Citrus Sinensis ID: 013712

Local Sequence Feature Prediction

Prediction and (Method)Result
Residue Number Marker
Protein Sequence ?
Secondary Structure (PSIPRED) ?
Secondary Structure Prediction (SSPRO) ?
Coil and Loop (DISEMBL) ?
Flexible Loop (DISEMBL) ?
Low Complexity Region (SEG) ?
Disordered region (IsUnstruct) ?
Disordered Region (DISOPRED) ?
Disordered Region (DISEMBL) ?
Disordered Region (DISPRO) ?
Transmembrane Helix (TMHMM) ?
Transmembrane Helix (HMMTOP) ?
Transmembrane Helix (MEMSAT) ?
TM Helix, Signal Peptide (MEMSAT_SVM) ?
TM Helix, Signal Peptide (Phobius) ?
Signal Peptide (SignalP HMM Mode) ?
Signal Peptide (SignalP NN Mode) ?
Coiled Coils (COILS) ?
Positional Conservation ?
 
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-------400-------410-------420-------430-------
MPPVFHTMVPPPHFAVPGYAYPPYPGPFPGAENQTPVQAFVPPVHAIDAARNVQPPPPRGDPNASVANFPNRRPNTQEPGGHMNHAWHHQRAFGPRDSVPVPQSIGPRPLVRPAFFGPAPGPGYMVGPGFPGAALCYVPVVPPGSIRGPHPQRFFPYPVNSGAPMLPPETLALKANIVKQIEYYFSDENLQNDHYLISLMDAQGWVPIAIIADFKRVKRMSTDLPFILDALQNSSTVEAQGDKVRRRDEWSKWIPASVEQTMSSTAQTSQSQSAENPVDSIGNGDINKDNKREMPKENVGFSSNTGNLMENVPPSFDSVEIEPDNGEEHCDEFLLLDDGKPAFSAENGDSRTSLSESDMKFSNLGTNHNISSEDLSQRTESARFGDYGTQGLERSSTVAVQNLIELSNDFANTFMLDEELEIEQKTMKKDDLSAHKR
cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHccccccccccccccHHHHHHHcccccEEHHHHHccHHHHHHcccHHHHHHHHHccccEEEcccEEEEcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHcccccccccccccccccccccccccccccccccccccccHHHHHcccccccccccccccccccHHHHcccccccccccccccccccccHHHcccccccccccc
cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHccccccHHHHHHHHHHccccccEHHHHEcHHHHHHHHHcHHHHHHHHHcccEEEEEcccEEEEcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEEcccccHHHHHccccccccccccccHHHcHHHHHHccccHcccHHHHHHHHHHHHHHHHcHcccHHHHHHccccccccEEEEEcccccccccHHHHHHHcccccccccHcccccccccccccccccc
mppvfhtmvppphfavpgyayppypgpfpgaenqtpvqafvppvhaidaarnvqpppprgdpnasvanfpnrrpntqepgghmnhawhhqrafgprdsvpvpqsigprplvrpaffgpapgpgymvgpgfpgaalcyvpvvppgsirgphpqrffpypvnsgapmlppetLALKANIVKQIEYyfsdenlqndHYLISLMDAQGWVPIAIIADFKRVKRMSTDLPFILDAlqnsstveaqgdkvrrrdewskwipasveqtmsstaqtsqsqsaenpvdsigngdinkdnkrempkenvgfssntgnlmenvppsfdsveiepdngeehcdeflllddgkpafsaengdsrtslsesdmkfsnlgtnhnissedlsqrtesarfgdygtqglersSTVAVQNLIELSNDFANTFMLDEELEIEQKTmkkddlsahkr
MPPVFHTMVPPPHFAVPGYAYPPYPGPFPGAENQTPVQAFVPPVHAIDAARNVQPPPPRGDPNASVANFPNRRPNTQEPGGHMNHAWHHQRAFGPRDSVPVPQSIGPRPLVRPAFFGPAPGPGYMVGPGFPGAALCYVPVVPPGSIRGPHPQRFFPYPVNSGAPMLPPETLALKANIVKQIEYYFSDENLQNDHYLISLMDAQGWVPIAIIADFKRVKRMSTDLPFIldalqnsstveaqgdkvrrrdeWSKWIPASveqtmsstaqtsqsqsaenpvdsigngdinkdnkremPKENVgfssntgnlmENVPPSFDSVEIEPDNGEEHCDEFLLLDDGKPAFSAENGDSRTSLSESDMKFSNlgtnhnissedlsqrtESARFGDYGTQGLERSSTVAVQNLIELSNDFANTFMLDEELEieqktmkkddlsahkr
MPPVFHTMVPPPHfavpgyayppypgpfpgaENQTPVQAFVPPVHAIDAARNVQPPPPRGDPNASVANFPNRRPNTQEPGGHMNHAWHHQRAFGPRDSVPVPQSIGPRPLVRpaffgpapgpgYMVGPGFPGAALCYVPVVPPGSIRGPHPQRFFPYPVNSGAPMLPPETLALKANIVKQIEYYFSDENLQNDHYLISLMDAQGWVPIAIIADFKRVKRMSTDLPFILDALQNSSTVEAQGDKVRRRDEWSKWIPASVEqtmsstaqtsqsqsaENPVDSIGNGDINKDNKREMPKENVGFSSNTGNLMENVPPSFDSVEIEPDNGEEHCDEFLLLDDGKPAFSAENGDSRTSLSESDMKFSNLGTNHNISSEDLSQRTESARFGDYGTQGLERSSTVAVQNLIELSNDFANTFMLDEELEIEQKTMKKDDLSAHKR
************HFAVPGYAYPPY***************FV********************************************************************LVRPAFFGPAPGPGYMVGPGFPGAALCYVPVVPPGSIRGPHPQRFFPYPVNSGAPMLPPETLALKANIVKQIEYYFSDENLQNDHYLISLMDAQGWVPIAIIADFKRVKRMSTDLPFILDALQ*****************************************************************************************************L**************************************************************TVAVQNLIELSNDFANTFMLD********************
*PPVFHTMVPPPHF***************************************************************************************************************************************************************KANIVKQIEYYFSDENLQNDHYLISLMDAQGWVPIAIIADFKRVKRMSTDLPFILDALQNSSTVEAQGDKVRRRDEWSKWI***************************************************************************************************************************************************************FMLDE*******************
MPPVFHTMVPPPHFAVPGYAYPPYPGPFPGAENQTPVQAFVPPVHAIDAARNVQPPPPRGDPNASVANFPNRRPNTQEPGGHMNHAWHHQRAFGPRDSVPVPQSIGPRPLVRPAFFGPAPGPGYMVGPGFPGAALCYVPVVPPGSIRGPHPQRFFPYPVNSGAPMLPPETLALKANIVKQIEYYFSDENLQNDHYLISLMDAQGWVPIAIIADFKRVKRMSTDLPFILDALQNSSTV**********DEWSKWIPASV*******************VDSIGNGDINKDNKREMPKENVGFSSNTGNLMENVPPSFDSVEIEPDNGEEHCDEFLLLDDGKPAFSA**********ESDMKFSNLGTNHNISSEDLSQRTESARFGDYGTQGLERSSTVAVQNLIELSNDFANTFMLDEELEIEQKT***********
MPPVFHTMVPPPHFAVPGYAYPPYPGPFPGAEN****Q*********************************************************RDSVPVPQSIGPRPLVRPAFFGPAPGPGYMVGPGFPGAALCYVPVVPPGSIRGPHPQRFFPYPVNSGAPMLPPETLALKANIVKQIEYYFSDENLQNDHYLISLMDAQGWVPIAIIADFKRVKRMSTDLPFILDALQNSSTVEAQGDKVRRRDEWSKWIPAS***********SQ*QSAEN****************************TGNLMENVPPSFDSVE*E*********EFLLLDDGKPAFSAEN********ESDMKFSNLGTNHN************ARFGDYGTQGLERSSTVAVQNLIELSNDFANTFMLDEELEIE**************
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MPPVFHTMVPPPHFAVPGYAYPPYPGPFPGAENQTPVQAFVPPVHAIDAARNVQPPPPRGDPNASVANFPNRRPNTQEPGGHMNHAWHHQRAFGPRDSVPVPQSIGPRPLVRPAFFGPAPGPGYMVGPGFPGAALCYVPVVPPGSIRGPHPQRFFPYPVNSGAPMLPPETLALKANIVKQIEYYFSDENLQNDHYLISLMDAQGWVPIAIIADFKRVKRMSTDLPFILDALQNSSTVEAQGDKVRRRDEWSKWIPASVEQTMSSTAQTSQSQSAENPVDSIGNGDINKDNKREMPKENVGFSSNTGNLMENVPPSFDSVEIEPDNGEEHCDEFLLLDDGKPAFSAENGDSRTSLSESDMKFSNLGTNHNISSEDLSQRTESARFGDYGTQGLERSSTVAVQNLIELSNDFANTFMLDEELEIEQKTMKKDDLSAHKR
no confident homologs detected

Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST ?

Original result of BLAST against SWISS-PROT Database

ID ?Alignment graph ?Length ? Definition ? RBH(Q2H) ? RBH(H2Q) ? Q cover ? H cover ? Identity ? E-value ?
Query437 2.2.26 [Sep-21-2011]
Q659C4 914 La-related protein 1B OS= yes no 0.228 0.109 0.44 7e-18
Q6PKG0 1096 La-related protein 1 OS=H no no 0.217 0.086 0.458 8e-17
Q6ZQ58 1072 La-related protein 1 OS=M no no 0.185 0.075 0.506 1e-16
Q9P6K0475 Uncharacterized HTH La-ty yes no 0.240 0.221 0.387 8e-15
Q9VAW5 1673 La-related protein OS=Dro yes no 0.187 0.049 0.397 1e-11
Q71RC2 724 La-related protein 4 OS=H no no 0.231 0.139 0.394 1e-11
Q9I7T7 1531 La-related protein CG1150 no no 0.187 0.053 0.390 2e-11
Q8BWW4 719 La-related protein 4 OS=M no no 0.231 0.140 0.394 2e-11
P28049 427 Lupus La protein homolog N/A no 0.178 0.182 0.4 4e-09
P25567434 RNA-binding protein SRO9 yes no 0.224 0.225 0.328 4e-09
>sp|Q659C4|LAR1B_HUMAN La-related protein 1B OS=Homo sapiens GN=LARP1B PE=1 SV=2 Back     alignment and function desciption
 Score = 92.4 bits (228), Expect = 7e-18,   Method: Compositional matrix adjust.
 Identities = 44/100 (44%), Positives = 67/100 (67%)

Query: 154 FFPYPVNSGAPMLPPETLALKANIVKQIEYYFSDENLQNDHYLISLMDAQGWVPIAIIAD 213
            + Y   +G  + P E   LK  I +QIEYYFS ENL+ D +L   MD QG++PI++IA 
Sbjct: 196 MYYYDDGTGVQVYPVEEALLKEYIKRQIEYYFSVENLERDFFLRGKMDEQGFLPISLIAG 255

Query: 214 FKRVKRMSTDLPFILDALQNSSTVEAQGDKVRRRDEWSKW 253
           F+RV+ ++T+L  IL+AL++S+ VE   +K+R++ E  KW
Sbjct: 256 FQRVQALTTNLNLILEALKDSTEVEIVDEKMRKKIEPEKW 295

Homo sapiens (taxid: 9606)
>sp|Q6PKG0|LARP1_HUMAN La-related protein 1 OS=Homo sapiens GN=LARP1 PE=1 SV=2 Back     alignment and function description
>sp|Q6ZQ58|LARP1_MOUSE La-related protein 1 OS=Mus musculus GN=Larp1 PE=1 SV=2 Back     alignment and function description
>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 Back     alignment and function description
>sp|Q9VAW5|LARP_DROME La-related protein OS=Drosophila melanogaster GN=larp PE=1 SV=5 Back     alignment and function description
>sp|Q71RC2|LARP4_HUMAN La-related protein 4 OS=Homo sapiens GN=LARP4 PE=1 SV=3 Back     alignment and function description
>sp|Q9I7T7|Y1505_DROME La-related protein CG11505 OS=Drosophila melanogaster GN=CG11505 PE=1 SV=2 Back     alignment and function description
>sp|Q8BWW4|LARP4_MOUSE La-related protein 4 OS=Mus musculus GN=Larp4 PE=1 SV=2 Back     alignment and function description
>sp|P28049|LAB_XENLA Lupus La protein homolog B OS=Xenopus laevis GN=ssb-b PE=2 SV=1 Back     alignment and function description
>sp|P25567|SRO9_YEAST RNA-binding protein SRO9 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=SRO9 PE=1 SV=2 Back     alignment and function description

Close Homologs in the Non-Redundant Database Detected by BLAST ?

Original result of BLAST against Nonredundant Database

GI ?Alignment Graph ?Length ? Definition ? Q cover ? H cover ? Identity ? E-value ?
Query437
359479076 903 PREDICTED: uncharacterized protein LOC10 0.979 0.473 0.553 1e-123
147809815 662 hypothetical protein VITISV_006639 [Viti 0.979 0.646 0.551 1e-122
255557168 867 lupus la ribonucleoprotein, putative [Ri 0.947 0.477 0.520 1e-115
224104601 541 predicted protein [Populus trichocarpa] 0.887 0.717 0.525 1e-110
224059244 568 predicted protein [Populus trichocarpa] 0.890 0.684 0.484 1e-103
356554253 926 PREDICTED: la-related protein 1-like [Gl 0.940 0.443 0.511 1e-103
356499283 864 PREDICTED: la-related protein 1-like [Gl 0.940 0.475 0.512 2e-99
296083998 841 unnamed protein product [Vitis vinifera] 0.906 0.470 0.467 5e-95
357493683 911 La-related protein [Medicago truncatula] 0.917 0.440 0.453 3e-90
449463867 881 PREDICTED: la-related protein 1-like [Cu 0.821 0.407 0.461 2e-87
>gi|359479076|ref|XP_002272083.2| PREDICTED: uncharacterized protein LOC100254731 [Vitis vinifera] Back     alignment and taxonomy information
 Score =  447 bits (1151), Expect = e-123,   Method: Compositional matrix adjust.
 Identities = 247/446 (55%), Positives = 301/446 (67%), Gaps = 18/446 (4%)

Query: 1   MPPVFHTMVPPPHFAVPGYAYPPYPGPFPGAE-------NQTPVQAFVPPVHAIDAARNV 53
           MPPVFH+M+ P H  V GYAYPP  GP P  +       ++T +QAFVPPVH ID+ R+V
Sbjct: 141 MPPVFHSMIVP-HIPVSGYAYPPVTGPLPSVDPHLVKSGSETSMQAFVPPVHGIDSNRSV 199

Query: 54  QPPPPRGDPNASVANFPNRRPNTQEPGGHMNHAWHHQRAFGPRDSVPVPQSIGPRPLVRP 113
           QPPP RGDPNA + NFPNRRP+ QEPGGH N AWH QR  G RD + + Q +G R  +RP
Sbjct: 200 QPPP-RGDPNAYIVNFPNRRPSLQEPGGHFNPAWHPQRPLGFRDGIQMQQGMGARAFIRP 258

Query: 114 AFFGPAPGPGYMVGPGFPG-AALCYVPVVPPGSIRGPHPQRFFPYPVNSGAPMLPPETLA 172
            FFGPAPG  +MVGP FPG A+L Y P  P GSIRGPHP RF P  ++ GAP+ P ET A
Sbjct: 259 PFFGPAPG--FMVGPAFPGPASLYYHPPAPTGSIRGPHP-RFIPPSLSPGAPIPPSETQA 315

Query: 173 LKANIVKQIEYYFSDENLQNDHYLISLMDAQGWVPIAIIADFKRVKRMSTDLPFILDALQ 232
           L+ANIVKQIEYYFSD NLQNDHYLISLMD QGWVPI+IIADFKRVK+MSTDL FILDALQ
Sbjct: 316 LRANIVKQIEYYFSDGNLQNDHYLISLMDDQGWVPISIIADFKRVKKMSTDLQFILDALQ 375

Query: 233 NSSTVEAQGDKVRRRDEWSKWIPASVEQTMSSTAQTSQSQSAENPVDSIGNGDINKDNKR 292
           +S+TVE Q D++RRRDEWS+WIPAS+E  +   A + Q +  E  V    N + NKDN  
Sbjct: 376 SSTTVEVQCDRIRRRDEWSRWIPASIEHGLPLKANSPQDRVVEKTVIDHENNESNKDNTT 435

Query: 293 EMPKENVGFSSNTGNLMENVPPSFDSVEIEPDNGEEHCDEFLLLDDGKPAFSAENGDSRT 352
              + N    SN GNL+ N P   D++E+   +  EH  E +  DDG  +    +GDS  
Sbjct: 436 GTSEGNCELQSNNGNLVLNSPSDGDTLEVSHCSNAEHNSEKVRFDDGAQSLIGGDGDSSD 495

Query: 353 SLS-ESDMKFSNLGTNHNISSEDLSQRTESARFGDYGTQGLERSSTVAVQNLIELSNDFA 411
            L+ ESD +FS++ T +N    D  Q TE+     + ++  E SS  AV    +LSNDFA
Sbjct: 496 GLNFESDARFSDVSTGYN-PCLDFVQETEATTVVGHESESTEVSSFFAVG---DLSNDFA 551

Query: 412 NTFMLDEELEIEQKTMKKDDLSAHKR 437
           + FMLDEELE E KT KK DLS+ +R
Sbjct: 552 SPFMLDEELEPEPKTSKKVDLSSTRR 577

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|147809815|emb|CAN73529.1| hypothetical protein VITISV_006639 [Vitis vinifera] Back     alignment and taxonomy information
>gi|255557168|ref|XP_002519615.1| lupus la ribonucleoprotein, putative [Ricinus communis] gi|223541205|gb|EEF42760.1| lupus la ribonucleoprotein, putative [Ricinus communis] Back     alignment and taxonomy information
>gi|224104601|ref|XP_002313496.1| predicted protein [Populus trichocarpa] gi|222849904|gb|EEE87451.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
>gi|224059244|ref|XP_002299786.1| predicted protein [Populus trichocarpa] gi|222847044|gb|EEE84591.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
>gi|356554253|ref|XP_003545463.1| PREDICTED: la-related protein 1-like [Glycine max] Back     alignment and taxonomy information
>gi|356499283|ref|XP_003518471.1| PREDICTED: la-related protein 1-like [Glycine max] Back     alignment and taxonomy information
>gi|296083998|emb|CBI24386.3| unnamed protein product [Vitis vinifera] Back     alignment and taxonomy information
>gi|357493683|ref|XP_003617130.1| La-related protein [Medicago truncatula] gi|355518465|gb|AET00089.1| La-related protein [Medicago truncatula] Back     alignment and taxonomy information
>gi|449463867|ref|XP_004149652.1| PREDICTED: la-related protein 1-like [Cucumis sativus] Back     alignment and taxonomy information

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST ?

Original result of BLAST against Gene Ontology (AMIGO)

ID ? Alignment graph ? Length ? Definition ? Q cover ? H cover ? Identity ? E-value ?
Query437
TAIR|locus:2125334523 LARP1c "La related protein 1c" 0.567 0.474 0.286 7.2e-19
UNIPROTKB|G3V0E9358 LARP1B "La-related protein 1B" 0.226 0.276 0.46 1.1e-15
TAIR|locus:2156912453 LARP1b "AT5G66100" [Arabidopsi 0.384 0.370 0.326 3.5e-15
UNIPROTKB|G3XAJ5522 LARP1B "La-related protein 1B" 0.226 0.189 0.46 3.8e-15
UNIPROTKB|Q659C4 914 LARP1B "La-related protein 1B" 0.226 0.108 0.46 1.1e-14
RGD|1306683 1024 Larp1 "La ribonucleoprotein do 0.185 0.079 0.506 2.2e-13
MGI|MGI:1890165 1072 Larp1 "La ribonucleoprotein do 0.185 0.075 0.506 4.4e-13
UNIPROTKB|Q6PKG0 1096 LARP1 "La-related protein 1" [ 0.199 0.079 0.488 1.4e-12
UNIPROTKB|F1MZU1 951 LARP1 "Uncharacterized protein 0.185 0.085 0.493 3.8e-12
POMBASE|SPAC1527.03475 SPAC1527.03 "RNA-binding prote 0.242 0.223 0.384 4.8e-12
TAIR|locus:2125334 LARP1c "La related protein 1c" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 242 (90.2 bits), Expect = 7.2e-19, Sum P(2) = 7.2e-19
 Identities = 78/272 (28%), Positives = 119/272 (43%)

Query:    60 GDPNASVAN-FPNRRPNT-QEPGG-----HMNHAWHHQRAFGPRDSVPVPQSIGPRPLVR 112
             G  N S  + + N+  N  Q  GG     H N  W  QR+F  R+     Q  G    VR
Sbjct:   253 GTENPSQRDSYRNQNGNHHQSHGGRRNQEHGNQNWTFQRSFNGREGNAQSQR-GTPAFVR 311

Query:   113 XXXXXXXXXXXYMVGPGFPGAALCYVPVVPPGSIRGPHPQRFFPYPVNSGAPMLPP-ETL 171
                        +M    FP     ++P     +    +P+  +  P+  G       +  
Sbjct:   312 HPSPTVQPIPQFMAAQPFPS----HIPFPTELAQSSYYPRMPYMTPIPHGPQFFYHYQDP 367

Query:   172 ALKANIVKQIEYYFSDENLQNDHYLISLMDAQGWVPIAIIADFKRVKRMSTDLPFILDAL 231
              L   + KQI+YYFSDENL  D YL   M+ +G+VP+ ++A FK+V  ++ ++  I++AL
Sbjct:   368 PLHMKLHKQIQYYFSDENLITDIYLRGFMNNEGFVPLRVVAGFKKVAELTDNIQQIVEAL 427

Query:   232 QNSSTVEAQGDKVRRRDEWSKWI---------PASVEXXXXXXXXXXXXXXXENPVDSIG 282
             QNS  VE QGD +R+RD W  W+         P SV+               ++  D IG
Sbjct:   428 QNSPHVEVQGDFIRKRDNWQNWVLRRNPTGSGPQSVDRADAVAKRLGNLSVDQSSADPIG 487

Query:   283 NGDINKDNKREMPKENVGFSSNTGNLME-NVP 313
              G  ++    E   ++   SS+T  +   N P
Sbjct:   488 -GSSSQLQPTEALSDDQQQSSSTAPVSNHNAP 518
GO:0009507 "chloroplast" evidence=ISM
GO:0048523 "negative regulation of cellular process" evidence=RCA
GO:0005737 "cytoplasm" evidence=IDA
GO:0010150 "leaf senescence" evidence=IMP
UNIPROTKB|G3V0E9 LARP1B "La-related protein 1B" [Homo sapiens (taxid:9606)] Back     alignment and assigned GO terms
TAIR|locus:2156912 LARP1b "AT5G66100" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
UNIPROTKB|G3XAJ5 LARP1B "La-related protein 1B" [Homo sapiens (taxid:9606)] Back     alignment and assigned GO terms
UNIPROTKB|Q659C4 LARP1B "La-related protein 1B" [Homo sapiens (taxid:9606)] Back     alignment and assigned GO terms
RGD|1306683 Larp1 "La ribonucleoprotein domain family, member 1" [Rattus norvegicus (taxid:10116)] Back     alignment and assigned GO terms
MGI|MGI:1890165 Larp1 "La ribonucleoprotein domain family, member 1" [Mus musculus (taxid:10090)] Back     alignment and assigned GO terms
UNIPROTKB|Q6PKG0 LARP1 "La-related protein 1" [Homo sapiens (taxid:9606)] Back     alignment and assigned GO terms
UNIPROTKB|F1MZU1 LARP1 "Uncharacterized protein" [Bos taurus (taxid:9913)] Back     alignment and assigned GO terms
POMBASE|SPAC1527.03 SPAC1527.03 "RNA-binding protein (predicted)" [Schizosaccharomyces pombe (taxid:4896)] Back     alignment and assigned GO terms

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries ?

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server ?

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software ?

No EC number assignment, probably not an enzyme!

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING ?

Original result from the STRING server

Fail to connect to STRING server

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST ?

Original result of RPS-BLAST against CDD database part I

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query437
cd0732375 cd07323, LAM, LA motif RNA-binding domain 3e-33
smart0071580 smart00715, LA, Domain in the RNA-binding Lupus La 7e-29
pfam0538359 pfam05383, La, La domain 2e-25
cd0803473 cd08034, LARP_1_2, La RNA-binding domain proteins 5e-23
cd0803377 cd08033, LARP_6, La RNA-binding domain of La-relat 6e-21
cd0803175 cd08031, LARP_4_5_like, La RNA-binding domain of p 1e-20
cd0803873 cd08038, LARP_2, La RNA-binding domain of La-relat 4e-20
cd0803773 cd08037, LARP_1, La RNA-binding domain of La-relat 2e-19
cd0802882 cd08028, LARP_3, La RNA-binding domain of La-relat 4e-19
cd0802976 cd08029, LA_like_fungal, La-motif domain of fungal 1e-16
cd0803575 cd08035, LARP_4, La RNA-binding domain of La-relat 8e-14
cd0803282 cd08032, LARP_7, La RNA-binding domain of La-relat 2e-13
cd0803675 cd08036, LARP_5, La RNA-binding domain of La-relat 7e-12
cd0803090 cd08030, LA_like_plant, La-motif domain of plant p 3e-09
COG5193438 COG5193, LHP1, La protein, small RNA-binding pol I 9e-07
pfam09770 804 pfam09770, PAT1, Topoisomerase II-associated prote 5e-04
>gnl|CDD|153396 cd07323, LAM, LA motif RNA-binding domain Back     alignment and domain information 
 Score =  119 bits (301), Expect = 3e-33
 Identities = 42/75 (56%), Positives = 55/75 (73%), Gaps = 2/75 (2%)

Query: 174 KANIVKQIEYYFSDENLQNDHYLISLMDAQGWVPIAIIADFKRVKRMSTDLPFILDALQN 233
              I KQ+EYYFSDENL  D +L SLMD  GWVP++++A F RVK+++TD+  IL+AL++
Sbjct: 1   LEKIKKQVEYYFSDENLCKDRFLRSLMDDDGWVPLSLLASFNRVKKLTTDVELILEALRD 60

Query: 234 SSTVEAQGD--KVRR 246
           SS VE   D  KVRR
Sbjct: 61  SSVVEVSEDGTKVRR 75

This domain is found at the N-terminus of La RNA-binding proteins as well as in other related proteins. Typically, the domain co-occurs with an RNA-recognition motif (RRM), and together these domains function to bind primary transcripts of RNA polymerase III in the La autoantigen (Lupus La protein, LARP3, or Sjoegren syndrome type B antigen, SS-B). A variety of La-related proteins (LARPs or La ribonucleoproteins), with differing domain architecture, appear to function as RNA-binding proteins in eukaryotic cellular processes. Length = 75
>gnl|CDD|128955 smart00715, LA, Domain in the RNA-binding Lupus La protein; unknown function Back     alignment and domain information
>gnl|CDD|203243 pfam05383, La, La domain Back     alignment and domain information
>gnl|CDD|153403 cd08034, LARP_1_2, La RNA-binding domain proteins similar to La-related proteins 1 and 2 Back     alignment and domain information
>gnl|CDD|153402 cd08033, LARP_6, La RNA-binding domain of La-related protein 6 Back     alignment and domain information
>gnl|CDD|153400 cd08031, LARP_4_5_like, La RNA-binding domain of proteins similar to La-related proteins 4 and 5 Back     alignment and domain information
>gnl|CDD|153407 cd08038, LARP_2, La RNA-binding domain of La-related protein 2 Back     alignment and domain information
>gnl|CDD|153406 cd08037, LARP_1, La RNA-binding domain of La-related protein 1 Back     alignment and domain information
>gnl|CDD|153397 cd08028, LARP_3, La RNA-binding domain of La-related protein 3 Back     alignment and domain information
>gnl|CDD|153398 cd08029, LA_like_fungal, La-motif domain of fungal proteins similar to the La autoantigen Back     alignment and domain information
>gnl|CDD|153404 cd08035, LARP_4, La RNA-binding domain of La-related protein 4 Back     alignment and domain information
>gnl|CDD|153401 cd08032, LARP_7, La RNA-binding domain of La-related protein 7 Back     alignment and domain information
>gnl|CDD|153405 cd08036, LARP_5, La RNA-binding domain of La-related protein 5 Back     alignment and domain information
>gnl|CDD|153399 cd08030, LA_like_plant, La-motif domain of plant proteins similar to the La autoantigen Back     alignment and domain information
>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] Back     alignment and domain information
>gnl|CDD|220392 pfam09770, PAT1, Topoisomerase II-associated protein PAT1 Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 437
KOG2591 684 consensus c-Mpl binding protein, contains La domai 100.0
cd0803773 LARP_1 La RNA-binding domain of La-related protein 99.96
cd0803873 LARP_2 La RNA-binding domain of La-related protein 99.96
cd0803675 LARP_5 La RNA-binding domain of La-related protein 99.96
cd0803575 LARP_4 La RNA-binding domain of La-related protein 99.96
cd0803473 LARP_1_2 La RNA-binding domain proteins similar to 99.96
cd0803282 LARP_7 La RNA-binding domain of La-related protein 99.95
cd0803175 LARP_4_5_like La RNA-binding domain of proteins si 99.95
cd0803377 LARP_6 La RNA-binding domain of La-related protein 99.95
smart0071580 LA Domain in the RNA-binding Lupus La protein; unk 99.95
cd0802882 LARP_3 La RNA-binding domain of La-related protein 99.94
cd0802976 LA_like_fungal La-motif domain of fungal proteins 99.94
cd0732375 LAM LA motif RNA-binding domain. This domain is fo 99.93
cd0803090 LA_like_plant La-motif domain of plant proteins si 99.93
PF0538361 La: La domain; InterPro: IPR006630 Human Ro ribonu 99.89
KOG1855484 consensus Predicted RNA-binding protein [General f 99.86
KOG4213205 consensus RNA-binding protein La [RNA processing a 99.52
KOG2590448 consensus RNA-binding protein LARP/SRO9 and relate 99.48
COG5193438 LHP1 La protein, small RNA-binding pol III transcr 99.37
COG5193438 LHP1 La protein, small RNA-binding pol III transcr 98.56
KOG2590448 consensus RNA-binding protein LARP/SRO9 and relate 97.94
PF01885186 PTS_2-RNA: RNA 2'-phosphotransferase, Tpt1 / KptA 91.76
PRK00819179 RNA 2'-phosphotransferase; Reviewed 91.29
PF09421 989 FRQ: Frequency clock protein; InterPro: IPR018554 90.24
KOG2278207 consensus RNA:NAD 2'-phosphotransferase TPT1 [Tran 83.01
>KOG2591 consensus c-Mpl binding protein, contains La domain [Signal transduction mechanisms] Back     alignment and domain information 
Probab=100.00  E-value=5.8e-43  Score=363.26  Aligned_cols=159  Identities=26%  Similarity=0.354  Sum_probs=147.5

Q ss_pred             cchHHHHHHHHhhhhhhcCCCCcCcchHHHHhhccCCcEehhhhhcchhhhhcCCCHHHHHHHHhcCCceEEcCCEEeeC
Q 013712          168 PETLALKANIVKQIEYYFSDENLQNDHYLISLMDAQGWVPIAIIADFKRVKRMSTDLPFILDALQNSSTVEAQGDKVRRR  247 (437)
Q Consensus       168 ~e~~~L~~~I~kQIEYYFSdeNL~kD~FLR~~MDsdG~VPIslIasFnRVK~LT~D~~lI~eALr~S~~LEV~~dKVRRR  247 (437)
                      +...+|++.|++|||||||.+||..|.||+++||+|.||||.+||+|++|++||+|++||+|+||.|+.||||++..|.|
T Consensus        91 Pls~~~kq~lk~qlEy~fSreNlssD~YL~sQMDSDqyVPI~tva~~~~i~klttDvdLI~Evlresp~VqvDekgekVr  170 (684)
T KOG2591|consen   91 PLSRDLKQLLKKQLEYYFSRENLSSDRYLISQMDSDQYVPINTVANFPEIMKLTTDVDLIVEVLRESPNVQVDEKGEKVR  170 (684)
T ss_pred             ccchhHHHHHHHHHHHhhccccccchhhhhhhcccccccchhhhccchhhhhhccchHHHHHHHhcCCCceeccCccccc
Confidence            34459999999999999999999999999999999999999999999999999999999999999999999996533333


Q ss_pred             CCCCccccccccccCCCCccCcccccccccccccCCCCCCCCCCCCCCcccccccCCCCcccCCCCCCCcccccCCCCCc
Q 013712          248 DEWSKWIPASVEQTMSSTAQTSQSQSAENPVDSIGNGDINKDNKREMPKENVGFSSNTGNLMENVPPSFDSVEIEPDNGE  327 (437)
Q Consensus       248 ~~w~kwv~~~~e~~~~s~t~t~~~~~ve~~~~~~~n~~~~~~n~~~~~~~~~~f~~n~~~~~~~~~~~~~t~~~~~Da~~  327 (437)
                      -..++||++++|        +++++++|.|+.+|+     ++|||  +.++|||++||+        ||||||+|+|||+
T Consensus       171 p~~kRcIvilRE--------Ipettp~e~Vk~lf~-----~encP--k~iscefa~N~n--------WyITfesd~DAQq  227 (684)
T KOG2591|consen  171 PNHKRCIVILRE--------IPETTPIEVVKALFK-----GENCP--KVISCEFAHNDN--------WYITFESDTDAQQ  227 (684)
T ss_pred             cCcceeEEEEee--------cCCCChHHHHHHHhc-----cCCCC--CceeeeeeecCc--------eEEEeecchhHHH
Confidence            478999999998        789999999999999     66999  999999999999        9999999999999


Q ss_pred             c-----cccccccCCCCcccccCCCCC
Q 013712          328 E-----HCDEFLLLDDGKPAFSAENGD  349 (437)
Q Consensus       328 ~-----~~~~~~~~~~~~~~~~~~~~~  349 (437)
                      |     |+|||||||+||||||+.+..
T Consensus       228 Aykylreevk~fqgKpImARIKaintf  254 (684)
T KOG2591|consen  228 AYKYLREEVKTFQGKPIMARIKAINTF  254 (684)
T ss_pred             HHHHHHHHHHhhcCcchhhhhhhhhcc
Confidence            9     999999999999999986644

>cd08037 LARP_1 La RNA-binding domain of La-related protein 1 Back     alignment and domain information
>cd08038 LARP_2 La RNA-binding domain of La-related protein 2 Back     alignment and domain information
>cd08036 LARP_5 La RNA-binding domain of La-related protein 5 Back     alignment and domain information
>cd08035 LARP_4 La RNA-binding domain of La-related protein 4 Back     alignment and domain information
>cd08034 LARP_1_2 La RNA-binding domain proteins similar to La-related proteins 1 and 2 Back     alignment and domain information
>cd08032 LARP_7 La RNA-binding domain of La-related protein 7 Back     alignment and domain information
>cd08031 LARP_4_5_like La RNA-binding domain of proteins similar to La-related proteins 4 and 5 Back     alignment and domain information
>cd08033 LARP_6 La RNA-binding domain of La-related protein 6 Back     alignment and domain information
>smart00715 LA Domain in the RNA-binding Lupus La protein; unknown function Back     alignment and domain information
>cd08028 LARP_3 La RNA-binding domain of La-related protein 3 Back     alignment and domain information
>cd08029 LA_like_fungal La-motif domain of fungal proteins similar to the La autoantigen Back     alignment and domain information
>cd07323 LAM LA motif RNA-binding domain Back     alignment and domain information
>cd08030 LA_like_plant La-motif domain of plant proteins similar to the La autoantigen Back     alignment and domain information
>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 Back     alignment and domain information
>KOG1855 consensus Predicted RNA-binding protein [General function prediction only] Back     alignment and domain information
>KOG4213 consensus RNA-binding protein La [RNA processing and modification] Back     alignment and domain information
>KOG2590 consensus RNA-binding protein LARP/SRO9 and related La domain proteins [Posttranslational modification, protein turnover, chaperones; Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>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] Back     alignment and domain information
>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] Back     alignment and domain information
>KOG2590 consensus RNA-binding protein LARP/SRO9 and related La domain proteins [Posttranslational modification, protein turnover, chaperones; Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>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 Back     alignment and domain information
>PRK00819 RNA 2'-phosphotransferase; Reviewed Back     alignment and domain information
>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 [] Back     alignment and domain information
>KOG2278 consensus RNA:NAD 2'-phosphotransferase TPT1 [Translation, ribosomal structure and biogenesis] Back     alignment and domain information

Homologous Structure Templates

Structure Templates Detected by BLAST ?

Original result of BLAST against Protein Data Bank

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query437
2cqk_A101 Solution Structure Of The La Domain Of C-Mpl Bindin 8e-10
1s7a_A103 Nmr Structure Of The La Motif Of Human La Protein L 1e-09
2vod_A193 Crystal Structure Of N-Terminal Domains Of Human La 1e-09
1zh5_A195 Structural Basis For Recognition Of Uuuoh 3'-Termin 5e-09
1yty_A194 Structural Basis For Recognition Of Uuuoh 3'-Termin 5e-09
1s29_A92 La Autoantigen N-Terminal Domain Length = 92 2e-07
>pdb|2CQK|A Chain A, Solution Structure Of The La Domain Of C-Mpl Binding Protein Length = 101 Back     alignment and structure 
Iteration: 1

 Score = 61.6 bits (148), Expect = 8e-10,   Method: Composition-based stats.
 Identities = 32/75 (42%), Positives = 51/75 (68%), Gaps = 2/75 (2%)
Query: 173 LKANIVKQIEYYFSDENLQNDHYLISLMDAQGWVPIAIIADFKRVKRMSTDLPFILDALQ 232
           LK  + KQ+E+ FS ENL  D YLIS MD+  ++PI  +A+ + +K+++TD   IL+ L+
Sbjct: 14  LKECLKKQLEFCFSRENLSKDLYLISQMDSDQFIPIWTVANMEEIKKLTTDPDLILEVLR 73
Query: 233 NSSTVEA--QGDKVR 245
           +S  V+   +G+KVR
Sbjct: 74  SSPMVQVDEKGEKVR 88
>pdb|1S7A|A Chain A, Nmr Structure Of The La Motif Of Human La Protein Length = 103 Back     alignment and structure
>pdb|2VOD|A Chain A, Crystal Structure Of N-Terminal Domains Of Human La Protein Complexed With Rna Oligomer Auauuuu Length = 193 Back     alignment and structure
>pdb|1ZH5|A Chain A, Structural Basis For Recognition Of Uuuoh 3'-Terminii Of Nascent Rna Pol Iii Transcripts By La Autoantigen Length = 195 Back     alignment and structure
>pdb|1YTY|A Chain A, Structural Basis For Recognition Of Uuuoh 3'-Terminii Of Nascent Rna Pol Iii Transcripts By La Autoantigen Length = 194 Back     alignment and structure
>pdb|1S29|A Chain A, La Autoantigen N-Terminal Domain Length = 92 Back     alignment and structure

Structure Templates Detected by RPS-BLAST ?

Original result of RPS-BLAST against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query437
2cqk_A101 C-MPL binding protein; LA domain, structural genom 4e-33
1s29_A92 LA protein; winged helix-turn-helix, autoantigen, 1e-28
2voo_A193 Lupus LA protein; RNA-binding protein, RNA recogni 8e-19
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 1e-08
1m2v_B 926 SEC24, protein transport protein SEC24, SEC24P, SE 7e-04
>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 Back     alignment and structure
 Score =  119 bits (300), Expect = 4e-33
 Identities = 36/99 (36%), Positives = 57/99 (57%), Gaps = 2/99 (2%)

Query: 161 SGAPMLPPETLALKANIVKQIEYYFSDENLQNDHYLISLMDAQGWVPIAIIADFKRVKRM 220
           S        T  LK  + KQ+E+ FS ENL  D YLIS MD+  ++PI  +A+ + +K++
Sbjct: 2   SSGSSGAVSTEDLKECLKKQLEFCFSRENLSKDLYLISQMDSDQFIPIWTVANMEEIKKL 61

Query: 221 STDLPFILDALQNSSTVE--AQGDKVRRRDEWSKWIPAS 257
           +TD   IL+ L++S  V+   +G+KVR   +     P+S
Sbjct: 62  TTDPDLILEVLRSSPMVQVDEKGEKVRPSHKRCISGPSS 100
>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 Back     alignment and structure
>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 Back     alignment and structure
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221 Back     alignment and structure
>1m2v_B SEC24, protein transport protein SEC24, SEC24P, SEC24 protein, abnormal nuclear; zinc-finger, beta barrel, VWA domain, gelsolin domain,; 2.75A {Saccharomyces cerevisiae} SCOP: a.71.2.1 b.2.8.1 c.62.1.2 d.109.2.1 g.41.10.1 Length = 926 Back     alignment and structure

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query437
1s29_A92 LA protein; winged helix-turn-helix, autoantigen, 99.96
2cqk_A101 C-MPL binding protein; LA domain, structural genom 99.96
2voo_A193 Lupus LA protein; RNA-binding protein, RNA recogni 99.91
1wfx_A186 Probable RNA 2'-phosphotransferase; tRNA splicing, 91.97
3htx_A 950 HEN1; HEN1, small RNA methyltransferase, protein-R 82.01
>1s29_A LA protein; winged helix-turn-helix, autoantigen, RNA-binding, RNA binding protein; 1.60A {Trypanosoma brucei} SCOP: a.4.5.46 Back     alignment and structure
Probab=99.96  E-value=5.9e-30  Score=214.03  Aligned_cols=81  Identities=36%  Similarity=0.576  Sum_probs=76.6

Q ss_pred             hHHHHHHHHhhhhhhcCCCCcCcchHHHHhh--ccCCcEehhhhhcchhhhhcCCCHHHHHHHHhcCCceEEcC--CEEe
Q 013712          170 TLALKANIVKQIEYYFSDENLQNDHYLISLM--DAQGWVPIAIIADFKRVKRMSTDLPFILDALQNSSTVEAQG--DKVR  245 (437)
Q Consensus       170 ~~~L~~~I~kQIEYYFSdeNL~kD~FLR~~M--DsdG~VPIslIasFnRVK~LT~D~~lI~eALr~S~~LEV~~--dKVR  245 (437)
                      .++++.+|++||||||||+||+||.||+++|  ++||||||++|++|+|||+||.|+++|++||+.|+.|||++  ++||
T Consensus         7 ~~~~~~~I~~QvEyYFSd~NL~~D~fL~~~m~~~~~G~Vpl~~i~sF~r~k~lt~d~~~i~~al~~S~~lev~edg~~VR   86 (92)
T 1s29_A            7 SSENKQKLQKQVEFYFSDVNVQRDIFLKGKMAENAEGFVSLETLLTFKRVNSVTTDVKEVVEAIRPSEKLVLSEDGLMVR   86 (92)
T ss_dssp             CHHHHHHHHHHHHHHTSHHHHTTCHHHHHHHTTSTTCCEEHHHHTTSHHHHTTCSCHHHHHHHHTTCSSEEECTTSSEEE
T ss_pred             CHHHHHHHHHHHHhhcchhhhccCHHHHHHhccCCCCCEEhHHHhCChhHHHHcCCHHHHHHHHhhCCeEEEeCCCCEEe
Confidence            3689999999999999999999999999999  79999999999999999999999999999999999999984  4899


Q ss_pred             eCCCC
Q 013712          246 RRDEW  250 (437)
Q Consensus       246 RR~~w  250 (437)
                      |+.+.
T Consensus        87 R~~Pl   91 (92)
T 1s29_A           87 RRDPL   91 (92)
T ss_dssp             ESSCC
T ss_pred             CCCCC
Confidence            99864
>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 Back     alignment and structure
>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 Back     alignment and structure
>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 Back     alignment and structure
>3htx_A HEN1; HEN1, small RNA methyltransferase, protein-RNA complex; HET: SAH; 3.10A {Arabidopsis thaliana} Back     alignment and structure

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST ?

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

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query 437
d2cqka188 a.4.5.46 (A:43-130) La-related protein 4 LARP4 {Hu 6e-33
d1zh5a199 a.4.5.46 (A:5-103) Lupus La autoantigen N-terminal 9e-31
d1s29a_92 a.4.5.46 (A:) Lupus La autoantigen N-terminal doma 4e-27
>d2cqka1 a.4.5.46 (A:43-130) La-related protein 4 LARP4 {Human (Homo sapiens) [TaxId: 9606]} Length = 88 Back     information, alignment and structure

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 =  117 bits (295), Expect = 6e-33
 Identities = 33/84 (39%), Positives = 53/84 (63%), Gaps = 4/84 (4%)

Query: 173 LKANIVKQIEYYFSDENLQNDHYLISLMDAQGWVPIAIIADFKRVKRMSTDLPFILDALQ 232
           LK  + KQ+E+ FS ENL  D YLIS MD+  ++PI  +A+ + +K+++TD   IL+ L+
Sbjct: 7   LKECLKKQLEFCFSRENLSKDLYLISQMDSDQFIPIWTVANMEEIKKLTTDPDLILEVLR 66

Query: 233 NSSTVE--AQGDKVRRRDEWSKWI 254
           +S  V+   +G+KVR      + I
Sbjct: 67  SSPMVQVDEKGEKVRPSH--KRCI 88
>d1zh5a1 a.4.5.46 (A:5-103) Lupus La autoantigen N-terminal domain {Human (Homo sapiens) [TaxId: 9606]} Length = 99 Back     information, alignment and structure
>d1s29a_ a.4.5.46 (A:) Lupus La autoantigen N-terminal domain {Trypanosoma brucei [TaxId: 5691]} Length = 92 Back     information, alignment and structure

Homologous Domains Detected by HHsearch ?

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

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query437
d1s29a_92 Lupus La autoantigen N-terminal domain {Trypanosom 99.95
d2cqka188 La-related protein 4 LARP4 {Human (Homo sapiens) [ 99.95
d1zh5a199 Lupus La autoantigen N-terminal domain {Human (Hom 99.95
d1wfxa_180 Probable RNA 2'-phosphotransferase KptA {Aeropyrum 92.37
>d1s29a_ a.4.5.46 (A:) Lupus La autoantigen N-terminal domain {Trypanosoma brucei [TaxId: 5691]} Back     information, alignment and structure
class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: La domain
domain: Lupus La autoantigen N-terminal domain
species: Trypanosoma brucei [TaxId: 5691]

Probab=99.95  E-value=1.4e-29  Score=210.01  Aligned_cols=80  Identities=38%  Similarity=0.613  Sum_probs=75.8

Q ss_pred             HHHHHHHHhhhhhhcCCCCcCcchHHHHhh--ccCCcEehhhhhcchhhhhcCCCHHHHHHHHhcCCceEEcCC--EEee
Q 013712          171 LALKANIVKQIEYYFSDENLQNDHYLISLM--DAQGWVPIAIIADFKRVKRMSTDLPFILDALQNSSTVEAQGD--KVRR  246 (437)
Q Consensus       171 ~~L~~~I~kQIEYYFSdeNL~kD~FLR~~M--DsdG~VPIslIasFnRVK~LT~D~~lI~eALr~S~~LEV~~d--KVRR  246 (437)
                      ++.+++|++||||||||+||++|.||+++|  ++||||||++|++|||||+|+.|+++|++||+.|..|||++|  +|||
T Consensus         8 ~e~~~~I~~QvEfYFSd~NL~~D~fL~~~m~~~~~G~V~i~~i~~F~rmk~lt~d~~~i~~Al~~S~~lev~ed~~~VRR   87 (92)
T d1s29a_           8 SENKQKLQKQVEFYFSDVNVQRDIFLKGKMAENAEGFVSLETLLTFKRVNSVTTDVKEVVEAIRPSEKLVLSEDGLMVRR   87 (92)
T ss_dssp             HHHHHHHHHHHHHHTSHHHHTTCHHHHHHHTTSTTCCEEHHHHTTSHHHHTTCSCHHHHHHHHTTCSSEEECTTSSEEEE
T ss_pred             HHHHHHHHHHHHHHccHhhhccCHHHHHHHhccCCCcEEhHHHhcCcCHHHhcCCHHHHHHHHhhCCeEEEeCCCCEEee
Confidence            578999999999999999999999999999  789999999999999999999999999999999999999865  8999


Q ss_pred             CCCC
Q 013712          247 RDEW  250 (437)
Q Consensus       247 R~~w  250 (437)
                      |.+.
T Consensus        88 k~pl   91 (92)
T d1s29a_          88 RDPL   91 (92)
T ss_dssp             SSCC
T ss_pred             CCCC
Confidence            8754
>d2cqka1 a.4.5.46 (A:43-130) La-related protein 4 LARP4 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1zh5a1 a.4.5.46 (A:5-103) Lupus La autoantigen N-terminal domain {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1wfxa_ d.166.1.5 (A:) Probable RNA 2'-phosphotransferase KptA {Aeropyrum pernix [TaxId: 56636]} Back     information, alignment and structure