Citrus Sinensis ID: 008301

Local Sequence Feature Prediction

Prediction and (Method)Result
Residue Number Marker
Protein Sequence ?
Secondary Structure (PSIPRED) ?
Secondary Structure Prediction (SSPRO) ?
Coil and Loop (DISEMBL) ?
Flexible Loop (DISEMBL) ?
Low Complexity Region (SEG) ?
Disordered region (IsUnstruct) ?
Disordered Region (DISOPRED) ?
Disordered Region (DISEMBL) ?
Disordered Region (DISPRO) ?
Transmembrane Helix (TMHMM) ?
Transmembrane Helix (HMMTOP) ?
Transmembrane Helix (MEMSAT) ?
TM Helix, Signal Peptide (MEMSAT_SVM) ?
TM Helix, Signal Peptide (Phobius) ?
Signal Peptide (SignalP HMM Mode) ?
Signal Peptide (SignalP NN Mode) ?
Coiled Coils (COILS) ?
Positional Conservation ?
 
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-------400-------410-------420-------430-------440-------450-------460-------470-------480-------490-------500-------510-------520-------530-------540-------550-------560-------570
MAAYACNNNQSNNLVVYPYNFVDFYPQNANFGVVTPQSLGVINPNLISPSQVLVPCNSPVFLVPSFNFPLNPSVLDQMDEERSLSLVQLMTNEGLVPSTEEEDKRRNVIQKLKEIVLAWVKRVAWQRRLPKEQIAETHATILTYGSYGLGVHGSESDIDALCLGPEFATMAEDFFVVLHNMLKSRPEVSEIHCVKDAKVPLMRFKFDGILIDLPYACLHVLSVPENVDVLNPFFLRDLDETSWKSLSGVRANKCILQLVPDLEKFQPVLRCIKLWAKRRGVYGNLHGFLGGVHLAILVAHVCQNHPKGSLNTLVANFFKTYAYWPWPTPVMLQDPMLPAAGYPSETRSLMPIRLPCSPHEYCHSNITRSTFYKIRTEFLRGHNTTRDLMRPDFDWHFLFEPFPYSKKYARFVRVYLSASNQDDLGDWVGWVKSRFRSLILKLEEVQGLCDPNPTEYIDVDVTEPHIVFYWGLQPGRTNLLDIVAVEKDFLKNIHNGFQGSPGRMGLLVVQASQLSKSSQLDFGSGRRTKACWKNLDYNLPRIPVYSQHLPNYIIGYVDAKADSKYPSAGG
ccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccHHHHccccEEEEEEcEEccccccccccEEEEEEcccccccHHHHHHHHHHHHHcccccccEEEEcccEEEEEEEEEcccccccccccccccccccccccccccccccccHHHHHHccHHHHHHHHHHHccccccHHHHHHHHHHHHHHcccccccccccHHHHHHHHHHHHHHccccccHHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHcccccccccccccccccccccHHHHHHEEEEEEEcccHHHHccHHHHHHHHHHHHHHHHHccccccccccccccccccccccEEEEEEEEcccccccccHHHHHHHHHHHHHccccccccccEEEEEcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
ccEEEEcccccccEEEEEcccccccccccccccccccccccccccccccccccccccccccEEcccccccccccccHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccHHHHHHcccEEEEEccEEcccccccccccEEEEccccccccHHHHHHHHHHHHccccHHccccccccEEEEEEEEEccEEEEEEEEEcccccccccccccccHHHHcccHHHHHHcccccHHHHHHHHcccHHHHHHHHHHHHHHHHHcccHHHHHccHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHcccccccEEEcccccccccccccccccccEEccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHccccHHHHHccccHHHHHHEEEEEEEEcccHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccEEEEEEEEEccccEEccHHHHHHHHHHHHHHcccccccEEEEEEEccccccccccccccccccccccccccccccccccccccccccEEEEcccccccccccccc
maayacnnnqsnnlvvypynfvdfypqnanfgvvtpqslgvinpnlispsqvlvpcnspvflvpsfnfplnpsvldqmdEERSLSLVQLMTneglvpsteeeDKRRNVIQKLKEIVLAWVKRVAWQRRLPKEQIAETHATILTygsyglgvhgsesdidalclgpefatmAEDFFVVLHNMlksrpevseihcvkdakvplmrfkfdgilidlpyaclhvlsvpenvdvlnpfflrdldetswkslsgvranKCILQLvpdlekfqPVLRCIKLWAKRRGVYGNLHGFLGGVHLAILVAHVcqnhpkgslnTLVANFFKtyaywpwptpvmlqdpmlpaagypsetrslmpirlpcspheychsnitrsTFYKIRTEFLrghnttrdlmrpdfdwhflfepfpyskkyARFVRVYLsasnqddlgdwVGWVKSRFRSLILKLEevqglcdpnpteyidvdvtephivfywglqpgrtnlLDIVAVEKDFLKNihngfqgspgrMGLLVVQAsqlskssqldfgsgrrtKACWKNldynlpripvysqhlpnyiigyvdakadskypsagg
maayacnnnqsnnLVVYPYNFVDFYPQNANFGVVTPQSLGVINPNLISPSQVLVPCNSPVFLVPSFNFPLNPSVLDQMDEERSLSLVQLMTneglvpsteeedkrrNVIQKLKEIVLAWVKRVAWQRRLPKEQIAETHATILTYGSYGLGVHGSESDIDALCLGPEFATMAEDFFVVLHNMLKSRPEVSEIHCVKDAKVPLMRFKFDGILIDLPYACLHVLSVPENVDVLNPFFLRDLDETSWKSLSGVRANKCILQlvpdlekfqPVLRCIKLWAKRRGVYGNLHGFLGGVHLAILVAHVCQNHPKGSLNTLVANFFKTYAYWPWPTPVMLQDPMLPAAGYPSETRSLMPIRLPCSPHEYCHSNITRSTFYKIRTEFLRGHNTTRDLMRPDFDWHFLFEPFPYSKKYARFVRVYLSasnqddlgdwVGWVKSRFRSLILKLeevqglcdpnPTEYIDVDVTEPHIVFYWGLQPGRTNLLDIVAVEKDFLKNIHNGFQGSPGRMGLLVVQASQLSkssqldfgsgrRTKACWKNLDYNLPRIPVYSQHLPNYIIGYVDAKADSKYPSAGG
MAAYACNNNQSNNLVVYPYNFVDFYPQNANFGVVTPQSLGVINPNLISPSQVLVPCNSPVFLVPSFNFPLNPSVLDQMDEERSLSLVQLMTNEGLVPSTEEEDKRRNVIQKLKEIVLAWVKRVAWQRRLPKEQIAETHATILTYGSYGLGVHGSESDIDALCLGPEFATMAEDFFVVLHNMLKSRPEVSEIHCVKDAKVPLMRFKFDGILIDLPYACLHVLSVPENVDVLNPFFLRDLDETSWKSLSGVRANKCILQLVPDLEKFQPVLRCIKLWAKRRGVYGNLHGFLGGVHLAILVAHVCQNHPKGSLNTLVANFFKTYAYWPWPTPVMLQDPMLPAAGYPSETRSLMPIRLPCSPHEYCHSNITRSTFYKIRTEFLRGHNTTRDLMRPDFDWHFLFEPFPYSKKYARFVRVYLSASNQDDLGDWVGWVKSRFRSLILKLEEVQGLCDPNPTEYIDVDVTEPHIVFYWGLQPGRTNLLDIVAVEKDFLKNIHNGFQGSPGRMGLLVVQASQLSKSSQLDFGSGRRTKACWKNLDYNLPRIPVYSQHLPNYIIGYVDAKADSKYPSAGG
*********QSNNLVVYPYNFVDFYPQNANFGVVTPQSLGVINPNLISPSQVLVPCNSPVFLVPSFNFPLNPSVL*******************************NVIQKLKEIVLAWVKRVAWQRRLPKEQIAETHATILTYGSYGLGVHGSESDIDALCLGPEFATMAEDFFVVLHNMLKSRPEVSEIHCVKDAKVPLMRFKFDGILIDLPYACLHVLSVPENVDVLNPFFLRDLDETSWKSLSGVRANKCILQLVPDLEKFQPVLRCIKLWAKRRGVYGNLHGFLGGVHLAILVAHVCQNHPKGSLNTLVANFFKTYAYWPWPTPVMLQDPMLPAAGYPSETRSLMPIRLPCSPHEYCHSNITRSTFYKIRTEFLRGHNTTRDLMRPDFDWHFLFEPFPYSKKYARFVRVYLSASNQDDLGDWVGWVKSRFRSLILKLEEVQGLCDPNPTEYIDVDVTEPHIVFYWGLQPGRTNLLDIVAVEKDFLKNIHNGFQGSPGRMGLLVVQA**********FGSGRRTKACWKNLDYNLPRIPVYSQHLPNYIIGYVDA***********
*********************VDFYPQ****************************************************EERSLSLVQLMTNEGLVPSTEEEDKRRNVIQKLKEIVLAWVKRVAWQRRLPKEQIAETHATILTYGSYGLGVHGSESDIDALCLGPEFATMAEDFFVVLHNMLKSRPEVSEIHCVKDAKVPLMRFKFDGILIDLPYACLHVLSVPENVDVLNPFFLRDLDETSWKSLSGVRANKCILQLVPDLEKFQPVLRCIKLWAKRRGVYGNLHGFLGGVHLAILVAHVCQNHPKGSLNTLVANFFKTYAYWPWPTPVMLQDPMLPAAGYPSETRSLMPIRLPCSPHEYCHSNITRSTFYKIRTEFLRGHNTTRDLMRPDFDWHFLFEPFPYSKKYARFVRVYLSASNQDDLGDWVGWVKSRFRSLILKLEEVQGLCDPNPTEYIDVDVTEPHIVFYWGLQPGRTNLLDIVAVEKDFLKNIHNGFQGSPGRMGLLVVQASQLS********************************HLPNYIIGYVDAK**********
MAAYACNNNQSNNLVVYPYNFVDFYPQNANFGVVTPQSLGVINPNLISPSQVLVPCNSPVFLVPSFNFPLNPSVLDQMDEERSLSLVQLMTNEGLV********RRNVIQKLKEIVLAWVKRVAWQRRLPKEQIAETHATILTYGSYGLGVHGSESDIDALCLGPEFATMAEDFFVVLHNMLKSRPEVSEIHCVKDAKVPLMRFKFDGILIDLPYACLHVLSVPENVDVLNPFFLRDLDETSWKSLSGVRANKCILQLVPDLEKFQPVLRCIKLWAKRRGVYGNLHGFLGGVHLAILVAHVCQNHPKGSLNTLVANFFKTYAYWPWPTPVMLQDPMLPAAGYPSETRSLMPIRLPCSPHEYCHSNITRSTFYKIRTEFLRGHNTTRDLMRPDFDWHFLFEPFPYSKKYARFVRVYLSASNQDDLGDWVGWVKSRFRSLILKLEEVQGLCDPNPTEYIDVDVTEPHIVFYWGLQPGRTNLLDIVAVEKDFLKNIHNGFQGSPGRMGLLVVQASQLSKSSQLDFGSGRRTKACWKNLDYNLPRIPVYSQHLPNYIIGYVDAKADSKYPSAGG
*AAYACNNNQSNNLVVYPYNFVDFYPQNANFGVVTPQSLGVINPNLI***********PVFLVPSFNFPLNPSVLDQMDEERSLSLVQLMTNEGLVPSTEEEDKRRNVIQKLKEIVLAWVKRVAWQRRLPKEQIAETHATILTYGSYGLGVHGSESDIDALCLGPEFATMAEDFFVVLHNMLKSRPEVSEIHCVKDAKVPLMRFKFDGILIDLPYACLHVLSVPENVDVLNPFFLRDLDETSWKSLSGVRANKCILQLVPDLEKFQPVLRCIKLWAKRRGVYGNLHGFLGGVHLAILVAHVCQNHPKGSLNTLVANFFKTYAYWPWPTPVMLQDPMLPAAGYPSETRSLMPIRLPCSPHEYCHSNITRSTFYKIRTEFLRGHNTTRDLMRPDFDWHFLFEPFPYSKKYARFVRVYLSASNQDDLGDWVGWVKSRFRSLILKLEEVQGLCDPNPTEYIDVDVTEPHIVFYWGLQPGRTNLLDIVAVEKDFLKNIHNGFQGSPGRMGLLVVQASQLSKSSQLDF****RTKACWKNLDYNLPRIPVYSQHLPNYIIGYVDAK**********
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MAAYACNNNQSNNLVVYPYNFVDFYPQNANFGVVTPQSLGVINPNLISPSQVLVPCNSPVFLVPSFNFPLNPSVLDQMDEERSLSLVQLMTNEGLVPSTEEEDKRRNVIQKLKEIVLAWVKRVAWQRRLPKEQIAETHATILTYGSYGLGVHGSESDIDALCLGPEFATMAEDFFVVLHNMLKSRPEVSEIHCVKDAKVPLMRFKFDGILIDLPYACLHVLSVPENVDVLNPFFLRDLDETSWKSLSGVRANKCILQLVPDLEKFQPVLRCIKLWAKRRGVYGNLHGFLGGVHLAILVAHVCQNHPKGSLNTLVANFFKTYAYWPWPTPVMLQDPMLPAAGYPSETRSLMPIRLPCSPHEYCHSNITRSTFYKIRTEFLRGHNTTRDLMRPDFDWHFLFEPFPYSKKYARFVRVYLSASNQDDLGDWVGWVKSRFRSLILKLEEVQGLCDPNPTEYIDVDVTEPHIVFYWGLQPGRTNLLDIVAVEKDFLKNIHNGFQGSPGRMGLLVVQASQLSKSSQLDFGSGRRTKACWKNLDYNLPRIPVYSQHLPNYIIGYVDAKADSKYPSAGG
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 ?
Query570 2.2.26 [Sep-21-2011]
Q54J73 809 Poly(A) polymerase OS=Dic yes no 0.659 0.464 0.388 1e-74
Q6PCL9 739 Poly(A) polymerase gamma yes no 0.678 0.523 0.366 2e-67
Q9BWT3 736 Poly(A) polymerase gamma yes no 0.678 0.525 0.369 2e-67
O42617558 Poly(A) polymerase PAPalp N/A no 0.694 0.709 0.341 2e-63
Q9WVP6 641 Poly(A) polymerase beta O no no 0.678 0.603 0.354 3e-63
Q9NRJ5 636 Poly(A) polymerase beta O no no 0.678 0.608 0.354 1e-62
P25500 739 Poly(A) polymerase alpha no no 0.649 0.500 0.362 7e-62
Q61183 739 Poly(A) polymerase alpha no no 0.649 0.500 0.359 9e-62
P51003 745 Poly(A) polymerase alpha no no 0.649 0.496 0.359 9e-62
Q10295566 Poly(A) polymerase pla1 O yes no 0.666 0.671 0.337 4e-61
>sp|Q54J73|PAP_DICDI Poly(A) polymerase OS=Dictyostelium discoideum GN=papA PE=3 SV=1 Back     alignment and function desciption
 Score =  281 bits (719), Expect = 1e-74,   Method: Compositional matrix adjust.
 Identities = 149/384 (38%), Positives = 226/384 (58%), Gaps = 8/384 (2%)

Query: 69  PLNPSVLDQMDEERSLSLVQLMTNEGLVPSTEEEDKRRNVIQKLKEIVLAWVKRVAWQRR 128
           P++ +    +D + S  L   + +  L  S EE  KR  ++ KL +IV  W K+V+ ++ 
Sbjct: 58  PISTAPPSSIDFKLSTELENTLISFNLFESPEESRKREEILGKLNQIVREWAKQVSLKKG 117

Query: 129 LPKEQIAETHATILTYGSYGLGVHGSESDIDALCLGPEFATMAEDFFVVLHNMLKSRPEV 188
            P++  +E  A I T+GSY LGVHG  SDID LC+GP+   M  DFF  L ++LK  PE+
Sbjct: 118 YPEQTASEVVAKIFTFGSYRLGVHGPGSDIDTLCVGPKHI-MRSDFFDDLSDILKVHPEI 176

Query: 189 SEIHCVKDAKVPLMRFKFDGILIDLPYACLHVLSVPENV-DVLNPFFLRDLDETSWKSLS 247
           +E   VKDA VP++   F GI IDL YA L + ++PE + D+++  FL+++DE S  SL+
Sbjct: 177 TEFTTVKDAFVPVITMVFSGIPIDLIYAKLALTAIPEELNDLIDESFLKNIDEKSILSLN 236

Query: 248 GVRANKCILQLVPDLEKFQPVLRCIKLWAKRRGVYGNLHGFLGGVHLAILVAHVCQNHPK 307
           G R    IL+LVP++  F+  LRCIKLWA RRG+Y N+ GFLGGV  A+L A +CQ +P 
Sbjct: 237 GCRVTDQILKLVPNIPNFRMALRCIKLWAIRRGIYSNILGFLGGVSWALLTARICQLYPN 296

Query: 308 GSLNTLVANFFKTYAYWPWPTPVML---QDPML--PAAGYPSETRS-LMPIRLPCSPHEY 361
            + +T++  FFK Y  W WP P++L   Q+  +  P    P   ++ LMPI  P  P   
Sbjct: 297 SAPSTIIHRFFKVYEIWKWPAPILLCHIQEGGILGPKVWNPKRDKAHLMPIITPAYPSMN 356

Query: 362 CHSNITRSTFYKIRTEFLRGHNTTRDLMRPDFDWHFLFEPFPYSKKYARFVRVYLSASNQ 421
              N+++ST   +++EF+RG   TR +   +  W  L E   +  +Y+ ++ +   + N+
Sbjct: 357 STYNVSKSTLQLMKSEFVRGAEITRKIETGECTWKNLLEKCDFFTRYSFYIEIDCYSMNE 416

Query: 422 DDLGDWVGWVKSRFRSLILKLEEV 445
           +D   W GW++S+ R LI  LE  
Sbjct: 417 EDSRKWEGWIESKLRFLISNLEST 440
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|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|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
>sp|Q9WVP6|PAPOB_MOUSE Poly(A) polymerase beta OS=Mus musculus GN=Papolb 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|P25500|PAPOA_BOVIN Poly(A) polymerase alpha OS=Bos taurus GN=PAPOLA PE=1 SV=3 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|Q10295|PAP_SCHPO Poly(A) polymerase pla1 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=pla1 PE=2 SV=1 Back     alignment and function description

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

Original result of BLAST against Nonredundant Database

GI ?Alignment Graph ?Length ? Definition ? Q cover ? H cover ? Identity ? E-value ?
Query570
147856999604 hypothetical protein VITISV_014509 [Viti 0.928 0.875 0.671 0.0
225432026563 PREDICTED: poly(A) polymerase [Vitis vin 0.928 0.939 0.671 0.0
255556450492 poly(A) polymerase, putative [Ricinus co 0.863 1.0 0.683 0.0
224099105483 predicted protein [Populus trichocarpa] 0.843 0.995 0.666 0.0
145338191507 poly(A) polymerase 3 [Arabidopsis thalia 0.842 0.946 0.629 0.0
297829196507 polynucleotide adenylyltransferase [Arab 0.835 0.938 0.635 0.0
32527644483 poly(A) polymerase [Arabidopsis thaliana 0.822 0.971 0.631 1e-178
12322673482 poly(A) polymerase, putative; 41591-3933 0.821 0.970 0.627 1e-175
294460282554 unknown [Picea sitchensis] 0.935 0.962 0.430 1e-124
414888171545 TPA: hypothetical protein ZEAMMB73_87339 0.743 0.777 0.494 1e-120
>gi|147856999|emb|CAN79659.1| hypothetical protein VITISV_014509 [Vitis vinifera] Back     alignment and taxonomy information
 Score =  746 bits (1925), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 361/538 (67%), Positives = 435/538 (80%), Gaps = 9/538 (1%)

Query: 28  NANFGVVTPQSLGVINPNLISPSQVLVPCNSPVFLVPSFNFPLNPSVLDQMDEERSLSLV 87
           NA  G V P+ +GVINP+        VP   P  L P   F LNP+VL +M+  RS+SL+
Sbjct: 69  NAPVGFV-PRPVGVINPSFGP-----VPPFDPASL-PQPGFVLNPAVLVRMEHRRSISLL 121

Query: 88  QLMTNEGLVPSTEEEDKRRNVIQKLKEIVLAWVKRVAWQRRLPKEQIAETHATILTYGSY 147
           Q M+NEGL+PS EEE KR+NVI+KLKEIVL WVKRVAWQR+ PK+QIA T ATILTYGSY
Sbjct: 122 QFMSNEGLIPSPEEELKRKNVIEKLKEIVLTWVKRVAWQRQRPKQQIAVTSATILTYGSY 181

Query: 148 GLGVHGSESDIDALCLGPEFATMAEDFFVVLHNMLKSRPEVSEIHCVKDAKVPLMRFKFD 207
           GLGVHG ESDIDALC+GP FA+MA+DFF+VL NML+SRPEVSEIHCVKDAKVPLMRFKFD
Sbjct: 182 GLGVHGPESDIDALCVGPFFASMADDFFIVLRNMLESRPEVSEIHCVKDAKVPLMRFKFD 241

Query: 208 GILIDLPYACLHVLSVPENVDVLNPFFLRDLDETSWKSLSGVRANKCILQLVPDLEKFQP 267
           GI +DLPYA L +L VPEN++VLNP+FLR++DETSWKSLSGVRAN+CILQLVP++E FQ 
Sbjct: 242 GISVDLPYAQLKLLYVPENLNVLNPYFLRNIDETSWKSLSGVRANECILQLVPNVENFQS 301

Query: 268 VLRCIKLWAKRRGVYGNLHGFLGGVHLAILVAHVCQNHPKGSLNTLVANFFKTYAYWPWP 327
           +LRCIKLWAKRRGVYGNL G+ GGVHLAIL A VCQ +P  +LN L+++FFKT++ WPWP
Sbjct: 302 ILRCIKLWAKRRGVYGNLFGYFGGVHLAILAAFVCQKNPHANLNVLMSSFFKTFSGWPWP 361

Query: 328 TPVMLQDPMLPAAGYPSETRSLMPIRLPCSPHEYCHSNITRSTFYKIRTEFLRGHNTTRD 387
           TPV L+D  LP  G   ETR+LMPI+LPCSP+ YCHSNIT+STFY+I TE   GH  TRD
Sbjct: 362 TPVALEDGRLPTGGT-RETRALMPIQLPCSPYGYCHSNITKSTFYRITTELTLGHALTRD 420

Query: 388 LMRPDFDWHFLFEPFPYSKKYARFVRVYLSASNQDDLGDWVGWVKSRFRSLILKLEEVQG 447
           L+R DFDW+ +FEPF YSKKY+RF+++YLS+SNQD+LGDWVGWVKSRFR L+ K+EEVQG
Sbjct: 421 LLRLDFDWNDIFEPFCYSKKYSRFIKIYLSSSNQDELGDWVGWVKSRFRFLLAKVEEVQG 480

Query: 448 LCDPNPTEYIDVDVTEPHIVFYWGLQPGRTNLLDIVAVEKDFLKNIHN-GFQGSPGRMGL 506
           LCDPNPTE+ID D  EP++VF+WG+QPGR N  DI  VE DF++NI+N G+QG PG+M L
Sbjct: 481 LCDPNPTEFIDPDAGEPNVVFFWGVQPGRINFSDIDVVEDDFMQNINNGGYQGPPGKMNL 540

Query: 507 LVVQASQLSKSSQLDFGSGRRTKACWKNLDYNLPRIPVYSQHLPNYIIGYVDAKADSK 564
            V+  SQL   + LD GS  RTKACW+  +Y+ PR+PV+SQHLP Y +GY     D+K
Sbjct: 541 SVIPTSQLPGYAXLDTGSRNRTKACWRMFNYHQPRVPVFSQHLPLYFVGYAATDKDAK 598

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|225432026|ref|XP_002279844.1| PREDICTED: poly(A) polymerase [Vitis vinifera] gi|296083219|emb|CBI22855.3| unnamed protein product [Vitis vinifera] Back     alignment and taxonomy information
>gi|255556450|ref|XP_002519259.1| poly(A) polymerase, putative [Ricinus communis] gi|223541574|gb|EEF43123.1| poly(A) polymerase, putative [Ricinus communis] Back     alignment and taxonomy information
>gi|224099105|ref|XP_002311376.1| predicted protein [Populus trichocarpa] gi|222851196|gb|EEE88743.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
>gi|145338191|ref|NP_187308.3| poly(A) polymerase 3 [Arabidopsis thaliana] gi|62320636|dbj|BAD95301.1| poly(A) polymerase [Arabidopsis thaliana] gi|332640894|gb|AEE74415.1| poly(A) polymerase 3 [Arabidopsis thaliana] Back     alignment and taxonomy information
>gi|297829196|ref|XP_002882480.1| polynucleotide adenylyltransferase [Arabidopsis lyrata subsp. lyrata] gi|297328320|gb|EFH58739.1| polynucleotide adenylyltransferase [Arabidopsis lyrata subsp. lyrata] Back     alignment and taxonomy information
>gi|32527644|gb|AAP86215.1| poly(A) polymerase [Arabidopsis thaliana] Back     alignment and taxonomy information
>gi|12322673|gb|AAG51325.1|AC020580_5 poly(A) polymerase, putative; 41591-39333 [Arabidopsis thaliana] Back     alignment and taxonomy information
>gi|294460282|gb|ADE75723.1| unknown [Picea sitchensis] Back     alignment and taxonomy information
>gi|414888171|tpg|DAA64185.1| TPA: hypothetical protein ZEAMMB73_873393 [Zea mays] 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 ?
Query570
TAIR|locus:2084274507 PAPS3 "poly(A) polymerase 3" [ 0.840 0.944 0.630 3.1e-170
TAIR|locus:2134113 765 nPAP "nuclear poly(a) polymera 0.735 0.547 0.398 7.4e-82
TAIR|locus:2043560 800 PAPS2 "poly(A) polymerase 2" [ 0.710 0.506 0.396 2.6e-79
TAIR|locus:2030943 713 PAPS1 "poly(A) polymerase 1" [ 0.707 0.565 0.389 1.9e-76
DICTYBASE|DDB_G0288259 809 papA "poly(A) polymerase" [Dic 0.656 0.462 0.390 1.6e-70
UNIPROTKB|J9NS30 813 PAPOLG "Uncharacterized protei 0.678 0.476 0.369 3.7e-66
ZFIN|ZDB-GENE-040426-1256 744 papolg "poly(A) polymerase gam 0.664 0.509 0.379 4.1e-65
UNIPROTKB|A5D7N5 740 PAPOLG "Uncharacterized protei 0.678 0.522 0.371 7.6e-64
UNIPROTKB|F1SQL7 741 PAPOLG "Uncharacterized protei 0.678 0.522 0.369 1.6e-63
RGD|1310337 739 Papolg "poly(A) polymerase gam 0.678 0.523 0.369 2.6e-63
TAIR|locus:2084274 PAPS3 "poly(A) polymerase 3" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 1655 (587.6 bits), Expect = 3.1e-170, P = 3.1e-170
 Identities = 311/493 (63%), Positives = 387/493 (78%)

Query:    79 DEERSLSLVQLMTNEGLVPSTEEEDKRRNVIQKLKEIVLAWVKRVAWQRRLPKEQIAETH 138
             D+E S+SL QLM NEGL+PS E+E KRR VI +L++IV+ WVK VAWQ RLP+ QI  T+
Sbjct:    14 DDESSISLRQLMVNEGLIPSLEDEVKRRGVINQLRKIVVRWVKNVAWQHRLPQNQIDATN 73

Query:   139 ATILTYGSYGLGVHGSESDIDALCLGPEFATMAEDFFVVLHNMLKSRPEVSEIHCVKDAK 198
             ATIL YGSYGLGV+GSESDIDALC+GP FA++AEDFF+ L +MLKSR EVSE+HCVKDAK
Sbjct:    74 ATILPYGSYGLGVYGSESDIDALCIGPFFASIAEDFFISLRDMLKSRREVSELHCVKDAK 133

Query:   199 VPLMRFKFDGILIDLPYACLHVLSVPENVDVLNPFFLRDLDETSWKSLSGVRANKCILQL 258
             VPL+RFKFDGIL+DLPYA L VLS+P NVDVLNPFFLRD+DETSWK LSGVRANKCILQL
Sbjct:   134 VPLIRFKFDGILVDLPYAQLRVLSIPNNVDVLNPFFLRDIDETSWKILSGVRANKCILQL 193

Query:   259 VPDLEKFQPVLRCIKLWAKRRGVYGNLHGFLGGVHLAILVAHVCQNHPKGSLNTLVANFF 318
             VP LE FQ +LRC+KLWAKRRGVYGNL+GFLGGVH+AIL A VC   P  +L++L+ANFF
Sbjct:   194 VPSLELFQSLLRCVKLWAKRRGVYGNLNGFLGGVHMAILAAFVCGYQPNATLSSLLANFF 253

Query:   319 KTYAYWPWPTPVMLQDPMLPAAGYPSETRSLMPIRLPCSPHEYCHSNITRSTFYKIRTEF 378
              T+A+W WPTPV+L +   P+ G P     LMPI+LPC  H+YC+S ITRSTFYKI  EF
Sbjct:   254 YTFAHWQWPTPVVLLEDTYPSTGAPP---GLMPIQLPCGSHQYCNSTITRSTFYKIVAEF 310

Query:   379 LRGHNTTRDLMRPDFDWHFLFEPFPYSKKYARFVRVYLSASNQDDLGDWVGWVKSRFRSL 438
             L GHN T+D ++ +F W  LFE +PY+  Y  F +++LSA+NQ+DL DWVGWVKSRFR L
Sbjct:   311 LLGHNLTKDYLKLNFSWKDLFELYPYANTYTWFTKIHLSAANQEDLSDWVGWVKSRFRCL 370

Query:   439 ILKLEEVQGLCDPNPTEYIDVDVTEPHIVFYWGLQPGRTNLLDIVAVEKDFLKNIHNG-F 497
             ++K+EEV G+CDPNPTEY++    +P+IVFYWGLQ    N+ DI +V+ DFLKN+++G F
Sbjct:   371 LIKIEEVYGICDPNPTEYVETYTKQPNIVFYWGLQLRTINVSDIESVKIDFLKNVNSGSF 430

Query:   498 QGSPGRMGLLVVQASQLSKSSQLDFGSGRR----TKACWK-NLDYNLPRIPVYSQHLPNY 552
             +G+ GR+ L +V+ASQL K+ +   GS  R    TK CW+   D     +PVYS+HLP Y
Sbjct:   431 RGTVGRIQLTLVKASQLPKNGEC--GSNNRSKKVTKTCWRIREDKQCNNVPVYSKHLPGY 488

Query:   553 IIGY---VDAKAD 562
             ++GY   V+ +AD
Sbjct:   489 VVGYQKMVNREAD 501
GO:0003723 "RNA binding" evidence=IEA
GO:0004652 "polynucleotide adenylyltransferase activity" evidence=IEA;ISS
GO:0005634 "nucleus" evidence=IEA
GO:0006351 "transcription, DNA-dependent" evidence=IEA;ISS
GO:0016779 "nucleotidyltransferase activity" evidence=IEA
GO:0031123 "RNA 3'-end processing" evidence=IEA
GO:0043631 "RNA polyadenylation" evidence=IEA
GO:0005515 "protein binding" evidence=IPI
GO:0005737 "cytoplasm" evidence=IDA
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: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|J9NS30 PAPOLG "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)] 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
UNIPROTKB|A5D7N5 PAPOLG "Uncharacterized protein" [Bos taurus (taxid:9913)] 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

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

Fail to connect to STRING server

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST ?

Original result of RPS-BLAST against CDD database part I

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query570
pfam04928349 pfam04928, PAP_central, Poly(A) polymerase central 1e-145
PTZ00418593 PTZ00418, PTZ00418, Poly(A) polymerase; Provisiona 2e-91
COG5186552 COG5186, PAP1, Poly(A) polymerase [RNA processing 4e-91
cd05402114 cd05402, NT_PAP_TUTase, Nucleotidyltransferase (NT 2e-22
pfam04926141 pfam04926, PAP_RNA-bind, Poly(A) polymerase predic 3e-19
pfam0190992 pfam01909, NTP_transf_2, Nucleotidyltransferase do 7e-06
>gnl|CDD|203124 pfam04928, PAP_central, Poly(A) polymerase central domain Back     alignment and domain information 
 Score =  421 bits (1084), Expect = e-145
 Identities = 153/334 (45%), Positives = 206/334 (61%), Gaps = 9/334 (2%)

Query: 77  QMDEERSLSLVQLMTNEGLVPSTEEEDKRRNVIQKLKEIVLAWVKRVAWQRRLPKEQIAE 136
             D E + SL++ +  EGL  S EE  KR  V++KL ++V  WVK+V+ Q+ +P+     
Sbjct: 17  PADLELTDSLIEFLKEEGLFESEEESKKREEVLEKLNKLVKEWVKKVSEQKGMPERAAEA 76

Query: 137 THATILTYGSYGLGVHGSESDIDALCLGPEFATMAEDFFVVLHNMLKSRPEVSEIHCVKD 196
               I T+GSY LGVHG  SDID LC+ P+  T  EDFF   + +LK RPEV+E+  V+D
Sbjct: 77  AGGKIFTFGSYRLGVHGPGSDIDTLCVAPKHVTR-EDFFSSFYEILKLRPEVTELVPVED 135

Query: 197 AKVPLMRFKFDGILIDLPYACLHVLSVPENVDVLNPFFLRDLDETSWKSLSGVRANKCIL 256
           A VP+++FKFDGI IDL +A L +  VP+++D+L+   LR+LDE S +SL+G R    IL
Sbjct: 136 AFVPIIKFKFDGIEIDLLFASLALPRVPDDLDLLDDSLLRNLDEKSVRSLNGCRVTDEIL 195

Query: 257 QLVPDLEKFQPVLRCIKLWAKRRGVYGNLHGFLGGVHLAILVAHVCQNHPKGSLNTLVAN 316
           +LVP+ + F+  LR IKLWAKRRG+Y N+ GFLGGV  AILVA VCQ +P  S +TLV  
Sbjct: 196 RLVPNKDVFRTALRAIKLWAKRRGIYSNVLGFLGGVAWAILVARVCQLYPNASPSTLVRK 255

Query: 317 FFKTYAYWPWPTPVMLQ----DPMLPAAG----YPSETRSLMPIRLPCSPHEYCHSNITR 368
           FF+ ++ W WP PV+L+     P+         YPS+   LMPI  P  P      N+TR
Sbjct: 256 FFRIFSQWQWPNPVLLKPIEEGPLNFRVWDPRLYPSDRYHLMPIITPAYPSMNSTHNVTR 315

Query: 369 STFYKIRTEFLRGHNTTRDLMRPDFDWHFLFEPF 402
           ST   I  EF RG   T +++     W  LFEP 
Sbjct: 316 STLKVITEEFKRGLEITSEILLGKAPWSDLFEPH 349

The central domain of Poly(A) polymerase shares structural similarity with the allosteric activity domain of ribonucleotide reductase R1, which comprises a four-helix bundle and a three-stranded mixed beta- sheet. Even though the two enzymes bind ATP, the ATP-recognition motifs are different. Length = 349
>gnl|CDD|240410 PTZ00418, PTZ00418, Poly(A) polymerase; Provisional Back     alignment and domain information
>gnl|CDD|227513 COG5186, PAP1, Poly(A) polymerase [RNA processing and modification] Back     alignment and domain information
>gnl|CDD|143392 cd05402, NT_PAP_TUTase, Nucleotidyltransferase (NT) domain of poly(A) polymerases and terminal uridylyl transferases Back     alignment and domain information
>gnl|CDD|218331 pfam04926, PAP_RNA-bind, Poly(A) polymerase predicted RNA binding domain Back     alignment and domain information
>gnl|CDD|216779 pfam01909, NTP_transf_2, Nucleotidyltransferase 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 570
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
COG5260482 TRF4 DNA polymerase sigma [DNA replication, recomb 100.0
KOG1906514 consensus DNA polymerase sigma [Replication, recom 99.97
PF04926157 PAP_RNA-bind: Poly(A) polymerase predicted RNA bin 99.94
cd05402114 NT_PAP_TUTase Nucleotidyltransferase (NT) domain o 99.81
KOG2277596 consensus S-M checkpoint control protein CID1 and 99.76
PRK13300447 tRNA CCA-pyrophosphorylase; Provisional 99.57
TIGR03671408 cca_archaeal CCA-adding enzyme. 99.57
PF03813 972 Nrap: Nrap protein; InterPro: IPR005554 Members of 99.17
COG1746443 CCA1 tRNA nucleotidyltransferase (CCA-adding enzym 99.16
KOG2054 1121 consensus Nucleolar RNA-associated protein (NRAP) 98.38
smart00572246 DZF domain in DSRM or ZnF_C2H2 domain containing p 98.28
cd05400143 NT_2-5OAS_ClassI-CCAase Nucleotidyltransferase (NT 97.78
cd0539749 NT_Pol-beta-like Nucleotidyltransferase (NT) domai 97.75
PF0382860 PAP_assoc: Cid1 family poly A polymerase; InterPro 97.64
PF0190993 NTP_transf_2: Nucleotidyltransferase domain A subs 97.63
PF09249114 tRNA_NucTransf2: tRNA nucleotidyltransferase, seco 97.44
cd0540393 NT_KNTase_like Nucleotidyltransferase (NT) domain 97.12
PF03813972 Nrap: Nrap protein; InterPro: IPR005554 Members of 97.04
PF07528248 DZF: DZF domain; InterPro: IPR006561 This domain i 96.27
COG166997 Predicted nucleotidyltransferases [General functio 96.27
PF14091152 DUF4269: Domain of unknown function (DUF4269) 95.69
COG1708128 Predicted nucleotidyltransferases [General functio 95.38
PRK13746262 aminoglycoside resistance protein; Provisional 94.94
PF10421190 OAS1_C: 2'-5'-oligoadenylate synthetase 1, domain 92.62
PRK02098221 phosphoribosyl-dephospho-CoA transferase; Provisio 92.26
TIGR03135202 malonate_mdcG holo-ACP synthase, malonate decarbox 91.54
cd00141307 NT_POLXc Nucleotidyltransferase (NT) domain of fam 90.86
cd05401172 NT_GlnE_GlnD_like Nucleotidyltransferase (NT) doma 87.73
PF14792112 DNA_pol_B_palm: DNA polymerase beta palm ; PDB: 1R 87.27
COG1665315 Predicted nucleotidyltransferase [General function 86.5
KOG20541121 consensus Nucleolar RNA-associated protein (NRAP) 84.9
KOG3793362 consensus Transcription factor NFAT, subunit NF45 84.57
COG2844 867 GlnD UTP:GlnB (protein PII) uridylyltransferase [P 83.58
PF03445138 DUF294: Putative nucleotidyltransferase DUF294; In 82.08
>KOG2245 consensus Poly(A) polymerase and related nucleotidyltransferases [RNA processing and modification] Back     alignment and domain information 
Probab=100.00  E-value=4e-129  Score=1025.92  Aligned_cols=491  Identities=38%  Similarity=0.663  Sum_probs=443.1

Q ss_pred             CCCCCccccCCCCCCCCCCCCChHHHHhhHHHHHHHHhCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCCchhh
Q 008301           55 PCNSPVFLVPSFNFPLNPSVLDQMDEERSLSLVQLMTNEGLVPSTEEEDKRRNVIQKLKEIVLAWVKRVAWQRRLPKEQI  134 (570)
Q Consensus        55 ~~~~p~l~v~~p~~~l~~e~~~~~d~~~s~~L~~~L~~~~~~ps~eE~~~R~~vl~~L~~iv~~w~~~v~~~~~~~~~~~  134 (570)
                      .+.++.+||++|++..+   |++.|+++|.+|+++|+++|+||++||..+|++||++|+++|++|++++++++|++++++
T Consensus         9 ~~~~~~~Gvt~PiS~a~---p~~~d~~lt~~L~~~L~~~g~fEs~eEt~~R~~VL~~L~~iVk~wVk~vs~~k~~p~~~~   85 (562)
T KOG2245|consen    9 SPSTKSYGVTQPISTAG---PTEADIALTQELIKTLKNEGLFESKEETQRREEVLGKLNQIVKEWVKKVSEQKGLPDGMI   85 (562)
T ss_pred             CCccccccccCCcccCC---CcHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCChhhh
Confidence            35679999999976666   559999999999999999999999999999999999999999999999999999999999


Q ss_pred             ccCCeEEEEecccccCCCCCCCceeEEeecCCCccchHHHHHHHHHHHhcCCCcceEEEeccCccceEEEEECCeeeccc
Q 008301          135 AETHATILTYGSYGLGVHGSESDIDALCLGPEFATMAEDFFVVLHNMLKSRPEVSEIHCVKDAKVPLMRFKFDGILIDLP  214 (570)
Q Consensus       135 ~~~~~~I~~FGSy~lGv~~p~SDID~l~v~p~~~~~~~~ff~~l~~~L~~~~~v~~l~~I~~A~VPIIKf~~~GI~vDLs  214 (570)
                      .+++|+|+||||||||||+||||||++||+|+|++ |+|||..|.++|+++++|+++++|++|+||||||+++||+|||.
T Consensus        86 ~~aggkIftfGSYRLGVhg~GADIDtLcV~Prhv~-R~DFF~sf~~mL~~~~eVteL~~V~dAfVPiikfKf~GI~IDll  164 (562)
T KOG2245|consen   86 ENAGGKIFTFGSYRLGVHGPGADIDTLCVGPRHVS-RSDFFTSFYDMLKERPEVTELHAVEDAFVPIIKFKFDGIEIDLL  164 (562)
T ss_pred             hhcCceEEeccceeecccCCCCCcceeeecccccc-HHHHHHHHHHHHhcCccccccccccccccceEEEEecCeeeeee
Confidence            99999999999999999999999999999999999 57999999999999999999999999999999999999999999


Q ss_pred             cccccccCCCccccCCCchhccccchhhhhccchhhhHHHHHHhcCCccchhHHHHHHHHHHHHhCcCCCCCCcccHHHH
Q 008301          215 YACLHVLSVPENVDVLNPFFLRDLDETSWKSLSGVRANKCILQLVPDLEKFQPVLRCIKLWAKRRGVYGNLHGFLGGVHL  294 (570)
Q Consensus       215 f~~l~~~~ip~~l~~~~~~lL~~ld~~s~rSLnG~Rv~~~Il~lvp~~~~Fr~llr~IK~WAk~RgIys~~~G~Lgg~s~  294 (570)
                      ||++++..+|+++|+.|+++|+++||+|+||||||||||+|++|||+.+.||.+|||||+|||+||||+|.+|||||++|
T Consensus       165 fArL~l~~VP~dldl~ddslLknlDe~~vrSLNGcRVtdqiL~LVPn~~~F~~tLRaiKlWAKrrgVYsN~~GF~GGV~w  244 (562)
T KOG2245|consen  165 FARLALPVVPEDLDLSDDSLLKNLDERCVRSLNGCRVTDQILKLVPNQENFRITLRAIKLWAKRRGVYSNVMGFLGGVAW  244 (562)
T ss_pred             ehhcccccCCCcccccchHhhhcccHHHHHHhcCcCHHHHHHHhCCCHHHHHHHHHHHHHHHHhcccccccccccchHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhhCCCCCHHHHHHHHHHHhhcCCCCCceeecCC---C--CCCCC----CCCCCCCcceeeCCCCCCCcccCc
Q 008301          295 AILVAHVCQNHPKGSLNTLVANFFKTYAYWPWPTPVMLQDP---M--LPAAG----YPSETRSLMPIRLPCSPHEYCHSN  365 (570)
Q Consensus       295 aiLva~vcQl~Pn~sl~~LL~~FF~~Ys~wdW~~pV~l~~g---~--~~~~~----~~~~~~~~MpIitP~~P~~N~a~n  365 (570)
                      ||||||+||+||||+++.|+.+||.+|++|+||+||+|++.   .  .+.|+    ++|+ +|+|||||||||+||+|||
T Consensus       245 A~LVARiCQLYPNA~~s~Lv~kfF~ifs~W~WP~PVlL~~ie~~~L~~~VWdPr~n~~Dr-yHlMPIITPAyP~~nsthN  323 (562)
T KOG2245|consen  245 AMLVARICQLYPNASPSTLVAKFFRVFSQWNWPNPVLLKPIEEGNLNLPVWDPRVNPSDR-YHLMPIITPAYPQMNSTHN  323 (562)
T ss_pred             HHHHHHHHccCCCcchHHHHHHHHHHHhhccCCCceEeccccccccCccccCCCCCCCCc-ceecccccCCccccccccc
Confidence            99999999999999999999999999999999999999764   2  24455    3455 5999999999999999999


Q ss_pred             cChhhHHHHHHHHHHHHHHHHhhhCCCCChhhccCCCCchhhccceeEEEEEeCChhcccchhhhhHHHHHHHHHhhhhc
Q 008301          366 ITRSTFYKIRTEFLRGHNTTRDLMRPDFDWHFLFEPFPYSKKYARFVRVYLSASNQDDLGDWVGWVKSRFRSLILKLEEV  445 (570)
Q Consensus       366 Vs~stl~~I~~Ef~rA~~il~~i~~~~~~W~~Lf~~~~Ff~~y~~yl~i~v~a~~~~~~~~w~G~vESrlr~Lv~~LE~~  445 (570)
                      ||+||+++|.+||+||++|+++|+.++.+|++|||+++||.+|||||+|+++|.++|++.+|.||||||+|.|+.+||++
T Consensus       324 VS~ST~~Vi~~Ef~~g~~I~~~i~~~k~~W~~LFE~~~FF~rYk~yl~i~~~A~~~ed~l~w~G~vESriR~Lv~klE~~  403 (562)
T KOG2245|consen  324 VSRSTLKVITEEFKRGLEICDDIELNKLDWSDLFELYNFFSRYKHYLQITASAATEEDLLKWVGWVESRIRQLVLKLERN  403 (562)
T ss_pred             ccHHHHHHHHHHHHHHHHHHHHHHhccccHHHHhhhhHHHHHHhhHheeeeeccChHHHhhhhhHHHHHHHHHHHHHHhh
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999997


Q ss_pred             cC--ccCCCCCCCcCCCC----CCCceEEEEeEecCCCcccchHHHHHHHHHHHHcc-----CCCCC--ceEEEEEecCC
Q 008301          446 QG--LCDPNPTEYIDVDV----TEPHIVFYWGLQPGRTNLLDIVAVEKDFLKNIHNG-----FQGSP--GRMGLLVVQAS  512 (570)
Q Consensus       446 ~~--~~~p~P~~~~~~~~----~~~~~~~~iGL~~~~~~~~d~~~~~~~F~~~i~~~-----~~~~~--~~i~vs~vk~~  512 (570)
                      +.  +|||+|.+|.+...    .++...++|||......++|++..+++|++.+..+     .....  +.+++.|+|++
T Consensus       404 ~~i~~ahp~P~~f~~~~~~~~~~~~~~~~~igl~~~e~~~~Dlt~~iq~f~~~v~~q~~~~~~~~~g~~~~~~~~~~krr  483 (562)
T KOG2245|consen  404 QVILIAHPNPKKFKDTYNCPLEEDPESLWFIGLEFDENVKIDLTKDIQSFKKNVERQAVNLTLIKAGCDVEIDFGHVKRR  483 (562)
T ss_pred             cceEEecCCcccccccccCCcccchhHhhhhcccccccccchhhhhHHHhhhhhhhcceeeeeeeccccccccccccccc
Confidence            65  68999999987542    24567899999998787899999999999988743     11123  46677799999


Q ss_pred             CCCCCcccCCCCccccccccccccCCCCCCCccCCCCCcceeeeccc-ccCCC
Q 008301          513 QLSKSSQLDFGSGRRTKACWKNLDYNLPRIPVYSQHLPNYIIGYVDA-KADSK  564 (570)
Q Consensus       513 ~Lp~~v~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~  564 (570)
                      +|+.++... +-+..       +.++.      +++++.+.+||+.+ +.++.
T Consensus       484 ~l~~~~~~~-~l~~~-------k~~~~------~~~~s~~~~~~~~~~~~~~~  522 (562)
T KOG2245|consen  484 SLIQTITKE-FLRLC-------KQYKK------STRLSGMVSGYRSVKNRDAP  522 (562)
T ss_pred             ccccccCHH-HhhHH-------Hhhcc------cCCCCcccccccccccccCC
Confidence            999988322 11111       11111      45777777777763 34443

>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
>COG5260 TRF4 DNA polymerase sigma [DNA replication, recombination, and repair] Back     alignment and domain information
>KOG1906 consensus DNA polymerase sigma [Replication, recombination and repair] 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
>cd05402 NT_PAP_TUTase Nucleotidyltransferase (NT) domain of poly(A) polymerases and terminal uridylyl transferases 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
>PRK13300 tRNA CCA-pyrophosphorylase; Provisional Back     alignment and domain information
>TIGR03671 cca_archaeal CCA-adding enzyme 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
>COG1746 CCA1 tRNA nucleotidyltransferase (CCA-adding enzyme) [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>KOG2054 consensus Nucleolar RNA-associated protein (NRAP) [Function unknown] Back     alignment and domain information
>smart00572 DZF domain in DSRM or ZnF_C2H2 domain containing proteins Back     alignment and domain information
>cd05400 NT_2-5OAS_ClassI-CCAase Nucleotidyltransferase (NT) domain of 2'5'-oligoadenylate (2-5A)synthetase (2-5OAS) and class I CCA-adding enzyme Back     alignment and domain information
>cd05397 NT_Pol-beta-like Nucleotidyltransferase (NT) domain of DNA polymerase beta and similar proteins 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
>PF01909 NTP_transf_2: Nucleotidyltransferase domain A subset of this Pfam family; InterPro: IPR002934 A small region that overlaps with a nuclear localization signal and binds to the RNA primer contains three aspartates that are essential for catalysis 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
>cd05403 NT_KNTase_like Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins 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
>PF07528 DZF: DZF domain; InterPro: IPR006561 This domain is found in proteins containing the double-stranded RNA-binding motif, DSRM (IPR001159 from INTERPRO), or the zinc finger domain C2H2 (IPR007087 from INTERPRO) Back     alignment and domain information
>COG1669 Predicted nucleotidyltransferases [General function prediction only] Back     alignment and domain information
>PF14091 DUF4269: Domain of unknown function (DUF4269) Back     alignment and domain information
>COG1708 Predicted nucleotidyltransferases [General function prediction only] Back     alignment and domain information
>PRK13746 aminoglycoside resistance protein; Provisional Back     alignment and domain information
>PF10421 OAS1_C: 2'-5'-oligoadenylate synthetase 1, domain 2, C-terminus ; InterPro: IPR018952 This is the largely alpha-helical, C-terminal half of 2'-5'-oligoadenylate synthetase 1, being described as domain 2 of the enzyme and homologous to a tandem ubiquitin repeat Back     alignment and domain information
>PRK02098 phosphoribosyl-dephospho-CoA transferase; Provisional Back     alignment and domain information
>TIGR03135 malonate_mdcG holo-ACP synthase, malonate decarboxylase-specific Back     alignment and domain information
>cd00141 NT_POLXc Nucleotidyltransferase (NT) domain of family X DNA Polymerases Back     alignment and domain information
>cd05401 NT_GlnE_GlnD_like Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins Back     alignment and domain information
>PF14792 DNA_pol_B_palm: DNA polymerase beta palm ; PDB: 1RZT_A 3PML_A 2PFN_A 3HX0_K 3HWT_A 2GWS_E 2BCQ_A 3UPQ_A 2BCS_A 3UQ2_A Back     alignment and domain information
>COG1665 Predicted nucleotidyltransferase [General function prediction only] Back     alignment and domain information
>KOG2054 consensus Nucleolar RNA-associated protein (NRAP) [Function unknown] Back     alignment and domain information
>KOG3793 consensus Transcription factor NFAT, subunit NF45 [Transcription] Back     alignment and domain information
>COG2844 GlnD UTP:GlnB (protein PII) uridylyltransferase [Posttranslational modification, protein turnover, chaperones] Back     alignment and domain information
>PF03445 DUF294: Putative nucleotidyltransferase DUF294; InterPro: IPR005105 This domain is found associated with an N-terminal cyclic nucleotide-binding domain (IPR000595 from INTERPRO) and two CBS domains (IPR000644 from INTERPRO) 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 ?
Query570
1q79_A514 Crystal Structure Of Mammalian Poly(A) Polymerase L 5e-64
1q78_A514 Crystal Structure Of Poly(A) Polymerase In Complex 1e-63
1f5a_A513 Crystal Structure Of Mammalian Poly(A) Polymerase L 1e-60
1fa0_A537 Structure Of Yeast Poly(A) Polymerase Bound To Mang 4e-60
2o1p_A546 Structure Of Yeast Poly(A) Polymerase In A Somewhat 5e-60
2hhp_A530 Structure Of Yeast Poly(A) Polymerase In A Closed C 6e-60
2q66_A525 Structure Of Yeast Poly(A) Polymerase With Atp And 5e-59
3nyb_A323 Structure And Function Of The Polymerase Core Of Tr 1e-05
>pdb|1Q79|A Chain A, Crystal Structure Of Mammalian Poly(A) Polymerase Length = 514 Back     alignment and structure 
Iteration: 1

 Score =  241 bits (616), Expect = 5e-64,   Method: Compositional matrix adjust.
 Identities = 140/398 (35%), Positives = 219/398 (55%), Gaps = 11/398 (2%)
Query: 69  PLNPSVLDQMDEERSLSLVQLMTNEGLVPSTEEEDKRRNVIQKLKEIVLAWVKRVAWQRR 128
           P++ +   + D   +  LV+ +   G+    EE  +R  ++ KL  +V  W++ ++  + 
Sbjct: 25  PISLAAPKETDXLLTQKLVETLKPFGVFEEEEELQRRILILGKLNNLVKEWIREISESKN 84
Query: 129 LPKEQIAETHATILTYGSYGLGVHGSESDIDALCLGPEFATMAEDFFVVLHNMLKSRPEV 188
           LP+  I      I T+GSY LGVH   +DIDALC+ P     + DFF   ++ LK + EV
Sbjct: 85  LPQSVIENVGGKIFTFGSYRLGVHTKGADIDALCVAPRHVDRS-DFFTSFYDKLKLQEEV 143
Query: 189 SEIHCVKDAKVPLMRFKFDGILIDLPYACLHVLSVPENVDVLNPFFLRDLDETSWKSLSG 248
            ++  V++A VP+++  FDGI ID+ +A L + ++PE++D+ +   L++LD    +SL+G
Sbjct: 144 KDLRAVEEAFVPVIKLXFDGIEIDILFARLALQTIPEDLDLRDDSLLKNLDIRXIRSLNG 203
Query: 249 VRANKCILQLVPDLEKFQPVLRCIKLWAKRRGVYGNLHGFLGGVHLAILVAHVCQNHPKG 308
            R    IL LVP+++ F+  LR IKLWAKR  +Y N+ GFLGGV  A+LVA  CQ +P  
Sbjct: 204 CRVTDEILHLVPNIDNFRLTLRAIKLWAKRHNIYSNILGFLGGVSWAMLVARTCQLYPNA 263
Query: 309 SLNTLVANFFKTYAYWPWPTPVMLQDPM-----LPAAG---YPSETRSLMPIRLPCSPHE 360
             +TLV  FF  ++ W WP PV+L+ P      LP       PS+   LMPI  P  P +
Sbjct: 264 IASTLVHKFFLVFSKWEWPNPVLLKQPEECNLNLPVWDPRVNPSDRYHLMPIITPAYPQQ 323
Query: 361 YCHSNITRSTFYKIRTEFLRGHNTTRDLMRPDFDWHFLFEPFPYSKKYARFVRVYLSASN 420
               N++ ST   +  EF +G   T +++    +W  LFE   + +KY  ++ +  SA  
Sbjct: 324 NSTYNVSVSTRMVMVEEFKQGLAITDEILLSKAEWSKLFEAPNFFQKYKHYIVLLASAPT 383
Query: 421 QDDLGDWVGWVKSRFRSLILKLE--EVQGLCDPNPTEY 456
           +    +WVG V+S+ R L+  LE  E   L   NP  +
Sbjct: 384 EKQRLEWVGLVESKIRILVGSLEKNEFITLAHVNPQSF 421
>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|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|2HHP|A Chain A, Structure Of Yeast Poly(A) Polymerase In A Closed Conformation Length = 530 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|3NYB|A Chain A, Structure And Function Of The Polymerase Core Of Tramp, A Rna Surveillance Complex Length = 323 Back     alignment and structure

Structure Templates Detected by RPS-BLAST ?

Original result of RPS-BLAST against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query570
1q79_A514 Poly(A) polymerase alpha; mRNA processing, nucleot 1e-126
2hhp_A530 Poly(A) polymerase; template-independent RNA polym 1e-116
3nyb_A323 Poly(A) RNA polymerase protein 2; polya RNA polyme 7e-20
4e8f_A405 Poly(A) RNA polymerase protein CID1; beta polymera 3e-12
3hj4_A384 Minor editosome-associated tutase; nucleotidyltran 6e-12
4ep7_A340 Poly(A) RNA polymerase protein CID1; poly(U) polym 8e-12
2ikf_A353 RNA uridylyl transferase; tutase, nucleotidyltrans 1e-09
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 3e-09
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 2e-04
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 2e-04
3pq1_A464 Poly(A) RNA polymerase; nucleotidyl transferase, R 3e-09
2b4v_A468 RNA editing complex protein MP57; tbret2, TBMP57, 4e-06
>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
>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
>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 Length = 405 Back     alignment and structure
>4ep7_A Poly(A) RNA polymerase protein CID1; poly(U) polymerase, UTP binding, transferase; HET: UTP; 2.28A {Schizosaccharomyces pombe} Length = 340 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* Length = 353 Back     alignment and structure
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221 Back     alignment and structure
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221 Back     alignment and structure
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221 Back     alignment and structure
>3pq1_A Poly(A) RNA polymerase; nucleotidyl transferase, RNP-type RNA binding domain, poly(A polymerase, mitochondria, transferase; 3.10A {Homo sapiens} Length = 464 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* Length = 468 Back     alignment and structure

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query570
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 100.0
4e8f_A405 Poly(A) RNA polymerase protein CID1; beta polymera 100.0
3nyb_A323 Poly(A) RNA polymerase protein 2; polya RNA polyme 100.0
2ikf_A353 RNA uridylyl transferase; tutase, nucleotidyltrans 100.0
2b4v_A468 RNA editing complex protein MP57; tbret2, TBMP57, 100.0
3hj4_A384 Minor editosome-associated tutase; nucleotidyltran 100.0
3pq1_A464 Poly(A) RNA polymerase; nucleotidyl transferase, R 100.0
1r89_A437 TRNA nucleotidyltransferase; CCA adding enzyme, in 99.31
1px5_A349 2'-5'-oligoadenylate synthetase 1; 5-stranded anti 99.03
4at7_A364 Interleukin enhancer-binding factor 2; transcripti 97.92
1no5_A114 Hypothetical protein HI0073; structural genomics, 97.42
4at7_B383 NF90, interleukin enhancer-binding factor 3; trans 97.38
1wot_A98 Putative minimal nucleotidyltransferase; alpha and 97.0
1ylq_A96 Putative nucleotidyltransferase, hypothetical Pro 96.96
2rff_A111 Putative nucleotidyltransferase; NP_343093.1, nucl 96.9
4ebj_A272 Aminoglycoside nucleotidyltransferase; structural 95.23
1kny_A253 Kntase, kanamycin nucleotidyltransferase; antibiot 94.46
2fmp_A335 DNA polymerase beta; nucleotidyl transferase, tran 93.9
2bcq_A335 DNA polymerase lambda; misalignment, extrahelical, 92.23
3jz0_A287 Lincosamide nucleotidyltransferase; alpha-beta str 91.61
2ihm_A360 POL MU, DNA polymerase MU; helix-turn-helix, trans 89.04
1jaj_A174 DNA polymerase beta-like protein; CIS peptide, vir 88.65
3b0x_A575 DNA polymerase beta family (X family); structural 86.27
1jms_A381 Terminal deoxynucleotidyltransferase; polymerase; 85.98
>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
>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
>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
>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
>4at7_A Interleukin enhancer-binding factor 2; transcription, DRPB76, NFAR, ILF3, ILF2, template-free nucleotidyltransferase fold; HET: 1PE; 1.902A {Mus musculus} PDB: 4at8_A* 4at9_A* 4atb_A* Back     alignment and structure
>1no5_A Hypothetical protein HI0073; structural genomics, nucleotidyl transferase structure 2 function project, S2F, unknown function; 1.80A {Haemophilus influenzae} SCOP: d.218.1.5 Back     alignment and structure
>1wot_A Putative minimal nucleotidyltransferase; alpha and beta, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Thermus thermophilus} SCOP: d.218.1.5 Back     alignment and structure
>1ylq_A Putative nucleotidyltransferase, hypothetical Pro AF0614; structural genomics, PSI, protein ST initiative; 2.02A {Archaeoglobus fulgidus} SCOP: d.218.1.5 Back     alignment and structure
>2rff_A Putative nucleotidyltransferase; NP_343093.1, nucleotidyltransferase domain, structural genomics; HET: MSE; 1.40A {Sulfolobus solfataricus P2} Back     alignment and structure
>4ebj_A Aminoglycoside nucleotidyltransferase; structural genomics, center for structural genomics of infec diseases, csgid, niaid; HET: MSE; 1.60A {Pseudomonas aeruginosa} PDB: 4ebk_A* Back     alignment and structure
>1kny_A Kntase, kanamycin nucleotidyltransferase; antibiotic resistance, plasmid; HET: APC KAN; 2.50A {Staphylococcus aureus} SCOP: a.24.16.1 d.218.1.1 PDB: 1kan_A Back     alignment and structure
>2fmp_A DNA polymerase beta; nucleotidyl transferase, transferase/DNA complex; HET: DNA DOC DCT; 1.65A {Homo sapiens} SCOP: a.60.6.1 a.60.12.1 d.218.1.2 PDB: 1bpx_A* 1bpz_A* 1mq2_A* 1mq3_A* 1bpy_A* 1tva_A* 1zjm_A* 1zjn_A* 1zqa_A* 1zqb_A* 1zqc_A* 1zqd_A* 1zqe_A* 1zqf_A* 1zqg_A* 1zqh_A* 1zqi_A* 1zqj_A* 1zqk_A* 1zql_A* ... Back     alignment and structure
>2bcq_A DNA polymerase lambda; misalignment, extrahelical, mutagenesis, mutation, deletion, streisinger, slippage, transferase, lyase/DNA complex; HET: DNA; 1.65A {Homo sapiens} SCOP: a.60.6.1 a.60.12.1 d.218.1.2 PDB: 1xsl_A* 2bcr_A* 2bcs_A* 2bcu_A* 2bcv_A* 2gws_A* 3c5g_A* 3c5f_A* 2pfn_A* 1xsp_A* 1xsn_A* 2pfo_A* 2pfp_A* 2pfq_A* 3hw8_A* 3hwt_A* 1rzt_A* 3hx0_A* 3mdc_A* 3mda_A* ... Back     alignment and structure
>3jz0_A Lincosamide nucleotidyltransferase; alpha-beta structure, transferase-antibiotic CO; HET: APC CLY; 2.00A {Enterococcus faecium} PDB: 3jyy_A* Back     alignment and structure
>2ihm_A POL MU, DNA polymerase MU; helix-turn-helix, transferase/DNA complex; HET: DNA D3T; 2.40A {Mus musculus} Back     alignment and structure
>1jaj_A DNA polymerase beta-like protein; CIS peptide, viral protein; HET: DNA; NMR {African swine fever virus} SCOP: d.218.1.2 PDB: 1jqr_A* Back     alignment and structure
>3b0x_A DNA polymerase beta family (X family); structural genomics, riken structural genomics/proteomics in RSGI, polxc, PHP, DRP lyase; HET: DNA DGT; 1.36A {Thermus thermophilus} PDB: 3au2_A* 3au6_A* 3auo_A* 3b0y_A* Back     alignment and structure
>1jms_A Terminal deoxynucleotidyltransferase; polymerase; 2.36A {Mus musculus} SCOP: a.60.6.1 a.60.12.1 d.218.1.2 PDB: 1kdh_A* 1kej_A* Back     alignment and structure

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST ?

Original result of RPS-BLAST against SCOP70(version1.75) database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query 570
d1q79a2196 d.218.1.3 (A:19-214) Poly(A) polymerase, PAP, N-te 6e-63
d2q66a2197 d.218.1.3 (A:5-201) Poly(A) polymerase, PAP, N-ter 2e-59
d1q79a1150 a.160.1.1 (A:215-364) Poly(A) polymerase, PAP, mid 2e-58
d2q66a1150 a.160.1.1 (A:202-351) Poly(A) polymerase, PAP, mid 8e-57
d1q79a3134 d.58.16.1 (A:365-498) Poly(A) polymerase, PAP, C-t 3e-15
d2b4va1183 a.160.1.4 (A:289-471) RNA editing terminal uridyl 2e-14
d2q66a3178 d.58.16.1 (A:352-529) Poly(A) polymerase, PAP, C-t 3e-08
>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

class: Alpha and beta proteins (a+b)
fold: Nucleotidyltransferase
superfamily: Nucleotidyltransferase
family: Poly(A) polymerase, PAP, N-terminal domain
domain: Poly(A) polymerase, PAP, N-terminal domain
species: Cow (Bos taurus) [TaxId: 9913]

 Score =  203 bits (517), Expect = 6e-63
 Identities = 63/181 (34%), Positives = 103/181 (56%), Gaps = 1/181 (0%)

Query: 79  DEERSLSLVQLMTNEGLVPSTEEEDKRRNVIQKLKEIVLAWVKRVAWQRRLPKEQIAETH 138
           D   +  LV+ +   G+    EE  +R  ++ KL  +V  W++ ++  + LP+  I    
Sbjct: 17  DCLLTQKLVETLKPFGVFEEEEELQRRILILGKLNNLVKEWIREISESKNLPQSVIENVG 76

Query: 139 ATILTYGSYGLGVHGSESDIDALCLGPEFATMAEDFFVVLHNMLKSRPEVSEIHCVKDAK 198
             I T+GSY LGVH   +DIDALC+ P       DFF   ++ LK + EV ++  V++A 
Sbjct: 77  GKIFTFGSYRLGVHTKGADIDALCVAPRHVD-RSDFFTSFYDKLKLQEEVKDLRAVEEAF 135

Query: 199 VPLMRFKFDGILIDLPYACLHVLSVPENVDVLNPFFLRDLDETSWKSLSGVRANKCILQL 258
           VP+++  FDGI ID+ +A L + ++PE++D+ +   L++LD    +SL+G R    IL L
Sbjct: 136 VPVIKLCFDGIEIDILFARLALQTIPEDLDLRDDSLLKNLDIRCIRSLNGCRVTDEILHL 195

Query: 259 V 259
           V
Sbjct: 196 V 196
>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
>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
>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
>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
>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
>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

Homologous Domains Detected by HHsearch ?

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

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query570
d1q79a2196 Poly(A) polymerase, PAP, N-terminal domain {Cow (B 100.0
d2q66a2197 Poly(A) polymerase, PAP, N-terminal domain {Baker' 100.0
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' 99.94
d1q79a3134 Poly(A) polymerase, PAP, C-terminal domain {Cow (B 99.93
d2b4va1183 RNA editing terminal uridyl transferase 2, TUTase 99.9
d1r89a2142 tRNA nucleotidyltransferase, N-terminal domain {Ar 98.45
d1no5a_100 Hypothetical protein HI0073 {Haemophilus influenza 98.23
d2b4va2259 RNA editing terminal uridyl transferase 2, TUTase 97.84
d1ylqa190 Putative nucleotidyltransferase AF0614 {Archaeon A 97.68
d1wota_98 Unnamed putative nucleotidyltransferase {Thermus t 96.88
d1r89a1115 tRNA nucleotidyltransferase, second domain {Archae 96.75
d2bcqa3190 DNA polymerase lambda {Human (Homo sapiens) [TaxId 96.15
d1knya2125 Kanamycin nucleotidyltransferase (KNTase), N-termi 95.89
d2fmpa3187 DNA polymerase beta, catalytic (31 kD) fragment {H 95.7
d1jmsa4208 Terminal deoxynucleotidyl transferase {Mouse (Mus 95.24
d1px5a2200 2'-5'-oligoadenylate synthetase 1, OAS1, N-termina 94.82
d1px5a1146 2'-5'-oligoadenylate synthetase 1, OAS1, second do 92.76
>d1q79a2 d.218.1.3 (A:19-214) Poly(A) polymerase, PAP, N-terminal domain {Cow (Bos taurus) [TaxId: 9913]} Back     information, alignment and structure
class: Alpha and beta proteins (a+b)
fold: Nucleotidyltransferase
superfamily: Nucleotidyltransferase
family: Poly(A) polymerase, PAP, N-terminal domain
domain: Poly(A) polymerase, PAP, N-terminal domain
species: Cow (Bos taurus) [TaxId: 9913]

Probab=100.00  E-value=8.2e-49  Score=378.83  Aligned_cols=196  Identities=33%  Similarity=0.579  Sum_probs=188.6

Q ss_pred             ccccCCCCCCCCCCCCChHHHHhhHHHHHHHHhCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCCchhhccCCe
Q 008301           60 VFLVPSFNFPLNPSVLDQMDEERSLSLVQLMTNEGLVPSTEEEDKRRNVIQKLKEIVLAWVKRVAWQRRLPKEQIAETHA  139 (570)
Q Consensus        60 ~l~v~~p~~~l~~e~~~~~d~~~s~~L~~~L~~~~~~ps~eE~~~R~~vl~~L~~iv~~w~~~v~~~~~~~~~~~~~~~~  139 (570)
                      ++||+.|   +.-+.|++.|++++++|+++|++++++||+||.++|++|+++|++++++|+++++.++|+++..+..+++
T Consensus         1 ~~GvT~P---iS~~~Pt~~D~~~s~~L~~~L~~~~~~ps~ee~~~R~~vl~~L~~lv~~~~~~~~~~~~~~~~~~~~~~~   77 (196)
T d1q79a2           1 HYGITSP---ISLAAPKETDCLLTQKLVETLKPFGVFEEEEELQRRILILGKLNNLVKEWIREISESKNLPQSVIENVGG   77 (196)
T ss_dssp             CCSSSCC---SCCCCCCHHHHHHHHHHHHHHGGGTCSCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCCHHHHTTCBC
T ss_pred             CCCCCCC---cccCCCChHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCcchhccCCc
Confidence            4688888   5666788999999999999999999999999999999999999999999999999999999999889999


Q ss_pred             EEEEecccccCCCCCCCceeEEeecCCCccchHHHHHHHHHHHhcCCCcceEEEeccCccceEEEEECCeeecccccccc
Q 008301          140 TILTYGSYGLGVHGSESDIDALCLGPEFATMAEDFFVVLHNMLKSRPEVSEIHCVKDAKVPLMRFKFDGILIDLPYACLH  219 (570)
Q Consensus       140 ~I~~FGSy~lGv~~p~SDID~l~v~p~~~~~~~~ff~~l~~~L~~~~~v~~l~~I~~A~VPIIKf~~~GI~vDLsf~~l~  219 (570)
                      +|+|||||++|+|+|+||||+||++|.+++ +++||..|+++|++.+.++++++|++|+||||||+++||+|||+||+++
T Consensus        78 ~v~~FGS~~lgv~~p~SDID~~~i~p~~~~-~~~ff~~l~~~L~~~~~v~~v~~I~~A~VPiiK~~~~gi~iDlsfa~l~  156 (196)
T d1q79a2          78 KIFTFGSYRLGVHTKGADIDALCVAPRHVD-RSDFFTSFYDKLKLQEEVKDLRAVEEAFVPVIKLCFDGIEIDILFARLA  156 (196)
T ss_dssp             EEEEEHHHHHTCCCTTCCEEEEEEECTTSC-HHHHTTHHHHHHHTCTTEEEEEEETTSSSCEEEEEETTEEEEEEEEECS
T ss_pred             EEEEeccccccccCCCCCccEEEecCCcCC-HHHHHHHHHHHHhcCCCcceEEEeccccccEEEEEEcCeeEeehhhhcc
Confidence            999999999999999999999999999988 5799999999999999999999999999999999999999999999999


Q ss_pred             ccCCCccccCCCchhccccchhhhhccchhhhHHHHHHhc
Q 008301          220 VLSVPENVDVLNPFFLRDLDETSWKSLSGVRANKCILQLV  259 (570)
Q Consensus       220 ~~~ip~~l~~~~~~lL~~ld~~s~rSLnG~Rv~~~Il~lv  259 (570)
                      ...+|+++++.|+++|++||++++|||||+|+++.|+++|
T Consensus       157 ~~~~p~~l~l~~~~lL~~ld~~~~rslNG~Rv~~~il~lV  196 (196)
T d1q79a2         157 LQTIPEDLDLRDDSLLKNLDIRCIRSLNGCRVTDEILHLV  196 (196)
T ss_dssp             CSSBCTTCCTTCGGGGTTCCHHHHHHHHHHHHHHHHHTSS
T ss_pred             cCCCCcccccCChHHHhcCChhhhhhhccHHHHHHHHhhC
Confidence            9999999999999999999999999999999999999886
>d2q66a2 d.218.1.3 (A:5-201) Poly(A) polymerase, PAP, N-terminal domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Back     information, alignment and structure
>d1q79a1 a.160.1.1 (A:215-364) Poly(A) polymerase, PAP, middle domain {Cow (Bos taurus) [TaxId: 9913]} Back     information, alignment and structure
>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
>d1r89a2 d.218.1.7 (A:1-142) tRNA nucleotidyltransferase, N-terminal domain {Archaeon Archaeoglobus fulgidus [TaxId: 2234]} Back     information, alignment and structure
>d1no5a_ d.218.1.5 (A:) Hypothetical protein HI0073 {Haemophilus influenzae [TaxId: 727]} Back     information, alignment and structure
>d2b4va2 d.218.1.10 (A:30-288) RNA editing terminal uridyl transferase 2, TUTase 2, RET2 {Trypanosoma brucei [TaxId: 5691]} Back     information, alignment and structure
>d1ylqa1 d.218.1.5 (A:1-90) Putative nucleotidyltransferase AF0614 {Archaeon Archaeoglobus fulgidus [TaxId: 2234]} Back     information, alignment and structure
>d1wota_ d.218.1.5 (A:) Unnamed putative nucleotidyltransferase {Thermus thermophilus [TaxId: 274]} 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
>d2bcqa3 d.218.1.2 (A:386-575) DNA polymerase lambda {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1knya2 d.218.1.1 (A:1-125) Kanamycin nucleotidyltransferase (KNTase), N-terminal domain {Staphylococcus aureus [TaxId: 1280]} Back     information, alignment and structure
>d2fmpa3 d.218.1.2 (A:149-335) DNA polymerase beta, catalytic (31 kD) fragment {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1jmsa4 d.218.1.2 (A:303-510) Terminal deoxynucleotidyl transferase {Mouse (Mus musculus) [TaxId: 10090]} Back     information, alignment and structure
>d1px5a2 d.218.1.6 (A:1-200) 2'-5'-oligoadenylate synthetase 1, OAS1, N-terminal domain {Pig (Sus scrofa) [TaxId: 9823]} Back     information, alignment and structure
>d1px5a1 a.160.1.2 (A:201-346) 2'-5'-oligoadenylate synthetase 1, OAS1, second domain {Pig (Sus scrofa) [TaxId: 9823]} Back     information, alignment and structure