Citrus Sinensis ID: 030330

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-------18
MVSGSGICAKRVVVDARHHMLGRLASIVAKELLNGQKVVAVRCEEICMSGGLVRQKMKYMRFLRKRMNTKPSHGPIHFRAPAKIFWRTVRGMIPHKTKRGAAALARLKAYEGVPAPYDKVKRMVIPDALKVLRLQKGHKYCLLGRLASEVGWNYYDTIRVGFSSSCFITILCFLFPGSH
ccccccccccEEEEEccccccHHHHHHHHHHHccccEEEEEEcccEEEEccHHHHHHHHHHHccccccccccccccccccccHHHHHHHHcccccccHHHHHHHHcccEEccccccccccccEEcHHHHHHHHccccccEEEHHHHHHHHccccHHHHHHHHHcccccEEEEEEccccc
ccccccccccEEEEEccccHHHHHHHHHHHHHHcccEEEEEEEEEEEEccHHHHHHHHHHHHHHHHHcccccccccccccHHHHHHHHHHcccccccHHHHHHHHHcEEEcccccccccccEEEcHHHHHHHHcccccEEEEEcHHHHHHccccccEEEEEEccHHHHHHHHHHccccc
mvsgsgicakRVVVDARHHMLGRLASIVAKELLNGQKVVAVRCEEICMSGGLVRQKMKYMRFLRKrmntkpshgpihfrapaKIFWRTVRGMIPHKTKRGAAALARLKAyegvpapydkvkrmviPDALKVLRLQKGHKYCLLGRLAsevgwnyydtirvgFSSSCFITILcflfpgsh
mvsgsgicaKRVVVDARHHMLGRLASIVAKELLNGQKVVAVRCEEicmsgglvrqkMKYMRFLRKRmntkpshgpihfrAPAKIFWRTVRGMIPHKTKRGAAALARLKAyegvpapydkvkrMVIPDALKVLRLQKGHKYCLLGRLASEVGWNYYDTIRVGFSSSCFITILCFLFPGSH
MVSGSGICAKRVVVDARHHMLGRLASIVAKELLNGQKVVAVRCEEICMSGGLVRQKMKYMRFLRKRMNTKPSHGPIHFRAPAKIFWRTVRGMIPHKTkrgaaalarlkaYEGVPAPYDKVKRMVIPDALKVLRLQKGHKYCLLGRLASEVGWNYYDTIRVGFSSSCFITILCFLFPGSH
*****GICAKRVVVDARHHMLGRLASIVAKELLNGQKVVAVRCEEICMSGGLVRQKMKYMRFLRKRMNTKPSHGPIHFRAPAKIFWRTVRGMIPHKTKRGAAALARLKAYEGVPAPYDKVKRMVIPDALKVLRLQKGHKYCLLGRLASEVGWNYYDTIRVGFSSSCFITILCFLF****
*****GICAKRVVVDARHHMLGRLASIVAKELLNGQKVVAVRCEEICMSGGLVRQKMKYMRFLRKRMNTKPSHGPIHFRAPAKIFWRTVRGMIPHKTKRGAAALARLKAYEGVPAPYDKVKRMVIPDALKVLRLQKGHKYCLLGRLASEVGWNYYDTIRVGFSSSCFITILCFLFPGS*
MVSGSGICAKRVVVDARHHMLGRLASIVAKELLNGQKVVAVRCEEICMSGGLVRQKMKYMRFLRKRMNTKPSHGPIHFRAPAKIFWRTVRGMIPHKTKRGAAALARLKAYEGVPAPYDKVKRMVIPDALKVLRLQKGHKYCLLGRLASEVGWNYYDTIRVGFSSSCFITILCFLFPGSH
******ICAKRVVVDARHHMLGRLASIVAKELLNGQKVVAVRCEEICMSGGLVRQKMKYMRFLRKRMNTKPSHGPIHFRAPAKIFWRTVRGMIPHKTKRGAAALARLKAYEGVPAPYDKVKRMVIPDALKVLRLQKGHKYCLLGRLASEVGWNYYDTIRVGFSSSCFITILCFLFPGS*
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
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iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhooo
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
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MVSGSGICAKRVVVDARHHMLGRLASIVAKELLNGQKVVAVRCEEICMSGGLVRQKMKYMRFLRKRMNTKPSHGPIHFRAPAKIFWRTVRGMIPHKTKRGAAALARLKAYEGVPAPYDKVKRMVIPDALKVLRLQKGHKYCLLGRLASEVGWNYYDTIRVGFSSSCFITILCFLFPGSH
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 ?
Query179 2.2.26 [Sep-21-2011]
Q9FKC0206 60S ribosomal protein L13 yes no 0.888 0.771 0.924 6e-85
Q9LRX8206 60S ribosomal protein L13 no no 0.888 0.771 0.911 1e-83
Q9SFU1206 60S ribosomal protein L13 no no 0.888 0.771 0.893 2e-83
Q9SVR0206 60S ribosomal protein L13 no no 0.888 0.771 0.899 5e-83
O65055206 60S ribosomal protein L13 N/A no 0.882 0.766 0.860 9e-79
O49885205 60S ribosomal protein L13 N/A no 0.882 0.770 0.874 3e-78
P93099200 60S ribosomal protein L13 N/A no 0.832 0.745 0.697 1e-57
Q4R8Z2203 60S ribosomal protein L13 N/A no 0.798 0.704 0.671 1e-52
Q3SZ90203 60S ribosomal protein L13 yes no 0.798 0.704 0.671 1e-52
P40429203 60S ribosomal protein L13 yes no 0.798 0.704 0.671 1e-52
>sp|Q9FKC0|R13A4_ARATH 60S ribosomal protein L13a-4 OS=Arabidopsis thaliana GN=RPL13AD PE=2 SV=1 Back     alignment and function desciption
 Score =  312 bits (800), Expect = 6e-85,   Method: Compositional matrix adjust.
 Identities = 147/159 (92%), Positives = 154/159 (96%)

Query: 1   MVSGSGICAKRVVVDARHHMLGRLASIVAKELLNGQKVVAVRCEEICMSGGLVRQKMKYM 60
           MVSGSGIC+KRVVVDARHHMLGRLASI AKELLNGQKVV VRCEEIC+SGGLVRQKMKYM
Sbjct: 1   MVSGSGICSKRVVVDARHHMLGRLASITAKELLNGQKVVIVRCEEICLSGGLVRQKMKYM 60

Query: 61  RFLRKRMNTKPSHGPIHFRAPAKIFWRTVRGMIPHKTKRGAAALARLKAYEGVPAPYDKV 120
           RFLRKRMNTKPSHGPIHFRAP+KIFWRTVRGMIPHKTKRGAAALARLK YEGVP PYDK+
Sbjct: 61  RFLRKRMNTKPSHGPIHFRAPSKIFWRTVRGMIPHKTKRGAAALARLKVYEGVPTPYDKI 120

Query: 121 KRMVIPDALKVLRLQKGHKYCLLGRLASEVGWNYYDTIR 159
           KRMVIPDALKVLRLQ GHKYCLLGRL+SEVGWN+YDTI+
Sbjct: 121 KRMVIPDALKVLRLQAGHKYCLLGRLSSEVGWNHYDTIK 159

Arabidopsis thaliana (taxid: 3702)
>sp|Q9LRX8|R13A2_ARATH 60S ribosomal protein L13a-2 OS=Arabidopsis thaliana GN=RPL13AB PE=1 SV=1 Back     alignment and function description
>sp|Q9SFU1|R13A1_ARATH 60S ribosomal protein L13a-1 OS=Arabidopsis thaliana GN=RPL13AA PE=2 SV=1 Back     alignment and function description
>sp|Q9SVR0|R13A3_ARATH 60S ribosomal protein L13a-3 OS=Arabidopsis thaliana GN=RPL13AC PE=2 SV=1 Back     alignment and function description
>sp|O65055|RL13A_PICMA 60S ribosomal protein L13a OS=Picea mariana GN=RPL13A PE=2 SV=1 Back     alignment and function description
>sp|O49885|RL13A_LUPLU 60S ribosomal protein L13a OS=Lupinus luteus GN=RPL13A PE=2 SV=1 Back     alignment and function description
>sp|P93099|RL13A_CYAPA 60S ribosomal protein L13a OS=Cyanophora paradoxa PE=2 SV=1 Back     alignment and function description
>sp|Q4R8Z2|RL13A_MACFA 60S ribosomal protein L13a OS=Macaca fascicularis GN=RPL13A PE=2 SV=3 Back     alignment and function description
>sp|Q3SZ90|RL13A_BOVIN 60S ribosomal protein L13a OS=Bos taurus GN=RPL13A PE=2 SV=3 Back     alignment and function description
>sp|P40429|RL13A_HUMAN 60S ribosomal protein L13a OS=Homo sapiens GN=RPL13A PE=1 SV=2 Back     alignment and function description

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

Original result of BLAST against Nonredundant Database

GI ?Alignment Graph ?Length ? Definition ? Q cover ? H cover ? Identity ? E-value ?
Query179
388513755206 unknown [Lotus japonicus] 0.888 0.771 0.937 2e-84
255560155206 60S ribosomal protein L13a, putative [Ri 0.888 0.771 0.937 3e-84
449476086241 PREDICTED: 60S ribosomal protein L13a-4- 0.888 0.659 0.924 2e-83
15239698206 60S ribosomal protein L13a-4 [Arabidopsi 0.888 0.771 0.924 3e-83
356559017206 PREDICTED: 60S ribosomal protein L13a-4- 0.888 0.771 0.918 3e-83
449476090208 PREDICTED: 60S ribosomal protein L13a-4- 0.888 0.764 0.924 4e-83
449442379206 PREDICTED: 60S ribosomal protein L13a-4- 0.888 0.771 0.924 4e-83
449432416206 PREDICTED: 60S ribosomal protein L13a-2- 0.888 0.771 0.924 5e-83
297795569206 60S ribosomal protein L13A [Arabidopsis 0.888 0.771 0.918 5e-83
297829258207 structural constituent of ribosome [Arab 0.888 0.768 0.918 6e-83
>gi|388513755|gb|AFK44939.1| unknown [Lotus japonicus] Back     alignment and taxonomy information
 Score =  317 bits (811), Expect = 2e-84,   Method: Compositional matrix adjust.
 Identities = 149/159 (93%), Positives = 155/159 (97%)

Query: 1   MVSGSGICAKRVVVDARHHMLGRLASIVAKELLNGQKVVAVRCEEICMSGGLVRQKMKYM 60
           MVSGSGICAKRVVVDARHHMLGRLASIVAKELLNGQKVV VRCEEICMSGGLVRQKMKYM
Sbjct: 1   MVSGSGICAKRVVVDARHHMLGRLASIVAKELLNGQKVVVVRCEEICMSGGLVRQKMKYM 60

Query: 61  RFLRKRMNTKPSHGPIHFRAPAKIFWRTVRGMIPHKTKRGAAALARLKAYEGVPAPYDKV 120
           RFLRKRMNTKPSHGPIHFRAP+KIFWRT+RGMIPHKTKRGAAAL RLK YEG+P PYDKV
Sbjct: 61  RFLRKRMNTKPSHGPIHFRAPSKIFWRTLRGMIPHKTKRGAAALERLKVYEGIPPPYDKV 120

Query: 121 KRMVIPDALKVLRLQKGHKYCLLGRLASEVGWNYYDTIR 159
           KRMV+PDALKVLRLQKGHKYCLLG+L+SEVGWNYYDTIR
Sbjct: 121 KRMVVPDALKVLRLQKGHKYCLLGKLSSEVGWNYYDTIR 159

Source: Lotus japonicus

Species: Lotus japonicus

Genus: Lotus

Family: Fabaceae

Order: Fabales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|255560155|ref|XP_002521095.1| 60S ribosomal protein L13a, putative [Ricinus communis] gi|223539664|gb|EEF41246.1| 60S ribosomal protein L13a, putative [Ricinus communis] Back     alignment and taxonomy information
>gi|449476086|ref|XP_004154636.1| PREDICTED: 60S ribosomal protein L13a-4-like isoform 1 [Cucumis sativus] Back     alignment and taxonomy information
>gi|15239698|ref|NP_199687.1| 60S ribosomal protein L13a-4 [Arabidopsis thaliana] gi|145334783|ref|NP_001078737.1| 60S ribosomal protein L13a-4 [Arabidopsis thaliana] gi|17865558|sp|Q9FKC0.1|R13A4_ARATH RecName: Full=60S ribosomal protein L13a-4 gi|9758875|dbj|BAB09429.1| 60S ribosomal protein L13a [Arabidopsis thaliana] gi|19699305|gb|AAL91263.1| AT5g48760/K24G6_9 [Arabidopsis thaliana] gi|21593767|gb|AAM65734.1| 60S ribosomal protein L13a [Arabidopsis thaliana] gi|21689627|gb|AAM67435.1| At5g48760/K24G6_9 [Arabidopsis thaliana] gi|332008337|gb|AED95720.1| 60S ribosomal protein L13a-4 [Arabidopsis thaliana] gi|332008338|gb|AED95721.1| 60S ribosomal protein L13a-4 [Arabidopsis thaliana] Back     alignment and taxonomy information
>gi|356559017|ref|XP_003547798.1| PREDICTED: 60S ribosomal protein L13a-4-like [Glycine max] Back     alignment and taxonomy information
>gi|449476090|ref|XP_004154637.1| PREDICTED: 60S ribosomal protein L13a-4-like isoform 2 [Cucumis sativus] gi|449476094|ref|XP_004154638.1| PREDICTED: 60S ribosomal protein L13a-4-like isoform 3 [Cucumis sativus] Back     alignment and taxonomy information
>gi|449442379|ref|XP_004138959.1| PREDICTED: 60S ribosomal protein L13a-4-like [Cucumis sativus] gi|449442541|ref|XP_004139040.1| PREDICTED: 60S ribosomal protein L13a-4-like [Cucumis sativus] Back     alignment and taxonomy information
>gi|449432416|ref|XP_004133995.1| PREDICTED: 60S ribosomal protein L13a-2-like [Cucumis sativus] gi|449525004|ref|XP_004169511.1| PREDICTED: 60S ribosomal protein L13a-2-like [Cucumis sativus] Back     alignment and taxonomy information
>gi|297795569|ref|XP_002865669.1| 60S ribosomal protein L13A [Arabidopsis lyrata subsp. lyrata] gi|297311504|gb|EFH41928.1| 60S ribosomal protein L13A [Arabidopsis lyrata subsp. lyrata] Back     alignment and taxonomy information
>gi|297829258|ref|XP_002882511.1| structural constituent of ribosome [Arabidopsis lyrata subsp. lyrata] gi|297328351|gb|EFH58770.1| structural constituent of ribosome [Arabidopsis lyrata subsp. lyrata] 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 ?
Query179
TAIR|locus:2156569206 AT5G48760 [Arabidopsis thalian 0.888 0.771 0.855 3.2e-72
TAIR|locus:2098530207 AT3G07110 [Arabidopsis thalian 0.888 0.768 0.830 2.3e-71
TAIR|locus:2087268206 AT3G24830 [Arabidopsis thalian 0.888 0.771 0.842 3.7e-71
TAIR|locus:2119335206 AT4G13170 [Arabidopsis thalian 0.888 0.771 0.830 1.6e-70
UNIPROTKB|Q3SZ90203 RPL13A "60S ribosomal protein 0.798 0.704 0.608 1.5e-44
UNIPROTKB|F1PI16203 RPL13A "60S ribosomal protein 0.798 0.704 0.608 1.5e-44
UNIPROTKB|P40429203 RPL13A "60S ribosomal protein 0.798 0.704 0.608 1.5e-44
UNIPROTKB|F1RI01204 RPL13A "60S ribosomal protein 0.798 0.700 0.608 1.5e-44
UNIPROTKB|Q4R8Z2203 RPL13A "60S ribosomal protein 0.798 0.704 0.608 1.5e-44
UNIPROTKB|Q5RA38203 RPL13A "60S ribosomal protein 0.798 0.704 0.608 1.5e-44
TAIR|locus:2156569 AT5G48760 [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 730 (262.0 bits), Expect = 3.2e-72, P = 3.2e-72
 Identities = 136/159 (85%), Positives = 143/159 (89%)

Query:     1 MVSGSGICAKRVVVDARHHMLGRLASIVAKELLNGQKVVAVRCEEICMSGGLVRQKMKYM 60
             MVSGSGIC+KRVVVDARHHMLGRLASI AKELLNGQKVV VRCEEIC+SGGLVRQKMKYM
Sbjct:     1 MVSGSGICSKRVVVDARHHMLGRLASITAKELLNGQKVVIVRCEEICLSGGLVRQKMKYM 60

Query:    61 RFLRKRMNTKPSHGPIHFRAPAKIFWRTVRGMIPHKTXXXXXXXXXXXXYEGVPAPYDKV 120
             RFLRKRMNTKPSHGPIHFRAP+KIFWRTVRGMIPHKT            YEGVP PYDK+
Sbjct:    61 RFLRKRMNTKPSHGPIHFRAPSKIFWRTVRGMIPHKTKRGAAALARLKVYEGVPTPYDKI 120

Query:   121 KRMVIPDALKVLRLQKGHKYCLLGRLASEVGWNYYDTIR 159
             KRMVIPDALKVLRLQ GHKYCLLGRL+SEVGWN+YDTI+
Sbjct:   121 KRMVIPDALKVLRLQAGHKYCLLGRLSSEVGWNHYDTIK 159
GO:0003735 "structural constituent of ribosome" evidence=IEA;ISS
GO:0005737 "cytoplasm" evidence=ISM
GO:0005840 "ribosome" evidence=IEA
GO:0006412 "translation" evidence=IEA;ISS
GO:0015934 "large ribosomal subunit" evidence=IEA;ISS
GO:0022626 "cytosolic ribosome" evidence=IDA
GO:0022625 "cytosolic large ribosomal subunit" evidence=IDA
GO:0001510 "RNA methylation" evidence=RCA
GO:0009664 "plant-type cell wall organization" evidence=RCA
GO:0042545 "cell wall modification" evidence=RCA
TAIR|locus:2098530 AT3G07110 [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2087268 AT3G24830 [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2119335 AT4G13170 [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
UNIPROTKB|Q3SZ90 RPL13A "60S ribosomal protein L13a" [Bos taurus (taxid:9913)] Back     alignment and assigned GO terms
UNIPROTKB|F1PI16 RPL13A "60S ribosomal protein L13a" [Canis lupus familiaris (taxid:9615)] Back     alignment and assigned GO terms
UNIPROTKB|P40429 RPL13A "60S ribosomal protein L13a" [Homo sapiens (taxid:9606)] Back     alignment and assigned GO terms
UNIPROTKB|F1RI01 RPL13A "60S ribosomal protein L13a" [Sus scrofa (taxid:9823)] Back     alignment and assigned GO terms
UNIPROTKB|Q4R8Z2 RPL13A "60S ribosomal protein L13a" [Macaca fascicularis (taxid:9541)] Back     alignment and assigned GO terms
UNIPROTKB|Q5RA38 RPL13A "60S ribosomal protein L13a" [Pongo abelii (taxid:9601)] 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) ?
O65055RL13A_PICMANo assigned EC number0.86070.88260.7669N/Ano
P26784RL16A_YEASTNo assigned EC number0.57140.82120.7386yesno
O42991RL16B_SCHPONo assigned EC number0.61070.83240.7563yesno
Q9LRX8R13A2_ARATHNo assigned EC number0.91190.88820.7718nono
O49885RL13A_LUPLUNo assigned EC number0.87420.88260.7707N/Ano
P35427RL13A_RATNo assigned EC number0.67130.79880.7044yesno
Q3SZ90RL13A_BOVINNo assigned EC number0.67130.79880.7044yesno
P19253RL13A_MOUSENo assigned EC number0.67130.79880.7044yesno
O42848RL16A_SCHPONo assigned EC number0.61070.83240.7563yesno
Q27389RL13A_CAEELNo assigned EC number0.56200.84910.7524yesno
Q9FKC0R13A4_ARATHNo assigned EC number0.92450.88820.7718yesno
P40429RL13A_HUMANNo assigned EC number0.67130.79880.7044yesno
Q9VNE9RL13A_DROMENo assigned EC number0.57410.86590.7560yesno
Q553M7RL13A_DICDINo assigned EC number0.59310.81000.7754yesno
Q5RA38RL13A_PONABNo assigned EC number0.67130.79880.7044yesno
Q9XSU0RL13A_CANFANo assigned EC number0.65730.79880.7044yesno

EC Number Prediction by Ezypred Server ?

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software ?

No EC number assignment, probably not an enzyme!

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING ?

Original result from the STRING server

Fail to connect to STRING server

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST ?

Original result of RPS-BLAST against CDD database part I

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query179
PTZ00068202 PTZ00068, PTZ00068, 60S ribosomal protein L13a; Pr 3e-84
TIGR01077142 TIGR01077, L13_A_E, ribosomal protein L13, archaea 1e-58
cd00392114 cd00392, Ribosomal_L13, Ribosomal protein L13 4e-39
pfam00572128 pfam00572, Ribosomal_L13, Ribosomal protein L13 9e-36
PRK06394146 PRK06394, rpl13p, 50S ribosomal protein L13P; Revi 8e-33
COG0102148 COG0102, RplM, Ribosomal protein L13 [Translation, 3e-27
PRK09216144 PRK09216, rplM, 50S ribosomal protein L13; Reviewe 1e-06
TIGR01066140 TIGR01066, rplM_bact, ribosomal protein L13, bacte 3e-05
CHL00159143 CHL00159, rpl13, ribosomal protein L13; Validated 2e-04
>gnl|CDD|240253 PTZ00068, PTZ00068, 60S ribosomal protein L13a; Provisional Back     alignment and domain information 
 Score =  246 bits (630), Expect = 3e-84
 Identities = 99/149 (66%), Positives = 119/149 (79%)

Query: 10  KRVVVDARHHMLGRLASIVAKELLNGQKVVAVRCEEICMSGGLVRQKMKYMRFLRKRMNT 69
           K +V+D + H+LGRLAS+VAKELL GQK+V VRCE++ +SG L R K+KY  FLRKRMNT
Sbjct: 4   KVIVIDCKGHLLGRLASVVAKELLLGQKIVVVRCEDLNISGSLFRNKVKYEEFLRKRMNT 63

Query: 70  KPSHGPIHFRAPAKIFWRTVRGMIPHKTKRGAAALARLKAYEGVPAPYDKVKRMVIPDAL 129
            P  GP H RAP+ IFWRTVRGM+PHKTKRGAAAL RLK +EGVPAPYDKVKR+VIP AL
Sbjct: 64  NPRRGPFHHRAPSDIFWRTVRGMLPHKTKRGAAALKRLKVFEGVPAPYDKVKRVVIPSAL 123

Query: 130 KVLRLQKGHKYCLLGRLASEVGWNYYDTI 158
           +VLRL+    Y +LG L++ VGW Y D +
Sbjct: 124 RVLRLKPERPYTVLGDLSAHVGWKYADVV 152

Length = 202
>gnl|CDD|162192 TIGR01077, L13_A_E, ribosomal protein L13, archaeal/eukaryotic Back     alignment and domain information
>gnl|CDD|238230 cd00392, Ribosomal_L13, Ribosomal protein L13 Back     alignment and domain information
>gnl|CDD|201314 pfam00572, Ribosomal_L13, Ribosomal protein L13 Back     alignment and domain information
>gnl|CDD|235793 PRK06394, rpl13p, 50S ribosomal protein L13P; Reviewed Back     alignment and domain information
>gnl|CDD|223180 COG0102, RplM, Ribosomal protein L13 [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>gnl|CDD|181703 PRK09216, rplM, 50S ribosomal protein L13; Reviewed Back     alignment and domain information
>gnl|CDD|162186 TIGR01066, rplM_bact, ribosomal protein L13, bacterial type Back     alignment and domain information
>gnl|CDD|177072 CHL00159, rpl13, ribosomal protein L13; Validated Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 179
PTZ00068202 60S ribosomal protein L13a; Provisional 100.0
TIGR01077142 L13_A_E ribosomal protein L13, archaeal/eukaryotic 100.0
PRK06394146 rpl13p 50S ribosomal protein L13P; Reviewed 100.0
PRK09216144 rplM 50S ribosomal protein L13; Reviewed 100.0
TIGR01066140 rplM_bact ribosomal protein L13, bacterial type. T 100.0
COG0102148 RplM Ribosomal protein L13 [Translation, ribosomal 100.0
CHL00159143 rpl13 ribosomal protein L13; Validated 100.0
KOG3204197 consensus 60S ribosomal protein L13a [Translation, 100.0
PF00572128 Ribosomal_L13: Ribosomal protein L13; InterPro: IP 100.0
PLN00205191 ribisomal protein L13 family protein; Provisional 100.0
cd00392114 Ribosomal_L13 Ribosomal protein L13. Protein L13, 100.0
KOG3203165 consensus Mitochondrial/chloroplast ribosomal prot 100.0
>PTZ00068 60S ribosomal protein L13a; Provisional Back     alignment and domain information 
Probab=100.00  E-value=1.1e-61  Score=403.73  Aligned_cols=152  Identities=65%  Similarity=1.121  Sum_probs=148.5

Q ss_pred             ceeEEEEeCCCCCchhHHHHHHHHHhCCCEEEEEecCcccccCccchhhhHhhhhhhcccccCCCCCCCCcCCcchhHHH
Q 030330            8 CAKRVVVDARHHMLGRLASIVAKELLNGQKVVAVRCEEICMSGGLVRQKMKYMRFLRKRMNTKPSHGPIHFRAPAKIFWR   87 (179)
Q Consensus         8 ~~~w~VIDA~g~iLGRLAS~VAk~Ll~Gd~VVVVNaeki~isG~k~~~K~~y~~~l~kr~~g~Pg~g~~~~r~P~~Il~r   87 (179)
                      ..+|+||||+||+||||||+||+.|++||+|||||||+|+|||+++++|.||+++++++++.||..||+|+|+|++||++
T Consensus         2 ~~~w~vIDA~g~vLGRLAS~VAk~Ll~Gd~VVVVNaeki~iTG~k~~~K~~y~~~lk~~~~~nP~~g~~~~r~P~~Il~r   81 (202)
T PTZ00068          2 FKKVIVIDCKGHLLGRLASVVAKELLLGQKIVVVRCEDLNISGSLFRNKVKYEEFLRKRMNTNPRRGPFHHRAPSDIFWR   81 (202)
T ss_pred             CCceEEEECCCCcHHHHHHHHHHHHhCCCEEEEEecceeEeecchhhheeeeEeeeEeeccCCCCcchhcccCHHHHHHH
Confidence            35799999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHhccCCCCChhHHHHhccCceecCCCCChhhhccccCCchhhhhhcCCCCCeEEhhhhhHhhCccccceEE
Q 030330           88 TVRGMIPHKTKRGAAALARLKAYEGVPAPYDKVKRMVIPDALKVLRLQKGHKYCLLGRLASEVGWNYYDTIR  159 (179)
Q Consensus        88 aVrGMLPkkn~~Gr~al~rLkvy~G~p~p~~~qk~~~~P~al~~~~l~~~~k~~~lGel~~~~Gwk~~~v~~  159 (179)
                      ||||||||||++|+++|+||+||+|+||||++++++++|+|+++.+++|+++||||||||++|||||++||+
T Consensus        82 aVrGMLPkk~~~Gr~alkrLkVy~G~php~~~~k~~vvp~A~r~~rl~~~~ky~~lg~ls~~vGwky~~vv~  153 (202)
T PTZ00068         82 TVRGMLPHKTKRGAAALKRLKVFEGVPAPYDKVKRVVIPSALRVLRLKPERPYTVLGDLSAHVGWKYADVVA  153 (202)
T ss_pred             HHhhhCCCCChhHHHHHhCCEEecCCCCchhccCcccccchhhhhccCCCCceeeHHHHHHHhCccHHHHHH
Confidence            999999999999999999999999999999999999999999999999999999999999999999999874

>TIGR01077 L13_A_E ribosomal protein L13, archaeal/eukaryotic Back     alignment and domain information
>PRK06394 rpl13p 50S ribosomal protein L13P; Reviewed Back     alignment and domain information
>PRK09216 rplM 50S ribosomal protein L13; Reviewed Back     alignment and domain information
>TIGR01066 rplM_bact ribosomal protein L13, bacterial type Back     alignment and domain information
>COG0102 RplM Ribosomal protein L13 [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>CHL00159 rpl13 ribosomal protein L13; Validated Back     alignment and domain information
>KOG3204 consensus 60S ribosomal protein L13a [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>PF00572 Ribosomal_L13: Ribosomal protein L13; InterPro: IPR005822 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms Back     alignment and domain information
>PLN00205 ribisomal protein L13 family protein; Provisional Back     alignment and domain information
>cd00392 Ribosomal_L13 Ribosomal protein L13 Back     alignment and domain information
>KOG3203 consensus Mitochondrial/chloroplast ribosomal protein L13 [Translation, ribosomal structure and biogenesis] Back     alignment and domain information

Homologous Structure Templates

Structure Templates Detected by BLAST ?

Original result of BLAST against Protein Data Bank

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query179
3izr_K206 Localization Of The Large Subunit Ribosomal Protein 9e-77
2zkr_j203 Structure Of A Mammalian Ribosomal 60s Subunit With 2e-46
3izs_K199 Localization Of The Large Subunit Ribosomal Protein 1e-43
1s1i_M146 Structure Of The Ribosomal 80s-Eef2-Sordarin Comple 3e-41
3jyw_M178 Structure Of The 60s Proteins For Eukaryotic Riboso 3e-41
4a17_I198 T.Thermophila 60s Ribosomal Subunit In Complex With 2e-40
4b6a_O217 Cryo-Em Structure Of The 60s Ribosomal Subunit In C 1e-33
3u5i_O217 The Structure Of The Eukaryotic Ribosome At 3.0 A R 2e-33
3zf7_O222 High-resolution Cryo-electron Microscopy Structure 2e-28
1ffk_G145 Crystal Structure Of The Large Ribosomal Subunit Fr 2e-12
3g4s_J142 Co-Crystal Structure Of Tiamulin Bound To The Large 2e-12
3j21_I142 Promiscuous Behavior Of Proteins In Archaeal Riboso 1e-11
1j3a_A142 Crystal Structure Of Ribosomal Protein L13 From Pyr 2e-11
>pdb|3IZR|K Chain K, Localization Of The Large Subunit Ribosomal Proteins Into A 5.5 A Cryo-Em Map Of Triticum Aestivum Translating 80s Ribosome Length = 206 Back     alignment and structure 
Iteration: 1

 Score =  282 bits (721), Expect = 9e-77,   Method: Compositional matrix adjust.
 Identities = 132/159 (83%), Positives = 140/159 (88%)
Query: 1   MVSGSGICAKRVVVDARHHMLGRLASIVAKELLNGQKVVAVRCEEICMSGGLVRQKMKYM 60
           MVSGSG+CAKRVVVDARHHMLGRLASIVAKELLNGQ+VV VRCEEICMSGGLVRQKMKY+
Sbjct: 1   MVSGSGVCAKRVVVDARHHMLGRLASIVAKELLNGQRVVVVRCEEICMSGGLVRQKMKYL 60
Query: 61  RFLRKRMNTKPSHGPIHFRAPAKIFWRTVRGMIPHKTXXXXXXXXXXXXYEGVPAPYDKV 120
           RFLRKRMNTKPSHGPIHFRAPAKI WRT+RGMIPHKT            YEGVP PYD+ 
Sbjct: 61  RFLRKRMNTKPSHGPIHFRAPAKILWRTIRGMIPHKTARGEAALARLKAYEGVPPPYDRT 120
Query: 121 KRMVIPDALKVLRLQKGHKYCLLGRLASEVGWNYYDTIR 159
           KRMVIPDALKVLRLQ GH+YCLLG+L+ EVGWNY DTIR
Sbjct: 121 KRMVIPDALKVLRLQPGHRYCLLGQLSKEVGWNYADTIR 159
>pdb|2ZKR|JJ Chain j, Structure Of A Mammalian Ribosomal 60s Subunit Within An 80s Complex Obtained By Docking Homology Models Of The Rna And Proteins Into An 8.7 A Cryo-Em Map Length = 203 Back     alignment and structure
>pdb|3IZS|K Chain K, Localization Of The Large Subunit Ribosomal Proteins Into A 6.1 A Cryo-Em Map Of Saccharomyces Cerevisiae Translating 80s Ribosome Length = 199 Back     alignment and structure
>pdb|1S1I|M Chain M, Structure Of The Ribosomal 80s-Eef2-Sordarin Complex From Yeast Obtained By Docking Atomic Models For Rna And Protein Components Into A 11.7 A Cryo-Em Map. This File, 1s1i, Contains 60s Subunit. The 40s Ribosomal Subunit Is In File 1s1h Length = 146 Back     alignment and structure
>pdb|3JYW|M Chain M, Structure Of The 60s Proteins For Eukaryotic Ribosome Based On Cryo-Em Map Of Thermomyces Lanuginosus Ribosome At 8.9a Resolution Length = 178 Back     alignment and structure
>pdb|4A17|I Chain I, T.Thermophila 60s Ribosomal Subunit In Complex With Initiation Factor 6. This File Contains 5s Rrna, 5.8s Rrna And Proteins Of Molecule 2. Length = 198 Back     alignment and structure
>pdb|3ZF7|O Chain O, High-resolution Cryo-electron Microscopy Structure Of The Trypanosoma Brucei Ribosome Length = 222 Back     alignment and structure
>pdb|1FFK|G Chain G, Crystal Structure Of The Large Ribosomal Subunit From Haloarcula Marismortui At 2.4 Angstrom Resolution Length = 145 Back     alignment and structure
>pdb|3G4S|J Chain J, Co-Crystal Structure Of Tiamulin Bound To The Large Ribosomal Subunit Length = 142 Back     alignment and structure
>pdb|3J21|I Chain I, Promiscuous Behavior Of Proteins In Archaeal Ribosomes Revealed By Cryo-em: Implications For Evolution Of Eukaryotic Ribosomes (50s Ribosomal Proteins) Length = 142 Back     alignment and structure
>pdb|1J3A|A Chain A, Crystal Structure Of Ribosomal Protein L13 From Pyrococcus Horikoshii Length = 142 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 ?
Query179
1j3a_A142 50S ribosomal protein L13P; rRNA binding, ribosoma 2e-70
3jyw_M178 60S ribosomal protein L16(A); eukaryotic ribosome, 2e-65
3iz5_K206 60S ribosomal protein L13A (L13P); eukaryotic ribo 8e-64
1vq8_J145 50S ribosomal protein L13P; ribosome 50S, protein- 2e-63
4a17_I198 RPL13A, 60S ribosomal protein L13A; eukaryotic rib 1e-62
3izc_K199 60S ribosomal protein RPL16 (L13P); eukaryotic rib 4e-61
2zkr_j203 60S ribosomal protein L13A; protein-RNA complex, 6 6e-57
2ftc_H148 L13MT, MRP-L13, 39S ribosomal protein L13, mitocho 1e-09
3r8s_J142 50S ribosomal protein L13; protein biosynthesis, R 6e-09
3v2d_N140 50S ribosomal protein L13; ribosome associated inh 7e-09
3f1f_N163 50S ribosomal protein L13; RF2, ribosome, terminat 1e-08
2zjr_G174 50S ribosomal protein L13; ribosome, large ribosom 1e-08
3bbo_L250 Ribosomal protein L13; large ribosomal subunit, sp 6e-08
>1j3a_A 50S ribosomal protein L13P; rRNA binding, ribosomal assembly, ribosome; 1.60A {Pyrococcus horikoshii} SCOP: c.21.1.1 Length = 142 Back     alignment and structure
 Score =  209 bits (533), Expect = 2e-70
 Identities = 50/143 (34%), Positives = 74/143 (51%), Gaps = 2/143 (1%)

Query: 12  VVVDARHHMLGRLASIVAKELLNGQKVVAVRCEEICMSGGLVRQKMKYMRFLRKRMNTKP 71
            +++A   +LGRLAS VAK LL G++VV V  E+  ++G       KY +    R  T P
Sbjct: 2   RIINADGLILGRLASRVAKMLLEGEEVVIVNAEKAVITGNREVIFSKYKQRTGLRTLTNP 61

Query: 72  SHGPIHFRAPAKIFWRTVRGMIPHKTKRGAAALARLKAYEGVPAPYDKVKRMVIPDALKV 131
             GP + +   +I  RT+RGM+P KT RG  A  RLK Y G+P  +   +   I +A   
Sbjct: 62  RRGPFYPKRSDEIVRRTIRGMLPWKTDRGRKAFRRLKVYVGIPKEFQDKQLETIVEAHVS 121

Query: 132 LRLQKGHKYCLLGRLASEVGWNY 154
              +   KY  +G +A  +G  +
Sbjct: 122 RLSRP--KYVTVGEVAKFLGGKF 142
>3jyw_M 60S ribosomal protein L16(A); eukaryotic ribosome, RACK1 protein, flexible fitting; 8.90A {Thermomyces lanuginosus} PDB: 1s1i_M Length = 178 Back     alignment and structure
>1vq8_J 50S ribosomal protein L13P; 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: c.21.1.1 PDB: 1giy_M 1jj2_I 1k73_K* 1k8a_K* 1k9m_K* 1kc8_K* 1kd1_K* 1kqs_I* 1m1k_K* 1m90_K* 1ml5_m* 1n8r_K* 1nji_K* 1q7y_K* 1q81_K* 1q82_K* 1q86_K* 1qvf_I 1qvg_I 1s72_J* ... Length = 145 Back     alignment and structure
>4a17_I RPL13A, 60S ribosomal protein L13A; eukaryotic ribosome, ribosome, eukaryotic initiation factor 60S, translation, large ribosomal subunit; 3.52A {Tetrahymena thermophila} PDB: 4a1a_I 4a1c_I 4a1e_I Length = 198 Back     alignment and structure
>2zkr_j 60S ribosomal protein L13A; protein-RNA complex, 60S ribosomal subunit, ribosomal protein/RNA complex; 8.70A {Canis familiaris} Length = 203 Back     alignment and structure
>2ftc_H L13MT, MRP-L13, 39S ribosomal protein L13, mitochondrial; mitochondrial ribosome, large ribosomal subunit, ribosomal R ribosome; 12.10A {Bos taurus} Length = 148 Back     alignment and structure
>3r8s_J 50S ribosomal protein L13; protein biosynthesis, RNA, tRNA, transfer RNA, 23S ribosomal subunit, ribosome recycling factor, RRF, ribosome; 3.00A {Escherichia coli} PDB: 1p85_H 1p86_H 1vs8_J 1vs6_J 2aw4_J 2awb_J 2gya_H 2gyc_H 1vt2_J 2i2v_J 2i2t_J* 2qao_J* 2qba_J* 2qbc_J* 2qbe_J 2qbg_J 2qbi_J* 2qbk_J* 2qov_J 2qox_J ... Length = 142 Back     alignment and structure
>3v2d_N 50S ribosomal protein L13; ribosome associated inhibitor A, RAIA, protein Y, stress RES stationary phase, ribosome hibernation, ribosome; 2.70A {Thermus thermophilus} PDB: 2hgq_M 2hgj_M 2hgu_M 2j03_N 2jl6_N 2jl8_N 2v47_N 2v49_N 2wdi_N 2wdj_N 2wdl_N 2wdn_N 2wh2_N 2wh4_N 2wrj_N 2wrl_N 2wro_N 2wrr_N 2x9s_N 2x9u_N ... Length = 140 Back     alignment and structure
>3f1f_N 50S ribosomal protein L13; RF2, ribosome, termination, tRNA; 3.00A {Thermus thermophilus} PDB: 1vsa_H 3d5d_N 3d5b_N 3f1h_N Length = 163 Back     alignment and structure
>2zjr_G 50S ribosomal protein L13; ribosome, large ribosomal subunit, ribonucleoprotein, RNA-binding, rRNA-binding, tRNA-binding, methylation; 2.91A {Deinococcus radiodurans} SCOP: c.21.1.1 PDB: 1nwx_H* 1nwy_H* 1sm1_H* 1xbp_H* 2zjp_G* 2zjq_G 1nkw_H 3cf5_G* 3dll_G* 3pio_G* 3pip_G* 1pnu_H 1pny_H 1vor_K 1vou_K 1vow_K 1voy_K 1vp0_K Length = 174 Back     alignment and structure
>3bbo_L Ribosomal protein L13; large ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Spinacea oleracea} SCOP: i.1.1.1 Length = 250 Back     alignment and structure

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query179
3iz5_K206 60S ribosomal protein L13A (L13P); eukaryotic ribo 100.0
4a17_I198 RPL13A, 60S ribosomal protein L13A; eukaryotic rib 100.0
4b6a_O199 60S ribosomal protein L16-A; large ribosomal subun 100.0
2zkr_j203 60S ribosomal protein L13A; protein-RNA complex, 6 100.0
3jyw_M178 60S ribosomal protein L16(A); eukaryotic ribosome, 100.0
1j3a_A142 50S ribosomal protein L13P; rRNA binding, ribosoma 100.0
1vq8_J145 50S ribosomal protein L13P; ribosome 50S, protein- 100.0
3r8s_J142 50S ribosomal protein L13; protein biosynthesis, R 100.0
3v2d_N140 50S ribosomal protein L13; ribosome associated inh 100.0
2ftc_H148 L13MT, MRP-L13, 39S ribosomal protein L13, mitocho 100.0
2zjr_G174 50S ribosomal protein L13; ribosome, large ribosom 100.0
3f1f_N163 50S ribosomal protein L13; RF2, ribosome, terminat 100.0
3bbo_L250 Ribosomal protein L13; large ribosomal subunit, sp 100.0
>4a17_I RPL13A, 60S ribosomal protein L13A; eukaryotic ribosome, ribosome, eukaryotic initiation factor 60S, translation, large ribosomal subunit; 3.52A {Tetrahymena thermophila} PDB: 4a1a_I 4a1c_I 4a1e_I Back     alignment and structure
>2zkr_j 60S ribosomal protein L13A; protein-RNA complex, 60S ribosomal subunit, ribosomal protein/RNA complex; 8.70A {Canis familiaris} Back     alignment and structure
>3jyw_M 60S ribosomal protein L16(A); eukaryotic ribosome, RACK1 protein, flexible fitting; 8.90A {Thermomyces lanuginosus} Back     alignment and structure
>1j3a_A 50S ribosomal protein L13P; rRNA binding, ribosomal assembly, ribosome; 1.60A {Pyrococcus horikoshii} SCOP: c.21.1.1 Back     alignment and structure
>1vq8_J 50S ribosomal protein L13P; 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: c.21.1.1 PDB: 1giy_M 1jj2_I 1k73_K* 1k8a_K* 1k9m_K* 1kc8_K* 1kd1_K* 1kqs_I* 1m1k_K* 1m90_K* 1ml5_m* 1n8r_K* 1nji_K* 1q7y_K* 1q81_K* 1q82_K* 1q86_K* 1qvf_I 1qvg_I 1s72_J* ... Back     alignment and structure
>3r8s_J 50S ribosomal protein L13; protein biosynthesis, RNA, tRNA, transfer RNA, 23S ribosomal subunit, ribosome recycling factor, RRF, ribosome; 3.00A {Escherichia coli} PDB: 1p85_H 1p86_H 1vs8_J 1vs6_J 2aw4_J 2awb_J 2gya_H 2gyc_H 1vt2_J 2i2v_J 2i2t_J* 2qao_J* 2qba_J* 2qbc_J* 2qbe_J 2qbg_J 2qbi_J* 2qbk_J* 2qov_J 2qox_J ... Back     alignment and structure
>3v2d_N 50S ribosomal protein L13; ribosome associated inhibitor A, RAIA, protein Y, stress RES stationary phase, ribosome hibernation, ribosome; 2.70A {Thermus thermophilus} PDB: 2hgq_M 2hgj_M 2hgu_M 2j03_N 2jl6_N 2jl8_N 2v47_N 2v49_N 2wdi_N 2wdj_N 2wdl_N 2wdn_N 2wh2_N 2wh4_N 2wrj_N 2wrl_N 2wro_N 2wrr_N 2x9s_N 2x9u_N ... Back     alignment and structure
>2ftc_H L13MT, MRP-L13, 39S ribosomal protein L13, mitochondrial; mitochondrial ribosome, large ribosomal subunit, ribosomal R ribosome; 12.10A {Bos taurus} Back     alignment and structure
>2zjr_G 50S ribosomal protein L13; ribosome, large ribosomal subunit, ribonucleoprotein, RNA-binding, rRNA-binding, tRNA-binding, methylation; 2.91A {Deinococcus radiodurans} SCOP: c.21.1.1 PDB: 1nwx_H* 1nwy_H* 1sm1_H* 1xbp_H* 2zjp_G* 2zjq_G 1nkw_H 3cf5_G* 3dll_G* 3pio_G* 3pip_G* 1pnu_H 1pny_H 1vor_K 1vou_K 1vow_K 1voy_K 1vp0_K Back     alignment and structure
>3f1f_N 50S ribosomal protein L13; RF2, ribosome, termination, tRNA; 3.00A {Thermus thermophilus} PDB: 1vsa_H 3d5d_N 3d5b_N 3f1h_N Back     alignment and structure
>3bbo_L Ribosomal protein L13; large ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Spinacea oleracea} SCOP: i.1.1.1 Back     alignment and structure

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST ?

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

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query 179
d1vqoj1142 c.21.1.1 (J:4-145) Ribosomal protein L13 {Archaeon 4e-45
d1j3aa_142 c.21.1.1 (A:) Ribosomal protein L13 {Archaeon Pyro 4e-43
d2zjrg1142 c.21.1.1 (G:30-171) Ribosomal protein L13 {Deinoco 2e-24
d2gych1140 c.21.1.1 (H:1-140) Ribosomal protein L13 {Escheric 1e-23
d2j01n1139 c.21.1.1 (N:1-139) Ribosomal protein L13 {Thermus 2e-23
>d1vqoj1 c.21.1.1 (J:4-145) Ribosomal protein L13 {Archaeon Haloarcula marismortui [TaxId: 2238]} Length = 142 Back     information, alignment and structure

class: Alpha and beta proteins (a/b)
fold: Ribosomal protein L13
superfamily: Ribosomal protein L13
family: Ribosomal protein L13
domain: Ribosomal protein L13
species: Archaeon Haloarcula marismortui [TaxId: 2238]

 Score =  143 bits (362), Expect = 4e-45
 Identities = 46/144 (31%), Positives = 78/144 (54%), Gaps = 9/144 (6%)

Query: 10  KRVVVDARHHMLGRLASIVAKELLNGQKVVAVRCEEICMSGGLVRQKMKYMRFLRKRMNT 69
             V+VDAR  ++GR+AS VA++ L+G+ V  V  E   ++G    ++ + +    KR++ 
Sbjct: 5   ADVIVDARDCIMGRVASQVAEQALDGETVAVVNAERAVITG----REEQIVEKYEKRVDI 60

Query: 70  KPSHGPIHFRAPAKIFWRTVRGMIPHKTKRGAAALARLKAYEGVPAPYDKVKRMVIPDAL 129
              +G  + + P  IF RT+RGM+PHK +RG  A   ++ Y G   PYD+   ++   +L
Sbjct: 61  GNDNGYFYPKRPDGIFKRTIRGMLPHKKQRGREAFESVRVYLG--NPYDEDGEVLDGTSL 118

Query: 130 KVLRLQKGHKYCLLGRLASEVGWN 153
             L      K+  LG ++  +G N
Sbjct: 119 DRL---SNIKFVTLGEISETLGAN 139
>d1j3aa_ c.21.1.1 (A:) Ribosomal protein L13 {Archaeon Pyrococcus horikoshii [TaxId: 53953]} Length = 142 Back     information, alignment and structure
>d2zjrg1 c.21.1.1 (G:30-171) Ribosomal protein L13 {Deinococcus radiodurans [TaxId: 1299]} Length = 142 Back     information, alignment and structure
>d2gych1 c.21.1.1 (H:1-140) Ribosomal protein L13 {Escherichia coli [TaxId: 562]} Length = 140 Back     information, alignment and structure
>d2j01n1 c.21.1.1 (N:1-139) Ribosomal protein L13 {Thermus thermophilus [TaxId: 274]} Length = 139 Back     information, alignment and structure

Homologous Domains Detected by HHsearch ?

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

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query179
d1vqoj1142 Ribosomal protein L13 {Archaeon Haloarcula marismo 100.0
d1j3aa_142 Ribosomal protein L13 {Archaeon Pyrococcus horikos 100.0
d2zjrg1142 Ribosomal protein L13 {Deinococcus radiodurans [Ta 100.0
d2j01n1139 Ribosomal protein L13 {Thermus thermophilus [TaxId 100.0
d2gych1140 Ribosomal protein L13 {Escherichia coli [TaxId: 56 100.0
>d1vqoj1 c.21.1.1 (J:4-145) Ribosomal protein L13 {Archaeon Haloarcula marismortui [TaxId: 2238]} Back     information, alignment and structure
class: Alpha and beta proteins (a/b)
fold: Ribosomal protein L13
superfamily: Ribosomal protein L13
family: Ribosomal protein L13
domain: Ribosomal protein L13
species: Archaeon Haloarcula marismortui [TaxId: 2238]

Probab=100.00  E-value=2.4e-53  Score=334.49  Aligned_cols=137  Identities=34%  Similarity=0.504  Sum_probs=124.0

Q ss_pred             ccceeEEEEeCCCCCchhHHHHHHHHHhCCCEEEEEecCcccccCccchhhhHhhhhhhcccccCCCC--CCCCcCCcch
Q 030330            6 GICAKRVVVDARHHMLGRLASIVAKELLNGQKVVAVRCEEICMSGGLVRQKMKYMRFLRKRMNTKPSH--GPIHFRAPAK   83 (179)
Q Consensus         6 ~~~~~w~VIDA~g~iLGRLAS~VAk~Ll~Gd~VVVVNaeki~isG~k~~~K~~y~~~l~kr~~g~Pg~--g~~~~r~P~~   83 (179)
                      +|+ +|+||||+||+||||||+||+.|++||+|||||||+|.+||+|++++.||+      |++||++  +++++++|++
T Consensus         2 ~~~-k~ivIDA~~~~lGRLAs~vAk~l~~Gd~ViVvNaeki~itG~k~~~k~~y~------~~~~~g~~kg~~~~r~P~~   74 (142)
T d1vqoj1           2 EFD-ADVIVDARDCIMGRVASQVAEQALDGETVAVVNAERAVITGREEQIVEKYE------KRVDIGNDNGYFYPKRPDG   74 (142)
T ss_dssp             CCC-CSEEEECTTBBHHHHHHHHHHHHHTTCCEEEECGGGCEEESCHHHHHHHHH------HHHHCCCSSCCCCCCSHHH
T ss_pred             Ccc-ceEEEECCCCchHHHHHHHHHHhcCCCEEEEEEChhhcccCcchhhhheee------eeecCCCccceehhcCHHH
Confidence            344 789999999999999999999999999999999999999999999999997      6777765  9999999999


Q ss_pred             hHHHHHhccCCCCChhHHHHhccCceecCCCCChhhhccccCCchhhhhhcCCCCCeEEhhhhhHhhCccc
Q 030330           84 IFWRTVRGMIPHKTKRGAAALARLKAYEGVPAPYDKVKRMVIPDALKVLRLQKGHKYCLLGRLASEVGWNY  154 (179)
Q Consensus        84 Il~raVrGMLPkkn~~Gr~al~rLkvy~G~p~p~~~qk~~~~P~al~~~~l~~~~k~~~lGel~~~~Gwk~  154 (179)
                      ||++|||||||+||++|+++|+||+||.|+||||++|+    |......+++ .+|||||||||+++||+.
T Consensus        75 il~raVrGMLP~k~~~gr~~~krLkvy~G~~h~~~~q~----~~~~~~~~~~-~~k~v~lgels~~lGw~~  140 (142)
T d1vqoj1          75 IFKRTIRGMLPHKKQRGREAFESVRVYLGNPYDEDGEV----LDGTSLDRLS-NIKFVTLGEISETLGANK  140 (142)
T ss_dssp             HHHHHHHTTTTTTSHHHHHHHTTEEECSSCCSSSCCBC----CTTCBCCTTT-CCSEEEHHHHHHHHTCCC
T ss_pred             HHHHHHhCcCCCCChhHHHHHhCcEEeCCCCCccccCc----CChhhhhccC-CCceEEHHHHHHHhCCCC
Confidence            99999999999889999999999999999999999886    4433444554 679999999999999984
>d1j3aa_ c.21.1.1 (A:) Ribosomal protein L13 {Archaeon Pyrococcus horikoshii [TaxId: 53953]} Back     information, alignment and structure
>d2zjrg1 c.21.1.1 (G:30-171) Ribosomal protein L13 {Deinococcus radiodurans [TaxId: 1299]} Back     information, alignment and structure
>d2j01n1 c.21.1.1 (N:1-139) Ribosomal protein L13 {Thermus thermophilus [TaxId: 274]} Back     information, alignment and structure
>d2gych1 c.21.1.1 (H:1-140) Ribosomal protein L13 {Escherichia coli [TaxId: 562]} Back     information, alignment and structure