Citrus Sinensis ID: 003398

Local Sequence Feature Prediction

Prediction and (Method)Result
Residue Number Marker
Protein Sequence ?
Secondary Structure (PSIPRED) ?
Secondary Structure Prediction (SSPRO) ?
Coil and Loop (DISEMBL) ?
Flexible Loop (DISEMBL) ?
Low Complexity Region (SEG) ?
Disordered region (IsUnstruct) ?
Disordered Region (DISOPRED) ?
Disordered Region (DISEMBL) ?
Disordered Region (DISPRO) ?
Transmembrane Helix (TMHMM) ?
Transmembrane Helix (HMMTOP) ?
Transmembrane Helix (MEMSAT) ?
TM Helix, Signal Peptide (MEMSAT_SVM) ?
TM Helix, Signal Peptide (Phobius) ?
Signal Peptide (SignalP HMM Mode) ?
Signal Peptide (SignalP NN Mode) ?
Coiled Coils (COILS) ?
Positional Conservation ?
 
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-------400-------410-------420-------430-------440-------450-------460-------470-------480-------490-------500-------510-------520-------530-------540-------550-------560-------570-------580-------590-------600-------610-------620-------630-------640-------650-------660-------670-------680-------690-------700-------710-------720-------730-------740-------750-------760-------770-------780-------790-------800-------810-------820---
MLIEWYENSECDLLCSCFLYDLTTGIGLFQEGLDRPASLSGHLSRPASCNAYGEIVGTGIADAHRAGSCNGAESLEVLHSAAASPGLVRTKSHNRIPSHSFASAVGSSLSRSTTPEAQLVGRSSGSGLPPVGSRVGAVEKNGAVGSNVQNDIELADIAATLSGLSLSNIRHADEVSHVQSQLQLNPDNQSDFLYDTSNGHNQSMKQQFMDKSTADNLAFSTHYIDFTRKNGIVPNLNASAINSNGQVNILKRTSSPNLYSKMNSTGFGGSSRSVGRQQNANISSLDFTNVSGDYSVNQKLNSLVNHHFDTVGIGATRNLNGMVNQVALDFHSPPMDPRYAQYLQRTSDYATRSAASASDPFAARNHFGSSLGDSDGLQKAHLELLLAQQNQQHEMQLLGKSGGLFPGYYETQPYRLDMQYSGNTFANPVLPSVGSGSFPNERNSRFTSMMRSSMGGPMPWHLDAGINMEGRLSSSLLDEFKTNKTRSFELSDIVDHVVEFSTDQYGSRFIQQKLEAATAEEKTRIFPEIIPHARTLMTDVFGNYVIQKFFEHGTESQRAQLASQLTGHVLRLSLQMYGCRVIQKALEVVHVDQQTQMVAELDGSVMKCVHDQNGNHVIQKCIECIPQDRIQFIISSFYGQVVALSTHPYGCRVIQRVLEHCDDANTQQIIMDEIMQHVCNLAQDQYGNYVIQHVLEHGKPHERTTVITQLAGQIVRMSQQKFASNVVEKCLTFGSPEERQLLINEMLGSTDENEPLQAMMKDPFGNYVVQKVLETCDDQSLELILSRIRVHLNVLKKYTYGKHIVSRIEKLIATGGEGSLDLS
ccHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHcccccccccccccccccccccccccccccccccccccccccccHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHcccccccccccccHHHHHHHHcccHHHcHHHHHHHHHccHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHcccHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHcccHHHHHHHHHHHHHcHHHHcccccccHHHHHHHHHccccHHHHHHHHHHHcHHHHccccHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHccccccHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHcHHHHHHHHHHHHcccHHHHHHHHHHHHccccccHHHHHHHccccHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHcccccccccc
ccEEEEccccccHEHHcHHHHHHccccHHHccccccccccccccccccHcccccccccccccccHcccccccccHcccccccccccccccccccccccccHHHHcccccccccccccHHcccccccccccccccccccccccccccccccccccHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHcccccccccccccccccccccccccccccccccccHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHcccccccHHccccccccccccccccccccccHcHHHHHHHccccccccHHHHcccHHHHHccHHHHHHHHHHHccccHHHHHHHHHHHcccHHHHHccccHHHHHHHHHHHccHHHHHHHHHHHcccHHHHHccccHHHHHHHHHHHccHHHHHHHHHHHcccHHHHHccccHHHHHHHHHHHccHHHHHHHHHHHcccHHHHHccccHHHHHHHHHHHccHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHccHHHHHHHHHHHcccHHHHHccccHHHHHHHHHHHccHHHHHHHHHHHHHcEEcccHHHHHHccccHHHHHHHHHHHccHHHHHHHHHHHcHHHHHHHHccccHHHHHHHccHHHcccccccccc
mliewyensecdllcscflydlttgiglfqegldrpaslsghlsrpascnayGEIVgtgiadahragscngaeSLEVLHSaaaspglvrtkshnripshsfasavgsslsrsttpeaqlvgrssgsglppvgsrvgavekngavgsnvqndIELADIAATLSGlslsnirhadevSHVQsqlqlnpdnqsdflydtsnghnqsmKQQFMDKSTADNLAFSTHYidftrkngivpnlnasainsngqvnilkrtsspnlyskmnstgfggssrsvgrqqnanissldftnvsgdysvnqKLNSLVNHHFDTVGIGATRNLNGMVNQValdfhsppmdpryaqylqrtsdyatrsaasasdpfaarnhfgsslgdsdgLQKAHLELLLAQQNQQHEMQLLGksgglfpgyyetqpyrldmqysgntfanpvlpsvgsgsfpnernsRFTSMMrssmggpmpwhldaginmegrlssslldefktnktrsfelsDIVDHVVEFSTDQYGSRFIQQKLEAATAeektrifpeiiphARTLMTDVFGNYVIQKFFEHGTESQRAQLASQLTGHVLRLSLQMYGCRVIQKALEVVHVDQQTQMVAELDGSVMkcvhdqngnHVIQKCIECIPQDRIQFIISSFYGQVVAlsthpygcrVIQRVLEHCDDANTQQIIMDEIMQHVCNLAQDQYGNYVIQHVLehgkpherTTVITQLAGQIVRMSQQKFASNVVEKcltfgspeERQLLINEMlgstdeneplqammkdpfgnYVVQKVLETCDDQSLELILSRIRVHLNVLKKYTYGKHIVSRIEKLIAtggegsldls
MLIEWYENSECDLLCSCFLYDLTTGIGLFQEGLDRPASLSGHLSRPASCNAYGEIVGTGIADAHRAGSCNGAESLEVLHSAAASPGLVRTKSHNRIPSHSFasavgsslsrSTTPEAQlvgrssgsglppvGSRVGAVEKNGAVGSNVQNDIELADIAATLSGLSLSNIRHADEVSHVQSQLQLNPDNQSDFLYDTSNGHNQSMKQQFMDKSTADNLAFSTHYIDFTRKNGIVPNLNASAINSNGQVNILKRTSSPNLYSKMNSTGFGGSSRSVGRQQNANISSLDFTNVSGDYSVNQKLNSLVNHHFDTVGIGATRNLNGMVNQVALDFHSPPMDPRYAQYLQRTSDYATRSAASASDPFAARNHFGSSLGDSDGLQKAHLELLLAQQNQQHEMQLLGKSGGLFPGYYETQPYRLDMQYSGNTFANPVLPSVGSGSFPNERNSRFTSMMRSSMGGPMPWHLDAGINMEGRLSSSLLDEFKTNKTRSFELSDIVDHVVEFSTDQYGSRFIQQKLEAATAEEKTRIFPEIIPHARTLMTDVFGNYVIQKFFEHGTESQRAQLASQLTGHVLRLSLQMYGCRVIQKALEVVHVDQQTQMVAELDGSVMKCVHDQNGNHVIQKCIECIPQDRIQFIISSFYGQVVALSTHPYGCRVIQRVLEHCDDANTQQIIMDEIMQHVCNLAQDQYGNYVIQHVLEHGKPHERTTVITQLAGQIVRMSQQKFASNVVEKCLTFGSPEERQLLINEMLGSTDENEPLQAMMKDPFGNYVVQKVLETCDDQSLELILSRIRVHLNVLKkytygkhivSRIEKLiatggegsldls
MLIEWYENSECDLLCSCFLYDLTTGIGLFQEGLDRPASLSGHLSRPASCNAYGEIVGTGIADAHRAGSCNGAESLEVLHSAAASPGLVRTKSHNRIPSHSFASAVGSSLSRSTTPEAQLVGRSSGSGLPPVGSRVGAVEKNGAVGSNVQNDIELADIAATLSGLSLSNIRHADEVSHVQSQLQLNPDNQSDFLYDTSNGHNQSMKQQFMDKSTADNLAFSTHYIDFTRKNGIVPNLNASAINSNGQVNILKRTSSPNLYSKMNSTGFGGSSRSVGRQQNANISSLDFTNVSGDYSVNQKLNSLVNHHFDTVGIGATRNLNGMVNQVALDFHSPPMDPRYAQYLQRTSDYATRSAASASDPFAARNHFGSSLGDSDGLQKAHLELLLAQQNQQHEMQLLGKSGGLFPGYYETQPYRLDMQYSGNTFANPVLPSVGSGSFPNERNSRFTsmmrssmggpmpWHLDAGINMEGRLSSSLLDEFKTNKTRSFELSDIVDHVVEFSTDQYGSRFIQQKLEAATAEEKTRIFPEIIPHARTLMTDVFGNYVIQKFFEHGTESQRAQLASQLTGHVLRLSLQMYGCRVIQKALEVVHVDQQTQMVAELDGSVMKCVHDQNGNHVIQKCIECIPQDRIQFIISSFYGQVVALSTHPYGCRVIQRVLEHCDDANTQQIIMDEIMQHVCNLAQDQYGNYVIQHVLEHGKPHERTTVITQLAGQIVRMSQQKFASNVVEKCLTFGSPEERQLLINEMLGSTDENEPLQAMMKDPFGNYVVQKVLETCDDQSLELILSRIRVHLNVLKKYTYGKHIVSRIEKLIATGGEGSLDLS
**IEWYENSECDLLCSCFLYDLTTGIGLFQEGLDRPASLSGHLSRPASCNAYGEIVGTGIADAHRAGSCN******************************************************************************QNDIELADIAATLSGLSLS************************************************NLAFSTHYIDFTRKNGIVPNLNASAIN******************************************LDFTNVSGDYSVNQKLNSLVNHHFDTVGIGATRNLNGMVNQVALDFH***************************************************ELLL*********QLLGKSGGLFPGYYETQPYRLDMQYSGNTFAN**********************************L*****************F**NKTRSFELSDIVDHVVEFSTDQYGSRFIQQKLEAATAEEKTRIFPEIIPHARTLMTDVFGNYVIQKFFEHGTESQRAQLASQLTGHVLRLSLQMYGCRVIQKALEVVHVDQQTQMVAELDGSVMKCVHDQNGNHVIQKCIECIPQDRIQFIISSFYGQVVALSTHPYGCRVIQRVLEHCDDANTQQIIMDEIMQHVCNLAQDQYGNYVIQHVLEHGKPHERTTVITQLAGQIVRMSQQKFASNVVEKCLTFGSP***QLLIN****************KDPFGNYVVQKVLETCDDQSLELILSRIRVHLNVLKKYTYGKHIVSRIEKLIAT*********
MLIEW**NSECDLLCSCFLYDLTTGIGLF********************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************TNKTRSFELSDIVDHVVEFSTDQYGSRFIQQKLEAATAEEKTRIFPEIIPHARTLMTDVFGNYVIQKFFEHGTESQRAQLASQLTGHVLRLSLQMYGCRVIQKALEVVHVDQQTQMVAELDGSVMKCVHDQNGNHVIQKCIECIPQDRIQFIISSFYGQVVALSTHPYGCRVIQRVLEHCDDANTQQIIMDEIMQHVCNLAQDQYGNYVIQHVLEHGKPHERTTVITQLAGQIVRMSQQKFASNVVEKCLTFGSPEERQLLINEMLGSTDENEPLQAMMKDPFGNYVVQKVLETCDDQSLELILSRIRVHLNVLKKYTYGKHIVSRIEKLIA**********
MLIEWYENSECDLLCSCFLYDLTTGIGLFQEGLDRPASLSGHLSRPASCNAYGEIVGTGIADAHRAGSCNGAESLEVLHSAAASPGLVRTKSHNRIPSHSF**************************LPPVGSRVGAVEKNGAVGSNVQNDIELADIAATLSGLSLSNIRHADEVSHVQSQLQLNPDNQSDFLYDTSNGHNQSMKQQFMDKSTADNLAFSTHYIDFTRKNGIVPNLNASAINSNGQVNILKRTSSPNLYSKMNSTG*********RQQNANISSLDFTNVSGDYSVNQKLNSLVNHHFDTVGIGATRNLNGMVNQVALDFHSPPMDPRYAQYLQRTSD**********DPFAARNHFGSSLGDSDGLQKAHLELLLAQQNQQHEMQLLGKSGGLFPGYYETQPYRLDMQYSGNTFANPVLPSVGSGSFPNERNSRFTSMMRSSMGGPMPWHLDAGINMEGRLSSSLLDEFKTNKTRSFELSDIVDHVVEFSTDQYGSRFIQQKLEAATAEEKTRIFPEIIPHARTLMTDVFGNYVIQKFFEHGTESQRAQLASQLTGHVLRLSLQMYGCRVIQKALEVVHVDQQTQMVAELDGSVMKCVHDQNGNHVIQKCIECIPQDRIQFIISSFYGQVVALSTHPYGCRVIQRVLEHCDDANTQQIIMDEIMQHVCNLAQDQYGNYVIQHVLEHGKPHERTTVITQLAGQIVRMSQQKFASNVVEKCLTFGSPEERQLLINEMLGSTDENEPLQAMMKDPFGNYVVQKVLETCDDQSLELILSRIRVHLNVLKKYTYGKHIVSRIEKLIATGGEGSLDLS
MLIEWYENSECDLLCSCFLYDLTTGIGLFQEGL********************************************************************************************************************************************************************************************************************QVNILKRTSSPNLYSKMNSTGFGGSSRSVGRQQNANISSLDFTNVSGDYSVNQKLNSLVNHHFDTVGIGATRNLNGMVNQVALDFHSPPMDPRYAQYLQRTSDYATRSAASASDPFAARNHFGSSLGDSDGLQKAHLELLLAQQNQQHEMQLLGKSGGLFPGYYETQPYRLDMQYSGNTFANPVLPSVGSGSFPNERNSRFTSMMRSSMGGPMPWHLDAGINMEGRLSSSLLDEFKTNKTRSFELSDIVDHVVEFSTDQYGSRFIQQKLEAATAEEKTRIFPEIIPHARTLMTDVFGNYVIQKFFEHGTESQRAQLASQLTGHVLRLSLQMYGCRVIQKALEVVHVDQQTQMVAELDGSVMKCVHDQNGNHVIQKCIECIPQDRIQFIISSFYGQVVALSTHPYGCRVIQRVLEHCDDANTQQIIMDEIMQHVCNLAQDQYGNYVIQHVLEHGKPHERTTVITQLAGQIVRMSQQKFASNVVEKCLTFGSPEERQLLINEMLGSTDENEPLQAMMKDPFGNYVVQKVLETCDDQSLELILSRIRVHLNVLKKYTYGKHIVSRIEKLIATG********
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MLIEWYENSECDLLCSCFLYDLTTGIGLFQEGLDRPASLSGHLSRPASCNAYGEIVGTGIADAHRAGSCNGAESLEVLHSAAASPGLVRTKSHNRIPSHSFASAVGSSLSRSTTPEAQLVGRSSGSGLPPVGSRVGAVEKNGAVGSNVQNDIELADIAATLSGLSLSNIRHADEVSHVQSQLQLNPDNQSDFLYDTSNGHNQSMKQQFMDKSTADNLAFSTHYIDFTRKNGIVPNLNASAINSNGQVNILKRTSSPNLYSKMNSTGFGGSSRSVGRQQNANISSLDFTNVSGDYSVNQKLNSLVNHHFDTVGIGATRNLNGMVNQVALDFHSPPMDPRYAQYLQRTSDYATRSAASASDPFAARNHFGSSLGDSDGLQKAHLELLLAQQNQQHEMQLLGKSGGLFPGYYETQPYRLDMQYSGNTFANPVLPSVGSGSFPNERNSRFTSMMRSSMGGPMPWHLDAGINMEGRLSSSLLDEFKTNKTRSFELSDIVDHVVEFSTDQYGSRFIQQKLEAATAEEKTRIFPEIIPHARTLMTDVFGNYVIQKFFEHGTESQRAQLASQLTGHVLRLSLQMYGCRVIQKALEVVHVDQQTQMVAELDGSVMKCVHDQNGNHVIQKCIECIPQDRIQFIISSFYGQVVALSTHPYGCRVIQRVLEHCDDANTQQIIMDEIMQHVCNLAQDQYGNYVIQHVLEHGKPHERTTVITQLAGQIVRMSQQKFASNVVEKCLTFGSPEERQLLINEMLGSTDENEPLQAMMKDPFGNYVVQKVLETCDDQSLELILSRIRVHLNVLKKYTYGKHIVSRIEKLIATGGEGSLDLS
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 ?
Query823 2.2.26 [Sep-21-2011]
Q9SS471003 Pumilio homolog 4 OS=Arab yes no 0.905 0.742 0.559 0.0
Q9ZW07968 Pumilio homolog 1 OS=Arab no no 0.885 0.753 0.467 1e-178
Q9ZW02964 Pumilio homolog 3 OS=Arab no no 0.894 0.763 0.466 1e-176
Q9ZW06972 Pumilio homolog 2 OS=Arab no no 0.890 0.754 0.467 1e-175
Q9LJX4961 Pumilio homolog 5 OS=Arab no no 0.492 0.421 0.551 1e-130
Q9C5E7861 Pumilio homolog 6, chloro no no 0.566 0.541 0.472 1e-118
Q80U581066 Pumilio homolog 2 OS=Mus yes no 0.408 0.315 0.564 1e-114
Q8TB721066 Pumilio homolog 2 OS=Homo yes no 0.408 0.315 0.564 1e-114
P258221533 Maternal protein pumilio yes no 0.405 0.217 0.566 1e-112
Q5R5X31186 Pumilio homolog 1 OS=Pong no no 0.415 0.288 0.549 1e-111
>sp|Q9SS47|PUM4_ARATH Pumilio homolog 4 OS=Arabidopsis thaliana GN=APUM4 PE=1 SV=2 Back     alignment and function desciption
 Score =  817 bits (2111), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 449/802 (55%), Positives = 548/802 (68%), Gaps = 57/802 (7%)

Query: 28  LFQEGLDRPASLSGHLSRPASCNAYGEIVGTGIADAHRAGSCNGAESL-EVLHSAAASPG 86
           + QEGL+R A+L   LSRPASCN + ++    +     AG  +   +  + LHS A +  
Sbjct: 229 ILQEGLERDAALGSQLSRPASCNTFRDMKDAAVLSNFSAGGFDSPLAFHDSLHSTAKNS- 287

Query: 87  LVRTKSHNRIPSHSFASAVGSSLSRSTTPEAQLVGRSSGSGLPPVGSRVGAVEKNGAVGS 146
                     P+    S + S + R+ TP++ LVGRS+ SGLPP+G+RVG VEK    G+
Sbjct: 288 ----------PNTMLGSTMSSPVPRNRTPDSHLVGRSTASGLPPIGTRVGPVEKKNTFGT 337

Query: 147 NVQN--DIELADIAATLSGLSLSNIRHADEVSHVQSQLQLNPDNQSDFLYDTSNGHNQSM 204
            +QN      AD+A TLS L++S +    E +H+QSQLQ+  +NQSD +    NGH +++
Sbjct: 338 AIQNCESYTAADVADTLSRLNMSEMSQVKE-NHMQSQLQVELENQSDVMRYIPNGHKKAL 396

Query: 205 KQQFMDKSTADNLAFSTHYIDFTRKNGIVPNLNASAINSNGQVNILKRTSSPNL------ 258
           +QQ   + T D+L FS +Y   +   G   +L AS + S+GQVNI KRTSS         
Sbjct: 397 RQQNTAE-TKDHL-FSANYGGMS---GYGASLGASTVGSHGQVNIPKRTSSSASLYSTSD 451

Query: 259 YSKMNSTGFGGSSRSVGRQQNANISSLDFTNVSGDYSVNQKLNSLVNHHF----DTVGIG 314
           +S++ S G      S    +N NI+  DF+  +G Y    KLNSL  H+        G G
Sbjct: 452 HSRLGSVGL-----SDVNIRNGNINGTDFS-TAGGYMAKNKLNSLAEHYSAEGSHLTGDG 505

Query: 315 ATRNLNGMVNQVALDFHSPPMDPRYAQYLQRTSDYATRSAASASDPFAARNHFGSSLGDS 374
             ++LN ++NQVA + HSP MDP Y+QYL   S     S A+  D    RN+FG+S GD+
Sbjct: 506 DRQSLNRLINQVASELHSPVMDPHYSQYLHTAS-----STAAPIDHSLIRNNFGTSNGDT 560

Query: 375 DGLQKAHLELLLAQQNQQHEMQLLGKSGGLFPGYYETQPYRLDMQYSGNTFANPVLPSVG 434
                 +L +LLAQ  QQ     LG        ++E+  Y L   Y GN   +P   S  
Sbjct: 561 ---ANEYLAMLLAQNRQQ-----LGNLNAANSRFFESPSYDLGNMYLGNHLPSP---SKN 609

