Citrus Sinensis ID: 026588

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------
MATQISKKRKFVADGVFFAELNEVLTRELAEDGYSGVEVRVTPMRTEIIIRATRTQNVLGEKGRRIRELTSVVQKRFKFPENSVELYAEKVNNRGLCAIAQAESLRYKLLGGLAVRRACYGVLRFIMESGAKGCEVIVSGKLRAQRAKSMKFKDGYMVSSGQPVNEYIDSAVRHVLLRQGVLGIKVKIMLSWDPNGKQGPTTPLPDLVTIHSPKDEEEYVKPTLVATDIEVPIQVA
cccccccHHHHHHccHHHHHHHHHHHHHHHHccEEEEEEEEcccEEEEEEEEccccEEEccccccHHHHHHHHHHHcccccccEEEEEEEEccccccHHHHHHHHHHHHHccHHHHHHHHHHHHHHHHccccEEEEEEEcccccHHHEEEEEccEEEEcccccHHHHHHEEEEEEEEccEEEEEEEEEEcccccccccccccccccEEEEcccccccccccccccccccccccccc
ccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccEEEEEEccccEEEEEEEccccEEEcccccHHHHHHHHHHHHHccccccEEEEEEEcccccccHHHHHHHHHHHHHccHHHHHHHHHHHHHHHHccccEEEEEEEcccccHHHHHHHHccccEccccccHHHHHHHHHHHHHHcccEEEEEEEEEcccccccccccccccccEEEEEccccccccccccccccccccccccc
MATQISKKRKFVADGVFFAELNEVLTRELaedgysgvevrvtpMRTEIIIRATRTqnvlgekgrRIRELTSVVQKRFKFPENSVELYAEKVNNRGLCAIAQAESLRYKLLGGLAVRRACYGVLRFIMESGAKGCEVIVSGKLRAQRAKsmkfkdgymvssgqpvnEYIDSAVRHVLLRQGVLGIKVKIMlswdpngkqgpttplpdlvtihspkdeeeyvkptlvatdiEVPIQVA
matqiskkrkfvadgvFFAELNEVLtrelaedgysgvevrvtpmrteiiiratrtqnvlgekgrrireltsvvqkrfkfpensVELYAEKVNNRGLCAIAQAESLRYKLLGGLAVRRACYGVLRFIMESGAKGCEVIVSGKLRAQRAKSMKFKDGYMVSSGQPVNEYIDSAVRHVLLRQGVLGIKVKIMLSwdpngkqgpttplPDLVTIHSPkdeeeyvkptlvatdievpiqva
MATQISKKRKFVADGVFFAELNEVLTRELAEDGYSGVEVRVTPMRTEIIIRATRTQNVLGEKGRRIRELTSVVQKRFKFPENSVELYAEKVNNRGLCAIAQAESLRYKLLGGLAVRRACYGVLRFIMESGAKGCEVIVSGKLRAQRAKSMKFKDGYMVSSGQPVNEYIDSAVRHVLLRQGVLGIKVKIMLSWDPNGKQGPTTPLPDLVTIHSPKDEEEYVKPTLVATDIEVPIQVA
*********KFVADGVFFAELNEVLTRELAEDGYSGVEVRVTPMRTEIIIRATRTQNVLGEKGRRIRELTSVVQKRFKFPENSVELYAEKVNNRGLCAIAQAESLRYKLLGGLAVRRACYGVLRFIMESGAKGCEVIVSGKLRAQRAKSMKFKDGYMVSSGQPVNEYIDSAVRHVLLRQGVLGIKVKIMLSWDP****************************TLVATD********
***Q*SKKRKFVADGVFFAELNEVLTRELAEDGYSGVEVRVTPMRTEIIIRATRTQNVLGEKGRRIRELTSVVQKRFKFPENSVELYAEKVNNRGLCAIAQAESLRYKLLGGLAVRRACYGVLRFIMESGAKGCEVIVSGKLRAQRAKSMKFKDGYMVSSGQPVNEYIDSAVRHVLLRQGVLGIKVKIMLSW********************************************
MATQISKKRKFVADGVFFAELNEVLTRELAEDGYSGVEVRVTPMRTEIIIRATRTQNVLGEKGRRIRELTSVVQKRFKFPENSVELYAEKVNNRGLCAIAQAESLRYKLLGGLAVRRACYGVLRFIMESGAKGCEVIVSGKLRAQRAKSMKFKDGYMVSSGQPVNEYIDSAVRHVLLRQGVLGIKVKIMLSWDPNGKQGPTTPLPDLVTIHSPKDEEEYVKPTLVATDIEVPIQVA
*ATQISKKRKFVADGVFFAELNEVLTRELAEDGYSGVEVRVTPMRTEIIIRATRTQNVLGEKGRRIRELTSVVQKRFKFPENSVELYAEKVNNRGLCAIAQAESLRYKLLGGLAVRRACYGVLRFIMESGAKGCEVIVSGKLRAQRAKSMKFKDGYMVSSGQPVNEYIDSAVRHVLLRQGVLGIKVKIMLSWDPNGKQGPTTPLPDLVTIHSPK**********************
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
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MATQISKKRKFVADGVFFAELNEVLTRELAEDGYSGVEVRVTPMRTEIIIRATRTQNVLGEKGRRIRELTSVVQKRFKFPENSVELYAEKVNNRGLCAIAQAESLRYKLLGGLAVRRACYGVLRFIMESGAKGCEVIVSGKLRAQRAKSMKFKDGYMVSSGQPVNEYIDSAVRHVLLRQGVLGIKVKIMLSWDPNGKQGPTTPLPDLVTIHSPKDEEEYVKPTLVATDIEVPIQVA
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 ?
Query236 2.2.26 [Sep-21-2011]
Q9FJA6248 40S ribosomal protein S3- yes no 0.961 0.915 0.885 1e-117
Q9SIP7250 40S ribosomal protein S3- no no 0.970 0.916 0.882 1e-116
Q9M339249 40S ribosomal protein S3- no no 0.919 0.871 0.917 1e-114
P02350246 40S ribosomal protein S3- N/A no 0.915 0.878 0.861 1e-105
P79891253 40S ribosomal protein S3 N/A no 0.915 0.853 0.856 1e-104
P62909243 40S ribosomal protein S3 yes no 0.915 0.888 0.861 1e-104
P62908243 40S ribosomal protein S3 yes no 0.915 0.888 0.861 1e-104
E2RH47243 40S ribosomal protein S3 yes no 0.915 0.888 0.861 1e-104
Q0Z8U2243 40S ribosomal protein S3 yes no 0.915 0.888 0.861 1e-104
P23396243 40S ribosomal protein S3 yes no 0.915 0.888 0.861 1e-104
>sp|Q9FJA6|RS33_ARATH 40S ribosomal protein S3-3 OS=Arabidopsis thaliana GN=RPS3C PE=1 SV=1 Back     alignment and function desciption
 Score =  421 bits (1082), Expect = e-117,   Method: Compositional matrix adjust.
 Identities = 201/227 (88%), Positives = 214/227 (94%)

Query: 1   MATQISKKRKFVADGVFFAELNEVLTRELAEDGYSGVEVRVTPMRTEIIIRATRTQNVLG 60
           MATQISKKRKFVADGVF+AELNEVLTRELAEDGYSGVEVRVTPMRTEIIIRATRTQNVLG
Sbjct: 1   MATQISKKRKFVADGVFYAELNEVLTRELAEDGYSGVEVRVTPMRTEIIIRATRTQNVLG 60

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

Query: 121 GVLRFIMESGAKGCEVIVSGKLRAQRAKSMKFKDGYMVSSGQPVNEYIDSAVRHVLLRQG 180
           GVLRF+MESGAKGCEVIVSGKLRA RAKSMKFKDGYMVSSGQP  EYID+AVRHVLLRQG
Sbjct: 121 GVLRFVMESGAKGCEVIVSGKLRAARAKSMKFKDGYMVSSGQPTKEYIDAAVRHVLLRQG 180

Query: 181 VLGIKVKIMLSWDPNGKQGPTTPLPDLVTIHSPKDEEEYVKPTLVAT 227
           VLG+KVKIML WDP GKQGP TPLPD+V IH+PK+++ Y+ P  V T
Sbjct: 181 VLGLKVKIMLDWDPKGKQGPMTPLPDVVIIHTPKEDDVYIAPAQVVT 227

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|P79891|RS3_AMBME 40S ribosomal protein S3 OS=Ambystoma mexicanum GN=RPS3 PE=2 SV=1 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

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 ?
Query236
225444782234 PREDICTED: 40S ribosomal protein S3-3 [V 0.983 0.991 0.939 1e-125
225442156234 PREDICTED: 40S ribosomal protein S3-3 [V 0.978 0.987 0.930 1e-123
356534894236 PREDICTED: 40S ribosomal protein S3-3-li 0.987 0.987 0.923 1e-123
359476269235 PREDICTED: 40S ribosomal protein S3-3-li 0.978 0.982 0.935 1e-123
356559953235 PREDICTED: 40S ribosomal protein S3-3-li 0.987 0.991 0.923 1e-123
358348478239 40S ribosomal protein S3 [Medicago trunc 0.995 0.983 0.911 1e-123
356559951236 PREDICTED: 40S ribosomal protein S3-3-li 0.987 0.987 0.923 1e-123
351726176236 uncharacterized protein LOC100499737 [Gl 0.987 0.987 0.919 1e-123
356534900239 PREDICTED: 40S ribosomal protein S3-3-li 1.0 0.987 0.912 1e-123
224088766236 predicted protein [Populus trichocarpa] 1.0 1.0 0.906 1e-123
>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
 Score =  454 bits (1167), Expect = e-125,   Method: Compositional matrix adjust.
 Identities = 218/232 (93%), Positives = 226/232 (97%)

Query: 1   MATQISKKRKFVADGVFFAELNEVLTRELAEDGYSGVEVRVTPMRTEIIIRATRTQNVLG 60
           MATQ+SKKRKFVADGVFFAELNEVLTRELAEDGYSGVEVRVTPMRTEIIIRATRTQNVLG
Sbjct: 1   MATQMSKKRKFVADGVFFAELNEVLTRELAEDGYSGVEVRVTPMRTEIIIRATRTQNVLG 60

Query: 61  EKGRRIRELTSVVQKRFKFPENSVELYAEKVNNRGLCAIAQAESLRYKLLGGLAVRRACY 120
           EKGRRIRELTSVVQKRFKFPENSVELYAEKVNNRGLCA+AQAESLRYKLLGGLAVRRACY
Sbjct: 61  EKGRRIRELTSVVQKRFKFPENSVELYAEKVNNRGLCAVAQAESLRYKLLGGLAVRRACY 120

Query: 121 GVLRFIMESGAKGCEVIVSGKLRAQRAKSMKFKDGYMVSSGQPVNEYIDSAVRHVLLRQG 180
           GVLRFIMESGAKGCEVIVSGKLRAQRAKSMKFKDGYM+SSGQPV EYIDSAVRHVLLRQG
Sbjct: 121 GVLRFIMESGAKGCEVIVSGKLRAQRAKSMKFKDGYMISSGQPVKEYIDSAVRHVLLRQG 180

Query: 181 VLGIKVKIMLSWDPNGKQGPTTPLPDLVTIHSPKDEEEYVKPTLVATDIEVP 232
           VLGIKVKIML WDP GKQGP TPLPDLVTIH+PK+EEEY++P  +ATDIEVP
Sbjct: 181 VLGIKVKIMLDWDPKGKQGPKTPLPDLVTIHTPKEEEEYIRPEKLATDIEVP 232

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|225442156|ref|XP_002275541.1| PREDICTED: 40S ribosomal protein S3-3 [Vitis vinifera] gi|297743020|emb|CBI35887.3| unnamed protein product [Vitis vinifera] 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|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|356559953|ref|XP_003548260.1| PREDICTED: 40S ribosomal protein S3-3-like [Glycine max] Back     alignment and taxonomy information
>gi|358348478|ref|XP_003638273.1| 40S ribosomal protein S3 [Medicago truncatula] gi|355504208|gb|AES85411.1| 40S ribosomal protein S3 [Medicago truncatula] 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|351726176|ref|NP_001235326.1| uncharacterized protein LOC100499737 [Glycine max] gi|255626187|gb|ACU13438.1| unknown [Glycine max] Back     alignment and taxonomy information
>gi|356534900|ref|XP_003535989.1| 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

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 ?
Query236
TAIR|locus:2169518248 AT5G35530 [Arabidopsis thalian 0.961 0.915 0.885 2e-104
TAIR|locus:2065863250 AT2G31610 [Arabidopsis thalian 0.995 0.94 0.864 8.6e-104
TAIR|locus:2084490249 AT3G53870 [Arabidopsis thalian 0.957 0.907 0.893 3.7e-103
UNIPROTKB|E2RH47243 RPS3 "40S ribosomal protein S3 0.915 0.888 0.861 2.7e-93
MGI|MGI:1350917243 Rps3 "ribosomal protein S3" [M 0.915 0.888 0.861 2.7e-93
RGD|619888243 Rps3 "ribosomal protein S3" [R 0.915 0.888 0.861 2.7e-93
UNIPROTKB|Q3T169243 RPS3 "40S ribosomal protein S3 0.915 0.888 0.861 3.4e-93
UNIPROTKB|P23396243 RPS3 "40S ribosomal protein S3 0.915 0.888 0.861 3.4e-93
UNIPROTKB|Q0Z8U2243 RPS3 "40S ribosomal protein S3 0.915 0.888 0.861 3.4e-93
UNIPROTKB|F1N9X5243 RPS3 "Uncharacterized protein" 0.915 0.888 0.856 7e-93
TAIR|locus:2169518 AT5G35530 [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 1034 (369.0 bits), Expect = 2.0e-104, P = 2.0e-104
 Identities = 201/227 (88%), Positives = 214/227 (94%)

Query:     1 MATQISKKRKFVADGVFFAELNEVLTRELAEDGYSGVEVRVTPMRTEIIIRATRTQNVLG 60
             MATQISKKRKFVADGVF+AELNEVLTRELAEDGYSGVEVRVTPMRTEIIIRATRTQNVLG
Sbjct:     1 MATQISKKRKFVADGVFYAELNEVLTRELAEDGYSGVEVRVTPMRTEIIIRATRTQNVLG 60

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

Query:   121 GVLRFIMESGAKGCEVIVSGKLRAQRAKSMKFKDGYMVSSGQPVNEYIDSAVRHVLLRQG 180
             GVLRF+MESGAKGCEVIVSGKLRA RAKSMKFKDGYMVSSGQP  EYID+AVRHVLLRQG
Sbjct:   121 GVLRFVMESGAKGCEVIVSGKLRAARAKSMKFKDGYMVSSGQPTKEYIDAAVRHVLLRQG 180

Query:   181 VLGIKVKIMLSWDPNGKQGPTTPLPDLVTIHSPKDEEEYVKPTLVAT 227
             VLG+KVKIML WDP GKQGP TPLPD+V IH+PK+++ Y+ P  V T
Sbjct:   181 VLGLKVKIMLDWDPKGKQGPMTPLPDVVIIHTPKEDDVYIAPAQVVT 227
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|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
UNIPROTKB|F1N9X5 RPS3 "Uncharacterized protein" [Gallus gallus (taxid:9031)] 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 number0.84720.91520.8816N/Ano
Q5R465RS3_PONABNo assigned EC number0.85640.91520.8888yesno
P05750RS3_YEASTNo assigned EC number0.68440.93640.9208yesno
B6YSL9RS3_THEONNo assigned EC number0.37730.84740.9615yesno
C6A165RS3_THESMNo assigned EC number0.36490.84740.9661yesno
P48152RS3_CAEELNo assigned EC number0.69820.96610.9230yesno
P48153RS3_MANSENo assigned EC number0.78730.93640.9094N/Ano
O60128RS3_SCHPONo assigned EC number0.71480.97030.9196yesno
Q8U004RS3_PYRFUNo assigned EC number0.38020.85590.9619yesno
Q9V1U1RS3_PYRABNo assigned EC number0.35540.84740.9523yesno
E2RH47RS3_CANFANo assigned EC number0.86110.91520.8888yesno
Q0Z8U2RS3_PIGNo assigned EC number0.86110.91520.8888yesno
P02350RS31_XENLANo assigned EC number0.86110.91520.8780N/Ano
A6UWU3RS3_META3No assigned EC number0.32010.81350.9230yesno
Q8SQM3RS3_ENCCUNo assigned EC number0.41740.87280.9035yesno
P47835RS32_XENLANo assigned EC number0.85180.91520.8780N/Ano
P23396RS3_HUMANNo assigned EC number0.86110.91520.8888yesno
A4FWB6RS3_METM5No assigned EC number0.32680.82200.9194yesno
Q3T169RS3_BOVINNo assigned EC number0.86110.91520.8888yesno
P54034RS3_METJANo assigned EC number0.36450.81350.9230yesno
P62909RS3_RATNo assigned EC number0.86110.91520.8888yesno
P62908RS3_MOUSENo assigned EC number0.86110.91520.8888yesno
P79891RS3_AMBMENo assigned EC number0.85640.91520.8537N/Ano
Q9M339RS32_ARATHNo assigned EC number0.91700.91940.8714nono
A3CT03RS3_METMJNo assigned EC number0.32440.89400.9017yesno
Q9FJA6RS33_ARATHNo assigned EC number0.88540.96180.9153yesno
O59424RS3_PYRHONo assigned EC number0.35540.84740.9523yesno
A8AA20RS3_IGNH4No assigned EC number0.35980.86860.8506yesno
Q06559RS3_DROMENo assigned EC number0.74120.95330.9146yesno
P90526RS3_DICDINo assigned EC number0.65560.88550.9587yesno
Q9SIP7RS31_ARATHNo assigned EC number0.88200.97030.916nono

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 ?
Query236
PTZ00084220 PTZ00084, PTZ00084, 40S ribosomal protein S3; Prov 1e-144
TIGR01008195 TIGR01008, rpsC_E_A, ribosomal protein S3, eukaryo 4e-76
COG0092233 COG0092, RpsC, Ribosomal protein S3 [Translation, 2e-56
cd0241381 cd02413, 40S_S3_KH, K homology RNA-binding (KH) do 2e-51
PRK04191207 PRK04191, rps3p, 30S ribosomal protein S3P; Review 5e-51
pfam0018985 pfam00189, Ribosomal_S3_C, Ribosomal protein S3, C 7e-26
cd0241185 cd02411, archeal_30S_S3_KH, K homology RNA-binding 2e-15
pfam0765077 pfam07650, KH_2, KH domain 1e-14
cd0240968 cd02409, KH-II, KH-II (K homology RNA-binding doma 5e-09
TIGR01009211 TIGR01009, rpsC_bact, ribosomal protein S3, bacter 3e-07
CHL00048214 CHL00048, rps3, ribosomal protein S3 4e-07
>gnl|CDD|240260 PTZ00084, PTZ00084, 40S ribosomal protein S3; Provisional Back     alignment and domain information 
 Score =  401 bits (1032), Expect = e-144
 Identities = 169/218 (77%), Positives = 196/218 (89%)

Query: 3   TQISKKRKFVADGVFFAELNEVLTRELAEDGYSGVEVRVTPMRTEIIIRATRTQNVLGEK 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 LRFIMESGAKGCEVIVSGKLRAQRAKSMKFKDGYMVSSGQPVNEYIDSAVRHVLLRQGVL 182
           LR +MESGAKGCEVIVSGKLRAQRAKSMKF+DGYM+S+GQP  +++DSAVRHVL+RQGV+
Sbjct: 123 LRHVMESGAKGCEVIVSGKLRAQRAKSMKFRDGYMISTGQPKKDFVDSAVRHVLMRQGVI 182

Query: 183 GIKVKIMLSWDPNGKQGPTTPLPDLVTIHSPKDEEEYV 220
           G+KVKIML +DP+GK GP+ PLPD++T+  PK+E    
Sbjct: 183 GVKVKIMLPYDPSGKNGPSAPLPDVITVLEPKEETAEE 220

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|130082 TIGR01009, rpsC_bact, ribosomal protein S3, bacterial type Back     alignment and domain information
>gnl|CDD|214348 CHL00048, rps3, ribosomal protein S3 Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 236
PTZ00084220 40S ribosomal protein S3; Provisional 100.0
COG0092233 RpsC Ribosomal protein S3 [Translation, ribosomal 100.0
PRK04191207 rps3p 30S ribosomal protein S3P; Reviewed 100.0
TIGR01008195 rpsC_E_A ribosomal protein S3, eukaryotic/archaeal 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
KOG3181244 consensus 40S ribosomal protein S3 [Translation, r 100.0
PF0018985 Ribosomal_S3_C: Ribosomal protein S3, C-terminal d 99.94
cd02412109 30S_S3_KH K homology RNA-binding (KH) domain of th 99.83
cd0241381 40S_S3_KH K homology RNA-binding (KH) domain of th 99.81
cd0241185 archeal_30S_S3_KH K homology RNA-binding domain (K 99.73
PF0765078 KH_2: KH domain syndrome, contains KH motifs.; Int 99.44
cd0240968 KH-II KH-II (K homology RNA-binding domain, type I 98.74
smart0032269 KH K homology RNA-binding domain. 97.22
cd0241477 jag_KH jag_K homology RNA-binding domain. The KH d 96.91
PF1308373 KH_4: KH domain; PDB: 3GKU_B. 96.44
PRK0106478 hypothetical protein; Provisional 94.68
COG1847208 Jag Predicted RNA-binding protein [General functio 94.24
PRK08406140 transcription elongation factor NusA-like protein; 94.21
cd0213461 NusA_KH NusA_K homology RNA-binding domain (KH). N 93.84
cd02410145 archeal_CPSF_KH The archaeal cleavage and polyaden 93.39
PRK0282177 hypothetical protein; Provisional 91.87
PRK0046875 hypothetical protein; Provisional 90.45
COG183776 Predicted RNA-binding protein (contains KH domain) 87.23
TIGR01952141 nusA_arch NusA family KH domain protein, archaeal. 86.63
TIGR00436270 era GTP-binding protein Era. Era is an essential G 84.34
COG1159298 Era GTPase [General function prediction only] 84.31
PRK15494339 era GTPase Era; Provisional 82.93
PRK00089292 era GTPase Era; Reviewed 81.88
PF05316350 VAR1: Mitochondrial ribosomal protein (VAR1); Inte 81.45
>PTZ00084 40S ribosomal protein S3; Provisional Back     alignment and domain information 
Probab=100.00  E-value=1.2e-70  Score=482.46  Aligned_cols=213  Identities=79%  Similarity=1.264  Sum_probs=209.4

Q ss_pred             ccCceeeEEecCcChHHHHHHHHhhhccCCeeeeEEEEcCCeEEEEEEecccceeeccCcccHHHHHHHHHHHhCCCCCe
Q 026588            4 QISKKRKFVADGVFFAELNEVLTRELAEDGYSGVEVRVTPMRTEIIIRATRTQNVLGEKGRRIRELTSVVQKRFKFPENS   83 (236)
Q Consensus         4 ~~~~~s~w~a~~~~~~~Ire~i~k~~~~agis~IeI~rt~~~i~I~I~~~rPg~iIG~kg~~i~~l~~~L~k~~~~~~~~   83 (236)
                      |++.+++|++++..+++||+||.++|.++|||+|+|+|+++.++|+||+++||++||++|.++++|++.|++.|++++++
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            57899999999999999999999999999999999999999999999999999999999999999999999999988889


Q ss_pred             eEEEEEEecCCCcChHHHHHHHHHHHhCCchhHhHHHHHHHHHHhcCCceeEEEEccccccceeeeeeeecCeeeecCcc
Q 026588           84 VELYAEKVNNRGLCAIAQAESLRYKLLGGLAVRRACYGVLRFIMESGAKGCEVIVSGKLRAQRAKSMKFKDGYMVSSGQP  163 (236)
Q Consensus        84 i~I~v~~i~~p~~~a~~iA~~Ia~qLekr~~fRr~~k~~i~~~m~~gakGikI~iSGRL~G~rARte~~~~G~vl~tG~~  163 (236)
                      ++|++.++++|++||+++|++||+|||+|++|||+++++++++|++||+||||+|||||+|.|||+|||++|+|||||++
T Consensus        84 i~i~v~ev~~P~l~A~lvA~~IA~qLe~rv~FRRa~k~ai~~~m~aGakGikI~iSGRL~~EiARtE~~~eGrVl~Tg~~  163 (220)
T PTZ00084         84 VELFAERVENRGLCAMAQAESLRYKLLEGLPVRRAAYGVLRHVMESGAKGCEVIVSGKLRAQRAKSMKFRDGYMISTGQP  163 (220)
T ss_pred             EEEEEEEecCCCcCHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHcCCceEEEEEccchhhHHHHhhHhhccEEEecCch
Confidence            99999999999999999999999999999999999999999999999999999999999977999999999999999999


Q ss_pred             cccceeEEEEEEecCCeeeeEEEEEEcCCCCCCCCCCCCCCCCeEEEeCCCCc
Q 026588          164 VNEYIDSAVRHVLLRQGVLGIKVKIMLSWDPNGKQGPTTPLPDLVTIHSPKDE  216 (236)
Q Consensus       164 ~~~~Idya~~~a~Tk~GviGIKVWI~~~~~p~g~~g~~~~~pd~i~i~~~~~~  216 (236)
                      ++++||||+.+|+|+||++|||||||+++||+|+.||.++|||.|+|++|++.
T Consensus       164 ~~~~idy~~~~a~t~yGviGVKVwI~~~~~~~~~~~~~~~~pD~~~i~~~~~~  216 (220)
T PTZ00084        164 KKDFVDSAVRHVLMRQGVIGVKVKIMLPYDPSGKNGPSAPLPDVITVLEPKEE  216 (220)
T ss_pred             HHHheehheEEEcccCceeeEEEEEECCCCcccccCCCCCCCCcEEEeCCccc
Confidence            99999999999999999999999999999999999999999999999999987

>COG0092 RpsC Ribosomal protein S3 [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>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
>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
>KOG3181 consensus 40S ribosomal protein S3 [Translation, ribosomal structure and biogenesis] 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
>cd02412 30S_S3_KH K homology RNA-binding (KH) domain of the prokaryotic 30S small ribosomal subunit protein S3 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
>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
>COG1847 Jag Predicted RNA-binding protein [General function prediction only] Back     alignment and domain information
>PRK08406 transcription elongation factor NusA-like protein; Validated 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
>TIGR01952 nusA_arch NusA family KH domain protein, archaeal Back     alignment and domain information
>TIGR00436 era GTP-binding protein Era Back     alignment and domain information
>COG1159 Era GTPase [General function prediction only] Back     alignment and domain information
>PRK15494 era GTPase Era; Provisional Back     alignment and domain information
>PRK00089 era GTPase Era; Reviewed Back     alignment and domain information
>PF05316 VAR1: Mitochondrial ribosomal protein (VAR1); InterPro: IPR007980 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms 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 ?
Query236
3iz6_B227 Localization Of The Small Subunit Ribosomal Protein 1e-117
2zkq_c243 Structure Of A Mammalian Ribosomal 40s Subunit With 1e-105
3izb_B240 Localization Of The Small Subunit Ribosomal Protein 9e-87
1s1h_C192 Structure Of The Ribosomal 80s-Eef2-Sordarin Comple 8e-81
3jyv_C188 Structure Of The 40s Rrna And Proteins And PE TRNA 4e-80
3zey_X214 High-resolution Cryo-electron Microscopy Structure 9e-68
2xzm_C243 Crystal Structure Of The Eukaryotic 40s Ribosomal S 4e-66
1wh9_A92 Solution Structure Of The Kh Domain Of Human Riboso 3e-33
3j20_C210 Promiscuous Behavior Of Proteins In Archaeal Riboso 4e-27
1fjg_C239 Structure Of The Thermus Thermophilus 30s Ribosomal 2e-07
1i94_C238 Crystal Structures Of The Small Ribosomal Subunit W 2e-07
3fic_C207 T. Thermophilus 70s Ribosome In Complex With Mrna, 4e-07
1pns_C206 Crystal Structure Of A Streptomycin Dependent Ribos 4e-07
1p6g_C232 Real Space Refined Coordinates Of The 30s Subunit F 3e-04
2gy9_C206 Structure Of The 30s Subunit Of A Pre-Translocation 3e-04
1vs5_C233 Crystal Structure Of The Bacterial Ribosome From Es 3e-04
>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 =  418 bits (1075), Expect = e-117,   Method: Compositional matrix adjust.
 Identities = 204/225 (90%), Positives = 212/225 (94%)
Query: 1   MATQISKKRKFVADGVFFAELNEVLTRELAEDGYSGVEVRVTPMRTEIIIRATRTQNVLG 60
           MATQISKK+KFV+DGVF+AELNE+LTRELAEDGYSGVEVRVTPMRTEIIIRATRTQNVLG
Sbjct: 1   MATQISKKKKFVSDGVFYAELNEMLTRELAEDGYSGVEVRVTPMRTEIIIRATRTQNVLG 60
Query: 61  EKGRRIRELTSVVQKRFKFPENSVELYAEKVNNRGLCAIAQAESLRYKLLGGLAVRRACY 120
           EKGRRIRELTSVVQKRF F EN VELYAEKV NRGLCAIAQAESLRYKLLGGLAVRRACY
Sbjct: 61  EKGRRIRELTSVVQKRFNFLENGVELYAEKVVNRGLCAIAQAESLRYKLLGGLAVRRACY 120
Query: 121 GVLRFIMESGAKGCEVIVSGKLRAQRAKSMKFKDGYMVSSGQPVNEYIDSAVRHVLLRQG 180
           GVLRF+MESGAKGCEVIVSGKLRAQRAKSMKFKDGYM+SSGQPVNEYID+AVRHVLLRQG
Sbjct: 121 GVLRFVMESGAKGCEVIVSGKLRAQRAKSMKFKDGYMISSGQPVNEYIDAAVRHVLLRQG 180
Query: 181 VLGIKVKIMLSWDPNGKQGPTTPLPDLVTIHSPKDEEEYVKPTLV 225
           VLGIKVKIML WDP GK GPTTPLPDLVTIH PK+E E   P LV
Sbjct: 181 VLGIKVKIMLDWDPKGKLGPTTPLPDLVTIHPPKEENELRPPALV 225
>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|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
>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|1P6G|C Chain C, 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 = 232 Back     alignment and structure
>pdb|2GY9|C Chain C, 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 = 206 Back     alignment and structure
>pdb|1VS5|C Chain C, 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 = 233 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 ?
Query236
3iz6_B227 40S ribosomal protein S3 (S3P); eukaryotic ribosom 1e-108
2xzm_C243 KH domain containing protein; ribosome, translatio 1e-107
2zkq_c243 40S ribosomal protein S3E; protein-RNA complex, 40 1e-106
3u5c_D240 RP13, YS3, 40S ribosomal protein S3; translation, 1e-105
1wh9_A92 40S ribosomal protein S3; KH domain, structural ge 1e-40
3bbn_C218 Ribosomal protein S3; small ribosomal subunit, spi 2e-07
3r8n_C206 30S ribosomal protein S3; protein biosynthesis, RN 5e-07
3i1m_C233 30S ribosomal protein S3; ribosome structure, prot 1e-06
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 1e-06
2vqe_C239 30S ribosomal protein S3; tRNA-binding, rRNA-bindi 1e-06
>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
 Score =  309 bits (793), Expect = e-108
 Identities = 204/225 (90%), Positives = 212/225 (94%)

Query: 1   MATQISKKRKFVADGVFFAELNEVLTRELAEDGYSGVEVRVTPMRTEIIIRATRTQNVLG 60
           MATQISKK+KFV+DGVF+AELNE+LTRELAEDGYSGVEVRVTPMRTEIIIRATRTQNVLG
Sbjct: 1   MATQISKKKKFVSDGVFYAELNEMLTRELAEDGYSGVEVRVTPMRTEIIIRATRTQNVLG 60

Query: 61  EKGRRIRELTSVVQKRFKFPENSVELYAEKVNNRGLCAIAQAESLRYKLLGGLAVRRACY 120
           EKGRRIRELTSVVQKRF F EN VELYAEKV NRGLCAIAQAESLRYKLLGGLAVRRACY
Sbjct: 61  EKGRRIRELTSVVQKRFNFLENGVELYAEKVVNRGLCAIAQAESLRYKLLGGLAVRRACY 120

Query: 121 GVLRFIMESGAKGCEVIVSGKLRAQRAKSMKFKDGYMVSSGQPVNEYIDSAVRHVLLRQG 180
           GVLRF+MESGAKGCEVIVSGKLRAQRAKSMKFKDGYM+SSGQPVNEYID+AVRHVLLRQG
Sbjct: 121 GVLRFVMESGAKGCEVIVSGKLRAQRAKSMKFKDGYMISSGQPVNEYIDAAVRHVLLRQG 180

Query: 181 VLGIKVKIMLSWDPNGKQGPTTPLPDLVTIHSPKDEEEYVKPTLV 225
           VLGIKVKIML WDP GK GPTTPLPDLVTIH PK+E E   P LV
Sbjct: 181 VLGIKVKIMLDWDPKGKLGPTTPLPDLVTIHPPKEENELRPPALV 225
>2xzm_C KH domain containing protein; ribosome, translation; 3.93A {Tetrahymena thermophila} PDB: 2xzn_C Length = 243 Back     alignment and structure
>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
>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
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221 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 ?
Query236
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
2vqe_C239 30S ribosomal protein S3; tRNA-binding, rRNA-bindi 100.0
3i1m_C233 30S ribosomal protein S3; ribosome structure, prot 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 96.42
3gku_A225 Probable RNA-binding protein; APC21302, clostridiu 93.39
>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=2.4e-77  Score=525.21  Aligned_cols=225  Identities=91%  Similarity=1.343  Sum_probs=205.7

Q ss_pred             CccccCceeeEEecCcChHHHHHHHHhhhccCCeeeeEEEEcCCeEEEEEEecccceeeccCcccHHHHHHHHHHHhCCC
Q 026588            1 MATQISKKRKFVADGVFFAELNEVLTRELAEDGYSGVEVRVTPMRTEIIIRATRTQNVLGEKGRRIRELTSVVQKRFKFP   80 (236)
Q Consensus         1 ~~~~~~~~s~w~a~~~~~~~Ire~i~k~~~~agis~IeI~rt~~~i~I~I~~~rPg~iIG~kg~~i~~l~~~L~k~~~~~   80 (236)
                      |+.+|+.+++|++|+.++++||+||.++|.++|||+|+|+|++++++|+||+++||++||++|+++++|++.|++.|+++
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            88899999999999999999999999999999999999999999999999999999999999999999999999999988


Q ss_pred             CCeeEEEEEEecCCCcChHHHHHHHHHHHhCCchhHhHHHHHHHHHHhcCCceeEEEEccccccceeeeeeeecCeeeec
Q 026588           81 ENSVELYAEKVNNRGLCAIAQAESLRYKLLGGLAVRRACYGVLRFIMESGAKGCEVIVSGKLRAQRAKSMKFKDGYMVSS  160 (236)
Q Consensus        81 ~~~i~I~v~~i~~p~~~a~~iA~~Ia~qLekr~~fRr~~k~~i~~~m~~gakGikI~iSGRL~G~rARte~~~~G~vl~t  160 (236)
                      ++++.|++.+|++|++||+++|++||+|||+|++|||+|+++++++|++||+||||+|||||+|+|||+|||++|+|+||
T Consensus        81 ~~~v~I~i~eV~~p~l~A~lvAe~Ia~qLe~rv~fRrA~k~ai~~~m~aGakGikI~iSGRL~GaiARtE~~~eG~vlhT  160 (227)
T 3iz6_B           81 ENGVELYAEKVVNRGLCAIAQAESLRYKLLGGLAVRRACYGVLRFVMESGAKGCEVIVSGKLRAQRAKSMKFKDGYMISS  160 (227)
T ss_dssp             SCCCCCEEECCSSSTTSCSHHHHHHHTTTTTCCCHHHHHHHHHHTTTTTCCSEEECCBCSCGGGSSCCCBCCEEECCCSS
T ss_pred             CCeEEEEEEEecCCCcCHHHHHHHHHHHHHcCccHHHHHHHHHHHHHHcCCceEEEEEecccCCceeeEeeeeCCeeccc
Confidence            88999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CcccccceeEEEEEEecCCeeeeEEEEEEcCCCCCCCCCCCCCCCCeEEEeCCCCccccccCcce
Q 026588          161 GQPVNEYIDSAVRHVLLRQGVLGIKVKIMLSWDPNGKQGPTTPLPDLVTIHSPKDEEEYVKPTLV  225 (236)
Q Consensus       161 G~~~~~~Idya~~~a~Tk~GviGIKVWI~~~~~p~g~~g~~~~~pd~i~i~~~~~~~~~~~~~~~  225 (236)
                      ||+++++||||+++|+|+||+||||||||+++||+|++||.++|||+|+|++|+++.+...|.++
T Consensus       161 lqtlra~IDya~~~a~T~yGviGVKVWI~~~~dp~g~~g~~~~lpD~v~i~~pk~~~~~~~~~~~  225 (227)
T 3iz6_B          161 GQPVNEYIDAAVRHVLLRQGVLGIKVKIMLDWDPKGKLGPTTPLPDLVTIHPPKEENELRPPALV  225 (227)
T ss_dssp             SSCTTSCEEECCCCCBCSSSBCCCCCEEECSCTTSCCCCCSSCCCCCCSCCCCSSCCCC------
T ss_pred             CChhhheeeEEEEEEEcCCeeEEEEEEEECCCCcccccCCCCCCCCeEEEeCCCcccCCCCCccc
Confidence            99999999999999999999999999999999999999999999999999999998776777653
>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
>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
>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
>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 236
d1wh9a_92 d.52.3.1 (A:) Ribosomal protein S3 N-terminal doma 6e-36
d2uubc2101 d.53.1.1 (C:107-207) Ribosomal protein S3 C-termin 4e-18
d2qalc2101 d.53.1.1 (C:106-206) Ribosomal protein S3 C-termin 2e-12
d2uubc1105 d.52.3.1 (C:2-106) Ribosomal protein S3 N-terminal 1e-04
d2qalc1105 d.52.3.1 (C:1-105) Ribosomal protein S3 N-terminal 5e-04
>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 =  120 bits (303), Expect = 6e-36
 Identities = 70/87 (80%), Positives = 72/87 (82%)

Query: 14  DGVFFAELNEVLTRELAEDGYSGVEVRVTPMRTEIIIRATRTQNVLGEKGRRIRELTSVV 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 ?
Query236
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 99.81
d2qalc1105 Ribosomal protein S3 N-terminal domain {Escherichi 99.79
d1egaa2113 GTPase Era C-terminal domain {Escherichia coli [Ta 88.4
d1wf3a2118 GTPase Era C-terminal domain {Thermus thermophilus 87.54
d1tuaa184 Hypothetical protein APE0754 {Aeropyrum pernix [Ta 80.33
>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=3.6e-40  Score=255.82  Aligned_cols=98  Identities=29%  Similarity=0.343  Sum_probs=96.1

Q ss_pred             cCCCcChHHHHHHHHHHHhCCchhHhHHHHHHHHHHhcCCceeEEEEccccccc-eeeeeeeecCee-eecCccccccee
Q 026588           92 NNRGLCAIAQAESLRYKLLGGLAVRRACYGVLRFIMESGAKGCEVIVSGKLRAQ-RAKSMKFKDGYM-VSSGQPVNEYID  169 (236)
Q Consensus        92 ~~p~~~a~~iA~~Ia~qLekr~~fRr~~k~~i~~~m~~gakGikI~iSGRL~G~-rARte~~~~G~v-l~tG~~~~~~Id  169 (236)
                      ++|++||+++|++||+|||++.+|||+++++++++|++||+||+|+|||||||+ |||+|+|.+|++ |||   ++++||
T Consensus         1 k~P~l~A~~vA~~IA~~LErr~~fRr~~~~~i~~~m~~ga~GikI~isGRl~gae~Ar~e~~~~G~ipl~t---~~~~Id   77 (101)
T d2qalc2           1 RKPELDAKLVADSITSQLERRVMFRRAMKRAVQNAMRLGAKGIKVEVSGRLGGAEIARTEWYREGRVPLHT---LRADID   77 (101)
T ss_dssp             SCGGGCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHSSCSEEEEEECSCGGGCSSCCCCCCEEECCCTTC---GGGCEE
T ss_pred             CCCCcCHHHHHHHHHHHHHcchHHHHHHHHHHHHHhhcchheEEEEEeccccchhhheeEEEEEecccccc---cceeEE
Confidence            589999999999999999999999999999999999999999999999999999 999999999999 999   999999


Q ss_pred             EEEEEEecCCeeeeEEEEEEcCC
Q 026588          170 SAVRHVLLRQGVLGIKVKIMLSW  192 (236)
Q Consensus       170 ya~~~a~Tk~GviGIKVWI~~~~  192 (236)
                      |++++|+|+||++|||||||+||
T Consensus        78 y~~~~a~t~~Gv~GVKVwI~~~e  100 (101)
T d2qalc2          78 YNTSEAHTTYGVIGVKVWIFKGE  100 (101)
T ss_dssp             EEECCCCBTTBCCCEEEEEECCC
T ss_pred             EEEEEEEcCceeEEEEEEEECCC
Confidence            99999999999999999999985
>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