Citrus Sinensis ID: 031787

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---
MKSLVANEDFQHILRVLNTNVDGKQKIMFALTSIKGIGRRLANIVCKKADVDMNKRAGELSAAELDNLMVVVANPRQFKIPDWFLNRQKDYKDGKYSQVVSNALDMKLRDDLERLKKIRNHRGLRHYWGLRVRGQHTKTTGRRGKTVGVSKKR
ccccccccHHHHHHHHHccccccccEEEEEEcccccccHHHHHHHHHHHccccccccccccHHHHHHHHHHHHccccccccHHHHHccccccccccEEEEHHHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccccccccc
ccccccHHHHHHEEEEEcccccccccHHHHHHHccHHHHHHHHHHHHHccccHccccccccHHHHHHHHHHHHcHHHccccHHHHccccccccccccEEEccHHHHHHHHHHHHHHHHHHHcccHHccccEEccccEccccccccEEEEEccc
MKSLVANEDFQHILRVLNTNVDGKQKIMFALTSIKGIGRRLANIVCKKADVDMNKRAGELSAAELDNLMVVVanprqfkipdwflnrqkdykdgkysQVVSNALDMKLRDDLERLKKIRNhrglrhywglrvrgqhtkttgrrgktvgvskkr
mkslvanedFQHILRVlntnvdgkQKIMFALTSIKGIGRRLANIVCKKADVDMNKRAGELSAAELDNLMVVVANprqfkipdwflnrqkdykdgkySQVVSNALDMKLRDDLERLKKirnhrglrhywglrvrgqhtkttgrrgktvgvskkr
MKSLVANEDFQHILRVLNTNVDGKQKIMFALTSIKGIGRRLANIVCKKADVDMNKRAGELSAAELDNLMVVVANPRQFKIPDWFLNRQKDYKDGKYSQVVSNALDMKLRDDLERLKKIRNHRGLRHYWGLRVRGQHtkttgrrgktvgvSKKR
*******EDFQHILRVLNTNVDGKQKIMFALTSIKGIGRRLANIVCKKADVDMNKRAGELSAAELDNLMVVVANPRQFKIPDWFLNRQKDYKDGKYSQVVSNALDMKLRDDLERLKKIRNHRGLRHYWGLRVRG*******************
******NEDFQHILRVLNTNVDGKQKIMFALTSIKGIGRRLANIVCKKADVDMNKRAGELSAAELDNLMVVVANPRQFKIPDWFLNRQKDYKDGKYSQVVSNALDMKLRDDLERLKKIRNHRGLRHYWGLRVRGQHTKTTGRRGKTVG*****
MKSLVANEDFQHILRVLNTNVDGKQKIMFALTSIKGIGRRLANIVCKKADVDMNKRAGELSAAELDNLMVVVANPRQFKIPDWFLNRQKDYKDGKYSQVVSNALDMKLRDDLERLKKIRNHRGLRHYWGLRVRGQH*****************
**SLVANEDFQHILRVLNTNVDGKQKIMFALTSIKGIGRRLANIVCKKADVDMNKRAGELSAAELDNLMVVVANPRQFKIPDWFLNRQKDYKDGKYSQVVSNALDMKLRDDLERLKKIRNHRGLRHYWGLRVRGQHTKT**RRGKTVG*****
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
ooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
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MKSLVANEDFQHILRVLNTNVDGKQKIMFALTSIKGIGRRLANIVCKKADVDMNKRAGELSAAELDNLMVVVANPRQFKIPDWFLNRQKDYKDGKYSQVVSNALDMKLRDDLERLKKIRNHRGLRHYWGLRVRGQHTKTTGRRGKTVGVSKKR
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 ?
Query153 2.2.26 [Sep-21-2011]
P34788152 40S ribosomal protein S18 yes no 0.986 0.993 0.973 7e-83
Q8ISP0152 40S ribosomal protein S18 N/A no 0.986 0.993 0.781 5e-68
Q8IT98152 40S ribosomal protein S18 N/A no 0.986 0.993 0.761 5e-67
P49202153 40S ribosomal protein S18 N/A no 1.0 1.0 0.732 5e-64
Q8JGS9152 40S ribosomal protein S18 yes no 0.986 0.993 0.735 7e-64
P62271152 40S ribosomal protein S18 yes no 0.986 0.993 0.728 2e-63
P62272152 40S ribosomal protein S18 yes no 0.986 0.993 0.728 2e-63
P62270152 40S ribosomal protein S18 yes no 0.986 0.993 0.728 2e-63
P62269152 40S ribosomal protein S18 yes no 0.986 0.993 0.728 2e-63
A5JST6152 40S ribosomal protein S18 N/A no 0.986 0.993 0.728 2e-63
>sp|P34788|RS18_ARATH 40S ribosomal protein S18 OS=Arabidopsis thaliana GN=RPS18A PE=1 SV=1 Back     alignment and function desciption
 Score =  305 bits (781), Expect = 7e-83,   Method: Compositional matrix adjust.
 Identities = 147/151 (97%), Positives = 150/151 (99%)

Query: 3   SLVANEDFQHILRVLNTNVDGKQKIMFALTSIKGIGRRLANIVCKKADVDMNKRAGELSA 62
           SLVANE+FQHILRVLNTNVDGKQKIMFALTSIKGIGRRLANIVCKKADVDMNKRAGELSA
Sbjct: 2   SLVANEEFQHILRVLNTNVDGKQKIMFALTSIKGIGRRLANIVCKKADVDMNKRAGELSA 61

Query: 63  AELDNLMVVVANPRQFKIPDWFLNRQKDYKDGKYSQVVSNALDMKLRDDLERLKKIRNHR 122
           AE+DNLM +VANPRQFKIPDWFLNRQKDYKDGKYSQVVSNALDMKLRDDLERLKKIRNHR
Sbjct: 62  AEIDNLMTIVANPRQFKIPDWFLNRQKDYKDGKYSQVVSNALDMKLRDDLERLKKIRNHR 121

Query: 123 GLRHYWGLRVRGQHTKTTGRRGKTVGVSKKR 153
           GLRHYWGLRVRGQHTKTTGRRGKTVGVSKKR
Sbjct: 122 GLRHYWGLRVRGQHTKTTGRRGKTVGVSKKR 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|P49202|RS18_CHLRE 40S ribosomal protein S18 OS=Chlamydomonas reinhardtii 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|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 ?
Query153
449443847152 PREDICTED: 40S ribosomal protein S18-lik 0.986 0.993 0.986 1e-81
255566712152 40S ribosomal protein S18, putative [Ric 0.986 0.993 0.980 2e-81
15219950152 40S ribosomal protein S18 [Arabidopsis t 0.986 0.993 0.973 4e-81
296085211 912 unnamed protein product [Vitis vinifera] 0.986 0.165 0.960 5e-81
224085191152 predicted protein [Populus trichocarpa] 0.986 0.993 0.973 5e-81
296081217194 unnamed protein product [Vitis vinifera] 0.986 0.778 0.960 1e-80
13877525152 S18.A ribosomal protein [Arabidopsis tha 0.986 0.993 0.966 1e-80
255559398152 40S ribosomal protein S18, putative [Ric 0.986 0.993 0.973 2e-80
225432662152 PREDICTED: 40S ribosomal protein S18-lik 0.986 0.993 0.960 4e-80
247421835152 S18.A ribosomal protein [Jatropha curcas 0.986 0.993 0.966 4e-80
>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
 Score =  306 bits (785), Expect = 1e-81,   Method: Compositional matrix adjust.
 Identities = 149/151 (98%), Positives = 150/151 (99%)

Query: 3   SLVANEDFQHILRVLNTNVDGKQKIMFALTSIKGIGRRLANIVCKKADVDMNKRAGELSA 62
           SLVANEDFQHILRVLNTNVDGKQKIMFALTSIKGIGRR ANIVCKKADVDMNKRAGEL+A
Sbjct: 2   SLVANEDFQHILRVLNTNVDGKQKIMFALTSIKGIGRRFANIVCKKADVDMNKRAGELTA 61

Query: 63  AELDNLMVVVANPRQFKIPDWFLNRQKDYKDGKYSQVVSNALDMKLRDDLERLKKIRNHR 122
           AELDNLMVVVANPRQFKIPDWFLNRQKDYKDGKYSQVVSNALDMKLRDDLERLKKIRNHR
Sbjct: 62  AELDNLMVVVANPRQFKIPDWFLNRQKDYKDGKYSQVVSNALDMKLRDDLERLKKIRNHR 121

Query: 123 GLRHYWGLRVRGQHTKTTGRRGKTVGVSKKR 153
           GLRHYWGLRVRGQHTKTTGRRGKTVGVSKKR
Sbjct: 122 GLRHYWGLRVRGQHTKTTGRRGKTVGVSKKR 152

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>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|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|296085211|emb|CBI28706.3| unnamed protein product [Vitis vinifera] 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|296081217|emb|CBI18243.3| unnamed protein product [Vitis vinifera] Back     alignment and taxonomy information
>gi|13877525|gb|AAK43840.1|AF370463_1 S18.A ribosomal protein [Arabidopsis thaliana] gi|17978783|gb|AAL47385.1| S18.A ribosomal protein [Arabidopsis thaliana] 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|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|247421835|gb|ACS96445.1| S18.A ribosomal protein [Jatropha curcas] 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 ?
Query153
TAIR|locus:2199670152 PFL "POINTED FIRST LEAVES" [Ar 0.986 0.993 0.887 2.7e-68
TAIR|locus:2009066152 AT1G34030 [Arabidopsis thalian 0.986 0.993 0.887 2.7e-68
TAIR|locus:2005541152 RPS18C "S18 ribosomal protein" 0.986 0.993 0.887 2.7e-68
UNIPROTKB|Q8H590152 OJ1656_E11.104 "Putative ribos 0.986 0.993 0.794 6.9e-63
UNIPROTKB|Q8H588148 OJ1656_E11.108 "Putative ribos 0.954 0.986 0.808 2.1e-61
UNIPROTKB|A8HVP2153 RPS18 "Ribosomal protein S18" 1.0 1.0 0.666 8.9e-54
ZFIN|ZDB-GENE-020419-20152 rps18 "ribosomal protein S18" 0.986 0.993 0.655 2.7e-52
UNIPROTKB|Q90YQ5152 rps18 "40S ribosomal protein S 0.986 0.993 0.649 9.2e-52
UNIPROTKB|Q3T0R1152 RPS18 "40S ribosomal protein S 0.986 0.993 0.649 1.2e-51
UNIPROTKB|Q5TJE9152 RPS18 "40S ribosomal protein S 0.986 0.993 0.649 1.2e-51
TAIR|locus:2199670 PFL "POINTED FIRST LEAVES" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 693 (249.0 bits), Expect = 2.7e-68, P = 2.7e-68
 Identities = 134/151 (88%), Positives = 137/151 (90%)

Query:     3 SLVANEDFQHILRVLNTNVDGKQKIMFALTSIKGIGRRLANIVCKKADVDMNKRAGELSA 62
             SLVANE+FQHILRVLNTNVDGKQKIMFALTSIKGIGRRLANIVCKKADVDMNKRAGELSA
Sbjct:     2 SLVANEEFQHILRVLNTNVDGKQKIMFALTSIKGIGRRLANIVCKKADVDMNKRAGELSA 61

Query:    63 AELDNLMVVVANPRQFKIPDWFLNRQKDYKDGKYSQVVSNALDMKLRDDLERLKKIRNHR 122
             AE+DNLM +VANPRQFKIPDWFLNRQKDYKDGKYSQVVSNALDMKLRDDLERLKKIRNHR
Sbjct:    62 AEIDNLMTIVANPRQFKIPDWFLNRQKDYKDGKYSQVVSNALDMKLRDDLERLKKIRNHR 121

Query:   123 GLRHYWGLRVRGQHXXXXXXXXXXXXXSKKR 153
             GLRHYWGLRVRGQH             SKKR
Sbjct:   122 GLRHYWGLRVRGQHTKTTGRRGKTVGVSKKR 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 number0.38090.95420.8538yesno
Q90YQ5RS18_ICTPUNo assigned EC number0.72840.98690.9934N/Ano
A5JST6RS18_CAPHINo assigned EC number0.72840.98690.9934N/Ano
P49202RS18_CHLRENo assigned EC number0.73201.01.0N/Ano
Q869U7RS18_DICDINo assigned EC number0.65560.98690.9805yesno
Q962R1RS18_SPOFRNo assigned EC number0.70860.98690.9934N/Ano
Q3T0R1RS18_BOVINNo assigned EC number0.72840.98690.9934yesno
Q9V1A0RS13_PYRABNo assigned EC number0.42750.94770.9797yesno
O26141RS13_METTHNo assigned EC number0.41780.95420.9798yesno
A1RT04RS13_PYRILNo assigned EC number0.36730.95420.9542yesno
Q2NFZ3RS13_METSTNo assigned EC number0.43620.97380.9738yesno
Q8PV19RS13_METMANo assigned EC number0.42850.95420.9012yesno
P48151RS18_ENTHINo assigned EC number0.58821.00.9870N/Ano
A5UN52RS13_METS3No assigned EC number0.41660.94110.9795yesno
P54019RS13_METJANo assigned EC number0.42850.96070.98yesno
Q46GC7RS13_METBFNo assigned EC number0.42850.95420.9012yesno
A0B9L1RS13_METTPNo assigned EC number0.42760.98690.9496yesno
A2BK76RS13_HYPBUNo assigned EC number0.43240.96730.9801yesno
Q9YB60RS13_AERPENo assigned EC number0.40660.98031.0yesno
Q12ZR6RS13_METBUNo assigned EC number0.40260.96731.0yesno
Q2FT96RS13_METHJNo assigned EC number0.40130.95420.9668yesno
A3DMQ3RS13_STAMFNo assigned EC number0.41330.98030.9933yesno
A3CWH6RS13_METMJNo assigned EC number0.39040.94770.9731yesno
Q8U0E2RS13_PYRFUNo assigned EC number0.43440.94770.9797yesno
O27999RS13_ARCFUNo assigned EC number0.40270.93460.9794yesno
Q8JGS9RS18_DANRENo assigned EC number0.73500.98690.9934yesno
P62269RS18_HUMANNo assigned EC number0.72840.98690.9934yesno
A3MUT0RS13_PYRCJNo assigned EC number0.36300.94770.9477yesno
Q8ISP0RS18_BRABENo assigned EC number0.78140.98690.9934N/Ano
Q3IQT9RS13_NATPDNo assigned EC number0.40270.93460.8411yesno
Q6KZP8RS13_PICTONo assigned EC number0.38770.96070.9303yesno
Q8IT98RS18_ARGIRNo assigned EC number0.76150.98690.9934N/Ano
Q5JJF1RS13_PYRKONo assigned EC number0.41490.96070.9865yesno
O74021RS13_PYRHONo assigned EC number0.44130.94770.9797yesno
P34788RS18_ARATHNo assigned EC number0.97350.98690.9934yesno
Q5TJE9RS18_CANFANo assigned EC number0.72840.98690.9934yesno
O94754RS18_SCHPONo assigned EC number0.71520.98690.9934yesno
Q8SRP2RS18_ENCCUNo assigned EC number0.43440.94770.9477yesno
P0CX55RS18A_YEASTNo assigned EC number0.66430.92150.9657yesno
P0CX56RS18B_YEASTNo assigned EC number0.66430.92150.9657yesno
Q8ZTV0RS13_PYRAENo assigned EC number0.36050.95420.9605yesno
Q9HJD6RS13_THEACNo assigned EC number0.36050.95420.8538yesno
Q8TRR2RS13_METACNo assigned EC number0.42170.95420.9012yesno
P62271RS18_RATNo assigned EC number0.72840.98690.9934yesno
P62270RS18_MOUSENo assigned EC number0.72840.98690.9934yesno
P41094RS18_DROMENo assigned EC number0.70190.98690.9934yesno
P62272RS18_PIGNo assigned EC number0.72840.98690.9934yesno
A2SSW0RS13_METLZNo assigned EC number0.39730.96730.9866yesno
Q8TVC1RS13_METKANo assigned EC number0.43040.97380.9867yesno

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

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 ?
Query153
PTZ00134154 PTZ00134, PTZ00134, 40S ribosomal protein S18; Pro 1e-92
PRK04053149 PRK04053, rps13p, 30S ribosomal protein S13P; Revi 7e-60
TIGR03629144 TIGR03629, arch_S13P, archaeal ribosomal protein S 1e-53
pfam00416106 pfam00416, Ribosomal_S13, Ribosomal protein S13/S1 3e-42
COG0099121 COG0099, RpsM, Ribosomal protein S13 [Translation, 1e-39
PRK05179122 PRK05179, rpsM, 30S ribosomal protein S13; Validat 5e-16
TIGR03631113 TIGR03631, bact_S13, 30S ribosomal protein S13 1e-15
CHL00137122 CHL00137, rps13, ribosomal protein S13; Validated 3e-08
>gnl|CDD|185469 PTZ00134, PTZ00134, 40S ribosomal protein S18; Provisional Back     alignment and domain information 
 Score =  264 bits (678), Expect = 1e-92
 Identities = 108/153 (70%), Positives = 132/153 (86%)

Query: 1   MKSLVANEDFQHILRVLNTNVDGKQKIMFALTSIKGIGRRLANIVCKKADVDMNKRAGEL 60
             +L   +DFQHILR+LNTNVDGK+K+ +ALT+IKGIGRR A +VCKKA +D+ KRAGEL
Sbjct: 2   SLTLEKADDFQHILRILNTNVDGKRKVPYALTAIKGIGRRFAYLVCKKAGIDVTKRAGEL 61

Query: 61  SAAELDNLMVVVANPRQFKIPDWFLNRQKDYKDGKYSQVVSNALDMKLRDDLERLKKIRN 120
           +A E++ ++ ++ANP QFKIPDWFLNRQ+D KDGK S + SN LD KLR+DLERLKKIR 
Sbjct: 62  TAEEIEKIVEIIANPLQFKIPDWFLNRQRDPKDGKNSHLTSNMLDTKLREDLERLKKIRL 121

Query: 121 HRGLRHYWGLRVRGQHTKTTGRRGKTVGVSKKR 153
           HRGLRH+WGLRVRGQHTKTTGRRG+TVGVS+K+
Sbjct: 122 HRGLRHHWGLRVRGQHTKTTGRRGRTVGVSRKK 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 153
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
PRK04184 535 DNA topoisomerase VI subunit B; Validated 98.47
COG1389 538 DNA topoisomerase VI, subunit B [DNA replication, 98.44
TIGR01052 488 top6b DNA topoisomerase VI, B subunit. This model 98.38
PF0683192 H2TH: Formamidopyrimidine-DNA glycosylase H2TH dom 97.29
PRK01103274 formamidopyrimidine/5-formyluracil/ 5-hydroxymethy 97.07
PRK14810272 formamidopyrimidine-DNA glycosylase; Provisional 96.47
PRK14811269 formamidopyrimidine-DNA glycosylase; Provisional 96.44
PRK10445263 endonuclease VIII; Provisional 96.34
PRK13945282 formamidopyrimidine-DNA glycosylase; Provisional 96.29
TIGR00577272 fpg formamidopyrimidine-DNA glycosylase (fpg). All 96.26
COG0266273 Nei Formamidopyrimidine-DNA glycosylase [DNA repli 94.1
PF05833 455 FbpA: Fibronectin-binding protein A N-terminus (Fb 93.77
PF0063330 HHH: Helix-hairpin-helix motif; InterPro: IPR00044 93.73
PRK14867 659 DNA topoisomerase VI subunit B; Provisional 92.47
TIGR00275400 flavoprotein, HI0933 family. The model when search 91.63
cd0008075 HhH2_motif Helix-hairpin-helix class 2 (Pol1 famil 90.17
PF1179832 IMS_HHH: IMS family HHH motif; InterPro: IPR024728 89.61
PF1452060 HHH_5: Helix-hairpin-helix domain; PDB: 3AUO_B 3AU 89.35
PF1039152 DNA_pol_lambd_f: Fingers domain of DNA polymerase 88.49
PRK00274272 ksgA 16S ribosomal RNA methyltransferase KsgA/Dim1 88.45
smart0027826 HhH1 Helix-hairpin-helix DNA-binding motif class 1 87.49
COG3743133 Uncharacterized conserved protein [Function unknow 86.4
PRK14601183 ruvA Holliday junction DNA helicase RuvA; Provisio 86.05
COG0030259 KsgA Dimethyladenosine transferase (rRNA methylati 85.62
PRK02515132 psbU photosystem II complex extrinsic protein prec 85.22
PRK14606188 ruvA Holliday junction DNA helicase RuvA; Provisio 84.04
KOG3311152 consensus Ribosomal protein S18 [Translation, ribo 83.14
PF03486409 HI0933_like: HI0933-like protein; InterPro: IPR004 83.13
PRK14603197 ruvA Holliday junction DNA helicase RuvA; Provisio 82.49
PRK14604195 ruvA Holliday junction DNA helicase RuvA; Provisio 82.13
TIGR00755253 ksgA dimethyladenosine transferase. Alternate name 81.95
PRK13901196 ruvA Holliday junction DNA helicase RuvA; Provisio 81.51
COG0632201 RuvA Holliday junction resolvasome, DNA-binding su 81.39
PF00398262 RrnaAD: Ribosomal RNA adenine dimethylase; InterPr 81.14
TIGR03252177 uncharacterized HhH-GPD family protein. This model 81.05
PRK14602203 ruvA Holliday junction DNA helicase RuvA; Provisio 80.92
COG1293 564 Predicted RNA-binding protein homologous to eukary 80.7
smart0027936 HhH2 Helix-hairpin-helix class 2 (Pol1 family) mot 80.61
>PTZ00134 40S ribosomal protein S18; Provisional Back     alignment and domain information 
Probab=100.00  E-value=1.5e-65  Score=394.49  Aligned_cols=148  Identities=72%  Similarity=1.171  Sum_probs=145.0

Q ss_pred             CccchhhhhhhcCccCCCCeeeeeehhhccccchhhHHHHHHHhCCCCCCcCCCCCHHHHHHHHHHHhCCCCccCCcccc
Q 031787            6 ANEDFQHILRVLNTNVDGKQKIMFALTSIKGIGRRLANIVCKKADVDMNKRAGELSAAELDNLMVVVANPRQFKIPDWFL   85 (153)
Q Consensus         6 ~~~~~~~~vri~~~~l~~~k~i~~aLt~I~GIG~~~A~~Ic~~lgi~~~~kv~~Ls~~ei~~L~~~i~~~~~~~ip~w~~   85 (153)
                      .+++|+||+||+|||||++|+|.+||++|||||..+|.+||+.+||||++++++||++|++.|.++|++|.+|.+|+||+
T Consensus         7 ~~~~~~~mvrI~~~~l~~~K~v~~aLt~I~GIG~~~A~~I~~~lgi~~~~~~~~Lt~~qi~~l~~~i~~~~~~~iP~w~~   86 (154)
T PTZ00134          7 KADDFQHILRILNTNVDGKRKVPYALTAIKGIGRRFAYLVCKKAGIDVTKRAGELTAEEIEKIVEIIANPLQFKIPDWFL   86 (154)
T ss_pred             chhhhhhhhhccCccCCCCCEEEEeecccccccHHHHHHHHHHcCcCcCCCcccCCHHHHHHHHHHHhccccCCCChhHh
Confidence            33689999999999999999999999999999999999999999999999999999999999999999987899999999


Q ss_pred             CccCCcCCCcchhhhhhhHHHHHHHhhhhhhccceeecccCCCCCccCCcCCcccCCCccceeeeccC
Q 031787           86 NRQKDYKDGKYSQVVSNALDMKLRDDLERLKKIRNHRGLRHYWGLRVRGQHTKTTGRRGKTVGVSKKR  153 (153)
Q Consensus        86 nr~kd~~tg~~~~li~~dL~~~~~~~I~rl~~i~syRG~RH~~gLpvRGQRT~tNart~~~~~v~~~~  153 (153)
                      |||+|+.||+|.|+||+||++++++||+||++|+||||+||++||||||||||||||||+++||++||
T Consensus        87 nr~kd~~tG~d~h~i~~dL~~~~~~dI~Rl~~I~sYRG~RH~~GLpVRGQRTkTnaR~g~~~gv~~kk  154 (154)
T PTZ00134         87 NRQRDPKDGKNSHLTSNMLDTKLREDLERLKKIRLHRGLRHHWGLRVRGQHTKTTGRRGRTVGVSRKK  154 (154)
T ss_pred             hccccccccchhhhhHHHHHHHHHHHHHHHHHhcchheeecccCCccCCccCCCCCccccccceeccC
Confidence            99999999999999999999999999999999999999999999999999999999999999999997

>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
>PRK04184 DNA topoisomerase VI subunit B; Validated Back     alignment and domain information
>COG1389 DNA topoisomerase VI, subunit B [DNA replication, recombination, and repair] Back     alignment and domain information
>TIGR01052 top6b DNA topoisomerase VI, B subunit 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
>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
>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
>PRK14867 DNA topoisomerase VI subunit B; Provisional Back     alignment and domain information
>TIGR00275 flavoprotein, HI0933 family Back     alignment and domain information
>cd00080 HhH2_motif Helix-hairpin-helix class 2 (Pol1 family) motif 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
>PRK00274 ksgA 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed Back     alignment and domain information
>smart00278 HhH1 Helix-hairpin-helix DNA-binding motif class 1 Back     alignment and domain information
>COG3743 Uncharacterized conserved protein [Function unknown] Back     alignment and domain information
>PRK14601 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
>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
>PF03486 HI0933_like: HI0933-like protein; InterPro: IPR004792 This is a family of conserved hypothetical proteins that may include proteins with a dinucleotide-binding motif (Rossman fold), including oxidoreductases and dehydrogenases Back     alignment and domain information
>PRK14603 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
>TIGR00755 ksgA dimethyladenosine transferase Back     alignment and domain information
>PRK13901 ruvA Holliday junction DNA helicase RuvA; Provisional Back     alignment and domain information
>COG0632 RuvA Holliday junction resolvasome, DNA-binding subunit [DNA replication, recombination, and repair] Back     alignment and domain information
>PF00398 RrnaAD: Ribosomal RNA adenine dimethylase; InterPro: IPR001737 This family of proteins include rRNA adenine dimethylases (e Back     alignment and domain information
>TIGR03252 uncharacterized HhH-GPD family protein Back     alignment and domain information
>PRK14602 ruvA Holliday junction DNA helicase RuvA; Provisional Back     alignment and domain information
>COG1293 Predicted RNA-binding protein homologous to eukaryotic snRNP [Transcription] Back     alignment and domain information
>smart00279 HhH2 Helix-hairpin-helix class 2 (Pol1 family) motifs 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 ?
Query153
3iz6_M152 Localization Of The Small Subunit Ribosomal Protein 8e-69
2zkq_m152 Structure Of A Mammalian Ribosomal 40s Subunit With 5e-56
3izb_M146 Localization Of The Small Subunit Ribosomal Protein 6e-49
1s1h_M132 Structure Of The Ribosomal 80s-Eef2-Sordarin Comple 3e-45
3zey_M153 High-resolution Cryo-electron Microscopy Structure 3e-45
3jyv_M130 Structure Of The 40s Rrna And Proteins And PE TRNA 8e-45
2xzm_M155 Crystal Structure Of The Eukaryotic 40s Ribosomal S 1e-39
3j20_O148 Promiscuous Behavior Of Proteins In Archaeal Riboso 2e-26
3ofo_M114 Crystal Structure Of The E. Coli Ribosome Bound To 8e-05
1vs5_M118 Crystal Structure Of The Bacterial Ribosome From Es 9e-05
1p6g_M117 Real Space Refined Coordinates Of The 30s Subunit F 9e-05
2gy9_M115 Structure Of The 30s Subunit Of A Pre-Translocation 9e-05
3fih_M113 Ternary Complex-Bound E.Coli 70s Ribosome. This Ent 1e-04
1fjg_M126 Structure Of The Thermus Thermophilus 30s Ribosomal 5e-04
1i94_M125 Crystal Structures Of The Small Ribosomal Subunit W 5e-04
3pyn_M116 Crystal Structure Of A Complex Containing Domain 3 6e-04
3mr8_M117 Recognition Of The Amber Stop Codon By Release Fact 7e-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 =  255 bits (651), Expect = 8e-69,   Method: Compositional matrix adjust.
 Identities = 120/151 (79%), Positives = 132/151 (87%)
Query: 3   SLVANEDFQHILRVLNTNVDGKQKIMFALTSIKGIGRRLANIVCKKADVDMNKRAGELSA 62
           SL+A E+FQHILRVLNTNVDGKQKIMFALTSIKG+GRR +NIVCKKAD+DMNKRAGELSA
Sbjct: 2   SLIAGEEFQHILRVLNTNVDGKQKIMFALTSIKGVGRRFSNIVCKKADIDMNKRAGELSA 61
Query: 63  AELDNLMVVVANPRQFKIPDWFLNRQKDYKDGKYSQVVSNALDMKLRDDLERLKKIRNHR 122
            E+D LM VV NPRQFK+PDWFLNR+KDYKDG++SQVVSNA+DMKLRDDLERLKKIRNHR
Sbjct: 62  EEMDRLMAVVHNPRQFKVPDWFLNRKKDYKDGRFSQVVSNAVDMKLRDDLERLKKIRNHR 121
Query: 123 GLRHYWGLRVRGQHXXXXXXXXXXXXXSKKR 153
           GLRHYWG+RVRGQH             SKKR
Sbjct: 122 GLRHYWGVRVRGQHTKTTGRRGKTVGVSKKR 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|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|3ZEY|M Chain M, High-resolution Cryo-electron Microscopy Structure Of The Trypanosoma Brucei Ribosome Length = 153 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|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|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|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|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
>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

Structure Templates Detected by RPS-BLAST ?

Original result of RPS-BLAST against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query153
3iz6_M152 40S ribosomal protein S18 (S13P); eukaryotic ribos 3e-84
2xzm_M155 RPS18E; ribosome, translation; 3.93A {Tetrahymena 1e-81
3u5c_S146 40S ribosomal protein S18-A, 40S ribosomal protein 2e-75
2vqe_M126 30S ribosomal protein S13, 30S ribosomal protein S 9e-18
3r8n_M114 30S ribosomal protein S13; protein biosynthesis, R 2e-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 =  243 bits (622), Expect = 3e-84
 Identities = 133/151 (88%), Positives = 145/151 (96%)

Query: 3   SLVANEDFQHILRVLNTNVDGKQKIMFALTSIKGIGRRLANIVCKKADVDMNKRAGELSA 62
           SL+A E+FQHILRVLNTNVDGKQKIMFALTSIKG+GRR +NIVCKKAD+DMNKRAGELSA
Sbjct: 2   SLIAGEEFQHILRVLNTNVDGKQKIMFALTSIKGVGRRFSNIVCKKADIDMNKRAGELSA 61

Query: 63  AELDNLMVVVANPRQFKIPDWFLNRQKDYKDGKYSQVVSNALDMKLRDDLERLKKIRNHR 122
            E+D LM VV NPRQFK+PDWFLNR+KDYKDG++SQVVSNA+DMKLRDDLERLKKIRNHR
Sbjct: 62  EEMDRLMAVVHNPRQFKVPDWFLNRKKDYKDGRFSQVVSNAVDMKLRDDLERLKKIRNHR 121

Query: 123 GLRHYWGLRVRGQHTKTTGRRGKTVGVSKKR 153
           GLRHYWG+RVRGQHTKTTGRRGKTVGVSKKR
Sbjct: 122 GLRHYWGVRVRGQHTKTTGRRGKTVGVSKKR 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 ?
Query153
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
1mu5_A471 Type II DNA topoisomerase VI subunit B; GHKL ATPas 98.41
2zbk_B 530 Type 2 DNA topoisomerase 6 subunit B; DNA binding 97.72
1k3x_A262 Endonuclease VIII; hydrolase/DNA, hydrolase-DNA co 96.03
1ee8_A266 MUTM (FPG) protein; beta sandwich, zinc finger, he 96.0
1k82_A268 Formamidopyrimidine-DNA glycosylase; protein-DNA c 95.98
2xzf_A271 Formamidopyrimidine-DNA glycosylase; hydrolase-DNA 95.97
3u6p_A273 Formamidopyrimidine-DNA glycosylase; DNA glycosyla 95.92
3twl_A310 Formamidopyrimidine-DNA glycosylase 1; helix two t 95.81
3w0f_A287 Endonuclease 8-like 3; helix two turns helix, zinc 95.79
3vk8_A295 Probable formamidopyrimidine-DNA glycosylase; DNA 95.69
1kft_A78 UVRC, excinuclease ABC subunit C; helix-hairpin-he 92.67
2a1j_A63 DNA repair endonuclease XPF; XPF, xeroderma pigmen 92.49
3fut_A271 Dimethyladenosine transferase; methyltransferase, 91.2
1z00_B84 DNA repair endonuclease XPF; helix-hairpin-helix, 88.64
1tdh_A364 NEI endonuclease VIII-like 1; helix two turns heli 88.45
1z00_A89 DNA excision repair protein ERCC-1; helix-hairpin- 87.83
3ftd_A249 Dimethyladenosine transferase; KSGA, rossmann-like 87.79
3arc_U97 Photosystem II 12 kDa extrinsic protein; PSII, mem 87.65
1x2i_A75 HEF helicase/nuclease; alpha helix, helix-hairpin- 87.42
1qyr_A252 KSGA, high level kasugamycin resistance protein, S 87.09
3uzu_A279 Ribosomal RNA small subunit methyltransferase A; s 86.4
2duy_A75 Competence protein comea-related protein; helix-ha 85.92
2a1j_B91 DNA excision repair protein ERCC-1; XPF, xeroderma 83.2
1s5l_U134 Photosystem II 12 kDa extrinsic protein; photosynt 81.67
2q2e_B 621 Type 2 DNA topoisomerase 6 subunit B; DNA-binding, 80.49
>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=1.7e-69  Score=414.49  Aligned_cols=152  Identities=88%  Similarity=1.352  Sum_probs=150.6

Q ss_pred             ccCCCccchhhhhhhcCccCCCCeeeeeehhhccccchhhHHHHHHHhCCCCCCcCCCCCHHHHHHHHHHHhCCCCccCC
Q 031787            2 KSLVANEDFQHILRVLNTNVDGKQKIMFALTSIKGIGRRLANIVCKKADVDMNKRAGELSAAELDNLMVVVANPRQFKIP   81 (153)
Q Consensus         2 ~~~~~~~~~~~~vri~~~~l~~~k~i~~aLt~I~GIG~~~A~~Ic~~lgi~~~~kv~~Ls~~ei~~L~~~i~~~~~~~ip   81 (153)
                      |||+.+|+||||+||+|||||++|.|.+|||+|||||+.+|..||+.+||||++++++||++|+++|.++|++|.+|++|
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            79999999999999999999999999999999999999999999999999999999999999999999999999899999


Q ss_pred             ccccCccCCcCCCcchhhhhhhHHHHHHHhhhhhhccceeecccCCCCCccCCcCCcccCCCccceeeeccC
Q 031787           82 DWFLNRQKDYKDGKYSQVVSNALDMKLRDDLERLKKIRNHRGLRHYWGLRVRGQHTKTTGRRGKTVGVSKKR  153 (153)
Q Consensus        82 ~w~~nr~kd~~tg~~~~li~~dL~~~~~~~I~rl~~i~syRG~RH~~gLpvRGQRT~tNart~~~~~v~~~~  153 (153)
                      +||+||++|++||++.|++|+||++++++||+||++|+||||+||.+||||||||||||||||+||||+|||
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
>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
>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
>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
>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
>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
>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
>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
>3ftd_A Dimethyladenosine transferase; KSGA, rossmann-like fold, RNA methyltransferase, mtase, anti resistance, methyltransferase, RNA-binding; 1.44A {Aquifex aeolicus} PDB: 3ftc_A 3fte_A 3ftf_A* 3r9x_B* 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
>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
>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
>3uzu_A Ribosomal RNA small subunit methyltransferase A; ssgcid, seattle structural genomics center for infectio disease; 1.75A {Burkholderia pseudomallei} 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
>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
>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
>2q2e_B Type 2 DNA topoisomerase 6 subunit B; DNA-binding, SPO11, ATPase; 4.00A {Methanosarcina mazei} 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 153
d2uubm1125 a.156.1.1 (M:2-126) Ribosomal protein S13 {Thermus 1e-32
d2gy9m1114 a.156.1.1 (M:1-114) Ribosomal protein S13 {Escheri 1e-31
>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 =  110 bits (276), Expect = 1e-32
 Identities = 39/141 (27%), Positives = 63/141 (44%), Gaps = 24/141 (17%)

Query: 15  RVLNTNVDGKQKIMFALTSIKGIGRRLANIVCKKADVDMNKRAGELSAAELDNLMVVVAN 74
           R+    +   +++  ALT I GIG+  A    +K  ++   R  +L+ AE+  L      
Sbjct: 2   RIAGVEIPRNKRVDVALTYIYGIGKARAKEALEKTGINPATRVKDLTEAEVVRL------ 55

Query: 75  PRQFKIPDWFLNRQKDYKDGKYSQVVSNALDMKLRDDLERLKKIRNHRGLRHYWGLRVRG 134
            R++    W L                  L  ++  +++RL  I  +RGLRH  GL VRG
Sbjct: 56  -REYVENTWKL---------------EGELRAEVAANIKRLMDIGCYRGLRHRRGLPVRG 99

Query: 135 QHTKTTGR--RGKTVGVSKKR 153
           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 ?
Query153
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 98.5
d1k3xa189 Endonuclease VIII {Escherichia coli [TaxId: 562]} 97.7
d1r2za194 DNA repair protein MutM (Fpg) {Bacillus stearother 97.61
d1ee8a189 DNA repair protein MutM (Fpg) {Thermus thermophilu 97.57
d1k82a188 DNA repair protein MutM (Fpg) {Escherichia coli [T 97.54
d1tdza188 DNA repair protein MutM (Fpg) {Lactococcus lactis 97.52
d2bgwa170 DNA repair endonuclease XPF {Aeropyrum pernix [Tax 95.49
d1tdha1115 Endonuclease VIII-like 1 (NEIL1) {Human (Homo sapi 95.03
d2a1jb178 DNA excision repair protein ERCC-1 {Human (Homo sa 94.29
d2fmpa257 DNA polymerase beta {Human (Homo sapiens) [TaxId: 94.2
d1pzna161 DNA repair protein Rad51, N-terminal domain {Archa 94.09
d2bcqa257 DNA polymerase lambda {Human (Homo sapiens) [TaxId 93.9
d1jmsa360 Terminal deoxynucleotidyl transferase {Mouse (Mus 93.39
d1x2ia168 ATP-dependent RNA helicase PF2015 {Pyrococcus furi 93.2
d2i1qa160 DNA repair protein Rad51, N-terminal domain {Archa 92.92
d2a1ja162 DNA repair endonuclease XPF {Human (Homo sapiens) 92.83
d2i0za2169 Flavoprotein BC4706 {Bacillus cereus [TaxId: 1396] 92.57
d1b43a1120 Flap endonuclease-1 (Fen-1 nuclease) {Archaeon Pyr 92.49
d1kfta_56 Excinuclease UvrC C-terminal domain {Escherichia c 92.0
d1bvsa271 DNA helicase RuvA subunit, middle domain {Mycobact 91.82
d1ixra173 DNA helicase RuvA subunit, middle domain {Thermus 91.5
d1a77a1108 Flap endonuclease-1 (Fen-1 nuclease) {Archaeon Met 90.68
d2gqfa2148 Hypothetical protein HI0933 {Haemophilus influenza 90.56
d1cuka278 DNA helicase RuvA subunit, middle domain {Escheric 90.4
d1ul1x1140 Flap endonuclease-1 (Fen-1 nuclease) {Human (Homo 90.27
d2axtu198 Photosystem II 12 kDa extrinsic protein PsbU {Ther 89.81
d1rxwa1105 Flap endonuclease-1 (Fen-1 nuclease) {Archaeon Arc 88.06
d1bvsa271 DNA helicase RuvA subunit, middle domain {Mycobact 85.65
d2duya165 Uncharacterized protein TTHA1967 {Thermus thermoph 85.27
d1qyra_252 High level kasugamycin resistance protein KsgA {Es 83.63
d1cuka278 DNA helicase RuvA subunit, middle domain {Escheric 83.42
d1ixra173 DNA helicase RuvA subunit, middle domain {Thermus 83.27
>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=7.3e-50  Score=295.76  Aligned_cols=118  Identities=32%  Similarity=0.458  Sum_probs=112.8

Q ss_pred             hhhcCccCCCCeeeeeehhhccccchhhHHHHHHHhCCCCCCcCCCCCHHHHHHHHHHHhCCCCccCCccccCccCCcCC
Q 031787           14 LRVLNTNVDGKQKIMFALTSIKGIGRRLANIVCKKADVDMNKRAGELSAAELDNLMVVVANPRQFKIPDWFLNRQKDYKD   93 (153)
Q Consensus        14 vri~~~~l~~~k~i~~aLt~I~GIG~~~A~~Ic~~lgi~~~~kv~~Ls~~ei~~L~~~i~~~~~~~ip~w~~nr~kd~~t   93 (153)
                      .||+|||||++|+|.+||++|||||+++|.+||+.+||||++++++||++|++.|.++|+++                  
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             CcchhhhhhhHHHHHHHhhhhhhccceeecccCCCCCccCCcCCcccCCC--ccceeeeccC
Q 031787           94 GKYSQVVSNALDMKLRDDLERLKKIRNHRGLRHYWGLRVRGQHTKTTGRR--GKTVGVSKKR  153 (153)
Q Consensus        94 g~~~~li~~dL~~~~~~~I~rl~~i~syRG~RH~~gLpvRGQRT~tNart--~~~~~v~~~~  153 (153)
                          |++|+||++.+++||+||++|+||||+||.+|||||||||||||||  |.++||.+||
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                3479999999999999999999999999999999999999999997  7899999886
>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
>d1tdha1 a.156.1.2 (A:132-246) Endonuclease VIII-like 1 (NEIL1) {Human (Homo sapiens) [TaxId: 9606]} 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
>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
>d1jmsa3 a.60.12.1 (A:243-302) Terminal deoxynucleotidyl transferase {Mouse (Mus musculus) [TaxId: 10090]} 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
>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
>d2a1ja1 a.60.2.5 (A:837-898) DNA repair endonuclease XPF {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2i0za2 e.74.1.1 (A:193-361) Flavoprotein BC4706 {Bacillus cereus [TaxId: 1396]} 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
>d1kfta_ a.60.2.3 (A:) Excinuclease UvrC C-terminal domain {Escherichia coli [TaxId: 562]} 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
>d1a77a1 a.60.7.1 (A:209-316) Flap endonuclease-1 (Fen-1 nuclease) {Archaeon Methanococcus jannaschii [TaxId: 2190]} 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
>d1cuka2 a.60.2.1 (A:65-142) DNA helicase RuvA subunit, middle domain {Escherichia coli [TaxId: 562]} 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
>d2axtu1 a.60.12.2 (U:37-134) Photosystem II 12 kDa extrinsic protein PsbU {Thermosynechococcus elongatus [TaxId: 146786]} Back     information, alignment and structure
>d1rxwa1 a.60.7.1 (A:220-324) Flap endonuclease-1 (Fen-1 nuclease) {Archaeon Archaeoglobus fulgidus [TaxId: 2234]} 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
>d2duya1 a.60.2.7 (A:11-75) Uncharacterized protein TTHA1967 {Thermus thermophilus [TaxId: 274]} Back     information, alignment and structure
>d1qyra_ c.66.1.24 (A:) High level kasugamycin resistance protein KsgA {Escherichia coli [TaxId: 562]} 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
>d1ixra1 a.60.2.1 (A:63-135) DNA helicase RuvA subunit, middle domain {Thermus thermophilus [TaxId: 274]} Back     information, alignment and structure