Citrus Sinensis ID: 004857

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-------
MNISEAPEANGSADVHVDPCVMDPQDIALISNNGPAAVSFSSSPCPDGTETSRNPRIDDTNSKNAGLEDVASVSAASQSDVSRAESRMRKKQEEQKYQGRIMMQQYPSAQQGFQYQVQGVQGQAVSLGMNNAHNAGTYMPSGNPFYPSFQPSGAGVYPSQYNVGGYALNSALFPPFVAGYPSQGPVPMPFDATSGSSFNIRTTSVSTGEGIPHIGSTQHQKFYGHQGLMLQSPFVDPLHMQYFQHPFGDAYNASVQHRLASSGVNGALADPSSKKEPIVAAYMGDQNLQSSLNGGPSISNPRKVGMPVGGYYGGLPGMGVMGQFPTSPIASPVLPSSPVGSTSQLGLRHEMRLPQGLNRNTGIYSGWQGQRTFEGQRTFEDSKKHSFLEELKSSNAQKFELSDIAGRIVEFSVDQHGSRFIQQKLEHCSAEEKVSVFKEVLPHASKLMTDVFGNYVIQKFFEHGSPDQRKELAEKLVGQVLPLSLQMYGCRVIQKALEVIELHQKSQLVLELDGHVMRCVRDQNGNHVIQKCIECVPAEKIEFIISAFRGQVATLSTHPYGCRVIQRVLEHCSDEQQGQCIVDEILESAFALAQDQYGNYVTQHVLERGKSYERTQILSKLAGKIVQMSQHKYASNVVEKCLEYGDTAERELLIEEILGQSEENDNLLVMMKDQYANYVVQKILEKCNEKLRETLISRIRVHCDALKKYTYGKHIVARFEQLYGEGA
ccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHcccccccHHHHcHHHHHHccccHHcHHHHHHHHcccHHHHHHHHHHHHHHHHHHcccccccHHHHHHHHcccHHHHHHHHHHHHHcHHHHcccccHHHHHHHHHHHccHHHHHHHHHHHHHcccHHccccccHHHHHHHHHcccccHHHHHHHHHHHcHHHHccccHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHccccccHHHHHHHccccHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHccc
ccccccccccccccccccHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHcccccccccccccccccccccccccccccccccccccccccccHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHccccccccHHHHcccHHHHHccHHHHHHHHHHHccccHHHHHHHHHHHcccHHHHHccccHHHHHHHHHHHccHHHHHHHHHHHcccHHHHHccccHHHHHHHHHHHccHHHHHHHHHHHcccHHHHHccccHHHHHHHHHHHccHHHHHHHHHHHcccHHHHHccccHHHHHHHHHHHccHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHccHHHHHHHHHHHcccHHHHHccccHHHHHHHHHHHccHHHHHHHHHHHHHcEEccEEHHHHHHcccHHHHHHHHHHHccHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHccHccc
mniseapeangsadvhvdpcvmdpqdialisnngpaavsfssspcpdgtetsrnpriddtnsknagledvasvsaasqsdVSRAESRMRKKQEEQKYQGRImmqqypsaqqgfQYQVQGVQGqavslgmnnahnagtympsgnpfypsfqpsgagvypsqynvggyalnsalfppfvagypsqgpvpmpfdatsgssfnirttsvstgegiphigstqhqkfyghqglmlqspfvdplhmqyfqhpfgdayNASVQHRLAssgvngaladpsskkepivaaymgdqnlqsslnggpsisnprkvgmpvggyygglpgmgvmgqfptspiaspvlpsspvgstsqlglrhemrlpqglnrntgiysgwqgqrtfegqrtfedskkHSFLEELkssnaqkfelsdiagrIVEFSVDQHGSRFIQQKLEHCSAEEKVSVFKEVLPHASKLMTDVFGNYVIQKFFEHGSPDQRKELAEKLVGQVLPLSLQMYGCRVIQKALEVIELHQKSQLVLELDGHVMrcvrdqngnhVIQKCIECVPAEKIEFIISAFRGQVAtlsthpygcRVIQRVLEhcsdeqqgQCIVDEILESAFALAQDQYGNYVTQHVLERGKSYERTQILSKLAGKIVQMSQHKYASNVVEKCLEYGDTAERELLIEEILGQSEENDNLLVMMKDQYANYVVQKILEKCNEKLRETLISRIRVHCDAlkkytygkHIVARFEQLYGEGA
mniseapeangsadvhvDPCVMDPQDIALISNNGPAAvsfssspcpdgtetsrnpriddtnsknagledvasvsaasqsdvsraesrmrKKQEEQKYQGRIMMQQYPSAQQGFQYQVQGVQGQAVSLGMNNAHNAGTYMPSGNPFYPSFQPSGAGVYPSQYNVGGYALNSALFPPFVAGYPSQGPVPMPFDATSGSSFNIRTTSVSTGEGIPHIGSTQHQKFYGHQGLMLQSPFVDPLHMQYFQHPFGDAYNASVQHRLASSGVNGALADPSSKKEPIVAAYMGDQNLQSSLNGGPSISNPRKVGMPVGGYYGGLPGMGVMGQFPTSPIASPVLPSSPVGSTSQLGLRHEMRLPQGLNRNTGIYSGWQGQRTFEGQRTFEDSKKHSFLEelkssnaqkfELSDIAGRIVEFSVDQHGSRFIQQKLEHCSAEEKVSVFKEVLPHASKLMTDVFGNYVIQKFFEHGSPDQRKELAEKLVGQVLPLSLQMYGCRVIQKALEVIELHQKSQLVLELDGHVMRCVRDQNGNHVIQKCIECVPAEKIEFIISAFRGQVATLSTHPYGCRVIQRVLEHCSDEQQGQCIVDEILESAFALAQDQYGNYVTQHVLERGKSYERTQILSKLAGKIVQMSQHKYASNVVEKCLEYGDTAERELLIEEILGQSEENDNLLVMMKDQYANYVVQKILEKCNEKLRETLISRIRVHCDALKKYTYGKHIVARFEQLYGEGA
MNISEAPEANGSADVHVDPCVMDPQDIALISNNGPAAVSFSSSPCPDGTETSRNPRIDDTNSKNAGLEdvasvsaasqsdvsRAESRMRKKQEEQKYQGRIMMQQYPSAqqgfqyqvqgvqgqavSLGMNNAHNAGTYMPSGNPFYPSFQPSGAGVYPSQYNVGGYALNSALFPPFVAGYPSQGPVPMPFDATSGSSFNIRTTSVSTGEGIPHIGSTQHQKFYGHQGLMLQSPFVDPLHMQYFQHPFGDAYNASVQHRLASSGVNGALADPSSKKEPIVAAYMGDQNLQSSLNGGPSISNPRKvgmpvggyygglpgmgvmgQFPTSPIASPVLPSSPVGSTSQLGLRHEMRLPQGLNRNTGIYSGWQGQRTFEGQRTFEDSKKHSFLEELKSSNAQKFELSDIAGRIVEFSVDQHGSRFIQQKLEHCSAEEKVSVFKEVLPHASKLMTDVFGNYVIQKFFEHGSPDQRKELAEKLVGQVLPLSLQMYGCRVIQKALEVIELHQKSQLVLELDGHVMRCVRDQNGNHVIQKCIECVPAEKIEFIISAFRGQVATLSTHPYGCRVIQRVLEHCSDEQQGQCIVDEILESAFALAQDQYGNYVTQHVLERGKSYERTQILSKLAGKIVQMSQHKYASNVVEKCLEYGDTAERELLIEEILGQSEENDNLLVMMKDQYANYVVQKILEKCNEKLRETLISRIRVHCDALKKYTYGKHIVARFEQLYGEGA
****************************************************************************************************************FQYQVQGVQGQAVSLG*********Y*****PFYPSFQPSGAGVYPSQYNVGGYALNSALFPPFVAGYP*****************************IPHIGSTQHQKFYGHQGLMLQSPFVDPLHMQYFQHPFGDAYNASVQH************************************************MPVGGYYGGLPGMGVMG**************************************TGIYSGWQ*******************************ELSDIAGRIVEFSVDQHGSRFIQQKLEHCSAEEKVSVFKEVLPHASKLMTDVFGNYVIQKFFEHG******ELAEKLVGQVLPLSLQMYGCRVIQKALEVIELHQKSQLVLELDGHVMRCVRDQNGNHVIQKCIECVPAEKIEFIISAFRGQVATLSTHPYGCRVIQRVLEHCSDEQQGQCIVDEILESAFALAQDQYGNYVTQHVLERGKSYERTQILSKLAGKIVQMSQHKYASNVVEKCLEYGDTAERELLIEEILGQSEENDNLLVMMKDQYANYVVQKILEKCNEKLRETLISRIRVHCDALKKYTYGKHIVARFEQLY****
***********************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************AQKFELSDIAGRIVEFSVDQHGSRFIQQKLEHCSAEEKVSVFKEVLPHASKLMTDVFGNYVIQKFFEHGSPDQRKELAEKLVGQVLPLSLQMYGCRVIQKALEVIELHQKSQLVLELDGHVMRCVRDQNGNHVIQKCIECVPAEKIEFIISAFRGQVATLSTHPYGCRVIQRVLEHCSDEQQGQCIVDEILESAFALAQDQYGNYVTQHVLERGKSYERTQILSKLAGKIVQMSQHKYASNVVEKCLEYGDTAERELLIEEILGQSEENDNLLVMMKDQYANYVVQKILEKCNEKLRETLISRIRVHCDALKKYTYGKHIVARFEQLYG***
************ADVHVDPCVMDPQDIALISNNGPA*****************NPRIDDTNSKNAGLEDV***************************QGRIMMQQYPSAQQGFQYQVQGVQGQAVSLGMNNAHNAGTYMPSGNPFYPSFQPSGAGVYPSQYNVGGYALNSALFPPFVAGYPSQGPVPMPFDATSGSSFNIRTTSVSTGEGIPHIGSTQHQKFYGHQGLMLQSPFVDPLHMQYFQHPFGDAYNASVQHRLASSGVNGALADPSSKKEPIVAAYMGDQNLQSSLNGGPSISNPRKVGMPVGGYYGGLPGMGVMGQFPTSPIASPVLPSSPVGSTSQLGLRHEMRLPQGLNRNTGIYSGWQGQRTFEGQRTFEDSKKHSFLEELKSSNAQKFELSDIAGRIVEFSVDQHGSRFIQQKLEHCSAEEKVSVFKEVLPHASKLMTDVFGNYVIQKFFEHGSPDQRKELAEKLVGQVLPLSLQMYGCRVIQKALEVIELHQKSQLVLELDGHVMRCVRDQNGNHVIQKCIECVPAEKIEFIISAFRGQVATLSTHPYGCRVIQRVLEHCSDEQQGQCIVDEILESAFALAQDQYGNYVTQHVLERGKSYERTQILSKLAGKIVQMSQHKYASNVVEKCLEYGDTAERELLIEEILGQSEENDNLLVMMKDQYANYVVQKILEKCNEKLRETLISRIRVHCDALKKYTYGKHIVARFEQLYGEGA
****************************************************************************************************************************VSLGMNNAHNAGTYMPSGNPFYPSFQPSGAGVYPSQYNVGGYALNSALFPPFVAGYPSQGPVPMPFDATSGSSFNIRTTSVSTGEGIPHIGSTQHQKFYGHQGLMLQSPFVDPLHMQYFQHPFGDAYNASVQHRLASSGVNGALADPSSKKEPIVAAYMGDQNLQSSLNGGPSISNPRKVGMPVGGYYGGLPGMGVMGQFPTSPIASPVLPSSPVGSTSQLGLRHEMRLPQGLNRNTGIYS***GQRTFEGQRTFEDSKKHSFLEELKSSNAQKFELSDIAGRIVEFSVDQHGSRFIQQKLEHCSAEEKVSVFKEVLPHASKLMTDVFGNYVIQKFFEHGSPDQRKELAEKLVGQVLPLSLQMYGCRVIQKALEVIELHQKSQLVLELDGHVMRCVRDQNGNHVIQKCIECVPAEKIEFIISAFRGQVATLSTHPYGCRVIQRVLEHCSDEQQGQCIVDEILESAFALAQDQYGNYVTQHVLERGKSYERTQILSKLAGKIVQMSQHKYASNVVEKCLEYGDTAERELLIEEILGQSEENDNLLVMMKDQYANYVVQKILEKCNEKLRETLISRIRVHCDALKKYTYGKHIVARFEQLYGE**
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MNISEAPEANGSADVHVDPCVMDPQDIALISNNGPAAVSFSSSPCPDGTETSRNPRIDDTNSKNAGLEDVASVSAASQSDVSRAESRMRKKQEEQKYQGRIMMQQYPSAQQGFQYQVQGVQGQAVSLGMNNAHNAGTYMPSGNPFYPSFQPSGAGVYPSQYNVGGYALNSALFPPFVAGYPSQGPVPMPFDATSGSSFNIRTTSVSTGEGIPHIGSTQHQKFYGHQGLMLQSPFVDPLHMQYFQHPFGDAYNASVQHRLASSGVNGALADPSSKKEPIVAAYMGDQNLQSSLNGGPSISNPRKVGMPVGGYYGGLPGMGVMGQFPTSPIASPVLPSSPVGSTSQLGLRHEMRLPQGLNRNTGIYSGWQGQRTFEGQRTFEDSKKHSFLEELKSSNAQKFELSDIAGRIVEFSVDQHGSRFIQQKLEHCSAEEKVSVFKEVLPHASKLMTDVFGNYVIQKFFEHGSPDQRKELAEKLVGQVLPLSLQMYGCRVIQKALEVIELHQKSQLVLELDGHVMRCVRDQNGNHVIQKCIECVPAEKIEFIISAFRGQVATLSTHPYGCRVIQRVLEHCSDEQQGQCIVDEILESAFALAQDQYGNYVTQHVLERGKSYERTQILSKLAGKIVQMSQHKYASNVVEKCLEYGDTAERELLIEEILGQSEENDNLLVMMKDQYANYVVQKILEKCNEKLRETLISRIRVHCDALKKYTYGKHIVARFEQLYGEGA
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 ?
Query727 2.2.26 [Sep-21-2011]
Q9LJX4961 Pumilio homolog 5 OS=Arab yes no 0.870 0.658 0.532 0.0
Q9C5E7861 Pumilio homolog 6, chloro no no 0.707 0.596 0.522 1e-152
Q9ZW02964 Pumilio homolog 3 OS=Arab no no 0.795 0.599 0.482 1e-146
Q9ZW07968 Pumilio homolog 1 OS=Arab no no 0.738 0.554 0.504 1e-146
Q9ZW06972 Pumilio homolog 2 OS=Arab no no 0.647 0.484 0.544 1e-145
Q9SS471003 Pumilio homolog 4 OS=Arab no no 0.638 0.462 0.492 1e-129
Q80U581066 Pumilio homolog 2 OS=Mus yes no 0.469 0.319 0.565 1e-113
Q8TB721066 Pumilio homolog 2 OS=Homo yes no 0.469 0.319 0.565 1e-113
P25822 1533 Maternal protein pumilio yes no 0.458 0.217 0.576 1e-112
Q5R5X31186 Pumilio homolog 1 OS=Pong no no 0.469 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 =  694 bits (1790), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 383/719 (53%), Positives = 477/719 (66%), Gaps = 86/719 (11%)

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

Query: 107 PSAQQGFQYQVQGVQGQAVS----------------LGMNNAHNA--------------- 135
           PS+     YQVQ    Q +S                +     H+                
Sbjct: 332 PSS-----YQVQASSPQQMSYPRIGGTQDMMQSLPKIATGEVHSTFQSPHGLAPPPMYTS 386

Query: 136 -GTYMPSGNPFY-PSFQPSGAGVYPSQYNVGGYALNSALFPPFVAGYPS-QGPVPMPFDA 192
              YM S +PFY  +FQ SG  ++  QYN GGY   S + P +++GYPS +  VPMP+D 
Sbjct: 387 TAAYMTSLSPFYHQNFQSSG--MFVPQYNYGGYPPASGIVPQYMSGYPSHEATVPMPYDI 444

Query: 193 TSGSS-FN---IRTTSVSTGEGIPHIGSTQHQKFYGHQGLMLQSPFVDPLHMQYFQHPFG 248
           +S SS +N   +     S+G+ IP +                    VDP  +QYFQ    
Sbjct: 445 SSTSSGYNNPRLLPGVSSSGQNIPSL--------------------VDPFQLQYFQQAQV 484

Query: 249 DAYNASVQHRLASSGVNGALADPSSKKEPIVAAYMGDQN-LQSSLNGGPSISNPRKVGMP 307
           DAY    Q    S G          +K+     YM +   L S L+ G  + +PR +G  
Sbjct: 485 DAYAPPFQSSTDSFG----------QKDQQAVGYMANHEPLNSPLSPGYGLQSPRHMG-- 532

Query: 308 VGGYYGGLPGMGVMGQFPTSPIASPVLPSSPVGST-SQLGLRHEMRL-PQGLNRNTGIY- 364
              Y+   PG+ VM Q+P SP+ASPV+PSSPVG   S  G R E R   QG +RNTGIY 
Sbjct: 533 --NYFAVPPGVRVMPQYPGSPLASPVMPSSPVGGMMSHFGRRSETRYHQQGPSRNTGIYP 590

Query: 365 SGWQGQRTFEGQRTFEDSKKHSFLEELKSSNAQKFELSDIAGRIVEFSVDQHGSRFIQQK 424
            GWQG R        +D K+HSFL+ELKS NA+K ELSDIAGR+VEFSVDQHGSRFIQQK
Sbjct: 591 GGWQGNRG-GASSIVDDLKRHSFLDELKSPNARKLELSDIAGRVVEFSVDQHGSRFIQQK 649

Query: 425 LEHCSAEEKVSVFKEVLPHASKLMTDVFGNYVIQKFFEHGSPDQRKELAEKLVGQVLPLS 484
           LEHCS EEK SVF EVLP ASKLMTDVFGNYVIQKF EHG+P QR+EL ++L GQ++ LS
Sbjct: 650 LEHCSDEEKASVFSEVLPQASKLMTDVFGNYVIQKFIEHGTPAQREELVKQLAGQMVSLS 709

Query: 485 LQMYGCRVIQKALEVIELHQKSQLVLELDGHVMRCVRDQNGNHVIQKCIECVPAEKIEFI 544
           LQMYGCRVIQKALEVI++ QK++L+ ELDG+V++CVRDQNGNHVIQKCIE +PA +I F+
Sbjct: 710 LQMYGCRVIQKALEVIDVDQKTELIRELDGNVLKCVRDQNGNHVIQKCIESMPAGRIGFV 769

Query: 545 ISAFRGQVATLSTHPYGCRVIQRVLEHCSDEQQGQCIVDEILESAFALAQDQYGNYVTQH 604
           I+AFRGQVATLSTHPYGCRVIQR+LEHCSD+++  CI+DEILESAFALA DQYGNYVTQH
Sbjct: 770 IAAFRGQVATLSTHPYGCRVIQRILEHCSDDEETHCIIDEILESAFALAHDQYGNYVTQH 829

Query: 605 VLERGKSYERTQILSKLAGKIVQMSQHKYASNVVEKCLEYGDTAERELLIEEILGQSEEN 664
           VLERGK  ER QI+ KL G +VQMSQHKYASNVVEKCLE+ D+ ERE LIEEI+G+SEE+
Sbjct: 830 VLERGKPDERRQIIEKLTGNVVQMSQHKYASNVVEKCLEHADSTEREFLIEEIMGKSEED 889

Query: 665 DNLLVMMKDQYANYVVQKILEKCNEKLRETLISRIRVHCDALKKYTYGKHIVARFEQLY 723
           ++LL MMKDQ+ANYVVQK+LE   ++ RE L+ R+++H  +L+KYTYGKHIVARFEQL+
Sbjct: 890 NHLLAMMKDQFANYVVQKVLEISKDQQREILVQRMKIHLQSLRKYTYGKHIVARFEQLF 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|Q9ZW02|PUM3_ARATH Pumilio homolog 3 OS=Arabidopsis thaliana GN=APUM3 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|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|Q5R5X3|PUM1_PONAB Pumilio homolog 1 OS=Pongo abelii GN=PUM1 PE=2 SV=1 Back     alignment and function description

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

Original result of BLAST against Nonredundant Database

GI ?Alignment Graph ?Length ? Definition ? Q cover ? H cover ? Identity ? E-value ?
Query727
255544506 1004 pumilio, putative [Ricinus communis] gi| 0.986 0.714 0.628 0.0
225443381 1053 PREDICTED: pumilio homolog 5 [Vitis vini 0.984 0.679 0.621 0.0
225463345 1017 PREDICTED: pumilio homolog 5 [Vitis vini 0.969 0.693 0.566 0.0
8071634 966 pumilio domain-containing protein PPD1 [ 0.928 0.698 0.594 0.0
449453445 1031 PREDICTED: pumilio homolog 5-like [Cucum 0.977 0.689 0.579 0.0
449500099 1031 PREDICTED: pumilio homolog 5-like [Cucum 0.977 0.689 0.579 0.0
356530316 985 PREDICTED: pumilio homolog 5-like [Glyci 0.801 0.591 0.607 0.0
356550736 952 PREDICTED: LOW QUALITY PROTEIN: pumilio 0.789 0.602 0.606 0.0
357449403 984 Pumilio-like protein [Medicago truncatul 0.895 0.661 0.539 0.0
356558296 982 PREDICTED: pumilio homolog 5-like [Glyci 0.796 0.589 0.597 0.0
>gi|255544506|ref|XP_002513314.1| pumilio, putative [Ricinus communis] gi|223547222|gb|EEF48717.1| pumilio, putative [Ricinus communis] Back     alignment and taxonomy information
 Score =  926 bits (2394), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 479/762 (62%), Positives = 557/762 (73%), Gaps = 45/762 (5%)

Query: 1   MNISEAPEAN-GSADVHVDPCVMDPQDIALISNNGPAAVSFSSSPCPDGTETSRNPRIDD 59
           +NIS+  E+N GS+DV VD   ++   I LIS+  P   SFSSS   D   T      D+
Sbjct: 248 VNISKGSESNSGSSDVCVDTFALEVDAIRLISDTHPTVTSFSSSYSLDEKPTGEK---DE 304

Query: 60  TNSKNAGLEDVASVSAASQSDVSRAESRMRKKQEEQKYQGRIMMQQYPSAQQGFQYQVQG 119
           + +++  LE   S     Q  +SR E+R R KQEEQ+  G+ + Q + S QQG  +Q QG
Sbjct: 305 SGTEDTALESHVSFRGTLQRGISRTEARARNKQEEQQSYGKNVPQNHLSVQQGIPHQAQG 364

Query: 120 VQGQAVSLGMNNAHNA--------------------------------GTYMPSGNPFYP 147
           VQ Q +S GM  +HN+                                  YM  G PFYP
Sbjct: 365 VQAQIISQGMTQSHNSLDILSYDHHRFSIEVQQPMHSSALNQPSYASTAAYMTGGTPFYP 424

Query: 148 SFQPSGAGVYPSQYNVGGYALNSALFPPFVAGYPSQGPVPMPFDATSGSSFNIRTTSVST 207
           +FQPSG  +Y  QY++GGYA+ SA  PPF+ GYPS   +PMPF A SG SF+ R++  ST
Sbjct: 425 NFQPSG--LYSPQYSMGGYAMGSAYLPPFITGYPSHCAIPMPFGA-SGPSFDGRSSGAST 481

Query: 208 GEGIPHIGSTQHQ-KFYGHQGLMLQSPFVDPLHMQYFQHPFGDAYNASVQ-HRLASSGVN 265
           GE I H+G  Q   KFYG QGLM Q P+ +PL+MQYFQ PFGDAY+ + Q +R+ASSG  
Sbjct: 482 GENIAHLGGLQQLGKFYGQQGLMFQPPYGNPLYMQYFQQPFGDAYSPTFQQNRMASSGAL 541

Query: 266 GALADPSSKKEPIVAAYMGDQNLQSSLNGGPSISNPRKVGMPVGGYYGGLPGMGVMGQFP 325
           G   D + ++E   AAY  DQ LQ   NG  S+ +  KVG+    YYGG P MG M QFP
Sbjct: 542 GGQID-AFQQESSFAAYKDDQKLQPPANGSLSMPSSGKVGITGSSYYGGPPSMGAMTQFP 600

Query: 326 TSPIASPVLPSSPVGSTSQLGLRHEMRLPQGLNRNTGIYSGWQGQRTFEGQRTFEDSKKH 385
              +ASP+LPSSPVG  + +G R++MR PQ  +RN G+YSG QGQR   G  +F++ K+H
Sbjct: 601 AGTLASPILPSSPVGGINHMGRRNDMRFPQTASRNIGLYSGVQGQR---GANSFDEPKRH 657

Query: 386 SFLEELKSSNAQKFELSDIAGRIVEFSVDQHGSRFIQQKLEHCSAEEKVSVFKEVLPHAS 445
            FLEELKSSNA+KFELSDIAG IVEFSVDQHGSRFIQQKLEHCS EEKVSVFKEVLPHAS
Sbjct: 658 YFLEELKSSNARKFELSDIAGHIVEFSVDQHGSRFIQQKLEHCSFEEKVSVFKEVLPHAS 717

Query: 446 KLMTDVFGNYVIQKFFEHGSPDQRKELAEKLVGQVLPLSLQMYGCRVIQKALEVIELHQK 505
           KLMTDVFGNYVIQKFFEHGSPDQRKELA+KL GQ+L LSLQMYGCRVIQKALEVIEL QK
Sbjct: 718 KLMTDVFGNYVIQKFFEHGSPDQRKELADKLSGQMLQLSLQMYGCRVIQKALEVIELDQK 777

Query: 506 SQLVLELDGHVMRCVRDQNGNHVIQKCIECVPAEKIEFIISAFRGQVATLSTHPYGCRVI 565
           +QLV ELDGHV+RCV DQNGNHVIQKCIECVP   IEFIISAF+GQVA L+THPYGCRVI
Sbjct: 778 TQLVQELDGHVLRCVHDQNGNHVIQKCIECVPTMNIEFIISAFQGQVAALATHPYGCRVI 837

Query: 566 QRVLEHCSDEQQGQCIVDEILESAFALAQDQYGNYVTQHVLERGKSYERTQILSKLAGKI 625
           QRVLEHCSD+ Q QCIVDEILESA+ LAQDQYGNYVTQHVLERGK YER+QI+SKL GKI
Sbjct: 838 QRVLEHCSDDLQSQCIVDEILESAYLLAQDQYGNYVTQHVLERGKPYERSQIISKLTGKI 897

Query: 626 VQMSQHKYASNVVEKCLEYGDTAERELLIEEILGQSEENDNLLVMMKDQYANYVVQKILE 685
           VQMSQHKYASNV+EKCLE+G   E+ELLIEEI+GQSEE+D  L MMKDQ+ANYVVQKILE
Sbjct: 898 VQMSQHKYASNVIEKCLEHGSPIEQELLIEEIIGQSEESDQFLTMMKDQFANYVVQKILE 957

Query: 686 KCNEKLRETLISRIRVHCDALKKYTYGKHIVARFEQLYGEGA 727
             N+K RE L+SRIR+H  ALKKYTYGKHIVARFEQL GEGA
Sbjct: 958 ISNDKQREILLSRIRIHLHALKKYTYGKHIVARFEQLCGEGA 999

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>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
>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|356550736|ref|XP_003543740.1| PREDICTED: LOW QUALITY PROTEIN: pumilio homolog 6, chloroplastic-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|356558296|ref|XP_003547443.1| PREDICTED: pumilio homolog 5-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 ?
Query727
TAIR|locus:2087560961 PUM5 "pumilio 5" [Arabidopsis 0.903 0.683 0.510 6.3e-163
TAIR|locus:2117552861 PUM6 "pumilio 6" [Arabidopsis 0.488 0.412 0.667 1.1e-137
TAIR|locus:2043187972 PUM2 "pumilio 2" [Arabidopsis 0.546 0.408 0.617 5e-134
TAIR|locus:2043182968 PUM1 "pumilio 1" [Arabidopsis 0.623 0.467 0.566 1.3e-130
TAIR|locus:2043047964 PUM3 "pumilio 3" [Arabidopsis 0.766 0.577 0.485 4e-129
TAIR|locus:20763241003 PUM4 "pumilio 4" [Arabidopsis 0.511 0.370 0.585 9.1e-116
UNIPROTKB|F1N2B81069 PUM2 "Uncharacterized protein" 0.469 0.318 0.568 2.4e-106
UNIPROTKB|B4E2B61008 PUM2 "Pumilio homolog 2" [Homo 0.469 0.338 0.568 3.1e-106
UNIPROTKB|E2RT571063 PUM2 "Uncharacterized protein" 0.469 0.320 0.568 3.1e-106
UNIPROTKB|F1SCU61064 PUM2 "Uncharacterized protein" 0.469 0.320 0.568 3.1e-106
TAIR|locus:2087560 PUM5 "pumilio 5" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 1586 (563.4 bits), Expect = 6.3e-163, P = 6.3e-163
 Identities = 356/697 (51%), Positives = 439/697 (62%)

Query:    49 TETSRNPRIDDTNSKNAGLEXXXXXXXXXXXXXXRAESRMRKKQEEQKYQGRIMMQQYPS 108
             +++  N + +  N++ A  E               A SRMR+ QE+Q+ QGR M  QY  
Sbjct:   274 SQSFTNAQTERLNARQASHEDNNLSVFGASPPSSVA-SRMRRNQEDQQSQGRRMPPQYTP 332

Query:   109 AXXXXXXXXXXXXXXXXSLGMNNAHNAGTYMPSGNPFYPSFQ-PSGAGVYPSQYNVGGYA 167
             +                  G  +   +   + +G   + +FQ P G    P   +   Y 
Sbjct:   333 SSYQVQASSPQQMSYPRIGGTQDMMQSLPKIATGE-VHSTFQSPHGLAPPPMYTSTAAYM 391

Query:   168 LN-----------SALFPPFV--AGYP-SQGPVPMPFDATSGSSFNIRTTSVSTGEGIPH 213
              +           S +F P     GYP + G VP      SG   +  T  +        
Sbjct:   392 TSLSPFYHQNFQSSGMFVPQYNYGGYPPASGIVPQYM---SGYPSHEATVPMPYDISSTS 448

Query:   214 IGSTQHQKFYGHQGLMLQSP-FVDPLHMQYFQHPFGDAYNASVQHRLASSGVNGALADPS 272
              G    +   G        P  VDP  +QYFQ    DAY    Q    SS       D  
Sbjct:   449 SGYNNPRLLPGVSSSGQNIPSLVDPFQLQYFQQAQVDAYAPPFQ----SS------TDSF 498

Query:   273 SKKEPIVAAYMGDQN-LQSSLNGGPSISNPRKXXXXXXXXXXXXXXXXXXXQFPTSPIAS 331
              +K+     YM +   L S L+ G  + +PR                    Q+P SP+AS
Sbjct:   499 GQKDQQAVGYMANHEPLNSPLSPGYGLQSPRHMGNYFAVPPGVRVMP----QYPGSPLAS 554

Query:   332 PVLPSSPVGST-SQLGLRHEMRL-PQGLNRNTGIY-SGWQGQRTFEGQRTFEDSKKHSFL 388
             PV+PSSPVG   S  G R E R   QG +RNTGIY  GWQG R        +D K+HSFL
Sbjct:   555 PVMPSSPVGGMMSHFGRRSETRYHQQGPSRNTGIYPGGWQGNRG-GASSIVDDLKRHSFL 613

Query:   389 EELKSSNAQKFELSDIAGRIVEFSVDQHGSRFIQQKLEHCSAEEKVSVFKEVLPHASKLM 448
             +ELKS NA+K ELSDIAGR+VEFSVDQHGSRFIQQKLEHCS EEK SVF EVLP ASKLM
Sbjct:   614 DELKSPNARKLELSDIAGRVVEFSVDQHGSRFIQQKLEHCSDEEKASVFSEVLPQASKLM 673

Query:   449 TDVFGNYVIQKFFEHGSPDQRKELAEKLVGQVLPLSLQMYGCRVIQKALEVIELHQKSQL 508
             TDVFGNYVIQKF EHG+P QR+EL ++L GQ++ LSLQMYGCRVIQKALEVI++ QK++L
Sbjct:   674 TDVFGNYVIQKFIEHGTPAQREELVKQLAGQMVSLSLQMYGCRVIQKALEVIDVDQKTEL 733

Query:   509 VLELDGHVMRCVRDQNGNHVIQKCIECVPAEKIEFIISAFRGQVATLSTHPYGCRVIQRV 568
             + ELDG+V++CVRDQNGNHVIQKCIE +PA +I F+I+AFRGQVATLSTHPYGCRVIQR+
Sbjct:   734 IRELDGNVLKCVRDQNGNHVIQKCIESMPAGRIGFVIAAFRGQVATLSTHPYGCRVIQRI 793

Query:   569 LEHCSDEQQGQCIVDEILESAFALAQDQYGNYVTQHVLERGKSYERTQILSKLAGKIVQM 628
             LEHCSD+++  CI+DEILESAFALA DQYGNYVTQHVLERGK  ER QI+ KL G +VQM
Sbjct:   794 LEHCSDDEETHCIIDEILESAFALAHDQYGNYVTQHVLERGKPDERRQIIEKLTGNVVQM 853

Query:   629 SQHKYASNVVEKCLEYGDTAERELLIEEILGQSEENDNLLVMMKDQYANYVVQKILEKCN 688
             SQHKYASNVVEKCLE+ D+ ERE LIEEI+G+SEE+++LL MMKDQ+ANYVVQK+LE   
Sbjct:   854 SQHKYASNVVEKCLEHADSTEREFLIEEIMGKSEEDNHLLAMMKDQFANYVVQKVLEISK 913

Query:   689 EKLRETLISRIRVHCDALKKYTYGKHIVARFEQLYGE 725
             ++ RE L+ R+++H  +L+KYTYGKHIVARFEQL+GE
Sbjct:   914 DQQREILVQRMKIHLQSLRKYTYGKHIVARFEQLFGE 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:2043187 PUM2 "pumilio 2" [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: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 number0.53260.87070.6586yesno

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 ?
Query727
cd07920322 cd07920, Pumilio, Pumilio-family RNA binding domai 1e-163
COG5099777 COG5099, COG5099, RNA-binding protein of the Puf f 9e-86
cd07920322 cd07920, Pumilio, Pumilio-family RNA binding domai 1e-66
pfam07990365 pfam07990, NABP, Nucleic acid binding protein NABP 6e-18
cd07920 322 cd07920, Pumilio, Pumilio-family RNA binding domai 4e-16
cd07920322 cd07920, Pumilio, Pumilio-family RNA binding domai 5e-11
smart0002536 smart00025, Pumilio, Pumilio-like repeats 2e-08
smart0002536 smart00025, Pumilio, Pumilio-like repeats 1e-07
smart0002536 smart00025, Pumilio, Pumilio-like repeats 1e-07
smart0002536 smart00025, Pumilio, Pumilio-like repeats 4e-07
smart0002536 smart00025, Pumilio, Pumilio-like repeats 8e-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 3e-06
pfam0080634 pfam00806, PUF, Pumilio-family RNA binding repeat 2e-05
smart0002536 smart00025, Pumilio, Pumilio-like repeats 2e-04
pfam0080634 pfam00806, PUF, Pumilio-family RNA binding repeat 2e-04
pfam0080634 pfam00806, PUF, Pumilio-family RNA binding repeat 2e-04
smart0002536 smart00025, Pumilio, Pumilio-like repeats 7e-04
pfam0080634 pfam00806, PUF, Pumilio-family RNA binding repeat 0.001
smart0002536 smart00025, Pumilio, Pumilio-like repeats 0.003
>gnl|CDD|153420 cd07920, Pumilio, Pumilio-family RNA binding domain Back     alignment and domain information 
 Score =  473 bits (1219), Expect = e-163
 Identities = 189/322 (58%), Positives = 231/322 (71%), Gaps = 2/322 (0%)

Query: 398 KFELSDIA-GRIVEFSVDQHGSRFIQQKLEHCSAEEKVSVFKEVLPHASKLMTDVFGNYV 456
              L DI  G IVEF+ DQHGSRF+QQKLE  + EEK  +F E+LPH  +LM D FGNYV
Sbjct: 1   SLTLQDIKAGHIVEFAKDQHGSRFLQQKLEEATPEEKELIFDEILPHVVELMVDPFGNYV 60

Query: 457 IQKFFEHGSPDQRKELAEKLVGQVLPLSLQMYGCRVIQKALEVIELHQKSQLVLELDGHV 516
           IQK FEHG+ +QR +L EK++G V+ LSL MYGCRVIQK LE I   Q S LV EL GHV
Sbjct: 61  IQKLFEHGTEEQRLQLLEKILGHVVRLSLDMYGCRVIQKLLESISEEQISLLVKELRGHV 120

Query: 517 MRCVRDQNGNHVIQKCIECVPAEKIEFIISAFRGQVATLSTHPYGCRVIQRVLEHCSDEQ 576
           +  V+DQNGNHVIQKCIE  P E ++FII AF+G    LSTHPYGCRVIQR LEHCS+EQ
Sbjct: 121 VELVKDQNGNHVIQKCIEKFPPEDLQFIIDAFKGNCVALSTHPYGCRVIQRCLEHCSEEQ 180

Query: 577 QGQCIVDEILESAFALAQDQYGNYVTQHVLERGKSYERTQILSKLAGKIVQMSQHKYASN 636
           +   +++EILE A  L QDQ+GNYV QHVLE G   + ++I+ KL G IVQ+S HK+ASN
Sbjct: 181 REP-LLEEILEHALELVQDQFGNYVVQHVLELGDPDDTSRIIEKLLGNIVQLSCHKFASN 239

Query: 637 VVEKCLEYGDTAERELLIEEILGQSEENDNLLVMMKDQYANYVVQKILEKCNEKLRETLI 696
           VVEKCL++    EREL+I+EIL    E   L  +MKDQY NYV+Q  L+   E+ RE L+
Sbjct: 240 VVEKCLKHASKEERELIIDEILASGNETSALDTLMKDQYGNYVIQTALDVAKEEQRELLV 299

Query: 697 SRIRVHCDALKKYTYGKHIVAR 718
             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

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 727
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
KOG2049536 consensus Translational repressor MPT5/PUF4 and re 99.96
COG5099777 RNA-binding protein of the Puf family, translation 99.96
KOG2188650 consensus Predicted RNA-binding protein, contains 99.94
KOG2188650 consensus Predicted RNA-binding protein, contains 99.87
KOG2050 652 consensus Puf family RNA-binding protein [Translat 99.85
KOG4574 1007 consensus RNA-binding protein (contains RRM and Pu 99.62
KOG4574 1007 consensus RNA-binding protein (contains RRM and Pu 99.28
PF0080635 PUF: Pumilio-family RNA binding repeat; InterPro: 98.14
smart0002536 Pumilio Pumilio-like repeats. Pumilio-like repeats 97.68
PF0080635 PUF: Pumilio-family RNA binding repeat; InterPro: 97.6
smart0002536 Pumilio Pumilio-like repeats. Pumilio-like repeats 97.44
PRK05686339 fliG flagellar motor switch protein G; Validated 95.31
TIGR00207338 fliG flagellar motor switch protein FliG. The fliG 94.02
PRK05686339 fliG flagellar motor switch protein G; Validated 91.32
PF08144148 CPL: CPL (NUC119) domain; InterPro: IPR012959 This 88.52
PF04286367 DUF445: Protein of unknown function (DUF445); Inte 88.25
COG2733415 Predicted membrane protein [Function unknown] 85.08
PF12231372 Rif1_N: Rap1-interacting factor 1 N terminal; Inte 80.72
>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=9.7e-72  Score=616.94  Aligned_cols=345  Identities=55%  Similarity=0.914  Sum_probs=328.9

Q ss_pred             ChhhhHHHHHhhcc-ccccchHHhHHHHHHHHhcCCCccHHHHHhhhcCCH-HHHHHHHHHHhhchhhhccCccccchhh
Q 004857          381 DSKKHSFLEELKSS-NAQKFELSDIAGRIVEFSVDQHGSRFIQQKLEHCSA-EEKVSVFKEVLPHASKLMTDVFGNYVIQ  458 (727)
Q Consensus       381 d~~r~~LLeeL~~~-~~~~~~L~~I~GkIveLa~dq~gSRvLQ~lLk~~t~-Eqr~~If~EI~~~~~eL~tD~fGn~VVQ  458 (727)
                      -..+..+++++.+. ..+.+.+.++.|++++++.||+||||||+.|+.++. +++..||+||.+.+.+||+|.|||||||
T Consensus       153 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~v~f~~Dq~GsrfiQqkl~~~~~~~ek~~if~ei~~~~~~L~~dvFGNyvIQ  232 (503)
T KOG1488|consen  153 STGPSFLLDPFRSNSLSKTLELVDIPGHLVEFAKDQHGSRFIQQKLETASDNEEKQAVFDEILPPALELMTDVFGNYVIQ  232 (503)
T ss_pred             CCCCCccccccccccccccccccccCCCceeecCCcccchHHHHhccccccHHHHHHHHHHHHHHHHHHHHHHhcCchhh
Confidence            34556677777766 567778889999999999999999999999999988 9999999999999999999999999999


Q ss_pred             hhhccCCHHHHHHHHHHHhcChhhhccCcchhHHHHHHHHhhCHHHHHHHHHHHHHHHHHHhhcccCchhhhHhhhcCCh
Q 004857          459 KFFEHGSPDQRKELAEKLVGQVLPLSLQMYGCRVIQKALEVIELHQKSQLVLELDGHVMRCVRDQNGNHVIQKCIECVPA  538 (727)
Q Consensus       459 KLLe~gs~eqr~~Ii~~L~G~v~~La~h~yGSrVIQklIe~as~eqr~~Lv~EL~g~i~~L~~D~~GNhVIQklLe~~~~  538 (727)
                      |+||+++++++..+...++|++..|+.|+|||||||++|+..+.+++.+|++||.+++..|++|++||||||||||+.+.
T Consensus       233 kffE~gt~~q~~~l~~~~~g~v~~Lsld~ygCRVIQkale~id~~~~~~Li~ELd~~vl~~v~DQngnHViQK~ie~~p~  312 (503)
T KOG1488|consen  233 KFFEHGTEDQRNLLHSQIKGHVLELSLDMYGCRVIQKALEKVDVSLQIQLIDELDGHLLKCVKDQNGNHVIQKCIETLPP  312 (503)
T ss_pred             hhhccCCHHHHHHHHHHHHhhhhhhhcccccchhHHHHHHhcCHHHHHHHHHHHHhhHHHHHhhcccceehhhhhhccCh
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hHHHHHHHHhhh--hHhhhccCCCCchHHHHHHhhCCcHHHHHHHHHHHHHHHHHHhhCcCccHHHHHHHHcCCchhHHH
Q 004857          539 EKIEFIISAFRG--QVATLSTHPYGCRVIQRVLEHCSDEQQGQCIVDEILESAFALAQDQYGNYVTQHVLERGKSYERTQ  616 (727)
Q Consensus       539 e~~~~Ii~~L~~--~l~~Ls~hk~GS~VLQk~Le~~~~~~~r~~Ll~eI~~~l~~La~Dq~GNyVVQ~lLe~~~~k~r~~  616 (727)
                      +.+.+|++.|.+  ++..+|+|+|||+|||++||+|..+ ++..++++|..++..|++|+||||||||+|+++++.++..
T Consensus       313 ~~~~Fiv~~f~~~~~~~~ls~~~YGCRVIQr~lE~c~~~-~~~~i~~ei~~~~~~L~~dQygNYVIQHVie~g~~~~~~~  391 (503)
T KOG1488|consen  313 DAWQFIVDFFSGDDNLLELSTHKYGCRVIQRILEHCSED-QKQPLMEEIIRNCDQLAQDQYGNYVIQHVIEHGSPYRDTI  391 (503)
T ss_pred             HHHHHHHHHhcCCCceeEeeccCcccHHHHHHhhcCChH-hhhHHHHHHHHHHHHHHhhhhhhHHHHHHHhcCChhhhhh
Confidence            999999999999  9999999999999999999999976 5566999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhcCchHHHHHHHHHHhCCHHHHHHHHHHHhcCCCCh-hHHHhhhcCCChHHHHHHHHhcCCHHHHHHH
Q 004857          617 ILSKLAGKIVQMSQHKYASNVVEKCLEYGDTAERELLIEEILGQSEEN-DNLLVMMKDQYANYVVQKILEKCNEKLRETL  695 (727)
Q Consensus       617 II~~L~g~lveLs~~K~GS~VVEk~L~~as~k~Rk~IIkeLl~~~~~~-e~L~~La~DqyGnyVVQklL~~~d~~~Rk~L  695 (727)
                      |++.|.+++++|++|||+|+|||+||.++++.+|..|++|++....+. +.|..||+|+|||||||++|++|++++|+.|
T Consensus       392 I~~~l~~~ll~~Sq~KfASnVVEk~~~~a~~~~r~~i~~Ei~~~~~~~~~~L~~mmkdQYgNYVVQkmi~~~~~~q~~~i  471 (503)
T KOG1488|consen  392 IIKCLLGNLLSMSQHKFASNVVEKAFLFAPPLLRALIMNEIFPGYVEHPDALDIMMKDQYGNYVVQKMIDICGPEQRELI  471 (503)
T ss_pred             HHHHHHhhHHHHHHHHHHHHHHHHHHhhCCHHHHHHHHHHhcCCccCCccHHHHHHHHhhhhhHHHHHHHhcCHHHHHHH
Confidence            999999999999999999999999999999999999999999876554 7899999999999999999999999999999


Q ss_pred             HHHHHHhHHHHhcCCChHHHHHHHHHHHhcC
Q 004857          696 ISRIRVHCDALKKYTYGKHIVARFEQLYGEG  726 (727)
Q Consensus       696 l~~Lk~~l~~L~~~~yGk~Vv~~Lekli~~g  726 (727)
                      ..+|++|+..|++++|||||+++|||+...+
T Consensus       472 ~~rI~~h~~~Lrk~syGKhIia~lek~~~~~  502 (503)
T KOG1488|consen  472 KSRVKPHASRLRKFSYGKHIIAKLEKLRSKG  502 (503)
T ss_pred             HHHHHHHHHHHccCccHHHHHHHHHHhcccC
Confidence            9999999999999999999999999998654

>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
>KOG2049 consensus Translational repressor MPT5/PUF4 and related RNA-binding proteins (Puf superfamily) [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
>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
>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
>PF04286 DUF445: Protein of unknown function (DUF445); InterPro: IPR007383 This entry contains proteins of unknown function Back     alignment and domain information
>COG2733 Predicted membrane protein [Function unknown] Back     alignment and domain information
>PF12231 Rif1_N: Rap1-interacting factor 1 N terminal; InterPro: IPR022031 This domain family is found in eukaryotes, and is typically between 135 and 146 amino acids in length 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 ?
Query727
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 3e-04
3bsb_A343 Crystal Structure Of Human Pumilio1 In Complex With 1e-104
3bsb_A 343 Crystal Structure Of Human Pumilio1 In Complex With 4e-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 3e-04
3h3d_X323 Drosophila Pumilio Rna Binding Domain (Puf Domain) 1e-100
3h3d_X323 Drosophila Pumilio Rna Binding Domain (Puf Domain) 2e-21
3k49_A369 Puf3 Rna Binding Domain Bound To Cox17 Rna 3' Utr R 6e-76
3bx3_A335 Puf4 T650cC724R MUTANT BOUND TO COX17 RNA 3' UTR Re 4e-43
3bx3_A335 Puf4 T650cC724R MUTANT BOUND TO COX17 RNA 3' UTR Re 1e-20
4dzs_A357 Crystal Structure Of Yeast Puf4p Rna Binding Domain 4e-41
4dzs_A357 Crystal Structure Of Yeast Puf4p Rna Binding Domain 2e-19
3bx2_A335 Puf4 Rna Binding Domain Bound To Ho Endonuclease Rn 7e-41
3bx2_A335 Puf4 Rna Binding Domain Bound To Ho Endonuclease Rn 3e-19
3bwt_A333 Crystal Structure Of The Rna Binding Domain Of Puf4 8e-41
3bwt_A333 Crystal Structure Of The Rna Binding Domain Of Puf4 4e-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 3e-28
3v71_A382 Crystal Structure Of Puf-6 In Complex With 5be13 Rn 4e-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: 387 FLEELKSSNAQKFELSDIAGRIVEFSVDQHGSRFIQQKLEHCSAEEKVSVFKEVLPHASK 446
            LE+ +++     +L D+ G IVEFS DQHGSRFIQQKLE  +  E+  VF E+L  A +
Sbjct: 7   LLEDFRNNRFPNLQLRDLIGHIVEFSQDQHGSRFIQQKLERATPAERQIVFNEILQAAYQ 66
Query: 447 LMTDVFGNYVIQKFFEHGSPDQRKELAEKLVGQVLPLSLQMYGCRVIQKALEVIELHQKS 506
           LMTDVFGNYVIQKFFE GS DQ+  LA ++ G VLPL+LQMYGCRVIQKALE I   Q+S
Sbjct: 67  LMTDVFGNYVIQKFFEFGSLDQKLALATRIRGHVLPLALQMYGCRVIQKALESISSDQQS 126
Query: 507 QLVLELDGHVMRCVRDQNGNHVIQKCIECVPAEKIEFIISAFRGQVATLSTHPYGCRVIQ 566
           ++V ELDGHV++CV+DQNGNHV+QKCIECV  + ++FII AF+GQV  LSTHPYGCRVIQ
Sbjct: 127 EMVKELDGHVLKCVKDQNGNHVVQKCIECVQPQSLQFIIDAFKGQVFVLSTHPYGCRVIQ 186
Query: 567 RVLEHCSDEQQGQCIVDEILESAFALAQDQYGNYVTQHVLERGKSYERTQILSKLAGKIV 626
           R+LEHC+ EQ    I++E+ +    L QDQYGNYV QHVLE G+  ++++I+S++ GK++
Sbjct: 187 RILEHCTAEQTLP-ILEELHQHTEQLVQDQYGNYVIQHVLEHGRPEDKSKIVSEIRGKVL 245
Query: 627 QMSQHKYASNVVEKCLEYGDTAERELLIEEILGQSE-ENDNLLVMMKDQYANYVVQKILE 685
            +SQHK+ASNVVEKC+ +   AER LLI+E+  Q++  +  L  MMKDQYANYVVQK+++
Sbjct: 246 ALSQHKFASNVVEKCVTHASRAERALLIDEVCCQNDGPHSALYTMMKDQYANYVVQKMID 305
Query: 686 KCNEKLRETLISRIRVHCDALKKYTYGKHIVARFEQLY 723
                 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 ?
Query727
3gvo_A351 Pumilio 2, pumilio homolog 2; RNA-binding, PUF dom 1e-167
3gvo_A351 Pumilio 2, pumilio homolog 2; RNA-binding, PUF dom 4e-71
3k49_A369 MRNA-binding protein PUF3; PUF3, pumilio, RNA bind 1e-159
3k49_A369 MRNA-binding protein PUF3; PUF3, pumilio, RNA bind 7e-42
3k49_A369 MRNA-binding protein PUF3; PUF3, pumilio, RNA bind 7e-17
3k49_A369 MRNA-binding protein PUF3; PUF3, pumilio, RNA bind 8e-05
3bwt_A333 Protein PUF4; pumilio, RNA binding, HO endonucleas 1e-140
3bwt_A 333 Protein PUF4; pumilio, RNA binding, HO endonucleas 2e-40
3bwt_A333 Protein PUF4; pumilio, RNA binding, HO endonucleas 3e-36
3v71_A382 PUF (pumilio/FBF) domain-containing protein 7, CO 1e-123
3v71_A 382 PUF (pumilio/FBF) domain-containing protein 7, CO 2e-35
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 8e-46
3k62_A412 FEM-3 mRNA-binding factor 2; FBF, FEM-3 binding fa 3e-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 2e-04
>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 =  483 bits (1246), Expect = e-167
 Identities = 194/347 (55%), Positives = 258/347 (74%), Gaps = 2/347 (0%)

Query: 382 SKKHSFLEELKSSNAQKFELSDIAGRIVEFSVDQHGSRFIQQKLEHCSAEEKVSVFKEVL 441
           + +   LE+ +++     +L D+ G IVEFS DQHGSRFIQQKLE  +  E+  VF E+L
Sbjct: 2   TGRSRLLEDFRNNRFPNLQLRDLIGHIVEFSQDQHGSRFIQQKLERATPAERQIVFNEIL 61

Query: 442 PHASKLMTDVFGNYVIQKFFEHGSPDQRKELAEKLVGQVLPLSLQMYGCRVIQKALEVIE 501
             A +LMTDVFGNYVIQKFFE GS DQ+  LA ++ G VLPL+LQMYGCRVIQKALE I 
Sbjct: 62  QAAYQLMTDVFGNYVIQKFFEFGSLDQKLALATRIRGHVLPLALQMYGCRVIQKALESIS 121

Query: 502 LHQKSQLVLELDGHVMRCVRDQNGNHVIQKCIECVPAEKIEFIISAFRGQVATLSTHPYG 561
             Q+S++V ELDGHV++CV+DQNGNHV+QKCIECV  + ++FII AF+GQV  LSTHPYG
Sbjct: 122 SDQQSEMVKELDGHVLKCVKDQNGNHVVQKCIECVQPQSLQFIIDAFKGQVFVLSTHPYG 181

Query: 562 CRVIQRVLEHCSDEQQGQCIVDEILESAFALAQDQYGNYVTQHVLERGKSYERTQILSKL 621
           CRVIQR+LEHC+ EQ    I++E+ +    L QDQYGNYV QHVLE G+  ++++I+S++
Sbjct: 182 CRVIQRILEHCTAEQT-LPILEELHQHTEQLVQDQYGNYVIQHVLEHGRPEDKSKIVSEI 240

Query: 622 AGKIVQMSQHKYASNVVEKCLEYGDTAERELLIEEILGQSEEN-DNLLVMMKDQYANYVV 680
            GK++ +SQHK+ASNVVEKC+ +   AER LLI+E+  Q++     L  MMKDQYANYVV
Sbjct: 241 RGKVLALSQHKFASNVVEKCVTHASRAERALLIDEVCCQNDGPHSALYTMMKDQYANYVV 300

Query: 681 QKILEKCNEKLRETLISRIRVHCDALKKYTYGKHIVARFEQLYGEGA 727
           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 ?
Query727
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
3bwt_A333 Protein PUF4; pumilio, RNA binding, HO endonucleas 100.0
3k49_A369 MRNA-binding protein PUF3; PUF3, pumilio, RNA bind 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
2of3_A266 ZYG-9; multifunctional macromolecule, kinetochore, 81.13
3u0r_A 507 Apoptosis inhibitor 5; heat repeat, armadillo repe 80.61
>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=2.2e-67  Score=570.40  Aligned_cols=342  Identities=56%  Similarity=0.949  Sum_probs=329.5

Q ss_pred             hhhHHHHHhhccccccchHHhHHHHHHHHhcCCCccHHHHHhhhcCCHHHHHHHHHHHhhchhhhccCccccchhhhhhc
Q 004857          383 KKHSFLEELKSSNAQKFELSDIAGRIVEFSVDQHGSRFIQQKLEHCSAEEKVSVFKEVLPHASKLMTDVFGNYVIQKFFE  462 (727)
Q Consensus       383 ~r~~LLeeL~~~~~~~~~L~~I~GkIveLa~dq~gSRvLQ~lLk~~t~Eqr~~If~EI~~~~~eL~tD~fGn~VVQKLLe  462 (727)
                      -|+.|||+|+.++.+.++|+++.|+|+++|+||+|||+||++|+.+++++++.||+|+.+++.+||+|+||||||||||+
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            47889999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cCCHHHHHHHHHHHhcChhhhccCcchhHHHHHHHHhhCHHHHHHHHHHHHHHHHHHhhcccCchhhhHhhhcCChhHHH
Q 004857          463 HGSPDQRKELAEKLVGQVLPLSLQMYGCRVIQKALEVIELHQKSQLVLELDGHVMRCVRDQNGNHVIQKCIECVPAEKIE  542 (727)
Q Consensus       463 ~gs~eqr~~Ii~~L~G~v~~La~h~yGSrVIQklIe~as~eqr~~Lv~EL~g~i~~L~~D~~GNhVIQklLe~~~~e~~~  542 (727)
                      +++++++..|++.+.|++.+|+.|+|||||||++|+.++.+++..|++||.+++..|++|++||||+|+||++++++.+.
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             HHHHHhhhhHhhhccCCCCchHHHHHHhhCCcHHHHHHHHHHHHHHHHHHhhCcCccHHHHHHHHcCCchhHHHHHHHHH
Q 004857          543 FIISAFRGQVATLSTHPYGCRVIQRVLEHCSDEQQGQCIVDEILESAFALAQDQYGNYVTQHVLERGKSYERTQILSKLA  622 (727)
Q Consensus       543 ~Ii~~L~~~l~~Ls~hk~GS~VLQk~Le~~~~~~~r~~Ll~eI~~~l~~La~Dq~GNyVVQ~lLe~~~~k~r~~II~~L~  622 (727)
                      +|++.+.+++.+|++|+|||+|||++|+++.. +++..|++++.+++..|++|+|||||||++|+++.++.++.|++.|+
T Consensus       163 ~i~~~~~~~~~~ls~~~~G~~Vvq~~le~~~~-~~~~~ii~~l~~~~~~L~~d~~Gn~ViQ~~l~~~~~~~~~~i~~~l~  241 (351)
T 3gvo_A          163 FIIDAFKGQVFVLSTHPYGCRVIQRILEHCTA-EQTLPILEELHQHTEQLVQDQYGNYVIQHVLEHGRPEDKSKIVSEIR  241 (351)
T ss_dssp             HHHHHTTTTHHHHHTSTTHHHHHHHHHHHSCH-HHHHHHHHHHHTTHHHHHTSTTHHHHHHHHHHHSCHHHHHHHHHTTT
T ss_pred             HHHHHHHHHHHHHHhCcHhHHHHHHHHHHCCH-HHHHHHHHHHhhhHHhcCCCchHHHHHHHHHHhCchhhHHHHHHHHH
Confidence            99999999999999999999999999999875 47788999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhcCchHHHHHHHHHHhCCHHHHHHHHHHHhcCCCC-hhHHHhhhcCCChHHHHHHHHhcCCHHHHHHHHHHHHH
Q 004857          623 GKIVQMSQHKYASNVVEKCLEYGDTAERELLIEEILGQSEE-NDNLLVMMKDQYANYVVQKILEKCNEKLRETLISRIRV  701 (727)
Q Consensus       623 g~lveLs~~K~GS~VVEk~L~~as~k~Rk~IIkeLl~~~~~-~e~L~~La~DqyGnyVVQklL~~~d~~~Rk~Ll~~Lk~  701 (727)
                      +++.+|++|||||+|||+||+++++++|+.|+++++...++ .+.+..|+.|+|||||||++|+.+++++|+.|++.|++
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            99999999999999999999999999999999999974322 24799999999999999999999999999999999999


Q ss_pred             hHHHHhcCCChHHHHHHHHHHHhc
Q 004857          702 HCDALKKYTYGKHIVARFEQLYGE  725 (727)
Q Consensus       702 ~l~~L~~~~yGk~Vv~~Lekli~~  725 (727)
                      ++..|++++||++|+++||+++..
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
>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
>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
>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
>2of3_A ZYG-9; multifunctional macromolecule, kinetochore, microtubule, XMAP215, STU2, DIS1, microtubule associated protein, structural protein; 1.90A {Caenorhabditis elegans} Back     alignment and structure
>3u0r_A Apoptosis inhibitor 5; heat repeat, armadillo repeat, lysine acetylation; 2.50A {Homo sapiens} PDB: 3v6a_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 727
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 8e-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 =  342 bits (879), Expect = e-113
 Identities = 182/339 (53%), Positives = 248/339 (73%), Gaps = 2/339 (0%)

Query: 384 KHSFLEELKSSNAQKFELSDIAGRIVEFSVDQHGSRFIQQKLEHCSAEEKVSVFKEVLPH 443
           +   LE+ +++     +L +IAG I+EFS DQHGSRFIQ KLE  +  E+  VF E+L  
Sbjct: 2   RSRLLEDFRNNRYPNLQLREIAGHIMEFSQDQHGSRFIQLKLERATPAERQLVFNEILQA 61

Query: 444 ASKLMTDVFGNYVIQKFFEHGSPDQRKELAEKLVGQVLPLSLQMYGCRVIQKALEVIELH 503
           A +LM DVFGNYVIQKFFE GS +Q+  LAE++ G VL L+LQMYGCRVIQKALE I   
Sbjct: 62  AYQLMVDVFGNYVIQKFFEFGSLEQKLALAERIRGHVLSLALQMYGCRVIQKALEFIPSD 121

Query: 504 QKSQLVLELDGHVMRCVRDQNGNHVIQKCIECVPAEKIEFIISAFRGQVATLSTHPYGCR 563
           Q++++V ELDGHV++CV+DQNGNHV+QKCIECV  + ++FII AF+GQV  LSTHPYGCR
Sbjct: 122 QQNEMVRELDGHVLKCVKDQNGNHVVQKCIECVQPQSLQFIIDAFKGQVFALSTHPYGCR 181

Query: 564 VIQRVLEHCSDEQQGQCIVDEILESAFALAQDQYGNYVTQHVLERGKSYERTQILSKLAG 623
           VIQR+LEHC  +Q    + +E+ +    L QDQYGNYV QHVLE G+  ++++I++++ G
Sbjct: 182 VIQRILEHCLPDQTLPIL-EELHQHTEQLVQDQYGNYVIQHVLEHGRPEDKSKIVAEIRG 240

Query: 624 KIVQMSQHKYASNVVEKCLEYGDTAERELLIEEILGQSEEN-DNLLVMMKDQYANYVVQK 682
            ++ +SQHK+ASNVVEKC+ +    ER +LI+E+   ++     L  MMKDQYANYVVQK
Sbjct: 241 NVLVLSQHKFASNVVEKCVTHASRTERAVLIDEVCTMNDGPHSALYTMMKDQYANYVVQK 300

Query: 683 ILEKCNEKLRETLISRIRVHCDALKKYTYGKHIVARFEQ 721
           +++      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 ?
Query727
d1m8za_339 Pumilio 1 {Human (Homo sapiens) [TaxId: 9606]} 100.0
d1m8za_339 Pumilio 1 {Human (Homo sapiens) [TaxId: 9606]} 100.0
>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=3.9e-60  Score=505.45  Aligned_cols=337  Identities=54%  Similarity=0.930  Sum_probs=324.5

Q ss_pred             hhHHHHHhhccccccchHHhHHHHHHHHhcCCCccHHHHHhhhcCCHHHHHHHHHHHhhchhhhccCccccchhhhhhcc
Q 004857          384 KHSFLEELKSSNAQKFELSDIAGRIVEFSVDQHGSRFIQQKLEHCSAEEKVSVFKEVLPHASKLMTDVFGNYVIQKFFEH  463 (727)
Q Consensus       384 r~~LLeeL~~~~~~~~~L~~I~GkIveLa~dq~gSRvLQ~lLk~~t~Eqr~~If~EI~~~~~eL~tD~fGn~VVQKLLe~  463 (727)
                      |+.|+|+|++++.+.++|++++|+++++|+||+|||+||++|+++++++++.||+||.+++.+||+|+||||||||||++
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            57899999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCHHHHHHHHHHHhcChhhhccCcchhHHHHHHHHhhCHHHHHHHHHHHHHHHHHHhhcccCchhhhHhhhcCChhHHHH
Q 004857          464 GSPDQRKELAEKLVGQVLPLSLQMYGCRVIQKALEVIELHQKSQLVLELDGHVMRCVRDQNGNHVIQKCIECVPAEKIEF  543 (727)
Q Consensus       464 gs~eqr~~Ii~~L~G~v~~La~h~yGSrVIQklIe~as~eqr~~Lv~EL~g~i~~L~~D~~GNhVIQklLe~~~~e~~~~  543 (727)
                      ++++++..|++.+.+++.+|+.|+|||+|||++++.++.+++..+++||++++..++.|.+|+||++++++..+++.++.
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             HHHHhhhhHhhhccCCCCchHHHHHHhhCCcHHHHHHHHHHHHHHHHHHhhCcCccHHHHHHHHcCCchhHHHHHHHHHH
Q 004857          544 IISAFRGQVATLSTHPYGCRVIQRVLEHCSDEQQGQCIVDEILESAFALAQDQYGNYVTQHVLERGKSYERTQILSKLAG  623 (727)
Q Consensus       544 Ii~~L~~~l~~Ls~hk~GS~VLQk~Le~~~~~~~r~~Ll~eI~~~l~~La~Dq~GNyVVQ~lLe~~~~k~r~~II~~L~g  623 (727)
                      |++.+.+++..+++|++||+++|++++.+.. +++..+++++.+++..|++|++||||+|++|+++.++.++.|++.|++
T Consensus       162 i~~~~~~~~~~l~~~~~g~~vlq~~l~~~~~-~~~~~l~~~l~~~~~~L~~~~~G~~vvq~~l~~~~~~~~~~i~~~l~~  240 (339)
T d1m8za_         162 IIDAFKGQVFALSTHPYGCRVIQRILEHCLP-DQTLPILEELHQHTEQLVQDQYGNYVIQHVLEHGRPEDKSKIVAEIRG  240 (339)
T ss_dssp             HHHHTTTTHHHHHTSTTHHHHHHHHHHHSCH-HHHHHHHHHHHHTHHHHTTSTTHHHHHHHHHHHSCHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHhCcchhHHHHHHHhcCCH-HHHHHHHHHHHHHHHHHHhCccHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            9999999999999999999999999999875 477889999999999999999999999999999999999999999999


Q ss_pred             HHHHHhcCchHHHHHHHHHHhCCHHHHHHHHHHHhcCCC-ChhHHHhhhcCCChHHHHHHHHhcCCHHHHHHHHHHHHHh
Q 004857          624 KIVQMSQHKYASNVVEKCLEYGDTAERELLIEEILGQSE-ENDNLLVMMKDQYANYVVQKILEKCNEKLRETLISRIRVH  702 (727)
Q Consensus       624 ~lveLs~~K~GS~VVEk~L~~as~k~Rk~IIkeLl~~~~-~~e~L~~La~DqyGnyVVQklL~~~d~~~Rk~Ll~~Lk~~  702 (727)
                      ++.+|+++++||+|||+|++.++++.|+.++++++...+ ..+.|..|+.|+|||||||++|+++++++|+.|++.|+++
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            999999999999999999999999999999999886432 3367999999999999999999999999999999999999


Q ss_pred             HHHHhcCCChHHHHHHHHH
Q 004857          703 CDALKKYTYGKHIVARFEQ  721 (727)
Q Consensus       703 l~~L~~~~yGk~Vv~~Lek  721 (727)
                      +.+|+.++||++|+++|+|
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