Citrus Sinensis ID: 009214

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
MFFFLLIRLISEALQKMKGKIPEIAGSHVSSRVLQTCVKYCSQAERDAVFEELQPHFLSLADNTYAVHLVKKMLDNASKKQLAGFISALHGHVASLLRHMVGSVVVEHAYQLGNATQKQELLVELYSTELQLFKNLVSIKESRLVDVISKLGLQKASVLRHMASVIQPILEKGIIDHSIIHRVLMEYLSMADKSSAADIIQQLSGPLLVRMIHTRDGSKIGMLCVKHGSAKERKKIIKGMKGHIGKVAHDQCGSMVLLCIVSIVDDTKLIAKIIIRELQSIIKELVMDKNGRRVLLQLLHPNCSRYLSPDDLSSLNLSIPSLCAKEGSEVNSEAKNNESSKEMADQEVVAVQADESTSPAENLPLAEGGKKDPRVRRQELLVSSGLAESMIDVCIENAGELLRSNFGKEVLYEVAKGGSDDILRPTLDDKLNTLHETIASLASESKSEASEEEHVLENFHSSRTIRKLVMDCPKFASTLWKNALKGKSEFWAQGHSCKVVTAFLESSDFKVRELAKTELQPLIDSGSLKIPEAKQLPKEV
cccccHHHHHHHHHHHHccHHHHHcccccccHHHHHHHHHccHHHHHHHHHHHHHHHHHHHHcHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHcccHHHHHHHHHHHccccHHHEEccccccccHHHHHHHHccccHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHccccccccccHHHHHHHHHHcccHHHHcccccccHHHcccHHHHHHHHHHHHHHHcccccccccccccccccccHHHHHHHHHHHHccHHHHHHHHHHHHHHHHHcccHHHHHHHHHHccccccccccHHHHHHHHHHHHHHHHHccccccccHHHHHccccHHHHHHHHHcccccHHHHHHHHHHHHHHHHHHccccccHHHHHHccccHHHHHHHHHHHccHHHcccccccccccccccc
cHHHHHHHHHHHHHHHHHccEHHHcccccccHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHcHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHccHHHHHHHHHHHHHHHHHHHHHcHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHccHHHHHHHHHHHcccHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHcccccHHHccHHHHHHHcccccccccHHHHHHHHHccccccccccccHHHHHHHHHcccccccccEEEcccccccHHHHHHHHcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccHHHHcHHHHHHHHHHHHHHHHcccccccccccHHccccHHHHHHHHHHcHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHccccHHHHHHHHHHHHHHHHcccEEccccccccccc
MFFFLLIRLISEALQKMKgkipeiagshvSSRVLQTCVKYCSQAERDAVFEELQPHFLSLADNTYAVHLVKKMLDNASKKQLAGFISALHGHVASLLRHMVGSVVVEHAYQLGNATQKQELLVELYSTELQLFKNLVSIKESRLVDVISKLGLQKASVLRHMASVIQPIlekgiidhSIIHRVLMEYLSMADKSSAADIIQQLSGPLLVRMIHTRDGSKIGMLCVKHGSAKERKKIIKGMkghigkvahdqCGSMVLLCIVSIVDDTKLIAKIIIRELQSIIKELVMDKNGRRVLLQLLhpncsrylspddlsslnlsipslcakegsevnseaknnesskemADQEVVAvqadestspaenlplaeggkkdprvRRQELLVSSGLAESMIDVCIENAGELLRSNFGKEVLYEVAkggsddilrptldDKLNTLHETIASLASeskseaseeEHVLENFHSSRTIRKLVMDCPKFASTLWKNALKGKSEFWAQGHSCKVVTAFLESSDFKVRELAKTelqplidsgslkipeakqlpkev
MFFFLLIRLISEALQKMKGKIPeiagshvssrVLQTCVKYCSQAERDAVFEELQPHFLSLADNTYAVHLVKKMLDNASKKQLAGFISALHGHVASLLRHMVGSVVVEHAYQLGNATQKQELLVELYSTELQLFKNLVSIKESRLVDVISKLGLQKASVLRHMASVIQPILEKGIIDHSIIHRVLMEYLSMADKSSAADIIQQLSGPLLVRMIHTRDGSKIGMLCVKHGSAKERKKIIKGMKGHIGKVAHDQCGSMVLLCIVSIVDDTKLIAKIIIRELQSIIKELVMDKNGRRVLLQLLHPNCSRYLSPDDLSSLNLSIPSLCAKEGSEVNSEAKNNESSKEMADQEVVAVQAdestspaenlplaeggkkdprvrRQELLVSSGLAESMIDVCIENAGELLRSNFGKEVLYEVAkggsddilrpTLDDKLNTLHETIASLaseskseaseeEHVLenfhssrtiRKLVMDCPKFASTLWKNALKGKSEFWAQGHSCKVVTAFLESSDFKVRELAKTelqplidsgslkipeakqlpkev
MFFFLLIRLISEALQKMKGKIPEIAGSHVSSRVLQTCVKYCSQAERDAVFEELQPHFLSLADNTYAVHLVKKMLDNASKKQLAGFISALHGHVASLLRHMVGSVVVEHAYQLGNATQKQELLVELYSTELQLFKNLVSIKESRLVDVISKLGLQKASVLRHMASVIQPILEKGIIDHSIIHRVLMEYLSMADKSSAADIIQQLSGPLLVRMIHTRDGSKIGMLCVKHGSAKERkkiikgmkghigkVAHDQCGSMVLLCIVSIVDDTKLIAKIIIRELQSIIKELVMDKNGRRVLLQLLHPNCSRYlspddlsslnlsipslCAKEGSEVNSEAKNNESSKEMADQEVVAVQADESTSPAENLPLAEGGKKDPRVRRQELLVSSGLAESMIDVCIENAGELLRSNFGKEVLYEVAKGGSDDILRPTLDDKLNTLHETIaslaseskseaseeeHVLENFHSSRTIRKLVMDCPKFASTLWKNALKGKSEFWAQGHSCKVVTAFLESSDFKVRELAKTELQPLIDSGSLKIPEAKQLPKEV
*FFFLLIRLISEALQKMKGKIPEIAGSHVSSRVLQTCVKYCSQAERDAVFEELQPHFLSLADNTYAVHLVKKMLDNASKKQLAGFISALHGHVASLLRHMVGSVVVEHAYQLGNATQKQELLVELYSTELQLFKNLVSIKESRLVDVISKLGLQKASVLRHMASVIQPILEKGIIDHSIIHRVLMEYLSMADKSSAADIIQQLSGPLLVRMIHTRDGSKIGMLCVKHGSAKERKKIIKGMKGHIGKVAHDQCGSMVLLCIVSIVDDTKLIAKIIIRELQSIIKELVMDKNGRRVLLQLLHPNCSRYLSP***********************************************************************LVSSGLAESMIDVCIENAGELLRSNFGKEVLYEVAKGGSDDILRPTLD*******************************HSSRTIRKLVMDCPKFASTLWKNALKGKSEFWAQGHSCKVVTAFLESSDFKVRELA*************************
MFFFLLIRLISEALQKMKGKIPEIAGSHVSSRVLQTCVKYCSQAERDAVFEELQPHFLSLADNTYAVHLVKKMLDNASKKQLAGFISALHGHVASLLRHMVGSVVVEHAYQLGNATQKQELLVELYSTELQLFKNLVSIKESRLVDVISKLGLQKASVLRHMASVIQPILEKGIIDHSIIHRVLMEYLSMADKSSAADIIQQLSGPLLVRMIHTRDGSKIGMLCVKHGSAKERKKIIKGMKGHIGKVAHDQCGSMVLLCIVSIVDDTKLIAKIIIRELQSIIKELVMDKNGRRVLLQLLHPNCSRYLSPDDLSSLNLSIPSLCAKEG***NS******SS*EMADQEVVAVQADESTS****L***EGGKKDPRVRRQELLVSSGLAESMIDVCIENAGELLRSNFGKEVLYEVAKGGSDDILRPTLDDKLNTLHETIA***************VLENFHSSRTIRKLVMDCPKFASTLWKNALKGKSEFWAQGHSCKVVTAFLESSDFK**EL**************************
MFFFLLIRLISEALQKMKGKIPEIAGSHVSSRVLQTCVKYCSQAERDAVFEELQPHFLSLADNTYAVHLVKKMLDNASKKQLAGFISALHGHVASLLRHMVGSVVVEHAYQLGNATQKQELLVELYSTELQLFKNLVSIKESRLVDVISKLGLQKASVLRHMASVIQPILEKGIIDHSIIHRVLMEYLSMADKSSAADIIQQLSGPLLVRMIHTRDGSKIGMLCVKHGSAKERKKIIKGMKGHIGKVAHDQCGSMVLLCIVSIVDDTKLIAKIIIRELQSIIKELVMDKNGRRVLLQLLHPNCSRYLSPDDLSSLNLSIPSLCAK*********************EVVAVQADESTSPAENLPLAEGGKKDPRVRRQELLVSSGLAESMIDVCIENAGELLRSNFGKEVLYEVAKGGSDDILRPTLDDKLNTLHETIASLA****************FHSSRTIRKLVMDCPKFASTLWKNALKGKSEFWAQGHSCKVVTAFLESSDFKVRELAKTELQPLIDSGSLKIPEAKQLPKEV
MFFFLLIRLISEALQKMKGKIPEIAGSHVSSRVLQTCVKYCSQAERDAVFEELQPHFLSLADNTYAVHLVKKMLDNASKKQLAGFISALHGHVASLLRHMVGSVVVEHAYQLGNATQKQELLVELYSTELQLFKNLVSIKESRLVDVISKLGLQKASVLRHMASVIQPILEKGIIDHSIIHRVLMEYLSMADKSSAADIIQQLSGPLLVRMIHTRDGSKIGMLCVKHGSAKERKKIIKGMKGHIGKVAHDQCGSMVLLCIVSIVDDTKLIAKIIIRELQSIIKELVMDKNGRRVLLQLLHPNCSRYLSPDDLSSLNLSIPSLCAKEGSEVNSEAKNNE***EMADQEVVAVQADESTSPAENLPLAEGGKKDPRVRRQELLVSSGLAESMIDVCIENAGELLRSNFGKEVLYEVAKGGSDDILRPTLDDKLNTLHETIASLASESKSEASEEEHVLENFHSSRTIRKLVMDCPKFASTLWKNALKGKSEFWAQGHSCKVVTAFLESSDFKVRELAKTELQPLIDSGSLKIPE********
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SSSSSSSSSSSSSSSooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
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MFFFLLIRLISEALQKMKGKIPEIAGSHVSSRVLQTCVKYCSQAERDAVFEELQPHFLSLADNTYAVHLVKKMLDNASKKQLAGFISALHGHVASLLRHMVGSVVVEHAYQLGNATQKQELLVELYSTELQLFKNLVSIKESRLVDVISKLGLQKASVLRHMASVIQPILEKGIIDHSIIHRVLMEYLSMADKSSAADIIQQLSGPLLVRMIHTRDGSKIGMLCVKHGSAKERKKIIKGMKGHIGKVAHDQCGSMVLLCIVSIVDDTKLIAKIIIRELQSIIKELVMDKNGRRVLLQLLHPNCSRYLSPDDLSSLNLSIPSLCAKEGSEVNSEAKNNESSKEMADQEVVAVQADESTSPAENLPLAEGGKKDPRVRRQELLVSSGLAESMIDVCIENAGELLRSNFGKEVLYEVAKGGSDDILRPTLDDKLNTLHETIASLASESKSEASEEEHVLENFHSSRTIRKLVMDCPKFASTLWKNALKGKSEFWAQGHSCKVVTAFLESSDFKVRELAKTELQPLIDSGSLKIPEAKQLPKEV
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 ?
Query540 2.2.26 [Sep-21-2011]
Q9LRZ3641 Pumilio homolog 24 OS=Ara yes no 0.972 0.819 0.643 0.0
Q562C7647 Pumilio domain-containing yes no 0.553 0.462 0.355 3e-48
Q15397648 Pumilio domain-containing yes no 0.848 0.706 0.284 3e-44
Q8BKS9647 Pumilio domain-containing yes no 0.55 0.459 0.343 7e-43
Q9UU76642 Pumilio homology domain f yes no 0.816 0.686 0.25 4e-37
Q04373656 Pumilio homology domain f yes no 0.759 0.625 0.253 2e-36
Q09622766 Pumilio domain-containing yes no 0.542 0.382 0.307 3e-36
O61345737 Protein penguin OS=Drosop yes no 0.529 0.388 0.270 6e-30
Q9LJX4961 Pumilio homolog 5 OS=Arab no no 0.496 0.278 0.241 5e-11
Q5R5X31186 Pumilio homolog 1 OS=Pong no no 0.540 0.246 0.216 5e-06
>sp|Q9LRZ3|PUM24_ARATH Pumilio homolog 24 OS=Arabidopsis thaliana GN=APUM24 PE=2 SV=1 Back     alignment and function desciption
 Score =  681 bits (1758), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 343/533 (64%), Positives = 432/533 (81%), Gaps = 8/533 (1%)

