Psyllid ID: psy12993

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---
MTLSKAVEEYVRFTLRDPAHVRLFVVGSTMTGFGLDSSDVDMCLGIRPYEFDRGQAIRVLCVLETSDVDMCLEIFKKADLIHAKVPILKFQDSSFKLEVDLNCNNVVGVRNTHLLYCYAQKIFKKADLIHAKVPILKFQDSSFKLEVDLNCNNVVGVRNTHLLYCYAQMDWRIRPLVLLVKLWAQAHNINDAKNMTISSYSFTLMVIHFLQCGTSPPVLPNLVAQYPTKFSPNSNIDNIQEGK
ccHHHHHHHHHHHHcccccccEEEEEccccccccccccccEEEEccccccccHHHHHHHHHHHcccccHHHHHHHHHHHHHHcccccccccccccHHHHHcccccHHHHHHHHHHHHHHcccccccccccccccEEEEEEccccEEEEEEEcccHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHccccccccccccHHHHHHHHHHHHHcccccccccccccccccccccccccccccccc
ccHHHHHHHHHHHHHHHccccEEEEEEccccccccccccccEEEEEccccHHHHHccccHHHHHHccccccHHHHcccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHcccccEEEEEcEEcEEEEEEEEEccccEEEEEEEccHHHHHHHHHHHHHHHccHHHHHHHHHHHHHHHHccccccccccccHHHHHHHHHHHHHHcccccccHHHHHHccccccccEEcccccccc
MTLSKAVEEYVRFTLRDPAHVRLFVVGstmtgfgldssdvdmclgirpyefdrgQAIRVLCVLETSDVDMCLEIFKKADlihakvpilkfqdssfklevdlncnnvvgvrnTHLLYCYAQKIFKKadlihakvpilkfqdssfklevdlncnnvvgvrNTHLLYCYAQMDWRIRPLVLLVKLWAQAhnindaknmtiSSYSFTLMVIHFLqcgtsppvlpnlvaqyptkfspnsnidniqegk
MTLSKAVEEYVrftlrdpahvrLFVVGSTMtgfgldssdVDMCLGIRPYEFDRGQAIRVLCVLETSDVDMCLEIFKKADLIHAKVPILKFQDSSFKLEVDLNCNNVVGVRNTHLLYCYAQKIFKKADLIHAKVPILKFQDSSFKLEVDLNCNNVVGVRNTHLLYCYAQMDWRIRPLVLLVKLWAQAHNINDAKNMTISSYSFTLMVIHFLQCGTSPPVLPNLVAQyptkfspnsnidniqegk
MTLSKAVEEYVRFTLRDPAHVRLFVVGSTMTGFGLDSSDVDMCLGIRPYEFDRGQAIRVLCVLETSDVDMCLEIFKKADLIHAKVPILKFQDSSFKLEVDLNCNNVVGVRNTHLLYCYAQKIFKKADLIHAKVPILKFQDSSFKLEVDLNCNNVVGVRNTHLLYCYAQMDWRIRPLVLLVKLWAQAHNINDAKNMTISSYSFTLMVIHFLQCGTSPPVLPNLVAQYPTKFSPNSNIDNIQEGK
******VEEYVRFTLRDPAHVRLFVVGSTMTGFGLDSSDVDMCLGIRPYEFDRGQAIRVLCVLETSDVDMCLEIFKKADLIHAKVPILKFQDSSFKLEVDLNCNNVVGVRNTHLLYCYAQKIFKKADLIHAKVPILKFQDSSFKLEVDLNCNNVVGVRNTHLLYCYAQMDWRIRPLVLLVKLWAQAHNINDAKNMTISSYSFTLMVIHFLQCGTSPPVLPNLVAQYP****************
*TLSKAVEEYVRFTLRDPAHVRLFVVGSTMTGFGLDSSDVDMCLGIRPYEFDRGQAIRVLCVLETSDVDMCLEIFKKA************QDSSFKLEVDLNCNNVVGVRNTHLLYCYAQKIFKKADLIHAKVPILKFQDSSFKLEVDLNCNNVVGVRNTHLLYCYAQMDWRIRPLVLLVKLWAQAHNINDAKNMTISSYSFTLMVIHFLQCGTSPPVLPNLVAQYP************Q***
MTLSKAVEEYVRFTLRDPAHVRLFVVGSTMTGFGLDSSDVDMCLGIRPYEFDRGQAIRVLCVLETSDVDMCLEIFKKADLIHAKVPILKFQDSSFKLEVDLNCNNVVGVRNTHLLYCYAQKIFKKADLIHAKVPILKFQDSSFKLEVDLNCNNVVGVRNTHLLYCYAQMDWRIRPLVLLVKLWAQAHNINDAKNMTISSYSFTLMVIHFLQCGTSPPVLPNLVAQYPTKFSPNSNIDNIQEGK
MTLSKAVEEYVRFTLRDPAHVRLFVVGSTMTGFGLDSSDVDMCLGIRPYEFDRGQAIRVLCVLETSDVDMCLEIFKKADLIHAKVPILKFQDSSFKLEVDLNCNNVVGVRNTHLLYCYAQKIFKKADLIHAKVPILKFQDSSFKLEVDLNCNNVVGVRNTHLLYCYAQMDWRIRPLVLLVKLWAQAHNINDAKNMTISSYSFTLMVIHFLQCGTSPPVLPNLVAQYPTKFSPNSNIDNI****
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
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ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooo
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
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MTLSKAVEEYVRFTLRDPAHVRLFVVGSTMTGFGLDSSDVDMCLGIRPYEFDRGQAIRVLCVLETSDVDMCLEIFKKADLIHAKVPILKFQDSSFKLEVDLNCNNVVGVRNTHLLYCYAQKIFKKADLIHAKVPILKFQDSSFKLEVDLNCNNVVGVRNTHLLYCYAQMDWRIRPLVLLVKLWAQAHNINDAKNMTISSYSFTLMVIHFLQCGTSPPVLPNLVAQYPTKFSPNSNIDNIQEGK
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 ?
Query243 2.2.26 [Sep-21-2011]
Q9VD44 1364 Poly(A) RNA polymerase gl yes N/A 0.699 0.124 0.415 1e-39
Q9VYS4 1373 Poly(A) RNA polymerase gl no N/A 0.716 0.126 0.435 2e-36
O17087 1113 Poly(A) RNA polymerase gl yes N/A 0.654 0.142 0.388 2e-30
Q6PIY7 484 Poly(A) RNA polymerase GL yes N/A 0.687 0.345 0.383 2e-30
Q2HJ44 484 Poly(A) RNA polymerase GL yes N/A 0.691 0.347 0.377 2e-30
Q91YI6 484 Poly(A) RNA polymerase GL yes N/A 0.683 0.342 0.380 2e-29
Q5U315 484 Poly(A) RNA polymerase GL yes N/A 0.683 0.342 0.380 2e-29
Q6DFA8 509 Poly(A) RNA polymerase GL N/A N/A 0.658 0.314 0.377 5e-29
Q641A1 509 Poly(A) RNA polymerase GL N/A N/A 0.658 0.314 0.368 1e-27
Q0VFA3 528 Poly(A) RNA polymerase GL yes N/A 0.658 0.303 0.358 2e-27
>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 desciption
 Score =  163 bits (412), Expect = 1e-39,   Method: Compositional matrix adjust.
 Identities = 94/226 (41%), Positives = 125/226 (55%), Gaps = 56/226 (24%)

Query: 6    AVEEYVRFTLRDPAHVRLFVVGSTMTGFGLDSSDVDMCLGIRPYEFDRGQAIRVLCVLET 65
            A++ Y R+ L        ++VGS+++ FG   SD+D+C+              + C    
Sbjct: 968  AMKNYPRYGL--------YLVGSSISYFGSKCSDMDICM--------------LACT--N 1003

Query: 66   SDVDMCLEIFKKADLIHAKVPILKFQDSSFKLEVDLNCNNVVGVRNTHLLYCYAQKIFKK 125
             ++D  +E                     + L V      ++G  N          +F+ 
Sbjct: 1004 PNIDSRMEAV-------------------YHLHV---MKELLGRTN----------MFQD 1031

Query: 126  ADLIHAKVPILKFQDSSFKLEVDLNCNNVVGVRNTHLLYCYAQMDWRIRPLVLLVKLWAQ 185
             +LI A+VPIL+F D   K+EVD+N NN VG+RNTHLLYCY+Q+DWR+RP+ L VK WAQ
Sbjct: 1032 FNLIEARVPILRFTDRCHKVEVDINFNNSVGIRNTHLLYCYSQLDWRVRPMALTVKQWAQ 1091

Query: 186  AHNINDAKNMTISSYSFTLMVIHFLQCGTSPPVLPNLVAQYPTKFS 231
             HNIN+AKNMTISSYS  LMVIHFLQ G SPPVLP L   YP KF 
Sbjct: 1092 YHNINNAKNMTISSYSLMLMVIHFLQVGASPPVLPCLHNLYPEKFG 1137
Cytoplasmic poly(A) RNA polymerase that adds successive AMP monomers to the 3'-end of specific RNAs, forming a poly(A) tail. In contrast to the canonical nuclear poly(A) RNA polymerase, it only adds poly(A) to selected cytoplasmic mRNAs. Required for formation of long term memory.
Drosophila melanogaster (taxid: 7227)
EC: 2EC: .EC: 7EC: .EC: 7EC: .EC: 1EC: 9
>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 description
>sp|O17087|GLD2_CAEEL Poly(A) RNA polymerase gld-2 OS=Caenorhabditis elegans GN=gld-2 PE=1 SV=2 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|Q2HJ44|GLD2_BOVIN Poly(A) RNA polymerase GLD2 OS=Bos taurus GN=PAPD4 PE=2 SV=1 Back     alignment and function description
>sp|Q91YI6|GLD2_MOUSE Poly(A) RNA polymerase GLD2 OS=Mus musculus GN=Papd4 PE=1 SV=1 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|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
>sp|Q0VFA3|GLD2_XENTR Poly(A) RNA polymerase GLD2 OS=Xenopus tropicalis GN=papd4 PE=2 SV=1 Back     alignment and function description

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

Original result of BLAST against Nonredundant Database

GI ?Alignment Graph ?Length ? Definition ? Q cover ? H cover ? Identity ? E-value ?
Query243
340721319 655 PREDICTED: poly(A) RNA polymerase gld-2 0.695 0.258 0.504 1e-49
340721317 649 PREDICTED: poly(A) RNA polymerase gld-2 0.695 0.260 0.504 1e-49
350406748 655 PREDICTED: poly(A) RNA polymerase gld-2 0.695 0.258 0.5 2e-49
380015769 652 PREDICTED: poly(A) RNA polymerase gld-2 0.695 0.259 0.495 4e-48
328787132 373 PREDICTED: poly(A) RNA polymerase gld-2 0.695 0.453 0.495 7e-48
347965367 1187 AGAP001130-PA [Anopheles gambiae str. PE 0.699 0.143 0.502 7e-48
358343273 720 Poly(A) RNA polymerase gld-2-like protei 0.674 0.227 0.493 2e-46
170042745 1185 poly(A) polymerase cid [Culex quinquefas 0.687 0.140 0.479 5e-46
242016216 596 polyA polymerase CID, putative [Pediculu 0.679 0.276 0.481 1e-45
322785381 659 hypothetical protein SINV_03147 [Solenop 0.769 0.283 0.447 2e-43
>gi|340721319|ref|XP_003399070.1| PREDICTED: poly(A) RNA polymerase gld-2 homolog A-like isoform 2 [Bombus terrestris] Back     alignment and taxonomy information
 Score =  202 bits (514), Expect = 1e-49,   Method: Compositional matrix adjust.
 Identities = 112/222 (50%), Positives = 137/222 (61%), Gaps = 53/222 (23%)

Query: 23  LFVVGSTMTGFGLDSSDVDMCLGIRPYEFD-RGQAIRVLCVLETSDVDMCLEIFKKADLI 81
           LF+VGSTM GFG D+SDVDMCL +R  E D R +AI          ++  L+  K+ D I
Sbjct: 360 LFLVGSTMNGFGSDNSDVDMCLLVRHTEMDQRNEAI--------GHLEQILKCLKRCDFI 411

Query: 82  HAKVPILKFQDSSFKLEVDLNCNNVVGVRNTHLLYCYAQKIFKKADLIHAKVPILKFQDS 141
                                                     ++ +LI AKVPILKF DS
Sbjct: 412 ------------------------------------------EQLELIQAKVPILKFYDS 429

Query: 142 SFKLEVDLNCNNVVGVRNTHLLYCYAQMDWRIRPLVLLVKLWAQAHNINDAKNMTISSYS 201
              LEVDLNCNN VG+RNTHLLYCY+++DWR+RPLVL+VKLWAQ+ NINDAKNMTISSYS
Sbjct: 430 IQNLEVDLNCNNAVGIRNTHLLYCYSRIDWRVRPLVLVVKLWAQSQNINDAKNMTISSYS 489

Query: 202 FTLMVIHFLQCGTSPPVLPNLVAQYPTKFSPNSNID--NIQE 241
             LMVIHFLQCG +PPVLP L + Y  KF+P+++I   +IQE
Sbjct: 490 LVLMVIHFLQCGVNPPVLPCLHSLYKGKFAPHTDIHCIDIQE 531

Source: Bombus terrestris

Species: Bombus terrestris

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota
>gi|340721317|ref|XP_003399069.1| PREDICTED: poly(A) RNA polymerase gld-2 homolog A-like isoform 1 [Bombus terrestris] Back     alignment and taxonomy information
>gi|350406748|ref|XP_003487869.1| PREDICTED: poly(A) RNA polymerase gld-2 homolog A-like [Bombus impatiens] Back     alignment and taxonomy information
>gi|380015769|ref|XP_003691868.1| PREDICTED: poly(A) RNA polymerase gld-2 homolog A-like [Apis florea] Back     alignment and taxonomy information
>gi|328787132|ref|XP_393329.3| PREDICTED: poly(A) RNA polymerase gld-2 homolog A [Apis mellifera] Back     alignment and taxonomy information
>gi|347965367|ref|XP_322031.4| AGAP001130-PA [Anopheles gambiae str. PEST] gi|333470543|gb|EAA01442.4| AGAP001130-PA [Anopheles gambiae str. PEST] Back     alignment and taxonomy information
>gi|358343273|ref|XP_003635729.1| Poly(A) RNA polymerase gld-2-like protein [Medicago truncatula] gi|355501664|gb|AES82867.1| Poly(A) RNA polymerase gld-2-like protein [Medicago truncatula] Back     alignment and taxonomy information
>gi|170042745|ref|XP_001849075.1| poly(A) polymerase cid [Culex quinquefasciatus] gi|167866218|gb|EDS29601.1| poly(A) polymerase cid [Culex quinquefasciatus] Back     alignment and taxonomy information
>gi|242016216|ref|XP_002428725.1| polyA polymerase CID, putative [Pediculus humanus corporis] gi|212513410|gb|EEB15987.1| polyA polymerase CID, putative [Pediculus humanus corporis] Back     alignment and taxonomy information
>gi|322785381|gb|EFZ12054.1| hypothetical protein SINV_03147 [Solenopsis invicta] 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 ?
Query243
FB|FBgn0038934 1364 Gld2 [Drosophila melanogaster 0.448 0.079 0.678 1.6e-35
FB|FBgn0260780 1373 wisp "wispy" [Drosophila melan 0.452 0.080 0.627 5.3e-32
UNIPROTKB|F1RF43 484 PAPD4 "Uncharacterized protein 0.584 0.293 0.432 4.6e-29
UNIPROTKB|Q6PIY7 484 PAPD4 "Poly(A) RNA polymerase 0.584 0.293 0.439 6.1e-29
UNIPROTKB|Q2HJ44 484 PAPD4 "Poly(A) RNA polymerase 0.621 0.311 0.407 5.7e-27
ZFIN|ZDB-GENE-050522-536 489 papd4 "PAP associated domain c 0.506 0.251 0.507 2.2e-26
UNIPROTKB|E2RQN5 480 PAPD4 "Uncharacterized protein 0.440 0.222 0.545 2.6e-26
MGI|MGI:2140950 484 Papd4 "PAP associated domain c 0.580 0.291 0.435 7.8e-26
RGD|1306438 484 Papd4 "PAP associated domain c 0.580 0.291 0.435 1e-25
WB|WBGene00009284 808 F31C3.2 [Caenorhabditis elegan 0.456 0.137 0.451 1.2e-25
FB|FBgn0038934 Gld2 [Drosophila melanogaster (taxid:7227)] Back     alignment and assigned GO terms
 Score = 397 (144.8 bits), Expect = 1.6e-35, P = 1.6e-35
 Identities = 74/109 (67%), Positives = 87/109 (79%)

Query:   122 IFKKADLIHAKVPILKFQDSSFKLEVDLNCNNVVGVRNTHLLYCYAQMDWRIRPLVLLVK 181
             +F+  +LI A+VPIL+F D   K+EVD+N NN VG+RNTHLLYCY+Q+DWR+RP+ L VK
Sbjct:  1028 MFQDFNLIEARVPILRFTDRCHKVEVDINFNNSVGIRNTHLLYCYSQLDWRVRPMALTVK 1087

Query:   182 LWAQAHNINDAKNMTISSYSFTLMVIHFLQCGTSPPVLPNLVAQYPTKF 230
              WAQ HNIN+AKNMTISSYS  LMVIHFLQ G SPPVLP L   YP KF
Sbjct:  1088 QWAQYHNINNAKNMTISSYSLMLMVIHFLQVGASPPVLPCLHNLYPEKF 1136
GO:0004652 "polynucleotide adenylyltransferase activity" evidence=ISS;IDA
GO:0043005 "neuron projection" evidence=IDA
GO:0005737 "cytoplasm" evidence=IDA
GO:0007616 "long-term memory" evidence=IMP
GO:0005654 "nucleoplasm" evidence=IDA
FB|FBgn0260780 wisp "wispy" [Drosophila melanogaster (taxid:7227)] 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
UNIPROTKB|Q2HJ44 PAPD4 "Poly(A) RNA polymerase GLD2" [Bos taurus (taxid:9913)] Back     alignment and assigned GO terms
ZFIN|ZDB-GENE-050522-536 papd4 "PAP associated domain containing 4" [Danio rerio (taxid:7955)] Back     alignment and assigned GO terms
UNIPROTKB|E2RQN5 PAPD4 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)] 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
RGD|1306438 Papd4 "PAP associated domain containing 4" [Rattus norvegicus (taxid:10116)] Back     alignment and assigned GO terms
WB|WBGene00009284 F31C3.2 [Caenorhabditis elegans (taxid:6239)] 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 EFICAz Software ?

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

Prediction of Functionally Associated Proteins

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST ?

Original result of RPS-BLAST against CDD database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query243
COG5260 482 COG5260, TRF4, DNA polymerase sigma [DNA replicati 2e-22
cd05402114 cd05402, NT_PAP_TUTase, Nucleotidyltransferase (NT 1e-19
>gnl|CDD|227585 COG5260, TRF4, DNA polymerase sigma [DNA replication, recombination, and repair] Back     alignment and domain information 
 Score = 95.2 bits (237), Expect = 2e-22
 Identities = 57/218 (26%), Positives = 86/218 (39%), Gaps = 57/218 (26%)

Query: 23  LFVVGSTMTGFGLDSSDVDMCLGIRPYEFDRGQAIRVLCVLETSDVDMCLEIFKKADLIH 82
           L V GST TG  L  SD+D+C+                     SD     E      L  
Sbjct: 98  LKVFGSTETGLALPKSDIDLCI--------------------ISDPRGYKETRNAGSLAS 137

Query: 83  AKVPILKFQDSSFKLEVDLNCNNVVGVRNTHLLYCYAQKIFKKADLI-HAKVPILKFQDS 141
                                            + + + + K+  ++  A+VPI+K  D 
Sbjct: 138 ---------------------------------HLFKKNLAKEVVVVSTARVPIIKLVDP 164

Query: 142 SFKLEVDLNCNNVVGVRNTHLLYCYAQMDWRIRPLVLLVKLWAQAHNINDAKNMTISSYS 201
              L  D++ NN  G+ N  L+  Y + D R+RPLVL++K W +   +ND    T+SSY+
Sbjct: 165 QSGLHCDISFNNTNGIVNAKLIRSYLKEDPRLRPLVLIIKHWLKRRALNDVATGTLSSYT 224

Query: 202 FTLMVIHFLQCGTSPPVLPNLVAQYPTKFSPNSNIDNI 239
            + MV+ FLQ         N +    +    N NIDN+
Sbjct: 225 ISCMVLSFLQMHPPFLFFDNGLL---SPLKYNKNIDNL 259

Length = 482
>gnl|CDD|143392 cd05402, NT_PAP_TUTase, Nucleotidyltransferase (NT) domain of poly(A) polymerases and terminal uridylyl transferases Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 243
COG5260 482 TRF4 DNA polymerase sigma [DNA replication, recomb 100.0
KOG1906|consensus 514 99.96
cd05402114 NT_PAP_TUTase Nucleotidyltransferase (NT) domain o 99.92
KOG2277|consensus 596 99.88
PTZ00418 593 Poly(A) polymerase; Provisional 99.79
KOG2245|consensus 562 99.7
COG5186 552 PAP1 Poly(A) polymerase [RNA processing and modifi 99.38
TIGR03671 408 cca_archaeal CCA-adding enzyme. 99.15
PRK13300 447 tRNA CCA-pyrophosphorylase; Provisional 99.06
COG1746 443 CCA1 tRNA nucleotidyltransferase (CCA-adding enzym 98.58
PF0190993 NTP_transf_2: Nucleotidyltransferase domain A subs 98.48
cd0539749 NT_Pol-beta-like Nucleotidyltransferase (NT) domai 98.42
PF04928254 PAP_central: Poly(A) polymerase central domain; In 98.23
cd0540393 NT_KNTase_like Nucleotidyltransferase (NT) domain 98.07
cd05400143 NT_2-5OAS_ClassI-CCAase Nucleotidyltransferase (NT 97.98
COG166997 Predicted nucleotidyltransferases [General functio 97.48
COG1708128 Predicted nucleotidyltransferases [General functio 97.11
PRK13746262 aminoglycoside resistance protein; Provisional 96.99
PF03813 972 Nrap: Nrap protein; InterPro: IPR005554 Members of 95.77
PF10421190 OAS1_C: 2'-5'-oligoadenylate synthetase 1, domain 95.29
TIGR03135202 malonate_mdcG holo-ACP synthase, malonate decarbox 95.05
PRK02098221 phosphoribosyl-dephospho-CoA transferase; Provisio 94.8
PF09249114 tRNA_NucTransf2: tRNA nucleotidyltransferase, seco 94.41
smart00572246 DZF domain in DSRM or ZnF_C2H2 domain containing p 94.09
PF14792112 DNA_pol_B_palm: DNA polymerase beta palm ; PDB: 1R 92.38
cd05401172 NT_GlnE_GlnD_like Nucleotidyltransferase (NT) doma 90.68
PF07528248 DZF: DZF domain; InterPro: IPR006561 This domain i 90.12
PF14091152 DUF4269: Domain of unknown function (DUF4269) 89.67
PF03445138 DUF294: Putative nucleotidyltransferase DUF294; In 88.92
PF10620213 MdcG: Phosphoribosyl-dephospho-CoA transferase Mdc 84.8
PHA02603 330 nrdC.11 hypothetical protein; Provisional 80.41
>COG5260 TRF4 DNA polymerase sigma [DNA replication, recombination, and repair] Back     alignment and domain information 
Probab=100.00  E-value=1.7e-34  Score=266.56  Aligned_cols=184  Identities=30%  Similarity=0.436  Sum_probs=155.3

Q ss_pred             HHHHHHHHHHhcCCCCcEEEEecccccCCCCCCCCceEEEeecCCc-CChhhHHHHhhhcccchhHHHHHHH-hhccccc
Q psy12993          5 KAVEEYVRFTLRDPAHVRLFVVGSTMTGFGLDSSDVDMCLGIRPYE-FDRGQAIRVLCVLETSDVDMCLEIF-KKADLIH   82 (243)
Q Consensus         5 ~~i~~~~~~i~~~~p~~~v~~fGS~~tGl~l~~SDiDl~l~~~~~~-~~~~~a~~~l~~~~~~~~~~~~~~L-~~~~~~~   82 (243)
                      ..++++++.+++.||+|.+.+|||+.||+++|.||+|+||..++.. .+...+.            .++..+ +++.+  
T Consensus        80 ~~leklr~~lk~~~pda~l~vFGS~~t~L~l~~SDiDl~I~s~~~~~~et~~~~------------~l~~~l~~~~~~--  145 (482)
T COG5260          80 ALLEKLRTLLKKEFPDADLKVFGSTETGLALPKSDIDLCIISDPRGYKETRNAG------------SLASHLFKKNLA--  145 (482)
T ss_pred             HHHHHHHHHHHHhCCccceeEecccccccccCcccccEEEecCCccccccccHH------------HHHHHHHHhccC--
Confidence            5789999999999999999999999999999999999999985432 1111111            122222 22221  


Q ss_pred             cccceeecccCccceeeecccccccccccccccccccccceeEeeeccCCcceEEEEeCCCCeeEEEEecCchHhHHHHH
Q psy12993         83 AKVPILKFQDSSFKLEVDLNCNNVVGVRNTHLLYCYAQKIFKKADLIHAKVPILKFQDSSFKLEVDLNCNNVVGVRNTHL  162 (243)
Q Consensus        83 ~~~p~~~~~~~~~~~e~~~~~~~~~g~r~~~~~~c~~~~~~~~~~i~~ArVPIik~~~~~~~i~~DIs~~n~~g~~ns~l  162 (243)
                                                              .+++.+.+|||||||++++.+|+.|||+|||..|+.|+++
T Consensus       146 ----------------------------------------~~~~~v~tarVPIIKl~d~~s~l~~Disfn~~~~~~~akl  185 (482)
T COG5260         146 ----------------------------------------KEVVVVSTARVPIIKLVDPQSGLHCDISFNNTNGIVNAKL  185 (482)
T ss_pred             ----------------------------------------eeeEEEEecccceEEEecCccceEEEeecCchhHHHHHHH
Confidence                                                    4566799999999999999999999999999999999999


Q ss_pred             HHHHHhcCcchHHHHHHHHHHHHHCCCCCCCCCCCChHHHHHHHHHHHhcCCCC---------------------Ccccc
Q psy12993        163 LYCYAQMDWRIRPLVLLVKLWAQAHNINDAKNMTISSYSFTLMVIHFLQCGTSP---------------------PVLPN  221 (243)
Q Consensus       163 l~~~~~~~p~~r~L~~~lK~W~~~~~L~~~~~G~lsSy~l~lmvi~fLq~~~~~---------------------~iLp~  221 (243)
                      ++.|...+|++|||++++|||+++|.|++++.|||+||++++||+.|||.+..+                     -++-.
T Consensus       186 ~~~~~~~~P~lrpLvliIKhwl~~R~ln~~~~GtL~sy~i~cmV~sfLq~~~~~~~~~~~~~~~l~~~~~~~~lgvLf~d  265 (482)
T COG5260         186 IRSYLKEDPRLRPLVLIIKHWLKRRALNDVATGTLSSYTISCMVLSFLQMHPPFLFFDNGLLSPLKYNKNIDNLGVLFDD  265 (482)
T ss_pred             HHHHHhcCcccchHHHHHHHHHHHHhhcccccCcchhhhhHHHHHHHHHhCCccccccccccchhhccccccccchHHHH
Confidence            999999999999999999999999999999999999999999999999996311                     12455


Q ss_pred             hhhhcCCCCCCCcccccccCC
Q psy12993        222 LVAQYPTKFSPNSNIDNIQEG  242 (243)
Q Consensus       222 l~~~~~~~f~p~~~~~~~~~~  242 (243)
                      |+++||-.|++...+.++..|
T Consensus       266 Ff~~yG~~f~Y~~~~~si~~g  286 (482)
T COG5260         266 FFELYGKSFNYSLVVLSINSG  286 (482)
T ss_pred             HHHHhccccChhheEEEecCC
Confidence            788999999999999888877

>KOG1906|consensus 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 Back     alignment and domain information
>PTZ00418 Poly(A) polymerase; Provisional Back     alignment and domain information
>KOG2245|consensus Back     alignment and domain information
>COG5186 PAP1 Poly(A) polymerase [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
>COG1746 CCA1 tRNA nucleotidyltransferase (CCA-adding enzyme) [Translation, ribosomal structure and biogenesis] 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
>cd05397 NT_Pol-beta-like Nucleotidyltransferase (NT) domain of DNA polymerase beta and similar proteins 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
>cd05403 NT_KNTase_like Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar 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
>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
>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
>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
>TIGR03135 malonate_mdcG holo-ACP synthase, malonate decarboxylase-specific Back     alignment and domain information
>PRK02098 phosphoribosyl-dephospho-CoA transferase; Provisional 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
>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
>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
>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
>PF14091 DUF4269: Domain of unknown function (DUF4269) 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
>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
>PHA02603 nrdC 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 ?
Query243
4ep7_A 340 Functional Implications From The Cid1 Poly(U) Polym 3e-15
4fhx_A 349 Crystal Structures Of The Cid1 Poly (U) Polymerase 3e-15
4fh3_A 349 Crystal Structures Of The Cid1 Poly (U) Polymerase 3e-15
4e7x_A 405 Structural Basis For The Activity Of A Cytoplasmic 4e-15
3pq1_A464 Crystal Structure Of Human Mitochondrial Poly(A) Po 6e-13
3hj1_A 387 Minor Editosome-Associated Tutase 1 With Bound Utp 7e-05
3hiy_B 384 Minor Editosome-Associated Tutase 1 With Bound Utp 3e-04
>pdb|4EP7|A Chain A, Functional Implications From The Cid1 Poly(U) Polymerase Crystal Structure Length = 340 Back     alignment and structure 
Iteration: 1

 Score = 78.6 bits (192), Expect = 3e-15,   Method: Compositional matrix adjust.
 Identities = 40/106 (37%), Positives = 61/106 (57%), Gaps = 5/106 (4%)
Query: 123 FKKADLIHAKVPILKFQDSS-----FKLEVDLNCNNVVGVRNTHLLYCYAQMDWRIRPLV 177
           F+   L  A++PI+K    +        + D+  NN + + NT LL  Y ++D R++P+V
Sbjct: 93  FEGKFLQRARIPIIKLTSDTKNGFGASFQCDIGFNNRLAIHNTLLLSSYTKLDARLKPMV 152
Query: 178 LLVKLWAQAHNINDAKNMTISSYSFTLMVIHFLQCGTSPPVLPNLV 223
           LLVK WA+   IN     T+SSY + LMV+++L     PPV PNL+
Sbjct: 153 LLVKHWAKRKQINSPYFGTLSSYGYVLMVLYYLIHVIKPPVFPNLL 198
>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|3PQ1|A Chain A, Crystal Structure Of Human Mitochondrial Poly(A) Polymerase (Papd1) Length = 464 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

Structure Templates Detected by RPS-BLAST ?

Original result of RPS-BLAST against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query243
3pq1_A464 Poly(A) RNA polymerase; nucleotidyl transferase, R 3e-41
3hj4_A 384 Minor editosome-associated tutase; nucleotidyltran 5e-38
2b4v_A 468 RNA editing complex protein MP57; tbret2, TBMP57, 3e-33
4e8f_A 405 Poly(A) RNA polymerase protein CID1; beta polymera 4e-32
4ep7_A 340 Poly(A) RNA polymerase protein CID1; poly(U) polym 1e-30
2ikf_A 353 RNA uridylyl transferase; tutase, nucleotidyltrans 2e-30
3nyb_A323 Poly(A) RNA polymerase protein 2; polya RNA polyme 4e-29
2hhp_A 530 Poly(A) polymerase; template-independent RNA polym 4e-14
1q79_A 514 Poly(A) polymerase alpha; mRNA processing, nucleot 2e-11
>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 =  145 bits (367), Expect = 3e-41
 Identities = 49/237 (20%), Positives = 91/237 (38%), Gaps = 32/237 (13%)

Query: 1   MTLSKAVEEYVRFTLRDPAHVRLFVVGSTMTGFGLDSSDVDMCLGIRPYEFDRGQAIRVL 60
                 +E+       D     +   GS++  FG    D+DM L +          I   
Sbjct: 156 YLTCSLIEDMAAAYFPD---CIVRPFGSSVNTFGKLGCDLDMFLDLDETRNLSAHKISGN 212

Query: 61  CVLETSDVDMCLEIFKKADLIHAKVPILKFQDSSFKLEVDLNCNNVVGVRNTHLLYCYAQ 120
            ++E    ++  E      ++      L                                
Sbjct: 213 FLMEFQVKNVPSERIATQKILSVLGECLDHFGPGC------------------------- 247

Query: 121 KIFKKADLIHAKVPILKFQDSSFKLEVDLNCNNVVGVRNTHLLYCYAQMDWRIRPLVLLV 180
                  +++A+ P+++F   +   +  L  NN + + ++ LLY Y  +D R+R LV  V
Sbjct: 248 --VGVQKILNARCPLVRFSHQASGFQCALTTNNRIALTSSELLYIYGALDSRVRALVFSV 305

Query: 181 KLWAQAHNINDA-KNMTISSYSFTLMVIHFLQCGTSPPVLPNLVAQYPTKFSPNSNI 236
           + WA+AH++  +     I+++S T+MVI FLQ   SPP+LP L +      + +  +
Sbjct: 306 RCWARAHSLTSSIPGAWITNFSLTMMVIFFLQR-RSPPILPTLDSLKTLADAEDKCV 361
>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
>4e8f_A Poly(A) RNA polymerase protein CID1; beta polymerase-like nucleotidyl transferase, terminal uridi transferase, UTP, cytoplasmic; 2.60A {Schizosaccharomyces pombe 972h-} PDB: 4e7x_A* 4e80_A Length = 405 Back     alignment and structure
>4ep7_A Poly(A) RNA polymerase protein CID1; poly(U) polymerase, UTP binding, transferase; HET: UTP; 2.28A {Schizosaccharomyces pombe} Length = 340 Back     alignment and structure
>2ikf_A RNA uridylyl transferase; tutase, nucleotidyltransferase, UTP-binding, RNA editing; HET: UTP; 2.00A {Trypanosoma brucei} PDB: 2nom_A* 2q0c_A* 2q0d_A* 2q0e_A* 2q0f_A* 2q0g_A* Length = 353 Back     alignment and structure
>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
>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

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query243
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
2ikf_A353 RNA uridylyl transferase; tutase, nucleotidyltrans 100.0
4e8f_A 405 Poly(A) RNA polymerase protein CID1; beta polymera 100.0
3hj4_A 384 Minor editosome-associated tutase; nucleotidyltran 100.0
2b4v_A468 RNA editing complex protein MP57; tbret2, TBMP57, 100.0
1q79_A 514 Poly(A) polymerase alpha; mRNA processing, nucleot 99.96
2hhp_A 530 Poly(A) polymerase; template-independent RNA polym 99.95
1r89_A 437 TRNA nucleotidyltransferase; CCA adding enzyme, in 98.88
1px5_A349 2'-5'-oligoadenylate synthetase 1; 5-stranded anti 98.49
1no5_A114 Hypothetical protein HI0073; structural genomics, 98.07
1ylq_A96 Putative nucleotidyltransferase, hypothetical Pro 98.0
1wot_A98 Putative minimal nucleotidyltransferase; alpha and 97.78
2rff_A111 Putative nucleotidyltransferase; NP_343093.1, nucl 97.67
4ebj_A272 Aminoglycoside nucleotidyltransferase; structural 97.44
1kny_A253 Kntase, kanamycin nucleotidyltransferase; antibiot 96.87
3jz0_A287 Lincosamide nucleotidyltransferase; alpha-beta str 95.55
4at7_A 364 Interleukin enhancer-binding factor 2; transcripti 95.49
2fmp_A335 DNA polymerase beta; nucleotidyl transferase, tran 82.86
>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
Probab=100.00  E-value=1.2e-40  Score=311.64  Aligned_cols=181  Identities=25%  Similarity=0.410  Sum_probs=134.1

Q ss_pred             HHHHHHHHHHhcCCCCcEEEEecccccCCCCCCCCceEEEeecCCcCCh-----hhH-HH-Hhhhcc--cchh----HHH
Q psy12993          5 KAVEEYVRFTLRDPAHVRLFVVGSTMTGFGLDSSDVDMCLGIRPYEFDR-----GQA-IR-VLCVLE--TSDV----DMC   71 (243)
Q Consensus         5 ~~i~~~~~~i~~~~p~~~v~~fGS~~tGl~l~~SDiDl~l~~~~~~~~~-----~~a-~~-~l~~~~--~~~~----~~~   71 (243)
                      .+++++++++++.||+++|+||||++|||++|+||||+++..+......     +.. .+ .+..+.  +...    ..+
T Consensus       157 ~vv~~le~ii~~~fP~a~V~~FGS~~tGL~lp~SDIDlvl~~~~~~~~~~~~~~g~~~le~~~k~l~seR~~~~~iL~~l  236 (464)
T 3pq1_A          157 LTCSLIEDMAAAYFPDCIVRPFGSSVNTFGKLGCDLDMFLDLDETRNLSAHKISGNFLMEFQVKNVPSERIATQKILSVL  236 (464)
T ss_dssp             HHHHHHHHHHTTTSTTCEEEEEGGGTSSCCBTTCCEEEEEECC-----CCSCEECC---EECCCCCSCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCCEEEEeCCCccCCCCCCCCeEEEEecCCcccccccccccchhhhhhhccchhhHHHHHHHHHHH
Confidence            5678899999999999999999999999999999999999865421000     000 00 000000  0001    122


Q ss_pred             HHHHhhccccccccceeecccCccceeeecccccccccccccccccccccceeEeeeccCCcceEEEEeCCCCeeEEEEe
Q psy12993         72 LEIFKKADLIHAKVPILKFQDSSFKLEVDLNCNNVVGVRNTHLLYCYAQKIFKKADLIHAKVPILKFQDSSFKLEVDLNC  151 (243)
Q Consensus        72 ~~~L~~~~~~~~~~p~~~~~~~~~~~e~~~~~~~~~g~r~~~~~~c~~~~~~~~~~i~~ArVPIik~~~~~~~i~~DIs~  151 (243)
                      .+.|++..                           +|             +.++..|.+||||||||+|..+|+.|||||
T Consensus       237 a~~L~~~~---------------------------~~-------------~~~v~~I~~ARVPIIKf~~~~tgi~~DIS~  276 (464)
T 3pq1_A          237 GECLDHFG---------------------------PG-------------CVGVQKILNARCPLVRFSHQASGFQCALTT  276 (464)
T ss_dssp             HHHHHHSS---------------------------TT-------------EEEEEEECSSSSCEEEEEETTTCCEEEEEC
T ss_pred             HHHHHhcC---------------------------CC-------------CceeEEecCCCCCEEEEEEcCCCeEEEEec
Confidence            33333211                           01             135567999999999999999999999999


Q ss_pred             cCchHhHHHHHHHHHHhcCcchHHHHHHHHHHHHHCCCCCCCCCC-CChHHHHHHHHHHHhcCCCCCcccchhhhc
Q psy12993        152 NNVVGVRNTHLLYCYAQMDWRIRPLVLLVKLWAQAHNINDAKNMT-ISSYSFTLMVIHFLQCGTSPPVLPNLVAQY  226 (243)
Q Consensus       152 ~n~~g~~ns~ll~~~~~~~p~~r~L~~~lK~W~~~~~L~~~~~G~-lsSy~l~lmvi~fLq~~~~~~iLp~l~~~~  226 (243)
                      +|..|+.||++++.|.+.||++|+|++++|+|++++||++++.|| ||||+|++|||+|||+ +.||+||++|+++
T Consensus       277 nn~~gi~ns~ll~~y~~~dprlr~Lvl~vK~Wak~r~Ln~~~~Gg~LsSYsL~lMVI~fLQ~-~~ppvLP~Lq~l~  351 (464)
T 3pq1_A          277 NNRIALTSSELLYIYGALDSRVRALVFSVRCWARAHSLTSSIPGAWITNFSLTMMVIFFLQR-RSPPILPTLDSLK  351 (464)
T ss_dssp             SCTTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTSSCC--CCSCCHHHHHHHHHHHHHS-CC-------CCSH
T ss_pred             CCCcHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHhCCCccccCCCcCcHHHHHHHHHHHHc-cCCCcCCChHHhc
Confidence            999999999999999999999999999999999999999999998 9999999999999998 6899999999975
>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
>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
>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
>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
>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
>3jz0_A Lincosamide nucleotidyltransferase; alpha-beta structure, transferase-antibiotic CO; HET: APC CLY; 2.00A {Enterococcus faecium} PDB: 3jyy_A* 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
>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

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 243
d2b4va1 183 a.160.1.4 (A:289-471) RNA editing terminal uridyl 8e-19
d2q66a2197 d.218.1.3 (A:5-201) Poly(A) polymerase, PAP, N-ter 1e-06
d1q79a2196 d.218.1.3 (A:19-214) Poly(A) polymerase, PAP, N-te 1e-04
>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 = 79.1 bits (194), Expect = 8e-19
 Identities = 13/67 (19%), Positives = 25/67 (37%)

Query: 172 RIRPLVLLVKLWAQAHNINDAKNMTISSYSFTLMVIHFLQCGTSPPVLPNLVAQYPTKFS 231
             R   + VK W +A N+       ++SY+ T+M I++L        +      +P    
Sbjct: 3   AARHTAMAVKAWGKATNVGAGSGAMLTSYAVTVMFIYYLLVTRQVLWVDPWSLPHPAHLP 62

Query: 232 PNSNIDN 238
              +   
Sbjct: 63  RYPDFSP 69
>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
>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

Homologous Domains Detected by HHsearch ?

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

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query243
d1q79a2196 Poly(A) polymerase, PAP, N-terminal domain {Cow (B 99.64
d2q66a2197 Poly(A) polymerase, PAP, N-terminal domain {Baker' 99.63
d2b4va1183 RNA editing terminal uridyl transferase 2, TUTase 99.61
d2b4va2259 RNA editing terminal uridyl transferase 2, TUTase 99.13
d1no5a_100 Hypothetical protein HI0073 {Haemophilus influenza 98.52
d1ylqa190 Putative nucleotidyltransferase AF0614 {Archaeon A 98.3
d2q66a1150 Poly(A) polymerase, PAP, middle domain {Baker's ye 97.86
d1q79a1150 Poly(A) polymerase, PAP, middle domain {Cow (Bos t 97.83
d1wota_98 Unnamed putative nucleotidyltransferase {Thermus t 97.7
d1knya2125 Kanamycin nucleotidyltransferase (KNTase), N-termi 97.57
d1r89a2142 tRNA nucleotidyltransferase, N-terminal domain {Ar 97.38
d1px5a2200 2'-5'-oligoadenylate synthetase 1, OAS1, N-termina 93.97
d1r89a1115 tRNA nucleotidyltransferase, second domain {Archae 93.69
d2pbea2135 Aminoglycoside 6-adenylyltransferase AadK {Bacillu 91.44
d2bcqa3190 DNA polymerase lambda {Human (Homo sapiens) [TaxId 91.08
d2fmpa3187 DNA polymerase beta, catalytic (31 kD) fragment {H 90.94
d1px5a1146 2'-5'-oligoadenylate synthetase 1, OAS1, second do 89.16
d1jmsa4208 Terminal deoxynucleotidyl transferase {Mouse (Mus 83.67
>d1q79a2 d.218.1.3 (A:19-214) Poly(A) polymerase, PAP, N-terminal domain {Cow (Bos taurus) [TaxId: 9913]} Back     information, alignment and structure
class: Alpha and beta proteins (a+b)
fold: Nucleotidyltransferase
superfamily: Nucleotidyltransferase
family: Poly(A) polymerase, PAP, N-terminal domain
domain: Poly(A) polymerase, PAP, N-terminal domain
species: Cow (Bos taurus) [TaxId: 9913]

Probab=99.64  E-value=5e-16  Score=128.29  Aligned_cols=82  Identities=18%  Similarity=0.208  Sum_probs=63.1

Q ss_pred             CCCCcEEEEecccccCCCCCCCCceEEEeecCCcCChhhHHHHhhhcccchhHHHHHHHhhccccccccceeecccCccc
Q psy12993         17 DPAHVRLFVVGSTMTGFGLDSSDVDMCLGIRPYEFDRGQAIRVLCVLETSDVDMCLEIFKKADLIHAKVPILKFQDSSFK   96 (243)
Q Consensus        17 ~~p~~~v~~fGS~~tGl~l~~SDiDl~l~~~~~~~~~~~a~~~l~~~~~~~~~~~~~~L~~~~~~~~~~p~~~~~~~~~~   96 (243)
                      .+++++|++|||+.+|+++|+||||+++..+.. .++...   +        ..+.+.|++.+.                
T Consensus        73 ~~~~~~v~~FGS~~lgv~~p~SDID~~~i~p~~-~~~~~f---f--------~~l~~~L~~~~~----------------  124 (196)
T d1q79a2          73 ENVGGKIFTFGSYRLGVHTKGADIDALCVAPRH-VDRSDF---F--------TSFYDKLKLQEE----------------  124 (196)
T ss_dssp             TTCBCEEEEEHHHHHTCCCTTCCEEEEEEECTT-SCHHHH---T--------THHHHHHHTCTT----------------
T ss_pred             ccCCcEEEEeccccccccCCCCCccEEEecCCc-CCHHHH---H--------HHHHHHHhcCCC----------------
Confidence            567899999999999999999999988887643 343222   2        256677765432                


Q ss_pred             eeeecccccccccccccccccccccceeEeeeccCCcceEEEEeCCCCeeEEEEecC
Q psy12993         97 LEVDLNCNNVVGVRNTHLLYCYAQKIFKKADLIHAKVPILKFQDSSFKLEVDLNCNN  153 (243)
Q Consensus        97 ~e~~~~~~~~~g~r~~~~~~c~~~~~~~~~~i~~ArVPIik~~~~~~~i~~DIs~~n  153 (243)
                                               +-++..|..|+||||||..  +|++|||+|..
T Consensus       125 -------------------------v~~v~~I~~A~VPiiK~~~--~gi~iDlsfa~  154 (196)
T d1q79a2         125 -------------------------VKDLRAVEEAFVPVIKLCF--DGIEIDILFAR  154 (196)
T ss_dssp             -------------------------EEEEEEETTSSSCEEEEEE--TTEEEEEEEEE
T ss_pred             -------------------------cceEEEeccccccEEEEEE--cCeeEeehhhh
Confidence                                     1245679999999999998  79999999963
>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
>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
>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
>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
>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
>d1wota_ d.218.1.5 (A:) Unnamed putative nucleotidyltransferase {Thermus thermophilus [TaxId: 274]} 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
>d1r89a2 d.218.1.7 (A:1-142) tRNA nucleotidyltransferase, N-terminal domain {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
>d2pbea2 d.218.1.13 (A:1-135) Aminoglycoside 6-adenylyltransferase AadK {Bacillus subtilis [TaxId: 1423]} 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
>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
>d1jmsa4 d.218.1.2 (A:303-510) Terminal deoxynucleotidyl transferase {Mouse (Mus musculus) [TaxId: 10090]} Back     information, alignment and structure