Citrus Sinensis ID: 024598

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-----
MARGLKKHLKRLNAPKHWMLDKLGGAFAPKPSSGPHKSRECLPLILILRNRLKYALTYREVIAILMQRHVLVDAKVRTDKTYPAGFMDVVSIPKTNENFRLLYDTKGRFRLHSIRDEEAKFKLCKVRSVQFGQKGIPYINTYDGRTIRYPDPLIKANDTIKLDLETNKITEFIKFDVGNVVMVTGGRNRGRVGIIKNREKHKGSFETIHIQDALGHEFATRLGNVFTIGKGTKPWVSLPKGKGIKLSIIEEARKRQALATSAAAQ
ccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHccccccHHHHHHHHHccEEEEccEEEcccccccccEEEEEEccccccEEEEEcccccEEEEEccHHHHHcEEEEEccEEEEEcccEEEEEEccEEEEccccccccccEEEEEcccccEEEEEEEEcccEEEEEccccEEEEEEEEEEEEEEccccEEEEEcccccEEEEEEcEEEEEEcccccEEEccccccEEEEHHHHHHHHHHHHHHHHcc
cccccHHHHHHHcccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHccHHHHHHHHHcccEEEccEEcccccccccEEEEEEEccccccEEEEEccccEEEEEEccHHHHcEEEEEEEEEEEcccccEEEEEccccEEEcccccEEcccEEEEEcccccEEEEEEcccccEEEEEccccccEEEEEEEEEcccccccEEEEEEccccEEEEEcccEEEEEcccccEEEccccccEEEHHHHHHHHHHHHHHHcccc
MARGLKKHLKrlnapkhwmldklggafapkpssgphksreclPLILILRNRLKYALTYREVIAILMQRHVLVDakvrtdktypagfmdvvsipktnenFRLLYDtkgrfrlhsIRDEEAKFKLCKvrsvqfgqkgipyintydgrtirypdplikandtikldlETNKITEFIKFDVGNVVMVTggrnrgrvgiiknrekhkgsfeTIHIQDALGHEFATRLGNvftigkgtkpwvslpkgkgikLSIIEEARKRQALATSAAAQ
MARGLKKHLKRLNAPKHWMLDKLGGafapkpssgphksrECLPLILILRNRLKYALTYREVIAILMQRHVLVDAKVRTdktypagfmdvvsipktnenFRLLYDTKGRFRLHSIRDEEakfklckvrsvqfgqkgipyintydgrtirYPDPLIKANDTIKLDLETNKItefikfdvgnvvmvtggrnrgrvgiiknrekhkgsFETIHIQDALGHEFATRLGNVFTigkgtkpwvslpkgkGIKLSIIEEARKRQALATSAAAQ
MARGLKKHLKRLNAPKHWMLDKLGGAFAPKPSSGPHKSRECLPLILILRNRLKYALTYREVIAILMQRHVLVDAKVRTDKTYPAGFMDVVSIPKTNENFRLLYDTKGRFRLHSIRDEEAKFKLCKVRSVQFGQKGIPYINTYDGRTIRYPDPLIKANDTIKLDLETNKITEFIKFDVGNVVMVTGGRNRGRVGIIKNREKHKGSFETIHIQDALGHEFATRLGNVFTIGKGTKPWVSLPKGKGIKLSIIEEARKRQALATSAAAQ
*****************WMLDK*****************ECLPLILILRNRLKYALTYREVIAILMQRHVLVDAKVRTDKTYPAGFMDVVSIPKTNENFRLLYDTKGRFRLHSIRDEEAKFKLCKVRSVQFGQKGIPYINTYDGRTIRYPDPLIKANDTIKLDLETNKITEFIKFDVGNVVMVTGGRNRGRVGIIKNREKHKGSFETIHIQDALGHEFATRLGNVFTIGKGTKPWVSLPKGKGIKLSII****************
******K***RLNAPKHWMLDKLGGAF***********RECLPLILILRNRLKYALTYREVIAILMQRHVLVDAKVRTDKTYPAGFMDVVSIPKTNENFRLLYDTKGRFRLHSIRDEEAKFKLCKVRSVQFGQKGIPYINTYDGRTIRYPDPLIKANDTIKLDLETNKITEFIKFDVGNVVMVTGGRNRGRVGIIKNREKHKGSFETIHIQDALGHEFATRLGNVFTIGKGTKPWVSLPKGKGIKLSII****************
********LKRLNAPKHWMLDKLGGAFA*********SRECLPLILILRNRLKYALTYREVIAILMQRHVLVDAKVRTDKTYPAGFMDVVSIPKTNENFRLLYDTKGRFRLHSIRDEEAKFKLCKVRSVQFGQKGIPYINTYDGRTIRYPDPLIKANDTIKLDLETNKITEFIKFDVGNVVMVTGGRNRGRVGIIKNREKHKGSFETIHIQDALGHEFATRLGNVFTIGKGTKPWVSLPKGKGIKLSIIEEAR************
****LKKHLKRLNAPKHWMLDKLGGAFAPKPSSGPHKSRECLPLILILRNRLKYALTYREVIAILMQRHVLVDAKVRTDKTYPAGFMDVVSIPKTNENFRLLYDTKGRFRLHSIRDEEAKFKLCKVRSVQFGQKGIPYINTYDGRTIRYPDPLIKANDTIKLDLETNKITEFIKFDVGNVVMVTGGRNRGRVGIIKNREKHKGSFETIHIQDALGHEFATRLGNVFTIGKGTKPWVSLPKGKGIKLSIIEEARKRQALA******
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
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MARGLKKHLKRLNAPKHWMLDKLGGAFAPKPSSGPHKSRECLPLILILRNRLKYALTYREVIAILMQRHVLVDAKVRTDKTYPAGFMDVVSIPKTNENFRLLYDTKGRFRLHSIRDEEAKFKLCKVRSVQFGQKGIPYINTYDGRTIRYPDPLIKANDTIKLDLETNKITEFIKFDVGNVVMVTGGRNRGRVGIIKNREKHKGSFETIHIQDALGHEFATRLGNVFTIGKGTKPWVSLPKGKGIKLSIIEEARKRQALATSAAAQ
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 ?
Query265 2.2.26 [Sep-21-2011]
Q8VYK6262 40S ribosomal protein S4- yes no 0.988 1.0 0.916 1e-143
P49204262 40S ribosomal protein S4- yes no 0.988 1.0 0.916 1e-143
P46300264 40S ribosomal protein S4 N/A no 0.996 1.0 0.897 1e-142
Q93VH9261 40S ribosomal protein S4- yes no 0.962 0.977 0.933 1e-142
O22424265 40S ribosomal protein S4 N/A no 0.966 0.966 0.917 1e-140
P46299262 40S ribosomal protein S4 N/A no 0.988 1.0 0.912 1e-140
P49398265 40S ribosomal protein S4 yes no 0.966 0.966 0.910 1e-139
O81363261 40S ribosomal protein S4 N/A no 0.947 0.961 0.905 1e-135
P47961263 40S ribosomal protein S4 yes no 0.992 1.0 0.692 1e-107
P79103263 40S ribosomal protein S4 yes no 0.992 1.0 0.692 1e-107
>sp|Q8VYK6|RS43_ARATH 40S ribosomal protein S4-3 OS=Arabidopsis thaliana GN=RPS4D PE=2 SV=2 Back     alignment and function desciption
 Score =  506 bits (1304), Expect = e-143,   Method: Compositional matrix adjust.
 Identities = 242/264 (91%), Positives = 254/264 (96%), Gaps = 2/264 (0%)

Query: 1   MARGLKKHLKRLNAPKHWMLDKLGGAFAPKPSSGPHKSRECLPLILILRNRLKYALTYRE 60
           MARGLKKHLKRLNAPKHWMLDKLGGAFAPKPSSGPHKSRECLPL+LI+RNRLKYALTYRE
Sbjct: 1   MARGLKKHLKRLNAPKHWMLDKLGGAFAPKPSSGPHKSRECLPLVLIIRNRLKYALTYRE 60

Query: 61  VIAILMQRHVLVDAKVRTDKTYPAGFMDVVSIPKTNENFRLLYDTKGRFRLHSIRDEEAK 120
           VI+ILMQRH+ VD KVRTDKTYPAGFMDVVSIPKTNENFRLLYDTKGRFRLHSI+DEEAK
Sbjct: 61  VISILMQRHIQVDGKVRTDKTYPAGFMDVVSIPKTNENFRLLYDTKGRFRLHSIKDEEAK 120

Query: 121 FKLCKVRSVQFGQKGIPYINTYDGRTIRYPDPLIKANDTIKLDLETNKITEFIKFDVGNV 180
           FKLCKVRS+QFGQKGIPY+NTYDGRTIRYPDPLIK NDTIKLDLE NKI EFIKFDVGNV
Sbjct: 121 FKLCKVRSIQFGQKGIPYLNTYDGRTIRYPDPLIKPNDTIKLDLEANKIVEFIKFDVGNV 180

Query: 181 VMVTGGRNRGRVGIIKNREKHKGSFETIHIQDALGHEFATRLGNVFTIGKGTKPWVSLPK 240
           VMVTGGRNRGRVG+IKNREKHKGSFETIHIQD+ GHEFATRLGNV+TIGKGTKPWVSLPK
Sbjct: 181 VMVTGGRNRGRVGVIKNREKHKGSFETIHIQDSTGHEFATRLGNVYTIGKGTKPWVSLPK 240

Query: 241 GKGIKLSIIEEARKRQALATSAAA 264
           GKGIKL+IIEEARKR  LA+  AA
Sbjct: 241 GKGIKLTIIEEARKR--LASQQAA 262

Arabidopsis thaliana (taxid: 3702)
>sp|P49204|RS42_ARATH 40S ribosomal protein S4-2 OS=Arabidopsis thaliana GN=RPS4B PE=2 SV=4 Back     alignment and function description
>sp|P46300|RS4_SOLTU 40S ribosomal protein S4 OS=Solanum tuberosum GN=RPS4 PE=2 SV=1 Back     alignment and function description
>sp|Q93VH9|RS41_ARATH 40S ribosomal protein S4-1 OS=Arabidopsis thaliana GN=RPS4A PE=2 SV=1 Back     alignment and function description
>sp|O22424|RS4_MAIZE 40S ribosomal protein S4 OS=Zea mays GN=RPS4 PE=2 SV=1 Back     alignment and function description
>sp|P46299|RS4_GOSHI 40S ribosomal protein S4 OS=Gossypium hirsutum GN=RPS4 PE=2 SV=1 Back     alignment and function description
>sp|P49398|RS4_ORYSJ 40S ribosomal protein S4 OS=Oryza sativa subsp. japonica GN=RPS4 PE=2 SV=3 Back     alignment and function description
>sp|O81363|RS4_PRUAR 40S ribosomal protein S4 OS=Prunus armeniaca GN=RPS4 PE=2 SV=1 Back     alignment and function description
>sp|P47961|RS4_CRIGR 40S ribosomal protein S4 OS=Cricetulus griseus GN=RPS4 PE=2 SV=2 Back     alignment and function description
>sp|P79103|RS4_BOVIN 40S ribosomal protein S4 OS=Bos taurus GN=RPS4 PE=2 SV=3 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 ?
Query265
255543308263 40S ribosomal protein S4, putative [Rici 0.992 1.0 0.954 1e-146
255549228263 40S ribosomal protein S4, putative [Rici 0.992 1.0 0.950 1e-146
449509213264 PREDICTED: 40S ribosomal protein S4-like 0.996 1.0 0.943 1e-145
357468567264 40S ribosomal protein S4 [Medicago trunc 0.996 1.0 0.935 1e-145
224087813263 predicted protein [Populus trichocarpa] 0.992 1.0 0.927 1e-144
449465358264 PREDICTED: 40S ribosomal protein S4-like 0.996 1.0 0.935 1e-144
356496247264 PREDICTED: 40S ribosomal protein S4-like 0.996 1.0 0.931 1e-144
192912988265 40S ribosomal protein S4 [Elaeis guineen 0.992 0.992 0.935 1e-144
356559288264 PREDICTED: 40S ribosomal protein S4-1-li 0.996 1.0 0.928 1e-143
192912992265 40S ribosomal protein S4 [Elaeis guineen 0.992 0.992 0.942 1e-143
>gi|255543308|ref|XP_002512717.1| 40S ribosomal protein S4, putative [Ricinus communis] gi|223548678|gb|EEF50169.1| 40S ribosomal protein S4, putative [Ricinus communis] Back     alignment and taxonomy information
 Score =  523 bits (1348), Expect = e-146,   Method: Compositional matrix adjust.
 Identities = 251/263 (95%), Positives = 259/263 (98%)

Query: 1   MARGLKKHLKRLNAPKHWMLDKLGGAFAPKPSSGPHKSRECLPLILILRNRLKYALTYRE 60
           MARGLKKHLKRLNAPKHWMLDKLGGAFAPKPSSGPHKSRECLPLILILRNRLKYALTYRE
Sbjct: 1   MARGLKKHLKRLNAPKHWMLDKLGGAFAPKPSSGPHKSRECLPLILILRNRLKYALTYRE 60

Query: 61  VIAILMQRHVLVDAKVRTDKTYPAGFMDVVSIPKTNENFRLLYDTKGRFRLHSIRDEEAK 120
           VIAILMQRHVLVDAKVRTDKTYPAGFMDVVSIPKTNENFRLLYDTKGRFRLHSIRD+EAK
Sbjct: 61  VIAILMQRHVLVDAKVRTDKTYPAGFMDVVSIPKTNENFRLLYDTKGRFRLHSIRDDEAK 120

Query: 121 FKLCKVRSVQFGQKGIPYINTYDGRTIRYPDPLIKANDTIKLDLETNKITEFIKFDVGNV 180
           FKLCKVRSVQFGQKGIPY+NTYDGRTIRYPDPLIKANDTIKLDLE+NKITEFIKFDVGNV
Sbjct: 121 FKLCKVRSVQFGQKGIPYLNTYDGRTIRYPDPLIKANDTIKLDLESNKITEFIKFDVGNV 180

Query: 181 VMVTGGRNRGRVGIIKNREKHKGSFETIHIQDALGHEFATRLGNVFTIGKGTKPWVSLPK 240
           VMVTGGRNRGRVG+IKNREKHKGSFETIHIQD+ GHEFATR+GNVFTIGKGTKPWVSLPK
Sbjct: 181 VMVTGGRNRGRVGVIKNREKHKGSFETIHIQDSTGHEFATRMGNVFTIGKGTKPWVSLPK 240

Query: 241 GKGIKLSIIEEARKRQALATSAA 263
           GKGIKLSIIEEARKR A + +AA
Sbjct: 241 GKGIKLSIIEEARKRLAASQTAA 263

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|255549228|ref|XP_002515668.1| 40S ribosomal protein S4, putative [Ricinus communis] gi|223545211|gb|EEF46720.1| 40S ribosomal protein S4, putative [Ricinus communis] Back     alignment and taxonomy information
>gi|449509213|ref|XP_004163526.1| PREDICTED: 40S ribosomal protein S4-like [Cucumis sativus] Back     alignment and taxonomy information
>gi|357468567|ref|XP_003604568.1| 40S ribosomal protein S4 [Medicago truncatula] gi|355505623|gb|AES86765.1| 40S ribosomal protein S4 [Medicago truncatula] Back     alignment and taxonomy information
>gi|224087813|ref|XP_002308235.1| predicted protein [Populus trichocarpa] gi|222854211|gb|EEE91758.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
>gi|449465358|ref|XP_004150395.1| PREDICTED: 40S ribosomal protein S4-like [Cucumis sativus] gi|449496881|ref|XP_004160252.1| PREDICTED: 40S ribosomal protein S4-like [Cucumis sativus] Back     alignment and taxonomy information
>gi|356496247|ref|XP_003516980.1| PREDICTED: 40S ribosomal protein S4-like [Glycine max] Back     alignment and taxonomy information
>gi|192912988|gb|ACF06602.1| 40S ribosomal protein S4 [Elaeis guineensis] Back     alignment and taxonomy information
>gi|356559288|ref|XP_003547932.1| PREDICTED: 40S ribosomal protein S4-1-like [Glycine max] Back     alignment and taxonomy information
>gi|192912992|gb|ACF06604.1| 40S ribosomal protein S4 [Elaeis guineensis] 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 ?
Query265
TAIR|locus:2171198262 AT5G58420 [Arabidopsis thalian 0.988 1.0 0.916 1e-130
TAIR|locus:2169339262 AT5G07090 [Arabidopsis thalian 0.988 1.0 0.916 1.3e-130
TAIR|locus:2827612261 AT2G17360 [Arabidopsis thalian 0.962 0.977 0.933 4.5e-130
UNIPROTKB|P79103263 RPS4 "40S ribosomal protein S4 0.988 0.996 0.694 3.1e-99
UNIPROTKB|F2Z4Q1263 RPS4X "Uncharacterized protein 0.988 0.996 0.694 3.1e-99
UNIPROTKB|J9P5V0267 J9P5V0 "Uncharacterized protei 0.988 0.981 0.694 3.1e-99
UNIPROTKB|P62701263 RPS4X "40S ribosomal protein S 0.988 0.996 0.694 3.1e-99
UNIPROTKB|F1RQ91263 RPS4X "Uncharacterized protein 0.988 0.996 0.694 3.1e-99
UNIPROTKB|P62704263 RPS4X "40S ribosomal protein S 0.988 0.996 0.694 3.1e-99
UNIPROTKB|P62705263 RPS4X "40S ribosomal protein S 0.988 0.996 0.694 3.1e-99
TAIR|locus:2171198 AT5G58420 [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 1282 (456.3 bits), Expect = 1.0e-130, P = 1.0e-130
 Identities = 242/264 (91%), Positives = 254/264 (96%)

Query:     1 MARGLKKHLKRLNAPKHWMLDKLGGAFAPKPSSGPHKSRECLPLILILRNRLKYALTYRE 60
             MARGLKKHLKRLNAPKHWMLDKLGGAFAPKPSSGPHKSRECLPL+LI+RNRLKYALTYRE
Sbjct:     1 MARGLKKHLKRLNAPKHWMLDKLGGAFAPKPSSGPHKSRECLPLVLIIRNRLKYALTYRE 60

Query:    61 VIAILMQRHVLVDAKVRTDKTYPAGFMDVVSIPKTNENFRLLYDTKGRFRLHSIRDEEAK 120
             VI+ILMQRH+ VD KVRTDKTYPAGFMDVVSIPKTNENFRLLYDTKGRFRLHSI+DEEAK
Sbjct:    61 VISILMQRHIQVDGKVRTDKTYPAGFMDVVSIPKTNENFRLLYDTKGRFRLHSIKDEEAK 120