Query: 8   RLISEALQKMKGKIPEIAGSHVSSRVLQTCVKYCSQAERDAVFEELQPHFLSLADNTYAV 67
           +LISEA++KMKGK+PEIA SHVSSRVLQTCVK+CSQAE+D +F ELQP FL+LA N YAV
Sbjct: 110 KLISEAIRKMKGKVPEIAVSHVSSRVLQTCVKFCSQAEKDVLFTELQPQFLNLASNKYAV 169

Query: 68  HLVKKMLDNASKKQLAGFISALHGHVASLLRHMVGSVVVEHAYQLGNATQKQELLVELYS 127
           H ++KMLD ASK+QLA  IS+L GHVA LLRH+ GS+VVEHAY LG+A QKQELL ELYS
Sbjct: 170 HFIQKMLDGASKQQLAACISSLRGHVAPLLRHVFGSLVVEHAYHLGSAAQKQELLAELYS 229

Query: 128 TELQLFKNLVSIKESRLVDVISKLGLQKASVLRHMASVIQPILEKGIIDHSIIHRVLMEY 187
           TELQLFK L +  E  +VD+I+KLGLQK +V RHM ++IQPILEKGI+DH+I H++L+EY
Sbjct: 230 TELQLFKGLTTSNEKTVVDIIAKLGLQKGAVNRHMTAIIQPILEKGIVDHTITHKLLIEY 289

Query: 188 LSMADKSSAADIIQQLSGPLLVRMIHTRDGSKIGMLCVKHGSAKERKKIIKGMKGHIGKV 247
           L++ADK+SAAD++Q L+G LL+RM+HTRDGS++ ML +KHGSAKERKKIIK MK H+ K+
Sbjct: 290 LTIADKTSAADVLQLLTGSLLLRMVHTRDGSRLAMLSIKHGSAKERKKIIKAMKEHVKKM 349

Query: 248 AHDQCGSMVLLCIVSIVDDTKLIAKIIIRELQSIIKELVMDKNGRRVLLQLLHPNCSRYL 307
           A DQ GSMVL CI SIVDDTKL+ KII+REL++ +K+LVMDKNGRR LLQLLHPN SRYL
Sbjct: 350 AFDQFGSMVLACIFSIVDDTKLVTKIIVRELEATLKDLVMDKNGRRPLLQLLHPNSSRYL 409

Query: 308 SPDDLSSLNLSIPSLCAKEGSEVNSEAKN---NESSKEMADQEVVAVQADESTSPAENLP 364
           S DDL++L+LS+PSLC+ + SE +S+ K+   NE  +E  D++   V   E +   EN+ 
Sbjct: 410 SHDDLAALDLSVPSLCSMDKSETSSKTKDTDGNEIGEETKDEQEDTVA--EHSDHEENVT 467

Query: 365 LAEGGKKDPRVRRQELLVSSGLAESMIDVCIENAGELLRSNFGKEVLYEVAKGGSDDILR 424
            A GGKKDP VRRQELLV+SGLAE +IDVC+ENA E L+S FG EV+YEVA GGSD IL 
Sbjct: 468 -AMGGKKDPLVRRQELLVNSGLAERLIDVCVENAEEFLQSKFGNEVMYEVAIGGSDGILC 526

Query: 425 PTLDDKLNTLHETIASLASESKSEASEE--EHVLENFHSSRTIRKLVMDCPKFASTLWKN 482
           P+L +KL  L+E I+S+A+E K + SE+  EH+LENFHSSRTIR+LV++ P FAS L+K 
Sbjct: 527 PSLSEKLCELYEAISSVAAEPKPQESEKDSEHILENFHSSRTIRRLVLNRPGFASILFKK 586