Query: 435 SGSFPNERNSRFTSMMRSSMGGPM-PWHLDAGINMEGRLSSSLLDEFKTNKTRSFELSDI 493
           S +F N R S+  SMM+   GG     H+D G   E    +SLL+ FK NKTRS ELS+I
Sbjct: 610 SRNFQNMRMSQSASMMKVPFGGLQGSSHVDIGSTAE----ASLLEGFKNNKTRSLELSEI 665

Query: 494 VDHVVEFSTDQYGSRFIQQKLEAATAEEKTRIFPEIIPHARTLMTDVFGNYVIQKFFEHG 553
           V HV+EFS DQYGSRFIQQKLE AT EEK  IFPEI+P+ RTLMTDVFGNYVIQKFFEHG
Sbjct: 666 VGHVIEFSMDQYGSRFIQQKLETATDEEKNAIFPEILPYGRTLMTDVFGNYVIQKFFEHG 725

Query: 554 TESQRAQLASQLTGHVLRLSLQMYGCRVIQKALEVVHVDQQTQMVAELDGSVMKCVHDQN 613
           T  QR +LA Q+TGHVL LSLQMYGCRVIQKALEVV ++QQ +MV ELDGSVMKCVHDQN
Sbjct: 726 TTKQRKELAEQVTGHVLALSLQMYGCRVIQKALEVVELEQQARMVKELDGSVMKCVHDQN 785

Query: 614 GNHVIQKCIECIPQDRIQFIISSFYGQVVALSTHPYGCRVIQRVLEHCDDANTQQIIMDE 673
           GNHVIQKCIE +PQD IQFIISSFYG+V+ALSTHPYGCRVIQRVLEH DD  TQ+IIM+E
Sbjct: 786 GNHVIQKCIERLPQDWIQFIISSFYGKVLALSTHPYGCRVIQRVLEHIDDIETQRIIMEE 845

Query: 674 IMQHVCNLAQDQYGNYVIQHVLEHGKPHERTTVITQLAGQIVRMSQQKFASNVVEKCLTF 733
           IM  VC LAQDQYGNYVIQH+++HGKPHER+ +I +LAGQIV+MSQQKFASNVVEKCLTF
Sbjct: 846 IMDSVCTLAQDQYGNYVIQHIIQHGKPHERSEIINKLAGQIVKMSQQKFASNVVEKCLTF 905

Query: 734 GSPEERQLLINEMLGSTDENEPLQAMMKDPFGNYVVQKVLETCDDQSLELILSRIRVHLN 793
           G PEERQ+L+NEMLG TDENEPLQAMMKDPFGNYVVQKVLETCDDQSL LILSRI+VHLN
Sbjct: 906 GGPEERQVLVNEMLGYTDENEPLQAMMKDPFGNYVVQKVLETCDDQSLALILSRIKVHLN 965

Query: 794 VLKKYTYGKHIVSRIEKLIATG 815
            LK+YTYGKHIV+R+EKLI TG
Sbjct: 966 ALKRYTYGKHIVARVEKLITTG 987
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|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|Q9LJX4|PUM5_ARATH Pumilio homolog 5 OS=Arabidopsis thaliana GN=APUM5 PE=1 SV=2 Back     alignment and function description
>sp|Q9C5E7|PUM6_ARATH Pumilio homolog 6, chloroplastic OS=Arabidopsis thaliana GN=APUM6 PE=1 SV=1 Back     alignment and function description
>sp|Q80U58|PUM2_MOUSE Pumilio homolog 2 OS=Mus musculus GN=Pum2 PE=1 SV=2 Back     alignment and function description
>sp|Q8TB72|PUM2_HUMAN Pumilio homolog 2 OS=Homo sapiens GN=PUM2 PE=1 SV=2 Back     alignment and function description
>sp|P25822|PUM_DROME Maternal protein pumilio OS=Drosophila melanogaster GN=pum PE=1 SV=2 Back     alignment and function description
>sp|Q5R5X3|PUM1_PONAB Pumilio homolog 1 OS=Pongo abelii GN=PUM1 PE=2 SV=1 Back     alignment and function description

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

Original result of BLAST against Nonredundant Database

GI ?Alignment Graph ?Length ? Definition ? Q cover ? H cover ? Identity ? E-value ?
Query823
255580219 1024 pumilio, putative [Ricinus communis] gi| 0.940 0.755 0.692 0.0
225448992 1026 PREDICTED: pumilio homolog 4 [Vitis vini 0.942 0.756 0.683 0.0
224097831 999 predicted protein [Populus trichocarpa] 0.941 0.775 0.647 0.0
224113073 998 predicted protein [Populus trichocarpa] 0.953 0.786 0.635 0.0
356533951 983 PREDICTED: pumilio homolog 4-like [Glyci 0.905 0.757 0.607 0.0
356574619 1000 PREDICTED: pumilio homolog 4-like [Glyci 0.897 0.739 0.604 0.0
449487299 997 PREDICTED: pumilio homolog 4-like [Cucum 0.908 0.750 0.611 0.0
449449485 996 PREDICTED: pumilio homolog 4-like [Cucum 0.908 0.751 0.609 0.0
357443169 1176 60S ribosomal protein L4 [Medicago trunc 0.895 0.626 0.586 0.0
6056191 1031 putative RNA binding protein [Arabidopsi 0.907 0.724 0.558 0.0
>gi|255580219|ref|XP_002530940.1| pumilio, putative [Ricinus communis] gi|223529499|gb|EEF31455.1| pumilio, putative [Ricinus communis] Back     alignment and taxonomy information
 Score = 1081 bits (2796), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 555/801 (69%), Positives = 635/801 (79%), Gaps = 27/801 (3%)

Query: 28   LFQEGLDRPASLSGHLSRPASCNAYGEIVGT-GIADAHRAGSCNGAESLEVLHSAAASPG 86
            + QEGLDRPASLSGHLSRPAS NA+G+++GT GI+D+   G   G ESL+ L S +ASPG
Sbjct: 223  ILQEGLDRPASLSGHLSRPASHNAFGDLLGTTGISDSCPVGFAGGLESLDGLRSGSASPG 282

Query: 87   LVRTKSHNRIPSHSFASAVGSSLSRSTTPEAQLVGRSSGSGLPPVGSRVGAVEKNGAVGS 146
            LV  KSH    SHSFASA+GSSLSRSTTPE QLVGR   SGLPPVGS+V  +EK  AVGS
Sbjct: 283  LVGVKSHGTTVSHSFASAIGSSLSRSTTPEQQLVGRCPSSGLPPVGSKVAFLEKKNAVGS 342

Query: 147  NVQND-----IELADIAATLSGLSLSNIRHADEVSHVQSQLQLNPDNQSDFLYDTSNGHN 201
              QN       EL +I ATLSGL+LS +RH ++ S ++       DNQ+DFL++TS+G+N
Sbjct: 343  TAQNGHLSGITELGEITATLSGLNLSKLRHPEQDSLIEL------DNQADFLFNTSDGYN 396

Query: 202  QSMKQQFMDKSTADNLAFSTHYIDFTRKNGIVPNLNASAINSNGQVNILKRTSS-PNLYS 260
              ++QQ  DKS A+N +FS  YID   KNG +PNLNAS  N+NG+V+I KRTSS  NL+S
Sbjct: 397  H-LQQQLRDKSNAENFSFSASYIDVAMKNGAMPNLNASEFNTNGEVSIPKRTSSFTNLHS 455

Query: 261  KMNSTGFGGSSRSVGRQQNANISSLDFTNVS-GDYSVNQKLNSLVNHHFDTV----GIGA 315
            K+NS+G GG  RS G  QNANI S++F + S G Y+ NQKL+SL+ +H D      G G 
Sbjct: 456  KLNSSGLGGLQRSNGHLQNANIPSMNFVSHSPGAYTSNQKLDSLLKNHLDAGSALGGNGV 515

Query: 316  TRNLNGMVNQVALDFHSPPMDPRYAQYLQRTSDYATRSAASASDPFAARNHFGSSLGDSD 375
              +LN   +Q   +FHS  MD RYAQYL+RTSDY TR+          RN FG S GD D
Sbjct: 516  GHSLNRAGDQAGPEFHSQVMDSRYAQYLRRTSDYETRTNGQL------RNFFGISHGDLD 569

Query: 376  GLQKAHLELLLAQQNQQHEMQLLGKSGGLFPGYYETQPYRLDMQYSGNTFANPVLPSVGS 435
             +QKA+LE LLAQQNQQ+E  LL KSG +  GY+    Y L M Y G + AN VLPSVGS
Sbjct: 570  EVQKAYLEALLAQQNQQYE-PLLVKSGSMNQGYHRNSSYGLGMPYLGTSMANSVLPSVGS 628

Query: 436  GSFPNERNSRFTSMMRSSMGGPM-PWHLDAGINMEGRLSSSLLDEFKTNKTRSFELSDIV 494
            GSF NE+ + FTS +R+SMGG +  WH D G N+E R  SSLLDEFK NKTRSFELSDIV
Sbjct: 629  GSFQNEQVAHFTSTVRNSMGGSIGSWHPDVGSNIERRYVSSLLDEFKNNKTRSFELSDIV 688

Query: 495  DHVVEFSTDQYGSRFIQQKLEAATAEEKTRIFPEIIPHARTLMTDVFGNYVIQKFFEHGT 554
            +HVVEFSTDQYGSRFIQQKLE ATAEEK +IFPEIIPHARTLMTDVFGNYVIQKFFEHGT
Sbjct: 689  EHVVEFSTDQYGSRFIQQKLEIATAEEKNKIFPEIIPHARTLMTDVFGNYVIQKFFEHGT 748

Query: 555  ESQRAQLASQLTGHVLRLSLQMYGCRVIQKALEVVHVDQQTQMVAELDGSVMKCVHDQNG 614
            ESQR +LA+QLT HVL LSLQMYGCRVIQKALEVV VDQQT+MVAELDGS+MKCV DQNG
Sbjct: 749  ESQRTELANQLTAHVLPLSLQMYGCRVIQKALEVVGVDQQTEMVAELDGSIMKCVRDQNG 808

Query: 615  NHVIQKCIECIPQDRIQFIISSFYGQVVALSTHPYGCRVIQRVLEHCDDANTQQIIMDEI 674
            NHVIQKCIEC+P+DRIQ IISSFYGQVVALSTHPYGCRVIQRVLEHC+  +TQQIIMDEI
Sbjct: 809  NHVIQKCIECVPEDRIQSIISSFYGQVVALSTHPYGCRVIQRVLEHCESIDTQQIIMDEI 868

Query: 675  MQHVCNLAQDQYGNYVIQHVLEHGKPHERTTVITQLAGQIVRMSQQKFASNVVEKCLTFG 734
            MQ VC LAQDQYGNYVIQHVLEHGKPHER+ +I +LAGQIV+MSQQKFASNVVEKCL FG
Sbjct: 869  MQSVCVLAQDQYGNYVIQHVLEHGKPHERSAIICKLAGQIVKMSQQKFASNVVEKCLIFG 928

Query: 735  SPEERQLLINEMLGSTDENEPLQAMMKDPFGNYVVQKVLETCDDQSLELILSRIRVHLNV 794
             PEERQ+L+NEMLGSTDENEPLQ MMKDPFGNYVVQKVLETCDD+SLELILSRI++HLN 
Sbjct: 929  GPEERQILVNEMLGSTDENEPLQVMMKDPFGNYVVQKVLETCDDRSLELILSRIKIHLNA 988

Query: 795  LKKYTYGKHIVSRIEKLIATG 815
            LK+YTYGKHIVSR+EKLI TG
Sbjct: 989  LKRYTYGKHIVSRVEKLITTG 1009

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|225448992|ref|XP_002273503.1| PREDICTED: pumilio homolog 4 [Vitis vinifera] gi|296085990|emb|CBI31431.3| unnamed protein product [Vitis vinifera] Back     alignment and taxonomy information
>gi|224097831|ref|XP_002311080.1| predicted protein [Populus trichocarpa] gi|222850900|gb|EEE88447.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
>gi|224113073|ref|XP_002316382.1| predicted protein [Populus trichocarpa] gi|222865422|gb|EEF02553.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
>gi|356533951|ref|XP_003535521.1| PREDICTED: pumilio homolog 4-like [Glycine max] Back     alignment and taxonomy information
>gi|356574619|ref|XP_003555443.1| PREDICTED: pumilio homolog 4-like [Glycine max] Back     alignment and taxonomy information
>gi|449487299|ref|XP_004157558.1| PREDICTED: pumilio homolog 4-like [Cucumis sativus] Back     alignment and taxonomy information
>gi|449449485|ref|XP_004142495.1| PREDICTED: pumilio homolog 4-like [Cucumis sativus] Back     alignment and taxonomy information
>gi|357443169|ref|XP_003591862.1| 60S ribosomal protein L4 [Medicago truncatula] gi|355480910|gb|AES62113.1| 60S ribosomal protein L4 [Medicago truncatula] Back     alignment and taxonomy information
>gi|6056191|gb|AAF02808.1|AC009400_4 putative RNA binding protein [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 ?
Query823
TAIR|locus:20763241003 PUM4 "pumilio 4" [Arabidopsis 0.698 0.573 0.599 8e-172
TAIR|locus:2043182968 PUM1 "pumilio 1" [Arabidopsis 0.833 0.708 0.493 3.1e-163
TAIR|locus:2043047964 PUM3 "pumilio 3" [Arabidopsis 0.840 0.717 0.486 1.5e-161
TAIR|locus:2043187972 PUM2 "pumilio 2" [Arabidopsis 0.837 0.708 0.489 6.5e-161
TAIR|locus:2087560961 PUM5 "pumilio 5" [Arabidopsis 0.575 0.493 0.493 1.5e-115
TAIR|locus:2117552861 PUM6 "pumilio 6" [Arabidopsis 0.407 0.389 0.599 1e-113
UNIPROTKB|F1N2B81069 PUM2 "Uncharacterized protein" 0.408 0.314 0.568 1e-107
UNIPROTKB|F1SCU61064 PUM2 "Uncharacterized protein" 0.408 0.315 0.568 1.3e-107
UNIPROTKB|E2RT571063 PUM2 "Uncharacterized protein" 0.408 0.316 0.568 1.3e-107
UNIPROTKB|B4E2B61008 PUM2 "Pumilio homolog 2" [Homo 0.408 0.333 0.568 1.3e-107
TAIR|locus:2076324 PUM4 "pumilio 4" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 1670 (592.9 bits), Expect = 8.0e-172, P = 8.0e-172
 Identities = 358/597 (59%), Positives = 420/597 (70%)

Query:   230 NGIVPNLNASAINSNGQVNILKRTSSP-NLYSKMNSTGFGGSSRSVGRQQNANISSLDFT 288
             +G   +L AS + S+GQVNI KRTSS  +LYS  + +  G    S    +N NI+  DF+
Sbjct:   417 SGYGASLGASTVGSHGQVNIPKRTSSSASLYSTSDHSRLGSVGLSDVNIRNGNINGTDFS 476

Query:   289 NVSGDYSVNQKLNSLVNHHFDTVGIGATRNLNGM-VNQVALDFHSPPMDPRYAQYLQRTS 347
                G Y    KLNSL  H +   G   T + +   +N++     S    P    +  +  
Sbjct:   477 TAGG-YMAKNKLNSLAEH-YSAEGSHLTGDGDRQSLNRLINQVASELHSPVMDPHYSQYL 534

Query:   348 DYATRSAASASDPFAARNHFGSSLGDSDGLQKAHLELLLAQQNQQHEMQLLGKSGGLFPG 407
               A+ +AA   D    RN+FG+S GD+      +L +LLAQ  QQ     LG        
Sbjct:   535 HTASSTAAPI-DHSLIRNNFGTSNGDT---ANEYLAMLLAQNRQQ-----LGNLNAANSR 585

Query:   408 YYETQPYRLDMQYSGNTFANPVLPSVGSGSFPNERNSRFTXXXXX-XXXXXXXWHLDAGI 466
             ++E+  Y L   Y GN   +P   S  S +F N R S+                H+D G 
Sbjct:   586 FFESPSYDLGNMYLGNHLPSP---SKNSRNFQNMRMSQSASMMKVPFGGLQGSSHVDIGS 642

Query:   467 NMEGRLSSSLLDEFKTNKTRSFELSDIVDHVVEFSTDQYGSRFIQQKLEAATAEEKTRIF 526
               E    +SLL+ FK NKTRS ELS+IV HV+EFS DQYGSRFIQQKLE AT EEK  IF
Sbjct:   643 TAE----ASLLEGFKNNKTRSLELSEIVGHVIEFSMDQYGSRFIQQKLETATDEEKNAIF 698

Query:   527 PEIIPHARTLMTDVFGNYVIQKFFEHGTESQRAQLASQLTGHVLRLSLQMYGCRVIQKAL 586
             PEI+P+ RTLMTDVFGNYVIQKFFEHGT  QR +LA Q+TGHVL LSLQMYGCRVIQKAL
Sbjct:   699 PEILPYGRTLMTDVFGNYVIQKFFEHGTTKQRKELAEQVTGHVLALSLQMYGCRVIQKAL 758

Query:   587 EVVHVDQQTQMVAELDGSVMKCVHDQNGNHVIQKCIECIPQDRIQFIISSFYGQVVALST 646
             EVV ++QQ +MV ELDGSVMKCVHDQNGNHVIQKCIE +PQD IQFIISSFYG+V+ALST
Sbjct:   759 EVVELEQQARMVKELDGSVMKCVHDQNGNHVIQKCIERLPQDWIQFIISSFYGKVLALST 818

Query:   647 HPYGCRVIQRVLEHCDDANTQQIIMDEIMQHVCNLAQDQYGNYVIQHVLEHGKPHERTTV 706
             HPYGCRVIQRVLEH DD  TQ+IIM+EIM  VC LAQDQYGNYVIQH+++HGKPHER+ +
Sbjct:   819 HPYGCRVIQRVLEHIDDIETQRIIMEEIMDSVCTLAQDQYGNYVIQHIIQHGKPHERSEI 878

Query:   707 ITQLAGQIVRMSQQKFASNVVEKCLTFGSPEERQLLINEMLGSTDENEPLQAMMKDPFGN 766
             I +LAGQIV+MSQQKFASNVVEKCLTFG PEERQ+L+NEMLG TDENEPLQAMMKDPFGN
Sbjct:   879 INKLAGQIVKMSQQKFASNVVEKCLTFGGPEERQVLVNEMLGYTDENEPLQAMMKDPFGN 938

Query:   767 YVVQKVLETCDDQSLELILSRIRVHLNVLKKYTYGKHIVSRIEKLIATGGEGSLDLS 823
             YVVQKVLETCDDQSL LILSRI+VHLN LK+YTYGKHIV+R+EKLI TG E  + LS
Sbjct:   939 YVVQKVLETCDDQSLALILSRIKVHLNALKRYTYGKHIVARVEKLITTG-ERRIGLS 994
GO:0003723 "RNA binding" evidence=IEA;ISS
GO:0005737 "cytoplasm" evidence=ISM
GO:0008150 "biological_process" evidence=ND
GO:0003729 "mRNA binding" evidence=IDA
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:2043187 PUM2 "pumilio 2" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2087560 PUM5 "pumilio 5" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2117552 PUM6 "pumilio 6" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
UNIPROTKB|F1N2B8 PUM2 "Uncharacterized protein" [Bos taurus (taxid:9913)] Back     alignment and assigned GO terms
UNIPROTKB|F1SCU6 PUM2 "Uncharacterized protein" [Sus scrofa (taxid:9823)] Back     alignment and assigned GO terms
UNIPROTKB|E2RT57 PUM2 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)] 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

ID ?Name ?Annotated EC number ?Identity ?Query coverage ?Hit coverage ?RBH(Q2H) ?RBH(H2Q) ?
Q9SS47PUM4_ARATHNo assigned EC number0.55980.90520.7427yesno

EC Number Prediction by Ezypred Server ?

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software ?

No EC number assignment, probably not an enzyme!

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING ?

Original result from the STRING server

Fail to connect to STRING server

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST ?

Original result of RPS-BLAST against CDD database part I

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query823
cd07920322 cd07920, Pumilio, Pumilio-family RNA binding domai 1e-172
COG5099777 COG5099, COG5099, RNA-binding protein of the Puf f 3e-82
pfam07990365 pfam07990, NABP, Nucleic acid binding protein NABP 2e-73
cd07920322 cd07920, Pumilio, Pumilio-family RNA binding domai 8e-72
smart0002536 smart00025, Pumilio, Pumilio-like repeats 2e-08
smart0002536 smart00025, Pumilio, Pumilio-like repeats 5e-07
pfam0080634 pfam00806, PUF, Pumilio-family RNA binding repeat 5e-07
pfam0080634 pfam00806, PUF, Pumilio-family RNA binding repeat 5e-06
smart0002536 smart00025, Pumilio, Pumilio-like repeats 8e-06
smart0002536 smart00025, Pumilio, Pumilio-like repeats 8e-06
pfam0080634 pfam00806, PUF, Pumilio-family RNA binding repeat 8e-06
smart0002536 smart00025, Pumilio, Pumilio-like repeats 1e-05
pfam0080634 pfam00806, PUF, Pumilio-family RNA binding repeat 1e-05
smart0002536 smart00025, Pumilio, Pumilio-like repeats 2e-05
smart0002536 smart00025, Pumilio, Pumilio-like repeats 4e-05
smart0002536 smart00025, Pumilio, Pumilio-like repeats 6e-05
COG5099 777 COG5099, COG5099, RNA-binding protein of the Puf f 1e-04
pfam0080634 pfam00806, PUF, Pumilio-family RNA binding repeat 4e-04
pfam0080634 pfam00806, PUF, Pumilio-family RNA binding repeat 7e-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 =  499 bits (1287), Expect = e-172
 Identities = 183/323 (56%), Positives = 233/323 (72%), Gaps = 2/323 (0%)

Query: 487 SFELSDI-VDHVVEFSTDQYGSRFIQQKLEAATAEEKTRIFPEIIPHARTLMTDVFGNYV 545
           S  L DI   H+VEF+ DQ+GSRF+QQKLE AT EEK  IF EI+PH   LM D FGNYV
Sbjct: 1   SLTLQDIKAGHIVEFAKDQHGSRFLQQKLEEATPEEKELIFDEILPHVVELMVDPFGNYV 60

Query: 546 IQKFFEHGTESQRAQLASQLTGHVLRLSLQMYGCRVIQKALEVVHVDQQTQMVAELDGSV 605
           IQK FEHGTE QR QL  ++ GHV+RLSL MYGCRVIQK LE +  +Q + +V EL G V
Sbjct: 61  IQKLFEHGTEEQRLQLLEKILGHVVRLSLDMYGCRVIQKLLESISEEQISLLVKELRGHV 120

Query: 606 MKCVHDQNGNHVIQKCIECIPQDRIQFIISSFYGQVVALSTHPYGCRVIQRVLEHCDDAN 665
           ++ V DQNGNHVIQKCIE  P + +QFII +F G  VALSTHPYGCRVIQR LEHC +  
Sbjct: 121 VELVKDQNGNHVIQKCIEKFPPEDLQFIIDAFKGNCVALSTHPYGCRVIQRCLEHCSEEQ 180

Query: 666 TQQIIMDEIMQHVCNLAQDQYGNYVIQHVLEHGKPHERTTVITQLAGQIVRMSQQKFASN 725
            + ++ +EI++H   L QDQ+GNYV+QHVLE G P + + +I +L G IV++S  KFASN
Sbjct: 181 REPLL-EEILEHALELVQDQFGNYVVQHVLELGDPDDTSRIIEKLLGNIVQLSCHKFASN 239

Query: 726 VVEKCLTFGSPEERQLLINEMLGSTDENEPLQAMMKDPFGNYVVQKVLETCDDQSLELIL 785
           VVEKCL   S EER+L+I+E+L S +E   L  +MKD +GNYV+Q  L+   ++  EL++
Sbjct: 240 VVEKCLKHASKEERELIIDEILASGNETSALDTLMKDQYGNYVIQTALDVAKEEQRELLV 299

Query: 786 SRIRVHLNVLKKYTYGKHIVSRI 808
             IR HL  L+K  YGKHI++++
Sbjct: 300 EAIRPHLPSLRKSPYGKHILAKL 322

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|219685 pfam07990, NABP, Nucleic acid binding protein NABP Back     alignment and domain information
>gnl|CDD|153420 cd07920, Pumilio, Pumilio-family RNA binding domain Back     alignment and domain information
>gnl|CDD|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|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|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|227430 COG5099, COG5099, RNA-binding protein of the Puf family, translational repressor [Translation, ribosomal structure and biogenesis] 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

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 823
PF07990385 NABP: Nucleic acid binding protein NABP; InterPro: 100.0
KOG1488503 consensus Translational repressor Pumilio/PUF3 and 100.0
cd07920322 Pumilio Pumilio-family RNA binding domain. Puf rep 100.0
COG5099777 RNA-binding protein of the Puf family, translation 100.0
KOG2049536 consensus Translational repressor MPT5/PUF4 and re 100.0
cd07920322 Pumilio Pumilio-family RNA binding domain. Puf rep 100.0
KOG1488503 consensus Translational repressor Pumilio/PUF3 and 100.0
KOG2050 652 consensus Puf family RNA-binding protein [Translat 100.0
KOG2188650 consensus Predicted RNA-binding protein, contains 99.97
COG5099777 RNA-binding protein of the Puf family, translation 99.96
KOG2049536 consensus Translational repressor MPT5/PUF4 and re 99.95
KOG2188650 consensus Predicted RNA-binding protein, contains 99.87
KOG2050 652 consensus Puf family RNA-binding protein [Translat 99.82
KOG4574 1007 consensus RNA-binding protein (contains RRM and Pu 99.61
KOG4574 1007 consensus RNA-binding protein (contains RRM and Pu 99.17
PF0080635 PUF: Pumilio-family RNA binding repeat; InterPro: 97.98
smart0002536 Pumilio Pumilio-like repeats. Pumilio-like repeats 97.61
PF0080635 PUF: Pumilio-family RNA binding repeat; InterPro: 97.57
smart0002536 Pumilio Pumilio-like repeats. Pumilio-like repeats 97.44
PRK05686339 fliG flagellar motor switch protein G; Validated 89.96
TIGR00207338 fliG flagellar motor switch protein FliG. The fliG 88.04
PF08144148 CPL: CPL (NUC119) domain; InterPro: IPR012959 This 83.87
PF04286367 DUF445: Protein of unknown function (DUF445); Inte 82.18
PF08144148 CPL: CPL (NUC119) domain; InterPro: IPR012959 This 81.24
>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=1.2e-81  Score=680.95  Aligned_cols=337  Identities=45%  Similarity=0.583  Sum_probs=314.3

Q ss_pred             cCCCCCCCCCccccccccccCCCCCCCCCC-----cchhHHHHhhcCCccCccccCCcccchhhhcccCccccccccccC
Q 003398          122 RSSGSGLPPVGSRVGAVEKNGAVGSNVQND-----IELADIAATLSGLSLSNIRHADEVSHVQSQLQLNPDNQSDFLYDT  196 (823)
Q Consensus       122 r~~~~~~~~iG~~~~~~~k~~~~~~~~~~~-----~e~~d~~~~ls~~~ls~~~~~~~~~~~~~q~~~~~~~~~~~~~~~  196 (823)
                      |+|||||||||+||+++|||+++|+++||+     +|+|||+|||||||||+++++++|+|+|||+|+|||||++|+|++
T Consensus         1 R~PSp~lpPIG~Rv~s~eKk~~~g~~sfn~~SS~~~e~aDlvAALSGLNLS~~~~~~ee~~~qSqlqqdvdnqq~~lf~~   80 (385)
T PF07990_consen    1 RAPSPCLPPIGVRVGSVEKKNNGGSSSFNGVSSGINESADLVAALSGLNLSGNRAADEENHMQSQLQQDVDNQQDFLFNV   80 (385)
T ss_pred             CCCCCCCCCccccccchhcccccCCcccccccCCCCcHHHHHHHHhcCCcCcCccccccccchHHHHHHHHHhhhhhhcC
Confidence            999999999999999999999999999999     999999999999999999999999999999999999999999999


Q ss_pred             cccccccccccccccccccccccccccccccccCCCCCCCCccccccCCcccccccCC-CCccccccCCCCCCCCCCC-C
Q 003398          197 SNGHNQSMKQQFMDKSTADNLAFSTHYIDFTRKNGIVPNLNASAINSNGQVNILKRTS-SPNLYSKMNSTGFGGSSRS-V  274 (823)
Q Consensus       197 ~~~~~~~~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~-~  274 (823)
                      |++|+| .+||.++++++++++..                          +++++..+ ++++|+|++.++.+++++. +
T Consensus        81 q~~q~~-~~Qq~~~~~se~~~l~~--------------------------~e~~~a~~~~~~s~~~~~~~s~~~~~g~~~  133 (385)
T PF07990_consen   81 QGGQNQ-GNQQSYMKKSESGHLNA--------------------------PELQKAAFPSGNSYFKNSNASKLSGGGGSP  133 (385)
T ss_pred             ccchhh-hhhHHHhhccchhhccc--------------------------cccccccCCCccccccCCCcccccCCCCCC
Confidence            999999 89999999999988843                          33444555 6788888888888888885 7


Q ss_pred             CCCcCCCCCCCCCCCCCCCccCCcccccccccCCCCCc-----------------------------------cCccccc
Q 003398          275 GRQQNANISSLDFTNVSGDYSVNQKLNSLVNHHFDTVG-----------------------------------IGATRNL  319 (823)
Q Consensus       275 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----------------------------------~~~~~~~  319 (823)
                      ..||+++.+++.+    +||++||++|+||.+++++|+                                   .+|+|++
T Consensus       134 ~~~q~~~~~n~~~----~gy~~n~~~~s~~~~~~~~gn~p~~fd~~~~~s~~~~~~~~s~~~g~~~~s~~~~~~~d~~~l  209 (385)
T PF07990_consen  134 FPYQNSDNPNSSF----GGYALNPALPSMMASQLNNGNIPPLFDNSAAASALASPGMDSRSLGGGLDSGGNQGASDGQNL  209 (385)
T ss_pred             CcccCCCcccccc----cccccCccchhhhhccccCCCCCccccccccchhhccCCCcccccCCcccccccccccchhhh
Confidence            7799988888876    899999999999999988864                                   2699999


Q ss_pred             ccccccc-ccCCCCCCCChhHHhhhcccchhhhhhhhccCCcccccCCCCCCCCCChhhHHHHHHHHHHHHhhhhhhhcc
Q 003398          320 NGMVNQV-ALDFHSPPMDPRYAQYLQRTSDYATRSAASASDPFAARNHFGSSLGDSDGLQKAHLELLLAQQNQQHEMQLL  398 (823)
Q Consensus       320 ~~~~~~~-~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  398 (823)
                      +|+|||+ |.++|+||+||+|+||||++++++++.|+ +.||+++|+++|++++|++++||+||++||++||+|||+|+ 
T Consensus       210 ~r~gnq~~g~~lq~~~~DP~Y~Qylq~~~~aa~~~a~-~~dP~~~R~~~G~s~~dl~~~qKayl~~lL~~QK~Qy~~P~-  287 (385)
T PF07990_consen  210 NRFGNQVAGSALQSPFVDPLYLQYLQAPEYAAQQAAA-QNDPSVDRNYMGSSYMDLLGLQKAYLEALLAQQKSQYGVPL-  287 (385)
T ss_pred             hhhcccccCcccCCCCCCchHHHHhccccchhhhhhc-cCCcccccCCcCccccchHHHHHHHHHHHHHHHHHhhCCcc-
Confidence            9999997 69999999999999999999999998877 99999999999999999999999999999999999999999 


Q ss_pred             cCCCCCCCCCCCCCCCCccccCCCCCCCCCCCC----CCCCCCCCCCccccccccccCCCC-CCCCCccCcCCCcchhhh
Q 003398          399 GKSGGLFPGYYETQPYRLDMQYSGNTFANPVLP----SVGSGSFPNERNSRFTSMMRSSMG-GPMPWHLDAGINMEGRLS  473 (823)
Q Consensus       399 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p----g~g~~~~~~~r~~r~~s~~r~~~g-~~~~w~~~r~~~~~~~~~  473 (823)
                      .|+|+++++|||+|.||++|+|||+|+++|++|    |+|+|+|+++|++||++++|+..| .++.|+.|.+.++++++.
T Consensus       288 ~~~~~~n~~y~gnp~~G~gm~Y~gsplaspvlPsspvG~gsp~r~~er~~R~~s~mRn~~GG~~GsW~~d~g~~~d~~~~  367 (385)
T PF07990_consen  288 KKSGSMNHGYYGNPSYGLGMPYPGSPLASPVLPSSPVGPGSPLRHNERNMRFPSGMRNSSGGSMGSWHSDAGGNMDENFA  367 (385)
T ss_pred             ccCCCCCCCCCCCCCccccCCCCCCCCcCCCCCCCCCCCCCCCcCCccccccCcccccccccccccccccccccccccch
Confidence            999999999999999999999999999999999    588999999999999999999955 999999999999999999


Q ss_pred             hHHHHHhhccccccccHh
Q 003398          474 SSLLDEFKTNKTRSFELS  491 (823)
Q Consensus       474 s~LLeef~s~e~k~~~L~  491 (823)
                      +.||||||++|+|+|+|+
T Consensus       368 sSlLEEFKsNKtr~FELS  385 (385)
T PF07990_consen  368 SSLLEEFKSNKTRSFELS  385 (385)
T ss_pred             hHHHHHHhcCCccceecC
Confidence            999999999999999873

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
>COG5099 RNA-binding protein of the Puf family, translational repressor [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>KOG2049 consensus Translational repressor MPT5/PUF4 and related RNA-binding proteins (Puf superfamily) [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>cd07920 Pumilio Pumilio-family RNA binding domain Back     alignment and domain information
>KOG1488 consensus Translational repressor Pumilio/PUF3 and related RNA-binding proteins (Puf superfamily) [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>KOG2050 consensus Puf family RNA-binding protein [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>KOG2188 consensus Predicted RNA-binding protein, contains Pumilio domains [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
>KOG4574 consensus RNA-binding protein (contains RRM and Pumilio-like repeats) [General function prediction only] Back     alignment and domain information
>KOG4574 consensus RNA-binding protein (contains RRM and Pumilio-like repeats) [General function prediction only] Back     alignment and domain information
>PF00806 PUF: Pumilio-family RNA binding repeat; InterPro: IPR001313 The drosophila pumilio gene codes for an unusual protein that binds through the Puf domain that usually occurs as a tandem repeat of eight domains Back     alignment and domain information
>smart00025 Pumilio Pumilio-like repeats Back     alignment and domain information
>PF00806 PUF: Pumilio-family RNA binding repeat; InterPro: IPR001313 The drosophila pumilio gene codes for an unusual protein that binds through the Puf domain that usually occurs as a tandem repeat of eight domains Back     alignment and domain information
>smart00025 Pumilio Pumilio-like repeats Back     alignment and domain information
>PRK05686 fliG flagellar motor switch protein G; Validated Back     alignment and domain information
>TIGR00207 fliG flagellar motor switch protein FliG Back     alignment and domain information
>PF08144 CPL: CPL (NUC119) domain; InterPro: IPR012959 This C-terminal domain is found in Penguin-like proteins (CPL) and is associated with Pumilio like repeats [] Back     alignment and domain information
>PF04286 DUF445: Protein of unknown function (DUF445); InterPro: IPR007383 This entry contains proteins of unknown function Back     alignment and domain information
>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

Homologous Structure Templates

Structure Templates Detected by BLAST ?

Original result of BLAST against Protein Data Bank

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query823
3gvo_A351 Structure And Rna Binding Of The Mouse Pumilio-2 Pu 1e-113
3q0q_A351 Crystal Structure Of The Pumilio-Homology Domain Fr 1e-112
1ib2_A349 Crystal Structure Of A Pumilio-Homology Domain Leng 1e-110
1ib2_A 349 Crystal Structure Of A Pumilio-Homology Domain Leng 2e-07
3bsb_A343 Crystal Structure Of Human Pumilio1 In Complex With 1e-109
3bsb_A 343 Crystal Structure Of Human Pumilio1 In Complex With 2e-07
2yjy_A350 A Specific And Modular Binding Code For Cytosine Re 1e-108
2yjy_A 350 A Specific And Modular Binding Code For Cytosine Re 2e-07
3h3d_X323 Drosophila Pumilio Rna Binding Domain (Puf Domain) 1e-102
3h3d_X323 Drosophila Pumilio Rna Binding Domain (Puf Domain) 1e-21
3k49_A369 Puf3 Rna Binding Domain Bound To Cox17 Rna 3' Utr R 1e-75
3bx3_A335 Puf4 T650cC724R MUTANT BOUND TO COX17 RNA 3' UTR Re 4e-42
4dzs_A357 Crystal Structure Of Yeast Puf4p Rna Binding Domain 3e-40
3bx2_A335 Puf4 Rna Binding Domain Bound To Ho Endonuclease Rn 7e-40
3bwt_A333 Crystal Structure Of The Rna Binding Domain Of Puf4 8e-40
3k5q_A412 Crystal Structure Of Fbf-2FBE COMPLEX Length = 412 1e-29
3qg9_A413 Crystal Structure Of Fbf-2GLD-1 Fbea A7u Mutant Com 1e-29
3qgb_A413 Crystal Structure Of Fbf-2 R288y Mutant In Complex 1e-28
3v71_A382 Crystal Structure Of Puf-6 In Complex With 5be13 Rn 7e-23
>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 =  406 bits (1043), Expect = e-113,   Method: Compositional matrix adjust.
 Identities = 192/338 (56%), Positives = 255/338 (75%), Gaps = 2/338 (0%)
Query: 474 SSLLDEFKTNKTRSFELSDIVDHVVEFSTDQYGSRFIQQKLEAATAEEKTRIFPEIIPHA 533
           S LL++F+ N+  + +L D++ H+VEFS DQ+GSRFIQQKLE AT  E+  +F EI+  A
Sbjct: 5   SRLLEDFRNNRFPNLQLRDLIGHIVEFSQDQHGSRFIQQKLERATPAERQIVFNEILQAA 64
Query: 534 RTLMTDVFGNYVIQKFFEHGTESQRAQLASQLTGHVLRLSLQMYGCRVIQKALEVVHVDQ 593
             LMTDVFGNYVIQKFFE G+  Q+  LA+++ GHVL L+LQMYGCRVIQKALE +  DQ
Sbjct: 65  YQLMTDVFGNYVIQKFFEFGSLDQKLALATRIRGHVLPLALQMYGCRVIQKALESISSDQ 124
Query: 594 QTQMVAELDGSVMKCVHDQNGNHVIQKCIECIPQDRIQFIISSFYGQVVALSTHPYGCRV 653
           Q++MV ELDG V+KCV DQNGNHV+QKCIEC+    +QFII +F GQV  LSTHPYGCRV
Sbjct: 125 QSEMVKELDGHVLKCVKDQNGNHVVQKCIECVQPQSLQFIIDAFKGQVFVLSTHPYGCRV 184
Query: 654 IQRVLEHCDDANTQQIIMDEIMQHVCNLAQDQYGNYVIQHVLEHGKPHERTTVITQLAGQ 713
           IQR+LEHC    T   I++E+ QH   L QDQYGNYVIQHVLEHG+P +++ +++++ G+
Sbjct: 185 IQRILEHCTAEQTLP-ILEELHQHTEQLVQDQYGNYVIQHVLEHGRPEDKSKIVSEIRGK 243
Query: 714 IVRMSQQKFASNVVEKCLTFGSPEERQLLINEMLGSTD-ENEPLQAMMKDPFGNYVVQKV 772
           ++ +SQ KFASNVVEKC+T  S  ER LLI+E+    D  +  L  MMKD + NYVVQK+
Sbjct: 244 VLALSQHKFASNVVEKCVTHASRAERALLIDEVCCQNDGPHSALYTMMKDQYANYVVQKM 303
Query: 773 LETCDDQSLELILSRIRVHLNVLKKYTYGKHIVSRIEK 810
           ++  +    ++I+ +IR H+  L+KYTYGKHI++++EK
Sbjct: 304 IDMAEPAQRKIIMHKIRPHITTLRKYTYGKHILAKLEK 341
>pdb|3Q0Q|A Chain A, Crystal Structure Of The Pumilio-Homology Domain From Human Pumilio2 In Complex With P38alpha Nrea Length = 351 Back     alignment and structure
>pdb|1IB2|A Chain A, Crystal Structure Of A Pumilio-Homology Domain Length = 349 Back     alignment and structure
>pdb|1IB2|A Chain A, Crystal Structure Of A Pumilio-Homology Domain Length = 349 Back     alignment and structure
>pdb|3BSB|A Chain A, Crystal Structure Of Human Pumilio1 In Complex With Cyclinb Reverse Rna Length = 343 Back     alignment and structure
>pdb|3BSB|A Chain A, Crystal Structure Of Human Pumilio1 In Complex With Cyclinb Reverse Rna Length = 343 Back     alignment and structure
>pdb|2YJY|A Chain A, A Specific And Modular Binding Code For Cytosine Recognition In Puf Domains Length = 350 Back     alignment and structure
>pdb|2YJY|A Chain A, A Specific And Modular Binding Code For Cytosine Recognition In Puf Domains Length = 350 Back     alignment and structure
>pdb|3H3D|X Chain X, Drosophila Pumilio Rna Binding Domain (Puf Domain) Length = 323 Back     alignment and structure
>pdb|3H3D|X Chain X, Drosophila Pumilio Rna Binding Domain (Puf Domain) Length = 323 Back     alignment and structure
>pdb|3K49|A Chain A, Puf3 Rna Binding Domain Bound To Cox17 Rna 3' Utr Recognition Sequence Site B Length = 369 Back     alignment and structure
>pdb|3BX3|A Chain A, Puf4 T650cC724R MUTANT BOUND TO COX17 RNA 3' UTR Recognition Sequence Length = 335 Back     alignment and structure
>pdb|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|3K5Q|A Chain A, Crystal Structure Of Fbf-2FBE COMPLEX Length = 412 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|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 ?
Query823
3gvo_A351 Pumilio 2, pumilio homolog 2; RNA-binding, PUF dom 1e-169
3gvo_A351 Pumilio 2, pumilio homolog 2; RNA-binding, PUF dom 1e-68
3k49_A369 MRNA-binding protein PUF3; PUF3, pumilio, RNA bind 1e-162
3k49_A369 MRNA-binding protein PUF3; PUF3, pumilio, RNA bind 5e-17
3bwt_A333 Protein PUF4; pumilio, RNA binding, HO endonucleas 1e-141
3bwt_A333 Protein PUF4; pumilio, RNA binding, HO endonucleas 8e-64
3bwt_A333 Protein PUF4; pumilio, RNA binding, HO endonucleas 9e-39
3v71_A382 PUF (pumilio/FBF) domain-containing protein 7, CO 1e-127
3v71_A382 PUF (pumilio/FBF) domain-containing protein 7, CO 1e-48
3v71_A 382 PUF (pumilio/FBF) domain-containing protein 7, CO 7e-36
3v71_A382 PUF (pumilio/FBF) domain-containing protein 7, CO 5e-31
3k62_A412 FEM-3 mRNA-binding factor 2; FBF, FEM-3 binding fa 1e-119
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 2e-12
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 4e-12
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 1e-05
>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 =  493 bits (1271), Expect = e-169
 Identities = 193/344 (56%), Positives = 255/344 (74%), Gaps = 2/344 (0%)

