Citrus Sinensis ID: 006165

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-------66
MAAKNRPETNKPVKRIFAKTEPSNPASKKPKLAGSKPSEVSQSKDFKKPFNPDKRKQKPFKSELQKTDGNKEKNQSLTKRELRLRAKELAEARKKKRKRHYDLELELASLWEKMRQRNIAKETRSKLISEALQKMKGKIPEIAGSHVSSRVLQTCVKYCSQAERDAVFEELQPHFLSLADNTYAVHLVKKMLDNASKKQLAGFISALHGHVASLLRHMVGSVVVEHAYQLGNATQKQELLVELYSTELQLFKNLVSIKESRLVDVISKLGLQKASVLRHMASVIQPILEKGIIDHSIIHRVLMEYLSMADKSSAADIIQQLSGPLLVRMIHTRDGSKIGMLCVKHGSAKERKKIIKGMKGHIGKVAHDQCGSMVLLCIVSIVDDTKLIAKIIIRELQSIIKELVMDKNGRRVLLQLLHPNCSRYLSPDDLSSLNLSIPSLCAKEGSEVNSEAKNNESSKEMADQEVVAVQADESTSPAENLPLAEGGKKDPRVRRQELLVSSGLAESMIDVCIENAGELLRSNFGKEVLYEVAKGGSDDILRPTLDDKLNTLHETIASLASESKSEASEEEHVLENFHSSRTIRKLVMDCPKFASTLWKNALKGKSEFWAQGHSCKVVTAFLESSDFKVRELAKTELQPLIDSGSLKIPEAKQLPKEV
ccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHccHHHHHccccccHHHHHHHHHHccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHcccHHHHHHHHHHHcccccEEEEccccccccHHHHHHHHccccHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHccHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHccccccccccHHHHHHHHHccccHHHHccccccHHHHcccHHHHHHHHHHHHHHHcccccccccccccccccccHHHHHHHHHHHHccHHHHHHHHHHHHHHHHHcccHHHHHHHHHHccccccccccHHHHHHHHHHHHHHHHHccccccccHHHHHccccHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHcccccHHHHHHHccccHHHHHHHHHHHHHHHHcccccccccccccccc
ccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEEEcccccccHHHHHHcccccHHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHcccccccHccHHHHHHHHHHHHHccHHHHHHcccHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHcHHHHHHHHHHHHHccHHHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHccHHHHHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHccHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHcHHHHHHHHHHHHcccHHHHHHHHHHcccHHHHHHHHHcHHHHHHHHHHccccccHcccHHHHHHHcccEEEEccccccEEEEEccccccccccccHHHHHHHHHHcccHHHHHHHHHHccHcHHHccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccEEEcccHHHHHHHHHHHHHHHccccccccccccHccccHHHHHHHHHHccHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHccccHHHHHHHHHHHHHHHHccccEccccccccccc
maaknrpetnkpvkrifaktepsnpaskkpklagskpsevsqskdfkkpfnpdkrkqkpfkselqktdgnkeknqSLTKRELRLRAKELAEARKKKRKRHYDLELELASLWEKMRQRNIAKETRSKLISEALQKMKgkipeiagshvSSRVLQTCVKYCSQAERDAVFEELQPHFLSLADNTYAVHLVKKMLDNASKKQLAGFISALHGHVASLLRHMVGSVVVEHAYQLGNATQKQELLVELYSTELQLFKNLVSIKESRLVDVISKLGLQKASVLRHMASVIQPIlekgiidhSIIHRVLMEYLSMADKSSAADIIQQLSGPLLVRMIHTRDGSKIGMLCVKHGSAKERKKIIKGMkghigkvahdqCGSMVLLCIVSIVDDTKLIAKIIIRELQSIIKELVMDKNGRRVLLQLLhpncsrylspddlsslnlsipslcakegsevnseaknnesskemADQEVVAvqadestspaenlplaeggkkdprvRRQELLVSSGLAESMIDVCIENAGELLRSNFGKEVLYEVAkggsddilrptldDKLNTLHETIASLASeskseaseeEHVLENFHSSRTIRKLVMDCPKFASTLWKNALKGKSEFWAQGHSCKVVTAFLESSDFKVRELAKTelqplidsgslkipeakqlpkev
maaknrpetnkpvkrifaktepsnpaskkpklagskpsevsqskdfkkpfnpdkrkqkpfkselqktdgnkeknqsltkrelRLRAKELAearkkkrkrhydlelelaslWEKMRQRNIAKETRSKLISEALQKMKGKIpeiagshvssrVLQTCVKYCSQAERDAVFEELQPHFLSLADNTYAVHLVKKMLDNASKKQLAGFISALHGHVASLLRHMVGSVVVEHAYQLGNATQKQELLVELYSTELQLFKNLVSIKESRLVDVISKLGLQKASVLRHMASVIQPILEKGIIDHSIIHRVLMEYLSMADKSSAADIIQQLSGPLLVRMIHTRDGSKIGMLCVKHGSAKERKKIIKGMKGHIGKVAHDQCGSMVLLCIVSIVDDTKLIAKIIIRELQSIIKELVMDKNGRRVLLQLLHPNCSRYLSPDDLSSLNLSIPSLCAKEGSEVNSEAKNNESSKEMADQEVVAVQAdestspaenlplaeggkkdprvrRQELLVSSGLAESMIDVCIENAGELLRSNFGKEVLYEVAkggsddilrpTLDDKLNTLHETIASLaseskseaseeEHVLenfhssrtiRKLVMDCPKFASTLWKNALKGKSEFWAQGHSCKVVTAFLESSDFKVRELAKTelqplidsgslkipeakqlpkev
MAAKNRPETNKPVKRIFAKTEPSNPASKKPKLAGSKPSEVSQSKDFKKPFNPDKRKQKPFKSELQKTDGNKEKNQSLTkrelrlrakelaearkkkrkrHYDLELELASLWEKMRQRNIAKETRSKLISEALQKMKGKIPEIAGSHVSSRVLQTCVKYCSQAERDAVFEELQPHFLSLADNTYAVHLVKKMLDNASKKQLAGFISALHGHVASLLRHMVGSVVVEHAYQLGNATQKQELLVELYSTELQLFKNLVSIKESRLVDVISKLGLQKASVLRHMASVIQPILEKGIIDHSIIHRVLMEYLSMADKSSAADIIQQLSGPLLVRMIHTRDGSKIGMLCVKHGSAKERkkiikgmkghigkVAHDQCGSMVLLCIVSIVDDTKLIAKIIIRELQSIIKELVMDKNGRRVLLQLLHPNCSRYlspddlsslnlsipslCAKEGSEVNSEAKNNESSKEMADQEVVAVQADESTSPAENLPLAEGGKKDPRVRRQELLVSSGLAESMIDVCIENAGELLRSNFGKEVLYEVAKGGSDDILRPTLDDKLNTLHETIaslaseskseaseeeHVLENFHSSRTIRKLVMDCPKFASTLWKNALKGKSEFWAQGHSCKVVTAFLESSDFKVRELAKTELQPLIDSGSLKIPEAKQLPKEV
******************************************************************************************************LELELASLWE****************************EIAGSHVSSRVLQTCVKYCSQAERDAVFEELQPHFLSLADNTYAVHLVKKMLDNASKKQLAGFISALHGHVASLLRHMVGSVVVEHAYQLGNATQKQELLVELYSTELQLFKNLVSIKESRLVDVISKLGLQKASVLRHMASVIQPILEKGIIDHSIIHRVLMEYLSMADKSSAADIIQQLSGPLLVRMIHTRDGSKIGMLCVKHGSAKERKKIIKGMKGHIGKVAHDQCGSMVLLCIVSIVDDTKLIAKIIIRELQSIIKELVMDKNGRRVLLQLLHPNCSRYLSP***********************************************************************LVSSGLAESMIDVCIENAGELLRSNFGKEVLYEVAKGGSDDILRPTLD*******************************HSSRTIRKLVMDCPKFASTLWKNALKGKSEFWAQGHSCKVVTAFLESSDFKVRELA*************************
***********************************************************************************************************ASLW****************ISEALQKMKGKIPEIAGSHVSSRVLQTCVKYCSQAERDAVFEELQPHFLSLADNTYAVHLVKKMLDNASKKQLAGFISALHGHVASLLRHMVGSVVVEHAYQLGNATQKQELLVELYSTELQLFKNLVSIKESRLVDVISKLGLQKASVLRHMASVIQPILEKGIIDHSIIHRVLMEYLSMADKSSAADIIQQLSGPLLVRMIHTRDGSKIGMLCVKHGSAKERKKIIKGMKGHIGKVAHDQCGSMVLLCIVSIVDDTKLIAKIIIRELQSIIKELVMDKNGRRVLLQLLHPNCSRYLSPDDLSSLNLSIPSLCAKEGSEVNSEAKNNESSKEMADQEVVAVQADESTSPAENLPLAEGGKKDPRVRRQELLVSSGLAESMIDVCIENAGELLRSNFGKEVLYEVAKGGSDDILRPTLDDKLNTLHETI*****************LENFHSSRTIRKLVMDCPKFASTLWKNALKGKSEFWAQGHSCKVVTAFLESSDFKV*EL**************************
***********PVKRIFAKT**************************KKPFNPDKRKQKPFKSELQKTDGNKEKNQSLTKRELRLRAKELAEARKKKRKRHYDLELELASLWEKMRQRNIAKETRSKLISEALQKMKGKIPEIAGSHVSSRVLQTCVKYCSQAERDAVFEELQPHFLSLADNTYAVHLVKKMLDNASKKQLAGFISALHGHVASLLRHMVGSVVVEHAYQLGNATQKQELLVELYSTELQLFKNLVSIKESRLVDVISKLGLQKASVLRHMASVIQPILEKGIIDHSIIHRVLMEYLSMADKSSAADIIQQLSGPLLVRMIHTRDGSKIGMLCVKHGSAKERKKIIKGMKGHIGKVAHDQCGSMVLLCIVSIVDDTKLIAKIIIRELQSIIKELVMDKNGRRVLLQLLHPNCSRYLSPDDLSSLNLSIPSLCAK*********************EVVAVQADESTSPAENLPLAEGGKKDPRVRRQELLVSSGLAESMIDVCIENAGELLRSNFGKEVLYEVAKGGSDDILRPTLDDKLNTLHETIASLA****************FHSSRTIRKLVMDCPKFASTLWKNALKGKSEFWAQGHSCKVVTAFLESSDFKVRELAKTELQPLIDSGSLKIPEAKQLPKEV
****************************************************DKRKQKPFKSELQKTDGNKEKNQSLTKRELRLRAKELAEARKKKRKRHYDLELELASLWEKMRQRNIAKETRSKLISEALQKMKGKIPEIAGSHVSSRVLQTCVKYCSQAERDAVFEELQPHFLSLADNTYAVHLVKKMLDNASKKQLAGFISALHGHVASLLRHMVGSVVVEHAYQLGNATQKQELLVELYSTELQLFKNLVSIKESRLVDVISKLGLQKASVLRHMASVIQPILEKGIIDHSIIHRVLMEYLSMADKSSAADIIQQLSGPLLVRMIHTRDGSKIGMLCVKHGSAKERKKIIKGMKGHIGKVAHDQCGSMVLLCIVSIVDDTKLIAKIIIRELQSIIKELVMDKNGRRVLLQLLHPNCSRYLSPDDLSSLNLSIPSLCAKEGSEVNSEAKNNESSKEMADQEVVAVQADESTSPAENLPLAEGGKKDPRVRRQELLVSSGLAESMIDVCIENAGELLRSNFGKEVLYEVAKGGSDDILRPTLDDKLNTLHETIASLASESKSEASEEEHVLENFHSSRTIRKLVMDCPKFASTLWKNALKGKSEFWAQGHSCKVVTAFLESSDFKVRELAKTELQPLIDSGSLKIPE********
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MAAKNRPETNKPVKRIFAKTEPSNPASKKPKLAGSKPSEVSQSKDFKKPFNPDKRKQKPFKSELQKTDGNKEKNQSLTxxxxxxxxxxxxxxxxxxxxxHYDLELELASLWEKMRQRNIAKETRSKLISEALQKMKGKIPEIAGSHVSSRVLQTCVKYCSQAERDAVFEELQPHFLSLADNTYAVHLVKKMLDNASKKQLAGFISALHGHVASLLRHMVGSVVVEHAYQLGNATQKQELLVELYSTELQLFKNLVSIKESRLVDVISKLGLQKASVLRHMASVIQPILEKGIIDHSIIHRVLMEYLSMADKSSAADIIQQLSGPLLVRMIHTRDGSKIGMLCVKHGSAKERKKIIKGMKGHIGKVAHDQCGSMVLLCIVSIVDDTKLIAKIIIRELQSIIKELVMDKNGRRVLLQLLHPNCSRYLSPDDLSSLNLSIPSLCAKEGSEVNSEAKNNESSKEMADQEVVAVQADESTSPAENLPLAEGGKKDPRVRRQELLVSSGLAESMIDVCIENAGELLRSNFGKEVLYEVAKGGSDDILRPTLDDKLNTLHETIASLASESKSEASEEEHVLENFHSSRTIRKLVMDCPKFASTLWKNALKGKSEFWAQGHSCKVVTAFLESSDFKVRELAKTELQPLIDSGSLKIPEAKQLPKEV
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 ?
Query658 2.2.26 [Sep-21-2011]
Q9LRZ3641 Pumilio homolog 24 OS=Ara yes no 0.922 0.946 0.623 0.0
Q562C7647 Pumilio domain-containing yes no 0.632 0.642 0.327 9e-57
Q15397648 Pumilio domain-containing yes no 0.744 0.756 0.287 3e-51
Q8BKS9647 Pumilio domain-containing yes no 0.629 0.639 0.312 4e-50
Q9UU76642 Pumilio homology domain f yes no 0.721 0.739 0.263 2e-43
Q04373656 Pumilio homology domain f yes no 0.680 0.682 0.256 2e-41
Q09622766 Pumilio domain-containing yes no 0.547 0.469 0.297 2e-40
O61345737 Protein penguin OS=Drosop yes no 0.501 0.447 0.261 8e-32
Q9LJX4961 Pumilio homolog 5 OS=Arab no no 0.428 0.293 0.223 8e-12
Q146711186 Pumilio homolog 1 OS=Homo no no 0.472 0.262 0.207 2e-06
>sp|Q9LRZ3|PUM24_ARATH Pumilio homolog 24 OS=Arabidopsis thaliana GN=APUM24 PE=2 SV=1 Back     alignment and function desciption
 Score =  766 bits (1978), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 394/632 (62%), Positives = 496/632 (78%), Gaps = 25/632 (3%)

