Citrus Sinensis ID: 005600

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-------69
MNISEAPEANGSADVHVDPCVMDPQDIALISNNGPAAVSFSSSPCPDGTETSRNPRIDDTNSKNAGLEDVASVSAASQSDVSRAESRMRKKQEEQKYQGRIMMQQYPSAQQGFQYQVQGVQGQAVSLGMNNAHNAGTYMPSGNPFYPSFQPSGAGVYPSQYNVGGYALNSALFPPFVAGYPSQGPVPMPFDATSGSSFNIRTTSVSTGEGIPHIGSTQHQKFYGHQGLMLQSPFVDPLHMQYFQHPFGDAYNASVQHRLASSGVNGALADPSSKKEPIVAAYMGDQNLQSSLNGGPSISNPRKVGMPVGGYYGGLPGMGVMGQFPTSPIASPVLPSSPVGSTSQLGLRHEMRLPQGLNRNTGIYSGWQGQRTFEGQRTFEDSKKHSFLEELKSSNAQKFELSDIAGRIVEFSVDQHGSRFIQQKLEHCSAEEKVSVFKEVLPHASKLMTDVFGNYVIQKFFEHGSPDQRKELAEKLVGQVLPLSLQMYGCRVIQKALEVIELHQKSQLVLELDGHVMRCVRDQNGNHVIQKCIECVPAEKIEFIISAFRGQVATLSTHPYGCRVIQRVLEHCSDEQQGQCIVDEILESAFALAQDQYGNYVTQHVLERGKSYERTQILSKLAGKIVQMSQHKYASNVVEKCLEYGDTAERELLIEEILGQSEENDNLLYYKSRLAGSMLICLTSWTEH
ccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHccccccccccccccHHHHcccHHHcHHHHHHHHcccHHHHHHHHHHHHHHHHHHccccccHHHHHHHHccccHHHHHHHHHHHHHcHHHHcccccHHHHHHHHHHccccHHHHHHHHHHHccccccccccccHHHHHHHHHcccccHHHHHHHHHHHccHHHccccHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHcccccHHHHHHHHHHHHHHHHHHHcHHHHHHHHHHHHcccHHHHHHHHHHHHccccccccHHHHccccccEEEEEEEEEEcc
cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHccccccccHHHHcccHHHHHccHHHHHHHHHHHccccHHHHHHHHHHHcccHHHHHccccHHHHHHHHHHHccHHHHHHHHHHHcccHHHHHccccHHHHHHHHHHHccHHHHHHHHHHHcccHHHHHccccHHHHHHHHHHHccHHHHHHHHHHHcccHHHHHccccHHHHHHHHHHHccHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHccHHHHHHHHHHHcccHHHHHccccHHHHHHHHHHHccHHHHHHHHHHHHHcEEccEEHHHHHcHHHHHHHHHHHHHHcc
mniseapeangsadvhvdpcvmdpqdialisnngpaavsfssspcpdgtetsrnpriddtnsknagledvasvsaasqsdVSRAESRMRKKQEEQKYQGRImmqqypsaqqgfQYQVQGVQGqavslgmnnahnagtympsgnpfypsfqpsgagvypsqynvggyalnsalfppfvagypsqgpvpmpfdatsgssfnirttsvstgegiphigstqhqkfyghqglmlqspfvdplhmqyfqhpfgdayNASVQHRLAssgvngaladpsskkepivaaymgdqnlqsslnggpsisnprkvgmpvggyygglpgmgvmgqfptspiaspvlpsspvgstsqlglrhemrlpqglnrntgiysgwqgqrtfegqrtfedskkHSFLEELkssnaqkfelsdiagrIVEFSVDQHGSRFIQQKLEHCSAEEKVSVFKEVLPHASKLMTDVFGNYVIQKFFEHGSPDQRKELAEKLVGQVLPLSLQMYGCRVIQKALEVIELHQKSQLVLELDGHVMrcvrdqngnhVIQKCIECVPAEKIEFIISAFRGQVAtlsthpygcRVIQRVLEhcsdeqqgQCIVDEILESAFALAQDQYGNYVTQHVLERGKSYERTQILSKLAGKIVQMSQHKYASNVVEKCLEYGDTAERELLIEEILGqseendnlLYYKSRLAGSMLICLTSWTEH
mniseapeangsadvhvDPCVMDPQDIALISNNGPAAvsfssspcpdgtetsrnpriddtnsknagledvasvsaasqsdvsraesrmrKKQEEQKYQGRIMMQQYPSAQQGFQYQVQGVQGQAVSLGMNNAHNAGTYMPSGNPFYPSFQPSGAGVYPSQYNVGGYALNSALFPPFVAGYPSQGPVPMPFDATSGSSFNIRTTSVSTGEGIPHIGSTQHQKFYGHQGLMLQSPFVDPLHMQYFQHPFGDAYNASVQHRLASSGVNGALADPSSKKEPIVAAYMGDQNLQSSLNGGPSISNPRKVGMPVGGYYGGLPGMGVMGQFPTSPIASPVLPSSPVGSTSQLGLRHEMRLPQGLNRNTGIYSGWQGQRTFEGQRTFEDSKKHSFLEelkssnaqkfELSDIAGRIVEFSVDQHGSRFIQQKLEHCSAEEKVSVFKEVLPHASKLMTDVFGNYVIQKFFEHGSPDQRKELAEKLVGQVLPLSLQMYGCRVIQKALEVIELHQKSQLVLELDGHVMRCVRDQNGNHVIQKCIECVPAEKIEFIISAFRGQVATLSTHPYGCRVIQRVLEHCSDEQQGQCIVDEILESAFALAQDQYGNYVTQHVLERGKSYERTQILSKLAGKIVQMSQHKYASNVVEKCLEYGDTAERELLIEEilgqseendNLLYYKSRLAGSMLICLTSWTEH
MNISEAPEANGSADVHVDPCVMDPQDIALISNNGPAAVSFSSSPCPDGTETSRNPRIDDTNSKNAGLEdvasvsaasqsdvsRAESRMRKKQEEQKYQGRIMMQQYPSAqqgfqyqvqgvqgqavSLGMNNAHNAGTYMPSGNPFYPSFQPSGAGVYPSQYNVGGYALNSALFPPFVAGYPSQGPVPMPFDATSGSSFNIRTTSVSTGEGIPHIGSTQHQKFYGHQGLMLQSPFVDPLHMQYFQHPFGDAYNASVQHRLASSGVNGALADPSSKKEPIVAAYMGDQNLQSSLNGGPSISNPRKvgmpvggyygglpgmgvmgQFPTSPIASPVLPSSPVGSTSQLGLRHEMRLPQGLNRNTGIYSGWQGQRTFEGQRTFEDSKKHSFLEELKSSNAQKFELSDIAGRIVEFSVDQHGSRFIQQKLEHCSAEEKVSVFKEVLPHASKLMTDVFGNYVIQKFFEHGSPDQRKELAEKLVGQVLPLSLQMYGCRVIQKALEVIELHQKSQLVLELDGHVMRCVRDQNGNHVIQKCIECVPAEKIEFIISAFRGQVATLSTHPYGCRVIQRVLEHCSDEQQGQCIVDEILESAFALAQDQYGNYVTQHVLERGKSYERTQILSKLAGKIVQMSQHKYASNVVEKCLEYGDTAERELLIEEILGQSEENDNLLYYKSRLAGSMLICLTSWTEH