Query:   121 FKLCKVRSVQFGQKGIPYINTYDGRTIRYPDPLIKANDTIKLDLETNKITEFIKFDVGNV 180
             FKLCKVRS+QFGQKGIPY+NTYDGRTIRYPDPLIK NDTIKLDLE NKI EFIKFDVGNV
Sbjct:   121 FKLCKVRSIQFGQKGIPYLNTYDGRTIRYPDPLIKPNDTIKLDLEANKIVEFIKFDVGNV 180

Query:   181 VMVTGGRNRGRVGIIKNREKHKGSFETIHIQDALGHEFATRLGNVFTIGKGTKPWVSLPK 240
             VMVTGGRNRGRVG+IKNREKHKGSFETIHIQD+ GHEFATRLGNV+TIGKGTKPWVSLPK
Sbjct:   181 VMVTGGRNRGRVGVIKNREKHKGSFETIHIQDSTGHEFATRLGNVYTIGKGTKPWVSLPK 240

Query:   241 GKGIKLSIIEEARKRQALATSAAA 264
             GKGIKL+IIEEARKR  LA+  AA
Sbjct:   241 GKGIKLTIIEEARKR--LASQQAA 262
GO:0003723 "RNA binding" evidence=IEA
GO:0003735 "structural constituent of ribosome" evidence=IEA;ISS
GO:0005622 "intracellular" evidence=IEA
GO:0005737 "cytoplasm" evidence=ISM
GO:0005840 "ribosome" evidence=IEA
GO:0006412 "translation" evidence=IEA;ISS
GO:0022627 "cytosolic small ribosomal subunit" evidence=ISS;IDA
GO:0005730 "nucleolus" evidence=IDA
GO:0022626 "cytosolic ribosome" evidence=IDA
GO:0016020 "membrane" evidence=IDA
GO:0005829 "cytosol" evidence=IDA
GO:0005794 "Golgi apparatus" evidence=RCA
GO:0001510 "RNA methylation" evidence=RCA
TAIR|locus:2169339 AT5G07090 [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2827612 AT2G17360 [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
UNIPROTKB|P79103 RPS4 "40S ribosomal protein S4" [Bos taurus (taxid:9913)] Back     alignment and assigned GO terms
UNIPROTKB|F2Z4Q1 RPS4X "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)] Back     alignment and assigned GO terms
UNIPROTKB|J9P5V0 J9P5V0 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)] Back     alignment and assigned GO terms
UNIPROTKB|P62701 RPS4X "40S ribosomal protein S4, X isoform" [Homo sapiens (taxid:9606)] Back     alignment and assigned GO terms
UNIPROTKB|F1RQ91 RPS4X "Uncharacterized protein" [Sus scrofa (taxid:9823)] Back     alignment and assigned GO terms
UNIPROTKB|P62704 RPS4X "40S ribosomal protein S4, X isoform" [Mesocricetus auratus (taxid:10036)] Back     alignment and assigned GO terms
UNIPROTKB|P62705 RPS4X "40S ribosomal protein S4, X isoform" [Felis catus (taxid:9685)] 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

ID ?Name ?Annotated EC number ?Identity ?Query coverage ?Hit coverage ?RBH(Q2H) ?RBH(H2Q) ?
O81363RS4_PRUARNo assigned EC number0.90580.94710.9616N/Ano
Q76N24RS4X_CHLAENo assigned EC number0.69200.99241.0N/Ano
Q861U7RS4Y1_PONPYNo assigned EC number0.66530.99241.0N/Ano
Q9N3X2RS4_CAEELNo assigned EC number0.63520.96220.9845yesno
P47836RS4_CHICKNo assigned EC number0.68820.99241.0yesno
P47837RS4_CANAXNo assigned EC number0.66270.96980.9809N/Ano
O59950RS4_YARLINo assigned EC number0.68480.96980.9884yesno
Q8VYK6RS43_ARATHNo assigned EC number0.91660.98861.0yesno
Q95V34RS4_SPOFRNo assigned EC number0.66790.99241.0N/Ano
Q8SRB9RS4_ENCCUNo assigned EC number0.41660.93960.9291yesno
Q56FH2RS4_LYSTENo assigned EC number0.67700.96980.9809N/Ano
P49204RS42_ARATHNo assigned EC number0.91660.98861.0yesno
Q9P4W9RS4C_SCHPONo assigned EC number0.70150.97350.9847yesno
P0CX36RS4B_YEASTNo assigned EC number0.67700.96980.9846yesno
P49401RS4_XENLANo assigned EC number0.68820.99241.0N/Ano
Q76MY1RS4X_MACFUNo assigned EC number0.69200.99241.0N/Ano
Q861V0RS4Y1_PANPANo assigned EC number0.65770.99241.0N/Ano
Q4GXU6RS4_CARGRNo assigned EC number0.66920.98110.9961N/Ano
Q90YS0RS4_ICTPUNo assigned EC number0.68060.99241.0N/Ano
Q5UAP0RS4_BOMMONo assigned EC number0.68300.99241.0N/Ano
P0C233RS4_TETTHNo assigned EC number0.56800.95840.9806N/Ano
P79103RS4_BOVINNo assigned EC number0.69200.99241.0yesno
O22424RS4_MAIZENo assigned EC number0.91790.96600.9660N/Ano
P47961RS4_CRIGRNo assigned EC number0.69200.99241.0yesno
P79183RS4Y1_MACFUNo assigned EC number0.66530.99241.0N/Ano
P46300RS4_SOLTUNo assigned EC number0.89770.99621.0N/Ano
O62739RS4Y1_MONDONo assigned EC number0.68060.99241.0yesno
O62738RS4X_MONDONo assigned EC number0.69640.96980.9771yesno
P49398RS4_ORYSJNo assigned EC number0.91010.96600.9660yesno
Q93VH9RS41_ARATHNo assigned EC number0.93330.96220.9770yesno
P41042RS4_DROMENo assigned EC number0.66920.98110.9961yesno
Q861U8RS4Y1_GORGONo assigned EC number0.65770.99241.0N/Ano
Q6PBC4RS4_XENTRNo assigned EC number0.68820.99241.0yesno
P62703RS4X_RATNo assigned EC number0.69200.99241.0yesno
P62702RS4X_MOUSENo assigned EC number0.69200.99241.0yesno
P62705RS4X_FELCANo assigned EC number0.69200.99241.0N/Ano
P62704RS4X_MESAUNo assigned EC number0.69200.99241.0N/Ano
P51405RS4_DICDINo assigned EC number0.66530.94710.9400yesno
Q9USW5RS4B_SCHPONo assigned EC number0.70150.97350.9847yesno
P62701RS4X_HUMANNo assigned EC number0.69200.99241.0yesno
P0CX35RS4A_YEASTNo assigned EC number0.67700.96980.9846yesno
P46299RS4_GOSHINo assigned EC number0.91220.98861.0N/Ano
Q4PMB3RS4_IXOSCNo assigned EC number0.68620.96220.9732N/Ano
Q642H9RS4X_DANRENo assigned EC number0.68060.99241.0yesno
P87158RS4A_SCHPONo assigned EC number0.70150.97350.9847yesno

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_LG_VI0361
40S ribosomal protein S4 (RPS4A) (263 aa)
(Populus trichocarpa)
Predicted Functional Partners:
fgenesh4_pg.C_LG_VI001257
SubName- Full=Putative uncharacterized protein; (180 aa)
• ••  • 0.755
grail3.0071003601
SubName- Full=Putative uncharacterized protein; (181 aa)
• ••  • 0.755
estExt_fgenesh4_pg.C_LG_VI1248
SubName- Full=Putative uncharacterized protein; (181 aa)
• ••  • 0.755
estExt_Genewise1_v1.C_LG_XI3222
SubName- Full=Putative uncharacterized protein; (181 aa)
• ••  • 0.755
estExt_fgenesh4_pg.C_LG_VII0552
SubName- Full=Putative uncharacterized protein; (146 aa)
• ••    0.741
estExt_fgenesh4_pm.C_LG_III0216
SubName- Full=Putative uncharacterized protein; (146 aa)
• ••    0.728
estExt_fgenesh4_pg.C_LG_V0222
SubName- Full=Putative uncharacterized protein; (147 aa)
• ••    0.711
gw1.57.264.1
SubName- Full=Putative uncharacterized protein; (258 aa)
• ••• • 0.677
estExt_Genewise1_v1.C_LG_VII3915
SubName- Full=Putative uncharacterized protein; (260 aa)
• ••• • 0.675
estExt_fgenesh4_kg.C_LG_XVII0009
SubName- Full=Putative uncharacterized protein; (144 aa)
  •• •• 0.664

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 ?
Query265
PLN00036261 PLN00036, PLN00036, 40S ribosomal protein S4; Prov 0.0
PTZ00118262 PTZ00118, PTZ00118, 40S ribosomal protein S4; Prov 1e-128
COG1471241 COG1471, RPS4A, Ribosomal protein S4E [Translation 1e-115
PTZ00223273 PTZ00223, PTZ00223, 40S ribosomal protein S4; Prov 2e-90
PRK04313237 PRK04313, PRK04313, 30S ribosomal protein S4e; Val 2e-75
pfam0090077 pfam00900, Ribosomal_S4e, Ribosomal family S4e 5e-37
cd0608755 cd06087, KOW_RPS4, KOW motif of Ribosomal Protein 1e-29
pfam0807138 pfam08071, RS4NT, RS4NT (NUC023) domain 6e-17
cd0016570 cd00165, S4, S4/Hsp/ tRNA synthetase RNA-binding d 6e-04
pfam0046732 pfam00467, KOW, KOW motif 0.001
>gnl|CDD|177670 PLN00036, PLN00036, 40S ribosomal protein S4; Provisional Back     alignment and domain information 
 Score =  508 bits (1311), Expect = 0.0
 Identities = 233/257 (90%), Positives = 245/257 (95%)

Query: 1   MARGLKKHLKRLNAPKHWMLDKLGGAFAPKPSSGPHKSRECLPLILILRNRLKYALTYRE 60
           MARGLKKHLKRLNAPKHWMLDKLGGAFAPKPSSGPHK RECLPL+LILRNRLKYALTYRE
Sbjct: 1   MARGLKKHLKRLNAPKHWMLDKLGGAFAPKPSSGPHKKRECLPLLLILRNRLKYALTYRE 60

Query: 61  VIAILMQRHVLVDAKVRTDKTYPAGFMDVVSIPKTNENFRLLYDTKGRFRLHSIRDEEAK 120
           V AILMQRHV VD KVRTDKTYPAGFMDV+SIPKTNENFRLLYDTKGRFRLH I DEEAK
Sbjct: 61  VQAILMQRHVKVDGKVRTDKTYPAGFMDVISIPKTNENFRLLYDTKGRFRLHRINDEEAK 120

Query: 121 FKLCKVRSVQFGQKGIPYINTYDGRTIRYPDPLIKANDTIKLDLETNKITEFIKFDVGNV 180
           FKLCKVR +QFGQKGIPY+NT+DGRTIRYPDPLIKANDTIK+DLETNKI +FIKFDVGN+
Sbjct: 121 FKLCKVRKIQFGQKGIPYLNTHDGRTIRYPDPLIKANDTIKIDLETNKIVDFIKFDVGNL 180

Query: 181 VMVTGGRNRGRVGIIKNREKHKGSFETIHIQDALGHEFATRLGNVFTIGKGTKPWVSLPK 240
           VMVTGGRNRGRVG+IKNREKHKGSFE IH++DA GHEFATRLGNVF IGKGTKPW+SLPK
Sbjct: 181 VMVTGGRNRGRVGVIKNREKHKGSFEIIHVKDATGHEFATRLGNVFVIGKGTKPWISLPK 240

Query: 241 GKGIKLSIIEEARKRQA 257
           GKGIKLSIIEEARKR A
Sbjct: 241 GKGIKLSIIEEARKRLA 257

Length = 261
>gnl|CDD|240277 PTZ00118, PTZ00118, 40S ribosomal protein S4; Provisional Back     alignment and domain information
>gnl|CDD|224388 COG1471, RPS4A, Ribosomal protein S4E [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>gnl|CDD|140250 PTZ00223, PTZ00223, 40S ribosomal protein S4; Provisional Back     alignment and domain information
>gnl|CDD|179820 PRK04313, PRK04313, 30S ribosomal protein S4e; Validated Back     alignment and domain information
>gnl|CDD|189761 pfam00900, Ribosomal_S4e, Ribosomal family S4e Back     alignment and domain information
>gnl|CDD|240511 cd06087, KOW_RPS4, KOW motif of Ribosomal Protein S4 (RPS4) Back     alignment and domain information
>gnl|CDD|191938 pfam08071, RS4NT, RS4NT (NUC023) domain Back     alignment and domain information
>gnl|CDD|238095 cd00165, S4, S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized functional similarity between these three protein classes Back     alignment and domain information
>gnl|CDD|144165 pfam00467, KOW, KOW motif Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 265
PLN00036261 40S ribosomal protein S4; Provisional 100.0
PTZ00118262 40S ribosomal protein S4; Provisional 100.0
PTZ00223273 40S ribosomal protein S4; Provisional 100.0
PRK04313237 30S ribosomal protein S4e; Validated 100.0
COG1471241 RPS4A Ribosomal protein S4E [Translation, ribosoma 100.0
KOG0378263 consensus 40S ribosomal protein S4 [Translation, r 100.0
PF0090077 Ribosomal_S4e: Ribosomal family S4e; InterPro: IPR 99.98
PF0807138 RS4NT: RS4NT (NUC023) domain; InterPro: IPR013843 99.82
PF0147948 S4: S4 domain; InterPro: IPR002942 Ribosomes are t 98.84
COG0522205 RpsD Ribosomal protein S4 and related proteins [Tr 98.81
TIGR01018162 rpsD_arch ribosomal protein S4(archaeal type)/S9(e 98.09
PLN00189194 40S ribosomal protein S9; Provisional 98.03
cd0016570 S4 S4/Hsp/ tRNA synthetase RNA-binding domain; The 97.95
CHL00113201 rps4 ribosomal protein S4; Reviewed 97.84
PTZ00155181 40S ribosomal protein S9; Provisional 97.83
TIGR0298859 YaaA_near_RecF S4 domain protein YaaA. This small 97.8
PRK04051177 rps4p 30S ribosomal protein S4P; Validated 97.73
TIGR01017200 rpsD_bact ribosomal protein S4, bacterial/organell 97.7
smart0036360 S4 S4 RNA-binding domain. 97.67
PRK05327203 rpsD 30S ribosomal protein S4; Validated 97.65
PF1327565 S4_2: S4 domain; PDB: 1P9K_A. 96.84
TIGR03069257 PS_II_S4 photosystem II S4 domain protein. Members 96.72
PF0046732 KOW: KOW motif; InterPro: IPR005824 Ribosomes are 96.66
PRK1150770 ribosome-associated protein; Provisional 96.66
smart0073928 KOW KOW (Kyprides, Ouzounis, Woese) motif. Motif i 96.62
PRK10348133 ribosome-associated heat shock protein Hsp15; Prov 96.28
TIGR00478228 tly hemolysin TlyA family protein. Hemolysins are 96.24
TIGR00005299 rluA_subfam pseudouridine synthase, RluA family. m 95.96
PLN00051267 RNA-binding S4 domain-containing protein; Provisio 95.5
COG250173 S4-like RNA binding protein [Replication, recombin 95.3
COG0564289 RluA Pseudouridylate synthases, 23S RNA-specific [ 95.13
PRK11180325 rluD 23S rRNA pseudouridine synthase D; Provisiona 95.0
COG2302257 Uncharacterized conserved protein, contains S4-lik 94.81
TIGR01080114 rplX_A_E ribosomal protein L24p/L26e, archaeal/euk 94.54
COG1188100 Ribosome-associated heat shock protein implicated 94.34
COG1189245 Predicted rRNA methylase [Translation, ribosomal s 94.15
KOG3301183 consensus Ribosomal protein S4 [Translation, ribos 93.73
PRK10839232 16S rRNA pseudouridylate synthase A; Provisional 93.66
PRK10475290 23S rRNA pseudouridine synthase F; Provisional 93.42
PRK11025317 23S rRNA pseudouridylate synthase C; Provisional 93.11
PRK13354410 tyrosyl-tRNA synthetase; Provisional 92.3
PRK05912408 tyrosyl-tRNA synthetase; Validated 92.26
COG1187248 RsuA 16S rRNA uridine-516 pseudouridylate synthase 91.98
PRK10700289 23S rRNA pseudouridylate synthase B; Provisional 91.0
PRK01191120 rpl24p 50S ribosomal protein L24P; Validated 90.84
KOG4655181 consensus U3 small nucleolar ribonucleoprotein (sn 88.23
PTZ00194143 60S ribosomal protein L26; Provisional 87.82
PRK1228176 rplX 50S ribosomal protein L24; Reviewed 86.68
CHL0014183 rpl24 ribosomal protein L24; Validated 85.82
PRK00004105 rplX 50S ribosomal protein L24; Reviewed 84.35
>PLN00036 40S ribosomal protein S4; Provisional Back     alignment and domain information 
Probab=100.00  E-value=2.6e-115  Score=793.72  Aligned_cols=260  Identities=90%  Similarity=1.398  Sum_probs=257.3

Q ss_pred             CCCCcccccccccCCCceecccccceeccCCCCCCCCCcccchHHHHHHhhhccccCHHHHHHHHhCceEEECCEEeccc
Q 024598            1 MARGLKKHLKRLNAPKHWMLDKLGGAFAPKPSSGPHKSRECLPLILILRNRLKYALTYREVIAILMQRHVLVDAKVRTDK   80 (265)
Q Consensus         1 MarG~~kHlKRl~AP~~W~i~kk~~~~a~kpspGPH~~~~slPL~i~LRdrLg~A~t~rEar~Il~~g~V~VDGkvr~d~   80 (265)
                      |||||++|||||+||+||||+||+++|||+||||||+++|||||+|||||+||||+|.|||++||+||+|+|||++|+|+
T Consensus         1 m~~g~kkHlKRl~AP~~W~l~kk~g~~a~rpspGPH~~~eslPL~i~LRd~LkyA~t~rEak~Il~~~~V~VDGkvr~D~   80 (261)
T PLN00036          1 MARGLKKHLKRLNAPKHWMLDKLGGAFAPKPSSGPHKKRECLPLLLILRNRLKYALTYREVQAILMQRHVKVDGKVRTDK   80 (261)
T ss_pred             CCCCcccccccccCccccccccccCeeccCCCCCCCccccccccHHHHHhHhhhhccHHHHHHHHhCCeEEECCEEeccC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCCCcceeEEecccCcceeeeeecCCceEEEEeChhhhcceeEEEEEEEEeeCCceEEEccCCeeeecCCCCcccCCeE
Q 024598           81 TYPAGFMDVVSIPKTNENFRLLYDTKGRFRLHSIRDEEAKFKLCKVRSVQFGQKGIPYINTYDGRTIRYPDPLIKANDTI  160 (265)
Q Consensus        81 ~ypVG~mDVIsI~kt~e~yR~l~d~kgrf~~~~I~~eea~~KLcKV~~k~~~~~g~~ql~~hDGrni~~~d~~ik~~Dtv  160 (265)
                      +|||||||||||++++|+||++||++|||++|+|++|||+||||||++|++++||+|||+|||||||+|+||+|++||||
T Consensus        81 ~fPvG~mDVIsI~kt~e~yRvl~D~kGrf~l~~I~~eeA~~KLcKV~~k~~~~gG~~ql~~hDGrni~~~d~~~k~~Dtv  160 (261)
T PLN00036         81 TYPAGFMDVISIPKTNENFRLLYDTKGRFRLHRINDEEAKFKLCKVRKIQFGQKGIPYLNTHDGRTIRYPDPLIKANDTI  160 (261)
T ss_pred             CCCCceeEEEEEcCCCCeEEEEECCCceEEEEEcChHHccceEEEEEEEEEecCCeEEEEecCCceeccCCCccccCCEE
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEecCCCceeeEEEeeCCcEEEEECCCcceeEEEEEeEEEecCCccEEEEEcCCCCeEeEeeceEEEEccCCCceeeCCC
Q 024598          161 KLDLETNKITEFIKFDVGNVVMVTGGRNRGRVGIIKNREKHKGSFETIHIQDALGHEFATRLGNVFTIGKGTKPWVSLPK  240 (265)
Q Consensus       161 ~i~l~~~kI~~~i~f~~G~~~~v~gG~n~G~vG~I~~i~~~~~s~~~v~i~d~~g~~F~T~~~~vfvIG~~~~p~islp~  240 (265)
                      +||||+++|++||||++||+||||||+|+|++|+|.+|+++++|+++||++|++|++|+|+++||||||++++|||+||+
T Consensus       161 ~i~l~~~kI~~~ikfe~G~l~~vtgG~n~GrvG~I~~i~~~~~~~~iV~i~d~~g~~F~T~~~~vfvIG~~~kp~isLp~  240 (261)
T PLN00036        161 KIDLETNKIVDFIKFDVGNLVMVTGGRNRGRVGVIKNREKHKGSFEIIHVKDATGHEFATRLGNVFVIGKGTKPWISLPK  240 (261)
T ss_pred             EEeCCCCceeeEEecCCCCEEEEECCeeceeEEEEEEEEecCCCCCEEEEEeCCCCeEEEEeeeEEEEccCCCeeEeCcC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999988999999999


Q ss_pred             CcceeeehHHHHHHHHHHHH
Q 024598          241 GKGIKLSIIEEARKRQALAT  260 (265)
Q Consensus       241 ~~gi~~~~~~~~~~~~~~~~  260 (265)
                      ++|||+|++|||++++++.+
T Consensus       241 ~~gi~~~~~e~r~~~~~~~~  260 (261)
T PLN00036        241 GKGIKLSIIEEARKRLAAGQ  260 (261)
T ss_pred             CCCcccchHHHHHHhhhhhc
Confidence            99999999999999998764

>PTZ00118 40S ribosomal protein S4; Provisional Back     alignment and domain information
>PTZ00223 40S ribosomal protein S4; Provisional Back     alignment and domain information
>PRK04313 30S ribosomal protein S4e; Validated Back     alignment and domain information
>COG1471 RPS4A Ribosomal protein S4E [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>KOG0378 consensus 40S ribosomal protein S4 [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>PF00900 Ribosomal_S4e: Ribosomal family S4e; InterPro: IPR013845 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms Back     alignment and domain information
>PF08071 RS4NT: RS4NT (NUC023) domain; InterPro: IPR013843 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms Back     alignment and domain information
>PF01479 S4: S4 domain; InterPro: IPR002942 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms Back     alignment and domain information
>COG0522 RpsD Ribosomal protein S4 and related proteins [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>TIGR01018 rpsD_arch ribosomal protein S4(archaeal type)/S9(eukaryote cytosolic type) Back     alignment and domain information
>PLN00189 40S ribosomal protein S9; Provisional Back     alignment and domain information
>cd00165 S4 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized functional similarity between these three protein classes Back     alignment and domain information
>CHL00113 rps4 ribosomal protein S4; Reviewed Back     alignment and domain information
>PTZ00155 40S ribosomal protein S9; Provisional Back     alignment and domain information
>TIGR02988 YaaA_near_RecF S4 domain protein YaaA Back     alignment and domain information
>PRK04051 rps4p 30S ribosomal protein S4P; Validated Back     alignment and domain information
>TIGR01017 rpsD_bact ribosomal protein S4, bacterial/organelle type Back     alignment and domain information
>smart00363 S4 S4 RNA-binding domain Back     alignment and domain information
>PRK05327 rpsD 30S ribosomal protein S4; Validated Back     alignment and domain information
>PF13275 S4_2: S4 domain; PDB: 1P9K_A Back     alignment and domain information
>TIGR03069 PS_II_S4 photosystem II S4 domain protein Back     alignment and domain information
>PF00467 KOW: KOW motif; InterPro: IPR005824 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms Back     alignment and domain information
>PRK11507 ribosome-associated protein; Provisional Back     alignment and domain information
>smart00739 KOW KOW (Kyprides, Ouzounis, Woese) motif Back     alignment and domain information
>PRK10348 ribosome-associated heat shock protein Hsp15; Provisional Back     alignment and domain information
>TIGR00478 tly hemolysin TlyA family protein Back     alignment and domain information
>TIGR00005 rluA_subfam pseudouridine synthase, RluA family Back     alignment and domain information
>PLN00051 RNA-binding S4 domain-containing protein; Provisional Back     alignment and domain information
>COG2501 S4-like RNA binding protein [Replication, recombination, and repair] Back     alignment and domain information
>COG0564 RluA Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>PRK11180 rluD 23S rRNA pseudouridine synthase D; Provisional Back     alignment and domain information
>COG2302 Uncharacterized conserved protein, contains S4-like domain [Function unknown] Back     alignment and domain information
>TIGR01080 rplX_A_E ribosomal protein L24p/L26e, archaeal/eukaryotic Back     alignment and domain information
>COG1188 Ribosome-associated heat shock protein implicated in the recycling of the 50S subunit (S4 paralog) [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>COG1189 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>KOG3301 consensus Ribosomal protein S4 [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>PRK10839 16S rRNA pseudouridylate synthase A; Provisional Back     alignment and domain information
>PRK10475 23S rRNA pseudouridine synthase F; Provisional Back     alignment and domain information
>PRK11025 23S rRNA pseudouridylate synthase C; Provisional Back     alignment and domain information
>PRK13354 tyrosyl-tRNA synthetase; Provisional Back     alignment and domain information
>PRK05912 tyrosyl-tRNA synthetase; Validated Back     alignment and domain information
>COG1187 RsuA 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>PRK10700 23S rRNA pseudouridylate synthase B; Provisional Back     alignment and domain information
>PRK01191 rpl24p 50S ribosomal protein L24P; Validated Back     alignment and domain information
>KOG4655 consensus U3 small nucleolar ribonucleoprotein (snoRNP) component [RNA processing and modification] Back     alignment and domain information
>PTZ00194 60S ribosomal protein L26; Provisional Back     alignment and domain information
>PRK12281 rplX 50S ribosomal protein L24; Reviewed Back     alignment and domain information
>CHL00141 rpl24 ribosomal protein L24; Validated Back     alignment and domain information
>PRK00004 rplX 50S ribosomal protein L24; Reviewed 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 ?
Query265
3iz6_D265 Localization Of The Small Subunit Ribosomal Protein 1e-140
3izb_D261 Localization Of The Small Subunit Ribosomal Protein 1e-102
2xzm_W260 Crystal Structure Of The Eukaryotic 40s Ribosomal S 2e-81
3zey_1273 High-resolution Cryo-electron Microscopy Structure 3e-71
3j20_E243 Promiscuous Behavior Of Proteins In Archaeal Riboso 2e-32
3kbg_A213 Crystal Structure Of The 30s Ribosomal Protein S4e 5e-19
>pdb|3IZ6|D Chain D, Localization Of The Small Subunit Ribosomal Proteins Into A 5.5 A Cryo-Em Map Of Triticum Aestivum Translating 80s Ribosome Length = 265 Back     alignment and structure 
Iteration: 1

