Citrus Sinensis ID: 002293
Local Sequence Feature Prediction
| Prediction and (Method) | Result |
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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 |
| Query | 940 | 2.2.26 [Sep-21-2011] | |||||||
| Q9S1G2 | 1016 | DNA polymerase I OS=Rhizo | yes | no | 0.093 | 0.086 | 0.505 | 3e-17 | |
| P30313 | 831 | DNA polymerase I, thermos | yes | no | 0.147 | 0.167 | 0.369 | 3e-17 | |
| P19821 | 832 | DNA polymerase I, thermos | N/A | no | 0.146 | 0.165 | 0.378 | 4e-17 | |
| P74933 | 997 | DNA polymerase I OS=Trepo | yes | no | 0.102 | 0.096 | 0.474 | 6e-17 | |
| P43741 | 930 | DNA polymerase I OS=Haemo | yes | no | 0.1 | 0.101 | 0.473 | 6e-17 | |
| P52028 | 834 | DNA polymerase I, thermos | yes | no | 0.147 | 0.166 | 0.355 | 1e-16 | |
| O08307 | 942 | DNA polymerase I OS=Chlor | yes | no | 0.111 | 0.111 | 0.415 | 2e-16 | |
| P80194 | 834 | DNA polymerase I, thermos | N/A | no | 0.147 | 0.166 | 0.355 | 2e-16 | |
| Q9F173 | 928 | DNA polymerase I OS=Salmo | yes | no | 0.103 | 0.104 | 0.504 | 3e-16 | |
| P00582 | 928 | DNA polymerase I OS=Esche | N/A | no | 0.104 | 0.105 | 0.470 | 4e-16 |
| >sp|Q9S1G2|DPO1_RHILE DNA polymerase I OS=Rhizobium leguminosarum GN=polA PE=3 SV=1 | Back alignment and function desciption |
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Score = 91.3 bits (225), Expect = 3e-17, Method: Compositional matrix adjust.
Identities = 45/89 (50%), Positives = 59/89 (66%), Gaps = 1/89 (1%)
Query: 823 RVHCSLNI-NTETGRLSARRPNLQNQPALEKDRYKIRQAFIAVPGNSLIVADYGQLELRI 881
RVH S ++ +T TGRLS+ PNLQN P + KIR AFI+ PG+ LI ADY Q+ELR+
Sbjct: 736 RVHTSYSLASTTTGRLSSSEPNLQNIPVRTAEGRKIRTAFISTPGHKLISADYSQIELRV 795
Query: 882 LAHLANCKSMLDAFKAGGDFHSRTAMNMY 910
LAH+A + AF+ G D H+ TA M+
Sbjct: 796 LAHVAEIPQLTKAFEDGVDIHAMTASEMF 824
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In addition to polymerase activity, this DNA polymerase exhibits 3' to 5' and 5' to 3' exonuclease activity. Rhizobium leguminosarum (taxid: 384) EC: 2EC: .EC: 7EC: .EC: 7EC: .EC: 7 |
| >sp|P30313|DPO1F_THETH DNA polymerase I, thermostable OS=Thermus thermophilus GN=polA PE=1 SV=1 | Back alignment and function description |
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| >sp|P19821|DPO1_THEAQ DNA polymerase I, thermostable OS=Thermus aquaticus GN=polA PE=1 SV=1 | Back alignment and function description |
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| >sp|P74933|DPO1_TREPA DNA polymerase I OS=Treponema pallidum (strain Nichols) GN=polA PE=3 SV=2 | Back alignment and function description |
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| >sp|P43741|DPO1_HAEIN DNA polymerase I OS=Haemophilus influenzae (strain ATCC 51907 / DSM 11121 / KW20 / Rd) GN=polA PE=3 SV=1 | Back alignment and function description |
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| >sp|P52028|DPO1T_THET8 DNA polymerase I, thermostable OS=Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) GN=polA PE=3 SV=2 | Back alignment and function description |
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| >sp|O08307|DPO1_CHLAA DNA polymerase I OS=Chloroflexus aurantiacus (strain ATCC 29366 / DSM 635 / J-10-fl) GN=polA PE=3 SV=1 | Back alignment and function description |
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| >sp|P80194|DPO1_THECA DNA polymerase I, thermostable OS=Thermus caldophilus GN=polA PE=1 SV=2 | Back alignment and function description |
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| >sp|Q9F173|DPO1_SALTY DNA polymerase I OS=Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720) GN=polA PE=3 SV=2 | Back alignment and function description |
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| >sp|P00582|DPO1_ECOLI DNA polymerase I OS=Escherichia coli (strain K12) GN=polA PE=1 SV=1 | Back alignment and function description |
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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 |
| Query | 940 | ||||||
| 224126389 | 834 | predicted protein [Populus trichocarpa] | 0.65 | 0.732 | 0.705 | 0.0 | |
| 224117482 | 834 | predicted protein [Populus trichocarpa] | 0.653 | 0.736 | 0.701 | 0.0 | |
| 225461738 | 1034 | PREDICTED: uncharacterized protein LOC10 | 0.631 | 0.574 | 0.715 | 0.0 | |
| 302142870 | 1118 | unnamed protein product [Vitis vinifera] | 0.631 | 0.531 | 0.715 | 0.0 | |
| 255563979 | 963 | DNA polymerase I, putative [Ricinus comm | 0.648 | 0.633 | 0.691 | 0.0 | |
| 449513483 | 1126 | PREDICTED: LOW QUALITY PROTEIN: uncharac | 0.718 | 0.599 | 0.647 | 0.0 | |
| 356499384 | 1077 | PREDICTED: uncharacterized protein LOC10 | 0.635 | 0.554 | 0.710 | 0.0 | |
| 449470431 | 1136 | PREDICTED: uncharacterized protein LOC10 | 0.718 | 0.594 | 0.641 | 0.0 | |
| 356553303 | 847 | PREDICTED: uncharacterized protein LOC10 | 0.635 | 0.704 | 0.703 | 0.0 | |
| 76880150 | 1152 | DNA polymerase [Nicotiana tabacum] | 0.637 | 0.519 | 0.692 | 0.0 |
| >gi|224126389|ref|XP_002319826.1| predicted protein [Populus trichocarpa] gi|222858202|gb|EEE95749.1| predicted protein [Populus trichocarpa] | Back alignment and taxonomy information |
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Score = 938 bits (2424), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 458/649 (70%), Positives = 520/649 (80%), Gaps = 38/649 (5%)
Query: 315 GTGQNKKASENENSEKLEILRSKLASFYSNVMVVDNVSAAKKVVWMLTNKYKHLVHACDT 374
G G N++ KL+I R +L S Y +V+VVDNV+ AK+VV LTN+Y+HL+HACDT
Sbjct: 16 GIGSNEQVQTKGRPHKLDI-RERLTSIYESVLVVDNVTMAKEVVSKLTNQYRHLIHACDT 74
Query: 375 EVAKIDVKQETPVDHGEVICFSIYSGPEADFGNGKSCIWVDLLDGGGRDLLNEFAPFFED 434
EVA+IDVK+ETP+DHGE+ C SIY GPEADFG+GKSCIWVD+LDGGGRDLLNEFA FFED
Sbjct: 75 EVARIDVKEETPIDHGEITCLSIYCGPEADFGHGKSCIWVDVLDGGGRDLLNEFALFFED 134
Query: 435 PSIKKVWHNYSFDNHVLENYGLKVSGFHADTMHMARLWDSSRRTEGGYSLEALTGDRKVM 494
P IKKVWHNYSFDNHV+ENYG VSGFHADTMHMARLWDSSRR +GGYSLEALTGD+KVM
Sbjct: 135 PDIKKVWHNYSFDNHVIENYGFSVSGFHADTMHMARLWDSSRRLKGGYSLEALTGDQKVM 194
Query: 495 SEDKKAYQKDMSKGNTDEGFMGKISMKDIFGRRKLKKDGSAGKISTIAPVEELQREEREL 554
Y++ +GK+SMK IFG++KLKKDGS GK++ IAPVEELQREERE
Sbjct: 195 RGAGSCYKE----------LIGKVSMKTIFGKKKLKKDGSEGKMTIIAPVEELQREEREP 244
Query: 555 WISYSAFDSINTLKLYKSLKKKLLEMSWKLDGKPVPGKSMFDFYQEYWQPFGEILVKMET 614
WI YSA D+I+TL+LYKS++ +L +M W LDGK V KSMFDFYQEYWQPFGEILV+MET
Sbjct: 245 WICYSALDAISTLQLYKSMESELSKMPWNLDGKRVFQKSMFDFYQEYWQPFGEILVRMET 304
Query: 615 EGMLVDREYLSEIEKVARAEQEAAVNRFRKWASKHCPDAKYMNVGSDTQLRQLLFGGKPN 674
EGMLVDR YL+E+EKVA+AEQE A NRFR WA K+CPDAKYMNVGSDTQLRQLLFGG PN
Sbjct: 305 EGMLVDRAYLAEVEKVAKAEQEVAANRFRNWACKYCPDAKYMNVGSDTQLRQLLFGGVPN 364
Query: 675 SKDDSESLPIERIFKVPNTEGVIAEGKKTPSKFRNITLRSIGVDLPTEMYTATGWPSVGG 734
SKD +LP ++ FKVPN + VI EGKKTP+K+RNI L SIGVDLP E YTA+GWPSV G
Sbjct: 365 SKDPLLTLPEDKTFKVPNVDKVIEEGKKTPTKYRNIKLCSIGVDLPIETYTASGWPSVSG 424
Query: 735 DALKTLARNISAEYDCVDGAHD----------LDDSGCT--EETEYKGAVASNN------ 776
ALK LA IS D V A+D LDDSG E++ +G+ N
Sbjct: 425 VALKALAGKIS---DAVSDANDAAGLQLDDAVLDDSGTMTDEDSNSEGSYVENKVESEYV 481
Query: 777 ---KIFATEQEAREACDAISALCEVCSIDSLISNFILPLQGSNVSGKNGRVHCSLNINTE 833
+ F T +E EAC AI++LCEVCSIDSLISNFILPLQ S++SGK GRVHCSLNINTE
Sbjct: 482 AGLRRFQTPEEGIEACHAIASLCEVCSIDSLISNFILPLQSSDISGKGGRVHCSLNINTE 541
Query: 834 TGRLSARRPNLQNQPALEKDRYKIRQAFIAVPGNSLIVADYGQLELRILAHLANCKSMLD 893
TGRLSARRPNLQNQPALEKDRYKIRQAFIA PGNSLIVADYGQLELRILAHLANCKSMLD
Sbjct: 542 TGRLSARRPNLQNQPALEKDRYKIRQAFIAAPGNSLIVADYGQLELRILAHLANCKSMLD 601
Query: 894 AFKAGGDFHSRTAMNMYPHIRNAVETGQVLLEWH---GEDKPPVPLLKN 939
AFKAGGDFHSRTAMNMYPHIR A+E QVLLEW+ GE+KPPVPLLK+
Sbjct: 602 AFKAGGDFHSRTAMNMYPHIREAIEKKQVLLEWYPQPGENKPPVPLLKD 650
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Source: Populus trichocarpa Species: Populus trichocarpa Genus: Populus Family: Salicaceae Order: Malpighiales Class: Phylum: Streptophyta Superkingdom: Eukaryota |
| >gi|224117482|ref|XP_002317586.1| predicted protein [Populus trichocarpa] gi|222860651|gb|EEE98198.1| predicted protein [Populus trichocarpa] | Back alignment and taxonomy information |
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| >gi|225461738|ref|XP_002283388.1| PREDICTED: uncharacterized protein LOC100257153 [Vitis vinifera] | Back alignment and taxonomy information |
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| >gi|302142870|emb|CBI20165.3| unnamed protein product [Vitis vinifera] | Back alignment and taxonomy information |
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| >gi|255563979|ref|XP_002522989.1| DNA polymerase I, putative [Ricinus communis] gi|223537801|gb|EEF39419.1| DNA polymerase I, putative [Ricinus communis] | Back alignment and taxonomy information |
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| >gi|449513483|ref|XP_004164337.1| PREDICTED: LOW QUALITY PROTEIN: uncharacterized LOC101212518 [Cucumis sativus] | Back alignment and taxonomy information |