Query: 483 ALKGKSEFWAQGHSCKVVTAFLESSDFKVRELAKTELQPLIDSGSLKIPEAKQ 535
           AL GK   WAQGH  K+++AF+E+ D +VRE+AKTELQ L++ G+LKI   K+
Sbjct: 587 ALSGKCRSWAQGHCSKILSAFVETEDVQVREMAKTELQVLVNEGTLKISATKK 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|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 ?
Query540
225431818 651 PREDICTED: pumilio homolog 24-like [Viti 0.974 0.807 0.787 0.0
296083316 662 unnamed protein product [Vitis vinifera] 0.977 0.797 0.782 0.0
147770751 662 hypothetical protein VITISV_016047 [Viti 0.977 0.797 0.778 0.0
356564394637 PREDICTED: pumilio homolog 24-like isofo 0.977 0.828 0.731 0.0
356521819634 PREDICTED: pumilio homolog 24-like isofo 0.968 0.824 0.734 0.0
224130364 655 predicted protein [Populus trichocarpa] 0.983 0.810 0.746 0.0
224107038 655 predicted protein [Populus trichocarpa] 0.975 0.804 0.75 0.0
449464736 658 PREDICTED: pumilio homolog 24-like [Cucu 0.962 0.790 0.719 0.0
449501538548 PREDICTED: pumilio homolog 24-like [Cucu 0.970 0.956 0.712 0.0
255551869613 Protein penguin, putative [Ricinus commu 0.920 0.810 0.712 0.0
>gi|225431818|ref|XP_002271110.1| PREDICTED: pumilio homolog 24-like [Vitis vinifera] Back     alignment and taxonomy information
 Score =  840 bits (2171), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 416/528 (78%), Positives = 466/528 (88%), Gaps = 2/528 (0%)

Query: 8   RLISEALQKMKGKIPEIAGSHVSSRVLQTCVKYCSQAERDAVFEELQPHFLSLADNTYAV 67
           RL+SEAL KMKGKIPEIAGSHVSSRVLQTCVKYC+QAERDAVFEELQP  L+LA NTYAV
Sbjct: 126 RLVSEALHKMKGKIPEIAGSHVSSRVLQTCVKYCTQAERDAVFEELQPQLLTLACNTYAV 185

Query: 68  HLVKKMLDNASKKQLAGFISALHGHVASLLRHMVGSVVVEHAYQLGNATQKQELLVELYS 127
           HLVKKMLDNASKK LA F+S+LHGHVASLLRHMVGSVVVEHAYQLGNATQKQELL+ELY+
Sbjct: 186 HLVKKMLDNASKKHLAAFMSSLHGHVASLLRHMVGSVVVEHAYQLGNATQKQELLMELYA 245

Query: 128 TELQLFKNLVSIKESRLVDVISKLGLQKASVLRHMASVIQPILEKGIIDHSIIHRVLMEY 187
           TELQLFK+L S+KESRL+DVISKLGLQK SVLRHM+SVIQPILEKGI+DHSIIHR LMEY
Sbjct: 246 TELQLFKDLASVKESRLIDVISKLGLQKGSVLRHMSSVIQPILEKGIVDHSIIHRALMEY 305

Query: 188 LSMADKSSAADIIQQLSGPLLVRMIHTRDGSKIGMLCVKHGSAKERKKIIKGMKGHIGKV 247
           LS+ADKSSAA++IQQLSG LLVRMIHTRDGS+IG+LC+KHGSAKERKKIIKGMKGHI K+
Sbjct: 306 LSIADKSSAAEVIQQLSGALLVRMIHTRDGSRIGLLCIKHGSAKERKKIIKGMKGHIDKI 365

Query: 248 AHDQCGSMVLLCIVSIVDDTKLIAKIIIRELQSIIKELVMDKNGRRVLLQLLHPNCSRYL 307
           AHDQCGSMVL  I+S VDDTKL+ K+IIRELQ+I+KEL++DKNGRRVLLQLLHPNCSRY 
Sbjct: 366 AHDQCGSMVLAYILSTVDDTKLLTKVIIRELQAILKELLLDKNGRRVLLQLLHPNCSRYF 425

Query: 308 SPDDLSSLNLSIPSLCAKEGSEVNSEAKNNESSKEMADQEVVAVQADESTSPAENLPLAE 367
           SP+DL S NLSIPSL  KE     ++   +E +K   D EV   +A+E+TSP+E+  +AE
Sbjct: 426 SPEDLVSFNLSIPSLSPKEAKSSKTKESGDEETK--GDLEVTTAEANENTSPSESHHIAE 483

Query: 368 GGKKDPRVRRQELLVSSGLAESMIDVCIENAGELLRSNFGKEVLYEVAKGGSDDILRPTL 427
           GGKKDP +RRQELLV SGLAE++ID CIE+AGELLRSNFGKEV+YEVA GG+  ILRP L
Sbjct: 484 GGKKDPNLRRQELLVDSGLAENLIDTCIESAGELLRSNFGKEVMYEVATGGAGGILRPAL 543

Query: 428 DDKLNTLHETIASLASESKSEASEEEHVLENFHSSRTIRKLVMDCPKFASTLWKNALKGK 487
           D+KL+ LH  IASLA++ KSE SEEEHVLENFHSSRTIRKLV+DCP FASTLWK AL GK
Sbjct: 544 DEKLDALHGAIASLAAQPKSEESEEEHVLENFHSSRTIRKLVLDCPTFASTLWKIALGGK 603

Query: 488 SEFWAQGHSCKVVTAFLESSDFKVRELAKTELQPLIDSGSLKIPEAKQ 535
            E WAQGHS KVV AFLE+SD +V ELAK ELQPLIDSG LKIPE KQ
Sbjct: 604 CEMWAQGHSHKVVLAFLEASDSEVCELAKGELQPLIDSGILKIPETKQ 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|356564394|ref|XP_003550439.1| PREDICTED: pumilio homolog 24-like isoform 1 [Glycine max] 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|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|449464736|ref|XP_004150085.1| PREDICTED: pumilio homolog 24-like [Cucumis sativus] Back     alignment and taxonomy information
>gi|449501538|ref|XP_004161396.1| PREDICTED: pumilio homolog 24-like [Cucumis sativus] 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

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 ?
Query540
TAIR|locus:2086760641 PUM24 "pumilio 24" [Arabidopsi 0.972 0.819 0.592 2.8e-160
UNIPROTKB|Q15397648 KIAA0020 "Pumilio domain-conta 0.535 0.445 0.337 1.8e-47
UNIPROTKB|E2RBF2648 KIAA0020 "Uncharacterized prot 0.535 0.445 0.327 3.5e-45
RGD|1564753647 LOC499339 "hypothetical protei 0.535 0.446 0.347 8e-45
UNIPROTKB|A2VDN9647 KIAA0020 "Uncharacterized prot 0.535 0.446 0.337 1.4e-44
MGI|MGI:106253647 D19Bwg1357e "DNA segment, Chr 0.535 0.446 0.334 1.5e-44
ZFIN|ZDB-GENE-030131-9808601 si:ch211-241o7.5 "si:ch211-241 0.535 0.480 0.333 2.3e-44
UNIPROTKB|F1SJG9647 LOC100152831 "Uncharacterized 0.535 0.446 0.327 2.8e-43
UNIPROTKB|E1C1R5638 KIAA0020 "Uncharacterized prot 0.537 0.454 0.297 9.4e-42
DICTYBASE|DDB_G0288551679 DDB_G0288551 "pumilio RNA-bind 0.533 0.424 0.288 1.7e-38
TAIR|locus:2086760 PUM24 "pumilio 24" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 1561 (554.6 bits), Expect = 2.8e-160, P = 2.8e-160
 Identities = 316/533 (59%), Positives = 395/533 (74%)

Query:     8 RLISEALQKMKGKIPEIAGSHVSSRVLQTCVKYCSQAERDAVFEELQPHFLSLADNTYAV 67
             +LISEA++KMKGK+PEIA SHVSSRVLQTCVK+CSQAE+D +F ELQP FL+LA N YAV
Sbjct:   110 KLISEAIRKMKGKVPEIAVSHVSSRVLQTCVKFCSQAEKDVLFTELQPQFLNLASNKYAV 169

Query:    68 HLVKKMLDNASKKQLAGFISALHGHVASLLRHMVGSVVVEHAYQLGNATQKQELLVELYS 127
             H ++KMLD ASK+QLA  IS+L GHVA LLRH+ GS+VVEHAY LG+A QKQELL ELYS
Sbjct:   170 HFIQKMLDGASKQQLAACISSLRGHVAPLLRHVFGSLVVEHAYHLGSAAQKQELLAELYS 229

Query:   128 TELQLFKNLVSIKESRLVDVISKLGLQKASVLRHMASVIQPILEKGIIDHSIIHRVLMEY 187
             TELQLFK L +  E  +VD+I+KLGLQK +V RHM ++IQPILEKGI+DH+I H++L+EY
Sbjct:   230 TELQLFKGLTTSNEKTVVDIIAKLGLQKGAVNRHMTAIIQPILEKGIVDHTITHKLLIEY 289

Query:   188 LSMADKSSAADIIQQLSGPLLVRMIHTRDGSKIGMLCVKHGSAKERXXXXXXXXXXXXXV 247
             L++ADK+SAAD++Q L+G LL+RM+HTRDGS++ ML +KHGSAKER             +
Sbjct:   290 LTIADKTSAADVLQLLTGSLLLRMVHTRDGSRLAMLSIKHGSAKERKKIIKAMKEHVKKM 349

Query:   248 AHDQCGSMVLLCIVSIVDDTKLIAKIIIRELQSIIKELVMDKNGRRVLLQLLHPNCSRYX 307
             A DQ GSMVL CI SIVDDTKL+ KII+REL++ +K+LVMDKNGRR LLQLLHPN SRY 
Sbjct:   350 AFDQFGSMVLACIFSIVDDTKLVTKIIVRELEATLKDLVMDKNGRRPLLQLLHPNSSRYL 409

Query:   308 XXXXXXXXXXXXXXXCAKEGSEVNSEAKN---NESSKEMADQEVVAVQADESTSPAENLP 364
                            C+ + SE +S+ K+   NE  +E  D++   V   E +   EN+ 
Sbjct:   410 SHDDLAALDLSVPSLCSMDKSETSSKTKDTDGNEIGEETKDEQEDTVA--EHSDHEENVT 467

Query:   365 LAEGGKKDPRVRRQELLVSSGLAESMIDVCIENAGELLRSNFGKEVLYEVAKGGSDDILR 424
              A GGKKDP VRRQELLV+SGLAE +IDVC+ENA E L+S FG EV+YEVA GGSD IL 
Sbjct:   468 -AMGGKKDPLVRRQELLVNSGLAERLIDVCVENAEEFLQSKFGNEVMYEVAIGGSDGILC 526

Query:   425 PTLDDKLNTLHETIXXXXXXXX--XXXXXXXHVLENFHSSRTIRKLVMDCPKFASTLWKN 482
             P+L +KL  L+E I                 H+LENFHSSRTIR+LV++ P FAS L+K 
Sbjct:   527 PSLSEKLCELYEAISSVAAEPKPQESEKDSEHILENFHSSRTIRRLVLNRPGFASILFKK 586

Query:   483 ALKGKSEFWAQGHSCKVVTAFLESSDFKVRELAKTELQPLIDSGSLKIPEAKQ 535
             AL GK   WAQGH  K+++AF+E+ D +VRE+AKTELQ L++ G+LKI   K+
Sbjct:   587 ALSGKCRSWAQGHCSKILSAFVETEDVQVREMAKTELQVLVNEGTLKISATKK 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|Q15397 KIAA0020 "Pumilio domain-containing protein KIAA0020" [Homo sapiens (taxid:9606)] Back     alignment and assigned GO terms
UNIPROTKB|E2RBF2 KIAA0020 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)] 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
UNIPROTKB|E1C1R5 KIAA0020 "Uncharacterized protein" [Gallus gallus (taxid:9031)] 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 number0.64350.97220.8190yesno

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 ?
Query540
cd07920322 cd07920, Pumilio, Pumilio-family RNA binding domai 4e-10
cd07920322 cd07920, Pumilio, Pumilio-family RNA binding domai 1e-07
COG5099777 COG5099, COG5099, RNA-binding protein of the Puf f 0.002
>gnl|CDD|153420 cd07920, Pumilio, Pumilio-family RNA binding domain Back     alignment and domain information 
 Score = 60.7 bits (148), Expect = 4e-10
 Identities = 61/301 (20%), Positives = 125/301 (41%), Gaps = 41/301 (13%)

Query: 13  ALQKMK-GKIPEIAGSHVSSRVLQTCVKYCSQAERDAVFEELQPHFLSLADNTYAVHLVK 71
            LQ +K G I E A     SR LQ  ++  +  E++ +F+E+ PH + L  + +  ++++
Sbjct: 3   TLQDIKAGHIVEFAKDQHGSRFLQQKLEEATPEEKELIFDEILPHVVELMVDPFGNYVIQ 62

Query: 72  KMLDNASKKQLAGFISALHGHVASLLRHMVGSVVVEHAYQLGNATQKQELLVELYSTELQ 131
           K+ ++ +++Q    +  + GHV  L   M G  V++   +  +  Q   L+ EL    ++
Sbjct: 63  KLFEHGTEEQRLQLLEKILGHVVRLSLDMYGCRVIQKLLESISEEQISLLVKELRGHVVE 122

Query: 132 LFKNLVSIKESRLVD-----VISKLGLQKASVLRHM---ASVIQPILEKGIIDHS----I 179
           L K           D     VI K  ++K           +     +   +  H     +
Sbjct: 123 LVK-----------DQNGNHVIQKC-IEKFPPEDLQFIIDAFKGNCVA--LSTHPYGCRV 168

Query: 180 IHRVLMEYLSMADKSSAADIIQQLSGPLLVRMIHTRDGSKIGMLCVKHGSAKERKKIIKG 239
           I R L E+ S   +    + I +      + ++  + G+ +    ++ G   +  +II+ 
Sbjct: 169 IQRCL-EHCSEEQREPLLEEILE----HALELVQDQFGNYVVQHVLELGDPDDTSRIIEK 223

Query: 240 MKGHIGKVAHDQCGSMVLLCIVSIVDDTKLIAKIIIRELQSIIKELVMDKNGRRVLLQLL 299
           + G+I +++  +  S V       V+  K +      E + II E++   N    L  L+
Sbjct: 224 LLGNIVQLSCHKFASNV-------VE--KCLKHASKEERELIIDEILASGNETSALDTLM 274

Query: 300 H 300
            
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|227430 COG5099, COG5099, RNA-binding protein of the Puf family, translational repressor [Translation, ribosomal structure and biogenesis] Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 540
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 99.96
KOG1488503 consensus Translational repressor Pumilio/PUF3 and 99.96
KOG2049536 consensus Translational repressor MPT5/PUF4 and re 99.95
COG5099777 RNA-binding protein of the Puf family, translation 99.94
COG5099777 RNA-binding protein of the Puf family, translation 99.92
KOG2049536 consensus Translational repressor MPT5/PUF4 and re 99.91
KOG2050652 consensus Puf family RNA-binding protein [Translat 99.88
KOG2188650 consensus Predicted RNA-binding protein, contains 99.8
KOG2188650 consensus Predicted RNA-binding protein, contains 99.71
KOG45741007 consensus RNA-binding protein (contains RRM and Pu 98.71
KOG45741007 consensus RNA-binding protein (contains RRM and Pu 98.64
PF0080635 PUF: Pumilio-family RNA binding repeat; InterPro: 98.43
smart0002536 Pumilio Pumilio-like repeats. Pumilio-like repeats 98.11
PF0080635 PUF: Pumilio-family RNA binding repeat; InterPro: 97.98
smart0002536 Pumilio Pumilio-like repeats. Pumilio-like repeats 97.81
PF08144148 CPL: CPL (NUC119) domain; InterPro: IPR012959 This 89.65
KOG1059 877 consensus Vesicle coat complex AP-3, delta subunit 86.15
>KOG2050 consensus Puf family RNA-binding protein [Translation, ribosomal structure and biogenesis] Back     alignment and domain information 
Probab=100.00  E-value=4.6e-91  Score=719.39  Aligned_cols=475  Identities=39%  Similarity=0.581  Sum_probs=425.2

Q ss_pred             HHHHHHHHHHHhchHHhhhcCCChhHHHHhhhhcCCHHHHHHHHHHHhHhHHhhhcccchhHHHHHHhhcCCHHHHHHHH
Q 009214            7 IRLISEALQKMKGKIPEIAGSHVSSRVLQTCVKYCSQAERDAVFEELQPHFLSLADNTYAVHLVKKMLDNASKKQLAGFI   86 (540)
Q Consensus         7 ~klv~el~~~i~g~i~~la~~~~gsRvlQ~llk~~~~e~r~~I~~eL~~~~~~L~~d~yg~~vvqkll~~~~~e~~~~Il   86 (540)
                      ++||+|+|+.++|++.++++.||+|||||||++||++++|++||++|.|.+++||+++||.|+|||||+||+++|++.|+
T Consensus       152 ~klv~el~~likg~i~~lv~aHDtSRViQt~Vky~s~~~r~~if~eL~p~~v~l~kskY~k~~v~KmLkyGsk~q~a~iI  231 (652)
T KOG2050|consen  152 DKLVSELYKLIKGKISKLVFAHDTSRVIQTCVKYGSEAQREQIFEELLPFFVELAKSKYAKFFVQKMLKYGSKAQKAKII  231 (652)
T ss_pred             HHHHHHHHHHHhhhHHHHHHHhhhHHHHHHHHHhcCHHHHHHHHHHHhHHHHHHHHhHHHHHHHHHHHhcCCHHHHHHHH
Confidence            68999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHhHHHHHhccchhhHHHHHHh-hCCHHHHHHHHHHHHhhHHHhhcccCCCchhhHHHHHhhhhhhHHHHHHhHHHH
Q 009214           87 SALHGHVASLLRHMVGSVVVEHAYQ-LGNATQKQELLVELYSTELQLFKNLVSIKESRLVDVISKLGLQKASVLRHMASV  165 (540)
Q Consensus        87 ~~l~g~v~~L~~h~~gs~Vvq~ll~-~~~~~qr~~il~e~~g~~~~l~~~~~g~~~~~L~~il~~~~~k~~~i~~~~~~~  165 (540)
                      ++|+||+++|++|++|++||+++|+ +++.+||..|++||||++|++|++.+   ..+|.++++..|+++.+|++++..+
T Consensus       232 ~sl~Ghv~kLlRH~eaa~Vve~ay~~~A~l~Qr~~li~EfYG~efqlfK~sn---~~Tl~kil~~~pekk~~I~~~l~~~  308 (652)
T KOG2050|consen  232 NSLRGHVVKLLRHREAAYVVEYAYNDFATLEQRQYLIQEFYGDEFQLFKDSN---DKTLDKILAEAPEKKASILRHLKAI  308 (652)
T ss_pred             HHHhhhHHHHHhhhHHHHHHHHHHHhhccHHHHHHHHHHHhhHHHHHHhccC---cccHHHHHHhChHhHHHHHHHHHHH
Confidence            9999999999999999999999998 69999999999999999999999965   8999999999999999999999999


Q ss_pred             HHHHHhhCCCchhhHHHHHHHHHhhCChhhHHHHHHHhhhhHHHHhccCcchhHHHHHHHhhCCHHHHHHHHHHHHHHHH
Q 009214          166 IQPILEKGIIDHSIIHRVLMEYLSMADKSSAADIIQQLSGPLLVRMIHTRDGSKIGMLCVKHGSAKERKKIIKGMKGHIG  245 (540)
Q Consensus       166 iq~il~K~~~~~~i~h~~l~ey~~~~~~~~~~~li~~L~~~~l~~L~~tk~Gs~Vv~~~L~~~~~k~Rk~Iik~lk~~i~  245 (540)
                      |+++++|+.++++|+|++|++||++|+++.+.++++.+.+- +.+|+||++||+|++.|+|++++|+||.|+|+|++|+.
T Consensus       309 I~~v~eKg~v~~tivHk~mlEy~~~ade~e~~e~l~ll~el-v~e~vHT~dGS~vAm~li~~a~aKeRK~IiK~~K~h~~  387 (652)
T KOG2050|consen  309 ITPVAEKGSVDHTIVHKLMLEYLTIADEEEKSELLELLKEL-VPEMVHTRDGSRVAMKLIWHATAKERKLIIKNMKEHVE  387 (652)
T ss_pred             hHHHhhcchhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHH-HHHHhcCCchHHHHHHHHhhCCHHHHHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999954 89999999999999999999999999999999999999


Q ss_pred             HHHhCcChhHHHHHHHhccCchHHHHHHHHHHHHHHHHHhHhCcChHHHHHHhcCCCCCCCCCHhHHHhhcccccccccc
Q 009214          246 KVAHDQCGSMVLLCIVSIVDDTKLIAKIIIRELQSIIKELVMDKNGRRVLLQLLHPNCSRYLSPDDLSSLNLSIPSLCAK  325 (540)
Q Consensus       246 ~La~d~~G~~Vl~~ll~~~dDt~l~~k~I~~eL~~~l~~L~~~kyGr~vll~lL~~~~~r~~~~~~~~~L~~~~~~l~~~  325 (540)
                      ++|.|+|||+|+.++|+|+|||+++++.|++++.+++..+..|+|||+|++|++.|+|++||+|+.++.|++.       
T Consensus       388 K~A~~~yGh~vlia~ldc~DDT~l~kk~i~~e~~~el~~li~Dk~Grrv~lyll~p~D~~~f~~e~ie~l~~~-------  460 (652)
T KOG2050|consen  388 KIANDEYGHLVLIALLDCTDDTKLLKKLIYDELKSELKSLISDKYGRRVILYLLAPRDGRYFVPEFIEVLEEL-------  460 (652)
T ss_pred             HHHhhccCceehhhhhcccchHHHHHHHHHHHHHHHHHHHhccchhhhhhhhhccCCccccccHHHHHHHHhc-------
Confidence            9999999999999999999999999999999999999999999999999999999999999999999887742       


Q ss_pred             cCcccchhhcccchhhhhhHHHHhhhhccCCCCCCCCCCCCCCCCCChHHHHHHHHhhcCCcHHHHHHHHhcHHHHhhcc
Q 009214          326 EGSEVNSEAKNNESSKEMADQEVVAVQADESTSPAENLPLAEGGKKDPRVRRQELLVSSGLAESMIDVCIENAGELLRSN  405 (540)
Q Consensus       326 ~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~sKKd~~~Rr~EL~~~~~~~~~l~~~~~~~~~~l~~~~  405 (540)
                                               |             .+..|||||.+||.||+.  +++|.|+.+|.+|+++++.++
T Consensus       461 -------------------------d-------------~~k~sKKdp~vRr~eLla--~isp~lis~~s~~aeeil~e~  500 (652)
T KOG2050|consen  461 -------------------------D-------------SNKHSKKDPLVRRIELLA--AISPSLISLLSENAEEILAEA  500 (652)
T ss_pred             -------------------------c-------------cccccccCHHHHHHHHHH--hhhHHHHHHHHHhHHHHHHHh
Confidence                                     2             346799999999999997  599999999999999999999


Q ss_pred             CcchHHHHHHhcCCCCCcCCcchhhHHHHHHHHHHHhc-ccCCccchhhhhhhcchhhHHHH------------HHHhcC
Q 009214          406 FGKEVLYEVAKGGSDDILRPTLDDKLNTLHETIASLAS-ESKSEASEEEHVLENFHSSRTIR------------KLVMDC  472 (540)
Q Consensus       406 ~g~~vi~e~l~~~~~~~~~~~~~d~~~~~~~ai~~~~~-~~~~~~~~~~~~~~~~~~~r~lk------------~li~~~  472 (540)
                      +||+|+++.++++..|.+.+   |+-+.+.+++-..-. .|... ...-|..+.|.++.++.            .+..+.
T Consensus       501 ~~~~~lV~~~l~~~~~~~d~---~~~q~~a~a~l~~~~~~~~~~-~~p~h~~~~~~~~~il~q~g~w~~~~~k~~~~~~~  576 (652)
T KOG2050|consen  501 LKSQVLVEASLGAEDGDKDP---DEKQAAAEAALPAFKAIPEEA-KKPKHQEEEPAAHLILGQEGAWMHIEKKRILKNNR  576 (652)
T ss_pred             hcceeeHHhhhcCcccccCh---hhHHHHHHHHHHHhccCcccc-cCCcchhcccchhhHHhccccchhHHHHHHhhhcC
Confidence            99999999999988776521   222223232221111 12211 11234445555554444            222233


Q ss_pred             cchH--HHHHHHhchhhhhhhcc-cCccchhhHhhcCCCHHHHHHHHHhhccccccCCcccCccccC
Q 009214          473 PKFA--STLWKNALKGKSEFWAQ-GHSCKVVTAFLESSDFKVRELAKTELQPLIDSGSLKIPEAKQL  536 (540)
Q Consensus       473 ~~f~--~~l~~~~~~~~~~~w~~-~~~~fvv~al~e~~~~~~~~~~~~~l~~~~~~~~l~~~~~~~~  536 (540)
                      +.+.  ..|.+.+..++|.+||+ ++|||||+||+|++++.+.+..+..+...+.+|+++++.++++
T Consensus       577 ~g~~~~k~l~e~l~sk~L~sWa~~nrg~fvL~allE~~~~~v~~k~ka~~~r~~~~~~~~~~a~kg~  643 (652)
T KOG2050|consen  577 EGEGVPKLLLENLSSKNLKSWASVNRGCFVLLALLETCDDQVEEKKKAKLLRLVLSGILKDSATKGA  643 (652)
T ss_pred             CccccHHHHHHHhhHHHHHHHHccCcchhhHHHHHHhcCHHhhhhHHHHHHHhhhhhhcccccCccH
Confidence            4333  48888888999999999 6899999999999999999999999999999999999988875

>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
>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
>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
>KOG2050 consensus Puf family RNA-binding protein [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>KOG2188 consensus Predicted RNA-binding protein, contains Pumilio domains [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>KOG2188 consensus Predicted RNA-binding protein, contains Pumilio domains [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>KOG4574 consensus RNA-binding protein (contains RRM and Pumilio-like repeats) [General function prediction only] Back     alignment and domain information
>KOG4574 consensus RNA-binding protein (contains RRM and Pumilio-like repeats) [General function prediction only] Back     alignment and domain information
>PF00806 PUF: Pumilio-family RNA binding repeat; InterPro: IPR001313 The drosophila pumilio gene codes for an unusual protein that binds through the Puf domain that usually occurs as a tandem repeat of eight domains Back     alignment and domain information
>smart00025 Pumilio Pumilio-like repeats Back     alignment and domain information
>PF00806 PUF: Pumilio-family RNA binding repeat; InterPro: IPR001313 The drosophila pumilio gene codes for an unusual protein that binds through the Puf domain that usually occurs as a tandem repeat of eight domains Back     alignment and domain information
>smart00025 Pumilio Pumilio-like repeats Back     alignment and domain information
>PF08144 CPL: CPL (NUC119) domain; InterPro: IPR012959 This C-terminal domain is found in Penguin-like proteins (CPL) and is associated with Pumilio like repeats [] Back     alignment and domain information
>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 ?
Query540
1ib2_A349 Crystal Structure Of A Pumilio-Homology Domain Leng 3e-06
3bsb_A343 Crystal Structure Of Human Pumilio1 In Complex With 4e-06
2yjy_A350 A Specific And Modular Binding Code For Cytosine Re 5e-06
3k49_A369 Puf3 Rna Binding Domain Bound To Cox17 Rna 3' Utr R 6e-05
3gvo_A351 Structure And Rna Binding Of The Mouse Pumilio-2 Pu 8e-05
3q0q_A351 Crystal Structure Of The Pumilio-Homology Domain Fr 1e-04
3h3d_X323 Drosophila Pumilio Rna Binding Domain (Puf Domain) 4e-04
>pdb|1IB2|A Chain A, Crystal Structure Of A Pumilio-Homology Domain Length = 349 Back     alignment and structure 
Iteration: 1

 Score = 50.1 bits (118), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 58/250 (23%), Positives = 104/250 (41%), Gaps = 31/250 (12%)
Query: 14  LQKMKGKIPEIAGSHVSSRVLQTCVKYCSQAERDAVFEELQPHFLSLADNTYAVHLVKKM 73
           L+++ G I E +     SR +Q  ++  + AER  VF E+      L  + +  ++++K 
Sbjct: 19  LREIAGHIMEFSQDQHGSRFIQLKLERATPAERQLVFNEILQAAYQLMVDVFGNYVIQKF 78
Query: 74  LDNASKKQLAGFISALHGHVASLLRHMVGSVVVEHAYQLGNATQKQELLVELYSTELQLF 133
            +  S +Q       + GHV SL   M G  V++ A +   + Q+ E++ EL    L+  
Sbjct: 79  FEFGSLEQKLALAERIRGHVLSLALQMYGCRVIQKALEFIPSDQQNEMVRELDGHVLKCV 138
Query: 134 KN----------LVSIKESRLVDVISKLGLQKASVLRHM--ASVIQPILEKGIIDHSI-- 179
           K+          +  ++   L  +I     Q  ++  H     VIQ ILE  + D ++  
Sbjct: 139 KDQNGNHVVQKCIECVQPQSLQFIIDAFKGQVFALSTHPYGCRVIQRILEHCLPDQTLPI 198
Query: 180 ---IHR-------------VLMEYLSMADKSSAADIIQQLSGPLLVRMIHTRDGSKIGML 223
              +H+             V+   L        + I+ ++ G +LV   H +  S +   
Sbjct: 199 LEELHQHTEQLVQDQYGNYVIQHVLEHGRPEDKSKIVAEIRGNVLVLSQH-KFASNVVEK 257
Query: 224 CVKHGSAKER 233
           CV H S  ER
Sbjct: 258 CVTHASRTER 267
>pdb|3BSB|A Chain A, Crystal Structure Of Human Pumilio1 In Complex With Cyclinb Reverse Rna Length = 343 Back     alignment and structure
>pdb|2YJY|A Chain A, A Specific And Modular Binding Code For Cytosine Recognition In Puf Domains Length = 350 Back     alignment and structure
>pdb|3K49|A Chain A, Puf3 Rna Binding Domain Bound To Cox17 Rna 3' Utr Recognition Sequence Site B Length = 369 Back     alignment and structure
>pdb|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|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 ?
Query540
3gvo_A351 Pumilio 2, pumilio homolog 2; RNA-binding, PUF dom 2e-56
3gvo_A351 Pumilio 2, pumilio homolog 2; RNA-binding, PUF dom 2e-10
3gvo_A351 Pumilio 2, pumilio homolog 2; RNA-binding, PUF dom 6e-04
3k49_A369 MRNA-binding protein PUF3; PUF3, pumilio, RNA bind 7e-48
3k49_A369 MRNA-binding protein PUF3; PUF3, pumilio, RNA bind 3e-16
3k49_A369 MRNA-binding protein PUF3; PUF3, pumilio, RNA bind 3e-09
3bwt_A333 Protein PUF4; pumilio, RNA binding, HO endonucleas 3e-38
3bwt_A333 Protein PUF4; pumilio, RNA binding, HO endonucleas 2e-11
3v71_A382 PUF (pumilio/FBF) domain-containing protein 7, CO 1e-18
3k62_A412 FEM-3 mRNA-binding factor 2; FBF, FEM-3 binding fa 3e-15
3k62_A412 FEM-3 mRNA-binding factor 2; FBF, FEM-3 binding fa 2e-08
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 8e-10
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 4e-04
>3gvo_A Pumilio 2, pumilio homolog 2; RNA-binding, PUF domain, RNA binding protein; HET: DTD; 1.60A {Mus musculus} PDB: 3gvt_A 3q0q_A 3q0r_A 3q0s_A 1ib2_A 1m8w_A 1m8x_A 1m8y_A 1m8z_A 3q0l_A 3q0m_A 3q0n_A 3q0o_A 3q0p_A 2yjy_A 3bsx_A 3bsb_A 3h3d_X Length = 351 Back     alignment and structure
 Score =  192 bits (489), Expect = 2e-56
 Identities = 55/303 (18%), Positives = 127/303 (41%), Gaps = 20/303 (6%)

Query: 8   RLISEALQKMKGKIPEIAGSHVSSRVLQTCVKYCSQAERDAVFEELQPHFLSLADNTYAV 67
           R  +  L+ + G I E +     SR +Q  ++  + AER  VF E+      L  + +  
Sbjct: 15  RFPNLQLRDLIGHIVEFSQDQHGSRFIQQKLERATPAERQIVFNEILQAAYQLMTDVFGN 74

Query: 68  HLVKKMLDNASKKQLAGFISALHGHVASLLRHMVGSVVVEHAYQLGNATQKQELLVELYS 127
           ++++K  +  S  Q     + + GHV  L   M G  V++ A +  ++ Q+ E++ EL  
Sbjct: 75  YVIQKFFEFGSLDQKLALATRIRGHVLPLALQMYGCRVIQKALESISSDQQSEMVKELDG 134

Query: 128 TELQLFKNLVSIKESRLVDVISKLGLQKASVLRHMASVIQPILEK--GIIDHSIIHRVLM 185
             L+  K+           V+ K  ++     + +  +I     +   +  H    RV+ 
Sbjct: 135 HVLKCVKDQNGNH------VVQKC-IECVQP-QSLQFIIDAFKGQVFVLSTHPYGCRVIQ 186

Query: 186 EYLSMADKSSAADIIQQLSGPLLVRMIHTRDGSKIGMLCVKHGSAKERKKIIKGMKGHIG 245
             L          I+++L      +++  + G+ +    ++HG  +++ KI+  ++G + 
Sbjct: 187 RILEHCTAEQTLPILEELH-QHTEQLVQDQYGNYVIQHVLEHGRPEDKSKIVSEIRGKVL 245

Query: 246 KVAHDQCGSMVLLCIVSIVDDTKLIAKIIIREL-------QSIIKELVMDKNGRRVLLQL 298
            ++  +  S V+   V+     +    ++I E+        S +  ++ D+    V+ ++
Sbjct: 246 ALSQHKFASNVVEKCVTHASRAER--ALLIDEVCCQNDGPHSALYTMMKDQYANYVVQKM 303

Query: 299 LHP 301
           +  
Sbjct: 304 IDM 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
>3gvo_A Pumilio 2, pumilio homolog 2; RNA-binding, PUF domain, RNA binding protein; HET: DTD; 1.60A {Mus musculus} PDB: 3gvt_A 3q0q_A 3q0r_A 3q0s_A 1ib2_A 1m8w_A 1m8x_A 1m8y_A 1m8z_A 3q0l_A 3q0m_A 3q0n_A 3q0o_A 3q0p_A 2yjy_A 3bsx_A 3bsb_A 3h3d_X Length = 351 Back     alignment and structure
>3k49_A MRNA-binding protein PUF3; PUF3, pumilio, RNA binding, mitochondrial mRNA,, membrane, mitochondrion; HET: CIT; 2.50A {Saccharomyces cerevisiae} PDB: 3k4e_A Length = 369 Back     alignment and structure
>3k49_A MRNA-binding protein PUF3; PUF3, pumilio, RNA binding, mitochondrial mRNA,, membrane, mitochondrion; HET: CIT; 2.50A {Saccharomyces cerevisiae} PDB: 3k4e_A Length = 369 Back     alignment and structure
>3k49_A MRNA-binding protein PUF3; PUF3, pumilio, RNA binding, mitochondrial mRNA,, membrane, mitochondrion; HET: CIT; 2.50A {Saccharomyces cerevisiae} PDB: 3k4e_A Length = 369 Back     alignment and structure
>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
>3k62_A FEM-3 mRNA-binding factor 2; FBF, FEM-3 binding factor, PUF, RNA-binding specificity, base flipping, base stacking; 1.90A {Caenorhabditis elegans} PDB: 3k5y_A 3k5z_A 3k61_A 3k5q_A 3k64_A 3qg9_A 3v6y_A 3v74_A 3qgc_A 3qgb_A Length = 412 Back     alignment and structure
>3k62_A FEM-3 mRNA-binding factor 2; FBF, FEM-3 binding factor, PUF, RNA-binding specificity, base flipping, base stacking; 1.90A {Caenorhabditis elegans} PDB: 3k5y_A 3k5z_A 3k61_A 3k5q_A 3k64_A 3qg9_A 3v6y_A 3v74_A 3qgc_A 3qgb_A Length = 412 Back     alignment and structure
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221 Back     alignment and structure
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221 Back     alignment and structure

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query540
3bwt_A333 Protein PUF4; pumilio, RNA binding, HO endonucleas 100.0
3k49_A369 MRNA-binding protein PUF3; PUF3, pumilio, RNA bind 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
3gvo_A351 Pumilio 2, pumilio homolog 2; RNA-binding, PUF dom 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 100.0
>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
Probab=100.00  E-value=9.9e-45  Score=374.30  Aligned_cols=250  Identities=19%  Similarity=0.278  Sum_probs=230.6

Q ss_pred             HHHHHHHHHhchHHhhhcCCChhHHHHhhhhcCCHHHHHHHHHHHhHhHHhhhcccchhHHHHHHhhcCCHHHHHHHHHH
Q 009214            9 LISEALQKMKGKIPEIAGSHVSSRVLQTCVKYCSQAERDAVFEELQPHFLSLADNTYAVHLVKKMLDNASKKQLAGFISA   88 (540)
Q Consensus         9 lv~el~~~i~g~i~~la~~~~gsRvlQ~llk~~~~e~r~~I~~eL~~~~~~L~~d~yg~~vvqkll~~~~~e~~~~Il~~   88 (540)
                      +.+.+++.++|++.++|.+|+|||+||++++++++++++.||+++.|++.+|++|+|||||+||+|++++++++..|+++
T Consensus         3 ~~~~~l~~~~g~i~~l~~~q~gsr~iQ~~l~~~~~~~~~~i~~el~~~~~~L~~d~~gn~vvQkll~~~~~~~~~~i~~~   82 (333)
T 3bwt_A            3 FADAVLDQYIGSIHSLCKDQHGCRFLQKQLDILGSKAADAIFEETKDYTVELMTDSFGNYLIQKLLEEVTTEQRIVLTKI   82 (333)
T ss_dssp             TTTCCGGGTTTCHHHHTSSHHHHHHHHHHHHHSCHHHHHHHHHHHGGGHHHHHTSTTHHHHHHHHHHHSCHHHHHHHHHH
T ss_pred             cccCcHHHHHHHHHHHhcCcHhhHHHHHHHccCCHHHHHHHHHHHHHHHHHHhcCcccHHHHHHHHhhCCHHHHHHHHHH
Confidence            45667889999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHhHHHHHhccchhhHHHHHHhhC-CHHHHHHHHHHHHhhHHHhhcccCCCchhhHHHHHhhhhhhHHHHHHhHHHHHH
Q 009214           89 LHGHVASLLRHMVGSVVVEHAYQLG-NATQKQELLVELYSTELQLFKNLVSIKESRLVDVISKLGLQKASVLRHMASVIQ  167 (540)
Q Consensus        89 l~g~v~~L~~h~~gs~Vvq~ll~~~-~~~qr~~il~e~~g~~~~l~~~~~g~~~~~L~~il~~~~~k~~~i~~~~~~~iq  167 (540)
                      +.|++..|+.|+|||||+|++++.+ +++|+..+++++++....+++|.                        +|++++|
T Consensus        83 ~~~~~~~l~~~~~G~rviQ~~l~~~~~~~~~~~i~~el~~~~~~L~~d~------------------------~gn~Viq  138 (333)
T 3bwt_A           83 SSPHFVEISLNPHGTRALQKLIECIKTDEEAQIVVDSLRPYTVQLSKDL------------------------NGNHVIQ  138 (333)
T ss_dssp             HGGGHHHHHHSTTHHHHHHHHHHHCCSHHHHHHHHHHHGGGHHHHHTST------------------------THHHHHH
T ss_pred             HHhHHHHHHhcccccHHHHHHHHhcCcHHHHHHHHHHHHHHHHHHhcCC------------------------cccHHHH
Confidence            9999999999999999999999975 68889999999999999999985                        4567777


Q ss_pred             HHHhhCCCchhhHHHHHHHHHhhCChhhHHHHHHHhhhhHHHHhccCcchhHHHHHHHhhCCHHHHHHHHHHHHHHHHHH
Q 009214          168 PILEKGIIDHSIIHRVLMEYLSMADKSSAADIIQQLSGPLLVRMIHTRDGSKIGMLCVKHGSAKERKKIIKGMKGHIGKV  247 (540)
Q Consensus       168 ~il~K~~~~~~i~h~~l~ey~~~~~~~~~~~li~~L~~~~l~~L~~tk~Gs~Vv~~~L~~~~~k~Rk~Iik~lk~~i~~L  247 (540)
                      ++++                  .++++.+..+++.+.++ +..|+++++||+|+++|+.++++++|+.|++++.+++..|
T Consensus       139 k~l~------------------~~~~~~~~~i~~~l~~~-~~~l~~~~~Gs~Vvq~~l~~~~~~~~~~l~~el~~~~~~L  199 (333)
T 3bwt_A          139 KCLQ------------------RLKPENFQFIFDAISDS-CIDIATHRHGCCVLQRCLDHGTTEQCDNLCDKLLALVDKL  199 (333)
T ss_dssp             HHHH------------------HSCHHHHHHHHHHHHHS-HHHHHTSTTHHHHHHHHHHHCCHHHHHHHHHHHHTTHHHH
T ss_pred             HHHH------------------HCCHHHHHHHHHHHHHH-HHHHhcCchhHHHHHHHHHhCCHHHHHHHHHHHHHHHHHH
Confidence            7665                  34677888999999988 6999999999999999999999999999999999999999


Q ss_pred             HhCcChhHHHHHHHhccCchH--HHHHHHHHHHHHHHHHhHhCcChHHHHHHhcCC
Q 009214          248 AHDQCGSMVLLCIVSIVDDTK--LIAKIIIRELQSIIKELVMDKNGRRVLLQLLHP  301 (540)
Q Consensus       248 a~d~~G~~Vl~~ll~~~dDt~--l~~k~I~~eL~~~l~~L~~~kyGr~vll~lL~~  301 (540)
                      ++|+|||||||++++..+++.  ..++.|++.+.+++.+|+.++||++|++++|..
T Consensus       200 ~~d~~GnyVvQ~~L~~~~~~~~~~~~~~ii~~l~~~~~~Ls~~k~gs~Vvek~l~~  255 (333)
T 3bwt_A          200 TLDPFGNYVVQYIITKEAEKNKYDYTHKIVHLLKPRAIELSIHKFGSNVIEKILKT  255 (333)
T ss_dssp             HTSTTHHHHHHHHHHHHHHHTCCSHHHHHHHHHGGGHHHHHTSTTHHHHHHHHHTS
T ss_pred             hcCChHHHHHHHHHHhCCccccchhHHHHHHHHHHHHHHHHcccHHHHHHHHHHcc
Confidence            999999999999999876543  235789999999999999999999999999863
>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
>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
>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
>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 540
d1m8za_339 a.118.1.8 (A:) Pumilio 1 {Human (Homo sapiens) [Ta 1e-37
d1m8za_339 a.118.1.8 (A:) Pumilio 1 {Human (Homo sapiens) [Ta 1e-10
>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 =  139 bits (351), Expect = 1e-37
 Identities = 55/298 (18%), Positives = 126/298 (42%), Gaps = 14/298 (4%)

Query: 8   RLISEALQKMKGKIPEIAGSHVSSRVLQTCVKYCSQAERDAVFEELQPHFLSLADNTYAV 67
           R  +  L+++ G I E +     SR +Q  ++  + AER  VF E+      L  + +  
Sbjct: 13  RYPNLQLREIAGHIMEFSQDQHGSRFIQLKLERATPAERQLVFNEILQAAYQLMVDVFGN 72

Query: 68  HLVKKMLDNASKKQLAGFISALHGHVASLLRHMVGSVVVEHAYQLGNATQKQELLVELYS 127
           ++++K  +  S +Q       + GHV SL   M G  V++ A +   + Q+ E++ EL  
Sbjct: 73  YVIQKFFEFGSLEQKLALAERIRGHVLSLALQMYGCRVIQKALEFIPSDQQNEMVRELDG 132

Query: 128 TELQLFKNLV-SIKESRLVDVISKLGLQKASVLRHMASVIQPILEKGIIDHSIIHRVLME 186
             L+  K+   +    + ++ +    LQ   ++      +       +  H    RV+  
Sbjct: 133 HVLKCVKDQNGNHVVQKCIECVQPQSLQF--IIDAFKGQVFA-----LSTHPYGCRVIQR 185

Query: 187 YLSMADKSSAADIIQQLSGPLLVRMIHTRDGSKIGMLCVKHGSAKERKKIIKGMKGHIGK 246
            L          I+++L      +++  + G+ +    ++HG  +++ KI+  ++G++  
Sbjct: 186 ILEHCLPDQTLPILEELH-QHTEQLVQDQYGNYVIQHVLEHGRPEDKSKIVAEIRGNVLV 244

Query: 247 VAHDQCGSMVLLCIVSIVDDTKLIAKIII-----RELQSIIKELVMDKNGRRVLLQLL 299
           ++  +  S V+   V+    T+    I           S +  ++ D+    V+ +++
Sbjct: 245 LSQHKFASNVVEKCVTHASRTERAVLIDEVCTMNDGPHSALYTMMKDQYANYVVQKMI 302
>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 ?
Query540
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=2.3e-41  Score=347.06  Aligned_cols=277  Identities=19%  Similarity=0.292  Sum_probs=251.3

Q ss_pred             HHHHhchHHhhhcCCChhHHHHhhhhcCCHHHHHHHHHHHhHhHHhhhcccchhHHHHHHhhcCCHHHHHHHHHHHHHhH
Q 009214           14 LQKMKGKIPEIAGSHVSSRVLQTCVKYCSQAERDAVFEELQPHFLSLADNTYAVHLVKKMLDNASKKQLAGFISALHGHV   93 (540)
Q Consensus        14 ~~~i~g~i~~la~~~~gsRvlQ~llk~~~~e~r~~I~~eL~~~~~~L~~d~yg~~vvqkll~~~~~e~~~~Il~~l~g~v   93 (540)
                      +++++|++.++|++|+|||+||++++++++++|+.||+++.|++.+||+|+|||||||||+++|+++++..|++++.|++
T Consensus        19 l~~~~g~~~~~~~~q~gSr~lQ~~l~~~~~~~~~~I~~~l~~~~~~L~~~~~gn~vvqkll~~~~~~~~~~i~~~l~~~~   98 (339)
T d1m8za_          19 LREIAGHIMEFSQDQHGSRFIQLKLERATPAERQLVFNEILQAAYQLMVDVFGNYVIQKFFEFGSLEQKLALAERIRGHV   98 (339)
T ss_dssp             GGGGTTCHHHHHTSHHHHHHHHHHHHHCCHHHHHHHHHHHGGGHHHHHTSTTHHHHHHHHHHHSCHHHHHHHHHHHTTCH
T ss_pred             HHHHHhHHHHHhcCchhhHHHHHHHhhCCHHHHHHHHHHHHHHHHHHhhCcccchhHHHHHhhCCHHHHHHHHHHHHhhH
Confidence            56779999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHhccchhhHHHHHHhhCCHHHHHHHHHHHHhhHHHhhcccCCCchhhHHHHHhh-hhhhHHHHHHhHHHHHHHHHhh
Q 009214           94 ASLLRHMVGSVVVEHAYQLGNATQKQELLVELYSTELQLFKNLVSIKESRLVDVISK-LGLQKASVLRHMASVIQPILEK  172 (540)
Q Consensus        94 ~~L~~h~~gs~Vvq~ll~~~~~~qr~~il~e~~g~~~~l~~~~~g~~~~~L~~il~~-~~~k~~~i~~~~~~~iq~il~K  172 (540)
                      .+|+.|+|||+|+|++++.++..++..+++++++....++.|..|  .+.++.+++. .|..+..+.+.+...+..+.. 
T Consensus        99 ~~L~~~~~gs~Vvq~l~~~~~~~~~~~l~~el~~~~~~l~~d~~~--~~v~~~~l~~~~~~~~~~i~~~~~~~~~~l~~-  175 (339)
T d1m8za_          99 LSLALQMYGCRVIQKALEFIPSDQQNEMVRELDGHVLKCVKDQNG--NHVVQKCIECVQPQSLQFIIDAFKGQVFALST-  175 (339)
T ss_dssp             HHHHTSTTHHHHHHHHHHHSCHHHHHHHHHTTTTCHHHHHHSTTH--HHHHHHHHHHSCGGGGHHHHHHTTTTHHHHHT-
T ss_pred             HHHhcccccchHHHhhhccCCHHHHHHHHHHHhhhhHHHhcCCCc--chHHHHHHHhcCHHHHHHHHHHHHHHHHHHHh-
Confidence            999999999999999999999999999999999999999999987  6778888875 456666677766665555443 


Q ss_pred             CCCchhhHHHHHHHHHhhCChhhHHHHHHHhhhhHHHHhccCcchhHHHHHHHhhCCHHHHHHHHHHHHHHHHHHHhCcC
Q 009214          173 GIIDHSIIHRVLMEYLSMADKSSAADIIQQLSGPLLVRMIHTRDGSKIGMLCVKHGSAKERKKIIKGMKGHIGKVAHDQC  252 (540)
Q Consensus       173 ~~~~~~i~h~~l~ey~~~~~~~~~~~li~~L~~~~l~~L~~tk~Gs~Vv~~~L~~~~~k~Rk~Iik~lk~~i~~La~d~~  252 (540)
                          +...+.++.+++..++++++..+++.+.+. +..|+++++|++|++.+|+++++++|+.|++.|++++.+|++|+|
T Consensus       176 ----~~~g~~vlq~~l~~~~~~~~~~l~~~l~~~-~~~L~~~~~G~~vvq~~l~~~~~~~~~~i~~~l~~~~~~l~~~k~  250 (339)
T d1m8za_         176 ----HPYGCRVIQRILEHCLPDQTLPILEELHQH-TEQLVQDQYGNYVIQHVLEHGRPEDKSKIVAEIRGNVLVLSQHKF  250 (339)
T ss_dssp             ----STTHHHHHHHHHHHSCHHHHHHHHHHHHHT-HHHHTTSTTHHHHHHHHHHHSCHHHHHHHHHHHTTCHHHHHTSTT
T ss_pred             ----CcchhHHHHHHHhcCCHHHHHHHHHHHHHH-HHHHHhCccHHHHHHHHHHcCCHHHHHHHHHHHHhhHHHHHcchh
Confidence                445678888999999999999999999877 799999999999999999999999999999999999999999999


Q ss_pred             hhHHHHHHHhccCchHHHHHHHHHHHHH-------HHHHhHhCcChHHHHHHhcC
Q 009214          253 GSMVLLCIVSIVDDTKLIAKIIIRELQS-------IIKELVMDKNGRRVLLQLLH  300 (540)
Q Consensus       253 G~~Vl~~ll~~~dDt~l~~k~I~~eL~~-------~l~~L~~~kyGr~vll~lL~  300 (540)
                      |++|+++++...++...  +.++.++..       .+..|+.|+||++|++.+|.
T Consensus       251 gS~vve~~l~~~~~~~~--~~~~~~l~~~~~~~~~~l~~L~~d~~gn~Viq~~l~  303 (339)
T d1m8za_         251 ASNVVEKCVTHASRTER--AVLIDEVCTMNDGPHSALYTMMKDQYANYVVQKMID  303 (339)
T ss_dssp             HHHHHHHHHHHSCHHHH--HHHHHHHHHCEETTEEHHHHHHTSTTHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCHHHH--HHHHHHHHhcccCchHHHHHHHcCCcccHHHHHHHH
Confidence            99999999999877764  777888753       48899999999999988775
>d1m8za_ a.118.1.8 (A:) Pumilio 1 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure