Citrus Sinensis ID: 029201

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-------
MATQISKKRKFVADGVFFAELNEVLTRELAEDGYSGVEVRVTPVRTEIIIRATRTQNVLGEKGRRIRELTSVVQKRFKFPENSVELYAEKVNNRGLCAIAQAESLRYKLLGGLAVRRACYGVLRFIMESGAKGCEVIVSGKLRAQRAKSMKFKDGYMISSGQPVNEYIDSAVRHVLLRQVSLIFVMLISVPVIVLER
cHHHHHHHHHHHHHcHHHHHHHHHHHHHHHHccEEEEEEEEcccEEEEEEEEccccccccccccHHHHHHHHHHHHcccccccEEEEEEEEccccccHHHHHHHHHHHHHccHHHHHHHHHHHHHHHHHcccEEEEEEEccccHHHHcEEccccEEEEcccccHHHHHHEEEEEEEcccEEEEEEEEEEcccccccc
ccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccEEEEEEccccEEEEEEEccccEEEccccHHHHHHHHHHHHHHccccccEEEEEEEcccccccHHHHHHHHHHHHHHcHHHHHHHHHHHHHHHHccccEEEEEEEccccccHHHHHHHHcccEccccccHHHHHHHHHHHHHHHccEEEEEEEEEcccccccc
MATQISKKRKFVADGVFFAELNEVLTRELaedgysgvevrvtPVRTEIIIRATRTqnvlgekgrRIRELTSVVQKRFKFPENSVELYAEKVNNRGLCAIAQAESLRYKLLGGLAVRRACYGVLRFIMESGAKGCEVIVSGKLRAQRAKsmkfkdgymissgqpvnEYIDSAVRHVLLRQVSLIFVMLISvpvivler
matqiskkrkfvadgvFFAELNEVLTrelaedgysgvevrvtpvrteiiiratrtqnvlgekgrrireltsvvqkrfkfpensVELYAEKVNNRGLCAIAQAESLRYKLLGGLAVRRACYGVLRFIMESGAKGCEVIVSGKLRAQRAKSMKFKDGYMISSGQPVNEYIDSAVRHVLLRQVSLIFVMLISVPVIVLER
MATQISKKRKFVADGVFFAELNEVLTRELAEDGYSGVEVRVTPVRTEIIIRATRTQNVLGEKGRRIRELTSVVQKRFKFPENSVELYAEKVNNRGLCAIAQAESLRYKLLGGLAVRRACYGVLRFIMESGAKGCEVIVSGKLRAQRAKSMKFKDGYMISSGQPVNEYIDSAVRHVLLRQVSLIFVMLISVPVIVLER
*********KFVADGVFFAELNEVLTRELAEDGYSGVEVRVTPVRTEIIIRATRTQNVLGEKGRRIRELTSVVQKRFKFPENSVELYAEKVNNRGLCAIAQAESLRYKLLGGLAVRRACYGVLRFIMESGAKGCEVIVSGKLRAQRAKSMKFKDGYMISSGQPVNEYIDSAVRHVLLRQVSLIFVMLISVPVIVL**
*****SK*RKFVADGVFFAELNEVLTRELAEDGYSGVEVRVTPVRTEIIIRATRTQNVLGEKGRRIRELTSVVQKRFKFPENSVELYAEKVNNRGLCAIAQAESLRYKLLGGLAVRRACYGVLRFIMESGAKGCEVIVSGKLRAQRAKSMKFKDGYMISSGQPVNEYIDSAVRHVLLRQVSLIFVMLISVPVIV***
MATQISKKRKFVADGVFFAELNEVLTRELAEDGYSGVEVRVTPVRTEIIIRATRTQNVLGEKGRRIRELTSVVQKRFKFPENSVELYAEKVNNRGLCAIAQAESLRYKLLGGLAVRRACYGVLRFIMESGAKGCEVIVSGKLRAQRAKSMKFKDGYMISSGQPVNEYIDSAVRHVLLRQVSLIFVMLISVPVIVLER
*ATQISKKRKFVADGVFFAELNEVLTRELAEDGYSGVEVRVTPVRTEIIIRATRTQNVLGEKGRRIRELTSVVQKRFKFPENSVELYAEKVNNRGLCAIAQAESLRYKLLGGLAVRRACYGVLRFIMESGAKGCEVIVSGKLRAQRAKSMKFKDGYMISSGQPVNEYIDSAVRHVLLRQVSLIFVMLISVPV*****
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oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHii
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ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiii
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MATQISKKRKFVADGVFFAELNEVLTRELAEDGYSGVEVRVTPVRTEIIIRATRTQNVLGEKGRRIRELTSVVQKRFKFPENSVELYAEKVNNRGLCAIAQAESLRYKLLGGLAVRRACYGVLRFIMESGAKGCEVIVSGKLRAQRAKSMKFKDGYMISSGQPVNEYIDSAVRHVLLRQVSLIFVMLISVPVIVLER
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 ?
Query197 2.2.26 [Sep-21-2011]
Q9SIP7250 40S ribosomal protein S3- yes no 0.908 0.716 0.938 2e-95
Q9FJA6248 40S ribosomal protein S3- no no 0.908 0.721 0.932 4e-95
Q9M339249 40S ribosomal protein S3- no no 0.908 0.718 0.938 8e-95
Q0Z8U2243 40S ribosomal protein S3 yes no 0.969 0.786 0.848 3e-88
P23396243 40S ribosomal protein S3 yes no 0.969 0.786 0.848 3e-88
Q3T169243 40S ribosomal protein S3 yes no 0.969 0.786 0.848 3e-88
P62909243 40S ribosomal protein S3 yes no 0.969 0.786 0.848 3e-88
P62908243 40S ribosomal protein S3 yes no 0.969 0.786 0.848 3e-88
E2RH47243 40S ribosomal protein S3 yes no 0.969 0.786 0.848 3e-88
P02350246 40S ribosomal protein S3- N/A no 0.969 0.776 0.848 5e-88
>sp|Q9SIP7|RS31_ARATH 40S ribosomal protein S3-1 OS=Arabidopsis thaliana GN=RPS3A PE=1 SV=1 Back     alignment and function desciption
 Score =  348 bits (892), Expect = 2e-95,   Method: Compositional matrix adjust.
 Identities = 168/179 (93%), Positives = 175/179 (97%)

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

Query: 61  EKGRRIRELTSVVQKRFKFPENSVELYAEKVNNRGLCAIAQAESLRYKLLGGLAVRRACY 120
           EKGRRIRELTS+VQKRFKFP +SVELYAEKVNNRGLCAIAQAESLRYKLLGGLAVRRACY
Sbjct: 61  EKGRRIRELTSLVQKRFKFPVDSVELYAEKVNNRGLCAIAQAESLRYKLLGGLAVRRACY 120

Query: 121 GVLRFIMESGAKGCEVIVSGKLRAQRAKSMKFKDGYMISSGQPVNEYIDSAVRHVLLRQ 179
           GVLRF+MESGAKGCEVIVSGKLRA RAKSMKFKDGYM+SSGQP  EYID+AVRHVLLRQ
Sbjct: 121 GVLRFVMESGAKGCEVIVSGKLRAARAKSMKFKDGYMVSSGQPTKEYIDAAVRHVLLRQ 179

Arabidopsis thaliana (taxid: 3702)
>sp|Q9FJA6|RS33_ARATH 40S ribosomal protein S3-3 OS=Arabidopsis thaliana GN=RPS3C 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|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
>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|P02350|RS31_XENLA 40S ribosomal protein S3-A OS=Xenopus laevis GN=rps3-a PE=2 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 ?
Query197
225444782234 PREDICTED: 40S ribosomal protein S3-3 [V 0.908 0.764 0.977 8e-97
449447888236 PREDICTED: 40S ribosomal protein S3-3-li 0.908 0.758 0.977 1e-96
225442156234 PREDICTED: 40S ribosomal protein S3-3 [V 0.908 0.764 0.972 2e-96
449446618243 PREDICTED: 40S ribosomal protein S3-3-li 0.908 0.736 0.972 2e-96
118488288232 unknown [Populus trichocarpa] 0.908 0.771 0.972 4e-96
359476269235 PREDICTED: 40S ribosomal protein S3-3-li 0.908 0.761 0.966 4e-96
224141685234 predicted protein [Populus trichocarpa] 0.908 0.764 0.972 4e-96
224135747233 predicted protein [Populus trichocarpa] 0.908 0.768 0.972 4e-96
224088766236 predicted protein [Populus trichocarpa] 0.908 0.758 0.966 7e-96
356559951236 PREDICTED: 40S ribosomal protein S3-3-li 0.908 0.758 0.966 1e-95
>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 =  358 bits (918), Expect = 8e-97,   Method: Compositional matrix adjust.
 Identities = 175/179 (97%), Positives = 178/179 (99%)

Query: 1   MATQISKKRKFVADGVFFAELNEVLTRELAEDGYSGVEVRVTPVRTEIIIRATRTQNVLG 60
           MATQ+SKKRKFVADGVFFAELNEVLTRELAEDGYSGVEVRVTP+RTEIIIRATRTQNVLG
Sbjct: 1   MATQMSKKRKFVADGVFFAELNEVLTRELAEDGYSGVEVRVTPMRTEIIIRATRTQNVLG 60

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

Query: 121 GVLRFIMESGAKGCEVIVSGKLRAQRAKSMKFKDGYMISSGQPVNEYIDSAVRHVLLRQ 179
           GVLRFIMESGAKGCEVIVSGKLRAQRAKSMKFKDGYMISSGQPV EYIDSAVRHVLLRQ
Sbjct: 121 GVLRFIMESGAKGCEVIVSGKLRAQRAKSMKFKDGYMISSGQPVKEYIDSAVRHVLLRQ 179

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|449447888|ref|XP_004141698.1| PREDICTED: 40S ribosomal protein S3-3-like [Cucumis sativus] gi|449521735|ref|XP_004167885.1| PREDICTED: 40S ribosomal protein S3-3-like [Cucumis sativus] Back     alignment and taxonomy information
>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|449446618|ref|XP_004141068.1| PREDICTED: 40S ribosomal protein S3-3-like [Cucumis sativus] gi|449488075|ref|XP_004157933.1| PREDICTED: 40S ribosomal protein S3-3-like [Cucumis sativus] Back     alignment and taxonomy information
>gi|118488288|gb|ABK95963.1| unknown [Populus trichocarpa] 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|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
>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|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|356559951|ref|XP_003548259.1| PREDICTED: 40S ribosomal protein S3-3-like [Glycine max] 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 ?
Query197
TAIR|locus:2065863250 AT2G31610 [Arabidopsis thalian 0.908 0.716 0.938 1.3e-84
TAIR|locus:2084490249 AT3G53870 [Arabidopsis thalian 0.908 0.718 0.938 1.7e-84
TAIR|locus:2169518248 AT5G35530 [Arabidopsis thalian 0.908 0.721 0.932 3.4e-84
UNIPROTKB|F1N9X5243 RPS3 "Uncharacterized protein" 0.969 0.786 0.848 1.4e-78
UNIPROTKB|Q3T169243 RPS3 "40S ribosomal protein S3 0.969 0.786 0.848 1.4e-78
UNIPROTKB|E2RH47243 RPS3 "40S ribosomal protein S3 0.969 0.786 0.848 1.4e-78
UNIPROTKB|P23396243 RPS3 "40S ribosomal protein S3 0.969 0.786 0.848 1.4e-78
UNIPROTKB|Q0Z8U2243 RPS3 "40S ribosomal protein S3 0.969 0.786 0.848 1.4e-78
MGI|MGI:1350917243 Rps3 "ribosomal protein S3" [M 0.969 0.786 0.848 1.4e-78
RGD|619888243 Rps3 "ribosomal protein S3" [R 0.969 0.786 0.848 1.4e-78
TAIR|locus:2065863 AT2G31610 [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 847 (303.2 bits), Expect = 1.3e-84, P = 1.3e-84
 Identities = 168/179 (93%), Positives = 175/179 (97%)

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

Query:    61 EKGRRIRELTSVVQKRFKFPENSVELYAEKVNNRGLCAIAQAESLRYKLLGGLAVRRACY 120
             EKGRRIRELTS+VQKRFKFP +SVELYAEKVNNRGLCAIAQAESLRYKLLGGLAVRRACY
Sbjct:    61 EKGRRIRELTSLVQKRFKFPVDSVELYAEKVNNRGLCAIAQAESLRYKLLGGLAVRRACY 120

Query:   121 GVLRFIMESGAKGCEVIVSGKLRAQRAKSMKFKDGYMISSGQPVNEYIDSAVRHVLLRQ 179
             GVLRF+MESGAKGCEVIVSGKLRA RAKSMKFKDGYM+SSGQP  EYID+AVRHVLLRQ
Sbjct:   121 GVLRFVMESGAKGCEVIVSGKLRAARAKSMKFKDGYMVSSGQPTKEYIDAAVRHVLLRQ 179
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:0009507 "chloroplast" evidence=IDA
GO:0005773 "vacuole" evidence=IDA
GO:0022626 "cytosolic ribosome" evidence=IDA
GO:0005774 "vacuolar membrane" 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
TAIR|locus:2084490 AT3G53870 [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2169518 AT5G35530 [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|Q3T169 RPS3 "40S ribosomal protein S3" [Bos taurus (taxid:9913)] Back     alignment and assigned GO terms
UNIPROTKB|E2RH47 RPS3 "40S ribosomal protein S3" [Canis lupus familiaris (taxid:9615)] 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
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

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) ?
A1RXG6RS3_THEPDNo assigned EC number0.34100.86800.8465yesno
Q90YS2RS3_ICTPUNo assigned EC number0.83760.96950.7795N/Ano
C5A280RS3_THEGJNo assigned EC number0.37420.85780.8086yesno
Q5R465RS3_PONABNo assigned EC number0.84290.96950.7860yesno
P05750RS3_YEASTNo assigned EC number0.72620.90860.7458yesno
B6YSL9RS3_THEONNo assigned EC number0.37420.85780.8125yesno
P48152RS3_CAEELNo assigned EC number0.78280.88830.7085yesno
P48153RS3_MANSENo assigned EC number0.80420.95930.7777N/Ano
O60128RS3_SCHPONo assigned EC number0.76840.96440.7630yesno
Q8U004RS3_PYRFUNo assigned EC number0.38010.85780.8047yesno
E2RH47RS3_CANFANo assigned EC number0.84810.96950.7860yesno
Q0Z8U2RS3_PIGNo assigned EC number0.84810.96950.7860yesno
Q5JDH5RS3_PYRKONo assigned EC number0.36840.85780.8086yesno
P02350RS31_XENLANo assigned EC number0.84810.96950.7764N/Ano
P47835RS32_XENLANo assigned EC number0.83760.96950.7764N/Ano
P23396RS3_HUMANNo assigned EC number0.84810.96950.7860yesno
Q3T169RS3_BOVINNo assigned EC number0.84810.96950.7860yesno
P62909RS3_RATNo assigned EC number0.84810.96950.7860yesno
P62908RS3_MOUSENo assigned EC number0.84810.96950.7860yesno
P79891RS3_AMBMENo assigned EC number0.88260.90860.7075N/Ano
Q9M339RS32_ARATHNo assigned EC number0.93850.90860.7188nono
Q9FJA6RS33_ARATHNo assigned EC number0.93290.90860.7217nono
O59424RS3_PYRHONo assigned EC number0.35080.85780.8047yesno
Q06559RS3_DROMENo assigned EC number0.77890.94920.7601yesno
P90526RS3_DICDINo assigned EC number0.67720.95430.8623yesno
C6A165RS3_THESMNo assigned EC number0.35670.85780.8164yesno
Q9SIP7RS31_ARATHNo assigned EC number0.93850.90860.716yesno

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 ?
Query197
PTZ00084220 PTZ00084, PTZ00084, 40S ribosomal protein S3; Prov 1e-119
TIGR01008195 TIGR01008, rpsC_E_A, ribosomal protein S3, eukaryo 4e-66
cd0241381 cd02413, 40S_S3_KH, K homology RNA-binding (KH) do 2e-49
COG0092233 COG0092, RpsC, Ribosomal protein S3 [Translation, 9e-47
PRK04191207 PRK04191, rps3p, 30S ribosomal protein S3P; Review 1e-40
pfam0018985 pfam00189, Ribosomal_S3_C, Ribosomal protein S3, C 6e-18
cd0241185 cd02411, archeal_30S_S3_KH, K homology RNA-binding 1e-14
pfam0765077 pfam07650, KH_2, KH domain 1e-13
cd0240968 cd02409, KH-II, KH-II (K homology RNA-binding doma 3e-08
TIGR01009211 TIGR01009, rpsC_bact, ribosomal protein S3, bacter 1e-05
CHL00048214 CHL00048, rps3, ribosomal protein S3 1e-05
>gnl|CDD|240260 PTZ00084, PTZ00084, 40S ribosomal protein S3; Provisional Back     alignment and domain information 
 Score =  336 bits (863), Expect = e-119
 Identities = 147/177 (83%), Positives = 164/177 (92%)

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 LRFIMESGAKGCEVIVSGKLRAQRAKSMKFKDGYMISSGQPVNEYIDSAVRHVLLRQ 179
           LR +MESGAKGCEVIVSGKLRAQRAKSMKF+DGYMIS+GQP  +++DSAVRHVL+RQ
Sbjct: 123 LRHVMESGAKGCEVIVSGKLRAQRAKSMKFRDGYMISTGQPKKDFVDSAVRHVLMRQ 179

Length = 220
>gnl|CDD|130081 TIGR01008, rpsC_E_A, ribosomal protein S3, eukaryotic/archaeal type 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|223170 COG0092, RpsC, Ribosomal protein S3 [Translation, ribosomal structure and biogenesis] 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 197
COG0092233 RpsC Ribosomal protein S3 [Translation, ribosomal 100.0
PTZ00084220 40S ribosomal protein S3; Provisional 100.0
TIGR01008195 rpsC_E_A ribosomal protein S3, eukaryotic/archaeal 100.0
PRK04191207 rps3p 30S ribosomal protein S3P; Reviewed 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 99.95
cd0241381 40S_S3_KH K homology RNA-binding (KH) domain of th 99.85
cd02412109 30S_S3_KH K homology RNA-binding (KH) domain of th 99.82
cd0241185 archeal_30S_S3_KH K homology RNA-binding domain (K 99.76
PF0765078 KH_2: KH domain syndrome, contains KH motifs.; Int 99.52
cd0240968 KH-II KH-II (K homology RNA-binding domain, type I 98.8
smart0032269 KH K homology RNA-binding domain. 97.48
cd0241477 jag_KH jag_K homology RNA-binding domain. The KH d 96.79
PF1308373 KH_4: KH domain; PDB: 3GKU_B. 96.09
COG1847208 Jag Predicted RNA-binding protein [General functio 95.31
PRK0106478 hypothetical protein; Provisional 94.72
cd02410145 archeal_CPSF_KH The archaeal cleavage and polyaden 94.0
cd0213461 NusA_KH NusA_K homology RNA-binding domain (KH). N 93.89
PRK08406140 transcription elongation factor NusA-like protein; 93.26
PRK0282177 hypothetical protein; Provisional 92.99
PRK0046875 hypothetical protein; Provisional 91.53
TIGR00436270 era GTP-binding protein Era. Era is an essential G 91.12
COG183776 Predicted RNA-binding protein (contains KH domain) 89.73
PRK15494339 era GTPase Era; Provisional 89.59
PRK00089292 era GTPase Era; Reviewed 89.12
COG1159298 Era GTPase [General function prediction only] 84.85
COG1782 637 Predicted metal-dependent RNase, consists of a met 82.26
TIGR01952141 nusA_arch NusA family KH domain protein, archaeal. 81.89
>COG0092 RpsC Ribosomal protein S3 [Translation, ribosomal structure and biogenesis] Back     alignment and domain information 
Probab=100.00  E-value=4.4e-65  Score=431.81  Aligned_cols=187  Identities=29%  Similarity=0.373  Sum_probs=176.6

Q ss_pred             ccccceEeecCcch-------HHHHHHHHhhhccCCeeeeEEEEcCCeEEEEEEecccceeeccCcccHHHHHHHHHHHh
Q 029201            5 ISKKRKFVADGVFF-------AELNEVLTRELAEDGYSGVEVRVTPVRTEIIIRATRTQNVLGEKGRRIRELTSVVQKRF   77 (197)
Q Consensus         5 ~~~~~~~~~~~~~~-------~~Ir~~l~~~~~~agis~i~I~r~~~~i~I~I~~~~p~~vig~~g~~i~~l~~~l~~~~   77 (197)
                      +.|.|+||++...|       .+||+||+++|.+||||+|+|+|+|++++|+||+++||+|||++|++|++|+..|+++|
T Consensus         5 ~~w~srwfa~~~~~~~~l~ed~kIre~l~k~l~~Ag~s~veIeR~~~~~~V~I~aarPg~VIGk~G~~I~~L~~~l~k~~   84 (233)
T COG0092           5 KDWKSRWFANKKEYAKLLVEDLKIREFLEKELSNAGISGVEIERTPKGTRVTIHAARPGLVIGKKGSNIEKLRKELEKLF   84 (233)
T ss_pred             ccchhhhccccccchHHHHHHHHHHHHHHHHHHhCCcceEEEEecCCceEEEEEeCCCcceEcCCCccHHHHHHHHHHHh
Confidence            46899999976655       55999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCCCeeEEEEEEecCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHHHhcCCceeEEEEecccCccc-cceeecccCe
Q 029201           78 KFPENSVELYAEKVNNRGLCAIAQAESLRYKLLGGLAVRRACYGVLRFIMESGAKGCEVIVSGKLRAQR-AKSMKFKDGY  156 (197)
Q Consensus        78 ~~~~~~i~i~i~~i~~p~~~a~~iA~~ia~~Le~r~~fRr~~k~~i~~~~~~gakGikI~isGRL~G~r-AR~e~~~~G~  156 (197)
                      +.+  +++|++.||++|++||+++|++||+|||+|++||||++++|+++|++||+||||+|||||+|+| ||+|||.+|+
T Consensus        85 g~~--~v~I~i~EV~~peL~A~lvA~~IA~qLErrv~FRRA~k~ai~~~M~aGAkGiki~vSGRL~GaeiAR~E~y~eG~  162 (233)
T COG0092          85 GKE--NVQINIEEVKKPELDAQLVAESIAQQLERRVSFRRAMKRAIQRAMRAGAKGIKIQVSGRLGGAEIARTEKYREGR  162 (233)
T ss_pred             CCC--CceEEEEEcCCCCcCHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHcCCceeEEEEecccchHHHHhHHHHhcce
Confidence            964  6888899999999999999999999999999999999999999999999999999999999998 9999999999


Q ss_pred             eccCCccccceeeEEEEEEecCCeeEEEEEEEECCCccCC
Q 029201          157 MISSGQPVNEYIDSAVRHVLLRQVSLIFVMLISVPVIVLE  196 (197)
Q Consensus       157 v~~tgq~~~~~Idy~~~~a~Tk~GviGIKVwI~~~~~~l~  196 (197)
                      ||  ++|++++|||++++|.|+||+||||||||+|+ +|+
T Consensus       163 vp--lhtlrAdIDyg~a~A~ttyGiiGVKVwI~~ge-~l~  199 (233)
T COG0092         163 VP--LHTLRADIDYGTAEAHTTYGVIGVKVWIYKGE-VLP  199 (233)
T ss_pred             eE--ccccceeeeeeeEEEEecCceEEEEEEEecCC-cCC
Confidence            95  44499999999999999999999999999998 454

>PTZ00084 40S ribosomal protein S3; Provisional Back     alignment and domain information
>TIGR01008 rpsC_E_A ribosomal protein S3, eukaryotic/archaeal type Back     alignment and domain information
>PRK04191 rps3p 30S ribosomal protein S3P; Reviewed 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
>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
>COG1847 Jag Predicted RNA-binding protein [General function prediction only] Back     alignment and domain information
>PRK01064 hypothetical protein; Provisional 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
>cd02134 NusA_KH NusA_K homology RNA-binding domain (KH) Back     alignment and domain information
>PRK08406 transcription elongation factor NusA-like protein; Validated Back     alignment and domain information
>PRK02821 hypothetical protein; Provisional Back     alignment and domain information
>PRK00468 hypothetical protein; Provisional Back     alignment and domain information
>TIGR00436 era GTP-binding protein Era Back     alignment and domain information
>COG1837 Predicted RNA-binding protein (contains KH domain) [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
>COG1159 Era GTPase [General function prediction only] 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
>TIGR01952 nusA_arch NusA family KH domain protein, archaeal 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 ?
Query197
3iz6_B227 Localization Of The Small Subunit Ribosomal Protein 5e-95
2zkq_c243 Structure Of A Mammalian Ribosomal 40s Subunit With 3e-89
3izb_B240 Localization Of The Small Subunit Ribosomal Protein 3e-76
1s1h_C192 Structure Of The Ribosomal 80s-Eef2-Sordarin Comple 8e-76
3jyv_C188 Structure Of The 40s Rrna And Proteins And PE TRNA 4e-75
3zey_X214 High-resolution Cryo-electron Microscopy Structure 6e-62
2xzm_C243 Crystal Structure Of The Eukaryotic 40s Ribosomal S 1e-54
1wh9_A92 Solution Structure Of The Kh Domain Of Human Riboso 1e-33
3j20_C210 Promiscuous Behavior Of Proteins In Archaeal Riboso 2e-21
3fic_C207 T. Thermophilus 70s Ribosome In Complex With Mrna, 3e-06
1pns_C206 Crystal Structure Of A Streptomycin Dependent Ribos 3e-06
1fjg_C239 Structure Of The Thermus Thermophilus 30s Ribosomal 4e-06
1i94_C238 Crystal Structures Of The Small Ribosomal Subunit W 4e-06
>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 =  343 bits (879), Expect = 5e-95,   Method: Compositional matrix adjust.
 Identities = 168/179 (93%), Positives = 175/179 (97%)
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 GVLRFIMESGAKGCEVIVSGKLRAQRAKSMKFKDGYMISSGQPVNEYIDSAVRHVLLRQ 179
           GVLRF+MESGAKGCEVIVSGKLRAQRAKSMKFKDGYMISSGQPVNEYID+AVRHVLLRQ
Sbjct: 121 GVLRFVMESGAKGCEVIVSGKLRAQRAKSMKFKDGYMISSGQPVNEYIDAAVRHVLLRQ 179
>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|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|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

Structure Templates Detected by RPS-BLAST ?

Original result of RPS-BLAST against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query197
2xzm_C243 KH domain containing protein; ribosome, translatio 7e-86
3u5c_D240 RP13, YS3, 40S ribosomal protein S3; translation, 2e-84
2zkq_c243 40S ribosomal protein S3E; protein-RNA complex, 40 1e-81
3iz6_B227 40S ribosomal protein S3 (S3P); eukaryotic ribosom 3e-81
1wh9_A92 40S ribosomal protein S3; KH domain, structural ge 4e-39
3bbn_C218 Ribosomal protein S3; small ribosomal subunit, spi 7e-07
3r8n_C206 30S ribosomal protein S3; protein biosynthesis, RN 6e-06
2vqe_C239 30S ribosomal protein S3; tRNA-binding, rRNA-bindi 9e-06
3i1m_C233 30S ribosomal protein S3; ribosome structure, prot 1e-05
>2xzm_C KH domain containing protein; ribosome, translation; 3.93A {Tetrahymena thermophila} PDB: 2xzn_C Length = 243 Back     alignment and structure
 Score =  252 bits (645), Expect = 7e-86
 Identities = 92/179 (51%), Positives = 134/179 (74%)

Query: 1   MATQISKKRKFVADGVFFAELNEVLTRELAEDGYSGVEVRVTPVRTEIIIRATRTQNVLG 60
               I+KK+KFVADGVF AEL+   ++ L + GY+G+EVR TP +TEI I+AT+ Q V+G
Sbjct: 4   TTRAINKKKKFVADGVFNAELHSFFSKSLQDAGYAGIEVRRTPTKTEIRIKATKPQQVIG 63

Query: 61  EKGRRIRELTSVVQKRFKFPENSVELYAEKVNNRGLCAIAQAESLRYKLLGGLAVRRACY 120
            +G++ +ELT  +QKRF + ++ ++++AE +  +GLCA AQ E++ YKLL  + VR A  
Sbjct: 64  VEGKKHKELTQFLQKRFGYSDDQIQIWAEPIKFKGLCASAQVEAMNYKLLKDVPVRLAAN 123

Query: 121 GVLRFIMESGAKGCEVIVSGKLRAQRAKSMKFKDGYMISSGQPVNEYIDSAVRHVLLRQ 179
            +++ +++ GAKGCE+I+SGKL+ QRAK+MKFK GYMI +GQP N+YID AVRHV  +Q
Sbjct: 124 YIIKSVIQDGAKGCEIIISGKLKQQRAKTMKFKQGYMICTGQPKNDYIDVAVRHVFFKQ 182
>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
>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
>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
>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
>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
>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

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query197
3u5c_D240 RP13, YS3, 40S ribosomal protein S3; translation, 100.0
3iz6_B227 40S ribosomal protein S3 (S3P); eukaryotic ribosom 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
3r8n_C206 30S ribosomal protein S3; protein biosynthesis, RN 100.0
3i1m_C233 30S ribosomal protein S3; ribosome structure, prot 100.0
3bbn_C218 Ribosomal protein S3; small ribosomal subunit, spi 100.0
2vqe_C239 30S ribosomal protein S3; tRNA-binding, rRNA-bindi 100.0
1wh9_A92 40S ribosomal protein S3; KH domain, structural ge 99.91
2pt7_G152 HP1451, hypothetical protein; ATPase, protein-prot 96.06
3gku_A225 Probable RNA-binding protein; APC21302, clostridiu 90.58
>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
Probab=100.00  E-value=1.8e-69  Score=460.77  Aligned_cols=190  Identities=69%  Similarity=1.077  Sum_probs=186.8

Q ss_pred             CcccccccceEeecCcchHHHHHHHHhhhccCCeeeeEEEEcCCeEEEEEEecccceeeccCcccHHHHHHHHHHHhCCC
Q 029201            1 MATQISKKRKFVADGVFFAELNEVLTRELAEDGYSGVEVRVTPVRTEIIIRATRTQNVLGEKGRRIRELTSVVQKRFKFP   80 (197)
Q Consensus         1 ~~~~~~~~~~~~~~~~~~~~Ir~~l~~~~~~agis~i~I~r~~~~i~I~I~~~~p~~vig~~g~~i~~l~~~l~~~~~~~   80 (197)
                      |+.+|+.+++||+|+.++++||+||.++|.++|||+|+|+|+++.++|+||+++||+|||++|+++++|++.|+++|+++
T Consensus         1 ~~~~~~~~~k~vadg~~~~~ire~l~k~l~~agis~IeI~Rt~~~i~I~I~t~rPg~VIGkkG~~I~~L~~~l~k~~~~~   80 (240)
T 3u5c_D            1 MVALISKKRKLVADGVFYAELNEFFTRELAEEGYSGVEVRVTPTKTEVIIRATRTQDVLGENGRRINELTLLVQKRFKYA   80 (240)
T ss_dssp             --CCCCHHHHHHHHHHHHHHHHHHHHHHTGGGTEEEEEEEECSSCEEEEEEESCHHHHHTTTTCTHHHHHHHHHHHHTCC
T ss_pred             CcccccccceEeecCchHHHHHHHHHHHHHhCCcceEEEEEcCCeEEEEEEeCCCceEEcCCchhHHHHHHHHHHHhCCC
Confidence            88999999999999999999999999999999999999999999999999999999999999999999999999999998


Q ss_pred             CCeeEEEEEEecCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHHHhcCCceeEEEEecccCccccceeecccCeeccC
Q 029201           81 ENSVELYAEKVNNRGLCAIAQAESLRYKLLGGLAVRRACYGVLRFIMESGAKGCEVIVSGKLRAQRAKSMKFKDGYMISS  160 (197)
Q Consensus        81 ~~~i~i~i~~i~~p~~~a~~iA~~ia~~Le~r~~fRr~~k~~i~~~~~~gakGikI~isGRL~G~rAR~e~~~~G~v~~t  160 (197)
                      +++++|++.+|++|++||+++|++||+|||+|++|||+++++++++|++||+||||+|||||+|++||+|||++|+||||
T Consensus        81 ~~~v~I~i~eV~~p~l~A~lvAe~IA~qLe~rv~FRRA~k~ai~~am~aGakGikI~iSGRL~Ga~ARtE~~~eG~vlhT  160 (240)
T 3u5c_D           81 PGTIVLYAERVQDRGLSAVAQAESMKFKLLNGLAIRRAAYGVVRYVMESGAKGCEVVVSGKLRAARAKAMKFADGFLIHS  160 (240)
T ss_dssp             TTSSEEEEECCSCGGGCHHHHHHHHHHHHHTCCCSHHHHHHHHHHHHHTTCSEEEEEEEECSSSSSCEEEEEEEECCCCS
T ss_pred             CCeEEEEEEEecCCCcCHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHhcCCceeEEEEecccCCceeeEEeeecCeeccC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CccccceeeEEEEEEecCCeeEEEEEEEEC
Q 029201          161 GQPVNEYIDSAVRHVLLRQVSLIFVMLISV  190 (197)
Q Consensus       161 gq~~~~~Idy~~~~a~Tk~GviGIKVwI~~  190 (197)
                      |||++++||||+++|+|+||+||||||||+
T Consensus       161 gqtlra~IDYa~~~a~T~yGviGVKVWI~~  190 (240)
T 3u5c_D          161 GQPVNDFIDTATRHVLMRQGVLGIKVKIMR  190 (240)
T ss_dssp             SHHHHHHEEEEEEEEECSSCEEEEEEEEEC
T ss_pred             CChhhheeeEEEEEEEcCCeeEEEEEEEEe
Confidence            999999999999999999999999999999
>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
>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
>3bbn_C Ribosomal protein S3; small ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Spinacea oleracea} 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
>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 197
d1wh9a_92 d.52.3.1 (A:) Ribosomal protein S3 N-terminal doma 3e-34
d2uubc2101 d.53.1.1 (C:107-207) Ribosomal protein S3 C-termin 3e-10
d2qalc2101 d.53.1.1 (C:106-206) Ribosomal protein S3 C-termin 2e-05
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 =  115 bits (289), Expect = 3e-34
 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 ?
Query197
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 99.88
d2uubc1105 Ribosomal protein S3 N-terminal domain {Thermus th 99.81
d2qalc1105 Ribosomal protein S3 N-terminal domain {Escherichi 99.8
d1egaa2113 GTPase Era C-terminal domain {Escherichia coli [Ta 92.56
d1wf3a2118 GTPase Era C-terminal domain {Thermus thermophilus 90.1
d1tuaa184 Hypothetical protein APE0754 {Aeropyrum pernix [Ta 80.26
>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=2.4e-41  Score=253.13  Aligned_cols=100  Identities=24%  Similarity=0.201  Sum_probs=96.6

Q ss_pred             cCCCcCHHHHHHHHHHHHhcCchhHHHHHHHHHHHHhcCCceeEEEEecccCcc-ccceeecccCeeccCCccccceeeE
Q 029201           92 NNRGLCAIAQAESLRYKLLGGLAVRRACYGVLRFIMESGAKGCEVIVSGKLRAQ-RAKSMKFKDGYMISSGQPVNEYIDS  170 (197)
Q Consensus        92 ~~p~~~a~~iA~~ia~~Le~r~~fRr~~k~~i~~~~~~gakGikI~isGRL~G~-rAR~e~~~~G~v~~tgq~~~~~Idy  170 (197)
                      ++|++||+++|++||+|||++++|||+++++++++|++||+||+|+|||||+|+ +||+|+|++|++|  +||++++|||
T Consensus         1 k~P~l~A~~vA~~IA~~LErr~~fRr~~~~~i~~~m~~ga~GikI~isGRl~gae~Ar~e~~~~G~ip--l~t~~~~Idy   78 (101)
T d2qalc2           1 RKPELDAKLVADSITSQLERRVMFRRAMKRAVQNAMRLGAKGIKVEVSGRLGGAEIARTEWYREGRVP--LHTLRADIDY   78 (101)
T ss_dssp             SCGGGCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHSSCSEEEEEECSCGGGCSSCCCCCCEEECCC--TTCGGGCEEE
T ss_pred             CCCCcCHHHHHHHHHHHHHcchHHHHHHHHHHHHHhhcchheEEEEEeccccchhhheeEEEEEeccc--ccccceeEEE
Confidence            589999999999999999999999999999999999999999999999999999 5999999999997  6779999999


Q ss_pred             EEEEEecCCeeEEEEEEEECCCc
Q 029201          171 AVRHVLLRQVSLIFVMLISVPVI  193 (197)
Q Consensus       171 ~~~~a~Tk~GviGIKVwI~~~~~  193 (197)
                      ++++|+|+||++|||||||+|++
T Consensus        79 ~~~~a~t~~Gv~GVKVwI~~~ev  101 (101)
T d2qalc2          79 NTSEAHTTYGVIGVKVWIFKGEI  101 (101)
T ss_dssp             EECCCCBTTBCCCEEEEEECCCC
T ss_pred             EEEEEEcCceeEEEEEEEECCCC
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