Query: 27  SKKPKLAGSKPSEVSQSKDFKKPFNPDKRKQKPFKSELQKTDGNKEKNQSLTKRELRLRA 86
           SKKPKL   +  +  + K F KP                K+ G+KE++ +L+K+E R++A
Sbjct: 28  SKKPKLVSGEQQQHVKPK-FGKP----------------KSAGDKEQSTNLSKKERRVQA 70

Query: 87  KELAEARKKKRKRHYDLELELASLWEKMRQRNIAKETRSKLISEALQKMKGKIPEIAGSH 146
           KEL EARKKKRK HY+LE EL SLWEKMR+RNI KE RSKLISEA++KMKGK+PEIA SH
Sbjct: 71  KELTEARKKKRKPHYNLEQELVSLWEKMRRRNIGKEDRSKLISEAIRKMKGKVPEIAVSH 130

Query: 147 VSSRVLQTCVKYCSQAERDAVFEELQPHFLSLADNTYAVHLVKKMLDNASKKQLAGFISA 206
           VSSRVLQTCVK+CSQAE+D +F ELQP FL+LA N YAVH ++KMLD ASK+QLA  IS+
Sbjct: 131 VSSRVLQTCVKFCSQAEKDVLFTELQPQFLNLASNKYAVHFIQKMLDGASKQQLAACISS 190

Query: 207 LHGHVASLLRHMVGSVVVEHAYQLGNATQKQELLVELYSTELQLFKNLVSIKESRLVDVI 266
           L GHVA LLRH+ GS+VVEHAY LG+A QKQELL ELYSTELQLFK L +  E  +VD+I
Sbjct: 191 LRGHVAPLLRHVFGSLVVEHAYHLGSAAQKQELLAELYSTELQLFKGLTTSNEKTVVDII 250

Query: 267 SKLGLQKASVLRHMASVIQPILEKGIIDHSIIHRVLMEYLSMADKSSAADIIQQLSGPLL 326
           +KLGLQK +V RHM ++IQPILEKGI+DH+I H++L+EYL++ADK+SAAD++Q L+G LL
Sbjct: 251 AKLGLQKGAVNRHMTAIIQPILEKGIVDHTITHKLLIEYLTIADKTSAADVLQLLTGSLL 310

Query: 327 VRMIHTRDGSKIGMLCVKHGSAKERKKIIKGMKGHIGKVAHDQCGSMVLLCIVSIVDDTK 386
           +RM+HTRDGS++ ML +KHGSAKERKKIIK MK H+ K+A DQ GSMVL CI SIVDDTK
Sbjct: 311 LRMVHTRDGSRLAMLSIKHGSAKERKKIIKAMKEHVKKMAFDQFGSMVLACIFSIVDDTK 370

Query: 387 LIAKIIIRELQSIIKELVMDKNGRRVLLQLLHPNCSRYLSPDDLSSLNLSIPSLCAKEGS 446
           L+ KII+REL++ +K+LVMDKNGRR LLQLLHPN SRYLS DDL++L+LS+PSLC+ + S
Sbjct: 371 LVTKIIVRELEATLKDLVMDKNGRRPLLQLLHPNSSRYLSHDDLAALDLSVPSLCSMDKS 430

Query: 447 EVNSEAKN---NESSKEMADQEVVAVQADESTSPAENLPLAEGGKKDPRVRRQELLVSSG 503
           E +S+ K+   NE  +E  D++   V   E +   EN+  A GGKKDP VRRQELLV+SG
Sbjct: 431 ETSSKTKDTDGNEIGEETKDEQEDTVA--EHSDHEENVT-AMGGKKDPLVRRQELLVNSG 487

Query: 504 LAESMIDVCIENAGELLRSNFGKEVLYEVAKGGSDDILRPTLDDKLNTLHETIASLASES 563
           LAE +IDVC+ENA E L+S FG EV+YEVA GGSD IL P+L +KL  L+E I+S+A+E 
Sbjct: 488 LAERLIDVCVENAEEFLQSKFGNEVMYEVAIGGSDGILCPSLSEKLCELYEAISSVAAEP 547

Query: 564 KSEASEE--EHVLENFHSSRTIRKLVMDCPKFASTLWKNALKGKSEFWAQGHSCKVVTAF 621
           K + SE+  EH+LENFHSSRTIR+LV++ P FAS L+K AL GK   WAQGH  K+++AF
Sbjct: 548 KPQESEKDSEHILENFHSSRTIRRLVLNRPGFASILFKKALSGKCRSWAQGHCSKILSAF 607

