Citrus Sinensis ID: 024253

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
MAVTVSASILKSSSACVHMLLSSFSPAASFRTPPPQFPLLRSSPITTITRTDRALLLLRPHHPKTSSFCTSPITNANAETTTTSESPPRPAVEDKSVNVKDAANMLDIRVGRIIKAWRHEEADSLYVEEVDVGEAEPRIICSGLVKYVPLDFLQDRSVVVLANLKPRNMRGVKSNGMLLAASDAAHENVELLEPPQGSVPGERIWFGSQEDKENQPAPASPNQVQKKKIWELVQPHLKTDASLVAMLGEHLMQTSAGAVMSRSLKNANIS
ccEEEEHHHHHHHHHHHHHHcccccccccccccccccccccccccccccccHHHHHccccccccccccccccccccccccccccccccccccccccccccccccEEcEEEEEEEEEEEcccccccEEEEEEccccccEEEEEccccccccccccccEEEEEEEccccccccccccEEEEEEEccccccEEEEccccccccccEEEEcccccccccccccccccccccHHHHHHccccEEcccEEEEEccEEEEEccccEEEccccccccc
ccHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccccccHHcHHHHHHHHcccccHHHHcccHHHcccHHHcccccccccccccccccccccccccEccEEEEEEEEEEEcccccccEEEEEEccccccEEEEEcccccccHHHccccEEEEEcccccEEEccEEEccEEcEEEccccEEEEEcEcccccccccEcEccccccccccccccccccccHHHHHHHHccccccccccEEEEcccEcEccccEEEEccccccccc
MAVTVSASILKSSSACVHMLLssfspaasfrtpppqfpllrsspittitrTDRALLllrphhpktssfctspitnanaettttsespprpavedksvnvkdAANMLDIRVGRIIKAWRheeadslyveevdvgeaepriicsglvkyvpldflqdrSVVVLAnlkprnmrgvksngmllAASDAahenvelleppqgsvpgeriwfgsqedkenqpapaspnqvQKKKIWELVQPHLKTDASLVAMLGEHLMQTSAGAVMSRSLKNANIS
MAVTVSASILKSSSACVHMLLSSFSPAASFRTPPPqfpllrsspitTITRTDRALLLLRPhhpktssfctspiTNANAettttsespprpavedksvnvkdaanmldIRVGRIIKAWRHEEADSLYVEEVDVGEAEPRIICSGLVKYVPLDFLQDRSVVVLAnlkprnmrgvkSNGMLLAASDAAHENVELleppqgsvpgERIWFGSQEDKENQPAPASPNQVQKKKIWELVQPHLKTDASLVAMLGEHLMQtsagavmsrslknanis
MAVTVSASILKSSSACVHMLLSSFSPAASFRTPPPQFPLLRSSPITTITRTDRALLLLRPHHPKTSSFCTSPItnanaettttsesppRPAVEDKSVNVKDAANMLDIRVGRIIKAWRHEEADSLYVEEVDVGEAEPRIICSGLVKYVPLDFLQDRSVVVLANLKPRNMRGVKSNGMLLAASDAAHENVELLEPPQGSVPGERIWFGSQEDKENQPAPASPNQVQKKKIWELVQPHLKTDASLVAMLGEHLMQTSAGAVMSRSLKNANIS
***************CVHMLL***********************ITTITRTDRALLLLR*****************************************DAANMLDIRVGRIIKAWRHEEADSLYVEEVDVGEAEPRIICSGLVKYVPLDFLQDRSVVVLANLKPR*************************************************************IWELVQPHLKTDASLVAMLGEH********************
*AVTVSASILKSSSACVHMLLSSFSPAASFRTPPPQFPLLRSSPIT******************************************************DAANMLDIRVGRIIKAWRHEEADSLYVEEVDVGEAEPRIICSGLVKYVPLDFLQDRSVVVLANLKPRNMRGVKSNGMLLAASDAAHENVELLEPPQGSVPGERIWFGSQEDK***************KIWELVQPHLKTDASLVAMLGEHLMQTSAGAVMSRSLKNANI*
*********LKSSSACVHMLLSSFSPAASFRTPPPQFPLLRSSPITTITRTDRALLLLRPHHPKTSSFCTSPITNAN*****************KSVNVKDAANMLDIRVGRIIKAWRHEEADSLYVEEVDVGEAEPRIICSGLVKYVPLDFLQDRSVVVLANLKPRNMRGVKSNGMLLAASDAAHENVELLEPPQGSVPGERIWFGSQ***************QKKKIWELVQPHLKTDASLVAMLGEHLMQTSAGAVMSRSLKNANIS
*AVTVSASILKSSSACVHMLLSSFSPAASFRTPPPQFPLLRSSPITTITRTDRALLLLR*****************************************DAANMLDIRVGRIIKAWRHEEADSLYVEEVDVGEAEPRIICSGLVKYVPLDFLQDRSVVVLANLKPRNMRGVKSNGMLLAASDAAHENVELLEPPQGSVPGERIWFGSQEDKENQPAPASPNQVQKKKIWELVQPHLKTDASLVAMLGEHLMQTSAGAVMSRSLK*****
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
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SSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
SSSSSSSSSSSSSSSooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
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MAVTVSASILKSSSACVHMLLSSFSPAASFRTPPPQFPLLRSSPITTITRTDRALLLLRPHHPKTSSFCTSPITNANAETTTTSESPPRPAVEDKSVNVKDAANMLDIRVGRIIKAWRHEEADSLYVEEVDVGEAEPRIICSGLVKYVPLDFLQDRSVVVLANLKPRNMRGVKSNGMLLAASDAAHENVELLEPPQGSVPGERIWFGSQEDKENQPAPASPNQVQKKKIWELVQPHLKTDASLVAMLGEHLMQTSAGAVMSRSLKNANIS
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 ?
Query270 2.2.26 [Sep-21-2011]
Q29465528 Tyrosine--tRNA ligase, cy yes no 0.577 0.295 0.494 2e-36
O54873359 Aminoacyl tRNA synthase c yes no 0.611 0.459 0.467 2e-36
Q5R8T5528 Tyrosine--tRNA ligase, cy yes no 0.577 0.295 0.488 5e-36
Q4KM49528 Tyrosine--tRNA ligase, cy yes no 0.577 0.295 0.494 2e-35
Q91WQ3528 Tyrosine--tRNA ligase, cy yes no 0.577 0.295 0.488 3e-35
P54577528 Tyrosine--tRNA ligase, cy yes no 0.577 0.295 0.482 3e-35
P31230310 Aminoacyl tRNA synthase c no no 0.577 0.503 0.485 4e-35
Q7ZX51528 Tyrosine--tRNA ligase, cy N/A no 0.770 0.393 0.4 2e-33
Q9ZTS1801 Probable methionine--tRNA no no 0.585 0.197 0.481 3e-33
Q12904312 Aminoacyl tRNA synthase c no no 0.566 0.490 0.470 8e-33
>sp|Q29465|SYYC_BOVIN Tyrosine--tRNA ligase, cytoplasmic OS=Bos taurus GN=YARS PE=2 SV=4 Back     alignment and function desciption
 Score =  152 bits (385), Expect = 2e-36,   Method: Compositional matrix adjust.
 Identities = 84/170 (49%), Positives = 109/170 (64%), Gaps = 14/170 (8%)

Query: 106 LDIRVGRIIKAWRHEEADSLYVEEVDVGEAEPRIICSGLVKYVPLDFLQDRSVVVLANLK 165
           LDIRVG++I   +H +ADSLYVE++DVGEAEPR + SGLV++VP + LQDR VVVL NLK
Sbjct: 368 LDIRVGKVISVDKHPDADSLYVEKIDVGEAEPRTVVSGLVQFVPKEELQDRLVVVLCNLK 427

Query: 166 PRNMRGVKSNGMLLAAS-DAAHENVELLEPPQGSVPGERIWFGSQE----DKENQPAPAS 220
           P+ MRGVKS GMLL AS +  +  VE L+PP GS PGER++    E    D+E +P    
Sbjct: 428 PQKMRGVKSQGMLLCASVEGVNRKVEPLDPPAGSAPGERVFVKGYEKGQPDEELKP---- 483

Query: 221 PNQVQKKKIWELVQPHLKTDASLVAMLGEHLMQTSAGAVMSRSLKNANIS 270
                KKK++E +Q   K     +A   +    T  G+V  +SLK  NIS
Sbjct: 484 -----KKKVFEKLQADFKISDEYIAQWKQTNFMTKMGSVSCKSLKGGNIS 528
Catalyzes the attachment of tyrosine to tRNA(Tyr) in a two-step reaction: tyrosine is first activated by ATP to form Tyr-AMP and then transferred to the acceptor end of tRNA(Tyr).
Bos taurus (taxid: 9913)
EC: 6EC: .EC: 1EC: .EC: 1EC: .EC: 1
>sp|O54873|AIMP1_CRIGR Aminoacyl tRNA synthase complex-interacting multifunctional protein 1 OS=Cricetulus griseus GN=AIMP1 PE=2 SV=1 Back     alignment and function description
>sp|Q5R8T5|SYYC_PONAB Tyrosine--tRNA ligase, cytoplasmic OS=Pongo abelii GN=YARS PE=2 SV=3 Back     alignment and function description
>sp|Q4KM49|SYYC_RAT Tyrosine--tRNA ligase, cytoplasmic OS=Rattus norvegicus GN=Yars PE=2 SV=3 Back     alignment and function description
>sp|Q91WQ3|SYYC_MOUSE Tyrosine--tRNA ligase, cytoplasmic OS=Mus musculus GN=Yars PE=2 SV=3 Back     alignment and function description
>sp|P54577|SYYC_HUMAN Tyrosine--tRNA ligase, cytoplasmic OS=Homo sapiens GN=YARS PE=1 SV=4 Back     alignment and function description
>sp|P31230|AIMP1_MOUSE Aminoacyl tRNA synthase complex-interacting multifunctional protein 1 OS=Mus musculus GN=Aimp1 PE=1 SV=2 Back     alignment and function description
>sp|Q7ZX51|SYYC_XENLA Tyrosine--tRNA ligase, cytoplasmic OS=Xenopus laevis GN=yars PE=2 SV=1 Back     alignment and function description
>sp|Q9ZTS1|SYM_ORYSJ Probable methionine--tRNA ligase OS=Oryza sativa subsp. japonica GN=Os06g0508700 PE=2 SV=2 Back     alignment and function description
>sp|Q12904|AIMP1_HUMAN Aminoacyl tRNA synthase complex-interacting multifunctional protein 1 OS=Homo sapiens GN=AIMP1 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 ?
Query270
255576659258 methionyl-tRNA synthetase, putative [Ric 0.740 0.775 0.758 8e-85
224117654281 predicted protein [Populus trichocarpa] 0.911 0.875 0.616 7e-81
225434269260 PREDICTED: aminoacyl tRNA synthase compl 0.637 0.661 0.831 3e-80
15232216273 Nucleic acid-binding, OB-fold-like prote 0.774 0.765 0.699 3e-80
297820848274 tRNA-binding region domain-containing pr 0.774 0.762 0.690 7e-79
296084389166 unnamed protein product [Vitis vinifera] 0.614 1.0 0.837 2e-77
449480867278 PREDICTED: aminoacyl tRNA synthase compl 0.748 0.726 0.687 6e-77
449453193278 PREDICTED: aminoacyl tRNA synthase compl 0.748 0.726 0.687 1e-76
351725397256 uncharacterized protein LOC100499829 [Gl 0.877 0.925 0.578 2e-74
388502536260 unknown [Lotus japonicus] 0.748 0.776 0.660 3e-74
>gi|255576659|ref|XP_002529219.1| methionyl-tRNA synthetase, putative [Ricinus communis] gi|223531337|gb|EEF33175.1| methionyl-tRNA synthetase, putative [Ricinus communis] Back     alignment and taxonomy information
 Score =  319 bits (817), Expect = 8e-85,   Method: Compositional matrix adjust.
 Identities = 154/203 (75%), Positives = 169/203 (83%), Gaps = 3/203 (1%)

Query: 68  FCTSPITNANAETTTTSESPPRPAVEDKSVNVKDAANMLDIRVGRIIKAWRHEEADSLYV 127
           FCT+   N  AE      S       D   +  DAA MLDIRVG+IIKAWRHEEADSLYV
Sbjct: 59  FCTAANVNVKAEEAAKVSSESN---SDDGPSAIDAAKMLDIRVGKIIKAWRHEEADSLYV 115

Query: 128 EEVDVGEAEPRIICSGLVKYVPLDFLQDRSVVVLANLKPRNMRGVKSNGMLLAASDAAHE 187
           EEVDVGEAEPRIICSGLVKY+PLD+LQD+ VVVLANLKPRNMRGVKS+GML+AASDA+HE
Sbjct: 116 EEVDVGEAEPRIICSGLVKYIPLDYLQDKKVVVLANLKPRNMRGVKSSGMLMAASDASHE 175

Query: 188 NVELLEPPQGSVPGERIWFGSQEDKENQPAPASPNQVQKKKIWELVQPHLKTDASLVAML 247
           NVELLEPP  S+PGERIWFGS++DKENQP PASPNQVQKKKIWE VQPHLKTD S  AM+
Sbjct: 176 NVELLEPPMDSIPGERIWFGSEDDKENQPDPASPNQVQKKKIWESVQPHLKTDDSCKAMI 235

Query: 248 GEHLMQTSAGAVMSRSLKNANIS 270
           GEHLM+TSAG V+ RSLKNANIS
Sbjct: 236 GEHLMRTSAGVVVCRSLKNANIS 258

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|224117654|ref|XP_002331598.1| predicted protein [Populus trichocarpa] gi|222873994|gb|EEF11125.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
>gi|225434269|ref|XP_002280840.1| PREDICTED: aminoacyl tRNA synthase complex-interacting multifunctional protein 1-like [Vitis vinifera] Back     alignment and taxonomy information
>gi|15232216|ref|NP_191557.1| Nucleic acid-binding, OB-fold-like protein [Arabidopsis thaliana] gi|7019692|emb|CAB75817.1| putative protein [Arabidopsis thaliana] gi|15028195|gb|AAK76594.1| unknown protein [Arabidopsis thaliana] gi|21281111|gb|AAM44914.1| unknown protein [Arabidopsis thaliana] gi|21555448|gb|AAM63861.1| unknown [Arabidopsis thaliana] gi|332646474|gb|AEE79995.1| Nucleic acid-binding, OB-fold-like protein [Arabidopsis thaliana] Back     alignment and taxonomy information
>gi|297820848|ref|XP_002878307.1| tRNA-binding region domain-containing protein [Arabidopsis lyrata subsp. lyrata] gi|297324145|gb|EFH54566.1| tRNA-binding region domain-containing protein [Arabidopsis lyrata subsp. lyrata] Back     alignment and taxonomy information
>gi|296084389|emb|CBI24777.3| unnamed protein product [Vitis vinifera] Back     alignment and taxonomy information
>gi|449480867|ref|XP_004156017.1| PREDICTED: aminoacyl tRNA synthase complex-interacting multifunctional protein 1-like [Cucumis sativus] Back     alignment and taxonomy information
>gi|449453193|ref|XP_004144343.1| PREDICTED: aminoacyl tRNA synthase complex-interacting multifunctional protein 1-like [Cucumis sativus] Back     alignment and taxonomy information
>gi|351725397|ref|NP_001236579.1| uncharacterized protein LOC100499829 [Glycine max] gi|255626975|gb|ACU13832.1| unknown [Glycine max] Back     alignment and taxonomy information
>gi|388502536|gb|AFK39334.1| unknown [Lotus japonicus] 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 ?
Query270
TAIR|locus:2080492273 AT3G59980 [Arabidopsis thalian 0.777 0.769 0.683 5.9e-73
UNIPROTKB|Q29465528 YARS "Tyrosine--tRNA ligase, c 0.655 0.335 0.467 2.4e-35
UNIPROTKB|E2RHR7564 YARS "Uncharacterized protein" 0.592 0.283 0.5 5.7e-35
UNIPROTKB|F1MHM5528 YARS "Tyrosine--tRNA ligase, c 0.655 0.335 0.462 6.5e-35
UNIPROTKB|I3L5T8528 YARS "Uncharacterized protein" 0.592 0.303 0.493 1.3e-34
UNIPROTKB|P54577528 YARS "Tyrosine--tRNA ligase, c 0.592 0.303 0.487 5.8e-34
MGI|MGI:2147627528 Yars "tyrosyl-tRNA synthetase" 0.592 0.303 0.493 7.4e-34
RGD|1307616528 Yars "tyrosyl-tRNA synthetase" 0.592 0.303 0.5 7.4e-34
UNIPROTKB|Q4KM49528 Yars "Tyrosine--tRNA ligase, c 0.592 0.303 0.5 7.4e-34
ZFIN|ZDB-GENE-060825-144315 aimp1 "aminoacyl tRNA syntheta 0.611 0.523 0.472 3.2e-33
TAIR|locus:2080492 AT3G59980 [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 737 (264.5 bits), Expect = 5.9e-73, P = 5.9e-73
 Identities = 145/212 (68%), Positives = 169/212 (79%)

Query:    59 RPHHPKTSSFCTSPIXXXXXXXXXXXXXXXRPAVEDKSVNVKDAANMLDIRVGRIIKAWR 118
             R   P+ ++FCT+                     E++  NVK+ AN+LDI+VGRI+KAW+
Sbjct:    64 RSSWPRVATFCTAAPDAGTTVSADESEKKSESQKEEE--NVKETANLLDIKVGRIVKAWQ 121

Query:   119 HEEADSLYVEEVDVGEAEPRIICSGLVKYVPLDFLQDRSVVVLANLKPRNMRGVKSNGML 178
             HEEADSLYVEEVD+GEAEPRIICSGLVKYVPLD LQ  SVVVLANLKPRNMRGVKS GML
Sbjct:   122 HEEADSLYVEEVDIGEAEPRIICSGLVKYVPLDLLQGASVVVLANLKPRNMRGVKSCGML 181

Query:   179 LAASDAAHENVELLEPPQGSVPGERIWFGSQEDKENQPAPASPNQVQKKKIWELVQPHLK 238
             LAASDAAHENVELL PP+GSVPG+R+WFG++ED E  P PA PN+VQKKK+WELVQP LK
Sbjct:   182 LAASDAAHENVELLVPPEGSVPGDRVWFGNEEDLEQLPEPAPPNKVQKKKMWELVQPLLK 241

Query:   239 TDASLVAMLGEHLMQTSAGAVMSRSLKNANIS 270
             TDAS V+ML EHLM+TS+G V S+SL+NANIS
Sbjct:   242 TDASGVSMLKEHLMRTSSGLVTSKSLRNANIS 273
GO:0000049 "tRNA binding" evidence=IEA;ISS
GO:0005737 "cytoplasm" evidence=ISM
GO:0009507 "chloroplast" evidence=IDA
UNIPROTKB|Q29465 YARS "Tyrosine--tRNA ligase, cytoplasmic" [Bos taurus (taxid:9913)] Back     alignment and assigned GO terms
UNIPROTKB|E2RHR7 YARS "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)] Back     alignment and assigned GO terms
UNIPROTKB|F1MHM5 YARS "Tyrosine--tRNA ligase, cytoplasmic" [Bos taurus (taxid:9913)] Back     alignment and assigned GO terms
UNIPROTKB|I3L5T8 YARS "Uncharacterized protein" [Sus scrofa (taxid:9823)] Back     alignment and assigned GO terms
UNIPROTKB|P54577 YARS "Tyrosine--tRNA ligase, cytoplasmic" [Homo sapiens (taxid:9606)] Back     alignment and assigned GO terms
MGI|MGI:2147627 Yars "tyrosyl-tRNA synthetase" [Mus musculus (taxid:10090)] Back     alignment and assigned GO terms
RGD|1307616 Yars "tyrosyl-tRNA synthetase" [Rattus norvegicus (taxid:10116)] Back     alignment and assigned GO terms
UNIPROTKB|Q4KM49 Yars "Tyrosine--tRNA ligase, cytoplasmic" [Rattus norvegicus (taxid:10116)] Back     alignment and assigned GO terms
ZFIN|ZDB-GENE-060825-144 aimp1 "aminoacyl tRNA synthetase complex-interacting multifunctional protein 1" [Danio rerio (taxid:7955)] 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

Your Input:
estExt_fgenesh4_pm.C_1700002
hypothetical protein (281 aa)
(Populus trichocarpa)
Predicted Functional Partners:
estExt_Genewise1_v1.C_LG_II3255
arginine-tRNA ligase (EC-6.1.1.19) (590 aa)
   •••• 0.540

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 ?
Query270
cd02799105 cd02799, tRNA_bind_EMAP-II_like, tRNA-binding-doma 1e-59
PLN02610801 PLN02610, PLN02610, probable methionyl-tRNA synthe 1e-56
cd0215399 cd02153, tRNA_bindingDomain, The tRNA binding doma 3e-41
pfam0158895 pfam01588, tRNA_bind, Putative tRNA binding domain 5e-40
cd02800105 cd02800, tRNA_bind_EcMetRS_like, tRNA-binding-doma 1e-30
PRK00133673 PRK00133, metG, methionyl-tRNA synthetase; Reviewe 2e-29
COG0073123 COG0073, ARC1, EMAP domain [General function predi 3e-26
PRK12267648 PRK12267, PRK12267, methionyl-tRNA synthetase; Rev 5e-25
TIGR00399137 TIGR00399, metG_C_term, methionyl-tRNA synthetase 1e-23
cd02798107 cd02798, tRNA_bind_CsaA, tRNA-binding-domain-conta 6e-20
PRK10089112 PRK10089, PRK10089, tRNA-binding protein; Provisio 1e-13
cd02796103 cd02796, tRNA_bind_bactPheRS, tRNA-binding-domain- 7e-11
TIGR00472 797 TIGR00472, pheT_bact, phenylalanyl-tRNA synthetase 8e-10
PRK00629 791 PRK00629, pheT, phenylalanyl-tRNA synthetase subun 2e-09
TIGR02222107 TIGR02222, chap_CsaA, export-related chaperone pro 1e-06
COG2517219 COG2517, COG2517, Predicted RNA-binding protein co 2e-06
>gnl|CDD|239198 cd02799, tRNA_bind_EMAP-II_like, tRNA-binding-domain-containing EMAP2-like proteins Back     alignment and domain information 
 Score =  184 bits (469), Expect = 1e-59
 Identities = 69/105 (65%), Positives = 85/105 (80%)

Query: 101 DAANMLDIRVGRIIKAWRHEEADSLYVEEVDVGEAEPRIICSGLVKYVPLDFLQDRSVVV 160
              + LDIRVG+I+K  +H +ADSLYVEE+D+GE EPR I SGLVK+VPL+ +Q+R VVV
Sbjct: 1   VDPSRLDIRVGKILKVRKHPDADSLYVEEIDLGEEEPRTIVSGLVKFVPLEQMQNRLVVV 60

Query: 161 LANLKPRNMRGVKSNGMLLAASDAAHENVELLEPPQGSVPGERIW 205
           L NLKPR MRGVKS GM+L AS+A HE VELLEPP+G+ PGER+ 
Sbjct: 61  LCNLKPRKMRGVKSQGMVLCASNADHEKVELLEPPEGAKPGERVT 105

This family contains a diverse fraction of tRNA binding proteins, including Caenorhabditis elegans methionyl-tRNA synthetase (CeMetRS), human tyrosyl- tRNA synthetase (hTyrRS), Saccharomyces cerevisiae Arc1p, human p43 and EMAP2. CeMetRS and hTyrRS aminoacylate their cognate tRNAs. Arc1p is a transactivator of yeast methionyl-tRNA and glutamyl-tRNA synthetases. This domain has general tRNA binding properties. In a subset of this family this domain has the added capability of a cytokine. For example the p43 component of the Human aminoacyl-tRNA synthetase complex is cleaved to release EMAP-II cytokine. EMAP-II has multiple activities during apoptosis, angiogenesis and inflammation and participates in malignant transformation. A EMAP-II-like cytokine also is released from hTyrRS upon cleavage. The active cytokine heptapeptide locates to this domain. Length = 105
>gnl|CDD|215329 PLN02610, PLN02610, probable methionyl-tRNA synthetase Back     alignment and domain information
>gnl|CDD|239066 cd02153, tRNA_bindingDomain, The tRNA binding domain is also known as the Myf domain in literature Back     alignment and domain information
>gnl|CDD|216589 pfam01588, tRNA_bind, Putative tRNA binding domain Back     alignment and domain information
>gnl|CDD|239199 cd02800, tRNA_bind_EcMetRS_like, tRNA-binding-domain-containing Escherichia coli methionyl-tRNA synthetase (EcMetRS)-like proteins Back     alignment and domain information
>gnl|CDD|234655 PRK00133, metG, methionyl-tRNA synthetase; Reviewed Back     alignment and domain information
>gnl|CDD|223151 COG0073, ARC1, EMAP domain [General function prediction only] Back     alignment and domain information
>gnl|CDD|237028 PRK12267, PRK12267, methionyl-tRNA synthetase; Reviewed Back     alignment and domain information
>gnl|CDD|232958 TIGR00399, metG_C_term, methionyl-tRNA synthetase C-terminal region/beta chain Back     alignment and domain information
>gnl|CDD|239197 cd02798, tRNA_bind_CsaA, tRNA-binding-domain-containing CsaA-like proteins Back     alignment and domain information
>gnl|CDD|182232 PRK10089, PRK10089, tRNA-binding protein; Provisional Back     alignment and domain information
>gnl|CDD|239196 cd02796, tRNA_bind_bactPheRS, tRNA-binding-domain-containing prokaryotic phenylalanly tRNA synthetase (PheRS) beta chain Back     alignment and domain information
>gnl|CDD|232990 TIGR00472, pheT_bact, phenylalanyl-tRNA synthetase, beta subunit, non-spirochete bacterial Back     alignment and domain information
>gnl|CDD|234804 PRK00629, pheT, phenylalanyl-tRNA synthetase subunit beta; Reviewed Back     alignment and domain information
>gnl|CDD|131277 TIGR02222, chap_CsaA, export-related chaperone protein CsaA Back     alignment and domain information
>gnl|CDD|225315 COG2517, COG2517, Predicted RNA-binding protein containing a C-terminal EMAP domain [General function prediction only] Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 270
KOG2241255 consensus tRNA-binding protein [Translation, ribos 100.0
PLN02610801 probable methionyl-tRNA synthetase 100.0
cd02798107 tRNA_bind_CsaA tRNA-binding-domain-containing CsaA 99.97
TIGR02222107 chap_CsaA export-related chaperone CsaA. This mode 99.96
PRK10089112 tRNA-binding protein; Provisional 99.96
cd02799105 tRNA_bind_EMAP-II_like tRNA-binding-domain-contain 99.95
PF0158895 tRNA_bind: Putative tRNA binding domain; InterPro: 99.95
cd02800105 tRNA_bind_EcMetRS_like tRNA-binding-domain-contain 99.95
COG0073123 ARC1 EMAP domain [General function prediction only 99.95
TIGR00399137 metG_C_term methionyl-tRNA synthetase C-terminal r 99.94
cd0215399 tRNA_bindingDomain The tRNA binding domain is also 99.94
PRK12267648 methionyl-tRNA synthetase; Reviewed 99.9
PRK00133673 metG methionyl-tRNA synthetase; Reviewed 99.89
cd02796103 tRNA_bind_bactPheRS tRNA-binding-domain-containing 99.86
TIGR00472 798 pheT_bact phenylalanyl-tRNA synthetase, beta subun 99.72
PRK00629 791 pheT phenylalanyl-tRNA synthetase subunit beta; Re 99.68
COG2517219 Predicted RNA-binding protein containing a C-termi 99.31
TIGR02306 341 RNA_lig_DRB0094 RNA ligase, DRB0094 family. The me 99.2
PHA02142 366 putative RNA ligase 96.06
PTZ00385659 lysyl-tRNA synthetase; Provisional 86.94
>KOG2241 consensus tRNA-binding protein [Translation, ribosomal structure and biogenesis] Back     alignment and domain information 
Probab=100.00  E-value=7.7e-54  Score=390.14  Aligned_cols=165  Identities=52%  Similarity=0.787  Sum_probs=156.1

Q ss_pred             cccCcccCeEEEEEEEEEeCCCCCceEEEEEEcCCCCcEEEEeCcccccCcccCCCCEEEEEEeeccccccceecceEEe
Q 024253          100 KDAANMLDIRVGRIIKAWRHEEADSLYVEEVDVGEAEPRIICSGLVKYVPLDFLQDRSVVVLANLKPRNMRGVKSNGMLL  179 (270)
Q Consensus       100 ~~f~~~LdIrVGkIvev~~HP~ADKLyv~kVDvGe~~~RtIvSGl~n~~~~eeL~GkkVvVv~NLKprKmrGv~SeGMLL  179 (270)
                      +.-..+||||||+|+++++||++|+||+++||+|+.++|||||||++|++.|+|+|++|+|+|||||+||||++||||+|
T Consensus        91 ~p~~~~LDiRvG~Ivka~kHpdADsLYve~IdvgE~~PRTVvSGLvk~vpleemq~R~VvvlcNLKPakmRgv~S~gMvl  170 (255)
T KOG2241|consen   91 GPDVSLLDIRVGKIVKAGKHPDADSLYVEEIDVGEAEPRTVVSGLVKHVPLEEMQNRLVVVLCNLKPAKMRGVKSQGMVL  170 (255)
T ss_pred             CCCcceeeEEEeEEEEecccCCcceeEEEEeeecccccceeehhhHhhCCHHHHhCCeEEEEeccccccccccccceeEE
Confidence            33346899999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             eeccCCCCcEEEEcCCCCCCCCceEEeCCCCCCcCCCCCCCCCCCccchhHhHhCCCcEECCCeEEEeCCeeeeecCcce
Q 024253          180 AASDAAHENVELLEPPQGSVPGERIWFGSQEDKENQPAPASPNQVQKKKIWELVQPHLKTDASLVAMLGEHLMQTSAGAV  259 (270)
Q Consensus       180 ~ase~~~~~VelL~PP~~a~~G~rV~f~~~~~~~~~p~~~~p~~~~KkK~we~v~p~L~t~~~gva~y~~~~~~ts~G~~  259 (270)
                      |+++.++..||+|.||.++.||+||+|+||+   ++|+.   .+|+|||+||+|||||+|+++|+|+|||.+|+|++|.|
T Consensus       171 caSs~d~~~VE~l~pP~gs~pGdRv~fegfe---gePd~---~LnPKKKiwE~iqpdl~t~~~~va~yKg~~~~~~~G~~  244 (255)
T KOG2241|consen  171 CASSPDKSVVEPLAPPAGSKPGDRVTFEGFE---GEPDK---ELNPKKKIWEKIQPDLKTNEEGVATYKGAPFETKKGVC  244 (255)
T ss_pred             ecCCcccceeeeccCCCCCCCCCeeeecCCC---CCcch---hcChhhhhHHHhCCCcccccceEEEecCCceeccCceE
Confidence            9999888889999999999999999999997   34554   46799999999999999999999999999999999999


Q ss_pred             EeccCCCcccC
Q 024253          260 MSRSLKNANIS  270 (270)
Q Consensus       260 ~~~sl~n~~Is  270 (270)
                      +++||.|++||
T Consensus       245 ~a~ti~n~~Ik  255 (255)
T KOG2241|consen  245 TAQTISNGGIK  255 (255)
T ss_pred             EEeeccCCCCC
Confidence            99999999997

>PLN02610 probable methionyl-tRNA synthetase Back     alignment and domain information
>cd02798 tRNA_bind_CsaA tRNA-binding-domain-containing CsaA-like proteins Back     alignment and domain information
>TIGR02222 chap_CsaA export-related chaperone CsaA Back     alignment and domain information
>PRK10089 tRNA-binding protein; Provisional Back     alignment and domain information
>cd02799 tRNA_bind_EMAP-II_like tRNA-binding-domain-containing EMAP2-like proteins Back     alignment and domain information
>PF01588 tRNA_bind: Putative tRNA binding domain; InterPro: IPR002547 This domain is found in prokaryotic methionyl-tRNA synthetases, prokaryotic phenylalanyl tRNA synthetases the yeast GU4 nucleic-binding protein (G4p1 or p42, ARC1) [], human tyrosyl-tRNA synthetase [], and endothelial-monocyte activating polypeptide II Back     alignment and domain information
>cd02800 tRNA_bind_EcMetRS_like tRNA-binding-domain-containing Escherichia coli methionyl-tRNA synthetase (EcMetRS)-like proteins Back     alignment and domain information
>COG0073 ARC1 EMAP domain [General function prediction only] Back     alignment and domain information
>TIGR00399 metG_C_term methionyl-tRNA synthetase C-terminal region/beta chain Back     alignment and domain information
>cd02153 tRNA_bindingDomain The tRNA binding domain is also known as the Myf domain in literature Back     alignment and domain information
>PRK12267 methionyl-tRNA synthetase; Reviewed Back     alignment and domain information
>PRK00133 metG methionyl-tRNA synthetase; Reviewed Back     alignment and domain information
>cd02796 tRNA_bind_bactPheRS tRNA-binding-domain-containing prokaryotic phenylalanly tRNA synthetase (PheRS) beta chain Back     alignment and domain information
>TIGR00472 pheT_bact phenylalanyl-tRNA synthetase, beta subunit, non-spirochete bacterial Back     alignment and domain information
>PRK00629 pheT phenylalanyl-tRNA synthetase subunit beta; Reviewed Back     alignment and domain information
>COG2517 Predicted RNA-binding protein containing a C-terminal EMAP domain [General function prediction only] Back     alignment and domain information
>TIGR02306 RNA_lig_DRB0094 RNA ligase, DRB0094 family Back     alignment and domain information
>PHA02142 putative RNA ligase Back     alignment and domain information
>PTZ00385 lysyl-tRNA synthetase; Provisional 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 ?
Query270
1ntg_A172 Crystal Structure Of The Emap Ii-Like Cytokine Rele 2e-36
1euj_A166 A Novel Anti-Tumor Cytokine Contains A Rna-Binding 6e-34
1e7z_A174 Crystal Structure Of The Emap2RNA BINDING DOMAIN OF 6e-34
1fl0_A171 Crystal Structure Of The Emap2RNA-Binding Domain Of 7e-34
1mkh_A107 C-Terminal Domain Of Methionyl-Trna Synthetase From 4e-16
1rqg_A722 Methionyl-Trna Synthetase From Pyrococcus Abyssi Le 6e-16
3ers_X118 Crystal Structure Of E. Coli Trbp111 Length = 118 2e-12
1pyb_A111 Crystal Structure Of Aquifex Aeolicus Trbp111: A St 3e-10
2cwp_A112 Crystal Structure Of Metrs Related Protein From Pyr 3e-06
2e8g_A241 The Structure Of Protein From P. Horikoshii At 1.7 1e-05
>pdb|1NTG|A Chain A, Crystal Structure Of The Emap Ii-Like Cytokine Released From Human Tyrosyl-Trna Synthetase Length = 172 Back     alignment and structure 
Iteration: 1

 Score =  149 bits (375), Expect = 2e-36,   Method: Compositional matrix adjust.
 Identities = 82/170 (48%), Positives = 108/170 (63%), Gaps = 14/170 (8%)
Query: 106 LDIRVGRIIKAWRHEEADSLYVEEVDVGEAEPRIICSGLVKYVPLDFLQDRSVVVLANLK 165
           LDIRVG+II   +H +ADSLYVE++DVGEAEPR + SGLV++VP + LQDR VVVL NLK
Sbjct: 10  LDIRVGKIITVEKHPDADSLYVEKIDVGEAEPRTVVSGLVQFVPKEELQDRLVVVLCNLK 69
Query: 166 PRNMRGVKSNGMLLAAS-DAAHENVELLEPPQGSVPGERIWFGSQE----DKENQPAPAS 220
           P+ MRGV+S GMLL AS +  +  VE L+PP GS PGE ++    E    D+E +P    
Sbjct: 70  PQKMRGVESQGMLLCASIEGINRQVEPLDPPAGSAPGEHVFVKGYEKGQPDEELKP---- 125
Query: 221 PNQVQKKKIWELVQPHLKTDASLVAMLGEHLMQTSAGAVMSRSLKNANIS 270
                KKK++E +Q   K     +A   +    T  G++  +SLK  NIS
Sbjct: 126 -----KKKVFEKLQADFKISEECIAQWKQTNFMTKLGSISCKSLKGGNIS 170
>pdb|1EUJ|A Chain A, A Novel Anti-Tumor Cytokine Contains A Rna-Binding Motif Present In Aminoacyl-Trna Synthetases Length = 166 Back     alignment and structure
>pdb|1E7Z|A Chain A, Crystal Structure Of The Emap2RNA BINDING DOMAIN OF THE P43 Protein From Human Aminoacyl-Trna Synthetase Complex Length = 174 Back     alignment and structure
>pdb|1FL0|A Chain A, Crystal Structure Of The Emap2RNA-Binding Domain Of The P43 Protein From Human Aminoacyl-Trna Synthetase Complex Length = 171 Back     alignment and structure
>pdb|1MKH|A Chain A, C-Terminal Domain Of Methionyl-Trna Synthetase From Pyrococcus Abyssi Length = 107 Back     alignment and structure
>pdb|1RQG|A Chain A, Methionyl-Trna Synthetase From Pyrococcus Abyssi Length = 722 Back     alignment and structure
>pdb|3ERS|X Chain X, Crystal Structure Of E. Coli Trbp111 Length = 118 Back     alignment and structure
>pdb|1PYB|A Chain A, Crystal Structure Of Aquifex Aeolicus Trbp111: A Stucture- Specific Trna Binding Protein Length = 111 Back     alignment and structure
>pdb|2CWP|A Chain A, Crystal Structure Of Metrs Related Protein From Pyrococcus Horikoshii Length = 112 Back     alignment and structure
>pdb|2E8G|A Chain A, The Structure Of Protein From P. Horikoshii At 1.7 Angstrom Resolution Length = 241 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 ?
Query270
1ntg_A172 Tyrrs, tyrosyl-tRNA synthetase; beta barrel, ligas 2e-71
1fl0_A171 Endothelial-monocyte activating polypeptide II; RN 8e-70
1pxf_A111 Hypothetical protein YGJH; oligonucleotide-oligosa 2e-43
1mkh_A107 Metrs;, C-terminal domain of methionyl-tRNA synthe 2e-38
1rqg_A722 Methionyl-tRNA synthetase; translation, dimerizati 6e-33
1pyb_A111 Methionyl-tRNA synthetase beta subunit; oligonucle 4e-31
2cwp_A112 Metrs related protein; structural GEN riken struct 6e-31
1gd7_A109 CSAA protein; oligonucleotide-binding fold, functi 1e-28
3g48_A112 Chaperone CSAA; structural genomics, niaid structu 2e-26
2e8g_A241 Hypothetical protein PH0536; oligonucleotide/oligo 8e-25
2nzh_A113 Protein CSAA; beta barrel, oligonucleotide/oligosa 2e-24
2q2i_A116 AGR_C_4014P, secretion chaperone; beta barrel, OB 5e-24
2q2h_A131 AGR_C_4014P, secretion chaperone, phage-display de 4e-23
3pco_B 795 Phenylalanyl-tRNA synthetase, beta chain; aminoacy 2e-08
3bu2_A199 Putative tRNA-binding protein; structural genomics 3e-07
1b7y_B 785 Phers, protein (phenylalanyl-tRNA synthetase); enz 5e-05
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 8e-05
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 2e-04
2rhq_B 795 Phenylalanyl-tRNA synthetase beta chain; heterotet 2e-04
>1ntg_A Tyrrs, tyrosyl-tRNA synthetase; beta barrel, ligase; 2.21A {Homo sapiens} SCOP: b.40.4.4 Length = 172 Back     alignment and structure
 Score =  216 bits (551), Expect = 2e-71
 Identities = 80/167 (47%), Positives = 106/167 (63%), Gaps = 6/167 (3%)

Query: 105 MLDIRVGRIIKAWRHEEADSLYVEEVDVGEAEPRIICSGLVKYVPLDFLQDRSVVVLANL 164
            LDIRVG+II   +H +ADSLYVE++DVGEAEPR + SGLV++VP + LQDR VVVL NL
Sbjct: 9   RLDIRVGKIITVEKHPDADSLYVEKIDVGEAEPRTVVSGLVQFVPKEELQDRLVVVLCNL 68

Query: 165 KPRNMRGVKSNGMLLAAS-DAAHENVELLEPPQGSVPGERIWFGSQEDKENQPAPASPNQ 223
           KP+ MRGV+S GMLL AS +  +  VE L+PP GS PGE ++    E  +    P    +
Sbjct: 69  KPQKMRGVESQGMLLCASIEGINRQVEPLDPPAGSAPGEHVFVKGYEKGQ----PDEELK 124

Query: 224 VQKKKIWELVQPHLKTDASLVAMLGEHLMQTSAGAVMSRSLKNANIS 270
             KKK++E +Q   K     +A   +    T  G++  +SLK  NIS
Sbjct: 125 -PKKKVFEKLQADFKISEECIAQWKQTNFMTKLGSISCKSLKGGNIS 170
>1fl0_A Endothelial-monocyte activating polypeptide II; RNA-binding domain, OB-fold, tRNA synthetase complex, RNA binding protein; 1.50A {Homo sapiens} SCOP: b.40.4.4 PDB: 1e7z_A 1euj_A Length = 171 Back     alignment and structure
>1pxf_A Hypothetical protein YGJH; oligonucleotide-oligosaccharide binding fold, OB fold, beta- barrel; 1.87A {Escherichia coli} SCOP: b.40.4.4 PDB: 3ers_X Length = 111 Back     alignment and structure
>1mkh_A Metrs;, C-terminal domain of methionyl-tRNA synthetase; beta barrel, dimerization domain, ligase; 2.01A {Pyrococcus abyssi} SCOP: b.40.4.4 Length = 107 Back     alignment and structure
>1rqg_A Methionyl-tRNA synthetase; translation, dimerization, ligase; 2.90A {Pyrococcus abyssi} SCOP: a.27.1.1 c.26.1.1 g.41.1.1 Length = 722 Back     alignment and structure
>1pyb_A Methionyl-tRNA synthetase beta subunit; oligonucleotide, oligosaccharide-binding fold, OB-fold, beta-barrel, RNA binding protein; 2.50A {Aquifex aeolicus} SCOP: b.40.4.4 Length = 111 Back     alignment and structure
>2cwp_A Metrs related protein; structural GEN riken structural genomics/proteomics initiative, RSGI; 2.10A {Pyrococcus horikoshii} Length = 112 Back     alignment and structure
>1gd7_A CSAA protein; oligonucleotide-binding fold, functional dimer, hydrophobic cavity, riken structural genomics/proteomics initiative, RSGI; 2.00A {Thermus thermophilus} SCOP: b.40.4.4 Length = 109 Back     alignment and structure
>3g48_A Chaperone CSAA; structural genomics, niaid structural centers for infectious diseases, center for structural GENO infectious diseases; 1.50A {Bacillus anthracis} Length = 112 Back     alignment and structure
>2e8g_A Hypothetical protein PH0536; oligonucleotide/oligosaccharide-binding fold, alpha-helices bundle, structural genomics, NPPSFA; 1.70A {Pyrococcus horikoshii} Length = 241 Back     alignment and structure
>2nzh_A Protein CSAA; beta barrel, oligonucleotide/oligosaccharide binding fold, H chaperone; 1.90A {Bacillus subtilis} PDB: 2nzo_A Length = 113 Back     alignment and structure
>2q2i_A AGR_C_4014P, secretion chaperone; beta barrel, OB fold, homodimer, protein secretio; 1.55A {Agrobacterium tumefaciens str} Length = 116 Back     alignment and structure
>2q2h_A AGR_C_4014P, secretion chaperone, phage-display derived peptid; beta barrel, OB fold, homodimer, protein secretio; HET: CIT; 1.65A {Agrobacterium tumefaciens str} Length = 131 Back     alignment and structure
>3pco_B Phenylalanyl-tRNA synthetase, beta chain; aminoacylation, tRNA-binding, DNA-binding domain, four-helix aminoacyl-tRNA synthetase, ATP-binding; HET: PHE AMP; 3.02A {Escherichia coli} Length = 795 Back     alignment and structure
>3bu2_A Putative tRNA-binding protein; structural genomics, PSI-2, protein structure initiative; 2.70A {Staphylococcus saprophyticus subsp} Length = 199 Back     alignment and structure
>1b7y_B Phers, protein (phenylalanyl-tRNA synthetase); enzyme, alpha/beta homodimer, ligase; HET: FYA; 2.50A {Thermus thermophilus} SCOP: a.6.1.1 a.6.1.1 b.40.4.4 b.153.1.1 d.58.13.1 d.104.1.1 PDB: 1b70_B* 1eiy_B 1jjc_B* 1pys_B 2akw_B* 2aly_B* 2amc_B* 3hfz_B* 3teh_B* 2iy5_B* Length = 785 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
>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
>2rhq_B Phenylalanyl-tRNA synthetase beta chain; heterotetramer, phenylalanine, aminoacyl-tRNA synthetase, ATP-binding, cytoplasm, ligase; HET: GAX; 2.20A {Staphylococcus haemolyticus} PDB: 2rhs_B* Length = 795 Back     alignment and structure

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query270
1ntg_A172 Tyrrs, tyrosyl-tRNA synthetase; beta barrel, ligas 100.0
1fl0_A171 Endothelial-monocyte activating polypeptide II; RN 100.0
3ers_X118 TRNA-binding protein YGJH; oligonucleotide-oligosa 100.0
1gd7_A109 CSAA protein; oligonucleotide-binding fold, functi 100.0
3g48_A112 Chaperone CSAA; structural genomics, niaid structu 100.0
2nzh_A113 Protein CSAA; beta barrel, oligonucleotide/oligosa 100.0
1mkh_A107 Metrs;, C-terminal domain of methionyl-tRNA synthe 100.0
2q2i_A116 AGR_C_4014P, secretion chaperone; beta barrel, OB 100.0
2cwp_A112 Metrs related protein; structural GEN riken struct 100.0
1pyb_A111 Methionyl-tRNA synthetase beta subunit; oligonucle 100.0
2q2h_A131 AGR_C_4014P, secretion chaperone, phage-display de 100.0
1pxf_A111 Hypothetical protein YGJH; oligonucleotide-oligosa 99.97
1rqg_A722 Methionyl-tRNA synthetase; translation, dimerizati 99.92
3bu2_A199 Putative tRNA-binding protein; structural genomics 99.92
2e8g_A241 Hypothetical protein PH0536; oligonucleotide/oligo 99.91
3pco_B 795 Phenylalanyl-tRNA synthetase, beta chain; aminoacy 99.84
1b7y_B 785 Phers, protein (phenylalanyl-tRNA synthetase); enz 99.77
2rhq_B 795 Phenylalanyl-tRNA synthetase beta chain; heterotet 99.74
>1ntg_A Tyrrs, tyrosyl-tRNA synthetase; beta barrel, ligase; 2.21A {Homo sapiens} SCOP: b.40.4.4 Back     alignment and structure
Probab=100.00  E-value=2.9e-50  Score=348.53  Aligned_cols=165  Identities=49%  Similarity=0.756  Sum_probs=150.2

Q ss_pred             cccCcccCeEEEEEEEEEeCCCCCceEEEEEEcCCCCcEEEEeCcccccCcccCCCCEEEEEEeeccccccceecceEEe
Q 024253          100 KDAANMLDIRVGRIIKAWRHEEADSLYVEEVDVGEAEPRIICSGLVKYVPLDFLQDRSVVVLANLKPRNMRGVKSNGMLL  179 (270)
Q Consensus       100 ~~f~~~LdIrVGkIvev~~HP~ADKLyv~kVDvGe~~~RtIvSGl~n~~~~eeL~GkkVvVv~NLKprKmrGv~SeGMLL  179 (270)
                      .+|. ++|||||+|+++++||+|||||+++||+|++++|||+||++|+|++|||+|++|++++||||+||||+.||||||
T Consensus         5 ~df~-kl~irVG~I~~~e~hP~AdkL~v~~VD~G~~~~rqIvsG~~n~~~~eel~G~~Vvvl~nlkp~klrGv~S~GMvL   83 (172)
T 1ntg_A            5 VIPS-RLDIRVGKIITVEKHPDADSLYVEKIDVGEAEPRTVVSGLVQFVPKEELQDRLVVVLCNLKPQKMRGVESQGMLL   83 (172)
T ss_dssp             CCGG-GSCEEEEEEEEEEECTTCSSCEEEEEECSSSSCEEEEESCTTTSCGGGTTTCEEEEECCBCCEEETTEEECCEEC
T ss_pred             cCcc-EeCEEEEEEEEEEECCCCCccEEEEEEeCCCcEEEEEECCCCCCChHHHCCCEEEEEEeEcceeecceecCCEEe
Confidence            4665 599999999999999999999999999998779999999999999999999999999999999999999999966


Q ss_pred             eec-cCCCCcEEEEcCCCCCCCCceEEeCCCCCCcCCCCCCCCCCCccchhHhHhCCCcEECCCeEEEeCCeeeeecCcc
Q 024253          180 AAS-DAAHENVELLEPPQGSVPGERIWFGSQEDKENQPAPASPNQVQKKKIWELVQPHLKTDASLVAMLGEHLMQTSAGA  258 (270)
Q Consensus       180 ~as-e~~~~~VelL~PP~~a~~G~rV~f~~~~~~~~~p~~~~p~~~~KkK~we~v~p~L~t~~~gva~y~~~~~~ts~G~  258 (270)
                      |+. ++++++++|+.||+++++|++++|+|++.  .+|+   +.+++|||+||++||+|+||++|+|+|+|.+|+|++|+
T Consensus        84 cs~~e~~~~~v~il~~~~~~~~G~~v~~~g~~~--~~p~---~~l~~kkk~~e~~~~~l~t~~~~~a~~k~~~~~~~~g~  158 (172)
T 1ntg_A           84 CASIEGINRQVEPLDPPAGSAPGEHVFVKGYEK--GQPD---EELKPKKKVFEKLQADFKISEECIAQWKQTNFMTKLGS  158 (172)
T ss_dssp             EEEEESSSEEEEECBCCBTCCTTCEEEETTCSS--CCCC---SSBCGGGCHHHHHHTTEEECTTSBEEETTEEEEETTEE
T ss_pred             EecccccCCCeEEEECCCCCCCCCEEEeCCcCC--CCCc---cccCcchhhHHhhCCCcEECCCCEEEECCEEEEeCCCC
Confidence            655 44456899999999999999999999853  2343   35789999999999999999999999999999999999


Q ss_pred             eEeccCCCcccC
Q 024253          259 VMSRSLKNANIS  270 (270)
Q Consensus       259 ~~~~sl~n~~Is  270 (270)
                      |++++|+|+.|+
T Consensus       159 ~~~~~l~~~~i~  170 (172)
T 1ntg_A          159 ISCKSLKGGNIS  170 (172)
T ss_dssp             CBCSSCTTCEEE
T ss_pred             EEeeecCCCEEE
Confidence            999999999985
>1fl0_A Endothelial-monocyte activating polypeptide II; RNA-binding domain, OB-fold, tRNA synthetase complex, RNA binding protein; 1.50A {Homo sapiens} SCOP: b.40.4.4 PDB: 1e7z_A 1euj_A Back     alignment and structure
>1gd7_A CSAA protein; oligonucleotide-binding fold, functional dimer, hydrophobic cavity, riken structural genomics/proteomics initiative, RSGI; 2.00A {Thermus thermophilus} SCOP: b.40.4.4 Back     alignment and structure
>3g48_A Chaperone CSAA; structural genomics, niaid structural centers for infectious diseases, center for structural GENO infectious diseases; 1.50A {Bacillus anthracis} SCOP: b.40.4.4 Back     alignment and structure
>2nzh_A Protein CSAA; beta barrel, oligonucleotide/oligosaccharide binding fold, H chaperone; 1.90A {Bacillus subtilis} PDB: 2nzo_A Back     alignment and structure
>1mkh_A Metrs;, C-terminal domain of methionyl-tRNA synthetase; beta barrel, dimerization domain, ligase; 2.01A {Pyrococcus abyssi} SCOP: b.40.4.4 Back     alignment and structure
>2q2i_A AGR_C_4014P, secretion chaperone; beta barrel, OB fold, homodimer, protein secretio; 1.55A {Agrobacterium tumefaciens str} Back     alignment and structure
>2cwp_A Metrs related protein; structural GEN riken structural genomics/proteomics initiative, RSGI; 2.10A {Pyrococcus horikoshii} Back     alignment and structure
>1pyb_A Methionyl-tRNA synthetase beta subunit; oligonucleotide, oligosaccharide-binding fold, OB-fold, beta-barrel, RNA binding protein; 2.50A {Aquifex aeolicus} SCOP: b.40.4.4 Back     alignment and structure
>2q2h_A AGR_C_4014P, secretion chaperone, phage-display derived peptid; beta barrel, OB fold, homodimer, protein secretio; HET: CIT; 1.65A {Agrobacterium tumefaciens str} Back     alignment and structure
>1pxf_A Hypothetical protein YGJH; oligonucleotide-oligosaccharide binding fold, OB fold, beta- barrel; 1.87A {Escherichia coli} PDB: 3ers_X Back     alignment and structure
>1rqg_A Methionyl-tRNA synthetase; translation, dimerization, ligase; 2.90A {Pyrococcus abyssi} SCOP: a.27.1.1 c.26.1.1 g.41.1.1 Back     alignment and structure
>3bu2_A Putative tRNA-binding protein; structural genomics, PSI-2, protein structure initiative; 2.70A {Staphylococcus saprophyticus subsp} Back     alignment and structure
>2e8g_A Hypothetical protein PH0536; oligonucleotide/oligosaccharide-binding fold, alpha-helices bundle, structural genomics, NPPSFA; 1.70A {Pyrococcus horikoshii} Back     alignment and structure
>3pco_B Phenylalanyl-tRNA synthetase, beta chain; aminoacylation, tRNA-binding, DNA-binding domain, four-helix aminoacyl-tRNA synthetase, ATP-binding; HET: PHE AMP; 3.02A {Escherichia coli} Back     alignment and structure
>1b7y_B Phers, protein (phenylalanyl-tRNA synthetase); enzyme, alpha/beta homodimer, ligase; HET: FYA; 2.50A {Thermus thermophilus} SCOP: a.6.1.1 a.6.1.1 b.40.4.4 b.153.1.1 d.58.13.1 d.104.1.1 PDB: 1b70_B* 1eiy_B 1jjc_B* 1pys_B 2akw_B* 2aly_B* 2amc_B* 3hfz_B* 3teh_B* 2iy5_B* Back     alignment and structure
>2rhq_B Phenylalanyl-tRNA synthetase beta chain; heterotetramer, phenylalanine, aminoacyl-tRNA synthetase, ATP-binding, cytoplasm, ligase; HET: GAX; 2.20A {Staphylococcus haemolyticus} PDB: 2rhs_B* 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 270
d1ntga_171 b.40.4.4 (A:) C-terminal domain of metazoan tyrosy 2e-49
d1fl0a_164 b.40.4.4 (A:) EMAP II {Human (Homo sapiens) [TaxId 2e-42
d1pxfa_111 b.40.4.4 (A:) Structure-specific tRNA-binding prot 9e-28
d1mkha_107 b.40.4.4 (A:) C-terminal domain of methionyl-tRNA 2e-27
d1pyba_107 b.40.4.4 (A:) Structure-specific tRNA-binding prot 3e-26
d1gd7a_109 b.40.4.4 (A:) TRBP111 homolog CsaA {Thermus thermo 2e-23
>d1ntga_ b.40.4.4 (A:) C-terminal domain of metazoan tyrosyl-tRNA synthetase, TyrRS {Human (Homo sapiens) [TaxId: 9606]} Length = 171 Back     information, alignment and structure

class: All beta proteins
fold: OB-fold
superfamily: Nucleic acid-binding proteins
family: Myf domain
domain: C-terminal domain of metazoan tyrosyl-tRNA synthetase, TyrRS
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  158 bits (401), Expect = 2e-49
 Identities = 79/170 (46%), Positives = 105/170 (61%), Gaps = 6/170 (3%)

Query: 102 AANMLDIRVGRIIKAWRHEEADSLYVEEVDVGEAEPRIICSGLVKYVPLDFLQDRSVVVL 161
             + LDIRVG+II   +H +ADSLYVE++DVGEAEPR + SGLV++VP + LQDR VVVL
Sbjct: 5   IPSRLDIRVGKIITVEKHPDADSLYVEKIDVGEAEPRTVVSGLVQFVPKEELQDRLVVVL 64

Query: 162 ANLKPRNMRGVKSNGMLLAAS-DAAHENVELLEPPQGSVPGERIWFGSQEDKENQPAPAS 220
            NLKP+ MRGV+S GMLL AS +  +  VE L+PP GS PGE ++    E  +       
Sbjct: 65  CNLKPQKMRGVESQGMLLCASIEGINRQVEPLDPPAGSAPGEHVFVKGYEKGQ-----PD 119

Query: 221 PNQVQKKKIWELVQPHLKTDASLVAMLGEHLMQTSAGAVMSRSLKNANIS 270
                KKK++E +Q   K     +A   +    T  G++  +SLK  NIS
Sbjct: 120 EELKPKKKVFEKLQADFKISEECIAQWKQTNFMTKLGSISCKSLKGGNIS 169
>d1fl0a_ b.40.4.4 (A:) EMAP II {Human (Homo sapiens) [TaxId: 9606]} Length = 164 Back     information, alignment and structure
>d1pxfa_ b.40.4.4 (A:) Structure-specific tRNA-binding protein TRBP111 {Escherichia coli [TaxId: 562]} Length = 111 Back     information, alignment and structure
>d1mkha_ b.40.4.4 (A:) C-terminal domain of methionyl-tRNA synthetase, MetRS-CD {Archaeon Pyrococcus abyssi [TaxId: 29292]} Length = 107 Back     information, alignment and structure
>d1pyba_ b.40.4.4 (A:) Structure-specific tRNA-binding protein TRBP111 {Aquifex aeolicus [TaxId: 63363]} Length = 107 Back     information, alignment and structure
>d1gd7a_ b.40.4.4 (A:) TRBP111 homolog CsaA {Thermus thermophilus [TaxId: 274]} Length = 109 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 ?
Query270
d1ntga_171 C-terminal domain of metazoan tyrosyl-tRNA synthet 100.0
d1fl0a_164 EMAP II {Human (Homo sapiens) [TaxId: 9606]} 100.0
d1pyba_107 Structure-specific tRNA-binding protein TRBP111 {A 100.0
d1mkha_107 C-terminal domain of methionyl-tRNA synthetase, Me 100.0
d1pxfa_111 Structure-specific tRNA-binding protein TRBP111 {E 100.0
d1gd7a_109 TRBP111 homolog CsaA {Thermus thermophilus [TaxId: 99.97
d1jjcb3113 Domain B2 of PheRS-beta, PheT {Thermus thermophilu 99.84
>d1ntga_ b.40.4.4 (A:) C-terminal domain of metazoan tyrosyl-tRNA synthetase, TyrRS {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
class: All beta proteins
fold: OB-fold
superfamily: Nucleic acid-binding proteins
family: Myf domain
domain: C-terminal domain of metazoan tyrosyl-tRNA synthetase, TyrRS
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=8e-46  Score=317.40  Aligned_cols=163  Identities=49%  Similarity=0.760  Sum_probs=150.4

Q ss_pred             CcccCeEEEEEEEEEeCCCCCceEEEEEEcCCCCcEEEEeCcccccCcccCCCCEEEEEEeeccccccceecceEEeeec
Q 024253          103 ANMLDIRVGRIIKAWRHEEADSLYVEEVDVGEAEPRIICSGLVKYVPLDFLQDRSVVVLANLKPRNMRGVKSNGMLLAAS  182 (270)
Q Consensus       103 ~~~LdIrVGkIvev~~HP~ADKLyv~kVDvGe~~~RtIvSGl~n~~~~eeL~GkkVvVv~NLKprKmrGv~SeGMLL~as  182 (270)
                      ++++|||||+|+++++||++||||+++||+|+++.|||+||+.|++++++|.|+++++++||||+||||+.|||||||++
T Consensus         6 pskldi~VG~I~~v~~hP~adkL~v~~Vd~G~~~~~~Iv~g~~~~~~~~~~~g~~v~~~~nlk~~kirGv~SeGMl~s~~   85 (171)
T d1ntga_           6 PSRLDIRVGKIITVEKHPDADSLYVEKIDVGEAEPRTVVSGLVQFVPKEELQDRLVVVLCNLKPQKMRGVESQGMLLCAS   85 (171)
T ss_dssp             GGGSCEEEEEEEEEEECTTCSSCEEEEEECSSSSCEEEEESCTTTSCGGGTTTCEEEEECCBCCEEETTEEECCEECEEE
T ss_pred             CccccEEEEEEEEEEECCCCCeeEEEEEEeCCCceEEEEeecccccccchhcccccceeeeccccccCccccceEEeecc
Confidence            45799999999999999999999999999999899999999999999999999999999999999999999999999999


Q ss_pred             cCC-CCcEEEEcCCCCCCCCceEEeCCCCCCcCCCCCCCCCCCccchhHhHhCCCcEECCCeEEEeCCeeeeecCcceEe
Q 024253          183 DAA-HENVELLEPPQGSVPGERIWFGSQEDKENQPAPASPNQVQKKKIWELVQPHLKTDASLVAMLGEHLMQTSAGAVMS  261 (270)
Q Consensus       183 e~~-~~~VelL~PP~~a~~G~rV~f~~~~~~~~~p~~~~p~~~~KkK~we~v~p~L~t~~~gva~y~~~~~~ts~G~~~~  261 (270)
                      +++ ++.+++++||+++++|++|+|+++++..  ++   +.+++|+|.|+.++++|.|++||.|+|++.+|+|++|+|++
T Consensus        86 e~g~~~~~~~~~~p~~~~~G~~v~~~~~~~~~--~~---~~~~~k~k~~~~~~~~l~v~~d~~a~~k~~~~~t~~g~~~~  160 (171)
T d1ntga_          86 IEGINRQVEPLDPPAGSAPGEHVFVKGYEKGQ--PD---EELKPKKKVFEKLQADFKISEECIAQWKQTNFMTKLGSISC  160 (171)
T ss_dssp             EESSSEEEEECBCCBTCCTTCEEEETTCSSCC--CC---SSBCGGGCHHHHHHTTEEECTTSBEEETTEEEEETTEECBC
T ss_pred             cCCCccceeeecCCCCCCCcCEEEECCccccC--cc---cccCcccchHHHhcccccCCCCCEEEECCeeeecCCCCEEe
Confidence            753 4568899999999999999999886532  22   24568999999999999999999999999999999999999


Q ss_pred             ccCCCcccC
Q 024253          262 RSLKNANIS  270 (270)
Q Consensus       262 ~sl~n~~Is  270 (270)
                      ++++|++||
T Consensus       161 ~~i~~~~iS  169 (171)
T d1ntga_         161 KSLKGGNIS  169 (171)
T ss_dssp             SSCTTCEEE
T ss_pred             ccCCCCEEe
Confidence            999999997
>d1fl0a_ b.40.4.4 (A:) EMAP II {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1pyba_ b.40.4.4 (A:) Structure-specific tRNA-binding protein TRBP111 {Aquifex aeolicus [TaxId: 63363]} Back     information, alignment and structure
>d1mkha_ b.40.4.4 (A:) C-terminal domain of methionyl-tRNA synthetase, MetRS-CD {Archaeon Pyrococcus abyssi [TaxId: 29292]} Back     information, alignment and structure
>d1pxfa_ b.40.4.4 (A:) Structure-specific tRNA-binding protein TRBP111 {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d1gd7a_ b.40.4.4 (A:) TRBP111 homolog CsaA {Thermus thermophilus [TaxId: 274]} Back     information, alignment and structure
>d1jjcb3 b.40.4.4 (B:39-151) Domain B2 of PheRS-beta, PheT {Thermus thermophilus [TaxId: 274]} Back     information, alignment and structure