Citrus Sinensis ID: 004335

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-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-------400-------410-------420-------430-------440-------450-------460-------470-------480-------490-------500-------510-------520-------530-------540-------550-------560-------570-------580-------590-------600-------610-------620-------630-------640-------650-------660-------670-------680-------690-------700-------710-------720-------730-------740-------750-------760
MNISEAPEANGSADVHVDPCVMDPQDIALISNNGPAAVSFSSSPCPDGTETSRNPRIDDTNSKNAGLEDVASVSAASQSDVSRAESRMRKKQEEQKYQGRIMMQQYPSAQQGFQYQVQGVQGQAVSLGMNNAHNGMDKNSYGHGKFSSFEAQPSMNSPGLTPPLYASAGTYMPSGNPFYPSFQPSGAGVYPSQYNVGGYALNSALFPPFVAGYPSQGPVPMPFDATSGSSFNIRTTSVSTGEGIPHIGSTQHQKFYGHQGLMLQSPFVDPLHMQYFQHPFGDAYNASVQHRLASSGVNGALADPSSKKEPIVAAYMGDQNLQSSLNGGPSISNPRKVGMPVGGYYGGLPGMGVMGQFPTSPIASPVLPSSPVGSTSQLGLRHEMRLPQGLNRNTGIYSGWQGQRTFEGQRTFEDSKKHSFLEELKSSNAQKFELSDIAGRIVEFSVDQHGSRFIQQKLEHCSAEEKVSVFKEVLPHASKLMTDVFGNYVIQKFFEHGSPDQRKELAEKLVGQVLPLSLQMYGCRVIQKALEVIELHQKSQLVLELDGHVMRCVRDQNGNHVIQKCIECVPAEKIEFIISAFRGQVATLSTHPYGCRVIQRVLEHCSDEQQGQCIVDEILESAFALAQDQYGNYVTQHVLERGKSYERTQILSKLAGKIVQMSQHKYASNVVEKCLEYGDTAERELLIEEILGQSEENDNLLVMMKDQYANYVVQKILEKCNEKLRETLISRIRVHCDALKKYTYGKHIVARFEQLYGEGA
ccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHcHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHccccccccccccHHHHHHccccHHcHHHHHHHHcccHHHHHHHHHHHHHHHHHHccccccHHHHHHHHHcccHHHHHHHHHHHHHcHHHHcccccHHHHHHHHHHHccHHHHHHHHHHHHHcccccccccccHHHHHHHHHcccccHHHHHHHHHHHcHHHHccccHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHccccccHHHHHHHHcccHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHccc
cccccccccccccccccccccccccccEEccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHcccccccccccccccccccccccccccccccccccccccccHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHccccccccHHHHcccHHHHHccHHHHHHHHHHHccccHHHHHHHHHHHcccHHHHHccccHHHHHHHHHHHccHHHHHHHHHHHcccHHHHHccccHHHHHHHHHHHccHHHHHHHHHHHcccHHHHHccccHHHHHHHHHHHccHHHHHHHHHHHcccHHHHHccccHHHHHHHHHHHccHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHccHHHHHHHHHHHcccHHHHHccccHHHHHHHHHHHccHHHHHHHHHHHHHcEEccEEHHHHHHcccHHHHHHHHHHHccHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHccHccc
mniseapeangsadvhvdpcvmdpqdialisnngpaavsfssspcpdgtetsrnpriddtnsknagledvasvsaasqsdVSRAESRMRKKQEEQKYQGRImmqqypsaqqgfQYQVQGVQGQAVSLgmnnahngmdknsyghgkfssfeaqpsmnspgltpplyasagtympsgnpfypsfqpsgagvypsqynvggyalnsalfppfvagypsqgpvpmpfdatsgssfnirttsvstgegiphigstqhqkfyghqglmlqspfvdplhmqyfqhpfgdayNASVQHRLAssgvngaladpsskkepivaaymgdqnlqsslnggpsisnprkvgmpvggyygglpgmgvmgqfptspiaspvlpsspvgstsqlglrhemrlpqglnrntgiysgwqgqrtfegqrtfedskkHSFLEELkssnaqkfelsdiagrIVEFSVDQHGSRFIQQKLEHCSAEEKVSVFKEVLPHASKLMTDVFGNYVIQKFFEHGSPDQRKELAEKLVGQVLPLSLQMYGCRVIQKALEVIELHQKSQLVLELDGHVMrcvrdqngnhVIQKCIECVPAEKIEFIISAFRGQVAtlsthpygcRVIQRVLEhcsdeqqgQCIVDEILESAFALAQDQYGNYVTQHVLERGKSYERTQILSKLAGKIVQMSQHKYASNVVEKCLEYGDTAERELLIEEILGQSEENDNLLVMMKDQYANYVVQKILEKCNEKLRETLISRIRVHCDAlkkytygkHIVARFEQLYGEGA
mniseapeangsadvhvDPCVMDPQDIALISNNGPAAvsfssspcpdgtetsrnpriddtnsknagledvasvsaasqsdvsraesrmrKKQEEQKYQGRIMMQQYPSAQQGFQYQVQGVQGQAVSLGMNNAHNGMDKNSYGHGKFSSFEAQPSMNSPGLTPPLYASAGTYMPSGNPFYPSFQPSGAGVYPSQYNVGGYALNSALFPPFVAGYPSQGPVPMPFDATSGSSFNIRTTSVSTGEGIPHIGSTQHQKFYGHQGLMLQSPFVDPLHMQYFQHPFGDAYNASVQHRLASSGVNGALADPSSKKEPIVAAYMGDQNLQSSLNGGPSISNPRKVGMPVGGYYGGLPGMGVMGQFPTSPIASPVLPSSPVGSTSQLGLRHEMRLPQGLNRNTGIYSGWQGQRTFEGQRTFEDSKKHSFLEelkssnaqkfELSDIAGRIVEFSVDQHGSRFIQQKLEHCSAEEKVSVFKEVLPHASKLMTDVFGNYVIQKFFEHGSPDQRKELAEKLVGQVLPLSLQMYGCRVIQKALEVIELHQKSQLVLELDGHVMRCVRDQNGNHVIQKCIECVPAEKIEFIISAFRGQVATLSTHPYGCRVIQRVLEHCSDEQQGQCIVDEILESAFALAQDQYGNYVTQHVLERGKSYERTQILSKLAGKIVQMSQHKYASNVVEKCLEYGDTAERELLIEEILGQSEENDNLLVMMKDQYANYVVQKILEKCNEKLRETLISRIRVHCDALKKYTYGKHIVARFEQLYGEGA
MNISEAPEANGSADVHVDPCVMDPQDIALISNNGPAAVSFSSSPCPDGTETSRNPRIDDTNSKNAGLEdvasvsaasqsdvsRAESRMRKKQEEQKYQGRIMMQQYPSAqqgfqyqvqgvqgqavSLGMNNAHNGMDKNSYGHGKFSSFEAQPSMNSPGLTPPLYASAGTYMPSGNPFYPSFQPSGAGVYPSQYNVGGYALNSALFPPFVAGYPSQGPVPMPFDATSGSSFNIRTTSVSTGEGIPHIGSTQHQKFYGHQGLMLQSPFVDPLHMQYFQHPFGDAYNASVQHRLASSGVNGALADPSSKKEPIVAAYMGDQNLQSSLNGGPSISNPRKvgmpvggyygglpgmgvmgQFPTSPIASPVLPSSPVGSTSQLGLRHEMRLPQGLNRNTGIYSGWQGQRTFEGQRTFEDSKKHSFLEELKSSNAQKFELSDIAGRIVEFSVDQHGSRFIQQKLEHCSAEEKVSVFKEVLPHASKLMTDVFGNYVIQKFFEHGSPDQRKELAEKLVGQVLPLSLQMYGCRVIQKALEVIELHQKSQLVLELDGHVMRCVRDQNGNHVIQKCIECVPAEKIEFIISAFRGQVATLSTHPYGCRVIQRVLEHCSDEQQGQCIVDEILESAFALAQDQYGNYVTQHVLERGKSYERTQILSKLAGKIVQMSQHKYASNVVEKCLEYGDTAERELLIEEILGQSEENDNLLVMMKDQYANYVVQKILEKCNEKLRETLISRIRVHCDALKKYTYGKHIVARFEQLYGEGA
*********************************************************************************************************************************************************************************FYPSFQPSGAGVYPSQYNVGGYALNSALFPPFVAGYP*****************************IPHIGSTQHQKFYGHQGLMLQSPFVDPLHMQYFQHPFGDAYNASVQH************************************************MPVGGYYGGLPGMGVMG**************************************TGIYSGWQ*******************************ELSDIAGRIVEFSVDQHGSRFIQQKLEHCSAEEKVSVFKEVLPHASKLMTDVFGNYVIQKFFEHG******ELAEKLVGQVLPLSLQMYGCRVIQKALEVIELHQKSQLVLELDGHVMRCVRDQNGNHVIQKCIECVPAEKIEFIISAFRGQVATLSTHPYGCRVIQRVLEHCSDEQQGQCIVDEILESAFALAQDQYGNYVTQHVLERGKSYERTQILSKLAGKIVQMSQHKYASNVVEKCLEYGDTAERELLIEEILGQSEENDNLLVMMKDQYANYVVQKILEKCNEKLRETLISRIRVHCDALKKYTYGKHIVARFEQLY****
********************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************AQKFELSDIAGRIVEFSVDQHGSRFIQQKLEHCSAEEKVSVFKEVLPHASKLMTDVFGNYVIQKFFEHGSPDQRKELAEKLVGQVLPLSLQMYGCRVIQKALEVIELHQKSQLVLELDGHVMRCVRDQNGNHVIQKCIECVPAEKIEFIISAFRGQVATLSTHPYGCRVIQRVLEHCSDEQQGQCIVDEILESAFALAQDQYGNYVTQHVLERGKSYERTQILSKLAGKIVQMSQHKYASNVVEKCLEYGDTAERELLIEEILGQSEENDNLLVMMKDQYANYVVQKILEKCNEKLRETLISRIRVHCDALKKYTYGKHIVARFEQLYG***
************ADVHVDPCVMDPQDIALISNNGPA*****************NPRIDDTNSKNAGLEDV***************************QGRIMMQQYPSAQQGFQYQVQGVQGQAVSLGMNNAHNGMDKNSYGHGKFSSFEAQPSMNSPGLTPPLYASAGTYMPSGNPFYPSFQPSGAGVYPSQYNVGGYALNSALFPPFVAGYPSQGPVPMPFDATSGSSFNIRTTSVSTGEGIPHIGSTQHQKFYGHQGLMLQSPFVDPLHMQYFQHPFGDAYNASVQHRLASSGVNGALADPSSKKEPIVAAYMGDQNLQSSLNGGPSISNPRKVGMPVGGYYGGLPGMGVMGQFPTSPIASPVLPSSPVGSTSQLGLRHEMRLPQGLNRNTGIYSGWQGQRTFEGQRTFEDSKKHSFLEELKSSNAQKFELSDIAGRIVEFSVDQHGSRFIQQKLEHCSAEEKVSVFKEVLPHASKLMTDVFGNYVIQKFFEHGSPDQRKELAEKLVGQVLPLSLQMYGCRVIQKALEVIELHQKSQLVLELDGHVMRCVRDQNGNHVIQKCIECVPAEKIEFIISAFRGQVATLSTHPYGCRVIQRVLEHCSDEQQGQCIVDEILESAFALAQDQYGNYVTQHVLERGKSYERTQILSKLAGKIVQMSQHKYASNVVEKCLEYGDTAERELLIEEILGQSEENDNLLVMMKDQYANYVVQKILEKCNEKLRETLISRIRVHCDALKKYTYGKHIVARFEQLYGEGA
****************************************************************************************************************************************************************TPPLYASAGTYMPSGNPFYPSFQPSGAGVYPSQYNVGGYALNSALFPPFVAGYPSQGPVPMPFDATSGSSFNIRTTSVSTGEGIPHIGSTQHQKFYGHQGLMLQSPFVDPLHMQYFQHPFGDAYNASVQHRLASSGVNGALADPSSKKEPIVAAYMGDQNLQSSLNGGPSISNPRKVGMPVGGYYGGLPGMGVMGQFPTSPIASPVLPSSPVGSTSQLGLRHEMRLPQGLNRNTGIYSGWQGQRTFEGQRTFEDSKKHSFLEELKSSNAQKFELSDIAGRIVEFSVDQHGSRFIQQKLEHCSAEEKVSVFKEVLPHASKLMTDVFGNYVIQKFFEHGSPDQRKELAEKLVGQVLPLSLQMYGCRVIQKALEVIELHQKSQLVLELDGHVMRCVRDQNGNHVIQKCIECVPAEKIEFIISAFRGQVATLSTHPYGCRVIQRVLEHCSDEQQGQCIVDEILESAFALAQDQYGNYVTQHVLERGKSYERTQILSKLAGKIVQMSQHKYASNVVEKCLEYGDTAERELLIEEILGQSEENDNLLVMMKDQYANYVVQKILEKCNEKLRETLISRIRVHCDALKKYTYGKHIVARFEQLYGE**
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SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooo
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MNISEAPEANGSADVHVDPCVMDPQDIALISNNGPAAVSFSSSPCPDGTETSRNPRIDDTNSKNAGLEDVASVSAASQSDVSRAESRMRKKQEEQKYQGRIMMQQYPSAQQGFQYQVQGVQGQAVSLGMNNAHNGMDKNSYGHGKFSSFEAQPSMNSPGLTPPLYASAGTYMPSGNPFYPSFQPSGAGVYPSQYNVGGYALNSALFPPFVAGYPSQGPVPMPFDATSGSSFNIRTTSVSTGEGIPHIGSTQHQKFYGHQGLMLQSPFVDPLHMQYFQHPFGDAYNASVQHRLASSGVNGALADPSSKKEPIVAAYMGDQNLQSSLNGGPSISNPRKVGMPVGGYYGGLPGMGVMGQFPTSPIASPVLPSSPVGSTSQLGLRHEMRLPQGLNRNTGIYSGWQGQRTFEGQRTFEDSKKHSFLEELKSSNAQKFELSDIAGRIVEFSVDQHGSRFIQQKLEHCSAEEKVSVFKEVLPHASKLMTDVFGNYVIQKFFEHGSPDQRKELAEKLVGQVLPLSLQMYGCRVIQKALEVIELHQKSQLVLELDGHVMRCVRDQNGNHVIQKCIECVPAEKIEFIISAFRGQVATLSTHPYGCRVIQRVLEHCSDEQQGQCIVDEILESAFALAQDQYGNYVTQHVLERGKSYERTQILSKLAGKIVQMSQHKYASNVVEKCLEYGDTAERELLIEEILGQSEENDNLLVMMKDQYANYVVQKILEKCNEKLRETLISRIRVHCDALKKYTYGKHIVARFEQLYGEGA
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 ?
Query760 2.2.26 [Sep-21-2011]
Q9LJX4961 Pumilio homolog 5 OS=Arab yes no 0.872 0.689 0.544 0.0
Q9C5E7861 Pumilio homolog 6, chloro no no 0.781 0.689 0.495 1e-158
Q9ZW07968 Pumilio homolog 1 OS=Arab no no 0.784 0.615 0.467 1e-147
Q9ZW02964 Pumilio homolog 3 OS=Arab no no 0.669 0.528 0.522 1e-145
Q9ZW06972 Pumilio homolog 2 OS=Arab no no 0.619 0.484 0.544 1e-145
Q9SS471003 Pumilio homolog 4 OS=Arab no no 0.610 0.462 0.492 1e-129
Q80U581066 Pumilio homolog 2 OS=Mus yes no 0.448 0.319 0.565 1e-113
Q8TB721066 Pumilio homolog 2 OS=Homo yes no 0.448 0.319 0.565 1e-113
P25822 1533 Maternal protein pumilio yes no 0.438 0.217 0.576 1e-112
Q146711186 Pumilio homolog 1 OS=Homo no no 0.448 0.287 0.539 1e-108
>sp|Q9LJX4|PUM5_ARATH Pumilio homolog 5 OS=Arabidopsis thaliana GN=APUM5 PE=1 SV=2 Back     alignment and function desciption
 Score =  712 bits (1839), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 393/722 (54%), Positives = 491/722 (68%), Gaps = 59/722 (8%)

Query: 48  GTETSRNPRIDDTNSKNAGLEDVASVSAASQSDVSRAESRMRKKQEEQKYQGRIMMQQY- 106
            +++  N + +  N++ A  ED  ++S    S  S   SRMR+ QE+Q+ QGR M  QY 
Sbjct: 273 ASQSFTNAQTERLNARQASHED-NNLSVFGASPPSSVASRMRRNQEDQQSQGRRMPPQYT 331

Query: 107 PSAQQGFQYQVQGVQGQAVSLGMNNAHNGMDKNSYGHGKFSSFEAQPSMNSP-GLTPP-L 164
           PS+     YQVQ    Q +S         M ++     K ++ E   +  SP GL PP +
Sbjct: 332 PSS-----YQVQASSPQQMSYPRIGGTQDMMQSL---PKIATGEVHSTFQSPHGLAPPPM 383

Query: 165 YASAGTYMPSGNPFY-PSFQPSGAGVYPSQYNVGGYALNSALFPPFVAGYPS-QGPVPMP 222
           Y S   YM S +PFY  +FQ SG  ++  QYN GGY   S + P +++GYPS +  VPMP
Sbjct: 384 YTSTAAYMTSLSPFYHQNFQSSG--MFVPQYNYGGYPPASGIVPQYMSGYPSHEATVPMP 441

Query: 223 FDATSGSS-FN---IRTTSVSTGEGIPHIGSTQHQKFYGHQGLMLQSPFVDPLHMQYFQH 278
           +D +S SS +N   +     S+G+ IP +                    VDP  +QYFQ 
Sbjct: 442 YDISSTSSGYNNPRLLPGVSSSGQNIPSL--------------------VDPFQLQYFQQ 481

Query: 279 PFGDAYNASVQHRLASSGVNGALADPSSKKEPIVAAYMGDQN-LQSSLNGGPSISNPRKV 337
              DAY    Q    S G          +K+     YM +   L S L+ G  + +PR +
Sbjct: 482 AQVDAYAPPFQSSTDSFG----------QKDQQAVGYMANHEPLNSPLSPGYGLQSPRHM 531

Query: 338 GMPVGGYYGGLPGMGVMGQFPTSPIASPVLPSSPVGST-SQLGLRHEMRL-PQGLNRNTG 395
           G     Y+   PG+ VM Q+P SP+ASPV+PSSPVG   S  G R E R   QG +RNTG
Sbjct: 532 G----NYFAVPPGVRVMPQYPGSPLASPVMPSSPVGGMMSHFGRRSETRYHQQGPSRNTG 587

Query: 396 IY-SGWQGQRTFEGQRTFEDSKKHSFLEELKSSNAQKFELSDIAGRIVEFSVDQHGSRFI 454
           IY  GWQG R        +D K+HSFL+ELKS NA+K ELSDIAGR+VEFSVDQHGSRFI
Sbjct: 588 IYPGGWQGNRG-GASSIVDDLKRHSFLDELKSPNARKLELSDIAGRVVEFSVDQHGSRFI 646

Query: 455 QQKLEHCSAEEKVSVFKEVLPHASKLMTDVFGNYVIQKFFEHGSPDQRKELAEKLVGQVL 514
           QQKLEHCS EEK SVF EVLP ASKLMTDVFGNYVIQKF EHG+P QR+EL ++L GQ++
Sbjct: 647 QQKLEHCSDEEKASVFSEVLPQASKLMTDVFGNYVIQKFIEHGTPAQREELVKQLAGQMV 706

Query: 515 PLSLQMYGCRVIQKALEVIELHQKSQLVLELDGHVMRCVRDQNGNHVIQKCIECVPAEKI 574
            LSLQMYGCRVIQKALEVI++ QK++L+ ELDG+V++CVRDQNGNHVIQKCIE +PA +I
Sbjct: 707 SLSLQMYGCRVIQKALEVIDVDQKTELIRELDGNVLKCVRDQNGNHVIQKCIESMPAGRI 766

Query: 575 EFIISAFRGQVATLSTHPYGCRVIQRVLEHCSDEQQGQCIVDEILESAFALAQDQYGNYV 634
            F+I+AFRGQVATLSTHPYGCRVIQR+LEHCSD+++  CI+DEILESAFALA DQYGNYV
Sbjct: 767 GFVIAAFRGQVATLSTHPYGCRVIQRILEHCSDDEETHCIIDEILESAFALAHDQYGNYV 826

Query: 635 TQHVLERGKSYERTQILSKLAGKIVQMSQHKYASNVVEKCLEYGDTAERELLIEEILGQS 694
           TQHVLERGK  ER QI+ KL G +VQMSQHKYASNVVEKCLE+ D+ ERE LIEEI+G+S
Sbjct: 827 TQHVLERGKPDERRQIIEKLTGNVVQMSQHKYASNVVEKCLEHADSTEREFLIEEIMGKS 886

Query: 695 EENDNLLVMMKDQYANYVVQKILEKCNEKLRETLISRIRVHCDALKKYTYGKHIVARFEQ 754
           EE+++LL MMKDQ+ANYVVQK+LE   ++ RE L+ R+++H  +L+KYTYGKHIVARFEQ
Sbjct: 887 EEDNHLLAMMKDQFANYVVQKVLEISKDQQREILVQRMKIHLQSLRKYTYGKHIVARFEQ 946

Query: 755 LY 756
           L+
Sbjct: 947 LF 948
Sequence-specific RNA-binding protein that regulates translation and mRNA stability by binding the 3'-UTR of target mRNAs. Binds the APUM-binding elements (APBEs) in the 3'-UTR mRNA sequence of CLV1, PNH, WUS and FAS2.
Arabidopsis thaliana (taxid: 3702)
>sp|Q9C5E7|PUM6_ARATH Pumilio homolog 6, chloroplastic OS=Arabidopsis thaliana GN=APUM6 PE=1 SV=1 Back     alignment and function description
>sp|Q9ZW07|PUM1_ARATH Pumilio homolog 1 OS=Arabidopsis thaliana GN=APUM1 PE=1 SV=1 Back     alignment and function description
>sp|Q9ZW02|PUM3_ARATH Pumilio homolog 3 OS=Arabidopsis thaliana GN=APUM3 PE=1 SV=1 Back     alignment and function description
>sp|Q9ZW06|PUM2_ARATH Pumilio homolog 2 OS=Arabidopsis thaliana GN=APUM2 PE=1 SV=1 Back     alignment and function description
>sp|Q9SS47|PUM4_ARATH Pumilio homolog 4 OS=Arabidopsis thaliana GN=APUM4 PE=1 SV=2 Back     alignment and function description
>sp|Q80U58|PUM2_MOUSE Pumilio homolog 2 OS=Mus musculus GN=Pum2 PE=1 SV=2 Back     alignment and function description
>sp|Q8TB72|PUM2_HUMAN Pumilio homolog 2 OS=Homo sapiens GN=PUM2 PE=1 SV=2 Back     alignment and function description
>sp|P25822|PUM_DROME Maternal protein pumilio OS=Drosophila melanogaster GN=pum PE=1 SV=2 Back     alignment and function description
>sp|Q14671|PUM1_HUMAN Pumilio homolog 1 OS=Homo sapiens GN=PUM1 PE=1 SV=3 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 ?
Query760
225443381 1053 PREDICTED: pumilio homolog 5 [Vitis vini 0.985 0.711 0.648 0.0
255544506 1004 pumilio, putative [Ricinus communis] gi| 0.985 0.746 0.647 0.0
225463345 1017 PREDICTED: pumilio homolog 5 [Vitis vini 0.969 0.724 0.589 0.0
8071634 966 pumilio domain-containing protein PPD1 [ 0.931 0.732 0.616 0.0
449453445 1031 PREDICTED: pumilio homolog 5-like [Cucum 0.978 0.721 0.597 0.0
449500099 1031 PREDICTED: pumilio homolog 5-like [Cucum 0.978 0.721 0.597 0.0
356530316 985 PREDICTED: pumilio homolog 5-like [Glyci 0.888 0.685 0.565 0.0
356558296 982 PREDICTED: pumilio homolog 5-like [Glyci 0.885 0.685 0.553 0.0
357449403 984 Pumilio-like protein [Medicago truncatul 0.892 0.689 0.550 0.0
356550736 952 PREDICTED: LOW QUALITY PROTEIN: pumilio 0.881 0.703 0.554 0.0
>gi|225443381|ref|XP_002266669.1| PREDICTED: pumilio homolog 5 [Vitis vinifera] gi|297735758|emb|CBI18445.3| unnamed protein product [Vitis vinifera] Back     alignment and taxonomy information
 Score =  983 bits (2540), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 503/776 (64%), Positives = 583/776 (75%), Gaps = 27/776 (3%)

Query: 1    MNISEAPEAN-GSADVHVDPCVMDPQDIALISNNGPAAVSFSSSPCPDGTETSRN-PRID 58
            + IS+ PE   G+ DV    C +D   I L+ N   AA SF SS   D   +S   P+ +
Sbjct: 255  LEISKLPEPGPGTVDVSASTCTLDAPAIGLMPNKDDAANSFPSSSYSDRKHSSLPLPKDE 314

Query: 59   DTNSKNAGLEDVASVSAASQSDVSRAESRMR--------------KKQEEQKYQGRIMMQ 104
             ++   AG    A VS  +  +VSR ES+ +               KQE++    R M  
Sbjct: 315  SSDKGGAG----ALVSGGAGLEVSRVESKTKASNVSSLLVAENNANKQEQKPSYERNMPP 370

Query: 105  QYPSAQQGFQYQVQGVQGQAVSLGMNNAHNGMDKNSYGHGKFSSFEAQPSMNSPGLTPPL 164
             +P AQQ   Y+VQGVQ Q +S GM++ +NGM+K  +   KFSS E QP M SPGLTPPL
Sbjct: 371  HHPYAQQSSPYKVQGVQAQVISQGMSHPYNGMEKLPHAPPKFSSVEVQPMMQSPGLTPPL 430

Query: 165  YASAGTYMPSGNPFYPSFQPSGAGVYPSQYNVGGYALNSALFPPFVAGYPSQGPVPMPFD 224
            YA+A  Y+ SG+PFYP+ QPSG  ++  QY +GGY L+SAL P F+ GYPS   +PMPFD
Sbjct: 431  YATAAAYIASGSPFYPNIQPSG--LFAPQYGMGGYGLSSALVPQFIGGYPSPAAIPMPFD 488

Query: 225  ATSGSSFNIRTTSVSTGEGIPHIGSTQHQKFYGHQGLMLQSPFVDPLHMQYFQHPFGDAY 284
            ATSG SFN+RTT  S GE IPH     + KFYGH GLMLQ  F+DPLHMQYFQHPF DAY
Sbjct: 489  ATSGPSFNVRTTGASMGESIPHELQNLN-KFYGHHGLMLQPSFLDPLHMQYFQHPFEDAY 547

Query: 285  NASVQH-RLASSGVNGALADPSSKKEPIVAAYMGDQNLQSSLNGGPSISNPRKVGMPVGG 343
             A+ Q+ RL   GV G      S+KE  V+AYMGDQ LQ   NG  S+ +PRK G+    
Sbjct: 548  GAAGQYGRLPPRGVIGGQDSSVSQKESHVSAYMGDQKLQPPTNGSLSVPSPRKGGIMGSS 607

Query: 344  YYGGLPGMGVMGQFPTSPIASPVLPSSPVGSTSQLGLRHEMRLPQGLNRNTGIYSGWQGQ 403
            YYG  P MGVM QFP SP++SP+LP SPVG T+  G R+EMR PQG  RN G+YSGWQGQ
Sbjct: 608  YYGSPPNMGVMTQFPASPLSSPILPGSPVGGTNHPGRRNEMRFPQGPIRNVGVYSGWQGQ 667

Query: 404  RTFEGQRTFEDSKKHSFLEELKSSNAQKFELSDIAGRIVEFSVDQHGSRFIQQKLEHCSA 463
            R   G   FED KKHSFLEELKS+NA+KFELSDIAGR VEFSVDQHGSRFIQQKLE+CS 
Sbjct: 668  R---GADNFEDPKKHSFLEELKSNNARKFELSDIAGRTVEFSVDQHGSRFIQQKLENCSG 724

Query: 464  EEKVSVFKEVLPHASKLMTDVFGNYVIQKFFEHGSPDQRKELAEKLVGQVLPLSLQMYGC 523
            EEK SVFKEVLPHAS+LMTDVFGNYVIQKFFEHG+P+QR+ELA +L GQ++PLSLQMYGC
Sbjct: 725  EEKASVFKEVLPHASRLMTDVFGNYVIQKFFEHGTPEQRRELAYQLAGQMIPLSLQMYGC 784

Query: 524  RVIQKALEVIELHQKSQLVLELDGHVMRCVRDQNGNHVIQKCIECVPAEKIEFIISAFRG 583
            RVIQKALEVIEL QK+QLV ELDGHV+RCVRDQNGNHVIQKCIEC+P EKI FIISAF+G
Sbjct: 785  RVIQKALEVIELDQKTQLVHELDGHVIRCVRDQNGNHVIQKCIECIPTEKIGFIISAFKG 844

Query: 584  QVATLSTHPYGCRVIQRVLEHCSDEQQGQCIVDEILESAFALAQDQYGNYVTQHVLERGK 643
            QV  LS+HPYGCRVIQRVLEHCS+  Q Q IVDEILESA+ LA+DQYGNYVTQHVLERG 
Sbjct: 845  QVTVLSSHPYGCRVIQRVLEHCSEVSQSQFIVDEILESAYVLAEDQYGNYVTQHVLERGN 904

Query: 644  SYERTQILSKLAGKIVQMSQHKYASNVVEKCLEYGDTAERELLIEEILGQSEENDNLLVM 703
             +ER+QI+SKL GKIVQMSQHKYASNV+EKCLEYG T+E ELLIEEI+GQSE+NDNLLVM
Sbjct: 905  PHERSQIISKLTGKIVQMSQHKYASNVIEKCLEYGSTSECELLIEEIIGQSEDNDNLLVM 964

Query: 704  MKDQYANYVVQKILEKCNEKLRETLISRIRVHCDALKKYTYGKHIVARFEQLYGEG 759
            MKDQ+ANYVVQKILE  N+K RE L++RIRVH +ALKKYTYGKHIVARFEQL  EG
Sbjct: 965  MKDQFANYVVQKILETSNDKQREILLNRIRVHLNALKKYTYGKHIVARFEQLCCEG 1020

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|255544506|ref|XP_002513314.1| pumilio, putative [Ricinus communis] gi|223547222|gb|EEF48717.1| pumilio, putative [Ricinus communis] Back     alignment and taxonomy information
>gi|225463345|ref|XP_002268751.1| PREDICTED: pumilio homolog 5 [Vitis vinifera] gi|296089553|emb|CBI39372.3| unnamed protein product [Vitis vinifera] Back     alignment and taxonomy information
>gi|8071634|gb|AAF71823.1|AF153276_1 pumilio domain-containing protein PPD1 [Populus tremula x Populus tremuloides] Back     alignment and taxonomy information
>gi|449453445|ref|XP_004144468.1| PREDICTED: pumilio homolog 5-like [Cucumis sativus] Back     alignment and taxonomy information
>gi|449500099|ref|XP_004161004.1| PREDICTED: pumilio homolog 5-like [Cucumis sativus] Back     alignment and taxonomy information
>gi|356530316|ref|XP_003533728.1| PREDICTED: pumilio homolog 5-like [Glycine max] Back     alignment and taxonomy information
>gi|356558296|ref|XP_003547443.1| PREDICTED: pumilio homolog 5-like [Glycine max] Back     alignment and taxonomy information
>gi|357449403|ref|XP_003594978.1| Pumilio-like protein [Medicago truncatula] gi|355484026|gb|AES65229.1| Pumilio-like protein [Medicago truncatula] Back     alignment and taxonomy information
>gi|356550736|ref|XP_003543740.1| PREDICTED: LOW QUALITY PROTEIN: pumilio homolog 6, 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 ?
Query760
TAIR|locus:2087560961 PUM5 "pumilio 5" [Arabidopsis 0.626 0.495 0.636 3.4e-182
TAIR|locus:2117552861 PUM6 "pumilio 6" [Arabidopsis 0.467 0.412 0.667 3.8e-144
TAIR|locus:2043182968 PUM1 "pumilio 1" [Arabidopsis 0.596 0.467 0.566 1.3e-130
TAIR|locus:2043187972 PUM2 "pumilio 2" [Arabidopsis 0.522 0.408 0.617 1.3e-130
TAIR|locus:2043047964 PUM3 "pumilio 3" [Arabidopsis 0.732 0.577 0.485 4e-129
TAIR|locus:20763241003 PUM4 "pumilio 4" [Arabidopsis 0.489 0.370 0.585 9.1e-116
UNIPROTKB|F1N2B81069 PUM2 "Uncharacterized protein" 0.448 0.318 0.568 1.5e-106
UNIPROTKB|B4E2B61008 PUM2 "Pumilio homolog 2" [Homo 0.448 0.338 0.568 1.5e-106
UNIPROTKB|E2RT571063 PUM2 "Uncharacterized protein" 0.448 0.320 0.568 1.9e-106
UNIPROTKB|F1SCU61064 PUM2 "Uncharacterized protein" 0.448 0.320 0.568 1.9e-106
TAIR|locus:2087560 PUM5 "pumilio 5" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 1560 (554.2 bits), Expect = 3.4e-182, Sum P(2) = 3.4e-182
 Identities = 315/495 (63%), Positives = 374/495 (75%)

Query:   268 VDPLHMQYFQHPFGDAYNASVQHRLASSGVNGALADPSSKKEPIVAAYMGDQN-LQSSLN 326
             VDP  +QYFQ    DAY    Q    SS       D   +K+     YM +   L S L+
Sbjct:   471 VDPFQLQYFQQAQVDAYAPPFQ----SS------TDSFGQKDQQAVGYMANHEPLNSPLS 520

Query:   327 GGPSISNPRKXXXXXXXXXXXXXXXXXXXQFPTSPIASPVLPSSPVGST-SQLGLRHEMR 385
              G  + +PR                    Q+P SP+ASPV+PSSPVG   S  G R E R
Sbjct:   521 PGYGLQSPRHMGNYFAVPPGVRVMP----QYPGSPLASPVMPSSPVGGMMSHFGRRSETR 576

Query:   386 L-PQGLNRNTGIY-SGWQGQRTFEGQRTFEDSKKHSFLEELKSSNAQKFELSDIAGRIVE 443
                QG +RNTGIY  GWQG R        +D K+HSFL+ELKS NA+K ELSDIAGR+VE
Sbjct:   577 YHQQGPSRNTGIYPGGWQGNRG-GASSIVDDLKRHSFLDELKSPNARKLELSDIAGRVVE 635

Query:   444 FSVDQHGSRFIQQKLEHCSAEEKVSVFKEVLPHASKLMTDVFGNYVIQKFFEHGSPDQRK 503
             FSVDQHGSRFIQQKLEHCS EEK SVF EVLP ASKLMTDVFGNYVIQKF EHG+P QR+
Sbjct:   636 FSVDQHGSRFIQQKLEHCSDEEKASVFSEVLPQASKLMTDVFGNYVIQKFIEHGTPAQRE 695

Query:   504 ELAEKLVGQVLPLSLQMYGCRVIQKALEVIELHQKSQLVLELDGHVMRCVRDQNGNHVIQ 563
             EL ++L GQ++ LSLQMYGCRVIQKALEVI++ QK++L+ ELDG+V++CVRDQNGNHVIQ
Sbjct:   696 ELVKQLAGQMVSLSLQMYGCRVIQKALEVIDVDQKTELIRELDGNVLKCVRDQNGNHVIQ 755

Query:   564 KCIECVPAEKIEFIISAFRGQVATLSTHPYGCRVIQRVLEHCSDEQQGQCIVDEILESAF 623
             KCIE +PA +I F+I+AFRGQVATLSTHPYGCRVIQR+LEHCSD+++  CI+DEILESAF
Sbjct:   756 KCIESMPAGRIGFVIAAFRGQVATLSTHPYGCRVIQRILEHCSDDEETHCIIDEILESAF 815

Query:   624 ALAQDQYGNYVTQHVLERGKSYERTQILSKLAGKIVQMSQHKYASNVVEKCLEYGDTAER 683
             ALA DQYGNYVTQHVLERGK  ER QI+ KL G +VQMSQHKYASNVVEKCLE+ D+ ER
Sbjct:   816 ALAHDQYGNYVTQHVLERGKPDERRQIIEKLTGNVVQMSQHKYASNVVEKCLEHADSTER 875

Query:   684 ELLIEEILGQSEENDNLLVMMKDQYANYVVQKILEKCNEKLRETLISRIRVHCDALKKYT 743
             E LIEEI+G+SEE+++LL MMKDQ+ANYVVQK+LE   ++ RE L+ R+++H  +L+KYT
Sbjct:   876 EFLIEEIMGKSEEDNHLLAMMKDQFANYVVQKVLEISKDQQREILVQRMKIHLQSLRKYT 935

Query:   744 YGKHIVARFEQLYGE 758
             YGKHIVARFEQL+GE
Sbjct:   936 YGKHIVARFEQLFGE 950
GO:0003723 "RNA binding" evidence=IEA;ISS
GO:0005737 "cytoplasm" evidence=ISM
GO:0005773 "vacuole" evidence=IDA
GO:0003729 "mRNA binding" evidence=IDA
GO:0005829 "cytosol" evidence=IDA
GO:0006487 "protein N-linked glycosylation" evidence=RCA
TAIR|locus:2117552 PUM6 "pumilio 6" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2043182 PUM1 "pumilio 1" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2043187 PUM2 "pumilio 2" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2043047 PUM3 "pumilio 3" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2076324 PUM4 "pumilio 4" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
UNIPROTKB|F1N2B8 PUM2 "Uncharacterized protein" [Bos taurus (taxid:9913)] Back     alignment and assigned GO terms
UNIPROTKB|B4E2B6 PUM2 "Pumilio homolog 2" [Homo sapiens (taxid:9606)] Back     alignment and assigned GO terms
UNIPROTKB|E2RT57 PUM2 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)] Back     alignment and assigned GO terms
UNIPROTKB|F1SCU6 PUM2 "Uncharacterized protein" [Sus scrofa (taxid:9823)] Back     alignment and assigned GO terms

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries ?

Original result of BLAST against SWISS-PROT

ID ?Name ?Annotated EC number ?Identity ?Query coverage ?Hit coverage ?RBH(Q2H) ?RBH(H2Q) ?
Q9LJX4PUM5_ARATHNo assigned EC number0.54430.87230.6899yesno

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 ?
Query760
cd07920322 cd07920, Pumilio, Pumilio-family RNA binding domai 1e-164
COG5099777 COG5099, COG5099, RNA-binding protein of the Puf f 1e-84
cd07920322 cd07920, Pumilio, Pumilio-family RNA binding domai 6e-67
pfam07990365 pfam07990, NABP, Nucleic acid binding protein NABP 2e-17
cd07920 322 cd07920, Pumilio, Pumilio-family RNA binding domai 3e-16
cd07920322 cd07920, Pumilio, Pumilio-family RNA binding domai 4e-11
smart0002536 smart00025, Pumilio, Pumilio-like repeats 2e-08
smart0002536 smart00025, Pumilio, Pumilio-like repeats 8e-08
smart0002536 smart00025, Pumilio, Pumilio-like repeats 8e-08
smart0002536 smart00025, Pumilio, Pumilio-like repeats 4e-07
smart0002536 smart00025, Pumilio, Pumilio-like repeats 7e-07
pfam0080634 pfam00806, PUF, Pumilio-family RNA binding repeat 1e-06
pfam0080634 pfam00806, PUF, Pumilio-family RNA binding repeat 2e-06
pfam0080634 pfam00806, PUF, Pumilio-family RNA binding repeat 2e-06
pfam0080634 pfam00806, PUF, Pumilio-family RNA binding repeat 1e-05
smart0002536 smart00025, Pumilio, Pumilio-like repeats 1e-04
pfam0080634 pfam00806, PUF, Pumilio-family RNA binding repeat 1e-04
pfam0080634 pfam00806, PUF, Pumilio-family RNA binding repeat 1e-04
smart0002536 smart00025, Pumilio, Pumilio-like repeats 6e-04
pfam0080634 pfam00806, PUF, Pumilio-family RNA binding repeat 0.001
smart0002536 smart00025, Pumilio, Pumilio-like repeats 0.003
pfam0080634 pfam00806, PUF, Pumilio-family RNA binding repeat 0.004
>gnl|CDD|153420 cd07920, Pumilio, Pumilio-family RNA binding domain Back     alignment and domain information 
 Score =  475 bits (1226), Expect = e-164
 Identities = 189/322 (58%), Positives = 231/322 (71%), Gaps = 2/322 (0%)

Query: 431 KFELSDIA-GRIVEFSVDQHGSRFIQQKLEHCSAEEKVSVFKEVLPHASKLMTDVFGNYV 489
              L DI  G IVEF+ DQHGSRF+QQKLE  + EEK  +F E+LPH  +LM D FGNYV
Sbjct: 1   SLTLQDIKAGHIVEFAKDQHGSRFLQQKLEEATPEEKELIFDEILPHVVELMVDPFGNYV 60

Query: 490 IQKFFEHGSPDQRKELAEKLVGQVLPLSLQMYGCRVIQKALEVIELHQKSQLVLELDGHV 549
           IQK FEHG+ +QR +L EK++G V+ LSL MYGCRVIQK LE I   Q S LV EL GHV
Sbjct: 61  IQKLFEHGTEEQRLQLLEKILGHVVRLSLDMYGCRVIQKLLESISEEQISLLVKELRGHV 120

Query: 550 MRCVRDQNGNHVIQKCIECVPAEKIEFIISAFRGQVATLSTHPYGCRVIQRVLEHCSDEQ 609
           +  V+DQNGNHVIQKCIE  P E ++FII AF+G    LSTHPYGCRVIQR LEHCS+EQ
Sbjct: 121 VELVKDQNGNHVIQKCIEKFPPEDLQFIIDAFKGNCVALSTHPYGCRVIQRCLEHCSEEQ 180

Query: 610 QGQCIVDEILESAFALAQDQYGNYVTQHVLERGKSYERTQILSKLAGKIVQMSQHKYASN 669
           +   +++EILE A  L QDQ+GNYV QHVLE G   + ++I+ KL G IVQ+S HK+ASN
Sbjct: 181 REP-LLEEILEHALELVQDQFGNYVVQHVLELGDPDDTSRIIEKLLGNIVQLSCHKFASN 239

Query: 670 VVEKCLEYGDTAERELLIEEILGQSEENDNLLVMMKDQYANYVVQKILEKCNEKLRETLI 729
           VVEKCL++    EREL+I+EIL    E   L  +MKDQY NYV+Q  L+   E+ RE L+
Sbjct: 240 VVEKCLKHASKEERELIIDEILASGNETSALDTLMKDQYGNYVIQTALDVAKEEQRELLV 299

Query: 730 SRIRVHCDALKKYTYGKHIVAR 751
             IR H  +L+K  YGKHI+A+
Sbjct: 300 EAIRPHLPSLRKSPYGKHILAK 321

Puf repeats (also labelled PUM-HD or Pumilio homology domain) mediate sequence specific RNA binding in fly Pumilio, worm FBF-1 and FBF-2, and many other proteins such as vertebrate Pumilio. These proteins function as translational repressors in early embryonic development by binding to sequences in the 3' UTR of target mRNAs, such as the nanos response element (NRE) in fly Hunchback mRNA, or the point mutation element (PME) in worm fem-3 mRNA. Other proteins that contain Puf domains are also plausible RNA binding proteins. Yeast PUF1 (JSN1), for instance, appears to contain a single RNA-recognition motif (RRM) domain. Puf repeat proteins have been observed to function asymmetrically and may be responsible for creating protein gradients involved in the specification of cell fate and differentiation. Puf domains usually occur as a tandem repeat of 8 domains. This model encompasses all 8 tandem repeats. Some proteins may have fewer (canonical) repeats. Length = 322
>gnl|CDD|227430 COG5099, COG5099, RNA-binding protein of the Puf family, translational repressor [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>gnl|CDD|153420 cd07920, Pumilio, Pumilio-family RNA binding domain Back     alignment and domain information
>gnl|CDD|219685 pfam07990, NABP, Nucleic acid binding protein NABP Back     alignment and domain information
>gnl|CDD|153420 cd07920, Pumilio, Pumilio-family RNA binding domain Back     alignment and domain information
>gnl|CDD|153420 cd07920, Pumilio, Pumilio-family RNA binding domain Back     alignment and domain information
>gnl|CDD|214475 smart00025, Pumilio, Pumilio-like repeats Back     alignment and domain information
>gnl|CDD|214475 smart00025, Pumilio, Pumilio-like repeats Back     alignment and domain information
>gnl|CDD|214475 smart00025, Pumilio, Pumilio-like repeats Back     alignment and domain information
>gnl|CDD|214475 smart00025, Pumilio, Pumilio-like repeats Back     alignment and domain information
>gnl|CDD|214475 smart00025, Pumilio, Pumilio-like repeats Back     alignment and domain information
>gnl|CDD|201452 pfam00806, PUF, Pumilio-family RNA binding repeat Back     alignment and domain information
>gnl|CDD|201452 pfam00806, PUF, Pumilio-family RNA binding repeat Back     alignment and domain information
>gnl|CDD|201452 pfam00806, PUF, Pumilio-family RNA binding repeat Back     alignment and domain information
>gnl|CDD|201452 pfam00806, PUF, Pumilio-family RNA binding repeat Back     alignment and domain information
>gnl|CDD|214475 smart00025, Pumilio, Pumilio-like repeats Back     alignment and domain information
>gnl|CDD|201452 pfam00806, PUF, Pumilio-family RNA binding repeat Back     alignment and domain information
>gnl|CDD|201452 pfam00806, PUF, Pumilio-family RNA binding repeat Back     alignment and domain information
>gnl|CDD|214475 smart00025, Pumilio, Pumilio-like repeats Back     alignment and domain information
>gnl|CDD|201452 pfam00806, PUF, Pumilio-family RNA binding repeat Back     alignment and domain information
>gnl|CDD|214475 smart00025, Pumilio, Pumilio-like repeats Back     alignment and domain information
>gnl|CDD|201452 pfam00806, PUF, Pumilio-family RNA binding repeat Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 760
KOG1488503 consensus Translational repressor Pumilio/PUF3 and 100.0
cd07920322 Pumilio Pumilio-family RNA binding domain. Puf rep 100.0
PF07990385 NABP: Nucleic acid binding protein NABP; InterPro: 100.0
COG5099777 RNA-binding protein of the Puf family, translation 100.0
KOG2049536 consensus Translational repressor MPT5/PUF4 and re 100.0
cd07920322 Pumilio Pumilio-family RNA binding domain. Puf rep 100.0
KOG1488503 consensus Translational repressor Pumilio/PUF3 and 100.0
KOG2050 652 consensus Puf family RNA-binding protein [Translat 100.0
COG5099777 RNA-binding protein of the Puf family, translation 99.96
KOG2049536 consensus Translational repressor MPT5/PUF4 and re 99.96
KOG2188650 consensus Predicted RNA-binding protein, contains 99.94
KOG2188650 consensus Predicted RNA-binding protein, contains 99.86
KOG2050 652 consensus Puf family RNA-binding protein [Translat 99.86
KOG4574 1007 consensus RNA-binding protein (contains RRM and Pu 99.62
KOG4574 1007 consensus RNA-binding protein (contains RRM and Pu 99.29
PF0080635 PUF: Pumilio-family RNA binding repeat; InterPro: 98.09
smart0002536 Pumilio Pumilio-like repeats. Pumilio-like repeats 97.64
PF0080635 PUF: Pumilio-family RNA binding repeat; InterPro: 97.57
smart0002536 Pumilio Pumilio-like repeats. Pumilio-like repeats 97.35
PRK05686339 fliG flagellar motor switch protein G; Validated 95.49
TIGR00207338 fliG flagellar motor switch protein FliG. The fliG 94.62
PRK05686339 fliG flagellar motor switch protein G; Validated 92.13
PF04286367 DUF445: Protein of unknown function (DUF445); Inte 91.45
PF08144148 CPL: CPL (NUC119) domain; InterPro: IPR012959 This 90.47
COG1536339 FliG Flagellar motor switch protein [Cell motility 84.2
PF08144148 CPL: CPL (NUC119) domain; InterPro: IPR012959 This 83.2
KOG19241102 consensus RhoA GTPase effector DIA/Diaphanous [Sig 82.57
>KOG1488 consensus Translational repressor Pumilio/PUF3 and related RNA-binding proteins (Puf superfamily) [Translation, ribosomal structure and biogenesis] Back     alignment and domain information 
Probab=100.00  E-value=8.7e-70  Score=604.43  Aligned_cols=346  Identities=55%  Similarity=0.912  Sum_probs=329.1

Q ss_pred             CchhhhHHHHHhhcc-ccccchHHhHHHHHHHHhcCCCcCHHHHHhhhcCCH-HHHHHHHHHHhhchhhhccCcccchhh
Q 004335          413 EDSKKHSFLEELKSS-NAQKFELSDIAGRIVEFSVDQHGSRFIQQKLEHCSA-EEKVSVFKEVLPHASKLMTDVFGNYVI  490 (760)
Q Consensus       413 ~~~~rs~LLeeL~s~-~~~~~~L~eI~GkvveLa~dq~gSRvIQ~lLe~~s~-Eqr~~If~EL~p~~~eL~~D~yGnhVI  490 (760)
                      +...+..+++.+++. ..+.+.+.++.|++++|+.||+|||+||+.|+.++. +++..||+||.+.+.+||+|.||||||
T Consensus       152 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~v~f~~Dq~GsrfiQqkl~~~~~~~ek~~if~ei~~~~~~L~~dvFGNyvI  231 (503)
T KOG1488|consen  152 NSTGPSFLLDPFRSNSLSKTLELVDIPGHLVEFAKDQHGSRFIQQKLETASDNEEKQAVFDEILPPALELMTDVFGNYVI  231 (503)
T ss_pred             CCCCCCccccccccccccccccccccCCCceeecCCcccchHHHHhccccccHHHHHHHHHHHHHHHHHHHHHHhcCchh
Confidence            344556677777666 567788889999999999999999999999999998 999999999999999999999999999


Q ss_pred             hhhhccCCHHHHHHHHHHHhhccccccccccccHHHHHHHHhhCHHHHHHHHHHhhhhHhHHhhcccCChhhhHhhhcCC
Q 004335          491 QKFFEHGSPDQRKELAEKLVGQVLPLSLQMYGCRVIQKALEVIELHQKSQLVLELDGHVMRCVRDQNGNHVIQKCIECVP  570 (760)
Q Consensus       491 QKLLe~~s~eqr~~Ii~~L~g~v~~Ls~h~yGSrVIQklLe~as~eqr~~Lv~EL~g~i~~L~kDq~GNhVLQklLe~~~  570 (760)
                      ||+||+++.+|+..+...+.+++..||.|+|||||||++||..+.+++.+|++||.+++.+|++|++||||||||||+.+
T Consensus       232 QkffE~gt~~q~~~l~~~~~g~v~~Lsld~ygCRVIQkale~id~~~~~~Li~ELd~~vl~~v~DQngnHViQK~ie~~p  311 (503)
T KOG1488|consen  232 QKFFEHGTEDQRNLLHSQIKGHVLELSLDMYGCRVIQKALEKVDVSLQIQLIDELDGHLLKCVKDQNGNHVIQKCIETLP  311 (503)
T ss_pred             hhhhccCCHHHHHHHHHHHHhhhhhhhcccccchhHHHHHHhcCHHHHHHHHHHHHhhHHHHHhhcccceehhhhhhccC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhHHHHHHHHhhh--hHhhhccCCcchhHHHHHHhhCCChHHHHHHHHHHHHHHHHHhhcccchHHHHHHHhcCChhhHH
Q 004335          571 AEKIEFIISAFRG--QVATLSTHPYGCRVIQRVLEHCSDEQQGQCIVDEILESAFALAQDQYGNYVTQHVLERGKSYERT  648 (760)
Q Consensus       571 ~e~~~~Ii~~L~~--~i~~Ls~hkyGS~VLQklLe~~~~~~q~~~Il~eL~~~l~~La~Dq~GNyVVQ~LLe~~~~k~R~  648 (760)
                      ++...+|++.|.+  ++..+|+|+|||||||++||+|..+ +...++++|..++..|+.|+||||||||+|+++++.++.
T Consensus       312 ~~~~~Fiv~~f~~~~~~~~ls~~~YGCRVIQr~lE~c~~~-~~~~i~~ei~~~~~~L~~dQygNYVIQHVie~g~~~~~~  390 (503)
T KOG1488|consen  312 PDAWQFIVDFFSGDDNLLELSTHKYGCRVIQRILEHCSED-QKQPLMEEIIRNCDQLAQDQYGNYVIQHVIEHGSPYRDT  390 (503)
T ss_pred             hHHHHHHHHHhcCCCceeEeeccCcccHHHHHHhhcCChH-hhhHHHHHHHHHHHHHHhhhhhhHHHHHHHhcCChhhhh
Confidence            9999999999999  9999999999999999999999865 456699999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhcCccHHHHHHHHHHhCCHHHHHHHHHHHhcCCCCc-HHHHHhhcCCChhHHHHHHHhhCCHHHHHH
Q 004335          649 QILSKLAGKIVQMSQHKYASNVVEKCLEYGDTAERELLIEEILGQSEEN-DNLLVMMKDQYANYVVQKILEKCNEKLRET  727 (760)
Q Consensus       649 ~Iie~L~~~l~~Ls~~K~GS~VVEk~L~~a~~keRk~II~eLl~~~~~k-e~L~~La~DqyGnyVIQklL~~~dd~~rk~  727 (760)
                      .|++.|.+++.+|+++||+|+|||+||.++.+.+|..|++|++....+. +.|..||+|+|||||||++|+.|++.+|+.
T Consensus       391 ~I~~~l~~~ll~~Sq~KfASnVVEk~~~~a~~~~r~~i~~Ei~~~~~~~~~~L~~mmkdQYgNYVVQkmi~~~~~~q~~~  470 (503)
T KOG1488|consen  391 IIIKCLLGNLLSMSQHKFASNVVEKAFLFAPPLLRALIMNEIFPGYVEHPDALDIMMKDQYGNYVVQKMIDICGPEQREL  470 (503)
T ss_pred             hHHHHHHhhHHHHHHHHHHHHHHHHHHhhCCHHHHHHHHHHhcCCccCCccHHHHHHHHhhhhhHHHHHHHhcCHHHHHH
Confidence            9999999999999999999999999999999999999999999876544 789999999999999999999999999999


Q ss_pred             HHHHHHHhHHHHhhCCChHHHHHHHHHHHhcC
Q 004335          728 LISRIRVHCDALKKYTYGKHIVARFEQLYGEG  759 (760)
Q Consensus       728 Il~~Lk~~l~~L~~~~yGk~Vv~kLekl~~~g  759 (760)
                      |..+|++|+..|++++|||||+++|||+...+
T Consensus       471 i~~rI~~h~~~Lrk~syGKhIia~lek~~~~~  502 (503)
T KOG1488|consen  471 IKSRVKPHASRLRKFSYGKHIIAKLEKLRSKG  502 (503)
T ss_pred             HHHHHHHHHHHHccCccHHHHHHHHHHhcccC
Confidence            99999999999999999999999999997654

>cd07920 Pumilio Pumilio-family RNA binding domain Back     alignment and domain information
>PF07990 NABP: Nucleic acid binding protein NABP; InterPro: IPR012940 This domain occurs in some putative nucleic acid binding proteins Back     alignment and domain information
>COG5099 RNA-binding protein of the Puf family, translational repressor [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>KOG2049 consensus Translational repressor MPT5/PUF4 and related RNA-binding proteins (Puf superfamily) [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>cd07920 Pumilio Pumilio-family RNA binding domain Back     alignment and domain information
>KOG1488 consensus Translational repressor Pumilio/PUF3 and related RNA-binding proteins (Puf superfamily) [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>KOG2050 consensus Puf family RNA-binding protein [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>COG5099 RNA-binding protein of the Puf family, translational repressor [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>KOG2049 consensus Translational repressor MPT5/PUF4 and related RNA-binding proteins (Puf superfamily) [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>KOG2188 consensus Predicted RNA-binding protein, contains Pumilio domains [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>KOG2188 consensus Predicted RNA-binding protein, contains Pumilio domains [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>KOG2050 consensus Puf family RNA-binding protein [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>KOG4574 consensus RNA-binding protein (contains RRM and Pumilio-like repeats) [General function prediction only] Back     alignment and domain information
>KOG4574 consensus RNA-binding protein (contains RRM and Pumilio-like repeats) [General function prediction only] Back     alignment and domain information
>PF00806 PUF: Pumilio-family RNA binding repeat; InterPro: IPR001313 The drosophila pumilio gene codes for an unusual protein that binds through the Puf domain that usually occurs as a tandem repeat of eight domains Back     alignment and domain information
>smart00025 Pumilio Pumilio-like repeats Back     alignment and domain information
>PF00806 PUF: Pumilio-family RNA binding repeat; InterPro: IPR001313 The drosophila pumilio gene codes for an unusual protein that binds through the Puf domain that usually occurs as a tandem repeat of eight domains Back     alignment and domain information
>smart00025 Pumilio Pumilio-like repeats Back     alignment and domain information
>PRK05686 fliG flagellar motor switch protein G; Validated Back     alignment and domain information
>TIGR00207 fliG flagellar motor switch protein FliG Back     alignment and domain information
>PRK05686 fliG flagellar motor switch protein G; Validated Back     alignment and domain information
>PF04286 DUF445: Protein of unknown function (DUF445); InterPro: IPR007383 This entry contains proteins of unknown function Back     alignment and domain information
>PF08144 CPL: CPL (NUC119) domain; InterPro: IPR012959 This C-terminal domain is found in Penguin-like proteins (CPL) and is associated with Pumilio like repeats [] Back     alignment and domain information
>COG1536 FliG Flagellar motor switch protein [Cell motility and secretion] Back     alignment and domain information
>PF08144 CPL: CPL (NUC119) domain; InterPro: IPR012959 This C-terminal domain is found in Penguin-like proteins (CPL) and is associated with Pumilio like repeats [] Back     alignment and domain information
>KOG1924 consensus RhoA GTPase effector DIA/Diaphanous [Signal transduction mechanisms; Cytoskeleton] 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 ?
Query760
3gvo_A351 Structure And Rna Binding Of The Mouse Pumilio-2 Pu 1e-111
3q0q_A351 Crystal Structure Of The Pumilio-Homology Domain Fr 1e-109
1ib2_A349 Crystal Structure Of A Pumilio-Homology Domain Leng 1e-104
1ib2_A 349 Crystal Structure Of A Pumilio-Homology Domain Leng 4e-04
3bsb_A343 Crystal Structure Of Human Pumilio1 In Complex With 1e-104
3bsb_A 343 Crystal Structure Of Human Pumilio1 In Complex With 5e-04
2yjy_A350 A Specific And Modular Binding Code For Cytosine Re 1e-103
2yjy_A 350 A Specific And Modular Binding Code For Cytosine Re 4e-04
3h3d_X323 Drosophila Pumilio Rna Binding Domain (Puf Domain) 1e-100
3h3d_X323 Drosophila Pumilio Rna Binding Domain (Puf Domain) 4e-21
3k49_A369 Puf3 Rna Binding Domain Bound To Cox17 Rna 3' Utr R 9e-76
3bx3_A335 Puf4 T650cC724R MUTANT BOUND TO COX17 RNA 3' UTR Re 6e-43
3bx3_A335 Puf4 T650cC724R MUTANT BOUND TO COX17 RNA 3' UTR Re 2e-20
4dzs_A357 Crystal Structure Of Yeast Puf4p Rna Binding Domain 5e-41
4dzs_A357 Crystal Structure Of Yeast Puf4p Rna Binding Domain 2e-19
3bx2_A335 Puf4 Rna Binding Domain Bound To Ho Endonuclease Rn 1e-40
3bx2_A335 Puf4 Rna Binding Domain Bound To Ho Endonuclease Rn 5e-19
3bwt_A333 Crystal Structure Of The Rna Binding Domain Of Puf4 1e-40
3bwt_A333 Crystal Structure Of The Rna Binding Domain Of Puf4 5e-19
3qg9_A413 Crystal Structure Of Fbf-2GLD-1 Fbea A7u Mutant Com 3e-29
3k5q_A412 Crystal Structure Of Fbf-2FBE COMPLEX Length = 412 3e-29
3qgb_A413 Crystal Structure Of Fbf-2 R288y Mutant In Complex 2e-28
3v71_A382 Crystal Structure Of Puf-6 In Complex With 5be13 Rn 5e-26
>pdb|3GVO|A Chain A, Structure And Rna Binding Of The Mouse Pumilio-2 Puf Domain Length = 351 Back     alignment and structure 
Iteration: 1

 Score =  398 bits (1023), Expect = e-111,   Method: Compositional matrix adjust.
 Identities = 194/338 (57%), Positives = 255/338 (75%), Gaps = 2/338 (0%)
Query: 420 FLEELKSSNAQKFELSDIAGRIVEFSVDQHGSRFIQQKLEHCSAEEKVSVFKEVLPHASK 479
            LE+ +++     +L D+ G IVEFS DQHGSRFIQQKLE  +  E+  VF E+L  A +
Sbjct: 7   LLEDFRNNRFPNLQLRDLIGHIVEFSQDQHGSRFIQQKLERATPAERQIVFNEILQAAYQ 66
Query: 480 LMTDVFGNYVIQKFFEHGSPDQRKELAEKLVGQVLPLSLQMYGCRVIQKALEVIELHQKS 539
           LMTDVFGNYVIQKFFE GS DQ+  LA ++ G VLPL+LQMYGCRVIQKALE I   Q+S
Sbjct: 67  LMTDVFGNYVIQKFFEFGSLDQKLALATRIRGHVLPLALQMYGCRVIQKALESISSDQQS 126
Query: 540 QLVLELDGHVMRCVRDQNGNHVIQKCIECVPAEKIEFIISAFRGQVATLSTHPYGCRVIQ 599
           ++V ELDGHV++CV+DQNGNHV+QKCIECV  + ++FII AF+GQV  LSTHPYGCRVIQ
Sbjct: 127 EMVKELDGHVLKCVKDQNGNHVVQKCIECVQPQSLQFIIDAFKGQVFVLSTHPYGCRVIQ 186
Query: 600 RVLEHCSDEQQGQCIVDEILESAFALAQDQYGNYVTQHVLERGKSYERTQILSKLAGKIV 659
           R+LEHC+ EQ    I++E+ +    L QDQYGNYV QHVLE G+  ++++I+S++ GK++
Sbjct: 187 RILEHCTAEQTLP-ILEELHQHTEQLVQDQYGNYVIQHVLEHGRPEDKSKIVSEIRGKVL 245
Query: 660 QMSQHKYASNVVEKCLEYGDTAERELLIEEILGQSE-ENDNLLVMMKDQYANYVVQKILE 718
            +SQHK+ASNVVEKC+ +   AER LLI+E+  Q++  +  L  MMKDQYANYVVQK+++
Sbjct: 246 ALSQHKFASNVVEKCVTHASRAERALLIDEVCCQNDGPHSALYTMMKDQYANYVVQKMID 305
Query: 719 KCNEKLRETLISRIRVHCDALKKYTYGKHIVARFEQLY 756
                 R+ ++ +IR H   L+KYTYGKHI+A+ E+ Y
Sbjct: 306 MAEPAQRKIIMHKIRPHITTLRKYTYGKHILAKLEKYY 343
>pdb|3Q0Q|A Chain A, Crystal Structure Of The Pumilio-Homology Domain From Human Pumilio2 In Complex With P38alpha Nrea Length = 351 Back     alignment and structure
>pdb|1IB2|A Chain A, Crystal Structure Of A Pumilio-Homology Domain Length = 349 Back     alignment and structure
>pdb|1IB2|A Chain A, Crystal Structure Of A Pumilio-Homology Domain Length = 349 Back     alignment and structure
>pdb|3BSB|A Chain A, Crystal Structure Of Human Pumilio1 In Complex With Cyclinb Reverse Rna Length = 343 Back     alignment and structure
>pdb|3BSB|A Chain A, Crystal Structure Of Human Pumilio1 In Complex With Cyclinb Reverse Rna Length = 343 Back     alignment and structure
>pdb|2YJY|A Chain A, A Specific And Modular Binding Code For Cytosine Recognition In Puf Domains Length = 350 Back     alignment and structure
>pdb|2YJY|A Chain A, A Specific And Modular Binding Code For Cytosine Recognition In Puf Domains Length = 350 Back     alignment and structure
>pdb|3H3D|X Chain X, Drosophila Pumilio Rna Binding Domain (Puf Domain) Length = 323 Back     alignment and structure
>pdb|3H3D|X Chain X, Drosophila Pumilio Rna Binding Domain (Puf Domain) Length = 323 Back     alignment and structure
>pdb|3K49|A Chain A, Puf3 Rna Binding Domain Bound To Cox17 Rna 3' Utr Recognition Sequence Site B Length = 369 Back     alignment and structure
>pdb|3BX3|A Chain A, Puf4 T650cC724R MUTANT BOUND TO COX17 RNA 3' UTR Recognition Sequence Length = 335 Back     alignment and structure
>pdb|3BX3|A Chain A, Puf4 T650cC724R MUTANT BOUND TO COX17 RNA 3' UTR Recognition Sequence Length = 335 Back     alignment and structure
>pdb|4DZS|A Chain A, Crystal Structure Of Yeast Puf4p Rna Binding Domain In Complex With Ho-4be Mutant Rna Length = 357 Back     alignment and structure
>pdb|4DZS|A Chain A, Crystal Structure Of Yeast Puf4p Rna Binding Domain In Complex With Ho-4be Mutant Rna Length = 357 Back     alignment and structure
>pdb|3BX2|A Chain A, Puf4 Rna Binding Domain Bound To Ho Endonuclease Rna 3' Utr Recognition Sequence Length = 335 Back     alignment and structure
>pdb|3BX2|A Chain A, Puf4 Rna Binding Domain Bound To Ho Endonuclease Rna 3' Utr Recognition Sequence Length = 335 Back     alignment and structure
>pdb|3BWT|A Chain A, Crystal Structure Of The Rna Binding Domain Of Puf4 From Saccharomyces Cerevisiae Length = 333 Back     alignment and structure
>pdb|3BWT|A Chain A, Crystal Structure Of The Rna Binding Domain Of Puf4 From Saccharomyces Cerevisiae Length = 333 Back     alignment and structure
>pdb|3QG9|A Chain A, Crystal Structure Of Fbf-2GLD-1 Fbea A7u Mutant Complex Length = 413 Back     alignment and structure
>pdb|3K5Q|A Chain A, Crystal Structure Of Fbf-2FBE COMPLEX Length = 412 Back     alignment and structure
>pdb|3QGB|A Chain A, Crystal Structure Of Fbf-2 R288y Mutant In Complex With Gld-1 Fbea Length = 413 Back     alignment and structure
>pdb|3V71|A Chain A, Crystal Structure Of Puf-6 In Complex With 5be13 Rna Length = 382 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 ?
Query760
3gvo_A351 Pumilio 2, pumilio homolog 2; RNA-binding, PUF dom 1e-168
3gvo_A351 Pumilio 2, pumilio homolog 2; RNA-binding, PUF dom 2e-71
3k49_A369 MRNA-binding protein PUF3; PUF3, pumilio, RNA bind 1e-160
3k49_A369 MRNA-binding protein PUF3; PUF3, pumilio, RNA bind 3e-42
3k49_A369 MRNA-binding protein PUF3; PUF3, pumilio, RNA bind 5e-17
3k49_A369 MRNA-binding protein PUF3; PUF3, pumilio, RNA bind 7e-05
3bwt_A333 Protein PUF4; pumilio, RNA binding, HO endonucleas 1e-140
3bwt_A 333 Protein PUF4; pumilio, RNA binding, HO endonucleas 1e-40
3bwt_A333 Protein PUF4; pumilio, RNA binding, HO endonucleas 1e-36
3v71_A382 PUF (pumilio/FBF) domain-containing protein 7, CO 1e-124
3v71_A 382 PUF (pumilio/FBF) domain-containing protein 7, CO 8e-36
3k62_A412 FEM-3 mRNA-binding factor 2; FBF, FEM-3 binding fa 1e-118
3k62_A412 FEM-3 mRNA-binding factor 2; FBF, FEM-3 binding fa 3e-46
3k62_A412 FEM-3 mRNA-binding factor 2; FBF, FEM-3 binding fa 2e-17
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 1e-08
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 3e-08
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 4e-05
1m2v_B 926 SEC24, protein transport protein SEC24, SEC24P, SE 1e-06
>3gvo_A Pumilio 2, pumilio homolog 2; RNA-binding, PUF domain, RNA binding protein; HET: DTD; 1.60A {Mus musculus} PDB: 3gvt_A 3q0q_A 3q0r_A 3q0s_A 1ib2_A 1m8w_A 1m8x_A 1m8y_A 1m8z_A 3q0l_A 3q0m_A 3q0n_A 3q0o_A 3q0p_A 2yjy_A 3bsx_A 3bsb_A 3h3d_X Length = 351 Back     alignment and structure
 Score =  486 bits (1254), Expect = e-168
 Identities = 194/347 (55%), Positives = 258/347 (74%), Gaps = 2/347 (0%)

Query: 415 SKKHSFLEELKSSNAQKFELSDIAGRIVEFSVDQHGSRFIQQKLEHCSAEEKVSVFKEVL 474
           + +   LE+ +++     +L D+ G IVEFS DQHGSRFIQQKLE  +  E+  VF E+L
Sbjct: 2   TGRSRLLEDFRNNRFPNLQLRDLIGHIVEFSQDQHGSRFIQQKLERATPAERQIVFNEIL 61

Query: 475 PHASKLMTDVFGNYVIQKFFEHGSPDQRKELAEKLVGQVLPLSLQMYGCRVIQKALEVIE 534
             A +LMTDVFGNYVIQKFFE GS DQ+  LA ++ G VLPL+LQMYGCRVIQKALE I 
Sbjct: 62  QAAYQLMTDVFGNYVIQKFFEFGSLDQKLALATRIRGHVLPLALQMYGCRVIQKALESIS 121

Query: 535 LHQKSQLVLELDGHVMRCVRDQNGNHVIQKCIECVPAEKIEFIISAFRGQVATLSTHPYG 594
             Q+S++V ELDGHV++CV+DQNGNHV+QKCIECV  + ++FII AF+GQV  LSTHPYG
Sbjct: 122 SDQQSEMVKELDGHVLKCVKDQNGNHVVQKCIECVQPQSLQFIIDAFKGQVFVLSTHPYG 181

Query: 595 CRVIQRVLEHCSDEQQGQCIVDEILESAFALAQDQYGNYVTQHVLERGKSYERTQILSKL 654
           CRVIQR+LEHC+ EQ    I++E+ +    L QDQYGNYV QHVLE G+  ++++I+S++
Sbjct: 182 CRVIQRILEHCTAEQT-LPILEELHQHTEQLVQDQYGNYVIQHVLEHGRPEDKSKIVSEI 240

Query: 655 AGKIVQMSQHKYASNVVEKCLEYGDTAERELLIEEILGQSEEN-DNLLVMMKDQYANYVV 713
            GK++ +SQHK+ASNVVEKC+ +   AER LLI+E+  Q++     L  MMKDQYANYVV
Sbjct: 241 RGKVLALSQHKFASNVVEKCVTHASRAERALLIDEVCCQNDGPHSALYTMMKDQYANYVV 300

Query: 714 QKILEKCNEKLRETLISRIRVHCDALKKYTYGKHIVARFEQLYGEGA 760
           QK+++      R+ ++ +IR H   L+KYTYGKHI+A+ E+ Y + +
Sbjct: 301 QKMIDMAEPAQRKIIMHKIRPHITTLRKYTYGKHILAKLEKYYLKNS 347
>3gvo_A Pumilio 2, pumilio homolog 2; RNA-binding, PUF domain, RNA binding protein; HET: DTD; 1.60A {Mus musculus} PDB: 3gvt_A 3q0q_A 3q0r_A 3q0s_A 1ib2_A 1m8w_A 1m8x_A 1m8y_A 1m8z_A 3q0l_A 3q0m_A 3q0n_A 3q0o_A 3q0p_A 2yjy_A 3bsx_A 3bsb_A 3h3d_X Length = 351 Back     alignment and structure
>3k49_A MRNA-binding protein PUF3; PUF3, pumilio, RNA binding, mitochondrial mRNA,, membrane, mitochondrion; HET: CIT; 2.50A {Saccharomyces cerevisiae} PDB: 3k4e_A Length = 369 Back     alignment and structure
>3k49_A MRNA-binding protein PUF3; PUF3, pumilio, RNA binding, mitochondrial mRNA,, membrane, mitochondrion; HET: CIT; 2.50A {Saccharomyces cerevisiae} PDB: 3k4e_A Length = 369 Back     alignment and structure
>3k49_A MRNA-binding protein PUF3; PUF3, pumilio, RNA binding, mitochondrial mRNA,, membrane, mitochondrion; HET: CIT; 2.50A {Saccharomyces cerevisiae} PDB: 3k4e_A Length = 369 Back     alignment and structure
>3k49_A MRNA-binding protein PUF3; PUF3, pumilio, RNA binding, mitochondrial mRNA,, membrane, mitochondrion; HET: CIT; 2.50A {Saccharomyces cerevisiae} PDB: 3k4e_A Length = 369 Back     alignment and structure
>3bwt_A Protein PUF4; pumilio, RNA binding, HO endonuclease, transcription, RNA binding protein; 2.69A {Saccharomyces cerevisiae} PDB: 4dzs_A 3bx2_A 3bx3_A Length = 333 Back     alignment and structure
>3bwt_A Protein PUF4; pumilio, RNA binding, HO endonuclease, transcription, RNA binding protein; 2.69A {Saccharomyces cerevisiae} PDB: 4dzs_A 3bx2_A 3bx3_A Length = 333 Back     alignment and structure
>3bwt_A Protein PUF4; pumilio, RNA binding, HO endonuclease, transcription, RNA binding protein; 2.69A {Saccharomyces cerevisiae} PDB: 4dzs_A 3bx2_A 3bx3_A Length = 333 Back     alignment and structure
>3v71_A PUF (pumilio/FBF) domain-containing protein 7, CO transcript evidence; PUF repeats, RNA binding protein-RNA complex; HET: EPE; 2.90A {Caenorhabditis elegans} Length = 382 Back     alignment and structure
>3v71_A PUF (pumilio/FBF) domain-containing protein 7, CO transcript evidence; PUF repeats, RNA binding protein-RNA complex; HET: EPE; 2.90A {Caenorhabditis elegans} Length = 382 Back     alignment and structure
>3k62_A FEM-3 mRNA-binding factor 2; FBF, FEM-3 binding factor, PUF, RNA-binding specificity, base flipping, base stacking; 1.90A {Caenorhabditis elegans} PDB: 3k5y_A 3k5z_A 3k61_A 3k5q_A 3k64_A 3qg9_A 3v6y_A 3v74_A 3qgc_A 3qgb_A Length = 412 Back     alignment and structure
>3k62_A FEM-3 mRNA-binding factor 2; FBF, FEM-3 binding factor, PUF, RNA-binding specificity, base flipping, base stacking; 1.90A {Caenorhabditis elegans} PDB: 3k5y_A 3k5z_A 3k61_A 3k5q_A 3k64_A 3qg9_A 3v6y_A 3v74_A 3qgc_A 3qgb_A Length = 412 Back     alignment and structure
>3k62_A FEM-3 mRNA-binding factor 2; FBF, FEM-3 binding factor, PUF, RNA-binding specificity, base flipping, base stacking; 1.90A {Caenorhabditis elegans} PDB: 3k5y_A 3k5z_A 3k61_A 3k5q_A 3k64_A 3qg9_A 3v6y_A 3v74_A 3qgc_A 3qgb_A Length = 412 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
>1m2v_B SEC24, protein transport protein SEC24, SEC24P, SEC24 protein, abnormal nuclear; zinc-finger, beta barrel, VWA domain, gelsolin domain,; 2.75A {Saccharomyces cerevisiae} SCOP: a.71.2.1 b.2.8.1 c.62.1.2 d.109.2.1 g.41.10.1 Length = 926 Back     alignment and structure

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query760
3gvo_A351 Pumilio 2, pumilio homolog 2; RNA-binding, PUF dom 100.0
3k49_A369 MRNA-binding protein PUF3; PUF3, pumilio, RNA bind 100.0
3k62_A412 FEM-3 mRNA-binding factor 2; FBF, FEM-3 binding fa 100.0
3v71_A382 PUF (pumilio/FBF) domain-containing protein 7, CO 100.0
3bwt_A333 Protein PUF4; pumilio, RNA binding, HO endonucleas 100.0
3gvo_A351 Pumilio 2, pumilio homolog 2; RNA-binding, PUF dom 100.0
3k49_A369 MRNA-binding protein PUF3; PUF3, pumilio, RNA bind 100.0
3bwt_A333 Protein PUF4; pumilio, RNA binding, HO endonucleas 100.0
3v71_A382 PUF (pumilio/FBF) domain-containing protein 7, CO 100.0
3k62_A412 FEM-3 mRNA-binding factor 2; FBF, FEM-3 binding fa 100.0
3hjl_A329 Flagellar motor switch protein FLIG; armadillo rep 90.19
2of3_A266 ZYG-9; multifunctional macromolecule, kinetochore, 81.79
>3gvo_A Pumilio 2, pumilio homolog 2; RNA-binding, PUF domain, RNA binding protein; HET: DTD; 1.60A {Mus musculus} SCOP: a.118.1.8 PDB: 3gvt_A 3q0q_A 3q0r_A 3q0s_A 1ib2_A 1m8w_A 1m8x_A 1m8y_A 1m8z_A 3q0l_A 3q0m_A 3q0n_A 3q0o_A 3q0p_A 2yjy_A 3bsx_A 3bsb_A 3h3d_X Back     alignment and structure
Probab=100.00  E-value=3.1e-66  Score=564.13  Aligned_cols=342  Identities=56%  Similarity=0.950  Sum_probs=329.8

Q ss_pred             hhhHHHHHhhccccccchHHhHHHHHHHHhcCCCcCHHHHHhhhcCCHHHHHHHHHHHhhchhhhccCcccchhhhhhhc
Q 004335          416 KKHSFLEELKSSNAQKFELSDIAGRIVEFSVDQHGSRFIQQKLEHCSAEEKVSVFKEVLPHASKLMTDVFGNYVIQKFFE  495 (760)
Q Consensus       416 ~rs~LLeeL~s~~~~~~~L~eI~GkvveLa~dq~gSRvIQ~lLe~~s~Eqr~~If~EL~p~~~eL~~D~yGnhVIQKLLe  495 (760)
                      -|+.|+|+|+.++.+.++|+++.|+++++|+||+|||+||++|+++++++++.||+|+.+++.+||+|+||||||||||+
T Consensus         3 ~~~~l~e~~r~~~~~~~~l~~~~g~i~~la~dq~gsR~lQ~~l~~~~~~~~~~i~~ei~~~~~~L~~d~~gn~vvQklle   82 (351)
T 3gvo_A            3 GRSRLLEDFRNNRFPNLQLRDLIGHIVEFSQDQHGSRFIQQKLERATPAERQIVFNEILQAAYQLMTDVFGNYVIQKFFE   82 (351)
T ss_dssp             CCCHHHHHHHTTCCTTCCGGGGTTCHHHHHTSHHHHHHHHHHHHHCCHHHHHHHHHHHGGGHHHHHTSTTHHHHHHHHHH
T ss_pred             CccHHHHHHhCCCCCCcCHHHHHhHHHHHhcCCcchHHHHHHHhhCCHHHHHHHHHHHHHhHHHHHhChhhhHHHHHHHh
Confidence            47899999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cCCHHHHHHHHHHHhhccccccccccccHHHHHHHHhhCHHHHHHHHHHhhhhHhHHhhcccCChhhhHhhhcCChhHHH
Q 004335          496 HGSPDQRKELAEKLVGQVLPLSLQMYGCRVIQKALEVIELHQKSQLVLELDGHVMRCVRDQNGNHVIQKCIECVPAEKIE  575 (760)
Q Consensus       496 ~~s~eqr~~Ii~~L~g~v~~Ls~h~yGSrVIQklLe~as~eqr~~Lv~EL~g~i~~L~kDq~GNhVLQklLe~~~~e~~~  575 (760)
                      +++++++..|++.+.|++.+|+.|+|||||||++|+.++.+++..|++||.+++..|++|++||||+|+|+++++++.+.
T Consensus        83 ~~~~~~~~~i~~~i~g~~~~l~~~~~G~rvvQk~le~~~~~~~~~i~~el~~~~~~L~~d~~Gn~ViQk~l~~~~~~~~~  162 (351)
T 3gvo_A           83 FGSLDQKLALATRIRGHVLPLALQMYGCRVIQKALESISSDQQSEMVKELDGHVLKCVKDQNGNHVVQKCIECVQPQSLQ  162 (351)
T ss_dssp             HCCHHHHHHHHHHHTTCHHHHHTSTTHHHHHHHHHHHSCHHHHHHHHGGGTTCHHHHHHSTTHHHHHHHHHHHSCGGGTH
T ss_pred             hCCHHHHHHHHHHHHhhHHHHhhCHHhHHHHHHHHHhCCHHHHHHHHHHhhhhHHHHHHhhhhhHHHHHHHHhCCHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHhhhhHhhhccCCcchhHHHHHHhhCCChHHHHHHHHHHHHHHHHHhhcccchHHHHHHHhcCChhhHHHHHHHHH
Q 004335          576 FIISAFRGQVATLSTHPYGCRVIQRVLEHCSDEQQGQCIVDEILESAFALAQDQYGNYVTQHVLERGKSYERTQILSKLA  655 (760)
Q Consensus       576 ~Ii~~L~~~i~~Ls~hkyGS~VLQklLe~~~~~~q~~~Il~eL~~~l~~La~Dq~GNyVVQ~LLe~~~~k~R~~Iie~L~  655 (760)
                      +|++.+.+++.+|++|+|||+|||++|+.+. ++++..|++++.+++..|++|+|||||||++|++++++.++.|++.++
T Consensus       163 ~i~~~~~~~~~~ls~~~~G~~Vvq~~le~~~-~~~~~~ii~~l~~~~~~L~~d~~Gn~ViQ~~l~~~~~~~~~~i~~~l~  241 (351)
T 3gvo_A          163 FIIDAFKGQVFVLSTHPYGCRVIQRILEHCT-AEQTLPILEELHQHTEQLVQDQYGNYVIQHVLEHGRPEDKSKIVSEIR  241 (351)
T ss_dssp             HHHHHTTTTHHHHHTSTTHHHHHHHHHHHSC-HHHHHHHHHHHHTTHHHHHTSTTHHHHHHHHHHHSCHHHHHHHHHTTT
T ss_pred             HHHHHHHHHHHHHHhCcHhHHHHHHHHHHCC-HHHHHHHHHHHhhhHHhcCCCchHHHHHHHHHHhCchhhHHHHHHHHH
Confidence            9999999999999999999999999999986 567888999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhcCccHHHHHHHHHHhCCHHHHHHHHHHHhcCCC-CcHHHHHhhcCCChhHHHHHHHhhCCHHHHHHHHHHHHH
Q 004335          656 GKIVQMSQHKYASNVVEKCLEYGDTAERELLIEEILGQSE-ENDNLLVMMKDQYANYVVQKILEKCNEKLRETLISRIRV  734 (760)
Q Consensus       656 ~~l~~Ls~~K~GS~VVEk~L~~a~~keRk~II~eLl~~~~-~ke~L~~La~DqyGnyVIQklL~~~dd~~rk~Il~~Lk~  734 (760)
                      +++..|+++||||+|||+||+++++++|+.|+++|+...+ ..+.+..|+.|+|||||||++|+.+++++|+.|++.|++
T Consensus       242 ~~~~~Ls~~k~gs~Vvek~l~~~~~~~r~~ii~el~~~~~~~~~~l~~l~~d~ygnyViq~~L~~~~~~~r~~i~~~i~~  321 (351)
T 3gvo_A          242 GKVLALSQHKFASNVVEKCVTHASRAERALLIDEVCCQNDGPHSALYTMMKDQYANYVVQKMIDMAEPAQRKIIMHKIRP  321 (351)
T ss_dssp             TCHHHHHTSTTHHHHHHHHHHHSCHHHHHHHHHHHHSCEETTEEHHHHHHHSTTHHHHHHHHHHHCCHHHHHHHHHHHGG
T ss_pred             HHHHHHhcCcHHHHHHHHHHHhCCHHHHHHHHHHHhcccCCCChHHHHccCCcchHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            9999999999999999999999999999999999996432 124799999999999999999999999999999999999


Q ss_pred             hHHHHhhCCChHHHHHHHHHHHhc
Q 004335          735 HCDALKKYTYGKHIVARFEQLYGE  758 (760)
Q Consensus       735 ~l~~L~~~~yGk~Vv~kLekl~~~  758 (760)
                      ++..|++++||++|+++||+++..
T Consensus       322 ~~~~L~~~~~g~~i~~kl~~~~~~  345 (351)
T 3gvo_A          322 HITTLRKYTYGKHILAKLEKYYLK  345 (351)
T ss_dssp             GHHHHTTSTTTHHHHHHHHHHTC-
T ss_pred             HHHHHhcCCchHHHHHHHHHHHhh
Confidence            999999999999999999999864
>3k49_A MRNA-binding protein PUF3; PUF3, pumilio, RNA binding, mitochondrial mRNA,, membrane, mitochondrion; HET: CIT; 2.50A {Saccharomyces cerevisiae} SCOP: a.118.1.0 PDB: 3k4e_A Back     alignment and structure
>3k62_A FEM-3 mRNA-binding factor 2; FBF, FEM-3 binding factor, PUF, RNA-binding specificity, base flipping, base stacking; 1.90A {Caenorhabditis elegans} PDB: 3k5y_A 3k5z_A 3k61_A 3k5q_A 3k64_A 3qg9_A 3v6y_A 3v74_A 3qgc_A 3qgb_A Back     alignment and structure
>3v71_A PUF (pumilio/FBF) domain-containing protein 7, CO transcript evidence; PUF repeats, RNA binding protein-RNA complex; HET: EPE; 2.90A {Caenorhabditis elegans} Back     alignment and structure
>3bwt_A Protein PUF4; pumilio, RNA binding, HO endonuclease, transcription, RNA binding protein; 2.69A {Saccharomyces cerevisiae} PDB: 4dzs_A 3bx2_A 3bx3_A Back     alignment and structure
>3gvo_A Pumilio 2, pumilio homolog 2; RNA-binding, PUF domain, RNA binding protein; HET: DTD; 1.60A {Mus musculus} SCOP: a.118.1.8 PDB: 3gvt_A 3q0q_A 3q0r_A 3q0s_A 1ib2_A 1m8w_A 1m8x_A 1m8y_A 1m8z_A 3q0l_A 3q0m_A 3q0n_A 3q0o_A 3q0p_A 2yjy_A 3bsx_A 3bsb_A 3h3d_X Back     alignment and structure
>3k49_A MRNA-binding protein PUF3; PUF3, pumilio, RNA binding, mitochondrial mRNA,, membrane, mitochondrion; HET: CIT; 2.50A {Saccharomyces cerevisiae} SCOP: a.118.1.0 PDB: 3k4e_A Back     alignment and structure
>3bwt_A Protein PUF4; pumilio, RNA binding, HO endonuclease, transcription, RNA binding protein; 2.69A {Saccharomyces cerevisiae} PDB: 4dzs_A 3bx2_A 3bx3_A Back     alignment and structure
>3v71_A PUF (pumilio/FBF) domain-containing protein 7, CO transcript evidence; PUF repeats, RNA binding protein-RNA complex; HET: EPE; 2.90A {Caenorhabditis elegans} Back     alignment and structure
>3k62_A FEM-3 mRNA-binding factor 2; FBF, FEM-3 binding factor, PUF, RNA-binding specificity, base flipping, base stacking; 1.90A {Caenorhabditis elegans} PDB: 3k5y_A 3k5z_A 3k61_A 3k5q_A 3k64_A 3qg9_A 3v6y_A 3v74_A 3qgc_A 3qgb_A Back     alignment and structure
>3hjl_A Flagellar motor switch protein FLIG; armadillo repeat motif, superhelix, conformational plasticit repeat, torque generation; 2.40A {Aquifex aeolicus} Back     alignment and structure
>2of3_A ZYG-9; multifunctional macromolecule, kinetochore, microtubule, XMAP215, STU2, DIS1, microtubule associated protein, structural protein; 1.90A {Caenorhabditis elegans} 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 760
d1m8za_339 a.118.1.8 (A:) Pumilio 1 {Human (Homo sapiens) [Ta 1e-113
d1m8za_ 339 a.118.1.8 (A:) Pumilio 1 {Human (Homo sapiens) [Ta 6e-18
>d1m8za_ a.118.1.8 (A:) Pumilio 1 {Human (Homo sapiens) [TaxId: 9606]} Length = 339 Back     information, alignment and structure

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: Pumilio repeat
domain: Pumilio 1
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  344 bits (884), Expect = e-113
 Identities = 182/339 (53%), Positives = 248/339 (73%), Gaps = 2/339 (0%)

Query: 417 KHSFLEELKSSNAQKFELSDIAGRIVEFSVDQHGSRFIQQKLEHCSAEEKVSVFKEVLPH 476
           +   LE+ +++     +L +IAG I+EFS DQHGSRFIQ KLE  +  E+  VF E+L  
Sbjct: 2   RSRLLEDFRNNRYPNLQLREIAGHIMEFSQDQHGSRFIQLKLERATPAERQLVFNEILQA 61

Query: 477 ASKLMTDVFGNYVIQKFFEHGSPDQRKELAEKLVGQVLPLSLQMYGCRVIQKALEVIELH 536
           A +LM DVFGNYVIQKFFE GS +Q+  LAE++ G VL L+LQMYGCRVIQKALE I   
Sbjct: 62  AYQLMVDVFGNYVIQKFFEFGSLEQKLALAERIRGHVLSLALQMYGCRVIQKALEFIPSD 121

Query: 537 QKSQLVLELDGHVMRCVRDQNGNHVIQKCIECVPAEKIEFIISAFRGQVATLSTHPYGCR 596
           Q++++V ELDGHV++CV+DQNGNHV+QKCIECV  + ++FII AF+GQV  LSTHPYGCR
Sbjct: 122 QQNEMVRELDGHVLKCVKDQNGNHVVQKCIECVQPQSLQFIIDAFKGQVFALSTHPYGCR 181

Query: 597 VIQRVLEHCSDEQQGQCIVDEILESAFALAQDQYGNYVTQHVLERGKSYERTQILSKLAG 656
           VIQR+LEHC  +Q    + +E+ +    L QDQYGNYV QHVLE G+  ++++I++++ G
Sbjct: 182 VIQRILEHCLPDQTLPIL-EELHQHTEQLVQDQYGNYVIQHVLEHGRPEDKSKIVAEIRG 240

Query: 657 KIVQMSQHKYASNVVEKCLEYGDTAERELLIEEILGQSEEN-DNLLVMMKDQYANYVVQK 715
            ++ +SQHK+ASNVVEKC+ +    ER +LI+E+   ++     L  MMKDQYANYVVQK
Sbjct: 241 NVLVLSQHKFASNVVEKCVTHASRTERAVLIDEVCTMNDGPHSALYTMMKDQYANYVVQK 300

Query: 716 ILEKCNEKLRETLISRIRVHCDALKKYTYGKHIVARFEQ 754
           +++      R+ ++ +IR H   L+KYTYGKHI+A+ E+
Sbjct: 301 MIDVAEPGQRKIVMHKIRPHIATLRKYTYGKHILAKLEK 339
>d1m8za_ a.118.1.8 (A:) Pumilio 1 {Human (Homo sapiens) [TaxId: 9606]} Length = 339 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 ?
Query760
d1m8za_339 Pumilio 1 {Human (Homo sapiens) [TaxId: 9606]} 100.0
d1m8za_339 Pumilio 1 {Human (Homo sapiens) [TaxId: 9606]} 100.0
d1b3ua_588 Constant regulatory domain of protein phosphatase 81.86
>d1m8za_ a.118.1.8 (A:) Pumilio 1 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: Pumilio repeat
domain: Pumilio 1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=2.9e-59  Score=501.07  Aligned_cols=337  Identities=54%  Similarity=0.930  Sum_probs=325.0

Q ss_pred             hhHHHHHhhccccccchHHhHHHHHHHHhcCCCcCHHHHHhhhcCCHHHHHHHHHHHhhchhhhccCcccchhhhhhhcc
Q 004335          417 KHSFLEELKSSNAQKFELSDIAGRIVEFSVDQHGSRFIQQKLEHCSAEEKVSVFKEVLPHASKLMTDVFGNYVIQKFFEH  496 (760)
Q Consensus       417 rs~LLeeL~s~~~~~~~L~eI~GkvveLa~dq~gSRvIQ~lLe~~s~Eqr~~If~EL~p~~~eL~~D~yGnhVIQKLLe~  496 (760)
                      |++|+|+|+.++.+.++|++++|+++++|+||+|||+||++|+++++++++.||+||.+++.+||+|+||||||||||++
T Consensus         2 ~~~~~~~~~~~~~~~~~l~~~~g~~~~~~~~q~gSr~lQ~~l~~~~~~~~~~I~~~l~~~~~~L~~~~~gn~vvqkll~~   81 (339)
T d1m8za_           2 RSRLLEDFRNNRYPNLQLREIAGHIMEFSQDQHGSRFIQLKLERATPAERQLVFNEILQAAYQLMVDVFGNYVIQKFFEF   81 (339)
T ss_dssp             CCHHHHHHHTTCCTTCCGGGGTTCHHHHHTSHHHHHHHHHHHHHCCHHHHHHHHHHHGGGHHHHHTSTTHHHHHHHHHHH
T ss_pred             CchHhHHhhcCCCCCCcHHHHHhHHHHHhcCchhhHHHHHHHhhCCHHHHHHHHHHHHHHHHHHhhCcccchhHHHHHhh
Confidence            68899999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCHHHHHHHHHHHhhccccccccccccHHHHHHHHhhCHHHHHHHHHHhhhhHhHHhhcccCChhhhHhhhcCChhHHHH
Q 004335          497 GSPDQRKELAEKLVGQVLPLSLQMYGCRVIQKALEVIELHQKSQLVLELDGHVMRCVRDQNGNHVIQKCIECVPAEKIEF  576 (760)
Q Consensus       497 ~s~eqr~~Ii~~L~g~v~~Ls~h~yGSrVIQklLe~as~eqr~~Lv~EL~g~i~~L~kDq~GNhVLQklLe~~~~e~~~~  576 (760)
                      ++++++..|++.+.+++.+|+.|+|||+|||++++.+..+++..+++||++++..+++|.+|+||++++++..+++.++.
T Consensus        82 ~~~~~~~~i~~~l~~~~~~L~~~~~gs~Vvq~l~~~~~~~~~~~l~~el~~~~~~l~~d~~~~~v~~~~l~~~~~~~~~~  161 (339)
T d1m8za_          82 GSLEQKLALAERIRGHVLSLALQMYGCRVIQKALEFIPSDQQNEMVRELDGHVLKCVKDQNGNHVVQKCIECVQPQSLQF  161 (339)
T ss_dssp             SCHHHHHHHHHHHTTCHHHHHTSTTHHHHHHHHHHHSCHHHHHHHHHTTTTCHHHHHHSTTHHHHHHHHHHHSCGGGGHH
T ss_pred             CCHHHHHHHHHHHHhhHHHHhcccccchHHHhhhccCCHHHHHHHHHHHhhhhHHHhcCCCcchHHHHHHHhcCHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHhhhhHhhhccCCcchhHHHHHHhhCCChHHHHHHHHHHHHHHHHHhhcccchHHHHHHHhcCChhhHHHHHHHHHH
Q 004335          577 IISAFRGQVATLSTHPYGCRVIQRVLEHCSDEQQGQCIVDEILESAFALAQDQYGNYVTQHVLERGKSYERTQILSKLAG  656 (760)
Q Consensus       577 Ii~~L~~~i~~Ls~hkyGS~VLQklLe~~~~~~q~~~Il~eL~~~l~~La~Dq~GNyVVQ~LLe~~~~k~R~~Iie~L~~  656 (760)
                      |++.+.+.+.++++|++||+|+|++++.+. ++++..+++++.+++..|++|+|||||+|++|++++++.++.|++.|++
T Consensus       162 i~~~~~~~~~~l~~~~~g~~vlq~~l~~~~-~~~~~~l~~~l~~~~~~L~~~~~G~~vvq~~l~~~~~~~~~~i~~~l~~  240 (339)
T d1m8za_         162 IIDAFKGQVFALSTHPYGCRVIQRILEHCL-PDQTLPILEELHQHTEQLVQDQYGNYVIQHVLEHGRPEDKSKIVAEIRG  240 (339)
T ss_dssp             HHHHTTTTHHHHHTSTTHHHHHHHHHHHSC-HHHHHHHHHHHHHTHHHHTTSTTHHHHHHHHHHHSCHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHhCcchhHHHHHHHhcCC-HHHHHHHHHHHHHHHHHHHhCccHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            999999999999999999999999999986 5578889999999999999999999999999999999999999999999


Q ss_pred             HHHHHhcCccHHHHHHHHHHhCCHHHHHHHHHHHhcCCC-CcHHHHHhhcCCChhHHHHHHHhhCCHHHHHHHHHHHHHh
Q 004335          657 KIVQMSQHKYASNVVEKCLEYGDTAERELLIEEILGQSE-ENDNLLVMMKDQYANYVVQKILEKCNEKLRETLISRIRVH  735 (760)
Q Consensus       657 ~l~~Ls~~K~GS~VVEk~L~~a~~keRk~II~eLl~~~~-~ke~L~~La~DqyGnyVIQklL~~~dd~~rk~Il~~Lk~~  735 (760)
                      ++.+|+++++||+|+|+|+++++++.|+.++++++...+ ..+.|..|++|+|||||||++|+++++++|+.|+++|+++
T Consensus       241 ~~~~l~~~k~gS~vve~~l~~~~~~~~~~~~~~l~~~~~~~~~~l~~L~~d~~gn~Viq~~l~~~~~~~~~~i~~~l~~~  320 (339)
T d1m8za_         241 NVLVLSQHKFASNVVEKCVTHASRTERAVLIDEVCTMNDGPHSALYTMMKDQYANYVVQKMIDVAEPGQRKIVMHKIRPH  320 (339)
T ss_dssp             CHHHHHTSTTHHHHHHHHHHHSCHHHHHHHHHHHHHCEETTEEHHHHHHTSTTHHHHHHHHHHHSCHHHHHHHHHTTGGG
T ss_pred             hHHHHHcchhHHHHHHHHHHhCCHHHHHHHHHHHHhcccCchHHHHHHHcCCcccHHHHHHHHhCCHHHHHHHHHHHHHH
Confidence            999999999999999999999999999999999875432 3567999999999999999999999999999999999999


Q ss_pred             HHHHhhCCChHHHHHHHHH
Q 004335          736 CDALKKYTYGKHIVARFEQ  754 (760)
Q Consensus       736 l~~L~~~~yGk~Vv~kLek  754 (760)
                      +.+|+.++||+||+++|+|
T Consensus       321 ~~~L~~~~~G~~v~~~l~~  339 (339)
T d1m8za_         321 IATLRKYTYGKHILAKLEK  339 (339)
T ss_dssp             HHHHTTSSTHHHHHHHHC-
T ss_pred             HHHHhcCCcHHHHHHHHhC
Confidence            9999999999999999975
>d1m8za_ a.118.1.8 (A:) Pumilio 1 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1b3ua_ a.118.1.2 (A:) Constant regulatory domain of protein phosphatase 2a, pr65alpha {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure