Citrus Sinensis ID: 008180

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-----
MNISEAPEANGSADVHVDPCVMDPQDIALISNNGPAAVSFSSSPCPDGTETSRNPRIDDTNSKNAGLEDVASVSAASQSDVSRAESRMRKKQEEQKYQGRIMMQQYPSAQQGFQYQVQGVQGQAVSLGMNNAHNAGTYMPSGNPFYPSFQPSGAGVYPSQYNVGGYALNSALFPPFVAGYPSQGPVPMPFDATSGSSFNIRTTSVSTGEGIPHIGSTQHQKFYGHQGLMLQSPFVDPLHMQYFQHPFGDAYNASVQHRLASSGVNGALADPSSKKEPIVAAYMGDQNLQSSLNGGPSISNPRKVGMPVGGYYGGLPGMGVMGQFPTSPIASPVLPSSPVGSTSQLGLRHEMRLPQGLNRNTGIYSGWQGQRTFEGQRTFEDSKKHSFLEELKSSNAQKFELSDIAGRIVEFSVDQHGSRFIQQKLEHCSAEEKVSVFKEVLPHASKLMTDVFGNYVIQKFFEHGSPDQRKELAEKLVGQVLPLSLQMYGCRVIQKALEVIELHQKSQLVLELDGHVMRCVRDQNGNHVIQKCIECVPAEKIEFIISAFRGQVATLSTHPYGCRVIQPHNNASGFQ
cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHccccccccccHHHHHHHHHHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHcccccccHHHHcHHHHHHcccccccHHHHHHHHcccHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHccccHHHHHHHHHHHHHcHHHHcccccHHHHHHHHHHHccHHHHHHHHHHHHHcHHHHcccccccHHHHHHHHccccHHHHHHHHHHHHcHHHHccccHHHHHHHHHHHHcccc
ccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHcccccccccccccccccccccccccccccccccccccccccccccccccccccccHcccccccccccccccccHHHHcccHHccHHHccccccccHHHHHccccccccccEHHHHHHHHccccccccHHHHcccHHHHHccHHHHHHHHHHHHHccHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHccHHHHHHHHHHHcccHHHHHccccHHHHHHHHHHHccHHHHHHHHHcccccHHHHHHcccHHHHHHHHHHHccHHHHHHHHHHccccHHHHHccccHHHHHHHHHcccccc
mniseapeangsadvhvdpcvmdpqdialisnngpaavsfssspcpdgtetsrnpriddtnsknagledvasvsaasqsdVSRAESRMRKKQEEQKYQGRImmqqypsaqqgfQYQVQGVQGqavslgmnnahnagtympsgnpfypsfqpsgagvypsqynvggyalnsalfppfvagypsqgpvpmpfdatsgssfnirttsvstgegiphigstqhqkfyghqglmlqspfvdplhmqyfqhpfgdayNASVQHRLAssgvngaladpsskkepivaaymgdqnlqsslnggpsisnprkvgmpvggyygglpgmgvmgqfptspiaspvlpsspvgstsqlglrhemrlpqglnrntgiysgwqgqrtfegqrtfedskkHSFLEELkssnaqkfelsdiagrIVEFSVDQHGSRFIQQKLEHCSAEEKVSVFKEVLPHASKLMTDVFGNYVIQKFFEHGSPDQRKELAEKLVGQVLPLSLQMYGCRVIQKALEVIELHQKSQLVLELDGHVMrcvrdqngnhVIQKCIECVPAEKIEFIISAFRGQVAtlsthpygcrviqphnnasgfq
mniseapeangsadvhvDPCVMDPQDIALISNNGPAAvsfssspcpdgtetsrnpriddtnsknagledvasvsaasqsdvsraesrmrKKQEEQKYQGRIMMQQYPSAQQGFQYQVQGVQGQAVSLGMNNAHNAGTYMPSGNPFYPSFQPSGAGVYPSQYNVGGYALNSALFPPFVAGYPSQGPVPMPFDATSGSSFNIRTTSVSTGEGIPHIGSTQHQKFYGHQGLMLQSPFVDPLHMQYFQHPFGDAYNASVQHRLASSGVNGALADPSSKKEPIVAAYMGDQNLQSSLNGGPSISNPRKVGMPVGGYYGGLPGMGVMGQFPTSPIASPVLPSSPVGSTSQLGLRHEMRLPQGLNRNTGIYSGWQGQRTFEGQRTFEDSKKHSFLEelkssnaqkfELSDIAGRIVEFSVDQHGSRFIQQKLEHCSAEEKVSVFKEVLPHASKLMTDVFGNYVIQKFFEHGSPDQRKELAEKLVGQVLPLSLQMYGCRVIQKALEVIELHQKSQLVLELDGHVMRCVRDQNGNHVIQKCIECVPAEKIEFIISAFRGQVATLSTHPYGCRVIQPHNNASGFQ
MNISEAPEANGSADVHVDPCVMDPQDIALISNNGPAAVSFSSSPCPDGTETSRNPRIDDTNSKNAGLEdvasvsaasqsdvsRAESRMRKKQEEQKYQGRIMMQQYPSAqqgfqyqvqgvqgqavSLGMNNAHNAGTYMPSGNPFYPSFQPSGAGVYPSQYNVGGYALNSALFPPFVAGYPSQGPVPMPFDATSGSSFNIRTTSVSTGEGIPHIGSTQHQKFYGHQGLMLQSPFVDPLHMQYFQHPFGDAYNASVQHRLASSGVNGALADPSSKKEPIVAAYMGDQNLQSSLNGGPSISNPRKvgmpvggyygglpgmgvmgQFPTSPIASPVLPSSPVGSTSQLGLRHEMRLPQGLNRNTGIYSGWQGQRTFEGQRTFEDSKKHSFLEELKSSNAQKFELSDIAGRIVEFSVDQHGSRFIQQKLEHCSAEEKVSVFKEVLPHASKLMTDVFGNYVIQKFFEHGSPDQRKELAEKLVGQVLPLSLQMYGCRVIQKALEVIELHQKSQLVLELDGHVMRCVRDQNGNHVIQKCIECVPAEKIEFIISAFRGQVATLSTHPYGCRVIQPHNNASGFQ
****************************************************************************************************************FQYQVQGVQGQAVSLG*********Y*****PFYPSFQPSGAGVYPSQYNVGGYALNSALFPPFVAGYP*****************************IPHIGSTQHQKFYGHQGLMLQSPFVDPLHMQYFQHPFGDAYNASVQH************************************************MPVGGYYGGLPGMGVMG**************************************TGIYSGWQ*******************************ELSDIAGRIVEFSVDQHGSRFIQQKLEHCSAEEKVSVFKEVLPHASKLMTDVFGNYVIQKFFEHG******ELAEKLVGQVLPLSLQMYGCRVIQKALEVIELHQKSQLVLELDGHVMRCVRDQNGNHVIQKCIECVPAEKIEFIISAFRGQVATLSTHPYGCRVIQ*********
*******************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************KSSNAQKFELSDIAGRIVEFSVDQHGSRFIQQKLEHCSAEEKVSVFKEVLPHASKLMTDVFGNYVIQKFFEHGSPDQRKELAEKLVGQVLPLSLQMYGCRVIQKALEVIELHQKSQLVLELDGHVMRCVRDQNGNHVIQKCIECVPAEKIEFIISAFRGQVATLSTHPYGCRVIQPHNNAS***
************ADVHVDPCVMDPQDIALISNNGPA*****************NPRIDDTNSKNAGLEDV***************************QGRIMMQQYPSAQQGFQYQVQGVQGQAVSLGMNNAHNAGTYMPSGNPFYPSFQPSGAGVYPSQYNVGGYALNSALFPPFVAGYPSQGPVPMPFDATSGSSFNIRTTSVSTGEGIPHIGSTQHQKFYGHQGLMLQSPFVDPLHMQYFQHPFGDAYNASVQHRLASSGVNGALADPSSKKEPIVAAYMGDQNLQSSLNGGPSISNPRKVGMPVGGYYGGLPGMGVMGQFPTSPIASPVLPSSPVGSTSQLGLRHEMRLPQGLNRNTGIYSGWQGQRTFEGQRTFEDSKKHSFLEELKSSNAQKFELSDIAGRIVEFSVDQHGSRFIQQKLEHCSAEEKVSVFKEVLPHASKLMTDVFGNYVIQKFFEHGSPDQRKELAEKLVGQVLPLSLQMYGCRVIQKALEVIELHQKSQLVLELDGHVMRCVRDQNGNHVIQKCIECVPAEKIEFIISAFRGQVATLSTHPYGCRVIQPHNNASGFQ
**********************************************************************************************************************************NAHNAGTYMPSGNPFYPSFQPSGAGVYPSQYNVGGYALNSALFPPFVAGYPSQGPVPMPFDATSGSSFNI**TSVSTGEGIPHIGSTQHQKFYGHQGLMLQSPFVDPLHMQYFQHPFG*********RLASSGVNGALADPSSKKEPIVAAYMGDQNLQSSLNGGPSISNPRKVGMPVGGYYGGLPGMGVMGQFPTSPIASPVLPSSPVGSTSQLGLRHEMRLPQGLNRNTGIYSGWQGQRTFEGQRTFEDSKKHSFLEELKSSNAQKFELSDIAGRIVEFSVDQHGSRFIQQKLEHCSAEEKVSVFKEVLPHASKLMTDVFGNYVIQKFFEHGSPDQRKELAEKLVGQVLPLSLQMYGCRVIQKALEVIELHQKSQLVLELDGHVMRCVRDQNGNHVIQKCIECVPAEKIEFIISAFRGQVATLSTHPYGCRVIQPHNNA****
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MNISEAPEANGSADVHVDPCVMDPQDIALISNNGPAAVSFSSSPCPDGTETSRNPRIDDTNSKNAGLEDVASVSAASQSDVSRAESRMRKKQEEQKYQGRIMMQQYPSAQQGFQYQVQGVQGQAVSLGMNNAHNAGTYMPSGNPFYPSFQPSGAGVYPSQYNVGGYALNSALFPPFVAGYPSQGPVPMPFDATSGSSFNIRTTSVSTGEGIPHIGSTQHQKFYGHQGLMLQSPFVDPLHMQYFQHPFGDAYNASVQHRLASSGVNGALADPSSKKEPIVAAYMGDQNLQSSLNGGPSISNPRKVGMPVGGYYGGLPGMGVMGQFPTSPIASPVLPSSPVGSTSQLGLRHEMRLPQGLNRNTGIYSGWQGQRTFEGQRTFEDSKKHSFLEELKSSNAQKFELSDIAGRIVEFSVDQHGSRFIQQKLEHCSAEEKVSVFKEVLPHASKLMTDVFGNYVIQKFFEHGSPDQRKELAEKLVGQVLPLSLQMYGCRVIQKALEVIELHQKSQLVLELDGHVMRCVRDQNGNHVIQKCIECVPAEKIEFIISAFRGQVATLSTHPYGCRVIQPHNNASGFQ
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 ?
Query575 2.2.26 [Sep-21-2011]
Q9LJX4 961 Pumilio homolog 5 OS=Arab yes no 0.817 0.489 0.489 1e-124
Q9C5E7 861 Pumilio homolog 6, chloro no no 0.624 0.416 0.481 5e-91
Q9ZW02 964 Pumilio homolog 3 OS=Arab no no 0.726 0.433 0.434 2e-84
Q9ZW07 968 Pumilio homolog 1 OS=Arab no no 0.655 0.389 0.458 1e-83
Q9ZW06 972 Pumilio homolog 2 OS=Arab no no 0.540 0.319 0.507 4e-82
Q9SS47 1003 Pumilio homolog 4 OS=Arab no no 0.368 0.211 0.601 6e-71
P25822 1533 Maternal protein pumilio yes no 0.311 0.116 0.622 9e-65
Q80U58 1066 Pumilio homolog 2 OS=Mus yes no 0.321 0.173 0.625 2e-64
Q8TB72 1066 Pumilio homolog 2 OS=Homo yes no 0.321 0.173 0.625 2e-64
Q14671 1186 Pumilio homolog 1 OS=Homo no no 0.32 0.155 0.610 3e-63
>sp|Q9LJX4|PUM5_ARATH Pumilio homolog 5 OS=Arabidopsis thaliana GN=APUM5 PE=1 SV=2 Back     alignment and function desciption
 Score =  444 bits (1142), Expect = e-124,   Method: Compositional matrix adjust.
 Identities = 272/556 (48%), Positives = 338/556 (60%), Gaps = 86/556 (15%)

Query: 54  NPRIDDTNSKNAGLEDVASVSAASQSDVSRAESRMRKKQEEQKYQGRIMMQQY-PSAQQG 112
           N + +  N++ A  ED  ++S    S  S   SRMR+ QE+Q+ QGR M  QY PS+   
Sbjct: 279 NAQTERLNARQASHED-NNLSVFGASPPSSVASRMRRNQEDQQSQGRRMPPQYTPSS--- 334

Query: 113 FQYQVQGVQGQAVS----------------LGMNNAHNA----------------GTYMP 140
             YQVQ    Q +S                +     H+                   YM 
Sbjct: 335 --YQVQASSPQQMSYPRIGGTQDMMQSLPKIATGEVHSTFQSPHGLAPPPMYTSTAAYMT 392

Query: 141 SGNPFY-PSFQPSGAGVYPSQYNVGGYALNSALFPPFVAGYPS-QGPVPMPFDATSGSS- 197
           S +PFY  +FQ SG  ++  QYN GGY   S + P +++GYPS +  VPMP+D +S SS 
Sbjct: 393 SLSPFYHQNFQSSG--MFVPQYNYGGYPPASGIVPQYMSGYPSHEATVPMPYDISSTSSG 450

Query: 198 FN---IRTTSVSTGEGIPHIGSTQHQKFYGHQGLMLQSPFVDPLHMQYFQHPFGDAYNAS 254
           +N   +     S+G+ IP +                    VDP  +QYFQ    DAY   
Sbjct: 451 YNNPRLLPGVSSSGQNIPSL--------------------VDPFQLQYFQQAQVDAYAPP 490

Query: 255 VQHRLASSGVNGALADPSSKKEPIVAAYMGDQN-LQSSLNGGPSISNPRKVGMPVGGYYG 313
            Q    S G          +K+     YM +   L S L+ G  + +PR +G     Y+ 
Sbjct: 491 FQSSTDSFG----------QKDQQAVGYMANHEPLNSPLSPGYGLQSPRHMG----NYFA 536

Query: 314 GLPGMGVMGQFPTSPIASPVLPSSPVGST-SQLGLRHEMRL-PQGLNRNTGIY-SGWQGQ 370
             PG+ VM Q+P SP+ASPV+PSSPVG   S  G R E R   QG +RNTGIY  GWQG 
Sbjct: 537 VPPGVRVMPQYPGSPLASPVMPSSPVGGMMSHFGRRSETRYHQQGPSRNTGIYPGGWQGN 596

Query: 371 RTFEGQRTFEDSKKHSFLEELKSSNAQKFELSDIAGRIVEFSVDQHGSRFIQQKLEHCSA 430
           R        +D K+HSFL+ELKS NA+K ELSDIAGR+VEFSVDQHGSRFIQQKLEHCS 
Sbjct: 597 RG-GASSIVDDLKRHSFLDELKSPNARKLELSDIAGRVVEFSVDQHGSRFIQQKLEHCSD 655

Query: 431 EEKVSVFKEVLPHASKLMTDVFGNYVIQKFFEHGSPDQRKELAEKLVGQVLPLSLQMYGC 490
           EEK SVF EVLP ASKLMTDVFGNYVIQKF EHG+P QR+EL ++L GQ++ LSLQMYGC
Sbjct: 656 EEKASVFSEVLPQASKLMTDVFGNYVIQKFIEHGTPAQREELVKQLAGQMVSLSLQMYGC 715

Query: 491 RVIQKALEVIELHQKSQLVLELDGHVMRCVRDQNGNHVIQKCIECVPAEKIEFIISAFRG 550
           RVIQKALEVI++ QK++L+ ELDG+V++CVRDQNGNHVIQKCIE +PA +I F+I+AFRG
Sbjct: 716 RVIQKALEVIDVDQKTELIRELDGNVLKCVRDQNGNHVIQKCIESMPAGRIGFVIAAFRG 775

Query: 551 QVATLSTHPYGCRVIQ 566
           QVATLSTHPYGCRVIQ
Sbjct: 776 QVATLSTHPYGCRVIQ 791
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|P25822|PUM_DROME Maternal protein pumilio OS=Drosophila melanogaster GN=pum 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|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 ?
Query575
225443381 1053 PREDICTED: pumilio homolog 5 [Vitis vini 0.966 0.528 0.574 0.0
255544506 1004 pumilio, putative [Ricinus communis] gi| 0.966 0.553 0.580 0.0
8071634 966 pumilio domain-containing protein PPD1 [ 0.937 0.557 0.552 1e-162
225463345 1017 PREDICTED: pumilio homolog 5 [Vitis vini 0.918 0.519 0.529 1e-157
449453445 1031 PREDICTED: pumilio homolog 5-like [Cucum 0.956 0.533 0.529 1e-153
449500099 1031 PREDICTED: pumilio homolog 5-like [Cucum 0.956 0.533 0.529 1e-153
356530316 985 PREDICTED: pumilio homolog 5-like [Glyci 0.735 0.429 0.573 1e-129
357449403 984 Pumilio-like protein [Medicago truncatul 0.855 0.5 0.492 1e-125
356558296 982 PREDICTED: pumilio homolog 5-like [Glyci 0.735 0.430 0.551 1e-124
356550736 952 PREDICTED: LOW QUALITY PROTEIN: pumilio 0.721 0.435 0.556 1e-123
>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 =  657 bits (1695), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 354/616 (57%), Positives = 416/616 (67%), Gaps = 60/616 (9%)

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 QVATLSTHPYGCRVIQ 566
           QV  LS+HPYGCRVIQ
Sbjct: 845 QVTVLSSHPYGCRVIQ 860

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|356550736|ref|XP_003543740.1| PREDICTED: LOW QUALITY PROTEIN: pumilio homolog 6, chloroplastic-like [Glycine max] Back     alignment and taxonomy information

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST ?

Original result of BLAST against Gene Ontology (AMIGO)

ID ? Alignment graph ? Length ? Definition ? Q cover ? H cover ? Identity ? E-value ?
Query575
TAIR|locus:2087560 961 PUM5 "pumilio 5" [Arabidopsis 0.866 0.518 0.451 1.5e-97
TAIR|locus:2117552 861 PUM6 "pumilio 6" [Arabidopsis 0.347 0.232 0.694 1.7e-84
TAIR|locus:2043187 972 PUM2 "pumilio 2" [Arabidopsis 0.412 0.243 0.612 3.9e-79
TAIR|locus:2043182 968 PUM1 "pumilio 1" [Arabidopsis 0.509 0.302 0.536 3.2e-75
TAIR|locus:2043047 964 PUM3 "pumilio 3" [Arabidopsis 0.690 0.411 0.435 3.1e-74
TAIR|locus:2076324 1003 PUM4 "pumilio 4" [Arabidopsis 0.368 0.211 0.601 2.7e-63
RGD|1307190 944 Pum1 "pumilio homolog 1 (Droso 0.321 0.195 0.616 1.4e-62
FB|FBgn0003165 1533 pum "pumilio" [Drosophila mela 0.311 0.116 0.636 7.3e-62
ZFIN|ZDB-GENE-081031-76 1206 pum2 "pumilio homolog 2 (Droso 0.321 0.153 0.620 8.4e-62
UNIPROTKB|B4E2B6 1008 PUM2 "Pumilio homolog 2" [Homo 0.321 0.183 0.632 1.1e-61
TAIR|locus:2087560 PUM5 "pumilio 5" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 969 (346.2 bits), Expect = 1.5e-97, P = 1.5e-97
 Identities = 243/538 (45%), Positives = 301/538 (55%)

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 VLELDGHVMRCVRDQNGNHVIQKCIECVPAEKIEFIISAFRGQVATLSTHPYGCRVIQ 566
             + ELDG+V++CVRDQNGNHVIQKCIE +PA +I F+I+AFRGQVATLSTHPYGCRVIQ
Sbjct:   734 IRELDGNVLKCVRDQNGNHVIQKCIESMPAGRIGFVIAAFRGQVATLSTHPYGCRVIQ 791
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
RGD|1307190 Pum1 "pumilio homolog 1 (Drosophila)" [Rattus norvegicus (taxid:10116)] Back     alignment and assigned GO terms
FB|FBgn0003165 pum "pumilio" [Drosophila melanogaster (taxid:7227)] Back     alignment and assigned GO terms
ZFIN|ZDB-GENE-081031-76 pum2 "pumilio homolog 2 (Drosophila)" [Danio rerio (taxid:7955)] Back     alignment and assigned GO terms
UNIPROTKB|B4E2B6 PUM2 "Pumilio homolog 2" [Homo sapiens (taxid:9606)] 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

No confident hit for EC number transfering in SWISSPROT detected by BLAST

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 ?
Query575
cd07920 322 cd07920, Pumilio, Pumilio-family RNA binding domai 2e-88
cd07920322 cd07920, Pumilio, Pumilio-family RNA binding domai 1e-49
COG5099 777 COG5099, COG5099, RNA-binding protein of the Puf f 5e-44
cd07920 322 cd07920, Pumilio, Pumilio-family RNA binding domai 4e-34
cd07920322 cd07920, Pumilio, Pumilio-family RNA binding domai 3e-32
cd07920322 cd07920, Pumilio, Pumilio-family RNA binding domai 1e-24
COG5099777 COG5099, COG5099, RNA-binding protein of the Puf f 3e-16
pfam07990365 pfam07990, NABP, Nucleic acid binding protein NABP 2e-15
COG5099777 COG5099, COG5099, RNA-binding protein of the Puf f 3e-15
smart0002536 smart00025, Pumilio, Pumilio-like repeats 3e-08
smart0002536 smart00025, Pumilio, Pumilio-like repeats 2e-07
pfam0080634 pfam00806, PUF, Pumilio-family RNA binding repeat 4e-07
smart0002536 smart00025, Pumilio, Pumilio-like repeats 5e-05
pfam0080634 pfam00806, PUF, Pumilio-family RNA binding repeat 5e-05
pfam0080634 pfam00806, PUF, Pumilio-family RNA binding repeat 6e-05
smart0002536 smart00025, Pumilio, Pumilio-like repeats 2e-04
pfam0080634 pfam00806, PUF, Pumilio-family RNA binding repeat 0.002
>gnl|CDD|153420 cd07920, Pumilio, Pumilio-family RNA binding domain Back     alignment and domain information 
 Score =  276 bits (707), Expect = 2e-88
 Identities = 108/170 (63%), Positives = 125/170 (73%), Gaps = 1/170 (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 MRCVRDQNGNHVIQKCIECVPAEKIEFIISAFRGQVATLSTHPYGCRVIQ 566
           +  V+DQNGNHVIQKCIE  P E ++FII AF+G    LSTHPYGCRVIQ
Sbjct: 121 VELVKDQNGNHVIQKCIEKFPPEDLQFIIDAFKGNCVALSTHPYGCRVIQ 170

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|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|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|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|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|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

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 575
PF07990385 NABP: Nucleic acid binding protein NABP; InterPro: 100.0
KOG1488 503 consensus Translational repressor Pumilio/PUF3 and 100.0
cd07920322 Pumilio Pumilio-family RNA binding domain. Puf rep 100.0
KOG1488503 consensus Translational repressor Pumilio/PUF3 and 100.0
cd07920 322 Pumilio Pumilio-family RNA binding domain. Puf rep 100.0
KOG2050 652 consensus Puf family RNA-binding protein [Translat 99.97
COG5099 777 RNA-binding protein of the Puf family, translation 99.96
COG5099777 RNA-binding protein of the Puf family, translation 99.95
KOG2049536 consensus Translational repressor MPT5/PUF4 and re 99.93
KOG2049 536 consensus Translational repressor MPT5/PUF4 and re 99.91
KOG2050 652 consensus Puf family RNA-binding protein [Translat 99.68
KOG2188650 consensus Predicted RNA-binding protein, contains 99.55
KOG2188650 consensus Predicted RNA-binding protein, contains 99.42
KOG4574 1007 consensus RNA-binding protein (contains RRM and Pu 99.0
KOG4574 1007 consensus RNA-binding protein (contains RRM and Pu 98.92
PF0080635 PUF: Pumilio-family RNA binding repeat; InterPro: 98.35
smart0002536 Pumilio Pumilio-like repeats. Pumilio-like repeats 97.98
PF0080635 PUF: Pumilio-family RNA binding repeat; InterPro: 97.98
smart0002536 Pumilio Pumilio-like repeats. Pumilio-like repeats 97.71
PF08144148 CPL: CPL (NUC119) domain; InterPro: IPR012959 This 84.04
PRK05686339 fliG flagellar motor switch protein G; Validated 81.76
PF09770808 PAT1: Topoisomerase II-associated protein PAT1; In 81.0
>PF07990 NABP: Nucleic acid binding protein NABP; InterPro: IPR012940 This domain occurs in some putative nucleic acid binding proteins Back     alignment and domain information 
Probab=100.00  E-value=4.9e-53  Score=441.76  Aligned_cols=234  Identities=36%  Similarity=0.571  Sum_probs=214.6

Q ss_pred             CCCCCCCCCCCCCCCCCCCCcccCCCCCCCCcccCCCCCCCCCCCCCC-CCCCC---CCCCccccCCCCCCCCC-----C
Q 008180          145 FYPSFQPSGAGVYPSQYNVGGYALNSALFPPFVAGYPSQGPVPMPFDA-TSGSS---FNIRTTSVSTGEGIPHI-----G  215 (575)
Q Consensus       145 ~~~~~~~~~~~~~~~~~~~~~y~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~---~~~~~~~~~~~~~~~~~-----~  215 (575)
                      -||+++.       +++-++||++|++. |+||++++++|++|++||+ +++++   ++++|  |++|+++.++     +
T Consensus       135 ~~q~~~~-------~n~~~~gy~~n~~~-~s~~~~~~~~gn~p~~fd~~~~~s~~~~~~~~s--~~~g~~~~s~~~~~~~  204 (385)
T PF07990_consen  135 PYQNSDN-------PNSSFGGYALNPAL-PSMMASQLNNGNIPPLFDNSAAASALASPGMDS--RSLGGGLDSGGNQGAS  204 (385)
T ss_pred             cccCCCc-------ccccccccccCccc-hhhhhccccCCCCCccccccccchhhccCCCcc--cccCCccccccccccc
Confidence            4777777       34444999999998 9999999999999999999 55555   78888  9999999987     6


Q ss_pred             Ccccc-hhcCCC-CCCCCCCCCCchhhhhccCCcccccccc-ccCCCCCCCCC-CCCCCCCCCchhhHhhhhhhhccccc
Q 008180          216 STQHQ-KFYGHQ-GLMLQSPFVDPLHMQYFQHPFGDAYNAS-VQHRLASSGVN-GALADPSSKKEPIVAAYMGDQNLQSS  291 (575)
Q Consensus       216 ~~~~~-~~~~~~-~~~~~~~~~d~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~q~~q~~  291 (575)
                      |+||+ |+|||+ |.++|+||+||+|+||||++++++++.+ +.||+++|+++ ++++|+++.||+||++||++||+||+
T Consensus       205 d~~~l~r~gnq~~g~~lq~~~~DP~Y~Qylq~~~~aa~~~a~~~dP~~~R~~~G~s~~dl~~~qKayl~~lL~~QK~Qy~  284 (385)
T PF07990_consen  205 DGQNLNRFGNQVAGSALQSPFVDPLYLQYLQAPEYAAQQAAAQNDPSVDRNYMGSSYMDLLGLQKAYLEALLAQQKSQYG  284 (385)
T ss_pred             chhhhhhhcccccCcccCCCCCCchHHHHhccccchhhhhhccCCcccccCCcCccccchHHHHHHHHHHHHHHHHHhhC
Confidence            99999 999998 9999999999999999999999988888 99999999999 99999999999999999999999999


Q ss_pred             CCCCCCCCCCCCCCCCCCCcccCCCCCCcCCCCCCCCCCCCCCCCCCCCCCccccccc---cCCCCCCCCCCCC-CCCCc
Q 008180          292 LNGGPSISNPRKVGMPVGGYYGGLPGMGVMGQFPTSPIASPVLPSSPVGSTSQLGLRH---EMRLPQGLNRNTG-IYSGW  367 (575)
Q Consensus       292 ~~~~~~~~~~~~~~~~~~~y~g~~p~~g~~~~y~~~~~~~p~~~~~~~~~~~~~~~~~---~~~~~s~~r~~~g-~~~~W  367 (575)
                      +   |+    .|+|..+++||| +|.||++|+|||+||++|++|++|+|+++  |+|+   ++||++++|+.+| .+++|
T Consensus       285 ~---P~----~~~~~~n~~y~g-np~~G~gm~Y~gsplaspvlPsspvG~gs--p~r~~er~~R~~s~mRn~~GG~~GsW  354 (385)
T PF07990_consen  285 V---PL----KKSGSMNHGYYG-NPSYGLGMPYPGSPLASPVLPSSPVGPGS--PLRHNERNMRFPSGMRNSSGGSMGSW  354 (385)
T ss_pred             C---cc----ccCCCCCCCCCC-CCCccccCCCCCCCCcCCCCCCCCCCCCC--CCcCCccccccCcccccccccccccc
Confidence            8   76    899999999999 89999999999999999999999999997  6665   6999999999855 99999


Q ss_pred             ccccccCCCcccCchHHHHHHHHHhcchhhHhHHH
Q 008180          368 QGQRTFEGQRTFEDSKKHSFLEELKSSNAQKFELS  402 (575)
Q Consensus       368 e~~r~~~~~k~~~d~~rskLLeeL~s~e~rk~iLs  402 (575)
                      +.++..+    +++.+.+.|||||+++|+|+|+|+
T Consensus       355 ~~d~g~~----~d~~~~sSlLEEFKsNKtr~FELS  385 (385)
T PF07990_consen  355 HSDAGGN----MDENFASSLLEEFKSNKTRSFELS  385 (385)
T ss_pred             ccccccc----ccccchhHHHHHHhcCCccceecC
Confidence            9999877    899999999999999999999873

One of these proteins has been partially characterised [] and contains two putative phosphorylation sites and a possible dimerisation / leucine zipper domain.
>KOG1488 consensus Translational repressor Pumilio/PUF3 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
>cd07920 Pumilio Pumilio-family RNA binding domain 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
>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
>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
>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
>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
>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
>PRK05686 fliG flagellar motor switch protein G; Validated Back     alignment and domain information
>PF09770 PAT1: Topoisomerase II-associated protein PAT1; InterPro: IPR019167 Proteins in this entry are necessary for accurate chromosome transmission during cell division [] 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 ?
Query575
3gvo_A 351 Structure And Rna Binding Of The Mouse Pumilio-2 Pu 7e-65
3h3d_X 323 Drosophila Pumilio Rna Binding Domain (Puf Domain) 1e-63
3q0q_A 351 Crystal Structure Of The Pumilio-Homology Domain Fr 2e-63
1ib2_A 349 Crystal Structure Of A Pumilio-Homology Domain Leng 4e-62
3bsb_A 343 Crystal Structure Of Human Pumilio1 In Complex With 4e-62
2yjy_A 350 A Specific And Modular Binding Code For Cytosine Re 4e-62
3k49_A 369 Puf3 Rna Binding Domain Bound To Cox17 Rna 3' Utr R 9e-49
3bx3_A 335 Puf4 T650cC724R MUTANT BOUND TO COX17 RNA 3' UTR Re 6e-27
4dzs_A 357 Crystal Structure Of Yeast Puf4p Rna Binding Domain 5e-25
3bx2_A 335 Puf4 Rna Binding Domain Bound To Ho Endonuclease Rn 1e-24
3bwt_A 333 Crystal Structure Of The Rna Binding Domain Of Puf4 1e-24
3qg9_A 413 Crystal Structure Of Fbf-2GLD-1 Fbea A7u Mutant Com 3e-18
3k5q_A 412 Crystal Structure Of Fbf-2FBE COMPLEX Length = 412 3e-18
3qgb_A 413 Crystal Structure Of Fbf-2 R288y Mutant In Complex 2e-17
3v71_A 382 Crystal Structure Of Puf-6 In Complex With 5be13 Rn 1e-10
>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 =  244 bits (624), Expect = 7e-65,   Method: Compositional matrix adjust.
 Identities = 116/180 (64%), Positives = 141/180 (78%)
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
>pdb|3H3D|X Chain X, Drosophila Pumilio Rna Binding Domain (Puf Domain) Length = 323 Back     alignment and structure
>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|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|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 ?
Query575
3gvo_A 351 Pumilio 2, pumilio homolog 2; RNA-binding, PUF dom 8e-93
3gvo_A351 Pumilio 2, pumilio homolog 2; RNA-binding, PUF dom 1e-47
3gvo_A351 Pumilio 2, pumilio homolog 2; RNA-binding, PUF dom 3e-47
3gvo_A351 Pumilio 2, pumilio homolog 2; RNA-binding, PUF dom 8e-30
3gvo_A351 Pumilio 2, pumilio homolog 2; RNA-binding, PUF dom 2e-24
3k49_A 369 MRNA-binding protein PUF3; PUF3, pumilio, RNA bind 3e-90
3k49_A369 MRNA-binding protein PUF3; PUF3, pumilio, RNA bind 7e-45
3k49_A369 MRNA-binding protein PUF3; PUF3, pumilio, RNA bind 6e-43
3k49_A 369 MRNA-binding protein PUF3; PUF3, pumilio, RNA bind 2e-37
3k49_A369 MRNA-binding protein PUF3; PUF3, pumilio, RNA bind 6e-18
3k49_A369 MRNA-binding protein PUF3; PUF3, pumilio, RNA bind 2e-17
3k49_A369 MRNA-binding protein PUF3; PUF3, pumilio, RNA bind 2e-05
3bwt_A 333 Protein PUF4; pumilio, RNA binding, HO endonucleas 2e-80
3bwt_A333 Protein PUF4; pumilio, RNA binding, HO endonucleas 2e-44
3bwt_A333 Protein PUF4; pumilio, RNA binding, HO endonucleas 4e-36
3bwt_A333 Protein PUF4; pumilio, RNA binding, HO endonucleas 1e-13
3bwt_A 333 Protein PUF4; pumilio, RNA binding, HO endonucleas 6e-09
3v71_A 382 PUF (pumilio/FBF) domain-containing protein 7, CO 6e-67
3v71_A382 PUF (pumilio/FBF) domain-containing protein 7, CO 1e-29
3v71_A382 PUF (pumilio/FBF) domain-containing protein 7, CO 3e-18
3v71_A382 PUF (pumilio/FBF) domain-containing protein 7, CO 3e-15
3k62_A 412 FEM-3 mRNA-binding factor 2; FBF, FEM-3 binding fa 2e-63
3k62_A412 FEM-3 mRNA-binding factor 2; FBF, FEM-3 binding fa 3e-29
3k62_A412 FEM-3 mRNA-binding factor 2; FBF, FEM-3 binding fa 7e-15
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 1e-04
1m2v_B 926 SEC24, protein transport protein SEC24, SEC24P, SE 5e-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 =  287 bits (737), Expect = 8e-93
 Identities = 116/185 (62%), Positives = 143/185 (77%)

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 CRVIQ 566
           CRVIQ
Sbjct: 182 CRVIQ 186
>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
>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
>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
>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
>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
>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
>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

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query575
3gvo_A 351 Pumilio 2, pumilio homolog 2; RNA-binding, PUF dom 100.0
3k49_A 369 MRNA-binding protein PUF3; PUF3, pumilio, RNA bind 100.0
3k62_A 412 FEM-3 mRNA-binding factor 2; FBF, FEM-3 binding fa 100.0
3gvo_A351 Pumilio 2, pumilio homolog 2; RNA-binding, PUF dom 100.0
3bwt_A 333 Protein PUF4; pumilio, RNA binding, HO endonucleas 100.0
3v71_A 382 PUF (pumilio/FBF) domain-containing protein 7, CO 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
3k62_A 412 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
>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=7.1e-40  Score=338.66  Aligned_cols=191  Identities=61%  Similarity=0.999  Sum_probs=186.6

Q ss_pred             HHHHHHHHHhcchhhHhHHHHHHHHHHHHhhCccccHHHHHHhhcCCHHHHHHHHHHHhhhHHHhhcCccccHHHHHHhh
Q 008180          383 KKHSFLEELKSSNAQKFELSDIAGRIVEFSVDQHGSRFIQQKLEHCSAEEKVSVFKEVLPHASKLMTDVFGNYVIQKFFE  462 (575)
Q Consensus       383 ~rskLLeeL~s~e~rk~iLs~IkG~VveLA~Dq~GSRVLQkLLe~~s~Eer~~If~ELkp~iveLmtD~yGNyVVQKLfE  462 (575)
                      -|+.++|+|.+++.++++|++++|+++++|+||+|||+||++|+.+++++++.||+|+.+++.+||+|+||||||||+|+
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            36789999999988899999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cCCHHHHHHHHHHhhcChhhhccCcchhHHHHHHHHhcCHHHHHHHHHHHHHHHHHhhcCCchhHHHHHHHHhCChhhHH
Q 008180          463 HGSPDQRKELAEKLVGQVLPLSLQMYGCRVIQKALEVIELHQKSQLVLELDGHVMRCVRDQNGNHVIQKCIECVPAEKIE  542 (575)
Q Consensus       463 ~gs~Eqr~~II~~L~g~I~~Ls~hkyGSrVVQKlLE~~s~eqr~~II~EL~g~l~~LvkDq~GNyVIQK~Le~~~~k~rk  542 (575)
                      +++++++..|++.+.+++.+|+.|+|||||||++|+.++.+++..|++||.+++..|++|++||||||+||++++++.++
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             HHHHHHHHHHHHHhcCcchHHHHHHHHhhcC
Q 008180          543 FIISAFRGQVATLSTHPYGCRVIQPHNNASG  573 (575)
Q Consensus       543 ~IIk~L~~~iveLSthkyGs~VVQK~Le~~d  573 (575)
                      +|++.|.+++.+|++|+|||+|||+||+++.
T Consensus       163 ~i~~~~~~~~~~ls~~~~G~~Vvq~~le~~~  193 (351)
T 3gvo_A          163 FIIDAFKGQVFVLSTHPYGCRVIQRILEHCT  193 (351)
T ss_dssp             HHHHHTTTTHHHHHTSTTHHHHHHHHHHHSC
T ss_pred             HHHHHHHHHHHHHHhCcHhHHHHHHHHHHCC
Confidence            9999999999999999999999999999875
>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
>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
>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
>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

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 575
d1m8za_ 339 a.118.1.8 (A:) Pumilio 1 {Human (Homo sapiens) [Ta 1e-62
d1m8za_339 a.118.1.8 (A:) Pumilio 1 {Human (Homo sapiens) [Ta 2e-31
d1m8za_339 a.118.1.8 (A:) Pumilio 1 {Human (Homo sapiens) [Ta 1e-28
d1m8za_339 a.118.1.8 (A:) Pumilio 1 {Human (Homo sapiens) [Ta 2e-20
d1m8za_339 a.118.1.8 (A:) Pumilio 1 {Human (Homo sapiens) [Ta 1e-15
d1m8za_339 a.118.1.8 (A:) Pumilio 1 {Human (Homo sapiens) [Ta 2e-14
d1m8za_ 339 a.118.1.8 (A:) Pumilio 1 {Human (Homo sapiens) [Ta 8e-08
d1m8za_339 a.118.1.8 (A:) Pumilio 1 {Human (Homo sapiens) [Ta 2e-05
>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 =  207 bits (528), Expect = 1e-62
 Identities = 112/183 (61%), Positives = 141/183 (77%)

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 VIQ 566
           VIQ
Sbjct: 182 VIQ 184
>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
>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
>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
>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 ?
Query575
d1m8za_ 339 Pumilio 1 {Human (Homo sapiens) [TaxId: 9606]} 100.0
d1m8za_339 Pumilio 1 {Human (Homo sapiens) [TaxId: 9606]} 99.96
>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=1.8e-35  Score=298.46  Aligned_cols=190  Identities=59%  Similarity=0.979  Sum_probs=185.3

Q ss_pred             HHHHHHHHhcchhhHhHHHHHHHHHHHHhhCccccHHHHHHhhcCCHHHHHHHHHHHhhhHHHhhcCccccHHHHHHhhc
Q 008180          384 KHSFLEELKSSNAQKFELSDIAGRIVEFSVDQHGSRFIQQKLEHCSAEEKVSVFKEVLPHASKLMTDVFGNYVIQKFFEH  463 (575)
Q Consensus       384 rskLLeeL~s~e~rk~iLs~IkG~VveLA~Dq~GSRVLQkLLe~~s~Eer~~If~ELkp~iveLmtD~yGNyVVQKLfE~  463 (575)
                      |++|++++.+++.+.++|++++|+++++|+||+|||+||++|++++++++..||++|.+++.+||+|+||||||||+|++
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             CCHHHHHHHHHHhhcChhhhccCcchhHHHHHHHHhcCHHHHHHHHHHHHHHHHHhhcCCchhHHHHHHHHhCChhhHHH
Q 008180          464 GSPDQRKELAEKLVGQVLPLSLQMYGCRVIQKALEVIELHQKSQLVLELDGHVMRCVRDQNGNHVIQKCIECVPAEKIEF  543 (575)
Q Consensus       464 gs~Eqr~~II~~L~g~I~~Ls~hkyGSrVVQKlLE~~s~eqr~~II~EL~g~l~~LvkDq~GNyVIQK~Le~~~~k~rk~  543 (575)
                      ++++++..|++.|.+++.+|+.|+|||+|||++++....+++..++++|.+++..+++|++|+||+++|++..+++.++.
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             HHHHHHHHHHHHhcCcchHHHHHHHHhhcC
Q 008180          544 IISAFRGQVATLSTHPYGCRVIQPHNNASG  573 (575)
Q Consensus       544 IIk~L~~~iveLSthkyGs~VVQK~Le~~d  573 (575)
                      |++.+.+++.+|++|++||+||+++|+.+.
T Consensus       162 i~~~~~~~~~~l~~~~~g~~vlq~~l~~~~  191 (339)
T d1m8za_         162 IIDAFKGQVFALSTHPYGCRVIQRILEHCL  191 (339)
T ss_dssp             HHHHTTTTHHHHHTSTTHHHHHHHHHHHSC
T ss_pred             HHHHHHHHHHHHHhCcchhHHHHHHHhcCC
Confidence            999999999999999999999999999764
>d1m8za_ a.118.1.8 (A:) Pumilio 1 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure