Citrus Sinensis ID: 020620

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---
MGSYNVLEPILKDILGMLNPLREDWETRMKVISDLREVVESVESLRGATVEPFGSFVSNLFSRWGDLDISIELSNGSCISSAGKKVKQSLLGDLLRALRQKGGYRRLQFVAHARVPILKFETIHQNISCDISIDNLCGQIKSKFLFWISQIDGRFRDMVLLVKEWAKAHDINNPKTGTFNSYSLSLLVLFHFQTCVPAILPPLKDIYPGNLVDDLKGVRANAERQIAEICAFNIARFSSDKYRKINRSSLAHLFVSFLEKFSGLSLKASELGICPFTGQWEHIRSNTRWLPNNHPLFVNSPFPFRLLLIFCLPLTIITTLNSY
cccHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHHccccccEEEEEccccccccccccccccEEEccccccccccHHHHHHHHHHHHHHHHHHcccccEEEEccccccEEEEEEEccccEEEEEEEEcHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHccccccccccccHHHHHHHHHHHHHcccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHccccccccccccccHHHHHHHHHHcccccccccccEEEEcccccccccccccccccccccEEEEcccccccccccccccccccccccc
cccHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHHccccccEEEEEEcccccccccccccEEEEEEccccccccHHHHHHHHHHHHHHHHHHHccccEEEEEccccEcEEEEEEcccccEEEEEEEccHHHHHHHHHHHHHHHccHHHHHHHHHHHHHHHHccccccccccccHHHHHHHHHHHHHHccccccccHHHHccccccccccccccccHcccccccccccccHccccccccccccHHHHHHHHHHHHHcEccccccEEEEEEcccEEEccccccccccccEEEEEccccHHHHHHHHcccHEEEEcccc
mgsynvlePILKDILGMLNPLREDWETRMKVISDLREVVESVEslrgatvepfgSFVSNLFsrwgdldisielsngscissagKKVKQSLLGDLLRALRQKGGYRRLQFVAHARVPILKFETIHQNISCDISIDNLCGQIKSKFLFWISQIDGRFRDMVLLVKEWAKahdinnpktgtfnsYSLSLLVLFHFQtcvpailpplkdiypgnlvddlkGVRANAERQIAEICAFNiarfssdkyRKINRSSLAHLFVSFLEKFsglslkaselgicpftgqwehirsntrwlpnnhplfvnspfpFRLLLIFCLPLTIITTLNSY
MGSYNVLEPILKDILGMLNPLREDWETRMKVISDLREVVESVeslrgatvepfgSFVSNLFSRWGDLDISIELSNGSCISSAGKKVKQSLLGDLLRALRQKGGYRRLQFVAHARVPILKFETIHQNISCDISIDNLCGQIKSKFLFWISQIDGRFRDMVLLVKEWAkahdinnpkTGTFNSYSLSLLVLFHFQTCVPAILPPLKDIYPGNLVDDLKGVRANAERQIAEICAFNIARFSSDKYRKINRSSLAHLFVSFLEKFSGLSLKASELGICPFTGQWEHIRSNTRWLPNNHPLFVNSPFPFRLLLIFCLPLTiittlnsy
MGSYNVLEPILKDILGMLNPLREDWETRMKVISDLREVVESVESLRGATVEPFGSFVSNLFSRWGDLDISIELSNGSCISSAGKKVKQSLLGDLLRALRQKGGYRRLQFVAHARVPILKFETIHQNISCDISIDNLCGQIKSKFLFWISQIDGRFRDMVLLVKEWAKAHDINNPKTGTFNSYSLSLLVLFHFQTCVPAILPPLKDIYPGNLVDDLKGVRANAERQIAEICAFNIARFSSDKYRKINRSSLAHLFVSFLEKFSGLSLKASELGICPFTGQWEHIRSNTRWLPNNHPLFVNSPFPFRLLLIFCLPLTIITTLNSY
****NVLEPILKDILGMLNPLREDWETRMKVISDLREVVESVESLRGATVEPFGSFVSNLFSRWGDLDISIELSNGSCISSAGKKVKQSLLGDLLRALRQKGGYRRLQFVAHARVPILKFETIHQNISCDISIDNLCGQIKSKFLFWISQIDGRFRDMVLLVKEWAKAHDINNPKTGTFNSYSLSLLVLFHFQTCVPAILPPLKDIYPGNLVDDLKGVRANAERQIAEICAFNIARFSSDKYRKINRSSLAHLFVSFLEKFSGLSLKASELGICPFTGQWEHIRSNTRWLPNNHPLFVNSPFPFRLLLIFCLPLTIITTL***
*GSYNVLEPILKDILGMLNPLREDWETRMKVISDLREVVESVESLRGATVEPFGSFVSNLFSRWGDLDISIELSNGSCISSAGKKVKQSLLGDLLRALRQKGGYRRLQFVAHARVPILKFETIHQNISCDISIDNLCGQIKSKFLFWISQIDGRFRDMVLLVKEWAKAHDINNPKTGTFNSYSLSLLVLFHFQTCVPAILPPLKDIYPGNLVDDLKGVRANAERQIAEICAFNIARFS******INRSSLAHLFVSFLEKFSGLSLKASELGICPFTGQWEHIRS**RWLPNNHPLFVNSPFPFRLLLIFCLPLTIITTLNSY
MGSYNVLEPILKDILGMLNPLREDWETRMKVISDLREVVESVESLRGATVEPFGSFVSNLFSRWGDLDISIELSNGSCISSAGKKVKQSLLGDLLRALRQKGGYRRLQFVAHARVPILKFETIHQNISCDISIDNLCGQIKSKFLFWISQIDGRFRDMVLLVKEWAKAHDINNPKTGTFNSYSLSLLVLFHFQTCVPAILPPLKDIYPGNLVDDLKGVRANAERQIAEICAFNIARFSSDKYRKINRSSLAHLFVSFLEKFSGLSLKASELGICPFTGQWEHIRSNTRWLPNNHPLFVNSPFPFRLLLIFCLPLTIITTLNSY
*GSYNVLEPILKDILGMLNPLREDWETRMKVISDLREVVESVESLRGATVEPFGSFVSNLFSRWGDLDISIELSNGSCISSAGKKVKQSLLGDLLRALRQKGGYRRLQFVAHARVPILKFETIHQNISCDISIDNLCGQIKSKFLFWISQIDGRFRDMVLLVKEWAKAHDINNPKTGTFNSYSLSLLVLFHFQTCVPAILPPLKDIYPGNL*****GVRANA*RQIAEICAFNIARFSSDKYRKINRSSLAHLFVSFLEKFSGLSLKASELGICPFTGQWEHIRSNTRWLPNNHPLFVNSPFPFRLLLIFCLPLTIITTLNSY
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHiii
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
MGSYNVLEPILKDILGMLNPLREDWETRMKVISDLREVVESVESLRGATVEPFGSFVSNLFSRWGDLDISIELSNGSCISSAGKKVKQSLLGDLLRALRQKGGYRRLQFVAHARVPILKFETIHQNISCDISIDNLCGQIKSKFLFWISQIDGRFRDMVLLVKEWAKAHDINNPKTGTFNSYSLSLLVLFHFQTCVPAILPPLKDIYPGNLVDDLKGVRANAERQIAEICAFNIARFSSDKYRKINRSSLAHLFVSFLEKFSGLSLKASELGICPFTGQWEHIRSNTRWLPNNHPLFVNSPFPFRLLLIFCLPLTIITTLNSY
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 ?
Query323 2.2.26 [Sep-21-2011]
Q9VYS41373 Poly(A) RNA polymerase gl yes no 0.294 0.069 0.469 4e-17
Q91YI6484 Poly(A) RNA polymerase GL yes no 0.603 0.402 0.291 1e-16
Q9VD44 1364 Poly(A) RNA polymerase gl no no 0.591 0.140 0.313 2e-16
Q5U315484 Poly(A) RNA polymerase GL yes no 0.603 0.402 0.286 5e-16
Q2HJ44484 Poly(A) RNA polymerase GL yes no 0.603 0.402 0.281 6e-16
O74326 478 Poly(A) RNA polymerase ci yes no 0.777 0.525 0.260 2e-15
Q6PIY7484 Poly(A) RNA polymerase GL yes no 0.473 0.316 0.327 2e-15
P53632584 Poly(A) RNA polymerase pr yes no 0.554 0.306 0.314 8e-15
Q6DFA8509 Poly(A) RNA polymerase GL N/A no 0.582 0.369 0.279 1e-13
Q641A1509 Poly(A) RNA polymerase GL N/A no 0.464 0.294 0.331 1e-13
>sp|Q9VYS4|GLD2B_DROME Poly(A) RNA polymerase gld-2 homolog B OS=Drosophila melanogaster GN=wisp PE=1 SV=1 Back     alignment and function desciption
 Score = 89.0 bits (219), Expect = 4e-17,   Method: Composition-based stats.
 Identities = 46/98 (46%), Positives = 66/98 (67%), Gaps = 3/98 (3%)

Query: 113  ARVPILKFETIHQNISCDISIDNLCGQIKSKFLFWI-SQIDGRFRDMVLLVKEWAKAHDI 171
            ARVPIL+F+ I   I  D++ +N C  IK+ +L  + +Q+D R R +V++VK WA+ HDI
Sbjct: 1086 ARVPILRFKDISNGIEVDLNFNN-CVGIKNTYLLQLYAQMDWRTRPLVVIVKLWAQYHDI 1144

Query: 172  NNPKTGTFNSYSLSLLVLFHFQ-TCVPAILPPLKDIYP 208
            N+ K  T +SYSL L+VL + Q  CVP +LP L  +YP
Sbjct: 1145 NDAKRMTISSYSLVLMVLHYLQHACVPHVLPCLHSLYP 1182
Cytoplasmic poly(A) RNA polymerase that adds successive AMP monomers to the 3'-end of specific maternal RNAs (bcd, Tl, and tor), forming a poly(A) tail, during late oogenesis and early embryogenesis. In contrast to the canonical nuclear poly(A) RNA polymerase, it only adds poly(A) to selected cytoplasmic mRNAs. Required for localization of mRNAs to both poles of the egg, to recruit or maintain known centrosomal proteins with two types of microtubule organizing centers (MTOCs): the central MTOC that forms between the meiosis II tandem spindles and the centrosomes of the mitotic spindle. Required at the final stage of oogenesis for meiosis I metaphase arrest and for progression beyond this stage.
Drosophila melanogaster (taxid: 7227)
EC: 2EC: .EC: 7EC: .EC: 7EC: .EC: 1EC: 9
>sp|Q91YI6|GLD2_MOUSE Poly(A) RNA polymerase GLD2 OS=Mus musculus GN=Papd4 PE=1 SV=1 Back     alignment and function description
>sp|Q9VD44|GLD2A_DROME Poly(A) RNA polymerase gld-2 homolog A OS=Drosophila melanogaster GN=Gld2 PE=1 SV=3 Back     alignment and function description
>sp|Q5U315|GLD2_RAT Poly(A) RNA polymerase GLD2 OS=Rattus norvegicus GN=Papd4 PE=2 SV=1 Back     alignment and function description
>sp|Q2HJ44|GLD2_BOVIN Poly(A) RNA polymerase GLD2 OS=Bos taurus GN=PAPD4 PE=2 SV=1 Back     alignment and function description
>sp|O74326|CID11_SCHPO Poly(A) RNA polymerase cid11 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=cid11 PE=3 SV=1 Back     alignment and function description
>sp|Q6PIY7|GLD2_HUMAN Poly(A) RNA polymerase GLD2 OS=Homo sapiens GN=PAPD4 PE=1 SV=1 Back     alignment and function description
>sp|P53632|PAP2_YEAST Poly(A) RNA polymerase protein 2 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=PAP2 PE=1 SV=1 Back     alignment and function description
>sp|Q6DFA8|GLD2B_XENLA Poly(A) RNA polymerase GLD2-B OS=Xenopus laevis GN=papd4-b PE=1 SV=1 Back     alignment and function description
>sp|Q641A1|GLD2A_XENLA Poly(A) RNA polymerase GLD2-A OS=Xenopus laevis GN=papd4-a PE=1 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 ?
Query323
255566462 493 zinc finger protein, putative [Ricinus c 0.934 0.612 0.718 1e-128
359486610 453 PREDICTED: poly(A) RNA polymerase GLD2-l 0.934 0.666 0.685 1e-120
449465848 464 PREDICTED: poly(A) RNA polymerase GLD2-l 0.910 0.633 0.683 1e-117
356537950328 PREDICTED: poly(A) RNA polymerase GLD2-l 0.934 0.920 0.652 1e-116
356569346415 PREDICTED: poly(A) RNA polymerase cid11- 0.934 0.727 0.652 1e-115
79571331 511 Nucleotidyltransferase family protein [A 0.916 0.579 0.668 1e-112
110735731 511 hypothetical protein [Arabidopsis thalia 0.916 0.579 0.668 1e-112
297823863 500 hypothetical protein ARALYDRAFT_321659 [ 0.916 0.592 0.655 1e-106
224112707300 predicted protein [Populus trichocarpa] 0.780 0.84 0.732 2e-99
2642156 474 hypothetical protein [Arabidopsis thalia 0.786 0.535 0.681 3e-95
>gi|255566462|ref|XP_002524216.1| zinc finger protein, putative [Ricinus communis] gi|223536493|gb|EEF38140.1| zinc finger protein, putative [Ricinus communis] Back     alignment and taxonomy information
 Score =  464 bits (1193), Expect = e-128,   Method: Compositional matrix adjust.
 Identities = 217/302 (71%), Positives = 256/302 (84%)

Query: 1   MGSYNVLEPILKDILGMLNPLREDWETRMKVISDLREVVESVESLRGATVEPFGSFVSNL 60
           M +++VLEPIL+D L ++ PLREDW  R K+I +L++V+ S+ESLRGATVEPFGSFVSNL
Sbjct: 1   MNAHSVLEPILRDTLEVIKPLREDWAVRSKIIEELKDVIASIESLRGATVEPFGSFVSNL 60

Query: 61  FSRWGDLDISIELSNGSCISSAGKKVKQSLLGDLLRALRQKGGYRRLQFVAHARVPILKF 120
           F+RWGDLDISI L+NGS ISSA KK KQ++L +  +ALRQKGG+RRLQFV +ARVP+LKF
Sbjct: 61  FTRWGDLDISIMLANGSYISSAAKKRKQNVLREFHKALRQKGGWRRLQFVPNARVPLLKF 120

Query: 121 ETIHQNISCDISIDNLCGQIKSKFLFWISQIDGRFRDMVLLVKEWAKAHDINNPKTGTFN 180
           E+  QNISCD+SIDNL GQIKS FLFW++QIDGRFRDMVLLVKEWAKAH+INNPKTGT N
Sbjct: 121 ESGRQNISCDVSIDNLQGQIKSNFLFWLNQIDGRFRDMVLLVKEWAKAHNINNPKTGTLN 180

Query: 181 SYSLSLLVLFHFQTCVPAILPPLKDIYPGNLVDDLKGVRANAERQIAEICAFNIARFSSD 240
           SYSLSLLV+FHFQTCVPAILPPLK+IYP N+VDDL GVR  AE +I E C  NIAR+ SD
Sbjct: 181 SYSLSLLVIFHFQTCVPAILPPLKEIYPRNVVDDLTGVRTVAEERIKETCNANIARYMSD 240

