Citrus Sinensis ID: 026665

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-----
MATLCTPTCVIFSSLQSSSSSSSFKTLNTGTTISSSTTPFLGFSVASAKSTSPLNTKRSFKVRCCQNLSLVPDNQRWMFEQSEVNGPDIWNNTWYPKAADHRHSDKTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNAEKVAVSGKKRTQKIYRRHSGRPGGMKEETFDQLQHRIPERIIEHAVRGMLPKGRVSSLILNQILCVCMCLTSVLSSFFIIVVN
ccccccccEEEccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEEEEcccccHHHHHHHHHHHHccccccccccccccccEEEEEEcccEEEEcccccccEEEEccccccccccccHHHHHHHccHHHHHHHHHcccccccHHHHHHHccEEEccccccccccEEEEEEc
ccEEEccccEEccccccccccccccccccccccccccccccccEEcccccccccccccEEEEEEcccEEEccHHHcEEEccccccccccccccccccccccccEEEEEEEEEcccccHHHHHHHHHHHHHcccccccccccccccEEEEEEccEEEEEcccccccEEEEcccccccccHccHHHHHHcccHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHHHHHcEEEEEEc
matlctptcvifsslqsssssssfktlntgttisssttpflGFSVAsakstsplntkrsfkvrccqnlslvpdnqrwmfeqsevngpdiwnntwypkaadhrhsdktwyvVDATDKILGRLASTIAIHIRgknlatytpsvdmGAYVIVVNAEKVAVSGKKRTQKIYrrhsgrpggmkeeTFDQLQHRIPERIIEHAVRgmlpkgrvSSLILNQILCVCMCLTSVLSSFFIIVVN
MATLCTPTCVIFsslqsssssssfKTLNTGTTISSSTTPFLGFSVASakstsplntkrsfkVRCCQNLSLVPDNQRWMFEQSEVNGPDIWNNTWYPKAADHRHSDKTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNAekvavsgkkrtqkiyrrhsgrpggmkeETFDQLQHRIPERIIEHAVRGMLPKGRVSSLILNQILCVCMCLTSVLSSFFIIVVN
MATLCTPTCVIFsslqsssssssFKTLNTGTTISSSTTPFLGFSVASAKSTSPLNTKRSFKVRCCQNLSLVPDNQRWMFEQSEVNGPDIWNNTWYPKAADHRHSDKTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNAEKVAVSGKKRTQKIYRRHSGRPGGMKEETFDQLQHRIPERIIEHAVRGMLPKGRVSSLILNQILCVCMCLTSVLSSFFIIVVN
***LCTPTCVIF*********************************************RSFKVRCCQNLSLVPDNQRWMFEQSEVNGPDIWNNTWYPKAADHRHSDKTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNAEKVAVS***************************QHRIPERIIEHAVRGMLPKGRVSSLILNQILCVCMCLTSVLSSFFIIVV*
************************************TTPFLGFSVA*****************************************DIWNNTWYPKAADHRHSDKTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNAEKVAVSGKKRTQKIYRRHSGRPGGMKEETFDQLQHRIPERIIEHAVRGMLPKGRVSSLILNQILCVCMCLTSVLSSFFIIVVN
MATLCTPTCVIFSS**************TGTTISSSTTPFLGFSVAS**********RSFKVRCCQNLSLVPDNQRWMFEQSEVNGPDIWNNTWYPKAADHRHSDKTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNAEKVAVSGKKRTQKIYRRHSGRPGGMKEETFDQLQHRIPERIIEHAVRGMLPKGRVSSLILNQILCVCMCLTSVLSSFFIIVVN
*AT*C**TCVIF***************************F**FS*A*********TKRSFKVRCCQNLSLVPDNQRWMFEQSEVNGPDIWNNTWYPKAADHRHSDKTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNAEKVAVSGKKRTQKIYRRHSGRPGGMKEETFDQLQHRIPERIIEHAVRGMLPKGRVSSLILNQILCVCMCLTSVLSSFFIIVVN
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHii
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHo
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhoo
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHooo
SSSSSSSSSSSSSSSSSSSSSSSoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHHi
SSSSSSSSSSSSSSSSSSSSSoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
MATLCTPTCVIFSSLQSSSSSSSFKTLNTGTTISSSTTPFLGFSVASAKSTSPLNTKRSFKVRCCQNLSLVPDNQRWMFEQSEVNGPDIWNNTWYPKAADHRHSDKTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNAEKVAVSGKKRTQKIYRRHSGRPGGMKEETFDQLQHRIPERIIEHAVRGMLPKGRVSSLILNQILCVCMCLTSVLSSFFIIVVN
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 ?
Query235 2.2.26 [Sep-21-2011]
Q9SYL9241 50S ribosomal protein L13 yes no 0.757 0.738 0.695 2e-73
P12629250 50S ribosomal protein L13 N/A no 0.872 0.82 0.593 1e-68
Q3MF94151 50S ribosomal protein L13 yes no 0.472 0.735 0.684 6e-41
Q8YPK6151 50S ribosomal protein L13 yes no 0.472 0.735 0.675 2e-40
Q6H001151 50S ribosomal protein L13 N/A no 0.472 0.735 0.648 7e-40
B8HMT1149 50S ribosomal protein L13 yes no 0.472 0.744 0.675 8e-39
Q8DMK8152 50S ribosomal protein L13 yes no 0.459 0.710 0.675 1e-38
B0JY35151 50S ribosomal protein L13 yes no 0.472 0.735 0.630 6e-38
B7K221151 50S ribosomal protein L13 yes no 0.472 0.735 0.612 3e-37
B1XJI1151 50S ribosomal protein L13 yes no 0.472 0.735 0.648 4e-37
>sp|Q9SYL9|RK13_ARATH 50S ribosomal protein L13, chloroplastic OS=Arabidopsis thaliana GN=RPL13 PE=1 SV=1 Back     alignment and function desciption
 Score =  275 bits (704), Expect = 2e-73,   Method: Compositional matrix adjust.
 Identities = 130/187 (69%), Positives = 149/187 (79%), Gaps = 9/187 (4%)

Query: 38  TPFLGFSVASAKSTSP-----LNTKRSFKVRC----CQNLSLVPDNQRWMFEQSEVNGPD 88
           +PFLGFS+ +    S       N+KR  +V+C        SLVP NQRWMF++ E NGPD
Sbjct: 26  SPFLGFSLTAISKPSVRVGIYANSKRGLQVKCEAEPTTTTSLVPANQRWMFDEEEANGPD 85

Query: 89  IWNNTWYPKAADHRHSDKTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVI 148
           IWN TWYPKA+DH ++DK W+VVDATDKILGRLASTIA HIRGKNLA+YTPSVDMGA+VI
Sbjct: 86  IWNTTWYPKASDHVNTDKPWFVVDATDKILGRLASTIANHIRGKNLASYTPSVDMGAFVI 145

Query: 149 VVNAEKVAVSGKKRTQKIYRRHSGRPGGMKEETFDQLQHRIPERIIEHAVRGMLPKGRVS 208
           VVNAEKVAVSGKKR QK+YRRHSGRPGGM  ETFDQLQ RIPERI+EHAVRGMLPKGR+ 
Sbjct: 146 VVNAEKVAVSGKKRNQKLYRRHSGRPGGMTVETFDQLQQRIPERIVEHAVRGMLPKGRLG 205

Query: 209 SLILNQI 215
             + N +
Sbjct: 206 RALFNHL 212

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|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
>sp|B1XJI1|RL13_SYNP2 50S ribosomal protein L13 OS=Synechococcus sp. (strain ATCC 27264 / PCC 7002 / PR-6) 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 ?
Query235
302142820 374 unnamed protein product [Vitis vinifera] 0.757 0.475 0.759 5e-78
225461790235 PREDICTED: 50S ribosomal protein L13, ch 0.757 0.757 0.759 1e-77
118489447241 unknown [Populus trichocarpa x Populus d 0.880 0.858 0.677 1e-75
297839733242 EMB1473 [Arabidopsis lyrata subsp. lyrat 0.863 0.838 0.617 3e-73
15218435241 50S ribosomal protein L13 [Arabidopsis t 0.757 0.738 0.695 9e-72
449456559248 PREDICTED: 50S ribosomal protein L13, ch 0.897 0.850 0.641 3e-70
255582683245 50S ribosomal protein L13, putative [Ric 0.753 0.722 0.677 7e-70
224114752174 predicted protein [Populus trichocarpa] 0.617 0.833 0.827 9e-69
115439933233 Os01g0749200 [Oryza sativa Japonica Grou 0.655 0.660 0.753 3e-67
132659250 RecName: Full=50S ribosomal protein L13, 0.872 0.82 0.593 8e-67
>gi|302142820|emb|CBI20115.3| unnamed protein product [Vitis vinifera] Back     alignment and taxonomy information
 Score =  296 bits (758), Expect = 5e-78,   Method: Compositional matrix adjust.
 Identities = 136/179 (75%), Positives = 157/179 (87%), Gaps = 1/179 (0%)

Query: 37  TTPFLGFSVASAKSTSPLNTKRSFKVRCCQNLSLVPDNQRWMFEQSEVNGPDIWNNTWYP 96
           TTPFLGFS+ SA +  P   ++SF+V C    ++VP +QRWMFEQSEV+GPDIWN TWYP
Sbjct: 168 TTPFLGFSI-SAANPKPSFPRQSFRVNCQDKAAVVPLDQRWMFEQSEVSGPDIWNKTWYP 226

Query: 97  KAADHRHSDKTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNAEKVA 156
           KAADH +++KTWY+VDATDKILGRLASTIAI+IRGKNLATYTPSVDMG++VIVVNAEKVA
Sbjct: 227 KAADHINTEKTWYIVDATDKILGRLASTIAIYIRGKNLATYTPSVDMGSFVIVVNAEKVA 286

Query: 157 VSGKKRTQKIYRRHSGRPGGMKEETFDQLQHRIPERIIEHAVRGMLPKGRVSSLILNQI 215
           VSGKKRTQK+YRRHSGRPGGMK ETFDQLQ RIPERI+EHAVRGMLPKGR+   + N +
Sbjct: 287 VSGKKRTQKLYRRHSGRPGGMKVETFDQLQQRIPERIVEHAVRGMLPKGRLGRALFNHL 345

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|225461790|ref|XP_002285616.1| PREDICTED: 50S ribosomal protein L13, chloroplastic [Vitis vinifera] Back     alignment and taxonomy information
>gi|118489447|gb|ABK96526.1| unknown [Populus trichocarpa x Populus deltoides] 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
>gi|15218435|ref|NP_177984.1| 50S ribosomal protein L13 [Arabidopsis thaliana] gi|75314103|sp|Q9SYL9.1|RK13_ARATH RecName: Full=50S ribosomal protein L13, chloroplastic; AltName: Full=CL13; AltName: Full=Protein EMBRYO DEFECTIVE 1473; Flags: Precursor gi|4836870|gb|AAD30573.1|AC007260_4 50S Ribosomal protein L13 [Arabidopsis thaliana] gi|13878111|gb|AAK44133.1|AF370318_1 putative ribosomal protein L13 [Arabidopsis thaliana] gi|7572938|emb|CAA60775.1| ribosomal protein L13 [Arabidopsis thaliana] gi|17104781|gb|AAL34279.1| putative ribosomal protein L13 [Arabidopsis thaliana] gi|332198009|gb|AEE36130.1| 50S ribosomal protein L13 [Arabidopsis thaliana] 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|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|224114752|ref|XP_002316846.1| predicted protein [Populus trichocarpa] gi|222859911|gb|EEE97458.1| predicted protein [Populus trichocarpa] 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|132659|sp|P12629.1|RK13_SPIOL RecName: Full=50S ribosomal protein L13, chloroplastic; AltName: Full=CL13; Flags: Precursor gi|189096134|pdb|3BBO|L Chain L, Homology Model For The Spinach Chloroplast 50s Subunit Fitted To 9.4a Cryo-Em Map Of The 70s Chlororibosome gi|170133|gb|AAA34040.1| ribosomal protein L13 [Spinacia oleracea] 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 ?
Query235
TAIR|locus:2203010241 emb1473 "embryo defective 1473 0.774 0.755 0.685 8.2e-67
UNIPROTKB|P0AA10142 rplM [Escherichia coli K-12 (t 0.468 0.774 0.545 9.1e-29
UNIPROTKB|P66065147 rplM "50S ribosomal protein L1 0.510 0.816 0.487 2.2e-27
UNIPROTKB|Q9KUF1142 rplM "50S ribosomal protein L1 0.425 0.704 0.6 4.5e-27
TIGR_CMR|VC_0570142 VC_0570 "ribosomal protein L13 0.425 0.704 0.6 4.5e-27
TIGR_CMR|SO_3940142 SO_3940 "ribosomal protein L13 0.468 0.774 0.518 2.5e-26
TIGR_CMR|CPS_4443142 CPS_4443 "ribosomal protein L1 0.425 0.704 0.53 1.4e-25
TIGR_CMR|BA_0143145 BA_0143 "ribosomal protein L13 0.472 0.765 0.459 7.6e-25
TIGR_CMR|GSU_2876143 GSU_2876 "ribosomal protein L1 0.506 0.832 0.445 1.8e-23
TIGR_CMR|SPO_1691152 SPO_1691 "ribosomal protein L1 0.438 0.677 0.495 1e-22
TAIR|locus:2203010 emb1473 "embryo defective 1473" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 679 (244.1 bits), Expect = 8.2e-67, P = 8.2e-67
 Identities = 131/191 (68%), Positives = 150/191 (78%)

Query:    34 SSSTTPFLGFSVASAKSTSP-----LNTKRSFKVRC----CQNLSLVPDNQRWMFEQSEV 84
             S   +PFLGFS+ +    S       N+KR  +V+C        SLVP NQRWMF++ E 
Sbjct:    22 SERKSPFLGFSLTAISKPSVRVGIYANSKRGLQVKCEAEPTTTTSLVPANQRWMFDEEEA 81

Query:    85 NGPDIWNNTWYPKAADHRHSDKTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMG 144
             NGPDIWN TWYPKA+DH ++DK W+VVDATDKILGRLASTIA HIRGKNLA+YTPSVDMG
Sbjct:    82 NGPDIWNTTWYPKASDHVNTDKPWFVVDATDKILGRLASTIANHIRGKNLASYTPSVDMG 141

Query:   145 AYVIVVNAEKVAVSGKKRTQKIYRRHSGRPGGMKEETFDQLQHRIPERIIEHAVRGMLPK 204
             A+VIVVNAEKVAVSGKKR QK+YRRHSGRPGGM  ETFDQLQ RIPERI+EHAVRGMLPK
Sbjct:   142 AFVIVVNAEKVAVSGKKRNQKLYRRHSGRPGGMTVETFDQLQQRIPERIVEHAVRGMLPK 201

Query:   205 GRVSSLILNQI 215
             GR+   + N +
Sbjct:   202 GRLGRALFNHL 212
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
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|CPS_4443 CPS_4443 "ribosomal protein L13" [Colwellia psychrerythraea 34H (taxid:167879)] 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|GSU_2876 GSU_2876 "ribosomal protein L13" [Geobacter sulfurreducens PCA (taxid:243231)] 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) ?
Q9SYL9RK13_ARATHNo assigned EC number0.69510.75740.7385yesno
P12629RK13_SPIOLNo assigned EC number0.59300.87230.82N/Ano

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 ?
Query235
PRK09216144 PRK09216, rplM, 50S ribosomal protein L13; Reviewe 1e-67
pfam00572128 pfam00572, Ribosomal_L13, Ribosomal protein L13 8e-59
cd00392114 cd00392, Ribosomal_L13, Ribosomal protein L13 1e-56
TIGR01066140 TIGR01066, rplM_bact, ribosomal protein L13, bacte 1e-56
CHL00159143 CHL00159, rpl13, ribosomal protein L13; Validated 5e-56
COG0102148 COG0102, RplM, Ribosomal protein L13 [Translation, 3e-55
PLN00205191 PLN00205, PLN00205, ribisomal protein L13 family p 3e-24
PRK06394146 PRK06394, rpl13p, 50S ribosomal protein L13P; Revi 6e-13
TIGR01077142 TIGR01077, L13_A_E, ribosomal protein L13, archaea 3e-11
PTZ00068202 PTZ00068, PTZ00068, 60S ribosomal protein L13a; Pr 2e-06
>gnl|CDD|181703 PRK09216, rplM, 50S ribosomal protein L13; Reviewed Back     alignment and domain information 
 Score =  204 bits (522), Expect = 1e-67
 Identities = 64/114 (56%), Positives = 83/114 (72%), Gaps = 3/114 (2%)

Query: 93  TWYPKAADHRHSDKTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNA 152
           T+  K A+    ++ WYV+DA  K+LGRLAS +A  +RGK+  T+TP VD G +VIV+NA
Sbjct: 3   TFSAKPAE---VERKWYVIDAEGKVLGRLASEVASILRGKHKPTFTPHVDTGDFVIVINA 59

Query: 153 EKVAVSGKKRTQKIYRRHSGRPGGMKEETFDQLQHRIPERIIEHAVRGMLPKGR 206
           EKV ++GKK T KIY RHSG PGG+KE TF +L  + PER+IE AV+GMLPK  
Sbjct: 60  EKVKLTGKKLTDKIYYRHSGYPGGLKEITFGELLAKKPERVIEKAVKGMLPKNP 113

Length = 144
>gnl|CDD|201314 pfam00572, Ribosomal_L13, Ribosomal protein L13 Back     alignment and domain information
>gnl|CDD|238230 cd00392, 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|177072 CHL00159, rpl13, ribosomal protein L13; Validated 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|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 235
CHL00159143 rpl13 ribosomal protein L13; Validated 100.0
PRK09216144 rplM 50S ribosomal protein L13; Reviewed 100.0
COG0102148 RplM Ribosomal protein L13 [Translation, ribosomal 100.0
TIGR01066140 rplM_bact ribosomal protein L13, bacterial type. T 100.0
cd00392114 Ribosomal_L13 Ribosomal protein L13. Protein L13, 100.0
PLN00205191 ribisomal protein L13 family protein; Provisional 100.0
PF00572128 Ribosomal_L13: Ribosomal protein L13; InterPro: IP 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, 99.63
>CHL00159 rpl13 ribosomal protein L13; Validated Back     alignment and domain information 
Probab=100.00  E-value=1.6e-57  Score=378.35  Aligned_cols=134  Identities=50%  Similarity=0.859  Sum_probs=129.7

Q ss_pred             cceeecccCCCcccccceEEEEeCCCCCchhhHHHHHHHHhcCCCCccCCCCCCCCEEEEEecceeeeeCccccceeeee
Q 026665           90 WNNTWYPKAADHRHSDKTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNAEKVAVSGKKRTQKIYRR  169 (235)
Q Consensus        90 ~~kT~~~k~~~~~~~~r~W~vIDA~gqiLGRLAS~IAk~L~GKhKp~ytP~~d~GD~VVVINAekI~vTG~K~~~K~Y~~  169 (235)
                      ||+||++++++   ++|+||||||+||+||||||.||++|+|||||+|||++||||+|||||||+|+|||+||.+|.|++
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            56899999888   899999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ccCCcCCCcccchhHhhhcChhHHHHHHHhCcCCCChhHHHHhhcCeeeCccchhcc
Q 026665          170 HSGRPGGMKEETFDQLQHRIPERIIEHAVRGMLPKGRVSSLILNQILCVCMCLTSVL  226 (235)
Q Consensus       170 HtgyPGGlk~~t~~~l~~r~P~~IlkrAVrGMLPkn~lGr~~lkrLkVYa~~p~~~~  226 (235)
                      |||||||+|+++++++++++|++||++||+||||||++||++|+|||||+|.+...-
T Consensus        78 htg~pGg~k~~~~~~~~~r~P~~il~~aV~gMLPkn~lgr~~~~rLkvy~G~~hph~  134 (143)
T CHL00159         78 HSGRPGGLKIETFEELQNRLPNRIIEKAVKGMLPKGPLGRKLFTKLKVYKGESHPHV  134 (143)
T ss_pred             cCCCCCCcccccHHHHhhcCHHHHHHHHHHhcCCCChhHHHHHhCCEEeCCCCCCcc
Confidence            999999999999999999999999999999999999999999999999999876543

>PRK09216 rplM 50S ribosomal protein L13; Reviewed Back     alignment and domain information
>COG0102 RplM Ribosomal protein L13 [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>TIGR01066 rplM_bact ribosomal protein L13, bacterial type Back     alignment and domain information
>cd00392 Ribosomal_L13 Ribosomal protein L13 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
>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 ?
Query235
3bbo_L250 Homology Model For The Spinach Chloroplast 50s Subu 1e-68
2j28_J140 Model Of E. Coli Srp Bound To 70s Rncs Length = 140 1e-30
1p85_H142 Real Space Refined Coordinates Of The 50s Subunit F 1e-30
1vsa_H163 Crystal Structure Of A 70s Ribosome-Trna Complex Re 6e-27
3fin_N139 T. Thermophilus 70s Ribosome In Complex With Mrna, 9e-27
1vsp_H140 Interactions And Dynamics Of The Shine-Dalgarno Hel 9e-27
3mrz_J139 Recognition Of The Amber Stop Codon By Release Fact 9e-27
2j01_N140 Structure Of The Thermus Thermophilus 70s Ribosome 9e-27
3pyo_J137 Crystal Structure Of A Complex Containing Domain 3 9e-27
3tve_M138 Crystal Structure Analysis Of Ribosomal Decoding. T 9e-27
1nkw_H174 Crystal Structure Of The Large Ribosomal Subunit Fr 3e-24
1pnu_H143 Crystal Structure Of A Streptomycin Dependent Ribos 5e-24
2ftc_H148 Structural Model For The Large Subunit Of The Mamma 3e-15
>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 =  256 bits (653), Expect = 1e-68,   Method: Compositional matrix adjust.
 Identities = 116/145 (80%), Positives = 128/145 (88%)
Query: 71  VPDNQRWMFEQSEVNGPDIWNNTWYPKAADHRHSDKTWYVVDATDKILGRLASTIAIHIR 130
           VP +QRWMF   E  GPDIWN TWYPK+ADH  +DK WYVVDATD ILGR+ASTIAIHIR
Sbjct: 77  VPLDQRWMFTLEEATGPDIWNTTWYPKSADHVPTDKKWYVVDATDLILGRMASTIAIHIR 136
Query: 131 GKNLATYTPSVDMGAYVIVVNAEKVAVSGKKRTQKIYRRHSGRPGGMKEETFDQLQHRIP 190
           GKNLA+YTPSVDMGA+VIVVNA+KVAVSGKKRTQK+YRRHSGRPGG+KEETFDQLQ RIP
Sbjct: 137 GKNLASYTPSVDMGAFVIVVNADKVAVSGKKRTQKLYRRHSGRPGGLKEETFDQLQKRIP 196
Query: 191 ERIIEHAVRGMLPKGRVSSLILNQI 215
           ERIIEHAVRGMLPKGR+   + N +
Sbjct: 197 ERIIEHAVRGMLPKGRLGRYLFNHL 221
>pdb|2J28|J Chain J, Model Of E. Coli Srp Bound To 70s Rncs Length = 140 Back     alignment and structure
>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|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|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|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|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|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|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|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|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

Structure Templates Detected by RPS-BLAST ?

Original result of RPS-BLAST against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query235
3bbo_L250 Ribosomal protein L13; large ribosomal subunit, sp 1e-78
3r8s_J142 50S ribosomal protein L13; protein biosynthesis, R 5e-67
3v2d_N140 50S ribosomal protein L13; ribosome associated inh 1e-65
3f1f_N163 50S ribosomal protein L13; RF2, ribosome, terminat 1e-65
2zjr_G174 50S ribosomal protein L13; ribosome, large ribosom 3e-64
2ftc_H148 L13MT, MRP-L13, 39S ribosomal protein L13, mitocho 5e-64
1j3a_A142 50S ribosomal protein L13P; rRNA binding, ribosoma 8e-42
1vq8_J145 50S ribosomal protein L13P; ribosome 50S, protein- 5e-41
3jyw_M178 60S ribosomal protein L16(A); eukaryotic ribosome, 2e-38
3izc_K199 60S ribosomal protein RPL16 (L13P); eukaryotic rib 3e-38
4a17_I198 RPL13A, 60S ribosomal protein L13A; eukaryotic rib 5e-38
3iz5_K206 60S ribosomal protein L13A (L13P); eukaryotic ribo 2e-37
2zkr_j203 60S ribosomal protein L13A; protein-RNA complex, 6 1e-35
>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 =  235 bits (602), Expect = 1e-78
 Identities = 126/212 (59%), Positives = 150/212 (70%), Gaps = 6/212 (2%)

Query: 1   MATLCTPTCVIFSSLQSSSSSSSFKTLNTG------TTISSSTTPFLGFSVASAKSTSPL 54
           MAT+   + + F S Q+  S        T        T++++       S +++   +  
Sbjct: 1   MATMACASSLTFPSAQTQKSFFGTNVKQTPVLSFPRPTVAAAVAVSARKSTSASTKCTEE 60

Query: 55  NTKRSFKVRCCQNLSLVPDNQRWMFEQSEVNGPDIWNNTWYPKAADHRHSDKTWYVVDAT 114
             +    V+    +  VP +QRWMF   E  GPDIWN TWYPK+ADH  +DK WYVVDAT
Sbjct: 61  WRQLKEAVKKEFAIPHVPLDQRWMFTLEEATGPDIWNTTWYPKSADHVPTDKKWYVVDAT 120

Query: 115 DKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNAEKVAVSGKKRTQKIYRRHSGRP 174
           D ILGR+ASTIAIHIRGKNLA+YTPSVDMGA+VIVVNA+KVAVSGKKRTQK+YRRHSGRP
Sbjct: 121 DLILGRMASTIAIHIRGKNLASYTPSVDMGAFVIVVNADKVAVSGKKRTQKLYRRHSGRP 180

Query: 175 GGMKEETFDQLQHRIPERIIEHAVRGMLPKGR 206
           GG+KEETFDQLQ RIPERIIEHAVRGMLPKGR
Sbjct: 181 GGLKEETFDQLQKRIPERIIEHAVRGMLPKGR 212
>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
>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 ?
Query235
3bbo_L250 Ribosomal protein L13; large ribosomal subunit, sp 100.0
2ftc_H148 L13MT, MRP-L13, 39S ribosomal protein L13, mitocho 100.0
3r8s_J142 50S ribosomal protein L13; protein biosynthesis, R 100.0
3v2d_N140 50S ribosomal protein L13; ribosome associated inh 100.0
2zjr_G174 50S ribosomal protein L13; ribosome, large ribosom 100.0
3f1f_N163 50S ribosomal protein L13; RF2, ribosome, terminat 100.0
1j3a_A142 50S ribosomal protein L13P; rRNA binding, ribosoma 100.0
1vq8_J145 50S ribosomal protein L13P; ribosome 50S, protein- 100.0
4b6a_O199 60S ribosomal protein L16-A; large ribosomal subun 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
>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
Probab=100.00  E-value=8.3e-79  Score=540.61  Aligned_cols=216  Identities=61%  Similarity=0.959  Sum_probs=117.5

Q ss_pred             CccccCCceEEecCCCCCCCCCCcccccccccccccccCccccccccC--CCCCCcccccceEEEecccc----------
Q 026665            1 MATLCTPTCVIFSSLQSSSSSSSFKTLNTGTTISSSTTPFLGFSVASA--KSTSPLNTKRSFKVRCCQNL----------   68 (235)
Q Consensus         1 m~~~~~~~~~~~~~~~~~~~~~s~~~~~~~~~~~~~~~~f~g~~~~~~--~~s~~~~~~~~~~v~c~~~~----------   68 (235)
                      ||+..+++|+||||.+  ++.|+|++++       ..+||+||+++..  ..+.+++++.+++|+|+++.          
T Consensus         1 ~~~~~~~~~~~~~~~~--~~~~~~~~~~-------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~~~~~~~~~~~~~   71 (250)
T 3bbo_L            1 MATMACASSLTFPSAQ--TQKSFFGTNV-------KQTPVLSFPRPTVAAAVAVSARKSTSASTKCTEEWRQLKEAVKKE   71 (250)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             CcceeeccceeccCCC--CCCccccccc-------ccCceeecccccccccccccccCCCcceEEeeeccchhhhhhccc
Confidence            8999999999999876  5799999999       8899999998764  33456677889999999983          


Q ss_pred             ---ccccCCcchhhhhhhccCCCccceeecccCCCcccccceEEEEeCCCCCchhhHHHHHHHHhcCCCCccCCCCCCCC
Q 026665           69 ---SLVPDNQRWMFEQSEVNGPDIWNNTWYPKAADHRHSDKTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGA  145 (235)
Q Consensus        69 ---~~v~~~~r~m~~~~e~~g~d~~~kT~~~k~~~~~~~~r~W~vIDA~gqiLGRLAS~IAk~L~GKhKp~ytP~~d~GD  145 (235)
                         ++||+||||||++.|.+|+|+|++||++|++++++++++||||||+||+|||||++||++|+|||||+||||+||||
T Consensus        72 ~~~~~v~~~~~~~~~~~~~~g~d~~~kT~~~k~~~v~~~~r~W~VIDA~g~vLGRLAS~IAk~LrGKhKP~ytP~vD~GD  151 (250)
T 3bbo_L           72 FAIPHVPLDQRWMFTLEEATGPDIWNTTWYPKSADHVPTDKKWYVVDATDLILGRMASTIAIHIRGKNLASYTPSVDMGA  151 (250)
T ss_dssp             ----------------------------------------CCCCEECCSSCCSSTTHHHHTTTTTTTTTTCCCTTSCCSC
T ss_pred             cccccccccccccccchhhcCCCccceeecCChhhcccccceEEEEeCCCCchHHHHHHHHHHHccCCCCccCccccCCC
Confidence               78999999999999999999999999999999777899999999999999999999999999999999999999999


Q ss_pred             EEEEEecceeeeeCccccceeeeeccCCcCCCcccchhHhhhcChhHHHHHHHhCcCCCChhHHHHhhcCeeeCccchhc
Q 026665          146 YVIVVNAEKVAVSGKKRTQKIYRRHSGRPGGMKEETFDQLQHRIPERIIEHAVRGMLPKGRVSSLILNQILCVCMCLTSV  225 (235)
Q Consensus       146 ~VVVINAekI~vTG~K~~~K~Y~~HtgyPGGlk~~t~~~l~~r~P~~IlkrAVrGMLPkn~lGr~~lkrLkVYa~~p~~~  225 (235)
                      +|||||||+|++||+||++|.|++|+|||||+|+++++++++++|++||++|||||||||++||++|+|||||+|.+...
T Consensus       152 ~VVVINAeKI~lTG~K~~~K~Y~rHsgyPGGlK~~t~~~l~~r~PerIi~kAVrGMLPkn~lGr~~lkrLkVY~G~~HPh  231 (250)
T 3bbo_L          152 FVIVVNADKVAVSGKKRTQKLYRRHSGRPGGLKEETFDQLQKRIPERIIEHAVRGMLPKGRLGRYLFNHLKVYKGAEHPH  231 (250)
T ss_dssp             CCEESCCSSCCCCSGGGGTCCCBCCCSSSSCCCBCCHHHHTTSCTTHHHHHHHHTTSCSSSSHHHHHTTCCCCSSSCCSC
T ss_pred             EEEEEecceEEecCChhhceEEEEecCcCCCcccccHHHhhhcChHHHHHHHHHhcCCCCchHHHHHhCcEEeCCCCCCH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999986543
>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
>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
>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
>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 235
d2zjrg1142 c.21.1.1 (G:30-171) Ribosomal protein L13 {Deinoco 7e-38
d2gych1140 c.21.1.1 (H:1-140) Ribosomal protein L13 {Escheric 5e-35
d2j01n1139 c.21.1.1 (N:1-139) Ribosomal protein L13 {Thermus 2e-34
d1vqoj1142 c.21.1.1 (J:4-145) Ribosomal protein L13 {Archaeon 2e-21
d1j3aa_142 c.21.1.1 (A:) Ribosomal protein L13 {Archaeon Pyro 1e-17
>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 =  127 bits (319), Expect = 7e-38
 Identities = 55/114 (48%), Positives = 77/114 (67%), Gaps = 5/114 (4%)

Query: 93  TWYPKAADHRHSDKTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNA 152
           T+ PK       ++ W VVDA+   LGRLA+ IA  IRGK+   +TP++  G +V+V+NA
Sbjct: 2   TYIPKN-----DEQNWVVVDASGVPLGRLATLIASRIRGKHRPDFTPNMIQGDFVVVINA 56

Query: 153 EKVAVSGKKRTQKIYRRHSGRPGGMKEETFDQLQHRIPERIIEHAVRGMLPKGR 206
            +VA++GKK   K+Y R++G  GG+K ET  +   + PER+IEHAV GMLPKGR
Sbjct: 57  AQVALTGKKLDDKVYTRYTGYQGGLKTETAREALSKHPERVIEHAVFGMLPKGR 110
>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 ?
Query235
d2j01n1139 Ribosomal protein L13 {Thermus thermophilus [TaxId 100.0
d2zjrg1142 Ribosomal protein L13 {Deinococcus radiodurans [Ta 100.0
d2gych1140 Ribosomal protein L13 {Escherichia coli [TaxId: 56 100.0
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-56  Score=363.03  Aligned_cols=130  Identities=43%  Similarity=0.736  Sum_probs=124.8

Q ss_pred             ceeecccCCCcccccceEEEEeCCCCCchhhHHHHHHHHhcCCCCccCCCCCCCCEEEEEecceeeeeCccccceeeeec
Q 026665           91 NNTWYPKAADHRHSDKTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNAEKVAVSGKKRTQKIYRRH  170 (235)
Q Consensus        91 ~kT~~~k~~~~~~~~r~W~vIDA~gqiLGRLAS~IAk~L~GKhKp~ytP~~d~GD~VVVINAekI~vTG~K~~~K~Y~~H  170 (235)
                      |+||+|+.     .+++||||||+||+||||||.||++|+|||||+|||++||||+||||||++|++||+||++|.|++|
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 MKTYVPKQ-----VEPRWVLIDAEGKTLGRLATKIATLLRGKHRPDWTPNVAMGDFVVVVNADKIRVTGKKLEQKIYTRY   75 (139)
T ss_dssp             CCCCCCCC-----CCCCCCEECCTTSBTTHHHHHHHHHHTTSSSSSCCTTTCCCCCCEECSCSCCBCSSCCSSSSBCCCC
T ss_pred             CCccCccc-----ccceEEEEeCCCCchHHHHHHHHHHHhccchheeeeccCCCceEEEechhHeeeeccccceeeeeee
Confidence            68999873     5699999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cCCcCCCcccchhHhhhcChhHHHHHHHhCcCCCChhHHHHhhcCeeeCccchhc
Q 026665          171 SGRPGGMKEETFDQLQHRIPERIIEHAVRGMLPKGRVSSLILNQILCVCMCLTSV  225 (235)
Q Consensus       171 tgyPGGlk~~t~~~l~~r~P~~IlkrAVrGMLPkn~lGr~~lkrLkVYa~~p~~~  225 (235)
                      +|||||+++.+++++++++|++||++|||||||||++|+++|+||+||+|.+...
T Consensus        76 sgypGg~k~~~~~~~~~k~P~~il~~aV~gMLPkn~lg~~~l~rLkvy~g~~hp~  130 (139)
T d2j01n1          76 SGYPGGLKKIPLEKMLATHPERVLEHAVKGMLPKGPLGRRLFKRLKVYAGPDHPH  130 (139)
T ss_dssp             CCSSSCCCCCBHHHHHHSSCSHHHHHHHHTTSCSSHHHHHHHTTCEECSSSCCTT
T ss_pred             ccccCccccccHHHhcccCHHHHHHHHHHhcCCCChhHHHHHhCCEEeCCCCCCc
Confidence            9999999999999999999999999999999999999999999999999986543
>d2zjrg1 c.21.1.1 (G:30-171) Ribosomal protein L13 {Deinococcus radiodurans [TaxId: 1299]} 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
>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