Citrus Sinensis ID: 006232

Local Sequence Feature Prediction

Prediction and (Method)Result
Residue Number Marker
Protein Sequence ?
Secondary Structure (PSIPRED) ?
Secondary Structure Prediction (SSPRO) ?
Coil and Loop (DISEMBL) ?
Flexible Loop (DISEMBL) ?
Low Complexity Region (SEG) ?
Disordered region (IsUnstruct) ?
Disordered Region (DISOPRED) ?
Disordered Region (DISEMBL) ?
Disordered Region (DISPRO) ?
Transmembrane Helix (TMHMM) ?
Transmembrane Helix (HMMTOP) ?
Transmembrane Helix (MEMSAT) ?
TM Helix, Signal Peptide (MEMSAT_SVM) ?
TM Helix, Signal Peptide (Phobius) ?
Signal Peptide (SignalP HMM Mode) ?
Signal Peptide (SignalP NN Mode) ?
Coiled Coils (COILS) ?
Positional Conservation ?
 
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-------400-------410-------420-------430-------440-------450-------460-------470-------480-------490-------500-------510-------520-------530-------540-------550-------560-------570-------580-------590-------600-------610-------620-------630-------640-------650-----
MPRYLPLVLIGLGYDKYSVHGPGADIDTLCVGPRHATREEDFFGELHQMLTEMPEVTELHPVPDAHVPVMKFKFSGVSIDLLYARLSLWVIPEDLDISQDSILQNADEQTVRSLNGCRVTDQILRLVPKIQNFRTTLRCMRFWAKRRGVYSNVAGFLGGINWALLVARICQLYPNAVPSMLVSRFFRVYTQWRWPNPVLLCAIEEGSLGLQVWDPRRNPKDKYHLMPIITPAYPCMNSSYNVSTSTLRIMMDEFQRGHEICEAMEKNEADVDWDTLFEPFTFFEAYKNYLRIDISAENADDLRNWKGWVESRLRQLTLKIERHTYNMLQCHPHPGDFSDKSKPLYCSYFMGLQRKQGVPVGEGEQFDIRLTVKEFKQAVSMYTLRKPGMQISVAHVTRRNLPNFVFPGGVRPSRPSKGTWDSRRALERKVSSHTKPGADDGRKRKQTDDNVDTHLRNAKCHATMPSSSGEFREGSPIMSTISSSSINLQFEHMDANELAGSNREKVENNLTDSIRGSRNSVEVSSHNGKVDGPMIGDPRNKGLSFNSSNSKDAEKLAIEKIMSGPYVADQAFPLELDQLEDDLELKNQAKDFAGSTQNNSLGSCAVNIAAEATLTSMNGGSSSSALSPNGGLGELEVLSANLITSIGAFKVSTFL
ccccccEEEEEEcccccccccccccEEEEEEcccccccccHHHHHHHHHHccccccEEEEEcccccccEEEEEEcccEEEEEEEcccccccccccccccHHHHccccHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHcccccccccHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHcccccccEEEcccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccHHHHHHHHHHHEEEcccHHHHHHHHHHHHHHHHHHHHHHHHcccccEEEccccccccccccccEEEEEEEEEEcccccccccccccHHHHHHHHHHHHHHHcccccccEEEEEEEccccccccccccccccccccccccHHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHcccccccccccccccccccHHHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
ccccccEEEEEcccEEcccccccccccEEEEccccccccHHHHHHHHHHHHccccHHccccccccEEEEEEEEEccEEEEEEEEEcccccccccccccccHHHHcccHHHHHHccccHHHHHHHHHcccHHHHHHHHHHHHHHHHHcccEHcHHccHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHcccccccEEEccccccccccccccccccHccccccccEEccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHccccccHHHHHccccHHHHHcEEEEEEEEcccHHHHHHHHHHHHHHHHHHHHHHHccccEEEEEccccccccccccccEEEEEEEEEEccccccccccEEEEcccHHHHHHHHHHHHHHccccEEEEEEEEHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHccccccccccccccccccccc
MPRYLPLVLIGlgydkysvhgpgadidtlcvgprhatreeDFFGELHQMLTempevtelhpvpdahvpvmkfKFSGVSIDLLYARLSLwvipedldisqdsilqNADEqtvrslngcrvtDQILRLVPKIQNFRTTLRCMRFWAKRRGVYSNVAGFLGGINWALLVARICQlypnavpsmLVSRFFRVYtqwrwpnpvLLCAIeegslglqvwdprrnpkdkyhlmpiitpaypcmnssynvstsTLRIMMDEFQRGHEICEAMekneadvdwdtlfepftFFEAYKNYLRIdisaenaddlrnWKGWVESRLRQLTLKIERHTynmlqchphpgdfsdkskplyCSYFmglqrkqgvpvgegeqfDIRLTVKEFKQAVSMYTlrkpgmqiSVAHVtrrnlpnfvfpggvrpsrpskgtwdsRRALERKvsshtkpgaddgrkrkqtddnVDTHLrnakchatmpsssgefregspimstissssinlqfehmdanelagsnrekvennltdsirgsrnsvevsshngkvdgpmigdprnkglsfnssnskDAEKLAIEKImsgpyvadqafplelDQLEDDLELKNQAKdfagstqnnslgscAVNIAAEATLtsmnggssssalspngglgeLEVLSANLITSIgafkvstfl
MPRYLPLVLIGLGYDKYSVHGPGADIDTLCVGPRHATREEDFFGELHQMLTEMPEVTELHPVPDAHVPVMKFKFSGVSIDLLYARLSLWVIPEDLDISQDSILQNADEqtvrslngcrvtdqilrlvpkiqnfrtTLRCMRFWAKRRGVYSNVAGFLGGINWALLVARICQLYPNAVPSMLVSRFFRVYTQWRWPNPVLLCAIEEGSLGLQVWDPRRNPKDKYHLMPIITPAYPCMNSSYNVSTSTLRIMMDEFQRGHEICEAMEKNEADVDWDTLFEPFTFFEAYKNYLRIDISaenaddlrnwKGWVESRLRQLTLKIERHTYNMLQCHPHPGDFSDKSKPLYCSYFMGLQRKQGVPVGEGEQFDIRLTVKEFKQAVSMYTLRKPGMQISVAHVTRRNLPnfvfpggvrpsrpskgtwdsrralerkvsshtkpgaddgrkrkqtddnvdthlrnakchatmpsssgefreGSPIMSTISSSSINLQFEHMDANelagsnrekVENNltdsirgsrnsvevsshngkvdgpmigdprnkglsfnssnSKDAEKLAIEKIMSGPYVADQAFPLELDQLEDDLELKNQAKDFagstqnnslgSCAVNIAAEATLTSMNGGSSSSALSPNGGLGELEVLSANLItsigafkvstfl
MPRYLPLVLIGLGYDKYSVHGPGADIDTLCVGPRHATREEDFFGELHQMLTEMPEVTELHPVPDAHVPVMKFKFSGVSIDLLYARLSLWVIPEDLDISQDSILQNADEQTVRSLNGCRVTDQILRLVPKIQNFRTTLRCMRFWAKRRGVYSNVAGFLGGINWALLVARICQLYPNAVPSMLVSRFFRVYTQWRWPNPVLLCAIEEGSLGLQVWDPRRNPKDKYHLMPIITPAYPCMNSSYNVSTSTLRIMMDEFQRGHEICEAMEKNEADVDWDTLFEPFTFFEAYKNYLRIDISAENADDLRNWKGWVESRLRQLTLKIERHTYNMLQCHPHPGDFSDKSKPLYCSYFMGLQRKQGVPVGEGEQFDIRLTVKEFKQAVSMYTLRKPGMQISVAHVTRRNLPNFVFPGGVRPSRPSKGTWDSRRALERKVSSHTKPGADDGRKRKQTDDNVDTHLRNAKCHATMPSSSGEFREGspimstissssiNLQFEHMDANELAGSNREKVENNLTDSIRGSRNSVEVSSHNGKVDGPMIGDPRNKGLSFNSSNSKDAEKLAIEKIMSGPYVADQAFPleldqleddlelKNQAKDFAGSTQNNSLGSCAVNIAAEATLTSMnggssssalspngglgELEVLSANLITSIGAFKVSTFL
***YLPLVLIGLGYDKYSVHGPGADIDTLCVGPRHATREEDFFGELHQMLTEMPEVTELHPVPDAHVPVMKFKFSGVSIDLLYARLSLWVIPEDLDISQDSILQNADEQTVRSLNGCRVTDQILRLVPKIQNFRTTLRCMRFWAKRRGVYSNVAGFLGGINWALLVARICQLYPNAVPSMLVSRFFRVYTQWRWPNPVLLCAIEEGSLGLQVWDPRRNPKDKYHLMPIITPAYPCMNSSYNVSTSTLRIMMDEFQRGHEICEAMEKNEADVDWDTLFEPFTFFEAYKNYLRIDISAENADDLRNWKGWVESRLRQLTLKIERHTYNMLQCHPHPGDFSDKSKPLYCSYFMGLQRKQGVPVGEGEQFDIRLTVKEFKQAVSMYTLRKPGMQISVAHVTRRNLPNFVFPG********************************************************************************************************************************************************IMSGPYVADQAFPL*****************************CAVNI*************************ELEVLSANLITSIGAFKV****
***YLPLVLIGLGYDKYSVHGPGADIDTLCVGPRHATREEDFFGELHQMLTEMPEVTELHPVPDAHVPVMKFKFSGVSIDLLYARLSLWVIPEDLDISQDSILQNADEQTVRSLNGCRVTDQILRLVPKIQNFRTTLRCMRFWAKRRGVYSNVAGFLGGINWALLVARICQLYPNAVPSMLVSRFFRVYTQWRWPNPVLLCAIEEGSLGLQVWDPRRNPKDKYHLMPIITPAYPCMNSSYNVSTSTLRIMMDEFQRGHEICEAMEKNEADVDWDTLFEPFTFFEAYKNYLRIDISAENADDLRNWKGWVESRLRQLTLKIERHTYNMLQCHPHPGDFSDKSKPLYCSYFMGLQRKQ*****EGEQFDIRLTVKEFKQAVSMYTLRKPGMQISVAHVTRRNLPNFVFP*************************************************************************************************************************************************************************************************************************************VLSANLITSIGAFKVSTFL
MPRYLPLVLIGLGYDKYSVHGPGADIDTLCVGPRHATREEDFFGELHQMLTEMPEVTELHPVPDAHVPVMKFKFSGVSIDLLYARLSLWVIPEDLDISQDSILQNADEQTVRSLNGCRVTDQILRLVPKIQNFRTTLRCMRFWAKRRGVYSNVAGFLGGINWALLVARICQLYPNAVPSMLVSRFFRVYTQWRWPNPVLLCAIEEGSLGLQVWDPRRNPKDKYHLMPIITPAYPCMNSSYNVSTSTLRIMMDEFQRGHEICEAMEKNEADVDWDTLFEPFTFFEAYKNYLRIDISAENADDLRNWKGWVESRLRQLTLKIERHTYNMLQCHPHPGDFSDKSKPLYCSYFMGLQRKQGVPVGEGEQFDIRLTVKEFKQAVSMYTLRKPGMQISVAHVTRRNLPNFVFPGGVRP***********************************DDNVDTHLRNAKCHAT***********SPIMSTISSSSINLQFEHMDANELAGSNREKVENNLTDSIRGSRNSVEVSSHNGKVDGPMIGDPRNKGLSFNSSNSKDAEKLAIEKIMSGPYVADQAFPLELDQLEDDLELKNQAKDFAGSTQNNSLGSCAVNIAAEATLTS***********PNGGLGELEVLSANLITSIGAFKVSTFL
**RYLPLVLIGLGYDKYSVHGPGADIDTLCVGPRHATREEDFFGELHQMLTEMPEVTELHPVPDAHVPVMKFKFSGVSIDLLYARLSLWVIPEDLDISQDSILQNADEQTVRSLNGCRVTDQILRLVPKIQNFRTTLRCMRFWAKRRGVYSNVAGFLGGINWALLVARICQLYPNAVPSMLVSRFFRVYTQWRWPNPVLLCAIEEGSLGLQVWDPRRNPKDKYHLMPIITPAYPCMNSSYNVSTSTLRIMMDEFQRGHEICEAMEKNEADVDWDTLFEPFTFFEAYKNYLRIDISAENADDLRNWKGWVESRLRQLTLKIERHTYNMLQCHPHPGDFSDKSKPLYCSYFMGLQRKQGVPVGEGEQFDIRLTVKEFKQAVSMYTLRKPGMQISVAHVTRRNLPNFVFPGG********************************************************************************************************************************************************************************************************************************ELEVLSANLITSIGAFK*****
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MPRYLPLVLIGLGYDKYSVHGPGADIDTLCVGPRHATREEDFFGELHQMLTEMPEVTELHPVPDAHVPVMKFKFSGVSIDLLYARLSLWVIPEDLDISQDSILQNADEQTVRSLNGCRVTDQILRLVPKIQNFRTTLRCMRFWAKRRGVYSNVAGFLGGINWALLVARICQLYPNAVPSMLVSRFFRVYTQWRWPNPVLLCAIEEGSLGLQVWDPRRNPKDKYHLMPIITPAYPCMNSSYNVSTSTLRIMMDEFQRGHEICEAMEKNEADVDWDTLFEPFTFFEAYKNYLRIDISAENADDLRNWKGWVESRLRQLTLKIERHTYNMLQCHPHPGDFSDKSKPLYCSYFMGLQRKQGVPVGEGEQFDIRLTVKEFKQAVSMYTLRKPGMQISVAHVTRRNLPNFVFPGGVRPSRPSKGTWDSRRALERKVSSHTKPGADDGRKRKQTDDNVDTHLRNAKCHATMPSSSGEFREGSPIMSTISSSSINLQFEHMDANELAGSNREKVENNLTDSIRGSRNSVEVSSHNGKVDGPMIGDPRNKGLSFNSSNSKDAEKLAIEKIMSGPYVADQAFPLELDQLEDDLELKNQAKDFAGSTQNNSLGSCAVNIAAEATLTSMNGGSSSSALSPNGGLGELEVLSANLITSIGAFKVSTFL
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 ?
Query655 2.2.26 [Sep-21-2011]
Q54J73809 Poly(A) polymerase OS=Dic yes no 0.664 0.537 0.463 1e-112
Q9BWT3736 Poly(A) polymerase gamma yes no 0.598 0.532 0.443 5e-99
Q6PCL9739 Poly(A) polymerase gamma yes no 0.598 0.530 0.443 5e-99
Q61183739 Poly(A) polymerase alpha no no 0.587 0.520 0.461 7e-95
P51003745 Poly(A) polymerase alpha no no 0.6 0.527 0.457 7e-95
P25500739 Poly(A) polymerase alpha no no 0.592 0.525 0.460 2e-94
P51004715 Poly(A) polymerase alpha- N/A no 0.610 0.559 0.448 8e-94
Q9NRJ5636 Poly(A) polymerase beta O no no 0.705 0.726 0.403 8e-94
Q9WVP6641 Poly(A) polymerase beta O no no 0.706 0.722 0.398 2e-93
O42617558 Poly(A) polymerase PAPalp N/A no 0.499 0.586 0.469 1e-91
>sp|Q54J73|PAP_DICDI Poly(A) polymerase OS=Dictyostelium discoideum GN=papA PE=3 SV=1 Back     alignment and function desciption
 Score =  407 bits (1045), Expect = e-112,   Method: Compositional matrix adjust.
 Identities = 216/466 (46%), Positives = 284/466 (60%), Gaps = 31/466 (6%)

Query: 9   LIGLGYDKYSVHGPGADIDTLCVGPRHATREEDFFGELHQMLTEMPEVTELHPVPDAHVP 68
           +   G  +  VHGPG+DIDTLCVGP+H  R  DFF +L  +L   PE+TE   V DA VP
Sbjct: 130 IFTFGSYRLGVHGPGSDIDTLCVGPKHIMRS-DFFDDLSDILKVHPEITEFTTVKDAFVP 188

Query: 69  VMKFKFSGVSIDLLYARLSLWVIPEDL-DISQDSILQNADEQTVRSLNGCRVTDQILRLV 127
           V+   FSG+ IDL+YA+L+L  IPE+L D+  +S L+N DE+++ SLNGCRVTDQIL+LV
Sbjct: 189 VITMVFSGIPIDLIYAKLALTAIPEELNDLIDESFLKNIDEKSILSLNGCRVTDQILKLV 248

Query: 128 PKIQNFRTTLRCMRFWAKRRGVYSNVAGFLGGINWALLVARICQLYPNAVPSMLVSRFFR 187
           P I NFR  LRC++ WA RRG+YSN+ GFLGG++WALL ARICQLYPN+ PS ++ RFF+
Sbjct: 249 PNIPNFRMALRCIKLWAIRRGIYSNILGFLGGVSWALLTARICQLYPNSAPSTIIHRFFK 308

Query: 188 VYTQWRWPNPVLLCAIEEGS-LGLQVWDPRRNPKDKYHLMPIITPAYPCMNSSYNVSTST 246
           VY  W+WP P+LLC I+EG  LG +VW+P+R   DK HLMPIITPAYP MNS+YNVS ST
Sbjct: 309 VYEIWKWPAPILLCHIQEGGILGPKVWNPKR---DKAHLMPIITPAYPSMNSTYNVSKST 365

Query: 247 LRIMMDEFQRGHEICEAMEKNEADVDWDTLFEPFTFFEAYKNYLRIDISAENADDLRNWK 306
           L++M  EF RG EI   +E  E    W  L E   FF  Y  Y+ ID  + N +D R W+
Sbjct: 366 LQLMKSEFVRGAEITRKIETGEC--TWKNLLEKCDFFTRYSFYIEIDCYSMNEEDSRKWE 423

Query: 307 GWVESRLRQLTLKIERHTYNMLQCHPHPGDFSDK----SKP--LYCSYFMGLQRKQGVPV 360
           GW+ES+LR L   +E  T  M    P+P  F++     + P  +  S+FMGL        
Sbjct: 424 GWIESKLRFLISNLE-STPKMKFAVPYPKGFTNNLHKANNPDQICTSFFMGLSFNFSNTP 482

Query: 361 GEGEQFDIRLTVKEFKQAVSMYTLRKPG---MQISVAHVTRRNLPNFVFPGGVRPSRPSK 417
           G  +  D+   V EF   +  +   +P    M I V ++ ++ LP FV   G  P  P K
Sbjct: 483 GADKSVDLTKAVTEFTGIIKDWLRTQPNPDTMDIKVQYIKKKQLPAFVKDEG--PEEPVK 540

Query: 418 GTWDSRRALERKVSSHTKPGADDGRKRKQTDDNVDTHLRNAKCHAT 463
            T        +K SS  +P A    ++K   +N D  L + K   T
Sbjct: 541 TT--------KKRSSTGEPSA---TRKKLKSENSDNKLNSPKSPIT 575
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|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|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|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 ?
Query655
147795652 1097 hypothetical protein VITISV_015447 [Viti 0.949 0.567 0.726 0.0
359490984 757 PREDICTED: poly(A) polymerase-like [Viti 0.951 0.822 0.722 0.0
255567792 770 Poly(A) polymerase alpha, putative [Rici 0.934 0.794 0.692 0.0
449439435748 PREDICTED: poly(A) polymerase-like [Cucu 0.925 0.810 0.663 0.0
357521515 822 Poly(A) polymerase [Medicago truncatula] 0.948 0.755 0.619 0.0
356531174 757 PREDICTED: poly(A) polymerase-like [Glyc 0.952 0.824 0.647 0.0
356522834 757 PREDICTED: poly(A) polymerase-like [Glyc 0.879 0.760 0.662 0.0
357500153752 Poly(A) polymerase [Medicago truncatula] 0.948 0.825 0.618 0.0
224135441512 predicted protein [Populus trichocarpa] 0.647 0.828 0.839 0.0
297850192716 nucleotidyltransferase family protein [A 0.877 0.803 0.615 0.0
>gi|147795652|emb|CAN61208.1| hypothetical protein VITISV_015447 [Vitis vinifera] Back     alignment and taxonomy information
 Score =  942 bits (2435), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 458/630 (72%), Positives = 522/630 (82%), Gaps = 8/630 (1%)

Query: 10  IGLGYDKYSVHGPGADIDTLCVGPRHATREEDFFGELHQMLTEMPEVTELHPVPDAHVPV 69
           IG  +  Y+VHGPGADIDTLCVGPRHATREEDFFGELH+ML+EMPEVTELHPVPDAHVPV
Sbjct: 274 IGAWHVYYTVHGPGADIDTLCVGPRHATREEDFFGELHKMLSEMPEVTELHPVPDAHVPV 333

Query: 70  MKFKFSGVSIDLLYARLSLWVIPEDLDISQDSILQNADEQTVRSLNGCRVTDQILRLVPK 129
           M+FKFSGVSIDLLYA+LSLWVIPEDLD+SQDSILQNADEQTVRSLNGCRVTDQILRLVP 
Sbjct: 334 MRFKFSGVSIDLLYAKLSLWVIPEDLDVSQDSILQNADEQTVRSLNGCRVTDQILRLVPN 393

Query: 130 IQNFRTTLRCMRFWAKRRGVYSNVAGFLGGINWALLVARICQLYPNAVPSMLVSRFFRVY 189
           IQNFRTTLR MRFWAKRRGVYSNVAGFLGGINWALLVARICQLYPNA+PSMLVSRFFRVY
Sbjct: 394 IQNFRTTLRFMRFWAKRRGVYSNVAGFLGGINWALLVARICQLYPNALPSMLVSRFFRVY 453

Query: 190 TQWRWPNPVLLCAIEEGSLGLQVWDPRRNPKDKYHLMPIITPAYPCMNSSYNVSTSTLRI 249
           TQWRWPNPV+LCAIEEG+LGLQVWDPR+ PKD++HLMPIITPAYPCMNSSYNVS+STLRI
Sbjct: 454 TQWRWPNPVMLCAIEEGTLGLQVWDPRKYPKDRFHLMPIITPAYPCMNSSYNVSSSTLRI 513

Query: 250 MMDEFQRGHEICEAMEKNEADVDWDTLFEPFTFFEAYKNYLRIDISAENADDLRNWKGWV 309
           M +EF+RG+EI E ME N+A  DW TL EP+ FFEAYKNYL+I+I+AENADDLR WKGWV
Sbjct: 514 MSEEFKRGNEISEVMEANKA--DWXTLCEPYPFFEAYKNYLQIEIAAENADDLRKWKGWV 571

Query: 310 ESRLRQLTLKIERHTYNMLQCHPHPGDFSDKSKPLYCSYFMGLQRKQGVPVGEGEQFDIR 369
           ESRLRQLTLKIERHTYNMLQCHPHPGDFSDKS+P +C YFMGLQRKQGVP  EGEQFDIR
Sbjct: 572 ESRLRQLTLKIERHTYNMLQCHPHPGDFSDKSRPFHCCYFMGLQRKQGVPASEGEQFDIR 631

Query: 370 LTVKEFKQAVSMYTLRKPGMQISVAHVTRRNLPNFVFPGGVRPSRPSKGTWDSRRALERK 429
           LTV EFK +V MYTL KPGM+I V HV RRN+PNFVFPGGVRPSRP+K   + RR LE  
Sbjct: 632 LTVDEFKHSVGMYTLWKPGMEIHVIHVRRRNIPNFVFPGGVRPSRPTKVASERRRVLEPN 691

Query: 430 VSSHTK-PGADDGRKRKQTDDNVDTHLRNAKCHATMPSSSGEFREGSPIMSTISSSSINL 488
           VS+     GA+D +KRK+ D+NV+T+ RNAKC     SSS E    +P++ST+++ SI +
Sbjct: 692 VSTQAVLEGAEDSKKRKREDENVETNSRNAKCLVAAASSSHEVLSSNPLVSTVNACSIKV 751

Query: 489 QFEHMDANELAGSNREKVENNLTDSIRGSRNSVEVSSHNGKVDGPMIGDPRNKGLSFNSS 548
             + MD N L  + +EKVENN+   ++   NSVEV   NG+VDG +      K LS +  
Sbjct: 752 --DSMDINMLGKTRKEKVENNIEHGLKNLNNSVEVPPQNGEVDGSVRCSHPIKTLSSSGG 809

Query: 549 NSK--DAEKLAIEKIMSGPYVADQAFPLELDQLEDDLELKNQAKDFAGSTQNNSLGSCAV 606
           +    +AEK+AIEKIMSGPYV+ QAFP ELD+LEDD+E KNQ KDF GST+ +S  S   
Sbjct: 810 SPSSTEAEKIAIEKIMSGPYVSHQAFPGELDELEDDVEYKNQVKDFTGSTKGSSAESSKA 869

Query: 607 NIAAEATLTSMNGGSSSSALSPNGGLGELE 636
           N+A E  LT+ +G    + LSPNGGL ELE
Sbjct: 870 NVAEEP-LTTTSGTVPCTILSPNGGLEELE 898

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|359490984|ref|XP_002279968.2| PREDICTED: poly(A) polymerase-like [Vitis vinifera] Back     alignment and taxonomy information
>gi|255567792|ref|XP_002524874.1| Poly(A) polymerase alpha, putative [Ricinus communis] gi|223535837|gb|EEF37498.1| Poly(A) polymerase alpha, putative [Ricinus communis] Back     alignment and taxonomy information
>gi|449439435|ref|XP_004137491.1| PREDICTED: poly(A) polymerase-like [Cucumis sativus] gi|449521033|ref|XP_004167536.1| PREDICTED: poly(A) polymerase-like [Cucumis sativus] Back     alignment and taxonomy information
>gi|357521515|ref|XP_003631046.1| Poly(A) polymerase [Medicago truncatula] gi|355525068|gb|AET05522.1| Poly(A) polymerase [Medicago truncatula] Back     alignment and taxonomy information
>gi|356531174|ref|XP_003534153.1| PREDICTED: poly(A) polymerase-like [Glycine max] Back     alignment and taxonomy information
>gi|356522834|ref|XP_003530048.1| PREDICTED: poly(A) polymerase-like [Glycine max] Back     alignment and taxonomy information
>gi|357500153|ref|XP_003620365.1| Poly(A) polymerase [Medicago truncatula] gi|355495380|gb|AES76583.1| Poly(A) polymerase [Medicago truncatula] Back     alignment and taxonomy information
>gi|224135441|ref|XP_002322074.1| predicted protein [Populus trichocarpa] gi|222869070|gb|EEF06201.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
>gi|297850192|ref|XP_002892977.1| nucleotidyltransferase family protein [Arabidopsis lyrata subsp. lyrata] gi|297338819|gb|EFH69236.1| nucleotidyltransferase family protein [Arabidopsis lyrata subsp. lyrata] 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 ?
Query655
TAIR|locus:2030943713 PAPS1 "poly(A) polymerase 1" [ 0.645 0.593 0.803 1.8e-190
TAIR|locus:2134113765 nPAP "nuclear poly(a) polymera 0.777 0.665 0.576 5.6e-155
TAIR|locus:2043560800 PAPS2 "poly(A) polymerase 2" [ 0.700 0.573 0.604 1.4e-151
DICTYBASE|DDB_G0288259809 papA "poly(A) polymerase" [Dic 0.658 0.532 0.467 1.4e-101
ZFIN|ZDB-GENE-040426-1256744 papolg "poly(A) polymerase gam 0.613 0.540 0.466 2.2e-96
UNIPROTKB|Q9BWT3736 PAPOLG "Poly(A) polymerase gam 0.622 0.554 0.434 8.8e-96
ZFIN|ZDB-GENE-030131-3507723 papola "poly(A) polymerase alp 0.622 0.564 0.453 9.9e-95
RGD|1310337739 Papolg "poly(A) polymerase gam 0.647 0.573 0.433 1.8e-93
UNIPROTKB|A5D7N5740 PAPOLG "Uncharacterized protei 0.680 0.602 0.415 5e-92
UNIPROTKB|F1SQL7741 PAPOLG "Uncharacterized protei 0.680 0.601 0.411 1.3e-91
TAIR|locus:2030943 PAPS1 "poly(A) polymerase 1" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 1846 (654.9 bits), Expect = 1.8e-190, P = 1.8e-190
 Identities = 343/427 (80%), Positives = 374/427 (87%)

Query:    13 GYDKYSVHGPGADIDTLCVGPRHATREEDFFGELHQMLTEMPEVTELHPVPDAHVPVMKF 72
             G  +  VHGPGADIDTLCVGPRHATRE DFFGEL +ML+EMPEVTELHPVPDAHVP+M F
Sbjct:    92 GSYRLGVHGPGADIDTLCVGPRHATREGDFFGELQRMLSEMPEVTELHPVPDAHVPLMGF 151

Query:    73 KFSGVSIDLLYARLSLWVIPEDLDISQDSILQNADEQTVRSLNGCRVTDQILRLVPKIQN 132
             K +GVSIDLLYA+L LWVIPEDLD+SQDSILQNADEQTVRSLNGCRVTDQILRLVP IQN
Sbjct:   152 KLNGVSIDLLYAQLPLWVIPEDLDLSQDSILQNADEQTVRSLNGCRVTDQILRLVPNIQN 211

Query:   133 FRTTLRCMRFWAKRRGVYSNVAGFLGGINWALLVARICQLYPNAVPSMLVSRFFRVYTQW 192
             FRTTLRCMRFWAKRRGVYSNV+GFLGGINWALLVARICQLYPNA+P++LVSRFFRV+ QW
Sbjct:   212 FRTTLRCMRFWAKRRGVYSNVSGFLGGINWALLVARICQLYPNALPNILVSRFFRVFYQW 271

Query:   193 RWPNPVLLCAIEEGSLGLQVWDPRRNPKDKYHLMPIITPAYPCMNSSYNVSTSTLRIMMD 252
              WPN + LC+ +EGSLGLQVWDPR NPKD+ H+MPIITPAYPCMNSSYNVS STLRIM  
Sbjct:   272 NWPNAIFLCSPDEGSLGLQVWDPRINPKDRLHIMPIITPAYPCMNSSYNVSESTLRIMKG 331

Query:   253 EFQRGHEICEAMEKNEADVDWDTLFEPFTFFEAYKNYLRIDISAENADDLRNWKGWVESR 312
             EFQRG+EICEAME N+AD  WDTLFEPF FFEAYKNYL+IDISA N DDLR WKGWVESR
Sbjct:   332 EFQRGNEICEAMESNKAD--WDTLFEPFAFFEAYKNYLQIDISAANVDDLRKWKGWVESR 389

Query:   313 LRQLTLKIERHTYNMLQCHPHPGDFSDKSKPLYCSYFMGLQRKQGVPVGEGEQFDIRLTV 372
             LRQLTLKIERH + ML CHPHP DF D S+PL+CSYFMGLQRKQGVP  EGEQFDIR TV
Sbjct:   390 LRQLTLKIERH-FKMLHCHPHPHDFQDTSRPLHCSYFMGLQRKQGVPAAEGEQFDIRRTV 448

Query:   373 KEFKQAVSMYTLRKPGMQISVAHVTRRNLPNFVFPGGVRPSRPSKGTWDS-RRALERKVS 431
             +EFK  V+ YTL  PGM+ISV H+ RR+LPNFVFPGGVRPS  SKGTWDS RR+  R  S
Sbjct:   449 EEFKHTVNAYTLWIPGMEISVGHIKRRSLPNFVFPGGVRPSHTSKGTWDSNRRSEHRNSS 508

Query:   432 SHTKPGA 438
             + + P A
Sbjct:   509 TSSAPAA 515
GO:0003723 "RNA binding" evidence=IEA
GO:0004652 "polynucleotide adenylyltransferase activity" evidence=IEA
GO:0005634 "nucleus" evidence=ISM;IEA;IDA
GO:0016779 "nucleotidyltransferase activity" evidence=IEA;ISS
GO:0005515 "protein binding" evidence=IPI
GO:0043631 "RNA polyadenylation" evidence=IDA
GO:0000278 "mitotic cell cycle" evidence=RCA
GO:0006396 "RNA 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
DICTYBASE|DDB_G0288259 papA "poly(A) polymerase" [Dictyostelium discoideum (taxid:44689)] 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|Q9BWT3 PAPOLG "Poly(A) polymerase gamma" [Homo sapiens (taxid:9606)] Back     alignment and assigned GO terms
ZFIN|ZDB-GENE-030131-3507 papola "poly(A) polymerase alpha" [Danio rerio (taxid:7955)] Back     alignment and assigned GO terms
RGD|1310337 Papolg "poly(A) polymerase gamma" [Rattus norvegicus (taxid:10116)] 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

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 ?
Query655
pfam04928349 pfam04928, PAP_central, Poly(A) polymerase central 1e-167
PTZ00418593 PTZ00418, PTZ00418, Poly(A) polymerase; Provisiona 1e-164
COG5186552 COG5186, PAP1, Poly(A) polymerase [RNA processing 1e-133
pfam04926141 pfam04926, PAP_RNA-bind, Poly(A) polymerase predic 2e-47
cd05402114 cd05402, NT_PAP_TUTase, Nucleotidyltransferase (NT 2e-18
pfam0190992 pfam01909, NTP_transf_2, Nucleotidyltransferase do 0.001
>gnl|CDD|203124 pfam04928, PAP_central, Poly(A) polymerase central domain Back     alignment and domain information 
 Score =  481 bits (1241), Expect = e-167
 Identities = 166/268 (61%), Positives = 208/268 (77%), Gaps = 3/268 (1%)

Query: 13  GYDKYSVHGPGADIDTLCVGPRHATREEDFFGELHQMLTEMPEVTELHPVPDAHVPVMKF 72
           G  +  VHGPG+DIDTLCV P+H TRE DFF   +++L   PEVTEL PV DA VP++KF
Sbjct: 85  GSYRLGVHGPGSDIDTLCVAPKHVTRE-DFFSSFYEILKLRPEVTELVPVEDAFVPIIKF 143

Query: 73  KFSGVSIDLLYARLSLWVIPEDLDISQDSILQNADEQTVRSLNGCRVTDQILRLVPKIQN 132
           KF G+ IDLL+A L+L  +P+DLD+  DS+L+N DE++VRSLNGCRVTD+ILRLVP    
Sbjct: 144 KFDGIEIDLLFASLALPRVPDDLDLLDDSLLRNLDEKSVRSLNGCRVTDEILRLVPNKDV 203

Query: 133 FRTTLRCMRFWAKRRGVYSNVAGFLGGINWALLVARICQLYPNAVPSMLVSRFFRVYTQW 192
           FRT LR ++ WAKRRG+YSNV GFLGG+ WA+LVAR+CQLYPNA PS LV +FFR+++QW
Sbjct: 204 FRTALRAIKLWAKRRGIYSNVLGFLGGVAWAILVARVCQLYPNASPSTLVRKFFRIFSQW 263

Query: 193 RWPNPVLLCAIEEGSLGLQVWDPRRNPKDKYHLMPIITPAYPCMNSSYNVSTSTLRIMMD 252
           +WPNPVLL  IEEG L  +VWDPR  P D+YHLMPIITPAYP MNS++NV+ STL+++ +
Sbjct: 264 QWPNPVLLKPIEEGPLNFRVWDPRLYPSDRYHLMPIITPAYPSMNSTHNVTRSTLKVITE 323

Query: 253 EFQRGHEICEAMEKNEADVDWDTLFEPF 280
           EF+RG EI   +   +A   W  LFEP 
Sbjct: 324 EFKRGLEITSEILLGKA--PWSDLFEPH 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|218331 pfam04926, PAP_RNA-bind, Poly(A) polymerase predicted RNA binding domain 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|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 655
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 99.97
COG5260482 TRF4 DNA polymerase sigma [DNA replication, recomb 99.92
KOG1906514 consensus DNA polymerase sigma [Replication, recom 99.9
cd05402114 NT_PAP_TUTase Nucleotidyltransferase (NT) domain o 99.7
KOG2277596 consensus S-M checkpoint control protein CID1 and 99.6
TIGR03671408 cca_archaeal CCA-adding enzyme. 99.23
PRK13300447 tRNA CCA-pyrophosphorylase; Provisional 99.19
PF03813 972 Nrap: Nrap protein; InterPro: IPR005554 Members of 99.04
COG1746443 CCA1 tRNA nucleotidyltransferase (CCA-adding enzym 98.46
KOG2054 1121 consensus Nucleolar RNA-associated protein (NRAP) 98.14
smart00572246 DZF domain in DSRM or ZnF_C2H2 domain containing p 98.11
cd05400143 NT_2-5OAS_ClassI-CCAase Nucleotidyltransferase (NT 97.63
PF0190993 NTP_transf_2: Nucleotidyltransferase domain A subs 97.09
PF0382860 PAP_assoc: Cid1 family poly A polymerase; InterPro 97.06
cd0539749 NT_Pol-beta-like Nucleotidyltransferase (NT) domai 97.02
cd0540393 NT_KNTase_like Nucleotidyltransferase (NT) domain 96.27
PF14091152 DUF4269: Domain of unknown function (DUF4269) 96.17
PF09249114 tRNA_NucTransf2: tRNA nucleotidyltransferase, seco 95.98
PF03813972 Nrap: Nrap protein; InterPro: IPR005554 Members of 95.91
COG1708128 Predicted nucleotidyltransferases [General functio 93.7
cd00141307 NT_POLXc Nucleotidyltransferase (NT) domain of fam 93.17
PF07528248 DZF: DZF domain; InterPro: IPR006561 This domain i 93.12
PRK13746262 aminoglycoside resistance protein; Provisional 92.1
COG166997 Predicted nucleotidyltransferases [General functio 90.96
COG1665315 Predicted nucleotidyltransferase [General function 86.51
PRK02098221 phosphoribosyl-dephospho-CoA transferase; Provisio 85.9
TIGR03135202 malonate_mdcG holo-ACP synthase, malonate decarbox 84.45
cd05401172 NT_GlnE_GlnD_like Nucleotidyltransferase (NT) doma 83.53
PF10421190 OAS1_C: 2'-5'-oligoadenylate synthetase 1, domain 82.66
>KOG2245 consensus Poly(A) polymerase and related nucleotidyltransferases [RNA processing and modification] Back     alignment and domain information 
Probab=100.00  E-value=1.1e-130  Score=1054.03  Aligned_cols=405  Identities=57%  Similarity=1.009  Sum_probs=386.9

Q ss_pred             CCCcEEEEeeccccCCcCCCCCeeEEEEcCCCCCchhhHHHHHHHHHhcCCCceeEeeecCCCcceEEEEEcCeeeeEEe
Q 006232            4 YLPLVLIGLGYDKYSVHGPGADIDTLCVGPRHATREEDFFGELHQMLTEMPEVTELHPVPDAHVPVMKFKFSGVSIDLLY   83 (655)
Q Consensus         4 ~p~~~L~~FGSyrLGV~~p~SDID~lcv~P~~vtr~edFF~~l~~~L~~~~~V~~l~~V~~ArVPIIKf~~~GI~IDL~f   83 (655)
                      --+++||||||||||||+||||||+|||+|+|++|+ |||..|+++|+++++|++|++|++|+||||||+|+||+|||+|
T Consensus        87 ~aggkIftfGSYRLGVhg~GADIDtLcV~Prhv~R~-DFF~sf~~mL~~~~eVteL~~V~dAfVPiikfKf~GI~IDllf  165 (562)
T KOG2245|consen   87 NAGGKIFTFGSYRLGVHGPGADIDTLCVGPRHVSRS-DFFTSFYDMLKERPEVTELHAVEDAFVPIIKFKFDGIEIDLLF  165 (562)
T ss_pred             hcCceEEeccceeecccCCCCCcceeeeccccccHH-HHHHHHHHHHhcCccccccccccccccceEEEEecCeeeeeee
Confidence            357899999999999999999999999999999996 9999999999999999999999999999999999999999999


Q ss_pred             eeccccccCCCCCCChhhhhccchhhhhhhccchhhHHHHHHhcCCchhHHHHHHHHHHHHHHcCCCCCCCcccchHHHH
Q 006232           84 ARLSLWVIPEDLDISQDSILQNADEQTVRSLNGCRVTDQILRLVPKIQNFRTTLRCMRFWAKRRGVYSNVAGFLGGINWA  163 (655)
Q Consensus        84 a~l~~~~ipe~ldl~~d~lL~~lDe~svrSLNG~Rvtd~IlrlVPn~~~FR~lLR~IK~WAKrRGIYsn~~GfLGGiswA  163 (655)
                      |+|++++||+++||+||++|+++||+|+||||||||||+||+|||+.+.||.+|||||+|||+||||||.+||||||+||
T Consensus       166 ArL~l~~VP~dldl~ddslLknlDe~~vrSLNGcRVtdqiL~LVPn~~~F~~tLRaiKlWAKrrgVYsN~~GF~GGV~wA  245 (562)
T KOG2245|consen  166 ARLALPVVPEDLDLSDDSLLKNLDERCVRSLNGCRVTDQILKLVPNQENFRITLRAIKLWAKRRGVYSNVMGFLGGVAWA  245 (562)
T ss_pred             hhcccccCCCcccccchHhhhcccHHHHHHhcCcCHHHHHHHhCCCHHHHHHHHHHHHHHHHhcccccccccccchHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhhCCCCCHHHHHHHHHHhhccCCCCCceeecccccCCCcccccCCCCCCCCCCCceeeeCCCCCCCCcccccC
Q 006232          164 LLVARICQLYPNAVPSMLVSRFFRVYTQWRWPNPVLLCAIEEGSLGLQVWDPRRNPKDKYHLMPIITPAYPCMNSSYNVS  243 (655)
Q Consensus       164 ILVArvcQlyPnas~s~LL~~FF~~Ys~WdWp~PV~L~~i~~g~lg~~vWdP~~~~~dr~hlMpIiTPa~P~~Nsa~NVs  243 (655)
                      |||||+|||||||+++.||.+||.+|++|+||+||+|+.+++|.++++||||+.|+.||||+|||||||||+||+|||||
T Consensus       246 ~LVARiCQLYPNA~~s~Lv~kfF~ifs~W~WP~PVlL~~ie~~~L~~~VWdPr~n~~DryHlMPIITPAyP~~nsthNVS  325 (562)
T KOG2245|consen  246 MLVARICQLYPNASPSTLVAKFFRVFSQWNWPNPVLLKPIEEGNLNLPVWDPRVNPSDRYHLMPIITPAYPQMNSTHNVS  325 (562)
T ss_pred             HHHHHHHccCCCcchHHHHHHHHHHHhhccCCCceEeccccccccCccccCCCCCCCCcceecccccCCccccccccccc
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHHHHHHHHhccCCCCCccccCccchhhhcccEEEEEEEecChhhhcchhhhhHHHHHHHHHHHhhc
Q 006232          244 TSTLRIMMDEFQRGHEICEAMEKNEADVDWDTLFEPFTFFEAYKNYLRIDISAENADDLRNWKGWVESRLRQLTLKIERH  323 (655)
Q Consensus       244 ~STl~vI~~EF~RA~~Il~~i~~~~~~~~W~~Lfep~~FF~~Yk~yl~I~v~a~~~e~~~~w~GwVESRlR~Lv~~LE~~  323 (655)
                      +||+++|++||+||++||++|+.++.  +|.+|||+++||.+|||||+|+++|.++|++.+|.||||||+|.|+.+||++
T Consensus       326 ~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  326 RSTLKVITEEFKRGLEICDDIELNKL--DWSDLFELYNFFSRYKHYLQITASAATEEDLLKWVGWVESRIRQLVLKLERN  403 (562)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhccc--cHHHHhhhhHHHHHHhhHheeeeeccChHHHhhhhhHHHHHHHHHHHHHHhh
Confidence            99999999999999999999999998  9999999999999999999999999999999999999999999999999996


Q ss_pred             cccceeeccCCCCCCCCCC-----CcEEEEEEeeeeccCCCCCCCceechHHHHHHHHHHHH----hhccCCCC--cEEE
Q 006232          324 TYNMLQCHPHPGDFSDKSK-----PLYCSYFMGLQRKQGVPVGEGEQFDIRLTVKEFKQAVS----MYTLRKPG--MQIS  392 (655)
Q Consensus       324 ~~~~l~ahp~P~~f~~~~~-----~~~~~yfIGL~~~~~~~~~~~~~~DL~~~v~eF~~~v~----~~~~~~~g--m~i~  392 (655)
                      . .++.|||+|+.|.++..     .|...|||||.+..+      .++||+..+++|+..|+    +++.++.|  |++.
T Consensus       404 ~-~i~~ahp~P~~f~~~~~~~~~~~~~~~~~igl~~~e~------~~~Dlt~~iq~f~~~v~~q~~~~~~~~~g~~~~~~  476 (562)
T KOG2245|consen  404 Q-VILIAHPNPKKFKDTYNCPLEEDPESLWFIGLEFDEN------VKIDLTKDIQSFKKNVERQAVNLTLIKAGCDVEID  476 (562)
T ss_pred             c-ceEEecCCcccccccccCCcccchhHhhhhccccccc------ccchhhhhHHHhhhhhhhcceeeeeeecccccccc
Confidence            4 67899999999997642     456789999987653      34999999999999998    67888899  7788


Q ss_pred             EEEecCCCCCCCcCCCCCCCCCCCCC
Q 006232          393 VAHVTRRNLPNFVFPGGVRPSRPSKG  418 (655)
Q Consensus       393 v~~Vkr~~LP~~v~~~~~~~~~~~k~  418 (655)
                      +.|+||++|+.++++.+.|..|..|.
T Consensus       477 ~~~~krr~l~~~~~~~~l~~~k~~~~  502 (562)
T KOG2245|consen  477 FGHVKRRSLIQTITKEFLRLCKQYKK  502 (562)
T ss_pred             cccccccccccccCHHHhhHHHhhcc
Confidence            88999999999999999887765553

>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
>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
>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
>TIGR03671 cca_archaeal CCA-adding enzyme Back     alignment and domain information
>PRK13300 tRNA CCA-pyrophosphorylase; Provisional 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
>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
>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
>cd05397 NT_Pol-beta-like Nucleotidyltransferase (NT) domain of DNA polymerase beta and similar proteins 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
>PF14091 DUF4269: Domain of unknown function (DUF4269) 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
>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
>COG1708 Predicted nucleotidyltransferases [General function prediction only] Back     alignment and domain information
>cd00141 NT_POLXc Nucleotidyltransferase (NT) domain of family X DNA Polymerases 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
>PRK13746 aminoglycoside resistance protein; Provisional Back     alignment and domain information
>COG1669 Predicted nucleotidyltransferases [General function prediction only] Back     alignment and domain information
>COG1665 Predicted nucleotidyltransferase [General function prediction only] 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
>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
>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

Homologous Structure Templates

Structure Templates Detected by BLAST ?

Original result of BLAST against Protein Data Bank

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query655
1q79_A514 Crystal Structure Of Mammalian Poly(A) Polymerase L 1e-94
1q78_A514 Crystal Structure Of Poly(A) Polymerase In Complex 3e-94
1f5a_A513 Crystal Structure Of Mammalian Poly(A) Polymerase L 9e-89
2o1p_A546 Structure Of Yeast Poly(A) Polymerase In A Somewhat 6e-86
1fa0_A537 Structure Of Yeast Poly(A) Polymerase Bound To Mang 6e-86
2hhp_A530 Structure Of Yeast Poly(A) Polymerase In A Closed C 7e-86
2q66_A525 Structure Of Yeast Poly(A) Polymerase With Atp And 6e-85
>pdb|1Q79|A Chain A, Crystal Structure Of Mammalian Poly(A) Polymerase Length = 514 Back     alignment and structure 
Iteration: 1

 Score =  343 bits (881), Expect = 1e-94,   Method: Compositional matrix adjust.
 Identities = 185/402 (46%), Positives = 249/402 (61%), Gaps = 14/402 (3%)
Query: 9   LIGLGYDKYSVHGPGADIDTLCVGPRHATREEDFFGELHQMLTEMPEVTELHPVPDAHVP 68
           +   G  +  VH  GADID LCV PRH  R  DFF   +  L    EV +L  V +A VP
Sbjct: 97  IFTFGSYRLGVHTKGADIDALCVAPRHVDRS-DFFTSFYDKLKLQEEVKDLRAVEEAFVP 155
Query: 69  VMKFKFSGVSIDLLYARLSLWVIPEDLDISQDSILQNADEQTVRSLNGCRVTDQILRLVP 128
           V+K  F G+ ID+L+ARL+L  IPEDLD+  DS+L+N D + +RSLNGCRVTD+IL LVP
Sbjct: 156 VIKLXFDGIEIDILFARLALQTIPEDLDLRDDSLLKNLDIRXIRSLNGCRVTDEILHLVP 215
Query: 129 KIQNFRTTLRCMRFWAKRRGVYSNVAGFLGGINWALLVARICQLYPNAVPSMLVSRFFRV 188
            I NFR TLR ++ WAKR  +YSN+ GFLGG++WA+LVAR CQLYPNA+ S LV +FF V
Sbjct: 216 NIDNFRLTLRAIKLWAKRHNIYSNILGFLGGVSWAMLVARTCQLYPNAIASTLVHKFFLV 275
Query: 189 YTQWRWPNPVLLCAIEEGSLGLQVWDPRRNPKDKYHLMPIITPAYPCMNSSYNVSTSTLR 248
           +++W WPNPVLL   EE +L L VWDPR NP D+YHLMPIITPAYP  NS+YNVS ST  
Sbjct: 276 FSKWEWPNPVLLKQPEECNLNLPVWDPRVNPSDRYHLMPIITPAYPQQNSTYNVSVSTRM 335
Query: 249 IMMDEFQRGHEICEAMEKNEADVDWDTLFEPFTFFEAYKNYLRIDISAENADDLRNWKGW 308
           +M++EF++G  I + +  ++A  +W  LFE   FF+ YK+Y+ +  SA        W G 
Sbjct: 336 VMVEEFKQGLAITDEILLSKA--EWSKLFEAPNFFQKYKHYIVLLASAPTEKQRLEWVGL 393
Query: 309 VESRLRQLTLKIERHTYNML-----QCHPHPGDFSDKSKPLYCSYFMGLQRKQGVPVGEG 363
           VES++R L   +E++ +  L     Q  P P +  DK +     + +GL  K+     E 
Sbjct: 394 VESKIRILVGSLEKNEFITLAHVNPQSFPAPKENPDKEE-FRTMWVIGLVFKK-TENSEN 451
Query: 364 EQFDIRLTVKEFKQAVSMYTLR----KPGMQISVAHVTRRNL 401
              D+   ++ F   V    +     +  M+I+  HV R+ L
Sbjct: 452 LSVDLTYDIQSFTDTVYRQAINSKMFEVDMKIAAMHVKRKQL 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|2O1P|A Chain A, Structure Of Yeast Poly(A) Polymerase In A Somewhat Closed State Length = 546 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|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

Structure Templates Detected by RPS-BLAST ?

Original result of RPS-BLAST against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query655
1q79_A514 Poly(A) polymerase alpha; mRNA processing, nucleot 1e-153
2hhp_A530 Poly(A) polymerase; template-independent RNA polym 1e-145
3nyb_A323 Poly(A) RNA polymerase protein 2; polya RNA polyme 2e-12
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 6e-10
4e8f_A405 Poly(A) RNA polymerase protein CID1; beta polymera 2e-05
4ep7_A340 Poly(A) RNA polymerase protein CID1; poly(U) polym 3e-05
2b4v_A468 RNA editing complex protein MP57; tbret2, TBMP57, 2e-04
>2hhp_A Poly(A) polymerase; template-independent RNA polymerase, transferase; HET: FLC; 1.80A {Saccharomyces cerevisiae} SCOP: a.160.1.1 d.218.1.3 d.58.16.1 PDB: 1fa0_A* 3c66_A* 2o1p_A 2q66_A* Length = 530 Back     alignment and structure
>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
>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
>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
>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 ?
Query655
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
2ikf_A353 RNA uridylyl transferase; tutase, nucleotidyltrans 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
2b4v_A468 RNA editing complex protein MP57; tbret2, TBMP57, 100.0
3pq1_A464 Poly(A) RNA polymerase; nucleotidyl transferase, R 99.97
3hj4_A384 Minor editosome-associated tutase; nucleotidyltran 99.97
1r89_A437 TRNA nucleotidyltransferase; CCA adding enzyme, in 98.94
1px5_A349 2'-5'-oligoadenylate synthetase 1; 5-stranded anti 98.78
1no5_A114 Hypothetical protein HI0073; structural genomics, 96.62
1ylq_A96 Putative nucleotidyltransferase, hypothetical Pro 96.3
1wot_A98 Putative minimal nucleotidyltransferase; alpha and 95.53
2rff_A111 Putative nucleotidyltransferase; NP_343093.1, nucl 95.26
4at7_A364 Interleukin enhancer-binding factor 2; transcripti 93.74
1jaj_A174 DNA polymerase beta-like protein; CIS peptide, vir 92.84
4at7_B383 NF90, interleukin enhancer-binding factor 3; trans 92.7
2fmp_A335 DNA polymerase beta; nucleotidyl transferase, tran 92.52
2bcq_A335 DNA polymerase lambda; misalignment, extrahelical, 91.75
4ebj_A272 Aminoglycoside nucleotidyltransferase; structural 88.98
1kny_A253 Kntase, kanamycin nucleotidyltransferase; antibiot 88.82
2ihm_A360 POL MU, DNA polymerase MU; helix-turn-helix, trans 88.04
3b0x_A575 DNA polymerase beta family (X family); structural 82.97
1jms_A381 Terminal deoxynucleotidyltransferase; polymerase; 81.42
>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
>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
>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
>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
>2rff_A Putative nucleotidyltransferase; NP_343093.1, nucleotidyltransferase domain, structural genomics; HET: MSE; 1.40A {Sulfolobus solfataricus P2} 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
>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
>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
>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
>2ihm_A POL MU, DNA polymerase MU; helix-turn-helix, transferase/DNA complex; HET: DNA D3T; 2.40A {Mus musculus} 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 655
d2q66a1150 a.160.1.1 (A:202-351) Poly(A) polymerase, PAP, mid 2e-85
d1q79a1150 a.160.1.1 (A:215-364) Poly(A) polymerase, PAP, mid 7e-83
d1q79a2196 d.218.1.3 (A:19-214) Poly(A) polymerase, PAP, N-te 5e-51
d2q66a2197 d.218.1.3 (A:5-201) Poly(A) polymerase, PAP, N-ter 9e-49
d1q79a3134 d.58.16.1 (A:365-498) Poly(A) polymerase, PAP, C-t 9e-39
d2q66a3178 d.58.16.1 (A:352-529) Poly(A) polymerase, PAP, C-t 5e-37
d2b4va1183 a.160.1.4 (A:289-471) RNA editing terminal uridyl 2e-19
>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 =  262 bits (671), Expect = 2e-85
 Identities = 71/151 (47%), Positives = 107/151 (70%), Gaps = 2/151 (1%)

Query: 128 PKIQNFRTTLRCMRFWAKRRGVYSNVAGFLGGINWALLVARICQLYPNAVPSMLVSRFFR 187
           PK   FR  LR ++ WA+RR VY+N+ GF GG+ WA+LVARICQLYPNA  +++++RFF 
Sbjct: 1   PKPNVFRIALRAIKLWAQRRAVYANIFGFPGGVAWAMLVARICQLYPNACSAVILNRFFI 60

Query: 188 VYTQWRWPNPVLLCAIEEGSLGLQVWDPRRNPKDKYHLMPIITPAYPCMNSSYNVSTSTL 247
           + ++W WP PV+L  IE+G L ++VW+P+   +D+ H MP+ITPAYP M +++N++ ST 
Sbjct: 61  ILSEWNWPQPVILKPIEDGPLQVRVWNPKIYAQDRSHRMPVITPAYPSMCATHNITESTK 120

Query: 248 RIMMDEFQRGHEICEAMEKNEADVDWDTLFE 278
           ++++ EF RG +I   +  N+    W  LFE
Sbjct: 121 KVILQEFVRGVQITNDIFSNKK--SWANLFE 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
>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
>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

Homologous Domains Detected by HHsearch ?

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

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query655
d1q79a1150 Poly(A) polymerase, PAP, middle domain {Cow (Bos t 100.0
d2q66a1150 Poly(A) polymerase, PAP, middle domain {Baker's ye 100.0
d1q79a2196 Poly(A) polymerase, PAP, N-terminal domain {Cow (B 100.0
d2q66a2197 Poly(A) polymerase, PAP, N-terminal domain {Baker' 100.0
d2q66a3178 Poly(A) polymerase, PAP, C-terminal domain {Baker' 99.96
d1q79a3134 Poly(A) polymerase, PAP, C-terminal domain {Cow (B 99.96
d2b4va1183 RNA editing terminal uridyl transferase 2, TUTase 99.87
d1no5a_100 Hypothetical protein HI0073 {Haemophilus influenza 97.57
d1r89a2142 tRNA nucleotidyltransferase, N-terminal domain {Ar 97.4
d1ylqa190 Putative nucleotidyltransferase AF0614 {Archaeon A 97.31
d2b4va2259 RNA editing terminal uridyl transferase 2, TUTase 96.67
d1wota_98 Unnamed putative nucleotidyltransferase {Thermus t 95.84
d1r89a1115 tRNA nucleotidyltransferase, second domain {Archae 95.81
d2bcqa3190 DNA polymerase lambda {Human (Homo sapiens) [TaxId 94.88
d2fmpa3187 DNA polymerase beta, catalytic (31 kD) fragment {H 93.85
d1knya2125 Kanamycin nucleotidyltransferase (KNTase), N-termi 92.83
d1jmsa4208 Terminal deoxynucleotidyl transferase {Mouse (Mus 90.97
d1px5a1146 2'-5'-oligoadenylate synthetase 1, OAS1, second do 86.69
>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=1.5e-56  Score=421.43  Aligned_cols=150  Identities=59%  Similarity=1.142  Sum_probs=146.8

Q ss_pred             CCchhHHHHHHHHHHHHHHcCCCCCCCcccchHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCCCCCceeecccccCC
Q 006232          128 PKIQNFRTTLRCMRFWAKRRGVYSNVAGFLGGINWALLVARICQLYPNAVPSMLVSRFFRVYTQWRWPNPVLLCAIEEGS  207 (655)
Q Consensus       128 Pn~~~FR~lLR~IK~WAKrRGIYsn~~GfLGGiswAILVArvcQlyPnas~s~LL~~FF~~Ys~WdWp~PV~L~~i~~g~  207 (655)
                      ||.++||.+|||||+|||+||||||++||||||+|||||||+||+|||+++++||.+||.+|++|+||+||+|++++++.
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            78999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CcccccCCCCCCCCCCCceeeeCCCCCCCCcccccChhhHHHHHHHHHHHHHHHHHHHhccCCCCCccccCc
Q 006232          208 LGLQVWDPRRNPKDKYHLMPIITPAYPCMNSSYNVSTSTLRIMMDEFQRGHEICEAMEKNEADVDWDTLFEP  279 (655)
Q Consensus       208 lg~~vWdP~~~~~dr~hlMpIiTPa~P~~Nsa~NVs~STl~vI~~EF~RA~~Il~~i~~~~~~~~W~~Lfep  279 (655)
                      +++++|||+.+++|++|+||||||+||++|+|+|||.||+++|++||+||++|++++..++.  +|++|||.
T Consensus        81 ~~~~~w~pr~~~~dr~~lMpIiTPayP~~Nst~nvt~st~~~i~~E~~ra~~i~~~i~~~~~--~W~~Lfe~  150 (150)
T d1q79a1          81 LNLPVWDPRVNPSDRYHLMPIITPAYPQQNSTYNVSVSTRMVMVEEFKQGLAITDEILLSKA--EWSKLFEA  150 (150)
T ss_dssp             SCCCCCCTTTCGGGGGCSSCBBCSSSSCCBTTTTCCHHHHHHHHHHHHHHHHHHHHHHTTSS--CHHHHTCC
T ss_pred             CCCCCCCCCCCCcccccccccccCCCCcccccccccHHHHHHHHHHHHHHHHHHHHHHhCCC--CHHHHhcC
Confidence            99999999999999999999999999999999999999999999999999999999998877  99999983
>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
>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
>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
>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
>d1no5a_ d.218.1.5 (A:) Hypothetical protein HI0073 {Haemophilus influenzae [TaxId: 727]} 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
>d1ylqa1 d.218.1.5 (A:1-90) Putative nucleotidyltransferase AF0614 {Archaeon Archaeoglobus fulgidus [TaxId: 2234]} 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
>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
>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
>d1knya2 d.218.1.1 (A:1-125) Kanamycin nucleotidyltransferase (KNTase), N-terminal domain {Staphylococcus aureus [TaxId: 1280]} 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
>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