHHHHHHCSSCCEEEETTEEEES
T ss_pred             CcCCCCCEEHHHHHHHHHHcCCCcCcHHHHHHHHhcCCcccceecCCEEEee
Confidence            47899999999998776666554 46788888888754  489999999863