Citrus Sinensis ID: 031812

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--
MSLVANEDFQHILRVLNTNVDGKQKIMFALTSIKGIGRRLANIVCKKADVDMNKRAGELSAAELDQLMVVVANPRQFKIPDWFLNRQKDYKDGRYSQVVSNALDMKLRDDLERLKKIRNHRGLRHYWGLRVRGQHTKTTGRRGKTVGVSKKR
cccccccccHHHHHHccccccccEEEEEEEcccccccHHHHHHHHHHHccccccccccccHHHHHHHHHHHHccccccccHHHHHccccccccccEEEEHHHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccccccccc
ccccccHHHHHHEEEEcccccccccHHHHHHHccHHHHHHHHHHHHHccccHcHccccccHHHHHHHHHHHHcHHHccccHHHHccccccccccccEEEccHHHHHHHHHHHHHHHHHHHcccHHccccEEcccccccccccccEEEEEccc
MSLVANEDFQHILRVLNTNVDGKQKIMFALTSIKGIGRRLANIVCKKADVDMNKRAGELSAAELDQLMVVVAnprqfkipdwflnrqkdykdgrysQVVSNALDMKLRDDLERLKKIRNhrglrhywglrvrgqhtkttgrrgktvgvskkr
MSLVANEDFQHILRVlntnvdgkqKIMFALTSIKGIGRRLANIVCKKADVDMNKRAGELSAAELDQLMVVVANprqfkipdwflnrqkdykdgrySQVVSNALDMKLRDDLERLKKirnhrglrhywglrvrgqhtkttgrrgktvgvskkr
MSLVANEDFQHILRVLNTNVDGKQKIMFALTSIKGIGRRLANIVCKKADVDMNKRAGELSAAELDQLMVVVANPRQFKIPDWFLNRQKDYKDGRYSQVVSNALDMKLRDDLERLKKIRNHRGLRHYWGLRVRGQHtkttgrrgktvgvSKKR
*******DFQHILRVLNTNVDGKQKIMFALTSIKGIGRRLANIVCKKADVDMNKRAGELSAAELDQLMVVVANPRQFKIPDWFLNRQKDYKDGRYSQVVSNALDMKLRDDLERLKKIRNHRGLRHYWGLRVRG*******************
*****NEDFQHILRVLNTNVDGKQKIMFALTSIKGIGRRLANIVCKKADVDMNKRAGELSAAELDQLMVVVANPRQFKIPDWFLNRQKDYKDGRYSQVVSNALDMKLRDDLERLKKIRNHRGLRHYWGLRVRGQHTKTTGRRGKTVG*****
MSLVANEDFQHILRVLNTNVDGKQKIMFALTSIKGIGRRLANIVCKKADVDMNKRAGELSAAELDQLMVVVANPRQFKIPDWFLNRQKDYKDGRYSQVVSNALDMKLRDDLERLKKIRNHRGLRHYWGLRVRGQH*****************
*SLVANEDFQHILRVLNTNVDGKQKIMFALTSIKGIGRRLANIVCKKADVDMNKRAGELSAAELDQLMVVVANPRQFKIPDWFLNRQKDYKDGRYSQVVSNALDMKLRDDLERLKKIRNHRGLRHYWGLRVRGQ********GKTV******
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
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oooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
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MSLVANEDFQHILRVLNTNVDGKQKIMFALTSIKGIGRRLANIVCKKADVDMNKRAGELSAAELDQLMVVVANPRQFKIPDWFLNRQKDYKDGRYSQVVSNALDMKLRDDLERLKKIRNHRGLRHYWGLRVRGQHTKTTGRRGKTVGVSKKR
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 ?
Query152 2.2.26 [Sep-21-2011]
P34788152 40S ribosomal protein S18 yes no 1.0 1.0 0.960 2e-82
Q8ISP0152 40S ribosomal protein S18 N/A no 1.0 1.0 0.776 2e-68
Q8IT98152 40S ribosomal protein S18 N/A no 1.0 1.0 0.756 2e-67
Q8JGS9152 40S ribosomal protein S18 yes no 1.0 1.0 0.730 2e-64
P49202153 40S ribosomal protein S18 N/A no 0.993 0.986 0.741 5e-64
P62271152 40S ribosomal protein S18 yes no 1.0 1.0 0.723 7e-64
P62272152 40S ribosomal protein S18 yes no 1.0 1.0 0.723 7e-64
P62270152 40S ribosomal protein S18 yes no 1.0 1.0 0.723 7e-64
P62269152 40S ribosomal protein S18 yes no 1.0 1.0 0.723 7e-64
A5JST6152 40S ribosomal protein S18 N/A no 1.0 1.0 0.723 7e-64
>sp|P34788|RS18_ARATH 40S ribosomal protein S18 OS=Arabidopsis thaliana GN=RPS18A PE=1 SV=1 Back     alignment and function desciption
 Score =  303 bits (777), Expect = 2e-82,   Method: Compositional matrix adjust.
 Identities = 146/152 (96%), Positives = 150/152 (98%)

Query: 1   MSLVANEDFQHILRVLNTNVDGKQKIMFALTSIKGIGRRLANIVCKKADVDMNKRAGELS 60
           MSLVANE+FQHILRVLNTNVDGKQKIMFALTSIKGIGRRLANIVCKKADVDMNKRAGELS
Sbjct: 1   MSLVANEEFQHILRVLNTNVDGKQKIMFALTSIKGIGRRLANIVCKKADVDMNKRAGELS 60

Query: 61  AAELDQLMVVVANPRQFKIPDWFLNRQKDYKDGRYSQVVSNALDMKLRDDLERLKKIRNH 120
           AAE+D LM +VANPRQFKIPDWFLNRQKDYKDG+YSQVVSNALDMKLRDDLERLKKIRNH
Sbjct: 61  AAEIDNLMTIVANPRQFKIPDWFLNRQKDYKDGKYSQVVSNALDMKLRDDLERLKKIRNH 120

Query: 121 RGLRHYWGLRVRGQHTKTTGRRGKTVGVSKKR 152
           RGLRHYWGLRVRGQHTKTTGRRGKTVGVSKKR
Sbjct: 121 RGLRHYWGLRVRGQHTKTTGRRGKTVGVSKKR 152
Located at the top of the head of the 40S subunit, it contacts several helices of the 18S rRNA.
Arabidopsis thaliana (taxid: 3702)
>sp|Q8ISP0|RS18_BRABE 40S ribosomal protein S18 OS=Branchiostoma belcheri GN=RPS18 PE=2 SV=1 Back     alignment and function description
>sp|Q8IT98|RS18_ARGIR 40S ribosomal protein S18 OS=Argopecten irradians GN=RPS18 PE=2 SV=1 Back     alignment and function description
>sp|Q8JGS9|RS18_DANRE 40S ribosomal protein S18 OS=Danio rerio GN=rps18 PE=2 SV=1 Back     alignment and function description
>sp|P49202|RS18_CHLRE 40S ribosomal protein S18 OS=Chlamydomonas reinhardtii GN=RPS18 PE=2 SV=1 Back     alignment and function description
>sp|P62271|RS18_RAT 40S ribosomal protein S18 OS=Rattus norvegicus GN=Rps18 PE=1 SV=3 Back     alignment and function description
>sp|P62272|RS18_PIG 40S ribosomal protein S18 OS=Sus scrofa GN=RPS18 PE=2 SV=3 Back     alignment and function description
>sp|P62270|RS18_MOUSE 40S ribosomal protein S18 OS=Mus musculus GN=Rps18 PE=1 SV=3 Back     alignment and function description
>sp|P62269|RS18_HUMAN 40S ribosomal protein S18 OS=Homo sapiens GN=RPS18 PE=1 SV=3 Back     alignment and function description
>sp|A5JST6|RS18_CAPHI 40S ribosomal protein S18 OS=Capra hircus GN=RPS18 PE=2 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 ?
Query152
296085211 912 unnamed protein product [Vitis vinifera] 1.0 0.166 0.960 1e-81
449443847152 PREDICTED: 40S ribosomal protein S18-lik 1.0 1.0 0.973 3e-81
255566712152 40S ribosomal protein S18, putative [Ric 1.0 1.0 0.967 4e-81
296081217194 unnamed protein product [Vitis vinifera] 1.0 0.783 0.960 6e-81
255559398152 40S ribosomal protein S18, putative [Ric 1.0 1.0 0.967 7e-81
15219950152 40S ribosomal protein S18 [Arabidopsis t 1.0 1.0 0.960 1e-80
247421835152 S18.A ribosomal protein [Jatropha curcas 1.0 1.0 0.960 1e-80
224085191152 predicted protein [Populus trichocarpa] 1.0 1.0 0.960 1e-80
225432662152 PREDICTED: 40S ribosomal protein S18-lik 1.0 1.0 0.960 2e-80
224082650152 predicted protein [Populus trichocarpa] 1.0 1.0 0.953 3e-80
>gi|296085211|emb|CBI28706.3| unnamed protein product [Vitis vinifera] Back     alignment and taxonomy information
 Score =  307 bits (786), Expect = 1e-81,   Method: Composition-based stats.
 Identities = 146/152 (96%), Positives = 150/152 (98%)

Query: 1   MSLVANEDFQHILRVLNTNVDGKQKIMFALTSIKGIGRRLANIVCKKADVDMNKRAGELS 60
           MSLVANE+FQHILRVLNTNVDGKQKIMFALTSIKGIGRR ANIVCKKADVDMNKRAGELS
Sbjct: 761 MSLVANEEFQHILRVLNTNVDGKQKIMFALTSIKGIGRRFANIVCKKADVDMNKRAGELS 820

Query: 61  AAELDQLMVVVANPRQFKIPDWFLNRQKDYKDGRYSQVVSNALDMKLRDDLERLKKIRNH 120
           AAEL+ LMV+VANPRQFKIPDWFLNR+KDYKDGRYSQVVSNALDMKLRDDLERLKKIRNH
Sbjct: 821 AAELENLMVIVANPRQFKIPDWFLNRKKDYKDGRYSQVVSNALDMKLRDDLERLKKIRNH 880

Query: 121 RGLRHYWGLRVRGQHTKTTGRRGKTVGVSKKR 152
           RGLRHYWGLRVRGQHTKTTGRRGKTVGVSKKR
Sbjct: 881 RGLRHYWGLRVRGQHTKTTGRRGKTVGVSKKR 912

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|449443847|ref|XP_004139687.1| PREDICTED: 40S ribosomal protein S18-like [Cucumis sativus] gi|449525091|ref|XP_004169553.1| PREDICTED: 40S ribosomal protein S18-like [Cucumis sativus] Back     alignment and taxonomy information
>gi|255566712|ref|XP_002524340.1| 40S ribosomal protein S18, putative [Ricinus communis] gi|223536431|gb|EEF38080.1| 40S ribosomal protein S18, putative [Ricinus communis] Back     alignment and taxonomy information
>gi|296081217|emb|CBI18243.3| unnamed protein product [Vitis vinifera] Back     alignment and taxonomy information
>gi|255559398|ref|XP_002520719.1| 40S ribosomal protein S18, putative [Ricinus communis] gi|223540104|gb|EEF41681.1| 40S ribosomal protein S18, putative [Ricinus communis] gi|313586541|gb|ADR71281.1| 40S ribosomal protein S18A [Hevea brasiliensis] Back     alignment and taxonomy information
>gi|15219950|ref|NP_173692.1| 40S ribosomal protein S18 [Arabidopsis thaliana] gi|15234790|ref|NP_192718.1| 40S ribosomal protein S18 [Arabidopsis thaliana] gi|18399100|ref|NP_564434.1| 40S ribosomal protein S18 [Arabidopsis thaliana] gi|297809155|ref|XP_002872461.1| hypothetical protein ARALYDRAFT_489832 [Arabidopsis lyrata subsp. lyrata] gi|297845304|ref|XP_002890533.1| hypothetical protein ARALYDRAFT_472522 [Arabidopsis lyrata subsp. lyrata] gi|297851838|ref|XP_002893800.1| hypothetical protein ARALYDRAFT_473557 [Arabidopsis lyrata subsp. lyrata] gi|464707|sp|P34788.1|RS18_ARATH RecName: Full=40S ribosomal protein S18 gi|10086474|gb|AAG12534.1|AC015446_15 ribosomal protein S18 [Arabidopsis thaliana] gi|10092450|gb|AAG12853.1|AC079286_10 40S ribosomal protein S18; 25853-24673 [Arabidopsis thaliana] gi|14423408|gb|AAK62386.1|AF386941_1 S18.A ribosomal protein [Arabidopsis thaliana] gi|15724158|gb|AAL06471.1|AF411781_1 At1g22780/T22J18_5 [Arabidopsis thaliana] gi|405613|emb|CAA80684.1| ribosomal protein S18A [Arabidopsis thaliana] gi|434343|emb|CAA82273.1| S18 ribosomal protein [Arabidopsis thaliana] gi|434345|emb|CAA82274.1| S18 ribosomal protein [Arabidopsis thaliana] gi|434906|emb|CAA82275.1| S18 ribosomal protein [Arabidopsis thaliana] gi|2505871|emb|CAA72909.1| ribosomal protein S18A [Arabidopsis thaliana] gi|3287678|gb|AAC25506.1| Match to ribosomal S18 gene mRNA gb|Z28701, DNA gb|Z23165 from A. thaliana. ESTs gb|T21121, gb|Z17755, gb|R64776 and gb|R30430 come from this gene [Arabidopsis thaliana] gi|4538910|emb|CAB39647.1| S18.A ribosomal protein [Arabidopsis thaliana] gi|7267675|emb|CAB78103.1| S18.A ribosomal protein [Arabidopsis thaliana] gi|14334584|gb|AAK59471.1| putative ribosomal protein S18 [Arabidopsis thaliana] gi|17979113|gb|AAL47500.1| putative ribosomal protein S18 [Arabidopsis thaliana] gi|21555397|gb|AAM63849.1| ribosomal protein S18, putative [Arabidopsis thaliana] gi|21592452|gb|AAM64403.1| ribosomal protein S18, putative [Arabidopsis thaliana] gi|21593027|gb|AAM64976.1| ribosomal protein S18, putative [Arabidopsis thaliana] gi|30102858|gb|AAP21347.1| At4g09800 [Arabidopsis thaliana] gi|56236126|gb|AAV84519.1| At1g22780 [Arabidopsis thaliana] gi|98961089|gb|ABF59028.1| At1g22780 [Arabidopsis thaliana] gi|145713244|gb|ABP96570.1| pointed first leaf [Arabidopsis thaliana] gi|145713246|gb|ABP96571.1| pointed first leaf [Arabidopsis thaliana] gi|145713248|gb|ABP96572.1| pointed first leaf [Arabidopsis thaliana] gi|145713250|gb|ABP96573.1| pointed first leaf [Arabidopsis thaliana] gi|145713252|gb|ABP96574.1| pointed first leaf [Arabidopsis thaliana] gi|145713254|gb|ABP96575.1| pointed first leaf [Arabidopsis thaliana] gi|145713256|gb|ABP96576.1| pointed first leaf [Arabidopsis thaliana] gi|145713258|gb|ABP96577.1| pointed first leaf [Arabidopsis thaliana] gi|145713260|gb|ABP96578.1| pointed first leaf [Arabidopsis thaliana] gi|145713262|gb|ABP96579.1| pointed first leaf [Arabidopsis thaliana] gi|145713264|gb|ABP96580.1| pointed first leaf [Arabidopsis thaliana] gi|145713266|gb|ABP96581.1| pointed first leaf [Arabidopsis thaliana] gi|145713268|gb|ABP96582.1| pointed first leaf [Arabidopsis thaliana] gi|145713270|gb|ABP96583.1| pointed first leaf [Arabidopsis thaliana] gi|145713272|gb|ABP96584.1| pointed first leaf [Arabidopsis thaliana] gi|145713274|gb|ABP96585.1| pointed first leaf [Arabidopsis thaliana] gi|145713276|gb|ABP96586.1| pointed first leaf [Arabidopsis thaliana] gi|145713278|gb|ABP96587.1| pointed first leaf [Arabidopsis thaliana] gi|145713280|gb|ABP96588.1| pointed first leaf [Arabidopsis thaliana] gi|145713282|gb|ABP96589.1| pointed first leaf [Arabidopsis thaliana] gi|145713284|gb|ABP96590.1| pointed first leaf [Arabidopsis thaliana] gi|297318298|gb|EFH48720.1| hypothetical protein ARALYDRAFT_489832 [Arabidopsis lyrata subsp. lyrata] gi|297336375|gb|EFH66792.1| hypothetical protein ARALYDRAFT_472522 [Arabidopsis lyrata subsp. lyrata] gi|297339642|gb|EFH70059.1| hypothetical protein ARALYDRAFT_473557 [Arabidopsis lyrata subsp. lyrata] gi|332192166|gb|AEE30287.1| 40S ribosomal protein S18 [Arabidopsis thaliana] gi|332193538|gb|AEE31659.1| 40S ribosomal protein S18 [Arabidopsis thaliana] gi|332657400|gb|AEE82800.1| 40S ribosomal protein S18 [Arabidopsis thaliana] Back     alignment and taxonomy information
>gi|247421835|gb|ACS96445.1| S18.A ribosomal protein [Jatropha curcas] Back     alignment and taxonomy information
>gi|224085191|ref|XP_002307515.1| predicted protein [Populus trichocarpa] gi|222856964|gb|EEE94511.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
>gi|225432662|ref|XP_002282412.1| PREDICTED: 40S ribosomal protein S18-like [Vitis vinifera] gi|225460586|ref|XP_002262702.1| PREDICTED: 40S ribosomal protein S18-like [Vitis vinifera] gi|359479621|ref|XP_003632303.1| PREDICTED: 40S ribosomal protein S18-like [Vitis vinifera] Back     alignment and taxonomy information
>gi|224082650|ref|XP_002306780.1| predicted protein [Populus trichocarpa] gi|118481499|gb|ABK92692.1| unknown [Populus trichocarpa] gi|222856229|gb|EEE93776.1| predicted protein [Populus trichocarpa] 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 ?
Query152
TAIR|locus:2199670152 PFL "POINTED FIRST LEAVES" [Ar 1.0 1.0 0.875 7.2e-68
TAIR|locus:2009066152 AT1G34030 [Arabidopsis thalian 1.0 1.0 0.875 7.2e-68
TAIR|locus:2005541152 RPS18C "S18 ribosomal protein" 1.0 1.0 0.875 7.2e-68
UNIPROTKB|Q8H590152 OJ1656_E11.104 "Putative ribos 1.0 1.0 0.802 7.6e-64
UNIPROTKB|Q8H588148 OJ1656_E11.108 "Putative ribos 0.960 0.986 0.815 7.9e-62
UNIPROTKB|A8HVP2153 RPS18 "Ribosomal protein S18" 0.993 0.986 0.675 7e-54
ZFIN|ZDB-GENE-020419-20152 rps18 "ribosomal protein S18" 1.0 1.0 0.651 1.3e-52
UNIPROTKB|Q90YQ5152 rps18 "40S ribosomal protein S 1.0 1.0 0.644 4.4e-52
UNIPROTKB|Q3T0R1152 RPS18 "40S ribosomal protein S 1.0 1.0 0.644 5.6e-52
UNIPROTKB|Q5TJE9152 RPS18 "40S ribosomal protein S 1.0 1.0 0.644 5.6e-52
TAIR|locus:2199670 PFL "POINTED FIRST LEAVES" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 689 (247.6 bits), Expect = 7.2e-68, P = 7.2e-68
 Identities = 133/152 (87%), Positives = 137/152 (90%)

Query:     1 MSLVANEDFQHILRVLNTNVDGKQKIMFALTSIKGIGRRLANIVCKKADVDMNKRAGELS 60
             MSLVANE+FQHILRVLNTNVDGKQKIMFALTSIKGIGRRLANIVCKKADVDMNKRAGELS
Sbjct:     1 MSLVANEEFQHILRVLNTNVDGKQKIMFALTSIKGIGRRLANIVCKKADVDMNKRAGELS 60

Query:    61 AAELDQLMVVVANPRQFKIPDWFLNRQKDYKDGRYSQVVSNALDMKLRDDLERLKKIRNH 120
             AAE+D LM +VANPRQFKIPDWFLNRQKDYKDG+YSQVVSNALDMKLRDDLERLKKIRNH
Sbjct:    61 AAEIDNLMTIVANPRQFKIPDWFLNRQKDYKDGKYSQVVSNALDMKLRDDLERLKKIRNH 120

Query:   121 RGLRHYWGLRVRGQHXXXXXXXXXXXXXSKKR 152
             RGLRHYWGLRVRGQH             SKKR
Sbjct:   121 RGLRHYWGLRVRGQHTKTTGRRGKTVGVSKKR 152
GO:0003676 "nucleic acid binding" evidence=IEA
GO:0003723 "RNA binding" evidence=IEA
GO:0003735 "structural constituent of ribosome" evidence=IEA;ISS
GO:0005622 "intracellular" evidence=IEA
GO:0005737 "cytoplasm" evidence=ISM
GO:0005840 "ribosome" evidence=IEA;ISS
GO:0006412 "translation" evidence=IEA;ISS
GO:0015935 "small ribosomal subunit" evidence=ISS
GO:0042254 "ribosome biogenesis" evidence=IBA
GO:0005618 "cell wall" evidence=IDA
GO:0005774 "vacuolar membrane" evidence=IDA
GO:0005886 "plasma membrane" evidence=IDA
GO:0022627 "cytosolic small ribosomal subunit" evidence=IDA
GO:0005829 "cytosol" evidence=IDA
GO:0009506 "plasmodesma" evidence=IDA
GO:0005794 "Golgi apparatus" evidence=RCA
GO:0006413 "translational initiation" evidence=TAS
TAIR|locus:2009066 AT1G34030 [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2005541 RPS18C "S18 ribosomal protein" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
UNIPROTKB|Q8H590 OJ1656_E11.104 "Putative ribosomal protein S18A" [Oryza sativa Japonica Group (taxid:39947)] Back     alignment and assigned GO terms
UNIPROTKB|Q8H588 OJ1656_E11.108 "Putative ribosomal protein S18" [Oryza sativa Japonica Group (taxid:39947)] Back     alignment and assigned GO terms
UNIPROTKB|A8HVP2 RPS18 "Ribosomal protein S18" [Chlamydomonas reinhardtii (taxid:3055)] Back     alignment and assigned GO terms
ZFIN|ZDB-GENE-020419-20 rps18 "ribosomal protein S18" [Danio rerio (taxid:7955)] Back     alignment and assigned GO terms
UNIPROTKB|Q90YQ5 rps18 "40S ribosomal protein S18" [Ictalurus punctatus (taxid:7998)] Back     alignment and assigned GO terms
UNIPROTKB|Q3T0R1 RPS18 "40S ribosomal protein S18" [Bos taurus (taxid:9913)] Back     alignment and assigned GO terms
UNIPROTKB|Q5TJE9 RPS18 "40S ribosomal protein S18" [Canis lupus familiaris (taxid:9615)] 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) ?
Q97B96RS13_THEVONo assigned EC number0.37410.96050.8538yesno
Q90YQ5RS18_ICTPUNo assigned EC number0.72361.01.0N/Ano
A5JST6RS18_CAPHINo assigned EC number0.72361.01.0N/Ano
P49202RS18_CHLRENo assigned EC number0.74170.99340.9869N/Ano
Q869U7RS18_DICDINo assigned EC number0.64900.99340.9805yesno
Q962R1RS18_SPOFRNo assigned EC number0.70391.01.0N/Ano
Q3T0R1RS18_BOVINNo assigned EC number0.72361.01.0yesno
Q9V1A0RS13_PYRABNo assigned EC number0.43440.95390.9797yesno
O26141RS13_METTHNo assigned EC number0.41780.96050.9798yesno
A1RT04RS13_PYRILNo assigned EC number0.36050.96050.9542yesno
Q2NFZ3RS13_METSTNo assigned EC number0.44290.98020.9738yesno
Q8PV19RS13_METMANo assigned EC number0.42850.96050.9012yesno
P48151RS18_ENTHINo assigned EC number0.59471.00.9806N/Ano
A5UN52RS13_METS3No assigned EC number0.41660.94730.9795yesno
P54019RS13_METJANo assigned EC number0.42850.96710.98yesno
Q46GC7RS13_METBFNo assigned EC number0.42850.96050.9012yesno
A0B9L1RS13_METTPNo assigned EC number0.44130.94730.9056yesno
A2BK76RS13_HYPBUNo assigned EC number0.42560.97360.9801yesno
Q9YB60RS13_AERPENo assigned EC number0.40.98681.0yesno
Q12ZR6RS13_METBUNo assigned EC number0.40260.97361.0yesno
Q2FT96RS13_METHJNo assigned EC number0.40130.96050.9668yesno
A3DMQ3RS13_STAMFNo assigned EC number0.40660.98680.9933yesno
A3CWH6RS13_METMJNo assigned EC number0.39040.95390.9731yesno
Q8U0E2RS13_PYRFUNo assigned EC number0.44130.95390.9797yesno
O27999RS13_ARCFUNo assigned EC number0.40270.94070.9794yesno
Q8JGS9RS18_DANRENo assigned EC number0.73021.01.0yesno
P62269RS18_HUMANNo assigned EC number0.72361.01.0yesno
A3MUT0RS13_PYRCJNo assigned EC number0.36980.95390.9477yesno
Q8ISP0RS18_BRABENo assigned EC number0.77631.01.0N/Ano
Q3IQT9RS13_NATPDNo assigned EC number0.40270.94070.8411yesno
Q6KZP8RS13_PICTONo assigned EC number0.38090.96710.9303yesno
Q8IT98RS18_ARGIRNo assigned EC number0.75651.01.0N/Ano
Q5JJF1RS13_PYRKONo assigned EC number0.40810.96710.9865yesno
O74021RS13_PYRHONo assigned EC number0.43440.95390.9797yesno
P34788RS18_ARATHNo assigned EC number0.96051.01.0yesno
Q5TJE9RS18_CANFANo assigned EC number0.72361.01.0yesno
O94754RS18_SCHPONo assigned EC number0.71051.01.0yesno
Q8SRP2RS18_ENCCUNo assigned EC number0.43440.95390.9477yesno
P0CX55RS18A_YEASTNo assigned EC number0.65970.93420.9726yesno
P0CX56RS18B_YEASTNo assigned EC number0.65970.93420.9726yesno
Q8ZTV0RS13_PYRAENo assigned EC number0.36730.96050.9605yesno
Q9HJD6RS13_THEACNo assigned EC number0.35370.96050.8538yesno
P62271RS18_RATNo assigned EC number0.72361.01.0yesno
P62270RS18_MOUSENo assigned EC number0.72361.01.0yesno
P41094RS18_DROMENo assigned EC number0.69731.01.0yesno
P62272RS18_PIGNo assigned EC number0.72361.01.0yesno
A2SSW0RS13_METLZNo assigned EC number0.39730.97360.9866yesno
Q8TVC1RS13_METKANo assigned EC number0.43040.98020.9867yesno

EC Number Prediction by Ezypred Server ?

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software ?

No EC number assignment, probably not an enzyme!

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING ?

Original result from the STRING server

Your Input:
fgenesh2_kg.1__3511__AT1G34030.1
annotation not avaliable (152 aa)
(Arabidopsis lyrata)
Predicted Functional Partners:
fgenesh2_kg.6__1496__AT5G15200.1
annotation not avaliable (198 aa)
•  •••• 0.928
fgenesh2_kg.7__3438__AT5G39850.1
annotation not avaliable (197 aa)
•  •••• 0.927
fgenesh2_kg.6__1842__AT2G09990.1
annotation not avaliable (146 aa)
•  •••• 0.879
fgenesh2_kg.3__384__AT3G04230.1
annotation not avaliable (146 aa)
•  •••• 0.875
fgenesh2_kg.3__1244__AT3G11940.2
annotation not avaliable (207 aa)
   •••• 0.813
fgenesh2_kg.6__206__AT5G02960.1
annotation not avaliable (142 aa)
   •••• 0.810
fgenesh2_kg.4__1779__AT2G37270.2
annotation not avaliable (207 aa)
   •••• 0.808
fgenesh2_kg.7__621__AT4G34670.1
annotation not avaliable (262 aa)
   •••• 0.806
fgenesh2_kg.3__991__AT3G09680.1
annotation not avaliable (142 aa)
   •••• 0.802
scaffold_502339.1
annotation not avaliable (149 aa)
•  •• • 0.798

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 ?
Query152
PTZ00134154 PTZ00134, PTZ00134, 40S ribosomal protein S18; Pro 4e-92
PRK04053149 PRK04053, rps13p, 30S ribosomal protein S13P; Revi 7e-60
TIGR03629144 TIGR03629, arch_S13P, archaeal ribosomal protein S 5e-54
pfam00416106 pfam00416, Ribosomal_S13, Ribosomal protein S13/S1 2e-42
COG0099121 COG0099, RpsM, Ribosomal protein S13 [Translation, 3e-40
PRK05179122 PRK05179, rpsM, 30S ribosomal protein S13; Validat 3e-17
TIGR03631113 TIGR03631, bact_S13, 30S ribosomal protein S13 5e-16
CHL00137122 CHL00137, rps13, ribosomal protein S13; Validated 4e-08
>gnl|CDD|185469 PTZ00134, PTZ00134, 40S ribosomal protein S18; Provisional Back     alignment and domain information 
 Score =  263 bits (674), Expect = 4e-92
 Identities = 107/152 (70%), Positives = 134/152 (88%)

Query: 1   MSLVANEDFQHILRVLNTNVDGKQKIMFALTSIKGIGRRLANIVCKKADVDMNKRAGELS 60
           ++L   +DFQHILR+LNTNVDGK+K+ +ALT+IKGIGRR A +VCKKA +D+ KRAGEL+
Sbjct: 3   LTLEKADDFQHILRILNTNVDGKRKVPYALTAIKGIGRRFAYLVCKKAGIDVTKRAGELT 62

Query: 61  AAELDQLMVVVANPRQFKIPDWFLNRQKDYKDGRYSQVVSNALDMKLRDDLERLKKIRNH 120
           A E+++++ ++ANP QFKIPDWFLNRQ+D KDG+ S + SN LD KLR+DLERLKKIR H
Sbjct: 63  AEEIEKIVEIIANPLQFKIPDWFLNRQRDPKDGKNSHLTSNMLDTKLREDLERLKKIRLH 122

Query: 121 RGLRHYWGLRVRGQHTKTTGRRGKTVGVSKKR 152
           RGLRH+WGLRVRGQHTKTTGRRG+TVGVS+K+
Sbjct: 123 RGLRHHWGLRVRGQHTKTTGRRGRTVGVSRKK 154

Length = 154
>gnl|CDD|235215 PRK04053, rps13p, 30S ribosomal protein S13P; Reviewed Back     alignment and domain information
>gnl|CDD|213839 TIGR03629, arch_S13P, archaeal ribosomal protein S13P Back     alignment and domain information
>gnl|CDD|144128 pfam00416, Ribosomal_S13, Ribosomal protein S13/S18 Back     alignment and domain information
>gnl|CDD|223177 COG0099, RpsM, Ribosomal protein S13 [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>gnl|CDD|235358 PRK05179, rpsM, 30S ribosomal protein S13; Validated Back     alignment and domain information
>gnl|CDD|213840 TIGR03631, bact_S13, 30S ribosomal protein S13 Back     alignment and domain information
>gnl|CDD|177059 CHL00137, rps13, ribosomal protein S13; Validated Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 152
PTZ00134154 40S ribosomal protein S18; Provisional 100.0
PRK04053149 rps13p 30S ribosomal protein S13P; Reviewed 100.0
TIGR03629144 arch_S13P archaeal ribosomal protein S13P. This mo 100.0
COG0099121 RpsM Ribosomal protein S13 [Translation, ribosomal 100.0
KOG3311152 consensus Ribosomal protein S18 [Translation, ribo 100.0
CHL00137122 rps13 ribosomal protein S13; Validated 100.0
PRK05179122 rpsM 30S ribosomal protein S13; Validated 100.0
TIGR03631113 bact_S13 30S ribosomal protein S13. This model des 100.0
PF00416107 Ribosomal_S13: Ribosomal protein S13/S18; InterPro 100.0
PF0683192 H2TH: Formamidopyrimidine-DNA glycosylase H2TH dom 97.06
PRK01103274 formamidopyrimidine/5-formyluracil/ 5-hydroxymethy 96.92
PRK14810272 formamidopyrimidine-DNA glycosylase; Provisional 96.17
PRK14811269 formamidopyrimidine-DNA glycosylase; Provisional 96.1
PRK10445263 endonuclease VIII; Provisional 95.97
PRK13945282 formamidopyrimidine-DNA glycosylase; Provisional 95.95
TIGR00577272 fpg formamidopyrimidine-DNA glycosylase (fpg). All 95.88
PRK04184 535 DNA topoisomerase VI subunit B; Validated 94.67
PF0063330 HHH: Helix-hairpin-helix motif; InterPro: IPR00044 93.58
COG0266273 Nei Formamidopyrimidine-DNA glycosylase [DNA repli 93.18
PF05833 455 FbpA: Fibronectin-binding protein A N-terminus (Fb 92.74
TIGR01052 488 top6b DNA topoisomerase VI, B subunit. This model 92.57
TIGR00275400 flavoprotein, HI0933 family. The model when search 90.62
PF1179832 IMS_HHH: IMS family HHH motif; InterPro: IPR024728 89.06
PF1452060 HHH_5: Helix-hairpin-helix domain; PDB: 3AUO_B 3AU 88.36
PF1039152 DNA_pol_lambd_f: Fingers domain of DNA polymerase 87.24
COG3743133 Uncharacterized conserved protein [Function unknow 86.57
smart0027826 HhH1 Helix-hairpin-helix DNA-binding motif class 1 86.42
PRK00274272 ksgA 16S ribosomal RNA methyltransferase KsgA/Dim1 85.5
PRK02515132 psbU photosystem II complex extrinsic protein prec 85.23
PRK14606188 ruvA Holliday junction DNA helicase RuvA; Provisio 83.91
KOG3311152 consensus Ribosomal protein S18 [Translation, ribo 83.65
COG1389 538 DNA topoisomerase VI, subunit B [DNA replication, 83.59
PRK14601183 ruvA Holliday junction DNA helicase RuvA; Provisio 83.01
PRK14604195 ruvA Holliday junction DNA helicase RuvA; Provisio 81.95
PRK14603197 ruvA Holliday junction DNA helicase RuvA; Provisio 81.77
PRK13901196 ruvA Holliday junction DNA helicase RuvA; Provisio 81.49
COG0030259 KsgA Dimethyladenosine transferase (rRNA methylati 81.33
COG0632201 RuvA Holliday junction resolvasome, DNA-binding su 80.98
PRK14602203 ruvA Holliday junction DNA helicase RuvA; Provisio 80.59
TIGR03252177 uncharacterized HhH-GPD family protein. This model 80.24
>PTZ00134 40S ribosomal protein S18; Provisional Back     alignment and domain information 
Probab=100.00  E-value=1.6e-67  Score=407.37  Aligned_cols=152  Identities=72%  Similarity=1.162  Sum_probs=146.8

Q ss_pred             CCCCC--ccchhhhhhhcCcccCCCeEeeeeeccccccchhhHHHHHHHhCCCCCCcCCCCCHHHHHHHHHHHhCCCCcc
Q 031812            1 MSLVA--NEDFQHILRVLNTNVDGKQKIMFALTSIKGIGRRLANIVCKKADVDMNKRAGELSAAELDQLMVVVANPRQFK   78 (152)
Q Consensus         1 ~~~~~--~~~~~~~vri~~~~l~~~k~v~~aLt~I~GIG~~~A~~Ic~~lgi~~~~kv~~Ls~~qi~~L~~~i~~~~~~~   78 (152)
                      |++..  +++|+||+||+|||||++|+|.+||++|||||+.+|.+||++|||||++++++||++|++.|.++|++|.+|.
T Consensus         1 ~~~~~~~~~~~~~mvrI~~~~l~~~K~v~~aLt~I~GIG~~~A~~I~~~lgi~~~~~~~~Lt~~qi~~l~~~i~~~~~~~   80 (154)
T PTZ00134          1 MSLTLEKADDFQHILRILNTNVDGKRKVPYALTAIKGIGRRFAYLVCKKAGIDVTKRAGELTAEEIEKIVEIIANPLQFK   80 (154)
T ss_pred             CCccccchhhhhhhhhccCccCCCCCEEEEeecccccccHHHHHHHHHHcCcCcCCCcccCCHHHHHHHHHHHhccccCC
Confidence            44553  3589999999999999999999999999999999999999999999999999999999999999999988899


Q ss_pred             CCcccccccCCcCCCcceeeehhhHHHHHHHhHHHhHhhceeecccCCCCCccCCcCCcccCCCccceeeeccC
Q 031812           79 IPDWFLNRQKDYKDGRYSQVVSNALDMKLRDDLERLKKIRNHRGLRHYWGLRVRGQHTKTTGRRGKTVGVSKKR  152 (152)
Q Consensus        79 ip~w~~nr~~d~~tg~~~~~i~~dL~~~~~~~I~rl~~I~syRG~RH~~gLPVRGQRTrTNart~~~~gv~~~k  152 (152)
                      +|+||+|||+|++||+|.|+||+||++.+++||+||++|+||||+||++||||||||||||||||+++||++||
T Consensus        81 iP~w~~nr~kd~~tG~d~h~i~~dL~~~~~~dI~Rl~~I~sYRG~RH~~GLpVRGQRTkTnaR~g~~~gv~~kk  154 (154)
T PTZ00134         81 IPDWFLNRQRDPKDGKNSHLTSNMLDTKLREDLERLKKIRLHRGLRHHWGLRVRGQHTKTTGRRGRTVGVSRKK  154 (154)
T ss_pred             CChhHhhccccccccchhhhhHHHHHHHHHHHHHHHHHhcchheeecccCCccCCccCCCCCccccccceeccC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999997

>PRK04053 rps13p 30S ribosomal protein S13P; Reviewed Back     alignment and domain information
>TIGR03629 arch_S13P archaeal ribosomal protein S13P Back     alignment and domain information
>COG0099 RpsM Ribosomal protein S13 [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>KOG3311 consensus Ribosomal protein S18 [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>CHL00137 rps13 ribosomal protein S13; Validated Back     alignment and domain information
>PRK05179 rpsM 30S ribosomal protein S13; Validated Back     alignment and domain information
>TIGR03631 bact_S13 30S ribosomal protein S13 Back     alignment and domain information
>PF00416 Ribosomal_S13: Ribosomal protein S13/S18; InterPro: IPR001892 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms Back     alignment and domain information
>PF06831 H2TH: Formamidopyrimidine-DNA glycosylase H2TH domain; InterPro: IPR015886 This entry represents a helix-2turn-helix DNA-binding domain found in DNA glycosylase/AP lyase enzymes, which are involved in base excision repair of DNA damaged by oxidation or by mutagenic agents Back     alignment and domain information
>PRK01103 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated Back     alignment and domain information
>PRK14810 formamidopyrimidine-DNA glycosylase; Provisional Back     alignment and domain information
>PRK14811 formamidopyrimidine-DNA glycosylase; Provisional Back     alignment and domain information
>PRK10445 endonuclease VIII; Provisional Back     alignment and domain information
>PRK13945 formamidopyrimidine-DNA glycosylase; Provisional Back     alignment and domain information
>TIGR00577 fpg formamidopyrimidine-DNA glycosylase (fpg) Back     alignment and domain information
>PRK04184 DNA topoisomerase VI subunit B; Validated Back     alignment and domain information
>PF00633 HHH: Helix-hairpin-helix motif; InterPro: IPR000445 The HhH motif is an around 20 amino acids domain present in prokaryotic and eukaryotic non-sequence-specific DNA binding proteins [, , ] Back     alignment and domain information
>COG0266 Nei Formamidopyrimidine-DNA glycosylase [DNA replication, recombination, and repair] Back     alignment and domain information
>PF05833 FbpA: Fibronectin-binding protein A N-terminus (FbpA); InterPro: IPR008616 This family consists of the N-terminal region of the prokaryotic fibronectin-binding protein, the C-terminal region is IPR008532 from INTERPRO Back     alignment and domain information
>TIGR01052 top6b DNA topoisomerase VI, B subunit Back     alignment and domain information
>TIGR00275 flavoprotein, HI0933 family Back     alignment and domain information
>PF11798 IMS_HHH: IMS family HHH motif; InterPro: IPR024728 This helix-hairpin-helix motif is found in proteins belonging to the type-Y family of DNA polymerases [] Back     alignment and domain information
>PF14520 HHH_5: Helix-hairpin-helix domain; PDB: 3AUO_B 3AU6_A 3AU2_A 3B0X_A 3B0Y_A 1SZP_C 3LDA_A 1WCN_A 2JZB_B 2ZTC_A Back     alignment and domain information
>PF10391 DNA_pol_lambd_f: Fingers domain of DNA polymerase lambda; InterPro: IPR018944 DNA polymerases catalyse the addition of dNMPs onto the 3-prime ends of DNA chains Back     alignment and domain information
>COG3743 Uncharacterized conserved protein [Function unknown] Back     alignment and domain information
>smart00278 HhH1 Helix-hairpin-helix DNA-binding motif class 1 Back     alignment and domain information
>PRK00274 ksgA 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed Back     alignment and domain information
>PRK02515 psbU photosystem II complex extrinsic protein precursor U; Provisional Back     alignment and domain information
>PRK14606 ruvA Holliday junction DNA helicase RuvA; Provisional Back     alignment and domain information
>KOG3311 consensus Ribosomal protein S18 [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>COG1389 DNA topoisomerase VI, subunit B [DNA replication, recombination, and repair] Back     alignment and domain information
>PRK14601 ruvA Holliday junction DNA helicase RuvA; Provisional Back     alignment and domain information
>PRK14604 ruvA Holliday junction DNA helicase RuvA; Provisional Back     alignment and domain information
>PRK14603 ruvA Holliday junction DNA helicase RuvA; Provisional Back     alignment and domain information
>PRK13901 ruvA Holliday junction DNA helicase RuvA; Provisional Back     alignment and domain information
>COG0030 KsgA Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>COG0632 RuvA Holliday junction resolvasome, DNA-binding subunit [DNA replication, recombination, and repair] Back     alignment and domain information
>PRK14602 ruvA Holliday junction DNA helicase RuvA; Provisional Back     alignment and domain information
>TIGR03252 uncharacterized HhH-GPD family protein 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 ?
Query152
3iz6_M152 Localization Of The Small Subunit Ribosomal Protein 5e-70
2zkq_m152 Structure Of A Mammalian Ribosomal 40s Subunit With 2e-56
3izb_M146 Localization Of The Small Subunit Ribosomal Protein 2e-49
3zey_M153 High-resolution Cryo-electron Microscopy Structure 4e-45
1s1h_M132 Structure Of The Ribosomal 80s-Eef2-Sordarin Comple 4e-45
3jyv_M130 Structure Of The 40s Rrna And Proteins And PE TRNA 1e-44
2xzm_M155 Crystal Structure Of The Eukaryotic 40s Ribosomal S 1e-39
3j20_O148 Promiscuous Behavior Of Proteins In Archaeal Riboso 6e-27
1p6g_M117 Real Space Refined Coordinates Of The 30s Subunit F 1e-04
2gy9_M115 Structure Of The 30s Subunit Of A Pre-Translocation 1e-04
3ofo_M114 Crystal Structure Of The E. Coli Ribosome Bound To 1e-04
1vs5_M118 Crystal Structure Of The Bacterial Ribosome From Es 1e-04
3fih_M113 Ternary Complex-Bound E.Coli 70s Ribosome. This Ent 1e-04
1fjg_M126 Structure Of The Thermus Thermophilus 30s Ribosomal 4e-04
1i94_M125 Crystal Structures Of The Small Ribosomal Subunit W 4e-04
3mr8_M117 Recognition Of The Amber Stop Codon By Release Fact 4e-04
3pyn_M116 Crystal Structure Of A Complex Containing Domain 3 5e-04
>pdb|3IZ6|M Chain M, Localization Of The Small Subunit Ribosomal Proteins Into A 5.5 A Cryo-Em Map Of Triticum Aestivum Translating 80s Ribosome Length = 152 Back     alignment and structure 
Iteration: 1

 Score =  259 bits (662), Expect = 5e-70,   Method: Compositional matrix adjust.
 Identities = 122/152 (80%), Positives = 134/152 (88%)
Query: 1   MSLVANEDFQHILRVLNTNVDGKQKIMFALTSIKGIGRRLANIVCKKADVDMNKRAGELS 60
           MSL+A E+FQHILRVLNTNVDGKQKIMFALTSIKG+GRR +NIVCKKAD+DMNKRAGELS
Sbjct: 1   MSLIAGEEFQHILRVLNTNVDGKQKIMFALTSIKGVGRRFSNIVCKKADIDMNKRAGELS 60
Query: 61  AAELDQLMVVVANPRQFKIPDWFLNRQKDYKDGRYSQVVSNALDMKLRDDLERLKKIRNH 120
           A E+D+LM VV NPRQFK+PDWFLNR+KDYKDGR+SQVVSNA+DMKLRDDLERLKKIRNH
Sbjct: 61  AEEMDRLMAVVHNPRQFKVPDWFLNRKKDYKDGRFSQVVSNAVDMKLRDDLERLKKIRNH 120
Query: 121 RGLRHYWGLRVRGQHXXXXXXXXXXXXXSKKR 152
           RGLRHYWG+RVRGQH             SKKR
Sbjct: 121 RGLRHYWGVRVRGQHTKTTGRRGKTVGVSKKR 152
>pdb|2ZKQ|MM Chain m, Structure Of A Mammalian Ribosomal 40s Subunit Within An 80s Complex Obtained By Docking Homology Models Of The Rna And Proteins Into An 8.7 A Cryo-Em Map Length = 152 Back     alignment and structure
>pdb|3IZB|M Chain M, Localization Of The Small Subunit Ribosomal Proteins Into A 6.1 A Cryo-Em Map Of Saccharomyces Cerevisiae Translating 80s Ribosome Length = 146 Back     alignment and structure
>pdb|3ZEY|M Chain M, High-resolution Cryo-electron Microscopy Structure Of The Trypanosoma Brucei Ribosome Length = 153 Back     alignment and structure
>pdb|1S1H|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, 1s1h, Contains 40s Subunit. The 60s Ribosomal Subunit Is In File 1s1i Length = 132 Back     alignment and structure
>pdb|3JYV|M Chain M, Structure Of The 40s Rrna And Proteins And PE TRNA FOR EUKARYOTIC Ribosome Based On Cryo-Em Map Of Thermomyces Lanuginosus Ribosome At 8.9a Resolution Length = 130 Back     alignment and structure
>pdb|2XZM|M Chain M, Crystal Structure Of The Eukaryotic 40s Ribosomal Subunit In Complex With Initiation Factor 1. This File Contains The 40s Subunit And Initiation Factor For Molecule 1 Length = 155 Back     alignment and structure
>pdb|3J20|O Chain O, Promiscuous Behavior Of Proteins In Archaeal Ribosomes Revealed By Cryo-em: Implications For Evolution Of Eukaryotic Ribosomes (30s Ribosomal Subunit) Length = 148 Back     alignment and structure
>pdb|1P6G|M Chain M, Real Space Refined Coordinates Of The 30s Subunit Fitted Into The Low Resolution Cryo-Em Map Of The Ef-G.Gtp State Of E. Coli 70s Ribosome Length = 117 Back     alignment and structure
>pdb|2GY9|M Chain M, Structure Of The 30s Subunit Of A Pre-Translocational E. Coli Ribosome Obtained By Fitting Atomic Models For Rna And Protein Components Into Cryo-Em Map Emd-1056 Length = 115 Back     alignment and structure
>pdb|3OFO|M Chain M, Crystal Structure Of The E. Coli Ribosome Bound To Erythromycin. This File Contains The 30s Subunit Of The First 70s Ribosome. Length = 114 Back     alignment and structure
>pdb|1VS5|M Chain M, Crystal Structure Of The Bacterial Ribosome From Escherichia Coli In Complex With The Antibiotic Kasugamyin At 3.5a Resolution. This File Contains The 30s Subunit Of One 70s Ribosome. The Entire Crystal Structure Contains Two 70s Ribosomes And Is Described In Remark 400. Length = 118 Back     alignment and structure
>pdb|3FIH|M Chain M, Ternary Complex-Bound E.Coli 70s Ribosome. This Entry Consists Of The 30s Subunit, Trnas And The Ternary Complex. Length = 113 Back     alignment and structure
>pdb|1FJG|M Chain M, Structure Of The Thermus Thermophilus 30s Ribosomal Subunit In Complex With The Antibiotics Streptomycin, Spectinomycin, And Paromomycin Length = 126 Back     alignment and structure
>pdb|1I94|M Chain M, Crystal Structures Of The Small Ribosomal Subunit With Tetracycline, Edeine And If3 Length = 125 Back     alignment and structure
>pdb|3MR8|M Chain M, Recognition Of The Amber Stop Codon By Release Factor Rf1. This Entry 3mr8 Contains 30s Ribosomal Subunit. The 50s Ribosomal Subunit Can Be Found In Pdb Entry 3ms1. Molecule B In The Same Asymmetric Unit Is Deposited As 3mrz (50s) And 3ms0 (30s). Length = 117 Back     alignment and structure
>pdb|3PYN|M Chain M, Crystal Structure Of A Complex Containing Domain 3 From The Psiv Igr Ires Rna Bound To The 70s Ribosome. This File Contains The 30s Subunit Of The First 70s Ribosome. Length = 116 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 ?
Query152
3iz6_M152 40S ribosomal protein S18 (S13P); eukaryotic ribos 2e-85
2xzm_M155 RPS18E; ribosome, translation; 3.93A {Tetrahymena 2e-82
3u5c_S146 40S ribosomal protein S18-A, 40S ribosomal protein 3e-76
2vqe_M126 30S ribosomal protein S13, 30S ribosomal protein S 5e-18
3r8n_M114 30S ribosomal protein S13; protein biosynthesis, R 1e-17
3bbn_M145 Ribosomal protein S13; small ribosomal subunit, sp 3e-14
>3iz6_M 40S ribosomal protein S18 (S13P); eukaryotic ribosome,homology modeling,de novo modeling,ribos proteins,novel ribosomal proteins, ribosome; 5.50A {Triticum aestivum} Length = 152 Back     alignment and structure
 Score =  245 bits (628), Expect = 2e-85
 Identities = 135/152 (88%), Positives = 147/152 (96%)

Query: 1   MSLVANEDFQHILRVLNTNVDGKQKIMFALTSIKGIGRRLANIVCKKADVDMNKRAGELS 60
           MSL+A E+FQHILRVLNTNVDGKQKIMFALTSIKG+GRR +NIVCKKAD+DMNKRAGELS
Sbjct: 1   MSLIAGEEFQHILRVLNTNVDGKQKIMFALTSIKGVGRRFSNIVCKKADIDMNKRAGELS 60

Query: 61  AAELDQLMVVVANPRQFKIPDWFLNRQKDYKDGRYSQVVSNALDMKLRDDLERLKKIRNH 120
           A E+D+LM VV NPRQFK+PDWFLNR+KDYKDGR+SQVVSNA+DMKLRDDLERLKKIRNH
Sbjct: 61  AEEMDRLMAVVHNPRQFKVPDWFLNRKKDYKDGRFSQVVSNAVDMKLRDDLERLKKIRNH 120

Query: 121 RGLRHYWGLRVRGQHTKTTGRRGKTVGVSKKR 152
           RGLRHYWG+RVRGQHTKTTGRRGKTVGVSKKR
Sbjct: 121 RGLRHYWGVRVRGQHTKTTGRRGKTVGVSKKR 152
>2xzm_M RPS18E; ribosome, translation; 3.93A {Tetrahymena thermophila} PDB: 2xzn_M Length = 155 Back     alignment and structure
>3u5c_S 40S ribosomal protein S18-A, 40S ribosomal protein S17-A; translation, ribosome, ribosomal, ribosomal R ribosomal protein, eukaryotic ribosome, RNA-protein C; 3.00A {Saccharomyces cerevisiae} PDB: 3izb_M 3o30_L 3o2z_L 3u5g_S 1s1h_M 3jyv_M* 2zkq_m Length = 146 Back     alignment and structure
>2vqe_M 30S ribosomal protein S13, 30S ribosomal protein S6; tRNA-binding, rRNA-binding, metal-binding, zinc-finger, translation; HET: TM2 PAR; 2.5A {Thermus thermophilus} SCOP: a.156.1.1 PDB: 1gix_P* 1hnw_M* 1hnx_M* 1hnz_M* 1hr0_M 1ibk_M* 1ibl_M* 1ibm_M 1j5e_M 1jgo_P* 1jgp_P* 1jgq_P* 1mj1_P* 1ml5_P* 1n32_M* 1n33_M* 1n34_M 1n36_M 1xmo_M* 1xmq_M* ... Length = 126 Back     alignment and structure
>3bbn_M Ribosomal protein S13; small ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Spinacea oleracea} Length = 145 Back     alignment and structure

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query152
3iz6_M152 40S ribosomal protein S18 (S13P); eukaryotic ribos 100.0
2xzm_M155 RPS18E; ribosome, translation; 3.93A {Tetrahymena 100.0
3j20_O148 30S ribosomal protein S13P; archaea, archaeal, KIN 100.0
3u5c_S146 40S ribosomal protein S18-A, 40S ribosomal protein 100.0
2vqe_M126 30S ribosomal protein S13, 30S ribosomal protein S 100.0
3r8n_M114 30S ribosomal protein S13; protein biosynthesis, R 100.0
3bbn_M145 Ribosomal protein S13; small ribosomal subunit, sp 100.0
1k3x_A262 Endonuclease VIII; hydrolase/DNA, hydrolase-DNA co 95.59
1ee8_A266 MUTM (FPG) protein; beta sandwich, zinc finger, he 95.57
1k82_A268 Formamidopyrimidine-DNA glycosylase; protein-DNA c 95.55
2xzf_A271 Formamidopyrimidine-DNA glycosylase; hydrolase-DNA 95.53
3u6p_A273 Formamidopyrimidine-DNA glycosylase; DNA glycosyla 95.51
1mu5_A471 Type II DNA topoisomerase VI subunit B; GHKL ATPas 95.34
3twl_A310 Formamidopyrimidine-DNA glycosylase 1; helix two t 95.32
3w0f_A287 Endonuclease 8-like 3; helix two turns helix, zinc 95.27
3vk8_A295 Probable formamidopyrimidine-DNA glycosylase; DNA 95.22
1kft_A78 UVRC, excinuclease ABC subunit C; helix-hairpin-he 93.07
2a1j_A63 DNA repair endonuclease XPF; XPF, xeroderma pigmen 91.88
3arc_U97 Photosystem II 12 kDa extrinsic protein; PSII, mem 88.62
3fut_A271 Dimethyladenosine transferase; methyltransferase, 88.48
1x2i_A75 HEF helicase/nuclease; alpha helix, helix-hairpin- 88.45
1z00_A89 DNA excision repair protein ERCC-1; helix-hairpin- 88.26
1z00_B84 DNA repair endonuclease XPF; helix-hairpin-helix, 87.33
1tdh_A364 NEI endonuclease VIII-like 1; helix two turns heli 85.36
2duy_A75 Competence protein comea-related protein; helix-ha 84.75
1qyr_A252 KSGA, high level kasugamycin resistance protein, S 84.44
1s5l_U134 Photosystem II 12 kDa extrinsic protein; photosynt 83.56
3uzu_A279 Ribosomal RNA small subunit methyltransferase A; s 83.3
2zbk_B 530 Type 2 DNA topoisomerase 6 subunit B; DNA binding 82.64
2a1j_B91 DNA excision repair protein ERCC-1; XPF, xeroderma 82.63
>3iz6_M 40S ribosomal protein S18 (S13P); eukaryotic ribosome,homology modeling,de novo modeling,ribos proteins,novel ribosomal proteins, ribosome; 5.50A {Triticum aestivum} Back     alignment and structure
Probab=100.00  E-value=1.3e-71  Score=428.29  Aligned_cols=152  Identities=89%  Similarity=1.371  Sum_probs=150.8

Q ss_pred             CCCCCccchhhhhhhcCcccCCCeEeeeeeccccccchhhHHHHHHHhCCCCCCcCCCCCHHHHHHHHHHHhCCCCccCC
Q 031812            1 MSLVANEDFQHILRVLNTNVDGKQKIMFALTSIKGIGRRLANIVCKKADVDMNKRAGELSAAELDQLMVVVANPRQFKIP   80 (152)
Q Consensus         1 ~~~~~~~~~~~~vri~~~~l~~~k~v~~aLt~I~GIG~~~A~~Ic~~lgi~~~~kv~~Ls~~qi~~L~~~i~~~~~~~ip   80 (152)
                      |||+.+|+|+||+||+|||||++|+|.+|||+|||||+++|..||+++||||++++++||++|+++|.++|++|.+|.||
T Consensus         1 ~~~~~~~~~~~m~RI~g~~i~~~k~v~~ALt~I~GIG~~~A~~I~~~~gid~~~r~g~Lt~~ei~~l~~~i~~~~~~~ip   80 (152)
T 3iz6_M            1 MSLIAGEEFQHILRVLNTNVDGKQKIMFALTSIKGVGRRFSNIVCKKADIDMNKRAGELSAEEMDRLMAVVHNPRQFKVP   80 (152)
T ss_dssp             CCCCTTCSCCCCCCTTTTCCCCSSBHHHHHTTSTTCCHHHHHHHHHHHTCCSSSBTTTSCHHHHHHHHHHHHSCSSCCCC
T ss_pred             CCcccHHHHHHHHHHcCCcCCCCcEeHhhhhhccCcCHHHHHHHHHHcCCCCCcEeCcCCHHHHHHHHHHHHhhcccCcc
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999899999


Q ss_pred             cccccccCCcCCCcceeeehhhHHHHHHHhHHHhHhhceeecccCCCCCccCCcCCcccCCCccceeeeccC
Q 031812           81 DWFLNRQKDYKDGRYSQVVSNALDMKLRDDLERLKKIRNHRGLRHYWGLRVRGQHTKTTGRRGKTVGVSKKR  152 (152)
Q Consensus        81 ~w~~nr~~d~~tg~~~~~i~~dL~~~~~~~I~rl~~I~syRG~RH~~gLPVRGQRTrTNart~~~~gv~~~k  152 (152)
                      +||+|||+|++||++.|++++||++++++||+||++|+||||+||.+||||||||||||||||+||||+|||
T Consensus        81 ~w~lNr~kD~~~G~~~~li~~dL~~~~~~dI~RL~~I~~yRG~RH~~GLpVRGQrTkTnaRtg~tvgv~kkk  152 (152)
T 3iz6_M           81 DWFLNRKKDYKDGRFSQVVSNAVDMKLRDDLERLKKIRNHRGLRHYWGVRVRGQHTKTTGRRGKTVGVSKKR  152 (152)
T ss_dssp             CCSCSCCCSCCCCSCCTTCTHHHHHHHHHHHHHHHHHTCHHHHHHHHTCCSSCCCCSSCCHHHHCSCCSSCC
T ss_pred             hhhhhhhcccCCcceeeechhHHHHHHHHhHHHHhhhheeecccccCCCCcCCcCCcCCCCCceecceecCC
Confidence            999999999999999999999999999999999999999999999999999999999999999999999997
>2xzm_M RPS18E; ribosome, translation; 3.93A {Tetrahymena thermophila} PDB: 2xzn_M Back     alignment and structure
>3j20_O 30S ribosomal protein S13P; archaea, archaeal, KINK-turn, protein synthe ribosome; 6.60A {Pyrococcus furiosus} Back     alignment and structure
>3u5c_S 40S ribosomal protein S18-A, 40S ribosomal protein S17-A; translation, ribosome, ribosomal, ribosomal R ribosomal protein, eukaryotic ribosome, RNA-protein C; 3.00A {Saccharomyces cerevisiae} PDB: 3izb_M 3o30_L 3o2z_L 3u5g_S 1s1h_M 3jyv_M* 2zkq_m Back     alignment and structure
>2vqe_M 30S ribosomal protein S13, 30S ribosomal protein S6; tRNA-binding, rRNA-binding, metal-binding, zinc-finger, translation; HET: TM2 PAR; 2.5A {Thermus thermophilus} SCOP: a.156.1.1 PDB: 1gix_P* 1hnw_M* 1hnx_M* 1hnz_M* 1hr0_M 1ibk_M* 1ibl_M* 1ibm_M 1j5e_M 1jgo_P* 1jgp_P* 1jgq_P* 1mj1_P* 1ml5_P* 1n32_M* 1n33_M* 1n34_M 1n36_M 1xmo_M* 1xmq_M* ... Back     alignment and structure
>3bbn_M Ribosomal protein S13; small ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Spinacea oleracea} Back     alignment and structure
>1k3x_A Endonuclease VIII; hydrolase/DNA, hydrolase-DNA complex; HET: BRU PED; 1.25A {Escherichia coli} SCOP: a.156.1.2 b.113.1.1 g.39.1.8 PDB: 1k3w_A* 1q39_A 2ea0_A* 2oq4_A* 1q3c_A 2opf_A* 1q3b_A* Back     alignment and structure
>1ee8_A MUTM (FPG) protein; beta sandwich, zinc finger, helix two-turns helix, riken STR genomics/proteomics initiative, RSGI, structural genomics; 1.90A {Thermus thermophilus} SCOP: a.156.1.2 b.113.1.1 g.39.1.8 Back     alignment and structure
>1k82_A Formamidopyrimidine-DNA glycosylase; protein-DNA complex, DNA repair, beta sandwich, zinc finger, helix two-turns helix, hydrolase/DNA complex; HET: PED; 2.10A {Escherichia coli} SCOP: a.156.1.2 b.113.1.1 g.39.1.8 Back     alignment and structure
>2xzf_A Formamidopyrimidine-DNA glycosylase; hydrolase-DNA complex; HET: VET; 1.80A {Lactococcus lactis subsp} PDB: 1pm5_A* 1xc8_A* 1pji_A* 2xzu_A* 3c58_A* 1tdz_A* 1nnj_A 1kfv_A 1pjj_A* Back     alignment and structure
>3u6p_A Formamidopyrimidine-DNA glycosylase; DNA glycosylase, DNA repair, sequence context; HET: DNA 08Q; 1.60A {Geobacillus stearothermophilus} PDB: 3u6d_A* 3u6c_A* 3u6l_A* 3u6m_A* 3u6o_A* 3u6e_A* 3u6q_A* 3u6s_A* 3gp1_A* 3sbj_A* 2f5q_A* 2f5s_A* 3gq4_A* 3gpy_A* 2f5n_A 2f5o_A 2f5p_A 3sau_A* 3sar_A* 3sav_A* ... Back     alignment and structure
>1mu5_A Type II DNA topoisomerase VI subunit B; GHKL ATPase, helix two-turns helix; 2.00A {Sulfolobus shibatae} SCOP: a.156.1.3 d.14.1.3 d.122.1.2 PDB: 1mx0_A* 1z5b_A* 1z5a_A* 1z59_A* 1z5c_A* 2hkj_A* Back     alignment and structure
>3twl_A Formamidopyrimidine-DNA glycosylase 1; helix two turns helix, zinc-LESS finger, hydrolase, DNA DAMA repair, DNA-binding, glycosidase, lyase; 1.70A {Arabidopsis thaliana} PDB: 3twm_A* 3twk_A Back     alignment and structure
>3w0f_A Endonuclease 8-like 3; helix two turns helix, zinc finger, DNA binding, hydrolase; 2.00A {Mus musculus} Back     alignment and structure
>3vk8_A Probable formamidopyrimidine-DNA glycosylase; DNA glycosylase, hneil1 ortholog, DNA lesion, thymine glycol zincless finger; HET: DNA CTG; 2.00A {Acanthamoeba polyphaga mimivirus} PDB: 3vk7_A* 3a42_A 3a46_A* 3a45_A* Back     alignment and structure
>1kft_A UVRC, excinuclease ABC subunit C; helix-hairpin-helix, HHH domain, DNA-binding domain, DNA binding protein; NMR {Escherichia coli} SCOP: a.60.2.3 Back     alignment and structure
>2a1j_A DNA repair endonuclease XPF; XPF, xeroderma pigmentosum, DNA repair, endonuclease, helix-hairpin-helix, DNA binding protein; HET: DNA; 2.70A {Homo sapiens} SCOP: a.60.2.5 PDB: 2kn7_A* Back     alignment and structure
>3arc_U Photosystem II 12 kDa extrinsic protein; PSII, membrane-protein complex, transmembrane alpha-helix, E transport, photosynthesis; HET: OEX CLA PHO BCR PL9 SQD LMG UNL LMT HTG DGD LHG HEM; 1.90A {Thermosynechococcus vulcanus} PDB: 3bz1_U* 2axt_U* 3bz2_U* 3kzi_U* 3prq_U* 3prr_U* 3a0b_U* 3a0h_U* Back     alignment and structure
>3fut_A Dimethyladenosine transferase; methyltransferase, dimethyltransferase, dual-specific methyltransferase, 16S rRNA methyltransferase; 1.52A {Thermus thermophilus} PDB: 3fuu_A* 3fuv_A 3fuw_A* 3fux_A* Back     alignment and structure
>1x2i_A HEF helicase/nuclease; alpha helix, helix-hairpin-helix DNA binding domain, homodimer, hydrolase; 1.45A {Pyrococcus furiosus} SCOP: a.60.2.5 Back     alignment and structure
>1z00_A DNA excision repair protein ERCC-1; helix-hairpin-helix, hydrolase; HET: DNA; NMR {Homo sapiens} SCOP: a.60.2.5 Back     alignment and structure
>1z00_B DNA repair endonuclease XPF; helix-hairpin-helix, hydrolase; HET: DNA; NMR {Homo sapiens} SCOP: a.60.2.5 PDB: 2aq0_A* Back     alignment and structure
>1tdh_A NEI endonuclease VIII-like 1; helix two turns helix, zinc-LESS finger, hydrolase; 2.10A {Homo sapiens} SCOP: a.156.1.2 b.113.1.1 g.39.1.8 Back     alignment and structure
>2duy_A Competence protein comea-related protein; helix-hairpin-helix, structural genomics, NPPSFA; 1.75A {Thermus thermophilus} SCOP: a.60.2.7 Back     alignment and structure
>1qyr_A KSGA, high level kasugamycin resistance protein, S-adenosylMet; adenosine dimethyltransferase, rRNA modification, transferase, translation; 2.10A {Escherichia coli} SCOP: c.66.1.24 PDB: 4adv_V 3tpz_A Back     alignment and structure
>1s5l_U Photosystem II 12 kDa extrinsic protein; photosynthesis, oxygen-evolving, tetra- manganese, membrane; HET: CL1 PHO HEM PL9 LMT BCR; 3.50A {Thermosynechococcus elongatus} Back     alignment and structure
>3uzu_A Ribosomal RNA small subunit methyltransferase A; ssgcid, seattle structural genomics center for infectio disease; 1.75A {Burkholderia pseudomallei} Back     alignment and structure
>2zbk_B Type 2 DNA topoisomerase 6 subunit B; DNA binding protein, decatenation, ATPase, drug design, DNA-binding, magnesium, metal-binding; HET: RDC; 3.56A {Sulfolobus shibatae} Back     alignment and structure
>2a1j_B DNA excision repair protein ERCC-1; XPF, xeroderma pigmentosum, DNA repair, endonuclease, helix-hairpin-helix, DNA binding protein; HET: DNA; 2.70A {Homo sapiens} SCOP: a.60.2.5 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 152
d2uubm1125 a.156.1.1 (M:2-126) Ribosomal protein S13 {Thermus 3e-33
d2gy9m1114 a.156.1.1 (M:1-114) Ribosomal protein S13 {Escheri 8e-32
>d2uubm1 a.156.1.1 (M:2-126) Ribosomal protein S13 {Thermus thermophilus [TaxId: 274]} Length = 125 Back     information, alignment and structure

class: All alpha proteins
fold: S13-like H2TH domain
superfamily: S13-like H2TH domain
family: Ribosomal protein S13
domain: Ribosomal protein S13
species: Thermus thermophilus [TaxId: 274]

 Score =  111 bits (279), Expect = 3e-33
 Identities = 39/141 (27%), Positives = 64/141 (45%), Gaps = 24/141 (17%)

Query: 14  RVLNTNVDGKQKIMFALTSIKGIGRRLANIVCKKADVDMNKRAGELSAAELDQLMVVVAN 73
           R+    +   +++  ALT I GIG+  A    +K  ++   R  +L+ AE+ +L      
Sbjct: 2   RIAGVEIPRNKRVDVALTYIYGIGKARAKEALEKTGINPATRVKDLTEAEVVRL------ 55

Query: 74  PRQFKIPDWFLNRQKDYKDGRYSQVVSNALDMKLRDDLERLKKIRNHRGLRHYWGLRVRG 133
            R++    W L                  L  ++  +++RL  I  +RGLRH  GL VRG
Sbjct: 56  -REYVENTWKL---------------EGELRAEVAANIKRLMDIGCYRGLRHRRGLPVRG 99

Query: 134 QHTKTTGR--RGKTVGVSKKR 152
           Q T+T  R  +G    V+ K+
Sbjct: 100 QRTRTNARTRKGPRKTVAGKK 120
>d2gy9m1 a.156.1.1 (M:1-114) Ribosomal protein S13 {Escherichia coli [TaxId: 562]} Length = 114 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 ?
Query152
d2uubm1125 Ribosomal protein S13 {Thermus thermophilus [TaxId 100.0
d2gy9m1114 Ribosomal protein S13 {Escherichia coli [TaxId: 56 100.0
d2hkja178 Topoisomerase VI-B subunit middle domain {Archaeon 98.16
d1k3xa189 Endonuclease VIII {Escherichia coli [TaxId: 562]} 97.54
d1r2za194 DNA repair protein MutM (Fpg) {Bacillus stearother 97.44
d1ee8a189 DNA repair protein MutM (Fpg) {Thermus thermophilu 97.39
d1k82a188 DNA repair protein MutM (Fpg) {Escherichia coli [T 97.36
d1tdza188 DNA repair protein MutM (Fpg) {Lactococcus lactis 97.34
d2bgwa170 DNA repair endonuclease XPF {Aeropyrum pernix [Tax 95.64
d2a1jb178 DNA excision repair protein ERCC-1 {Human (Homo sa 94.88
d1tdha1115 Endonuclease VIII-like 1 (NEIL1) {Human (Homo sapi 94.2
d2fmpa257 DNA polymerase beta {Human (Homo sapiens) [TaxId: 94.19
d1pzna161 DNA repair protein Rad51, N-terminal domain {Archa 94.14
d2bcqa257 DNA polymerase lambda {Human (Homo sapiens) [TaxId 93.28
d1x2ia168 ATP-dependent RNA helicase PF2015 {Pyrococcus furi 93.27
d1jmsa360 Terminal deoxynucleotidyl transferase {Mouse (Mus 93.23
d2i1qa160 DNA repair protein Rad51, N-terminal domain {Archa 92.96
d1kfta_56 Excinuclease UvrC C-terminal domain {Escherichia c 92.34
d2a1ja162 DNA repair endonuclease XPF {Human (Homo sapiens) 92.29
d1bvsa271 DNA helicase RuvA subunit, middle domain {Mycobact 91.49
d1ixra173 DNA helicase RuvA subunit, middle domain {Thermus 91.13
d2axtu198 Photosystem II 12 kDa extrinsic protein PsbU {Ther 90.89
d2i0za2169 Flavoprotein BC4706 {Bacillus cereus [TaxId: 1396] 90.6
d1cuka278 DNA helicase RuvA subunit, middle domain {Escheric 89.99
d1b43a1120 Flap endonuclease-1 (Fen-1 nuclease) {Archaeon Pyr 87.91
d2duya165 Uncharacterized protein TTHA1967 {Thermus thermoph 85.45
d2gqfa2148 Hypothetical protein HI0933 {Haemophilus influenza 85.39
d1ul1x1140 Flap endonuclease-1 (Fen-1 nuclease) {Human (Homo 84.4
d1bvsa271 DNA helicase RuvA subunit, middle domain {Mycobact 82.97
d1ixra173 DNA helicase RuvA subunit, middle domain {Thermus 80.42
d1cuka278 DNA helicase RuvA subunit, middle domain {Escheric 80.37
>d2uubm1 a.156.1.1 (M:2-126) Ribosomal protein S13 {Thermus thermophilus [TaxId: 274]} Back     information, alignment and structure
class: All alpha proteins
fold: S13-like H2TH domain
superfamily: S13-like H2TH domain
family: Ribosomal protein S13
domain: Ribosomal protein S13
species: Thermus thermophilus [TaxId: 274]

Probab=100.00  E-value=6.3e-51  Score=302.70  Aligned_cols=118  Identities=32%  Similarity=0.461  Sum_probs=112.8

Q ss_pred             hhhcCcccCCCeEeeeeeccccccchhhHHHHHHHhCCCCCCcCCCCCHHHHHHHHHHHhCCCCccCCcccccccCCcCC
Q 031812           13 LRVLNTNVDGKQKIMFALTSIKGIGRRLANIVCKKADVDMNKRAGELSAAELDQLMVVVANPRQFKIPDWFLNRQKDYKD   92 (152)
Q Consensus        13 vri~~~~l~~~k~v~~aLt~I~GIG~~~A~~Ic~~lgi~~~~kv~~Ls~~qi~~L~~~i~~~~~~~ip~w~~nr~~d~~t   92 (152)
                      .||+|||||++|+|.+|||+|||||+++|.+||+.+||||++++++||++|++.|+++|+++                  
T Consensus         1 aRI~g~di~~~K~v~~ALt~I~GIG~~~A~~Ic~~lgId~~~k~~~Lt~~qi~~I~~~i~~~------------------   62 (125)
T d2uubm1           1 ARIAGVEIPRNKRVDVALTYIYGIGKARAKEALEKTGINPATRVKDLTEAEVVRLREYVENT------------------   62 (125)
T ss_dssp             CCCSTTCCCCSSBHHHHHTTSTTCCHHHHHHHHHTTTCCTTSBGGGCCHHHHHHHHHHHHHH------------------
T ss_pred             CcccCccCCCCCEEEEeeeeeeCcCHHHHHHHHHHcCCCcccccccccHHHHHHHHHHHhhh------------------
Confidence            48999999999999999999999999999999999999999999999999999999999862                  


Q ss_pred             CcceeeehhhHHHHHHHhHHHhHhhceeecccCCCCCccCCcCCcccCCC--ccceeeeccC
Q 031812           93 GRYSQVVSNALDMKLRDDLERLKKIRNHRGLRHYWGLRVRGQHTKTTGRR--GKTVGVSKKR  152 (152)
Q Consensus        93 g~~~~~i~~dL~~~~~~~I~rl~~I~syRG~RH~~gLPVRGQRTrTNart--~~~~gv~~~k  152 (152)
                          |++|+||++++++||+||++|+||||+||.+|||||||||||||||  |.++||++||
T Consensus        63 ----~~i~~~L~~~~~~dIkrl~~i~~yRG~RH~~gLpvRGQRT~tN~rt~kg~~~~v~~kk  120 (125)
T d2uubm1          63 ----WKLEGELRAEVAANIKRLMDIGCYRGLRHRRGLPVRGQRTRTNARTRKGPRKTVAGKK  120 (125)
T ss_dssp             ----SCCTTHHHHHHHHHHHHHHHTTCHHHHHHHHTCCSSSCCCSSCCHHHHCSCCCCCCCS
T ss_pred             ----hhhHHHHHHHHHHHHHHHHHhhhhhhhhhcCCCCCCCCCCCCCccccCCCcccccccc
Confidence                3469999999999999999999999999999999999999999997  7899999976
>d2gy9m1 a.156.1.1 (M:1-114) Ribosomal protein S13 {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d2hkja1 a.156.1.3 (A:229-306) Topoisomerase VI-B subunit middle domain {Archaeon Sulfolobus shibatae [TaxId: 2286]} Back     information, alignment and structure
>d1k3xa1 a.156.1.2 (A:125-213) Endonuclease VIII {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d1r2za1 a.156.1.2 (A:135-228) DNA repair protein MutM (Fpg) {Bacillus stearothermophilus [TaxId: 1422]} Back     information, alignment and structure
>d1ee8a1 a.156.1.2 (A:122-210) DNA repair protein MutM (Fpg) {Thermus thermophilus [TaxId: 274]} Back     information, alignment and structure
>d1k82a1 a.156.1.2 (A:129-216) DNA repair protein MutM (Fpg) {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d1tdza1 a.156.1.2 (A:132-219) DNA repair protein MutM (Fpg) {Lactococcus lactis [TaxId: 1358]} Back     information, alignment and structure
>d2bgwa1 a.60.2.5 (A:160-229) DNA repair endonuclease XPF {Aeropyrum pernix [TaxId: 56636]} Back     information, alignment and structure
>d2a1jb1 a.60.2.5 (B:219-296) DNA excision repair protein ERCC-1 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1tdha1 a.156.1.2 (A:132-246) Endonuclease VIII-like 1 (NEIL1) {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2fmpa2 a.60.12.1 (A:92-148) DNA polymerase beta {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1pzna1 a.60.4.1 (A:35-95) DNA repair protein Rad51, N-terminal domain {Archaeon Pyrococcus furiosus [TaxId: 2261]} Back     information, alignment and structure
>d2bcqa2 a.60.12.1 (A:329-385) DNA polymerase lambda {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1x2ia1 a.60.2.5 (A:2-69) ATP-dependent RNA helicase PF2015 {Pyrococcus furiosus [TaxId: 2261]} Back     information, alignment and structure
>d1jmsa3 a.60.12.1 (A:243-302) Terminal deoxynucleotidyl transferase {Mouse (Mus musculus) [TaxId: 10090]} Back     information, alignment and structure
>d2i1qa1 a.60.4.1 (A:5-64) DNA repair protein Rad51, N-terminal domain {Archaeon Methanococcus voltae [TaxId: 2188]} Back     information, alignment and structure
>d1kfta_ a.60.2.3 (A:) Excinuclease UvrC C-terminal domain {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d2a1ja1 a.60.2.5 (A:837-898) DNA repair endonuclease XPF {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1bvsa2 a.60.2.1 (A:64-134) DNA helicase RuvA subunit, middle domain {Mycobacterium leprae [TaxId: 1769]} Back     information, alignment and structure
>d1ixra1 a.60.2.1 (A:63-135) DNA helicase RuvA subunit, middle domain {Thermus thermophilus [TaxId: 274]} Back     information, alignment and structure
>d2axtu1 a.60.12.2 (U:37-134) Photosystem II 12 kDa extrinsic protein PsbU {Thermosynechococcus elongatus [TaxId: 146786]} Back     information, alignment and structure
>d2i0za2 e.74.1.1 (A:193-361) Flavoprotein BC4706 {Bacillus cereus [TaxId: 1396]} Back     information, alignment and structure
>d1cuka2 a.60.2.1 (A:65-142) DNA helicase RuvA subunit, middle domain {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d1b43a1 a.60.7.1 (A:220-339) Flap endonuclease-1 (Fen-1 nuclease) {Archaeon Pyrococcus furiosus [TaxId: 2261]} Back     information, alignment and structure
>d2duya1 a.60.2.7 (A:11-75) Uncharacterized protein TTHA1967 {Thermus thermophilus [TaxId: 274]} Back     information, alignment and structure
>d2gqfa2 e.74.1.1 (A:195-342) Hypothetical protein HI0933 {Haemophilus influenzae [TaxId: 727]} Back     information, alignment and structure
>d1ul1x1 a.60.7.1 (X:218-357) Flap endonuclease-1 (Fen-1 nuclease) {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1bvsa2 a.60.2.1 (A:64-134) DNA helicase RuvA subunit, middle domain {Mycobacterium leprae [TaxId: 1769]} Back     information, alignment and structure
>d1ixra1 a.60.2.1 (A:63-135) DNA helicase RuvA subunit, middle domain {Thermus thermophilus [TaxId: 274]} Back     information, alignment and structure
>d1cuka2 a.60.2.1 (A:65-142) DNA helicase RuvA subunit, middle domain {Escherichia coli [TaxId: 562]} Back     information, alignment and structure