Query: 470 GRLSSSLLDEFKTNKTRSFELSDIVDHVVEFSTDQYGSRFIQQKLEAATAEEKTRIFPEI 529
           G   S LL++F+ N+  + +L D++ H+VEFS DQ+GSRFIQQKLE AT  E+  +F EI
Sbjct: 1   GTGRSRLLEDFRNNRFPNLQLRDLIGHIVEFSQDQHGSRFIQQKLERATPAERQIVFNEI 60

Query: 530 IPHARTLMTDVFGNYVIQKFFEHGTESQRAQLASQLTGHVLRLSLQMYGCRVIQKALEVV 589
           +  A  LMTDVFGNYVIQKFFE G+  Q+  LA+++ GHVL L+LQMYGCRVIQKALE +
Sbjct: 61  LQAAYQLMTDVFGNYVIQKFFEFGSLDQKLALATRIRGHVLPLALQMYGCRVIQKALESI 120

Query: 590 HVDQQTQMVAELDGSVMKCVHDQNGNHVIQKCIECIPQDRIQFIISSFYGQVVALSTHPY 649
             DQQ++MV ELDG V+KCV DQNGNHV+QKCIEC+    +QFII +F GQV  LSTHPY
Sbjct: 121 SSDQQSEMVKELDGHVLKCVKDQNGNHVVQKCIECVQPQSLQFIIDAFKGQVFVLSTHPY 180

Query: 650 GCRVIQRVLEHCDDANTQQIIMDEIMQHVCNLAQDQYGNYVIQHVLEHGKPHERTTVITQ 709
           GCRVIQR+LEHC    T  I+ +E+ QH   L QDQYGNYVIQHVLEHG+P +++ ++++
Sbjct: 181 GCRVIQRILEHCTAEQTLPIL-EELHQHTEQLVQDQYGNYVIQHVLEHGRPEDKSKIVSE 239

Query: 710 LAGQIVRMSQQKFASNVVEKCLTFGSPEERQLLINEMLGSTDENE-PLQAMMKDPFGNYV 768
           + G+++ +SQ KFASNVVEKC+T  S  ER LLI+E+    D     L  MMKD + NYV
Sbjct: 240 IRGKVLALSQHKFASNVVEKCVTHASRAERALLIDEVCCQNDGPHSALYTMMKDQYANYV 299

Query: 769 VQKVLETCDDQSLELILSRIRVHLNVLKKYTYGKHIVSRIEKLI 812
           VQK+++  +    ++I+ +IR H+  L+KYTYGKHI++++EK  
Sbjct: 300 VQKMIDMAEPAQRKIIMHKIRPHITTLRKYTYGKHILAKLEKYY 343
>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
>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
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221 Back     alignment and structure
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221 Back     alignment and structure
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221 Back     alignment and structure

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query823
3gvo_A351 Pumilio 2, pumilio homolog 2; RNA-binding, PUF dom 100.0
3k49_A369 MRNA-binding protein PUF3; PUF3, pumilio, RNA bind 100.0
3k62_A412 FEM-3 mRNA-binding factor 2; FBF, FEM-3 binding fa 100.0
3v71_A382 PUF (pumilio/FBF) domain-containing protein 7, CO 100.0
3bwt_A333 Protein PUF4; pumilio, RNA binding, HO endonucleas 100.0
3gvo_A351 Pumilio 2, pumilio homolog 2; RNA-binding, PUF dom 100.0
3bwt_A333 Protein PUF4; pumilio, RNA binding, HO endonucleas 100.0
3k49_A369 MRNA-binding protein PUF3; PUF3, pumilio, RNA bind 100.0
3k62_A412 FEM-3 mRNA-binding factor 2; FBF, FEM-3 binding fa 100.0
3v71_A382 PUF (pumilio/FBF) domain-containing protein 7, CO 100.0
>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=4e-65  Score=562.08  Aligned_cols=343  Identities=56%  Similarity=0.952  Sum_probs=328.7

Q ss_pred             hhhHHHHHhhccccccccHhhhHHHHHHHhhCCCcCHHHHHHhhhCCHHHHHHHHHHHhHhHHHhhccccccchhhHhhh
Q 003398          472 LSSSLLDEFKTNKTRSFELSDIVDHVVEFSTDQYGSRFIQQKLEAATAEEKTRIFPEIIPHARTLMTDVFGNYVIQKFFE  551 (823)
Q Consensus       472 ~~s~LLeef~s~e~k~~~L~eI~GkiveLA~Dq~GSRvLQ~lLe~~s~Eqr~~If~EL~~~~~~L~tD~~GshVIQKLLe  551 (823)
                      -||.|+|+|+.++.+.+.++++.|+++++|+||+|||+||++|+.+++++++.||+|+.+++.+||+|+||||||||+|+
T Consensus         3 ~~~~l~e~~r~~~~~~~~l~~~~g~i~~la~dq~gsR~lQ~~l~~~~~~~~~~i~~ei~~~~~~L~~d~~gn~vvQklle   82 (351)
T 3gvo_A            3 GRSRLLEDFRNNRFPNLQLRDLIGHIVEFSQDQHGSRFIQQKLERATPAERQIVFNEILQAAYQLMTDVFGNYVIQKFFE   82 (351)
T ss_dssp             CCCHHHHHHHTTCCTTCCGGGGTTCHHHHHTSHHHHHHHHHHHHHCCHHHHHHHHHHHGGGHHHHHTSTTHHHHHHHHHH
T ss_pred             CccHHHHHHhCCCCCCcCHHHHHhHHHHHhcCCcchHHHHHHHhhCCHHHHHHHHHHHHHhHHHHHhChhhhHHHHHHHh
Confidence            47899999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cCCHHHHHHHHHHHhhhHHHhhhccccchHHHHhhhhcChHHHHHHHHhhhhhHHHHhhcccCChHHHHHHHhCChhhHH
Q 003398          552 HGTESQRAQLASQLTGHVLRLSLQMYGCRVIQKALEVVHVDQQTQMVAELDGSVMKCVHDQNGNHVIQKCIECIPQDRIQ  631 (823)
Q Consensus       552 ~~s~eqr~~Li~~L~g~~~~Ls~h~yGSrVVQklLe~~~~eq~~~Ll~EL~~~i~~LvkDq~GnhVIQk~Le~~~~e~~~  631 (823)
                      +++++++..|++.+.+++.+|+.|+|||||||++|+.++.+++..|++||.+++..|++|++||||||+||++.+++.+.
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             HHHHhhhhhhhHhhcCcCcchhHHHHHhhCCCHHHHHHHHHHHHHHHHHHhcCCCccHHHHHHHhcCCchhHHHHHHHhH
Q 003398          632 FIISSFYGQVVALSTHPYGCRVIQRVLEHCDDANTQQIIMDEIMQHVCNLAQDQYGNYVIQHVLEHGKPHERTTVITQLA  711 (823)
Q Consensus       632 ~Ii~~f~g~l~~Ls~hk~Gs~VVQklLe~~~~~~~~~~Il~eLl~~l~~La~DqyGNyVVQ~lLe~~~~~~r~~Ii~~L~  711 (823)
                      +|++.+.+++..|++|+|||+|||++|+++. ++.+..|++++.+++..|++|+|||||||++|+++.++.++.|++.+.
T Consensus       163 ~i~~~~~~~~~~ls~~~~G~~Vvq~~le~~~-~~~~~~ii~~l~~~~~~L~~d~~Gn~ViQ~~l~~~~~~~~~~i~~~l~  241 (351)
T 3gvo_A          163 FIIDAFKGQVFVLSTHPYGCRVIQRILEHCT-AEQTLPILEELHQHTEQLVQDQYGNYVIQHVLEHGRPEDKSKIVSEIR  241 (351)
T ss_dssp             HHHHHTTTTHHHHHTSTTHHHHHHHHHHHSC-HHHHHHHHHHHHTTHHHHHTSTTHHHHHHHHHHHSCHHHHHHHHHTTT
T ss_pred             HHHHHHHHHHHHHHhCcHhHHHHHHHHHHCC-HHHHHHHHHHHhhhHHhcCCCchHHHHHHHHHHhCchhhHHHHHHHHH
Confidence            9999999999999999999999999999986 455677999999999999999999999999999999999999999999


Q ss_pred             HhHHhhcCCchHHHHHHHHHhhCCHHHHHHHHHHHhcCCCC-chhHHHhhcCcchHHHHHHHHhcCChhHHHHHHHHHHH
Q 003398          712 GQIVRMSQQKFASNVVEKCLTFGSPEERQLLINEMLGSTDE-NEPLQAMMKDPFGNYVVQKVLETCDDQSLELILSRIRV  790 (823)
Q Consensus       712 g~iv~Ls~~K~GS~VVEkcL~~a~~k~Rk~Ii~eLl~~~~~-~e~L~~La~D~~GnyVIqklL~~~ddt~rk~Il~eLk~  790 (823)
                      ++++.|+++||||+|||+||+++++++|+.|+++|+...++ .+.+..|+.|+|||||||++|+.+++++|+.|+++|++
T Consensus       242 ~~~~~Ls~~k~gs~Vvek~l~~~~~~~r~~ii~el~~~~~~~~~~l~~l~~d~ygnyViq~~L~~~~~~~r~~i~~~i~~  321 (351)
T 3gvo_A          242 GKVLALSQHKFASNVVEKCVTHASRAERALLIDEVCCQNDGPHSALYTMMKDQYANYVVQKMIDMAEPAQRKIIMHKIRP  321 (351)
T ss_dssp             TCHHHHHTSTTHHHHHHHHHHHSCHHHHHHHHHHHHSCEETTEEHHHHHHHSTTHHHHHHHHHHHCCHHHHHHHHHHHGG
T ss_pred             HHHHHHhcCcHHHHHHHHHHHhCCHHHHHHHHHHHhcccCCCChHHHHccCCcchHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999964221 24799999999999999999999999999999999999


Q ss_pred             hHHHHhhCCCchHHHHHHHHHHHcC
Q 003398          791 HLNVLKKYTYGKHIVSRIEKLIATG  815 (823)
Q Consensus       791 ~L~~La~~~yGk~Vl~~lek~~~~g  815 (823)
                      ++..|+.++||++|++++|+++...
T Consensus       322 ~~~~L~~~~~g~~i~~kl~~~~~~~  346 (351)
T 3gvo_A          322 HITTLRKYTYGKHILAKLEKYYLKN  346 (351)
T ss_dssp             GHHHHTTSTTTHHHHHHHHHHTC--
T ss_pred             HHHHHhcCCchHHHHHHHHHHHhhc
Confidence            9999999999999999999998643
>3k49_A MRNA-binding protein PUF3; PUF3, pumilio, RNA binding, mitochondrial mRNA,, membrane, mitochondrion; HET: CIT; 2.50A {Saccharomyces cerevisiae} SCOP: a.118.1.0 PDB: 3k4e_A Back     alignment and structure
>3k62_A FEM-3 mRNA-binding factor 2; FBF, FEM-3 binding factor, PUF, RNA-binding specificity, base flipping, base stacking; 1.90A {Caenorhabditis elegans} PDB: 3k5y_A 3k5z_A 3k61_A 3k5q_A 3k64_A 3qg9_A 3v6y_A 3v74_A 3qgc_A 3qgb_A Back     alignment and structure
>3v71_A PUF (pumilio/FBF) domain-containing protein 7, CO transcript evidence; PUF repeats, RNA binding protein-RNA complex; HET: EPE; 2.90A {Caenorhabditis elegans} Back     alignment and structure
>3bwt_A Protein PUF4; pumilio, RNA binding, HO endonuclease, transcription, RNA binding protein; 2.69A {Saccharomyces cerevisiae} PDB: 4dzs_A 3bx2_A 3bx3_A Back     alignment and structure
>3gvo_A Pumilio 2, pumilio homolog 2; RNA-binding, PUF domain, RNA binding protein; HET: DTD; 1.60A {Mus musculus} SCOP: a.118.1.8 PDB: 3gvt_A 3q0q_A 3q0r_A 3q0s_A 1ib2_A 1m8w_A 1m8x_A 1m8y_A 1m8z_A 3q0l_A 3q0m_A 3q0n_A 3q0o_A 3q0p_A 2yjy_A 3bsx_A 3bsb_A 3h3d_X Back     alignment and structure
>3bwt_A Protein PUF4; pumilio, RNA binding, HO endonuclease, transcription, RNA binding protein; 2.69A {Saccharomyces cerevisiae} PDB: 4dzs_A 3bx2_A 3bx3_A Back     alignment and structure
>3k49_A MRNA-binding protein PUF3; PUF3, pumilio, RNA binding, mitochondrial mRNA,, membrane, mitochondrion; HET: CIT; 2.50A {Saccharomyces cerevisiae} SCOP: a.118.1.0 PDB: 3k4e_A Back     alignment and structure
>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 823
d1m8za_339 a.118.1.8 (A:) Pumilio 1 {Human (Homo sapiens) [Ta 1e-120
d1m8za_ 339 a.118.1.8 (A:) Pumilio 1 {Human (Homo sapiens) [Ta 8e-15
>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 =  365 bits (937), Expect = e-120
 Identities = 189/342 (55%), Positives = 250/342 (73%), Gaps = 4/342 (1%)

Query: 470 GRLSSSLLDEFKTNKTRSFELSDIVDHVVEFSTDQYGSRFIQQKLEAATAEEKTRIFPEI 529
           GR  S LL++F+ N+  + +L +I  H++EFS DQ+GSRFIQ KLE AT  E+  +F EI
Sbjct: 1   GR--SRLLEDFRNNRYPNLQLREIAGHIMEFSQDQHGSRFIQLKLERATPAERQLVFNEI 58

Query: 530 IPHARTLMTDVFGNYVIQKFFEHGTESQRAQLASQLTGHVLRLSLQMYGCRVIQKALEVV 589
           +  A  LM DVFGNYVIQKFFE G+  Q+  LA ++ GHVL L+LQMYGCRVIQKALE +
Sbjct: 59  LQAAYQLMVDVFGNYVIQKFFEFGSLEQKLALAERIRGHVLSLALQMYGCRVIQKALEFI 118

Query: 590 HVDQQTQMVAELDGSVMKCVHDQNGNHVIQKCIECIPQDRIQFIISSFYGQVVALSTHPY 649
             DQQ +MV ELDG V+KCV DQNGNHV+QKCIEC+    +QFII +F GQV ALSTHPY
Sbjct: 119 PSDQQNEMVRELDGHVLKCVKDQNGNHVVQKCIECVQPQSLQFIIDAFKGQVFALSTHPY 178

Query: 650 GCRVIQRVLEHCDDANTQQIIMDEIMQHVCNLAQDQYGNYVIQHVLEHGKPHERTTVITQ 709
           GCRVIQR+LEHC   +    I++E+ QH   L QDQYGNYVIQHVLEHG+P +++ ++ +
Sbjct: 179 GCRVIQRILEHCLP-DQTLPILEELHQHTEQLVQDQYGNYVIQHVLEHGRPEDKSKIVAE 237

Query: 710 LAGQIVRMSQQKFASNVVEKCLTFGSPEERQLLINEMLGSTDENE-PLQAMMKDPFGNYV 768
           + G ++ +SQ KFASNVVEKC+T  S  ER +LI+E+    D     L  MMKD + NYV
Sbjct: 238 IRGNVLVLSQHKFASNVVEKCVTHASRTERAVLIDEVCTMNDGPHSALYTMMKDQYANYV 297

Query: 769 VQKVLETCDDQSLELILSRIRVHLNVLKKYTYGKHIVSRIEK 810
           VQK+++  +    ++++ +IR H+  L+KYTYGKHI++++EK
Sbjct: 298 VQKMIDVAEPGQRKIVMHKIRPHIATLRKYTYGKHILAKLEK 339
>d1m8za_ a.118.1.8 (A:) Pumilio 1 {Human (Homo sapiens) [TaxId: 9606]} Length = 339 Back     information, alignment and structure

Homologous Domains Detected by HHsearch ?

Original result of HHsearch against SCOP70(version1.75) database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query823
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=1.7e-58  Score=501.60  Aligned_cols=337  Identities=55%  Similarity=0.951  Sum_probs=324.0

Q ss_pred             hhHHHHHhhccccccccHhhhHHHHHHHhhCCCcCHHHHHHhhhCCHHHHHHHHHHHhHhHHHhhccccccchhhHhhhc
Q 003398          473 SSSLLDEFKTNKTRSFELSDIVDHVVEFSTDQYGSRFIQQKLEAATAEEKTRIFPEIIPHARTLMTDVFGNYVIQKFFEH  552 (823)
Q Consensus       473 ~s~LLeef~s~e~k~~~L~eI~GkiveLA~Dq~GSRvLQ~lLe~~s~Eqr~~If~EL~~~~~~L~tD~~GshVIQKLLe~  552 (823)
                      |++|++||+.++.+.++|++++|+++++|+||+|||+||++|++++++++..||++|.+++.+||+|+||||||||++++
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             CCHHHHHHHHHHHhhhHHHhhhccccchHHHHhhhhcChHHHHHHHHhhhhhHHHHhhcccCChHHHHHHHhCChhhHHH
Q 003398          553 GTESQRAQLASQLTGHVLRLSLQMYGCRVIQKALEVVHVDQQTQMVAELDGSVMKCVHDQNGNHVIQKCIECIPQDRIQF  632 (823)
Q Consensus       553 ~s~eqr~~Li~~L~g~~~~Ls~h~yGSrVVQklLe~~~~eq~~~Ll~EL~~~i~~LvkDq~GnhVIQk~Le~~~~e~~~~  632 (823)
                      ++++++..|++.+.+++.+|+.|+|||+|||++++.+..+++..+++||.+++..+++|++|+||++++++..+++.+++
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             HHHhhhhhhhHhhcCcCcchhHHHHHhhCCCHHHHHHHHHHHHHHHHHHhcCCCccHHHHHHHhcCCchhHHHHHHHhHH
Q 003398          633 IISSFYGQVVALSTHPYGCRVIQRVLEHCDDANTQQIIMDEIMQHVCNLAQDQYGNYVIQHVLEHGKPHERTTVITQLAG  712 (823)
Q Consensus       633 Ii~~f~g~l~~Ls~hk~Gs~VVQklLe~~~~~~~~~~Il~eLl~~l~~La~DqyGNyVVQ~lLe~~~~~~r~~Ii~~L~g  712 (823)
                      |++.+.+.+.++++|++||+++|++++.+. ++.+..+++++.+.+..|++|+|||||+|++|+++.++.++.|++.|++
T Consensus       162 i~~~~~~~~~~l~~~~~g~~vlq~~l~~~~-~~~~~~l~~~l~~~~~~L~~~~~G~~vvq~~l~~~~~~~~~~i~~~l~~  240 (339)
T d1m8za_         162 IIDAFKGQVFALSTHPYGCRVIQRILEHCL-PDQTLPILEELHQHTEQLVQDQYGNYVIQHVLEHGRPEDKSKIVAEIRG  240 (339)
T ss_dssp             HHHHTTTTHHHHHTSTTHHHHHHHHHHHSC-HHHHHHHHHHHHHTHHHHTTSTTHHHHHHHHHHHSCHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHhCcchhHHHHHHHhcCC-HHHHHHHHHHHHHHHHHHHhCccHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            999999999999999999999999999985 5567789999999999999999999999999999999999999999999


Q ss_pred             hHHhhcCCchHHHHHHHHHhhCCHHHHHHHHHHHhcCCC-CchhHHHhhcCcchHHHHHHHHhcCChhHHHHHHHHHHHh
Q 003398          713 QIVRMSQQKFASNVVEKCLTFGSPEERQLLINEMLGSTD-ENEPLQAMMKDPFGNYVVQKVLETCDDQSLELILSRIRVH  791 (823)
Q Consensus       713 ~iv~Ls~~K~GS~VVEkcL~~a~~k~Rk~Ii~eLl~~~~-~~e~L~~La~D~~GnyVIqklL~~~ddt~rk~Il~eLk~~  791 (823)
                      ++.+|+++++||+|||+|++.++++.|+.++++++...+ .++.+..|+.|+|||||||++|+++++++++.|+++|+++
T Consensus       241 ~~~~l~~~k~gS~vve~~l~~~~~~~~~~~~~~l~~~~~~~~~~l~~L~~d~~gn~Viq~~l~~~~~~~~~~i~~~l~~~  320 (339)
T d1m8za_         241 NVLVLSQHKFASNVVEKCVTHASRTERAVLIDEVCTMNDGPHSALYTMMKDQYANYVVQKMIDVAEPGQRKIVMHKIRPH  320 (339)
T ss_dssp             CHHHHHTSTTHHHHHHHHHHHSCHHHHHHHHHHHHHCEETTEEHHHHHHTSTTHHHHHHHHHHHSCHHHHHHHHHTTGGG
T ss_pred             hHHHHHcchhHHHHHHHHHHhCCHHHHHHHHHHHHhcccCchHHHHHHHcCCcccHHHHHHHHhCCHHHHHHHHHHHHHH
Confidence            999999999999999999999999999999999975432 2467999999999999999999999999999999999999


Q ss_pred             HHHHhhCCCchHHHHHHHH
Q 003398          792 LNVLKKYTYGKHIVSRIEK  810 (823)
Q Consensus       792 L~~La~~~yGk~Vl~~lek  810 (823)
                      +.+|+.++||++|+++++|
T Consensus       321 ~~~L~~~~~G~~v~~~l~~  339 (339)
T d1m8za_         321 IATLRKYTYGKHILAKLEK  339 (339)
T ss_dssp             HHHHTTSSTHHHHHHHHC-
T ss_pred             HHHHhcCCcHHHHHHHHhC
Confidence            9999999999999999875
>d1m8za_ a.118.1.8 (A:) Pumilio 1 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure