Citrus Sinensis ID: 008889

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
MSVLNNVDEQTVRSLNGCRVADQILKHVPNVEHFRMTLRCLKFWAKRRGVYSNVTGFLGGVNWALLVARVCQLYPNAIPSMLVSRFFRVYTQWRWPNPVMLCPIEEDELGFSVWDPRKNPRDRSHHMPIITPAYPCMNSSYNVSLSTLRVMTEQFQWGNRICEEIELNKAQWSALFEPYLFFEAYKNYLQVDIVAADADDLLTWKGWVESRFRQLTLKIERDTNGLLQCHPYPNEYIDPSKPCPNSAFFMGLRRKEGVTGKERQQFDIRGTVDNFREEIGMYMFWKPGMDIYVSHVRRRQLPSFVFPDGYKRPRPSRHFNEQAGKPCEDVKMCQSGSSGRHLKREKEHEMEEVRPDKSVKRASISSEVPQPVSPGKTTGDSTNDSEVMSAGGHLVSEKDTMAAHMQLDGIVNHESVALNEQKCTLVDDLSVINNESESSDLAEPSKPGLLGRCEIHSVDTVSSGSLLNVKGVAIKVDQELVKPCNQMTVVEVAGREYESKSCTQNLSCEGDDCVASLDTLSENGCLNSCEVFHNSLTEELEPSSTLGATV
ccccccccHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHccccccccccHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHccHHHHHHcccccHHHHHccEEEEEEEEccHHHHHHHHHHHHHHHHHHHHHHHHcccccEEEccccccccccccccccccEEEcEEEccccccccccEEccHHHHHHHHHHHHHHccccccEEEEEEEEcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
ccHHccccHHHHHHccccHHHHHHHHHcccHHHHHHHHHHHHHHHHHcccHHHHHccHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHcccccccEEEcccccccccccccccccccccccccccEEccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHccccHHHHHccccHHHHHHEEEEEEEEcccHHHHHHHHHHHHHHHHHHHHHHHHccccEEEEccccccccccccccccEEEEEEEEEccccccccccEEEcccHHHHHHHHHHHHHHcccccEEEEEEEEHHHcccccccccccccccccccccccccccccccEcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEcccccccccccccccccccccccccccccEEEcccccccccccccccHHccccccccccEEccccccccccccccccccccccccccccccccccccccHHcccccHHHccccccccccc
msvlnnvdeqtvrslngcRVADQilkhvpnvehFRMTLRCLKFWAKRRGVYSNVTGFLGGVNWALLVARVCQlypnaipsmLVSRFFRVYtqwrwpnpvmlcpieedelgfsvwdprknprdrshhmpiitpaypcmnssynvsLSTLRVMTEQFQWGNRICEEIELNKAQWSALFEPYLFFEAYKNYLQVDIVAADADDLLTWKGWVESRFRQLTLKIERdtngllqchpypneyidpskpcpnsaffmglrrkegvtgkerqqfdirgtvDNFREEIGMYMFWKPGMDIYVSHvrrrqlpsfvfpdgykrprpsrhfneqagkpcedvkmcqsgssgrhlkrekehemeevrpdksvkrasissevpqpvspgkttgdstndsevmsagghlvsekdTMAAHMQLDGIvnhesvalneqkctlvDDLSvinnesessdlaepskpgllgrceihsvdtvssgsllnVKGVAIKVDQelvkpcnqmtVVEVAgreyesksctqnlscegddcvasldtlsengclnscEVFHNslteelepsstlgatv
msvlnnvdeqtvrslngcrvaDQILkhvpnvehfRMTLRCLKFWAKRRGVYSNVTGFLGGVNWALLVARVCQLYPNAIPSMLVSRFFRVYTQWRWPNPVMLCPIEEDELGFSVWDPRKNPRDRSHHMPIITPAYPCMNSSYNVSLSTLRVMTEQFQWGNRICEEIELNKAQWSALFEPYLFFEAYKNYLQVDIVAADADDLLTWKGWVESRFRQLTLKIERDTNGLLQCHPYPNEYIDPSKPCPNSAFFMGLRRKegvtgkerqqfdirgtvdnfREEIGMYMFWKPGMDIYVSHVRRRQLPsfvfpdgykrprPSRHfneqagkpcedvkmcqsgssgrhlkrekehemeevrpdksvkrasissevpqpvspgkttgdstndSEVMSAGGHLVSEKDTMAAHMQLDGIVNHESVALNEQKCTLVDDLSVINNEsessdlaepskpgLLGRCEIHSvdtvssgsllnVKGVAIkvdqelvkpcnQMTVVEVAGREYESKSCTQNLSCEGDDCVASLDTLSENGCLNSCEVFHNslteelepsstlgatv
MSVLNNVDEQTVRSLNGCRVADQILKHVPNVEHFRMTLRCLKFWAKRRGVYSNVTGFLGGVNWALLVARVCQLYPNAIPSMLVSRFFRVYTQWRWPNPVMLCPIEEDELGFSVWDPRKNPRDRSHHMPIITPAYPCMNSSYNVSLSTLRVMTEQFQWGNRICEEIELNKAQWSALFEPYLFFEAYKNYLQVDIVaadaddLLTWKGWVESRFRQLTLKIERDTNGLLQCHPYPNEYIDPSKPCPNSAFFMGLRRKEGVTGKERQQFDIRGTVDNFREEIGMYMFWKPGMDIYVSHVRRRQLPSFVFPDGYKRPRPSRHFNEQAGKPCEDVKMCQSGSSGRHLKREKEHEMEEVRPDKSVKRASISSEVPQPVSPGKTTGDSTNDSEVMSAGGHLVSEKDTMAAHMQLDGIVNHESVALNEQKCTLVDDLSVINNESESSDLAEPSKPGLLGRCEIHSVDTVSSGSLLNVKGVAIKVDQELVKPCNQMTVVEVAGREYESKSCTQNLSCEGDDCVASLDTLSENGCLNSCEVFHNSLTEELEPSSTLGATV
***********VRSLNGCRVADQILKHVPNVEHFRMTLRCLKFWAKRRGVYSNVTGFLGGVNWALLVARVCQLYPNAIPSMLVSRFFRVYTQWRWPNPVMLCPIEEDELGFSVWD**********HMPIITPAYPCMNSSYNVSLSTLRVMTEQFQWGNRICEEIELNKAQWSALFEPYLFFEAYKNYLQVDIVAADADDLLTWKGWVESRFRQLTLKIERDTNGLLQCHPYPNEYIDPSKPCPNSAFFMGLRRKEGVTGKERQQFDIRGTVDNFREEIGMYMFWKPGMDIYVSHVRRRQLPSFVFPD************************************************************************************************MQLDGIVNHESVALNEQKCTLVDDLSVI****************LLGRCEIHSVDTVSSGSLLNVKGVAIKVDQELVKPCNQMTVVEVAGREYESKSCTQNLSCEGDDCVASLDTLSENGCLNSCEVFHN****************
MSVLNN*DEQTVRSLNGCRVADQILKHVPNVEHFRMTLRCLKFWAKRRGVYSNVTGFLGGVNWALLVARVCQLYPNAIPSMLVSRFFRVYTQWRWPNPVMLCPIEEDELGFSVWDPRKNPRDRSHHMPIITPAYPCMNSSYNVSLSTLRVMTEQFQWGNRICEEIELNKAQWSALFEPYLFFEAYKNYLQVDIVAADADDLLTWKGWVESRFRQLTLKIERDTNGLLQCHPYPNEYIDPSKPCPNSAFFMGL**************DIRGTVDNFREEIGMYMFWKPGMDIYVSHVRRRQLPSFVFPD*********************************************************************************************************************************************************************************************************************************************LG**V
MSVLNNVDEQTVRSLNGCRVADQILKHVPNVEHFRMTLRCLKFWAKRRGVYSNVTGFLGGVNWALLVARVCQLYPNAIPSMLVSRFFRVYTQWRWPNPVMLCPIEEDELGFSVWDPRKNPRDRSHHMPIITPAYPCMNSSYNVSLSTLRVMTEQFQWGNRICEEIELNKAQWSALFEPYLFFEAYKNYLQVDIVAADADDLLTWKGWVESRFRQLTLKIERDTNGLLQCHPYPNEYIDPSKPCPNSAFFMGLRRKEGVTGKERQQFDIRGTVDNFREEIGMYMFWKPGMDIYVSHVRRRQLPSFVFPDGYKRPRPSRHFNEQAGKPCEDVKM******************************************************VMSAGGHLVSEKDTMAAHMQLDGIVNHESVALNEQKCTLVDDLSVINNE*********SKPGLLGRCEIHSVDTVSSGSLLNVKGVAIKVDQELVKPCNQMTVVEVAGREYESKSCTQNLSCEGDDCVASLDTLSENGCLNSCEVFHNSLT*************
*SVLNNVDEQTVRSLNGCRVADQILKHVPNVEHFRMTLRCLKFWAKRRGVYSNVTGFLGGVNWALLVARVCQLYPNAIPSMLVSRFFRVYTQWRWPNPVMLCPIEEDELGFSVWDPRKNPRDRSHHMPIITPAYPCMNSSYNVSLSTLRVMTEQFQWGNRICEEIELNKAQWSALFEPYLFFEAYKNYLQVDIVAADADDLLTWKGWVESRFRQLTLKIERDTNGLLQCHPYPNEYIDPSKPCPNSAFFMGLRRKEGVTGKERQQFDIRGTVDNFREEIGMYMFWKPGMDIYVSHVRRRQLPSFVFPDG***************************************************************************************************************************************************SVDTVSSGSLLNVKGVAIKVDQELVKPCNQMTVVEVAGREYESK***********DC**SLDT*******************************
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iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
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iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
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MSVLNNVDEQTVRSLNGCRVADQILKHVPNVEHFRMTLRCLKFWAKRRGVYSNVTGFLGGVNWALLVARVCQLYPNAIPSMLVSRFFRVYTQWRWPNPVMLCPIEEDELGFSVWDPRKNPRDRSHHMPIITPAYPCMNSSYNVSLSTLRVMTEQFQWGNRICEEIELNKAQWSALFEPYLFFEAYKNYLQVDIVAADADDLLTWKGWVESRFRQLTLKIERDTNGLLQCHPYPNEYIDPSKPCPNSAFFMGLRRKEGVTGKERQQFDIRGTVDNFREEIGMYMFWKPGMDIYVSHVRRRQLPSFVFPDGYKRPRPSRHFNEQAGKPCEDVKMCQSGSSGRHLKREKEHEMEEVRPDKSVKRASISSEVPQPVSPGKTTGDSTNDSEVMSAGGHLVSEKDTMAAHMQLDGIVNHESVALNEQKCTLVDDLSVINNESESSDLAEPSKPGLLGRCEIHSVDTVSSGSLLNVKGVAIKVDQELVKPCNQMTVVEVAGREYESKSCTQNLSCEGDDCVASLDTLSENGCLNSCEVFHNSLTEELEPSSTLGATV
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 ?
Query550 2.2.26 [Sep-21-2011]
Q54J73809 Poly(A) polymerase OS=Dic yes no 0.616 0.419 0.429 2e-81
P25500739 Poly(A) polymerase alpha yes no 0.634 0.472 0.427 2e-76
P51003745 Poly(A) polymerase alpha yes no 0.634 0.468 0.424 4e-76
Q61183739 Poly(A) polymerase alpha yes no 0.634 0.472 0.424 5e-76
Q9WVP6641 Poly(A) polymerase beta O no no 0.709 0.608 0.392 8e-74
P51004715 Poly(A) polymerase alpha- N/A no 0.550 0.423 0.470 8e-74
Q6PCL9739 Poly(A) polymerase gamma no no 0.538 0.400 0.452 4e-73
Q9BWT3736 Poly(A) polymerase gamma no no 0.538 0.402 0.452 4e-73
Q9NRJ5636 Poly(A) polymerase beta O no no 0.536 0.463 0.468 1e-72
O42617558 Poly(A) polymerase PAPalp N/A no 0.425 0.419 0.483 2e-64
>sp|Q54J73|PAP_DICDI Poly(A) polymerase OS=Dictyostelium discoideum GN=papA PE=3 SV=1 Back     alignment and function desciption
 Score =  303 bits (776), Expect = 2e-81,   Method: Compositional matrix adjust.
 Identities = 153/356 (42%), Positives = 215/356 (60%), Gaps = 17/356 (4%)

Query: 2   SVLNNVDEQTVRSLNGCRVADQILKHVPNVEHFRMTLRCLKFWAKRRGVYSNVTGFLGGV 61
           S L N+DE+++ SLNGCRV DQILK VPN+ +FRM LRC+K WA RRG+YSN+ GFLGGV
Sbjct: 222 SFLKNIDEKSILSLNGCRVTDQILKLVPNIPNFRMALRCIKLWAIRRGIYSNILGFLGGV 281

Query: 62  NWALLVARVCQLYPNAIPSMLVSRFFRVYTQWRWPNPVMLCPIEEDE-LGFSVWDPRKNP 120
           +WALL AR+CQLYPN+ PS ++ RFF+VY  W+WP P++LC I+E   LG  VW+P+   
Sbjct: 282 SWALLTARICQLYPNSAPSTIIHRFFKVYEIWKWPAPILLCHIQEGGILGPKVWNPK--- 338

Query: 121 RDRSHHMPIITPAYPCMNSSYNVSLSTLRVMTEQFQWGNRICEEIELNKAQWSALFEPYL 180
           RD++H MPIITPAYP MNS+YNVS STL++M  +F  G  I  +IE  +  W  L E   
Sbjct: 339 RDKAHLMPIITPAYPSMNSTYNVSKSTLQLMKSEFVRGAEITRKIETGECTWKNLLEKCD 398

Query: 181 FFEAYKNYLQVDIVAADADDLLTWKGWVESRFRQLTLKIERDTNGLLQCHPYPNEYI--- 237
           FF  Y  Y+++D  + + +D   W+GW+ES+ R L   +E  T  +    PYP  +    
Sbjct: 399 FFTRYSFYIEIDCYSMNEEDSRKWEGWIESKLRFLISNLE-STPKMKFAVPYPKGFTNNL 457

Query: 238 ----DPSKPCPNSAFFMGLRRKEGVTGKERQQFDIRGTVDNFREEIGMYMFWKPG---MD 290
               +P + C  ++FFMGL      T    +  D+   V  F   I  ++  +P    MD
Sbjct: 458 HKANNPDQIC--TSFFMGLSFNFSNTPGADKSVDLTKAVTEFTGIIKDWLRTQPNPDTMD 515

Query: 291 IYVSHVRRRQLPSFVFPDGYKRPRPSRHFNEQAGKPCEDVKMCQSGSSGRHLKREK 346
           I V +++++QLP+FV  +G + P  +       G+P    K  +S +S   L   K
Sbjct: 516 IKVQYIKKKQLPAFVKDEGPEEPVKTTKKRSSTGEPSATRKKLKSENSDNKLNSPK 571
Polymerase that creates the 3'-poly(A) tail of mRNA's. May acquire specificity through interaction with a cleavage and polyadenylation factor.
Dictyostelium discoideum (taxid: 44689)
EC: 2EC: .EC: 7EC: .EC: 7EC: .EC: 1EC: 9
>sp|P25500|PAPOA_BOVIN Poly(A) polymerase alpha OS=Bos taurus GN=PAPOLA PE=1 SV=3 Back     alignment and function description
>sp|P51003|PAPOA_HUMAN Poly(A) polymerase alpha OS=Homo sapiens GN=PAPOLA PE=1 SV=4 Back     alignment and function description
>sp|Q61183|PAPOA_MOUSE Poly(A) polymerase alpha OS=Mus musculus GN=Papola PE=1 SV=4 Back     alignment and function description
>sp|Q9WVP6|PAPOB_MOUSE Poly(A) polymerase beta OS=Mus musculus GN=Papolb PE=1 SV=2 Back     alignment and function description
>sp|P51004|PAPO1_XENLA Poly(A) polymerase alpha-A (Fragment) OS=Xenopus laevis GN=papola-a PE=2 SV=1 Back     alignment and function description
>sp|Q6PCL9|PAPOG_MOUSE Poly(A) polymerase gamma OS=Mus musculus GN=Papolg PE=1 SV=1 Back     alignment and function description
>sp|Q9BWT3|PAPOG_HUMAN Poly(A) polymerase gamma OS=Homo sapiens GN=PAPOLG PE=1 SV=2 Back     alignment and function description
>sp|Q9NRJ5|PAPOB_HUMAN Poly(A) polymerase beta OS=Homo sapiens GN=PAPOLB PE=2 SV=1 Back     alignment and function description
>sp|O42617|PAP_CANAL Poly(A) polymerase PAPalpha OS=Candida albicans (strain SC5314 / ATCC MYA-2876) GN=PAPALPHA PE=3 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 ?
Query550
356515639 732 PREDICTED: poly(A) polymerase-like [Glyc 0.901 0.677 0.617 0.0
255550972 754 Poly(A) polymerase beta, putative [Ricin 0.94 0.685 0.602 0.0
449461393 863 PREDICTED: poly(A) polymerase-like [Cucu 0.965 0.615 0.579 1e-178
356507941 651 PREDICTED: poly(A) polymerase-like [Glyc 0.78 0.658 0.668 1e-174
225442450 770 PREDICTED: poly(A) polymerase-like [Viti 0.670 0.479 0.767 1e-174
32527646 737 poly(A) polymerase [Arabidopsis thaliana 0.954 0.712 0.596 1e-174
147790301 778 hypothetical protein VITISV_011285 [Viti 0.670 0.474 0.767 1e-174
42570181 738 nuclear poly(a) polymerase [Arabidopsis 0.954 0.711 0.596 1e-174
42573145 745 nuclear poly(a) polymerase [Arabidopsis 0.887 0.655 0.630 1e-173
42567333 735 nuclear poly(a) polymerase [Arabidopsis 0.887 0.663 0.630 1e-173
>gi|356515639|ref|XP_003526506.1| PREDICTED: poly(A) polymerase-like [Glycine max] Back     alignment and taxonomy information
 Score =  654 bits (1686), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 331/536 (61%), Positives = 391/536 (72%), Gaps = 40/536 (7%)

Query: 2   SVLNNVDEQTVRSLNGCRVADQILKHVPNVEHFRMTLRCLKFWAKRRGVYSNVTGFLGGV 61
           SVL +VDE TVRSLNGCRVADQILK VPNVEHFR TLRCLKFWAKRRGVYSNVTGFLGGV
Sbjct: 193 SVLYDVDEPTVRSLNGCRVADQILKLVPNVEHFRTTLRCLKFWAKRRGVYSNVTGFLGGV 252

Query: 62  NWALLVARVCQLYPNAIPSMLVSRFFRVYTQWRWPNPVMLCPIEEDELGFSVWDPRKNPR 121
           NWA+LVAR+CQLYPNAIPSMLVSRFFRVYTQWRWPNPVMLC IEE+ELGF +WDPR+NPR
Sbjct: 253 NWAILVARICQLYPNAIPSMLVSRFFRVYTQWRWPNPVMLCSIEENELGFPIWDPRRNPR 312

Query: 122 DRSHHMPIITPAYPCMNSSYNVSLSTLRVMTEQFQWGNRICEEIELNKAQWSALFEPYLF 181
           DR H MPIITPAYPCMNSSYNVS STLRVM +QF +GN+IC+EIELNKAQWSALF+PY+F
Sbjct: 313 DRFHTMPIITPAYPCMNSSYNVSASTLRVMVDQFCYGNKICDEIELNKAQWSALFQPYIF 372

Query: 182 FEAYKNYLQVDIVAADADDLLTWKGWVESRFRQLTLKIERDTNGLLQCHPYPNEYIDPSK 241
           FEAYKNYLQVDI+A+D DDLL W+GWVESR R LTLKIERDTNG+LQCHPYP+EY+D SK
Sbjct: 373 FEAYKNYLQVDIIASDTDDLLAWRGWVESRLRMLTLKIERDTNGMLQCHPYPHEYVDTSK 432

Query: 242 PCPNSAFFMGLRRKEGVTGKERQQFDIRGTVDNFREEIGMYMFWKPGMDIYVSHVRRRQL 301
           PC +SAFFMGL+RKEGV G+E QQFDIRGTVD FR+EI MYM+WKPGMDI+VSHVRR+QL
Sbjct: 433 PCAHSAFFMGLQRKEGVRGQEGQQFDIRGTVDEFRQEINMYMYWKPGMDIFVSHVRRKQL 492

Query: 302 PSFVFPDGYKRPRPSRHFNEQAGKPCEDVKMCQSGS--SGRHLKREKEHEMEEVRPDKSV 359
           P+FVFPDGYKR R  RH + QA    +D   C SG   S R +KR+   EM + +PDK  
Sbjct: 493 PAFVFPDGYKRTRMPRHISHQAEITGDDATNCYSGPGLSERCIKRKNYSEMVDKKPDKPD 552

Query: 360 KRASISSEVPQPVSP------------------------GKTTGDSTNDSEVMSAGGHLV 395
           KRASIS +  + VSP                        G TT D+ ++ ++ S+     
Sbjct: 553 KRASISPQRLECVSPESCTGKSGGTAQMSIECIKGVRLAGSTTKDANSNCKIKSSDALPG 612

Query: 396 SEKDTMAAHMQLD--GIVNHESVALNEQKCTLVDDLSVINNESESSDLAEPSKPGLLGRC 453
           S   T  A MQ+   G VN     L  +   + ++  V+N + ++ DLA           
Sbjct: 613 SGLRTEVADMQISEAGFVNTTHDMLKSRSVEVPNENEVVNGD-KAQDLALDC-------- 663

Query: 454 EIHSVDTVSSGSLLNVKGVAIKVDQELVKPCNQMTVVEVAGREYESKSCTQNLSCE 509
            + S +T S+ SL N +   I +DQ L K CN +T  E +  +Y   + +QNL+CE
Sbjct: 664 -LESAETESTNSLSNYEEGDIDMDQRLDKACNFITRAECS--DYVPNASSQNLNCE 716

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|255550972|ref|XP_002516534.1| Poly(A) polymerase beta, putative [Ricinus communis] gi|223544354|gb|EEF45875.1| Poly(A) polymerase beta, putative [Ricinus communis] Back     alignment and taxonomy information
>gi|449461393|ref|XP_004148426.1| PREDICTED: poly(A) polymerase-like [Cucumis sativus] Back     alignment and taxonomy information
>gi|356507941|ref|XP_003522721.1| PREDICTED: poly(A) polymerase-like [Glycine max] Back     alignment and taxonomy information
>gi|225442450|ref|XP_002277939.1| PREDICTED: poly(A) polymerase-like [Vitis vinifera] Back     alignment and taxonomy information
>gi|32527646|gb|AAP86216.1| poly(A) polymerase [Arabidopsis thaliana] Back     alignment and taxonomy information
>gi|147790301|emb|CAN69980.1| hypothetical protein VITISV_011285 [Vitis vinifera] Back     alignment and taxonomy information
>gi|42570181|ref|NP_849562.2| nuclear poly(a) polymerase [Arabidopsis thaliana] gi|79610218|ref|NP_974670.2| nuclear poly(a) polymerase [Arabidopsis thaliana] gi|332660726|gb|AEE86126.1| nuclear poly(a) polymerase [Arabidopsis thaliana] gi|332660728|gb|AEE86128.1| nuclear poly(a) polymerase [Arabidopsis thaliana] Back     alignment and taxonomy information
>gi|42573145|ref|NP_974669.1| nuclear poly(a) polymerase [Arabidopsis thaliana] gi|186515704|ref|NP_001119102.1| nuclear poly(a) polymerase [Arabidopsis thaliana] gi|222422953|dbj|BAH19461.1| AT4G32850 [Arabidopsis thaliana] gi|332660729|gb|AEE86129.1| nuclear poly(a) polymerase [Arabidopsis thaliana] gi|332660734|gb|AEE86134.1| nuclear poly(a) polymerase [Arabidopsis thaliana] Back     alignment and taxonomy information
>gi|42567333|ref|NP_195011.4| nuclear poly(a) polymerase [Arabidopsis thaliana] gi|332660727|gb|AEE86127.1| nuclear poly(a) polymerase [Arabidopsis thaliana] Back     alignment and taxonomy information

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST ?

Original result of BLAST against Gene Ontology (AMIGO)

ID ? Alignment graph ? Length ? Definition ? Q cover ? H cover ? Identity ? E-value ?
Query550
TAIR|locus:2134113765 nPAP "nuclear poly(a) polymera 0.949 0.682 0.592 1.1e-158
TAIR|locus:2043560800 PAPS2 "poly(A) polymerase 2" [ 0.692 0.476 0.719 2e-158
TAIR|locus:2030943713 PAPS1 "poly(A) polymerase 1" [ 0.570 0.440 0.639 8.2e-115
DICTYBASE|DDB_G0288259809 papA "poly(A) polymerase" [Dic 0.681 0.463 0.395 8.5e-75
UNIPROTKB|P25500739 PAPOLA "Poly(A) polymerase alp 0.672 0.500 0.415 1.6e-73
UNIPROTKB|P51003745 PAPOLA "Poly(A) polymerase alp 0.672 0.496 0.412 3.2e-73
UNIPROTKB|F1PDS0745 PAPOLA "Uncharacterized protei 0.672 0.496 0.410 4.1e-73
MGI|MGI:109301739 Papola "poly (A) polymerase al 0.641 0.477 0.422 1.4e-72
UNIPROTKB|G3MYA2718 PAPOLA "Poly(A) polymerase alp 0.672 0.515 0.415 2.1e-70
UNIPROTKB|Q3T0A2693 PAPOLA "Poly(A) polymerase alp 0.672 0.533 0.415 2.1e-70
TAIR|locus:2134113 nPAP "nuclear poly(a) polymerase" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 1546 (549.3 bits), Expect = 1.1e-158, P = 1.1e-158
 Identities = 328/554 (59%), Positives = 381/554 (68%)

Query:     2 SVLNNVDEQTVRSLNGCRVADQILKHVPNVEHFRMTLRCLKFWAKRRGVYSNVTGFLGGV 61
             SVL  VDE TVRSLNGCRVADQILK VPN EHFR TLRCLK+WAK+RGVYSNVTGFLGGV
Sbjct:   190 SVLCEVDEPTVRSLNGCRVADQILKLVPNFEHFRTTLRCLKYWAKKRGVYSNVTGFLGGV 249

Query:    62 NWALLVARVCQLYPNAIPSMLVSRFFRVYTQWRWPNPVMLCPIEEDELGFSVWDPRKNPR 121
             NWALLVARVCQLYPNAIPSMLVSRFFRVYTQWRWPNPVMLC IEEDELGF VWD RKN R
Sbjct:   250 NWALLVARVCQLYPNAIPSMLVSRFFRVYTQWRWPNPVMLCAIEEDELGFPVWDRRKNHR 309

Query:   122 DRSHHMPIITPAYPCMNSSYNVSLSTLRVMTEQFQWGNRICEEIELNKAQWSALFEPYLF 181
             DR H MPIITPAYPCMNSSYNVS STLRVMTEQFQ+GN I +EIELNK  WS+LFE Y+F
Sbjct:   310 DRYHLMPIITPAYPCMNSSYNVSQSTLRVMTEQFQFGNNILQEIELNKQHWSSLFEQYMF 369

Query:   182 FEAYKNYLQVDIVXXXXXXLLTWKGWVESRFRQLTLKIERDTNGLLQCHPYPNEYIDPSK 241
             FEAYKNYLQVDIV      LL WKGWVESRFRQLTLKIERDTNG+L CHP PNEY+D ++
Sbjct:   370 FEAYKNYLQVDIVAADAEDLLAWKGWVESRFRQLTLKIERDTNGMLMCHPQPNEYVDTAR 429

Query:   242 PCPNSAFFMGLRRKEGVTGKERQQFDIRGTVDNFREEIGMYMFWKPGMDIYVSHVRRRQL 301
                + AFFMGL+R EGV G+E QQFDIRGTVD FR+E+ MYMFWKPGMD++VSHVRRRQL
Sbjct:   430 QFLHCAFFMGLQRAEGVGGQECQQFDIRGTVDEFRQEVNMYMFWKPGMDVFVSHVRRRQL 489

Query:   302 PSFVFPDGYKRPRPSRHFNEQAGKPCEDVKMCQSGSS-GRHLKREKEHEMEEVRPDKSVK 360
             P FVFP+GY+RPR SRH N   GK  ED  +  SGS   RH KR+ + EM +VRP+K  K
Sbjct:   490 PPFVFPNGYRRPRQSRHQNLPGGKSGEDGSVSHSGSVVERHAKRKNDSEMMDVRPEKPEK 549

Query:   361 RASISSEVPQPVSPGK---TTGDSTNDSEVMSAGGHLVSEKDTMAAHMQLDGIVNHESVA 417
             RAS+S +    VSP     TTG +     +       +   +      +L  +  +E  +
Sbjct:   550 RASLSPQSLDIVSPENSAITTGWTPPVCNLRRPPSEEIEADNLNTECTELTDLARNECNS 609

Query:   418 LNEQKCTLVDDLSVINNESESSDLAEPSKPGLLGRCEI-HSVDTVSSGSLLNVKGVAIKV 476
              +EQ    VD ++V+    E SD AEP     LG+C    SVD V+      V G    +
Sbjct:   610 GSEQVLE-VDSMAVVQ---ECSDPAEP-----LGKCVTPDSVDVVAC-----VSGQEENL 655

Query:   477 DQELVKPCNQMTVVEVAGREYESKSCTQNLSCEG-------DDCVASLDTLSENGCLNSC 529
             D+ L      +++         S+SC QN   EG        D +   +  S++G   S 
Sbjct:   656 DRNL----RSVSISGTDSPLLPSRSCGQNRDYEGFGFPAANSDPMGKKNLYSQSGM--SE 709

Query:   530 EVFHNSLTEELEPS 543
             ++  NSL   +E S
Sbjct:   710 DLQSNSLVSGMEKS 723
GO:0003723 "RNA binding" evidence=IEA
GO:0004652 "polynucleotide adenylyltransferase activity" evidence=IEA
GO:0005634 "nucleus" evidence=ISM;IDA
GO:0006351 "transcription, DNA-dependent" evidence=IEA
GO:0016779 "nucleotidyltransferase activity" evidence=IEA;ISS
GO:0031123 "RNA 3'-end processing" evidence=IEA
GO:0043631 "RNA polyadenylation" evidence=IEA;IDA
GO:0005515 "protein binding" evidence=IPI
GO:0000911 "cytokinesis by cell plate formation" evidence=RCA
GO:0000956 "nuclear-transcribed mRNA catabolic process" evidence=RCA
GO:0006623 "protein targeting to vacuole" evidence=RCA
GO:0006944 "cellular membrane fusion" evidence=RCA
GO:0016192 "vesicle-mediated transport" evidence=RCA
TAIR|locus:2043560 PAPS2 "poly(A) polymerase 2" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2030943 PAPS1 "poly(A) polymerase 1" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
DICTYBASE|DDB_G0288259 papA "poly(A) polymerase" [Dictyostelium discoideum (taxid:44689)] Back     alignment and assigned GO terms
UNIPROTKB|P25500 PAPOLA "Poly(A) polymerase alpha" [Bos taurus (taxid:9913)] Back     alignment and assigned GO terms
UNIPROTKB|P51003 PAPOLA "Poly(A) polymerase alpha" [Homo sapiens (taxid:9606)] Back     alignment and assigned GO terms
UNIPROTKB|F1PDS0 PAPOLA "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)] Back     alignment and assigned GO terms
MGI|MGI:109301 Papola "poly (A) polymerase alpha" [Mus musculus (taxid:10090)] Back     alignment and assigned GO terms
UNIPROTKB|G3MYA2 PAPOLA "Poly(A) polymerase alpha" [Bos taurus (taxid:9913)] Back     alignment and assigned GO terms
UNIPROTKB|Q3T0A2 PAPOLA "Poly(A) polymerase alpha" [Bos taurus (taxid:9913)] Back     alignment and assigned GO terms

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries ?

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server ?

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software ?

Prediction LevelEC numberConfidence of Prediction
3rd Layer2.7.7LOW CONFIDENCE prediction!
4th Layer2.7.7.19LOW CONFIDENCE prediction!

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING ?

Original result from the STRING server

Your Input:
GSVIVG00034292001
SubName- Full=Chromosome chr9 scaffold_7, whole genome shotgun sequence; (742 aa)
(Vitis vinifera)
Predicted Functional Partners:
GSVIVG00037665001
SubName- Full=Chromosome undetermined scaffold_91, whole genome shotgun sequence; (740 aa)
    ••• 0.503
GSVIVG00038486001
SubName- Full=Chromosome chr16 scaffold_94, whole genome shotgun sequence; (1448 aa)
    ••• 0.478

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 ?
Query550
PTZ00418593 PTZ00418, PTZ00418, Poly(A) polymerase; Provisiona 1e-126
pfam04928349 pfam04928, PAP_central, Poly(A) polymerase central 1e-116
COG5186552 COG5186, PAP1, Poly(A) polymerase [RNA processing 5e-88
pfam04926141 pfam04926, PAP_RNA-bind, Poly(A) polymerase predic 3e-50
>gnl|CDD|240410 PTZ00418, PTZ00418, Poly(A) polymerase; Provisional Back     alignment and domain information 
 Score =  381 bits (979), Expect = e-126
 Identities = 153/355 (43%), Positives = 214/355 (60%), Gaps = 25/355 (7%)

Query: 2   SVLNNVDEQTVRSLNGCRVADQILKHVPNVEHFRMTLRCLKFWAKRRGVYSNVTGFLGGV 61
            +L NVDE+TVRSLNGCRVAD IL  VPN ++FR TLR +K WAKRRG+YSNV G+LGGV
Sbjct: 221 YILRNVDEKTVRSLNGCRVADLILASVPNKDYFRTTLRFIKLWAKRRGIYSNVLGYLGGV 280

Query: 62  NWALLVARVCQLYPNAIPSMLVSRFFRVYTQWRWPNPVMLCPIEEDE-----LGFSVWDP 116
           +WA+L AR+CQLYPN  PS L+ +FFRVY+ W W NPV+LC I+E       + F VWDP
Sbjct: 281 SWAILTARICQLYPNFAPSQLIHKFFRVYSIWNWKNPVLLCKIKEVPNIPGLMNFKVWDP 340

Query: 117 RKNPRDRSHHMPIITPAYPCMNSSYNVSLSTLRVMTEQFQWGNRICEEIELN-KAQWSAL 175
           R NP+DR+H MPIITPA+P MNS++NV+ +T RV+TE+F+  + I + IE N +  W+ +
Sbjct: 341 RVNPQDRAHLMPIITPAFPSMNSTHNVTYTTKRVITEEFKRAHEIIKYIEKNSENTWTNV 400

Query: 176 FEPYLFFEAYKNYLQVDIVAADADDLLTWKGWVESRFRQLTLKIERDTNGLLQCHPYPNE 235
            EP  FF +YK++L + + A +      W+GW+ES+ R L  K+E   N  L+  PYP  
Sbjct: 401 LEPLDFFTSYKHFLVIQVYATNEHVHNKWEGWIESKIRFLIKKLETLNN--LKIRPYPKF 458

Query: 236 YI---DPSKPCPNSAFFMGLRRKEGVTGKERQQFDIRGTVDNFREEIGMYMFW------K 286
           +    D       S+FF+GL             FD+R  + +F   + +   W       
Sbjct: 459 FKYQDDGWDYA--SSFFIGLVFFSKNV-YNNSTFDLRYAIRDF---VDIINNWPEMEKYP 512

Query: 287 PGMDIYVSHVRRRQLPSFVFPDGYKRPRPSRHFNEQAGKPCEDVKMCQSGSSGRH 341
             +DI + ++++ QLP+FV     + P  ++   +            QSGSSG  
Sbjct: 513 DQIDINIKYLKKSQLPAFVLSQTPEEPVKTKANTKTNTS--SATTSGQSGSSGST 565

Length = 593
>gnl|CDD|203124 pfam04928, PAP_central, Poly(A) polymerase central domain Back     alignment and domain information
>gnl|CDD|227513 COG5186, PAP1, Poly(A) polymerase [RNA processing and modification] Back     alignment and domain information
>gnl|CDD|218331 pfam04926, PAP_RNA-bind, Poly(A) polymerase predicted 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 550
KOG2245562 consensus Poly(A) polymerase and related nucleotid 100.0
PTZ00418593 Poly(A) polymerase; Provisional 100.0
COG5186552 PAP1 Poly(A) polymerase [RNA processing and modifi 100.0
PF04928254 PAP_central: Poly(A) polymerase central domain; In 100.0
PF04926157 PAP_RNA-bind: Poly(A) polymerase predicted RNA bin 100.0
PF03813 972 Nrap: Nrap protein; InterPro: IPR005554 Members of 98.84
COG5260482 TRF4 DNA polymerase sigma [DNA replication, recomb 97.46
KOG2054 1121 consensus Nucleolar RNA-associated protein (NRAP) 97.14
KOG2277596 consensus S-M checkpoint control protein CID1 and 97.07
KOG1906514 consensus DNA polymerase sigma [Replication, recom 96.21
PF03813972 Nrap: Nrap protein; InterPro: IPR005554 Members of 95.68
PRK13300447 tRNA CCA-pyrophosphorylase; Provisional 95.19
TIGR03671408 cca_archaeal CCA-adding enzyme. 94.82
smart00572246 DZF domain in DSRM or ZnF_C2H2 domain containing p 94.5
PF09249114 tRNA_NucTransf2: tRNA nucleotidyltransferase, seco 90.37
PF0382860 PAP_assoc: Cid1 family poly A polymerase; InterPro 87.8
>KOG2245 consensus Poly(A) polymerase and related nucleotidyltransferases [RNA processing and modification] Back     alignment and domain information 
Probab=100.00  E-value=3.1e-104  Score=834.91  Aligned_cols=310  Identities=56%  Similarity=0.992  Sum_probs=292.6

Q ss_pred             CccCCCChhhhhccchhhhHHHHHHhCCChHHHHHHHHHHHHHHHHhccccccccccchHHHHHHHHHHHhhCCCCChHH
Q 008889            2 SVLNNVDEQTVRSLNGCRVADQILKHVPNVEHFRMTLRCLKFWAKRRGVYSNVTGFLGGVNWALLVARVCQLYPNAIPSM   81 (550)
Q Consensus         2 SlLrnLDe~svRSLNG~RVtd~ILrlVPn~e~FR~aLR~IKlWAKrRGIYSNv~GyLGGVsWAILVArVCQLyPNas~s~   81 (550)
                      ++|+||||+|+||||||||||+||+||||.++||.+|||||+||||||||||++||||||+|||||||||||||||+|++
T Consensus       183 slLknlDe~~vrSLNGcRVtdqiL~LVPn~~~F~~tLRaiKlWAKrrgVYsN~~GF~GGV~wA~LVARiCQLYPNA~~s~  262 (562)
T KOG2245|consen  183 SLLKNLDERCVRSLNGCRVTDQILKLVPNQENFRITLRAIKLWAKRRGVYSNVMGFLGGVAWAMLVARICQLYPNASPST  262 (562)
T ss_pred             HhhhcccHHHHHHhcCcCHHHHHHHhCCCHHHHHHHHHHHHHHHHhcccccccccccchHHHHHHHHHHHccCCCcchHH
Confidence            68999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhhccCCCCCceeccccccccCCCcccCCCCCCCCCCccceeecCCCCCcCcccccChhHHHHHHHHHHHHHHH
Q 008889           82 LVSRFFRVYTQWRWPNPVMLCPIEEDELGFSVWDPRKNPRDRSHHMPIITPAYPCMNSSYNVSLSTLRVMTEQFQWGNRI  161 (550)
Q Consensus        82 Lv~~FF~vYS~W~Wp~PV~L~~i~~~~lg~~vWdPr~~~rdr~hlMPIITPayP~mNSt~NVS~STl~vI~eEF~Ra~~I  161 (550)
                      ||.+||.+|++|.||+||+|+++++++++++|||||.|++||.|+|||||||||+||||||||+||+++|.+||+||++|
T Consensus       263 Lv~kfF~ifs~W~WP~PVlL~~ie~~~L~~~VWdPr~n~~DryHlMPIITPAyP~~nsthNVS~ST~~Vi~~Ef~~g~~I  342 (562)
T KOG2245|consen  263 LVAKFFRVFSQWNWPNPVLLKPIEEGNLNLPVWDPRVNPSDRYHLMPIITPAYPQMNSTHNVSRSTLKVITEEFKRGLEI  342 (562)
T ss_pred             HHHHHHHHHhhccCCCceEeccccccccCccccCCCCCCCCcceecccccCCcccccccccccHHHHHHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHhhcccchhhhcCCcchhhccccEEEEEEEeCChhhhhhhhhhhhhhHHHHHHHHhhcCCCceeecCCCCCCCCCCC
Q 008889          162 CEEIELNKAQWSALFEPYLFFEAYKNYLQVDIVAADADDLLTWKGWVESRFRQLTLKIERDTNGLLQCHPYPNEYIDPSK  241 (550)
Q Consensus       162 l~~i~~~~~~W~~LFep~~FF~~Yk~YL~I~V~a~~~ed~~~W~GwVESRlR~Lv~~LE~~~~~~l~ahp~P~~f~d~~~  241 (550)
                      |++|..++.+|++|||+++||.+|||||+|+++|.+++++.+|.||||||+|+|+.+||+. ..++.|||+|+.|.++..
T Consensus       343 ~~~i~~~k~~W~~LFE~~~FF~rYk~yl~i~~~A~~~ed~l~w~G~vESriR~Lv~klE~~-~~i~~ahp~P~~f~~~~~  421 (562)
T KOG2245|consen  343 CDDIELNKLDWSDLFELYNFFSRYKHYLQITASAATEEDLLKWVGWVESRIRQLVLKLERN-QVILIAHPNPKKFKDTYN  421 (562)
T ss_pred             HHHHHhccccHHHHhhhhHHHHHHhhHheeeeeccChHHHhhhhhHHHHHHHHHHHHHHhh-cceEEecCCccccccccc
Confidence            9999999999999999999999999999999999999999999999999999999999995 467899999999998753


Q ss_pred             C----CCcceEEEeeeeccCCCCCcccccccHHHHHHHHHHHh----hhccCCCc--eEEEEEEeccCCCCCccCCCCCc
Q 008889          242 P----CPNSAFFMGLRRKEGVTGKERQQFDIRGTVDNFREEIG----MYMFWKPG--MDIYVSHVRRRQLPSFVFPDGYK  311 (550)
Q Consensus       242 ~----~~~~~ffIGL~~~~~~~~~~~~~~DL~~~v~eF~~~I~----~~~~~~~g--m~I~Vs~VkrsqLP~~v~~~g~k  311 (550)
                      .    .+...|||||...++      .++||+..+++|.+.++    ....+++|  |++.+.|+||++|+.++++++++
T Consensus       422 ~~~~~~~~~~~~igl~~~e~------~~~Dlt~~iq~f~~~v~~q~~~~~~~~~g~~~~~~~~~~krr~l~~~~~~~~l~  495 (562)
T KOG2245|consen  422 CPLEEDPESLWFIGLEFDEN------VKIDLTKDIQSFKKNVERQAVNLTLIKAGCDVEIDFGHVKRRSLIQTITKEFLR  495 (562)
T ss_pred             CCcccchhHhhhhccccccc------ccchhhhhHHHhhhhhhhcceeeeeeecccccccccccccccccccccCHHHhh
Confidence            2    346789999987654      34999999999999887    45567889  77778899999999999999998


Q ss_pred             CCCCCCc
Q 008889          312 RPRPSRH  318 (550)
Q Consensus       312 ~~~~~~~  318 (550)
                      +.|+-++
T Consensus       496 ~~k~~~~  502 (562)
T KOG2245|consen  496 LCKQYKK  502 (562)
T ss_pred             HHHhhcc
Confidence            8777554

>PTZ00418 Poly(A) polymerase; Provisional Back     alignment and domain information
>COG5186 PAP1 Poly(A) polymerase [RNA processing and modification] Back     alignment and domain information
>PF04928 PAP_central: Poly(A) polymerase central domain; InterPro: IPR007012 In eukaryotes, polyadenylation of pre-mRNA plays an essential role in the initiation step of protein synthesis, as well as in the export and stability of mRNAs Back     alignment and domain information
>PF04926 PAP_RNA-bind: Poly(A) polymerase predicted RNA binding domain; InterPro: IPR007010 In eukaryotes, polyadenylation of pre-mRNA plays an essential role in the initiation step of protein synthesis, as well as in the export and stability of mRNAs Back     alignment and domain information
>PF03813 Nrap: Nrap protein; InterPro: IPR005554 Members of this family are nucleolar RNA-associated proteins (Nrap) which are highly conserved from yeast (Saccharomyces cerevisiae) to human Back     alignment and domain information
>COG5260 TRF4 DNA polymerase sigma [DNA replication, recombination, and repair] Back     alignment and domain information
>KOG2054 consensus Nucleolar RNA-associated protein (NRAP) [Function unknown] Back     alignment and domain information
>KOG2277 consensus S-M checkpoint control protein CID1 and related nucleotidyltransferases [Cell cycle control, cell division, chromosome partitioning] Back     alignment and domain information
>KOG1906 consensus DNA polymerase sigma [Replication, recombination and repair] Back     alignment and domain information
>PF03813 Nrap: Nrap protein; InterPro: IPR005554 Members of this family are nucleolar RNA-associated proteins (Nrap) which are highly conserved from yeast (Saccharomyces cerevisiae) to human Back     alignment and domain information
>PRK13300 tRNA CCA-pyrophosphorylase; Provisional Back     alignment and domain information
>TIGR03671 cca_archaeal CCA-adding enzyme Back     alignment and domain information
>smart00572 DZF domain in DSRM or ZnF_C2H2 domain containing proteins Back     alignment and domain information
>PF09249 tRNA_NucTransf2: tRNA nucleotidyltransferase, second domain; InterPro: IPR015329 This domain adopts a structure consisting of a five helical bundle core Back     alignment and domain information
>PF03828 PAP_assoc: Cid1 family poly A polymerase; InterPro: IPR002058 These PAP/25A associated domains are found in uncharacterised eukaryotic proteins, a number of which are described as 'topoisomerase 1-related' though they appear to have little or no homology to topoisomerase 1 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 ?
Query550
1q79_A514 Crystal Structure Of Mammalian Poly(A) Polymerase L 4e-74
1q78_A514 Crystal Structure Of Poly(A) Polymerase In Complex 4e-74
1f5a_A513 Crystal Structure Of Mammalian Poly(A) Polymerase L 2e-67
2hhp_A530 Structure Of Yeast Poly(A) Polymerase In A Closed C 6e-61
1fa0_A537 Structure Of Yeast Poly(A) Polymerase Bound To Mang 6e-61
2o1p_A546 Structure Of Yeast Poly(A) Polymerase In A Somewhat 7e-61
2q66_A525 Structure Of Yeast Poly(A) Polymerase With Atp And 7e-61
>pdb|1Q79|A Chain A, Crystal Structure Of Mammalian Poly(A) Polymerase Length = 514 Back     alignment and structure 
Iteration: 1

 Score =  275 bits (704), Expect = 4e-74,   Method: Compositional matrix adjust.
 Identities = 146/305 (47%), Positives = 192/305 (62%), Gaps = 12/305 (3%)
Query: 6   NVDEQTVRSLNGCRVADQILKHVPNVEHFRMTLRCLKFWAKRRGVYSNVTGFLGGVNWAL 65
           N+D + +RSLNGCRV D+IL  VPN+++FR+TLR +K WAKR  +YSN+ GFLGGV+WA+
Sbjct: 192 NLDIRXIRSLNGCRVTDEILHLVPNIDNFRLTLRAIKLWAKRHNIYSNILGFLGGVSWAM 251
Query: 66  LVARVCQLYPNAIPSMLVSRFFRVYTQWRWPNPVMLCPIEEDELGFSVWDPRKNPRDRSH 125
           LVAR CQLYPNAI S LV +FF V+++W WPNPV+L   EE  L   VWDPR NP DR H
Sbjct: 252 LVARTCQLYPNAIASTLVHKFFLVFSKWEWPNPVLLKQPEECNLNLPVWDPRVNPSDRYH 311
Query: 126 HMPIITPAYPCMNSSYNVSLSTLRVMTEQFQWGNRICEEIELNKAQWSALFEPYLFFEAY 185
            MPIITPAYP  NS+YNVS+ST  VM E+F+ G  I +EI L+KA+WS LFE   FF+ Y
Sbjct: 312 LMPIITPAYPQQNSTYNVSVSTRMVMVEEFKQGLAITDEILLSKAEWSKLFEAPNFFQKY 371
Query: 186 KNYLQVDIVXXXXXXLLTWKGWVESRFRQLTLKIERDTNGLL-----QCHPYPNEYIDPS 240
           K+Y+ +          L W G VES+ R L   +E++    L     Q  P P E  +P 
Sbjct: 372 KHYIVLLASAPTEKQRLEWVGLVESKIRILVGSLEKNEFITLAHVNPQSFPAPKE--NPD 429
Query: 241 KPCPNSAFFMGLRRKEGVTGKERQ---QFDIRGTVDN-FREEIGMYMFWKPGMDIYVSHV 296
           K    + + +GL  K+    +       +DI+   D  +R+ I   MF +  M I   HV
Sbjct: 430 KEEFRTMWVIGLVFKKTENSENLSVDLTYDIQSFTDTVYRQAINSKMF-EVDMKIAAMHV 488
Query: 297 RRRQL 301
           +R+QL
Sbjct: 489 KRKQL 493
>pdb|1Q78|A Chain A, Crystal Structure Of Poly(A) Polymerase In Complex With 3'- Datp And Magnesium Chloride Length = 514 Back     alignment and structure
>pdb|1F5A|A Chain A, Crystal Structure Of Mammalian Poly(A) Polymerase Length = 513 Back     alignment and structure
>pdb|2HHP|A Chain A, Structure Of Yeast Poly(A) Polymerase In A Closed Conformation Length = 530 Back     alignment and structure
>pdb|1FA0|A Chain A, Structure Of Yeast Poly(A) Polymerase Bound To Manganate And 3'-Datp Length = 537 Back     alignment and structure
>pdb|2O1P|A Chain A, Structure Of Yeast Poly(A) Polymerase In A Somewhat Closed State Length = 546 Back     alignment and structure
>pdb|2Q66|A Chain A, Structure Of Yeast Poly(A) Polymerase With Atp And Oligo(A) Length = 525 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 ?
Query550
1q79_A514 Poly(A) polymerase alpha; mRNA processing, nucleot 1e-123
2hhp_A530 Poly(A) polymerase; template-independent RNA polym 1e-112
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 4e-08
3nyb_A323 Poly(A) RNA polymerase protein 2; polya RNA polyme 4e-04
>2hhp_A Poly(A) polymerase; template-independent RNA polymerase, transferase; HET: FLC; 1.80A {Saccharomyces cerevisiae} SCOP: a.160.1.1 d.218.1.3 d.58.16.1 PDB: 1fa0_A* 3c66_A* 2o1p_A 2q66_A* Length = 530 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
>3nyb_A Poly(A) RNA polymerase protein 2; polya RNA polymerase, zinc knuckle protein, RNA surveillance binds to TRF4P/AIR2P heterodimer; 2.70A {Saccharomyces cerevisiae} Length = 323 Back     alignment and structure

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query550
1q79_A514 Poly(A) polymerase alpha; mRNA processing, nucleot 100.0
2hhp_A530 Poly(A) polymerase; template-independent RNA polym 100.0
4fh3_A349 Poly(A) RNA polymerase protein CID1; nucleotidyltr 99.95
2ikf_A353 RNA uridylyl transferase; tutase, nucleotidyltrans 99.89
4e8f_A405 Poly(A) RNA polymerase protein CID1; beta polymera 99.89
3nyb_A323 Poly(A) RNA polymerase protein 2; polya RNA polyme 99.85
2b4v_A468 RNA editing complex protein MP57; tbret2, TBMP57, 99.68
3hj4_A384 Minor editosome-associated tutase; nucleotidyltran 99.41
3pq1_A464 Poly(A) RNA polymerase; nucleotidyl transferase, R 99.19
1r89_A437 TRNA nucleotidyltransferase; CCA adding enzyme, in 95.09
1px5_A349 2'-5'-oligoadenylate synthetase 1; 5-stranded anti 90.72
>2hhp_A Poly(A) polymerase; template-independent RNA polymerase, transferase; HET: FLC; 1.80A {Saccharomyces cerevisiae} SCOP: a.160.1.1 d.218.1.3 d.58.16.1 PDB: 1fa0_A* 3c66_A* 2o1p_A 2q66_A* Back     alignment and structure
>4fh3_A Poly(A) RNA polymerase protein CID1; nucleotidyltransferase, poly(U) polymerase, transferase; 2.00A {Schizosaccharomyces pombe} PDB: 4fh5_A* 4fhp_A* 4fhv_A* 4fhw_A* 4fhy_A* 4fhx_A* 4ep7_A* Back     alignment and structure
>2ikf_A RNA uridylyl transferase; tutase, nucleotidyltransferase, UTP-binding, RNA editing; HET: UTP; 2.00A {Trypanosoma brucei} PDB: 2nom_A* 2q0c_A* 2q0d_A* 2q0e_A* 2q0f_A* 2q0g_A* Back     alignment and structure
>4e8f_A Poly(A) RNA polymerase protein CID1; beta polymerase-like nucleotidyl transferase, terminal uridi transferase, UTP, cytoplasmic; 2.60A {Schizosaccharomyces pombe 972h-} PDB: 4e7x_A* 4e80_A Back     alignment and structure
>3nyb_A Poly(A) RNA polymerase protein 2; polya RNA polymerase, zinc knuckle protein, RNA surveillance binds to TRF4P/AIR2P heterodimer; 2.70A {Saccharomyces cerevisiae} Back     alignment and structure
>2b4v_A RNA editing complex protein MP57; tbret2, TBMP57, terminal uridylyl transferase, editosome, transferase/RNA binding protein complex; 1.80A {Trypanosoma brucei} SCOP: a.160.1.4 d.218.1.10 PDB: 2b51_A* 2b56_A* Back     alignment and structure
>3pq1_A Poly(A) RNA polymerase; nucleotidyl transferase, RNP-type RNA binding domain, poly(A polymerase, mitochondria, transferase; 3.10A {Homo sapiens} Back     alignment and structure
>1r89_A TRNA nucleotidyltransferase; CCA adding enzyme, incoming nucleotide, nucleotidyltransfera superfamily; HET: CTP; 1.80A {Archaeoglobus fulgidus} SCOP: a.160.1.3 d.218.1.7 d.58.16.2 PDB: 1r8a_A 1r8b_A* 1r8c_A* 1sz1_A* 1tfw_A* 1tfy_A* 1uet_A 1ueu_A* 1uev_A* 2dr5_A 2dr7_A 2dr8_A* 2dr9_A 2dra_A* 2drb_A 2dvi_A* 2zh1_A 2zh2_A 2zh3_A 2zh4_A ... Back     alignment and structure
>1px5_A 2'-5'-oligoadenylate synthetase 1; 5-stranded antiparalel beta sheet, four helix bundle, transferase; HET: YCM; 1.74A {Sus scrofa} SCOP: a.160.1.2 d.218.1.6 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 550
d2q66a1150 a.160.1.1 (A:202-351) Poly(A) polymerase, PAP, mid 7e-89
d1q79a1150 a.160.1.1 (A:215-364) Poly(A) polymerase, PAP, mid 1e-86
d1q79a3134 d.58.16.1 (A:365-498) Poly(A) polymerase, PAP, C-t 8e-46
d2q66a3178 d.58.16.1 (A:352-529) Poly(A) polymerase, PAP, C-t 2e-40
d2b4va1183 a.160.1.4 (A:289-471) RNA editing terminal uridyl 3e-22
d1q79a2196 d.218.1.3 (A:19-214) Poly(A) polymerase, PAP, N-te 4e-08
d2q66a2197 d.218.1.3 (A:5-201) Poly(A) polymerase, PAP, N-ter 4e-08
>d2q66a1 a.160.1.1 (A:202-351) Poly(A) polymerase, PAP, middle domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 150 Back     information, alignment and structure

class: All alpha proteins
fold: PAP/OAS1 substrate-binding domain
superfamily: PAP/OAS1 substrate-binding domain
family: Poly(A) polymerase, PAP, middle domain
domain: Poly(A) polymerase, PAP, middle domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score =  268 bits (686), Expect = 7e-89
 Identities = 74/149 (49%), Positives = 107/149 (71%)

Query: 29  PNVEHFRMTLRCLKFWAKRRGVYSNVTGFLGGVNWALLVARVCQLYPNAIPSMLVSRFFR 88
           P    FR+ LR +K WA+RR VY+N+ GF GGV WA+LVAR+CQLYPNA  +++++RFF 
Sbjct: 1   PKPNVFRIALRAIKLWAQRRAVYANIFGFPGGVAWAMLVARICQLYPNACSAVILNRFFI 60

Query: 89  VYTQWRWPNPVMLCPIEEDELGFSVWDPRKNPRDRSHHMPIITPAYPCMNSSYNVSLSTL 148
           + ++W WP PV+L PIE+  L   VW+P+   +DRSH MP+ITPAYP M +++N++ ST 
Sbjct: 61  ILSEWNWPQPVILKPIEDGPLQVRVWNPKIYAQDRSHRMPVITPAYPSMCATHNITESTK 120

Query: 149 RVMTEQFQWGNRICEEIELNKAQWSALFE 177
           +V+ ++F  G +I  +I  NK  W+ LFE
Sbjct: 121 KVILQEFVRGVQITNDIFSNKKSWANLFE 149
>d1q79a1 a.160.1.1 (A:215-364) Poly(A) polymerase, PAP, middle domain {Cow (Bos taurus) [TaxId: 9913]} Length = 150 Back     information, alignment and structure
>d1q79a3 d.58.16.1 (A:365-498) Poly(A) polymerase, PAP, C-terminal domain {Cow (Bos taurus) [TaxId: 9913]} Length = 134 Back     information, alignment and structure
>d2q66a3 d.58.16.1 (A:352-529) Poly(A) polymerase, PAP, C-terminal domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 178 Back     information, alignment and structure
>d2b4va1 a.160.1.4 (A:289-471) RNA editing terminal uridyl transferase 2, TUTase 2, RET2 {Trypanosoma brucei [TaxId: 5691]} Length = 183 Back     information, alignment and structure
>d1q79a2 d.218.1.3 (A:19-214) Poly(A) polymerase, PAP, N-terminal domain {Cow (Bos taurus) [TaxId: 9913]} Length = 196 Back     information, alignment and structure
>d2q66a2 d.218.1.3 (A:5-201) Poly(A) polymerase, PAP, N-terminal domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 197 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 ?
Query550
d1q79a1150 Poly(A) polymerase, PAP, middle domain {Cow (Bos t 100.0
d2q66a1150 Poly(A) polymerase, PAP, middle domain {Baker's ye 100.0
d2q66a3178 Poly(A) polymerase, PAP, C-terminal domain {Baker' 99.97
d1q79a3134 Poly(A) polymerase, PAP, C-terminal domain {Cow (B 99.97
d2b4va1183 RNA editing terminal uridyl transferase 2, TUTase 99.76
d1r89a1115 tRNA nucleotidyltransferase, second domain {Archae 88.54
>d1q79a1 a.160.1.1 (A:215-364) Poly(A) polymerase, PAP, middle domain {Cow (Bos taurus) [TaxId: 9913]} Back     information, alignment and structure
class: All alpha proteins
fold: PAP/OAS1 substrate-binding domain
superfamily: PAP/OAS1 substrate-binding domain
family: Poly(A) polymerase, PAP, middle domain
domain: Poly(A) polymerase, PAP, middle domain
species: Cow (Bos taurus) [TaxId: 9913]

Probab=100.00  E-value=3.3e-65  Score=470.83  Aligned_cols=150  Identities=63%  Similarity=1.137  Sum_probs=148.0

Q ss_pred             CChHHHHHHHHHHHHHHHHhccccccccccchHHHHHHHHHHHhhCCCCChHHHHHHHHHhhccCCCCCceecccccccc
Q 008889           29 PNVEHFRMTLRCLKFWAKRRGVYSNVTGFLGGVNWALLVARVCQLYPNAIPSMLVSRFFRVYTQWRWPNPVMLCPIEEDE  108 (550)
Q Consensus        29 Pn~e~FR~aLR~IKlWAKrRGIYSNv~GyLGGVsWAILVArVCQLyPNas~s~Lv~~FF~vYS~W~Wp~PV~L~~i~~~~  108 (550)
                      ||+++||.+|||||+|||+||||||++|||||||||||||||||+|||+++++||.+||.+|++|+||+||+|++++++.
T Consensus         1 Pn~~~Fr~~lR~IKlWAk~RGIYsn~~GflGGI~waILvArvCql~Pna~~~~ll~~FF~~ys~W~Wp~PV~l~~~~~~~   80 (150)
T d1q79a1           1 PNIDNFRLTLRAIKLWAKRHNIYSNILGFLGGVSWAMLVARTCQLYPNAIASTLVHKFFLVFSKWEWPNPVLLKQPEECN   80 (150)
T ss_dssp             SCHHHHHHHHHHHHHHHHHTTCBCTTTTSBCHHHHHHHHHHHHHHSTTCCHHHHHHHHHHHHHSCCTTSCBCSSCCCCCS
T ss_pred             CCHHHHHHHHHHHHHHHHHcccccccccccHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHhcCCCCCCeeccCccccc
Confidence            89999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCcccCCCCCCCCCCccceeecCCCCCcCcccccChhHHHHHHHHHHHHHHHHHHHhhcccchhhhcCC
Q 008889          109 LGFSVWDPRKNPRDRSHHMPIITPAYPCMNSSYNVSLSTLRVMTEQFQWGNRICEEIELNKAQWSALFEP  178 (550)
Q Consensus       109 lg~~vWdPr~~~rdr~hlMPIITPayP~mNSt~NVS~STl~vI~eEF~Ra~~Il~~i~~~~~~W~~LFep  178 (550)
                      +++++|+|+.+++|+.|+|||||||||+||+|||||+||+++|++||+||++|+++|..++.+|++|||.
T Consensus        81 ~~~~~w~pr~~~~dr~~lMpIiTPayP~~Nst~nvt~st~~~i~~E~~ra~~i~~~i~~~~~~W~~Lfe~  150 (150)
T d1q79a1          81 LNLPVWDPRVNPSDRYHLMPIITPAYPQQNSTYNVSVSTRMVMVEEFKQGLAITDEILLSKAEWSKLFEA  150 (150)
T ss_dssp             SCCCCCCTTTCGGGGGCSSCBBCSSSSCCBTTTTCCHHHHHHHHHHHHHHHHHHHHHHTTSSCHHHHTCC
T ss_pred             CCCCCCCCCCCCcccccccccccCCCCcccccccccHHHHHHHHHHHHHHHHHHHHHHhCCCCHHHHhcC
Confidence            9999999999999999999999999999999999999999999999999999999999999999999983
>d2q66a1 a.160.1.1 (A:202-351) Poly(A) polymerase, PAP, middle domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Back     information, alignment and structure
>d2q66a3 d.58.16.1 (A:352-529) Poly(A) polymerase, PAP, C-terminal domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Back     information, alignment and structure
>d1q79a3 d.58.16.1 (A:365-498) Poly(A) polymerase, PAP, C-terminal domain {Cow (Bos taurus) [TaxId: 9913]} Back     information, alignment and structure
>d2b4va1 a.160.1.4 (A:289-471) RNA editing terminal uridyl transferase 2, TUTase 2, RET2 {Trypanosoma brucei [TaxId: 5691]} Back     information, alignment and structure
>d1r89a1 a.160.1.3 (A:143-257) tRNA nucleotidyltransferase, second domain {Archaeon Archaeoglobus fulgidus [TaxId: 2234]} Back     information, alignment and structure