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| >gi|356499384|ref|XP_003518521.1| PREDICTED: uncharacterized protein LOC100797016 [Glycine max] | Back alignment and taxonomy information |
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| >gi|449470431|ref|XP_004152920.1| PREDICTED: uncharacterized protein LOC101212518 [Cucumis sativus] | Back alignment and taxonomy information |
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| >gi|356553303|ref|XP_003544996.1| PREDICTED: uncharacterized protein LOC100807239 [Glycine max] | Back alignment and taxonomy information |
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| >gi|76880150|dbj|BAE45850.1| DNA polymerase [Nicotiana tabacum] | Back alignment and taxonomy information |
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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 |
| Query | 940 | ||||||
| TAIR|locus:2036361 | 1050 | POLGAMMA2 "polymerase gamma 2" | 0.681 | 0.610 | 0.614 | 4.6e-215 | |
| DICTYBASE|DDB_G0267464 | 1369 | polA "mitochondrial DNA polyme | 0.357 | 0.245 | 0.495 | 2.8e-124 | |
| UNIPROTKB|Q0C2B4 | 929 | polA "DNA polymerase I" [Hypho | 0.115 | 0.117 | 0.477 | 1.4e-20 | |
| TIGR_CMR|SPO_3844 | 933 | SPO_3844 "DNA polymerase I" [R | 0.115 | 0.116 | 0.432 | 1.6e-19 | |
| TIGR_CMR|CPS_4978 | 936 | CPS_4978 "DNA polymerase I" [C | 0.111 | 0.112 | 0.464 | 4.4e-19 | |
| TIGR_CMR|SO_4669 | 922 | SO_4669 "DNA polymerase I" [Sh | 0.114 | 0.117 | 0.456 | 7.1e-19 | |
| TIGR_CMR|GSU_0541 | 891 | GSU_0541 "DNA polymerase I" [G | 0.095 | 0.101 | 0.494 | 2.5e-18 | |
| UNIPROTKB|Q9KVN3 | 934 | VC_0108 "DNA polymerase I" [Vi | 0.095 | 0.096 | 0.472 | 1.8e-16 | |
| TIGR_CMR|VC_0108 | 934 | VC_0108 "DNA polymerase I" [Vi | 0.095 | 0.096 | 0.472 | 1.8e-16 | |
| UNIPROTKB|P00582 | 928 | polA [Escherichia coli K-12 (t | 0.104 | 0.105 | 0.470 | 4.1e-16 |
| TAIR|locus:2036361 POLGAMMA2 "polymerase gamma 2" [Arabidopsis thaliana (taxid:3702)] | Back alignment and assigned GO terms |
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Score = 2078 (736.6 bits), Expect = 4.6e-215, P = 4.6e-215
Identities = 412/671 (61%), Positives = 488/671 (72%)
Query: 288 GSSYTPPPKLVSFKRSNQKNPKNDAAEGTGQNKKASENENSEKLEILRSKLASFYSNVMV 347
G + PK +R + + A G S+ E S + +R L Y V++
Sbjct: 209 GDNMDVNPKGEGIQRPLISDKSSGTANGNKNTVAISKVERSTEPSNVRENLGKIYDKVLI 268
Query: 348 VDNVSAAKKVVWMLTNKYKHLVHACDTEVAKIDVKQETPVDHGEVICFSIYSGPEADFGN 407
VDNV AAK V L N++++ VH+CDTEV+ I+VK+ETPVDHGE+ICFSIY GPEADFGN
Sbjct: 269 VDNVQAAKDTVAKLVNQFRNHVHSCDTEVSGIEVKEETPVDHGELICFSIYCGPEADFGN 328
Query: 408 GKSCIWVXXXXXXXXXXXNEFAPFFEDPSIKKVWHNYSFDNHVLENYGLKVSGFHADTMH 467
GKSCIWV EF P+FED I+KVWHNYSFD+H++ N+G+++SGFHADTMH
Sbjct: 329 GKSCIWVDVLGENGREVLAEFKPYFEDSFIRKVWHNYSFDSHIIRNHGIEISGFHADTMH 388
Query: 468 MARLWDSSRRTEGGYSLEALTGDRKVMSEDKKAYQKDMSKGNTDEGFMGKISMKDIFGRR 527
MARLWDS+RR +GGYSLEALT D KV+ + + + F+GKISMK IFG+R
Sbjct: 389 MARLWDSARRIKGGYSLEALTSDPKVLGGTQTKEEAE---------FLGKISMKTIFGKR 439
Query: 528 KLKKDGSAGKISTIAPVEELQREERELWISYSAFDSINTXXXXXXXXXXXXXXXXXXDGK 587
KLKKDGS GKI I PVEELQRE+RE WISYSA D+I+T DGK
Sbjct: 440 KLKKDGSEGKIVVIPPVEELQREDREAWISYSALDAISTLKLYESMTKKLQLMDWHLDGK 499
Query: 588 PVPGKSMFDFYQEYWQPFGEILVKMETEGMLVDREYLSEIEKVARAEQEAAVNRFRKWAS 647
PV G++M DFY E+W+PFGE+LVKME EG+LVDREYL+EIEKVA+AEQ+ A +RFR WAS
Sbjct: 500 PVLGRTMLDFYHEFWRPFGELLVKMEAEGILVDREYLAEIEKVAKAEQQVAGSRFRNWAS 559
Query: 648 KHCPDAKYMNVGSDTQLRQLLFGGKPNSKDDSESLPIERIFKVPNTEGVIAEGKKTPSKF 707
K+CPDAKYMN+GSDTQLRQL FGG NS D E LP+E++FKVPN + VI EGKKTP+KF
Sbjct: 560 KYCPDAKYMNIGSDTQLRQLFFGGISNSHD--EVLPVEKLFKVPNIDKVIEEGKKTPTKF 617
Query: 708 RNITLRSIGVD-LPTEMYTATGWPSVGGDALKTLARNISAEYDCVDGAHDL-------DD 759
RNI L I L TE +TA+GWPSVGGD LK LA +SAEYD +D D+ DD
Sbjct: 618 RNIKLHRISDSPLSTENFTASGWPSVGGDVLKELAGKVSAEYDFMDDVSDISLEEVVEDD 677
Query: 760 SGCTEETEYK--------GAVASNNKIFATEQEAREACDAISALCEVCSIDSLISNFILP 811
T ET+ A + F + +EAC AI++LCEVCSIDSLISNFILP
Sbjct: 678 DVETSETQKSKTDDETDTSAYGTAYVAFGGGERGKEACHAIASLCEVCSIDSLISNFILP 737
Query: 812 LQGSNVSGKNGRVHCSLNINTETGRLSARRPNLQNQPALEKDRYKIRQAFIAVPGNSLIV 871
LQGSNVSGK+GRVHCSLNINTETGRLSARRPNLQNQPALEKDRYKIR+AF+A PGN+L+V
Sbjct: 738 LQGSNVSGKDGRVHCSLNINTETGRLSARRPNLQNQPALEKDRYKIRKAFVASPGNTLVV 797
Query: 872 ADYGQLELRILAHLANCKSMLDAFKAGGDFHSRTAMNMYPHIRNAVETGQVLLEWH---G 928
ADYGQLELRILAHL CKSM++AFKAGGDFHSRTAMNMYPH+R AVE GQV+LEWH G
Sbjct: 798 ADYGQLELRILAHLTGCKSMMEAFKAGGDFHSRTAMNMYPHVREAVENGQVILEWHPEPG 857
Query: 929 EDKPPVPLLKN 939
EDKPPVPLLK+
Sbjct: 858 EDKPPVPLLKD 868
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| DICTYBASE|DDB_G0267464 polA "mitochondrial DNA polymerase A" [Dictyostelium discoideum (taxid:44689)] | Back alignment and assigned GO terms |
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| UNIPROTKB|Q0C2B4 polA "DNA polymerase I" [Hyphomonas neptunium ATCC 15444 (taxid:228405)] | Back alignment and assigned GO terms |
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| TIGR_CMR|SPO_3844 SPO_3844 "DNA polymerase I" [Ruegeria pomeroyi DSS-3 (taxid:246200)] | Back alignment and assigned GO terms |
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| TIGR_CMR|CPS_4978 CPS_4978 "DNA polymerase I" [Colwellia psychrerythraea 34H (taxid:167879)] | Back alignment and assigned GO terms |
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| TIGR_CMR|SO_4669 SO_4669 "DNA polymerase I" [Shewanella oneidensis MR-1 (taxid:211586)] | Back alignment and assigned GO terms |
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| TIGR_CMR|GSU_0541 GSU_0541 "DNA polymerase I" [Geobacter sulfurreducens PCA (taxid:243231)] | Back alignment and assigned GO terms |
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| UNIPROTKB|Q9KVN3 VC_0108 "DNA polymerase I" [Vibrio cholerae O1 biovar El Tor str. N16961 (taxid:243277)] | Back alignment and assigned GO terms |
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| TIGR_CMR|VC_0108 VC_0108 "DNA polymerase I" [Vibrio cholerae O1 biovar El Tor (taxid:686)] | Back alignment and assigned GO terms |
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| UNIPROTKB|P00582 polA [Escherichia coli K-12 (taxid:83333)] | Back alignment and assigned GO terms |
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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 Level | EC number | Confidence of Prediction |
| 3rd Layer | 2.7.7 | LOW CONFIDENCE prediction! |
| 4th Layer | 2.7.7.7 | LOW CONFIDENCE prediction! |
Prediction of Functionally Associated Proteins
Functionally Associated Proteins Detected by STRING
Original result from the STRING server
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 | gw1.XIII.2947.1 | hypothetical protein (802 aa) | |||||||||
(Populus trichocarpa) | |||||||||||
 | gw1.XII.1350.1 | • | 0.899 | ||||||||
 | gw1.IX.2629.1 | • | 0.899 | ||||||||
 | gw1.II.1445.1 | • | 0.899 | ||||||||
 | gw1.I.4193.1 | • | 0.899 | ||||||||
 | gw1.29.22.1 | • | 0.899 | ||||||||
 | gw1.2679.5.1 | • | 0.899 | ||||||||
 | grail3.0106001101 | • | 0.899 | ||||||||
 | grail3.0008036902 | • | 0.899 | ||||||||
 | fgenesh4_pm.C_LG_XIII000262 | • | 0.899 | ||||||||
 | fgenesh4_pm.C_LG_I000007 | • | 0.899 |
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 |
| Query | 940 | |||
| cd08640 | 371 | cd08640, DNA_pol_A_plastid_like, DNA polymerase A | 5e-93 | |
| cd06444 | 347 | cd06444, DNA_pol_A, Family A polymerase primarily | 9e-42 | |
| cd06139 | 193 | cd06139, DNA_polA_I_Ecoli_like_exo, DEDDy 3'-5' ex | 1e-40 | |
| cd08637 | 377 | cd08637, DNA_pol_A_pol_I_C, Polymerase I functions | 3e-30 | |
| PRK05755 | 880 | PRK05755, PRK05755, DNA polymerase I; Provisional | 3e-27 | |
| cd08639 | 324 | cd08639, DNA_pol_A_Aquificae_like, Phylum Aquifica | 4e-26 | |
| COG0749 | 593 | COG0749, PolA, DNA polymerase I - 3'-5' exonucleas | 8e-26 | |
| TIGR00593 | 887 | TIGR00593, pola, DNA polymerase I | 1e-24 | |
| PRK14975 | 553 | PRK14975, PRK14975, bifunctional 3'-5' exonuclease | 1e-22 | |
| PRK05755 | 880 | PRK05755, PRK05755, DNA polymerase I; Provisional | 1e-21 | |
| pfam00476 | 383 | pfam00476, DNA_pol_A, DNA polymerase family A | 8e-20 | |
| cd08638 | 373 | cd08638, DNA_pol_A_theta, DNA polymerase theta is | 1e-19 | |
| smart00482 | 207 | smart00482, POLAc, DNA polymerase A domain | 3e-17 | |
| COG0749 | 593 | COG0749, PolA, DNA polymerase I - 3'-5' exonucleas | 2e-15 | |
| TIGR00593 | 887 | TIGR00593, pola, DNA polymerase I | 7e-09 | |
| smart00474 | 172 | smart00474, 35EXOc, 3'-5' exonuclease | 2e-08 | |
| pfam01612 | 172 | pfam01612, DNA_pol_A_exo1, 3'-5' exonuclease | 2e-08 | |
| cd08642 | 378 | cd08642, DNA_pol_A_pol_I_A, Polymerase I functions | 3e-08 | |
| cd06140 | 178 | cd06140, DNA_polA_I_Bacillus_like_exo, inactive DE | 4e-07 | |
