Citrus Sinensis ID: 010265

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----
MSVLNDVDEPTVRSLNGCRVADQILKLVPNVEHFCTTLRCLKFWAKRRGVYSNVTGFLGGVNWALLVARVCQLYPNAVPSMLVSRFFRVYTMWRWPNPVMLCAIDEAELGFSVWDPRKNRRDKTHHMPIITPAYPCMNSSYNVSTSTLRVMMDQFQYGNTICEEVELNKAQWSALFEPYLFFESYRNYLQVDIVAANADDLLAWKGWVESRLRQLTLMIERDTYGKLQCHPYPHEYVDTSKPCAHCAFFMGLQRKPGEVVQEGQQFDIRGSVEEFKLSINMYMFWKPGMEICVSHIRRKQIPPYVFPEGYKRTRHPRLASQQRSSENGNEYQTGSGLKRKKDPESVDQDGPEKRQSISPQKQDSLSPDHLAPSSVRSGTGSNVEPVIPDKRVLNQEIAEGGDVSNSSVITSVTSEVGSCEDVGNESVAGSSEGNNGSVEGSNNPVSSQSDCCDADSQSLLENRHLDGNGAFQDRVHEELELNAGLGSVLQSTSGIDSETVVQKPVMRLSLTSTA
ccccccccHHHHHccHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHccccccccccHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHccccHHHHHHHHHEEEEEEcccHHHHHHHHHHHHHHHHHHHHHHHHcccccEEEcccccccccccccccEEEEEEEEEEccccccccccccccHHHHHHHHHHHHHHccccccEEEEEEEEcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHccccccccccccccHHHHcccccccccccccccccccccccccEEEEEccccc
ccHHccccHHHHHHccccHHHHHHHHHcccHHHHHHHHHHHHHHHHHcccEHHHHccHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHcccccccEEEcccccccccccccccccccccccccccEEccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHccccHHHHHccccHHHHHcEEEEEEEEcccHHHHHHHHHHHHHHHHHHHHHHHccccEEEEEccccccccccccccccEEEEEEEEEEcccccccccEEEccccHHHHHHHHHHHHccccccEEEEEEEEHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHcccccccccccccccccHHccccccccccccccccccccccccccEEEEcccccc
msvlndvdeptvrslngcrvADQILKLVPNVEHFCTTLRCLKFWAKRRGVYSNVTGFLGGVNWALLVARVCQlypnavpsmLVSRFFRVYtmwrwpnpvmlcaideaelgfsvwdprknrrdkthhmpiitpaypcmnssynvstSTLRVMMDQFQYGNTICEEVELNKAQWSALFEPYLFFESYRNYLQVDIVAANADDLLAWKGWVESRLRQLTLMIERdtygklqchpypheyvdtskpcahcaffmglqrkpgevvqegqqfdirgsVEEFKLSINMYMFWKPGMEICVSHirrkqippyvfpegykrtrhprlasqqrssengneyqtgsglkrkkdpesvdqdgpekrqsispqkqdslspdhlapssvrsgtgsnvepvipdkrvlnqeiaeggdvsnssVITSVTsevgscedvgnesvagssegnngsvegsnnpvssqsdccdadsqsllenrhldgngafqDRVHEELELNAGlgsvlqstsgidsetvvqkpvmrlsltsta
msvlndvdeptvrslngcrvADQILKLVPNVEHFCTTLRCLKFWAKRRGVYSNVTGFLGGVNWALLVARVCQLYPNAVPSMLVSRFFRVYTMWRWPNPVMLCAIDEAELGFSVWDPRKNRRDKThhmpiitpaypcmnSSYNVSTSTLRVMMDQFQYGNTICEEVELNKAQWSALFEPYLFFESYRNYLQVDIVAANADDLLAWKGWVESRLRQLTLMIERDTYGKLQCHPYPHEYVDTSKPCAHCAFFMGLQRKPGEVVQEGQQFDIRGSVEEFKLSINMYMFWKPGMEICVSHIRRKQIPPYVFPEGYKRtrhprlasqqrssengneyqtgsglkrkkdpesvdqdgpekrqsispqkqdslspdhlapssvrsgtgsnvepvipdKRVLNQEIaeggdvsnssvITSVTSEVGSCEDVGNESVAgssegnngsvEGSNNPVSSQSDCCDADSQSLLENRHLDGNGAFQDRVHEELELNAGLGSVLqstsgidsetvvqkpvmrlsltsta
MSVLNDVDEPTVRSLNGCRVADQILKLVPNVEHFCTTLRCLKFWAKRRGVYSNVTGFLGGVNWALLVARVCQLYPNAVPSMLVSRFFRVYTMWRWPNPVMLCAIDEAELGFSVWDPRKNRRDKTHHMPIITPAYPCMNSSYNVSTSTLRVMMDQFQYGNTICEEVELNKAQWSALFEPYLFFESYRNYLQVDIVAANADDLLAWKGWVESRLRQLTLMIERDTYGKLQCHPYPHEYVDTSKPCAHCAFFMGLQRKPGEVVQEGQQFDIRGSVEEFKLSINMYMFWKPGMEICVSHIRRKQIPPYVFPEGYKRTRHPRLASQQRSSENGNEYQTGSGLKRKKDPESVDQDGPEKRQSISPQKQDSLSPDHLAPSSVRSGTGSNVEPVIPDKRVLNQEIAEGGDvsnssvitsvtsevgsCEDvgnesvagssegnngsvegsnnpvssqsdccdadsqsLLENRHLDGNGAFQDRVHEELELNAGLGSVLQSTSGIDSETVVQKPVMRLSLTSTA
************RSLNGCRVADQILKLVPNVEHFCTTLRCLKFWAKRRGVYSNVTGFLGGVNWALLVARVCQLYPNAVPSMLVSRFFRVYTMWRWPNPVMLCAIDEAELGFSVWDPRKNRRDKTHHMPIITPAYPCMNSSYNVSTSTLRVMMDQFQYGNTICEEVELNKAQWSALFEPYLFFESYRNYLQVDIVAANADDLLAWKGWVESRLRQLTLMIERDTYGKLQCHPYPHEYVDTSKPCAHCAFFMGLQRKPGEVVQEGQQFDIRGSVEEFKLSINMYMFWKPGMEICVSHIRRKQIPPYVFPEGY************************************************************************************************************************************************************************************************************
MSVLND*DEPTVRSLNGCRVADQILKLVPNVEHFCTTLRCLKFWAKRRGVYSNVTGFLGGVNWALLVARVCQLYPNAVPSMLVSRFFRVYTMWRWPNPVMLCAIDEAELGFSVWDPRKNRRDKTHHMPIITPAYPCMNSSYNVSTSTLRVMMDQFQYGNTICEEVELNKAQWSALFEPYLFFESYRNYLQVDIVAANADDLLAWKGWVESRLRQLTLMIERDTYGKLQCHPYPHEYVDTSKPCAHCAFFMGLQRKPGE**QEGQQFDIRGSVEEFKLSINMYMFWKPGMEICVSHIRRKQIPPYVF*********************************************************************************************************************************************************************************************************LSLT***
MSVLNDVDEPTVRSLNGCRVADQILKLVPNVEHFCTTLRCLKFWAKRRGVYSNVTGFLGGVNWALLVARVCQLYPNAVPSMLVSRFFRVYTMWRWPNPVMLCAIDEAELGFSVWDPRKNRRDKTHHMPIITPAYPCMNSSYNVSTSTLRVMMDQFQYGNTICEEVELNKAQWSALFEPYLFFESYRNYLQVDIVAANADDLLAWKGWVESRLRQLTLMIERDTYGKLQCHPYPHEYVDTSKPCAHCAFFMGLQRKPGEVVQEGQQFDIRGSVEEFKLSINMYMFWKPGMEICVSHIRRKQIPPYVFPEGYKRTRH******************************************************************NVEPVIPDKRVLNQEIAEGGDVSNSSVITSVTSEVGSCEDVG*******************************DSQSLLENRHLDGNGAFQDRVHEELELNAGLGSVLQSTSGIDSETVVQKPVMRLSLTSTA
*SVLNDVDEPTVRSLNGCRVADQILKLVPNVEHFCTTLRCLKFWAKRRGVYSNVTGFLGGVNWALLVARVCQLYPNAVPSMLVSRFFRVYTMWRWPNPVMLCAIDEAELGFSVWDPRKNRRDKTHHMPIITPAYPCMNSSYNVSTSTLRVMMDQFQYGNTICEEVELNKAQWSALFEPYLFFESYRNYLQVDIVAANADDLLAWKGWVESRLRQLTLMIERDTYGKLQCHPYPHEYVDTSKPCAHCAFFMGLQRKPGEVVQEGQQFDIRGSVEEFKLSINMYMFWKPGMEICVSHIRRKQIPPYVFPE*********************************************************************************************************************************************************************************************ETVVQKPVMR*******
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MSVLNDVDEPTVRSLNGCRVADQILKLVPNVEHFCTTLRCLKFWAKRRGVYSNVTGFLGGVNWALLVARVCQLYPNAVPSMLVSRFFRVYTMWRWPNPVMLCAIDEAELGFSVWDPRKNRRDKTHHMPIITPAYPCMNSSYNVSTSTLRVMMDQFQYGNTICEEVELNKAQWSALFEPYLFFESYRNYLQVDIVAANADDLLAWKGWVESRLRQLTLMIERDTYGKLQCHPYPHEYVDTSKPCAHCAFFMGLQRKPGEVVQEGQQFDIRGSVEEFKLSINMYMFWKPGMEICVSHIRRKQIPPYVFPEGYKRTRHPRLASQQRSSENGNEYQTGSGLKRKKDPESVDQDGPEKRQSISPQKQDSLSPDHLAPSSVRSGTGSNVEPVIPDKRVLNQEIAEGGDVSNSSVITSVTSEVGSCEDVGNESVAGSSEGNNGSVEGSNNPVSSQSDCCDADSQSLLENRHLDGNGAFQDRVHEELELNAGLGSVLQSTSGIDSETVVQKPVMRLSLTSTA
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 ?
Query514 2.2.26 [Sep-21-2011]
Q54J73809 Poly(A) polymerase OS=Dic yes no 0.616 0.391 0.447 2e-79
Q9BWT3736 Poly(A) polymerase gamma yes no 0.628 0.438 0.432 2e-73
Q6PCL9739 Poly(A) polymerase gamma yes no 0.622 0.433 0.435 2e-72
Q61183739 Poly(A) polymerase alpha no no 0.589 0.410 0.441 1e-71
P51003745 Poly(A) polymerase alpha no no 0.568 0.391 0.454 2e-71
P25500739 Poly(A) polymerase alpha no no 0.568 0.395 0.454 2e-71
Q9NRJ5636 Poly(A) polymerase beta O no no 0.571 0.462 0.453 3e-71
Q9WVP6641 Poly(A) polymerase beta O no no 0.570 0.457 0.455 9e-71
P51004715 Poly(A) polymerase alpha- N/A no 0.591 0.425 0.434 1e-70
O42617558 Poly(A) polymerase PAPalp N/A no 0.457 0.421 0.468 4e-62
>sp|Q54J73|PAP_DICDI Poly(A) polymerase OS=Dictyostelium discoideum GN=papA PE=3 SV=1 Back     alignment and function desciption
 Score =  296 bits (759), Expect = 2e-79,   Method: Compositional matrix adjust.
 Identities = 149/333 (44%), Positives = 205/333 (61%), Gaps = 16/333 (4%)

Query: 2   SVLNDVDEPTVRSLNGCRVADQILKLVPNVEHFCTTLRCLKFWAKRRGVYSNVTGFLGGV 61
           S L ++DE ++ SLNGCRV DQILKLVPN+ +F   LRC+K WA RRG+YSN+ GFLGGV
Sbjct: 222 SFLKNIDEKSILSLNGCRVTDQILKLVPNIPNFRMALRCIKLWAIRRGIYSNILGFLGGV 281

Query: 62  NWALLVARVCQLYPNAVPSMLVSRFFRVYTMWRWPNPVMLCAIDEAE-LGFSVWDPRKNR 120
           +WALL AR+CQLYPN+ PS ++ RFF+VY +W+WP P++LC I E   LG  VW+P   +
Sbjct: 282 SWALLTARICQLYPNSAPSTIIHRFFKVYEIWKWPAPILLCHIQEGGILGPKVWNP---K 338

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

Query: 181 FFESYRNYLQVDIVAANADDLLAWKGWVESRLRQLTLMIERDTYGKLQCHPYPHEYVD-- 238
           FF  Y  Y+++D  + N +D   W+GW+ES+LR L   +E     K    PYP  + +  
Sbjct: 399 FFTRYSFYIEIDCYSMNEEDSRKWEGWIESKLRFLISNLESTPKMKFAV-PYPKGFTNNL 457

Query: 239 --TSKPCAHC-AFFMGLQRKPGEVVQEGQQFDIRGSVEEFKLSINMYMFWKPG---MEIC 292
              + P   C +FFMGL           +  D+  +V EF   I  ++  +P    M+I 
Sbjct: 458 HKANNPDQICTSFFMGLSFNFSNTPGADKSVDLTKAVTEFTGIIKDWLRTQPNPDTMDIK 517

Query: 293 VSHIRRKQIPPYVFPEGYKRTRHPRLASQQRSS 325
           V +I++KQ+P +V  EG      P   +++RSS
Sbjct: 518 VQYIKKKQLPAFVKDEG---PEEPVKTTKKRSS 547
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|Q9BWT3|PAPOG_HUMAN Poly(A) polymerase gamma OS=Homo sapiens GN=PAPOLG PE=1 SV=2 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|Q61183|PAPOA_MOUSE Poly(A) polymerase alpha OS=Mus musculus GN=Papola PE=1 SV=4 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|P25500|PAPOA_BOVIN Poly(A) polymerase alpha OS=Bos taurus GN=PAPOLA PE=1 SV=3 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|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|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 ?
Query514
255549812 712 nucleic acid binding protein, putative [ 0.980 0.707 0.729 0.0
297743180 677 unnamed protein product [Vitis vinifera] 0.955 0.725 0.721 0.0
225442450 770 PREDICTED: poly(A) polymerase-like [Viti 0.984 0.657 0.657 0.0
147790301 778 hypothetical protein VITISV_011285 [Viti 0.963 0.636 0.646 0.0
449480779 758 PREDICTED: poly(A) polymerase-like [Cucu 0.970 0.658 0.634 0.0
449448062 772 PREDICTED: LOW QUALITY PROTEIN: poly(A) 0.970 0.646 0.610 0.0
356522230 766 PREDICTED: poly(A) polymerase-like [Glyc 0.957 0.642 0.641 1e-177
357513525 633 Poly(A) polymerase [Medicago truncatula] 0.959 0.778 0.631 1e-174
356515639 732 PREDICTED: poly(A) polymerase-like [Glyc 0.714 0.501 0.755 1e-172
356528904 790 PREDICTED: poly(A) polymerase-like [Glyc 0.980 0.637 0.622 1e-171
>gi|255549812|ref|XP_002515957.1| nucleic acid binding protein, putative [Ricinus communis] gi|223544862|gb|EEF46377.1| nucleic acid binding protein, putative [Ricinus communis] Back     alignment and taxonomy information
 Score =  774 bits (1999), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 380/521 (72%), Positives = 428/521 (82%), Gaps = 17/521 (3%)

Query: 1   MSVLNDVDEPTVRSLNGCRVADQILKLVPNVEHFCTTLRCLKFWAKRRGVYSNVTGFLGG 60
           +SVL DVDEPTVRSLNGCRVADQILKLVPNVEHF TTLRCLKFWAKRRGVYSNVTGFLGG
Sbjct: 149 VSVLYDVDEPTVRSLNGCRVADQILKLVPNVEHFRTTLRCLKFWAKRRGVYSNVTGFLGG 208

Query: 61  VNWALLVARVCQLYPNAVPSMLVSRFFRVYTMWRWPNPVMLCAIDEAELGFSVWDPRKNR 120
           VNWALLVAR+CQLYPNA+PSMLVSRFFRVYT WRWPNPVMLC I+E ELGFS+WDPRKN 
Sbjct: 209 VNWALLVARICQLYPNAIPSMLVSRFFRVYTQWRWPNPVMLCPIEEDELGFSIWDPRKNP 268

Query: 121 RDKTHHMPIITPAYPCMNSSYNVSTSTLRVMMDQFQYGNTICEEVELNKAQWSALFEPYL 180
           RD+THHMPIITPAYPCMNSSYNVSTSTLRVMM+QFQYGN ICEE+EL K QW+ LFEPYL
Sbjct: 269 RDRTHHMPIITPAYPCMNSSYNVSTSTLRVMMEQFQYGNKICEEIELIKTQWATLFEPYL 328

Query: 181 FFESYRNYLQVDIVAANADDLLAWKGWVESRLRQLTLMIERDTYGKLQCHPYPHEYVDTS 240
           FFESY+NYLQVDIVA + DDL AWKGWVESRLRQLTLMI+RDTYGKLQCHPYPHEYVDTS
Sbjct: 329 FFESYKNYLQVDIVATDVDDLRAWKGWVESRLRQLTLMIDRDTYGKLQCHPYPHEYVDTS 388

Query: 241 KPCAHCAFFMGLQRKPGEVVQEGQQFDIRGSVEEFKLSINMYMFWKPGMEICVSHIRRKQ 300
           KPCAHCAFFMGLQRK GE++QEGQQFDIRG+V+EF+ SINMYMFWKPGMEI VSH+RRKQ
Sbjct: 389 KPCAHCAFFMGLQRKQGEMIQEGQQFDIRGTVDEFRNSINMYMFWKPGMEIYVSHVRRKQ 448

Query: 301 IPPYVFPEGYKRTRHPRLASQQRSSE----NGNEYQTGS---GLKRKKDPESVD--QDGP 351
           IP YVFP+GY+R RHPR+ +QQ+S +    + + Y  GS   G KRKKD + +D   D P
Sbjct: 449 IPSYVFPDGYRRARHPRVTAQQQSDKTCCGDSDAYGNGSSERGHKRKKDSDEIDVKNDMP 508

Query: 352 EKRQSISPQKQDSLSPDHL-----APSSVRSGTGSNVEPVIPDKRVLNQEIAEGGDVSNS 406
           EKR SISPQ++DS+SPD        PSS  S        +  DKR    +  +G   SNS
Sbjct: 509 EKRNSISPQRRDSVSPDIFTHKFGGPSSECSAIAEGKGTLQLDKRTFCPDDVDGVCTSNS 568

Query: 407 SVITSVTSEVGSCEDVGNESVAGSSEGNNGSVEGSNNPVSSQSDCCDADSQSLLENRHLD 466
           S ITS++SE+ SCED+G ESVAGSSEGNNGS EGSNN VSSQSD  DA+S+SLLEN + D
Sbjct: 569 SGITSLSSEIVSCEDIGTESVAGSSEGNNGSAEGSNNLVSSQSDSGDAESESLLENAYAD 628

Query: 467 GNGAFQDRVHEELELNAGLGSVLQSTSGIDSETVVQKPVMR 507
           G G  QD + EELE NA +  +   T G+ +E  +QKPV+R
Sbjct: 629 G-GVLQDGLQEELEPNAAV-EMAPDTLGVSAEA-LQKPVIR 666

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|297743180|emb|CBI36047.3| unnamed protein product [Vitis vinifera] Back     alignment and taxonomy information
>gi|225442450|ref|XP_002277939.1| PREDICTED: poly(A) polymerase-like [Vitis vinifera] Back     alignment and taxonomy information
>gi|147790301|emb|CAN69980.1| hypothetical protein VITISV_011285 [Vitis vinifera] Back     alignment and taxonomy information
>gi|449480779|ref|XP_004155993.1| PREDICTED: poly(A) polymerase-like [Cucumis sativus] Back     alignment and taxonomy information
>gi|449448062|ref|XP_004141785.1| PREDICTED: LOW QUALITY PROTEIN: poly(A) polymerase-like [Cucumis sativus] Back     alignment and taxonomy information
>gi|356522230|ref|XP_003529750.1| PREDICTED: poly(A) polymerase-like [Glycine max] Back     alignment and taxonomy information
>gi|357513525|ref|XP_003627051.1| Poly(A) polymerase [Medicago truncatula] gi|355521073|gb|AET01527.1| Poly(A) polymerase [Medicago truncatula] Back     alignment and taxonomy information
>gi|356515639|ref|XP_003526506.1| PREDICTED: poly(A) polymerase-like [Glycine max] Back     alignment and taxonomy information
>gi|356528904|ref|XP_003533037.1| PREDICTED: poly(A) polymerase-like [Glycine max] Back     alignment and taxonomy information

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST ?

Original result of BLAST against Gene Ontology (AMIGO)

ID ? Alignment graph ? Length ? Definition ? Q cover ? H cover ? Identity ? E-value ?
Query514
TAIR|locus:2043560800 PAPS2 "poly(A) polymerase 2" [ 0.727 0.467 0.695 3.6e-148
TAIR|locus:2134113765 nPAP "nuclear poly(a) polymera 0.756 0.508 0.683 7.1e-148
TAIR|locus:2030943713 PAPS1 "poly(A) polymerase 1" [ 0.632 0.455 0.648 5.2e-120
ZFIN|ZDB-GENE-040426-1256744 papolg "poly(A) polymerase gam 0.630 0.435 0.447 1.4e-72
DICTYBASE|DDB_G0288259809 papA "poly(A) polymerase" [Dic 0.657 0.417 0.430 2e-72
UNIPROTKB|A5D7N5740 PAPOLG "Uncharacterized protei 0.747 0.518 0.393 3.5e-68
UNIPROTKB|J9NS30 813 PAPOLG "Uncharacterized protei 0.747 0.472 0.396 7.2e-68
UNIPROTKB|F1SQL7741 PAPOLG "Uncharacterized protei 0.743 0.515 0.402 7.2e-68
RGD|1310337739 Papolg "poly(A) polymerase gam 0.729 0.507 0.411 7.2e-68
UNIPROTKB|Q9BWT3736 PAPOLG "Poly(A) polymerase gam 0.752 0.525 0.394 9.2e-68
TAIR|locus:2043560 PAPS2 "poly(A) polymerase 2" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 1402 (498.6 bits), Expect = 3.6e-148, Sum P(2) = 3.6e-148
 Identities = 269/387 (69%), Positives = 308/387 (79%)

Query:     2 SVLNDVDEPTVRSLNGCRVADQILKLVPNVEHFCTTLRCLKFWAKRRGVYSNVTGFLGGV 61
             SVL DVDE TVRSLNGCRVADQILKLVPN EHF TTLRCLK+WAK+RGVYSNVTGFLGGV
Sbjct:   192 SVLCDVDEQTVRSLNGCRVADQILKLVPNSEHFRTTLRCLKYWAKKRGVYSNVTGFLGGV 251

Query:    62 NWALLVARVCQLYPNAVPSMLVSRFFRVYTMWRWPNPVMLCAIDEAELGFSVWDPRKNRR 121
             NWALLVAR+CQ YPNA+PSMLVSRFFRVYT WRWPNPVMLCAI+E +L F VWDPRKN R
Sbjct:   252 NWALLVARLCQFYPNAIPSMLVSRFFRVYTQWRWPNPVMLCAIEEDDLSFPVWDPRKNHR 311

Query:   122 DKTHHMPIITPAYPCMNSSYNVSTSTLRVMMDQFQYGNTICEEVELNKAQWSALFEPYLF 181
             D+ H MPIITPAYPCMNSSYNVS STLRVM +QFQ+GNTIC+E+ELNK  WS+LF+ Y+F
Sbjct:   312 DRYHLMPIITPAYPCMNSSYNVSQSTLRVMTEQFQFGNTICQEIELNKQHWSSLFQQYMF 371

Query:   182 FESYRNYLQVDIVAANADDLLAWKGWVESRLRQLTLMIERDTYGKLQCHPYPHEYVDTSK 241
             FE+Y+NYLQVD++AA+A+DLLAWKGWVESR RQLTL IERDT G L CHP P+EYVDTSK
Sbjct:   372 FEAYKNYLQVDVLAADAEDLLAWKGWVESRFRQLTLKIERDTNGMLMCHPQPNEYVDTSK 431

Query:   242 PCAHCAFFMGLQRKPGEVVQEGQQFDIRGSVEEFKLSINMYMFWKPGMEICVSHIRRKQI 301
                HCAFFMGLQR  G   QE QQFDIRG+V+EF+  +NMYMFW+PGM++ VSH+RR+Q+
Sbjct:   432 QFRHCAFFMGLQRADGFGGQECQQFDIRGTVDEFRQEVNMYMFWRPGMDVHVSHVRRRQL 491

Query:   302 PPYVFPEGYKRTRHPRLASQQRSSENGNEYQTGS-------GLKRKKDPESVDQ--DGPE 352
             P +VFP GYKR+R  R  SQQ   E G+E   GS         KRK D E ++   +  E
Sbjct:   492 PSFVFPNGYKRSRQSRHQSQQ-CREPGDE-GVGSLSDSVERYAKRKNDDEIMNSRPEKRE 549

Query:   353 KRQSISPQKQDSLSPDHLAPSSVRSGT 379
             KR S S    D+ SPD  +     SGT
Sbjct:   550 KRASCSLHTLDAASPD--SSGITTSGT 574
GO:0003723 "RNA binding" evidence=IEA
GO:0004652 "polynucleotide adenylyltransferase activity" evidence=IEA
GO:0005634 "nucleus" evidence=ISM;IEA;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:0006397 "mRNA processing" evidence=RCA
TAIR|locus:2134113 nPAP "nuclear poly(a) polymerase" [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
ZFIN|ZDB-GENE-040426-1256 papolg "poly(A) polymerase gamma" [Danio rerio (taxid:7955)] Back     alignment and assigned GO terms
DICTYBASE|DDB_G0288259 papA "poly(A) polymerase" [Dictyostelium discoideum (taxid:44689)] Back     alignment and assigned GO terms
UNIPROTKB|A5D7N5 PAPOLG "Uncharacterized protein" [Bos taurus (taxid:9913)] Back     alignment and assigned GO terms
UNIPROTKB|J9NS30 PAPOLG "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)] Back     alignment and assigned GO terms
UNIPROTKB|F1SQL7 PAPOLG "Uncharacterized protein" [Sus scrofa (taxid:9823)] Back     alignment and assigned GO terms
RGD|1310337 Papolg "poly(A) polymerase gamma" [Rattus norvegicus (taxid:10116)] Back     alignment and assigned GO terms
UNIPROTKB|Q9BWT3 PAPOLG "Poly(A) polymerase gamma" [Homo sapiens (taxid:9606)] Back     alignment and assigned GO terms

Prediction of Enzyme Commission (EC) Number

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

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server ?

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software ?

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 ?
Query514
PTZ00418593 PTZ00418, PTZ00418, Poly(A) polymerase; Provisiona 1e-125
pfam04928349 pfam04928, PAP_central, Poly(A) polymerase central 1e-114
COG5186552 COG5186, PAP1, Poly(A) polymerase [RNA processing 1e-81
pfam04926141 pfam04926, PAP_RNA-bind, Poly(A) polymerase predic 1e-49
>gnl|CDD|240410 PTZ00418, PTZ00418, Poly(A) polymerase; Provisional Back     alignment and domain information 
 Score =  377 bits (970), Expect = e-125
 Identities = 142/394 (36%), Positives = 222/394 (56%), Gaps = 32/394 (8%)

Query: 2   SVLNDVDEPTVRSLNGCRVADQILKLVPNVEHFCTTLRCLKFWAKRRGVYSNVTGFLGGV 61
            +L +VDE TVRSLNGCRVAD IL  VPN ++F TTLR +K WAKRRG+YSNV G+LGGV
Sbjct: 221 YILRNVDEKTVRSLNGCRVADLILASVPNKDYFRTTLRFIKLWAKRRGIYSNVLGYLGGV 280

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

Query: 117 RKNRRDKTHHMPIITPAYPCMNSSYNVSTSTLRVMMDQFQYGNTICEEVELN-KAQWSAL 175
           R N +D+ H MPIITPA+P MNS++NV+ +T RV+ ++F+  + I + +E N +  W+ +
Sbjct: 341 RVNPQDRAHLMPIITPAFPSMNSTHNVTYTTKRVITEEFKRAHEIIKYIEKNSENTWTNV 400

Query: 176 FEPYLFFESYRNYLQVDIVAANADDLLAWKGWVESRLRQLTLMIERDTYGKLQCHPYPHE 235
            EP  FF SY+++L + + A N      W+GW+ES++R L   +E  T   L+  PYP  
Sbjct: 401 LEPLDFFTSYKHFLVIQVYATNEHVHNKWEGWIESKIRFLIKKLE--TLNNLKIRPYPKF 458

Query: 236 YVDTSKPCAHC-AFFMGLQRKPGEVVQEGQQFDIRGSVEEFKLSINMYM---FWKPGMEI 291
           +        +  +FF+GL       V     FD+R ++ +F   IN +     +   ++I
Sbjct: 459 FKYQDDGWDYASSFFIGLVFFSK-NVYNNSTFDLRYAIRDFVDIINNWPEMEKYPDQIDI 517

Query: 292 CVSHIRRKQIPPYVFPEGYKRTRHPRLASQQRSSENGNEYQTGSGLKRKKDPESVDQDGP 351
            + ++++ Q+P +V  +  +     +  ++  +S      Q+GS                
Sbjct: 518 NIKYLKKSQLPAFVLSQTPEEPVKTKANTKTNTSSATTSGQSGS---------------- 561

Query: 352 EKRQSISPQKQDSLSPDHLAPSSVRSGTGSNVEP 385
                 +     + S   ++ + + + + ++   
Sbjct: 562 ---SGSTSNSNSNESSPTMSSTELLNVSSTSTTG 592

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 514
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 98.88
COG5260482 TRF4 DNA polymerase sigma [DNA replication, recomb 97.59
KOG2054 1121 consensus Nucleolar RNA-associated protein (NRAP) 97.2
KOG2277596 consensus S-M checkpoint control protein CID1 and 97.06
KOG1906514 consensus DNA polymerase sigma [Replication, recom 96.13
PF03813972 Nrap: Nrap protein; InterPro: IPR005554 Members of 95.67
PRK13300447 tRNA CCA-pyrophosphorylase; Provisional 94.59
TIGR03671408 cca_archaeal CCA-adding enzyme. 94.57
smart00572246 DZF domain in DSRM or ZnF_C2H2 domain containing p 93.63
PF09249114 tRNA_NucTransf2: tRNA nucleotidyltransferase, seco 90.0
PF0382860 PAP_assoc: Cid1 family poly A polymerase; InterPro 89.81
>KOG2245 consensus Poly(A) polymerase and related nucleotidyltransferases [RNA processing and modification] Back     alignment and domain information 
Probab=100.00  E-value=1.6e-104  Score=831.47  Aligned_cols=308  Identities=52%  Similarity=0.942  Sum_probs=289.8

Q ss_pred             CCcCCCChhhhhccchhhHHHHHHHhCCChHHHHHHHHHHHHHHHHhcccccccccchhHHHHHHHHHHHhhCCCCChHH
Q 010265            2 SVLNDVDEPTVRSLNGCRVADQILKLVPNVEHFCTTLRCLKFWAKRRGVYSNVTGFLGGVNWALLVARVCQLYPNAVPSM   81 (514)
Q Consensus         2 slL~nLDe~svRSLNG~RVtd~ILrlVPn~e~FR~aLR~IKlWAKrRGIYSNv~GyLGGVsWAILVArVCQLyPnas~s~   81 (514)
                      ++|+||||+|+||||||||||+||+||||.++||.+|||||+||||||||||++||||||+|||||||||||||||+|++
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             HHHHHHHhhhcCCCCCceeccccccccCCCcccCCCCCCCCCCCcceeecCCCCCcCcccccCcchHHHHHHHHHHHHhH
Q 010265           82 LVSRFFRVYTMWRWPNPVMLCAIDEAELGFSVWDPRKNRRDKTHHMPIITPAYPCMNSSYNVSTSTLRVMMDQFQYGNTI  161 (514)
Q Consensus        82 Ll~~FF~vYS~W~Wp~PV~L~~i~~~~lg~~vW~P~~~~rdr~hlMPIITPayP~mNSt~NVS~STl~vI~~Ef~Rg~~I  161 (514)
                      ||.+||.+|++|.||+||+|+++++++|+++||||+.|++||.|+|||||||||+||||||||+||+++|.+||+||++|
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 010265          162 CEEVELNKAQWSALFEPYLFFESYRNYLQVDIVAANADDLLAWKGWVESRLRQLTLMIERDTYGKLQCHPYPHEYVDTSK  241 (514)
Q Consensus       162 ~~~i~~~~~~W~~LFep~~FF~~Yk~YL~I~v~a~s~ed~~~w~GwVESRlR~Lv~~LE~~~~~~l~ahp~P~~f~d~~~  241 (514)
                      |++|+.++.+|++|||+++||.+|||||+|+++|.++|++.+|.||||||+|.|+.+||+.. .++.|||+|+.|.++..
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 CDDIELNKLDWSDLFELYNFFSRYKHYLQITASAATEEDLLKWVGWVESRIRQLVLKLERNQ-VILIAHPNPKKFKDTYN  421 (562)
T ss_pred             HHHHHhccccHHHHhhhhHHHHHHhhHheeeeeccChHHHhhhhhHHHHHHHHHHHHHHhhc-ceEEecCCccccccccc
Confidence            99999999999999999999999999999999999999999999999999999999999954 67889999999998753


Q ss_pred             ----CCceeEEEEeeeeCCCCccCCCceecchHHHHHHHHHHh----hccccCCc--eEEEEEeeccCCCCCCcCCCCcc
Q 010265          242 ----PCAHCAFFMGLQRKPGEVVQEGQQFDIRGSVEEFKLSIN----MYMFWKPG--MEICVSHIRRKQIPPYVFPEGYK  311 (514)
Q Consensus       242 ----~~~~~~ffIGL~~~~~~~~~~~~~~DL~~~v~eF~~~I~----~~~~~~~g--m~i~Vs~Vkr~~LP~~V~~~g~~  311 (514)
                          ..+...|||||...++.      ++||+..+++|...++    +...+.+|  |.+.+.|+||++|+.++++++.+
T Consensus       422 ~~~~~~~~~~~~igl~~~e~~------~~Dlt~~iq~f~~~v~~q~~~~~~~~~g~~~~~~~~~~krr~l~~~~~~~~l~  495 (562)
T KOG2245|consen  422 CPLEEDPESLWFIGLEFDENV------KIDLTKDIQSFKKNVERQAVNLTLIKAGCDVEIDFGHVKRRSLIQTITKEFLR  495 (562)
T ss_pred             CCcccchhHhhhhcccccccc------cchhhhhHHHhhhhhhhcceeeeeeecccccccccccccccccccccCHHHhh
Confidence                23566899999876542      4999999999999887    45567888  77777899999999999999887


Q ss_pred             ccCCC
Q 010265          312 RTRHP  316 (514)
Q Consensus       312 r~~~~  316 (514)
                      +.|.-
T Consensus       496 ~~k~~  500 (562)
T KOG2245|consen  496 LCKQY  500 (562)
T ss_pred             HHHhh
Confidence            75554

>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 ?
Query514
1q79_A514 Crystal Structure Of Mammalian Poly(A) Polymerase L 4e-71
1q78_A514 Crystal Structure Of Poly(A) Polymerase In Complex 4e-71
1f5a_A513 Crystal Structure Of Mammalian Poly(A) Polymerase L 2e-64
2hhp_A530 Structure Of Yeast Poly(A) Polymerase In A Closed C 3e-56
2o1p_A546 Structure Of Yeast Poly(A) Polymerase In A Somewhat 3e-56
2q66_A525 Structure Of Yeast Poly(A) Polymerase With Atp And 4e-56
1fa0_A537 Structure Of Yeast Poly(A) Polymerase Bound To Mang 4e-56
>pdb|1Q79|A Chain A, Crystal Structure Of Mammalian Poly(A) Polymerase Length = 514 Back     alignment and structure 
Iteration: 1

 Score =  265 bits (678), Expect = 4e-71,   Method: Compositional matrix adjust.
 Identities = 139/306 (45%), Positives = 190/306 (62%), Gaps = 14/306 (4%)
Query: 6   DVDEPTVRSLNGCRVADQILKLVPNVEHFCTTLRCLKFWAKRRGVYSNVTGFLGGVNWAL 65
           ++D   +RSLNGCRV D+IL LVPN+++F  TLR +K WAKR  +YSN+ GFLGGV+WA+
Sbjct: 192 NLDIRXIRSLNGCRVTDEILHLVPNIDNFRLTLRAIKLWAKRHNIYSNILGFLGGVSWAM 251
Query: 66  LVARVCQLYPNAVPSMLVSRFFRVYTMWRWPNPVMLCAIDEAELGFSVWDPRKNRRDKTH 125
           LVAR CQLYPNA+ S LV +FF V++ W WPNPV+L   +E  L   VWDPR N  D+ H
Sbjct: 252 LVARTCQLYPNAIASTLVHKFFLVFSKWEWPNPVLLKQPEECNLNLPVWDPRVNPSDRYH 311
Query: 126 HMPIITPAYPCMNSSYNVSTSTLRVMMDQFQYGNTICEEVELNKAQWSALFEPYLFFESY 185
            MPIITPAYP  NS+YNVS ST  VM+++F+ G  I +E+ L+KA+WS LFE   FF+ Y
Sbjct: 312 LMPIITPAYPQQNSTYNVSVSTRMVMVEEFKQGLAITDEILLSKAEWSKLFEAPNFFQKY 371
Query: 186 RNYLQVDIVAANADDLLAWKGWVESRLRQLTLMIERDTYGKL-----QCHPYPHEYVDTS 240
           ++Y+ +   A      L W G VES++R L   +E++ +  L     Q  P P E  D  
Sbjct: 372 KHYIVLLASAPTEKQRLEWVGLVESKIRILVGSLEKNEFITLAHVNPQSFPAPKENPD-- 429
Query: 241 KPCAHCAFFMGLQRKPGEVVQEGQQFDIRGSVEEF-----KLSINMYMFWKPGMEICVSH 295
           K      + +GL  K  E   E    D+   ++ F     + +IN  MF +  M+I   H
Sbjct: 430 KEEFRTMWVIGLVFKKTE-NSENLSVDLTYDIQSFTDTVYRQAINSKMF-EVDMKIAAMH 487
Query: 296 IRRKQI 301
           ++RKQ+
Sbjct: 488 VKRKQL 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|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
>pdb|1FA0|A Chain A, Structure Of Yeast Poly(A) Polymerase Bound To Manganate And 3'-Datp Length = 537 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 ?
Query514
1q79_A514 Poly(A) polymerase alpha; mRNA processing, nucleot 1e-120
2hhp_A530 Poly(A) polymerase; template-independent RNA polym 1e-108
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 1e-05
>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

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query514
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 99.9
4e8f_A405 Poly(A) RNA polymerase protein CID1; beta polymera 99.89
3nyb_A323 Poly(A) RNA polymerase protein 2; polya RNA polyme 99.86
2b4v_A468 RNA editing complex protein MP57; tbret2, TBMP57, 99.69
3hj4_A384 Minor editosome-associated tutase; nucleotidyltran 99.41
3pq1_A464 Poly(A) RNA polymerase; nucleotidyl transferase, R 99.22
1r89_A437 TRNA nucleotidyltransferase; CCA adding enzyme, in 95.48
1px5_A349 2'-5'-oligoadenylate synthetase 1; 5-stranded anti 90.19
>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 514
d2q66a1150 a.160.1.1 (A:202-351) Poly(A) polymerase, PAP, mid 1e-85
d1q79a1150 a.160.1.1 (A:215-364) Poly(A) polymerase, PAP, mid 8e-84
d1q79a3134 d.58.16.1 (A:365-498) Poly(A) polymerase, PAP, C-t 3e-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 5e-20
d1q79a2196 d.218.1.3 (A:19-214) Poly(A) polymerase, PAP, N-te 4e-09
d2q66a2197 d.218.1.3 (A:5-201) Poly(A) polymerase, PAP, N-ter 7e-09
>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 =  258 bits (661), Expect = 1e-85
 Identities = 68/149 (45%), Positives = 102/149 (68%)

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

Query: 89  VYTMWRWPNPVMLCAIDEAELGFSVWDPRKNRRDKTHHMPIITPAYPCMNSSYNVSTSTL 148
           + + W WP PV+L  I++  L   VW+P+   +D++H MP+ITPAYP M +++N++ ST 
Sbjct: 61  ILSEWNWPQPVILKPIEDGPLQVRVWNPKIYAQDRSHRMPVITPAYPSMCATHNITESTK 120

Query: 149 RVMMDQFQYGNTICEEVELNKAQWSALFE 177
           +V++ +F  G  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 ?
Query514
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 99.77
d1r89a1115 tRNA nucleotidyltransferase, second domain {Archae 86.62
>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=1.4e-65  Score=469.87  Aligned_cols=150  Identities=58%  Similarity=1.087  Sum_probs=147.9

Q ss_pred             CChHHHHHHHHHHHHHHHHhcccccccccchhHHHHHHHHHHHhhCCCCChHHHHHHHHHhhhcCCCCCceecccccccc
Q 010265           29 PNVEHFCTTLRCLKFWAKRRGVYSNVTGFLGGVNWALLVARVCQLYPNAVPSMLVSRFFRVYTMWRWPNPVMLCAIDEAE  108 (514)
Q Consensus        29 Pn~e~FR~aLR~IKlWAKrRGIYSNv~GyLGGVsWAILVArVCQLyPnas~s~Ll~~FF~vYS~W~Wp~PV~L~~i~~~~  108 (514)
                      ||+++||.+|||||+|||+||||||++|||||||||||||||||+|||+++++||.+||.+|++|+||+||+|++++++.
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             CCCcccCCCCCCCCCCCcceeecCCCCCcCcccccCcchHHHHHHHHHHHHhHhHHhhhcccchhhhcCC
Q 010265          109 LGFSVWDPRKNRRDKTHHMPIITPAYPCMNSSYNVSTSTLRVMMDQFQYGNTICEEVELNKAQWSALFEP  178 (514)
Q Consensus       109 lg~~vW~P~~~~rdr~hlMPIITPayP~mNSt~NVS~STl~vI~~Ef~Rg~~I~~~i~~~~~~W~~LFep  178 (514)
                      +++++|+|+.|++|+.|+|||||||||+||+|||||+||+++|++||+||++|+++|..++.+|++|||.
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            9999999999999999999999999999999999999999999999999999999999999999999973
>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