Citrus Sinensis ID: 022952

Local Sequence Feature Prediction

Prediction and (Method)Result
Residue Number Marker
Protein Sequence ?
Secondary Structure (PSIPRED) ?
Secondary Structure Prediction (SSPRO) ?
Coil and Loop (DISEMBL) ?
Flexible Loop (DISEMBL) ?
Low Complexity Region (SEG) ?
Disordered region (IsUnstruct) ?
Disordered Region (DISOPRED) ?
Disordered Region (DISEMBL) ?
Disordered Region (DISPRO) ?
Transmembrane Helix (TMHMM) ?
Transmembrane Helix (HMMTOP) ?
Transmembrane Helix (MEMSAT) ?
TM Helix, Signal Peptide (MEMSAT_SVM) ?
TM Helix, Signal Peptide (Phobius) ?
Signal Peptide (SignalP HMM Mode) ?
Signal Peptide (SignalP NN Mode) ?
Coiled Coils (COILS) ?
Positional Conservation ?
 
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------29
MMDELKDVKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILGMGDVLSFVEKAQEVMQQEDAEEMQKKIMSANFDFNDFLKQTRTVARMGSMSRVIGMIPGMGKITPAQVREAEKSLKIMEAMIEAMTPEEREKPELLAESPVRRKRVAQDSGKTEQQVSQLVAQLFQMRVRMKNLMGVMEGGSLPALSNLEDALKSEQKAPPGTARRKRRSESRRQFVDPASTRPSPRGFGGGS
cHHHHHHHHHHccccEEEEEEEccccHHHHHHHHHHHHHccccEEEEEccccccccHHHHHHHHHcccccEEEEccccccccccccccHHHHHHccccHHHHHHHHHHHHccHHHHHHHHHHHHHccccHHHHHHHHHHHHHcccHHHHHHcccccccccHHHHHHHHHHHHHHHHHHHcccHHHHcccccccccHHHHHHHHccccccHHHHHHHHHHHHHHHHHHHHHHccccccccccccccHHHHHHcccccccHHHHHHccHHHcccccccccccccccccccc
HHHHHHHHHHHHcccEEEEEEEHHHcHHHHHHHHHHHHHccccEEEEEccccccccHHHHHHHHHHcccEEEEEcccccccEEEccHHHHHHHHcccccHHHHHHHHHHHccHHHHHHHHHHHHHccccHHHHHHHHHHHHHcccHHHHHHcccccccccHHHccccHHHHHHHHHHHHHccHHHHHcHHHHcccHHHHHHHHccccccHHHHHHHHHHHHHHHHHHHHHHccccccccccHHHHHHHcccccccccccHHHHccccHHHHHccccccccccccccccc
MMDELKDVKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEIGITGAILtkldgdsrggaALSVkevsgkpiklvgrgermedlepfypdrmagrilgmGDVLSFVEKAQEVMQQEDAEEMQKKIMSANFDFNDFLKQTRTVARMGSMSRvigmipgmgkitpAQVREAEKSLKIMEAMIEAmtpeerekpellaespvrrkrvaqdsgktEQQVSQLVAQLFQMRVRMKNLMgvmeggslpalSNLEDALKseqkappgtarrkrrsesrrqfvdpastrpsprgfgggs
mmdelkdvkrvlnptEVLLVVDAMTGQEAAALVTTFNIEIGITGAILTKLDGDSRGGAalsvkevsgkpiklvgrgermedlepfYPDRMAGRILGMGDVLSFVEKAQEVMQQEDAEEMQKKIMSANFDFNDFLKQTRTVARMGSMSRVIgmipgmgkitpAQVREAEKSLKIMEAMIEamtpeerekpellaespvrrkrvaqdsgkteqqvSQLVAQLFQMRVRMKNLMGVMEGGSLPALSNLEDALkseqkappgtarrkrrsesrrqfvdpastrpsprgfgggs
MMDELKDVKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILGMGDVLSFVEKAQEVMQQEDAEEMQKKIMSANFDFNDFLKQTRTVARMGSMSRVIGMIPGMGKITPAQVREAEKSLKIMEAMIEAMTPEEREKPELLAESPVRRKRVAQDSGKTEQQVSQLVAQLFQMRVRMKNLMGVMEGGSLPALSNLEDALKSEQKAPPGTArrkrrsesrrQFVDPASTRPSPRGFGGGS
*********RVLNPTEVLLVVDAMTGQEAAALVTTFNIEIGITGAILTKLDGDS***AAL*V*******IKLVG*******LEPFYPDRMAGRILGMGDVLSFVE********************ANFDFNDFLKQTRTVARMGSMSRVIGMIPGMGK*********************************************************LVAQLFQMRVRMKNLMG*********************************************************
*MDELKDVKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILGMGDVLSFVEKAQEVM***************NFDFNDFLKQTRTVARMGSMSRVIGMIPG****************KIMEAMIEAMTPEEREKPELLAESPVRRKRVAQDSGKTEQQVSQLVAQLFQ*******************************************************************
MMDELKDVKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILGMGDVLSFVEKAQEVMQQEDAEEMQKKIMSANFDFNDFLKQTRTVARMGSMSRVIGMIPGMGKITPAQVREAEKSLKIMEAMIEAMTPEEREKPELLAE********************QLVAQLFQMRVRMKNLMGVMEGGSLPALSNLEDAL****************************************
MMDELKDVKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILGMGDVLSFVEKAQEVMQQEDAEEMQKKIMSANFDFNDFLKQTRTVARMGSMSRVIGMIPGMGKITPAQVREAEKSLKIMEAMIEAMTPEEREKPELLAESPVRRKRVAQDSGKTEQQVSQLVAQLFQMRVRMKNLM**********************************************************
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MMDELKDVKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILGMGDVLSFVEKAQEVMQQEDAEEMQKKIMSANFDFNDFLKQTRTVARMGSMSRVIGMIPGMGKITPAQVREAEKSLKIMEAMIEAMTPEEREKPELLAESPVRRKRVAQDSGKTEQQVSQLVAQLFQMRVRMKNLMGVMEGGSLPALSNLEDALKSEQKAPPGTARRKRRSESRRQFVDPASTRPSPRGFGGGS
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 ?
Query289 2.2.26 [Sep-21-2011]
P37107564 Signal recognition partic yes no 1.0 0.512 0.858 1e-146
P74214482 Signal recognition partic N/A no 0.775 0.464 0.589 3e-73
Q55311485 Signal recognition partic yes no 0.726 0.432 0.611 5e-69
Q54431516 Signal recognition partic yes no 0.795 0.445 0.474 9e-58
P37105446 Signal recognition partic yes no 0.809 0.524 0.455 1e-56
O67615454 Signal recognition partic yes no 0.820 0.522 0.449 7e-56
P0AGD7453 Signal recognition partic N/A no 0.764 0.487 0.484 2e-53
P0AGD8453 Signal recognition partic yes no 0.764 0.487 0.484 2e-53
P0AGD9453 Signal recognition partic N/A no 0.764 0.487 0.484 2e-53
Q92J55449 Signal recognition partic yes no 0.785 0.505 0.446 1e-52
>sp|P37107|SR54C_ARATH Signal recognition particle 54 kDa protein, chloroplastic OS=Arabidopsis thaliana GN=FFC PE=1 SV=1 Back     alignment and function desciption
 Score =  517 bits (1331), Expect = e-146,   Method: Compositional matrix adjust.
 Identities = 248/289 (85%), Positives = 277/289 (95%)

Query: 1   MMDELKDVKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEIGITGAILTKLDGDSRGGAAL 60
           MMDELKDVK+ LNPTEVLLVVDAMTGQEAAALVTTFN+EIGITGAILTKLDGDSRGGAAL
Sbjct: 276 MMDELKDVKKFLNPTEVLLVVDAMTGQEAAALVTTFNVEIGITGAILTKLDGDSRGGAAL 335

Query: 61  SVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILGMGDVLSFVEKAQEVMQQEDAEEMQ 120
           SVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILGMGDVLSFVEKA EVM+QEDAE++Q
Sbjct: 336 SVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILGMGDVLSFVEKATEVMRQEDAEDLQ 395

Query: 121 KKIMSANFDFNDFLKQTRTVARMGSMSRVIGMIPGMGKITPAQVREAEKSLKIMEAMIEA 180
           KKIMSA FDFNDFLKQTR VA+MGSM+RV+GMIPGMGK++PAQ+REAEK+L +MEAMIE 
Sbjct: 396 KKIMSAKFDFNDFLKQTRAVAKMGSMTRVLGMIPGMGKVSPAQIREAEKNLLVMEAMIEV 455

Query: 181 MTPEEREKPELLAESPVRRKRVAQDSGKTEQQVSQLVAQLFQMRVRMKNLMGVMEGGSLP 240
           MTPEERE+PELLAESP RRKR+A+DSGKTEQQVS LVAQ+FQMRV+MKNLMGVMEGGS+P
Sbjct: 456 MTPEERERPELLAESPERRKRIAKDSGKTEQQVSALVAQIFQMRVKMKNLMGVMEGGSIP 515

Query: 241 ALSNLEDALKSEQKAPPGTARRKRRSESRRQFVDPASTRPSPRGFGGGS 289
           ALS LEDALK+EQKAPPGTARRKR+++SR++FV+ AS++P PRGFG G+
Sbjct: 516 ALSGLEDALKAEQKAPPGTARRKRKADSRKKFVESASSKPGPRGFGSGN 564
Involved in cotranslational and post-translational sorting of thylakoid proteins. Binds GTP specifically. Activates the GTPase activity of CPFTSY when bound together. Required for light-harvesting chlorophyll a/b-binding protein (LHCP) integration into thylakoids.
Arabidopsis thaliana (taxid: 3702)
>sp|P74214|SRP54_SYNY3 Signal recognition particle protein OS=Synechocystis sp. (strain PCC 6803 / Kazusa) GN=ffh PE=3 SV=1 Back     alignment and function description
>sp|Q55311|SRP54_SYNE7 Signal recognition particle protein OS=Synechococcus elongatus (strain PCC 7942) GN=ffh PE=3 SV=1 Back     alignment and function description
>sp|Q54431|SRP54_STRMU Signal recognition particle protein OS=Streptococcus mutans serotype c (strain ATCC 700610 / UA159) GN=ffh PE=3 SV=3 Back     alignment and function description
>sp|P37105|SRP54_BACSU Signal recognition particle protein OS=Bacillus subtilis (strain 168) GN=ffh PE=1 SV=1 Back     alignment and function description
>sp|O67615|SRP54_AQUAE Signal recognition particle protein OS=Aquifex aeolicus (strain VF5) GN=ffh PE=3 SV=1 Back     alignment and function description
>sp|P0AGD7|SRP54_ECOLI Signal recognition particle protein OS=Escherichia coli (strain K12) GN=ffh PE=1 SV=1 Back     alignment and function description
>sp|P0AGD8|SRP54_ECOL6 Signal recognition particle protein OS=Escherichia coli O6:H1 (strain CFT073 / ATCC 700928 / UPEC) GN=ffh PE=3 SV=1 Back     alignment and function description
>sp|P0AGD9|SRP54_ECO57 Signal recognition particle protein OS=Escherichia coli O157:H7 GN=ffh PE=3 SV=1 Back     alignment and function description
>sp|Q92J55|SRP54_RICCN Signal recognition particle protein OS=Rickettsia conorii (strain ATCC VR-613 / Malish 7) GN=ffh PE=3 SV=1 Back     alignment and function description

Close Homologs in the Non-Redundant Database Detected by BLAST ?

Original result of BLAST against Nonredundant Database

GI ?Alignment Graph ?Length ? Definition ? Q cover ? H cover ? Identity ? E-value ?
Query289
255578951 572 signal recognition particle protein, put 1.0 0.505 0.930 1e-148
224138482 576 predicted protein [Populus trichocarpa] 0.989 0.496 0.891 1e-147
359481606 567 PREDICTED: signal recognition particle 5 0.989 0.504 0.930 1e-146
3746964 564 signal recognition particle 54 kDa subun 1.0 0.512 0.858 1e-144
15237580 564 signal recognition particle subunit [Ara 1.0 0.512 0.858 1e-144
297810481 562 hypothetical protein ARALYDRAFT_487173 [ 1.0 0.514 0.858 1e-144
357511109 553 Signal recognition particle 54 kDa prote 0.986 0.515 0.884 1e-144
449451269 572 PREDICTED: signal recognition particle 5 0.996 0.503 0.913 1e-143
356572574 565 PREDICTED: signal recognition particle 5 0.989 0.506 0.895 1e-140
356505382 565 PREDICTED: signal recognition particle 5 0.989 0.506 0.895 1e-140
>gi|255578951|ref|XP_002530328.1| signal recognition particle protein, putative [Ricinus communis] gi|223530132|gb|EEF32044.1| signal recognition particle protein, putative [Ricinus communis] Back     alignment and taxonomy information
 Score =  531 bits (1367), Expect = e-148,   Method: Compositional matrix adjust.
 Identities = 269/289 (93%), Positives = 283/289 (97%)

Query: 1   MMDELKDVKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEIGITGAILTKLDGDSRGGAAL 60
           MMDELK+VKRVLNPTEVLLVVDAMTGQEAAALVTTFN+EIGITGAILTKLDGDSRGGAAL
Sbjct: 284 MMDELKEVKRVLNPTEVLLVVDAMTGQEAAALVTTFNLEIGITGAILTKLDGDSRGGAAL 343

Query: 61  SVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILGMGDVLSFVEKAQEVMQQEDAEEMQ 120
           SVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILGMGDVLSFVEKAQEVM+QEDAE++Q
Sbjct: 344 SVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILGMGDVLSFVEKAQEVMRQEDAEDLQ 403

Query: 121 KKIMSANFDFNDFLKQTRTVARMGSMSRVIGMIPGMGKITPAQVREAEKSLKIMEAMIEA 180
           KKIMSA FDFNDFLKQTR VARMGSM+RVIGMIPGMGK+TPAQ+REAEKSLKIME+MIEA
Sbjct: 404 KKIMSAKFDFNDFLKQTRAVARMGSMTRVIGMIPGMGKVTPAQIREAEKSLKIMESMIEA 463

Query: 181 MTPEEREKPELLAESPVRRKRVAQDSGKTEQQVSQLVAQLFQMRVRMKNLMGVMEGGSLP 240
           MTPEEREKPELLAESP RRKR+AQDSGKTEQQVSQLVAQLFQMRVRMKNLMGVMEGGS+P
Sbjct: 464 MTPEEREKPELLAESPTRRKRIAQDSGKTEQQVSQLVAQLFQMRVRMKNLMGVMEGGSIP 523

Query: 241 ALSNLEDALKSEQKAPPGTARRKRRSESRRQFVDPASTRPSPRGFGGGS 289
           ALSNLEDALK+EQKAPPGTARRKRRSESRRQF D AS+RPSPRGFG G+
Sbjct: 524 ALSNLEDALKAEQKAPPGTARRKRRSESRRQFADSASSRPSPRGFGSGN 572

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|224138482|ref|XP_002322825.1| predicted protein [Populus trichocarpa] gi|222867455|gb|EEF04586.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
>gi|359481606|ref|XP_002276439.2| PREDICTED: signal recognition particle 54 kDa protein, chloroplastic-like [Vitis vinifera] gi|297740127|emb|CBI30309.3| unnamed protein product [Vitis vinifera] Back     alignment and taxonomy information
>gi|3746964|gb|AAC64139.1| signal recognition particle 54 kDa subunit precursor [Arabidopsis thaliana] Back     alignment and taxonomy information
>gi|15237580|ref|NP_196014.1| signal recognition particle subunit [Arabidopsis thaliana] gi|586038|sp|P37107.1|SR54C_ARATH RecName: Full=Signal recognition particle 54 kDa protein, chloroplastic; Short=54 chloroplast protein; Short=54CP; Short=SRP54; Short=cpSRP54; AltName: Full=FFC; Flags: Precursor gi|396701|emb|CAA79981.1| 54CP [Arabidopsis thaliana] gi|7406404|emb|CAB85514.1| signal recognition particle 54CP protein precursor [Arabidopsis thaliana] gi|15293131|gb|AAK93676.1| putative signal recognition particle 54CP protein precursor [Arabidopsis thaliana] gi|24030445|gb|AAN41376.1| putative signal recognition particle 54CP protein precursor [Arabidopsis thaliana] gi|332003291|gb|AED90674.1| signal recognition particle subunit [Arabidopsis thaliana] Back     alignment and taxonomy information
>gi|297810481|ref|XP_002873124.1| hypothetical protein ARALYDRAFT_487173 [Arabidopsis lyrata subsp. lyrata] gi|297318961|gb|EFH49383.1| hypothetical protein ARALYDRAFT_487173 [Arabidopsis lyrata subsp. lyrata] Back     alignment and taxonomy information
>gi|357511109|ref|XP_003625843.1| Signal recognition particle 54 kDa protein [Medicago truncatula] gi|355500858|gb|AES82061.1| Signal recognition particle 54 kDa protein [Medicago truncatula] Back     alignment and taxonomy information
>gi|449451269|ref|XP_004143384.1| PREDICTED: signal recognition particle 54 kDa protein, chloroplastic-like [Cucumis sativus] gi|449482550|ref|XP_004156318.1| PREDICTED: signal recognition particle 54 kDa protein, chloroplastic-like [Cucumis sativus] Back     alignment and taxonomy information
>gi|356572574|ref|XP_003554443.1| PREDICTED: signal recognition particle 54 kDa protein, chloroplastic-like [Glycine max] Back     alignment and taxonomy information
>gi|356505382|ref|XP_003521470.1| PREDICTED: signal recognition particle 54 kDa protein, chloroplastic-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 ?
Query289
TAIR|locus:2150620564 CPSRP54 "chloroplast signal re 1.0 0.512 0.837 4.8e-126
TIGR_CMR|CHY_1434446 CHY_1434 "signal recognition p 0.799 0.517 0.545 2e-63
UNIPROTKB|Q97QD2523 ffh "Signal recognition partic 0.795 0.439 0.478 2.3e-56
TIGR_CMR|BA_3983449 BA_3983 "signal recognition pa 0.809 0.521 0.464 2.9e-55
UNIPROTKB|P0AGD7453 ffh [Escherichia coli K-12 (ta 0.851 0.543 0.448 1e-52
TIGR_CMR|GSU_0642452 GSU_0642 "signal recognition p 0.809 0.517 0.456 3.5e-52
TIGR_CMR|CBU_0450461 CBU_0450 "signal recognition p 0.795 0.498 0.465 9.2e-52
TIGR_CMR|SPO_3246510 SPO_3246 "signal recognition p 0.951 0.539 0.412 9.2e-52
TIGR_CMR|SO_1356457 SO_1356 "signal recognition pa 0.868 0.549 0.426 6.5e-51
TIGR_CMR|VC_0560461 VC_0560 "signal recognition pa 0.806 0.505 0.462 1.1e-50
TAIR|locus:2150620 CPSRP54 "chloroplast signal recognition particle 54 kDa subunit" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 1238 (440.9 bits), Expect = 4.8e-126, P = 4.8e-126
 Identities = 242/289 (83%), Positives = 267/289 (92%)

Query:     1 MMDELKDVKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEIGITGAILTKLDGDSRGGAAL 60
             MMDELKDVK+ LNPTEVLLVVDAMTGQEAAALVTTFN+EIGITGAILTKLDGDSRGGAAL
Sbjct:   276 MMDELKDVKKFLNPTEVLLVVDAMTGQEAAALVTTFNVEIGITGAILTKLDGDSRGGAAL 335

Query:    61 SVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILGMGDVLSFVEKAQEVMQQEDAEEMQ 120
             SVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILGMGDVLSFVEKA EVM+QEDAE++Q
Sbjct:   336 SVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILGMGDVLSFVEKATEVMRQEDAEDLQ 395

Query:   121 KKIMSANFDFNDFLKQTRTVARMGSMSRVIGMIPGMGKITPAQVREAEKSLKIMEAMIEA 180
             KKIMSA FDFNDFLKQTR VA+MGSM+RV+GMIPGMGK++PAQ+REAEK+L +MEAMIE 
Sbjct:   396 KKIMSAKFDFNDFLKQTRAVAKMGSMTRVLGMIPGMGKVSPAQIREAEKNLLVMEAMIEV 455

Query:   181 MTPEEREKPELLAESPVRRKRVAQDSGKTEQQVSQLVAQLFQMRVRMKNLMGVMEGGSLP 240
             MTPEERE+PELLAESP RRKR+A+DSGKTEQQVS LVAQ+FQMRV+MKNLMGVMEGGS+P
Sbjct:   456 MTPEERERPELLAESPERRKRIAKDSGKTEQQVSALVAQIFQMRVKMKNLMGVMEGGSIP 515

Query:   241 ALSNLEDALKSEQKAPPGTAXXXXXXXXXXQFVDPASTRPSPRGFGGGS 289
             ALS LEDALK+EQKAPPGTA          +FV+ AS++P PRGFG G+
Sbjct:   516 ALSGLEDALKAEQKAPPGTARRKRKADSRKKFVESASSKPGPRGFGSGN 564
GO:0000166 "nucleotide binding" evidence=IEA
GO:0003729 "mRNA binding" evidence=ISS
GO:0005048 "signal sequence binding" evidence=IDA
GO:0005525 "GTP binding" evidence=IEA;ISS
GO:0005737 "cytoplasm" evidence=ISM
GO:0005786 "signal recognition particle, endoplasmic reticulum targeting" evidence=ISS
GO:0006614 "SRP-dependent cotranslational protein targeting to membrane" evidence=IEA
GO:0006617 "SRP-dependent cotranslational protein targeting to membrane, signal sequence recognition" evidence=ISS
GO:0008312 "7S RNA binding" evidence=IEA;ISS
GO:0009570 "chloroplast stroma" evidence=IDA
GO:0017111 "nucleoside-triphosphatase activity" evidence=IEA
GO:0045038 "protein import into chloroplast thylakoid membrane" evidence=IDA
GO:0048500 "signal recognition particle" evidence=IEA
GO:0005515 "protein binding" evidence=IPI
GO:0080085 "signal recognition particle, chloroplast targeting" evidence=IMP
GO:0009507 "chloroplast" evidence=IDA
GO:0010267 "production of ta-siRNAs involved in RNA interference" evidence=RCA
GO:0019288 "isopentenyl diphosphate biosynthetic process, mevalonate-independent pathway" evidence=RCA
GO:0035196 "production of miRNAs involved in gene silencing by miRNA" evidence=RCA
GO:0051607 "defense response to virus" evidence=RCA
TIGR_CMR|CHY_1434 CHY_1434 "signal recognition particle protein" [Carboxydothermus hydrogenoformans Z-2901 (taxid:246194)] Back     alignment and assigned GO terms
UNIPROTKB|Q97QD2 ffh "Signal recognition particle protein" [Streptococcus pneumoniae TIGR4 (taxid:170187)] Back     alignment and assigned GO terms
TIGR_CMR|BA_3983 BA_3983 "signal recognition particle protein" [Bacillus anthracis str. Ames (taxid:198094)] Back     alignment and assigned GO terms
UNIPROTKB|P0AGD7 ffh [Escherichia coli K-12 (taxid:83333)] Back     alignment and assigned GO terms
TIGR_CMR|GSU_0642 GSU_0642 "signal recognition particle protein" [Geobacter sulfurreducens PCA (taxid:243231)] Back     alignment and assigned GO terms
TIGR_CMR|CBU_0450 CBU_0450 "signal recognition particle protein" [Coxiella burnetii RSA 493 (taxid:227377)] Back     alignment and assigned GO terms
TIGR_CMR|SPO_3246 SPO_3246 "signal recognition particle protein" [Ruegeria pomeroyi DSS-3 (taxid:246200)] Back     alignment and assigned GO terms
TIGR_CMR|SO_1356 SO_1356 "signal recognition particle protein Ffh" [Shewanella oneidensis MR-1 (taxid:211586)] Back     alignment and assigned GO terms
TIGR_CMR|VC_0560 VC_0560 "signal recognition particle protein" [Vibrio cholerae O1 biovar El Tor (taxid:686)] 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) ?
P37107SR54C_ARATHNo assigned EC number0.85811.00.5124yesno

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 ?
Query289
PRK10867433 PRK10867, PRK10867, signal recognition particle pr 1e-117
TIGR00959428 TIGR00959, ffh, signal recognition particle protei 1e-103
COG0541451 COG0541, Ffh, Signal recognition particle GTPase [ 1e-103
PRK00771437 PRK00771, PRK00771, signal recognition particle pr 1e-77
smart00962197 smart00962, SRP54, SRP54-type protein, GTPase doma 2e-46
pfam00448196 pfam00448, SRP54, SRP54-type protein, GTPase domai 1e-45
cd03115173 cd03115, SRP, The signal recognition particle (SRP 6e-36
TIGR01425429 TIGR01425, SRP54_euk, signal recognition particle 4e-34
COG0552340 COG0552, FtsY, Signal recognition particle GTPase 5e-29
pfam02978101 pfam02978, SRP_SPB, Signal peptide binding domain 9e-29
TIGR00064272 TIGR00064, ftsY, signal recognition particle-docki 6e-28
PRK14974336 PRK14974, PRK14974, cell division protein FtsY; Pr 2e-27
PRK10416318 PRK10416, PRK10416, signal recognition particle-do 4e-27
COG1419407 COG1419, FlhF, Flagellar GTP-binding protein [Cell 0.001
PRK05703424 PRK05703, flhF, flagellar biosynthesis regulator F 0.002
>gnl|CDD|236780 PRK10867, PRK10867, signal recognition particle protein; Provisional Back     alignment and domain information 
 Score =  342 bits (880), Expect = e-117
 Identities = 123/232 (53%), Positives = 171/232 (73%), Gaps = 5/232 (2%)

Query: 1   MMDELKDVKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEIGITGAILTKLDGDSRGGAAL 60
           +MDELK +K  +NP E+LLVVDAMTGQ+A      FN  +G+TG ILTKLDGD+RGGAAL
Sbjct: 201 LMDELKAIKAAVNPDEILLVVDAMTGQDAVNTAKAFNEALGLTGVILTKLDGDARGGAAL 260

Query: 61  SVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILGMGDVLSFVEKAQEVMQQEDAEEMQ 120
           S++ V+GKPIK +G GE+++DLEPF+PDRMA RILGMGDVLS +EKAQEV+ +E AE++ 
Sbjct: 261 SIRAVTGKPIKFIGTGEKLDDLEPFHPDRMASRILGMGDVLSLIEKAQEVVDEEKAEKLA 320

Query: 121 KKIMSANFDFNDFLKQTRTVARMGSMSRVIGMIPGMGKITPAQVREAEKSLKIMEAMIEA 180
           KK+    FD  DFL+Q + + +MG +  ++GM+PGMG +        +K LK +EA+I +
Sbjct: 321 KKLKKGKFDLEDFLEQLQQMKKMGGLGSLLGMLPGMGNMKAQL---DDKELKRIEAIINS 377

Query: 181 MTPEEREKPELLAESPVRRKRVAQDSGKTEQQVSQLVAQLFQMRVRMKNLMG 232
           MTP+ER  P++L  S  R++R+A+ SG T Q+V++L+ Q  QM+  MK + G
Sbjct: 378 MTPKERANPDILNGS--RKRRIAKGSGTTVQEVNRLLKQFEQMKKMMKKMKG 427

Length = 433
>gnl|CDD|233210 TIGR00959, ffh, signal recognition particle protein Back     alignment and domain information
>gnl|CDD|223615 COG0541, Ffh, Signal recognition particle GTPase [Intracellular trafficking and secretion] Back     alignment and domain information
>gnl|CDD|179118 PRK00771, PRK00771, signal recognition particle protein Srp54; Provisional Back     alignment and domain information
>gnl|CDD|214940 smart00962, SRP54, SRP54-type protein, GTPase domain Back     alignment and domain information
>gnl|CDD|215925 pfam00448, SRP54, SRP54-type protein, GTPase domain Back     alignment and domain information
>gnl|CDD|239389 cd03115, SRP, The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes Back     alignment and domain information
>gnl|CDD|130492 TIGR01425, SRP54_euk, signal recognition particle protein SRP54 Back     alignment and domain information
>gnl|CDD|223626 COG0552, FtsY, Signal recognition particle GTPase [Intracellular trafficking and secretion] Back     alignment and domain information
>gnl|CDD|202493 pfam02978, SRP_SPB, Signal peptide binding domain Back     alignment and domain information
>gnl|CDD|232804 TIGR00064, ftsY, signal recognition particle-docking protein FtsY Back     alignment and domain information
>gnl|CDD|237875 PRK14974, PRK14974, cell division protein FtsY; Provisional Back     alignment and domain information
>gnl|CDD|236686 PRK10416, PRK10416, signal recognition particle-docking protein FtsY; Provisional Back     alignment and domain information
>gnl|CDD|224337 COG1419, FlhF, Flagellar GTP-binding protein [Cell motility and secretion] Back     alignment and domain information
>gnl|CDD|235570 PRK05703, flhF, flagellar biosynthesis regulator FlhF; Validated Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 289
COG0541451 Ffh Signal recognition particle GTPase [Intracellu 100.0
KOG0780483 consensus Signal recognition particle, subunit Srp 100.0
PRK00771437 signal recognition particle protein Srp54; Provisi 100.0
PRK10867433 signal recognition particle protein; Provisional 100.0
TIGR01425429 SRP54_euk signal recognition particle protein SRP5 100.0
TIGR00959428 ffh signal recognition particle protein. This mode 100.0
PF02978104 SRP_SPB: Signal peptide binding domain; InterPro: 100.0
COG0552340 FtsY Signal recognition particle GTPase [Intracell 99.94
PF00448196 SRP54: SRP54-type protein, GTPase domain; InterPro 99.92
PRK14974336 cell division protein FtsY; Provisional 99.91
PRK06731270 flhF flagellar biosynthesis regulator FlhF; Valida 99.89
TIGR00064272 ftsY signal recognition particle-docking protein F 99.88
PRK10416318 signal recognition particle-docking protein FtsY; 99.88
PRK12723388 flagellar biosynthesis regulator FlhF; Provisional 99.87
PRK11889436 flhF flagellar biosynthesis regulator FlhF; Provis 99.87
COG1419407 FlhF Flagellar GTP-binding protein [Cell motility 99.85
PRK12726407 flagellar biosynthesis regulator FlhF; Provisional 99.84
PRK14723 767 flhF flagellar biosynthesis regulator FlhF; Provis 99.83
PRK14721420 flhF flagellar biosynthesis regulator FlhF; Provis 99.83
PRK12724432 flagellar biosynthesis regulator FlhF; Provisional 99.82
PRK14722374 flhF flagellar biosynthesis regulator FlhF; Provis 99.79
PRK06995484 flhF flagellar biosynthesis regulator FlhF; Valida 99.79
PRK05703424 flhF flagellar biosynthesis regulator FlhF; Valida 99.77
PRK12727559 flagellar biosynthesis regulator FlhF; Provisional 99.64
KOG0781587 consensus Signal recognition particle receptor, al 99.41
cd03115173 SRP The signal recognition particle (SRP) mediates 99.26
smart00053240 DYNc Dynamin, GTPase. Large GTPases that mediate v 91.73
PF02421156 FeoB_N: Ferrous iron transport protein B; InterPro 88.61
>COG0541 Ffh Signal recognition particle GTPase [Intracellular trafficking and secretion] Back     alignment and domain information 
Probab=100.00  E-value=1.6e-83  Score=625.12  Aligned_cols=231  Identities=52%  Similarity=0.898  Sum_probs=223.1

Q ss_pred             ChHHHHHHHHHhCCCeEEEEEeCcCcHHHHHHHHHhhhhcCCCeEEEecccCCCCCCccccceeccCCCeEEEecCCCCC
Q 022952            1 MMDELKDVKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERME   80 (289)
Q Consensus         1 Lm~ELk~i~~~~~P~ev~LVldAttgqda~~~a~~F~~~v~i~gvIlTKlDetargG~aLS~~~~t~~PI~FIgtGQkVd   80 (289)
                      ||+||++|+++++|+||+||+||++||||+++|++|+++++++|+|+||+|+|+|||+|||+++.|++||+||||||+++
T Consensus       200 Lm~El~~Ik~~~~P~E~llVvDam~GQdA~~~A~aF~e~l~itGvIlTKlDGdaRGGaALS~~~~tg~PIkFiGtGEki~  279 (451)
T COG0541         200 LMDELKEIKEVINPDETLLVVDAMIGQDAVNTAKAFNEALGITGVILTKLDGDARGGAALSARAITGKPIKFIGTGEKID  279 (451)
T ss_pred             HHHHHHHHHhhcCCCeEEEEEecccchHHHHHHHHHhhhcCCceEEEEcccCCCcchHHHhhHHHHCCCeEEEecCCCcc
Confidence            69999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCCCChhHHHHHhhCCCchhHHHHHHHHhccHHHHHHHHHHHHhCCcChHHHHHHHHHHHhcCchHHHHhcCCCCC-CC
Q 022952           81 DLEPFYPDRMAGRILGMGDVLSFVEKAQEVMQQEDAEEMQKKIMSANFDFNDFLKQTRTVARMGSMSRVIGMIPGMG-KI  159 (289)
Q Consensus        81 DLe~f~p~~la~rlLG~gDi~sLvEk~~~~~~~~~~~~~~~k~~~g~F~l~Df~~Q~~~i~kmG~l~~i~~miPG~~-~~  159 (289)
                      |||+|||+|||+||||||||.||+||+++++++++++++++|+++|+|||+|||+|+++|+||||+++|++||||++ ..
T Consensus       280 dLE~F~P~R~asRILGMGDv~sLvEk~~~~~d~e~a~~~~~kl~~g~FtL~Df~~Ql~~m~kmGpl~~ll~miPG~~~~~  359 (451)
T COG0541         280 DLEPFHPDRFASRILGMGDVLSLIEKAEEVVDEEEAEKLAEKLKKGKFTLEDFLEQLEQMKKMGPLSKLLSMIPGMGMKD  359 (451)
T ss_pred             cCCCcChHHHHHHhcCcccHHHHHHHHHHhhhHHHHHHHHHHHHhCCCCHHHHHHHHHHHHccCCHHHHHHhCCCCCCCC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999998 33


Q ss_pred             CchhhHHhHHHHHHHHHHHhCCCHHhhcCccccCCCchhhHHhhccCCCCHHHHHHHHHHHHHHHHHHHHHhcc
Q 022952          160 TPAQVREAEKSLKIMEAMIEAMTPEEREKPELLAESPVRRKRVAQDSGKTEQQVSQLVAQLFQMRVRMKNLMGV  233 (289)
Q Consensus       160 ~~~~~~~~e~~~k~~~~Ii~SMT~~Er~nP~li~~~~SR~~RIA~GSG~~~~eVn~Llk~f~~m~kmmk~~~~~  233 (289)
                      +.++.+.+|+++++|++||+|||++||+||+||+  +||++|||+||||+++|||+||+||++|++|||+|.++
T Consensus       360 ~~~~~~~~e~~~kr~~aIi~SMT~~Er~nP~ii~--~SR~rRIA~GSG~sv~dVn~Llkq~~~m~~mmk~m~~~  431 (451)
T COG0541         360 SDKDIELDEKKLKRIEAIIDSMTPEERENPDIIN--ASRKRRIARGSGTSVQDVNKLLKQFKQMKKMMKKMSGG  431 (451)
T ss_pred             chhhhhccHHHHHHHHHHHHcCCHHHhhCccccC--hHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHhCC
Confidence            3445667799999999999999999999999996  69999999999999999999999999999999999864

>KOG0780 consensus Signal recognition particle, subunit Srp54 [Intracellular trafficking, secretion, and vesicular transport] Back     alignment and domain information
>PRK00771 signal recognition particle protein Srp54; Provisional Back     alignment and domain information
>PRK10867 signal recognition particle protein; Provisional Back     alignment and domain information
>TIGR01425 SRP54_euk signal recognition particle protein SRP54 Back     alignment and domain information
>TIGR00959 ffh signal recognition particle protein Back     alignment and domain information
>PF02978 SRP_SPB: Signal peptide binding domain; InterPro: IPR004125 The signal recognition particle (SRP) is a multimeric protein, which along with its conjugate receptor (SR), is involved in targeting secretory proteins to the rough endoplasmic reticulum (RER) membrane in eukaryotes, or to the plasma membrane in prokaryotes [, ] Back     alignment and domain information
>COG0552 FtsY Signal recognition particle GTPase [Intracellular trafficking and secretion] Back     alignment and domain information
>PF00448 SRP54: SRP54-type protein, GTPase domain; InterPro: IPR000897 The signal recognition particle (SRP) is a multimeric protein, which along with its conjugate receptor (SR), is involved in targeting secretory proteins to the rough endoplasmic reticulum (RER) membrane in eukaryotes, or to the plasma membrane in prokaryotes [, ] Back     alignment and domain information
>PRK14974 cell division protein FtsY; Provisional Back     alignment and domain information
>PRK06731 flhF flagellar biosynthesis regulator FlhF; Validated Back     alignment and domain information
>TIGR00064 ftsY signal recognition particle-docking protein FtsY Back     alignment and domain information
>PRK10416 signal recognition particle-docking protein FtsY; Provisional Back     alignment and domain information
>PRK12723 flagellar biosynthesis regulator FlhF; Provisional Back     alignment and domain information
>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional Back     alignment and domain information
>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion] Back     alignment and domain information
>PRK12726 flagellar biosynthesis regulator FlhF; Provisional Back     alignment and domain information
>PRK14723 flhF flagellar biosynthesis regulator FlhF; Provisional Back     alignment and domain information
>PRK14721 flhF flagellar biosynthesis regulator FlhF; Provisional Back     alignment and domain information
>PRK12724 flagellar biosynthesis regulator FlhF; Provisional Back     alignment and domain information
>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional Back     alignment and domain information
>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated Back     alignment and domain information
>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated Back     alignment and domain information
>PRK12727 flagellar biosynthesis regulator FlhF; Provisional Back     alignment and domain information
>KOG0781 consensus Signal recognition particle receptor, alpha subunit [Intracellular trafficking, secretion, and vesicular transport] Back     alignment and domain information
>cd03115 SRP The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes Back     alignment and domain information
>smart00053 DYNc Dynamin, GTPase Back     alignment and domain information
>PF02421 FeoB_N: Ferrous iron transport protein B; InterPro: IPR011619 Escherichia coli has an iron(II) transport system (feo) which may make an important contribution to the iron supply of the cell under anaerobic conditions 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 ?
Query289
2j28_9430 Model Of E. Coli Srp Bound To 70s Rncs Length = 430 3e-55
2xxa_A433 The Crystal Structure Of The Signal Recognition Par 6e-55
2ffh_A425 The Signal Sequence Binding Protein Ffh From Thermu 3e-52
2iy3_A432 Structure Of The E. Coli Signal Recognition Particl 1e-42
2v3c_C432 Crystal Structure Of The Srp54-Srp19-7s.S Srp Rna C 9e-40
3ndb_B454 Crystal Structure Of A Signal Sequence Bound To The 9e-40
3dm5_A443 Structures Of Srp54 And Srp19, The Two Proteins Ass 2e-36
1rj9_B300 Structure Of The Heterodimer Of The Conserved Gtpas 1e-31
2c03_A297 Gdp Complex Of Srp Gtpase Ffh Ng Domain Length = 29 3e-31
1o87_A297 A New Mggdp Complex Of The Ffh Ng Domain Length = 2 3e-31
2j37_W504 Model Of Mammalian Srp Bound To 80s Rncs Length = 5 8e-31
1jpj_A296 Gmppnp Complex Of Srp Gtpase Ng Domain Length = 296 9e-31
1ls1_A295 T. Aquaticus Ffh Ng Domain At 1.1a Resolution Lengt 4e-30
1ffh_A294 N And Gtpase Domains Of The Signal Sequence Recogni 4e-30
3kl4_A433 Recognition Of A Signal Peptide By The Signal Recog 7e-30
1qzw_A440 Crystal Structure Of The Complete Core Of Archaeal 7e-30
2ng1_A293 N And Gtpase Domains Of The Signal Sequence Recogni 2e-29
3ng1_A294 N And Gtpase Domains Of The Signal Sequence Recogni 2e-29
2yhs_A503 Structure Of The E. Coli Srp Receptor Ftsy Length = 3e-17
2xxa_B302 The Crystal Structure Of The Signal Recognition Par 4e-17
2qy9_A309 Structure Of The Ng+1 Construct Of The E. Coli Srp 4e-17
1fts_A295 Signal Recognition Particle Receptor From E. Coli L 5e-17
3dmd_B328 Structures And Conformations In Solution Of The Sig 5e-16
1vma_A306 Crystal Structure Of Cell Division Protein Ftsy (Tm 9e-16
1j8y_F297 Signal Recognition Particle Conserved Gtpase Domain 1e-15
1j8m_F297 Signal Recognition Particle Conserved Gtpase Domain 1e-15
3b9q_A302 The Crystal Structure Of Cpftsy From Arabidopsis Th 1e-15
2og2_A359 Crystal Structure Of Chloroplast Ftsy From Arabidop 1e-15
4ak9_A318 Structure Of Chloroplast Ftsy From Physcomitrella P 2e-15
3dm9_B328 Structures And Conformations In Solution Of The Sig 6e-15
2cnw_D284 Gdpalf4 Complex Of The Srp Gtpases Ffh And Ftsy Len 1e-14
2j7p_D283 Gmppnp-Stabilized Ng Domain Complex Of The Srp Gtpa 1e-14
2q9a_A304 Structure Of Apo Ftsy Length = 304 1e-14
1rj9_A304 Structure Of The Heterodimer Of The Conserved Gtpas 1e-14
1okk_D303 Homo-Heterodimeric Complex Of The Srp Gtpases Lengt 1e-14
1hq1_A105 Structural And Energetic Analysis Of Rna Recognitio 1e-13
1zu4_A320 Crystal Structure Of Ftsy From Mycoplasma Mycoides- 1e-12
2pxb_A102 Variant 2 Of Ribonucleoprotein Core Of The E. Coli 7e-10
3lqx_A105 Srp Ribonucleoprotein Core Complexed With Cobalt He 9e-10
1mfq_C129 Crystal Structure Analysis Of A Ternary S-Domain Co 2e-06
1qb2_A109 Crystal Structure Of The Conserved Subdomain Of Hum 8e-06
2jqe_A119 Soution Structure Of Af54 M-Domain Length = 119 4e-04
2xkv_C69 Atomic Model Of The Srp-Ftsy Early Conformation Len 7e-04
>pdb|2J28|9 Chain 9, Model Of E. Coli Srp Bound To 70s Rncs Length = 430 Back     alignment and structure 
Iteration: 1

 Score =  211 bits (537), Expect = 3e-55,   Method: Compositional matrix adjust.
 Identities = 112/233 (48%), Positives = 158/233 (67%), Gaps = 6/233 (2%)
Query: 1   MMDELKDVKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEIGITGAILTKLDGDSRGGAAL 60
           MMDE+K V   +NP E L VVDAMTGQ+AA     FN  + +TG +LTK+DGD+RGGAAL
Sbjct: 200 MMDEIKQVHASINPVETLFVVDAMTGQDAANTAKAFNEALPLTGVVLTKVDGDARGGAAL 259
Query: 61  SVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILGMGDVLSFVEKAQEVMQQEDAEEMQ 120
           S++ ++GKPIK +G GE+ E LEPF+PDR+A RILGMGDVLS +E  +  + +  AE++ 
Sbjct: 260 SIRHITGKPIKFLGVGEKTEALEPFHPDRIASRILGMGDVLSLIEDIESKVDRAQAEKLA 319
Query: 121 KKIMSAN-FDFNDFLKQTRTVARMGSMSRVIGMIPGMGKITPAQVREA--EKSLKIMEAM 177
            K+   + FD NDFL+Q R +  MG M+ ++G +PGMG+I P  V+    +K L  MEA+
Sbjct: 320 SKLKKGDGFDLNDFLEQLRQMKNMGGMASLMGKLPGMGQI-PDNVKSQMDDKVLVRMEAI 378
Query: 178 IEAMTPEEREKPELLAESPVRRKRVAQDSGKTEQQVSQLVAQLFQMRVRMKNL 230
           I +MT +ER KPE++  S  R++R+A   G   Q V++L+ Q   M+  MK +
Sbjct: 379 INSMTMKERAKPEIIKGS--RKRRIAAGCGMQVQDVNRLLKQFDDMQRMMKKM 429
>pdb|2XXA|A Chain A, The Crystal Structure Of The Signal Recognition Particle (Srp) In Complex With Its Receptor(Sr) Length = 433 Back     alignment and structure
>pdb|2FFH|A Chain A, The Signal Sequence Binding Protein Ffh From Thermus Aquaticus Length = 425 Back     alignment and structure
>pdb|2IY3|A Chain A, Structure Of The E. Coli Signal Recognition Particle Bound To A Translating Ribosome Length = 432 Back     alignment and structure
>pdb|2V3C|C Chain C, Crystal Structure Of The Srp54-Srp19-7s.S Srp Rna Complex Of M. Jannaschii Length = 432 Back     alignment and structure
>pdb|3NDB|B Chain B, Crystal Structure Of A Signal Sequence Bound To The Signal Recognition Particle Length = 454 Back     alignment and structure
>pdb|3DM5|A Chain A, Structures Of Srp54 And Srp19, The Two Proteins Assembling The Ribonucleic Core Of The Signal Recognition Particle From The Archaeon Pyrococcus Furiosus. Length = 443 Back     alignment and structure
>pdb|1RJ9|B Chain B, Structure Of The Heterodimer Of The Conserved Gtpase Domains Signal Recognition Particle (Ffh) And Its Receptor (Ftsy) Length = 300 Back     alignment and structure
>pdb|2C03|A Chain A, Gdp Complex Of Srp Gtpase Ffh Ng Domain Length = 297 Back     alignment and structure
>pdb|1O87|A Chain A, A New Mggdp Complex Of The Ffh Ng Domain Length = 297 Back     alignment and structure
>pdb|2J37|W Chain W, Model Of Mammalian Srp Bound To 80s Rncs Length = 504 Back     alignment and structure
>pdb|1JPJ|A Chain A, Gmppnp Complex Of Srp Gtpase Ng Domain Length = 296 Back     alignment and structure
>pdb|1LS1|A Chain A, T. Aquaticus Ffh Ng Domain At 1.1a Resolution Length = 295 Back     alignment and structure
>pdb|1FFH|A Chain A, N And Gtpase Domains Of The Signal Sequence Recognition Protein Ffh From Thermus Aquaticus Length = 294 Back     alignment and structure
>pdb|3KL4|A Chain A, Recognition Of A Signal Peptide By The Signal Recognition Particle Length = 433 Back     alignment and structure
>pdb|1QZW|A Chain A, Crystal Structure Of The Complete Core Of Archaeal Srp And Implications For Inter-Domain Communication Length = 440 Back     alignment and structure
>pdb|2NG1|A Chain A, N And Gtpase Domains Of The Signal Sequence Recognition Protein Ffh From Thermus Aquaticus Length = 293 Back     alignment and structure
>pdb|3NG1|A Chain A, N And Gtpase Domains Of The Signal Sequence Recognition Protein Ffh From Thermus Aquaticus Length = 294 Back     alignment and structure
>pdb|2YHS|A Chain A, Structure Of The E. Coli Srp Receptor Ftsy Length = 503 Back     alignment and structure
>pdb|2XXA|B Chain B, The Crystal Structure Of The Signal Recognition Particle (Srp) In Complex With Its Receptor(Sr) Length = 302 Back     alignment and structure
>pdb|2QY9|A Chain A, Structure Of The Ng+1 Construct Of The E. Coli Srp Receptor Ftsy Length = 309 Back     alignment and structure
>pdb|1FTS|A Chain A, Signal Recognition Particle Receptor From E. Coli Length = 295 Back     alignment and structure
>pdb|3DMD|B Chain B, Structures And Conformations In Solution Of The Signal Recognition Particle Receptor From The Archaeon Pyrococcus Furiosus Length = 328 Back     alignment and structure
>pdb|1VMA|A Chain A, Crystal Structure Of Cell Division Protein Ftsy (Tm0570) From Thermotoga Maritima At 1.60 A Resolution Length = 306 Back     alignment and structure
>pdb|1J8Y|F Chain F, Signal Recognition Particle Conserved Gtpase Domain From A. Ambivalens T112a Mutant Length = 297 Back     alignment and structure
>pdb|1J8M|F Chain F, Signal Recognition Particle Conserved Gtpase Domain From A. Ambivalens Length = 297 Back     alignment and structure
>pdb|3B9Q|A Chain A, The Crystal Structure Of Cpftsy From Arabidopsis Thaliana Length = 302 Back     alignment and structure
>pdb|2OG2|A Chain A, Crystal Structure Of Chloroplast Ftsy From Arabidopsis Thaliana Length = 359 Back     alignment and structure
>pdb|4AK9|A Chain A, Structure Of Chloroplast Ftsy From Physcomitrella Patens Length = 318 Back     alignment and structure
>pdb|3DM9|B Chain B, Structures And Conformations In Solution Of The Signal Recognition Particle Receptor From The Archaeon Pyrococcus Furiosus Length = 328 Back     alignment and structure
>pdb|2CNW|D Chain D, Gdpalf4 Complex Of The Srp Gtpases Ffh And Ftsy Length = 284 Back     alignment and structure
>pdb|2J7P|D Chain D, Gmppnp-Stabilized Ng Domain Complex Of The Srp Gtpases Ffh And Ftsy Length = 283 Back     alignment and structure
>pdb|2Q9A|A Chain A, Structure Of Apo Ftsy Length = 304 Back     alignment and structure
>pdb|1RJ9|A Chain A, Structure Of The Heterodimer Of The Conserved Gtpase Domains Signal Recognition Particle (Ffh) And Its Receptor (Ftsy) Length = 304 Back     alignment and structure
>pdb|1OKK|D Chain D, Homo-Heterodimeric Complex Of The Srp Gtpases Length = 303 Back     alignment and structure
>pdb|1HQ1|A Chain A, Structural And Energetic Analysis Of Rna Recognition By A Universally Conserved Protein From The Signal Recognition Particle Length = 105 Back     alignment and structure
>pdb|1ZU4|A Chain A, Crystal Structure Of Ftsy From Mycoplasma Mycoides- Space Group P21212 Length = 320 Back     alignment and structure
>pdb|2PXB|A Chain A, Variant 2 Of Ribonucleoprotein Core Of The E. Coli Signal Recognition Particle Length = 102 Back     alignment and structure
>pdb|3LQX|A Chain A, Srp Ribonucleoprotein Core Complexed With Cobalt Hexammine Length = 105 Back     alignment and structure
>pdb|1MFQ|C Chain C, Crystal Structure Analysis Of A Ternary S-Domain Complex Of Human Signal Recognition Particle Length = 129 Back     alignment and structure
>pdb|1QB2|A Chain A, Crystal Structure Of The Conserved Subdomain Of Human Protein Srp54m At 2.1a Resolution: Evidence For The Mechanism Of Signal Peptide Binding Length = 109 Back     alignment and structure
>pdb|2JQE|A Chain A, Soution Structure Of Af54 M-Domain Length = 119 Back     alignment and structure
>pdb|2XKV|C Chain C, Atomic Model Of The Srp-Ftsy Early Conformation Length = 69 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 ?
Query289
2xxa_A433 Signal recognition particle protein; protein trans 1e-110
3kl4_A433 SRP54, signal recognition 54 kDa protein; signal r 1e-110
2ffh_A425 Protein (FFH); SRP54, signal recognition particle, 1e-107
3dm5_A443 SRP54, signal recognition 54 kDa protein; protein- 1e-107
2v3c_C432 SRP54, signal recognition 54 kDa protein; nucleoti 1e-106
2j37_W504 Signal recognition particle 54 kDa protein (SRP54) 1e-103
1ls1_A295 Signal recognition particle protein; FFH, SRP54, S 6e-57
1j8m_F297 SRP54, signal recognition 54 kDa protein; signalin 1e-54
3e70_C328 DPA, signal recognition particle receptor; FTSY, S 8e-33
2px0_A296 Flagellar biosynthesis protein FLHF; SRP GTPase, f 1e-32
1mfq_C129 SRP54, signal recognition particle 54KDA protein; 2e-31
2jqe_A119 SRP54, signal recognition 54 kDa protein; AF54, st 2e-30
1hq1_A105 Signal recognition particle protein; protein-RNA c 7e-28
1qb2_A109 SRP54, human signal recognition particle 54 KD pro 3e-26
3b9q_A302 Chloroplast SRP receptor homolog, alpha subunit CP 1e-25
1vma_A306 Cell division protein FTSY; TM0570, structural gen 2e-25
1rj9_A304 FTSY, signal recognition protein; SRP-GTPase domai 2e-25
1zu4_A320 FTSY; GTPase, signal recognition particle, SRP, re 6e-25
2og2_A359 Putative signal recognition particle receptor; nuc 8e-25
2yhs_A503 FTSY, cell division protein FTSY; cell cycle, prot 1e-22
1dul_A69 Signal recognition particle protein (fifty-four ho 2e-14
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 3e-08
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 1e-07
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 5e-06
>2xxa_A Signal recognition particle protein; protein transport, RNA/RNA binding protein, hydrolase, gtpas; HET: GCP; 3.94A {Escherichia coli} PDB: 2j28_9 Length = 433 Back     alignment and structure
 Score =  324 bits (833), Expect = e-110
 Identities = 111/234 (47%), Positives = 158/234 (67%), Gaps = 4/234 (1%)

Query: 1   MMDELKDVKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEIGITGAILTKLDGDSRGGAAL 60
           MMDE+K V   +NP E L VVDAMTGQ+AA     FN  + +TG +LTK+DGD+RGGAAL
Sbjct: 201 MMDEIKQVHASINPVETLFVVDAMTGQDAANTAKAFNEALPLTGVVLTKVDGDARGGAAL 260

Query: 61  SVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILGMGDVLSFVEKAQEVMQQEDAEEMQ 120
           S++ ++GKPIK +G GE+ E LEPF+PDR+A RILGMGDVLS +E  +  + +  AE++ 
Sbjct: 261 SIRHITGKPIKFLGVGEKTEALEPFHPDRIASRILGMGDVLSLIEDIESKVDRAQAEKLA 320

Query: 121 KKIMSAN-FDFNDFLKQTRTVARMGSMSRVIGMIPGMGKITP-AQVREAEKSLKIMEAMI 178
            K+   + FD NDFL+Q R +  MG M+ ++G +PGMG+I    + +  +K L  MEA+I
Sbjct: 321 SKLKKGDGFDLNDFLEQLRQMKNMGGMASLMGKLPGMGQIPDNVKSQMDDKVLVRMEAII 380

Query: 179 EAMTPEEREKPELLAESPVRRKRVAQDSGKTEQQVSQLVAQLFQMRVRMKNLMG 232
            +MT +ER KPE++  S  R++R+A  SG   Q V++L+ Q   M+  MK +  
Sbjct: 381 NSMTMKERAKPEIIKGS--RKRRIAAGSGMQVQDVNRLLKQFDDMQRMMKKMKK 432
>3kl4_A SRP54, signal recognition 54 kDa protein; signal recognition particle, SRP, SRP54, FFH, signal sequenc peptide; 3.50A {Sulfolobus solfataricus} PDB: 1qzx_A 1qzw_A Length = 433 Back     alignment and structure
>2ffh_A Protein (FFH); SRP54, signal recognition particle, GTPase, M domain, RNA-binding, signal sequence-binding, helix-turn-helix, protein targeting; 3.20A {Thermus aquaticus} SCOP: a.24.13.1 a.36.1.1 c.37.1.10 PDB: 2iy3_A Length = 425 Back     alignment and structure
>3dm5_A SRP54, signal recognition 54 kDa protein; protein-RNA, signal recognition particle, SRP-GTPase, protein targeting, cytoplasm, GTP-binding; HET: GDP; 2.51A {Pyrococcus furiosus} Length = 443 Back     alignment and structure
>2v3c_C SRP54, signal recognition 54 kDa protein; nucleotide-binding, signal recognition particle, GTP-binding, RNA-binding; 2.50A {Methanocaldococcus jannaschii} PDB: 3ndb_B Length = 432 Back     alignment and structure
>2j37_W Signal recognition particle 54 kDa protein (SRP54); ribosome, SRP, translation/RNA; 8.00A {Canis SP} PDB: 1wgw_A Length = 504 Back     alignment and structure
>1ls1_A Signal recognition particle protein; FFH, SRP54, SRP, GTPase, ultrahigh resolution, protein transport; 1.10A {Thermus aquaticus} SCOP: a.24.13.1 c.37.1.10 PDB: 1jpn_B* 1jpj_A* 1ry1_U* 2j45_A* 1o87_A* 2c04_A* 2j46_A* 1rj9_B* 2c03_A* 2j7p_A* 1okk_A* 2cnw_A* 1ng1_A* 2xkv_A 3ng1_A 1ffh_A 2ng1_A* Length = 295 Back     alignment and structure
>1j8m_F SRP54, signal recognition 54 kDa protein; signaling protein; 2.00A {Acidianus ambivalens} SCOP: a.24.13.1 c.37.1.10 PDB: 1j8y_F Length = 297 Back     alignment and structure
>3e70_C DPA, signal recognition particle receptor; FTSY, SRP-GTPase, protein-targeting, transport protein; HET: GDP; 1.97A {Pyrococcus furiosus} PDB: 3dmd_B 3dm9_B* Length = 328 Back     alignment and structure
>2px0_A Flagellar biosynthesis protein FLHF; SRP GTPase, flagellum, protein transport, biosynthetic protein; HET: GNP; 3.00A {Bacillus subtilis} PDB: 2px3_A* 3syn_A* Length = 296 Back     alignment and structure
>1mfq_C SRP54, signal recognition particle 54KDA protein; RNA-protein complex, A-minor motif, 3-helix junction, signaling protein/RNA complex; HET: CCC; 3.10A {Homo sapiens} SCOP: a.36.1.1 Length = 129 Back     alignment and structure
>2jqe_A SRP54, signal recognition 54 kDa protein; AF54, structure, solution, signaling protein; NMR {Archaeoglobus fulgidus} Length = 119 Back     alignment and structure
>1hq1_A Signal recognition particle protein; protein-RNA complex, double helix, tetraloop, internal loop, SRP, ribonucleoprotein; HET: CCC; 1.52A {Escherichia coli} SCOP: a.36.1.1 PDB: 3lqx_A* 2pxb_A 2pxd_A 2pxe_A 2pxf_A 2pxk_A 2pxl_A 2pxp_A 2pxq_A 2pxt_A 2pxu_A 2pxv_A Length = 105 Back     alignment and structure
>1qb2_A SRP54, human signal recognition particle 54 KD protein; alpha-helix, helix-turn-helix, signaling protein; 2.10A {Homo sapiens} SCOP: a.36.1.1 PDB: 1ry1_W* 2go5_W Length = 109 Back     alignment and structure
>3b9q_A Chloroplast SRP receptor homolog, alpha subunit CPFTSY; protein translocation, GTP-binding, nucleotide-binding, protein transport; 1.75A {Arabidopsis thaliana} Length = 302 Back     alignment and structure
>1vma_A Cell division protein FTSY; TM0570, structural genomics, JCS protein structure initiative, PSI, joint center for structu genomics; HET: CIT; 1.60A {Thermotoga maritima} SCOP: a.24.13.1 c.37.1.10 Length = 306 Back     alignment and structure
>1rj9_A FTSY, signal recognition protein; SRP-GTPase domain, heterodimer, nucleotide twinning, protein complex, protein transport; HET: GCP; 1.90A {Thermus aquaticus} SCOP: a.24.13.1 c.37.1.10 PDB: 2q9c_A* 2q9b_A* 2q9a_A* 1okk_D* 2xkv_D 2iyl_D* 2cnw_D* 2j7p_D* Length = 304 Back     alignment and structure
>1zu4_A FTSY; GTPase, signal recognition particle, SRP, receptor, protein transport; 1.95A {Mycoplasma mycoides} PDB: 1zu5_A Length = 320 Back     alignment and structure
>2og2_A Putative signal recognition particle receptor; nucleotide-binding, protein transport; 2.00A {Arabidopsis thaliana} Length = 359 Back     alignment and structure
>2yhs_A FTSY, cell division protein FTSY; cell cycle, protein targeting, simibi class GTPase, GTP-BIND membrane, nucleotide-binding; 1.60A {Escherichia coli} PDB: 2qy9_A 2xxa_B* 1fts_A Length = 503 Back     alignment and structure
>1dul_A Signal recognition particle protein (fifty-four homolog); protein-RNA complex, double helix, tetraloop, internal loop, SRP, ribonucleoprotein; HET: CCC; 1.80A {Escherichia coli} SCOP: a.36.1.1 PDB: 2xkv_C Length = 69 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
>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
>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

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query289
3dm5_A443 SRP54, signal recognition 54 kDa protein; protein- 100.0
3kl4_A433 SRP54, signal recognition 54 kDa protein; signal r 100.0
2ffh_A425 Protein (FFH); SRP54, signal recognition particle, 100.0
2xxa_A433 Signal recognition particle protein; protein trans 100.0
2v3c_C432 SRP54, signal recognition 54 kDa protein; nucleoti 100.0
2j37_W504 Signal recognition particle 54 kDa protein (SRP54) 100.0
2jqe_A119 SRP54, signal recognition 54 kDa protein; AF54, st 100.0
1mfq_C129 SRP54, signal recognition particle 54KDA protein; 100.0
1hq1_A105 Signal recognition particle protein; protein-RNA c 100.0
1qb2_A109 SRP54, human signal recognition particle 54 KD pro 100.0
1dul_A69 Signal recognition particle protein (fifty-four ho 99.94
1vma_A306 Cell division protein FTSY; TM0570, structural gen 99.86
3e70_C328 DPA, signal recognition particle receptor; FTSY, S 99.85
2yhs_A503 FTSY, cell division protein FTSY; cell cycle, prot 99.84
1ls1_A295 Signal recognition particle protein; FFH, SRP54, S 99.83
1zu4_A320 FTSY; GTPase, signal recognition particle, SRP, re 99.81
1rj9_A304 FTSY, signal recognition protein; SRP-GTPase domai 99.81
2og2_A359 Putative signal recognition particle receptor; nuc 99.79
1j8m_F297 SRP54, signal recognition 54 kDa protein; signalin 99.79
3b9q_A302 Chloroplast SRP receptor homolog, alpha subunit CP 99.77
2px0_A296 Flagellar biosynthesis protein FLHF; SRP GTPase, f 99.69
2e87_A357 Hypothetical protein PH1320; GTP-binding, GTPase, 90.93
3a1s_A258 Iron(II) transport protein B; FEOB, iron transport 85.68
>3dm5_A SRP54, signal recognition 54 kDa protein; protein-RNA, signal recognition particle, SRP-GTPase, protein targeting, cytoplasm, GTP-binding; HET: GDP; 2.51A {Pyrococcus furiosus} Back     alignment and structure
Probab=100.00  E-value=1.3e-71  Score=545.66  Aligned_cols=235  Identities=34%  Similarity=0.637  Sum_probs=204.4

Q ss_pred             ChHHHHHHHHHhCCCeEEEEEeCcCcHHHHHHHHHhhhhcCCCeEEEecccCCCCCCccccceeccCCCeEEEecCCCCC
Q 022952            1 MMDELKDVKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERME   80 (289)
Q Consensus         1 Lm~ELk~i~~~~~P~ev~LVldAttgqda~~~a~~F~~~v~i~gvIlTKlDetargG~aLS~~~~t~~PI~FIgtGQkVd   80 (289)
                      +|.||.++..+++|++++||+||++||++.++++.|++.++++|+|+||+|+++++|+++|+++.+++||+|+|+||+|+
T Consensus       200 lm~el~~i~~~~~pd~vlLVvDA~~gq~a~~~a~~f~~~~~i~gVIlTKlD~~~~gG~~ls~~~~~g~PI~fig~Ge~vd  279 (443)
T 3dm5_A          200 LIEEMKQISNVIHPHEVILVIDGTIGQQAYNQALAFKEATPIGSIIVTKLDGSAKGGGALSAVAATGAPIKFIGTGEKID  279 (443)
T ss_dssp             HHHHHHHHHHHHCCSEEEEEEEGGGGGGHHHHHHHHHHSCTTEEEEEECCSSCSSHHHHHHHHHTTCCCEEEEECSSSTT
T ss_pred             HHHHHHHHHHhhcCceEEEEEeCCCchhHHHHHHHHHhhCCCeEEEEECCCCcccccHHHHHHHHHCCCEEEEEcCCChH
Confidence            47899999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCCCChhHHHHHhhCCCchhHHHHHHHHhccHHH--HHHHHHHHHhCCcChHHHHHHHHHHHhcCchHHHHhcCCCCCC
Q 022952           81 DLEPFYPDRMAGRILGMGDVLSFVEKAQEVMQQED--AEEMQKKIMSANFDFNDFLKQTRTVARMGSMSRVIGMIPGMGK  158 (289)
Q Consensus        81 DLe~f~p~~la~rlLG~gDi~sLvEk~~~~~~~~~--~~~~~~k~~~g~F~l~Df~~Q~~~i~kmG~l~~i~~miPG~~~  158 (289)
                      ||++|+|++|+++||||||+++|+||+++.+++++  ++ +++||++|+|||+|||+|+++|+||||+++|++|||||++
T Consensus       280 dL~~f~~~~~~~~llg~gd~~~l~e~~~~~~~~~~~~~~-~~~k~~~~~f~l~d~~~q~~~~~kmg~~~~~~~m~pg~~~  358 (443)
T 3dm5_A          280 DIEPFDPPRFVSRLLGLGDIQGLLEKFKELEKEVEIKEE-DIERFLRGKFTLKDMYAQLEAMRKMGPLKQILRMIPGLGY  358 (443)
T ss_dssp             CEEECCHHHHHHHHTTTTCHHHHHHHHHHHHTTHHHHHH-HHHHHHTTCCCHHHHHHHHHHHHTTCC-------------
T ss_pred             HhhhCCHHHHHHHHcCCCcHHHHHHHHHHhhhhhHHHHH-HHHHHhhCCcCHHHHHHHHHHHHhccCHHHHHHHCCCchh
Confidence            99999999999999999999999999999999887  75 9999999999999999999999999999999999999984


Q ss_pred             -CCchhhHHhHHHHHHHHHHHhCCCHHhhcCccccCCCchhhHHhhccCCCCHHHHHHHHHHHHHHHHHHHHHhcccCCC
Q 022952          159 -ITPAQVREAEKSLKIMEAMIEAMTPEEREKPELLAESPVRRKRVAQDSGKTEQQVSQLVAQLFQMRVRMKNLMGVMEGG  237 (289)
Q Consensus       159 -~~~~~~~~~e~~~k~~~~Ii~SMT~~Er~nP~li~~~~SR~~RIA~GSG~~~~eVn~Llk~f~~m~kmmk~~~~~~~~~  237 (289)
                       +++...+.+++++++|++||+|||++||+||+||+  +||++|||+||||+++|||+||+||++|++|||+|.    +|
T Consensus       359 ~~~~~~~~~~~~~~~~~~~ii~smt~~e~~~p~~~~--~sr~~ria~gsg~~~~~v~~ll~~~~~~~~~~~~~~----~~  432 (443)
T 3dm5_A          359 SLPDDVISIGEERLKKFKVIMDSMTEEELLNPEIIN--YSRIKRIARGSGTSTKDVKELLDQYRQMKKLFKSMN----KR  432 (443)
T ss_dssp             ------CCCCHHHHHHHHHHHTTSCHHHHHCGGGCC--HHHHHHHHHHHTSCHHHHHHHHHHHHHHHHHHHTCC----SC
T ss_pred             hcchhhhhhhHHHHHHHHHHHHcCCHHHhcCchhcC--hHHHHHHHccCCCCHHHHHHHHHHHHHHHHHHHHHc----CC
Confidence             55444456789999999999999999999999995  799999999999999999999999999988888764    45


Q ss_pred             CCCch
Q 022952          238 SLPAL  242 (289)
Q Consensus       238 ~~~~~  242 (289)
                      ++++|
T Consensus       433 ~~~~~  437 (443)
T 3dm5_A          433 QLSRL  437 (443)
T ss_dssp             CCC--
T ss_pred             CHHHH
Confidence            55543
>3kl4_A SRP54, signal recognition 54 kDa protein; signal recognition particle, SRP, SRP54, FFH, signal sequenc peptide; 3.50A {Sulfolobus solfataricus} PDB: 1qzx_A 1qzw_A Back     alignment and structure
>2ffh_A Protein (FFH); SRP54, signal recognition particle, GTPase, M domain, RNA-binding, signal sequence-binding, helix-turn-helix, protein targeting; 3.20A {Thermus aquaticus} SCOP: a.24.13.1 a.36.1.1 c.37.1.10 PDB: 2iy3_A Back     alignment and structure
>2xxa_A Signal recognition particle protein; protein transport, RNA/RNA binding protein, hydrolase, gtpas; HET: GCP; 3.94A {Escherichia coli} PDB: 2j28_9 Back     alignment and structure
>2v3c_C SRP54, signal recognition 54 kDa protein; nucleotide-binding, signal recognition particle, GTP-binding, RNA-binding; 2.50A {Methanocaldococcus jannaschii} PDB: 3ndb_B Back     alignment and structure
>2j37_W Signal recognition particle 54 kDa protein (SRP54); ribosome, SRP, translation/RNA; 8.00A {Canis SP} PDB: 1wgw_A Back     alignment and structure
>2jqe_A SRP54, signal recognition 54 kDa protein; AF54, structure, solution, signaling protein; NMR {Archaeoglobus fulgidus} Back     alignment and structure
>1mfq_C SRP54, signal recognition particle 54KDA protein; RNA-protein complex, A-minor motif, 3-helix junction, signaling protein/RNA complex; HET: CCC; 3.10A {Homo sapiens} SCOP: a.36.1.1 Back     alignment and structure
>1hq1_A Signal recognition particle protein; protein-RNA complex, double helix, tetraloop, internal loop, SRP, ribonucleoprotein; HET: CCC; 1.52A {Escherichia coli} SCOP: a.36.1.1 PDB: 3lqx_A* 2pxb_A 2pxd_A 2pxe_A 2pxf_A 2pxk_A 2pxl_A 2pxp_A 2pxq_A 2pxt_A 2pxu_A 2pxv_A Back     alignment and structure
>1qb2_A SRP54, human signal recognition particle 54 KD protein; alpha-helix, helix-turn-helix, signaling protein; 2.10A {Homo sapiens} SCOP: a.36.1.1 PDB: 1ry1_W* 2go5_W Back     alignment and structure
>1dul_A Signal recognition particle protein (fifty-four homolog); protein-RNA complex, double helix, tetraloop, internal loop, SRP, ribonucleoprotein; HET: CCC; 1.80A {Escherichia coli} SCOP: a.36.1.1 PDB: 2xkv_C Back     alignment and structure
>1vma_A Cell division protein FTSY; TM0570, structural genomics, JCS protein structure initiative, PSI, joint center for structu genomics; HET: CIT; 1.60A {Thermotoga maritima} SCOP: a.24.13.1 c.37.1.10 Back     alignment and structure
>3e70_C DPA, signal recognition particle receptor; FTSY, SRP-GTPase, protein-targeting, transport protein; HET: GDP; 1.97A {Pyrococcus furiosus} PDB: 3dmd_B 3dm9_B* Back     alignment and structure
>2yhs_A FTSY, cell division protein FTSY; cell cycle, protein targeting, simibi class GTPase, GTP-BIND membrane, nucleotide-binding; 1.60A {Escherichia coli} PDB: 2qy9_A 2xxa_B* 1fts_A Back     alignment and structure
>1ls1_A Signal recognition particle protein; FFH, SRP54, SRP, GTPase, ultrahigh resolution, protein transport; 1.10A {Thermus aquaticus} SCOP: a.24.13.1 c.37.1.10 PDB: 1jpn_B* 1jpj_A* 1ry1_U* 2j45_A* 1o87_A* 2c04_A* 2j46_A* 1rj9_B* 2c03_A* 2j7p_A* 1okk_A* 2cnw_A* 1ng1_A* 2xkv_A 3ng1_A 1ffh_A 2ng1_A* Back     alignment and structure
>1zu4_A FTSY; GTPase, signal recognition particle, SRP, receptor, protein transport; 1.95A {Mycoplasma mycoides} PDB: 1zu5_A Back     alignment and structure
>1rj9_A FTSY, signal recognition protein; SRP-GTPase domain, heterodimer, nucleotide twinning, protein complex, protein transport; HET: GCP; 1.90A {Thermus aquaticus} SCOP: a.24.13.1 c.37.1.10 PDB: 2q9c_A* 2q9b_A* 2q9a_A* 1okk_D* 2xkv_D 2iyl_D* 2cnw_D* 2j7p_D* Back     alignment and structure
>2og2_A Putative signal recognition particle receptor; nucleotide-binding, protein transport; 2.00A {Arabidopsis thaliana} Back     alignment and structure
>1j8m_F SRP54, signal recognition 54 kDa protein; signaling protein; 2.00A {Acidianus ambivalens} SCOP: a.24.13.1 c.37.1.10 PDB: 1j8y_F Back     alignment and structure
>3b9q_A Chloroplast SRP receptor homolog, alpha subunit CPFTSY; protein translocation, GTP-binding, nucleotide-binding, protein transport; 1.75A {Arabidopsis thaliana} Back     alignment and structure
>2px0_A Flagellar biosynthesis protein FLHF; SRP GTPase, flagellum, protein transport, biosynthetic protein; HET: GNP; 3.00A {Bacillus subtilis} PDB: 2px3_A* 3syn_A* Back     alignment and structure
>2e87_A Hypothetical protein PH1320; GTP-binding, GTPase, OBG, bundle, GDP, complex, structural G NPPSFA; HET: GDP; 2.35A {Pyrococcus horikoshii} Back     alignment and structure
>3a1s_A Iron(II) transport protein B; FEOB, iron transporter, small GTPase, G protein, GDI; HET: GDP; 1.50A {Thermotoga maritima} PDB: 3a1t_A* 3a1u_A* 3a1v_A* 3a1w_A 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 289
d1ls1a2207 c.37.1.10 (A:89-295) GTPase domain of the signal s 2e-32
d1j8yf2211 c.37.1.10 (F:87-297) GTPase domain of the signal s 5e-29
d1okkd2207 c.37.1.10 (D:97-303) GTPase domain of the signal r 6e-28
d1qzxa2138 a.36.1.1 (A:295-432) Signal sequence binding prote 7e-28
d2qy9a2211 c.37.1.10 (A:285-495) GTPase domain of the signal 7e-27
d1vmaa2213 c.37.1.10 (A:82-294) GTPase domain of the signal r 4e-24
d1hq1a_104 a.36.1.1 (A:) Signal sequence binding protein Ffh 1e-21
d1qb2a_107 a.36.1.1 (A:) SRP54M {Human (Homo sapiens) [TaxId: 1e-21
d2ffha2100 a.36.1.1 (A:319-418) Signal sequence binding prote 1e-19
d1dula_69 a.36.1.1 (A:) Signal sequence binding protein Ffh 3e-17
>d1ls1a2 c.37.1.10 (A:89-295) GTPase domain of the signal sequence recognition protein Ffh {Thermus aquaticus [TaxId: 271]} Length = 207 Back     information, alignment and structure

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal sequence recognition protein Ffh
species: Thermus aquaticus [TaxId: 271]

 Score =  116 bits (292), Expect = 2e-32
 Identities = 61/98 (62%), Positives = 77/98 (78%)

Query: 1   MMDELKDVKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEIGITGAILTKLDGDSRGGAAL 60
           +M EL  +K VL P EVLLV+DAMTGQEA ++   F+ ++G+TG +LTKLDGD+RGGAAL
Sbjct: 110 LMGELARLKEVLGPDEVLLVLDAMTGQEALSVARAFDEKVGVTGLVLTKLDGDARGGAAL 169

Query: 61  SVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILGMG 98
           S + V+GKPI   G  E+ E LEPFYP+R+AGRILGMG
Sbjct: 170 SARHVTGKPIYFAGVSEKPEGLEPFYPERLAGRILGMG 207
>d1j8yf2 c.37.1.10 (F:87-297) GTPase domain of the signal sequence recognition protein Ffh {Archaeon Acidianus ambivalens [TaxId: 2283]} Length = 211 Back     information, alignment and structure
>d1okkd2 c.37.1.10 (D:97-303) GTPase domain of the signal recognition particle receptor FtsY {Thermus aquaticus [TaxId: 271]} Length = 207 Back     information, alignment and structure
>d1qzxa2 a.36.1.1 (A:295-432) Signal sequence binding protein Ffh {Archaeon Sulfolobus solfataricus [TaxId: 2287]} Length = 138 Back     information, alignment and structure
>d2qy9a2 c.37.1.10 (A:285-495) GTPase domain of the signal recognition particle receptor FtsY {Escherichia coli [TaxId: 562]} Length = 211 Back     information, alignment and structure
>d1vmaa2 c.37.1.10 (A:82-294) GTPase domain of the signal recognition particle receptor FtsY {Thermotoga maritima [TaxId: 2336]} Length = 213 Back     information, alignment and structure
>d1hq1a_ a.36.1.1 (A:) Signal sequence binding protein Ffh {Escherichia coli [TaxId: 562]} Length = 104 Back     information, alignment and structure
>d1qb2a_ a.36.1.1 (A:) SRP54M {Human (Homo sapiens) [TaxId: 9606]} Length = 107 Back     information, alignment and structure
>d2ffha2 a.36.1.1 (A:319-418) Signal sequence binding protein Ffh {Thermus aquaticus [TaxId: 271]} Length = 100 Back     information, alignment and structure
>d1dula_ a.36.1.1 (A:) Signal sequence binding protein Ffh {Escherichia coli [TaxId: 562]} Length = 69 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 ?
Query289
d1qzxa2138 Signal sequence binding protein Ffh {Archaeon Sulf 100.0
d1hq1a_104 Signal sequence binding protein Ffh {Escherichia c 100.0
d2ffha2100 Signal sequence binding protein Ffh {Thermus aquat 100.0
d1qb2a_107 SRP54M {Human (Homo sapiens) [TaxId: 9606]} 100.0
d1dula_69 Signal sequence binding protein Ffh {Escherichia c 99.94
d1ls1a2207 GTPase domain of the signal sequence recognition p 99.93
d2qy9a2211 GTPase domain of the signal recognition particle r 99.92
d1vmaa2213 GTPase domain of the signal recognition particle r 99.91
d1j8yf2211 GTPase domain of the signal sequence recognition p 99.91
d1okkd2207 GTPase domain of the signal recognition particle r 99.9
>d1qzxa2 a.36.1.1 (A:295-432) Signal sequence binding protein Ffh {Archaeon Sulfolobus solfataricus [TaxId: 2287]} Back     information, alignment and structure
class: All alpha proteins
fold: Signal peptide-binding domain
superfamily: Signal peptide-binding domain
family: Signal peptide-binding domain
domain: Signal sequence binding protein Ffh
species: Archaeon Sulfolobus solfataricus [TaxId: 2287]

Probab=100.00  E-value=1.4e-46  Score=316.23  Aligned_cols=131  Identities=25%  Similarity=0.447  Sum_probs=116.5

Q ss_pred             CchhHHHHHHHHhccHHHHHHHHHHHH--hCCcChHHHHHHHHHHHhcCchHHHHhcCCCCCCCC----chhhHHhHHHH
Q 022952           98 GDVLSFVEKAQEVMQQEDAEEMQKKIM--SANFDFNDFLKQTRTVARMGSMSRVIGMIPGMGKIT----PAQVREAEKSL  171 (289)
Q Consensus        98 gDi~sLvEk~~~~~~~~~~~~~~~k~~--~g~F~l~Df~~Q~~~i~kmG~l~~i~~miPG~~~~~----~~~~~~~e~~~  171 (289)
                      |||++|||++++++++++++++.+++.  +|+|||+|||+|+++|.||||+++|++||||++++.    ..+++.+++++
T Consensus         1 GDv~sLvEk~~~~~~~e~~~~~~~~~~~~~G~Ftl~Df~~Q~~~i~kmG~l~~im~miPG~~~~~~~~~~~~~~~~e~~l   80 (138)
T d1qzxa2           1 GDIESILEKVKGLEEYDKIQKKMEDVMEGKGKLTLRDVYAQIIALRKMGPLSKVLQHIPGLGIMLPTPSEDQLKIGEEKI   80 (138)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHC-------CCCSTTHHHHHHHHHSCSSHHHHTTCCCSSCSCSCSTTSCSSCCSSTH
T ss_pred             CChHHHHHHHHHhhcHHHHHHHHHHHHhccCCccHHHHHHHHHHHHccCcHHHHHHHHHhhcccccchhhhcccccHHHH
Confidence            899999999999999999999999987  699999999999999999999999999999998663    22344567899


Q ss_pred             HHHHHHHhCCCHHhhcCccccCCCchhhHHhhccCCCCHHHHHHHHHHHHHHHHHHHHH
Q 022952          172 KIMEAMIEAMTPEEREKPELLAESPVRRKRVAQDSGKTEQQVSQLVAQLFQMRVRMKNL  230 (289)
Q Consensus       172 k~~~~Ii~SMT~~Er~nP~li~~~~SR~~RIA~GSG~~~~eVn~Llk~f~~m~kmmk~~  230 (289)
                      ++|++||+|||++||+||++|+  +||++|||+|||++++|||+||++|++|++|||+|
T Consensus        81 k~~~~Ii~SMT~~Er~~P~il~--~SR~~RIA~GSG~~~~eV~~Llkqf~~m~kmmK~m  137 (138)
T d1qzxa2          81 RRWLAALNSMTYKELENPNIID--KSRMRRIAEGSGLEVEEVRELLEWYNNMNRLLKMV  137 (138)
T ss_dssp             HHHTHHHHSCBHHHHHCGGGCC--HHHHHHHHHHHTCCHHHHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHccHHHHcCccccc--hHHHHHHhccCCCCHHHHHHHHHHHHHHHHHHHhc
Confidence            9999999999999999999995  69999999999999999999999999999998875
>d1hq1a_ a.36.1.1 (A:) Signal sequence binding protein Ffh {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d2ffha2 a.36.1.1 (A:319-418) Signal sequence binding protein Ffh {Thermus aquaticus [TaxId: 271]} Back     information, alignment and structure
>d1qb2a_ a.36.1.1 (A:) SRP54M {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1dula_ a.36.1.1 (A:) Signal sequence binding protein Ffh {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d1ls1a2 c.37.1.10 (A:89-295) GTPase domain of the signal sequence recognition protein Ffh {Thermus aquaticus [TaxId: 271]} Back     information, alignment and structure
>d2qy9a2 c.37.1.10 (A:285-495) GTPase domain of the signal recognition particle receptor FtsY {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d1vmaa2 c.37.1.10 (A:82-294) GTPase domain of the signal recognition particle receptor FtsY {Thermotoga maritima [TaxId: 2336]} Back     information, alignment and structure
>d1j8yf2 c.37.1.10 (F:87-297) GTPase domain of the signal sequence recognition protein Ffh {Archaeon Acidianus ambivalens [TaxId: 2283]} Back     information, alignment and structure
>d1okkd2 c.37.1.10 (D:97-303) GTPase domain of the signal recognition particle receptor FtsY {Thermus aquaticus [TaxId: 271]} Back     information, alignment and structure