| cd08643 | 429 | cd08643, DNA_pol_A_pol_I_B, Polymerase I functions | 4e-06 |
| >gnl|CDD|176477 cd08640, DNA_pol_A_plastid_like, DNA polymerase A type from plastids of higher plants possibly involve in DNA replication or in the repair of errors occurring during replication | Back alignment and domain information |
|---|
Score = 298 bits (766), Expect = 5e-93
Identities = 121/213 (56%), Positives = 147/213 (69%), Gaps = 21/213 (9%)
Query: 728 GWPSVGGDALKTLARNISAEYDCVDGAHDLDDSGCTEETEYKGAVASNNKIFATEQEARE 787
G PSV +AL+ LA + A+ + ++ SG +E +E
Sbjct: 1 GLPSVDSEALRELAGDPEADILLYEWCYENGVSG--------------------GEEGKE 40
Query: 788 ACDAISALCEVCSIDSLISNFILPLQGSNVSGKNGRVHCSLNINTETGRLSARRPNLQNQ 847
AC+AI AL E+ SI +L+S FI+PLQ + GR+HCSLNINTETGRLS+R PNLQNQ
Sbjct: 41 ACEAIEALKEIKSISTLLSTFIIPLQELL-NDSTGRIHCSLNINTETGRLSSRNPNLQNQ 99
Query: 848 PALEKDRYKIRQAFIAVPGNSLIVADYGQLELRILAHLANCKSMLDAFKAGGDFHSRTAM 907
PALEKDRYKIR+AFIA PGN+LIVADY QLELR+LAH+ CKSM++AF AGGDFHSRTA
Sbjct: 100 PALEKDRYKIRKAFIASPGNTLIVADYSQLELRLLAHMTRCKSMIEAFNAGGDFHSRTAS 159
Query: 908 NMYPHIRNAVETGQVLLEWHGEDKPPVPLLKNK 940
MYPH+ AV G+VLLEW E KPP PLLK+K
Sbjct: 160 GMYPHVAEAVANGEVLLEWKSEGKPPAPLLKDK 192
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DNA polymerase A type from plastids of higher plants possibly involve in DNA replication or in the repair of errors occurring during replication. Family A polymerase functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication. DNA-dependent DNA polymerases can be classified in six main groups based upon phylogenetic relationships with E. coli polymerase I (classA), E. coli polymerase II (class B), E.coli polymerase III (class C), euryarchaaeota polymerase II (class D), human polymerase beta (class x), E. coli UmuC/DinB and eukaryotic RAP 30/Xeroderma pigmentosum variant (class Y). Family A polymerase are found primarily in organisms related to prokaryotes and include prokaryotic DNA polymerase I ,mitochondrial polymerase delta, and several bacteriphage polymerases including those from odd-numbered phage (T3, T5, and T7). The three-dimensional structure of plastid DNA polymerase has substantial similarity to Pol I. The structure of Pol I resembles in overall morphology a cupped human right hand, with fingers (which bind an incoming nucleotide and interact with the single-stranded template), palm (which harbors the catalytic amino acid residues and also binds an incoming dNTP) and thumb (which binds double-stranded DNA) subdomains. Length = 371 |
| >gnl|CDD|176473 cd06444, DNA_pol_A, Family A polymerase primarily fills DNA gaps that arise during DNA repair, recombination and replication | Back alignment and domain information |
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| >gnl|CDD|176651 cd06139, DNA_polA_I_Ecoli_like_exo, DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase I and similar bacterial family-A DNA polymerases | Back alignment and domain information |
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| >gnl|CDD|176474 cd08637, DNA_pol_A_pol_I_C, Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication | Back alignment and domain information |
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| >gnl|CDD|235591 PRK05755, PRK05755, DNA polymerase I; Provisional | Back alignment and domain information |
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| >gnl|CDD|176476 cd08639, DNA_pol_A_Aquificae_like, Phylum Aquificae Pol A is different from Escherichia coli Pol A by three signature sequences | Back alignment and domain information |
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| >gnl|CDD|223820 COG0749, PolA, DNA polymerase I - 3'-5' exonuclease and polymerase domains [DNA replication, recombination, and repair] | Back alignment and domain information |
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| >gnl|CDD|233038 TIGR00593, pola, DNA polymerase I | Back alignment and domain information |
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| >gnl|CDD|237876 PRK14975, PRK14975, bifunctional 3'-5' exonuclease/DNA polymerase; Provisional | Back alignment and domain information |
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| >gnl|CDD|235591 PRK05755, PRK05755, DNA polymerase I; Provisional | Back alignment and domain information |
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| >gnl|CDD|201250 pfam00476, DNA_pol_A, DNA polymerase family A | Back alignment and domain information |
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| >gnl|CDD|176475 cd08638, DNA_pol_A_theta, DNA polymerase theta is a low-fidelity family A enzyme implicated in translesion synthesis and in somatic hypermutation | Back alignment and domain information |
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| >gnl|CDD|214687 smart00482, POLAc, DNA polymerase A domain | Back alignment and domain information |
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| >gnl|CDD|223820 COG0749, PolA, DNA polymerase I - 3'-5' exonuclease and polymerase domains [DNA replication, recombination, and repair] | Back alignment and domain information |
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| >gnl|CDD|233038 TIGR00593, pola, DNA polymerase I | Back alignment and domain information |
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| >gnl|CDD|214681 smart00474, 35EXOc, 3'-5' exonuclease | Back alignment and domain information |
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| >gnl|CDD|216604 pfam01612, DNA_pol_A_exo1, 3'-5' exonuclease | Back alignment and domain information |
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| >gnl|CDD|176479 cd08642, DNA_pol_A_pol_I_A, Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication | Back alignment and domain information |
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| >gnl|CDD|176652 cd06140, DNA_polA_I_Bacillus_like_exo, inactive DEDDy 3'-5' exonuclease domain of Bacillus stearothermophilus DNA polymerase I and similar family-A DNA polymerases | Back alignment and domain information |
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| >gnl|CDD|176480 cd08643, DNA_pol_A_pol_I_B, Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication | Back alignment and domain information |
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Conserved Domains Detected by HHsearch
Original result of HHsearch against CDD database
| ID | Alignment Graph | Length |
Definition |
Probability |
| Query | 940 | |||
| COG0749 | 593 | PolA DNA polymerase I - 3'-5' exonuclease and poly | 100.0 | |
| TIGR00593 | 887 | pola DNA polymerase I. This family is based on the | 100.0 | |
| PRK05755 | 880 | DNA polymerase I; Provisional | 100.0 | |
| PRK14975 | 553 | bifunctional 3'-5' exonuclease/DNA polymerase; Pro | 100.0 | |
| cd08637 | 377 | DNA_pol_A_pol_I_C Polymerase I functions primarily | 100.0 | |
| PF00476 | 383 | DNA_pol_A: DNA polymerase family A; InterPro: IPR0 | 100.0 | |
| cd08643 | 429 | DNA_pol_A_pol_I_B Polymerase I functions primarily | 100.0 | |
| cd08642 | 378 | DNA_pol_A_pol_I_A Polymerase I functions primarily | 100.0 | |
| cd08640 | 371 | DNA_pol_A_plastid_like DNA polymerase A type from | 100.0 | |
| cd08638 | 373 | DNA_pol_A_theta DNA polymerase theta is a low-fide | 100.0 | |
| cd08639 | 324 | DNA_pol_A_Aquificae_like Phylum Aquificae Pol A is | 100.0 | |
| cd06444 | 347 | DNA_pol_A Family A polymerase primarily fills DNA | 100.0 | |
| cd08641 | 425 | DNA_pol_gammaA Pol gammaA is a family A polymerase | 99.82 | |
| PF01612 | 176 | DNA_pol_A_exo1: 3'-5' exonuclease; InterPro: IPR00 | 99.82 | |
| PRK10829 | 373 | ribonuclease D; Provisional | 99.81 | |
| cd06139 | 193 | DNA_polA_I_Ecoli_like_exo DEDDy 3'-5' exonuclease | 99.8 | |
| cd06140 | 178 | DNA_polA_I_Bacillus_like_exo inactive DEDDy 3'-5' | 99.78 | |
| COG0349 | 361 | Rnd Ribonuclease D [Translation, ribosomal structu | 99.77 | |
| TIGR01388 | 367 | rnd ribonuclease D. This model describes ribonucle | 99.76 | |
| smart00482 | 206 | POLAc DNA polymerase A domain. | 99.7 | |
| cd06129 | 161 | RNaseD_like DEDDy 3'-5' exonuclease domain of RNas | 99.68 | |
| cd06141 | 170 | WRN_exo DEDDy 3'-5' exonuclease domain of WRN and | 99.65 | |
| cd06146 | 193 | mut-7_like_exo DEDDy 3'-5' exonuclease domain of C | 99.64 | |
| cd06148 | 197 | Egl_like_exo DEDDy 3'-5' exonuclease domain of Dro | 99.62 | |
| smart00474 | 172 | 35EXOc 3'-5' exonuclease. 3\' -5' exonuclease proo | 99.55 | |
| cd06142 | 178 | RNaseD_exo DEDDy 3'-5' exonuclease domain of Ribon | 99.48 | |
| cd06147 | 192 | Rrp6p_like_exo DEDDy 3'-5' exonuclease domain of y | 99.4 | |
| cd00007 | 155 | 35EXOc 3'-5' exonuclease. The 35EXOc domain is res | 99.39 | |
| KOG2206 | 687 | consensus Exosome 3'-5' exoribonuclease complex, s | 99.38 | |
| cd09018 | 150 | DEDDy_polA_RNaseD_like_exo DEDDy 3'-5' exonuclease | 99.35 | |
| cd06128 | 151 | DNA_polA_exo DEDDy 3'-5' exonuclease domain of fam | 98.93 | |
| COG2176 | 1444 | PolC DNA polymerase III, alpha subunit (gram-posit | 98.62 | |
| PRK05711 | 240 | DNA polymerase III subunit epsilon; Provisional | 98.56 | |
| PRK09146 | 239 | DNA polymerase III subunit epsilon; Validated | 98.52 | |
| TIGR01406 | 225 | dnaQ_proteo DNA polymerase III, epsilon subunit, P | 98.47 | |
| PRK07942 | 232 | DNA polymerase III subunit epsilon; Provisional | 98.47 | |
| PRK06063 | 313 | DNA polymerase III subunit epsilon; Provisional | 98.47 | |
| PRK05601 | 377 | DNA polymerase III subunit epsilon; Validated | 98.36 | |
| cd06131 | 167 | DNA_pol_III_epsilon_Ecoli_like DEDDh 3'-5' exonucl | 98.31 | |
| PRK07740 | 244 | hypothetical protein; Provisional | 98.31 | |
| PRK06310 | 250 | DNA polymerase III subunit epsilon; Validated | 98.26 | |
| TIGR01298 | 200 | RNaseT ribonuclease T. in gamma-subdivision Proteo | 98.26 | |
| PRK06309 | 232 | DNA polymerase III subunit epsilon; Validated | 98.24 | |
| PRK07246 | 820 | bifunctional ATP-dependent DNA helicase/DNA polyme | 98.21 | |
| PRK06807 | 313 | DNA polymerase III subunit epsilon; Validated | 98.19 | |
| PRK09145 | 202 | DNA polymerase III subunit epsilon; Validated | 98.17 | |
| cd06134 | 189 | RNaseT DEDDh 3'-5' exonuclease domain of RNase T. | 98.17 | |
| TIGR01405 | 1213 | polC_Gram_pos DNA polymerase III, alpha chain, Gra | 98.16 | |
| TIGR00573 | 217 | dnaq exonuclease, DNA polymerase III, epsilon subu | 98.15 | |
| PRK08517 | 257 | DNA polymerase III subunit epsilon; Provisional | 98.12 | |
| PRK05168 | 211 | ribonuclease T; Provisional | 98.09 | |
| cd06137 | 161 | DEDDh_RNase DEDDh 3'-5' exonuclease domain of the | 98.07 | |
| TIGR01407 | 850 | dinG_rel DnaQ family exonuclease/DinG family helic | 98.05 | |
| PRK09182 | 294 | DNA polymerase III subunit epsilon; Validated | 98.05 | |
| PRK07883 | 557 | hypothetical protein; Validated | 98.02 | |
| smart00479 | 169 | EXOIII exonuclease domain in DNA-polymerase alpha | 98.01 | |
| PRK06195 | 309 | DNA polymerase III subunit epsilon; Validated | 97.98 | |
| cd06149 | 157 | ISG20 DEDDh 3'-5' exonuclease domain of Interferon | 97.9 | |
| PRK08074 | 928 | bifunctional ATP-dependent DNA helicase/DNA polyme | 97.88 | |
| PRK07247 | 195 | DNA polymerase III subunit epsilon; Validated | 97.87 | |
| cd06144 | 152 | REX4_like DEDDh 3'-5' exonuclease domain of RNA ex | 97.82 | |
| cd06136 | 177 | TREX1_2 DEDDh 3'-5' exonuclease domain of three pr | 97.75 | |
| cd06130 | 156 | DNA_pol_III_epsilon_like an uncharacterized bacter | 97.73 | |
| PRK07983 | 219 | exodeoxyribonuclease X; Provisional | 97.65 | |
| cd06145 | 150 | REX1_like DEDDh 3'-5' exonuclease domain of RNA ex | 97.6 | |
| cd06125 | 96 | DnaQ_like_exo DnaQ-like (or DEDD) 3'-5' exonucleas | 97.58 | |
| PRK05359 | 181 | oligoribonuclease; Provisional | 97.57 | |
| cd06127 | 159 | DEDDh DEDDh 3'-5' exonuclease domain family. DEDDh | 97.52 | |
| cd06138 | 183 | ExoI_N N-terminal DEDDh 3'-5' exonuclease domain o | 97.47 | |
| PRK00448 | 1437 | polC DNA polymerase III PolC; Validated | 97.47 | |
| PRK11779 | 476 | sbcB exonuclease I; Provisional | 97.44 | |
| cd05160 | 199 | DEDDy_DNA_polB_exo DEDDy 3'-5' exonuclease domain | 97.44 | |
| cd06135 | 173 | Orn DEDDh 3'-5' exonuclease domain of oligoribonuc | 97.43 | |
| PRK07748 | 207 | sporulation inhibitor KapD; Provisional | 97.32 | |
| COG0847 | 243 | DnaQ DNA polymerase III, epsilon subunit and relat | 97.27 | |
| PF13482 | 164 | RNase_H_2: RNase_H superfamily; PDB: 1TKD_A 1TK5_A | 96.86 | |
| cd06133 | 176 | ERI-1_3'hExo_like DEDDh 3'-5' exonuclease domain o | 96.81 | |
| PRK06722 | 281 | exonuclease; Provisional | 96.76 | |
| cd05785 | 207 | DNA_polB_like2_exo Uncharacterized bacterial subgr | 96.62 | |
| cd05780 | 195 | DNA_polB_Kod1_like_exo DEDDy 3'-5' exonuclease dom | 96.07 | |
| PF10108 | 209 | DNA_pol_B_exo2: Predicted 3'-5' exonuclease relate | 96.05 | |
| KOG2207 | 617 | consensus Predicted 3'-5' exonuclease [Replication | 96.02 | |
| cd05781 | 188 | DNA_polB_B3_exo DEDDy 3'-5' exonuclease domain of | 95.82 | |
| PTZ00315 | 582 | 2'-phosphotransferase; Provisional | 95.45 | |
| cd05782 | 208 | DNA_polB_like1_exo Uncharacterized bacterial subgr | 95.3 | |
| PF00929 | 164 | RNase_T: Exonuclease; InterPro: IPR013520 This ent | 94.97 | |
| COG3359 | 278 | Predicted exonuclease [DNA replication, recombinat | 94.04 | |
| cd05784 | 193 | DNA_polB_II_exo DEDDy 3'-5' exonuclease domain of | 93.62 | |
| cd05783 | 204 | DNA_polB_B1_exo DEDDy 3'-5' exonuclease domain of | 92.17 | |
| cd05779 | 204 | DNA_polB_epsilon_exo DEDDy 3'-5' exonuclease domai | 91.59 | |
| KOG3657 | 1075 | consensus Mitochondrial DNA polymerase gamma, cata | 91.55 | |
| cd05777 | 230 | DNA_polB_delta_exo DEDDy 3'-5' exonuclease domain | 89.39 | |
| PHA02528 | 881 | 43 DNA polymerase; Provisional | 87.75 | |
| KOG2249 | 280 | consensus 3'-5' exonuclease [Replication, recombin | 85.52 | |
| PRK05762 | 786 | DNA polymerase II; Reviewed | 82.0 |
| >COG0749 PolA DNA polymerase I - 3'-5' exonuclease and polymerase domains [DNA replication, recombination, and repair] | Back alignment and domain information |
|---|
Probab=100.00 E-value=1.7e-78 Score=698.15 Aligned_cols=413 Identities=31% Similarity=0.424 Sum_probs=355.9
Q ss_pred eEEecCHHHHHHHHHHHhccCCCceEEEEeccCCCCcccCccccCcceeEEEeecCCCcccCCCceEEEEeCCCC-Chhh
Q 002293 345 VMVVDNVSAAKKVVWMLTNKYKHLVHACDTEVAKIDVKQETPVDHGEVICFSIYSGPEADFGNGKSCIWVDLLDG-GGRD 423 (940)
Q Consensus 345 y~lV~t~e~L~eli~~L~~a~~~~~VAfDTETTGLd~~~d~IvG~g~Ii~LSi~~~~gIq~g~~~~~~yID~~~~-~~e~ 423 (940)
|..+.+.+.+..|...+..+. .+++|+||++++++...++| +++..++ .++|++..+. ..-.
T Consensus 3 ~~~~~~~~~~~~~~~~~~~~~---~~a~~~et~~l~~~~~~lvg------~s~~~~~--------~~~yi~~~~~~~~~~ 65 (593)
T COG0749 3 YGTITDLAVLNAWLTKLNAAA---NIAFDTETDGLDPHGADLVG------LSVASEE--------EAAYIPLLHGPEQLN 65 (593)
T ss_pred chhhhHHHHHHHHHHHHhhcc---cceeeccccccCcccCCeeE------EEeeccc--------cceeEeeccchhhhh
Confidence 456667777888888877762 49999999999998877765 5555432 3567766541 1124
Q ss_pred hHhhhhhhhcCCCceEEEeccHHHHHHHHHcCCCCCCccccHHHHHHhcCCCCCCCCCCCHHHHHhccccccccchhhhc
Q 002293 424 LLNEFAPFFEDPSIKKVWHNYSFDNHVLENYGLKVSGFHADTMHMARLWDSSRRTEGGYSLEALTGDRKVMSEDKKAYQK 503 (940)
Q Consensus 424 ~l~~Lk~~Led~~i~KVgHNaKfDL~~L~r~GI~l~n~vfDTmIAA~LLdp~~~~~~s~sLe~La~~y~~~~e~yLg~~~ 503 (940)
+...|++||+++...+|+||+|+|+++|.++|+. .+..+|||||+||++|+.. .+++++|+++ |++++
T Consensus 66 ~~~~l~~~l~~~~~~kv~~~~K~d~~~l~~~Gi~-~~~~~DtmlasYll~~~~~---~~~~~~l~~r-------~l~~~- 133 (593)
T COG0749 66 VLAALKPLLEDEGIKKVGQNLKYDYKVLANLGIE-PGVAFDTMLASYLLNPGAG---AHNLDDLAKR-------YLGLE- 133 (593)
T ss_pred hHHHHHHHhhCcccchhccccchhHHHHHHcCCc-ccchHHHHHHHhccCcCcC---cCCHHHHHHH-------hcCCc-
Confidence 7889999999999999999999999999999976 6789999999999999875 6999999998 44443
Q ss_pred cccCCCCccccccccchhhhhcccccccCCCCCccccccchhHhhHhhHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccc
Q 002293 504 DMSKGNTDEGFMGKISMKDIFGRRKLKKDGSAGKISTIAPVEELQREERELWISYSAFDSINTLKLYKSLKKKLLEMSWK 583 (940)
Q Consensus 504 ~l~k~~s~eELvGk~s~kelfGK~k~kkd~s~~~dw~~~PL~~l~~~~~e~~l~YAA~DA~~tlrLye~L~~~Lee~~~~ 583 (940)
...++.++|++.. +.++ ...+ .+....|++.|++++++|+..|.+++.+.
T Consensus 134 -------------~~~~~~i~~kg~~--~~~~----~~~~--------~~~~~~y~a~~a~~~~~L~~~l~~~l~~~--- 183 (593)
T COG0749 134 -------------TITFEDIAGKGKK--QLTF----ADVK--------LEKATEYAAEDADATLRLESILEPELLKT--- 183 (593)
T ss_pred -------------cchhHHhhccccc--cCcc----ccch--------HHHHHHHHHHHHHHHHHHHHHHHHHhhhh---
Confidence 1234455665531 1221 1122 35678999999999999999999988874
Q ss_pred cCCCCCCCchHHHHHHHHhcchHHHHHHHhHcCcccCHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCccccCCCHHH
Q 002293 584 LDGKPVPGKSMFDFYQEYWQPFGEILVKMETEGMLVDREYLSEIEKVARAEQEAAVNRFRKWASKHCPDAKYMNVGSDTQ 663 (940)
Q Consensus 584 ~~~~~~~~~~l~~Ly~~IEmPL~~VLa~ME~~GI~VD~E~L~el~~~l~~e~e~le~ei~~~a~k~~~~g~~fNl~SpkQ 663 (940)
..+..+|.++|||++.||+.||.+||.||.++|.++...+..++..+++++++++ |++||++||||
T Consensus 184 --------~~L~~l~~~iE~Pl~~VLa~ME~~Gi~vD~~~L~~l~~el~~~l~~le~eiy~la------G~~FNi~SPKQ 249 (593)
T COG0749 184 --------PVLLELYEEIEMPLVRVLARMERNGIKVDVQYLKELSKELGCELAELEEEIYELA------GEEFNINSPKQ 249 (593)
T ss_pred --------hhHHHHHHHHhccHHHHHHHhHhcCceecHHHHHHHHHHHHHHHHHHHHHHHHHh------cCcCCCCCHHH
Confidence 4679999999999999999999999999999999999999999999999997765 89999999999
Q ss_pred HHHHhcCCCCCCCCCCCCCCcccccccCCCccccccCCCCCcccccchhcccccCCCCccccccCCCcCcHHHHHHHHhc
Q 002293 664 LRQLLFGGKPNSKDDSESLPIERIFKVPNTEGVIAEGKKTPSKFRNITLRSIGVDLPTEMYTATGWPSVGGDALKTLARN 743 (940)
Q Consensus 664 L~~lLF~~~~~~~~~~l~LP~er~~k~~~~~~~~~~~Kktp~~~~~i~l~~lG~~lp~~~kTktG~~STd~evLe~L~~~ 743 (940)
|+.+||+ +||||. ..++||+|+|||++++|++|+..
T Consensus 250 L~~ILfe--------Kl~Lp~------------------------------------~~kKtktG~yST~~~vLe~L~~~ 285 (593)
T COG0749 250 LGEILFE--------KLGLPP------------------------------------GLKKTKTGNYSTDAEVLEKLADD 285 (593)
T ss_pred HHHHHHH--------hcCCCc------------------------------------cccccCCCCCccHHHHHHHHhhc
Confidence 9999999 799983 12468999999999999999988
Q ss_pred cCccccccCCCCCCCCCCCcccccchhcccccchhhhhHHHHHHHhHHHHHHHHHHHHhhhHhhhhhccccCCccCCCCc
Q 002293 744 ISAEYDCVDGAHDLDDSGCTEETEYKGAVASNNKIFATEQEAREACDAISALCEVCSIDSLISNFILPLQGSNVSGKNGR 823 (940)
Q Consensus 744 ~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~i~~LLeyR~l~KLlstyi~~L~~~~~~~~dGR 823 (940)
||++ +.||+||+++||.|||+++|++ ++++.+||
T Consensus 286 h~i~---------------------------------------------~~iL~~Rql~KLksTY~d~L~~-~i~~~t~R 319 (593)
T COG0749 286 HPLP---------------------------------------------KLILEYRQLAKLKSTYTDGLPK-LINPDTGR 319 (593)
T ss_pred CccH---------------------------------------------HHHHHHHHHHHHHHHhhhccHH-hhCCCCCc
Confidence 8853 5699999999999999999997 67667799
Q ss_pred eeeeecC-CCccceeeecCCCccccCCCccchhhccceeecCCCCeEEEeeccchhHHHHHHhcCCHHHHHHHhcCCCch
Q 002293 824 VHCSLNI-NTETGRLSARRPNLQNQPALEKDRYKIRQAFIAVPGNSLIVADYGQLELRILAHLANCKSMLDAFKAGGDFH 902 (940)
Q Consensus 824 IH~s~nq-gTaTGRLSSs~PNLQNIP~~~~~~~~iR~~Fia~~G~~LvsaDYSQIELRILAhlS~D~~Li~af~~g~DiH 902 (940)
||++|+| +|+||||||++|||||||.|++.|+.||++|+|.+|+++++|||||||||||||+|+|+.|++||.+|.|||
T Consensus 320 IHTsf~Q~~t~TGRLSSsdPNLQNIPiRse~Gr~IR~aFva~~g~~~i~aDYSQIELRilAHls~D~~Ll~AF~~g~DiH 399 (593)
T COG0749 320 IHTSFNQTGTATGRLSSSDPNLQNIPIRSEEGRKIRKAFVAEKGYTLISADYSQIELRILAHLSQDEGLLRAFTEGEDIH 399 (593)
T ss_pred cCcchHHHHHHhhcccCCCCCcccCCcCCHhHHhhhhceeCCCCCeEEEechHHHHHHHHHHhcCCHHHHHHHhcCccHH
Confidence 9999999 999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHcCCCccccccc
Q 002293 903 SRTAMNMYPHIRNAVETG 920 (940)
Q Consensus 903 ~~tAs~~fg~~~eeVtk~ 920 (940)
+.||+.+||+++++||++
T Consensus 400 ~~TA~~vFgv~~~~Vt~e 417 (593)
T COG0749 400 TATAAEVFGVPIEEVTSE 417 (593)
T ss_pred HHHHHHHhCCChhhCCHH
Confidence 999999999999998875
|
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| >TIGR00593 pola DNA polymerase I | Back alignment and domain information |
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| >PRK05755 DNA polymerase I; Provisional | Back alignment and domain information |
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| >PRK14975 bifunctional 3'-5' exonuclease/DNA polymerase; Provisional | Back alignment and domain information |
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| >cd08637 DNA_pol_A_pol_I_C Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication | Back alignment and domain information |
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| >PF00476 DNA_pol_A: DNA polymerase family A; InterPro: IPR001098 Synonym(s): DNA nucleotidyltransferase (DNA-directed) DNA-directed DNA polymerases(2 | Back alignment and domain information |
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| >cd08643 DNA_pol_A_pol_I_B Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication | Back alignment and domain information |
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| >cd08642 DNA_pol_A_pol_I_A Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication | Back alignment and domain information |
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| >cd08640 DNA_pol_A_plastid_like DNA polymerase A type from plastids of higher plants possibly involve in DNA replication or in the repair of errors occurring during replication | Back alignment and domain information |
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| >cd08638 DNA_pol_A_theta DNA polymerase theta is a low-fidelity family A enzyme implicated in translesion synthesis and in somatic hypermutation | Back alignment and domain information |
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| >cd08639 DNA_pol_A_Aquificae_like Phylum Aquificae Pol A is different from Escherichia coli Pol A by three signature sequences | Back alignment and domain information |
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| >cd06444 DNA_pol_A Family A polymerase primarily fills DNA gaps that arise during DNA repair, recombination and replication | Back alignment and domain information |
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| >cd08641 DNA_pol_gammaA Pol gammaA is a family A polymerase that is responsible for DNA replication and repair in mitochondria | Back alignment and domain information |
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| >PF01612 DNA_pol_A_exo1: 3'-5' exonuclease; InterPro: IPR002562 This domain is responsible for the 3'-5' exonuclease proofreading activity of Escherichia coli DNA polymerase I (polI) and other enzymes, it catalyses the hydrolysis of unpaired or mismatched nucleotides | Back alignment and domain information |
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| >PRK10829 ribonuclease D; Provisional | Back alignment and domain information |
|---|
| >cd06139 DNA_polA_I_Ecoli_like_exo DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase I and similar bacterial family-A DNA polymerases | Back alignment and domain information |
|---|
| >cd06140 DNA_polA_I_Bacillus_like_exo inactive DEDDy 3'-5' exonuclease domain of Bacillus stearothermophilus DNA polymerase I and similar family-A DNA polymerases | Back alignment and domain information |
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| >COG0349 Rnd Ribonuclease D [Translation, ribosomal structure and biogenesis] | Back alignment and domain information |
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| >TIGR01388 rnd ribonuclease D | Back alignment and domain information |
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| >smart00482 POLAc DNA polymerase A domain | Back alignment and domain information |
|---|
| >cd06129 RNaseD_like DEDDy 3'-5' exonuclease domain of RNase D, WRN, and similar proteins | Back alignment and domain information |
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| >cd06141 WRN_exo DEDDy 3'-5' exonuclease domain of WRN and similar proteins | Back alignment and domain information |
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| >cd06146 mut-7_like_exo DEDDy 3'-5' exonuclease domain of Caenorhabditis elegans mut-7 and similar proteins | Back alignment and domain information |
|---|
| >cd06148 Egl_like_exo DEDDy 3'-5' exonuclease domain of Drosophila Egalitarian (Egl) and similar proteins | Back alignment and domain information |
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| >smart00474 35EXOc 3'-5' exonuclease | Back alignment and domain information |
|---|
| >cd06142 RNaseD_exo DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins | Back alignment and domain information |
|---|
| >cd06147 Rrp6p_like_exo DEDDy 3'-5' exonuclease domain of yeast Rrp6p, human polymyositis/scleroderma autoantigen 100kDa, and similar proteins | Back alignment and domain information |
|---|
| >cd00007 35EXOc 3'-5' exonuclease | Back alignment and domain information |
|---|
| >KOG2206 consensus Exosome 3'-5' exoribonuclease complex, subunit PM/SCL-100 (Rrp6) [Translation, ribosomal structure and biogenesis] | Back alignment and domain information |
|---|
| >cd09018 DEDDy_polA_RNaseD_like_exo DEDDy 3'-5' exonuclease domain of family-A DNA polymerases, RNase D, WRN, and similar proteins | Back alignment and domain information |
|---|
| >cd06128 DNA_polA_exo DEDDy 3'-5' exonuclease domain of family-A DNA polymerases | Back alignment and domain information |
|---|
| >COG2176 PolC DNA polymerase III, alpha subunit (gram-positive type) [DNA replication, recombination, and repair] | Back alignment and domain information |
|---|
| >PRK05711 DNA polymerase III subunit epsilon; Provisional | Back alignment and domain information |
|---|
| >PRK09146 DNA polymerase III subunit epsilon; Validated | Back alignment and domain information |
|---|
| >TIGR01406 dnaQ_proteo DNA polymerase III, epsilon subunit, Proteobacterial | Back alignment and domain information |
|---|
| >PRK07942 DNA polymerase III subunit epsilon; Provisional | Back alignment and domain information |
|---|
| >PRK06063 DNA polymerase III subunit epsilon; Provisional | Back alignment and domain information |
|---|
| >PRK05601 DNA polymerase III subunit epsilon; Validated | Back alignment and domain information |
|---|
| >cd06131 DNA_pol_III_epsilon_Ecoli_like DEDDh 3'-5' exonuclease domain of the epsilon subunit of Escherichia coli DNA polymerase III and similar proteins | Back alignment and domain information |
|---|
| >PRK07740 hypothetical protein; Provisional | Back alignment and domain information |
|---|
| >PRK06310 DNA polymerase III subunit epsilon; Validated | Back alignment and domain information |
|---|
| >TIGR01298 RNaseT ribonuclease T | Back alignment and domain information |
|---|
| >PRK06309 DNA polymerase III subunit epsilon; Validated | Back alignment and domain information |
|---|
| >PRK07246 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated | Back alignment and domain information |
|---|
| >PRK06807 DNA polymerase III subunit epsilon; Validated | Back alignment and domain information |
|---|
| >PRK09145 DNA polymerase III subunit epsilon; Validated | Back alignment and domain information |
|---|
| >cd06134 RNaseT DEDDh 3'-5' exonuclease domain of RNase T | Back alignment and domain information |
|---|
| >TIGR01405 polC_Gram_pos DNA polymerase III, alpha chain, Gram-positive type | Back alignment and domain information |
|---|
| >TIGR00573 dnaq exonuclease, DNA polymerase III, epsilon subunit family | Back alignment and domain information |
|---|
| >PRK08517 DNA polymerase III subunit epsilon; Provisional | Back alignment and domain information |
|---|
| >PRK05168 ribonuclease T; Provisional | Back alignment and domain information |
|---|
| >cd06137 DEDDh_RNase DEDDh 3'-5' exonuclease domain of the eukaryotic exoribonucleases PAN2, RNA exonuclease (REX)-1,-3, and -4, ISG20, and similar proteins | Back alignment and domain information |
|---|
| >TIGR01407 dinG_rel DnaQ family exonuclease/DinG family helicase, putative | Back alignment and domain information |
|---|
| >PRK09182 DNA polymerase III subunit epsilon; Validated | Back alignment and domain information |
|---|
| >PRK07883 hypothetical protein; Validated | Back alignment and domain information |
|---|
| >smart00479 EXOIII exonuclease domain in DNA-polymerase alpha and epsilon chain, ribonuclease T and other exonucleases | Back alignment and domain information |
|---|
| >PRK06195 DNA polymerase III subunit epsilon; Validated | Back alignment and domain information |
|---|
| >cd06149 ISG20 DEDDh 3'-5' exonuclease domain of Interferon Stimulated Gene product of 20 kDa, and similar proteins | Back alignment and domain information |
|---|
| >PRK08074 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated | Back alignment and domain information |
|---|
| >PRK07247 DNA polymerase III subunit epsilon; Validated | Back alignment and domain information |
|---|
| >cd06144 REX4_like DEDDh 3'-5' exonuclease domain of RNA exonuclease 4, XPMC2, Interferon Stimulated Gene product of 20 kDa, and similar proteins | Back alignment and domain information |
|---|
| >cd06136 TREX1_2 DEDDh 3'-5' exonuclease domain of three prime repair exonuclease (TREX)1, TREX2, and similar proteins | Back alignment and domain information |
|---|
| >cd06130 DNA_pol_III_epsilon_like an uncharacterized bacterial subgroup of the DEDDh 3'-5' exonuclease domain family with similarity to the epsilon subunit of DNA polymerase III | Back alignment and domain information |
|---|
| >PRK07983 exodeoxyribonuclease X; Provisional | Back alignment and domain information |
|---|
| >cd06145 REX1_like DEDDh 3'-5' exonuclease domain of RNA exonuclease 1, -3 and similar eukaryotic proteins | Back alignment and domain information |
|---|
| >cd06125 DnaQ_like_exo DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily | Back alignment and domain information |
|---|
| >PRK05359 oligoribonuclease; Provisional | Back alignment and domain information |
|---|
| >cd06127 DEDDh DEDDh 3'-5' exonuclease domain family | Back alignment and domain information |
|---|
| >cd06138 ExoI_N N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins | Back alignment and domain information |
|---|
| >PRK00448 polC DNA polymerase III PolC; Validated | Back alignment and domain information |
|---|
| >PRK11779 sbcB exonuclease I; Provisional | Back alignment and domain information |
|---|
| >cd05160 DEDDy_DNA_polB_exo DEDDy 3'-5' exonuclease domain of family-B DNA polymerases | Back alignment and domain information |
|---|
| >cd06135 Orn DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins | Back alignment and domain information |
|---|
| >PRK07748 sporulation inhibitor KapD; Provisional | Back alignment and domain information |
|---|
| >COG0847 DnaQ DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair] | Back alignment and domain information |
|---|
| >PF13482 RNase_H_2: RNase_H superfamily; PDB: 1TKD_A 1TK5_A 2AJQ_F 1T8E_A 1T7P_A 1SKR_A 1X9W_A 1TK8_A 1TK0_A 1SL2_A | Back alignment and domain information |
|---|
| >cd06133 ERI-1_3'hExo_like DEDDh 3'-5' exonuclease domain of Caenorhabditis elegans ERI-1, human 3' exonuclease, and similar proteins | Back alignment and domain information |
|---|
| >PRK06722 exonuclease; Provisional | Back alignment and domain information |
|---|
| >cd05785 DNA_polB_like2_exo Uncharacterized bacterial subgroup of the DEDDy 3'-5' exonuclease domain of family-B DNA polymerases | Back alignment and domain information |
|---|
| >cd05780 DNA_polB_Kod1_like_exo DEDDy 3'-5' exonuclease domain of Pyrococcus kodakaraensis Kod1 and similar archaeal family-B DNA polymerases | Back alignment and domain information |
|---|
| >PF10108 DNA_pol_B_exo2: Predicted 3'-5' exonuclease related to the exonuclease domain of PolB; InterPro: IPR019288 This entry represents various prokaryotic 3'-5' exonucleases and hypothetical proteins | Back alignment and domain information |
|---|
| >KOG2207 consensus Predicted 3'-5' exonuclease [Replication, recombination and repair] | Back alignment and domain information |
|---|
| >cd05781 DNA_polB_B3_exo DEDDy 3'-5' exonuclease domain of Sulfurisphaera ohwakuensis DNA polymerase B3 and similar archaeal family-B DNA polymerases | Back alignment and domain information |
|---|
| >PTZ00315 2'-phosphotransferase; Provisional | Back alignment and domain information |
|---|
| >cd05782 DNA_polB_like1_exo Uncharacterized bacterial subgroup of the DEDDy 3'-5' exonuclease domain of family-B DNA polymerases | Back alignment and domain information |
|---|
| >PF00929 RNase_T: Exonuclease; InterPro: IPR013520 This entry includes a variety of exonuclease proteins, such as ribonuclease T [] and the epsilon subunit of DNA polymerase III | Back alignment and domain information |
|---|
| >COG3359 Predicted exonuclease [DNA replication, recombination, and repair] | Back alignment and domain information |
|---|
| >cd05784 DNA_polB_II_exo DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase II and similar bacterial family-B DNA polymerases | Back alignment and domain information |
|---|
| >cd05783 DNA_polB_B1_exo DEDDy 3'-5' exonuclease domain of Sulfolobus solfataricus DNA polymerase B1 and similar archaeal family-B DNA polymerases | Back alignment and domain information |
|---|
| >cd05779 DNA_polB_epsilon_exo DEDDy 3'-5' exonuclease domain of eukaryotic DNA polymerase epsilon, a family-B DNA polymerase | Back alignment and domain information |
|---|
| >KOG3657 consensus Mitochondrial DNA polymerase gamma, catalytic subunit [Replication, recombination and repair] | Back alignment and domain information |
|---|
| >cd05777 DNA_polB_delta_exo DEDDy 3'-5' exonuclease domain of eukaryotic DNA polymerase delta, a family-B DNA polymerase | Back alignment and domain information |
|---|
| >PHA02528 43 DNA polymerase; Provisional | Back alignment and domain information |
|---|
| >KOG2249 consensus 3'-5' exonuclease [Replication, recombination and repair] | Back alignment and domain information |
|---|
| >PRK05762 DNA polymerase II; Reviewed | 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 | |
| Query | 940 | ||||
| 1bgx_T | 832 | Taq Polymerase In Complex With Tp7, An Inhibitory F | 3e-18 | ||
| 2ktq_A | 538 | Open Ternary Complex Of The Large Fragment Of Dna P | 4e-18 | ||
| 5ktq_A | 543 | Large Fragment Of Taq Dna Polymerase Bound To Dctp | 4e-18 | ||
| 1qss_A | 539 | Ddgtp-Trapped Closed Ternary Complex Of The Large F | 5e-18 | ||
| 4ktq_A | 539 | Binary Complex Of The Large Fragment Of Dna Polymer | 5e-18 | ||
| 3ktq_A | 540 | Crystal Structure Of An Active Ternary Complex Of T | 5e-18 | ||
| 1qtm_A | 539 | Ddttp-trapped Closed Ternary Complex Of The Large F | 5e-18 | ||
| 3po4_A | 540 | Structure Of A Mutant Of The Large Fragment Of Dna | 2e-17 | ||
| 1dpi_A | 605 | Structure Of Large Fragment Of Escherichia Coli Dna | 4e-17 | ||
| 1kln_A | 605 | Dna Polymerase I Klenow Fragment (E.C.2.7.7.7) Muta | 4e-17 | ||
| 1kfs_A | 605 | Dna Polymerase I Klenow Fragment (e.c.2.7.7.7) Muta | 4e-17 | ||
| 1d8y_A | 605 | Crystal Structure Of The Complex Of Dna Polymerase | 4e-17 | ||
| 1taq_A | 832 | Structure Of Taq Dna Polymerase Length = 832 | 2e-16 | ||
| 4dle_A | 540 | Ternary Structure Of The Large Fragment Of Taq Dna | 2e-15 | ||
| 3tan_A | 592 | Crystal Structure Of Bacillus Dna Polymerase I Larg | 3e-15 | ||
| 4dqi_A | 592 | Ternary Complex Of Bacillus Dna Polymerase I Large | 3e-15 | ||
| 3hpo_A | 580 | Crystal Structure Of Fragment Dna Polymerase I From | 3e-15 | ||
| 3pv8_A | 592 | Crystal Structure Of Bacillus Dna Polymerase I Larg | 3e-15 | ||
| 3hp6_A | 580 | Crystal Structure Of Fragment Dna Polymerase I From | 3e-15 | ||
| 2xy6_A | 581 | Crystal Structure Of A Salicylic Aldehyde Basepair | 3e-15 | ||
| 2y1i_A | 580 | Crystal Structure Of A S-Diastereomer Analogue Of T | 3e-15 | ||
| 2xo7_A | 580 | Crystal Structure Of A Da:o-Allylhydroxylamine-Dc B | 3e-15 | ||
| 3eyz_A | 580 | Cocrystal Structure Of Bacillus Fragment Dna Polyme | 3e-15 | ||
| 2hhq_A | 580 | O6-Methyl-Guanine:t Pair In The Polymerase-10 Basep | 3e-15 | ||
| 1l3s_A | 580 | Crystal Structure Of Bacillus Dna Polymerase I Frag | 3e-15 | ||
| 1u45_A | 580 | 8oxoguanine At The Pre-Insertion Site Of The Polyme | 3e-15 | ||
| 3ht3_A | 579 | Crystal Structure Of Fragment Dna Polymerase I From | 3e-15 | ||
| 2hvh_A | 580 | Ddctp:o6meg Pair In The Polymerase Active Site (0 P | 3e-15 | ||
| 1lv5_A | 580 | Crystal Structure Of The Closed Conformation Of Bac | 3e-15 | ||
| 3bdp_A | 580 | Dna Polymerase IDNA COMPLEX Length = 580 | 3e-15 | ||
| 2xy5_A | 581 | Crystal Structure Of An Artificial Salen-Copper Bas | 3e-15 | ||
| 2hhw_A | 580 | Ddttp:o6-Methyl-Guanine Pair In The Polymerase Acti | 4e-15 | ||
| 2xy7_A | 580 | Crystal Structure Of A Salicylic Aldehyde Base In T | 4e-15 | ||
| 4dqq_A | 592 | Ternary Complex Of Bacillus Dna Polymerase I Large | 2e-14 |
| >pdb|1BGX|T Chain T, Taq Polymerase In Complex With Tp7, An Inhibitory Fab Length = 832 | Back alignment and structure |
|
| >pdb|2KTQ|A Chain A, Open Ternary Complex Of The Large Fragment Of Dna Polymerase I From Thermus Aquaticus Length = 538 | Back alignment and structure |
| >pdb|5KTQ|A Chain A, Large Fragment Of Taq Dna Polymerase Bound To Dctp Length = 543 | Back alignment and structure |
| >pdb|1QSS|A Chain A, Ddgtp-Trapped Closed Ternary Complex Of The Large Fragment Of Dna Polymerase I From Thermus Aquaticus Length = 539 | Back alignment and structure |
| >pdb|4KTQ|A Chain A, Binary Complex Of The Large Fragment Of Dna Polymerase I From T. Aquaticus Bound To A PrimerTEMPLATE DNA Length = 539 | Back alignment and structure |
| >pdb|3KTQ|A Chain A, Crystal Structure Of An Active Ternary Complex Of The Large Fragment Of Dna Polymerase I From Thermus Aquaticus Length = 540 | Back alignment and structure |
| >pdb|1QTM|A Chain A, Ddttp-trapped Closed Ternary Complex Of The Large Fragment Of Dna Polymerase I From Thermus Aquaticus Length = 539 | Back alignment and structure |
| >pdb|3PO4|A Chain A, Structure Of A Mutant Of The Large Fragment Of Dna Polymerase I From Thermus Aquaticus In Complex With A Blunt-Ended Dna And Ddatp Length = 540 | Back alignment and structure |
| >pdb|1DPI|A Chain A, Structure Of Large Fragment Of Escherichia Coli Dna Polymerase I Complexed With DTMP Length = 605 | Back alignment and structure |
| >pdb|1KLN|A Chain A, Dna Polymerase I Klenow Fragment (E.C.2.7.7.7) MutantDNA Complex Length = 605 | Back alignment and structure |
| >pdb|1KFS|A Chain A, Dna Polymerase I Klenow Fragment (e.c.2.7.7.7) Mutant/dna Complex Length = 605 | Back alignment and structure |
| >pdb|1D8Y|A Chain A, Crystal Structure Of The Complex Of Dna Polymerase I Klenow Fragment With Dna Length = 605 | Back alignment and structure |
| >pdb|1TAQ|A Chain A, Structure Of Taq Dna Polymerase Length = 832 | Back alignment and structure |
| >pdb|4DLE|A Chain A, Ternary Structure Of The Large Fragment Of Taq Dna Polymerase: 4- Fluoroproline Variant Length = 540 | Back alignment and structure |
| >pdb|3TAN|A Chain A, Crystal Structure Of Bacillus Dna Polymerase I Large Fragment Bound To Duplex Dna With Cytosine-Adenine Mismatch At (N-1) Position Length = 592 | Back alignment and structure |
| >pdb|4DQI|A Chain A, Ternary Complex Of Bacillus Dna Polymerase I Large Fragment, Dna Duplex, And Dctp (Paired With Dg Of Template) Length = 592 | Back alignment and structure |
| >pdb|3HPO|A Chain A, Crystal Structure Of Fragment Dna Polymerase I From Bacillus Stearothermophilus Y714s Mutant Bound To G:t Mismatch Length = 580 | Back alignment and structure |
| >pdb|3PV8|A Chain A, Crystal Structure Of Bacillus Dna Polymerase I Large Fragment Bound To Dna And Ddttp-Da In Closed Conformation Length = 592 | Back alignment and structure |
| >pdb|3HP6|A Chain A, Crystal Structure Of Fragment Dna Polymerase I From Bacillus Stearothermophilus F710y Mutant Bound To G:t Mismatch Length = 580 | Back alignment and structure |
| >pdb|2XY6|A Chain A, Crystal Structure Of A Salicylic Aldehyde Basepair In Complex With Fragment Dna Polymerase I From Bacillus Stearothermophilus Length = 581 | Back alignment and structure |
| >pdb|2Y1I|A Chain A, Crystal Structure Of A S-Diastereomer Analogue Of The Spore Photoproduct In Complex With Fragment Dna Polymerase I From Bacillus Stearothermophilus Length = 580 | Back alignment and structure |
| >pdb|2XO7|A Chain A, Crystal Structure Of A Da:o-Allylhydroxylamine-Dc Basepair In Complex With Fragment Dna Polymerase I From Bacillus Stearothermophilus Length = 580 | Back alignment and structure |
| >pdb|3EYZ|A Chain A, Cocrystal Structure Of Bacillus Fragment Dna Polymerase I With Duplex Dna (Open Form) Length = 580 | Back alignment and structure |
| >pdb|2HHQ|A Chain A, O6-Methyl-Guanine:t Pair In The Polymerase-10 Basepair Position Length = 580 | Back alignment and structure |
| >pdb|1L3S|A Chain A, Crystal Structure Of Bacillus Dna Polymerase I Fragment Complexed To 9 Base Pairs Of Duplex Dna. Length = 580 | Back alignment and structure |
| >pdb|1U45|A Chain A, 8oxoguanine At The Pre-Insertion Site Of The Polymerase Active Site Length = 580 | Back alignment and structure |
| >pdb|3HT3|A Chain A, Crystal Structure Of Fragment Dna Polymerase I From Bacillus Stearothermophilus V713p Mutant Bound To G:dctp Length = 579 | Back alignment and structure |
| >pdb|2HVH|A Chain A, Ddctp:o6meg Pair In The Polymerase Active Site (0 Position) Length = 580 | Back alignment and structure |
| >pdb|1LV5|A Chain A, Crystal Structure Of The Closed Conformation Of Bacillus Dna Polymerase I Fragment Bound To Dna And Dctp Length = 580 | Back alignment and structure |
| >pdb|3BDP|A Chain A, Dna Polymerase IDNA COMPLEX Length = 580 | Back alignment and structure |
| >pdb|2XY5|A Chain A, Crystal Structure Of An Artificial Salen-Copper Basepair In Complex With Fragment Dna Polymerase I From Bacillus Stearothermophilus Length = 581 | Back alignment and structure |
| >pdb|2HHW|A Chain A, Ddttp:o6-Methyl-Guanine Pair In The Polymerase Active Site, In The Closed Conformation Length = 580 | Back alignment and structure |
| >pdb|2XY7|A Chain A, Crystal Structure Of A Salicylic Aldehyde Base In The Pre-Insertion Site Of Fragment Dna Polymerase I From Bacillus Stearothermophilus Length = 580 | Back alignment and structure |
| >pdb|4DQQ|A Chain A, Ternary Complex Of Bacillus Dna Polymerase I Large Fragment E658a, Dna Duplex, And Rctp (Paired With Dg Of Template) In Presence Of Mg2+ Length = 592 | Back alignment and structure |
Structure Templates Detected by RPS-BLAST
Original result of RPS-BLAST against PDB70 database
| >1x9m_A DNA polymerase; DNA ploymerase, N-2-acetylaminofluorene, replication block, mutagenesis, transferase/electron transport/DNA complex; HET: DNA 2DT 8FG; 2.10A {Enterobacteria phage T7} SCOP: c.55.3.5 e.8.1.1 PDB: 1skr_A* 1skw_A* 1sl0_A* 1sks_A* 1sl2_A* 1t7p_A* 1t8e_A* 1tk0_A* 1tk5_A* 1tk8_A* 1tkd_A* 1sl1_A* 1x9s_A* 1x9w_A* 1zyq_A* 2ajq_A* Length = 698 | Back alignment and structure |
|---|
Score = 125 bits (315), Expect = 1e-29
Identities = 89/563 (15%), Positives = 158/563 (28%), Gaps = 122/563 (21%)
Query: 391 EVICFSIYSGPEADFGNGKSCIWVDLLDGGGRDLLNEFAPFFEDPSIKKVWHNY-SFDNH 449
+ C IY D+ + + L+ V+HN +D
Sbjct: 17 KFHCGVIY-----DYSTAEYVSY---RPSDFGAYLDALEAEVARGG-LIVFHNGHKYDVP 67
Query: 450 VLEN-YGLKVSGFHA-------DTMHMARLWDSSRRTEGGYSLEALTGDRKVMSEDKKAY 501
L L+++ DT+ ++RL S+ + + L + + + Y
Sbjct: 68 ALTKLAKLQLNREFHLPRENCIDTLVLSRLIHSNLK---DTDMGLLRSGKLPGALEAWGY 124
Query: 502 QKDMSKGNTDEGFMGKISMKDIFGRRKLKKDGSAGKISTIAPVEELQREERELWISYSAF 561
+ KG + F + + E + Y+
Sbjct: 125 RLGEMKGEYKDDFKRM-------------LEEQGEEYVDGMEWWNFNEEMMD----YNVQ 167
Query: 562 DSINTLKLYKSLKKKLLEMSWKLDGKPVPGKSMFDFYQE---YWQPFGEILVKMETEGML 618
D + T L + L ++D V + + E +L K E G
Sbjct: 168 DVVVTKALLEKLLSDKHYFPPEIDFTDVGYTTFWSESLEAVDIEHRAAWLLAKQERNGFP 227
Query: 619 VDREYLSEIEKVARAEQEAAVNR----FRKWASKHCPDAKYMNVGSDTQL-------RQL 667
D + + E+ A + + + F W + + + L
Sbjct: 228 FDTKAIEELYVELAARRSELLRKLTETFGSWYQPKGGTEMFCHPRTGKPLPKYPRIKTPK 287
Query: 668 LFGGKPNSKDDSESLPIERIFKVPNTEGVIAEGKKTPSKFRNITLRS---IGV------D 718
+ G K+ ++ R +T +A TP + S I
Sbjct: 288 VGGIFKKPKNKAQRE--GREPCELDTREYVAGAPYTPVEHVVFNPSSRDHIQKKLQEAGW 345
Query: 719 LPTEMYTATGWPSVGGDALKTLARNISAEYDCVDGAHDLDDSGCTEETEYKGAVASNNKI 778
+PT+ YT G P V + L+ + + + +D EY K
Sbjct: 346 VPTK-YTDKGAPVVDDEVLEGVRVDDPEKQAAIDLI-----------KEYLMI----QKR 389
Query: 779 FATEQEAREACDAISALCEVCSIDSLISNFILPLQGSNVSGKNGRVHCSLNIN-TETGRL 837
E + + ++G++H S+N N TGR
Sbjct: 390 IGQSAEG---------------DKAWL----------RYVAEDGKIHGSVNPNGAVTGRA 424
Query: 838 SARRPNLQNQPA--LEKDRYKIRQAFIA--------VPGNSLIVADYGQLELRILAHLAN 887
+ PNL P + R AF A D LELR LAH
Sbjct: 425 THAFPNLAQIPGVRSPYGE-QCRAAFGAEHHLDGITGKPWVQAGIDASGLELRCLAH--- 480
Query: 888 CKSMLDAFKAGGDFHSRTAMNMY 910
+ F G H +++
Sbjct: 481 ---FMARFDNGEYAHEILNGDIH 500
|
| >2kfn_A Klenow fragment of DNA polymerase I; complex (polymerase/DNA), exonuclease, transferase, transferase/DNA complex; HET: US1; 2.03A {Escherichia coli} SCOP: c.55.3.5 e.8.1.1 PDB: 1d9f_A* 1d9d_A* 1krp_A* 1ksp_A* 1qsl_A* 1kfs_A* 2kfz_A* 2kzm_A* 2kzz_A* 1dpi_A* 1kfd_A* 1kln_A* 1d8y_A* Length = 605 | Back alignment and structure |
|---|
| >2kfn_A Klenow fragment of DNA polymerase I; complex (polymerase/DNA), exonuclease, transferase, transferase/DNA complex; HET: US1; 2.03A {Escherichia coli} SCOP: c.55.3.5 e.8.1.1 PDB: 1d9f_A* 1d9d_A* 1krp_A* 1ksp_A* 1qsl_A* 1kfs_A* 2kfz_A* 2kzm_A* 2kzz_A* 1dpi_A* 1kfd_A* 1kln_A* 1d8y_A* Length = 605 | Back alignment and structure |
|---|
| >4dfk_A DNA polymerase I, thermostable; DNA polymerase, transferase-DNA complex; HET: DNA DOC 0L5; 1.65A {Thermus aquaticus} PDB: 1jxe_A* 3ktq_A* 3lwl_A* 3lwm_A* 3m8s_A* 3m8r_A* 3oju_A* 3rr7_A* 3rr8_A* 3rrg_A* 3ojs_A* 3t3f_A* 4df4_A* 4df8_A* 4dfj_A* 3rrh_A* 4dfm_A* 4dfp_A* 1ktq_A* 5ktq_A* ... Length = 540 | Back alignment and structure |
|---|