 Score =  495 bits (1274), Expect = e-140,   Method: Compositional matrix adjust.
 Identities = 233/256 (91%), Positives = 248/256 (96%)
Query: 1   MARGLKKHLKRLNAPKHWMLDKLGGAFAPKPSSGPHKSRECLPLILILRNRLKYALTYRE 60
           MARGLKKHLKRLNAPKHWMLDKLGGAFAPKPSSGPHKSRECLPLILI+RNRLKYALTYRE
Sbjct: 1   MARGLKKHLKRLNAPKHWMLDKLGGAFAPKPSSGPHKSRECLPLILIIRNRLKYALTYRE 60
Query: 61  VIAILMQRHVLVDAKVRTDKTYPAGFMDVVSIPKTNENFRLLYDTKGRFRLHSIRDEEAK 120
           VI+ILMQRHVLVD KVRTDKTYPAGFMDV+SIPKT EN+RLLYDTKGRFRL S++DE+AK
Sbjct: 61  VISILMQRHVLVDGKVRTDKTYPAGFMDVISIPKTGENYRLLYDTKGRFRLQSVKDEDAK 120
Query: 121 FKLCKVRSVQFGQKGIPYINTYDGRTIRYPDPLIKANDTIKLDLETNKITEFIKFDVGNV 180
           FKLCKVRSVQFGQKGIPY+NTYDGRTIRYPDP+IKANDTIK+DLETNKI +FIKFDVGNV
Sbjct: 121 FKLCKVRSVQFGQKGIPYLNTYDGRTIRYPDPIIKANDTIKIDLETNKIVDFIKFDVGNV 180
Query: 181 VMVTGGRNRGRVGIIKNREKHKGSFETIHIQDALGHEFATRLGNVFTIGKGTKPWVSLPK 240
           VMVTGGRN GRVG+IKNREKHKGSFETIH++DALGH+FATRLGNVFTIGKG KPWVSLPK
Sbjct: 181 VMVTGGRNTGRVGVIKNREKHKGSFETIHVEDALGHQFATRLGNVFTIGKGNKPWVSLPK 240
Query: 241 GKGIKLSIIEEARKRQ 256
           GKGIKLSIIEE RKR 
Sbjct: 241 GKGIKLSIIEEQRKRD 256
>pdb|3IZB|D Chain D, Localization Of The Small Subunit Ribosomal Proteins Into A 6.1 A Cryo-Em Map Of Saccharomyces Cerevisiae Translating 80s Ribosome Length = 261 Back     alignment and structure
>pdb|2XZM|W Chain W, Crystal Structure Of The Eukaryotic 40s Ribosomal Subunit In Complex With Initiation Factor 1. This File Contains The 40s Subunit And Initiation Factor For Molecule 1 Length = 260 Back     alignment and structure
>pdb|3ZEY|1 Chain 1, High-resolution Cryo-electron Microscopy Structure Of The Trypanosoma Brucei Ribosome Length = 273 Back     alignment and structure
>pdb|3J20|E Chain E, Promiscuous Behavior Of Proteins In Archaeal Ribosomes Revealed By Cryo-em: Implications For Evolution Of Eukaryotic Ribosomes (30s Ribosomal Subunit) Length = 243 Back     alignment and structure
>pdb|3KBG|A Chain A, Crystal Structure Of The 30s Ribosomal Protein S4e From Thermoplasma Acidophilum. Northeast Structural Genomics Consortium Target Tar28 Length = 213 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 ?
Query265
3iz6_D265 40S ribosomal protein S4 (S4E); eukaryotic ribosom 1e-131
3u5c_E261 RP5, S7, YS6, 40S ribosomal protein S4-A; translat 1e-130
2xzm_W260 40S ribosomal protein S4; ribosome, translation; 3 1e-126
3kbg_A213 30S ribosomal protein S4E; RPS4E, RS4E_theac, TAR2 7e-88
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 5e-04
>3iz6_D 40S ribosomal protein S4 (S4E); eukaryotic ribosome,homology modeling,de novo modeling,ribos proteins,novel ribosomal proteins, ribosome; 5.50A {Triticum aestivum} Length = 265 Back     alignment and structure
 Score =  370 bits (950), Expect = e-131
 Identities = 237/263 (90%), Positives = 253/263 (96%)

Query: 1   MARGLKKHLKRLNAPKHWMLDKLGGAFAPKPSSGPHKSRECLPLILILRNRLKYALTYRE 60
           MARGLKKHLKRLNAPKHWMLDKLGGAFAPKPSSGPHKSRECLPLILI+RNRLKYALTYRE
Sbjct: 1   MARGLKKHLKRLNAPKHWMLDKLGGAFAPKPSSGPHKSRECLPLILIIRNRLKYALTYRE 60

Query: 61  VIAILMQRHVLVDAKVRTDKTYPAGFMDVVSIPKTNENFRLLYDTKGRFRLHSIRDEEAK 120
           VI+ILMQRHVLVD KVRTDKTYPAGFMDV+SIPKT EN+RLLYDTKGRFRL S++DE+AK
Sbjct: 61  VISILMQRHVLVDGKVRTDKTYPAGFMDVISIPKTGENYRLLYDTKGRFRLQSVKDEDAK 120

Query: 121 FKLCKVRSVQFGQKGIPYINTYDGRTIRYPDPLIKANDTIKLDLETNKITEFIKFDVGNV 180
           FKLCKVRSVQFGQKGIPY+NTYDGRTIRYPDP+IKANDTIK+DLETNKI +FIKFDVGNV
Sbjct: 121 FKLCKVRSVQFGQKGIPYLNTYDGRTIRYPDPIIKANDTIKIDLETNKIVDFIKFDVGNV 180

Query: 181 VMVTGGRNRGRVGIIKNREKHKGSFETIHIQDALGHEFATRLGNVFTIGKGTKPWVSLPK 240
           VMVTGGRN GRVG+IKNREKHKGSFETIH++DALGH+FATRLGNVFTIGKG KPWVSLPK
Sbjct: 181 VMVTGGRNTGRVGVIKNREKHKGSFETIHVEDALGHQFATRLGNVFTIGKGNKPWVSLPK 240

Query: 241 GKGIKLSIIEEARKRQALATSAA 263
           GKGIKLSIIEE RKR A A +AA
Sbjct: 241 GKGIKLSIIEEQRKRDAAAQAAA 263
>3u5c_E RP5, S7, YS6, 40S ribosomal protein S4-A; translation, ribosome, ribosomal, ribosomal R ribosomal protein, eukaryotic ribosome, RNA-protein C; 3.00A {Saccharomyces cerevisiae} PDB: 3izb_D 3u5g_E Length = 261 Back     alignment and structure
>2xzm_W 40S ribosomal protein S4; ribosome, translation; 3.93A {Tetrahymena thermophila} PDB: 2xzn_W Length = 260 Back     alignment and structure
>3kbg_A 30S ribosomal protein S4E; RPS4E, RS4E_theac, TAR28, NESG, structural genomics, PSI-2, protein structure initiative; HET: MSE; 1.75A {Thermoplasma acidophilum} Length = 213 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

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query265
3iz6_D265 40S ribosomal protein S4 (S4E); eukaryotic ribosom 100.0
3u5c_E261 RP5, S7, YS6, 40S ribosomal protein S4-A; translat 100.0
2xzm_W260 40S ribosomal protein S4; ribosome, translation; 3 100.0
3j20_E243 30S ribosomal protein S4E; archaea, archaeal, KINK 100.0
3kbg_A213 30S ribosomal protein S4E; RPS4E, RS4E_theac, TAR2 100.0
2cqj_A71 BRMS2, U3 small nucleolar ribonucleoprotein protei 98.21
3bbn_D201 Ribosomal protein S4; small ribosomal subunit, spi 98.01
3j20_D180 30S ribosomal protein S4P; archaea, archaeal, KINK 97.9
3u5c_J197 40S ribosomal protein S9-A; translation, ribosome, 97.87
1c05_A159 Ribosomal protein S4 delta 41; two subdomains, uni 97.81
3r8n_D205 30S ribosomal protein S4; protein biosynthesis, RN 97.76
2vqe_D209 30S ribosomal protein S4; tRNA-binding, rRNA-bindi 97.76
1p9k_A79 ORF, hypothetical protein; alfal motif, RNA-bindin 97.69
2xzm_D181 Ribosomal protein S4 containing protein; ribosome, 97.69
3iz6_C195 40S ribosomal protein S9 (S4P); eukaryotic ribosom 97.5
1dm9_A133 Hypothetical 15.5 KD protein in MRCA-PCKA intergen 97.1
2k6p_A92 Uncharacterized protein HP_1423; alpha-L motif, RN 96.63
1ksk_A234 Ribosomal small subunit pseudouridine synthase A; 96.62
1vio_A243 Ribosomal small subunit pseudouridine synthase A; 96.45
3dh3_A290 Ribosomal large subunit pseudouridine synthase F; 96.03
3hp7_A291 Hemolysin, putative; structural genomics, APC64019 95.89
1v9f_A325 Ribosomal large subunit pseudouridine synthase D; 95.25
2do3_A69 Transcription elongation factor SPT5; KOW motif, s 94.6
2jan_A432 Tyrosyl-tRNA synthetase; protein biosynthesis, ami 94.13
2ckk_A127 KIN17; beta barrel, ribosomal protein, ribonucleop 93.96
2ktl_A164 Tyrosyl-tRNA synthetase; S4 fold, aminoacyl-tRNA s 93.25
1h3f_A432 Tyrosyl-tRNA synthetase; ligase, aminoacyl-tRNA sy 93.11
1jil_A420 Tyrrs, tyrosyl-tRNA synthetase; truncation, based 91.33
2ts1_A419 Tyrosyl-tRNA synthetase; ligase (synthetase); 2.30 88.22
1vq8_T120 50S ribosomal protein L24P; ribosome 50S, protein- 82.96
3u5e_Y127 L33, YL33, 60S ribosomal protein L26-A; translatio 81.53
>3iz6_D 40S ribosomal protein S4 (S4E); eukaryotic ribosome,homology modeling,de novo modeling,ribos proteins,novel ribosomal proteins, ribosome; 5.50A {Triticum aestivum} Back     alignment and structure
Probab=100.00  E-value=1.4e-119  Score=821.86  Aligned_cols=263  Identities=90%  Similarity=1.418  Sum_probs=199.3

Q ss_pred             CCCCcccccccccCCCceecccccceeccCCCCCCCCCcccchHHHHHHhhhccccCHHHHHHHHhCceEEECCEEeccc
Q 024598            1 MARGLKKHLKRLNAPKHWMLDKLGGAFAPKPSSGPHKSRECLPLILILRNRLKYALTYREVIAILMQRHVLVDAKVRTDK   80 (265)
Q Consensus         1 MarG~~kHlKRl~AP~~W~i~kk~~~~a~kpspGPH~~~~slPL~i~LRdrLg~A~t~rEar~Il~~g~V~VDGkvr~d~   80 (265)
                      |||||++|||||+||+||||+||+++|||+||||||+++|||||+|||||+||||+|.+||++||+||+|+||||+|+|+
T Consensus         1 Marg~kkHlKRl~AP~~W~l~kk~~~fa~rpspGPHkl~eslPL~i~LRd~LkyA~t~~EakkIl~q~~VkVDGkvrtD~   80 (265)
T 3iz6_D            1 MARGLKKHLKRLNAPKHWMLDKLGGAFAPKPSSGPHKSRECLPLILIIRNRLKYALTYREVISILMQRHVLVDGKVRTDK   80 (265)
T ss_dssp             ------------------------------------------CHHHHHHHHHTTSSCSSSTHHHHHTTCCEETTEECCCT
T ss_pred             CCCCcccccccccCCcccccccccceeccCCCCCCCcchhheeeHHHhhhhhcccccHHHHHHHHHCCcEEECCEEeccC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCCCcceeEEecccCcceeeeeecCCceEEEEeChhhhcceeEEEEEEEEeeCCceEEEccCCeeeecCCCCcccCCeE
Q 024598           81 TYPAGFMDVVSIPKTNENFRLLYDTKGRFRLHSIRDEEAKFKLCKVRSVQFGQKGIPYINTYDGRTIRYPDPLIKANDTI  160 (265)
Q Consensus        81 ~ypVG~mDVIsI~kt~e~yR~l~d~kgrf~~~~I~~eea~~KLcKV~~k~~~~~g~~ql~~hDGrni~~~d~~ik~~Dtv  160 (265)
                      +|||||||||||++++|+||++||++|||.+|+|++|||+||||||++|+++++|+|||+|||||||+|+||+||+||||
T Consensus        81 ~~PvG~MDVIsI~kt~e~fRll~D~kGrf~l~~I~~eEA~~KLcKV~~k~~~~~G~pql~tHDGrti~~~dp~ik~~DTv  160 (265)
T 3iz6_D           81 TYPAGFMDVISIPKTGENYRLLYDTKGRFRLQSVKDEDAKFKLCKVRSVQFGQKGIPYLNTYDGRTIRYPDPIIKANDTI  160 (265)
T ss_dssp             TCCCCTTCEEECCSSCCEEEEEECTTSCEEEEEECHHHHTCEEEEEEEEECCSSSCCEEEETTSCCCBSCSSCCCTTCEE
T ss_pred             CCCCcEEEEEEEcCCCCEEEEEECCCCcEEEEECChHHcceEEEEEEEEEEccCCceEEEeecceEEecCCCCcccCCEE
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEecCCCceeeEEEeeCCcEEEEECCCcceeEEEEEeEEEecCCccEEEEEcCCCCeEeEeeceEEEEccCCCceeeCCC
Q 024598          161 KLDLETNKITEFIKFDVGNVVMVTGGRNRGRVGIIKNREKHKGSFETIHIQDALGHEFATRLGNVFTIGKGTKPWVSLPK  240 (265)
Q Consensus       161 ~i~l~~~kI~~~i~f~~G~~~~v~gG~n~G~vG~I~~i~~~~~s~~~v~i~d~~g~~F~T~~~~vfvIG~~~~p~islp~  240 (265)
                      +||||++||+|||||++||+||||||+|+|++|+|++|++|+|||++|||+|++|++|+|+++||||||++++||||||+
T Consensus       161 ~idl~~~kI~d~ikfe~Gnl~mvtgG~n~GriG~I~~ie~~~gs~~iV~vkd~~g~~F~T~~~nvfvIGk~~kp~IsLp~  240 (265)
T 3iz6_D          161 KIDLETNKIVDFIKFDVGNVVMVTGGRNTGRVGVIKNREKHKGSFETIHVEDALGHQFATRLGNVFTIGKGNKPWVSLPK  240 (265)
T ss_dssp             EECSSSCCEEEEECCSTTCEEEECSSSSCSCEEEEEEEECCSSSCCEEEECCCSSCCEEEEGGGEEEEECSSCCCCCCCC
T ss_pred             EEECCCCceeeEEEccCCCEEEEEcCCcceEEEEEEEEEEecCCCcEEEEEECCCCeEEEEeCeEEEEccCCCeeEeCCC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999998899999999


Q ss_pred             CcceeeehHHHHHHHHHHHHhcc
Q 024598          241 GKGIKLSIIEEARKRQALATSAA  263 (265)
Q Consensus       241 ~~gi~~~~~~~~~~~~~~~~~~~  263 (265)
                      +|||+|+++|||++|+++++++.
T Consensus       241 ~kg~~~~~~eer~~~~~~~~~~~  263 (265)
T 3iz6_D          241 GKGIKLSIIEEQRKRDAAAQAAA  263 (265)
T ss_dssp             CC---------------------
T ss_pred             CCceeeehHHhHHHHHHHhhhhc
Confidence            99999999999999999988764
>3u5c_E RP5, S7, YS6, 40S ribosomal protein S4-A; translation, ribosome, ribosomal, ribosomal R ribosomal protein, eukaryotic ribosome, RNA-protein C; 3.00A {Saccharomyces cerevisiae} PDB: 3izb_D 3u5g_E Back     alignment and structure
>2xzm_W 40S ribosomal protein S4; ribosome, translation; 3.93A {Tetrahymena thermophila} PDB: 2xzn_W Back     alignment and structure
>3j20_E 30S ribosomal protein S4E; archaea, archaeal, KINK-turn, protein synthe ribosome; 6.60A {Pyrococcus furiosus} Back     alignment and structure
>3kbg_A 30S ribosomal protein S4E; RPS4E, RS4E_theac, TAR28, NESG, structural genomics, PSI-2, protein structure initiative; HET: MSE; 1.75A {Thermoplasma acidophilum} Back     alignment and structure
>2cqj_A BRMS2, U3 small nucleolar ribonucleoprotein protein IMP3 homolog; S4 domain, structural genomics, NPPSFA; NMR {Homo sapiens} Back     alignment and structure
>3bbn_D Ribosomal protein S4; small ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Spinacea oleracea} Back     alignment and structure
>3j20_D 30S ribosomal protein S4P; archaea, archaeal, KINK-turn, protein synthe ribosome; 6.60A {Pyrococcus furiosus} Back     alignment and structure
>3u5c_J 40S ribosomal protein S9-A; translation, ribosome, ribosomal, ribosomal R ribosomal protein, eukaryotic ribosome, RNA-protein C; 3.00A {Saccharomyces cerevisiae} PDB: 3izb_C 3o30_E 3o2z_E 3u5g_J 1s1h_D 3jyv_D* Back     alignment and structure
>1c05_A Ribosomal protein S4 delta 41; two subdomains, unique topology, possible helix-turn-helix motif, ribosome; NMR {Geobacillus stearothermophilus} SCOP: d.66.1.2 PDB: 1c06_A 1eg0_A 1qd7_C Back     alignment and structure
>2vqe_D 30S ribosomal protein S4; tRNA-binding, rRNA-binding, metal-binding, zinc-finger, translation; HET: TM2 PAR; 2.5A {Thermus thermophilus} SCOP: d.66.1.2 PDB: 1hnw_D* 1hnx_D* 1hnz_D* 1ibk_D* 1fka_D* 1ibm_D 1xmo_D* 1ibl_D* 1xnq_D* 1xnr_D* 1yl4_G 2b64_D* 2b9m_D* 2b9o_D* 2hgi_G 2hgp_G 2hgr_G 2hhh_D* 1xmq_D* 2j02_D* ... Back     alignment and structure
>1p9k_A ORF, hypothetical protein; alfal motif, RNA-binding protein, E.coli, montreal-kingston structural genomics initiative, BSGI; NMR {Escherichia coli} SCOP: d.66.1.6 Back     alignment and structure
>2xzm_D Ribosomal protein S4 containing protein; ribosome, translation; 3.93A {Tetrahymena thermophila} PDB: 2xzn_D Back     alignment and structure
>3iz6_C 40S ribosomal protein S9 (S4P); eukaryotic ribosome,homology modeling,de novo modeling,ribos proteins,novel ribosomal proteins, ribosome; 5.50A {Triticum aestivum} Back     alignment and structure
>1dm9_A Hypothetical 15.5 KD protein in MRCA-PCKA intergenic region; heat shock proteins, protein-RNA interactions, ribosome, structural genomics; 2.00A {Escherichia coli} SCOP: d.66.1.3 PDB: 3bbu_A Back     alignment and structure
>2k6p_A Uncharacterized protein HP_1423; alpha-L motif, RNA-binding, unknown function; NMR {Helicobacter pylori} Back     alignment and structure
>1ksk_A Ribosomal small subunit pseudouridine synthase A; RSUA, lyase; 2.00A {Escherichia coli} SCOP: d.265.1.3 d.66.1.5 PDB: 1ksl_A 1ksv_A* Back     alignment and structure
>1vio_A Ribosomal small subunit pseudouridine synthase A; structural genomics, lyase; 1.59A {Haemophilus influenzae} SCOP: d.265.1.3 d.66.1.5 Back     alignment and structure
>3dh3_A Ribosomal large subunit pseudouridine synthase F; protein-RNA complex, S4 domain, alpha/beta protein, isomerase, RNA-binding, rRNA processing; HET: FHU; 3.00A {Escherichia coli} Back     alignment and structure
>3hp7_A Hemolysin, putative; structural genomics, APC64019, PSI-2, protein STR initiative, midwest center for structural genomics, MCSG; HET: MSE; 1.53A {Streptococcus thermophilus} Back     alignment and structure
>1v9f_A Ribosomal large subunit pseudouridine synthase D; RNA binding, lyase; 1.70A {Escherichia coli} SCOP: d.265.1.3 PDB: 2ist_A 1qyu_A 1prz_A Back     alignment and structure
>2do3_A Transcription elongation factor SPT5; KOW motif, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: b.34.5.5 Back     alignment and structure
>2jan_A Tyrosyl-tRNA synthetase; protein biosynthesis, aminoacyl-tRNA synthetase, tyrrs, ligase, tyrosine, RNA-binding, ATP-binding; 2.9A {Mycobacterium tuberculosis} Back     alignment and structure
>2ckk_A KIN17; beta barrel, ribosomal protein, ribonucleoprotein, nuclear protein; 1.45A {Homo sapiens} Back     alignment and structure
>2ktl_A Tyrosyl-tRNA synthetase; S4 fold, aminoacyl-tRNA synthetase, ligase; NMR {Aspergillus nidulans fgsc A4} Back     alignment and structure
>1h3f_A Tyrosyl-tRNA synthetase; ligase, aminoacyl-tRNA synthetase; HET: TYE; 2.00A {Thermus thermophilus} SCOP: c.26.1.1 d.66.1.4 PDB: 1h3e_A* Back     alignment and structure
>1jil_A Tyrrs, tyrosyl-tRNA synthetase; truncation, based inhibitor design, ligase; HET: 485; 2.20A {Staphylococcus aureus} SCOP: c.26.1.1 PDB: 1jij_A* 1jii_A* 1jik_A* Back     alignment and structure
>2ts1_A Tyrosyl-tRNA synthetase; ligase (synthetase); 2.30A {Geobacillus stearothermophilus} SCOP: c.26.1.1 PDB: 3ts1_A* 1tyd_E* 1tya_E* 1tyc_A 1tyb_E* 4ts1_A* 1jh3_A Back     alignment and structure
>1vq8_T 50S ribosomal protein L24P; ribosome 50S, protein-protein complex, RNA-RNA complex, PROT complex, peptidyl transferase reaction; HET: 1MA OMU OMG UR3 PSU SPS; 2.20A {Haloarcula marismortui} SCOP: b.34.5.1 PDB: 1vq4_T* 1vq5_T* 1vq6_T* 1vq7_T* 1s72_T* 1vq9_T* 1vqk_T* 1vql_T* 1vqm_T* 1vqn_T* 1vqo_T* 1vqp_T* 1yhq_T* 1yi2_T* 1yij_T* 1yit_T* 1yj9_T* 1yjn_T* 1yjw_T* 2otj_T* ... Back     alignment and structure
>3u5e_Y L33, YL33, 60S ribosomal protein L26-A; translation, ribosome, ribosomal R ribosomal protein, STM1, eukaryotic ribosome; 3.00A {Saccharomyces cerevisiae} PDB: 2wwa_L 2ww9_L 2wwb_L 3o5h_X 3o58_X 3u5i_Y 4b6a_Y 1s1i_U 3izc_Y 3izs_Y 3jyw_U Back     alignment and structure

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST ?

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

No hit with e-value below 0.005

Homologous Domains Detected by HHsearch ?

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

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query265
d1c06a_159 Ribosomal protein S4 {Bacillus stearothermophilus 99.07
d2uubd1208 Ribosomal protein S4 {Thermus thermophilus [TaxId: 98.88
d2gy9d1204 Ribosomal protein S4 {Escherichia coli [TaxId: 562 98.86
d1dm9a_104 Heat shock protein 15 kD {Escherichia coli [TaxId: 98.03
d1p9ka_79 Hypothetical protein YbcJ {Escherichia coli [TaxId 97.97
d1vioa258 Pseudouridine synthase RsuA N-terminal domain {Hae 97.97
d1kska359 Pseudouridine synthase RsuA N-terminal domain {Esc 97.92
d1h3fa281 Tyrosyl-tRNA synthetase (TyrRS), C-terminal domain 97.57
d1jh3a_99 Tyrosyl-tRNA synthetase (TyrRS), C-terminal domain 97.37
d2do3a162 Transcription elongation factor SPT5 {Human (Homo 95.23
d1nz9a_58 N-utilization substance G protein NusG, C-terminal 85.51
d1vqot1119 Ribosomal proteins L24 (L24p) {Archaeon Haloarcula 84.2
d1nppa258 N-utilization substance G protein NusG, C-terminal 81.3
>d1c06a_ d.66.1.2 (A:) Ribosomal protein S4 {Bacillus stearothermophilus [TaxId: 1422]} Back     information, alignment and structure
class: Alpha and beta proteins (a+b)
fold: Alpha-L RNA-binding motif
superfamily: Alpha-L RNA-binding motif
family: Ribosomal protein S4
domain: Ribosomal protein S4
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=99.07  E-value=2e-11  Score=102.08  Aligned_cols=70  Identities=17%  Similarity=0.266  Sum_probs=54.6

Q ss_pred             hhccccCHHHHHHHHhCceEEECCEEecccCCCCCcceeEEecccCcceeeeee--cCCceEEEEeChhhhc
Q 024598           51 RLKYALTYREVIAILMQRHVLVDAKVRTDKTYPAGFMDVVSIPKTNENFRLLYD--TKGRFRLHSIRDEEAK  120 (265)
Q Consensus        51 rLg~A~t~rEar~Il~~g~V~VDGkvr~d~~ypVG~mDVIsI~kt~e~yR~l~d--~kgrf~~~~I~~eea~  120 (265)
                      |+|||.|..+|||+++||||+|||+.++.|+|.+..+|+|++.+.......+.+  ......|.|++-+.++
T Consensus        59 r~gfa~t~~~arQ~v~Hghi~vNgk~v~iPSy~vk~GDvIsvkeksk~~~~v~~~~~~~~~~P~wL~vD~~~  130 (159)
T d1c06a_          59 RLGLARTRRQARQLVTHGHILVDGSRVNIPSYRVKPGQTIAVREKSRNLQVIKEALEANNYIPDYLSFDPEK  130 (159)
T ss_dssp             HHTSSSSHHHHHHHHHTSCEEETTEECCCSSCCCCSSCEEEECGGGSSCHHHHHHTTCCCCCCSSEEEETTT
T ss_pred             cCcccCCHHHHHHHHHhcceEccceEEEecceeecCCcEEeeccccchHHHHHHHHHccCCCCCEEEEEccc
Confidence            589999999999999999999999999999999999999999874433333321  1233456677655554
>d2uubd1 d.66.1.2 (D:2-209) Ribosomal protein S4 {Thermus thermophilus [TaxId: 274]} Back     information, alignment and structure
>d2gy9d1 d.66.1.2 (D:2-205) Ribosomal protein S4 {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d1dm9a_ d.66.1.3 (A:) Heat shock protein 15 kD {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d1p9ka_ d.66.1.6 (A:) Hypothetical protein YbcJ {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d1vioa2 d.66.1.5 (A:0-57) Pseudouridine synthase RsuA N-terminal domain {Haemophilus influenzae [TaxId: 727]} Back     information, alignment and structure
>d1kska3 d.66.1.5 (A:1-59) Pseudouridine synthase RsuA N-terminal domain {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d1h3fa2 d.66.1.4 (A:352-432) Tyrosyl-tRNA synthetase (TyrRS), C-terminal domain {Thermus thermophilus [TaxId: 274]} Back     information, alignment and structure
>d1jh3a_ d.66.1.4 (A:) Tyrosyl-tRNA synthetase (TyrRS), C-terminal domain {Bacillus stearothermophilus [TaxId: 1422]} Back     information, alignment and structure
>d2do3a1 b.34.5.5 (A:462-523) Transcription elongation factor SPT5 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1nz9a_ b.34.5.4 (A:) N-utilization substance G protein NusG, C-terminal domain {Thermus thermophilus [TaxId: 274]} Back     information, alignment and structure
>d1vqot1 b.34.5.1 (T:1-119) Ribosomal proteins L24 (L24p) {Archaeon Haloarcula marismortui [TaxId: 2238]} Back     information, alignment and structure
>d1nppa2 b.34.5.4 (A:191-248) N-utilization substance G protein NusG, C-terminal domain {Aquifex aeolicus [TaxId: 63363]} Back     information, alignment and structure