****************************************************************************************************************FQYQVQGVQGQAVSLG*********Y*****PFYPSFQPSGAGVYPSQYNVGGYALNSALFPPFVAGYP*****************************IPHIGSTQHQKFYGHQGLMLQSPFVDPLHMQYFQHPFGDAYNASVQH************************************************MPVGGYYGGLPGMGVMG**************************************TGIYSGWQ*******************************ELSDIAGRIVEFSVDQHGSRFIQQKLEHCSAEEKVSVFKEVLPHASKLMTDVFGNYVIQKFFEHG******ELAEKLVGQVLPLSLQMYGCRVIQKALEVIELHQKSQLVLELDGHVMRCVRDQNGNHVIQKCIECVPAEKIEFIISAFRGQVATLSTHPYGCRVIQRVLEHCSDEQQGQCIVDEILESAFALAQDQYGNYVTQHVLERGKSYERTQILSKLAGKIVQMSQHKYASNVVEKCLEYGDTAERELLIEEILGQSEENDNLLYYKSRLAGSMLICLTSW***
**********************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************NAQKFELSDIAGRIVEFSVDQHGSRFIQQKLEHCSAEEKVSVFKEVLPHASKLMTDVFGNYVIQKFFEHGSPDQRKELAEKLVGQVLPLSLQMYGCRVIQKALEVIELHQKSQLVLELDGHVMRCVRDQNGNHVIQKCIECVPAEKIEFIISAFRGQVATLSTHPYGCRVIQRVLEHCSDEQQGQCIVDEILESAFALAQDQYGNYVTQHVLERGKSYERTQILSKLAGKIVQMSQHKYASNVVEKCLEYGDTAERELLIEEILGQSEENDNLLYYKSRLAGSMLICLTSWTEH
************ADVHVDPCVMDPQDIALISNNGPA*****************NPRIDDTNSKNAGLEDV***************************QGRIMMQQYPSAQQGFQYQVQGVQGQAVSLGMNNAHNAGTYMPSGNPFYPSFQPSGAGVYPSQYNVGGYALNSALFPPFVAGYPSQGPVPMPFDATSGSSFNIRTTSVSTGEGIPHIGSTQHQKFYGHQGLMLQSPFVDPLHMQYFQHPFGDAYNASVQHRLASSGVNGALADPSSKKEPIVAAYMGDQNLQSSLNGGPSISNPRKVGMPVGGYYGGLPGMGVMGQFPTSPIASPVLPSSPVGSTSQLGLRHEMRLPQGLNRNTGIYSGWQGQRTFEGQRTFEDSKKHSFLEELKSSNAQKFELSDIAGRIVEFSVDQHGSRFIQQKLEHCSAEEKVSVFKEVLPHASKLMTDVFGNYVIQKFFEHGSPDQRKELAEKLVGQVLPLSLQMYGCRVIQKALEVIELHQKSQLVLELDGHVMRCVRDQNGNHVIQKCIECVPAEKIEFIISAFRGQVATLSTHPYGCRVIQRVLEHCSDEQQGQCIVDEILESAFALAQDQYGNYVTQHVLERGKSYERTQILSKLAGKIVQMSQHKYASNVVEKCLEYGDTAERELLIEEILGQSEENDNLLYYKSRLAGSMLICLTSWTEH
**************************************************************************************************************************************AGTYMPSGNPFYPSFQPSGAGVYPSQYNVGGYALNSALFPPFVAGYPSQGPVPMPFDATSGSSFNIRTTSVSTGEGIPHIGSTQHQKFYGHQGLMLQSPFVDPLHMQYFQHPFGDAYNASVQHRLASSGVNGALADPSSKKEPIVAAYMGDQNLQSSLNGGPSISNPRKVGMPVGGYYGGLPGMGVMGQFPTSPIASPVLPSSPVGSTSQLGLRHEMRLPQGLNRNTGIYSGWQGQRTFEGQRTFEDSKKHSFLEELKSSNAQKFELSDIAGRIVEFSVDQHGSRFIQQKLEHCSAEEKVSVFKEVLPHASKLMTDVFGNYVIQKFFEHGSPDQRKELAEKLVGQVLPLSLQMYGCRVIQKALEVIELHQKSQLVLELDGHVMRCVRDQNGNHVIQKCIECVPAEKIEFIISAFRGQVATLSTHPYGCRVIQRVLEHCSDEQQGQCIVDEILESAFALAQDQYGNYVTQHVLERGKSYERTQILSKLAGKIVQMSQHKYASNVVEKCLEYGDTAERELLIEEILGQSEENDNLLYYKSRLAGSMLICLTSWTEH
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MNISEAPEANGSADVHVDPCVMDPQDIALISNNGPAAVSFSSSPCPDGTETSRNPRIDDTNSKNAGLEDVASVSAASQSDVSRAESRMRKKQEEQKYQGRIMMQQYPSAQQGFQYQVQGVQGQAVSLGMNNAHNAGTYMPSGNPFYPSFQPSGAGVYPSQYNVGGYALNSALFPPFVAGYPSQGPVPMPFDATSGSSFNIRTTSVSTGEGIPHIGSTQHQKFYGHQGLMLQSPFVDPLHMQYFQHPFGDAYNASVQHRLASSGVNGALADPSSKKEPIVAAYMGDQNLQSSLNGGPSISNPRKVGMPVGGYYGGLPGMGVMGQFPTSPIASPVLPSSPVGSTSQLGLRHEMRLPQGLNRNTGIYSGWQGQRTFEGQRTFEDSKKHSFLEELKSSNAQKFELSDIAGRIVEFSVDQHGSRFIQQKLEHCSAEEKVSVFKEVLPHASKLMTDVFGNYVIQKFFEHGSPDQRKELAEKLVGQVLPLSLQMYGCRVIQKALEVIELHQKSQLVLELDGHVMRCVRDQNGNHVIQKCIECVPAEKIEFIISAFRGQVATLSTHPYGCRVIQRVLEHCSDEQQGQCIVDEILESAFALAQDQYGNYVTQHVLERGKSYERTQILSKLAGKIVQMSQHKYASNVVEKCLEYGDTAERELLIEEILGQSEENDNLLYYKSRLAGSMLICLTSWTEH
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 ?
Query688 2.2.26 [Sep-21-2011]
Q9LJX4961 Pumilio homolog 5 OS=Arab yes no 0.840 0.601 0.524 1e-174
Q9C5E7861 Pumilio homolog 6, chloro no no 0.687 0.549 0.495 1e-128
Q9ZW07968 Pumilio homolog 1 OS=Arab no no 0.694 0.493 0.490 1e-121
Q9ZW02964 Pumilio homolog 3 OS=Arab no no 0.754 0.538 0.465 1e-121
Q9ZW06972 Pumilio homolog 2 OS=Arab no no 0.598 0.423 0.531 1e-120
Q9SS471003 Pumilio homolog 4 OS=Arab no no 0.588 0.403 0.480 1e-107
Q80U581066 Pumilio homolog 2 OS=Mus yes no 0.417 0.269 0.575 5e-95
Q8TB721066 Pumilio homolog 2 OS=Homo yes no 0.417 0.269 0.575 7e-95
P25822 1533 Maternal protein pumilio yes no 0.405 0.181 0.579 1e-93
Q146711186 Pumilio homolog 1 OS=Homo no no 0.417 0.241 0.545 2e-90
>sp|Q9LJX4|PUM5_ARATH Pumilio homolog 5 OS=Arabidopsis thaliana GN=APUM5 PE=1 SV=2 Back     alignment and function desciption
 Score =  613 bits (1580), Expect = e-174,   Method: Compositional matrix adjust.
 Identities = 348/664 (52%), Positives = 431/664 (64%), Gaps = 86/664 (12%)

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 DNLL 668
           ++LL
Sbjct: 890 NHLL 893
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 ?
Query688
225443381 1053 PREDICTED: pumilio homolog 5 [Vitis vini 0.956 0.624 0.607 0.0
255544506 1004 pumilio, putative [Ricinus communis] gi| 0.956 0.655 0.614 0.0
8071634 966 pumilio domain-containing protein PPD1 [ 0.931 0.663 0.590 0.0
225463345 1017 PREDICTED: pumilio homolog 5 [Vitis vini 0.941 0.637 0.554 0.0
449453445 1031 PREDICTED: pumilio homolog 5-like [Cucum 0.947 0.632 0.567 0.0
449500099 1031 PREDICTED: pumilio homolog 5-like [Cucum 0.947 0.632 0.567 0.0
356530316 985 PREDICTED: pumilio homolog 5-like [Glyci 0.764 0.534 0.605 1e-178
357449403 984 Pumilio-like protein [Medicago truncatul 0.863 0.603 0.531 1e-174
356558296 982 PREDICTED: pumilio homolog 5-like [Glyci 0.758 0.531 0.594 1e-173
30685690 961 pumilio 5 [Arabidopsis thaliana] gi|3134 0.840 0.601 0.524 1e-172
>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 =  830 bits (2145), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 436/718 (60%), Positives = 508/718 (70%), Gaps = 60/718 (8%)

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 QYPSAQQGFQYQVQGVQGQAVSLGMNNAHN------------------------------ 134
            +P AQQ   Y+VQGVQ Q +S GM++ +N                              
Sbjct: 371 HHPYAQQSSPYKVQGVQAQVISQGMSHPYNGMEKLPHAPPKFSSVEVQPMMQSPGLTPPL 430

Query: 135 ---AGTYMPSGNPFYPSFQPSGAGVYPSQYNVGGYALNSALFPPFVAGYPSQGPVPMPFD 191
              A  Y+ SG+PFYP+ QPS  G++  QY +GGY L+SAL P F+ GYPS   +PMPFD
Sbjct: 431 YATAAAYIASGSPFYPNIQPS--GLFAPQYGMGGYGLSSALVPQFIGGYPSPAAIPMPFD 488

Query: 192 ATSGSSFNIRTTSVSTGEGIPHIGSTQHQKFYGHQGLMLQSPFVDPLHMQYFQHPFGDAY 251
           ATSG SFN+RTT  S GE IPH     + KFYGH GLMLQ  F+DPLHMQYFQHPF DAY
Sbjct: 489 ATSGPSFNVRTTGASMGESIPHELQNLN-KFYGHHGLMLQPSFLDPLHMQYFQHPFEDAY 547

Query: 252 NASVQH-RLASSGVNGALADPSSKKEPIVAAYMGDQNLQSSLNGGPSISNPRKVGMPVGG 310
            A+ Q+ RL   GV G      S+KE  V+AYMGDQ LQ   NG  S+ +PRK G+    
Sbjct: 548 GAAGQYGRLPPRGVIGGQDSSVSQKESHVSAYMGDQKLQPPTNGSLSVPSPRKGGIMGSS 607

Query: 311 YYGGLPGMGVMGQFPTSPIASPVLPSSPVGSTSQLGLRHEMRLPQGLNRNTGIYSGWQGQ 370
           YYG  P MGVM QFP SP++SP+LP SPVG T+  G R+EMR PQG  RN G+YSGWQGQ
Sbjct: 608 YYGSPPNMGVMTQFPASPLSSPILPGSPVGGTNHPGRRNEMRFPQGPIRNVGVYSGWQGQ 667

Query: 371 RTFEGQRTFEDSKKHSFLEELKSSNAQKFELSDIAGRIVEFSVDQHGSRFIQQKLEHCSA 430
           R   G   FED KKHSFLEELKS+NA+KFELSDIAGR VEFSVDQHGSRFIQQKLE+CS 
Sbjct: 668 R---GADNFEDPKKHSFLEELKSNNARKFELSDIAGRTVEFSVDQHGSRFIQQKLENCSG 724

Query: 431 EEKVSVFKEVLPHASKLMTDVFGNYVIQKFFEHGSPDQRKELAEKLVGQVLPLSLQMYGC 490
           EEK SVFKEVLPHAS+LMTDVFGNYVIQKFFEHG+P+QR+ELA +L GQ++PLSLQMYGC
Sbjct: 725 EEKASVFKEVLPHASRLMTDVFGNYVIQKFFEHGTPEQRRELAYQLAGQMIPLSLQMYGC 784

Query: 491 RVIQKALEVIELHQKSQLVLELDGHVMRCVRDQNGNHVIQKCIECVPAEKIEFIISAFRG 550
           RVIQKALEVIEL QK+QLV ELDGHV+RCVRDQNGNHVIQKCIEC+P EKI FIISAF+G
Sbjct: 785 RVIQKALEVIELDQKTQLVHELDGHVIRCVRDQNGNHVIQKCIECIPTEKIGFIISAFKG 844

Query: 551 QVATLSTHPYGCRVIQRVLEHCSDEQQGQCIVDEILESAFALAQDQYGNYVTQHVLERGK 610
           QV  LS+HPYGCRVIQRVLEHCS+  Q Q IVDEILESA+ LA+DQYGNYVTQHVLERG 
Sbjct: 845 QVTVLSSHPYGCRVIQRVLEHCSEVSQSQFIVDEILESAYVLAEDQYGNYVTQHVLERGN 904

Query: 611 SYERTQILSKLAGKIVQMSQHKYASNVVEKCLEYGDTAERELLIEEILGQSEENDNLL 668
            +ER+QI+SKL GKIVQMSQHKYASNV+EKCLEYG T+E ELLIEEI+GQSE+NDNLL
Sbjct: 905 PHERSQIISKLTGKIVQMSQHKYASNVIEKCLEYGSTSECELLIEEIIGQSEDNDNLL 962

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|8071634|gb|AAF71823.1|AF153276_1 pumilio domain-containing protein PPD1 [Populus tremula x Populus tremuloides] 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|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|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
>gi|30685690|ref|NP_188660.3| pumilio 5 [Arabidopsis thaliana] gi|313471415|sp|Q9LJX4.2|PUM5_ARATH RecName: Full=Pumilio homolog 5; Short=APUM-5; Short=AtPUM5 gi|332642831|gb|AEE76352.1| pumilio 5 [Arabidopsis thaliana] 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 ?
Query688
TAIR|locus:2087560961 PUM5 "pumilio 5" [Arabidopsis 0.872 0.624 0.498 7e-141
TAIR|locus:2117552861 PUM6 "pumilio 6" [Arabidopsis 0.456 0.364 0.640 3.3e-117
TAIR|locus:2043187972 PUM2 "pumilio 2" [Arabidopsis 0.491 0.347 0.612 2.4e-112
TAIR|locus:2043182968 PUM1 "pumilio 1" [Arabidopsis 0.572 0.407 0.558 5.6e-109
TAIR|locus:2043047964 PUM3 "pumilio 3" [Arabidopsis 0.723 0.516 0.467 3.5e-107
TAIR|locus:20763241003 PUM4 "pumilio 4" [Arabidopsis 0.454 0.312 0.586 1.8e-96
UNIPROTKB|B4E2B61008 PUM2 "Pumilio homolog 2" [Homo 0.417 0.284 0.579 1.3e-90
UNIPROTKB|E2RT571063 PUM2 "Uncharacterized protein" 0.417 0.269 0.579 1.3e-90
UNIPROTKB|F1SCU61064 PUM2 "Uncharacterized protein" 0.417 0.269 0.579 1.3e-90
UNIPROTKB|F1N2B81069 PUM2 "Uncharacterized protein" 0.417 0.268 0.579 1.3e-90
TAIR|locus:2087560 PUM5 "pumilio 5" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 1378 (490.1 bits), Expect = 7.0e-141, P = 7.0e-141
 Identities = 319/640 (49%), Positives = 391/640 (61%)

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 SQHKYASNVVEKCLEYGDTAERELLIEEILGQSEENDNLL 668
             SQHKYASNVVEKCLE+ D+ ERE LIEEI+G+SEE+++LL
Sbjct:   854 SQHKYASNVVEKCLEHADSTEREFLIEEIMGKSEEDNHLL 893
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|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
UNIPROTKB|F1N2B8 PUM2 "Uncharacterized protein" [Bos taurus (taxid:9913)] 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 number0.52400.84010.6014yesno

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

Your Input:
APUM5
APUM5 (Arabidopsis Pumilio 5); RNA binding / binding; Arabidopsis Pumilio 5 (APUM5); FUNCTIONS IN- RNA binding, binding; LOCATED IN- vacuole; EXPRESSED IN- 22 plant structures; EXPRESSED DURING- 13 growth stages; CONTAINS InterPro DOMAIN/s- Pumilio RNA-binding region (InterPro-IPR001313), Armadillo-like helical (InterPro-IPR011989), Armadillo-type fold (InterPro-IPR016024); BEST Arabidopsis thaliana protein match is- APUM6 (Arabidopsis Pumilio 6); RNA binding / binding (TAIR-AT4G25880.1); Has 3518 Blast hits to 1808 proteins in 189 species- Archae - 0; Bacteria - 5; Metazoa - 931; Fung [...] (961 aa)
(Arabidopsis thaliana)
Predicted Functional Partners:
AT1G16800
tRNA-splicing endonuclease positive effector-related; tRNA-splicing endonuclease positive effec [...] (1939 aa)
      • 0.980
AT4G28990
RNA-binding protein-related; RNA-binding protein-related; FUNCTIONS IN- zinc ion binding; INVOL [...] (395 aa)
      • 0.966
emb1067
emb1067 (embryo defective 1067); tRNA 2'-phosphotransferase/ transferase, transferring phosphor [...] (289 aa)
      • 0.927
ATARCA
ATARCA; nucleotide binding; Encodes the Arabidopsis thaliana homolog of the tobacco WD-40 repea [...] (327 aa)
      • 0.821
AT2G41620
nucleoporin interacting component family protein; nucleoporin interacting component family prot [...] (861 aa)
    •   0.819
AT1G52380
Ran-binding protein 1 domain-containing protein / RanBP1 domain-containing protein; Ran-binding [...] (440 aa)
    •   0.819
AT1G22930
T-complex protein 11; T-complex protein 11; INVOLVED IN- biological_process unknown; EXPRESSED [...] (1131 aa)
   •    0.802
UBQ4
UBQ4; protein binding; encodes a ubiquitin polyprotein. ; Protein modifier which can be covalen [...] (382 aa)
    •   0.762
AML2
AML2 (ARABIDOPSIS-MEI2-LIKE 2); RNA binding / nucleic acid binding / nucleotide binding; A memb [...] (843 aa)
   •    0.746
IRE1A
IRE1A; endoribonuclease/ kinase; Encodes a endoribonuclease/protein kinase IRE1-like protein th [...] (841 aa)
   •    0.718

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 ?
Query688
cd07920322 cd07920, Pumilio, Pumilio-family RNA binding domai 1e-136
COG5099777 COG5099, COG5099, RNA-binding protein of the Puf f 3e-72
cd07920322 cd07920, Pumilio, Pumilio-family RNA binding domai 2e-67
COG5099777 COG5099, COG5099, RNA-binding protein of the Puf f 3e-22
pfam07990365 pfam07990, NABP, Nucleic acid binding protein NABP 4e-17
COG5099777 COG5099, COG5099, RNA-binding protein of the Puf f 5e-17
cd07920322 cd07920, Pumilio, Pumilio-family RNA binding domai 4e-11
smart0002536 smart00025, Pumilio, Pumilio-like repeats 6e-08
smart0002536 smart00025, Pumilio, Pumilio-like repeats 7e-08
smart0002536 smart00025, Pumilio, Pumilio-like repeats 3e-07
smart0002536 smart00025, Pumilio, Pumilio-like repeats 6e-07
pfam0080634 pfam00806, PUF, Pumilio-family RNA binding repeat 9e-07
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 5e-04
pfam0080634 pfam00806, PUF, Pumilio-family RNA binding repeat 0.001
smart0002536 smart00025, Pumilio, Pumilio-like repeats 0.002
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 =  403 bits (1037), Expect = e-136
 Identities = 164/272 (60%), Positives = 197/272 (72%), Gaps = 2/272 (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 VVEKCLEYGDTAERELLIEEILGQSEENDNLL 668
           VVEKCL++    EREL+I+EIL    E   L 
Sbjct: 240 VVEKCLKHASKEERELIIDEILASGNETSALD 271

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|227430 COG5099, COG5099, RNA-binding protein of the Puf family, translational repressor [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>gnl|CDD|219685 pfam07990, NABP, Nucleic acid binding protein NABP Back     alignment and domain information
>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|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|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 688
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
cd07920322 Pumilio Pumilio-family RNA binding domain. Puf rep 100.0
KOG1488503 consensus Translational repressor Pumilio/PUF3 and 100.0
KOG2049536 consensus Translational repressor MPT5/PUF4 and re 100.0
KOG2050 652 consensus Puf family RNA-binding protein [Translat 100.0
COG5099777 RNA-binding protein of the Puf family, translation 99.98
KOG2049536 consensus Translational repressor MPT5/PUF4 and re 99.97
KOG2188650 consensus Predicted RNA-binding protein, contains 99.9
KOG2050 652 consensus Puf family RNA-binding protein [Translat 99.89
KOG2188650 consensus Predicted RNA-binding protein, contains 99.69
KOG4574 1007 consensus RNA-binding protein (contains RRM and Pu 99.62
KOG4574 1007 consensus RNA-binding protein (contains RRM and Pu 99.43
PF0080635 PUF: Pumilio-family RNA binding repeat; InterPro: 98.18
PF0080635 PUF: Pumilio-family RNA binding repeat; InterPro: 97.81
smart0002536 Pumilio Pumilio-like repeats. Pumilio-like repeats 97.8
smart0002536 Pumilio Pumilio-like repeats. Pumilio-like repeats 97.58
PRK05686339 fliG flagellar motor switch protein G; Validated 94.82
PF04286367 DUF445: Protein of unknown function (DUF445); Inte 93.61
PRK05686339 fliG flagellar motor switch protein G; Validated 91.08
PF08144148 CPL: CPL (NUC119) domain; InterPro: IPR012959 This 89.38
PF08144148 CPL: CPL (NUC119) domain; InterPro: IPR012959 This 82.39
TIGR00207338 fliG flagellar motor switch protein FliG. The fliG 81.02
COG1747 711 Uncharacterized N-terminal domain of the transcrip 80.79
>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=6e-64  Score=551.85  Aligned_cols=307  Identities=52%  Similarity=0.849  Sum_probs=290.5

Q ss_pred             CchhhhHHHHHhhcc-chhhhhHHHHHHHHHHHhhCCCcCHHHHHHhhcCCH-HHHHHHHHHHHHhHHhhhcCcCcchHH
Q 005600          380 EDSKKHSFLEELKSS-NAQKFELSDIAGRIVEFSVDQHGSRFIQQKLEHCSA-EEKVSVFKEVLPHASKLMTDVFGNYVI  457 (688)
Q Consensus       380 ~d~~rs~LLeel~s~-~~r~~~L~~I~G~V~eLa~Dq~GSRVIQklLe~~s~-eer~~If~EL~~~~~eL~~D~yGn~VI  457 (688)
                      +...++.+++++.+. ..+.+.+.++.|++++++.|++|||+||+.|+.+++ +++..||+||.+.+.+||+|.||||||
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            334556667776665 667788889999999999999999999999999988 999999999999999999999999999


Q ss_pred             HHHhhcCCHHHHHHHHHHHHhhHHhhhccccccHHHHHHHhhhCHHHHHHHHHhhhhchhhhhcccCCchhhhHhhhcCC
Q 005600          458 QKFFEHGSPDQRKELAEKLVGQVLPLSLQMYGCRVIQKALEVIELHQKSQLVLELDGHVMRCVRDQNGNHVIQKCIECVP  537 (688)
Q Consensus       458 QKLLe~gs~eqr~~Ii~~L~g~vv~La~h~yGSrVVQklLE~as~eq~~~Lv~EL~g~i~~L~kdq~GnhVVQklLe~~~  537 (688)
                      ||+||+++.+|+..+...+.+++..|+.|+||||||||+||..+.+++.+|++||.+++++|++|++||||||||||+.+
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--hHHHhhcCCCchHHHHHHHhhcCCHHHHHHHHHHHHHHHHHHHhCCChhHHHHHHHhcCChHHHH
Q 005600          538 AEKIEFIISAFRG--QVATLSTHPYGCRVIQRVLEHCSDEQQGQCIVDEILESAFALAQDQYGNYVTQHVLERGKSYERT  615 (688)
Q Consensus       538 ~e~~~~Ii~~L~~--~lv~Ls~hk~GS~VIQklLe~~~d~~~r~~IIeeIle~l~~La~Dq~GNyVIQ~lLe~~~~k~Rk  615 (688)
                      ++.+.+|++.|.+  ++..||+|+|||||||++||+|.++ +...++++|..++..|+.|+||||||||+|+++++.++.
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  9999999999999999999999866 455699999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhcCcchHHHHHHHHHhCCHHHHHHHHHHHhcCCCCc-chhhhc-cCcchhHHHHHhhcccC
Q 005600          616 QILSKLAGKIVQMSQHKYASNVVEKCLEYGDTAERELLIEEILGQSEEN-DNLLYY-KSRLAGSMLICLTSWTE  687 (688)
Q Consensus       616 ~IIk~Lkg~l~~Ls~~K~GS~VVEk~L~~~d~~~Rk~II~ELlg~~~~~-d~L~~L-~DqyGnyVLq~LLsvT~  687 (688)
                      .|++.|.++++.|++|||+|||||+||.++.+.+|..|++|+++..++. ++|..| +|+|||||||+++++++
T Consensus       391 ~I~~~l~~~ll~~Sq~KfASnVVEk~~~~a~~~~r~~i~~Ei~~~~~~~~~~L~~mmkdQYgNYVVQkmi~~~~  464 (503)
T KOG1488|consen  391 IIIKCLLGNLLSMSQHKFASNVVEKAFLFAPPLLRALIMNEIFPGYVEHPDALDIMMKDQYGNYVVQKMIDICG  464 (503)
T ss_pred             hHHHHHHhhHHHHHHHHHHHHHHHHHHhhCCHHHHHHHHHHhcCCccCCccHHHHHHHHhhhhhHHHHHHHhcC
Confidence            9999999999999999999999999999999999999999999986655 889999 99999999999999864

>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
>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
>KOG2049 consensus Translational repressor MPT5/PUF4 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
>KOG2050 consensus Puf family RNA-binding protein [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
>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
>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
>smart00025 Pumilio Pumilio-like repeats 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
>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
>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
>TIGR00207 fliG flagellar motor switch protein FliG Back     alignment and domain information
>COG1747 Uncharacterized N-terminal domain of the transcription elongation factor GreA [Function unknown] 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 ?
Query688
3gvo_A351 Structure And Rna Binding Of The Mouse Pumilio-2 Pu 4e-94
3q0q_A351 Crystal Structure Of The Pumilio-Homology Domain Fr 1e-92
3h3d_X323 Drosophila Pumilio Rna Binding Domain (Puf Domain) 4e-91
3bsb_A343 Crystal Structure Of Human Pumilio1 In Complex With 6e-88
1ib2_A349 Crystal Structure Of A Pumilio-Homology Domain Leng 8e-88
2yjy_A350 A Specific And Modular Binding Code For Cytosine Re 9e-87
3k49_A369 Puf3 Rna Binding Domain Bound To Cox17 Rna 3' Utr R 4e-68
3bx3_A335 Puf4 T650cC724R MUTANT BOUND TO COX17 RNA 3' UTR Re 5e-40
4dzs_A357 Crystal Structure Of Yeast Puf4p Rna Binding Domain 6e-38
3bx2_A335 Puf4 Rna Binding Domain Bound To Ho Endonuclease Rn 9e-38
3bwt_A333 Crystal Structure Of The Rna Binding Domain Of Puf4 1e-37
3qg9_A413 Crystal Structure Of Fbf-2GLD-1 Fbea A7u Mutant Com 1e-25
3k5q_A412 Crystal Structure Of Fbf-2FBE COMPLEX Length = 412 2e-25
3qgb_A413 Crystal Structure Of Fbf-2 R288y Mutant In Complex 1e-24
3v71_A382 Crystal Structure Of Puf-6 In Complex With 5be13 Rn 1e-20
>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 =  342 bits (877), Expect = 4e-94,   Method: Compositional matrix adjust.
 Identities = 166/283 (58%), Positives = 216/283 (76%), Gaps = 1/283 (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 QMSQHKYASNVVEKCLEYGDTAERELLIEEILGQSEENDNLLY 669
            +SQHK+ASNVVEKC+ +   AER LLI+E+  Q++   + LY
Sbjct: 246 ALSQHKFASNVVEKCVTHASRAERALLIDEVCCQNDGPHSALY 288
>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|3H3D|X Chain X, Drosophila Pumilio Rna Binding Domain (Puf Domain) Length = 323 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|1IB2|A Chain A, Crystal Structure Of A Pumilio-Homology Domain Length = 349 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|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|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|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 ?
Query688
3gvo_A351 Pumilio 2, pumilio homolog 2; RNA-binding, PUF dom 1e-141
3gvo_A351 Pumilio 2, pumilio homolog 2; RNA-binding, PUF dom 3e-72
3k49_A369 MRNA-binding protein PUF3; PUF3, pumilio, RNA bind 1e-134
3k49_A369 MRNA-binding protein PUF3; PUF3, pumilio, RNA bind 6e-62
3k49_A369 MRNA-binding protein PUF3; PUF3, pumilio, RNA bind 1e-42
3k49_A369 MRNA-binding protein PUF3; PUF3, pumilio, RNA bind 3e-17
3k49_A369 MRNA-binding protein PUF3; PUF3, pumilio, RNA bind 6e-05
3bwt_A333 Protein PUF4; pumilio, RNA binding, HO endonucleas 1e-118
3bwt_A333 Protein PUF4; pumilio, RNA binding, HO endonucleas 9e-58
3bwt_A 333 Protein PUF4; pumilio, RNA binding, HO endonucleas 3e-30
3v71_A382 PUF (pumilio/FBF) domain-containing protein 7, CO 1e-102
3v71_A382 PUF (pumilio/FBF) domain-containing protein 7, CO 2e-49
3v71_A 382 PUF (pumilio/FBF) domain-containing protein 7, CO 4e-25
3k62_A412 FEM-3 mRNA-binding factor 2; FBF, FEM-3 binding fa 2e-96
3k62_A412 FEM-3 mRNA-binding factor 2; FBF, FEM-3 binding fa 1e-46
3k62_A412 FEM-3 mRNA-binding factor 2; FBF, FEM-3 binding fa 1e-17
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 6e-07
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 =  415 bits (1068), Expect = e-141
 Identities = 166/288 (57%), Positives = 218/288 (75%), Gaps = 1/288 (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 AGKIVQMSQHKYASNVVEKCLEYGDTAERELLIEEILGQSEENDNLLY 669
            GK++ +SQHK+ASNVVEKC+ +   AER LLI+E+  Q++   + LY
Sbjct: 241 RGKVLALSQHKFASNVVEKCVTHASRAERALLIDEVCCQNDGPHSALY 288
>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
>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
>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
>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

No hit with probability above 80.00

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 688
d1m8za_339 a.118.1.8 (A:) Pumilio 1 {Human (Homo sapiens) [Ta 7e-88
d1m8za_339 a.118.1.8 (A:) Pumilio 1 {Human (Homo sapiens) [Ta 1e-43
d1m8za_339 a.118.1.8 (A:) Pumilio 1 {Human (Homo sapiens) [Ta 5e-31
>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 =  276 bits (707), Expect = 7e-88
 Identities = 155/286 (54%), Positives = 211/286 (73%), Gaps = 1/286 (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 KIVQMSQHKYASNVVEKCLEYGDTAERELLIEEILGQSEENDNLLY 669
            ++ +SQHK+ASNVVEKC+ +    ER +LI+E+   ++   + LY
Sbjct: 241 NVLVLSQHKFASNVVEKCVTHASRTERAVLIDEVCTMNDGPHSALY 286
>d1m8za_ a.118.1.8 (A:) Pumilio 1 {Human (Homo sapiens) [TaxId: 9606]} Length = 339 Back     information, alignment and structure
>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 ?
Query688
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=0  Score=414.35  Aligned_cols=303  Identities=52%  Similarity=0.884  Sum_probs=290.5

Q ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHC
Q ss_conf             44899983121012405999999999972199948999997311999999999999977377543385755488787202
Q 005600          384 KHSFLEELKSSNAQKFELSDIAGRIVEFSVDQHGSRFIQQKLEHCSAEEKVSVFKEVLPHASKLMTDVFGNYVIQKFFEH  463 (688)
Q Consensus       384 ~s~LLeel~s~~~r~~~L~~I~G~I~eLa~dq~GSRVIQklLe~~s~Eer~~If~EI~~~i~eLmtD~fGn~VIQKLLe~  463 (688)
                      |++|++||++++.++++|++++|+++++|+||+|||+||++|+.+++++++.||+|+.+++.+||+|+||||||||+|++
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
T ss_conf             74476886637889973999981899981495123999999801999999999999998799986083204069999964


Q ss_pred             CCHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHCHHHHHHHHHHHHHCHHHHHCCCCCCHHHHHHHHCCCHHHHHH
Q ss_conf             89999999999998509755405652399999986418899999999620015154216577524668650289457999
Q 005600          464 GSPDQRKELAEKLVGQVLPLSLQMYGCRVIQKALEVIELHQKSQLVLELDGHVMRCVRDQNGNHVIQKCIECVPAEKIEF  543 (688)
Q Consensus       464 gs~eq~~~Ii~~L~g~i~~Ls~h~yGSrVIQklLe~a~~eqk~~Li~EL~g~i~~L~kdq~GnhVIQklLe~~~~e~~~~  543 (688)
                      ++++++..|++.+.+++.+|+.|+|||+|+|++++.+..+++..++.||.+++..+++|.+|+||++++++..+++.+..
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
T ss_conf             88999999999988659998501233167886541388799999999974205777408775568999998469999999


Q ss_pred             HHHHHHHHHHHHHCCCCCHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHCCCHHHHHHHHHHHHH
Q ss_conf             99998865977405987318999998515977889999999999999997097846999999850993789999999999
Q 005600          544 IISAFRGQVATLSTHPYGCRVIQRVLEHCSDEQQGQCIVDEILESAFALAQDQYGNYVTQHVLERGKSYERTQILSKLAG  623 (688)
Q Consensus       544 II~~L~~~l~~Ls~hk~GS~VIQkiLe~~~~~~~r~~II~eIle~l~~La~DqyGNyVIQ~iLe~~~~keRk~IIk~Lkg  623 (688)
                      |++.+.+++.++++|++||+++|++|+.+. ++.+..+++++.+++..|++|++||||+|++|++++++.++.|++.|++
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
T ss_conf             999999889999827611199999886089-9899889999999999997176089999999972999999999999985


Q ss_pred             HHHHHHCCCCHHHHHHHHHHHCCHHHHHHHHHHHHCCCC-CCCHHHHC-CCCCHHHHHHHHHCCCC
Q ss_conf             999870496449999999982999999999999934987-86402230-28132699999411247
Q 005600          624 KIVQMSQHKYASNVVEKCLEYGDTAERELLIEEILGQSE-ENDNLLYY-KSRLAGSMLICLTSWTE  687 (688)
Q Consensus       624 ~l~eLs~~K~GS~VVEklL~~~~~~~Rk~Ii~ELlg~~~-~~~~L~~L-~DqyGnyVLq~LLsvte  687 (688)
                      ++.+++.+++||+|+|+|+++++++.++.++++++...+ .++.|..| .|+||||||+++|+..+
T Consensus       241 ~~~~l~~~k~gS~vve~~l~~~~~~~~~~~~~~l~~~~~~~~~~l~~L~~d~~gn~Viq~~l~~~~  306 (339)
T d1m8za_         241 NVLVLSQHKFASNVVEKCVTHASRTERAVLIDEVCTMNDGPHSALYTMMKDQYANYVVQKMIDVAE  306 (339)
T ss_dssp             CHHHHHTSTTHHHHHHHHHHHSCHHHHHHHHHHHHHCEETTEEHHHHHHTSTTHHHHHHHHHHHSC
T ss_pred             HHHHHHCCHHHHHHHHHHHHHCCHHHHHHHHHHHHHCCCCCHHHHHHHHCCCCCCHHHHHHHHHCC
T ss_conf             599997260579999999984899999999999974256754799998749960299999998599
>d1m8za_ a.118.1.8 (A:) Pumilio 1 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure