Citrus Sinensis ID: 026316

Local Sequence Feature Prediction

Prediction and (Method)Result
Residue Number Marker
Protein Sequence ?
Secondary Structure (PSIPRED) ?
Secondary Structure Prediction (SSPRO) ?
Coil and Loop (DISEMBL) ?
Flexible Loop (DISEMBL) ?
Low Complexity Region (SEG) ?
Disordered region (IsUnstruct) ?
Disordered Region (DISOPRED) ?
Disordered Region (DISEMBL) ?
Disordered Region (DISPRO) ?
Transmembrane Helix (TMHMM) ?
Transmembrane Helix (HMMTOP) ?
Transmembrane Helix (MEMSAT) ?
TM Helix, Signal Peptide (MEMSAT_SVM) ?
TM Helix, Signal Peptide (Phobius) ?
Signal Peptide (SignalP HMM Mode) ?
Signal Peptide (SignalP NN Mode) ?
Coiled Coils (COILS) ?
Positional Conservation ?
 
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240
MATQISKKRKFVADGVFFAELNEVLTRELAEDGYSGVEVRVTPVRTEIIIRATRTQNVLGEKGRRIRELTSVVQKRFKFPENSVELYAEKVNNRGLCAIAQAESLRYKLLGGLAVRRACYGVLRFIMESGAKGCEFNFLVSSKVIVSGKLRAQRAKSMKFKDGYMISSGQPVNEYIDSAVRHVLLRQGVLGIKVKIMLEWDQKGKQGPTTPLPDLVTIHPLKEEVYVAPATATSIELPVA
cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccEEEEEEEEcccEEEEEEEEccccccccccccHHHHHHHHHHHHHccccccEEEEEEEEccccccHHHHHHHHHHHHHccHHHHHHHHHHHHHHHHHcccEEEEccccEEEEEEccccccccccEEEEcccEEccccccHHHHHEEEEEEEEEcEEEEEEEEEEEEccccccccccccccccEEEEcccccccccccccccccccccc
ccHHHHHHHHHHHcccHHHHHHHHHHHHHHHcccccEEEEEccccEEEEEEEccccEEEcccccHHHHHHHHHHHHHccccccEEEEEEEcccccccHHHHHHHHHHHHHccHHHHHHHHHHHHHHHHcccccEEEEEEEEcEEEEEcccccHHHHHHHHccccEEcccccHHHHHHHHHHHHHHHccEEEEEEEEEcccccccccccccccccEEEEEccccccccccccccccccccc
MATQISKKRKFVADGVFFAELNEVLTRELaedgysgvevrvtPVRTEIIIRATRTqnvlgekgrRIRELTSVVQKRFKFPENSVELYAEKVNNRGLCAIAQAESLRYKLLGGLAVRRACYGVLRFIMEsgakgcefnFLVSSKVIVSGKLRAQRAKsmkfkdgymissgqpvnEYIDSAVRHVLLRQGVLGIKVKIMLEwdqkgkqgpttplpdlvtihplkeevyvapatatsielpva
matqiskkrkfvadgvFFAELNEVLTrelaedgysgvevrvtpvrteiiiratrtqnvlgekgrrireltsvvqkrfkfpensVELYAEKVNNRGLCAIAQAESLRYKLLGGLAVRRACYGVLRFIMESGAKGCEFNFLVSSKVIVSGKLRAQRAksmkfkdgymiSSGQPVNEYIDSAVRHVLLRQGVLGIKVKIMLEwdqkgkqgpttplpDLVTIHPLKEEVYVAPATATSIELPVA
MATQISKKRKFVADGVFFAELNEVLTRELAEDGYSGVEVRVTPVRTEIIIRATRTQNVLGEKGRRIRELTSVVQKRFKFPENSVELYAEKVNNRGLCAIAQAESLRYKLLGGLAVRRACYGVLRFIMESGAKGCEFNFLVSSKVIVSGKLRAQRAKSMKFKDGYMISSGQPVNEYIDSAVRHVLLRQGVLGIKVKIMLEWDQKGKQGPTTPLPDLVTIHPLKEEVYVAPATATSIELPVA
*********KFVADGVFFAELNEVLTRELAEDGYSGVEVRVTPVRTEIIIRATRTQNVLGEKGRRIRELTSVVQKRFKFPENSVELYAEKVNNRGLCAIAQAESLRYKLLGGLAVRRACYGVLRFIMESGAKGCEFNFLVSSKVIVSGKLRAQRAKSMKFKDGYMISSGQPVNEYIDSAVRHVLLRQGVLGIKVKIMLEWDQKG*****TPLPDLVTIHPLKEEVYVAPA**********
******KKRKFVADGVFFAELNEVLTRELAEDGYSGVEVRVTPVRTEIIIRATRTQ****EKGRRIRELTSVVQKRFKFPENSVELYAEKVNNRGLCAIAQAESLRYKLLGGLAVRRACYGVLRFIMESGAKGCEFNFLVSSKVIVSGKLRAQRAKSMKFKDGYMISSGQPVNEYIDSAVRHVLLRQGVLGIKVKIMLEW***************VTIH*********************
MATQISKKRKFVADGVFFAELNEVLTRELAEDGYSGVEVRVTPVRTEIIIRATRTQNVLGEKGRRIRELTSVVQKRFKFPENSVELYAEKVNNRGLCAIAQAESLRYKLLGGLAVRRACYGVLRFIMESGAKGCEFNFLVSSKVIVSGKLRAQRAKSMKFKDGYMISSGQPVNEYIDSAVRHVLLRQGVLGIKVKIMLEWDQKGKQGPTTPLPDLVTIHPLKEEVYVAPATATSIELPVA
*ATQISKKRKFVADGVFFAELNEVLTRELAEDGYSGVEVRVTPVRTEIIIRATRTQNVLGEKGRRIRELTSVVQKRFKFPENSVELYAEKVNNRGLCAIAQAESLRYKLLGGLAVRRACYGVLRFIMESGAKGCEFNFLVSSKVIVSGKLRAQRAKSMKFKDGYMISSGQPVNEYIDSAVRHVLLRQGVLGIKVKIMLEWDQKGKQGPTTPLPDLVTIHPLK******************
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
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MATQISKKRKFVADGVFFAELNEVLTRELAEDGYSGVEVRVTPVRTEIIIRATRTQNVLGEKGRRIRELTSVVQKRFKFPENSVELYAEKVNNRGLCAIAQAESLRYKLLGGLAVRRACYGVLRFIMESGAKGCEFNFLVSSKVIVSGKLRAQRAKSMKFKDGYMISSGQPVNEYIDSAVRHVLLRQGVLGIKVKIMLEWDQKGKQGPTTPLPDLVTIHPLKEEVYVAPATATSIELPVA
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 ?
Query240 2.2.26 [Sep-21-2011]
Q9FJA6248 40S ribosomal protein S3- yes no 0.925 0.895 0.861 1e-113
Q9SIP7250 40S ribosomal protein S3- no no 0.941 0.904 0.851 1e-112
Q9M339249 40S ribosomal protein S3- no no 0.9 0.867 0.870 1e-109
P02350246 40S ribosomal protein S3- N/A no 0.933 0.910 0.799 1e-100
P62909243 40S ribosomal protein S3 yes no 0.933 0.921 0.799 1e-100
P62908243 40S ribosomal protein S3 yes no 0.933 0.921 0.799 1e-100
E2RH47243 40S ribosomal protein S3 yes no 0.933 0.921 0.799 1e-100
Q0Z8U2243 40S ribosomal protein S3 yes no 0.933 0.921 0.799 1e-100
P23396243 40S ribosomal protein S3 yes no 0.933 0.921 0.799 1e-100
Q3T169243 40S ribosomal protein S3 yes no 0.933 0.921 0.799 1e-100
>sp|Q9FJA6|RS33_ARATH 40S ribosomal protein S3-3 OS=Arabidopsis thaliana GN=RPS3C PE=1 SV=1 Back     alignment and function desciption
 Score =  407 bits (1045), Expect = e-113,   Method: Compositional matrix adjust.
 Identities = 199/231 (86%), Positives = 214/231 (92%), Gaps = 9/231 (3%)

Query: 1   MATQISKKRKFVADGVFFAELNEVLTRELAEDGYSGVEVRVTPVRTEIIIRATRTQNVLG 60
           MATQISKKRKFVADGVF+AELNEVLTRELAEDGYSGVEVRVTP+RTEIIIRATRTQNVLG
Sbjct: 1   MATQISKKRKFVADGVFYAELNEVLTRELAEDGYSGVEVRVTPMRTEIIIRATRTQNVLG 60

Query: 61  EKGRRIRELTSVVQKRFKFPENSVELYAEKVNNRGLCAIAQAESLRYKLLGGLAVRRACY 120
           EKGRRIRELTS+VQKRFKFP++SVELYAEKV NRGLCAIAQAESLRYKLLGGLAVRRACY
Sbjct: 61  EKGRRIRELTSLVQKRFKFPQDSVELYAEKVANRGLCAIAQAESLRYKLLGGLAVRRACY 120

Query: 121 GVLRFIMESGAKGCEFNFLVSSKVIVSGKLRAQRAKSMKFKDGYMISSGQPVNEYIDSAV 180
           GVLRF+MESGAKGCE        VIVSGKLRA RAKSMKFKDGYM+SSGQP  EYID+AV
Sbjct: 121 GVLRFVMESGAKGCE--------VIVSGKLRAARAKSMKFKDGYMVSSGQPTKEYIDAAV 172

Query: 181 RHVLLRQGVLGIKVKIMLEWDQKGKQGPTTPLPDLVTIH-PLKEEVYVAPA 230
           RHVLLRQGVLG+KVKIML+WD KGKQGP TPLPD+V IH P +++VY+APA
Sbjct: 173 RHVLLRQGVLGLKVKIMLDWDPKGKQGPMTPLPDVVIIHTPKEDDVYIAPA 223

Arabidopsis thaliana (taxid: 3702)
>sp|Q9SIP7|RS31_ARATH 40S ribosomal protein S3-1 OS=Arabidopsis thaliana GN=RPS3A PE=1 SV=1 Back     alignment and function description
>sp|Q9M339|RS32_ARATH 40S ribosomal protein S3-2 OS=Arabidopsis thaliana GN=RPS3B PE=1 SV=1 Back     alignment and function description
>sp|P02350|RS31_XENLA 40S ribosomal protein S3-A OS=Xenopus laevis GN=rps3-a PE=2 SV=2 Back     alignment and function description
>sp|P62909|RS3_RAT 40S ribosomal protein S3 OS=Rattus norvegicus GN=Rps3 PE=1 SV=1 Back     alignment and function description
>sp|P62908|RS3_MOUSE 40S ribosomal protein S3 OS=Mus musculus GN=Rps3 PE=1 SV=1 Back     alignment and function description
>sp|E2RH47|RS3_CANFA 40S ribosomal protein S3 OS=Canis familiaris GN=RPS3 PE=1 SV=1 Back     alignment and function description
>sp|Q0Z8U2|RS3_PIG 40S ribosomal protein S3 OS=Sus scrofa GN=RPS3 PE=2 SV=1 Back     alignment and function description
>sp|P23396|RS3_HUMAN 40S ribosomal protein S3 OS=Homo sapiens GN=RPS3 PE=1 SV=2 Back     alignment and function description
>sp|Q3T169|RS3_BOVIN 40S ribosomal protein S3 OS=Bos taurus GN=RPS3 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 ?
Query240
118488288232 unknown [Populus trichocarpa] 0.966 1.0 0.895 1e-119
359476269235 PREDICTED: 40S ribosomal protein S3-3-li 0.958 0.978 0.891 1e-117
224135747233 predicted protein [Populus trichocarpa] 0.966 0.995 0.892 1e-117
225444782234 PREDICTED: 40S ribosomal protein S3-3 [V 0.966 0.991 0.888 1e-117
255546003233 40S ribosomal protein S3, putative [Rici 0.966 0.995 0.892 1e-117
356559951236 PREDICTED: 40S ribosomal protein S3-3-li 0.966 0.983 0.884 1e-116
224088766236 predicted protein [Populus trichocarpa] 0.966 0.983 0.888 1e-116
356534894236 PREDICTED: 40S ribosomal protein S3-3-li 0.966 0.983 0.877 1e-116
356559953235 PREDICTED: 40S ribosomal protein S3-3-li 0.966 0.987 0.880 1e-116
224141685234 predicted protein [Populus trichocarpa] 0.962 0.987 0.892 1e-116
>gi|118488288|gb|ABK95963.1| unknown [Populus trichocarpa] Back     alignment and taxonomy information
 Score =  432 bits (1112), Expect = e-119,   Method: Compositional matrix adjust.
 Identities = 215/240 (89%), Positives = 221/240 (92%), Gaps = 8/240 (3%)

Query: 1   MATQISKKRKFVADGVFFAELNEVLTRELAEDGYSGVEVRVTPVRTEIIIRATRTQNVLG 60
           MATQISKKRKFVADGVF+AELNEVLTRELAEDGYSGVEVRVTP+RTEIIIRATRTQNVLG
Sbjct: 1   MATQISKKRKFVADGVFYAELNEVLTRELAEDGYSGVEVRVTPMRTEIIIRATRTQNVLG 60

Query: 61  EKGRRIRELTSVVQKRFKFPENSVELYAEKVNNRGLCAIAQAESLRYKLLGGLAVRRACY 120
           EKGRRIRELTSVVQKRFKFPEN VELYAEKVNNRGLCAIAQAESLRYKLLGGLAVRRACY
Sbjct: 61  EKGRRIRELTSVVQKRFKFPENGVELYAEKVNNRGLCAIAQAESLRYKLLGGLAVRRACY 120

Query: 121 GVLRFIMESGAKGCEFNFLVSSKVIVSGKLRAQRAKSMKFKDGYMISSGQPVNEYIDSAV 180
           GVLRF+MESGAKGCE        VIVSGKLRAQRAKSMKFKDGYMISSGQPV EYIDSAV
Sbjct: 121 GVLRFVMESGAKGCE--------VIVSGKLRAQRAKSMKFKDGYMISSGQPVKEYIDSAV 172

Query: 181 RHVLLRQGVLGIKVKIMLEWDQKGKQGPTTPLPDLVTIHPLKEEVYVAPATATSIELPVA 240
           RHVLLRQGVLGIKVKIML+WD KGK GP TPLPDLVTIHP KEE YV P   T+IE+PVA
Sbjct: 173 RHVLLRQGVLGIKVKIMLDWDPKGKVGPMTPLPDLVTIHPPKEEEYVPPVMTTNIEIPVA 232

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|359476269|ref|XP_002281141.2| PREDICTED: 40S ribosomal protein S3-3-like [Vitis vinifera] gi|296081703|emb|CBI20708.3| unnamed protein product [Vitis vinifera] Back     alignment and taxonomy information
>gi|224135747|ref|XP_002322150.1| predicted protein [Populus trichocarpa] gi|222869146|gb|EEF06277.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
>gi|225444782|ref|XP_002279950.1| PREDICTED: 40S ribosomal protein S3-3 [Vitis vinifera] gi|297738588|emb|CBI27833.3| unnamed protein product [Vitis vinifera] Back     alignment and taxonomy information
>gi|255546003|ref|XP_002514061.1| 40S ribosomal protein S3, putative [Ricinus communis] gi|223546517|gb|EEF48015.1| 40S ribosomal protein S3, putative [Ricinus communis] Back     alignment and taxonomy information
>gi|356559951|ref|XP_003548259.1| PREDICTED: 40S ribosomal protein S3-3-like [Glycine max] Back     alignment and taxonomy information
>gi|224088766|ref|XP_002308530.1| predicted protein [Populus trichocarpa] gi|118483836|gb|ABK93809.1| unknown [Populus trichocarpa] gi|118485378|gb|ABK94546.1| unknown [Populus trichocarpa] gi|222854506|gb|EEE92053.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
>gi|356534894|ref|XP_003535986.1| PREDICTED: 40S ribosomal protein S3-3-like [Glycine max] Back     alignment and taxonomy information
>gi|356559953|ref|XP_003548260.1| PREDICTED: 40S ribosomal protein S3-3-like [Glycine max] Back     alignment and taxonomy information
>gi|224141685|ref|XP_002324195.1| predicted protein [Populus trichocarpa] gi|118483222|gb|ABK93514.1| unknown [Populus trichocarpa] gi|118487214|gb|ABK95435.1| unknown [Populus trichocarpa] gi|222865629|gb|EEF02760.1| 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 ?
Query240
TAIR|locus:2169518248 AT5G35530 [Arabidopsis thalian 0.925 0.895 0.861 2.7e-100
TAIR|locus:2065863250 AT2G31610 [Arabidopsis thalian 0.941 0.904 0.851 3.9e-99
TAIR|locus:2084490249 AT3G53870 [Arabidopsis thalian 0.925 0.891 0.857 2.8e-98
UNIPROTKB|F1N9X5243 RPS3 "Uncharacterized protein" 0.933 0.921 0.803 2.2e-89
UNIPROTKB|E2RH47243 RPS3 "40S ribosomal protein S3 0.933 0.921 0.799 4.6e-89
MGI|MGI:1350917243 Rps3 "ribosomal protein S3" [M 0.933 0.921 0.799 4.6e-89
RGD|619888243 Rps3 "ribosomal protein S3" [R 0.933 0.921 0.799 4.6e-89
UNIPROTKB|Q3T169243 RPS3 "40S ribosomal protein S3 0.933 0.921 0.799 5.9e-89
UNIPROTKB|P23396243 RPS3 "40S ribosomal protein S3 0.933 0.921 0.799 5.9e-89
UNIPROTKB|Q0Z8U2243 RPS3 "40S ribosomal protein S3 0.933 0.921 0.799 5.9e-89
TAIR|locus:2169518 AT5G35530 [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 995 (355.3 bits), Expect = 2.7e-100, P = 2.7e-100
 Identities = 199/231 (86%), Positives = 214/231 (92%)

Query:     1 MATQISKKRKFVADGVFFAELNEVLTRELAEDGYSGVEVRVTPVRTEIIIRATRTQNVLG 60
             MATQISKKRKFVADGVF+AELNEVLTRELAEDGYSGVEVRVTP+RTEIIIRATRTQNVLG
Sbjct:     1 MATQISKKRKFVADGVFYAELNEVLTRELAEDGYSGVEVRVTPMRTEIIIRATRTQNVLG 60

Query:    61 EKGRRIRELTSVVQKRFKFPENSVELYAEKVNNRGLCAIAQAESLRYKLLGGLAVRRACY 120
             EKGRRIRELTS+VQKRFKFP++SVELYAEKV NRGLCAIAQAESLRYKLLGGLAVRRACY
Sbjct:    61 EKGRRIRELTSLVQKRFKFPQDSVELYAEKVANRGLCAIAQAESLRYKLLGGLAVRRACY 120

Query:   121 GVLRFIMESGAKGCEFNFLVSSKVIVSGKLRAQRAKSMKFKDGYMISSGQPVNEYIDSAV 180
             GVLRF+MESGAKGCE        VIVSGKLRA RAKSMKFKDGYM+SSGQP  EYID+AV
Sbjct:   121 GVLRFVMESGAKGCE--------VIVSGKLRAARAKSMKFKDGYMVSSGQPTKEYIDAAV 172

Query:   181 RHVLLRQGVLGIKVKIMLEWDQKGKQGPTTPLPDLVTIH-PLKEEVYVAPA 230
             RHVLLRQGVLG+KVKIML+WD KGKQGP TPLPD+V IH P +++VY+APA
Sbjct:   173 RHVLLRQGVLGLKVKIMLDWDPKGKQGPMTPLPDVVIIHTPKEDDVYIAPA 223
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
GO:0006412 "translation" evidence=IEA;ISS
GO:0015935 "small ribosomal subunit" evidence=IEA
GO:0022627 "cytosolic small ribosomal subunit" evidence=ISS;IDA
GO:0005730 "nucleolus" evidence=IDA
GO:0022626 "cytosolic ribosome" evidence=IDA
GO:0016020 "membrane" evidence=IDA
GO:0009651 "response to salt stress" evidence=IEP
GO:0005829 "cytosol" evidence=IDA
GO:0009506 "plasmodesma" evidence=IDA
GO:0005794 "Golgi apparatus" evidence=RCA
GO:0001510 "RNA methylation" evidence=RCA
TAIR|locus:2065863 AT2G31610 [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2084490 AT3G53870 [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
UNIPROTKB|F1N9X5 RPS3 "Uncharacterized protein" [Gallus gallus (taxid:9031)] Back     alignment and assigned GO terms
UNIPROTKB|E2RH47 RPS3 "40S ribosomal protein S3" [Canis lupus familiaris (taxid:9615)] Back     alignment and assigned GO terms
MGI|MGI:1350917 Rps3 "ribosomal protein S3" [Mus musculus (taxid:10090)] Back     alignment and assigned GO terms
RGD|619888 Rps3 "ribosomal protein S3" [Rattus norvegicus (taxid:10116)] Back     alignment and assigned GO terms
UNIPROTKB|Q3T169 RPS3 "40S ribosomal protein S3" [Bos taurus (taxid:9913)] Back     alignment and assigned GO terms
UNIPROTKB|P23396 RPS3 "40S ribosomal protein S3" [Homo sapiens (taxid:9606)] Back     alignment and assigned GO terms
UNIPROTKB|Q0Z8U2 RPS3 "40S ribosomal protein S3" [Sus scrofa (taxid:9823)] 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) ?
Q90YS2RS3_ICTPUNo assigned EC number0.79480.93330.9142N/Ano
Q5R465RS3_PONABNo assigned EC number0.79480.93330.9218yesno
P05750RS3_YEASTNo assigned EC number0.66660.91660.9166yesno
B6YSL9RS3_THEONNo assigned EC number0.35610.8250.9519yesno
C6A165RS3_THESMNo assigned EC number0.35450.82910.9613yesno
P48152RS3_CAEELNo assigned EC number0.71940.88750.8623yesno
P48153RS3_MANSENo assigned EC number0.75860.9250.9135N/Ano
O60128RS3_SCHPONo assigned EC number0.70990.91250.8795yesno
Q8U004RS3_PYRFUNo assigned EC number0.36810.82910.9476yesno
Q9V1U1RS3_PYRABNo assigned EC number0.34540.82910.9476yesno
E2RH47RS3_CANFANo assigned EC number0.79910.93330.9218yesno
Q0Z8U2RS3_PIGNo assigned EC number0.79910.93330.9218yesno
P02350RS31_XENLANo assigned EC number0.79910.93330.9105N/Ano
Q8SQM3RS3_ENCCUNo assigned EC number0.40660.83750.8815yesno
P47835RS32_XENLANo assigned EC number0.79050.93330.9105N/Ano
P23396RS3_HUMANNo assigned EC number0.79910.93330.9218yesno
Q3T169RS3_BOVINNo assigned EC number0.79910.93330.9218yesno
P62909RS3_RATNo assigned EC number0.79910.93330.9218yesno
P62908RS3_MOUSENo assigned EC number0.79910.93330.9218yesno
P79891RS3_AMBMENo assigned EC number0.79480.93330.8853N/Ano
Q9M339RS32_ARATHNo assigned EC number0.87050.90.8674nono
A3CT03RS3_METMJNo assigned EC number0.32280.84160.8632yesno
Q9FJA6RS33_ARATHNo assigned EC number0.86140.9250.8951yesno
O59424RS3_PYRHONo assigned EC number0.34540.82910.9476yesno
Q06559RS3_DROMENo assigned EC number0.72340.94160.9186yesno
P90526RS3_DICDINo assigned EC number0.64670.86250.9495yesno
Q9SIP7RS31_ARATHNo assigned EC number0.85100.94160.904nono

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:
estExt_fgenesh4_pm.C_LG_XV0178
SubName- Full=Putative uncharacterized protein; (233 aa)
(Populus trichocarpa)
Predicted Functional Partners:
gw1.XVI.1998.1
SubName- Full=Putative uncharacterized protein; (204 aa)
   •••• 0.783
eugene3.00061162
SubName- Full=Putative uncharacterized protein; (208 aa)
   •••• 0.777
gw1.1845.1.1
60S ribosomal protein L4/L1 (RPL4D) (408 aa)
•  •• • 0.751
estExt_Genewise1_v1.C_280409
SubName- Full=Putative uncharacterized protein; (408 aa)
•  •• • 0.751
estExt_Genewise1_v1.C_LG_XVI2622
60S ribosomal protein L4/L1 (RPL4D) (407 aa)
•  •• • 0.724
estExt_fgenesh4_pm.C_LG_III0216
SubName- Full=Putative uncharacterized protein; (146 aa)
• ••    0.707
estExt_fgenesh4_pg.C_LG_VII0552
SubName- Full=Putative uncharacterized protein; (146 aa)
• •• •  0.707
estExt_fgenesh4_pg.C_LG_V0222
SubName- Full=Putative uncharacterized protein; (147 aa)
• •• •  0.702
eugene3.00011680
hypothetical protein (270 aa)
•  •••• 0.698
eugene3.00060477
SubName- Full=Putative uncharacterized protein; (270 aa)
•  •••• 0.693

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 ?
Query240
PTZ00084220 PTZ00084, PTZ00084, 40S ribosomal protein S3; Prov 1e-139
TIGR01008195 TIGR01008, rpsC_E_A, ribosomal protein S3, eukaryo 8e-73
COG0092233 COG0092, RpsC, Ribosomal protein S3 [Translation, 7e-53
cd0241381 cd02413, 40S_S3_KH, K homology RNA-binding (KH) do 2e-50
PRK04191207 PRK04191, rps3p, 30S ribosomal protein S3P; Review 5e-46
pfam0018985 pfam00189, Ribosomal_S3_C, Ribosomal protein S3, C 4e-23
cd0241185 cd02411, archeal_30S_S3_KH, K homology RNA-binding 1e-14
pfam0765077 pfam07650, KH_2, KH domain 4e-14
cd0240968 cd02409, KH-II, KH-II (K homology RNA-binding doma 6e-09
CHL00048214 CHL00048, rps3, ribosomal protein S3 1e-05
TIGR01009211 TIGR01009, rpsC_bact, ribosomal protein S3, bacter 2e-05
>gnl|CDD|240260 PTZ00084, PTZ00084, 40S ribosomal protein S3; Provisional Back     alignment and domain information 
 Score =  388 bits (999), Expect = e-139
 Identities = 169/222 (76%), Positives = 193/222 (86%), Gaps = 8/222 (3%)

Query: 3   TQISKKRKFVADGVFFAELNEVLTRELAEDGYSGVEVRVTPVRTEIIIRATRTQNVLGEK 62
            QISKKRKFVADGVF+AELNE L+RELAEDGYSGVEVRVTP+RTEIIIRATRT+ VLG+K
Sbjct: 3   GQISKKRKFVADGVFYAELNEFLSRELAEDGYSGVEVRVTPIRTEIIIRATRTREVLGDK 62

Query: 63  GRRIRELTSVVQKRFKFPENSVELYAEKVNNRGLCAIAQAESLRYKLLGGLAVRRACYGV 122
           GRRIRELTS++QKRF FPE  VEL+AE+V NRGLCA+AQAESLRYKLL GL VRRA YGV
Sbjct: 63  GRRIRELTSLLQKRFGFPEGKVELFAERVENRGLCAMAQAESLRYKLLEGLPVRRAAYGV 122

Query: 123 LRFIMESGAKGCEFNFLVSSKVIVSGKLRAQRAKSMKFKDGYMISSGQPVNEYIDSAVRH 182
           LR +MESGAKGCE        VIVSGKLRAQRAKSMKF+DGYMIS+GQP  +++DSAVRH
Sbjct: 123 LRHVMESGAKGCE--------VIVSGKLRAQRAKSMKFRDGYMISTGQPKKDFVDSAVRH 174

Query: 183 VLLRQGVLGIKVKIMLEWDQKGKQGPTTPLPDLVTIHPLKEE 224
           VL+RQGV+G+KVKIML +D  GK GP+ PLPD++T+   KEE
Sbjct: 175 VLMRQGVIGVKVKIMLPYDPSGKNGPSAPLPDVITVLEPKEE 216

Length = 220
>gnl|CDD|130081 TIGR01008, rpsC_E_A, ribosomal protein S3, eukaryotic/archaeal type Back     alignment and domain information
>gnl|CDD|223170 COG0092, RpsC, Ribosomal protein S3 [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>gnl|CDD|239096 cd02413, 40S_S3_KH, K homology RNA-binding (KH) domain of the eukaryotic 40S small ribosomal subunit protein S3 Back     alignment and domain information
>gnl|CDD|235247 PRK04191, rps3p, 30S ribosomal protein S3P; Reviewed Back     alignment and domain information
>gnl|CDD|215779 pfam00189, Ribosomal_S3_C, Ribosomal protein S3, C-terminal domain Back     alignment and domain information
>gnl|CDD|239094 cd02411, archeal_30S_S3_KH, K homology RNA-binding domain (KH) of the archaeal 30S small ribosomal subunit S3 protein Back     alignment and domain information
>gnl|CDD|203707 pfam07650, KH_2, KH domain Back     alignment and domain information
>gnl|CDD|239092 cd02409, KH-II, KH-II (K homology RNA-binding domain, type II) Back     alignment and domain information
>gnl|CDD|214348 CHL00048, rps3, ribosomal protein S3 Back     alignment and domain information
>gnl|CDD|130082 TIGR01009, rpsC_bact, ribosomal protein S3, bacterial type Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 240
PTZ00084220 40S ribosomal protein S3; Provisional 100.0
PRK04191207 rps3p 30S ribosomal protein S3P; Reviewed 100.0
TIGR01008195 rpsC_E_A ribosomal protein S3, eukaryotic/archaeal 100.0
COG0092233 RpsC Ribosomal protein S3 [Translation, ribosomal 100.0
KOG3181244 consensus 40S ribosomal protein S3 [Translation, r 100.0
CHL00048214 rps3 ribosomal protein S3 100.0
TIGR01009211 rpsC_bact ribosomal protein S3, bacterial type. TI 100.0
PRK00310232 rpsC 30S ribosomal protein S3; Reviewed 100.0
PF0018985 Ribosomal_S3_C: Ribosomal protein S3, C-terminal d 99.93
cd0241381 40S_S3_KH K homology RNA-binding (KH) domain of th 99.81
cd02412109 30S_S3_KH K homology RNA-binding (KH) domain of th 99.79
cd0241185 archeal_30S_S3_KH K homology RNA-binding domain (K 99.71
PF0765078 KH_2: KH domain syndrome, contains KH motifs.; Int 99.45
cd0240968 KH-II KH-II (K homology RNA-binding domain, type I 98.67
smart0032269 KH K homology RNA-binding domain. 97.23
cd0241477 jag_KH jag_K homology RNA-binding domain. The KH d 96.52
PF1308373 KH_4: KH domain; PDB: 3GKU_B. 95.95
PRK0106478 hypothetical protein; Provisional 94.18
PRK08406140 transcription elongation factor NusA-like protein; 94.05
COG1847208 Jag Predicted RNA-binding protein [General functio 93.85
cd0213461 NusA_KH NusA_K homology RNA-binding domain (KH). N 92.7
cd02410145 archeal_CPSF_KH The archaeal cleavage and polyaden 92.48
PRK0282177 hypothetical protein; Provisional 92.14
PRK0046875 hypothetical protein; Provisional 90.11
COG183776 Predicted RNA-binding protein (contains KH domain) 88.22
TIGR00436270 era GTP-binding protein Era. Era is an essential G 86.35
PRK15494339 era GTPase Era; Provisional 85.28
TIGR01952141 nusA_arch NusA family KH domain protein, archaeal. 84.61
PRK00089292 era GTPase Era; Reviewed 84.43
COG1782 637 Predicted metal-dependent RNase, consists of a met 81.49
>PTZ00084 40S ribosomal protein S3; Provisional Back     alignment and domain information 
Probab=100.00  E-value=4.4e-69  Score=475.10  Aligned_cols=213  Identities=79%  Similarity=1.237  Sum_probs=209.5

Q ss_pred             ccCceeeEeecCcchHHHHHHHHhhhccCCeeeeEEEEcCCeEEEEEEecccceeecCCcccHHHHHHHHHHHhCCCCCe
Q 026316            4 QISKKRKFVADGVFFAELNEVLTRELAEDGYSGVEVRVTPVRTEIIIRATRTQNVLGEKGRRIRELTSVVQKRFKFPENS   83 (240)
Q Consensus         4 ~~~~~~kwia~~~~y~~Ire~l~k~~~~agis~IeI~rt~~~i~I~I~~~rP~~iIG~~g~~i~~l~~~L~k~~~~~~~~   83 (240)
                      |++.+++|++|+..+++||+||.++|.++|||+|+|+|+++.++|+||+++|+.+||++|.++++|++.|++.|++++++
T Consensus         4 ~~~~~k~fi~~~~~~~~~re~l~k~~~~agis~ieI~Rt~~~i~V~I~tarPg~vIG~~G~~i~~l~~~L~k~~~~~~~~   83 (220)
T PTZ00084          4 QISKKRKFVADGVFYAELNEFLSRELAEDGYSGVEVRVTPIRTEIIIRATRTREVLGDKGRRIRELTSLLQKRFGFPEGK   83 (220)
T ss_pred             ccchhhHHHHcchhhHHHHHHHHHHHHHCCcceEEEEEcCCcEEEEEEECCCccEEcCCchHHHHHHHHHHHHhCCCCce
Confidence            57889999999999999999999999999999999999999999999999999999999999999999999999988889


Q ss_pred             eEEEEEEecCCCcChHHHHHHHHHHHhcCchhHHHHHHHHHHHHHhCCcceeeeeeeceeEEEccccccceeeeEEeeec
Q 026316           84 VELYAEKVNNRGLCAIAQAESLRYKLLGGLAVRRACYGVLRFIMESGAKGCEFNFLVSSKVIVSGKLRAQRAKSMKFKDG  163 (240)
Q Consensus        84 v~I~v~~v~~p~~~a~~iA~~ia~~Le~~~~fRra~~~~l~~~m~~gakGik~~~~~~~~I~iSGRL~G~rArte~~~~G  163 (240)
                      ++|++.+|++|++||.++|++||+|||+|++||||++++|+++|++||+|||        |+|||||+|.|||+|||++|
T Consensus        84 i~i~v~ev~~P~l~A~lvA~~IA~qLe~rv~FRRa~k~ai~~~m~aGakGik--------I~iSGRL~~EiARtE~~~eG  155 (220)
T PTZ00084         84 VELFAERVENRGLCAMAQAESLRYKLLEGLPVRRAAYGVLRHVMESGAKGCE--------VIVSGKLRAQRAKSMKFRDG  155 (220)
T ss_pred             EEEEEEEecCCCcCHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHcCCceEE--------EEEccchhhHHHHhhHhhcc
Confidence            9999999999999999999999999999999999999999999999999999        99999999779999999999


Q ss_pred             eeeecCcccccceeEEEEEEecCCeeeeEEEEEEcCCCcCCCCCCCCCCCCeEEEccCCcc
Q 026316          164 YMISSGQPVNEYIDSAVRHVLLRQGVLGIKVKIMLEWDQKGKQGPTTPLPDLVTIHPLKEE  224 (240)
Q Consensus       164 ~vl~tG~~~~~~Idya~~~a~t~~GvlGIKVwI~~~~~p~g~~~p~~~lpd~v~i~~~~~~  224 (240)
                      +|||||++++++||||+.+|+|+||+||||||||+++||+|+.||.++|||.|+|++++++
T Consensus       156 rVl~Tg~~~~~~idy~~~~a~t~yGviGVKVwI~~~~~~~~~~~~~~~~pD~~~i~~~~~~  216 (220)
T PTZ00084        156 YMISTGQPKKDFVDSAVRHVLMRQGVIGVKVKIMLPYDPSGKNGPSAPLPDVITVLEPKEE  216 (220)
T ss_pred             EEEecCchHHHheehheEEEcccCceeeEEEEEECCCCcccccCCCCCCCCcEEEeCCccc
Confidence            9999999999999999999999999999999999999999999999999999999999887

>PRK04191 rps3p 30S ribosomal protein S3P; Reviewed Back     alignment and domain information
>TIGR01008 rpsC_E_A ribosomal protein S3, eukaryotic/archaeal type Back     alignment and domain information
>COG0092 RpsC Ribosomal protein S3 [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>KOG3181 consensus 40S ribosomal protein S3 [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>CHL00048 rps3 ribosomal protein S3 Back     alignment and domain information
>TIGR01009 rpsC_bact ribosomal protein S3, bacterial type Back     alignment and domain information
>PRK00310 rpsC 30S ribosomal protein S3; Reviewed Back     alignment and domain information
>PF00189 Ribosomal_S3_C: Ribosomal protein S3, C-terminal domain; InterPro: IPR001351 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms Back     alignment and domain information
>cd02413 40S_S3_KH K homology RNA-binding (KH) domain of the eukaryotic 40S small ribosomal subunit protein S3 Back     alignment and domain information
>cd02412 30S_S3_KH K homology RNA-binding (KH) domain of the prokaryotic 30S small ribosomal subunit protein S3 Back     alignment and domain information
>cd02411 archeal_30S_S3_KH K homology RNA-binding domain (KH) of the archaeal 30S small ribosomal subunit S3 protein Back     alignment and domain information
>PF07650 KH_2: KH domain syndrome, contains KH motifs Back     alignment and domain information
>cd02409 KH-II KH-II (K homology RNA-binding domain, type II) Back     alignment and domain information
>smart00322 KH K homology RNA-binding domain Back     alignment and domain information
>cd02414 jag_KH jag_K homology RNA-binding domain Back     alignment and domain information
>PF13083 KH_4: KH domain; PDB: 3GKU_B Back     alignment and domain information
>PRK01064 hypothetical protein; Provisional Back     alignment and domain information
>PRK08406 transcription elongation factor NusA-like protein; Validated Back     alignment and domain information
>COG1847 Jag Predicted RNA-binding protein [General function prediction only] Back     alignment and domain information
>cd02134 NusA_KH NusA_K homology RNA-binding domain (KH) Back     alignment and domain information
>cd02410 archeal_CPSF_KH The archaeal cleavage and polyadenylation specificity factor (CPSF) contains an N-terminal K homology RNA-binding domain (KH) Back     alignment and domain information
>PRK02821 hypothetical protein; Provisional Back     alignment and domain information
>PRK00468 hypothetical protein; Provisional Back     alignment and domain information
>COG1837 Predicted RNA-binding protein (contains KH domain) [General function prediction only] Back     alignment and domain information
>TIGR00436 era GTP-binding protein Era Back     alignment and domain information
>PRK15494 era GTPase Era; Provisional Back     alignment and domain information
>TIGR01952 nusA_arch NusA family KH domain protein, archaeal Back     alignment and domain information
>PRK00089 era GTPase Era; Reviewed Back     alignment and domain information
>COG1782 Predicted metal-dependent RNase, consists of a metallo-beta-lactamase domain and an RNA-binding KH domain [General function prediction only] 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 ?
Query240
3iz6_B227 Localization Of The Small Subunit Ribosomal Protein 1e-113
2zkq_c243 Structure Of A Mammalian Ribosomal 40s Subunit With 1e-101
3izb_B240 Localization Of The Small Subunit Ribosomal Protein 2e-83
1s1h_C192 Structure Of The Ribosomal 80s-Eef2-Sordarin Comple 7e-79
3jyv_C188 Structure Of The 40s Rrna And Proteins And PE TRNA 3e-78
3zey_X214 High-resolution Cryo-electron Microscopy Structure 2e-64
2xzm_C243 Crystal Structure Of The Eukaryotic 40s Ribosomal S 3e-62
1wh9_A92 Solution Structure Of The Kh Domain Of Human Riboso 2e-33
3j20_C210 Promiscuous Behavior Of Proteins In Archaeal Riboso 9e-25
1fjg_C239 Structure Of The Thermus Thermophilus 30s Ribosomal 2e-05
1i94_C238 Crystal Structures Of The Small Ribosomal Subunit W 2e-05
1pns_C206 Crystal Structure Of A Streptomycin Dependent Ribos 3e-05
3fic_C207 T. Thermophilus 70s Ribosome In Complex With Mrna, 4e-05
>pdb|3IZ6|B Chain B, Localization Of The Small Subunit Ribosomal Proteins Into A 5.5 A Cryo-Em Map Of Triticum Aestivum Translating 80s Ribosome Length = 227 Back     alignment and structure 
Iteration: 1

 Score =  404 bits (1039), Expect = e-113,   Method: Compositional matrix adjust.
 Identities = 202/229 (88%), Positives = 211/229 (92%), Gaps = 8/229 (3%)
Query: 1   MATQISKKRKFVADGVFFAELNEVLTRELAEDGYSGVEVRVTPVRTEIIIRATRTQNVLG 60
           MATQISKK+KFV+DGVF+AELNE+LTRELAEDGYSGVEVRVTP+RTEIIIRATRTQNVLG
Sbjct: 1   MATQISKKKKFVSDGVFYAELNEMLTRELAEDGYSGVEVRVTPMRTEIIIRATRTQNVLG 60
Query: 61  EKGRRIRELTSVVQKRFKFPENSVELYAEKVNNRGLCAIAQAESLRYKLLGGLAVRRACY 120
           EKGRRIRELTSVVQKRF F EN VELYAEKV NRGLCAIAQAESLRYKLLGGLAVRRACY
Sbjct: 61  EKGRRIRELTSVVQKRFNFLENGVELYAEKVVNRGLCAIAQAESLRYKLLGGLAVRRACY 120
Query: 121 GVLRFIMESGAKGCEFNFLVSSKVIVSGKLRAQRAKSMKFKDGYMISSGQPVNEYIDSAV 180
           GVLRF+MESGAKGCE        VIVSGKLRAQRAKSMKFKDGYMISSGQPVNEYID+AV
Sbjct: 121 GVLRFVMESGAKGCE--------VIVSGKLRAQRAKSMKFKDGYMISSGQPVNEYIDAAV 172
Query: 181 RHVLLRQGVLGIKVKIMLEWDQKGKQGPTTPLPDLVTIHPLKEEVYVAP 229
           RHVLLRQGVLGIKVKIML+WD KGK GPTTPLPDLVTIHP KEE  + P
Sbjct: 173 RHVLLRQGVLGIKVKIMLDWDPKGKLGPTTPLPDLVTIHPPKEENELRP 221
>pdb|2ZKQ|CC Chain c, 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 = 243 Back     alignment and structure
>pdb|3IZB|B Chain B, Localization Of The Small Subunit Ribosomal Proteins Into A 6.1 A Cryo-Em Map Of Saccharomyces Cerevisiae Translating 80s Ribosome Length = 240 Back     alignment and structure
>pdb|1S1H|C Chain C, 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 = 192 Back     alignment and structure
>pdb|3JYV|C Chain C, 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 = 188 Back     alignment and structure
>pdb|3ZEY|X Chain X, High-resolution Cryo-electron Microscopy Structure Of The Trypanosoma Brucei Ribosome Length = 214 Back     alignment and structure
>pdb|2XZM|C Chain C, 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 = 243 Back     alignment and structure
>pdb|1WH9|A Chain A, Solution Structure Of The Kh Domain Of Human Ribosomal Protein S3 Length = 92 Back     alignment and structure
>pdb|3J20|C Chain C, Promiscuous Behavior Of Proteins In Archaeal Ribosomes Revealed By Cryo-em: Implications For Evolution Of Eukaryotic Ribosomes (30s Ribosomal Subunit) Length = 210 Back     alignment and structure
>pdb|1FJG|C Chain C, Structure Of The Thermus Thermophilus 30s Ribosomal Subunit In Complex With The Antibiotics Streptomycin, Spectinomycin, And Paromomycin Length = 239 Back     alignment and structure
>pdb|1I94|C Chain C, Crystal Structures Of The Small Ribosomal Subunit With Tetracycline, Edeine And If3 Length = 238 Back     alignment and structure
>pdb|1PNS|C Chain C, Crystal Structure Of A Streptomycin Dependent Ribosome From E. Coli, 30s Subunit Of 70s Ribosome. This File, 1pns, Contains The 30s Subunit, Two Trnas, And One Mrna Molecule. The 50s Ribosomal Subunit Is In File 1pnu. Length = 206 Back     alignment and structure
>pdb|3FIC|C Chain C, T. Thermophilus 70s Ribosome In Complex With Mrna, Trnas And Ef- Tu.Gdp.Kirromycin Ternary Complex, Fitted To A 6.4 A Cryo-Em Map. This File Contains The 30s Subunit And The Ligands Length = 207 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 ?
Query240
2zkq_c243 40S ribosomal protein S3E; protein-RNA complex, 40 1e-102
3iz6_B227 40S ribosomal protein S3 (S3P); eukaryotic ribosom 1e-102
2xzm_C243 KH domain containing protein; ribosome, translatio 1e-102
3u5c_D240 RP13, YS3, 40S ribosomal protein S3; translation, 1e-100
1wh9_A92 40S ribosomal protein S3; KH domain, structural ge 5e-40
3bbn_C218 Ribosomal protein S3; small ribosomal subunit, spi 7e-06
3r8n_C206 30S ribosomal protein S3; protein biosynthesis, RN 1e-05
3i1m_C233 30S ribosomal protein S3; ribosome structure, prot 2e-05
2vqe_C239 30S ribosomal protein S3; tRNA-binding, rRNA-bindi 2e-05
>2zkq_c 40S ribosomal protein S3E; protein-RNA complex, 40S ribosomal subunit, ribosomal protein/RNA complex; 8.70A {Canis familiaris} Length = 243 Back     alignment and structure
 Score =  296 bits (760), Expect = e-102
 Identities = 185/241 (76%), Positives = 195/241 (80%), Gaps = 9/241 (3%)

Query: 1   MATQISKKRKFVADGVFFAELNEVLTRELAEDGYSGVEVRVTPVRTEIIIRATRTQNVLG 60
           MA QISKKRKFVADG+F AELNE LTRELAEDGYSGVEVRVTP RTEIII ATRTQNVLG
Sbjct: 1   MAVQISKKRKFVADGIFKAELNEFLTRELAEDGYSGVEVRVTPTRTEIIILATRTQNVLG 60

Query: 61  EKGRRIRELTSVVQKRFKFPENSVELYAEKVNNRGLCAIAQAESLRYKLLGGLAVRRACY 120
           EKGRRIRELT+VVQKRF FPE SVELYAEKV  RGLCAIAQAESLRYKLLGGLAVRRACY
Sbjct: 61  EKGRRIRELTAVVQKRFGFPEGSVELYAEKVATRGLCAIAQAESLRYKLLGGLAVRRACY 120

Query: 121 GVLRFIMESGAKGCEFNFLVSSKVIVSGKLRAQRAKSMKFKDGYMISSGQPVNEYIDSAV 180
           GVLRFIMESGAKGC        +V+VSGKLR QRAKSMKF DG MI SG PVN Y+D+AV
Sbjct: 121 GVLRFIMESGAKGC--------EVVVSGKLRGQRAKSMKFVDGLMIHSGDPVNYYVDTAV 172

Query: 181 RHVLLRQGVLGIKVKIMLEWDQKGKQGPTTPLPDLVTIHPLKEEV-YVAPATATSIELPV 239
           RHVLLRQGVLGIKVKIML WD  GK GP  PLPD V+I   K+E+    P +      P 
Sbjct: 173 RHVLLRQGVLGIKVKIMLPWDPTGKIGPKKPLPDHVSIVEPKDEILPTTPISEQKGGKPE 232

Query: 240 A 240
            
Sbjct: 233 P 233
>3iz6_B 40S ribosomal protein S3 (S3P); eukaryotic ribosome,homology modeling,de novo modeling,ribos proteins,novel ribosomal proteins, ribosome; 5.50A {Triticum aestivum} PDB: 1s1h_C 3jyv_C* Length = 227 Back     alignment and structure
>2xzm_C KH domain containing protein; ribosome, translation; 3.93A {Tetrahymena thermophila} PDB: 2xzn_C Length = 243 Back     alignment and structure
>3u5c_D RP13, YS3, 40S ribosomal protein S3; translation, ribosome, ribosomal, ribosomal R ribosomal protein, eukaryotic ribosome, RNA-protein C; 3.00A {Saccharomyces cerevisiae} PDB: 3izb_B 3o30_C 3o2z_C 3u5g_D 1s1h_C 3jyv_C* Length = 240 Back     alignment and structure
>1wh9_A 40S ribosomal protein S3; KH domain, structural genomics, riken structural genomics/proteomics initiative, RSGI, ribosome; NMR {Homo sapiens} SCOP: d.52.3.1 Length = 92 Back     alignment and structure
>3bbn_C Ribosomal protein S3; small ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Spinacea oleracea} Length = 218 Back     alignment and structure
>3i1m_C 30S ribosomal protein S3; ribosome structure, protein-RNA complex, ribonucleoprotein, ribosomal protein, RNA-binding, rRNA-binding, antibiotic resistance; 3.19A {Escherichia coli k-12} PDB: 1vs7_C* 3e1a_O 3e1c_O 1vs5_C 3i1o_C 3i1q_C 3i1s_C 3i1z_C 3i21_C 3izv_G* 3izw_G* 3kc4_C 3or9_C 3ora_C 3sfs_C* 3uoq_C* 2qal_C* 1p6g_C 1p87_C 2aw7_C ... Length = 233 Back     alignment and structure
>2vqe_C 30S ribosomal protein S3; tRNA-binding, rRNA-binding, metal-binding, zinc-finger, translation; HET: TM2 PAR; 2.5A {Thermus thermophilus} PDB: 1gix_F* 1hnw_C* 1hnx_C* 1hnz_C* 1hr0_C 1ibk_C* 1ibl_C* 1ibm_C 1j5e_C 1jgo_F* 1jgp_F* 1jgq_F* 1ml5_F* 1n32_C* 1n33_C* 1n34_C 1n36_C 1xmo_C* 1xmq_C* 1xnq_C* ... Length = 239 Back     alignment and structure

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query240
3iz6_B227 40S ribosomal protein S3 (S3P); eukaryotic ribosom 100.0
3u5c_D240 RP13, YS3, 40S ribosomal protein S3; translation, 100.0
2zkq_c243 40S ribosomal protein S3E; protein-RNA complex, 40 100.0
2xzm_C243 KH domain containing protein; ribosome, translatio 100.0
3j20_C210 30S ribosomal protein S3P; archaea, archaeal, KINK 100.0
3i1m_C233 30S ribosomal protein S3; ribosome structure, prot 100.0
2vqe_C239 30S ribosomal protein S3; tRNA-binding, rRNA-bindi 100.0
3r8n_C206 30S ribosomal protein S3; protein biosynthesis, RN 100.0
3bbn_C218 Ribosomal protein S3; small ribosomal subunit, spi 100.0
1wh9_A92 40S ribosomal protein S3; KH domain, structural ge 99.88
2pt7_G152 HP1451, hypothetical protein; ATPase, protein-prot 95.47
3gku_A225 Probable RNA-binding protein; APC21302, clostridiu 91.63
>3iz6_B 40S ribosomal protein S3 (S3P); 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=2.1e-77  Score=528.53  Aligned_cols=224  Identities=91%  Similarity=1.320  Sum_probs=204.5

Q ss_pred             CccccCceeeEeecCcchHHHHHHHHhhhccCCeeeeEEEEcCCeEEEEEEecccceeecCCcccHHHHHHHHHHHhCCC
Q 026316            1 MATQISKKRKFVADGVFFAELNEVLTRELAEDGYSGVEVRVTPVRTEIIIRATRTQNVLGEKGRRIRELTSVVQKRFKFP   80 (240)
Q Consensus         1 ~~~~~~~~~kwia~~~~y~~Ire~l~k~~~~agis~IeI~rt~~~i~I~I~~~rP~~iIG~~g~~i~~l~~~L~k~~~~~   80 (240)
                      |+.+|+.+++|++|+.+|++||+||.++|.++|||+|+|+|++++++|+||+++|++|||++|+++++|++.|+++|+++
T Consensus         1 ~~~~~~~~rkfv~dg~~~a~Ire~l~k~l~~agis~IeI~R~~~~i~I~I~tarPg~vIGkkG~~I~~L~~~l~k~~~~~   80 (227)
T 3iz6_B            1 MATQISKKKKFVSDGVFYAELNEMLTRELAEDGYSGVEVRVTPMRTEIIIRATRTQNVLGEKGRRIRELTSVVQKRFNFL   80 (227)
T ss_dssp             -----------CHHHHHHHHHHHHHHHHTSSCSSCCEECCEETTEECCEEECTTHHHHHCSSSSHHHHHHHHHHHHHCCC
T ss_pred             CccchhhhhhhhhcCeehHHHHHHHHHHHHhCCcceEEEEEcCCcEEEEEEeCCCceEEcCCchhHHHHHHHHHHHhCCC
Confidence            88999999999999999999999999999999999999999999999999999999999999999999999999999988


Q ss_pred             CCeeEEEEEEecCCCcChHHHHHHHHHHHhcCchhHHHHHHHHHHHHHhCCcceeeeeeeceeEEEccccccceeeeEEe
Q 026316           81 ENSVELYAEKVNNRGLCAIAQAESLRYKLLGGLAVRRACYGVLRFIMESGAKGCEFNFLVSSKVIVSGKLRAQRAKSMKF  160 (240)
Q Consensus        81 ~~~v~I~v~~v~~p~~~a~~iA~~ia~~Le~~~~fRra~~~~l~~~m~~gakGik~~~~~~~~I~iSGRL~G~rArte~~  160 (240)
                      +++++|++.+|++|++||+++|++||+|||+|++|||||+++++++|++||+|||        |+|||||+|+|||+|||
T Consensus        81 ~~~v~I~i~eV~~p~l~A~lvAe~Ia~qLe~rv~fRrA~k~ai~~~m~aGakGik--------I~iSGRL~GaiARtE~~  152 (227)
T 3iz6_B           81 ENGVELYAEKVVNRGLCAIAQAESLRYKLLGGLAVRRACYGVLRFVMESGAKGCE--------VIVSGKLRAQRAKSMKF  152 (227)
T ss_dssp             SCCCCCEEECCSSSTTSCSHHHHHHHTTTTTCCCHHHHHHHHHHTTTTTCCSEEE--------CCBCSCGGGSSCCCBCC
T ss_pred             CCeEEEEEEEecCCCcCHHHHHHHHHHHHHcCccHHHHHHHHHHHHHHcCCceEE--------EEEecccCCceeeEeee
Confidence            8999999999999999999999999999999999999999999999999999999        99999999999999999


Q ss_pred             eeceeeecCcccccceeEEEEEEecCCeeeeEEEEEEcCCCcCCCCCCCCCCCCeEEEccCCccc-ccCCccc
Q 026316          161 KDGYMISSGQPVNEYIDSAVRHVLLRQGVLGIKVKIMLEWDQKGKQGPTTPLPDLVTIHPLKEEV-YVAPATA  232 (240)
Q Consensus       161 ~~G~vl~tG~~~~~~Idya~~~a~t~~GvlGIKVwI~~~~~p~g~~~p~~~lpd~v~i~~~~~~~-~~~~~~~  232 (240)
                      ++|+|+|||||++++||||+++|+|+||+||||||||++|||+|++||.++|||+|+|++|+++. +.+|.++
T Consensus       153 ~eG~vlhTlqtlra~IDya~~~a~T~yGviGVKVWI~~~~dp~g~~g~~~~lpD~v~i~~pk~~~~~~~~~~~  225 (227)
T 3iz6_B          153 KDGYMISSGQPVNEYIDAAVRHVLLRQGVLGIKVKIMLDWDPKGKLGPTTPLPDLVTIHPPKEENELRPPALV  225 (227)
T ss_dssp             EEECCCSSSSCTTSCEEECCCCCBCSSSBCCCCCEEECSCTTSCCCCCSSCCCCCCSCCCCSSCCCC------
T ss_pred             eCCeecccCChhhheeeEEEEEEEcCCeeEEEEEEEECCCCcccccCCCCCCCCeEEEeCCCcccCCCCCccc
Confidence            99999999999999999999999999999999999999999999999999999999999999985 4555544
>3u5c_D RP13, YS3, 40S ribosomal protein S3; translation, ribosome, ribosomal, ribosomal R ribosomal protein, eukaryotic ribosome, RNA-protein C; 3.00A {Saccharomyces cerevisiae} PDB: 3izb_B 3o30_C 3o2z_C 3u5g_D 1s1h_C 3jyv_C* Back     alignment and structure
>2zkq_c 40S ribosomal protein S3E; protein-RNA complex, 40S ribosomal subunit, ribosomal protein/RNA complex; 8.70A {Canis familiaris} Back     alignment and structure
>2xzm_C KH domain containing protein; ribosome, translation; 3.93A {Tetrahymena thermophila} PDB: 2xzn_C Back     alignment and structure
>3j20_C 30S ribosomal protein S3P; archaea, archaeal, KINK-turn, protein synthe ribosome; 6.60A {Pyrococcus furiosus} Back     alignment and structure
>3i1m_C 30S ribosomal protein S3; ribosome structure, protein-RNA complex, ribonucleoprotein, ribosomal protein, RNA-binding, rRNA-binding, antibiotic resistance; 3.19A {Escherichia coli k-12} PDB: 1vs7_C* 3e1a_O 3e1c_O 1vs5_C 3i1o_C 3i1q_C 3i1s_C 3i1z_C 3i21_C 3izv_G* 3izw_G* 3kc4_C 3or9_C 3ora_C 3sfs_C* 3uoq_C* 4gaq_C* 4gas_C* 2qal_C* 1p6g_C ... Back     alignment and structure
>2vqe_C 30S ribosomal protein S3; tRNA-binding, rRNA-binding, metal-binding, zinc-finger, translation; HET: TM2 PAR; 2.5A {Thermus thermophilus} PDB: 1gix_F* 1hnw_C* 1hnx_C* 1hnz_C* 1hr0_C 1ibk_C* 1ibl_C* 1ibm_C 1j5e_C 1jgo_F* 1jgp_F* 1jgq_F* 1ml5_F* 1n32_C* 1n33_C* 1n34_C 1n36_C 1xmo_C* 1xmq_C* 1xnq_C* ... Back     alignment and structure
>3bbn_C Ribosomal protein S3; small ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Spinacea oleracea} Back     alignment and structure
>1wh9_A 40S ribosomal protein S3; KH domain, structural genomics, riken structural genomics/proteomics initiative, RSGI, ribosome; NMR {Homo sapiens} SCOP: d.52.3.1 Back     alignment and structure
>2pt7_G HP1451, hypothetical protein; ATPase, protein-protein complex, type IV secretion, hydrolas binding complex; 2.40A {Helicobacter pylori} Back     alignment and structure
>3gku_A Probable RNA-binding protein; APC21302, clostridium symbiosum ATCC 14 structural genomics, PSI-2, protein structure initiative; 2.95A {Clostridium symbiosum atcc 14940} 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 240
d1wh9a_92 d.52.3.1 (A:) Ribosomal protein S3 N-terminal doma 3e-35
d2uubc2101 d.53.1.1 (C:107-207) Ribosomal protein S3 C-termin 2e-15
d2qalc2101 d.53.1.1 (C:106-206) Ribosomal protein S3 C-termin 1e-09
d2uubc1105 d.52.3.1 (C:2-106) Ribosomal protein S3 N-terminal 2e-04
d2qalc1105 d.52.3.1 (C:1-105) Ribosomal protein S3 N-terminal 0.001
>d1wh9a_ d.52.3.1 (A:) Ribosomal protein S3 N-terminal domain {Mouse (Mus musculus) [TaxId: 10090]} Length = 92 Back     information, alignment and structure

class: Alpha and beta proteins (a+b)
fold: Alpha-lytic protease prodomain-like
superfamily: Prokaryotic type KH domain (KH-domain type II)
family: Prokaryotic type KH domain (KH-domain type II)
domain: Ribosomal protein S3 N-terminal domain
species: Mouse (Mus musculus) [TaxId: 10090]

 Score =  118 bits (298), Expect = 3e-35
 Identities = 70/87 (80%), Positives = 72/87 (82%)

Query: 14  DGVFFAELNEVLTRELAEDGYSGVEVRVTPVRTEIIIRATRTQNVLGEKGRRIRELTSVV 73
              F AELNE LTRELAEDGYSGVEVRVTP RTEIII ATRTQNVLGEKGRRIRELT+VV
Sbjct: 5   SSGFKAELNEFLTRELAEDGYSGVEVRVTPTRTEIIILATRTQNVLGEKGRRIRELTAVV 64

Query: 74  QKRFKFPENSVELYAEKVNNRGLCAIA 100
           QKRF FPE SVELYAEKV  RG    +
Sbjct: 65  QKRFGFPEGSVELYAEKVATRGSGPSS 91
>d2uubc2 d.53.1.1 (C:107-207) Ribosomal protein S3 C-terminal domain {Thermus thermophilus [TaxId: 274]} Length = 101 Back     information, alignment and structure
>d2qalc2 d.53.1.1 (C:106-206) Ribosomal protein S3 C-terminal domain {Escherichia coli [TaxId: 562]} Length = 101 Back     information, alignment and structure
>d2uubc1 d.52.3.1 (C:2-106) Ribosomal protein S3 N-terminal domain {Thermus thermophilus [TaxId: 274]} Length = 105 Back     information, alignment and structure
>d2qalc1 d.52.3.1 (C:1-105) Ribosomal protein S3 N-terminal domain {Escherichia coli [TaxId: 562]} Length = 105 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 ?
Query240
d2qalc2101 Ribosomal protein S3 C-terminal domain {Escherichi 100.0
d2uubc2101 Ribosomal protein S3 C-terminal domain {Thermus th 100.0
d1wh9a_92 Ribosomal protein S3 N-terminal domain {Mouse (Mus 99.85
d2uubc1105 Ribosomal protein S3 N-terminal domain {Thermus th 99.77
d2qalc1105 Ribosomal protein S3 N-terminal domain {Escherichi 99.75
d1egaa2113 GTPase Era C-terminal domain {Escherichia coli [Ta 87.21
d1wf3a2118 GTPase Era C-terminal domain {Thermus thermophilus 85.3
d1tuaa184 Hypothetical protein APE0754 {Aeropyrum pernix [Ta 80.3
>d2qalc2 d.53.1.1 (C:106-206) Ribosomal protein S3 C-terminal domain {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
class: Alpha and beta proteins (a+b)
fold: Ribosomal protein S3 C-terminal domain
superfamily: Ribosomal protein S3 C-terminal domain
family: Ribosomal protein S3 C-terminal domain
domain: Ribosomal protein S3 C-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=100.00  E-value=5.9e-38  Score=244.88  Aligned_cols=97  Identities=29%  Similarity=0.360  Sum_probs=95.5

Q ss_pred             cCCCcChHHHHHHHHHHHhcCchhHHHHHHHHHHHHHhCCcceeeeeeeceeEEEccccccc-eeeeEEeeecee-eecC
Q 026316           92 NNRGLCAIAQAESLRYKLLGGLAVRRACYGVLRFIMESGAKGCEFNFLVSSKVIVSGKLRAQ-RAKSMKFKDGYM-ISSG  169 (240)
Q Consensus        92 ~~p~~~a~~iA~~ia~~Le~~~~fRra~~~~l~~~m~~gakGik~~~~~~~~I~iSGRL~G~-rArte~~~~G~v-l~tG  169 (240)
                      ++|++||+++|++||++||++.+|||+++++++++|++||+||+        |+|||||+|+ |||+|+|++|++ ||| 
T Consensus         1 k~P~l~A~~vA~~IA~~LErr~~fRr~~~~~i~~~m~~ga~Gik--------I~isGRl~gae~Ar~e~~~~G~ipl~t-   71 (101)
T d2qalc2           1 RKPELDAKLVADSITSQLERRVMFRRAMKRAVQNAMRLGAKGIK--------VEVSGRLGGAEIARTEWYREGRVPLHT-   71 (101)
T ss_dssp             SCGGGCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHSSCSEEE--------EEECSCGGGCSSCCCCCCEEECCCTTC-
T ss_pred             CCCCcCHHHHHHHHHHHHHcchHHHHHHHHHHHHHhhcchheEE--------EEEeccccchhhheeEEEEEecccccc-
Confidence            58999999999999999999999999999999999999999999        9999999999 999999999999 999 


Q ss_pred             cccccceeEEEEEEecCCeeeeEEEEEEcC
Q 026316          170 QPVNEYIDSAVRHVLLRQGVLGIKVKIMLE  199 (240)
Q Consensus       170 ~~~~~~Idya~~~a~t~~GvlGIKVwI~~~  199 (240)
                        ++++|||++++|+|+||++|||||||+|
T Consensus        72 --~~~~Idy~~~~a~t~~Gv~GVKVwI~~~   99 (101)
T d2qalc2          72 --LRADIDYNTSEAHTTYGVIGVKVWIFKG   99 (101)
T ss_dssp             --GGGCEEEEECCCCBTTBCCCEEEEEECC
T ss_pred             --cceeEEEEEEEEEcCceeEEEEEEEECC
Confidence              9999999999999999999999999997
>d2uubc2 d.53.1.1 (C:107-207) Ribosomal protein S3 C-terminal domain {Thermus thermophilus [TaxId: 274]} Back     information, alignment and structure
>d1wh9a_ d.52.3.1 (A:) Ribosomal protein S3 N-terminal domain {Mouse (Mus musculus) [TaxId: 10090]} Back     information, alignment and structure
>d2uubc1 d.52.3.1 (C:2-106) Ribosomal protein S3 N-terminal domain {Thermus thermophilus [TaxId: 274]} Back     information, alignment and structure
>d2qalc1 d.52.3.1 (C:1-105) Ribosomal protein S3 N-terminal domain {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d1egaa2 d.52.3.1 (A:183-295) GTPase Era C-terminal domain {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d1wf3a2 d.52.3.1 (A:181-298) GTPase Era C-terminal domain {Thermus thermophilus [TaxId: 274]} Back     information, alignment and structure
>d1tuaa1 d.51.1.1 (A:1-84) Hypothetical protein APE0754 {Aeropyrum pernix [TaxId: 56636]} Back     information, alignment and structure