Psyllid ID: psy7251

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-
Protein Sequence
MDPEGFLPVTLITSFSHYMPFEYYFSADNLVRDIFLRKKMDPEGFLPVTLIASFSRVRSLTTDINRVLLAIQKSDKLELVDNFKVNQIIVIADTNGKQRSDYLPNNNHLHSNNNKRLTSLRSRLTLLSPNGQRMMISLLLLALTTQTIGNR
Secondary Structure (PSIPRED)
cccccccccccccHHHHHcccccccccccccccHHHHHHccccccEEHHHHHccHHHHcccccHHHHHHHHHccccEEEEcccEEEEccccccccccccccccccccccccccccccccHHHHHHHHcccccEEEEEEEEccccccccccc
Secondary Structure Prediction (SSPRO)
ccccccccccHHHHHHHHHEEEEEEcHHHHHHHHHHHHHccccccEEEEEEEcHHHHHHHHHHHHHHHHHHHcccEEEEEccEEEEEEEEEccccccccccccccccccccccccHHEcHHHHHHHcccccHHHHHHHHHHHHHHHccccc
Coil and Loop (DISEMBL)
MDPEGFLPVTLItsfshympfeyyfsadnLVRDIFLrkkmdpegflpvTLIASFSRVRSLTTDINRVLLAIQksdklelvdnfkVNQIIVIAdtngkqrsdylpnnnhlhsnnnkRLTSLRSRLTLLSPNGQRMMISLLLLALTTQTIGNR
Flexible Loop (DISEMBL)
MDPEGFLPVTLITSFSHYMPFEYYFSADNLVRDIFLRKKMDPEGFLPVTLIASFSRVRSLTTDINRVLLAiqksdklelvdnFKVNQIIVIADTNGKQRSDYLpnnnhlhsnnnkrltSLRSRLTLLSPNGQRMMISLLLlalttqtignr
Low Complexity Region (SEG)
MDPEGFLPVTLITSFSHYMPFEYYFSADNLVRDIFLRKKMDPEGFLPVTLIASFSRVRSLTTDINRVLLAIQKSDKLELVDNFKVNQIIVIADTNGKQRSDYLPnnnhlhsnnnKrltslrsrltllsPNGQRMMISLLLLALTTQTIGNR
Disordered region (IsUnstruct)
*****FLPVTLITSFSHYMPFEYYFSADNLVRDIFLRKKMDPEGFLPVTLIASFSRVRSLTTDINRVLLAIQKSDKLELVDNFKVNQIIVIADTN******************************LL***GQRMMISLLLLALTTQ*****
Disordered Region (DISOPRED)
***********ITSFSHYMPFEYYFSADNLVRDIFLRKKMDPEGFLPVTLIASFSRVRSLTTDINRVLLAIQKSDKLELVDNFKVNQIIVIADTNGKQRSDYLPNNNHLH***N******RSRLTLLSPNGQRMMISLLLLA*********
Disordered Region (DISEMBL)
MDPEGFLPVTLITSFSHYMPFEYYFSADNLVRDIFLRKKMDPEGFLPVTLIASFSRVRSLTTDINRVLLAIQKSDKLELVDNFKVNQIIVIADTNGKQRSDYLPNNNHLHSNNNKRLTSLRSRLTLLSPNGQRMMISLLLLALTTQTIGNR
Disordered Region (DISPRO)
***EGFLPVTLITSFSHYMPFEYYFSADNLVRDIFLRKKMDPEGFLPVTLIASFSRVRSLTTDINRVLLAIQKSDKLELVDNFKVNQIIVIADTNGKQRSDYLPNNNHLHSNNNKRLTSLRSRLTLLSPNGQRMMISLLLLALTTQTIG**
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MDPEGFLPVTLITSFSHYMPFEYYFSADNLVRDIFLRKKMDPEGFLPVTLIASFSRVRSLTTDINRVLLAIQKSDKLELVDNFKVNQIIVIADTNGKQRSDYLPNNNHLHSNNNKRLTSLRSRLTLLSPNGQRMMISLLLLALTTQTIGNR
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	151	2.2.26 [Sep-21-2011]
Q9VAW5	1673	La-related protein OS=Dro	no	N/A	0.423	0.038	0.656	2e-18
Q6PKG0	1096	La-related protein 1 OS=H	yes	N/A	0.397	0.054	0.633	2e-16
Q6ZQ58	1072	La-related protein 1 OS=M	yes	N/A	0.397	0.055	0.616	6e-16
Q659C4	914	La-related protein 1B OS=	no	N/A	0.397	0.065	0.583	9e-15
Q9P6K0	475	Uncharacterized HTH La-ty	yes	N/A	0.397	0.126	0.466	5e-12
Q9I7T7	1531	La-related protein CG1150	no	N/A	0.403	0.039	0.377	3e-07
Q26457	383	La protein homolog OS=Aed	N/A	N/A	0.364	0.143	0.428	1e-06
P40796	390	La protein homolog OS=Dro	no	N/A	0.364	0.141	0.385	3e-06
P10881	404	Lupus La protein homolog	no	N/A	0.463	0.173	0.378	1e-05
P05455	408	Lupus La protein OS=Homo	no	N/A	0.463	0.171	0.378	1e-05

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

 Score = 90.9 bits (224), Expect = 2e-18,   Method: Composition-based stats.
 Identities = 42/64 (65%), Positives = 53/64 (82%)

Query: 22  EYYFSADNLVRDIFLRKKMDPEGFLPVTLIASFSRVRSLTTDINRVLLAIQKSDKLELVD 81
           EYYFS DNL  D FLR+KMDPEG++PVTLIASF RV +LTTD+  ++ AI++SDKLEL +
Sbjct: 738 EYYFSVDNLTGDFFLRRKMDPEGYIPVTLIASFHRVLALTTDVAVIVNAIKESDKLELFE 797

Query: 82  NFKV 85
            +KV
Sbjct: 798 GYKV 801

Drosophila melanogaster (taxid: 7227)

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

 Score = 84.7 bits (208), Expect = 2e-16,   Method: Composition-based stats.
 Identities = 38/60 (63%), Positives = 49/60 (81%)

Query: 22  EYYFSADNLVRDIFLRKKMDPEGFLPVTLIASFSRVRSLTTDINRVLLAIQKSDKLELVD 81
           EYYFS DNL RD FLR+KMD +GFLP+TLIASF RV++LTTDI+ +  A++ S  +E+VD
Sbjct: 412 EYYFSVDNLERDFFLRRKMDADGFLPITLIASFHRVQALTTDISLIFAALKDSKVVEIVD 471

Homo sapiens (taxid: 9606)

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

 Score = 83.2 bits (204), Expect = 6e-16,   Method: Composition-based stats.
 Identities = 37/60 (61%), Positives = 49/60 (81%)

Query: 22  EYYFSADNLVRDIFLRKKMDPEGFLPVTLIASFSRVRSLTTDINRVLLAIQKSDKLELVD 81
           EYYFS DNL RD FLR+KMD +GFLP+TLIASF RV++LTTDI+ +  A++ S  +E+V+
Sbjct: 387 EYYFSVDNLERDFFLRRKMDADGFLPITLIASFHRVQALTTDISLIFAALKDSKVVEMVE 446

Mus musculus (taxid: 10090)

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

 Score = 79.3 bits (194), Expect = 9e-15,   Method: Compositional matrix adjust.
 Identities = 35/60 (58%), Positives = 49/60 (81%)

Query: 22  EYYFSADNLVRDIFLRKKMDPEGFLPVTLIASFSRVRSLTTDINRVLLAIQKSDKLELVD 81
           EYYFS +NL RD FLR KMD +GFLP++LIA F RV++LTT++N +L A++ S ++E+VD
Sbjct: 224 EYYFSVENLERDFFLRGKMDEQGFLPISLIAGFQRVQALTTNLNLILEALKDSTEVEIVD 283

Homo sapiens (taxid: 9606)

>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 = 70.1 bits (170), Expect = 5e-12,   Method: Compositional matrix adjust.
 Identities = 28/60 (46%), Positives = 45/60 (75%)

Query: 21  FEYYFSADNLVRDIFLRKKMDPEGFLPVTLIASFSRVRSLTTDINRVLLAIQKSDKLELV 80
            EYYFS +NL +D+FLRK MD EG++P+  +ASF+R++S +TD+N +  A + SD +++ 
Sbjct: 333 LEYYFSIENLCKDMFLRKHMDDEGYVPLAFLASFNRIKSFSTDLNLLHAACKASDIIDVA 392

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

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

 Score = 54.3 bits (129), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 23/61 (37%), Positives = 39/61 (63%)

Query: 21  FEYYFSADNLVRDIFLRKKMDPEGFLPVTLIASFSRVRSLTTDINRVLLAIQKSDKLELV 80
            EYYFS +NL  D +L  +MD + ++P+  +A F+ VR LT DIN +   +++S  +++ 
Sbjct: 276 LEYYFSRENLANDTYLLSQMDSDQYVPIYTVARFNLVRKLTNDINLITEVLRESPNVQVD 335

Query: 81  D 81
           D
Sbjct: 336 D 336

Drosophila melanogaster (taxid: 7227)

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

 Score = 52.0 bits (123), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 24/56 (42%), Positives = 40/56 (71%), Gaps = 1/56 (1%)

Query: 22  EYYFSADNLVRDIFLRKKMDP-EGFLPVTLIASFSRVRSLTTDINRVLLAIQKSDK 76
           EYYF   NL RD FL++++   EG++PV ++ +F R++SL+ D   ++ AI+KSD+
Sbjct: 52  EYYFGDANLARDKFLQEQISKDEGWVPVDVLLTFKRLKSLSEDKKVIVDAIEKSDE 107

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|P40796|LA_DROME La protein homolog OS=Drosophila melanogaster GN=La PE=1 SV=2

 Score = 50.8 bits (120), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 22/57 (38%), Positives = 43/57 (75%), Gaps = 2/57 (3%)

Query: 22  EYYFSADNLVRDIFLRKKM--DPEGFLPVTLIASFSRVRSLTTDINRVLLAIQKSDK 76
           EYYF   NL RD FLR+++  + +G++P++++ +F R+ SL+TD++ ++ A+ KS++
Sbjct: 59  EYYFGDANLNRDKFLREQIGKNEDGWVPLSVLVTFKRLASLSTDLSEIVAALNKSEE 115

May be involved in transcription termination by RNA polymerase III. Binds RNA and DNA. Binds to precursors of RNA polymerase III transcripts. May play a specialized role during fly development.

Drosophila melanogaster (taxid: 7227)

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

 Score = 48.5 bits (114), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 28/74 (37%), Positives = 45/74 (60%), Gaps = 4/74 (5%)

Query: 9  VTLITSFSHYMPFEYYFSADNLVRDIFLRKKMD-PEGFLPVTLIASFSRVRSLTTDINRV 67
            L     H +  EYYF   NL RD FL++++   EG++P+ ++  F+R+  LTTD N +
Sbjct: 11 AALEAKICHQI--EYYFGDFNLPRDKFLKEQIKLDEGWVPLEIMIKFNRLNRLTTDFNVI 68

Query: 68 LLAIQKSDKLELVD 81
          + A+ KS K EL++
Sbjct: 69 VEALSKS-KAELME 81

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

Bos taurus (taxid: 9913)

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

 Score = 48.5 bits (114), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 28/74 (37%), Positives = 45/74 (60%), Gaps = 4/74 (5%)

Query: 9  VTLITSFSHYMPFEYYFSADNLVRDIFLRKKMD-PEGFLPVTLIASFSRVRSLTTDINRV 67
            L     H +  EYYF   NL RD FL++++   EG++P+ ++  F+R+  LTTD N +
Sbjct: 11 AALEAKICHQI--EYYFGDFNLPRDKFLKEQIKLDEGWVPLEIMIKFNRLNRLTTDFNVI 68

Query: 68 LLAIQKSDKLELVD 81
          + A+ KS K EL++
Sbjct: 69 VEALSKS-KAELME 81

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)

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	151
170029771	1737	lupus la ribonucleoprotein [Culex quinqu	0.562	0.048	0.563	1e-19
157120615	1515	lupus la ribonucleoprotein [Aedes aegypt	0.450	0.044	0.676	2e-19
340715252	1375	PREDICTED: la-related protein 1-like [Bo	0.423	0.046	0.703	1e-18
350397469	1371	PREDICTED: la-related protein 1-like [Bo	0.423	0.046	0.703	1e-18
380020228	1326	PREDICTED: LOW QUALITY PROTEIN: la-relat	0.423	0.048	0.703	1e-18
328782230	1369	PREDICTED: la-related protein 1 [Apis me	0.423	0.046	0.703	1e-18
195110875	1531	GI24848 [Drosophila mojavensis] gi|19391	0.423	0.041	0.671	4e-18
345481592	1336	PREDICTED: la-related protein 1-like [Na	0.503	0.056	0.602	4e-18
312378999	1760	hypothetical protein AND_09263 [Anophele	0.423	0.036	0.656	4e-18
158287019	1033	AGAP005291-PB [Anopheles gambiae str. PE	0.423	0.061	0.656	1e-17

>gi|170029771|ref|XP_001842765.1| lupus la ribonucleoprotein [Culex quinquefasciatus] gi|167864084|gb|EDS27467.1| lupus la ribonucleoprotein [Culex quinquefasciatus]

 Score =  101 bits (251), Expect = 1e-19,   Method: Composition-based stats.
 Identities = 53/94 (56%), Positives = 65/94 (69%), Gaps = 9/94 (9%)

Query: 22  EYYFSADNLVRDIFLRKKMDPEGFLPVTLIASFSRVRSLTTDINRVLLAIQKSDKLELVD 81
           EYYFS +NL RD +LR+KMDPEGFLPVTLIASF RV++LT D+  ++ AIQ+SDKLELVD
Sbjct: 797 EYYFSEENLNRDFYLRRKMDPEGFLPVTLIASFHRVQALTADLTIIITAIQESDKLELVD 856

Query: 82  NFKVNQIIVIADTNGKQRSDYLP---NNNHLHSN 112
           ++KV  I      N   +    P    NNH  SN
Sbjct: 857 DYKVRTI------NEPTKWPIDPADVGNNHYQSN 884

Source: Culex quinquefasciatus

Species: Culex quinquefasciatus

Genus: Culex

Family: Culicidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|157120615|ref|XP_001659688.1| lupus la ribonucleoprotein [Aedes aegypti] gi|108874874|gb|EAT39099.1| AAEL009073-PA [Aedes aegypti]

 Score =  100 bits (249), Expect = 2e-19,   Method: Composition-based stats.
 Identities = 46/68 (67%), Positives = 58/68 (85%)

Query: 22  EYYFSADNLVRDIFLRKKMDPEGFLPVTLIASFSRVRSLTTDINRVLLAIQKSDKLELVD 81
           EYYFS DNL RD +LR+KMDPEGFLPVTLIASF RV++LT D+N ++ AIQ+SDKL+LV+
Sbjct: 592 EYYFSEDNLKRDFYLRRKMDPEGFLPVTLIASFHRVQALTADLNIIITAIQESDKLDLVE 651

Query: 82  NFKVNQII 89
           ++KV   I
Sbjct: 652 DYKVRTKI 659

Source: Aedes aegypti

Species: Aedes aegypti

Genus: Aedes

Family: Culicidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|340715252|ref|XP_003396131.1| PREDICTED: la-related protein 1-like [Bombus terrestris]

 Score = 98.2 bits (243), Expect = 1e-18,   Method: Compositional matrix adjust.
 Identities = 45/64 (70%), Positives = 55/64 (85%)

Query: 22  EYYFSADNLVRDIFLRKKMDPEGFLPVTLIASFSRVRSLTTDINRVLLAIQKSDKLELVD 81
           EYYFS +NL+RD FLR+KMD +GFLP+TLIASF RV++LTTD+  V+ AI +SDKLELVD
Sbjct: 509 EYYFSEENLLRDFFLRRKMDAQGFLPITLIASFHRVQTLTTDVGLVIEAIMESDKLELVD 568

Query: 82  NFKV 85
            FKV
Sbjct: 569 GFKV 572

Source: Bombus terrestris

Species: Bombus terrestris

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|350397469|ref|XP_003484887.1| PREDICTED: la-related protein 1-like [Bombus impatiens]

 Score = 97.8 bits (242), Expect = 1e-18,   Method: Compositional matrix adjust.
 Identities = 45/64 (70%), Positives = 55/64 (85%)

Query: 22  EYYFSADNLVRDIFLRKKMDPEGFLPVTLIASFSRVRSLTTDINRVLLAIQKSDKLELVD 81
           EYYFS +NL+RD FLR+KMD +GFLP+TLIASF RV++LTTD+  V+ AI +SDKLELVD
Sbjct: 504 EYYFSEENLLRDFFLRRKMDAQGFLPITLIASFHRVQTLTTDVGLVIEAIMESDKLELVD 563

Query: 82  NFKV 85
            FKV
Sbjct: 564 GFKV 567

Source: Bombus impatiens

Species: Bombus impatiens

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|380020228|ref|XP_003693993.1| PREDICTED: LOW QUALITY PROTEIN: la-related protein 1-like [Apis florea]

 Score = 97.8 bits (242), Expect = 1e-18,   Method: Compositional matrix adjust.
 Identities = 45/64 (70%), Positives = 55/64 (85%)

Query: 22  EYYFSADNLVRDIFLRKKMDPEGFLPVTLIASFSRVRSLTTDINRVLLAIQKSDKLELVD 81
           EYYFS +NL+RD FLR+KMD +GFLP+TLIASF RV++LTTD+  V+ AI +SDKLELVD
Sbjct: 465 EYYFSEENLLRDFFLRRKMDAQGFLPITLIASFHRVQTLTTDVGLVIEAIMESDKLELVD 524

Query: 82  NFKV 85
            FKV
Sbjct: 525 GFKV 528

Source: Apis florea

Species: Apis florea

Genus: Apis

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|328782230|ref|XP_001120391.2| PREDICTED: la-related protein 1 [Apis mellifera]

 Score = 97.8 bits (242), Expect = 1e-18,   Method: Compositional matrix adjust.
 Identities = 45/64 (70%), Positives = 55/64 (85%)

Query: 22  EYYFSADNLVRDIFLRKKMDPEGFLPVTLIASFSRVRSLTTDINRVLLAIQKSDKLELVD 81
           EYYFS +NL+RD FLR+KMD +GFLP+TLIASF RV++LTTD+  V+ AI +SDKLELVD
Sbjct: 506 EYYFSEENLLRDFFLRRKMDAQGFLPITLIASFHRVQTLTTDVGLVIEAIMESDKLELVD 565

Query: 82  NFKV 85
            FKV
Sbjct: 566 GFKV 569

Source: Apis mellifera

Species: Apis mellifera

Genus: Apis

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|195110875|ref|XP_002000005.1| GI24848 [Drosophila mojavensis] gi|193916599|gb|EDW15466.1| GI24848 [Drosophila mojavensis]

 Score = 96.3 bits (238), Expect = 4e-18,   Method: Compositional matrix adjust.
 Identities = 43/64 (67%), Positives = 54/64 (84%)

Query: 22  EYYFSADNLVRDIFLRKKMDPEGFLPVTLIASFSRVRSLTTDINRVLLAIQKSDKLELVD 81
           EYYFSADNL  D FLR+KMDPEG++PVTLIASF RV +LTTD+  ++ AI++SDKLEL +
Sbjct: 490 EYYFSADNLTGDFFLRRKMDPEGYIPVTLIASFHRVLALTTDVALIVTAIKESDKLELFE 549

Query: 82  NFKV 85
            +KV
Sbjct: 550 GYKV 553

Source: Drosophila mojavensis

Species: Drosophila mojavensis

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|345481592|ref|XP_001605854.2| PREDICTED: la-related protein 1-like [Nasonia vitripennis]

 Score = 96.3 bits (238), Expect = 4e-18,   Method: Composition-based stats.
 Identities = 47/78 (60%), Positives = 60/78 (76%), Gaps = 2/78 (2%)

Query: 13  TSFSHYMP--FEYYFSADNLVRDIFLRKKMDPEGFLPVTLIASFSRVRSLTTDINRVLLA 70
           T+   Y+    EYYFS +NL+RD FLR+KMD +GFLP+TLIASF RV++LTTD+  V+ A
Sbjct: 518 TTLKEYIKKQIEYYFSEENLLRDFFLRRKMDAQGFLPITLIASFHRVQALTTDVALVIEA 577

Query: 71  IQKSDKLELVDNFKVNQI 88
           I +SDKLELVD FKV  +
Sbjct: 578 ITESDKLELVDGFKVRTL 595

Source: Nasonia vitripennis

Species: Nasonia vitripennis

Genus: Nasonia

Family: Pteromalidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|312378999|gb|EFR25417.1| hypothetical protein AND_09263 [Anopheles darlingi]

 Score = 96.3 bits (238), Expect = 4e-18,   Method: Composition-based stats.
 Identities = 42/64 (65%), Positives = 57/64 (89%)

Query: 22  EYYFSADNLVRDIFLRKKMDPEGFLPVTLIASFSRVRSLTTDINRVLLAIQKSDKLELVD 81
           EYYFS DNL RD +LR+KMD EGFLPVTLIASF R+++LT+DI+ ++ AI++S+KLEL+D
Sbjct: 794 EYYFSEDNLNRDFYLRRKMDSEGFLPVTLIASFHRIQALTSDISIIIEAIKESEKLELID 853

Query: 82  NFKV 85
           ++KV
Sbjct: 854 DYKV 857

Source: Anopheles darlingi

Species: Anopheles darlingi

Genus: Anopheles

Family: Culicidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|158287019|ref|XP_309080.4| AGAP005291-PB [Anopheles gambiae str. PEST] gi|157019813|gb|EAA04823.4| AGAP005291-PB [Anopheles gambiae str. PEST]

 Score = 94.7 bits (234), Expect = 1e-17,   Method: Compositional matrix adjust.
 Identities = 42/64 (65%), Positives = 56/64 (87%)

Query: 22 EYYFSADNLVRDIFLRKKMDPEGFLPVTLIASFSRVRSLTTDINRVLLAIQKSDKLELVD 81
          EYYFS +NL RD +LR+KMDPEGFLPVTLIASF RV++LT DI+ +  AI++S+KLEL++
Sbjct: 31 EYYFSEENLNRDFYLRRKMDPEGFLPVTLIASFHRVQALTDDIDIITEAIKESEKLELIE 90

Query: 82 NFKV 85
          ++KV
Sbjct: 91 DYKV 94

Source: Anopheles gambiae str. PEST

Species: Anopheles gambiae

Genus: Anopheles

Family: Culicidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

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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	151
FB|FBgn0261618	1673	larp "La related protein" [Dro	0.423	0.038	0.656	1.5e-16
UNIPROTKB|F1P339	927	LARP1 "Uncharacterized protein	0.397	0.064	0.633	7.3e-16
UNIPROTKB|Q6PKG0	1096	LARP1 "La-related protein 1" [	0.430	0.059	0.606	7.1e-15
RGD|1306683	1024	Larp1 "La ribonucleoprotein do	0.430	0.063	0.590	1.7e-14
MGI|MGI:1890165	1072	Larp1 "La ribonucleoprotein do	0.430	0.060	0.590	1.9e-14
UNIPROTKB|G3V0E9	358	LARP1B "La-related protein 1B"	0.397	0.167	0.583	2.1e-14
UNIPROTKB|F1MZU1	951	LARP1 "Uncharacterized protein	0.430	0.068	0.590	2.6e-14
UNIPROTKB|G3XAJ5	522	LARP1B "La-related protein 1B"	0.397	0.114	0.583	5.5e-14
UNIPROTKB|Q659C4	914	LARP1B "La-related protein 1B"	0.397	0.065	0.583	1.4e-13
WB|WBGene00020097	1150	larp-1 [Caenorhabditis elegans	0.470	0.061	0.540	8.1e-13

FB|FBgn0261618 larp "La related protein" [Drosophila melanogaster (taxid:7227)]

 Score = 220 (82.5 bits), Expect = 1.5e-16, P = 1.5e-16
 Identities = 42/64 (65%), Positives = 53/64 (82%)

Query:    22 EYYFSADNLVRDIFLRKKMDPEGFLPVTLIASFSRVRSLTTDINRVLLAIQKSDKLELVD 81
             EYYFS DNL  D FLR+KMDPEG++PVTLIASF RV +LTTD+  ++ AI++SDKLEL +
Sbjct:   738 EYYFSVDNLTGDFFLRRKMDPEGYIPVTLIASFHRVLALTTDVAVIVNAIKESDKLELFE 797

Query:    82 NFKV 85
              +KV
Sbjct:   798 GYKV 801

GO:0005737 "cytoplasm" evidence=IDA

GO:0035071 "salivary gland cell autophagic cell death" evidence=IEP

GO:0048102 "autophagic cell death" evidence=IEP

GO:0003674 "molecular_function" evidence=ND

GO:0005829 "cytosol" evidence=IDA

GO:0051225 "spindle assembly" evidence=IMP

GO:0007076 "mitotic chromosome condensation" evidence=IMP

GO:0051299 "centrosome separation" evidence=IMP

GO:0007053 "spindle assembly involved in male meiosis" evidence=IMP

GO:0005739 "mitochondrion" evidence=IDA

GO:0007140 "male meiosis" evidence=IMP

GO:0000001 "mitochondrion inheritance" evidence=IMP

GO:0035186 "syncytial blastoderm mitotic cell cycle" evidence=IMP

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

 Score = 202 (76.2 bits), Expect = 7.3e-16, Sum P(2) = 7.3e-16
 Identities = 38/60 (63%), Positives = 50/60 (83%)

Query:    22 EYYFSADNLVRDIFLRKKMDPEGFLPVTLIASFSRVRSLTTDINRVLLAIQKSDKLELVD 81
             EYYFS DNL RD FLR+KMD +GFLP+TLIASF RV++LTTDI+ ++ A++ S  +E+VD
Sbjct:   251 EYYFSVDNLERDFFLRRKMDSDGFLPITLIASFHRVQALTTDISLIIKALKDSKVVEIVD 310

GO:0016239 "positive regulation of macroautophagy" evidence=IEA

UNIPROTKB|Q6PKG0 LARP1 "La-related protein 1" [Homo sapiens (taxid:9606)]

 Score = 202 (76.2 bits), Expect = 7.1e-15, P = 7.1e-15
 Identities = 40/66 (60%), Positives = 52/66 (78%)

Query:    22 EYYFSADNLVRDIFLRKKMDPEGFLPVTLIASFSRVRSLTTDINRVLLAIQKSDKLELVD 81
             EYYFS DNL RD FLR+KMD +GFLP+TLIASF RV++LTTDI+ +  A++ S  +E+VD
Sbjct:   412 EYYFSVDNLERDFFLRRKMDADGFLPITLIASFHRVQALTTDISLIFAALKDSKVVEIVD 471

Query:    82 NFKVNQ 87
               KV +
Sbjct:   472 E-KVRR 476

GO:0003723 "RNA binding" evidence=IEA

GO:0016239 "positive regulation of macroautophagy" evidence=IMP

RGD|1306683 Larp1 "La ribonucleoprotein domain family, member 1" [Rattus norvegicus (taxid:10116)]

 Score = 198 (74.8 bits), Expect = 1.7e-14, P = 1.7e-14
 Identities = 39/66 (59%), Positives = 52/66 (78%)

Query:    22 EYYFSADNLVRDIFLRKKMDPEGFLPVTLIASFSRVRSLTTDINRVLLAIQKSDKLELVD 81
             EYYFS DNL RD FLR+KMD +GFLP+TLIASF RV++LTTDI+ +  A++ S  +E+V+
Sbjct:   339 EYYFSVDNLERDFFLRRKMDADGFLPITLIASFHRVQALTTDISLIFAALKDSKVVEMVE 398

Query:    82 NFKVNQ 87
               KV +
Sbjct:   399 E-KVRR 403

GO:0016239 "positive regulation of macroautophagy" evidence=ISO

MGI|MGI:1890165 Larp1 "La ribonucleoprotein domain family, member 1" [Mus musculus (taxid:10090)]

 Score = 198 (74.8 bits), Expect = 1.9e-14, P = 1.9e-14
 Identities = 39/66 (59%), Positives = 52/66 (78%)

Query:    22 EYYFSADNLVRDIFLRKKMDPEGFLPVTLIASFSRVRSLTTDINRVLLAIQKSDKLELVD 81
             EYYFS DNL RD FLR+KMD +GFLP+TLIASF RV++LTTDI+ +  A++ S  +E+V+
Sbjct:   387 EYYFSVDNLERDFFLRRKMDADGFLPITLIASFHRVQALTTDISLIFAALKDSKVVEMVE 446

Query:    82 NFKVNQ 87
               KV +
Sbjct:   447 E-KVRR 451

GO:0003674 "molecular_function" evidence=ND

GO:0003723 "RNA binding" evidence=IEA

GO:0005737 "cytoplasm" evidence=ISA

GO:0016239 "positive regulation of macroautophagy" evidence=ISO

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

 Score = 189 (71.6 bits), Expect = 2.1e-14, P = 2.1e-14
 Identities = 35/60 (58%), Positives = 49/60 (81%)

Query:    22 EYYFSADNLVRDIFLRKKMDPEGFLPVTLIASFSRVRSLTTDINRVLLAIQKSDKLELVD 81
             EYYFS +NL RD FLR KMD +GFLP++LIA F RV++LTT++N +L A++ S ++E+VD
Sbjct:   224 EYYFSVENLERDFFLRGKMDEQGFLPISLIAGFQRVQALTTNLNLILEALKDSTEVEIVD 283

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0030529 "ribonucleoprotein complex" evidence=IEA

UNIPROTKB|F1MZU1 LARP1 "Uncharacterized protein" [Bos taurus (taxid:9913)]

 Score = 196 (74.1 bits), Expect = 2.6e-14, P = 2.6e-14
 Identities = 39/66 (59%), Positives = 52/66 (78%)

Query:    22 EYYFSADNLVRDIFLRKKMDPEGFLPVTLIASFSRVRSLTTDINRVLLAIQKSDKLELVD 81
             EYYFS DNL RD FLR+KMD +GFLP+TLIASF RV++LTTDI+ +  A++ S  +E+V+
Sbjct:   267 EYYFSVDNLERDFFLRRKMDADGFLPMTLIASFHRVQALTTDISLIFAALKDSKVVEIVE 326

Query:    82 NFKVNQ 87
               KV +
Sbjct:   327 E-KVRR 331

GO:0016239 "positive regulation of macroautophagy" evidence=IEA

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

 Score = 189 (71.6 bits), Expect = 5.5e-14, P = 5.5e-14
 Identities = 35/60 (58%), Positives = 49/60 (81%)

Query:    22 EYYFSADNLVRDIFLRKKMDPEGFLPVTLIASFSRVRSLTTDINRVLLAIQKSDKLELVD 81
             EYYFS +NL RD FLR KMD +GFLP++LIA F RV++LTT++N +L A++ S ++E+VD
Sbjct:   224 EYYFSVENLERDFFLRGKMDEQGFLPISLIAGFQRVQALTTNLNLILEALKDSTEVEIVD 283

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0030529 "ribonucleoprotein complex" evidence=IEA

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

 Score = 189 (71.6 bits), Expect = 1.4e-13, P = 1.4e-13
 Identities = 35/60 (58%), Positives = 49/60 (81%)

Query:    22 EYYFSADNLVRDIFLRKKMDPEGFLPVTLIASFSRVRSLTTDINRVLLAIQKSDKLELVD 81
             EYYFS +NL RD FLR KMD +GFLP++LIA F RV++LTT++N +L A++ S ++E+VD
Sbjct:   224 EYYFSVENLERDFFLRGKMDEQGFLPISLIAGFQRVQALTTNLNLILEALKDSTEVEIVD 283

GO:0003723 "RNA binding" evidence=IEA

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

 Score = 183 (69.5 bits), Expect = 8.1e-13, P = 8.1e-13
 Identities = 40/74 (54%), Positives = 52/74 (70%)

Query:     8 PVTLITSFSHYM--PFEYYFSADNLVRDIFLRKKMDPEGFLPVTLIASFSRVRSLTTDIN 65
             PVT  T    Y+    EYYFS +NL +D FLR+KM PEG+LPV LIASF RVRSLT D +
Sbjct:   573 PVTDDT-LKEYVRKQIEYYFSEENLQKDFFLRRKMGPEGYLPVALIASFPRVRSLTEDYS 631

Query:    66 RVLLAIQKSDKLEL 79
              +L A++ S K+++
Sbjct:   632 LILEALKDSTKVDM 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

---

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 EFICAz Software

No EC number assignment, probably not an enzyme!

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database

ID	Length	Definition	E-value
Query	151
cd08034	73	cd08034, LARP_1_2, La RNA-binding domain proteins	9e-29
smart00715	80	smart00715, LA, Domain in the RNA-binding Lupus La	5e-23
cd07323	75	cd07323, LAM, LA motif RNA-binding domain	2e-22
cd08037	73	cd08037, LARP_1, La RNA-binding domain of La-relat	3e-22
cd08038	73	cd08038, LARP_2, La RNA-binding domain of La-relat	1e-20
pfam05383	59	pfam05383, La, La domain	8e-19
cd08033	77	cd08033, LARP_6, La RNA-binding domain of La-relat	3e-16
cd08031	75	cd08031, LARP_4_5_like, La RNA-binding domain of p	1e-11
cd08028	82	cd08028, LARP_3, La RNA-binding domain of La-relat	1e-09
COG5193	438	COG5193, LHP1, La protein, small RNA-binding pol I	3e-08
cd08030	90	cd08030, LA_like_plant, La-motif domain of plant p	3e-08
cd08035	75	cd08035, LARP_4, La RNA-binding domain of La-relat	6e-07
cd08029	76	cd08029, LA_like_fungal, La-motif domain of fungal	1e-06
cd08032	82	cd08032, LARP_7, La RNA-binding domain of La-relat	3e-05
cd08036	75	cd08036, LARP_5, La RNA-binding domain of La-relat	7e-05
COG5193	438	COG5193, LHP1, La protein, small RNA-binding pol I	9e-04

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

 Score =  100 bits (250), Expect = 9e-29
 Identities = 39/61 (63%), Positives = 50/61 (81%)

Query: 22 EYYFSADNLVRDIFLRKKMDPEGFLPVTLIASFSRVRSLTTDINRVLLAIQKSDKLELVD 81
          EYYFS DNL +D FLR+KMDPEG+LP+ LIASF RV++LTTD+N +L A++ S  +ELVD
Sbjct: 9  EYYFSVDNLEKDFFLRRKMDPEGYLPIALIASFHRVQALTTDVNLILEALKDSTVVELVD 68

Query: 82 N 82
           
Sbjct: 69 E 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|128955 smart00715, LA, Domain in the RNA-binding Lupus La protein; unknown function

 Score = 85.7 bits (213), Expect = 5e-23
 Identities = 35/64 (54%), Positives = 50/64 (78%), Gaps = 1/64 (1%)

Query: 22 EYYFSADNLVRDIFLRKKMDP-EGFLPVTLIASFSRVRSLTTDINRVLLAIQKSDKLELV 80
          EYYFS +NL RD FLRKKMD  +G++P++ IASF RV+SLTTD+N ++ A++ S KLE+ 
Sbjct: 12 EYYFSDENLPRDKFLRKKMDKNDGYVPISTIASFKRVKSLTTDVNLIVEALRSSPKLEVS 71

Query: 81 DNFK 84
          ++  
Sbjct: 72 EDGL 75

Length = 80

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

 Score = 84.1 bits (209), Expect = 2e-22
 Identities = 29/61 (47%), Positives = 47/61 (77%)

Query: 22 EYYFSADNLVRDIFLRKKMDPEGFLPVTLIASFSRVRSLTTDINRVLLAIQKSDKLELVD 81
          EYYFS +NL +D FLR  MD +G++P++L+ASF+RV+ LTTD+  +L A++ S  +E+ +
Sbjct: 9  EYYFSDENLCKDRFLRSLMDDDGWVPLSLLASFNRVKKLTTDVELILEALRDSSVVEVSE 68

Query: 82 N 82
          +
Sbjct: 69 D 69

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

 Score = 83.8 bits (207), Expect = 3e-22
 Identities = 38/60 (63%), Positives = 50/60 (83%)

Query: 22 EYYFSADNLVRDIFLRKKMDPEGFLPVTLIASFSRVRSLTTDINRVLLAIQKSDKLELVD 81
          EYYFS DNL RD FLR+KMD +GFLPVTLIASF RV++LTTDI+ ++ A++ S  +E++D
Sbjct: 9  EYYFSVDNLERDFFLRRKMDEDGFLPVTLIASFHRVQALTTDISLIIKALKDSKVVEIID 68

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

 Score = 79.6 bits (196), Expect = 1e-20
 Identities = 34/60 (56%), Positives = 50/60 (83%)

Query: 22 EYYFSADNLVRDIFLRKKMDPEGFLPVTLIASFSRVRSLTTDINRVLLAIQKSDKLELVD 81
          EYYFS +NL RD FLR+KMD +GFLP++LIA F RV++LTT+++ +L A++ S ++E+VD
Sbjct: 9  EYYFSTENLERDFFLRRKMDLQGFLPISLIAGFYRVQALTTNVDLILEALKDSTEVEIVD 68

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|203243 pfam05383, La, La domain

 Score = 74.5 bits (184), Expect = 8e-19
 Identities = 29/54 (53%), Positives = 43/54 (79%), Gaps = 1/54 (1%)

Query: 22 EYYFSADNLVRDIFLRKKMDPE-GFLPVTLIASFSRVRSLTTDINRVLLAIQKS 74
          EYYFS +NL RD FLRK+MD + G++P++ IASF R++ LTTD+N ++ A++ S
Sbjct: 6  EYYFSDENLPRDKFLRKQMDKDPGYVPISTIASFKRIKKLTTDVNLIVEALRSS 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|153402 cd08033, LARP_6, La RNA-binding domain of La-related protein 6

 Score = 68.5 bits (168), Expect = 3e-16
 Identities = 31/67 (46%), Positives = 46/67 (68%), Gaps = 3/67 (4%)

Query: 22 EYYFSADNLVRDIFLRKKM--DPEGFLPVTLIASFSRVRSLTTDINRVLLAIQKSDKLEL 79
          EYYFS +NL++D FL K +  + EG++P+ LIASF +V++LT D   V  A+++S KL +
Sbjct: 9  EYYFSDENLLKDAFLLKHVRRNKEGYVPIKLIASFKKVKALTRDWRVVAAALRRSSKLVV 68

Query: 80 V-DNFKV 85
            D  KV
Sbjct: 69 SEDGKKV 75

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

 Score = 56.7 bits (137), Expect = 1e-11
 Identities = 22/58 (37%), Positives = 43/58 (74%)

Query: 22 EYYFSADNLVRDIFLRKKMDPEGFLPVTLIASFSRVRSLTTDINRVLLAIQKSDKLEL 79
          EYYFS +NL  D +L  +MD + ++P+  IA+F++++ LTTDI+ ++ A+++S  +++
Sbjct: 9  EYYFSRENLANDAYLLSQMDSDQYVPIWTIANFNKIKKLTTDIDLIVEALRESPNVQV 66

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

 Score = 51.5 bits (124), Expect = 1e-09
 Identities = 20/55 (36%), Positives = 39/55 (70%), Gaps = 1/55 (1%)

Query: 22 EYYFSADNLVRDIFLRKKM-DPEGFLPVTLIASFSRVRSLTTDINRVLLAIQKSD 75
          EYYF   NL RD FL++++ + +G++P+ ++  F+R++SL++D   +  A++KS 
Sbjct: 13 EYYFGDFNLPRDKFLKEQIKEDDGWVPMEVMLKFNRLKSLSSDPEVIAKALKKSK 67

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|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 = 50.8 bits (121), Expect = 3e-08
 Identities = 27/77 (35%), Positives = 36/77 (46%), Gaps = 1/77 (1%)

Query: 22  EYYFSADNLVRDIFLRKKMDPEGFLPVTLIASFSRVRSLTTDINRVLLAIQKSDK-LELV 80
           EYYFS +NL  D FLRKK    GF+P++ I  F R  S   D N +L A+++  +     
Sbjct: 279 EYYFSEENLKSDEFLRKKFKKAGFIPLSFIGKFYRNLSFGGDKNLILAAMKEVVQNKATN 338

Query: 81  DNFKVNQIIVIADTNGK 97
                   I  A  N  
Sbjct: 339 HLEIALGSIEDAQKNEA 355

Length = 438

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

 Score = 47.8 bits (114), Expect = 3e-08
 Identities = 22/41 (53%), Positives = 30/41 (73%), Gaps = 2/41 (4%)

Query: 22 EYYFSADNLVRDIFLRKKM--DPEGFLPVTLIASFSRVRSL 60
          E+YFS  NL RD FL +++  DP+G + + LI SFSR+RSL
Sbjct: 10 EFYFSDSNLPRDDFLLEEVEEDPDGMVSLALICSFSRMRSL 50

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

 Score = 44.3 bits (104), Expect = 6e-07
 Identities = 18/54 (33%), Positives = 36/54 (66%)

Query: 21 FEYYFSADNLVRDIFLRKKMDPEGFLPVTLIASFSRVRSLTTDINRVLLAIQKS 74
           E+ FS +NL +D++L  +MD + F+P+  +A+   ++ LTTD++ +L  ++ S
Sbjct: 8  LEFCFSRENLSKDLYLISQMDSDQFVPIWTVANMEGIKKLTTDMDLILDVLRSS 61

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

 Score = 43.8 bits (104), Expect = 1e-06
 Identities = 22/63 (34%), Positives = 36/63 (57%), Gaps = 3/63 (4%)

Query: 22 EYYFSADNLVRDIFLRKKM--DPEGFLPVTLIASFSRVRSLTTDINRVLLAIQKSDKLEL 79
          E+YFS  NL  D FL         G++P+  IASF R+R     +  V+ A+++S+ LE+
Sbjct: 9  EFYFSDSNLPTDKFLWTLTGGSNNGWVPIKTIASFKRMRRF-QPLEAVVEALRESELLEV 67

Query: 80 VDN 82
           ++
Sbjct: 68 SED 70

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

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

 Score = 40.3 bits (94), Expect = 3e-05
 Identities = 19/60 (31%), Positives = 41/60 (68%), Gaps = 2/60 (3%)

Query: 22 EYYFSADNLVRDIFLRKKMDP--EGFLPVTLIASFSRVRSLTTDINRVLLAIQKSDKLEL 79
          +++F   NL +D FLR++++   +G++ ++L+ SF++++ LTTD   +  A++ S  +EL
Sbjct: 14 DFWFGDVNLHKDRFLREQIEKSRDGYIDISLLVSFNKMKKLTTDGKLIARALKNSSVVEL 73

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

 Score = 38.8 bits (90), Expect = 7e-05
 Identities = 17/61 (27%), Positives = 38/61 (62%), Gaps = 1/61 (1%)

Query: 21 FEYYFSADNLVRDIFLRKKMDPEGFLPVTLIASFSRVRSLTTDINRVLLAIQKSDKLELV 80
           E+  S +NL  D++L  +MD + ++P+  +A+   ++ L+TD++ +++ + +S  L  V
Sbjct: 8  LEFCLSRENLASDMYLISQMDSDQYVPIMTVANLDHIKKLSTDVD-LIVDVLRSLPLVQV 66

Query: 81 D 81
          D
Sbjct: 67 D 67

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|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 = 38.1 bits (88), Expect = 9e-04
 Identities = 27/131 (20%), Positives = 49/131 (37%), Gaps = 18/131 (13%)

Query: 20  PFEYYFSA-----DNLVRDIFLR----KKMDPEGFLPVTLIASFSRVRSLTTDINRVLLA 70
             E+YFS       N  +D FL+    K    + ++P+  IA+F+R+++  + ++ V  A
Sbjct: 78  QVEFYFSGSKDTDSNFPKDKFLKTTAPKNKKRDKWVPIKTIATFNRMKNSGSPVSAVSGA 137

Query: 71  IQKSDKLELV----DNFKVNQII-----VIADTNGKQRSDYLPNNNHLHSNNNKRLTSLR 121
           ++KS    ++         N+           T+  QR  Y         NN  R     
Sbjct: 138 LRKSLDARVLEVSSSGSNKNRTEKLISNNNKSTSQMQRDVYQNGFGKEDVNNASRPEQQE 197

Query: 122 SRLTLLSPNGQ 132
                  P+  
Sbjct: 198 DLEIQFPPHYH 208

Length = 438

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	151
cd08036	75	LARP_5 La RNA-binding domain of La-related protein	99.97
cd08035	75	LARP_4 La RNA-binding domain of La-related protein	99.97
cd08037	73	LARP_1 La RNA-binding domain of La-related protein	99.97
cd08038	73	LARP_2 La RNA-binding domain of La-related protein	99.97
cd08034	73	LARP_1_2 La RNA-binding domain proteins similar to	99.97
cd08033	77	LARP_6 La RNA-binding domain of La-related protein	99.97
cd08031	75	LARP_4_5_like La RNA-binding domain of proteins si	99.97
cd08032	82	LARP_7 La RNA-binding domain of La-related protein	99.97
smart00715	80	LA Domain in the RNA-binding Lupus La protein; unk	99.97
cd08029	76	LA_like_fungal La-motif domain of fungal proteins	99.97
cd08028	82	LARP_3 La RNA-binding domain of La-related protein	99.96
cd07323	75	LAM LA motif RNA-binding domain. This domain is fo	99.96
cd08030	90	LA_like_plant La-motif domain of plant proteins si	99.96
PF05383	61	La: La domain; InterPro: IPR006630 Human Ro ribonu	99.92
KOG1855|consensus	484		99.91
KOG2591|consensus	684		99.77
KOG4213|consensus	205		99.77
KOG2590|consensus	448		99.15
COG5193	438	LHP1 La protein, small RNA-binding pol III transcr	99.09
COG5193	438	LHP1 La protein, small RNA-binding pol III transcr	99.01
PF09421	989	FRQ: Frequency clock protein; InterPro: IPR018554	95.36
KOG2590|consensus	448		93.12
PF01885	186	PTS_2-RNA: RNA 2'-phosphotransferase, Tpt1 / KptA	92.36
PRK00819	179	RNA 2'-phosphotransferase; Reviewed	91.56
KOG2278|consensus	207		90.63

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

Probab=99.97  E-value=7.6e-33  Score=193.71  Aligned_cols=72  Identities=21%  Similarity=0.444  Sum_probs=69.4

Q ss_pred             hhhhcccceecCCCCCCcchHHhhhcCCCCcEehHhhhcccccccccCCHHHHHHHHhcCCcEEEeCC-ceeE
Q psy7251          15 FSHYMPFEYYFSADNLVRDIFLRKKMDPEGFLPVTLIASFSRVRSLTTDINRVLLAIQKSDKLELVDN-FKVN   86 (151)
Q Consensus        15 ~~i~kQvEfYFSd~NL~~D~fLr~~m~~~G~Vpl~~i~~F~rvk~lt~d~~~I~~Al~~S~~LEv~ed-~kVR   86 (151)
                      +.|++||||||||+||++|.||+++|++||||||++|++|||||+||.|.+.|++||+.|+.|||+++ .|||
T Consensus         2 e~i~kQvEyYFS~~NL~~D~fLr~~md~~g~Vpi~~ia~F~rik~Lt~D~~lI~~aL~~S~~vevse~g~kVR   74 (75)
T cd08036           2 ELLKKTLEFCLSRENLASDMYLISQMDSDQYVPIMTVANLDHIKKLSTDVDLIVDVLRSLPLVQVDEKGEKVR   74 (75)
T ss_pred             hhhhcceeeeechhhccccHHHHHHhccCCCEehHHHhccHHHHHhcCCHHHHHHHHhhCCeEEECCCCCccC
Confidence            46899999999999999999999999999999999999999999999999999999999999999987 5888

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=99.97  E-value=6.3e-33  Score=194.39  Aligned_cols=72  Identities=28%  Similarity=0.504  Sum_probs=69.7

Q ss_pred             hhhhcccceecCCCCCCcchHHhhhcCCCCcEehHhhhcccccccccCCHHHHHHHHhcCCcEEEeCC-ceeE
Q psy7251          15 FSHYMPFEYYFSADNLVRDIFLRKKMDPEGFLPVTLIASFSRVRSLTTDINRVLLAIQKSDKLELVDN-FKVN   86 (151)
Q Consensus        15 ~~i~kQvEfYFSd~NL~~D~fLr~~m~~~G~Vpl~~i~~F~rvk~lt~d~~~I~~Al~~S~~LEv~ed-~kVR   86 (151)
                      +.|++||||||||+||++|.||+++|+++|||||++|++|||||+||.|.+.|++||+.|+.|||++| .+||
T Consensus         2 e~i~~QvEyYFSd~NL~~D~fL~~~md~~G~Vpi~~iasF~rik~lt~d~~~I~~AL~~S~~levsedg~kVR   74 (75)
T cd08035           2 ECLKKQLEFCFSRENLSKDLYLISQMDSDQFVPIWTVANMEGIKKLTTDMDLILDVLRSSPMVQVDETGEKVR   74 (75)
T ss_pred             hHHHhhHHhhcCHhhcccCHHHHHhhCcCCCEehHHHhccHHHHHhcCCHHHHHHHHHcCCeEEEcCCCCccC
Confidence            57999999999999999999999999999999999999999999999999999999999999999987 5888

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.

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

Probab=99.97  E-value=9.4e-33  Score=192.66  Aligned_cols=72  Identities=54%  Similarity=0.843  Sum_probs=69.8

Q ss_pred             hhhhcccceecCCCCCCcchHHhhhcCCCCcEehHhhhcccccccccCCHHHHHHHHhcCCcEEEeCCceeEe
Q psy7251          15 FSHYMPFEYYFSADNLVRDIFLRKKMDPEGFLPVTLIASFSRVRSLTTDINRVLLAIQKSDKLELVDNFKVNQ   87 (151)
Q Consensus        15 ~~i~kQvEfYFSd~NL~~D~fLr~~m~~~G~Vpl~~i~~F~rvk~lt~d~~~I~~Al~~S~~LEv~ed~kVRR   87 (151)
                      ++|++||||||||+||++|.||+++|++||||||++|++|||||+|+.|.+.|++||+.|+.||++++ +|||
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 DYIKRQIEYYFSVDNLERDFFLRRKMDEDGFLPVTLIASFHRVQALTTDISLIIKALKDSKVVEIIDM-KIRR   73 (73)
T ss_pred             hHHHHHHHHhccHhhhccCHHHHHHhccCCCEeHHHHhcchHHHHhcCCHHHHHHHHHcCCeEEEecc-hhcC
Confidence            57999999999999999999999999999999999999999999999999999999999999999988 8886

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=99.97  E-value=1.5e-32  Score=191.66  Aligned_cols=72  Identities=49%  Similarity=0.822  Sum_probs=69.6

Q ss_pred             hhhhcccceecCCCCCCcchHHhhhcCCCCcEehHhhhcccccccccCCHHHHHHHHhcCCcEEEeCCceeEe
Q psy7251          15 FSHYMPFEYYFSADNLVRDIFLRKKMDPEGFLPVTLIASFSRVRSLTTDINRVLLAIQKSDKLELVDNFKVNQ   87 (151)
Q Consensus        15 ~~i~kQvEfYFSd~NL~~D~fLr~~m~~~G~Vpl~~i~~F~rvk~lt~d~~~I~~Al~~S~~LEv~ed~kVRR   87 (151)
                      ++|++||||||||+||++|.||+++|+++|||||++|++|||||+|+.|.+.|.+||+.|+.||++++ +|||
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 EYIKRQIEYYFSTENLERDFFLRRKMDLQGFLPISLIAGFYRVQALTTNVDLILEALKDSTEVEIVDQ-KIRR   73 (73)
T ss_pred             hHHHhhHHhhcchhhhccCHHHHHHhCCCCCEeHHHHhcchHHHHhcCCHHHHHHHHHcCCeEEEeCC-cccC
Confidence            57999999999999999999999999999999999999999999999999999999999999999987 8875

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.

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

Probab=99.97  E-value=2.7e-32  Score=190.27  Aligned_cols=72  Identities=57%  Similarity=0.875  Sum_probs=69.8

Q ss_pred             hhhhcccceecCCCCCCcchHHhhhcCCCCcEehHhhhcccccccccCCHHHHHHHHhcCCcEEEeCCceeEe
Q psy7251          15 FSHYMPFEYYFSADNLVRDIFLRKKMDPEGFLPVTLIASFSRVRSLTTDINRVLLAIQKSDKLELVDNFKVNQ   87 (151)
Q Consensus        15 ~~i~kQvEfYFSd~NL~~D~fLr~~m~~~G~Vpl~~i~~F~rvk~lt~d~~~I~~Al~~S~~LEv~ed~kVRR   87 (151)
                      ++|++||||||||+||++|.||+++|+++|||||++|++|||||+++.|.+.|.+||+.|+.|||+++ +|||
T Consensus         2 ~~i~~QvEfYFSd~NL~~D~fLr~~m~~~G~Vpl~~i~~F~rmk~l~~d~~~i~~Al~~S~~lev~e~-kvR~   73 (73)
T cd08034           2 EYIKKQIEYYFSVDNLEKDFFLRRKMDPEGYLPIALIASFHRVQALTTDVNLILEALKDSTVVELVDE-KVRC   73 (73)
T ss_pred             hHHHhhHHhhcCHhhhccCHHHHHHcCCCCCEeHHHHhccHHHHHHcCCHHHHHHHHHcCCeEEEecC-eecC
Confidence            58999999999999999999999999999999999999999999999999999999999999999995 8985

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.

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

Probab=99.97  E-value=2.5e-32  Score=192.10  Aligned_cols=73  Identities=41%  Similarity=0.684  Sum_probs=70.2

Q ss_pred             hhhhcccceecCCCCCCcchHHhhhc--CCCCcEehHhhhcccccccccCCHHHHHHHHhcCCcEEEeCC-ceeEe
Q psy7251          15 FSHYMPFEYYFSADNLVRDIFLRKKM--DPEGFLPVTLIASFSRVRSLTTDINRVLLAIQKSDKLELVDN-FKVNQ   87 (151)
Q Consensus        15 ~~i~kQvEfYFSd~NL~~D~fLr~~m--~~~G~Vpl~~i~~F~rvk~lt~d~~~I~~Al~~S~~LEv~ed-~kVRR   87 (151)
                      ++|++||||||||+||++|.||+++|  ++||||||++|++|||||+++.|.+.|.+||+.|+.|||++| .+|||
T Consensus         2 ~~i~~QvEfYFSd~NL~~D~fL~~~~~~~~dG~Vpl~~i~~F~rmk~l~~d~~~I~~Al~~S~~lev~~d~~~VRR   77 (77)
T cd08033           2 QKIVKQVEYYFSDENLLKDAFLLKHVRRNKEGYVPIKLIASFKKVKALTRDWRVVAAALRRSSKLVVSEDGKKVRR   77 (77)
T ss_pred             hHHHhHHHhhcCHhhhccCHHHHHHhccCCCCcEehHHHhcchHHHHHcCCHHHHHHHHHhCCeEEEcCCCCccCC
Confidence            47999999999999999999999999  789999999999999999999999999999999999999987 58997

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.

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

Probab=99.97  E-value=6.7e-32  Score=189.12  Aligned_cols=72  Identities=33%  Similarity=0.592  Sum_probs=69.7

Q ss_pred             hhhhcccceecCCCCCCcchHHhhhcCCCCcEehHhhhcccccccccCCHHHHHHHHhcCCcEEEeCC-ceeE
Q psy7251          15 FSHYMPFEYYFSADNLVRDIFLRKKMDPEGFLPVTLIASFSRVRSLTTDINRVLLAIQKSDKLELVDN-FKVN   86 (151)
Q Consensus        15 ~~i~kQvEfYFSd~NL~~D~fLr~~m~~~G~Vpl~~i~~F~rvk~lt~d~~~I~~Al~~S~~LEv~ed-~kVR   86 (151)
                      ++|++||||||||+||++|.||+++|+++|||||++|++|||||+++.|.+.|++||+.|+.|||++| ++||
T Consensus         2 ~~i~~QvEfYFSd~NL~~D~fL~~~m~~dG~Vpl~~i~~F~rmk~lt~d~~~i~~Al~~S~~lev~ed~~~VR   74 (75)
T cd08031           2 ELLKRQLEYYFSRENLANDAYLLSQMDSDQYVPIWTIANFNKIKKLTTDIDLIVEALRESPNVQVDEKGEKVR   74 (75)
T ss_pred             hHHHHHHHHHcCHhhhccCHHHHHHhCCCCCEEHHHHhCchhHHHHcCCHHHHHHHHHhCCeEEEcCCCCccC
Confidence            57999999999999999999999999999999999999999999999999999999999999999987 5888

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=99.97  E-value=7.2e-32  Score=191.88  Aligned_cols=73  Identities=26%  Similarity=0.515  Sum_probs=70.2

Q ss_pred             hhhhcccceecCCCCCCcchHHhhhcC--CCCcEehHhhhcccccccccCCHHHHHHHHhcCCcEEEeCC-ceeEe
Q psy7251          15 FSHYMPFEYYFSADNLVRDIFLRKKMD--PEGFLPVTLIASFSRVRSLTTDINRVLLAIQKSDKLELVDN-FKVNQ   87 (151)
Q Consensus        15 ~~i~kQvEfYFSd~NL~~D~fLr~~m~--~~G~Vpl~~i~~F~rvk~lt~d~~~I~~Al~~S~~LEv~ed-~kVRR   87 (151)
                      ++|++||||||||+||++|.||+++|+  +||||||++|++|||||+|+.|.+.|++||+.|+.|||++| ++|||
T Consensus         7 ~~I~~QvEfYFSd~NL~~D~fL~~~~~~~~dG~Vpl~~i~~F~rmk~lt~d~~~i~~Al~~S~~lev~ed~~~VRR   82 (82)
T cd08032           7 ADIAKQVDFWFGDVNLHKDRFLREQIEKSRDGYIDISLLVSFNKMKKLTTDGKLIARALKNSSVVELNLEGTRIRR   82 (82)
T ss_pred             HHHHHHHHhhcchhhcccCHHHHHHhcCCCCCCEeHHHHhcchHHHHHcCCHHHHHHHHhcCCEEEEcCCCCccCC
Confidence            589999999999999999999999995  89999999999999999999999999999999999999987 58997

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.

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

Probab=99.97  E-value=1.5e-31  Score=189.10  Aligned_cols=76  Identities=49%  Similarity=0.764  Sum_probs=72.1

Q ss_pred             chhhhhcccceecCCCCCCcchHHhhhcCC-CCcEehHhhhcccccccccCCHHHHHHHHhcCCcEEEeCC-ceeEec
Q psy7251          13 TSFSHYMPFEYYFSADNLVRDIFLRKKMDP-EGFLPVTLIASFSRVRSLTTDINRVLLAIQKSDKLELVDN-FKVNQI   88 (151)
Q Consensus        13 ~~~~i~kQvEfYFSd~NL~~D~fLr~~m~~-~G~Vpl~~i~~F~rvk~lt~d~~~I~~Al~~S~~LEv~ed-~kVRRk   88 (151)
                      ..++|++||||||||+||++|.||+++|+. +|||||++|++|||||+++.|.+.|.+||+.|+.|||++| .+|||+
T Consensus         3 ~~~~i~~QvEfYFSd~NL~~D~fLr~~~~~~~g~Vpl~~i~~F~r~k~l~~d~~~i~~Al~~S~~lel~~d~~~VRR~   80 (80)
T smart00715        3 LKQKIKKQVEYYFSDENLPRDKFLRKKMDKNDGYVPISTIASFKRVKSLTTDVNLIVEALRSSPKLEVSEDGLKVRRR   80 (80)
T ss_pred             HHHHHHHHHHHHcCHhhhhhCHHHHHHhccCCCCEEhHHHhCchhHHHHcCCHHHHHHHHHhCCeEEEcCCCCeeCcC
Confidence            457899999999999999999999999976 9999999999999999999999999999999999999987 589984

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

Probab=99.97  E-value=2e-31  Score=187.10  Aligned_cols=72  Identities=32%  Similarity=0.498  Sum_probs=68.5

Q ss_pred             hhhhcccceecCCCCCCcchHHhhhc--CCCCcEehHhhhcccccccccCCHHHHHHHHhcCCcEEEeCC-ceeEe
Q psy7251          15 FSHYMPFEYYFSADNLVRDIFLRKKM--DPEGFLPVTLIASFSRVRSLTTDINRVLLAIQKSDKLELVDN-FKVNQ   87 (151)
Q Consensus        15 ~~i~kQvEfYFSd~NL~~D~fLr~~m--~~~G~Vpl~~i~~F~rvk~lt~d~~~I~~Al~~S~~LEv~ed-~kVRR   87 (151)
                      ++|++||||||||+||++|.||+++|  ++||||||++|++|||||+++.+ +.|.+||+.|+.|||++| ++|||
T Consensus         2 ~~I~~QvEfYFSd~NL~~D~fLr~~~~~~~~G~Vpl~~i~~F~rmk~l~~~-~~i~~Al~~S~~lev~~d~~~VRR   76 (76)
T cd08029           2 EEIRKQVEFYFSDSNLPTDKFLWTLTGGSNNGWVPIKTIASFKRMRRFQPL-EAVVEALRESELLEVSEDGENVRR   76 (76)
T ss_pred             hHHHhhHHhhcCHhhhccCHHHHHHhccCCCCcEehHHHhCchHHHHcCCH-HHHHHHHHhCCeEEEeCCCCcccC
Confidence            58999999999999999999999999  79999999999999999999865 999999999999999987 58997

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.

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

Probab=99.96  E-value=7e-31  Score=186.75  Aligned_cols=74  Identities=30%  Similarity=0.584  Sum_probs=70.6

Q ss_pred             hhhhhcccceecCCCCCCcchHHhhhcC-CCCcEehHhhhcccccccccCCHHHHHHHHhcCC--cEEEeCC-ceeEe
Q psy7251          14 SFSHYMPFEYYFSADNLVRDIFLRKKMD-PEGFLPVTLIASFSRVRSLTTDINRVLLAIQKSD--KLELVDN-FKVNQ   87 (151)
Q Consensus        14 ~~~i~kQvEfYFSd~NL~~D~fLr~~m~-~~G~Vpl~~i~~F~rvk~lt~d~~~I~~Al~~S~--~LEv~ed-~kVRR   87 (151)
                      ..+|++||||||||+||++|.||+++|+ ++|||||++|++|||||+++.|.+.|.+||+.|+  .|||++| .+|||
T Consensus         5 ~~~I~~QvEfYFSd~NL~~D~fLr~~m~~~~G~Vpl~~i~~F~rmk~l~~d~~~i~~Al~~S~~~~lev~~d~~~VRR   82 (82)
T cd08028           5 EKKIIRQIEYYFGDFNLPRDKFLKEQIKEDDGWVPMEVMLKFNRLKSLSSDPEVIAKALKKSKSGLIEVSEDKTKIRR   82 (82)
T ss_pred             HHHHHHHHHhhcCHhhhccCHHHHHHHhccCCCEEhHHHhCChhHHHhcCCHHHHHHHHHhCCCCEEEEcCCCCccCC
Confidence            4689999999999999999999999996 6999999999999999999999999999999999  9999987 58997

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).

>cd07323 LAM LA motif RNA-binding domain

Probab=99.96  E-value=1.6e-30  Score=181.71  Aligned_cols=73  Identities=42%  Similarity=0.717  Sum_probs=70.4

Q ss_pred             hhhhcccceecCCCCCCcchHHhhhcCCCCcEehHhhhcccccccccCCHHHHHHHHhcCCcEEEeCC-ceeEe
Q psy7251          15 FSHYMPFEYYFSADNLVRDIFLRKKMDPEGFLPVTLIASFSRVRSLTTDINRVLLAIQKSDKLELVDN-FKVNQ   87 (151)
Q Consensus        15 ~~i~kQvEfYFSd~NL~~D~fLr~~m~~~G~Vpl~~i~~F~rvk~lt~d~~~I~~Al~~S~~LEv~ed-~kVRR   87 (151)
                      ++|++||||||||+||++|.||+++|+++|||||++|++|||||+++.|.+.|.+||+.|+.|||+++ .+|||
T Consensus         2 ~~i~~QvEfYFSd~NL~~D~fL~~~~~~~g~Vpl~~i~~F~r~k~l~~~~~~i~~Al~~s~~lel~~~~~~Vrr   75 (75)
T cd07323           2 EKIKKQVEYYFSDENLCKDRFLRSLMDDDGWVPLSLLASFNRVKKLTTDVELILEALRDSSVVEVSEDGTKVRR   75 (75)
T ss_pred             hHHHhhhHhccCHhhhCcCHHHHHhcCCCCCEEHHHHhCchHHHHHcCCHHHHHHHHHhCCeEEEeCCCCccCC
Confidence            47999999999999999999999999999999999999999999999999999999999999999987 68986

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=99.96  E-value=1.7e-30  Score=187.70  Aligned_cols=74  Identities=36%  Similarity=0.569  Sum_probs=69.4

Q ss_pred             hhhhhcccceecCCCCCCcchHHhhhc--CCCCcEehHhhhcccccccccCC------------HHHHHHHHhcCCcEEE
Q psy7251          14 SFSHYMPFEYYFSADNLVRDIFLRKKM--DPEGFLPVTLIASFSRVRSLTTD------------INRVLLAIQKSDKLEL   79 (151)
Q Consensus        14 ~~~i~kQvEfYFSd~NL~~D~fLr~~m--~~~G~Vpl~~i~~F~rvk~lt~d------------~~~I~~Al~~S~~LEv   79 (151)
                      +++|++||||||||+||++|.||+++|  +++|||||++|++|||||+|+.+            .+.|++||+.|+.|||
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            578999999999999999999999999  79999999999999999999853            6899999999999999


Q ss_pred             eCC-ceeEe
Q psy7251          80 VDN-FKVNQ   87 (151)
Q Consensus        80 ~ed-~kVRR   87 (151)
                      ++| .+|||
T Consensus        82 seD~~~VRR   90 (90)
T cd08030          82 SEDGKRVGR   90 (90)
T ss_pred             cCCCCccCC
Confidence            998 58997

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=99.92  E-value=9.6e-27  Score=156.98  Aligned_cols=58  Identities=45%  Similarity=0.791  Sum_probs=52.9

Q ss_pred             hhcccceecCCCCCCcchHHhhhcCC--CCcEehHhhhccccccccc-CCHHHHHHHHhcC
Q psy7251          17 HYMPFEYYFSADNLVRDIFLRKKMDP--EGFLPVTLIASFSRVRSLT-TDINRVLLAIQKS   74 (151)
Q Consensus        17 i~kQvEfYFSd~NL~~D~fLr~~m~~--~G~Vpl~~i~~F~rvk~lt-~d~~~I~~Al~~S   74 (151)
                      |++||||||||+||++|+||+++|+.  ||||||++|++|+|||+++ .|.+.|.+||+.|
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            68999999999999999999999965  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

Probab=99.91  E-value=2.6e-25  Score=196.08  Aligned_cols=115  Identities=31%  Similarity=0.480  Sum_probs=96.6

Q ss_pred             hhhhhcccceecCCCCCCcchHHhhhc--CCCCcEehHhhhcccccccccCCHHHHHHHHhcCCcEEEeCC-ceeEeccc
Q psy7251          14 SFSHYMPFEYYFSADNLVRDIFLRKKM--DPEGFLPVTLIASFSRVRSLTTDINRVLLAIQKSDKLELVDN-FKVNQIIV   90 (151)
Q Consensus        14 ~~~i~kQvEfYFSd~NL~~D~fLr~~m--~~~G~Vpl~~i~~F~rvk~lt~d~~~I~~Al~~S~~LEv~ed-~kVRRk~p   90 (151)
                      ..+|.+||||||||+||.+|.||.++|  +.+|||||++|++|+|||+||.|+.+|..||+.|.+|+|++| .||||..|
T Consensus       141 ~~kIv~QVEyyFSDenL~~d~fLlkhvrrnkeGyVpv~~vaSFKKvK~LTrd~~~va~ALr~S~kL~vseDgkKVrRisP  220 (484)
T KOG1855|consen  141 AAKIVDQVEYYFSDENLLKDAFLLKHVRRNKEGYVPVKLVASFKKVKALTRDWKLVADALRKSSKLEVSEDGKKVRRISP  220 (484)
T ss_pred             HHHHHHHhheeeccccccchHHHHHHHhcCCCCceeeehhhhHHHHHHHhhhhHHHHHHHhhcceEEEccCCceeeecCC
Confidence            468999999999999999999999999  799999999999999999999999999999999999999998 58999999


Q ss_pred             cCCCCCC-ccCCCCCCCCCCCCCchhhHHHHHhhhcccC
Q psy7251          91 IADTNGK-QRSDYLPNNNHLHSNNNKRLTSLRSRLTLLS  128 (151)
Q Consensus        91 l~~~p~~-w~~~~lp~~~~~~~~~~~~i~~~~~~f~~v~  128 (151)
                      |++.+.. -+...+-..+-......+++..+++.++.++
T Consensus       221 lp~~~~eel~srtivaenLP~Dh~~enl~kiFg~~G~Ik  259 (484)
T KOG1855|consen  221 LPEFDEEELPSRTIVAENLPLDHSYENLSKIFGTVGSIK  259 (484)
T ss_pred             CCCccccccccceEEEecCCcchHHHHHHHHhhccccee
Confidence            9986654 3333332222222334488989988887665

>KOG2591|consensus

Probab=99.77  E-value=9.5e-20  Score=165.10  Aligned_cols=97  Identities=24%  Similarity=0.452  Sum_probs=88.4

Q ss_pred             CCCcccchhhhhcccceecCCCCCCcchHHhhhcCCCCcEehHhhhcccccccccCCHHHHHHHHhcCCcEEEeCC-cee
Q psy7251           7 LPVTLITSFSHYMPFEYYFSADNLVRDIFLRKKMDPEGFLPVTLIASFSRVRSLTTDINRVLLAIQKSDKLELVDN-FKV   85 (151)
Q Consensus         7 ~P~~~~~~~~i~kQvEfYFSd~NL~~D~fLr~~m~~~G~Vpl~~i~~F~rvk~lt~d~~~I~~Al~~S~~LEv~ed-~kV   85 (151)
                      .|.+.+.+.-+++|+|||||.+||..|.||..+||+|.||||.++++|+.|++|++|+++|.++|+.|+.|||++. .||
T Consensus        90 ~Pls~~~kq~lk~qlEy~fSreNlssD~YL~sQMDSDqyVPI~tva~~~~i~klttDvdLI~Evlresp~VqvDekgekV  169 (684)
T KOG2591|consen   90 PPLSRDLKQLLKKQLEYYFSRENLSSDRYLISQMDSDQYVPINTVANFPEIMKLTTDVDLIVEVLRESPNVQVDEKGEKV  169 (684)
T ss_pred             CccchhHHHHHHHHHHHhhccccccchhhhhhhcccccccchhhhccchhhhhhccchHHHHHHHhcCCCceeccCcccc
Confidence            4455566778899999999999999999999999999999999999999999999999999999999999999986 477


Q ss_pred             -----EeccccCCCCCCccCCCC
Q psy7251          86 -----NQIIVIADTNGKQRSDYL  103 (151)
Q Consensus        86 -----RRk~pl~~~p~~w~~~~l  103 (151)
                           |+...|+|.|+..|+.++
T Consensus       170 rp~~kRcIvilREIpettp~e~V  192 (684)
T KOG2591|consen  170 RPNHKRCIVILREIPETTPIEVV  192 (684)
T ss_pred             ccCcceeEEEEeecCCCChHHHH
Confidence                 678899999999998765

>KOG4213|consensus

Probab=99.77  E-value=2.4e-19  Score=144.04  Aligned_cols=99  Identities=30%  Similarity=0.500  Sum_probs=89.6

Q ss_pred             hhhhcccceecCCCCCCcchHHhhhc--CCCCcEehHhhhcccccccccCCHHHHHHHHhcCC--cEEEeCC-ceeEecc
Q psy7251          15 FSHYMPFEYYFSADNLVRDIFLRKKM--DPEGFLPVTLIASFSRVRSLTTDINRVLLAIQKSD--KLELVDN-FKVNQII   89 (151)
Q Consensus        15 ~~i~kQvEfYFSd~NL~~D~fLr~~m--~~~G~Vpl~~i~~F~rvk~lt~d~~~I~~Al~~S~--~LEv~ed-~kVRRk~   89 (151)
                      ++|++||||||+|.||+||.||++++  ..+|||||.+++.|||+.++++|.+.|+.|++.|.  ++++++| +++||-.
T Consensus        15 ~kii~qleyy~Gd~nl~rdkfl~eqi~k~~~gwvpi~i~i~FnRla~lttD~~~Iv~al~ksk~~l~eisedk~k~rr~~   94 (205)
T KOG4213|consen   15 AKIIHQLEYYFGDLNLPRDKFLREQIHKLDDGWVPIEIMIKFNRLASLTTDFNVIVEALSKSKAELMEISEDKTKIRRSP   94 (205)
T ss_pred             HhhhhhhhhhhcccCchHHHHHHHHhhhhccCCccchhhhhhhhhhhccccHHHHHHHHhhCHHhhhhhhhchhhhhcCc
Confidence            57999999999999999999999999  48999999999999999999999999999999875  8899998 6899754


Q ss_pred             ccCCCCCCccCCCCCCCCCCCCCchhhHHHHHhhhcccCC
Q psy7251          90 VIADTNGKQRSDYLPNNNHLHSNNNKRLTSLRSRLTLLSP  129 (151)
Q Consensus        90 pl~~~p~~w~~~~lp~~~~~~~~~~~~i~~~~~~f~~v~P  129 (151)
                                ..++|+.+.      +..+....|-.|..|
T Consensus        95 ----------skplpEvt~------e~~~~~~~r~v~~K~  118 (205)
T KOG4213|consen   95 ----------SKPLPEVTD------EYKEGIKERTVYKKI  118 (205)
T ss_pred             ----------CCCCccccH------HHHHHHHHhhhhccC
Confidence                      667888777      888888899998887

>KOG2590|consensus

Probab=99.15  E-value=1.6e-11  Score=109.96  Aligned_cols=63  Identities=41%  Similarity=0.636  Sum_probs=57.9

Q ss_pred             hhhhcccceecCCCCCCcchHHhhhcCCCCcEehHhhhcccccccccCCHHHHHHHHhcCCcEEEeCC
Q psy7251          15 FSHYMPFEYYFSADNLVRDIFLRKKMDPEGFLPVTLIASFSRVRSLTTDINRVLLAIQKSDKLELVDN   82 (151)
Q Consensus        15 ~~i~kQvEfYFSd~NL~~D~fLr~~m~~~G~Vpl~~i~~F~rvk~lt~d~~~I~~Al~~S~~LEv~ed   82 (151)
                      +.+.+|||||||.+||++|.|++++|     |+|.+|++|+||..++.|+++|.+||+.|..||+..+
T Consensus       302 ~~~~~~ie~~FSeE~~~~d~~n~~k~-----~~l~~ia~F~r~ad~s~d~nli~~alr~s~ive~~~d  364 (448)
T KOG2590|consen  302 AFIQEPIEFYFSEENLQRDRFNREKF-----VPLRVIAKFKRVADLSSDINLILAALRNSLIVEETGD  364 (448)
T ss_pred             cccccccccccchHHHhhhhhhhccc-----chhhhhhhhhhhhhcccCHHHHHHHHhhhhhhhccch
Confidence            46789999999999999999998755     7799999999999999999999999999999998655

>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=99.09  E-value=2.1e-11  Score=107.71  Aligned_cols=60  Identities=40%  Similarity=0.670  Sum_probs=56.8

Q ss_pred             hhhhcccceecCCCCCCcchHHhhhcCCCCcEehHhhhcccccccccCCHHHHHHHHhcC
Q psy7251          15 FSHYMPFEYYFSADNLVRDIFLRKKMDPEGFLPVTLIASFSRVRSLTTDINRVLLAIQKS   74 (151)
Q Consensus        15 ~~i~kQvEfYFSd~NL~~D~fLr~~m~~~G~Vpl~~i~~F~rvk~lt~d~~~I~~Al~~S   74 (151)
                      ..+..|||||||.+||+.|.|||++|+.+||||+++|..|.|..++..|.+++..||+.+
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            467789999999999999999999999999999999999999999999999999999877

>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=99.01  E-value=1.4e-10  Score=102.52  Aligned_cols=77  Identities=26%  Similarity=0.430  Sum_probs=67.6

Q ss_pred             hhhcccceecC-----CCCCCcchHHhhhc----CCCCcEehHhhhcccccccccCCHHHHHHHHhcC---CcEEEeCCc
Q psy7251          16 SHYMPFEYYFS-----ADNLVRDIFLRKKM----DPEGFLPVTLIASFSRVRSLTTDINRVLLAIQKS---DKLELVDNF   83 (151)
Q Consensus        16 ~i~kQvEfYFS-----d~NL~~D~fLr~~m----~~~G~Vpl~~i~~F~rvk~lt~d~~~I~~Al~~S---~~LEv~ed~   83 (151)
                      .+..|+|||||     |.|.++|+||+..-    ..+|||||..+++|+||+..+...+.+..|++.|   .+++++.++
T Consensus        74 w~l~qvE~~fS~s~~~d~n~~~dk~~ktta~Kn~~~~kwVpIkt~~tfn~~k~~gs~~~~v~~a~rks~~~rv~e~Sssg  153 (438)
T COG5193          74 WTLKQVEFYFSGSKDTDSNFPKDKFLKTTAPKNKKRDKWVPIKTIATFNRMKNSGSPVSAVSGALRKSLDARVLEVSSSG  153 (438)
T ss_pred             ccccceeEEeeccccccccccchhhhccccccccCCCCceeeeeeeeeccccccCCchhhhhhhhhcCcccceeeecccc
Confidence            37889999999     99999999999865    3699999999999999999999999999999999   688998764


Q ss_pred             -eeEeccccC
Q psy7251          84 -KVNQIIVIA   92 (151)
Q Consensus        84 -kVRRk~pl~   92 (151)
                       ++||+.++-
T Consensus       154 sn~~r~~k~~  163 (438)
T COG5193         154 SNKNRTEKLI  163 (438)
T ss_pred             ccccccchhh
Confidence             677765443

>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=95.36  E-value=0.015  Score=56.97  Aligned_cols=49  Identities=20%  Similarity=0.300  Sum_probs=44.0

Q ss_pred             CCCCcEehHhhhcccccccccCCHHHHHHHHhc-CCcEEEeCCc-eeEecc
Q psy7251          41 DPEGFLPVTLIASFSRVRSLTTDINRVLLAIQK-SDKLELVDNF-KVNQII   89 (151)
Q Consensus        41 ~~~G~Vpl~~i~~F~rvk~lt~d~~~I~~Al~~-S~~LEv~ed~-kVRRk~   89 (151)
                      |.+|||-|.+||+.-++--+....+.|..|+.+ |..+||+.|| |||=|-
T Consensus       474 DaeGWVYLNLL~NmAQLHiiNVTPdFVRsAV~E~StKfQLSpDGrKIRWRG  524 (989)
T PF09421_consen  474 DAEGWVYLNLLCNMAQLHIINVTPDFVRSAVSEKSTKFQLSPDGRKIRWRG  524 (989)
T ss_pred             ccccceehHHHHHHHHHHhhccCHHHHHHHHHhcccceeeCCCCCeeeecC
Confidence            788999999999999999999999999999975 9999999875 898654

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

>KOG2590|consensus

Probab=93.12  E-value=0.038  Score=50.29  Aligned_cols=88  Identities=17%  Similarity=0.083  Sum_probs=74.2

Q ss_pred             hhhcccceecCCCCCCcchHHhhhcCCCC---cEehHhhhcccccccccCCHHHHHHHHhcCCcEEEeCCceeEeccccC
Q psy7251          16 SHYMPFEYYFSADNLVRDIFLRKKMDPEG---FLPVTLIASFSRVRSLTTDINRVLLAIQKSDKLELVDNFKVNQIIVIA   92 (151)
Q Consensus        16 ~i~kQvEfYFSd~NL~~D~fLr~~m~~~G---~Vpl~~i~~F~rvk~lt~d~~~I~~Al~~S~~LEv~ed~kVRRk~pl~   92 (151)
                      .-.++.+|||+-.++.+|.|+...++..|   +.+++.+..|.++...+++...+..+++.|...+... .+.|++.   
T Consensus       102 ~~~k~~s~~~~~~~~~~~~~~~~k~~~t~~~~~~~~S~~~~s~~~~~~s~n~~~~~~~~~~sa~~~~~~-~~~~~~~---  177 (448)
T KOG2590|consen  102 KSDKKKSWPASKPFTPRDSFKGSKPTNTGNGTFLPISKISSSGPVSGGSANNSNIRGPLKGSASSNPVP-NNSRAKP---  177 (448)
T ss_pred             cccccccCcccCCCCccccccCCCccccCCCccCCCccccccccccCcccccccccCcCCCCCcCCcCc-ccccccc---
Confidence            34579999999999999999999998777   8999999999999999999999999999866555443 4788776   


Q ss_pred             CCCCCccCCCCCCCCC
Q psy7251          93 DTNGKQRSDYLPNNNH  108 (151)
Q Consensus        93 ~~p~~w~~~~lp~~~~  108 (151)
                       .+++|+...-+..+.
T Consensus       178 -~~qr~~~~~~~~~~~  192 (448)
T KOG2590|consen  178 -LNQRWPDSSPSSGGV  192 (448)
T ss_pred             -ccccCCCCCCCCcCc
Confidence             778898877665544

>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=92.36  E-value=0.2  Score=40.34  Aligned_cols=50  Identities=20%  Similarity=0.385  Sum_probs=33.5

Q ss_pred             cCCCCcEehHhhhcccccccccCCHHHHHHHHhcCC--cEEEe---CC-ceeEecc
Q psy7251          40 MDPEGFLPVTLIASFSRVRSLTTDINRVLLAIQKSD--KLELV---DN-FKVNQII   89 (151)
Q Consensus        40 m~~~G~Vpl~~i~~F~rvk~lt~d~~~I~~Al~~S~--~LEv~---ed-~kVRRk~   89 (151)
                      |+++|||+|+.|+...+.+....+.+.|.+.++.++  -.|+.   ++ .+||...
T Consensus        27 ~d~~G~v~v~dLL~~~~~~~~~~t~~~i~~vV~~~~K~Rfel~~~~~~~~~IRA~q   82 (186)
T PF01885_consen   27 MDPDGWVSVDDLLRALRFKGLWVTEEDIREVVETDDKQRFELRYEDPGGWRIRANQ   82 (186)
T ss_dssp             --TT--EEHHHHHHHHHHT-TT--HHHHHHHHHH-SS--EEEE-----TTEEEESS
T ss_pred             cCCCCCEeHHHHHHHHHHcCCCCCHHHHHHHHhhCCCCCeeEEcccccCceEEECC
Confidence            589999999999999999887778899999998876  55666   22 5898764

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=91.56  E-value=0.32  Score=39.10  Aligned_cols=49  Identities=12%  Similarity=0.163  Sum_probs=37.1

Q ss_pred             cCCCCcEehHhhhcccccccccCCHHHHHHHHhcCCc--EEEeCCceeEecc
Q psy7251          40 MDPEGFLPVTLIASFSRVRSLTTDINRVLLAIQKSDK--LELVDNFKVNQII   89 (151)
Q Consensus        40 m~~~G~Vpl~~i~~F~rvk~lt~d~~~I~~Al~~S~~--LEv~ed~kVRRk~   89 (151)
                      ||++|||+|+.++...+.+....+.+.|.+.++.++.  .|++ +++||...
T Consensus        28 ld~~G~v~v~~Ll~~~~~~~~~~t~~~l~~vV~~d~K~Rf~l~-~~~IRA~q   78 (179)
T PRK00819         28 LDEEGWVDIDALIEALAKAYKWVTRELLEAVVESDDKGRFEIS-GDRIRARQ   78 (179)
T ss_pred             cCCCCCEEHHHHHHHHHHccCCCCHHHHHHHHHcCCCcceEec-CceEEecc
Confidence            5899999999999887644333478899999988774  4554 56888764

>KOG2278|consensus

Probab=90.63  E-value=0.3  Score=40.02  Aligned_cols=37  Identities=22%  Similarity=0.505  Sum_probs=33.3

Q ss_pred             hcCCCCcEehHhhhcccccccccCCHHHHHHHHhcCC
Q psy7251          39 KMDPEGFLPVTLIASFSRVRSLTTDINRVLLAIQKSD   75 (151)
Q Consensus        39 ~m~~~G~Vpl~~i~~F~rvk~lt~d~~~I~~Al~~S~   75 (151)
                      +|++|||||+..+++.|+.+-..-.++.|.++++.-+
T Consensus        28 ~m~~dGfvpv~~lL~lnq~r~~~~t~ddi~riVk~nd   64 (207)
T KOG2278|consen   28 NMRGDGFVPVEDLLNLNQFRGANHTIDDIRRIVKRND   64 (207)
T ss_pred             cccCCCceEHHHHhccchhcccCCcHHHHHHHHhccc
Confidence            4589999999999999999999878999999998765

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	151
1s29_A	92	La Autoantigen N-Terminal Domain Length = 92		7e-08
1s7a_A	103	Nmr Structure Of The La Motif Of Human La Protein L		2e-06
2vod_A	193	Crystal Structure Of N-Terminal Domains Of Human La		2e-06
1zh5_A	195	Structural Basis For Recognition Of Uuuoh 3'-Termin		6e-06
1yty_A	194	Structural Basis For Recognition Of Uuuoh 3'-Termin		6e-06
2cqk_A	101	Solution Structure Of The La Domain Of C-Mpl Bindin		2e-05

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

Iteration: 1
 Score = 52.8 bits (125), Expect = 7e-08,   Method: Compositional matrix adjust.
 Identities = 28/63 (44%), Positives = 43/63 (68%), Gaps = 2/63 (3%)
Query: 22 EYYFSADNLVRDIFLRKKM--DPEGFLPVTLIASFSRVRSLTTDINRVLLAIQKSDKLEL 79
          E+YFS  N+ RDIFL+ K   + EGF+ +  + +F RV S+TTD+  V+ AI+ S+KL L
Sbjct: 19 EFYFSDVNVQRDIFLKGKXAENAEGFVSLETLLTFKRVNSVTTDVKEVVEAIRPSEKLVL 78
Query: 80 VDN 82
           ++
Sbjct: 79 SED 81

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

Iteration: 1
 Score = 48.1 bits (113), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 28/62 (45%), Positives = 43/62 (69%), Gaps = 4/62 (6%)
Query: 22 EYYFSADNLVRDIFLRK--KMDPEGFLPVTLIASFSRVRSLTTDINRVLLAIQKSDKLEL 79
          EYYF   NL RD FL++  K+D EG++P+ ++  F+R+  LTTD N ++ A+ KS K EL
Sbjct: 22 EYYFGDFNLPRDKFLKEQIKLD-EGWVPLEIMIKFNRLNRLTTDFNVIVEALSKS-KAEL 79
Query: 80 VD 81
          ++
Sbjct: 80 ME 81

>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 = 47.8 bits (112), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 26/61 (42%), Positives = 42/61 (68%), Gaps = 2/61 (3%)
Query: 22 EYYFSADNLVRDIFLRKKMD-PEGFLPVTLIASFSRVRSLTTDINRVLLAIQKSDKLELV 80
          EYYF   NL RD FL++++   EG++P+ ++  F+R+  LTTD N ++ A+ KS K EL+
Sbjct: 21 EYYFGDFNLPRDKFLKEQIKLDEGWVPLEIMIKFNRLNRLTTDFNVIVEALSKS-KAELM 79
Query: 81 D 81
          +
Sbjct: 80 E 80

>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 = 46.6 bits (109), Expect = 6e-06,   Method: Compositional matrix adjust.
 Identities = 26/61 (42%), Positives = 40/61 (65%), Gaps = 2/61 (3%)
Query: 22 EYYFSADNLVRDIFLRKKMD-PEGFLPVTLIASFSRVRSLTTDINRVLLAIQKSDKLELV 80
          EYYF   NL RD FL++++   EG++P+ +   F+R+  LTTD N ++ A+ KS K EL 
Sbjct: 23 EYYFGDFNLPRDKFLKEQIKLDEGWVPLEIXIKFNRLNRLTTDFNVIVEALSKS-KAELX 81
Query: 81 D 81
          +
Sbjct: 82 E 82

>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 = 46.6 bits (109), Expect = 6e-06,   Method: Compositional matrix adjust.
 Identities = 26/61 (42%), Positives = 40/61 (65%), Gaps = 2/61 (3%)
Query: 22 EYYFSADNLVRDIFLRKKMD-PEGFLPVTLIASFSRVRSLTTDINRVLLAIQKSDKLELV 80
          EYYF   NL RD FL++++   EG++P+ +   F+R+  LTTD N ++ A+ KS K EL 
Sbjct: 22 EYYFGDFNLPRDKFLKEQIKLDEGWVPLEIXIKFNRLNRLTTDFNVIVEALSKS-KAELX 80
Query: 81 D 81
          +
Sbjct: 81 E 81

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

Iteration: 1
 Score = 44.7 bits (104), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 18/54 (33%), Positives = 35/54 (64%)
Query: 21 FEYYFSADNLVRDIFLRKKMDPEGFLPVTLIASFSRVRSLTTDINRVLLAIQKS 74
           E+ FS +NL +D++L  +MD + F+P+  +A+   ++ LTTD + +L  ++ S
Sbjct: 22 LEFCFSRENLSKDLYLISQMDSDQFIPIWTVANMEEIKKLTTDPDLILEVLRSS 75

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	151
2cqk_A	101	C-MPL binding protein; LA domain, structural genom	7e-21
1s29_A	92	LA protein; winged helix-turn-helix, autoantigen,	1e-19
2voo_A	193	Lupus LA protein; RNA-binding protein, RNA recogni	2e-13

>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 = 80.7 bits (199), Expect = 7e-21
 Identities = 18/61 (29%), Positives = 39/61 (63%)

Query: 22 EYYFSADNLVRDIFLRKKMDPEGFLPVTLIASFSRVRSLTTDINRVLLAIQKSDKLELVD 81
          E+ FS +NL +D++L  +MD + F+P+  +A+   ++ LTTD + +L  ++ S  +++ +
Sbjct: 23 EFCFSRENLSKDLYLISQMDSDQFIPIWTVANMEEIKKLTTDPDLILEVLRSSPMVQVDE 82

Query: 82 N 82
           
Sbjct: 83 K 83

>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 = 77.1 bits (190), Expect = 1e-19
 Identities = 31/67 (46%), Positives = 44/67 (65%), Gaps = 3/67 (4%)

Query: 22 EYYFSADNLVRDIFLRKKM--DPEGFLPVTLIASFSRVRSLTTDINRVLLAIQKSDKLEL 79
          E+YFS  N+ RDIFL+ KM  + EGF+ +  + +F RV S+TTD+  V+ AI+ S+KL L
Sbjct: 19 EFYFSDVNVQRDIFLKGKMAENAEGFVSLETLLTFKRVNSVTTDVKEVVEAIRPSEKLVL 78

Query: 80 V-DNFKV 85
            D   V
Sbjct: 79 SEDGLMV 85

>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 = 63.3 bits (153), Expect = 2e-13
 Identities = 23/58 (39%), Positives = 37/58 (63%), Gaps = 1/58 (1%)

Query: 22 EYYFSADNLVRDIFLRKKMD-PEGFLPVTLIASFSRVRSLTTDINRVLLAIQKSDKLE 78
          EYYF   NL RD FL++++   EG++P+ ++  F+R+  LTTD N ++ A+ KS    
Sbjct: 21 EYYFGDFNLPRDKFLKEQIKLDEGWVPLEIMIKFNRLNRLTTDFNVIVEALSKSKAEL 78

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	151
1s29_A	92	LA protein; winged helix-turn-helix, autoantigen,	100.0
2cqk_A	101	C-MPL binding protein; LA domain, structural genom	99.97
2voo_A	193	Lupus LA protein; RNA-binding protein, RNA recogni	99.92
3htx_A	950	HEN1; HEN1, small RNA methyltransferase, protein-R	92.69
1wfx_A	186	Probable RNA 2'-phosphotransferase; tRNA splicing,	90.67

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

Probab=100.00  E-value=1.1e-34  Score=208.83  Aligned_cols=87  Identities=36%  Similarity=0.573  Sum_probs=81.7

Q ss_pred             CCCCcccchhhhhcccceecCCCCCCcchHHhhhc--CCCCcEehHhhhcccccccccCCHHHHHHHHhcCCcEEEeCC-
Q psy7251           6 FLPVTLITSFSHYMPFEYYFSADNLVRDIFLRKKM--DPEGFLPVTLIASFSRVRSLTTDINRVLLAIQKSDKLELVDN-   82 (151)
Q Consensus         6 ~~P~~~~~~~~i~kQvEfYFSd~NL~~D~fLr~~m--~~~G~Vpl~~i~~F~rvk~lt~d~~~I~~Al~~S~~LEv~ed-   82 (151)
                      +.|.+++...+|++||||||||+||++|.||+++|  ++||||||++|++|||||+++.|.+.|++||+.|+.|||++| 
T Consensus         3 ~~~~~~~~~~~I~~QvEyYFSd~NL~~D~fL~~~m~~~~~G~Vpl~~i~sF~r~k~lt~d~~~i~~al~~S~~lev~edg   82 (92)
T 1s29_A            3 HMPLSSENKQKLQKQVEFYFSDVNVQRDIFLKGKMAENAEGFVSLETLLTFKRVNSVTTDVKEVVEAIRPSEKLVLSEDG   82 (92)
T ss_dssp             TSCCCHHHHHHHHHHHHHHTSHHHHTTCHHHHHHHTTSTTCCEEHHHHTTSHHHHTTCSCHHHHHHHHTTCSSEEECTTS
T ss_pred             CCCCCHHHHHHHHHHHHhhcchhhhccCHHHHHHhccCCCCCEEhHHHhCChhHHHHcCCHHHHHHHHhhCCeEEEeCCC
Confidence            55777777889999999999999999999999999  799999999999999999999999999999999999999987 


Q ss_pred             ceeEeccccC
Q psy7251          83 FKVNQIIVIA   92 (151)
Q Consensus        83 ~kVRRk~pl~   92 (151)
                      .+|||+.|||
T Consensus        83 ~~VRR~~PlP   92 (92)
T 1s29_A           83 LMVRRRDPLP   92 (92)
T ss_dssp             SEEEESSCCC
T ss_pred             CEEeCCCCCC
Confidence            5999999876

>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=99.97  E-value=5.3e-33  Score=203.28  Aligned_cols=77  Identities=26%  Similarity=0.443  Sum_probs=73.8

Q ss_pred             chhhhhcccceecCCCCCCcchHHhhhcCCCCcEehHhhhcccccccccCCHHHHHHHHhcCCcEEEeCC-ceeEecc
Q psy7251          13 TSFSHYMPFEYYFSADNLVRDIFLRKKMDPEGFLPVTLIASFSRVRSLTTDINRVLLAIQKSDKLELVDN-FKVNQII   89 (151)
Q Consensus        13 ~~~~i~kQvEfYFSd~NL~~D~fLr~~m~~~G~Vpl~~i~~F~rvk~lt~d~~~I~~Al~~S~~LEv~ed-~kVRRk~   89 (151)
                      ..++|++||||||||+||++|.||+++|++||||||++|++|||||+|+.|.+.|++||+.|+.|||++| .+|||+.
T Consensus        14 l~~~I~~QvEyYFSd~NL~~D~fL~~~md~~G~Vpl~~iasF~r~k~lt~d~~~i~~al~~S~~levsedg~kVRr~~   91 (101)
T 2cqk_A           14 LKECLKKQLEFCFSRENLSKDLYLISQMDSDQFIPIWTVANMEEIKKLTTDPDLILEVLRSSPMVQVDEKGEKVRPSH   91 (101)
T ss_dssp             HHHHHHHHHHHHTSHHHHHHCHHHHHHSCTTSCEEHHHHHHCHHHHHHCCCHHHHHHHHHHSSSEEECSSSSEEEECC
T ss_pred             HHHHHHHHHHhhcchhhhccCHHHHHhhhcCCCEEhHHHhCChHHHHHcCCHHHHHHHHHhCCcEEEcCCCCeeeeCC
Confidence            4568999999999999999999999999999999999999999999999999999999999999999987 5999986

>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=99.92  E-value=8.6e-26  Score=177.36  Aligned_cols=79  Identities=32%  Similarity=0.566  Sum_probs=73.5

Q ss_pred             ccchhhhhcccceecCCCCCCcchHHhhhcC-CCCcEehHhhhcccccccccCCHHHHHHHHhcC--CcEEEeCC-ceeE
Q psy7251          11 LITSFSHYMPFEYYFSADNLVRDIFLRKKMD-PEGFLPVTLIASFSRVRSLTTDINRVLLAIQKS--DKLELVDN-FKVN   86 (151)
Q Consensus        11 ~~~~~~i~kQvEfYFSd~NL~~D~fLr~~m~-~~G~Vpl~~i~~F~rvk~lt~d~~~I~~Al~~S--~~LEv~ed-~kVR   86 (151)
                      .....+|++||||||||+||++|.||+++|+ ++|||||++|++|+|||+++.|.+.|..|++.|  ..|+++++ .+||
T Consensus        10 ~~~~~~i~~q~e~yfs~~nl~~D~fl~~~~~~~~g~V~l~~i~sF~r~k~l~~d~~~I~~Al~~S~~~~lev~ed~~~vr   89 (193)
T 2voo_A           10 AALEAKICHQIEYYFGDFNLPRDKFLKEQIKLDEGWVPLEIMIKFNRLNRLTTDFNVIVEALSKSKAELMEISEDKTKIR   89 (193)
T ss_dssp             HHHHHHHHHHHHHHTSTTTGGGCHHHHHHHHHTTTCEEHHHHTTSHHHHHHCCCHHHHHHHHHTCSSCCEEECTTSSEEE
T ss_pred             HHHHHHHHHHhheecchhhcccCHHHHHHhcccCCcEEeHHHhhhhHHHHhcCCHHHHHHHHhhcccceEEEecccceEE
Confidence            4456899999999999999999999999996 699999999999999999999999999999999  99999987 6899


Q ss_pred             ecc
Q psy7251          87 QII   89 (151)
Q Consensus        87 Rk~   89 (151)
                      |+.
T Consensus        90 R~~   92 (193)
T 2voo_A           90 RSP   92 (193)
T ss_dssp             ECT
T ss_pred             ecc
Confidence            873

>3htx_A HEN1; HEN1, small RNA methyltransferase, protein-RNA complex; HET: SAH; 3.10A {Arabidopsis thaliana}

Probab=92.69  E-value=0.041  Score=52.71  Aligned_cols=91  Identities=19%  Similarity=0.178  Sum_probs=68.5

Q ss_pred             CCCCCCCcccchhhhhcccceecCCCCCCcchHHhhhc--------CCCCcEehHhhhcc-cccccccC--------C--
Q psy7251           3 PEGFLPVTLITSFSHYMPFEYYFSADNLVRDIFLRKKM--------DPEGFLPVTLIASF-SRVRSLTT--------D--   63 (151)
Q Consensus         3 ~~g~~P~~~~~~~~i~kQvEfYFSd~NL~~D~fLr~~m--------~~~G~Vpl~~i~~F-~rvk~lt~--------d--   63 (151)
                      |.+.-|.+.+.-+.|..+|+|.|||+=|.-.+=|..++        +.-|.||+.+|+.+ -|+-.++.        |  
T Consensus        97 ~~~~~~~~~~~~~~~~~~~~~~f~~e~~~~~~pl~~h~~~~~~r~~~~~~~~p~~~~~~~d~k~~~~ck~~~~~~e~~p~  176 (950)
T 3htx_A           97 PQNDDLTVDEARDEIVGRIKYIFSDEFLSAEHPLGAHLRAALRRDGERCGSVPVSVIATVDAKINSRCKIINPSVESDPF  176 (950)
T ss_dssp             TTSCCCCHHHHHHHHHHHHHHHTSTGGGGCSSTHHHHHHHHHTSCGGGTTEECHHHHHHTCHHHHHHHHHHCTHHHHCTH
T ss_pred             ccccCcchhhHHHHHHHHHHHHhhhhhhhccCchHHHHHHHHhhcCccccccchhhheehhhhhhhhhhhcCcccccChH
Confidence            34444555666678999999999999888888777766        35589999999998 45544442        1  


Q ss_pred             --HHHHHHHHhcCCcEEEeCCceeEeccccCC
Q psy7251          64 --INRVLLAIQKSDKLELVDNFKVNQIIVIAD   93 (151)
Q Consensus        64 --~~~I~~Al~~S~~LEv~ed~kVRRk~pl~~   93 (151)
                        ++.|.+|...++-+-+++++-|||+.|.+.
T Consensus       177 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~  208 (950)
T 3htx_A          177 LAISYVMKAAAKLADYIVASPHGLRRKNAYPS  208 (950)
T ss_dssp             HHHHHHHHHHHHCCSSEEEETTEEEESSCCCH
T ss_pred             HHHHHHHHHhhcCCCcEEeCCcccccCCCCCH
Confidence              357888888887666887669999998775

>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=90.67  E-value=0.36  Score=37.83  Aligned_cols=48  Identities=10%  Similarity=0.120  Sum_probs=35.2

Q ss_pred             cCCCCcEehHhhhcccccc--cccCCHHHHHHHHhcCC--cEEEeCCceeEecc
Q psy7251          40 MDPEGFLPVTLIASFSRVR--SLTTDINRVLLAIQKSD--KLELVDNFKVNQII   89 (151)
Q Consensus        40 m~~~G~Vpl~~i~~F~rvk--~lt~d~~~I~~Al~~S~--~LEv~ed~kVRRk~   89 (151)
                      ||++|||+|+.++. .+.+  ....+.+.|.++++.++  -.+++++ +||...
T Consensus        24 ld~~G~v~v~~LL~-~~~~~~~~~~t~~~l~~vV~~~~K~Rf~l~~~-~IRA~q   75 (186)
T 1wfx_A           24 LTREGWARVSEVVE-GLRKAGWSWVEEWHIVGVALHDPKGRYELRNG-EIRARY   75 (186)
T ss_dssp             CCTTCCEEHHHHHH-HHHHTTCTTCCHHHHHHHHHHCSSCCEEEETT-EEEESS
T ss_pred             cCCCCCEEHHHHHh-hhhhcccCCCCHHHHHHHHhcCCCCceEeecc-EEEecc
Confidence            58999999999998 3333  23346788888888765  5677655 888754

---

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	151
d2cqka1	88	a.4.5.46 (A:43-130) La-related protein 4 LARP4 {Hu	4e-21
d1s29a_	92	a.4.5.46 (A:) Lupus La autoantigen N-terminal doma	4e-19
d1zh5a1	99	a.4.5.46 (A:5-103) Lupus La autoantigen N-terminal	2e-18

>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 = 79.7 bits (197), Expect = 4e-21
 Identities = 18/61 (29%), Positives = 39/61 (63%)

Query: 22 EYYFSADNLVRDIFLRKKMDPEGFLPVTLIASFSRVRSLTTDINRVLLAIQKSDKLELVD 81
          E+ FS +NL +D++L  +MD + F+P+  +A+   ++ LTTD + +L  ++ S  +++ +
Sbjct: 16 EFCFSRENLSKDLYLISQMDSDQFIPIWTVANMEEIKKLTTDPDLILEVLRSSPMVQVDE 75

Query: 82 N 82
           
Sbjct: 76 K 76

>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 = 74.4 bits (183), Expect = 4e-19
 Identities = 29/63 (46%), Positives = 44/63 (69%), Gaps = 2/63 (3%)

Query: 22 EYYFSADNLVRDIFLRKKM--DPEGFLPVTLIASFSRVRSLTTDINRVLLAIQKSDKLEL 79
          E+YFS  N+ RDIFL+ KM  + EGF+ +  + +F RV S+TTD+  V+ AI+ S+KL L
Sbjct: 19 EFYFSDVNVQRDIFLKGKMAENAEGFVSLETLLTFKRVNSVTTDVKEVVEAIRPSEKLVL 78

Query: 80 VDN 82
           ++
Sbjct: 79 SED 81

>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 = 73.3 bits (180), Expect = 2e-18
 Identities = 23/62 (37%), Positives = 39/62 (62%), Gaps = 1/62 (1%)

Query: 22 EYYFSADNLVRDIFLRKKMD-PEGFLPVTLIASFSRVRSLTTDINRVLLAIQKSDKLELV 80
          EYYF   NL RD FL++++   EG++P+ ++  F+R+  LTTD N ++ A+ KS    + 
Sbjct: 18 EYYFGDFNLPRDKFLKEQIKLDEGWVPLEIMIKFNRLNRLTTDFNVIVEALSKSKAELME 77

Query: 81 DN 82
           +
Sbjct: 78 IS 79

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	151
d1s29a_	92	Lupus La autoantigen N-terminal domain {Trypanosom	100.0
d2cqka1	88	La-related protein 4 LARP4 {Human (Homo sapiens) [	99.97
d1zh5a1	99	Lupus La autoantigen N-terminal domain {Human (Hom	99.96
d1wfxa_	180	Probable RNA 2'-phosphotransferase KptA {Aeropyrum	92.26

>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=100.00  E-value=3.8e-35  Score=209.75  Aligned_cols=87  Identities=36%  Similarity=0.573  Sum_probs=82.4

Q ss_pred             CCCCcccchhhhhcccceecCCCCCCcchHHhhhc--CCCCcEehHhhhcccccccccCCHHHHHHHHhcCCcEEEeCC-
Q psy7251           6 FLPVTLITSFSHYMPFEYYFSADNLVRDIFLRKKM--DPEGFLPVTLIASFSRVRSLTTDINRVLLAIQKSDKLELVDN-   82 (151)
Q Consensus         6 ~~P~~~~~~~~i~kQvEfYFSd~NL~~D~fLr~~m--~~~G~Vpl~~i~~F~rvk~lt~d~~~I~~Al~~S~~LEv~ed-   82 (151)
                      -.|.+.+..++|++||||||||+||++|+||+++|  +++|||||++|++|||||+|+.|.+.|++||+.|+.|||++| 
T Consensus         3 ~~p~~~e~~~~I~~QvEfYFSd~NL~~D~fL~~~m~~~~~G~V~i~~i~~F~rmk~lt~d~~~i~~Al~~S~~lev~ed~   82 (92)
T d1s29a_           3 HMPLSSENKQKLQKQVEFYFSDVNVQRDIFLKGKMAENAEGFVSLETLLTFKRVNSVTTDVKEVVEAIRPSEKLVLSEDG   82 (92)
T ss_dssp             TSCCCHHHHHHHHHHHHHHTSHHHHTTCHHHHHHHTTSTTCCEEHHHHTTSHHHHTTCSCHHHHHHHHTTCSSEEECTTS
T ss_pred             CCCCCHHHHHHHHHHHHHHccHhhhccCHHHHHHHhccCCCcEEhHHHhcCcCHHHhcCCHHHHHHHHhhCCeEEEeCCC
Confidence            46888888899999999999999999999999999  789999999999999999999999999999999999999987 


Q ss_pred             ceeEeccccC
Q psy7251          83 FKVNQIIVIA   92 (151)
Q Consensus        83 ~kVRRk~pl~   92 (151)
                      .+|||+.|||
T Consensus        83 ~~VRRk~plP   92 (92)
T d1s29a_          83 LMVRRRDPLP   92 (92)
T ss_dssp             SEEEESSCCC
T ss_pred             CEEeeCCCCC
Confidence            5999999876

>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=99.97  E-value=3.1e-32  Score=193.11  Aligned_cols=77  Identities=26%  Similarity=0.443  Sum_probs=73.5

Q ss_pred             chhhhhcccceecCCCCCCcchHHhhhcCCCCcEehHhhhcccccccccCCHHHHHHHHhcCCcEEEeCC-ceeEecc
Q psy7251          13 TSFSHYMPFEYYFSADNLVRDIFLRKKMDPEGFLPVTLIASFSRVRSLTTDINRVLLAIQKSDKLELVDN-FKVNQII   89 (151)
Q Consensus        13 ~~~~i~kQvEfYFSd~NL~~D~fLr~~m~~~G~Vpl~~i~~F~rvk~lt~d~~~I~~Al~~S~~LEv~ed-~kVRRk~   89 (151)
                      ..++|++||||||||+||++|.||+++|+++|||||++|++|||||+|+.|.+.|++||+.|+.|||++| .+|||+.
T Consensus         7 l~~~i~~QvEfYFSd~NL~~D~fL~~~m~~~G~V~l~~i~~F~r~k~lt~d~~~i~~Al~~S~~lev~~d~~~VRr~~   84 (88)
T d2cqka1           7 LKECLKKQLEFCFSRENLSKDLYLISQMDSDQFIPIWTVANMEEIKKLTTDPDLILEVLRSSPMVQVDEKGEKVRPSH   84 (88)
T ss_dssp             HHHHHHHHHHHHTSHHHHHHCHHHHHHSCTTSCEEHHHHHHCHHHHHHCCCHHHHHHHHHHSSSEEECSSSSEEEECC
T ss_pred             HHHHHHHHHHhhCCHhhhCcCHHHHHhhcCCCCEEhHHHhcChHHHHHcCCHHHHHHHHhcCCeEEEeCCCCEeccCC
Confidence            4578999999999999999999999999999999999999999999999999999999999999999987 5899975

>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=99.96  E-value=6e-31  Score=189.91  Aligned_cols=76  Identities=33%  Similarity=0.593  Sum_probs=71.1

Q ss_pred             hhhhhcccceecCCCCCCcchHHhhhcC-CCCcEehHhhhcccccccccCCHHHHHHHHhcCC--cEEEeCC-ceeEecc
Q psy7251          14 SFSHYMPFEYYFSADNLVRDIFLRKKMD-PEGFLPVTLIASFSRVRSLTTDINRVLLAIQKSD--KLELVDN-FKVNQII   89 (151)
Q Consensus        14 ~~~i~kQvEfYFSd~NL~~D~fLr~~m~-~~G~Vpl~~i~~F~rvk~lt~d~~~I~~Al~~S~--~LEv~ed-~kVRRk~   89 (151)
                      ..+|++||||||||+||++|.||+++|+ ++|||||++|++|||||+|+.|.+.|++||+.|.  .||+++| .+|||+.
T Consensus        10 ~~~I~~QvEfYFSd~NL~~D~fL~~~m~~~eG~Vpl~~i~~F~r~k~l~~~~~~i~~Al~~S~~~~lev~~d~~~vRR~~   89 (99)
T d1zh5a1          10 EAKICHQIEYYFGDFNLPRDKFLKEQIKLDEGWVPLEIMIKFNRLNRLTTDFNVIVEALSKSKAELMEISEDKTKIRRSP   89 (99)
T ss_dssp             HHHHHHHHHHHTSTTTGGGCHHHHHHHTTTTTCEEHHHHTTSHHHHHHCCCHHHHHHHHHTCSSCCEEECTTSSEEEECT
T ss_pred             HHHHHHHHHHhcCHhhhccCHHHHHHHhcCCCcccHHHHhcchHHHHHcCCHHHHHHHHHhCCCCeEEEcCCCceeCCCC
Confidence            4689999999999999999999999997 6899999999999999999999999999999987  5999987 5899974

>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=92.26  E-value=0.094  Score=39.11  Aligned_cols=49  Identities=12%  Similarity=0.183  Sum_probs=36.2

Q ss_pred             hcCCCCcEehHhhhccccccccc-CCHHHHHHHHhcCC--cEEEeCCceeEec
Q psy7251          39 KMDPEGFLPVTLIASFSRVRSLT-TDINRVLLAIQKSD--KLELVDNFKVNQI   88 (151)
Q Consensus        39 ~m~~~G~Vpl~~i~~F~rvk~lt-~d~~~I~~Al~~S~--~LEv~ed~kVRRk   88 (151)
                      .||++|||+|+.|+...+.+.+. .+.+.|.+.++..+  -.|+.++ +||..
T Consensus        21 ~~d~~G~v~v~dLl~~~~~~~~~~~~~~~i~~iV~~d~K~Rfel~~~-~IRA~   72 (180)
T d1wfxa_          21 RLTREGWARVSEVVEGLRKAGWSWVEEWHIVGVALHDPKGRYELRNG-EIRAR   72 (180)
T ss_dssp             CCCTTCCEEHHHHHHHHHHTTCTTCCHHHHHHHHHHCSSCCEEEETT-EEEES
T ss_pred             CcCCCCCEEHHHHHHHHHHcCCCcCcHHHHHHHHhcCCcccceecCC-EEEee
Confidence            35899999999998776666543 45777888877665  5676654 89875