Query: 241 KYRKINRSSLAHLFVSFLEKFSGLSLKASELGICPFTGQWEHIRSNTRWLPNNHPLFVNS 300
           KYR +NRSSL+ LF+SF  KFSG+SLKA++LGIC FTGQW  IRS  RWLP  + LF+  
Sbjct: 241 KYRAVNRSSLSELFISFFAKFSGISLKAADLGICTFTGQWLDIRSTMRWLPKTYALFIED 300

Query: 301 PF 302
           PF
Sbjct: 301 PF 302

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|359486610|ref|XP_002277771.2| PREDICTED: poly(A) RNA polymerase GLD2-like [Vitis vinifera] gi|296086183|emb|CBI31624.3| unnamed protein product [Vitis vinifera] Back     alignment and taxonomy information
>gi|449465848|ref|XP_004150639.1| PREDICTED: poly(A) RNA polymerase GLD2-like [Cucumis sativus] gi|449516431|ref|XP_004165250.1| PREDICTED: poly(A) RNA polymerase GLD2-like [Cucumis sativus] Back     alignment and taxonomy information
>gi|356537950|ref|XP_003537469.1| PREDICTED: poly(A) RNA polymerase GLD2-like [Glycine max] Back     alignment and taxonomy information
>gi|356569346|ref|XP_003552863.1| PREDICTED: poly(A) RNA polymerase cid11-like [Glycine max] Back     alignment and taxonomy information
>gi|79571331|ref|NP_181504.2| Nucleotidyltransferase family protein [Arabidopsis thaliana] gi|53850481|gb|AAU95417.1| At2g39740 [Arabidopsis thaliana] gi|55733735|gb|AAV59264.1| At2g39740 [Arabidopsis thaliana] gi|330254623|gb|AEC09717.1| Nucleotidyltransferase family protein [Arabidopsis thaliana] Back     alignment and taxonomy information
>gi|110735731|dbj|BAE99845.1| hypothetical protein [Arabidopsis thaliana] Back     alignment and taxonomy information
>gi|297823863|ref|XP_002879814.1| hypothetical protein ARALYDRAFT_321659 [Arabidopsis lyrata subsp. lyrata] gi|297325653|gb|EFH56073.1| hypothetical protein ARALYDRAFT_321659 [Arabidopsis lyrata subsp. lyrata] Back     alignment and taxonomy information
>gi|224112707|ref|XP_002316267.1| predicted protein [Populus trichocarpa] gi|222865307|gb|EEF02438.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
>gi|2642156|gb|AAB87123.1| hypothetical protein [Arabidopsis thaliana] Back     alignment and taxonomy information

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST ?

Original result of BLAST against Gene Ontology (AMIGO)

ID ? Alignment graph ? Length ? Definition ? Q cover ? H cover ? Identity ? E-value ?
Query323
TAIR|locus:2063937 511 HESO1 "HEN1 suppressor 1" [Ara 0.916 0.579 0.668 1.2e-104
TAIR|locus:2102709 682 AT3G45750 "AT3G45750" [Arabido 0.798 0.378 0.315 1.7e-30
TAIR|locus:2102714 474 AT3G45760 [Arabidopsis thalian 0.622 0.424 0.351 1.1e-28
MGI|MGI:2140950484 Papd4 "PAP associated domain c 0.603 0.402 0.291 8.9e-16
DICTYBASE|DDB_G02784251090 DDB_G0278425 [Dictyostelium di 0.811 0.240 0.269 1.1e-15
UNIPROTKB|Q2HJ44484 PAPD4 "Poly(A) RNA polymerase 0.473 0.316 0.327 1.6e-15
RGD|1306438484 Papd4 "PAP associated domain c 0.603 0.402 0.286 2.9e-15
UNIPROTKB|F1RF43484 PAPD4 "Uncharacterized protein 0.603 0.402 0.276 3.9e-15
UNIPROTKB|Q6PIY7484 PAPD4 "Poly(A) RNA polymerase 0.473 0.316 0.327 5.2e-15
SGD|S000005475584 PAP2 "Non-canonical poly(A) po 0.554 0.306 0.314 1e-14
TAIR|locus:2063937 HESO1 "HEN1 suppressor 1" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 1036 (369.7 bits), Expect = 1.2e-104, P = 1.2e-104
 Identities = 198/296 (66%), Positives = 239/296 (80%)

Query:     7 LEPILKDILGMLNPLREDWETRMKVISDLREVVESVESLRGATVEPFGSFVSNLFSRWGD 66
             L+P L++IL ++ P R D +TR+ VI  LR+V++SVE LRGATV+PFGSFVSNLF+RWGD
Sbjct:     7 LDPTLQEILQVIKPTRADRDTRITVIDQLRDVLQSVECLRGATVQPFGSFVSNLFTRWGD 66

Query:    67 LDISIELSNGSCISSAGKKVKQSLLGDLLRALRQKGGYRRLQFVAHARVPILKFETIHQN 126
             LDIS++L +GS I   GKK KQ+LLG LLRALR  G + +LQFV HARVPILK  + HQ 
Sbjct:    67 LDISVDLFSGSSILFTGKKQKQTLLGHLLRALRASGLWYKLQFVIHARVPILKVVSGHQR 126

Query:   127 ISCDISIDNLCGQIKSKFLFWISQIDGRFRDMVLLVKEWAKAHDINNPKTGTFNSYSLSL 186
             ISCDISIDNL G +KS+FLFWIS+IDGRFRD+VLLVKEWAKAH+IN+ KTGTFNSYSLSL
Sbjct:   127 ISCDISIDNLDGLLKSRFLFWISEIDGRFRDLVLLVKEWAKAHNINDSKTGTFNSYSLSL 186

Query:   187 LVLFHFQTCVPAILPPLKDIYPGNLVDDLKGVRANAERQIAEICAFNIARFSSDKYRKIN 246
             LV+FHFQTCVPAILPPL+ IYP + VDDL GVR  AE  IA++ A NIARF S++ + +N
Sbjct:   187 LVIFHFQTCVPAILPPLRVIYPKSAVDDLTGVRKTAEESIAQVTAANIARFKSERAKSVN 246

Query:   247 RSSLAHLFVSFLEKFSGLSLKASELGICPFTGQWEHIRSNTRWLPNNHPLFVNSPF 302
             RSSL+ L VSF  KFS +++KA E G+CPFTG+WE I SNT WLP  + LFV  PF
Sbjct:   247 RSSLSELLVSFFAKFSDINVKAQEFGVCPFTGRWETISSNTTWLPKTYSLFVEDPF 302
GO:0005737 "cytoplasm" evidence=ISM;IDA
GO:0005634 "nucleus" evidence=IDA
GO:0016779 "nucleotidyltransferase activity" evidence=IDA
GO:0071076 "RNA 3' uridylation" evidence=IMP
TAIR|locus:2102709 AT3G45750 "AT3G45750" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2102714 AT3G45760 [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
MGI|MGI:2140950 Papd4 "PAP associated domain containing 4" [Mus musculus (taxid:10090)] Back     alignment and assigned GO terms
DICTYBASE|DDB_G0278425 DDB_G0278425 [Dictyostelium discoideum (taxid:44689)] Back     alignment and assigned GO terms
UNIPROTKB|Q2HJ44 PAPD4 "Poly(A) RNA polymerase GLD2" [Bos taurus (taxid:9913)] Back     alignment and assigned GO terms
RGD|1306438 Papd4 "PAP associated domain containing 4" [Rattus norvegicus (taxid:10116)] Back     alignment and assigned GO terms
UNIPROTKB|F1RF43 PAPD4 "Uncharacterized protein" [Sus scrofa (taxid:9823)] Back     alignment and assigned GO terms
UNIPROTKB|Q6PIY7 PAPD4 "Poly(A) RNA polymerase GLD2" [Homo sapiens (taxid:9606)] Back     alignment and assigned GO terms
SGD|S000005475 PAP2 "Non-canonical poly(A) polymerase" [Saccharomyces cerevisiae (taxid:4932)] 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!

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 ?
Query323
cd05402114 cd05402, NT_PAP_TUTase, Nucleotidyltransferase (NT 2e-24
COG5260 482 COG5260, TRF4, DNA polymerase sigma [DNA replicati 5e-21
>gnl|CDD|143392 cd05402, NT_PAP_TUTase, Nucleotidyltransferase (NT) domain of poly(A) polymerases and terminal uridylyl transferases Back     alignment and domain information 
 Score = 94.9 bits (237), Expect = 2e-24
 Identities = 35/122 (28%), Positives = 60/122 (49%), Gaps = 9/122 (7%)

Query: 28  RMKVISDLREVVESVESLRGATVEPFGSFVSNLFSRWGDLDISIELSNGSCISSAGKKVK 87
           R +V+  L+E+++      GA + PFGS+V+ L     D+D+ +   N        +  +
Sbjct: 2   REEVLDRLQELIKEWFP--GAKLYPFGSYVTGLGLPGSDIDLCLLGPNH-------RVDR 52

Query: 88  QSLLGDLLRALRQKGGYRRLQFVAHARVPILKFETIHQNISCDISIDNLCGQIKSKFLFW 147
           +  L  L + L++ G    ++ + +ARVPI+KF      I  DIS +NL G   +K L  
Sbjct: 53  EDFLRKLAKLLKKSGEVVEVEPIINARVPIIKFVDKPTGIEVDISFNNLNGIRNTKLLRA 112

Query: 148 IS 149
             
Sbjct: 113 YV 114

Poly(A) polymerases (PAPs) catalyze mRNA poly(A) tail synthesis, and terminal uridylyl transferases (TUTases) uridylate RNA. PAPs in this subgroup include human PAP alpha, mouse testis-specific cytoplasmic PAP beta, human nuclear PAP gamma, Saccharomyces cerevisiae PAP1, TRF4 and-5, Schizosaccharomyces pombe caffeine-induced death proteins -1, and -14, Caenorhabditis elegans Germ Line Development-2, and Chlamydomonas reinhardtii MUT68. This family also includes human U6 snRNA-specific TUTase1, and Trypanosoma brucei 3'-TUTase-1,-2, and 4. This family belongs to the Pol beta-like NT superfamily. In the majority of enzymes in this superfamily, two carboxylates, Dx[D/E], together with a third more distal carboxylate, coordinate two divalent metal cations involved in a two-metal ion mechanism of nucleotide addition. For the majority of proteins in this family, these carboxylate residues are conserved. Length = 114
>gnl|CDD|227585 COG5260, TRF4, DNA polymerase sigma [DNA replication, recombination, and repair] Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 323
COG5260 482 TRF4 DNA polymerase sigma [DNA replication, recomb 100.0
KOG1906 514 consensus DNA polymerase sigma [Replication, recom 100.0
KOG2277 596 consensus S-M checkpoint control protein CID1 and 99.98
PTZ00418 593 Poly(A) polymerase; Provisional 99.96
cd05402114 NT_PAP_TUTase Nucleotidyltransferase (NT) domain o 99.93
KOG2245 562 consensus Poly(A) polymerase and related nucleotid 99.9
TIGR03671408 cca_archaeal CCA-adding enzyme. 99.78
PRK13300 447 tRNA CCA-pyrophosphorylase; Provisional 99.78
COG5186 552 PAP1 Poly(A) polymerase [RNA processing and modifi 99.77
COG1746 443 CCA1 tRNA nucleotidyltransferase (CCA-adding enzym 99.65
PF04928254 PAP_central: Poly(A) polymerase central domain; In 99.63
PF0382860 PAP_assoc: Cid1 family poly A polymerase; InterPro 99.32
cd05400143 NT_2-5OAS_ClassI-CCAase Nucleotidyltransferase (NT 98.25
cd0539749 NT_Pol-beta-like Nucleotidyltransferase (NT) domai 98.21
PF0190993 NTP_transf_2: Nucleotidyltransferase domain A subs 98.06
PF09249114 tRNA_NucTransf2: tRNA nucleotidyltransferase, seco 97.98
smart00572246 DZF domain in DSRM or ZnF_C2H2 domain containing p 97.96
cd0540393 NT_KNTase_like Nucleotidyltransferase (NT) domain 97.72
PF10421190 OAS1_C: 2'-5'-oligoadenylate synthetase 1, domain 97.62
PF03813 972 Nrap: Nrap protein; InterPro: IPR005554 Members of 97.58
COG166997 Predicted nucleotidyltransferases [General functio 97.1
COG1708128 Predicted nucleotidyltransferases [General functio 96.8
PRK13746262 aminoglycoside resistance protein; Provisional 96.64
PF14091152 DUF4269: Domain of unknown function (DUF4269) 96.28
PF07528248 DZF: DZF domain; InterPro: IPR006561 This domain i 95.93
PF03813 972 Nrap: Nrap protein; InterPro: IPR005554 Members of 95.18
PF14792112 DNA_pol_B_palm: DNA polymerase beta palm ; PDB: 1R 94.58
PRK02098221 phosphoribosyl-dephospho-CoA transferase; Provisio 94.42
TIGR03135202 malonate_mdcG holo-ACP synthase, malonate decarbox 94.25
KOG3793362 consensus Transcription factor NFAT, subunit NF45 92.82
KOG2054 1121 consensus Nucleolar RNA-associated protein (NRAP) 92.53
cd00141307 NT_POLXc Nucleotidyltransferase (NT) domain of fam 90.92
PF10620213 MdcG: Phosphoribosyl-dephospho-CoA transferase Mdc 88.13
COG2413228 Predicted nucleotidyltransferase [General function 87.35
PRK01293207 phosphoribosyl-dephospho-CoA transferase; Provisio 84.98
KOG2534353 consensus DNA polymerase IV (family X) [Replicatio 84.93
PF10127247 Nuc-transf: Predicted nucleotidyltransferase; Inte 84.52
cd05401172 NT_GlnE_GlnD_like Nucleotidyltransferase (NT) doma 83.71
PF03445138 DUF294: Putative nucleotidyltransferase DUF294; In 80.63
>COG5260 TRF4 DNA polymerase sigma [DNA replication, recombination, and repair] Back     alignment and domain information 
Probab=100.00  E-value=9.6e-48  Score=360.45  Aligned_cols=264  Identities=25%  Similarity=0.347  Sum_probs=220.4

Q ss_pred             ccchHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHhhccCCCCEEEeecCccCCCCCCCCCcceEEecCCCCcccccc
Q 020620            4 YNVLEPILKDILGMLNPLREDWETRMKVISDLREVVESVESLRGATVEPFGSFVSNLFSRWGDLDISIELSNGSCISSAG   83 (323)
Q Consensus         4 ~~~L~~~i~~~~~~~~pt~~e~~~R~~~~~~l~~~l~~~~~~~~~~v~~fGS~~tgl~~~~SDiDl~i~~~~~~~~~s~~   83 (323)
                      .++|+.+|.+|+.++.|+.+|.++|.++++.|+.++++.  ||++.+.+|||+.+|+++|.||+|+||..++..+     
T Consensus        54 ~~~lt~el~~~y~~I~ps~eEl~~R~~~leklr~~lk~~--~pda~l~vFGS~~t~L~l~~SDiDl~I~s~~~~~-----  126 (482)
T COG5260          54 SDELTSELLEFYDYIAPSDEELKRRKALLEKLRTLLKKE--FPDADLKVFGSTETGLALPKSDIDLCIISDPRGY-----  126 (482)
T ss_pred             HHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHHHHh--CCccceeEecccccccccCcccccEEEecCCccc-----
Confidence            458999999999999999999999999999999999997  7999999999999999999999999999865332     


Q ss_pred             hhhHHHHHHHHHHHHHhcCCcceEEEeccCCcceEEEEEcCCCeeEEEeecCchhhhhhHHHHHHhccchhhHHHHHHHH
Q 020620           84 KKVKQSLLGDLLRALRQKGGYRRLQFVAHARVPILKFETIHQNISCDISIDNLCGQIKSKFLFWISQIDGRFRDMVLLVK  163 (323)
Q Consensus        84 ~~~~~~~l~~l~~~L~~~~~~~~v~~i~~ArVPIik~~~~~~~i~~DIs~~n~~g~~~s~li~~~~~~~~~~~~L~~~iK  163 (323)
                      +... ... .++..+.....+.+++++.+|||||||+.+..+|+.|||++|+..|+.++++++.|...+|++|||+++||
T Consensus       127 ~et~-~~~-~l~~~l~~~~~~~~~~~v~tarVPIIKl~d~~s~l~~Disfn~~~~~~~akl~~~~~~~~P~lrpLvliIK  204 (482)
T COG5260         127 KETR-NAG-SLASHLFKKNLAKEVVVVSTARVPIIKLVDPQSGLHCDISFNNTNGIVNAKLIRSYLKEDPRLRPLVLIIK  204 (482)
T ss_pred             cccc-cHH-HHHHHHHHhccCeeeEEEEecccceEEEecCccceEEEeecCchhHHHHHHHHHHHHhcCcccchHHHHHH
Confidence            1112 222 45556666678888999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHCCCCCCCCCCCChHHHHHHHHHHHhcCCCCCCCchhhhcCCCCCCcccccccchhhhhHhhhhcccccccccccC
Q 020620          164 EWAKAHDINNPKTGTFNSYSLSLLVLFHFQTCVPAILPPLKDIYPGNLVDDLKGVRANAERQIAEICAFNIARFSSDKYR  243 (323)
Q Consensus       164 ~w~k~~~l~~~~~G~lssy~l~lmvi~flq~~~p~~lP~l~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~~~~~~~~  243 (323)
                      ||+++|.|++++.|||+||++++||+.|||++.|  .+.++...-.                              ....
T Consensus       205 hwl~~R~ln~~~~GtL~sy~i~cmV~sfLq~~~~--~~~~~~~~~~------------------------------~l~~  252 (482)
T COG5260         205 HWLKRRALNDVATGTLSSYTISCMVLSFLQMHPP--FLFFDNGLLS------------------------------PLKY  252 (482)
T ss_pred             HHHHHHhhcccccCcchhhhhHHHHHHHHHhCCc--cccccccccc------------------------------hhhc
Confidence            9999999999999999999999999999999943  1121111000                              0112


Q ss_pred             CCCcccHHHHHHHHHHhhhcCcccccccccccccC-ceeeccccCCCCC-CC-CCeEEeCCC-cCCCCccc
Q 020620          244 KINRSSLAHLFVSFLEKFSGLSLKASELGICPFTG-QWEHIRSNTRWLP-NN-HPLFVNSPF-PFRLLLIF  310 (323)
Q Consensus       244 ~~n~~sl~~Ll~~Ff~~Y~~fdf~~~~~~I~~~~g-~~~~~~~~~~~~~-~~-~~l~IeDPf-d~~~Nv~~  310 (323)
                      ..|..++|.||.+||+||+. +|.+...++++..| ...++.+ .+|.. .+ ..||||||+ +.++++++
T Consensus       253 ~~~~~~lgvLf~dFf~~yG~-~f~Y~~~~~si~~g~~~~~K~e-~g~~~~~~p~~LsiqdP~td~n~~~~a  321 (482)
T COG5260         253 NKNIDNLGVLFDDFFELYGK-SFNYSLVVLSINSGDFYLPKYE-KGWLKPSKPNSLSIQDPGTDRNNDISA  321 (482)
T ss_pred             cccccccchHHHHHHHHhcc-ccChhheEEEecCCceeeehhh-cccccccCCCcEeecCCCCCccccccc
Confidence            34668999999999999985 78778899999988 3334333 66643 22 789999999 88888887

>KOG1906 consensus DNA polymerase sigma [Replication, recombination and repair] 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
>PTZ00418 Poly(A) polymerase; Provisional 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
>KOG2245 consensus Poly(A) polymerase and related nucleotidyltransferases [RNA processing and modification] 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
>COG5186 PAP1 Poly(A) polymerase [RNA processing and modification] Back     alignment and domain information
>COG1746 CCA1 tRNA nucleotidyltransferase (CCA-adding enzyme) [Translation, ribosomal structure and biogenesis] 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
>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
>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
>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
>smart00572 DZF domain in DSRM or ZnF_C2H2 domain containing 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
>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
>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
>COG1669 Predicted nucleotidyltransferases [General function prediction only] 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
>PF14091 DUF4269: Domain of unknown function (DUF4269) 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
>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
>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
>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
>KOG3793 consensus Transcription factor NFAT, subunit NF45 [Transcription] Back     alignment and domain information
>KOG2054 consensus Nucleolar RNA-associated protein (NRAP) [Function unknown] Back     alignment and domain information
>cd00141 NT_POLXc Nucleotidyltransferase (NT) domain of family X DNA Polymerases Back     alignment and domain information
>PF10620 MdcG: Phosphoribosyl-dephospho-CoA transferase MdcG; InterPro: IPR017557 Malonate decarboxylase, like citrate lyase, has a unique acyl carrier protein subunit with a prosthetic group derived from, and distinct from, coenzyme A Back     alignment and domain information
>COG2413 Predicted nucleotidyltransferase [General function prediction only] Back     alignment and domain information
>PRK01293 phosphoribosyl-dephospho-CoA transferase; Provisional Back     alignment and domain information
>KOG2534 consensus DNA polymerase IV (family X) [Replication, recombination and repair] Back     alignment and domain information
>PF10127 Nuc-transf: Predicted nucleotidyltransferase; InterPro: IPR018775 Proteins in this entry are predicted to catalyse the transfer of nucleotide residues from nucleoside diphosphates or triphosphates into dimer or polymer forms 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
>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 ?
Query323
3nyb_A323 Structure And Function Of The Polymerase Core Of Tr 3e-15
4ep7_A340 Functional Implications From The Cid1 Poly(U) Polym 1e-12
4fhx_A349 Crystal Structures Of The Cid1 Poly (U) Polymerase 2e-12
4fh3_A349 Crystal Structures Of The Cid1 Poly (U) Polymerase 2e-12
4e7x_A405 Structural Basis For The Activity Of A Cytoplasmic 2e-12
3hj1_A387 Minor Editosome-Associated Tutase 1 With Bound Utp 6e-12
3hiy_B384 Minor Editosome-Associated Tutase 1 With Bound Utp 4e-11
3pq1_A464 Crystal Structure Of Human Mitochondrial Poly(A) Po 1e-08
>pdb|3NYB|A Chain A, Structure And Function Of The Polymerase Core Of Tramp, A Rna Surveillance Complex Length = 323 Back     alignment and structure 
Iteration: 1

 Score = 79.3 bits (194), Expect = 3e-15,   Method: Compositional matrix adjust.
 Identities = 59/191 (30%), Positives = 96/191 (50%), Gaps = 12/191 (6%)
Query: 11  LKDILGMLNPLREDWETRMKVISDLREVVESVESLRGATVEPFGSFVSNLFSRWGDLDIS 70
           +KD +  ++P RE+ E R + IS +RE V+ +     A +  FGS+ ++L+    D+D  
Sbjct: 25  IKDFVAYISPSREEIEIRNQTISTIREAVKQL--WPDADLHVFGSYSTDLYLPGSDIDCV 82
Query: 71  IELSNGSCISSAGKKVKQSLLGDLLRALRQKGGYRRLQFVAHARVPILKFETIHQNISCD 130
           +        S  G K  ++ L  L   L++K     ++ VA ARVPI+KF   H  I   
Sbjct: 83  V-------TSELGGKESRNNLYSLASHLKKKNLATEVEVVAKARVPIIKFVEPHSGIHIA 135
Query: 131 ISIDNLCGQIKSKFLF-WISQIDGRFRDMVLLVKEWAKAHDINNPKTGTFNSYSLSLLVL 189
           +S +   G   +K +  W+    G  R++VL+VK++  A  +NN  TG    +S+  LV 
Sbjct: 136 VSFERTNGIEAAKLIREWLDDTPG-LRELVLIVKQFLHARRLNNVHTGGLGGFSIICLV- 193
Query: 190 FHFQTCVPAIL 200
           F F    P I+
Sbjct: 194 FSFLHMHPRII 204
>pdb|4EP7|A Chain A, Functional Implications From The Cid1 Poly(U) Polymerase Crystal Structure Length = 340 Back     alignment and structure
>pdb|4FHX|A Chain A, Crystal Structures Of The Cid1 Poly (U) Polymerase Reveal The Mechanism For Utp Selectivity - H336n Mutant Bound To Mgatp Length = 349 Back     alignment and structure
>pdb|4FH3|A Chain A, Crystal Structures Of The Cid1 Poly (U) Polymerase Reveal The Mechanism For Utp Selectivity Length = 349 Back     alignment and structure
>pdb|4E7X|A Chain A, Structural Basis For The Activity Of A Cytoplasmic Rna Terminal U- Transferase Length = 405 Back     alignment and structure
>pdb|3HJ1|A Chain A, Minor Editosome-Associated Tutase 1 With Bound Utp Length = 387 Back     alignment and structure
>pdb|3HIY|B Chain B, Minor Editosome-Associated Tutase 1 With Bound Utp And Mg Length = 384 Back     alignment and structure
>pdb|3PQ1|A Chain A, Crystal Structure Of Human Mitochondrial Poly(A) Polymerase (Papd1) Length = 464 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 ?
Query323
3pq1_A464 Poly(A) RNA polymerase; nucleotidyl transferase, R 1e-49
3hj4_A384 Minor editosome-associated tutase; nucleotidyltran 2e-45
4e8f_A405 Poly(A) RNA polymerase protein CID1; beta polymera 2e-41
4ep7_A340 Poly(A) RNA polymerase protein CID1; poly(U) polym 3e-40
3nyb_A323 Poly(A) RNA polymerase protein 2; polya RNA polyme 8e-37
2ikf_A353 RNA uridylyl transferase; tutase, nucleotidyltrans 3e-36
2b4v_A468 RNA editing complex protein MP57; tbret2, TBMP57, 4e-36
2hhp_A 530 Poly(A) polymerase; template-independent RNA polym 8e-19
1q79_A 514 Poly(A) polymerase alpha; mRNA processing, nucleot 2e-15
1r89_A 437 TRNA nucleotidyltransferase; CCA adding enzyme, in 3e-13
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 5e-07
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 3e-06
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 2e-04
>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
 Score =  170 bits (432), Expect = 1e-49
 Identities = 60/271 (22%), Positives = 104/271 (38%), Gaps = 30/271 (11%)

Query: 11  LKDILGMLNPLREDWETRMKVISDLREVVESVESLRGATVEPFGSFVSNLFSRWGDLDIS 70
           L  +L       E+ + R    S + ++  +        V PFGS V+       DLD+ 
Sbjct: 138 LNTLLKEFQLTEENTKLRYLTCSLIEDMAAAY--FPDCIVRPFGSSVNTFGKLGCDLDMF 195

Query: 71  IELSNGSCISSAG-----------------KKVKQSLLGDLLRALRQKG-GYRRLQFVAH 112
           ++L     +S+                   +   Q +L  L   L   G G   +Q + +
Sbjct: 196 LDLDETRNLSAHKISGNFLMEFQVKNVPSERIATQKILSVLGECLDHFGPGCVGVQKILN 255

Query: 113 ARVPILKFETIHQNISCDISIDNLCGQIKSKFLFWISQIDGRFRDMVLLVKEWAKAHDIN 172
           AR P+++F        C ++ +N      S+ L+    +D R R +V  V+ WA+AH + 
Sbjct: 256 ARCPLVRFSHQASGFQCALTTNNRIALTSSELLYIYGALDSRVRALVFSVRCWARAHSLT 315

Query: 173 NPKTGT-FNSYSLSLLVLFHFQTCVPAILPPLKDIYPGNLVDDLKGVRANAERQIAEICA 231
           +   G    ++SL+++V+F  Q   P ILP L  +           +    ++ + E   
Sbjct: 316 SSIPGAWITNFSLTMMVIFFLQRRSPPILPTLDSLKT---------LADAEDKCVIEGNN 366

Query: 232 FNIARFSSDKYRKINRSSLAHLFVSFLEKFS 262
               R  S      N  +L  L   F E F 
Sbjct: 367 CTFVRDLSRIKPSQNTETLELLLKEFFEYFG 397
>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
>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
>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
>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
>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
>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 ... Length = 437 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

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query323
4e8f_A405 Poly(A) RNA polymerase protein CID1; beta polymera 100.0
3pq1_A464 Poly(A) RNA polymerase; nucleotidyl transferase, R 100.0
4fh3_A349 Poly(A) RNA polymerase protein CID1; nucleotidyltr 100.0
3nyb_A323 Poly(A) RNA polymerase protein 2; polya RNA polyme 100.0
3hj4_A384 Minor editosome-associated tutase; nucleotidyltran 100.0
2ikf_A353 RNA uridylyl transferase; tutase, nucleotidyltrans 100.0
2b4v_A468 RNA editing complex protein MP57; tbret2, TBMP57, 100.0
1q79_A 514 Poly(A) polymerase alpha; mRNA processing, nucleot 100.0
2hhp_A 530 Poly(A) polymerase; template-independent RNA polym 100.0
1r89_A 437 TRNA nucleotidyltransferase; CCA adding enzyme, in 99.64
1px5_A349 2'-5'-oligoadenylate synthetase 1; 5-stranded anti 99.46
4at7_A364 Interleukin enhancer-binding factor 2; transcripti 98.45
1no5_A114 Hypothetical protein HI0073; structural genomics, 97.98
1ylq_A96 Putative nucleotidyltransferase, hypothetical Pro 97.72
2rff_A111 Putative nucleotidyltransferase; NP_343093.1, nucl 97.5
1wot_A98 Putative minimal nucleotidyltransferase; alpha and 97.43
4at7_B383 NF90, interleukin enhancer-binding factor 3; trans 96.64
4ebj_A272 Aminoglycoside nucleotidyltransferase; structural 96.54
1kny_A253 Kntase, kanamycin nucleotidyltransferase; antibiot 96.08
2fmp_A335 DNA polymerase beta; nucleotidyl transferase, tran 93.84
2bcq_A335 DNA polymerase lambda; misalignment, extrahelical, 93.29
3jz0_A287 Lincosamide nucleotidyltransferase; alpha-beta str 90.47
3b0x_A 575 DNA polymerase beta family (X family); structural 81.46
>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
Probab=100.00  E-value=1.3e-58  Score=442.01  Aligned_cols=285  Identities=21%  Similarity=0.326  Sum_probs=236.8

Q ss_pred             CccchHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHhhccCCCCEEEeecCccCCCCCCCCCcceEEecCCCCccccc
Q 020620            3 SYNVLEPILKDILGMLNPLREDWETRMKVISDLREVVESVESLRGATVEPFGSFVSNLFSRWGDLDISIELSNGSCISSA   82 (323)
Q Consensus         3 ~~~~L~~~i~~~~~~~~pt~~e~~~R~~~~~~l~~~l~~~~~~~~~~v~~fGS~~tgl~~~~SDiDl~i~~~~~~~~~s~   82 (323)
                      ..+.|+++|.+|+++++||++|.+.|+++++.|++++++.  +|++++.+|||+++|+++|+||||+++..+....    
T Consensus        40 ~~~~L~~~i~~~~~~i~Pt~eE~~~R~~v~~~l~~~i~~~--~p~~~v~~fGS~~~G~~~~~SDiDl~v~~~~~~~----  113 (405)
T 4e8f_A           40 SHKEFTKFCYEVYNEIKISDKEFKEKRAALDTLRLCLKRI--SPDAELVAFGSLESGLALKNSDMDLCVLMDSRVQ----  113 (405)
T ss_dssp             SCHHHHHHHHHHHHHHBCCHHHHHHHHHHHHHHHHHHHHH--CTTCEEEEESHHHHTCCBSSCCEEEEEECCC-------
T ss_pred             HHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHHHHH--CCCCEEEEEeeccCCCCCCCCCEEEEEEecCCCC----
Confidence            3567999999999999999999999999999999999997  7899999999999999999999999999875321    


Q ss_pred             chhhHHHHHHHHHHHHHhcCCcceEEEeccCCcceEEEE-EcCC----CeeEEEeecCchhhhhhHHHHHHhccchhhHH
Q 020620           83 GKKVKQSLLGDLLRALRQKGGYRRLQFVAHARVPILKFE-TIHQ----NISCDISIDNLCGQIKSKFLFWISQIDGRFRD  157 (323)
Q Consensus        83 ~~~~~~~~l~~l~~~L~~~~~~~~v~~i~~ArVPIik~~-~~~~----~i~~DIs~~n~~g~~~s~li~~~~~~~~~~~~  157 (323)
                          ..+++.++++.|++.  ..+++.|.+||||||||. +..+    |++||||++|..|+.+|.|++.|.+.+|++|+
T Consensus       114 ----~~~~l~~l~~~L~~~--~~~v~~i~~ArVPIIK~~~d~~~g~~~gi~~DIs~~n~~g~~~t~ll~~y~~~~p~~r~  187 (405)
T 4e8f_A          114 ----SDTIALQFYEELIAE--GFEGKFLQRARIPIIKLTSDTKNGFGASFQCDIGFNNRLAIHNTLLLSSYTKLDARLKP  187 (405)
T ss_dssp             ----CTTHHHHHHHHHHHT--TEEEEEEEETTEEEEEEEEESSSSCCTTCCEEEEESCHHHHHHHHHHHHHHHHCTTHHH
T ss_pred             ----HHHHHHHHHHHHHhc--CCeeEEeccCCCcEEEEEeccCCCccCceEEEEeecccchHHHHHHHHHHHhhCHHHHH
Confidence                123778888888876  557888999999999999 8777    99999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHCCCCCCCCCCCChHHHHHHHHHHH-hcCCCCCCCchhhhcCCCCCCcccccccchhhhhHhhhhccccc
Q 020620          158 MVLLVKEWAKAHDINNPKTGTFNSYSLSLLVLFHF-QTCVPAILPPLKDIYPGNLVDDLKGVRANAERQIAEICAFNIAR  236 (323)
Q Consensus       158 L~~~iK~w~k~~~l~~~~~G~lssy~l~lmvi~fl-q~~~p~~lP~l~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~  236 (323)
                      |++++|+||+++||++++.||||||+|++||++|| |...||+||+||++.+.... ...|+...+..           .
T Consensus       188 Lv~~lK~wak~rgl~~~~~GglsSY~l~lmvi~fLqQ~~~ppvlP~Lq~~~~~~~~-~~~g~~~~f~~-----------~  255 (405)
T 4e8f_A          188 MVLLVKHWAKRKQINSPYFGTLSSYGYVLMVLYYLIHVIKPPVFPNLLLSPLKQEK-IVDGFDVGFDD-----------K  255 (405)
T ss_dssp             HHHHHHHHHHHTTCCCTTTTSCCHHHHHHHHHHHHHHTSSSCSSCCSSSCTTCCCC-EETTEECCCCC-----------C
T ss_pred             HHHHHHHHHHHcCCCcCcCCCcChHHHHHHHHHHHHhccCCCcCCchhhccccccc-ccCCeeecccc-----------c
Confidence            99999999999999999999999999999999999 76789999999998764211 11111111000           0


Q ss_pred             ccccccCCCCcccHHHHHHHHHHhhh-cCcccccccccccc-cCceeeccccCCCCC-------------CCCCeEEeCC
Q 020620          237 FSSDKYRKINRSSLAHLFVSFLEKFS-GLSLKASELGICPF-TGQWEHIRSNTRWLP-------------NNHPLFVNSP  301 (323)
Q Consensus       237 ~~~~~~~~~n~~sl~~Ll~~Ff~~Y~-~fdf~~~~~~I~~~-~g~~~~~~~~~~~~~-------------~~~~l~IeDP  301 (323)
                       ....+.+.|..++|+||++||+||+ .|||  .+.+||++ .|+.+.+ +.+.|..             ..+.||||||
T Consensus       256 -l~~~~~~~n~~slg~LL~~FF~yY~~~Fd~--~~~vIsir~~g~~~~K-~~k~w~~~~~~~g~~~~~~~~~~~L~IeDP  331 (405)
T 4e8f_A          256 -LEDIPPSQNYSSLGSLLHGFFRFYAYKFEP--REKVVTFRRPDGYLTK-QEKGWTSATEHTGSADQIIKDRYILAIEDP  331 (405)
T ss_dssp             -GGGSCCCSCCCCHHHHHHHHHHHHHHTCCT--TTBEECSSSTTCCCBH-HHHTCCC-------------CCCSSEEBCS
T ss_pred             -hhhhccccccccHHHHHHHHHHHHhcccCC--CCcEEEEecCCccccc-ccccccccccccccccccccCCceEEEECC
Confidence             0112456788999999999999999 6777  47899999 6765532 2334532             3578999999


Q ss_pred             CcCCCCcccccCcc
Q 020620          302 FPFRLLLIFCLPLT  315 (323)
Q Consensus       302 fd~~~Nv~~~~~~~  315 (323)
                      |++++|+|++++..
T Consensus       332 f~~~~Nv~r~vs~~  345 (405)
T 4e8f_A          332 FEISHNVGRTVSSS  345 (405)
T ss_dssp             SSTTCBTTTTCCHH
T ss_pred             CCcccccccCCCHH
Confidence            99999999998743
>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
>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
>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
>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
>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
>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
>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
>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
>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

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 323
d2b4va1183 a.160.1.4 (A:289-471) RNA editing terminal uridyl 2e-19
d1q79a2196 d.218.1.3 (A:19-214) Poly(A) polymerase, PAP, N-te 4e-12
d2q66a2197 d.218.1.3 (A:5-201) Poly(A) polymerase, PAP, N-ter 4e-12
>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

class: All alpha proteins
fold: PAP/OAS1 substrate-binding domain
superfamily: PAP/OAS1 substrate-binding domain
family: RNA editing terminal uridyl transferase 2, RET2, domain 2
domain: RNA editing terminal uridyl transferase 2, TUTase 2, RET2
species: Trypanosoma brucei [TaxId: 5691]

 Score = 81.8 bits (201), Expect = 2e-19
 Identities = 15/150 (10%), Positives = 35/150 (23%), Gaps = 22/150 (14%)

Query: 154 RFRDMVLLVKEWAKAHDINNPKTGTFNSYSLSLLVLFHFQTCVPAILPPLKDIYPGNLVD 213
             R   + VK W KA ++         SY+++++ +++       +      +     + 
Sbjct: 3   AARHTAMAVKAWGKATNVGAGSGAMLTSYAVTVMFIYYLLVTRQVLWVDPWSLPHPAHLP 62

Query: 214 DLKGVRANAERQIAEICAFNIARFSSDKYRKINRSSLAHLFVSFLEKFSGLSLKASELGI 273
                                           + + L  L   F   F           +
Sbjct: 63  RYPDF---------------------SPLYDCDPTELGRLLHGFFI-FYAHHFDYEREVV 100

Query: 274 CPFTGQWEHIRSNTRWLPNNHPLFVNSPFP 303
                +  +        P N     +  F 
Sbjct: 101 SLNRNRRSYRSDIGWNFPQNKKGTFSYNFC 130
>d1q79a2 d.218.1.3 (A:19-214) Poly(A) polymerase, PAP, N-terminal domain {Cow (Bos taurus) [TaxId: 9913]} Length = 196 Back     information, alignment and structure
>d2q66a2 d.218.1.3 (A:5-201) Poly(A) polymerase, PAP, N-terminal domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 197 Back     information, alignment and structure

Homologous Domains Detected by HHsearch ?

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

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query323
d2b4va1183 RNA editing terminal uridyl transferase 2, TUTase 99.95
d2q66a2197 Poly(A) polymerase, PAP, N-terminal domain {Baker' 99.86
d1q79a2196 Poly(A) polymerase, PAP, N-terminal domain {Cow (B 99.84
d2q66a1150 Poly(A) polymerase, PAP, middle domain {Baker's ye 99.17
d1q79a1150 Poly(A) polymerase, PAP, middle domain {Cow (Bos t 99.16
d2b4va2259 RNA editing terminal uridyl transferase 2, TUTase 98.95
d1r89a2142 tRNA nucleotidyltransferase, N-terminal domain {Ar 98.87
d1no5a_100 Hypothetical protein HI0073 {Haemophilus influenza 98.76
d1ylqa190 Putative nucleotidyltransferase AF0614 {Archaeon A 98.24
d1px5a2200 2'-5'-oligoadenylate synthetase 1, OAS1, N-termina 98.0
d1r89a1115 tRNA nucleotidyltransferase, second domain {Archae 97.98
d1wota_98 Unnamed putative nucleotidyltransferase {Thermus t 97.59
d1px5a1146 2'-5'-oligoadenylate synthetase 1, OAS1, second do 97.48
d1knya2125 Kanamycin nucleotidyltransferase (KNTase), N-termi 97.25
d2bcqa3190 DNA polymerase lambda {Human (Homo sapiens) [TaxId 96.38
d2fmpa3187 DNA polymerase beta, catalytic (31 kD) fragment {H 96.23
d1jmsa4208 Terminal deoxynucleotidyl transferase {Mouse (Mus 95.99
d2pbea2135 Aminoglycoside 6-adenylyltransferase AadK {Bacillu 90.47
>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
class: All alpha proteins
fold: PAP/OAS1 substrate-binding domain
superfamily: PAP/OAS1 substrate-binding domain
family: RNA editing terminal uridyl transferase 2, RET2, domain 2
domain: RNA editing terminal uridyl transferase 2, TUTase 2, RET2
species: Trypanosoma brucei [TaxId: 5691]

Probab=99.95  E-value=5.2e-29  Score=211.34  Aligned_cols=138  Identities=12%  Similarity=0.163  Sum_probs=100.2

Q ss_pred             chhhHHHHHHHHHHHHHCCCCCCCCCCCChHHHHHHHHHHHhcCCCCCCCchhhhcCCCCCCcccccccchhhhhHhhhh
Q 020620          152 DGRFRDMVLLVKEWAKAHDINNPKTGTFNSYSLSLLVLFHFQTCVPAILPPLKDIYPGNLVDDLKGVRANAERQIAEICA  231 (323)
Q Consensus       152 ~~~~~~L~~~iK~w~k~~~l~~~~~G~lssy~l~lmvi~flq~~~p~~lP~l~~~~~~~~~~~~~~~~~~~e~~~~~~~~  231 (323)
                      .|++|+|+++||+|||.+||++++.||||||+|++|||||||++.++++|+.+++........                 
T Consensus         1 ~P~~R~l~~~vK~Wak~~~i~~~~~G~lsSYal~lmvi~fLQ~~~~~~~~~~~~~~~~~~~~~-----------------   63 (183)
T d2b4va1           1 PVAARHTAMAVKAWGKATNVGAGSGAMLTSYAVTVMFIYYLLVTRQVLWVDPWSLPHPAHLPR-----------------   63 (183)
T ss_dssp             CTTHHHHHHHHHHHHHTCC-----CCSSCHHHHHHHHHHHHHHTTSSCCCCGGGSCCGGGSCS-----------------
T ss_pred             CcceeeHHHHHHHHHHHcCCCCccCCCchHHHHHHHHHHHHHhcCCCCCCCHHHhcccccccc-----------------
Confidence            389999999999999999999999999999999999999999998888888877643211000                 


Q ss_pred             cccccccccccCCCCcccHHHHHHHHHHhhhc-CcccccccccccccCceeeccccCCCC-------CCCCCeEEeCCCc
Q 020620          232 FNIARFSSDKYRKINRSSLAHLFVSFLEKFSG-LSLKASELGICPFTGQWEHIRSNTRWL-------PNNHPLFVNSPFP  303 (323)
Q Consensus       232 ~~~~~~~~~~~~~~n~~sl~~Ll~~Ff~~Y~~-fdf~~~~~~I~~~~g~~~~~~~~~~~~-------~~~~~l~IeDPfd  303 (323)
                          .....+..+.|..++|+||.+||+||+. |||  .+.+||++.|+...+++ ..|.       ...+.|+||||||
T Consensus        64 ----~~~~~~~~~~~~~sl~~Ll~~FF~~Y~~~fd~--~~~~Isi~~g~~~~k~~-~~~~~~~~~~~~~~~~l~IeDPfd  136 (183)
T d2b4va1          64 ----YPDFSPLYDCDPTELGRLLHGFFIFYAHHFDY--EREVVSLNRNRRSYRSD-IGWNFPQNKKGTFSYNFCIEDPYE  136 (183)
T ss_dssp             ----SCCCCCCCCCCHHHHHHHHHHHHHHHHHSSCT--TTEEBCSSSSSCEEHHH-HTCCCGGGEETTEECSSCBBCSST
T ss_pred             ----ccccccccCCCCCCHHHHHHHHHHHhccccCH--HHceeeeccCCccchhh-hhccccccCCCCCCcceEEeCCCc
Confidence                0011234467889999999999999994 776  57899999888775432 1221       2347899999999


Q ss_pred             CC----CCcccccC
Q 020620          304 FR----LLLIFCLP  313 (323)
Q Consensus       304 ~~----~Nv~~~~~  313 (323)
                      +.    +|+||+++
T Consensus       137 ~~~~~~~Nv~r~v~  150 (183)
T d2b4va1         137 DVGTGGLNLVRHLH  150 (183)
T ss_dssp             TTTTTCCBTTTTCC
T ss_pred             cccccccchhhhcC
Confidence            65    56666555
>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
>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
>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
>d1q79a1 a.160.1.1 (A:215-364) Poly(A) polymerase, PAP, middle domain {Cow (Bos taurus) [TaxId: 9913]} 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
>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
>d1ylqa1 d.218.1.5 (A:1-90) Putative nucleotidyltransferase AF0614 {Archaeon Archaeoglobus fulgidus [TaxId: 2234]} 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
>d1r89a1 a.160.1.3 (A:143-257) tRNA nucleotidyltransferase, second domain {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
>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
>d1knya2 d.218.1.1 (A:1-125) Kanamycin nucleotidyltransferase (KNTase), N-terminal domain {Staphylococcus aureus [TaxId: 1280]} 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
>d1jmsa4 d.218.1.2 (A:303-510) Terminal deoxynucleotidyl transferase {Mouse (Mus musculus) [TaxId: 10090]} Back     information, alignment and structure
>d2pbea2 d.218.1.13 (A:1-135) Aminoglycoside 6-adenylyltransferase AadK {Bacillus subtilis [TaxId: 1423]} Back     information, alignment and structure