Citrus Sinensis ID: 030391

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
MGFVGVLLTPRHPPLTCRFLWDIWNNTWYPKAADHRHSDKTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNAEKVAVSGKKRTQKIYRRHSGRPGGMKEETFDQLQHRIPERIIEHAVRGMLPKGRLGRELFTHLKVYKGPNHPHEAQQPIELPIRDKRIQKQR
ccEEEEEEEcccccccHHHHHHHHHcccccccccccccccEEEEEEcccccHHHHHHHHHHHHccccccccccccccccEEEEEEcccEEEEcccccccEEEEccccccccccccHHHHHHHccHHHHHHHHHccccccHHHHHHHHcccEEccccccccccccEEEEcccccccccc
cccEEEEEcccccccHccHHHHHHHcccccccccccHEEEEEEEEEcccccHHHHHHHHHHHHHcccccccccccccccEEEEEEccEEEEEcccccccEEEEcccccccccHccHHHHHHcccHHHHHHHHHcccccccHHHHHHHHcEEEcccccccccccccEEEEccccHEccc
mgfvgvlltprhppltcrflwdiwnntwypkaadhrhsdktwyvVDATDKILGRLASTIAIHIRgknlatytpsvdmGAYVIVVNAEKVAVSGKKRTQKIYrrhsgrpggmkeeTFDQLQHRIPERIIEHAVRgmlpkgrlgRELFTHLkvykgpnhpheaqqpielpirdkriqkqr
MGFVGVLltprhpplTCRFLWDIWNNTWYPKAADHRHSDKTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNAekvavsgkkrtqkiyrrhsgrpggmkeETFDQLQHRIPERIIEHAVRGMLPKGRLGRELFTHLKVYKgpnhpheaqqpielpirdkrIQKQR
MGFVGVLLTPRHPPLTCRFLWDIWNNTWYPKAADHRHSDKTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNAEKVAVSGKKRTQKIYRRHSGRPGGMKEETFDQLQHRIPERIIEHAVRGMLPKGRLGRELFTHLKVYKGPNHPHEAQQPIELPIRDKRIQKQR
**FVGVLLTPRHPPLTCRFLWDIWNNTWYPKAADHRHSDKTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNAEKVAVS****************************HRIPERIIEHAVRGMLPKGRLGRELFTHLKVYK*************************
*****VLLTPRHPPLTCRFLWDIWNNTWYPKAADHRHSDKTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNAEKVAVSGKKRTQKIYRRHSGRPGGMKEETFDQLQHRIPERIIEHAVRGMLPKGRLGRELFTHLKVYKGPNHPHEAQQPIELPI**K******
MGFVGVLLTPRHPPLTCRFLWDIWNNTWYPKAADHRHSDKTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNAEKVAVSGKKRTQKIYRRHSGRPGGMKEETFDQLQHRIPERIIEHAVRGMLPKGRLGRELFTHLKVYKGPNHPHEAQQPIELPIRDKRIQKQR
*GFVGVLLTPRHPPLTCRFLWDIWNNTWYPKAADHRHSDKTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNAEKVAVSGKKRTQKIYRRHSGRPGGMKEETFDQLQHRIPERIIEHAVRGMLPKGRLGRELFTHLKVYKGPNHPHEAQQPIELPIRDKR*****
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
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MGFVGVLLTPRHPPLTCRFLWDIWNNTWYPKAADHRHSDKTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNAEKVAVSGKKRTQKIYRRHSGRPGGMKEETFDQLQHRIPERIIEHAVRGMLPKGRLGRELFTHLKVYKGPNHPHEAQQPIELPIRDKRIQKQR
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 ?
Query178 2.2.26 [Sep-21-2011]
Q9SYL9241 50S ribosomal protein L13 yes no 0.882 0.651 0.847 2e-76
P12629250 50S ribosomal protein L13 N/A no 0.938 0.668 0.777 7e-76
Q3MF94151 50S ribosomal protein L13 yes no 0.735 0.867 0.732 2e-51
Q8YPK6151 50S ribosomal protein L13 yes no 0.735 0.867 0.725 6e-51
Q6H001151 50S ribosomal protein L13 N/A no 0.735 0.867 0.694 3e-50
B8HMT1149 50S ribosomal protein L13 yes no 0.803 0.959 0.657 8e-50
Q8DMK8152 50S ribosomal protein L13 yes no 0.719 0.842 0.726 4e-49
B1WQT8151 50S ribosomal protein L13 yes no 0.735 0.867 0.687 4e-49
B0JY35151 50S ribosomal protein L13 yes no 0.735 0.867 0.687 3e-48
B7K221151 50S ribosomal protein L13 yes no 0.724 0.854 0.682 3e-48
>sp|Q9SYL9|RK13_ARATH 50S ribosomal protein L13, chloroplastic OS=Arabidopsis thaliana GN=RPL13 PE=1 SV=1 Back     alignment and function desciption
 Score =  284 bits (727), Expect = 2e-76,   Method: Compositional matrix adjust.
 Identities = 133/157 (84%), Positives = 146/157 (92%)

Query: 22  DIWNNTWYPKAADHRHSDKTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYV 81
           DIWN TWYPKA+DH ++DK W+VVDATDKILGRLASTIA HIRGKNLA+YTPSVDMGA+V
Sbjct: 85  DIWNTTWYPKASDHVNTDKPWFVVDATDKILGRLASTIANHIRGKNLASYTPSVDMGAFV 144

Query: 82  IVVNAEKVAVSGKKRTQKIYRRHSGRPGGMKEETFDQLQHRIPERIIEHAVRGMLPKGRL 141
           IVVNAEKVAVSGKKR QK+YRRHSGRPGGM  ETFDQLQ RIPERI+EHAVRGMLPKGRL
Sbjct: 145 IVVNAEKVAVSGKKRNQKLYRRHSGRPGGMTVETFDQLQQRIPERIVEHAVRGMLPKGRL 204

Query: 142 GRELFTHLKVYKGPNHPHEAQQPIELPIRDKRIQKQR 178
           GR LF HLKVYKGP+HPHEAQ+P++LPIRDKRIQ Q+
Sbjct: 205 GRALFNHLKVYKGPDHPHEAQKPLDLPIRDKRIQLQK 241

Arabidopsis thaliana (taxid: 3702)
>sp|P12629|RK13_SPIOL 50S ribosomal protein L13, chloroplastic OS=Spinacia oleracea GN=RPL13 PE=1 SV=1 Back     alignment and function description
>sp|Q3MF94|RL13_ANAVT 50S ribosomal protein L13 OS=Anabaena variabilis (strain ATCC 29413 / PCC 7937) GN=rplM PE=3 SV=1 Back     alignment and function description
>sp|Q8YPK6|RL13_NOSS1 50S ribosomal protein L13 OS=Nostoc sp. (strain PCC 7120 / UTEX 2576) GN=rplM PE=3 SV=1 Back     alignment and function description
>sp|Q6H001|RL13_FREDI 50S ribosomal protein L13 OS=Fremyella diplosiphon GN=rplM PE=3 SV=2 Back     alignment and function description
>sp|B8HMT1|RL13_CYAP4 50S ribosomal protein L13 OS=Cyanothece sp. (strain PCC 7425 / ATCC 29141) GN=rplM PE=3 SV=1 Back     alignment and function description
>sp|Q8DMK8|RL13_THEEB 50S ribosomal protein L13 OS=Thermosynechococcus elongatus (strain BP-1) GN=rplM PE=3 SV=1 Back     alignment and function description
>sp|B1WQT8|RL13_CYAA5 50S ribosomal protein L13 OS=Cyanothece sp. (strain ATCC 51142) GN=rplM PE=3 SV=1 Back     alignment and function description
>sp|B0JY35|RL13_MICAN 50S ribosomal protein L13 OS=Microcystis aeruginosa (strain NIES-843) GN=rplM PE=3 SV=1 Back     alignment and function description
>sp|B7K221|RL13_CYAP8 50S ribosomal protein L13 OS=Cyanothece sp. (strain PCC 8801) GN=rplM PE=3 SV=1 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 ?
Query178
302142820 374 unnamed protein product [Vitis vinifera] 0.882 0.419 0.878 2e-78
118489447241 unknown [Populus trichocarpa x Populus d 0.926 0.684 0.820 1e-77
255582683245 50S ribosomal protein L13, putative [Ric 0.882 0.640 0.891 2e-77
225461790235 PREDICTED: 50S ribosomal protein L13, ch 0.882 0.668 0.878 2e-77
115439933233 Os01g0749200 [Oryza sativa Japonica Grou 0.870 0.665 0.877 3e-76
224114752174 predicted protein [Populus trichocarpa] 0.926 0.948 0.820 3e-76
388495444248 unknown [Lotus japonicus] 0.882 0.633 0.859 3e-76
242054425229 hypothetical protein SORBIDRAFT_03g03462 0.870 0.676 0.877 9e-76
449456559248 PREDICTED: 50S ribosomal protein L13, ch 0.882 0.633 0.853 2e-75
297839733242 EMB1473 [Arabidopsis lyrata subsp. lyrat 0.882 0.648 0.847 2e-75
>gi|302142820|emb|CBI20115.3| unnamed protein product [Vitis vinifera] Back     alignment and taxonomy information
 Score =  296 bits (758), Expect = 2e-78,   Method: Compositional matrix adjust.
 Identities = 138/157 (87%), Positives = 151/157 (96%)

Query: 22  DIWNNTWYPKAADHRHSDKTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYV 81
           DIWN TWYPKAADH +++KTWY+VDATDKILGRLASTIAI+IRGKNLATYTPSVDMG++V
Sbjct: 218 DIWNKTWYPKAADHINTEKTWYIVDATDKILGRLASTIAIYIRGKNLATYTPSVDMGSFV 277

Query: 82  IVVNAEKVAVSGKKRTQKIYRRHSGRPGGMKEETFDQLQHRIPERIIEHAVRGMLPKGRL 141
           IVVNAEKVAVSGKKRTQK+YRRHSGRPGGMK ETFDQLQ RIPERI+EHAVRGMLPKGRL
Sbjct: 278 IVVNAEKVAVSGKKRTQKLYRRHSGRPGGMKVETFDQLQQRIPERIVEHAVRGMLPKGRL 337

Query: 142 GRELFTHLKVYKGPNHPHEAQQPIELPIRDKRIQKQR 178
           GR LF HLKVYKGP+HPHEAQ+PI+LPIRDKRIQK+R
Sbjct: 338 GRALFNHLKVYKGPHHPHEAQKPIDLPIRDKRIQKER 374

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|118489447|gb|ABK96526.1| unknown [Populus trichocarpa x Populus deltoides] Back     alignment and taxonomy information
>gi|255582683|ref|XP_002532120.1| 50S ribosomal protein L13, putative [Ricinus communis] gi|223528200|gb|EEF30260.1| 50S ribosomal protein L13, putative [Ricinus communis] Back     alignment and taxonomy information
>gi|225461790|ref|XP_002285616.1| PREDICTED: 50S ribosomal protein L13, chloroplastic [Vitis vinifera] Back     alignment and taxonomy information
>gi|115439933|ref|NP_001044246.1| Os01g0749200 [Oryza sativa Japonica Group] gi|14209550|dbj|BAB56046.1| putative ribosomal protein L13 precursor [Oryza sativa Japonica Group] gi|113533777|dbj|BAF06160.1| Os01g0749200 [Oryza sativa Japonica Group] gi|125527707|gb|EAY75821.1| hypothetical protein OsI_03735 [Oryza sativa Indica Group] gi|125572024|gb|EAZ13539.1| hypothetical protein OsJ_03455 [Oryza sativa Japonica Group] gi|215679022|dbj|BAG96452.1| unnamed protein product [Oryza sativa Japonica Group] gi|215704294|dbj|BAG93134.1| unnamed protein product [Oryza sativa Japonica Group] gi|215704454|dbj|BAG93888.1| unnamed protein product [Oryza sativa Japonica Group] gi|215767344|dbj|BAG99572.1| unnamed protein product [Oryza sativa Japonica Group] Back     alignment and taxonomy information
>gi|224114752|ref|XP_002316846.1| predicted protein [Populus trichocarpa] gi|222859911|gb|EEE97458.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
>gi|388495444|gb|AFK35788.1| unknown [Lotus japonicus] Back     alignment and taxonomy information
>gi|242054425|ref|XP_002456358.1| hypothetical protein SORBIDRAFT_03g034620 [Sorghum bicolor] gi|241928333|gb|EES01478.1| hypothetical protein SORBIDRAFT_03g034620 [Sorghum bicolor] Back     alignment and taxonomy information
>gi|449456559|ref|XP_004146016.1| PREDICTED: 50S ribosomal protein L13, chloroplastic-like [Cucumis sativus] gi|449518653|ref|XP_004166351.1| PREDICTED: 50S ribosomal protein L13, chloroplastic-like [Cucumis sativus] Back     alignment and taxonomy information
>gi|297839733|ref|XP_002887748.1| EMB1473 [Arabidopsis lyrata subsp. lyrata] gi|297333589|gb|EFH64007.1| EMB1473 [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 ?
Query178
TAIR|locus:2203010241 emb1473 "embryo defective 1473 0.882 0.651 0.847 2.3e-71
UNIPROTKB|P0AA10142 rplM [Escherichia coli K-12 (t 0.730 0.915 0.592 8e-37
UNIPROTKB|P66065147 rplM "50S ribosomal protein L1 0.792 0.959 0.5 1.2e-35
TIGR_CMR|CPS_4443142 CPS_4443 "ribosomal protein L1 0.702 0.880 0.56 3.1e-35
UNIPROTKB|Q9KUF1142 rplM "50S ribosomal protein L1 0.730 0.915 0.584 5.1e-35
TIGR_CMR|VC_0570142 VC_0570 "ribosomal protein L13 0.730 0.915 0.584 5.1e-35
TIGR_CMR|SO_3940142 SO_3940 "ribosomal protein L13 0.730 0.915 0.569 1.7e-34
TIGR_CMR|GSU_2876143 GSU_2876 "ribosomal protein L1 0.780 0.972 0.503 1.1e-32
TIGR_CMR|BA_0143145 BA_0143 "ribosomal protein L13 0.707 0.868 0.507 1.4e-32
TIGR_CMR|SPO_1691152 SPO_1691 "ribosomal protein L1 0.780 0.914 0.468 6.9e-31
TAIR|locus:2203010 emb1473 "embryo defective 1473" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 722 (259.2 bits), Expect = 2.3e-71, P = 2.3e-71
 Identities = 133/157 (84%), Positives = 146/157 (92%)

Query:    22 DIWNNTWYPKAADHRHSDKTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYV 81
             DIWN TWYPKA+DH ++DK W+VVDATDKILGRLASTIA HIRGKNLA+YTPSVDMGA+V
Sbjct:    85 DIWNTTWYPKASDHVNTDKPWFVVDATDKILGRLASTIANHIRGKNLASYTPSVDMGAFV 144

Query:    82 IVVNAEKVAVSGKKRTQKIYRRHSGRPGGMKEETFDQLQHRIPERIIEHAVRGMLPKGRL 141
             IVVNAEKVAVSGKKR QK+YRRHSGRPGGM  ETFDQLQ RIPERI+EHAVRGMLPKGRL
Sbjct:   145 IVVNAEKVAVSGKKRNQKLYRRHSGRPGGMTVETFDQLQQRIPERIVEHAVRGMLPKGRL 204

Query:   142 GRELFTHLKVYKGPNHPHEAQQPIELPIRDKRIQKQR 178
             GR LF HLKVYKGP+HPHEAQ+P++LPIRDKRIQ Q+
Sbjct:   205 GRALFNHLKVYKGPDHPHEAQKPLDLPIRDKRIQLQK 241
GO:0003735 "structural constituent of ribosome" evidence=IEA;ISS
GO:0005840 "ribosome" evidence=ISS
GO:0006412 "translation" evidence=IEA;ISS
GO:0009507 "chloroplast" evidence=ISM;IDA
GO:0009793 "embryo development ending in seed dormancy" evidence=NAS
GO:0009579 "thylakoid" evidence=IDA
GO:0009570 "chloroplast stroma" evidence=IDA
GO:0009941 "chloroplast envelope" evidence=IDA
GO:0045036 "protein targeting to chloroplast" evidence=RCA
UNIPROTKB|P0AA10 rplM [Escherichia coli K-12 (taxid:83333)] Back     alignment and assigned GO terms
UNIPROTKB|P66065 rplM "50S ribosomal protein L13" [Mycobacterium tuberculosis (taxid:1773)] Back     alignment and assigned GO terms
TIGR_CMR|CPS_4443 CPS_4443 "ribosomal protein L13" [Colwellia psychrerythraea 34H (taxid:167879)] Back     alignment and assigned GO terms
UNIPROTKB|Q9KUF1 rplM "50S ribosomal protein L13" [Vibrio cholerae O1 biovar El Tor str. N16961 (taxid:243277)] Back     alignment and assigned GO terms
TIGR_CMR|VC_0570 VC_0570 "ribosomal protein L13" [Vibrio cholerae O1 biovar El Tor (taxid:686)] Back     alignment and assigned GO terms
TIGR_CMR|SO_3940 SO_3940 "ribosomal protein L13" [Shewanella oneidensis MR-1 (taxid:211586)] Back     alignment and assigned GO terms
TIGR_CMR|GSU_2876 GSU_2876 "ribosomal protein L13" [Geobacter sulfurreducens PCA (taxid:243231)] Back     alignment and assigned GO terms
TIGR_CMR|BA_0143 BA_0143 "ribosomal protein L13" [Bacillus anthracis str. Ames (taxid:198094)] Back     alignment and assigned GO terms
TIGR_CMR|SPO_1691 SPO_1691 "ribosomal protein L13" [Ruegeria pomeroyi DSS-3 (taxid:246200)] 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) ?
B0JY35RL13_MICANNo assigned EC number0.68700.73590.8675yesno
C4ZI85RL13_EUBR3No assigned EC number0.59680.72470.9084yesno
Q0ID31RL13_SYNS3No assigned EC number0.62590.73590.8733yesno
A2BTB2RL13_PROMSNo assigned EC number0.65890.72470.9020yesno
Q110D4RL13_TRIEINo assigned EC number0.66410.73590.8675yesno
A8GK03RL13_SERP5No assigned EC number0.60.73030.9154yesno
A5IAL7RL13_LEGPCNo assigned EC number0.56060.74150.9166yesno
Q5N0T9RL13_SYNP6No assigned EC number0.60950.80330.9470yesno
Q67JX6RL13_SYMTHNo assigned EC number0.55470.76960.9580yesno
Q9SYL9RK13_ARATHNo assigned EC number0.84710.88200.6514yesno
Q2JUJ8RL13_SYNJANo assigned EC number0.67960.71910.8476yesno
Q5Z1I0RL13_NOCFANo assigned EC number0.53470.79210.9591yesno
Q2JL71RL13_SYNJBNo assigned EC number0.67180.71910.8476yesno
B7KI14RL13_CYAP7No assigned EC number0.67170.73590.8675yesno
A5GVY6RL13_SYNR3No assigned EC number0.62690.70780.84yesno
A8G736RL13_PROM2No assigned EC number0.63560.72470.9020yesno
Q7U4H5RL13_SYNPXNo assigned EC number0.61060.73590.8733yesno
A0QSP8RL13_MYCS2No assigned EC number0.52080.79210.9591yesno
Q46IT5RL13_PROMTNo assigned EC number0.59420.77520.92yesno
A2BYR0RL13_PROM5No assigned EC number0.65110.72470.9020yesno
A1JR94RL13_YERE8No assigned EC number0.60.73030.9154yesno
A2CC54RL13_PROM3No assigned EC number0.58010.73590.8733yesno
Q8DMK8RL13_THEEBNo assigned EC number0.72650.71910.8421yesno
Q3MF94RL13_ANAVTNo assigned EC number0.73280.73590.8675yesno
Q7V9Y8RL13_PROMANo assigned EC number0.58690.77520.92yesno
Q7V521RL13_PROMMNo assigned EC number0.58010.73590.8733yesno
Q31L33RL13_SYNE7No assigned EC number0.60950.80330.9470yesno
Q3AMQ6RL13_SYNSCNo assigned EC number0.61240.72470.86yesno
Q1QVF0RL13_CHRSDNo assigned EC number0.59370.71910.9014yesno
B1XJI1RL13_SYNP2No assigned EC number0.70220.73590.8675yesno
A2C4X4RL13_PROM1No assigned EC number0.59420.77520.92yesno
Q7UZW8RL13_PROMPNo assigned EC number0.64340.72470.9020yesno
A3PF22RL13_PROM0No assigned EC number0.65110.72470.9020yesno
B4RXK9RL13_ALTMDNo assigned EC number0.59230.73030.9154yesno
A5GIR9RL13_SYNPWNo assigned EC number0.60300.73590.8733yesno
B7K221RL13_CYAP8No assigned EC number0.68210.72470.8543yesno
Q318L0RL13_PROM9No assigned EC number0.65110.72470.9020yesno
P12629RK13_SPIOLNo assigned EC number0.77710.93820.668N/Ano
Q3AW67RL13_SYNS9No assigned EC number0.62010.72470.86yesno
Q8YPK6RL13_NOSS1No assigned EC number0.72510.73590.8675yesno
A8AQC1RL13_CITK8No assigned EC number0.59230.73030.9154yesno
B8HMT1RL13_CYAP4No assigned EC number0.65750.80330.9597yesno
B0C427RL13_ACAM1No assigned EC number0.66160.74710.8807yesno
Q2S9X2RL13_HAHCHNo assigned EC number0.58460.73030.9154yesno
Q5X1I1RL13_LEGPANo assigned EC number0.56060.74150.9166yesno
B1WQT8RL13_CYAA5No assigned EC number0.68700.73590.8675yesno

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 ?
Query178
PRK09216144 PRK09216, rplM, 50S ribosomal protein L13; Reviewe 1e-83
CHL00159143 CHL00159, rpl13, ribosomal protein L13; Validated 2e-74
pfam00572128 pfam00572, Ribosomal_L13, Ribosomal protein L13 1e-70
TIGR01066140 TIGR01066, rplM_bact, ribosomal protein L13, bacte 9e-69
COG0102148 COG0102, RplM, Ribosomal protein L13 [Translation, 3e-66
cd00392114 cd00392, Ribosomal_L13, Ribosomal protein L13 3e-60
PLN00205191 PLN00205, PLN00205, ribisomal protein L13 family p 2e-25
PRK06394146 PRK06394, rpl13p, 50S ribosomal protein L13P; Revi 2e-15
TIGR01077142 TIGR01077, L13_A_E, ribosomal protein L13, archaea 2e-12
PTZ00068202 PTZ00068, PTZ00068, 60S ribosomal protein L13a; Pr 3e-06
>gnl|CDD|181703 PRK09216, rplM, 50S ribosomal protein L13; Reviewed Back     alignment and domain information 
 Score =  242 bits (621), Expect = 1e-83
 Identities = 82/145 (56%), Positives = 103/145 (71%), Gaps = 3/145 (2%)

Query: 27  TWYPKAADHRHSDKTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNA 86
           T+  K A+    ++ WYV+DA  K+LGRLAS +A  +RGK+  T+TP VD G +VIV+NA
Sbjct: 3   TFSAKPAE---VERKWYVIDAEGKVLGRLASEVASILRGKHKPTFTPHVDTGDFVIVINA 59

Query: 87  EKVAVSGKKRTQKIYRRHSGRPGGMKEETFDQLQHRIPERIIEHAVRGMLPKGRLGRELF 146
           EKV ++GKK T KIY RHSG PGG+KE TF +L  + PER+IE AV+GMLPK  LGR +F
Sbjct: 60  EKVKLTGKKLTDKIYYRHSGYPGGLKEITFGELLAKKPERVIEKAVKGMLPKNPLGRAMF 119

Query: 147 THLKVYKGPNHPHEAQQPIELPIRD 171
             LKVY G  HPH AQQP  L I+ 
Sbjct: 120 KKLKVYAGAEHPHAAQQPEVLEIKQ 144

Length = 144
>gnl|CDD|177072 CHL00159, rpl13, ribosomal protein L13; Validated Back     alignment and domain information
>gnl|CDD|201314 pfam00572, Ribosomal_L13, Ribosomal protein L13 Back     alignment and domain information
>gnl|CDD|162186 TIGR01066, rplM_bact, ribosomal protein L13, bacterial type 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|238230 cd00392, Ribosomal_L13, Ribosomal protein L13 Back     alignment and domain information
>gnl|CDD|177795 PLN00205, PLN00205, ribisomal protein L13 family protein; Provisional Back     alignment and domain information
>gnl|CDD|235793 PRK06394, rpl13p, 50S ribosomal protein L13P; Reviewed Back     alignment and domain information
>gnl|CDD|162192 TIGR01077, L13_A_E, ribosomal protein L13, archaeal/eukaryotic Back     alignment and domain information
>gnl|CDD|240253 PTZ00068, PTZ00068, 60S ribosomal protein L13a; Provisional Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 178
CHL00159143 rpl13 ribosomal protein L13; Validated 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
PLN00205191 ribisomal protein L13 family protein; Provisional 100.0
PF00572128 Ribosomal_L13: Ribosomal protein L13; InterPro: IP 100.0
cd00392114 Ribosomal_L13 Ribosomal protein L13. Protein L13, 100.0
KOG3203165 consensus Mitochondrial/chloroplast ribosomal prot 100.0
TIGR01077142 L13_A_E ribosomal protein L13, archaeal/eukaryotic 100.0
PTZ00068202 60S ribosomal protein L13a; Provisional 100.0
PRK06394146 rpl13p 50S ribosomal protein L13P; Reviewed 100.0
KOG3204197 consensus 60S ribosomal protein L13a [Translation, 99.88
>CHL00159 rpl13 ribosomal protein L13; Validated Back     alignment and domain information 
Probab=100.00  E-value=1e-64  Score=403.68  Aligned_cols=143  Identities=61%  Similarity=1.054  Sum_probs=139.4

Q ss_pred             hhcccccCCCCCccccceEEEEeCCCCCchhhHHHHHHHHhcCCCCccCCCCCCCCEEEEEecceeeecCccccceeeee
Q 030391           24 WNNTWYPKAADHRHSDKTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNAEKVAVSGKKRTQKIYRR  103 (178)
Q Consensus        24 ~~~t~~~k~~~~~~~~r~W~vIDA~g~~LGRLAs~VAk~L~GKhKp~ytP~~d~Gd~VVVINaekI~~tG~k~~~K~Y~~  103 (178)
                      +|+|+++++++   ++|+|+||||+|++||||||.||++|+|||||+|||++||||+|||||||+|.|||+||++|.|++
T Consensus         1 ~~~t~~~~~~~---~~r~W~viDA~~~~lGRlAs~iA~~L~GKhKp~ytP~~d~Gd~VVViNa~kv~~TG~K~~~K~y~~   77 (143)
T CHL00159          1 MNKTFIPSKDY---KNRKWYIIDAKDQTLGRLATKIASLLRGKNKPSYHPSVDTGDYVIVINAEKIKVTGNKTSQKFYVR   77 (143)
T ss_pred             CCccccCCchh---cCCCEEEEeCCCCchHHHHHHHHHHHhccCCCCcCCCcCCCCEEEEEecceeEEeCchhhheEEEe
Confidence            47899999888   999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ccCCCCCCCCCCHHHHhhcChhHHHHHHHHccCCCCcchHHHhcCCeeecCCCCCCCCCCCeeecc
Q 030391          104 HSGRPGGMKEETFDQLQHRIPERIIEHAVRGMLPKGRLGRELFTHLKVYKGPNHPHEAQQPIELPI  169 (178)
Q Consensus       104 htgypGglk~~t~~~~~~r~P~~Il~~aVrgMLPkn~lgr~~l~rLkvy~G~~hp~~~qkp~~~~~  169 (178)
                      |||||||+++.+++++++++|++||++||+||||||.+|+.+|++|+||+|++|||++|+|+++++
T Consensus        78 htg~pGg~k~~~~~~~~~r~P~~il~~aV~gMLPkn~lgr~~~~rLkvy~G~~hph~aq~p~~~~~  143 (143)
T CHL00159         78 HSGRPGGLKIETFEELQNRLPNRIIEKAVKGMLPKGPLGRKLFTKLKVYKGESHPHVAQKPIKINI  143 (143)
T ss_pred             cCCCCCCcccccHHHHhhcCHHHHHHHHHHhcCCCChhHHHHHhCCEEeCCCCCCccccCCeecCC
Confidence            999999999999999999999999999999999999999999999999999999999999998863

>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
>PLN00205 ribisomal protein L13 family protein; Provisional 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
>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
>TIGR01077 L13_A_E ribosomal protein L13, archaeal/eukaryotic Back     alignment and domain information
>PTZ00068 60S ribosomal protein L13a; Provisional Back     alignment and domain information
>PRK06394 rpl13p 50S ribosomal protein L13P; Reviewed Back     alignment and domain information
>KOG3204 consensus 60S ribosomal protein L13a [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 ?
Query178
3bbo_L250 Homology Model For The Spinach Chloroplast 50s Subu 6e-77
1p85_H142 Real Space Refined Coordinates Of The 50s Subunit F 2e-38
2j28_J140 Model Of E. Coli Srp Bound To 70s Rncs Length = 140 4e-38
1vsa_H163 Crystal Structure Of A 70s Ribosome-Trna Complex Re 1e-37
1vsp_H140 Interactions And Dynamics Of The Shine-Dalgarno Hel 3e-37
2j01_N140 Structure Of The Thermus Thermophilus 70s Ribosome 3e-37
3mrz_J139 Recognition Of The Amber Stop Codon By Release Fact 3e-37
3tve_M138 Crystal Structure Analysis Of Ribosomal Decoding. T 4e-37
3fin_N139 T. Thermophilus 70s Ribosome In Complex With Mrna, 4e-37
3pyo_J137 Crystal Structure Of A Complex Containing Domain 3 4e-37
1nkw_H174 Crystal Structure Of The Large Ribosomal Subunit Fr 6e-33
1pnu_H143 Crystal Structure Of A Streptomycin Dependent Ribos 1e-32
2ftc_H148 Structural Model For The Large Subunit Of The Mamma 1e-15
3g4s_J142 Co-Crystal Structure Of Tiamulin Bound To The Large 9e-07
1ffk_G145 Crystal Structure Of The Large Ribosomal Subunit Fr 9e-07
1j3a_A142 Crystal Structure Of Ribosomal Protein L13 From Pyr 2e-05
3jyw_M178 Structure Of The 60s Proteins For Eukaryotic Riboso 2e-05
1s1i_M146 Structure Of The Ribosomal 80s-Eef2-Sordarin Comple 2e-05
3izs_K199 Localization Of The Large Subunit Ribosomal Protein 3e-05
3izr_K206 Localization Of The Large Subunit Ribosomal Protein 5e-05
3j21_I142 Promiscuous Behavior Of Proteins In Archaeal Riboso 9e-05
2zkr_j203 Structure Of A Mammalian Ribosomal 60s Subunit With 1e-04
4a17_I198 T.Thermophila 60s Ribosomal Subunit In Complex With 3e-04
>pdb|3BBO|L Chain L, Homology Model For The Spinach Chloroplast 50s Subunit Fitted To 9.4a Cryo-Em Map Of The 70s Chlororibosome Length = 250 Back     alignment and structure 
Iteration: 1

 Score =  282 bits (722), Expect = 6e-77,   Method: Compositional matrix adjust.
 Identities = 136/175 (77%), Positives = 153/175 (87%), Gaps = 8/175 (4%)
Query: 12  HPPLTCRFLW--------DIWNNTWYPKAADHRHSDKTWYVVDATDKILGRLASTIAIHI 63
           H PL  R+++        DIWN TWYPK+ADH  +DK WYVVDATD ILGR+ASTIAIHI
Sbjct: 76  HVPLDQRWMFTLEEATGPDIWNTTWYPKSADHVPTDKKWYVVDATDLILGRMASTIAIHI 135
Query: 64  RGKNLATYTPSVDMGAYVIVVNAEKVAVSGKKRTQKIYRRHSGRPGGMKEETFDQLQHRI 123
           RGKNLA+YTPSVDMGA+VIVVNA+KVAVSGKKRTQK+YRRHSGRPGG+KEETFDQLQ RI
Sbjct: 136 RGKNLASYTPSVDMGAFVIVVNADKVAVSGKKRTQKLYRRHSGRPGGLKEETFDQLQKRI 195
Query: 124 PERIIEHAVRGMLPKGRLGRELFTHLKVYKGPNHPHEAQQPIELPIRDKRIQKQR 178
           PERIIEHAVRGMLPKGRLGR LF HLKVYKG  HPH+AQQPI+LP+RDKRI+ ++
Sbjct: 196 PERIIEHAVRGMLPKGRLGRYLFNHLKVYKGAEHPHQAQQPIDLPLRDKRIRVEK 250
>pdb|1P85|H Chain H, Real Space Refined Coordinates Of The 50s Subunit Fitted Into The Low Resolution Cryo-Em Map Of The Ef-G.Gtp State Of E. Coli 70s Ribosome Length = 142 Back     alignment and structure
>pdb|2J28|J Chain J, Model Of E. Coli Srp Bound To 70s Rncs Length = 140 Back     alignment and structure
>pdb|1VSA|H Chain H, Crystal Structure Of A 70s Ribosome-Trna Complex Reveals Functional Interactions And Rearrangements. This File, 1vsa, Contains The 50s Ribosome Subunit. 30s Ribosome Subunit Is In The File 2ow8 Length = 163 Back     alignment and structure
>pdb|1VSP|H Chain H, Interactions And Dynamics Of The Shine-Dalgarno Helix In The 70s Ribosome. This File, 1vsp, Contains The 50s Ribosome Subunit. 30s Ribosome Subunit Is In The File 2qnh Length = 140 Back     alignment and structure
>pdb|2J01|N Chain N, Structure Of The Thermus Thermophilus 70s Ribosome Complexed With Mrna, Trna And Paromomycin (Part 2 Of 4). This File Contains The 50s Subunit From Molecule I. Length = 140 Back     alignment and structure
>pdb|3MRZ|J Chain J, Recognition Of The Amber Stop Codon By Release Factor Rf1. This Entry 3mrz Contains 50s Ribosomal Subunit. The 30s Ribosomal Subunit Can Be Found In Pdb Entry 3ms0. Molecule A In The Same Asymmetric Unit Is Deposited As 3mr8 (50s) And 3ms1 (30s). Length = 139 Back     alignment and structure
>pdb|3TVE|M Chain M, Crystal Structure Analysis Of Ribosomal Decoding. This Entry Contains The 50s Ribosomal Subunit Of The First 70s Molecule In The Asymmetric Unit For The Cognate Trna-Leu Complex Length = 138 Back     alignment and structure
>pdb|3FIN|N Chain N, T. Thermophilus 70s Ribosome In Complex With Mrna, Trnas And Ef- Tu.Gdp.Kirromycin Ternary Complex, Fitted To A 6.4 A Cryo-Em Map. This File Contains The 50s Subunit Length = 139 Back     alignment and structure
>pdb|3PYO|J Chain J, Crystal Structure Of A Complex Containing Domain 3 From The Psiv Igr Ires Rna Bound To The 70s Ribosome. This File Contains The 50s Subunit Of The First 70s Ribosome. Length = 137 Back     alignment and structure
>pdb|1NKW|H Chain H, Crystal Structure Of The Large Ribosomal Subunit From Deinococcus Radiodurans Length = 174 Back     alignment and structure
>pdb|1PNU|H Chain H, Crystal Structure Of A Streptomycin Dependent Ribosome From Escherichia Coli, 50s Subunit Of 70s Ribosome. This File, 1pnu, Contains Only Molecules Of The 50s Ribosomal Subunit. The 30s Subunit, Mrna, P-Site Trna, And A-Site Trna Are In The Pdb File 1pns. Length = 143 Back     alignment and structure
>pdb|2FTC|H Chain H, Structural Model For The Large Subunit Of The Mammalian Mitochondrial Ribosome Length = 148 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|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|1J3A|A Chain A, Crystal Structure Of Ribosomal Protein L13 From Pyrococcus Horikoshii Length = 142 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|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|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|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
>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|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|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

Structure Templates Detected by RPS-BLAST ?

Original result of RPS-BLAST against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query178
3bbo_L250 Ribosomal protein L13; large ribosomal subunit, sp 9e-87
3r8s_J142 50S ribosomal protein L13; protein biosynthesis, R 6e-83
3f1f_N163 50S ribosomal protein L13; RF2, ribosome, terminat 3e-82
3v2d_N140 50S ribosomal protein L13; ribosome associated inh 1e-81
2zjr_G174 50S ribosomal protein L13; ribosome, large ribosom 4e-80
2ftc_H148 L13MT, MRP-L13, 39S ribosomal protein L13, mitocho 3e-78
1j3a_A142 50S ribosomal protein L13P; rRNA binding, ribosoma 1e-55
1vq8_J145 50S ribosomal protein L13P; ribosome 50S, protein- 1e-55
3jyw_M178 60S ribosomal protein L16(A); eukaryotic ribosome, 1e-45
3izc_K199 60S ribosomal protein RPL16 (L13P); eukaryotic rib 9e-45
3iz5_K206 60S ribosomal protein L13A (L13P); eukaryotic ribo 1e-44
4a17_I198 RPL13A, 60S ribosomal protein L13A; eukaryotic rib 1e-44
2zkr_j203 60S ribosomal protein L13A; protein-RNA complex, 6 2e-41
>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
 Score =  254 bits (650), Expect = 9e-87
 Identities = 132/157 (84%), Positives = 146/157 (92%)

Query: 22  DIWNNTWYPKAADHRHSDKTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYV 81
           DIWN TWYPK+ADH  +DK WYVVDATD ILGR+ASTIAIHIRGKNLA+YTPSVDMGA+V
Sbjct: 94  DIWNTTWYPKSADHVPTDKKWYVVDATDLILGRMASTIAIHIRGKNLASYTPSVDMGAFV 153

Query: 82  IVVNAEKVAVSGKKRTQKIYRRHSGRPGGMKEETFDQLQHRIPERIIEHAVRGMLPKGRL 141
           IVVNA+KVAVSGKKRTQK+YRRHSGRPGG+KEETFDQLQ RIPERIIEHAVRGMLPKGRL
Sbjct: 154 IVVNADKVAVSGKKRTQKLYRRHSGRPGGLKEETFDQLQKRIPERIIEHAVRGMLPKGRL 213

Query: 142 GRELFTHLKVYKGPNHPHEAQQPIELPIRDKRIQKQR 178
           GR LF HLKVYKG  HPH+AQQPI+LP+RDKRI+ ++
Sbjct: 214 GRYLFNHLKVYKGAEHPHQAQQPIDLPLRDKRIRVEK 250
>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
>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
>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
>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
>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
>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
>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
>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
>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

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query178
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
3f1f_N163 50S ribosomal protein L13; RF2, ribosome, terminat 100.0
3bbo_L250 Ribosomal protein L13; large ribosomal subunit, sp 100.0
2zjr_G174 50S ribosomal protein L13; ribosome, large ribosom 100.0
1j3a_A142 50S ribosomal protein L13P; rRNA binding, ribosoma 100.0
4b6a_O199 60S ribosomal protein L16-A; large ribosomal subun 100.0
1vq8_J145 50S ribosomal protein L13P; ribosome 50S, protein- 100.0
4a17_I198 RPL13A, 60S ribosomal protein L13A; eukaryotic rib 100.0
3iz5_K206 60S ribosomal protein L13A (L13P); eukaryotic ribo 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
>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
Probab=100.00  E-value=6.8e-67  Score=414.59  Aligned_cols=142  Identities=56%  Similarity=0.925  Sum_probs=139.4

Q ss_pred             hcccccCCCCCccccceEEEEeCCCCCchhhHHHHHHHHhcCCCCccCCCCCCCCEEEEEecceeeecCccccceeeeec
Q 030391           25 NNTWYPKAADHRHSDKTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNAEKVAVSGKKRTQKIYRRH  104 (178)
Q Consensus        25 ~~t~~~k~~~~~~~~r~W~vIDA~g~~LGRLAs~VAk~L~GKhKp~ytP~~d~Gd~VVVINaekI~~tG~k~~~K~Y~~h  104 (178)
                      |+||++++++   ++|+|+||||+|++||||||+||++|+|||||+||||+||||+|||||||+|.+||+||++|.|++|
T Consensus         1 mkt~~~~~~~---~~r~W~viDA~g~~LGRLAs~iAk~L~GKhKp~ytP~~d~Gd~VVViNaeki~~tG~k~~~K~yy~h   77 (142)
T 3r8s_J            1 MKTFTAKPET---VKRDWYVVDATGKTLGRLATELARRLRGKHKAEYTPHVDTGDYIIVLNADKVAVTGNKRTDKVYYHH   77 (142)
T ss_dssp             CCCCCCCTTT---CCCCEEEEECTTCBHHHHHHHHHHHHHTTTSTTCCTTSCCCCEEEEECGGGCBCCTTHHHHCBCCEE
T ss_pred             CCcccCChhh---ccCcEEEEeCCCCchHHHHHHHHHHHcCCCCCccCCCccCCCEEEEEeCcccCccCchhhceEEEEe
Confidence            6799999998   9999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cCCCCCCCCCCHHHHhhcChhHHHHHHHHccCCCCcchHHHhcCCeeecCCCCCCCCCCCeeecc
Q 030391          105 SGRPGGMKEETFDQLQHRIPERIIEHAVRGMLPKGRLGRELFTHLKVYKGPNHPHEAQQPIELPI  169 (178)
Q Consensus       105 tgypGglk~~t~~~~~~r~P~~Il~~aVrgMLPkn~lgr~~l~rLkvy~G~~hp~~~qkp~~~~~  169 (178)
                      ||||||+++.+++++++++|++||++||+||||||++|+.+|+||+||+|++|||++|+|+++++
T Consensus        78 tgypGg~k~~~~~~~~~r~P~~ii~~aVrGMLPkn~lgr~~l~rLkVy~G~~hph~aq~p~~l~~  142 (142)
T 3r8s_J           78 TGHIGGIKQATFEEMIARRPERVIEIAVKGMLPKGPLGRAMFRKLKVYAGNEHNHAAQQPQVLDI  142 (142)
T ss_dssp             CSSTTCEECCBHHHHHHHCSHHHHHHHHHHHSCSSHHHHHHHTTEEECSSSCCSCGGGCCEECCC
T ss_pred             cCcCCCccccCHHHHHhhCHHHHHHHHHHhcCCCChhHHHHHhCCEEECCCCCCcccCCCeecCC
Confidence            99999999999999999999999999999999999999999999999999999999999998864
>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
>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
>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
>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
>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

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 178
d2zjrg1142 c.21.1.1 (G:30-171) Ribosomal protein L13 {Deinoco 2e-50
d2gych1140 c.21.1.1 (H:1-140) Ribosomal protein L13 {Escheric 3e-47
d2j01n1139 c.21.1.1 (N:1-139) Ribosomal protein L13 {Thermus 2e-46
d1vqoj1142 c.21.1.1 (J:4-145) Ribosomal protein L13 {Archaeon 4e-32
d1j3aa_142 c.21.1.1 (A:) Ribosomal protein L13 {Archaeon Pyro 2e-28
>d2zjrg1 c.21.1.1 (G:30-171) Ribosomal protein L13 {Deinococcus radiodurans [TaxId: 1299]} 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: Deinococcus radiodurans [TaxId: 1299]

 Score =  157 bits (397), Expect = 2e-50
 Identities = 70/145 (48%), Positives = 95/145 (65%), Gaps = 5/145 (3%)

Query: 27  TWYPKAADHRHSDKTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNA 86
           T+ PK       ++ W VVDA+   LGRLA+ IA  IRGK+   +TP++  G +V+V+NA
Sbjct: 2   TYIPKN-----DEQNWVVVDASGVPLGRLATLIASRIRGKHRPDFTPNMIQGDFVVVINA 56

Query: 87  EKVAVSGKKRTQKIYRRHSGRPGGMKEETFDQLQHRIPERIIEHAVRGMLPKGRLGRELF 146
            +VA++GKK   K+Y R++G  GG+K ET  +   + PER+IEHAV GMLPKGR GR + 
Sbjct: 57  AQVALTGKKLDDKVYTRYTGYQGGLKTETAREALSKHPERVIEHAVFGMLPKGRQGRAMH 116

Query: 147 THLKVYKGPNHPHEAQQPIELPIRD 171
           T LKVY G  HPH AQ+P  L  + 
Sbjct: 117 TRLKVYAGETHPHSAQKPQVLKTQP 141
>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
>d1vqoj1 c.21.1.1 (J:4-145) Ribosomal protein L13 {Archaeon Haloarcula marismortui [TaxId: 2238]} Length = 142 Back     information, alignment and structure
>d1j3aa_ c.21.1.1 (A:) Ribosomal protein L13 {Archaeon Pyrococcus horikoshii [TaxId: 53953]} Length = 142 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 ?
Query178
d2j01n1139 Ribosomal protein L13 {Thermus thermophilus [TaxId 100.0
d2gych1140 Ribosomal protein L13 {Escherichia coli [TaxId: 56 100.0
d2zjrg1142 Ribosomal protein L13 {Deinococcus radiodurans [Ta 100.0
d1j3aa_142 Ribosomal protein L13 {Archaeon Pyrococcus horikos 100.0
d1vqoj1142 Ribosomal protein L13 {Archaeon Haloarcula marismo 100.0
>d2j01n1 c.21.1.1 (N:1-139) Ribosomal protein L13 {Thermus thermophilus [TaxId: 274]} 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: Thermus thermophilus [TaxId: 274]

Probab=100.00  E-value=7.5e-63  Score=388.13  Aligned_cols=139  Identities=53%  Similarity=0.941  Sum_probs=134.5

Q ss_pred             hcccccCCCCCccccceEEEEeCCCCCchhhHHHHHHHHhcCCCCccCCCCCCCCEEEEEecceeeecCccccceeeeec
Q 030391           25 NNTWYPKAADHRHSDKTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNAEKVAVSGKKRTQKIYRRH  104 (178)
Q Consensus        25 ~~t~~~k~~~~~~~~r~W~vIDA~g~~LGRLAs~VAk~L~GKhKp~ytP~~d~Gd~VVVINaekI~~tG~k~~~K~Y~~h  104 (178)
                      |+||+|+  +   ++|+||||||+|++||||||.||++|+|||||+|||++||||+|||||||+|++||+||.++.|++|
T Consensus         1 mkt~~p~--~---~~r~W~viDA~~~~lGRLAs~iA~~L~GK~kp~y~p~~d~Gd~VvViNa~ki~~tG~k~~~k~y~~h   75 (139)
T d2j01n1           1 MKTYVPK--Q---VEPRWVLIDAEGKTLGRLATKIATLLRGKHRPDWTPNVAMGDFVVVVNADKIRVTGKKLEQKIYTRY   75 (139)
T ss_dssp             CCCCCCC--C---CCCCCCEECCTTSBTTHHHHHHHHHHTTSSSSSCCTTTCCCCCCEECSCSCCBCSSCCSSSSBCCCC
T ss_pred             CCccCcc--c---ccceEEEEeCCCCchHHHHHHHHHHHhccchheeeeccCCCceEEEechhHeeeeccccceeeeeee
Confidence            6889876  3   6799999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cCCCCCCCCCCHHHHhhcChhHHHHHHHHccCCCCcchHHHhcCCeeecCCCCCCCCCCCeeec
Q 030391          105 SGRPGGMKEETFDQLQHRIPERIIEHAVRGMLPKGRLGRELFTHLKVYKGPNHPHEAQQPIELP  168 (178)
Q Consensus       105 tgypGglk~~t~~~~~~r~P~~Il~~aVrgMLPkn~lgr~~l~rLkvy~G~~hp~~~qkp~~~~  168 (178)
                      ||||||+++.+++++++++|++||++||+||||||++|+.+|+||+||+|++|||++|+|++|+
T Consensus        76 sgypGg~k~~~~~~~~~k~P~~il~~aV~gMLPkn~lg~~~l~rLkvy~g~~hp~~aq~p~~l~  139 (139)
T d2j01n1          76 SGYPGGLKKIPLEKMLATHPERVLEHAVKGMLPKGPLGRRLFKRLKVYAGPDHPHQAQRPEKLE  139 (139)
T ss_dssp             CCSSSCCCCCBHHHHHHSSCSHHHHHHHHTTSCSSHHHHHHHTTCEECSSSCCTTCSCCCCCC-
T ss_pred             ccccCccccccHHHhcccCHHHHHHHHHHhcCCCChhHHHHHhCCEEeCCCCCCcccCCCEeCC
Confidence            9999999999999999999999999999999999999999999999999999999999999874
>d2gych1 c.21.1.1 (H:1-140) Ribosomal protein L13 {Escherichia coli [TaxId: 562]} 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
>d1j3aa_ c.21.1.1 (A:) Ribosomal protein L13 {Archaeon Pyrococcus horikoshii [TaxId: 53953]} Back     information, alignment and structure
>d1vqoj1 c.21.1.1 (J:4-145) Ribosomal protein L13 {Archaeon Haloarcula marismortui [TaxId: 2238]} Back     information, alignment and structure