Query: 622 LESSDFKVRELAKTELQPLIDSGSLKIPEAKQ 653
           +E+ D +VRE+AKTELQ L++ G+LKI   K+
Sbjct: 608 VETEDVQVREMAKTELQVLVNEGTLKISATKK 639
Sequence-specific RNA-binding protein that regulates translation and mRNA stability by binding the 3'-UTR of target mRNAs.
Arabidopsis thaliana (taxid: 3702)
>sp|Q562C7|K0020_RAT Pumilio domain-containing protein KIAA0020 homolog OS=Rattus norvegicus PE=2 SV=1 Back     alignment and function description
>sp|Q15397|K0020_HUMAN Pumilio domain-containing protein KIAA0020 OS=Homo sapiens GN=KIAA0020 PE=1 SV=3 Back     alignment and function description
>sp|Q8BKS9|K0020_MOUSE Pumilio domain-containing protein KIAA0020 OS=Mus musculus GN=Kiaa0020 PE=2 SV=2 Back     alignment and function description
>sp|Q9UU76|PUF6_SCHPO Pumilio homology domain family member 6 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=puf6 PE=1 SV=1 Back     alignment and function description
>sp|Q04373|PUF6_YEAST Pumilio homology domain family member 6 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=PUF6 PE=1 SV=1 Back     alignment and function description
>sp|Q09622|PUF12_CAEEL Pumilio domain-containing protein 12 OS=Caenorhabditis elegans GN=puf-12 PE=4 SV=1 Back     alignment and function description
>sp|O61345|PEN_DROME Protein penguin OS=Drosophila melanogaster GN=pen PE=2 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|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 ?
Query658
225431818651 PREDICTED: pumilio homolog 24-like [Viti 0.984 0.995 0.733 0.0
296083316662 unnamed protein product [Vitis vinifera] 0.987 0.981 0.729 0.0
147770751662 hypothetical protein VITISV_016047 [Viti 0.987 0.981 0.726 0.0
224130364655 predicted protein [Populus trichocarpa] 0.983 0.987 0.698 0.0
224107038655 predicted protein [Populus trichocarpa] 0.978 0.983 0.7 0.0
356564394637 PREDICTED: pumilio homolog 24-like isofo 0.890 0.919 0.723 0.0
449464736658 PREDICTED: pumilio homolog 24-like [Cucu 0.940 0.940 0.692 0.0
356521819634 PREDICTED: pumilio homolog 24-like isofo 0.882 0.916 0.726 0.0
255551869613 Protein penguin, putative [Ricinus commu 0.924 0.991 0.680 0.0
356564396601 PREDICTED: pumilio homolog 24-like isofo 0.838 0.918 0.678 0.0
>gi|225431818|ref|XP_002271110.1| PREDICTED: pumilio homolog 24-like [Vitis vinifera] Back     alignment and taxonomy information
 Score =  937 bits (2421), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 481/656 (73%), Positives = 544/656 (82%), Gaps = 8/656 (1%)

Query: 1   MAAKNRPETNKPVKR---IFAKTEPSNPASKKPKLAGSKPSEVSQSKDFKKPFNPDKRKQ 57
           MAAK + ++NK  KR       ++     SKKPKL  SK S    +K   KPF   K +Q
Sbjct: 1   MAAKTQ-QSNKSNKRKQITGPHSKSDTSPSKKPKLLQSKSSNPG-NKGLNKPFKSFK-QQ 57

Query: 58  KPFKSELQKTDGNKEKNQSLTKRELRLRAKELAEARKKKRKRHYDLELELASLWEKMRQR 117
           +P KS   K +         +KRE RL AKEL EARKKKRK+HY LE ELASLWEKMR+R
Sbjct: 58  RPVKSHSGKLETAGANEGPKSKRERRLHAKELTEARKKKRKKHYTLEQELASLWEKMRRR 117

Query: 118 NIAKETRSKLISEALQKMKGKIPEIAGSHVSSRVLQTCVKYCSQAERDAVFEELQPHFLS 177
           NIAKE RS+L+SEAL KMKGKIPEIAGSHVSSRVLQTCVKYC+QAERDAVFEELQP  L+
Sbjct: 118 NIAKEDRSRLVSEALHKMKGKIPEIAGSHVSSRVLQTCVKYCTQAERDAVFEELQPQLLT 177

Query: 178 LADNTYAVHLVKKMLDNASKKQLAGFISALHGHVASLLRHMVGSVVVEHAYQLGNATQKQ 237
           LA NTYAVHLVKKMLDNASKK LA F+S+LHGHVASLLRHMVGSVVVEHAYQLGNATQKQ
Sbjct: 178 LACNTYAVHLVKKMLDNASKKHLAAFMSSLHGHVASLLRHMVGSVVVEHAYQLGNATQKQ 237

Query: 238 ELLVELYSTELQLFKNLVSIKESRLVDVISKLGLQKASVLRHMASVIQPILEKGIIDHSI 297
           ELL+ELY+TELQLFK+L S+KESRL+DVISKLGLQK SVLRHM+SVIQPILEKGI+DHSI
Sbjct: 238 ELLMELYATELQLFKDLASVKESRLIDVISKLGLQKGSVLRHMSSVIQPILEKGIVDHSI 297

Query: 298 IHRVLMEYLSMADKSSAADIIQQLSGPLLVRMIHTRDGSKIGMLCVKHGSAKERKKIIKG 357
           IHR LMEYLS+ADKSSAA++IQQLSG LLVRMIHTRDGS+IG+LC+KHGSAKERKKIIKG
Sbjct: 298 IHRALMEYLSIADKSSAAEVIQQLSGALLVRMIHTRDGSRIGLLCIKHGSAKERKKIIKG 357

Query: 358 MKGHIGKVAHDQCGSMVLLCIVSIVDDTKLIAKIIIRELQSIIKELVMDKNGRRVLLQLL 417
           MKGHI K+AHDQCGSMVL  I+S VDDTKL+ K+IIRELQ+I+KEL++DKNGRRVLLQLL
Sbjct: 358 MKGHIDKIAHDQCGSMVLAYILSTVDDTKLLTKVIIRELQAILKELLLDKNGRRVLLQLL 417

Query: 418 HPNCSRYLSPDDLSSLNLSIPSLCAKEGSEVNSEAKNNESSKEMADQEVVAVQADESTSP 477
           HPNCSRY SP+DL S NLSIPSL  KE     ++   +E +K   D EV   +A+E+TSP
Sbjct: 418 HPNCSRYFSPEDLVSFNLSIPSLSPKEAKSSKTKESGDEETK--GDLEVTTAEANENTSP 475

Query: 478 AENLPLAEGGKKDPRVRRQELLVSSGLAESMIDVCIENAGELLRSNFGKEVLYEVAKGGS 537
           +E+  +AEGGKKDP +RRQELLV SGLAE++ID CIE+AGELLRSNFGKEV+YEVA GG+
Sbjct: 476 SESHHIAEGGKKDPNLRRQELLVDSGLAENLIDTCIESAGELLRSNFGKEVMYEVATGGA 535

Query: 538 DDILRPTLDDKLNTLHETIASLASESKSEASEEEHVLENFHSSRTIRKLVMDCPKFASTL 597
             ILRP LD+KL+ LH  IASLA++ KSE SEEEHVLENFHSSRTIRKLV+DCP FASTL
Sbjct: 536 GGILRPALDEKLDALHGAIASLAAQPKSEESEEEHVLENFHSSRTIRKLVLDCPTFASTL 595

Query: 598 WKNALKGKSEFWAQGHSCKVVTAFLESSDFKVRELAKTELQPLIDSGSLKIPEAKQ 653
           WK AL GK E WAQGHS KVV AFLE+SD +V ELAK ELQPLIDSG LKIPE KQ
Sbjct: 596 WKIALGGKCEMWAQGHSHKVVLAFLEASDSEVCELAKGELQPLIDSGILKIPETKQ 651

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|296083316|emb|CBI22952.3| unnamed protein product [Vitis vinifera] Back     alignment and taxonomy information
>gi|147770751|emb|CAN62467.1| hypothetical protein VITISV_016047 [Vitis vinifera] Back     alignment and taxonomy information
>gi|224130364|ref|XP_002328590.1| predicted protein [Populus trichocarpa] gi|222838572|gb|EEE76937.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
>gi|224107038|ref|XP_002314353.1| predicted protein [Populus trichocarpa] gi|222863393|gb|EEF00524.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
>gi|356564394|ref|XP_003550439.1| PREDICTED: pumilio homolog 24-like isoform 1 [Glycine max] Back     alignment and taxonomy information
>gi|449464736|ref|XP_004150085.1| PREDICTED: pumilio homolog 24-like [Cucumis sativus] Back     alignment and taxonomy information
>gi|356521819|ref|XP_003529548.1| PREDICTED: pumilio homolog 24-like isoform 1 [Glycine max] Back     alignment and taxonomy information
>gi|255551869|ref|XP_002516980.1| Protein penguin, putative [Ricinus communis] gi|223544068|gb|EEF45594.1| Protein penguin, putative [Ricinus communis] Back     alignment and taxonomy information
>gi|356564396|ref|XP_003550440.1| PREDICTED: pumilio homolog 24-like isoform 2 [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 ?
Query658
TAIR|locus:2086760641 PUM24 "pumilio 24" [Arabidopsi 0.952 0.978 0.548 2.1e-173
UNIPROTKB|E2RBF2648 KIAA0020 "Uncharacterized prot 0.477 0.484 0.330 3e-55
UNIPROTKB|Q15397648 KIAA0020 "Pumilio domain-conta 0.607 0.617 0.306 4.2e-53
UNIPROTKB|E1C1R5638 KIAA0020 "Uncharacterized prot 0.613 0.633 0.277 7.6e-53
RGD|1564753647 LOC499339 "hypothetical protei 0.586 0.596 0.320 8.7e-51
UNIPROTKB|A2VDN9647 KIAA0020 "Uncharacterized prot 0.579 0.588 0.312 1.1e-50
MGI|MGI:106253647 D19Bwg1357e "DNA segment, Chr 0.586 0.596 0.305 2.3e-50
ZFIN|ZDB-GENE-030131-9808601 si:ch211-241o7.5 "si:ch211-241 0.618 0.677 0.292 2.6e-49
UNIPROTKB|F1SJG9647 LOC100152831 "Uncharacterized 0.617 0.627 0.305 4.2e-49
DICTYBASE|DDB_G0288551679 DDB_G0288551 "pumilio RNA-bind 0.621 0.602 0.272 1.3e-46
TAIR|locus:2086760 PUM24 "pumilio 24" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 1685 (598.2 bits), Expect = 2.1e-173, P = 2.1e-173
 Identities = 356/649 (54%), Positives = 450/649 (69%)

Query:    11 KPVKRIFAKTEPSNPASKKPKLAGSKPSEVS-QSKDFKKPFNPDKRKQKPFKSELQKTDG 69
             KP K    K + ++ ++K   L   KP  VS + +   KP     +  KP      K+ G
Sbjct:     7 KPQKS--TKRKDTDSSAKFDSLKSKKPKLVSGEQQQHVKP-----KFGKP------KSAG 53

Query:    70 NKEKNQSLTXXXXXXXXXXXXXXXXXXXXXHYDLELELASLWEKMRQRNIAKETRSKLIS 129
             +KE++ +L+                     HY+LE EL SLWEKMR+RNI KE RSKLIS
Sbjct:    54 DKEQSTNLSKKERRVQAKELTEARKKKRKPHYNLEQELVSLWEKMRRRNIGKEDRSKLIS 113

Query:   130 EALQKMKGKIPEIAGSHVSSRVLQTCVKYCSQAERDAVFEELQPHFLSLADNTYAVHLVK 189
             EA++KMKGK+PEIA SHVSSRVLQTCVK+CSQAE+D +F ELQP FL+LA N YAVH ++
Sbjct:   114 EAIRKMKGKVPEIAVSHVSSRVLQTCVKFCSQAEKDVLFTELQPQFLNLASNKYAVHFIQ 173

Query:   190 KMLDNASKKQLAGFISALHGHVASLLRHMVGSVVVEHAYQLGNATQKQELLVELYSTELQ 249
             KMLD ASK+QLA  IS+L GHVA LLRH+ GS+VVEHAY LG+A QKQELL ELYSTELQ
Sbjct:   174 KMLDGASKQQLAACISSLRGHVAPLLRHVFGSLVVEHAYHLGSAAQKQELLAELYSTELQ 233

Query:   250 LFKNLVSIKESRLVDVISKLGLQKASVLRHMASVIQPILEKGIIDHSIIHRVLMEYLSMA 309
             LFK L +  E  +VD+I+KLGLQK +V RHM ++IQPILEKGI+DH+I H++L+EYL++A
Sbjct:   234 LFKGLTTSNEKTVVDIIAKLGLQKGAVNRHMTAIIQPILEKGIVDHTITHKLLIEYLTIA 293

Query:   310 DKSSAADIIQQLSGPLLVRMIHTRDGSKIGMLCVKHGSAKERXXXXXXXXXXXXXVAHDQ 369
             DK+SAAD++Q L+G LL+RM+HTRDGS++ ML +KHGSAKER             +A DQ
Sbjct:   294 DKTSAADVLQLLTGSLLLRMVHTRDGSRLAMLSIKHGSAKERKKIIKAMKEHVKKMAFDQ 353

Query:   370 CGSMVLLCIVSIVDDTKLIAKIIIRELQSIIKELVMDKNGRRVLLQLLHPNCSRYXXXXX 429
              GSMVL CI SIVDDTKL+ KII+REL++ +K+LVMDKNGRR LLQLLHPN SRY     
Sbjct:   354 FGSMVLACIFSIVDDTKLVTKIIVRELEATLKDLVMDKNGRRPLLQLLHPNSSRYLSHDD 413

Query:   430 XXXXXXXXXXXCAKEGSEVNSEAKN---NESSKEMADQEVVAVQADESTSPAENLPLAEG 486
                        C+ + SE +S+ K+   NE  +E  D++   V   E +   EN+  A G
Sbjct:   414 LAALDLSVPSLCSMDKSETSSKTKDTDGNEIGEETKDEQEDTVA--EHSDHEENVT-AMG 470

Query:   487 GKKDPRVRRQELLVSSGLAESMIDVCIENAGELLRSNFGKEVLYEVAKGGSDDILRPTLD 546
             GKKDP VRRQELLV+SGLAE +IDVC+ENA E L+S FG EV+YEVA GGSD IL P+L 
Sbjct:   471 GKKDPLVRRQELLVNSGLAERLIDVCVENAEEFLQSKFGNEVMYEVAIGGSDGILCPSLS 530

Query:   547 DKLNTLHETIXXXXXXXX--XXXXXXXHVLENFHSSRTIRKLVMDCPKFASTLWKNALKG 604
             +KL  L+E I                 H+LENFHSSRTIR+LV++ P FAS L+K AL G
Sbjct:   531 EKLCELYEAISSVAAEPKPQESEKDSEHILENFHSSRTIRRLVLNRPGFASILFKKALSG 590

Query:   605 KSEFWAQGHSCKVVTAFLESSDFKVRELAKTELQPLIDSGSLKIPEAKQ 653
             K   WAQGH  K+++AF+E+ D +VRE+AKTELQ L++ G+LKI   K+
Sbjct:   591 KCRSWAQGHCSKILSAFVETEDVQVREMAKTELQVLVNEGTLKISATKK 639
GO:0003723 "RNA binding" evidence=IEA;ISS
GO:0005634 "nucleus" evidence=ISM
GO:0005730 "nucleolus" evidence=IDA
GO:0005829 "cytosol" evidence=RCA
GO:0001510 "RNA methylation" evidence=RCA
GO:0006406 "mRNA export from nucleus" evidence=RCA
GO:0006606 "protein import into nucleus" evidence=RCA
UNIPROTKB|E2RBF2 KIAA0020 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)] Back     alignment and assigned GO terms
UNIPROTKB|Q15397 KIAA0020 "Pumilio domain-containing protein KIAA0020" [Homo sapiens (taxid:9606)] Back     alignment and assigned GO terms
UNIPROTKB|E1C1R5 KIAA0020 "Uncharacterized protein" [Gallus gallus (taxid:9031)] Back     alignment and assigned GO terms
RGD|1564753 LOC499339 "hypothetical protein LOC499339" [Rattus norvegicus (taxid:10116)] Back     alignment and assigned GO terms
UNIPROTKB|A2VDN9 KIAA0020 "Uncharacterized protein" [Bos taurus (taxid:9913)] Back     alignment and assigned GO terms
MGI|MGI:106253 D19Bwg1357e "DNA segment, Chr 19, Brigham & Women's Genetics 1357 expressed" [Mus musculus (taxid:10090)] Back     alignment and assigned GO terms
ZFIN|ZDB-GENE-030131-9808 si:ch211-241o7.5 "si:ch211-241o7.5" [Danio rerio (taxid:7955)] Back     alignment and assigned GO terms
UNIPROTKB|F1SJG9 LOC100152831 "Uncharacterized protein" [Sus scrofa (taxid:9823)] Back     alignment and assigned GO terms
DICTYBASE|DDB_G0288551 DDB_G0288551 "pumilio RNA-binding region-containing protein" [Dictyostelium discoideum (taxid:44689)] 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) ?
Q9LRZ3PUM24_ARATHNo assigned EC number0.62340.92240.9469yesno

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:
GSVIVG00033058001
SubName- Full=Chromosome chr5 scaffold_64, whole genome shotgun sequence; (658 aa)
(Vitis vinifera)
Predicted Functional Partners:
GSVIVG00028481001
SubName- Full=Chromosome chr7 scaffold_44, whole genome shotgun sequence; (316 aa)
   ••   0.619
GSVIVG00021307001
SubName- Full=Chromosome chr8 scaffold_23, whole genome shotgun sequence; (586 aa)
   ••   0.587
GSVIVG00021672001
SubName- Full=Chromosome chr8 scaffold_23, whole genome shotgun sequence; (315 aa)
   ••   0.571
GSVIVG00021349001
SubName- Full=Chromosome chr8 scaffold_23, whole genome shotgun sequence; (905 aa)
   •    0.567
GSVIVG00033408001
SubName- Full=Chromosome chr19 scaffold_66, whole genome shotgun sequence; (430 aa)
   ••   0.554
GSVIVG00020673001
SubName- Full=Chromosome chr14 scaffold_21, whole genome shotgun sequence; (607 aa)
   •    0.552
GSVIVG00018070001
SubName- Full=Chromosome chr13 scaffold_17, whole genome shotgun sequence; (540 aa)
   •    0.551
GSVIVG00019376001
SubName- Full=Chromosome chr7 scaffold_20, whole genome shotgun sequence; (1041 aa)
   •    0.545
GSVIVG00018638001
SubName- Full=Chromosome chr12 scaffold_18, whole genome shotgun sequence; (452 aa)
   •    0.540
GSVIVG00038815001
SubName- Full=Chromosome chr5 scaffold_98, whole genome shotgun sequence; (1139 aa)
   •    0.535

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 ?
Query658
cd07920322 cd07920, Pumilio, Pumilio-family RNA binding domai 1e-10
cd07920322 cd07920, Pumilio, Pumilio-family RNA binding domai 4e-08
cd07920322 cd07920, Pumilio, Pumilio-family RNA binding domai 6e-08
>gnl|CDD|153420 cd07920, Pumilio, Pumilio-family RNA binding domain Back     alignment and domain information 
 Score = 63.4 bits (155), Expect = 1e-10
 Identities = 61/301 (20%), Positives = 125/301 (41%), Gaps = 41/301 (13%)

Query: 131 ALQKMK-GKIPEIAGSHVSSRVLQTCVKYCSQAERDAVFEELQPHFLSLADNTYAVHLVK 189
            LQ +K G I E A     SR LQ  ++  +  E++ +F+E+ PH + L  + +  ++++
Sbjct: 3   TLQDIKAGHIVEFAKDQHGSRFLQQKLEEATPEEKELIFDEILPHVVELMVDPFGNYVIQ 62

Query: 190 KMLDNASKKQLAGFISALHGHVASLLRHMVGSVVVEHAYQLGNATQKQELLVELYSTELQ 249
           K+ ++ +++Q    +  + GHV  L   M G  V++   +  +  Q   L+ EL    ++
Sbjct: 63  KLFEHGTEEQRLQLLEKILGHVVRLSLDMYGCRVIQKLLESISEEQISLLVKELRGHVVE 122

Query: 250 LFKNLVSIKESRLVD-----VISKLGLQKASVLRHM---ASVIQPILEKGIIDHS----I 297
           L K           D     VI K  ++K           +     +   +  H     +
Sbjct: 123 LVK-----------DQNGNHVIQKC-IEKFPPEDLQFIIDAFKGNCVA--LSTHPYGCRV 168

Query: 298 IHRVLMEYLSMADKSSAADIIQQLSGPLLVRMIHTRDGSKIGMLCVKHGSAKERKKIIKG 357
           I R L E+ S   +    + I +      + ++  + G+ +    ++ G   +  +II+ 
Sbjct: 169 IQRCL-EHCSEEQREPLLEEILE----HALELVQDQFGNYVVQHVLELGDPDDTSRIIEK 223

Query: 358 MKGHIGKVAHDQCGSMVLLCIVSIVDDTKLIAKIIIRELQSIIKELVMDKNGRRVLLQLL 417
           + G+I +++  +  S V       V+  K +      E + II E++   N    L  L+
Sbjct: 224 LLGNIVQLSCHKFASNV-------VE--KCLKHASKEERELIIDEILASGNETSALDTLM 274

Query: 418 H 418
            
Sbjct: 275 K 275

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|153420 cd07920, Pumilio, Pumilio-family RNA binding domain Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 658
KOG2050652 consensus Puf family RNA-binding protein [Translat 100.0
cd07920322 Pumilio Pumilio-family RNA binding domain. Puf rep 100.0
cd07920322 Pumilio Pumilio-family RNA binding domain. Puf rep 100.0
KOG1488503 consensus Translational repressor Pumilio/PUF3 and 100.0
PF08144148 CPL: CPL (NUC119) domain; InterPro: IPR012959 This 99.95
KOG1488503 consensus Translational repressor Pumilio/PUF3 and 99.94
COG5099777 RNA-binding protein of the Puf family, translation 99.94
KOG2050652 consensus Puf family RNA-binding protein [Translat 99.92
KOG2049536 consensus Translational repressor MPT5/PUF4 and re 99.92
KOG2049536 consensus Translational repressor MPT5/PUF4 and re 99.9
COG5099777 RNA-binding protein of the Puf family, translation 99.9
KOG2188650 consensus Predicted RNA-binding protein, contains 99.89
KOG2188650 consensus Predicted RNA-binding protein, contains 99.71
KOG45741007 consensus RNA-binding protein (contains RRM and Pu 98.65
PF0080635 PUF: Pumilio-family RNA binding repeat; InterPro: 98.29
KOG45741007 consensus RNA-binding protein (contains RRM and Pu 98.26
smart0002536 Pumilio Pumilio-like repeats. Pumilio-like repeats 97.99
PF0080635 PUF: Pumilio-family RNA binding repeat; InterPro: 97.78
smart0002536 Pumilio Pumilio-like repeats. Pumilio-like repeats 97.59
KOG1059 877 consensus Vesicle coat complex AP-3, delta subunit 81.51
>KOG2050 consensus Puf family RNA-binding protein [Translation, ribosomal structure and biogenesis] Back     alignment and domain information 
Probab=100.00  E-value=6.4e-100  Score=810.45  Aligned_cols=522  Identities=39%  Similarity=0.600  Sum_probs=468.4

Q ss_pred             chHHHHHHHHHHHHHHHhccCCchhHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHhchHHHhhccCCccHHHHHhhh
Q 006165           78 TKRELRLRAKELAEARKKKRKRHYDLELELASLWEKMRQRNIAKETRSKLISEALQKMKGKIPEIAGSHVSSRVLQTCVK  157 (658)
Q Consensus        78 ~~~e~~~~~kel~~~rk~~~k~~~~~~~~~k~iwE~lr~k~~~~eeR~~lv~~l~~~ikg~i~~la~~~~gSRvlQ~lLk  157 (658)
                      .+.|.|+++|+|.++||+++ |+|++.+++++|||+||++++++|+|.++|+++|+.++|++.++++.||+|||||+|++
T Consensus       106 ~~~~~~~e~K~l~kerK~~r-p~~~~~qe~kslWEkLR~k~~~ke~R~klv~el~~likg~i~~lv~aHDtSRViQt~Vk  184 (652)
T KOG2050|consen  106 DGGEFRKERKKLLKERKSKR-PTYEISQEAKSLWEKLRRKTTPKEERDKLVSELYKLIKGKISKLVFAHDTSRVIQTCVK  184 (652)
T ss_pred             ccccchHHHHHHHHHHHhcC-ChhHHHHHHHHHHHHHhccCCcHHHHHHHHHHHHHHHhhhHHHHHHHhhhHHHHHHHHH
Confidence            45667999999999999977 99999999999999999999999999999999999999999999999999999999999


Q ss_pred             hCCHHHHHHHHHHHHHHHHHhhcccchhHHHHHHHhcCCHHHHHHHHHHHHHhHHHHhhccccchHHHHHHh-hCCHHHH
Q 006165          158 YCSQAERDAVFEELQPHFLSLADNTYAVHLVKKMLDNASKKQLAGFISALHGHVASLLRHMVGSVVVEHAYQ-LGNATQK  236 (658)
Q Consensus       158 ~gs~eqr~~I~~eL~~~~~~L~~d~yg~~vVqKLl~~~s~eqr~~Ii~~~~g~v~~L~~h~~Gs~Vvq~l~~-~a~~~qr  236 (658)
                      ||++++|++||++|.|.+++||+++||.|+|||||.||+++|++.||++|+||++.|++|+.|++||+++|+ +++..||
T Consensus       185 y~s~~~r~~if~eL~p~~v~l~kskY~k~~v~KmLkyGsk~q~a~iI~sl~Ghv~kLlRH~eaa~Vve~ay~~~A~l~Qr  264 (652)
T KOG2050|consen  185 YGSEAQREQIFEELLPFFVELAKSKYAKFFVQKMLKYGSKAQKAKIINSLRGHVVKLLRHREAAYVVEYAYNDFATLEQR  264 (652)
T ss_pred             hcCHHHHHHHHHHHhHHHHHHHHhHHHHHHHHHHHhcCCHHHHHHHHHHHhhhHHHHHhhhHHHHHHHHHHHhhccHHHH
Confidence            999999999999999999999999999999999999999999999999999999999999999999999998 7999999


Q ss_pred             HHHHHHHHHhHHhhhcccCCCchhHHHHHHhhhhhhHHHHHHhHHHHHHHHHhcCCCchhHHHHHHHHHHhhCChhHHHH
Q 006165          237 QELLVELYSTELQLFKNLVSIKESRLVDVISKLGLQKASVLRHMASVIQPILEKGIIDHSIIHRVLMEYLSMADKSSAAD  316 (658)
Q Consensus       237 ~~li~e~~g~~~~l~~d~~g~~~~~L~~il~~~~~kr~~il~~~~~~iq~ileK~~~~~~lvh~~l~ey~~~~~~~~~~e  316 (658)
                      ..|+.||||++|++|++.+   ..+|.++|+..|+++..|+++|..+|+++++|+.++++++|.+|++||++|+++++.+
T Consensus       265 ~~li~EfYG~efqlfK~sn---~~Tl~kil~~~pekk~~I~~~l~~~I~~v~eKg~v~~tivHk~mlEy~~~ade~e~~e  341 (652)
T KOG2050|consen  265 QYLIQEFYGDEFQLFKDSN---DKTLDKILAEAPEKKASILRHLKAIITPVAEKGSVDHTIVHKLMLEYLTIADEEEKSE  341 (652)
T ss_pred             HHHHHHHhhHHHHHHhccC---cccHHHHHHhChHhHHHHHHHHHHHhHHHhhcchhHHHHHHHHHHHHHHhCCHHHHHH
Confidence            9999999999999999965   8999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHhcchhhHHHhhcCcchhHHHHHHHhhCCHHHHHHHHHHHHHHHHhhhcCCchhHHHHHHHhhcCchHHHHHHHHHHH
Q 006165          317 IIQQLSGPLLVRMIHTRDGSKIGMLCVKHGSAKERKKIIKGMKGHIGKVAHDQCGSMVLLCIVSIVDDTKLIAKIIIREL  396 (658)
Q Consensus       317 lI~~L~~~~l~~L~~tk~GS~Vv~~~L~~~~~K~Rk~Iik~lk~~l~~La~d~~G~~Vlq~lL~~~ddt~l~~k~I~~eL  396 (658)
                      +++.+. +.+++|+||++||+|++.|||+++||+|+.|+++|++|+..+|.|+|||+|+.++|+|+|||+++++.|++++
T Consensus       342 ~l~ll~-elv~e~vHT~dGS~vAm~li~~a~aKeRK~IiK~~K~h~~K~A~~~yGh~vlia~ldc~DDT~l~kk~i~~e~  420 (652)
T KOG2050|consen  342 LLELLK-ELVPEMVHTRDGSRVAMKLIWHATAKERKLIIKNMKEHVEKIANDEYGHLVLIALLDCTDDTKLLKKLIYDEL  420 (652)
T ss_pred             HHHHHH-HHHHHHhcCCchHHHHHHHHhhCCHHHHHHHHHHHHHHHHHHHhhccCceehhhhhcccchHHHHHHHHHHHH
Confidence            999999 5589999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhhhCcCcHHHHHHHcCCCCCCCCCHHHHHhhhhcccccccccCcccchhhcccchhhhhhHHHHHhhhccCCCC
Q 006165          397 QSIIKELVMDKNGRRVLLQLLHPNCSRYLSPDDLSSLNLSIPSLCAKEGSEVNSEAKNNESSKEMADQEVVAVQADESTS  476 (658)
Q Consensus       397 ~~~l~~L~~~~~Gr~Vll~LL~~~~~r~f~p~~~~~L~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  476 (658)
                      .+++..|..|+|||+|++||+.|+|++||+|+.++.|.+.                                        
T Consensus       421 ~~el~~li~Dk~Grrv~lyll~p~D~~~f~~e~ie~l~~~----------------------------------------  460 (652)
T KOG2050|consen  421 KSELKSLISDKYGRRVILYLLAPRDGRYFVPEFIEVLEEL----------------------------------------  460 (652)
T ss_pred             HHHHHHHhccchhhhhhhhhccCCccccccHHHHHHHHhc----------------------------------------
Confidence            9999999999999999999999999999999999877752                                        


Q ss_pred             CCCCCCCcCCCCCChHHHHHHHHhhcCCcHHHHHHHHhcHHHHHhccCcchHHHHHHhcCCCCCcCccchhhhhHHHHHH
Q 006165          477 PAENLPLAEGGKKDPRVRRQELLVSSGLAESMIDVCIENAGELLRSNFGKEVLYEVAKGGSDDILRPTLDDKLNTLHETI  556 (658)
Q Consensus       477 ~~~~~~~~~~sKKd~~~Rr~EL~~~~~~~~~L~~~~~~~~~~ll~~~~g~~vl~e~l~~~~~~~~~~~~~d~~~~~~~ai  556 (658)
                           ..+..|||||.+||.||+.  +|+|.|+.+|.+|+++++.+++||+|+++.++++..|.+..   |+-+.+.+++
T Consensus       461 -----d~~k~sKKdp~vRr~eLla--~isp~lis~~s~~aeeil~e~~~~~~lV~~~l~~~~~~~d~---~~~q~~a~a~  530 (652)
T KOG2050|consen  461 -----DSNKHSKKDPLVRRIELLA--AISPSLISLLSENAEEILAEALKSQVLVEASLGAEDGDKDP---DEKQAAAEAA  530 (652)
T ss_pred             -----ccccccccCHHHHHHHHHH--hhhHHHHHHHHHhHHHHHHHhhcceeeHHhhhcCcccccCh---hhHHHHHHHH
Confidence                 1246799999999999998  59999999999999999999999999999999988876632   2222333333


Q ss_pred             HHHh-hccCCCcchhhhhhhcchhHHHH------------HHHHhCCchhH--HHHHHHhhhhhhhhhcc-ccchhHhHH
Q 006165          557 ASLA-SESKSEASEEEHVLENFHSSRTI------------RKLVMDCPKFA--STLWKNALKGKSEFWAQ-GHSCKVVTA  620 (658)
Q Consensus       557 ~~~~-~~~~~~~~~~~~~~~~~~~~r~l------------k~li~~~~~F~--~~l~~~~~~~~~~~wa~-~~g~~vv~a  620 (658)
                      ...- +.|..... .-|..+.|.++.++            +.+..+.+.|.  ..|.+.+.+++|.+||+ ++|||||+|
T Consensus       531 l~~~~~~~~~~~~-p~h~~~~~~~~~il~q~g~w~~~~~k~~~~~~~~g~~~~k~l~e~l~sk~L~sWa~~nrg~fvL~a  609 (652)
T KOG2050|consen  531 LPAFKAIPEEAKK-PKHQEEEPAAHLILGQEGAWMHIEKKRILKNNREGEGVPKLLLENLSSKNLKSWASVNRGCFVLLA  609 (652)
T ss_pred             HHHhccCcccccC-CcchhcccchhhHHhccccchhHHHHHHhhhcCCccccHHHHHHHhhHHHHHHHHccCcchhhHHH
Confidence            2211 12221111 12333334333333            33333334333  47888888999999999 679999999


Q ss_pred             hhcCCCHHHHHHHHHhhccccccCCccccccccCC
Q 006165          621 FLESSDFKVRELAKTELQPLIDSGSLKIPEAKQLP  655 (658)
Q Consensus       621 lle~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~  655 (658)
                      |+|+.++.|.+..+.++...+.+|+++++.+++++
T Consensus       610 llE~~~~~v~~k~ka~~~r~~~~~~~~~~a~kg~~  644 (652)
T KOG2050|consen  610 LLETCDDQVEEKKKAKLLRLVLSGILKDSATKGAE  644 (652)
T ss_pred             HHHhcCHHhhhhHHHHHHHhhhhhhcccccCccHH
Confidence            99999999999999999999999999999888753

>cd07920 Pumilio Pumilio-family RNA binding domain 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
>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
>KOG1488 consensus Translational repressor Pumilio/PUF3 and related RNA-binding proteins (Puf superfamily) [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>COG5099 RNA-binding protein of the Puf family, translational repressor [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>KOG2050 consensus Puf family RNA-binding protein [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>KOG2049 consensus Translational repressor MPT5/PUF4 and related RNA-binding proteins (Puf superfamily) [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>KOG2049 consensus Translational repressor MPT5/PUF4 and related RNA-binding proteins (Puf superfamily) [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>COG5099 RNA-binding protein of the Puf family, translational repressor [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>KOG2188 consensus Predicted RNA-binding protein, contains Pumilio domains [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>KOG2188 consensus Predicted RNA-binding protein, contains Pumilio domains [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>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
>KOG4574 consensus RNA-binding protein (contains RRM and Pumilio-like repeats) [General function prediction only] 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
>KOG1059 consensus Vesicle coat complex AP-3, delta subunit [Intracellular trafficking, secretion, and vesicular transport] 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 ?
Query658
3bsb_A343 Crystal Structure Of Human Pumilio1 In Complex With 5e-06
1ib2_A349 Crystal Structure Of A Pumilio-Homology Domain Leng 5e-06
2yjy_A350 A Specific And Modular Binding Code For Cytosine Re 7e-06
3gvo_A351 Structure And Rna Binding Of The Mouse Pumilio-2 Pu 4e-05
3q0q_A351 Crystal Structure Of The Pumilio-Homology Domain Fr 4e-05
3k49_A369 Puf3 Rna Binding Domain Bound To Cox17 Rna 3' Utr R 6e-05
3h3d_X323 Drosophila Pumilio Rna Binding Domain (Puf Domain) 6e-04
>pdb|3BSB|A Chain A, Crystal Structure Of Human Pumilio1 In Complex With Cyclinb Reverse Rna Length = 343 Back     alignment and structure 
Iteration: 1

 Score = 49.7 bits (117), Expect = 5e-06,   Method: Compositional matrix adjust.
 Identities = 58/250 (23%), Positives = 104/250 (41%), Gaps = 31/250 (12%)
Query: 132 LQKMKGKIPEIAGSHVSSRVLQTCVKYCSQAERDAVFEELQPHFLSLADNTYAVHLVKKM 191
           L+++ G I E +     SR +Q  ++  + AER  VF E+      L  + +  ++++K 
Sbjct: 19  LREIAGHIMEFSQDQHGSRFIQLKLERATPAERQLVFNEILQAAYQLMVDVFGNYVIQKF 78
Query: 192 LDNASKKQLAGFISALHGHVASLLRHMVGSVVVEHAYQLGNATQKQELLVELYSTELQLF 251
            +  S +Q       + GHV SL   M G  V++ A +   + Q+ E++ EL    L+  
Sbjct: 79  FEFGSLEQKLALAERIRGHVLSLALQMYGCRVIQKALEFIPSDQQNEMVRELDGHVLKCV 138
Query: 252 KN----------LVSIKESRLVDVISKLGLQKASVLRH--MASVIQPILEKGIIDHSI-- 297
           K+          +  ++   L  +I     Q  ++  H     VIQ ILE  + D ++  
Sbjct: 139 KDQNGNHVVQKCIECVQPQSLQFIIDAFKGQVFALSTHPYGCRVIQRILEHCLPDQTLPI 198
Query: 298 ---IHR-------------VLMEYLSMADKSSAADIIQQLSGPLLVRMIHTRDGSKIGML 341
              +H+             V+   L        + I+ ++ G +LV   H +  S +   
Sbjct: 199 LEELHQHTEQLVQDQYGNYVIQHVLEHGRPEDKSKIVAEIRGNVLVLSQH-KFASNVVEK 257
Query: 342 CVKHGSAKER 351
           CV H S  ER
Sbjct: 258 CVTHASRTER 267
>pdb|1IB2|A Chain A, Crystal Structure Of A Pumilio-Homology Domain Length = 349 Back     alignment and structure
>pdb|2YJY|A Chain A, A Specific And Modular Binding Code For Cytosine Recognition In Puf Domains Length = 350 Back     alignment and structure
>pdb|3GVO|A Chain A, Structure And Rna Binding Of The Mouse Pumilio-2 Puf Domain Length = 351 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|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|3H3D|X Chain X, Drosophila Pumilio Rna Binding Domain (Puf Domain) Length = 323 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 ?
Query658
3gvo_A351 Pumilio 2, pumilio homolog 2; RNA-binding, PUF dom 5e-60
3gvo_A351 Pumilio 2, pumilio homolog 2; RNA-binding, PUF dom 1e-10
3k49_A369 MRNA-binding protein PUF3; PUF3, pumilio, RNA bind 3e-53
3k49_A369 MRNA-binding protein PUF3; PUF3, pumilio, RNA bind 1e-16
3bwt_A333 Protein PUF4; pumilio, RNA binding, HO endonucleas 1e-39
3bwt_A333 Protein PUF4; pumilio, RNA binding, HO endonucleas 1e-11
3bwt_A333 Protein PUF4; pumilio, RNA binding, HO endonucleas 3e-06
3bwt_A333 Protein PUF4; pumilio, RNA binding, HO endonucleas 5e-04
3v71_A382 PUF (pumilio/FBF) domain-containing protein 7, CO 1e-19
3v71_A382 PUF (pumilio/FBF) domain-containing protein 7, CO 2e-17
3k62_A412 FEM-3 mRNA-binding factor 2; FBF, FEM-3 binding fa 1e-15
3k62_A412 FEM-3 mRNA-binding factor 2; FBF, FEM-3 binding fa 9e-09
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 4e-15
>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 =  203 bits (519), Expect = 5e-60
 Identities = 56/316 (17%), Positives = 131/316 (41%), Gaps = 20/316 (6%)

Query: 113 KMRQRNIAKETRSKLISEALQKMKGKIPEIAGSHVSSRVLQTCVKYCSQAERDAVFEELQ 172
             R R +     ++  +  L+ + G I E +     SR +Q  ++  + AER  VF E+ 
Sbjct: 2   TGRSRLLEDFRNNRFPNLQLRDLIGHIVEFSQDQHGSRFIQQKLERATPAERQIVFNEIL 61

Query: 173 PHFLSLADNTYAVHLVKKMLDNASKKQLAGFISALHGHVASLLRHMVGSVVVEHAYQLGN 232
                L  + +  ++++K  +  S  Q     + + GHV  L   M G  V++ A +  +
Sbjct: 62  QAAYQLMTDVFGNYVIQKFFEFGSLDQKLALATRIRGHVLPLALQMYGCRVIQKALESIS 121

Query: 233 ATQKQELLVELYSTELQLFKNLVSIKESRLVDVISKLGLQKASVLRHMASVIQPILEK-- 290
           + Q+ E++ EL    L+  K+           V+ K  ++     + +  +I     +  
Sbjct: 122 SDQQSEMVKELDGHVLKCVKDQNGNH------VVQKC-IECVQP-QSLQFIIDAFKGQVF 173

Query: 291 GIIDHSIIHRVLMEYLSMADKSSAADIIQQLSGPLLVRMIHTRDGSKIGMLCVKHGSAKE 350
            +  H    RV+   L          I+++L      +++  + G+ +    ++HG  ++
Sbjct: 174 VLSTHPYGCRVIQRILEHCTAEQTLPILEELH-QHTEQLVQDQYGNYVIQHVLEHGRPED 232

Query: 351 RKKIIKGMKGHIGKVAHDQCGSMVLLCIVSIVDDTKLIAKIIIREL-------QSIIKEL 403
           + KI+  ++G +  ++  +  S V+   V+     +    ++I E+        S +  +
Sbjct: 233 KSKIVSEIRGKVLALSQHKFASNVVEKCVTHASRAER--ALLIDEVCCQNDGPHSALYTM 290

Query: 404 VMDKNGRRVLLQLLHP 419
           + D+    V+ +++  
Sbjct: 291 MKDQYANYVVQKMIDM 306
>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
>3bwt_A Protein PUF4; pumilio, RNA binding, HO endonuclease, transcription, RNA binding protein; 2.69A {Saccharomyces cerevisiae} PDB: 4dzs_A 3bx2_A 3bx3_A Length = 333 Back     alignment and structure
>3v71_A PUF (pumilio/FBF) domain-containing protein 7, CO transcript evidence; PUF repeats, RNA binding protein-RNA complex; HET: EPE; 2.90A {Caenorhabditis elegans} Length = 382 Back     alignment and structure
>3v71_A PUF (pumilio/FBF) domain-containing protein 7, CO transcript evidence; PUF repeats, RNA binding protein-RNA complex; HET: EPE; 2.90A {Caenorhabditis elegans} Length = 382 Back     alignment and structure
>3k62_A FEM-3 mRNA-binding factor 2; FBF, FEM-3 binding factor, PUF, RNA-binding specificity, base flipping, base stacking; 1.90A {Caenorhabditis elegans} PDB: 3k5y_A 3k5z_A 3k61_A 3k5q_A 3k64_A 3qg9_A 3v6y_A 3v74_A 3qgc_A 3qgb_A Length = 412 Back     alignment and structure
>3k62_A FEM-3 mRNA-binding factor 2; FBF, FEM-3 binding factor, PUF, RNA-binding specificity, base flipping, base stacking; 1.90A {Caenorhabditis elegans} PDB: 3k5y_A 3k5z_A 3k61_A 3k5q_A 3k64_A 3qg9_A 3v6y_A 3v74_A 3qgc_A 3qgb_A Length = 412 Back     alignment and structure
>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 ?
Query658
3gvo_A351 Pumilio 2, pumilio homolog 2; RNA-binding, PUF dom 100.0
3k49_A369 MRNA-binding protein PUF3; PUF3, pumilio, RNA bind 100.0
3bwt_A333 Protein PUF4; pumilio, RNA binding, HO endonucleas 100.0
3gvo_A351 Pumilio 2, pumilio homolog 2; RNA-binding, PUF dom 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
3k49_A369 MRNA-binding protein PUF3; PUF3, pumilio, RNA bind 100.0
3bwt_A333 Protein PUF4; pumilio, RNA binding, HO endonucleas 100.0
3v71_A382 PUF (pumilio/FBF) domain-containing protein 7, CO 100.0
3k62_A412 FEM-3 mRNA-binding factor 2; FBF, FEM-3 binding fa 99.96
>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=8.5e-44  Score=382.18  Aligned_cols=293  Identities=18%  Similarity=0.291  Sum_probs=264.0

Q ss_pred             HHHHHHhccCCCHHHHHHHHHHHHHHHhchHHHhhccCCccHHHHHhhhhCCHHHHHHHHHHHHHHHHHhhcccchhHHH
Q 006165          109 SLWEKMRQRNIAKETRSKLISEALQKMKGKIPEIAGSHVSSRVLQTCVKYCSQAERDAVFEELQPHFLSLADNTYAVHLV  188 (658)
Q Consensus       109 ~iwE~lr~k~~~~eeR~~lv~~l~~~ikg~i~~la~~~~gSRvlQ~lLk~gs~eqr~~I~~eL~~~~~~L~~d~yg~~vV  188 (658)
                      +|||.+|.+..++-        .++++.|++.++|.||+|||+||++|+++++++|+.||+++.+++.+||+|+||||||
T Consensus         6 ~l~e~~r~~~~~~~--------~l~~~~g~i~~la~dq~gsR~lQ~~l~~~~~~~~~~i~~ei~~~~~~L~~d~~gn~vv   77 (351)
T 3gvo_A            6 RLLEDFRNNRFPNL--------QLRDLIGHIVEFSQDQHGSRFIQQKLERATPAERQIVFNEILQAAYQLMTDVFGNYVI   77 (351)
T ss_dssp             HHHHHHHTTCCTTC--------CGGGGTTCHHHHHTSHHHHHHHHHHHHHCCHHHHHHHHHHHGGGHHHHHTSTTHHHHH
T ss_pred             HHHHHHhCCCCCCc--------CHHHHHhHHHHHhcCCcchHHHHHHHhhCCHHHHHHHHHHHHHhHHHHHhChhhhHHH
Confidence            58999998864331        2567899999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHhHHHHhhccccchHHHHHHhhCCHHHHHHHHHHHHHhHHhhhcccCCCchhHHHHHHh-
Q 006165          189 KKMLDNASKKQLAGFISALHGHVASLLRHMVGSVVVEHAYQLGNATQKQELLVELYSTELQLFKNLVSIKESRLVDVIS-  267 (658)
Q Consensus       189 qKLl~~~s~eqr~~Ii~~~~g~v~~L~~h~~Gs~Vvq~l~~~a~~~qr~~li~e~~g~~~~l~~d~~g~~~~~L~~il~-  267 (658)
                      ||+|++|+++++..|++.+.|++..|+.|+|||+|||++++.++.+++..|+.|++++.+.++.|.+|  ...++.+++ 
T Consensus        78 Qklle~~~~~~~~~i~~~i~g~~~~l~~~~~G~rvvQk~le~~~~~~~~~i~~el~~~~~~L~~d~~G--n~ViQk~l~~  155 (351)
T 3gvo_A           78 QKFFEFGSLDQKLALATRIRGHVLPLALQMYGCRVIQKALESISSDQQSEMVKELDGHVLKCVKDQNG--NHVVQKCIEC  155 (351)
T ss_dssp             HHHHHHCCHHHHHHHHHHHTTCHHHHHTSTTHHHHHHHHHHHSCHHHHHHHHGGGTTCHHHHHHSTTH--HHHHHHHHHH
T ss_pred             HHHHhhCCHHHHHHHHHHHHhhHHHHhhCHHhHHHHHHHHHhCCHHHHHHHHHHhhhhHHHHHHhhhh--hHHHHHHHHh
Confidence            99999999999999999999999999999999999999999999999999999999999999999998  678888888 


Q ss_pred             hhhhhHHHHHHhHHHHHHHHHhcCCCchhHHHHHHHHHHhhCChhHHHHHHHhcchhhHHHhhcCcchhHHHHHHHhhCC
Q 006165          268 KLGLQKASVLRHMASVIQPILEKGIIDHSIIHRVLMEYLSMADKSSAADIIQQLSGPLLVRMIHTRDGSKIGMLCVKHGS  347 (658)
Q Consensus       268 ~~~~kr~~il~~~~~~iq~ileK~~~~~~lvh~~l~ey~~~~~~~~~~elI~~L~~~~l~~L~~tk~GS~Vv~~~L~~~~  347 (658)
                      ..|+++..|++.+...+..+..     +..-++++..++..++++.+..+++.+.+. +..|+++++|++|+++||++++
T Consensus       156 ~~~~~~~~i~~~~~~~~~~ls~-----~~~G~~Vvq~~le~~~~~~~~~ii~~l~~~-~~~L~~d~~Gn~ViQ~~l~~~~  229 (351)
T 3gvo_A          156 VQPQSLQFIIDAFKGQVFVLST-----HPYGCRVIQRILEHCTAEQTLPILEELHQH-TEQLVQDQYGNYVIQHVLEHGR  229 (351)
T ss_dssp             SCGGGTHHHHHHTTTTHHHHHT-----STTHHHHHHHHHHHSCHHHHHHHHHHHHTT-HHHHHTSTTHHHHHHHHHHHSC
T ss_pred             CCHHHHHHHHHHHHHHHHHHHh-----CcHhHHHHHHHHHHCCHHHHHHHHHHHhhh-HHhcCCCchHHHHHHHHHHhCc
Confidence            4577778888777665554332     223345667777788999999999999876 7999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHhhhcCCchhHHHHHHHhhcCchHHHHHHHHHHHHH-------HHHHhhhCcCcHHHHHHHcCC
Q 006165          348 AKERKKIIKGMKGHIGKVAHDQCGSMVLLCIVSIVDDTKLIAKIIIRELQS-------IIKELVMDKNGRRVLLQLLHP  419 (658)
Q Consensus       348 ~K~Rk~Iik~lk~~l~~La~d~~G~~Vlq~lL~~~ddt~l~~k~I~~eL~~-------~l~~L~~~~~Gr~Vll~LL~~  419 (658)
                      +++|+.|++.|++++..|++|+||++||+++|+++++..  ++.|+.||..       .+..|+.|+||++|++++|..
T Consensus       230 ~~~~~~i~~~l~~~~~~Ls~~k~gs~Vvek~l~~~~~~~--r~~ii~el~~~~~~~~~~l~~l~~d~ygnyViq~~L~~  306 (351)
T 3gvo_A          230 PEDKSKIVSEIRGKVLALSQHKFASNVVEKCVTHASRAE--RALLIDEVCCQNDGPHSALYTMMKDQYANYVVQKMIDM  306 (351)
T ss_dssp             HHHHHHHHHTTTTCHHHHHTSTTHHHHHHHHHHHSCHHH--HHHHHHHHHSCEETTEEHHHHHHHSTTHHHHHHHHHHH
T ss_pred             hhhHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHhCCHHH--HHHHHHHHhcccCCCChHHHHccCCcchHHHHHHHHHh
Confidence            999999999999999999999999999999999998776  7899999985       799999999999999988864
>3k49_A MRNA-binding protein PUF3; PUF3, pumilio, RNA binding, mitochondrial mRNA,, membrane, mitochondrion; HET: CIT; 2.50A {Saccharomyces cerevisiae} SCOP: a.118.1.0 PDB: 3k4e_A Back     alignment and structure
>3bwt_A Protein PUF4; pumilio, RNA binding, HO endonuclease, transcription, RNA binding protein; 2.69A {Saccharomyces cerevisiae} PDB: 4dzs_A 3bx2_A 3bx3_A Back     alignment and structure
>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
>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
>3k49_A MRNA-binding protein PUF3; PUF3, pumilio, RNA binding, mitochondrial mRNA,, membrane, mitochondrion; HET: CIT; 2.50A {Saccharomyces cerevisiae} SCOP: a.118.1.0 PDB: 3k4e_A Back     alignment and structure
>3bwt_A Protein PUF4; pumilio, RNA binding, HO endonuclease, transcription, RNA binding protein; 2.69A {Saccharomyces cerevisiae} PDB: 4dzs_A 3bx2_A 3bx3_A Back     alignment and structure
>3v71_A PUF (pumilio/FBF) domain-containing protein 7, CO transcript evidence; PUF repeats, RNA binding protein-RNA complex; HET: EPE; 2.90A {Caenorhabditis elegans} Back     alignment and structure
>3k62_A FEM-3 mRNA-binding factor 2; FBF, FEM-3 binding factor, PUF, RNA-binding specificity, base flipping, base stacking; 1.90A {Caenorhabditis elegans} PDB: 3k5y_A 3k5z_A 3k61_A 3k5q_A 3k64_A 3qg9_A 3v6y_A 3v74_A 3qgc_A 3qgb_A Back     alignment and structure

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 658
d1m8za_339 a.118.1.8 (A:) Pumilio 1 {Human (Homo sapiens) [Ta 6e-38
>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 =  141 bits (357), Expect = 6e-38
 Identities = 57/309 (18%), Positives = 130/309 (42%), Gaps = 23/309 (7%)

Query: 124 RSKLISEA---------LQKMKGKIPEIAGSHVSSRVLQTCVKYCSQAERDAVFEELQPH 174
           RS+L+ +          L+++ G I E +     SR +Q  ++  + AER  VF E+   
Sbjct: 2   RSRLLEDFRNNRYPNLQLREIAGHIMEFSQDQHGSRFIQLKLERATPAERQLVFNEILQA 61

Query: 175 FLSLADNTYAVHLVKKMLDNASKKQLAGFISALHGHVASLLRHMVGSVVVEHAYQLGNAT 234
              L  + +  ++++K  +  S +Q       + GHV SL   M G  V++ A +   + 
Sbjct: 62  AYQLMVDVFGNYVIQKFFEFGSLEQKLALAERIRGHVLSLALQMYGCRVIQKALEFIPSD 121

Query: 235 QKQELLVELYSTELQLFKNLV-SIKESRLVDVISKLGLQKASVLRHMASVIQPILEKGII 293
           Q+ E++ EL    L+  K+   +    + ++ +    LQ   ++      +       + 
Sbjct: 122 QQNEMVRELDGHVLKCVKDQNGNHVVQKCIECVQPQSLQF--IIDAFKGQVFA-----LS 174

Query: 294 DHSIIHRVLMEYLSMADKSSAADIIQQLSGPLLVRMIHTRDGSKIGMLCVKHGSAKERKK 353
            H    RV+   L          I+++L      +++  + G+ +    ++HG  +++ K
Sbjct: 175 THPYGCRVIQRILEHCLPDQTLPILEELH-QHTEQLVQDQYGNYVIQHVLEHGRPEDKSK 233

Query: 354 IIKGMKGHIGKVAHDQCGSMVLLCIVSIVDDTKLIAKIII-----RELQSIIKELVMDKN 408
           I+  ++G++  ++  +  S V+   V+    T+    I           S +  ++ D+ 
Sbjct: 234 IVAEIRGNVLVLSQHKFASNVVEKCVTHASRTERAVLIDEVCTMNDGPHSALYTMMKDQY 293

Query: 409 GRRVLLQLL 417
              V+ +++
Sbjct: 294 ANYVVQKMI 302

Homologous Domains Detected by HHsearch ?

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

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query658
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=1.4e-40  Score=352.33  Aligned_cols=292  Identities=19%  Similarity=0.293  Sum_probs=260.4

Q ss_pred             HHHHHHhccCCCHHHHHHHHHHHHHHHhchHHHhhccCCccHHHHHhhhhCCHHHHHHHHHHHHHHHHHhhcccchhHHH
Q 006165          109 SLWEKMRQRNIAKETRSKLISEALQKMKGKIPEIAGSHVSSRVLQTCVKYCSQAERDAVFEELQPHFLSLADNTYAVHLV  188 (658)
Q Consensus       109 ~iwE~lr~k~~~~eeR~~lv~~l~~~ikg~i~~la~~~~gSRvlQ~lLk~gs~eqr~~I~~eL~~~~~~L~~d~yg~~vV  188 (658)
                      ++||.+|....+.-+        +++++|++.++|++|+|||+||++|++|++++|+.||++|.|++.+||.|+||||||
T Consensus         4 ~~~~~~~~~~~~~~~--------l~~~~g~~~~~~~~q~gSr~lQ~~l~~~~~~~~~~I~~~l~~~~~~L~~~~~gn~vv   75 (339)
T d1m8za_           4 RLLEDFRNNRYPNLQ--------LREIAGHIMEFSQDQHGSRFIQLKLERATPAERQLVFNEILQAAYQLMVDVFGNYVI   75 (339)
T ss_dssp             HHHHHHHTTCCTTCC--------GGGGTTCHHHHHTSHHHHHHHHHHHHHCCHHHHHHHHHHHGGGHHHHHTSTTHHHHH
T ss_pred             hHhHHhhcCCCCCCc--------HHHHHhHHHHHhcCchhhHHHHHHHhhCCHHHHHHHHHHHHHHHHHHhhCcccchhH
Confidence            689999876533211        467799999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHhHHHHhhccccchHHHHHHhhCCHHHHHHHHHHHHHhHHhhhcccCCCchhHHHHHHhh
Q 006165          189 KKMLDNASKKQLAGFISALHGHVASLLRHMVGSVVVEHAYQLGNATQKQELLVELYSTELQLFKNLVSIKESRLVDVISK  268 (658)
Q Consensus       189 qKLl~~~s~eqr~~Ii~~~~g~v~~L~~h~~Gs~Vvq~l~~~a~~~qr~~li~e~~g~~~~l~~d~~g~~~~~L~~il~~  268 (658)
                      |+||++++++++..|++.+.|++..|+.|+||++|||++++.++..++..++++|++....++.|..|  ...+..+++.
T Consensus        76 qkll~~~~~~~~~~i~~~l~~~~~~L~~~~~gs~Vvq~l~~~~~~~~~~~l~~el~~~~~~l~~d~~~--~~v~~~~l~~  153 (339)
T d1m8za_          76 QKFFEFGSLEQKLALAERIRGHVLSLALQMYGCRVIQKALEFIPSDQQNEMVRELDGHVLKCVKDQNG--NHVVQKCIEC  153 (339)
T ss_dssp             HHHHHHSCHHHHHHHHHHHTTCHHHHHTSTTHHHHHHHHHHHSCHHHHHHHHHTTTTCHHHHHHSTTH--HHHHHHHHHH
T ss_pred             HHHHhhCCHHHHHHHHHHHHhhHHHHhcccccchHHHhhhccCCHHHHHHHHHHHhhhhHHHhcCCCc--chHHHHHHHh
Confidence            99999999999999999999999999999999999999999999999999999999999999999987  6677788874


Q ss_pred             -hhhhHHHHHHhHHHHHHHHHhcCCCchhHHHHHHHHHHhhCChhHHHHHHHhcchhhHHHhhcCcchhHHHHHHHhhCC
Q 006165          269 -LGLQKASVLRHMASVIQPILEKGIIDHSIIHRVLMEYLSMADKSSAADIIQQLSGPLLVRMIHTRDGSKIGMLCVKHGS  347 (658)
Q Consensus       269 -~~~kr~~il~~~~~~iq~ileK~~~~~~lvh~~l~ey~~~~~~~~~~elI~~L~~~~l~~L~~tk~GS~Vv~~~L~~~~  347 (658)
                       .|..+..|+..+...+..+..     +...+.++..++..++++.+..+++.+.+. +..|+++++|++|++.+|.+++
T Consensus       154 ~~~~~~~~i~~~~~~~~~~l~~-----~~~g~~vlq~~l~~~~~~~~~~l~~~l~~~-~~~L~~~~~G~~vvq~~l~~~~  227 (339)
T d1m8za_         154 VQPQSLQFIIDAFKGQVFALST-----HPYGCRVIQRILEHCLPDQTLPILEELHQH-TEQLVQDQYGNYVIQHVLEHGR  227 (339)
T ss_dssp             SCGGGGHHHHHHTTTTHHHHHT-----STTHHHHHHHHHHHSCHHHHHHHHHHHHHT-HHHHTTSTTHHHHHHHHHHHSC
T ss_pred             cCHHHHHHHHHHHHHHHHHHHh-----CcchhHHHHHHHhcCCHHHHHHHHHHHHHH-HHHHHhCccHHHHHHHHHHcCC
Confidence             466667777777666655443     334566788888999999999999999866 7999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHhhhcCCchhHHHHHHHhhcCchHHHHHHHHHHHHH-------HHHHhhhCcCcHHHHHHHcC
Q 006165          348 AKERKKIIKGMKGHIGKVAHDQCGSMVLLCIVSIVDDTKLIAKIIIRELQS-------IIKELVMDKNGRRVLLQLLH  418 (658)
Q Consensus       348 ~K~Rk~Iik~lk~~l~~La~d~~G~~Vlq~lL~~~ddt~l~~k~I~~eL~~-------~l~~L~~~~~Gr~Vll~LL~  418 (658)
                      +++|+.|++.|++++..|++|+||++|+++++.+++++.  ++.++.++..       .+..|+.|+||++|+..+|.
T Consensus       228 ~~~~~~i~~~l~~~~~~l~~~k~gS~vve~~l~~~~~~~--~~~~~~~l~~~~~~~~~~l~~L~~d~~gn~Viq~~l~  303 (339)
T d1m8za_         228 PEDKSKIVAEIRGNVLVLSQHKFASNVVEKCVTHASRTE--RAVLIDEVCTMNDGPHSALYTMMKDQYANYVVQKMID  303 (339)
T ss_dssp             HHHHHHHHHHHTTCHHHHHTSTTHHHHHHHHHHHSCHHH--HHHHHHHHHHCEETTEEHHHHHHTSTTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhHHHHHcchhHHHHHHHHHHhCCHHH--HHHHHHHHHhcccCchHHHHHHHcCCcccHHHHHHHH
Confidence            999999999999999999999999999999999998876  6778888753       58899999999999988875
>d1m8za_ a.118.1.8 (A:) Pumilio 1 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure