Citrus Sinensis ID: 025838

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-------
MLDKLGGAFAPKPSSGPHKSRECLPLILILRNRLKYALTYREVIAILMQRHVLVDAKVRTDKTYPAGFMDVVSIPKTNENFRLLYDTKGRFRLHSIRDEEAKFKLCKVRSVQFGQKGIPYINTYDGRTIRYPDPLIKANDTIKLDLETNKITEFIKFDVGNVVMVTGGRNRGRVGIIKNREKHKGSFETIHIQDALGHEFATRLGNVFTIGKGTKPWVSLPKGKGIKLSIIEEARKRQALATSAAAQ
cccccccEEcccccccccccccccHHHHHHHHHccccccHHHHHHHHHccEEEEccEEEcccccccccEEEEEEccccccEEEEEcccccEEEEEccccccEEEEEEEEEEEEEEcccEEEEEEccEEEEEcccccccccEEEEEccccEEEEEEEEEcccEEEEEccccEEEEEEEEEEEEEcccccEEEEEcccccEEEEEEcEEEEEEcccccEEEccccccEEEEHHHHHHHHHHHHHHHHcc
cccccccccccccccccccHHHHHHHHHHHHHHHHHHccHHHHHHHHHHccEEEccEEcccccccccEEEEEEEccccccEEEEEccccEEEEEEccHHHHcEEEEEEEEEEEcccccEEEEEccccEEEcccccEEEccEEEEEcccccEEEEEEEccccEEEEEccccccEEEEEEEEEccccccEEEEEEEccccEEEEEcccEEEEEcccccEEEccccccEEEHHHHHHHHHHHHHHHcccc
mldklggafapkpssgphksreclPLILILRNRLKYALTYREVIAILMQRHVLVDakvrtdktypagfmdvvsipktnenFRLLYDtkgrfrlhsIRDEEAKFKLCKvrsvqfgqkgipyintydgrtirypdplikandtikldlETNKITEFIKFDVGNVVMVTggrnrgrvgiiknrekhkgsfeTIHIQDALGHEFATRLGNvftigkgtkpwvslpkgkgikLSIIEEARKRQALATSAAAQ
mldklggafapkpssgphksreCLPLILILRNRLKYALTYREVIAILMQRHVLVDAKVRTdktypagfmdvvsipktnenFRLLYDTKGRFRLHSIRDEEakfklckvrsvqfgqkgipyintydgrtirYPDPLIKANDTIKLDLETNKItefikfdvgnvvmvtggrnrgrvgiiknrekhkgsFETIHIQDALGHEFATRLGNVFTigkgtkpwvslpkgkGIKLSIIEEARKRQALATSAAAQ
MLDKLGGAFAPKPSSGPHKSRECLPLILILRNRLKYALTYREVIAILMQRHVLVDAKVRTDKTYPAGFMDVVSIPKTNENFRLLYDTKGRFRLHSIRDEEAKFKLCKVRSVQFGQKGIPYINTYDGRTIRYPDPLIKANDTIKLDLETNKITEFIKFDVGNVVMVTGGRNRGRVGIIKNREKHKGSFETIHIQDALGHEFATRLGNVFTIGKGTKPWVSLPKGKGIKLSIIEEARKRQALATSAAAQ
*********************ECLPLILILRNRLKYALTYREVIAILMQRHVLVDAKVRTDKTYPAGFMDVVSIPKTNENFRLLYDTKGRFRLHSIRDEEAKFKLCKVRSVQFGQKGIPYINTYDGRTIRYPDPLIKANDTIKLDLETNKITEFIKFDVGNVVMVTGGRNRGRVGIIKNREKHKGSFETIHIQDALGHEFATRLGNVFTIGKGTKPWVSLPKGKGIKLSII****************
*LDKLGGAFAPKPSSGPHKSRECLPLILILRNRLKYALTYREVIAILMQRHVLVDAKVRTDKTYPAGFMDVVSIPKTNENFRLLYDTKGRFRLHSIRDEEAKFKLCKVRSVQFGQKGIPYINTYDGRTIRYPDPLIKANDTIKLDLETNKITEFIKFDVGNVVMVTGGRNRGRVGIIKNREKHKGSFETIHIQDALGHEFATRLGNVFTIGKGTKPWVSLPKGKGIKLSII****************
MLDKLGGA***********SRECLPLILILRNRLKYALTYREVIAILMQRHVLVDAKVRTDKTYPAGFMDVVSIPKTNENFRLLYDTKGRFRLHSIRDEEAKFKLCKVRSVQFGQKGIPYINTYDGRTIRYPDPLIKANDTIKLDLETNKITEFIKFDVGNVVMVTGGRNRGRVGIIKNREKHKGSFETIHIQDALGHEFATRLGNVFTIGKGTKPWVSLPKGKGIKLSIIEEAR************
*****GGAFAPKPSSGPHKSRECLPLILILRNRLKYALTYREVIAILMQRHVLVDAKVRTDKTYPAGFMDVVSIPKTNENFRLLYDTKGRFRLHSIRDEEAKFKLCKVRSVQFGQKGIPYINTYDGRTIRYPDPLIKANDTIKLDLETNKITEFIKFDVGNVVMVTGGRNRGRVGIIKNREKHKGSFETIHIQDALGHEFATRLGNVFTIGKGTKPWVSLPKGKGIKLSIIEEARKRQALA******
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
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MLDKLGGAFAPKPSSGPHKSRECLPLILILRNRLKYALTYREVIAILMQRHVLVDAKVRTDKTYPAGFMDVVSIPKTNENFRLLYDTKGRFRLHSIRDEEAKFKLCKVRSVQFGQKGIPYINTYDGRTIRYPDPLIKANDTIKLDLETNKITEFIKFDVGNVVMVTGGRNRGRVGIIKNREKHKGSFETIHIQDALGHEFATRLGNVFTIGKGTKPWVSLPKGKGIKLSIIEEARKRQALATSAAAQ
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 ?
Query247 2.2.26 [Sep-21-2011]
Q8VYK6262 40S ribosomal protein S4- yes no 0.987 0.931 0.910 1e-131
P49204262 40S ribosomal protein S4- yes no 0.987 0.931 0.910 1e-131
P46300264 40S ribosomal protein S4 N/A no 0.995 0.931 0.890 1e-131
Q93VH9261 40S ribosomal protein S4- yes no 0.959 0.908 0.928 1e-130
P46299262 40S ribosomal protein S4 N/A no 0.987 0.931 0.909 1e-129
O22424265 40S ribosomal protein S4 N/A no 0.959 0.894 0.915 1e-129
P49398265 40S ribosomal protein S4 yes no 0.959 0.894 0.907 1e-128
O81363261 40S ribosomal protein S4 N/A no 0.943 0.892 0.898 1e-123
P47961263 40S ribosomal protein S4 yes no 0.991 0.931 0.681 1e-97
P79103263 40S ribosomal protein S4 yes no 0.991 0.931 0.681 2e-97
>sp|Q8VYK6|RS43_ARATH 40S ribosomal protein S4-3 OS=Arabidopsis thaliana GN=RPS4D PE=2 SV=2 Back     alignment and function desciption
 Score =  468 bits (1205), Expect = e-131,   Method: Compositional matrix adjust.
 Identities = 224/246 (91%), Positives = 236/246 (95%), Gaps = 2/246 (0%)

Query: 1   MLDKLGGAFAPKPSSGPHKSRECLPLILILRNRLKYALTYREVIAILMQRHVLVDAKVRT 60
           MLDKLGGAFAPKPSSGPHKSRECLPL+LI+RNRLKYALTYREVI+ILMQRH+ VD KVRT
Sbjct: 19  MLDKLGGAFAPKPSSGPHKSRECLPLVLIIRNRLKYALTYREVISILMQRHIQVDGKVRT 78

Query: 61  DKTYPAGFMDVVSIPKTNENFRLLYDTKGRFRLHSIRDEEAKFKLCKVRSVQFGQKGIPY 120
           DKTYPAGFMDVVSIPKTNENFRLLYDTKGRFRLHSI+DEEAKFKLCKVRS+QFGQKGIPY
Sbjct: 79  DKTYPAGFMDVVSIPKTNENFRLLYDTKGRFRLHSIKDEEAKFKLCKVRSIQFGQKGIPY 138

Query: 121 INTYDGRTIRYPDPLIKANDTIKLDLETNKITEFIKFDVGNVVMVTGGRNRGRVGIIKNR 180
           +NTYDGRTIRYPDPLIK NDTIKLDLE NKI EFIKFDVGNVVMVTGGRNRGRVG+IKNR
Sbjct: 139 LNTYDGRTIRYPDPLIKPNDTIKLDLEANKIVEFIKFDVGNVVMVTGGRNRGRVGVIKNR 198

Query: 181 EKHKGSFETIHIQDALGHEFATRLGNVFTIGKGTKPWVSLPKGKGIKLSIIEEARKRQAL 240
           EKHKGSFETIHIQD+ GHEFATRLGNV+TIGKGTKPWVSLPKGKGIKL+IIEEARKR  L
Sbjct: 199 EKHKGSFETIHIQDSTGHEFATRLGNVYTIGKGTKPWVSLPKGKGIKLTIIEEARKR--L 256

Query: 241 ATSAAA 246
           A+  AA
Sbjct: 257 ASQQAA 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|P46299|RS4_GOSHI 40S ribosomal protein S4 OS=Gossypium hirsutum GN=RPS4 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|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 ?
Query247
255543308263 40S ribosomal protein S4, putative [Rici 0.991 0.931 0.951 1e-135
255549228263 40S ribosomal protein S4, putative [Rici 0.991 0.931 0.946 1e-134
357468567264 40S ribosomal protein S4 [Medicago trunc 0.995 0.931 0.930 1e-133
449509213264 PREDICTED: 40S ribosomal protein S4-like 0.995 0.931 0.939 1e-133
224087813263 predicted protein [Populus trichocarpa] 0.991 0.931 0.922 1e-133
192912988265 40S ribosomal protein S4 [Elaeis guineen 0.991 0.924 0.930 1e-132
449465358264 PREDICTED: 40S ribosomal protein S4-like 0.995 0.931 0.930 1e-132
356496247264 PREDICTED: 40S ribosomal protein S4-like 0.995 0.931 0.926 1e-132
356559288264 PREDICTED: 40S ribosomal protein S4-1-li 0.995 0.931 0.922 1e-132
192912992265 40S ribosomal protein S4 [Elaeis guineen 0.991 0.924 0.938 1e-132
>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 =  485 bits (1249), Expect = e-135,   Method: Compositional matrix adjust.
 Identities = 233/245 (95%), Positives = 241/245 (98%)

Query: 1   MLDKLGGAFAPKPSSGPHKSRECLPLILILRNRLKYALTYREVIAILMQRHVLVDAKVRT 60
           MLDKLGGAFAPKPSSGPHKSRECLPLILILRNRLKYALTYREVIAILMQRHVLVDAKVRT
Sbjct: 19  MLDKLGGAFAPKPSSGPHKSRECLPLILILRNRLKYALTYREVIAILMQRHVLVDAKVRT 78

Query: 61  DKTYPAGFMDVVSIPKTNENFRLLYDTKGRFRLHSIRDEEAKFKLCKVRSVQFGQKGIPY 120
           DKTYPAGFMDVVSIPKTNENFRLLYDTKGRFRLHSIRD+EAKFKLCKVRSVQFGQKGIPY
Sbjct: 79  DKTYPAGFMDVVSIPKTNENFRLLYDTKGRFRLHSIRDDEAKFKLCKVRSVQFGQKGIPY 138

Query: 121 INTYDGRTIRYPDPLIKANDTIKLDLETNKITEFIKFDVGNVVMVTGGRNRGRVGIIKNR 180
           +NTYDGRTIRYPDPLIKANDTIKLDLE+NKITEFIKFDVGNVVMVTGGRNRGRVG+IKNR
Sbjct: 139 LNTYDGRTIRYPDPLIKANDTIKLDLESNKITEFIKFDVGNVVMVTGGRNRGRVGVIKNR 198

Query: 181 EKHKGSFETIHIQDALGHEFATRLGNVFTIGKGTKPWVSLPKGKGIKLSIIEEARKRQAL 240
           EKHKGSFETIHIQD+ GHEFATR+GNVFTIGKGTKPWVSLPKGKGIKLSIIEEARKR A 
Sbjct: 199 EKHKGSFETIHIQDSTGHEFATRMGNVFTIGKGTKPWVSLPKGKGIKLSIIEEARKRLAA 258

Query: 241 ATSAA 245
           + +AA
Sbjct: 259 SQTAA 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|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|449509213|ref|XP_004163526.1| PREDICTED: 40S ribosomal protein S4-like [Cucumis sativus] 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|192912988|gb|ACF06602.1| 40S ribosomal protein S4 [Elaeis guineensis] 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|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 ?
Query247
TAIR|locus:2171198262 AT5G58420 [Arabidopsis thalian 0.987 0.931 0.910 5.2e-120
TAIR|locus:2169339262 AT5G07090 [Arabidopsis thalian 0.987 0.931 0.910 6.7e-120
TAIR|locus:2827612261 AT2G17360 [Arabidopsis thalian 0.959 0.908 0.928 2.3e-119
UNIPROTKB|P79103263 RPS4 "40S ribosomal protein S4 0.987 0.927 0.684 1.9e-90
UNIPROTKB|F2Z4Q1263 RPS4X "Uncharacterized protein 0.987 0.927 0.684 1.9e-90
UNIPROTKB|J9P5V0267 J9P5V0 "Uncharacterized protei 0.987 0.913 0.684 1.9e-90
UNIPROTKB|P62701263 RPS4X "40S ribosomal protein S 0.987 0.927 0.684 1.9e-90
UNIPROTKB|F1RQ91263 RPS4X "Uncharacterized protein 0.987 0.927 0.684 1.9e-90
UNIPROTKB|P62704263 RPS4X "40S ribosomal protein S 0.987 0.927 0.684 1.9e-90
UNIPROTKB|P62705263 RPS4X "40S ribosomal protein S 0.987 0.927 0.684 1.9e-90
TAIR|locus:2171198 AT5G58420 [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 1181 (420.8 bits), Expect = 5.2e-120, P = 5.2e-120
 Identities = 224/246 (91%), Positives = 236/246 (95%)

Query:     1 MLDKLGGAFAPKPSSGPHKSRECLPLILILRNRLKYALTYREVIAILMQRHVLVDAKVRT 60
             MLDKLGGAFAPKPSSGPHKSRECLPL+LI+RNRLKYALTYREVI+ILMQRH+ VD KVRT
Sbjct:    19 MLDKLGGAFAPKPSSGPHKSRECLPLVLIIRNRLKYALTYREVISILMQRHIQVDGKVRT 78

Query:    61 DKTYPAGFMDVVSIPKTNENFRLLYDTKGRFRLHSIRDEEAKFKLCKVRSVQFGQKGIPY 120
             DKTYPAGFMDVVSIPKTNENFRLLYDTKGRFRLHSI+DEEAKFKLCKVRS+QFGQKGIPY
Sbjct:    79 DKTYPAGFMDVVSIPKTNENFRLLYDTKGRFRLHSIKDEEAKFKLCKVRSIQFGQKGIPY 138

Query:   121 INTYDGRTIRYPDPLIKANDTIKLDLETNKITEFIKFDVGNVVMVTGGRNRGRVGIIKNR 180
             +NTYDGRTIRYPDPLIK NDTIKLDLE NKI EFIKFDVGNVVMVTGGRNRGRVG+IKNR
Sbjct:   139 LNTYDGRTIRYPDPLIKPNDTIKLDLEANKIVEFIKFDVGNVVMVTGGRNRGRVGVIKNR 198

Query:   181 EKHKGSFETIHIQDALGHEFATRLGNVFTIGKGTKPWVSLPKGKGIKLSIIEEARKRQAL 240
             EKHKGSFETIHIQD+ GHEFATRLGNV+TIGKGTKPWVSLPKGKGIKL+IIEEARKR  L
Sbjct:   199 EKHKGSFETIHIQDSTGHEFATRLGNVYTIGKGTKPWVSLPKGKGIKLTIIEEARKR--L 256

Query:   241 ATSAAA 246
             A+  AA
Sbjct:   257 ASQQAA 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 number0.89870.94330.8927N/Ano
Q76N24RS4X_CHLAENo assigned EC number0.68160.99190.9315N/Ano
Q861U7RS4Y1_PONPYNo assigned EC number0.65300.99190.9315N/Ano
Q9N3X2RS4_CAEELNo assigned EC number0.62340.96760.9227yesno
P47836RS4_CHICKNo assigned EC number0.67750.99190.9315yesno
P47837RS4_CANAXNo assigned EC number0.65410.96760.9122N/Ano
O59950RS4_YARLINo assigned EC number0.67360.96760.9192yesno
Q8VYK6RS43_ARATHNo assigned EC number0.91050.98780.9312yesno
Q95V34RS4_SPOFRNo assigned EC number0.65180.99190.9315N/Ano
Q8SRB9RS4_ENCCUNo assigned EC number0.40590.93520.8619yesno
Q56FH2RS4_LYSTENo assigned EC number0.66100.96760.9122N/Ano
P49204RS42_ARATHNo assigned EC number0.91050.98780.9312yesno
Q9P4W9RS4C_SCHPONo assigned EC number0.70.97160.9160yesno
P0CX36RS4B_YEASTNo assigned EC number0.66520.96760.9157yesno
P49401RS4_XENLANo assigned EC number0.67750.99190.9315N/Ano
Q76MY1RS4X_MACFUNo assigned EC number0.68160.99190.9315N/Ano
Q861V0RS4Y1_PANPANo assigned EC number0.64480.99190.9315N/Ano
Q4GXU6RS4_CARGRNo assigned EC number0.65280.97970.9272N/Ano
Q90YS0RS4_ICTPUNo assigned EC number0.66930.99190.9315N/Ano
Q5UAP0RS4_BOMMONo assigned EC number0.66800.99190.9315N/Ano
P0C233RS4_TETTHNo assigned EC number0.53970.95950.9150N/Ano
P79103RS4_BOVINNo assigned EC number0.68160.99190.9315yesno
O22424RS4_MAIZENo assigned EC number0.91560.95950.8943N/Ano
P47961RS4_CRIGRNo assigned EC number0.68160.99190.9315yesno
P79183RS4Y1_MACFUNo assigned EC number0.65300.99190.9315N/Ano
P46300RS4_SOLTUNo assigned EC number0.89020.99590.9318N/Ano
O62739RS4Y1_MONDONo assigned EC number0.66930.99190.9315yesno
O62738RS4X_MONDONo assigned EC number0.68610.96760.9087yesno
P49398RS4_ORYSJNo assigned EC number0.90710.95950.8943yesno
Q93VH9RS41_ARATHNo assigned EC number0.92820.95950.9080yesno
P41042RS4_DROMENo assigned EC number0.65700.97970.9272yesno
Q861U8RS4Y1_GORGONo assigned EC number0.64480.99190.9315N/Ano
Q6PBC4RS4_XENTRNo assigned EC number0.67750.99190.9315yesno
P62703RS4X_RATNo assigned EC number0.68160.99190.9315yesno
P62702RS4X_MOUSENo assigned EC number0.68160.99190.9315yesno
P62705RS4X_FELCANo assigned EC number0.68160.99190.9315N/Ano
P62704RS4X_MESAUNo assigned EC number0.68160.99190.9315N/Ano
P51405RS4_DICDINo assigned EC number0.65230.94330.8726yesno
Q9USW5RS4B_SCHPONo assigned EC number0.70.97160.9160yesno
P62701RS4X_HUMANNo assigned EC number0.68160.99190.9315yesno
P0CX35RS4A_YEASTNo assigned EC number0.66520.96760.9157yesno
P46299RS4_GOSHINo assigned EC number0.90980.98780.9312N/Ano
Q4PMB3RS4_IXOSCNo assigned EC number0.67080.95950.9045N/Ano
Q642H9RS4X_DANRENo assigned EC number0.66930.99190.9315yesno
P87158RS4A_SCHPONo assigned EC number0.70.97160.9160yesno

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 ?
Query247
PLN00036261 PLN00036, PLN00036, 40S ribosomal protein S4; Prov 1e-170
PTZ00118262 PTZ00118, PTZ00118, 40S ribosomal protein S4; Prov 1e-115
COG1471241 COG1471, RPS4A, Ribosomal protein S4E [Translation 1e-103
PTZ00223273 PTZ00223, PTZ00223, 40S ribosomal protein S4; Prov 6e-82
PRK04313237 PRK04313, PRK04313, 30S ribosomal protein S4e; Val 5e-67
pfam0090077 pfam00900, Ribosomal_S4e, Ribosomal family S4e 4e-37
cd0608755 cd06087, KOW_RPS4, KOW motif of Ribosomal Protein 2e-29
pfam0807138 pfam08071, RS4NT, RS4NT (NUC023) domain 2e-05
cd0016570 cd00165, S4, S4/Hsp/ tRNA synthetase RNA-binding d 5e-04
pfam0046732 pfam00467, KOW, KOW motif 0.001
>gnl|CDD|177670 PLN00036, PLN00036, 40S ribosomal protein S4; Provisional Back     alignment and domain information 
 Score =  468 bits (1207), Expect = e-170
 Identities = 215/239 (89%), Positives = 227/239 (94%)

Query: 1   MLDKLGGAFAPKPSSGPHKSRECLPLILILRNRLKYALTYREVIAILMQRHVLVDAKVRT 60
           MLDKLGGAFAPKPSSGPHK RECLPL+LILRNRLKYALTYREV AILMQRHV VD KVRT
Sbjct: 19  MLDKLGGAFAPKPSSGPHKKRECLPLLLILRNRLKYALTYREVQAILMQRHVKVDGKVRT 78

Query: 61  DKTYPAGFMDVVSIPKTNENFRLLYDTKGRFRLHSIRDEEAKFKLCKVRSVQFGQKGIPY 120
           DKTYPAGFMDV+SIPKTNENFRLLYDTKGRFRLH I DEEAKFKLCKVR +QFGQKGIPY
Sbjct: 79  DKTYPAGFMDVISIPKTNENFRLLYDTKGRFRLHRINDEEAKFKLCKVRKIQFGQKGIPY 138

Query: 121 INTYDGRTIRYPDPLIKANDTIKLDLETNKITEFIKFDVGNVVMVTGGRNRGRVGIIKNR 180
           +NT+DGRTIRYPDPLIKANDTIK+DLETNKI +FIKFDVGN+VMVTGGRNRGRVG+IKNR
Sbjct: 139 LNTHDGRTIRYPDPLIKANDTIKIDLETNKIVDFIKFDVGNLVMVTGGRNRGRVGVIKNR 198

Query: 181 EKHKGSFETIHIQDALGHEFATRLGNVFTIGKGTKPWVSLPKGKGIKLSIIEEARKRQA 239
           EKHKGSFE IH++DA GHEFATRLGNVF IGKGTKPW+SLPKGKGIKLSIIEEARKR A
Sbjct: 199 EKHKGSFEIIHVKDATGHEFATRLGNVFVIGKGTKPWISLPKGKGIKLSIIEEARKRLA 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 247
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 100.0
PF0807138 RS4NT: RS4NT (NUC023) domain; InterPro: IPR013843 98.62
PF0147948 S4: S4 domain; InterPro: IPR002942 Ribosomes are t 98.57
cd0016570 S4 S4/Hsp/ tRNA synthetase RNA-binding domain; The 97.6
smart0036360 S4 S4 RNA-binding domain. 97.25
COG0522205 RpsD Ribosomal protein S4 and related proteins [Tr 96.8
PF0046732 KOW: KOW motif; InterPro: IPR005824 Ribosomes are 96.78
smart0073928 KOW KOW (Kyprides, Ouzounis, Woese) motif. Motif i 96.74
TIGR0298859 YaaA_near_RecF S4 domain protein YaaA. This small 96.74
PF1327565 S4_2: S4 domain; PDB: 1P9K_A. 95.93
TIGR01018162 rpsD_arch ribosomal protein S4(archaeal type)/S9(e 95.58
PRK1150770 ribosome-associated protein; Provisional 95.55
PTZ00155181 40S ribosomal protein S9; Provisional 95.43
PLN00189194 40S ribosomal protein S9; Provisional 95.28
PRK04051177 rps4p 30S ribosomal protein S4P; Validated 95.12
TIGR01017200 rpsD_bact ribosomal protein S4, bacterial/organell 94.98
TIGR00005299 rluA_subfam pseudouridine synthase, RluA family. m 94.96
PRK05327203 rpsD 30S ribosomal protein S4; Validated 94.76
CHL00113201 rps4 ribosomal protein S4; Reviewed 94.6
TIGR01080114 rplX_A_E ribosomal protein L24p/L26e, archaeal/euk 94.55
TIGR03069257 PS_II_S4 photosystem II S4 domain protein. Members 94.36
TIGR00478228 tly hemolysin TlyA family protein. Hemolysins are 93.23
COG250173 S4-like RNA binding protein [Replication, recombin 92.75
PRK11180325 rluD 23S rRNA pseudouridine synthase D; Provisiona 92.37
PRK05912408 tyrosyl-tRNA synthetase; Validated 90.93
COG0564289 RluA Pseudouridylate synthases, 23S RNA-specific [ 90.92
PRK10700289 23S rRNA pseudouridylate synthase B; Provisional 90.79
PRK01191120 rpl24p 50S ribosomal protein L24P; Validated 89.96
PRK10348133 ribosome-associated heat shock protein Hsp15; Prov 89.55
COG1187248 RsuA 16S rRNA uridine-516 pseudouridylate synthase 89.22
PRK10475290 23S rRNA pseudouridine synthase F; Provisional 89.01
PRK11025317 23S rRNA pseudouridylate synthase C; Provisional 88.45
PRK10839232 16S rRNA pseudouridylate synthase A; Provisional 86.99
PLN00051267 RNA-binding S4 domain-containing protein; Provisio 86.94
PRK1228176 rplX 50S ribosomal protein L24; Reviewed 86.77
CHL0014183 rpl24 ribosomal protein L24; Validated 86.45
COG2302257 Uncharacterized conserved protein, contains S4-lik 86.04
PRK13354410 tyrosyl-tRNA synthetase; Provisional 85.74
PRK00004105 rplX 50S ribosomal protein L24; Reviewed 85.43
COG1189245 Predicted rRNA methylase [Translation, ribosomal s 84.81
PTZ00194143 60S ribosomal protein L26; Provisional 84.52
>PLN00036 40S ribosomal protein S4; Provisional Back     alignment and domain information 
Probab=100.00  E-value=1.9e-107  Score=735.36  Aligned_cols=242  Identities=89%  Similarity=1.381  Sum_probs=239.2

Q ss_pred             CCcccCceeccCCCCCCCCCcccchHHHHHHhhhcccccHHHHHHHHhCceEEECCEEeccccCCCcceeeEEeccCCce
Q 025838            1 MLDKLGGAFAPKPSSGPHKSRECLPLILILRNRLKYALTYREVIAILMQRHVLVDAKVRTDKTYPAGFMDVVSIPKTNEN   80 (247)
Q Consensus         1 ml~K~~~~~a~kpspGPH~~~eslPL~i~LRd~LkyA~t~rEak~Il~~~~V~VDGkvr~D~k~PvG~MDVIsI~kt~e~   80 (247)
                      ||+|++++||||||||||+++|||||++||||+|+||+|++||++||+||+|+|||+||||++||||||||||||++||+
T Consensus        19 ~l~kk~g~~a~rpspGPH~~~eslPL~i~LRd~LkyA~t~rEak~Il~~~~V~VDGkvr~D~~fPvG~mDVIsI~kt~e~   98 (261)
T PLN00036         19 MLDKLGGAFAPKPSSGPHKKRECLPLLLILRNRLKYALTYREVQAILMQRHVKVDGKVRTDKTYPAGFMDVISIPKTNEN   98 (261)
T ss_pred             ccccccCeeccCCCCCCCccccccccHHHHHhHhhhhccHHHHHHHHhCCeEEECCEEeccCCCCCceeEEEEEcCCCCe
Confidence            79999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEEEEcCCCceEEEEcChhhhcceeEEEeeeEEeeCCceEEEccCceeEecCCCCccCCCeEEEecCCCceeeEEEeeCC
Q 025838           81 FRLLYDTKGRFRLHSIRDEEAKFKLCKVRSVQFGQKGIPYINTYDGRTIRYPDPLIKANDTIKLDLETNKITEFIKFDVG  160 (247)
Q Consensus        81 yRvl~d~kgrf~l~~I~~eEa~~KLcKV~~k~~~~gg~~ql~~hDGrni~~~d~~ik~~Dtv~i~l~~~kI~d~ikfe~G  160 (247)
                      |||+||++|||.+|+|++|||+||||||++|++++||+|||+|||||||+|+||.||+||||+||||+|+|++|+||++|
T Consensus        99 yRvl~D~kGrf~l~~I~~eeA~~KLcKV~~k~~~~gG~~ql~~hDGrni~~~d~~~k~~Dtv~i~l~~~kI~~~ikfe~G  178 (261)
T PLN00036         99 FRLLYDTKGRFRLHRINDEEAKFKLCKVRKIQFGQKGIPYLNTHDGRTIRYPDPLIKANDTIKIDLETNKIVDFIKFDVG  178 (261)
T ss_pred             EEEEECCCceEEEEEcChHHccceEEEEEEEEEecCCeEEEEecCCceeccCCCccccCCEEEEeCCCCceeeEEecCCC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cEEEEECCCcceeEEEEEeEEEecCCccEEEEEcCCCCeEeEeeceEEEEccCCCceEeCCCCCceeeehHHHHHHHHHH
Q 025838          161 NVVMVTGGRNRGRVGIIKNREKHKGSFETIHIQDALGHEFATRLGNVFTIGKGTKPWVSLPKGKGIKLSIIEEARKRQAL  240 (247)
Q Consensus       161 ~~~~vtgG~n~G~vG~I~~i~~~~~s~~~V~v~d~~g~~F~T~~~~vfvIG~~~kp~islp~~~gi~~~~~~~~~~~~~~  240 (247)
                      |+||||||+|+|++|+|.+|+++++|+++||++|++|++|+|+++||||||++++||||||+++|||+|++|||++++++
T Consensus       179 ~l~~vtgG~n~GrvG~I~~i~~~~~~~~iV~i~d~~g~~F~T~~~~vfvIG~~~kp~isLp~~~gi~~~~~e~r~~~~~~  258 (261)
T PLN00036        179 NLVMVTGGRNRGRVGVIKNREKHKGSFEIIHVKDATGHEFATRLGNVFVIGKGTKPWISLPKGKGIKLSIIEEARKRLAA  258 (261)
T ss_pred             CEEEEECCeeceeEEEEEEEEecCCCCCEEEEEeCCCCeEEEEeeeEEEEccCCCeeEeCcCCCCcccchHHHHHHhhhh
Confidence            99999999999999999999999999999999999999999999999999988999999999999999999999999987


Q ss_pred             Hh
Q 025838          241 AT  242 (247)
Q Consensus       241 ~~  242 (247)
                      .+
T Consensus       259 ~~  260 (261)
T PLN00036        259 GQ  260 (261)
T ss_pred             hc
Confidence            64

>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
>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
>smart00363 S4 S4 RNA-binding domain Back     alignment and domain information
>COG0522 RpsD Ribosomal protein S4 and related proteins [Translation, ribosomal structure and biogenesis] 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
>smart00739 KOW KOW (Kyprides, Ouzounis, Woese) motif Back     alignment and domain information
>TIGR02988 YaaA_near_RecF S4 domain protein YaaA Back     alignment and domain information
>PF13275 S4_2: S4 domain; PDB: 1P9K_A Back     alignment and domain information
>TIGR01018 rpsD_arch ribosomal protein S4(archaeal type)/S9(eukaryote cytosolic type) Back     alignment and domain information
>PRK11507 ribosome-associated protein; Provisional Back     alignment and domain information
>PTZ00155 40S ribosomal protein S9; Provisional Back     alignment and domain information
>PLN00189 40S ribosomal protein S9; Provisional 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
>TIGR00005 rluA_subfam pseudouridine synthase, RluA family Back     alignment and domain information
>PRK05327 rpsD 30S ribosomal protein S4; Validated Back     alignment and domain information
>CHL00113 rps4 ribosomal protein S4; Reviewed Back     alignment and domain information
>TIGR01080 rplX_A_E ribosomal protein L24p/L26e, archaeal/eukaryotic Back     alignment and domain information
>TIGR03069 PS_II_S4 photosystem II S4 domain protein Back     alignment and domain information
>TIGR00478 tly hemolysin TlyA family protein Back     alignment and domain information
>COG2501 S4-like RNA binding protein [Replication, recombination, and repair] Back     alignment and domain information
>PRK11180 rluD 23S rRNA pseudouridine synthase D; Provisional Back     alignment and domain information
>PRK05912 tyrosyl-tRNA synthetase; Validated Back     alignment and domain information
>COG0564 RluA Pseudouridylate synthases, 23S RNA-specific [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
>PRK10348 ribosome-associated heat shock protein Hsp15; Provisional 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
>PRK10475 23S rRNA pseudouridine synthase F; Provisional Back     alignment and domain information
>PRK11025 23S rRNA pseudouridylate synthase C; Provisional Back     alignment and domain information
>PRK10839 16S rRNA pseudouridylate synthase A; Provisional Back     alignment and domain information
>PLN00051 RNA-binding S4 domain-containing protein; 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
>COG2302 Uncharacterized conserved protein, contains S4-like domain [Function unknown] Back     alignment and domain information
>PRK13354 tyrosyl-tRNA synthetase; Provisional Back     alignment and domain information
>PRK00004 rplX 50S ribosomal protein L24; Reviewed Back     alignment and domain information
>COG1189 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>PTZ00194 60S ribosomal protein L26; 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 ?
Query247
3iz6_D265 Localization Of The Small Subunit Ribosomal Protein 1e-129
3izb_D261 Localization Of The Small Subunit Ribosomal Protein 2e-93
2xzm_W260 Crystal Structure Of The Eukaryotic 40s Ribosomal S 6e-72
3zey_1273 High-resolution Cryo-electron Microscopy Structure 3e-64
3j20_E243 Promiscuous Behavior Of Proteins In Archaeal Riboso 6e-26
3kbg_A213 Crystal Structure Of The 30s Ribosomal Protein S4e 3e-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 =  456 bits (1173), Expect = e-129,   Method: Compositional matrix adjust.
 Identities = 215/237 (90%), Positives = 230/237 (97%)
Query: 1   MLDKLGGAFAPKPSSGPHKSRECLPLILILRNRLKYALTYREVIAILMQRHVLVDAKVRT 60
           MLDKLGGAFAPKPSSGPHKSRECLPLILI+RNRLKYALTYREVI+ILMQRHVLVD KVRT
Sbjct: 19  MLDKLGGAFAPKPSSGPHKSRECLPLILIIRNRLKYALTYREVISILMQRHVLVDGKVRT 78
Query: 61  DKTYPAGFMDVVSIPKTNENFRLLYDTKGRFRLHSIRDEEAKFKLCKVRSVQFGQKGIPY 120
           DKTYPAGFMDV+SIPKT EN+RLLYDTKGRFRL S++DE+AKFKLCKVRSVQFGQKGIPY
Sbjct: 79  DKTYPAGFMDVISIPKTGENYRLLYDTKGRFRLQSVKDEDAKFKLCKVRSVQFGQKGIPY 138
Query: 121 INTYDGRTIRYPDPLIKANDTIKLDLETNKITEFIKFDVGNVVMVTGGRNRGRVGIIKNR 180
           +NTYDGRTIRYPDP+IKANDTIK+DLETNKI +FIKFDVGNVVMVTGGRN GRVG+IKNR
Sbjct: 139 LNTYDGRTIRYPDPIIKANDTIKIDLETNKIVDFIKFDVGNVVMVTGGRNTGRVGVIKNR 198
Query: 181 EKHKGSFETIHIQDALGHEFATRLGNVFTIGKGTKPWVSLPKGKGIKLSIIEEARKR 237
           EKHKGSFETIH++DALGH+FATRLGNVFTIGKG KPWVSLPKGKGIKLSIIEE RKR
Sbjct: 199 EKHKGSFETIHVEDALGHQFATRLGNVFTIGKGNKPWVSLPKGKGIKLSIIEEQRKR 255
>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 ?
Query247
3iz6_D265 40S ribosomal protein S4 (S4E); eukaryotic ribosom 1e-116
3u5c_E261 RP5, S7, YS6, 40S ribosomal protein S4-A; translat 1e-116
2xzm_W260 40S ribosomal protein S4; ribosome, translation; 3 1e-111
3kbg_A213 30S ribosomal protein S4E; RPS4E, RS4E_theac, TAR2 2e-88
>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 =  333 bits (854), Expect = e-116
 Identities = 219/245 (89%), Positives = 235/245 (95%)

Query: 1   MLDKLGGAFAPKPSSGPHKSRECLPLILILRNRLKYALTYREVIAILMQRHVLVDAKVRT 60
           MLDKLGGAFAPKPSSGPHKSRECLPLILI+RNRLKYALTYREVI+ILMQRHVLVD KVRT
Sbjct: 19  MLDKLGGAFAPKPSSGPHKSRECLPLILIIRNRLKYALTYREVISILMQRHVLVDGKVRT 78

Query: 61  DKTYPAGFMDVVSIPKTNENFRLLYDTKGRFRLHSIRDEEAKFKLCKVRSVQFGQKGIPY 120
           DKTYPAGFMDV+SIPKT EN+RLLYDTKGRFRL S++DE+AKFKLCKVRSVQFGQKGIPY
Sbjct: 79  DKTYPAGFMDVISIPKTGENYRLLYDTKGRFRLQSVKDEDAKFKLCKVRSVQFGQKGIPY 138

Query: 121 INTYDGRTIRYPDPLIKANDTIKLDLETNKITEFIKFDVGNVVMVTGGRNRGRVGIIKNR 180
           +NTYDGRTIRYPDP+IKANDTIK+DLETNKI +FIKFDVGNVVMVTGGRN GRVG+IKNR
Sbjct: 139 LNTYDGRTIRYPDPIIKANDTIKIDLETNKIVDFIKFDVGNVVMVTGGRNTGRVGVIKNR 198

Query: 181 EKHKGSFETIHIQDALGHEFATRLGNVFTIGKGTKPWVSLPKGKGIKLSIIEEARKRQAL 240
           EKHKGSFETIH++DALGH+FATRLGNVFTIGKG KPWVSLPKGKGIKLSIIEE RKR A 
Sbjct: 199 EKHKGSFETIHVEDALGHQFATRLGNVFTIGKGNKPWVSLPKGKGIKLSIIEEQRKRDAA 258

Query: 241 ATSAA 245
           A +AA
Sbjct: 259 AQAAA 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

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query247
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
1p9k_A79 ORF, hypothetical protein; alfal motif, RNA-bindin 97.38
2cqj_A71 BRMS2, U3 small nucleolar ribonucleoprotein protei 96.86
3j20_D180 30S ribosomal protein S4P; archaea, archaeal, KINK 96.26
1c05_A159 Ribosomal protein S4 delta 41; two subdomains, uni 96.02
3bbn_D201 Ribosomal protein S4; small ribosomal subunit, spi 95.99
2vqe_D209 30S ribosomal protein S4; tRNA-binding, rRNA-bindi 95.41
3u5c_J197 40S ribosomal protein S9-A; translation, ribosome, 95.39
2xzm_D181 Ribosomal protein S4 containing protein; ribosome, 95.22
1ksk_A234 Ribosomal small subunit pseudouridine synthase A; 95.14
1dm9_A133 Hypothetical 15.5 KD protein in MRCA-PCKA intergen 95.1
3r8n_D205 30S ribosomal protein S4; protein biosynthesis, RN 94.9
2do3_A69 Transcription elongation factor SPT5; KOW motif, s 94.83
1vio_A243 Ribosomal small subunit pseudouridine synthase A; 94.51
2ckk_A127 KIN17; beta barrel, ribosomal protein, ribonucleop 94.13
3dh3_A290 Ribosomal large subunit pseudouridine synthase F; 93.86
2k6p_A92 Uncharacterized protein HP_1423; alpha-L motif, RN 93.82
1v9f_A325 Ribosomal large subunit pseudouridine synthase D; 92.05
3iz6_C195 40S ribosomal protein S9 (S4P); eukaryotic ribosom 91.98
1h3f_A432 Tyrosyl-tRNA synthetase; ligase, aminoacyl-tRNA sy 91.42
2ktl_A164 Tyrosyl-tRNA synthetase; S4 fold, aminoacyl-tRNA s 91.36
2jan_A432 Tyrosyl-tRNA synthetase; protein biosynthesis, ami 90.92
3hp7_A291 Hemolysin, putative; structural genomics, APC64019 90.4
1jil_A420 Tyrrs, tyrosyl-tRNA synthetase; truncation, based 85.64
1vq8_T120 50S ribosomal protein L24P; ribosome 50S, protein- 81.7
3u5e_Y127 L33, YL33, 60S ribosomal protein L26-A; translatio 81.05
>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=2.8e-112  Score=766.80  Aligned_cols=245  Identities=89%  Similarity=1.404  Sum_probs=199.3

Q ss_pred             CCcccCceeccCCCCCCCCCcccchHHHHHHhhhcccccHHHHHHHHhCceEEECCEEeccccCCCcceeeEEeccCCce
Q 025838            1 MLDKLGGAFAPKPSSGPHKSRECLPLILILRNRLKYALTYREVIAILMQRHVLVDAKVRTDKTYPAGFMDVVSIPKTNEN   80 (247)
Q Consensus         1 ml~K~~~~~a~kpspGPH~~~eslPL~i~LRd~LkyA~t~rEak~Il~~~~V~VDGkvr~D~k~PvG~MDVIsI~kt~e~   80 (247)
                      ||+|++++|||+||||||+++|||||++||||+|+||+|++||++||+||+|+||||||||++||||||||||||+|||+
T Consensus        19 ~l~kk~~~fa~rpspGPHkl~eslPL~i~LRd~LkyA~t~~EakkIl~q~~VkVDGkvrtD~~~PvG~MDVIsI~kt~e~   98 (265)
T 3iz6_D           19 MLDKLGGAFAPKPSSGPHKSRECLPLILIIRNRLKYALTYREVISILMQRHVLVDGKVRTDKTYPAGFMDVISIPKTGEN   98 (265)
T ss_dssp             ------------------------CHHHHHHHHHTTSSCSSSTHHHHHTTCCEETTEECCCTTCCCCTTCEEECCSSCCE
T ss_pred             ccccccceeccCCCCCCCcchhheeeHHHhhhhhcccccHHHHHHHHHCCcEEECCEEeccCCCCCcEEEEEEEcCCCCE
Confidence            89999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEEEEcCCCceEEEEcChhhhcceeEEEeeeEEeeCCceEEEccCceeEecCCCCccCCCeEEEecCCCceeeEEEeeCC
Q 025838           81 FRLLYDTKGRFRLHSIRDEEAKFKLCKVRSVQFGQKGIPYINTYDGRTIRYPDPLIKANDTIKLDLETNKITEFIKFDVG  160 (247)
Q Consensus        81 yRvl~d~kgrf~l~~I~~eEa~~KLcKV~~k~~~~gg~~ql~~hDGrni~~~d~~ik~~Dtv~i~l~~~kI~d~ikfe~G  160 (247)
                      |||+||++|||.+|+|++|||+||||||++|++++||+|||+|||||||+||||.||+||||+||||++||+|||||++|
T Consensus        99 fRll~D~kGrf~l~~I~~eEA~~KLcKV~~k~~~~~G~pql~tHDGrti~~~dp~ik~~DTv~idl~~~kI~d~ikfe~G  178 (265)
T 3iz6_D           99 YRLLYDTKGRFRLQSVKDEDAKFKLCKVRSVQFGQKGIPYLNTYDGRTIRYPDPIIKANDTIKIDLETNKIVDFIKFDVG  178 (265)
T ss_dssp             EEEEECTTSCEEEEEECHHHHTCEEEEEEEEECCSSSCCEEEETTSCCCBSCSSCCCTTCEEEECSSSCCEEEEECCSTT
T ss_pred             EEEEECCCCcEEEEECChHHcceEEEEEEEEEEccCCceEEEeecceEEecCCCCcccCCEEEEECCCCceeeEEEccCC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cEEEEECCCcceeEEEEEeEEEecCCccEEEEEcCCCCeEeEeeceEEEEccCCCceEeCCCCCceeeehHHHHHHHHHH
Q 025838          161 NVVMVTGGRNRGRVGIIKNREKHKGSFETIHIQDALGHEFATRLGNVFTIGKGTKPWVSLPKGKGIKLSIIEEARKRQAL  240 (247)
Q Consensus       161 ~~~~vtgG~n~G~vG~I~~i~~~~~s~~~V~v~d~~g~~F~T~~~~vfvIG~~~kp~islp~~~gi~~~~~~~~~~~~~~  240 (247)
                      |+||||||+|+|++|+|++|++|+|||++|||+|++|++|+|+++||||||++++||||||++||||||++|||++|+++
T Consensus       179 nl~mvtgG~n~GriG~I~~ie~~~gs~~iV~vkd~~g~~F~T~~~nvfvIGk~~kp~IsLp~~kg~~~~~~eer~~~~~~  258 (265)
T 3iz6_D          179 NVVMVTGGRNTGRVGVIKNREKHKGSFETIHVEDALGHQFATRLGNVFTIGKGNKPWVSLPKGKGIKLSIIEEQRKRDAA  258 (265)
T ss_dssp             CEEEECSSSSCSCEEEEEEEECCSSSCCEEEECCCSSCCEEEEGGGEEEEECSSCCCCCCCCCC----------------
T ss_pred             CEEEEEcCCcceEEEEEEEEEEecCCCcEEEEEECCCCeEEEEeCeEEEEccCCCeeEeCCCCCceeeehHHhHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999998899999999999999999999999999


Q ss_pred             Hhhhh
Q 025838          241 ATSAA  245 (247)
Q Consensus       241 ~~~~~  245 (247)
                      +++++
T Consensus       259 ~~~~~  263 (265)
T 3iz6_D          259 AQAAA  263 (265)
T ss_dssp             -----
T ss_pred             hhhhc
Confidence            99875
>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
>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
>2cqj_A BRMS2, U3 small nucleolar ribonucleoprotein protein IMP3 homolog; S4 domain, structural genomics, NPPSFA; NMR {Homo sapiens} 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
>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
>3bbn_D Ribosomal protein S4; small ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Spinacea oleracea} 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
>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
>2xzm_D Ribosomal protein S4 containing protein; ribosome, translation; 3.93A {Tetrahymena thermophila} PDB: 2xzn_D 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
>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
>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
>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
>2ckk_A KIN17; beta barrel, ribosomal protein, ribonucleoprotein, nuclear protein; 1.45A {Homo sapiens} 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
>2k6p_A Uncharacterized protein HP_1423; alpha-L motif, RNA-binding, unknown function; NMR {Helicobacter pylori} 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
>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
>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
>2ktl_A Tyrosyl-tRNA synthetase; S4 fold, aminoacyl-tRNA synthetase, ligase; NMR {Aspergillus nidulans fgsc A4} 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
>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
>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
>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 ?
Query247
d1p9ka_79 Hypothetical protein YbcJ {Escherichia coli [TaxId 97.34
d1vioa258 Pseudouridine synthase RsuA N-terminal domain {Hae 97.23
d1h3fa281 Tyrosyl-tRNA synthetase (TyrRS), C-terminal domain 97.11
d1kska359 Pseudouridine synthase RsuA N-terminal domain {Esc 97.05
d1c06a_159 Ribosomal protein S4 {Bacillus stearothermophilus 96.9
d1jh3a_99 Tyrosyl-tRNA synthetase (TyrRS), C-terminal domain 96.87
d2uubd1208 Ribosomal protein S4 {Thermus thermophilus [TaxId: 96.42
d1dm9a_104 Heat shock protein 15 kD {Escherichia coli [TaxId: 96.42
d2gy9d1204 Ribosomal protein S4 {Escherichia coli [TaxId: 562 96.08
d2do3a162 Transcription elongation factor SPT5 {Human (Homo 95.5
d1nz9a_58 N-utilization substance G protein NusG, C-terminal 85.52
d1vqot1119 Ribosomal proteins L24 (L24p) {Archaeon Haloarcula 83.07
d1nppa258 N-utilization substance G protein NusG, C-terminal 81.74
>d1p9ka_ d.66.1.6 (A:) Hypothetical protein YbcJ {Escherichia coli [TaxId: 562]} 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: YbcJ-like
domain: Hypothetical protein YbcJ
species: Escherichia coli [TaxId: 562]

Probab=97.34  E-value=2.1e-05  Score=57.01  Aligned_cols=59  Identities=17%  Similarity=0.144  Sum_probs=51.7

Q ss_pred             cchHHHHHHhhhcccccHHHHHHHHhCceEEECCEEeccccCCCcceeeEEeccCCceEEEE
Q 025838           23 CLPLILILRNRLKYALTYREVIAILMQRHVLVDAKVRTDKTYPAGFMDVVSIPKTNENFRLL   84 (247)
Q Consensus        23 slPL~i~LRd~LkyA~t~rEak~Il~~~~V~VDGkvr~D~k~PvG~MDVIsI~kt~e~yRvl   84 (247)
                      -+-|.=||-. .+++.+..||++.+.+|.|.|||++.+++.|.|--=|+|+++  |+.++++
T Consensus        20 ~irL~k~L~~-~gl~~Sr~eAk~lI~~G~V~VNG~~~~~p~~~V~~~d~I~vd--G~~i~iv   78 (79)
T d1p9ka_          20 HVELCDLLKL-EGWSESGAQAKIAIAEGQVKVDGAVETRKRCKIVAGQTVSFA--GHSVQVV   78 (79)
T ss_dssp             CCCHHHHHHH-HTSCSSSSTTSHHHHHHHHEETTBCCCCSSCCCCSSEEEEET--TEEEEEE
T ss_pred             cEEHHHHHHH-CCCccCHHHHHHHHHhCCcccCCEEeccccccCCCCCEEEEC--CEEEEEE
Confidence            3667777765 689999999999999999999999999999999999999995  7777765
>d1vioa2 d.66.1.5 (A:0-57) Pseudouridine synthase RsuA N-terminal domain {Haemophilus influenzae [TaxId: 727]} 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
>d1kska3 d.66.1.5 (A:1-59) Pseudouridine synthase RsuA N-terminal domain {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d1c06a_ d.66.1.2 (A:) Ribosomal protein S4 {Bacillus stearothermophilus [TaxId: 1422]} 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
>d2uubd1 d.66.1.2 (D:2-209) Ribosomal protein S4 {Thermus thermophilus [TaxId: 274]} 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
>d2gy9d1 d.66.1.2 (D:2-205) Ribosomal protein S4 {Escherichia coli [TaxId: 562]} 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