| >4dfk_A DNA polymerase I, thermostable; DNA polymerase, transferase-DNA complex; HET: DNA DOC 0L5; 1.65A {Thermus aquaticus} PDB: 1jxe_A* 3ktq_A* 3lwl_A* 3lwm_A* 3m8s_A* 3m8r_A* 3oju_A* 3rr7_A* 3rr8_A* 3rrg_A* 3ojs_A* 3t3f_A* 4df4_A* 4df8_A* 4dfj_A* 3rrh_A* 4dfm_A* 4dfp_A* 1ktq_A* 5ktq_A* ... Length = 540 | Back alignment and structure |
|---|
| >1bgx_T TAQ DNA polymerase; DNA polymerase, FAB, PCR, inhibition, helix-coil dynamics, inhibitor design, complex (polymerase/inhibitor); 2.30A {Thermus aquaticus} SCOP: a.60.7.1 c.120.1.2 c.55.3.5 e.8.1.1 PDB: 1cmw_A 1tau_A* 1taq_A* Length = 832 | Back alignment and structure |
|---|
| >1bgx_T TAQ DNA polymerase; DNA polymerase, FAB, PCR, inhibition, helix-coil dynamics, inhibitor design, complex (polymerase/inhibitor); 2.30A {Thermus aquaticus} SCOP: a.60.7.1 c.120.1.2 c.55.3.5 e.8.1.1 PDB: 1cmw_A 1tau_A* 1taq_A* Length = 832 | Back alignment and structure |
|---|
| >3pv8_A DNA polymerase I; DNA polymerase I, protein-DNA complex, thymine-adenine, CLOS conformation; HET: DNA 2DT D3T; 1.52A {Geobacillus kaustophilus} PDB: 3px0_A* 3px4_A* 3px6_A* 3thv_A* 3ti0_A* 3tan_A* 3tap_A* 3taq_A* 3tar_A* 3hp6_A* 2hhw_A* 3ez5_A* 2hvh_A* 2hvi_A* 3eyz_A* 1nk4_A* 1l3t_A* 1l3u_A* 1l3v_A* 1l5u_A* ... Length = 592 | Back alignment and structure |
|---|
| >3pv8_A DNA polymerase I; DNA polymerase I, protein-DNA complex, thymine-adenine, CLOS conformation; HET: DNA 2DT D3T; 1.52A {Geobacillus kaustophilus} PDB: 3px0_A* 3px4_A* 3px6_A* 3thv_A* 3ti0_A* 3tan_A* 3tap_A* 3taq_A* 3tar_A* 3hp6_A* 2hhw_A* 3ez5_A* 2hvh_A* 2hvi_A* 3eyz_A* 1nk4_A* 1l3t_A* 1l3u_A* 1l3v_A* 1l5u_A* ... Length = 592 | Back alignment and structure |
|---|
| >3ikm_A DNA polymerase subunit gamma-1; human mitochondrial DNA polymerase, disease mutation, DNA replication, DNA-binding, DNA-directed DNA polymerase; HET: DNA; 3.24A {Homo sapiens} Length = 1172 | 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 |
| Query | 940 | |||
| 2kfn_A | 605 | Klenow fragment of DNA polymerase I; complex (poly | 100.0 | |
| 3pv8_A | 592 | DNA polymerase I; DNA polymerase I, protein-DNA co | 100.0 | |
| 4dfk_A | 540 | DNA polymerase I, thermostable; DNA polymerase, tr | 100.0 | |
| 1x9m_A | 698 | DNA polymerase; DNA ploymerase, N-2-acetylaminoflu | 100.0 | |
| 1bgx_T | 832 | TAQ DNA polymerase; DNA polymerase, FAB, PCR, inhi | 100.0 | |
| 1yt3_A | 375 | Ribonuclease D, RNAse D; exoribonuclease, exonucle | 99.81 | |
| 3saf_A | 428 | Exosome component 10; exoribonuclease, RNA exosome | 99.78 | |
| 2hbj_A | 410 | Exosome complex exonuclease RRP6; RNA metabolism, | 99.76 | |
| 2e6m_A | 208 | Werner syndrome ATP-dependent helicase homolog; AP | 99.75 | |
| 3ikm_A | 1172 | DNA polymerase subunit gamma-1; human mitochondria | 99.66 | |
| 3cym_A | 440 | Uncharacterized protein BAD_0989; structural genom | 99.54 | |
| 1vk0_A | 206 | Hypothetical protein; homohexamer, AT5G06450, stru | 99.4 | |
| 3v9w_A | 235 | Ribonuclease T; DEDD nucleases family, EXO-nucleas | 98.9 | |
| 2p1j_A | 186 | POLIII, DNA polymerase III POLC-type; structural g | 98.35 | |
| 2gui_A | 194 | DNA polymerase III epsilon subunit; DNA polymerase | 98.3 | |
| 3mxm_B | 242 | Three prime repair exonuclease 1; RNAse H-like fol | 98.19 | |
| 1y97_A | 238 | Three prime repair exonuclease 2; TREX2, hydrolase | 98.13 | |
| 2f96_A | 224 | Ribonuclease T; RNAse, RNT, RNAse T, tRNA hydrolas | 98.12 | |
| 3u3y_B | 314 | Three prime repair exonuclease 1; RNAse H fold, 3' | 98.01 | |
| 1wlj_A | 189 | Interferon stimulated gene 20KDA; exoribonuclease, | 97.8 | |
| 3tr8_A | 186 | Oligoribonuclease; transcription, hydrolase; 2.50A | 97.78 | |
| 1w0h_A | 204 | 3'-5' exonuclease ERI1; nuclease domain, hydrolase | 97.75 | |
| 2qxf_A | 482 | Exodeoxyribonuclease I; alpha-beta domain, DNAQ su | 97.71 | |
| 1zbh_A | 299 | 3'-5' exonuclease ERI1; histone mRNA 3'-END-specif | 97.46 | |
| 2igi_A | 180 | Oligoribonuclease; RNAse, exoribonuclease, exonucl | 97.45 | |
| 2xri_A | 224 | ERI1 exoribonuclease 3; hydrolase, metal binding; | 97.02 | |
| 1zbu_A | 349 | ERI-1 homolog, 3'-5' exonuclease ERI1; hydrolase; | 97.0 | |
| 2gbz_A | 194 | Oligoribonuclease; ORN, deddh, structural genomics | 96.9 | |
| 3cg7_A | 308 | CRN-4, cell death-related nuclease 4; hydrolase, a | 96.82 | |
| 4gmj_B | 285 | CCR4-NOT transcription complex subunit 7; mRNA dec | 94.19 | |
| 1noy_A | 388 | Protein (DNA polymerase (E.C.2.7.7.7)); exonucleas | 93.55 | |
| 1qht_A | 775 | Protein (DNA polymerase); archaea, hyperthermostab | 93.55 | |
| 3ikm_A | 1172 | DNA polymerase subunit gamma-1; human mitochondria | 92.39 | |
| 3qex_A | 903 | DNA polymerase, GP43; difluorotoluene nucleoside; | 90.29 | |
| 1s5j_A | 847 | DNA polymerase I; replication, disulfide bonds, tr | 87.38 | |
| 2d5r_A | 252 | CCR4-NOT transcription complex subunit 7; poly(A) | 86.59 | |
| 2p51_A | 333 | SPCC18.06C protein; DEDD nuclease fold, hydrolase, | 83.66 | |
| 3k59_A | 786 | POL II, DNA polymerase II; protein-DNA complex, DN | 82.47 |
| >2kfn_A Klenow fragment of DNA polymerase I; complex (polymerase/DNA), exonuclease, transferase, transferase/DNA complex; HET: US1; 2.03A {Escherichia coli} SCOP: c.55.3.5 e.8.1.1 PDB: 1d9f_A* 1d9d_A* 1krp_A* 1ksp_A* 1qsl_A* 1kfs_A* 2kfz_A* 2kzm_A* 2kzz_A* 1dpi_A* 1kfd_A* 1kln_A* 1d8y_A* | Back alignment and structure |
|---|
Probab=100.00 E-value=1.7e-78 Score=714.05 Aligned_cols=416 Identities=27% Similarity=0.361 Sum_probs=353.9
Q ss_pred CCceEEecCHHHHHHHHHHHhccCCCceEEEEeccCCCCcccCccccCcceeEEEeecCCCcccCCCceEEEEeCCC---
Q 002293 342 YSNVMVVDNVSAAKKVVWMLTNKYKHLVHACDTEVAKIDVKQETPVDHGEVICFSIYSGPEADFGNGKSCIWVDLLD--- 418 (940)
Q Consensus 342 p~~y~lV~t~e~L~eli~~L~~a~~~~~VAfDTETTGLd~~~d~IvG~g~Ii~LSi~~~~gIq~g~~~~~~yID~~~--- 418 (940)
|.+|.+|++.+++.+|++.|... ++++|||||+|++++.+.+++ +++++.. +..+|++..+
T Consensus 4 ~~~y~~I~~~~~l~~~~~~l~~~---~~va~DtEttgl~~~~~~iv~----I~~~~~~---------g~~~yip~~~~~~ 67 (605)
T 2kfn_A 4 YDNYVTILDEETLKAWIAKLEKA---PVFAFDTETDSLDNISANLVG----LSFAIEP---------GVAAYIPVAHDYL 67 (605)
T ss_dssp SSSSEECCSHHHHHHHHHHHHTS---SSEEEEEEESCSCTTTCCEEE----EEEEEET---------TEEEEEECCCCST
T ss_pred hhheEEecCHHHHHHHHHhcccC---CeEEEEEecCCCCcccCceEE----EEEEEcC---------CcEEEEecccccc
Confidence 45688999999999999988664 479999999999998877765 3444322 2356774432
Q ss_pred -----CChhhhHhhhhhhhcCCCceEEEeccHHHHHHHHHcCCCCCCccccHHHHHHhcCCCCCCCCCCCHHHHHhcccc
Q 002293 419 -----GGGRDLLNEFAPFFEDPSIKKVWHNYSFDNHVLENYGLKVSGFHADTMHMARLWDSSRRTEGGYSLEALTGDRKV 493 (940)
Q Consensus 419 -----~~~e~~l~~Lk~~Led~~i~KVgHNaKfDL~~L~r~GI~l~n~vfDTmIAA~LLdp~~~~~~s~sLe~La~~y~~ 493 (940)
.+.+++++.|+++|+++.+.||+||++||+++|.++|+.+.+++||||+|+||++|+.. +|+|++|+.+
T Consensus 68 ~~~~~l~~~~vl~~L~~~L~d~~i~kV~hnak~D~~~L~~~Gi~l~~~~~DT~laayLL~p~~~---~~~L~~La~~--- 141 (605)
T 2kfn_A 68 DAPDQISRERALELLKPLLEDEKALKVGQNLKYDRGILANYGIELRGIAFDTMLESYILNSVAG---RHDMDSLAER--- 141 (605)
T ss_dssp TCCCCCCHHHHHHHHHHHHTCTTSCEEESSHHHHHHHHHTTTCCCCCEEEEHHHHHHHHCTTSS---CCSHHHHHHH---
T ss_pred ccccccCHHHHHHHHHHHHcCCCCeEEEECcHHHHHHHHHCCCCCCCccccHHHHHHHhCCCCC---CCCHHHHHHH---
Confidence 12345678899999999999999999999999999999998889999999999999764 6999999997
Q ss_pred ccccchhhhccccCCCCccccccccchhhhhcccccccCCCCCccccccchhHhhHhhHHHHHHHHHHHHHHHHHHHHHH
Q 002293 494 MSEDKKAYQKDMSKGNTDEGFMGKISMKDIFGRRKLKKDGSAGKISTIAPVEELQREERELWISYSAFDSINTLKLYKSL 573 (940)
Q Consensus 494 ~~e~yLg~~~~l~k~~s~eELvGk~s~kelfGK~k~kkd~s~~~dw~~~PL~~l~~~~~e~~l~YAA~DA~~tlrLye~L 573 (940)
||++. ...+++++||++. + .+|..+|+ +.+..||+.||.++++||+.|
T Consensus 142 ----~Lg~~--------------~i~~~~~~gKg~~--~----~~~~~~~l--------e~~~~yAa~Da~~~~~L~~~L 189 (605)
T 2kfn_A 142 ----WLKHK--------------TITFEEIAGKGKN--Q----LTFNQIAL--------EEAGRYAAEDADVTLQLHLKM 189 (605)
T ss_dssp ----HSCCC--------------CCCHHHHHCSSTT--C----CCGGGSCH--------HHHHHHHHHHHHHHHHHHHHH
T ss_pred ----hcCCC--------------cccHHHHhCCCcc--c----CCcccCCH--------HHHHHHHHHHHHHHHHHHHHH
Confidence 44332 1123445665431 1 24655553 457899999999999999999
Q ss_pred HHHHhh-cccccCCCCCCCchHHHHHHHHhcchHHHHHHHhHcCcccCHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCC
Q 002293 574 KKKLLE-MSWKLDGKPVPGKSMFDFYQEYWQPFGEILVKMETEGMLVDREYLSEIEKVARAEQEAAVNRFRKWASKHCPD 652 (940)
Q Consensus 574 ~~~Lee-~~~~~~~~~~~~~~l~~Ly~~IEmPL~~VLa~ME~~GI~VD~E~L~el~~~l~~e~e~le~ei~~~a~k~~~~ 652 (940)
.++|++ . ++.++|.++|||++++|++||.+||+||.+.|.++...+..+++.+++++++++
T Consensus 190 ~~~L~~~~------------~l~~L~~~iE~Pl~~vLa~ME~~Gi~vD~~~l~~~~~~~~~~~~~l~~~i~~~~------ 251 (605)
T 2kfn_A 190 WPDLQKHK------------GPLNVFENIEMPLVPVLSRIERNGVKIDPKVLHNHSEELTLRLAELEKKAHEIA------ 251 (605)
T ss_dssp HHHTTSCH------------HHHHHHHHTHHHHHHHHHHHHHHCBCBCHHHHHHHHHHHHHHHHHHHHHHHHHS------
T ss_pred HHHHHHHh------------hHHHHHHHHHhHHHHHHHHHHHcCeEeCHHHHHHHHHHHHHHHHHHHHHHHHHh------
Confidence 999986 4 688999999999999999999999999999999999999999999999998776
Q ss_pred CccccCCCHHHHHHHhcCCCCCCCCCCCCCCcccccccCCCccccccCCCCCcccccchhcccccCCCCccccccCCCcC
Q 002293 653 AKYMNVGSDTQLRQLLFGGKPNSKDDSESLPIERIFKVPNTEGVIAEGKKTPSKFRNITLRSIGVDLPTEMYTATGWPSV 732 (940)
Q Consensus 653 g~~fNl~SpkQL~~lLF~~~~~~~~~~l~LP~er~~k~~~~~~~~~~~Kktp~~~~~i~l~~lG~~lp~~~kTktG~~ST 732 (940)
|..||++||+||+++||+ +||||+ .++||+|+|||
T Consensus 252 g~~fN~~Spkql~~~Lf~--------~lglp~-------------------------------------~kktk~g~~st 286 (605)
T 2kfn_A 252 GEEFNLSSTKQLQTILFE--------KQGIKP-------------------------------------LKKTPGGAPST 286 (605)
T ss_dssp SSCCCSCTTTTSHHHHTT--------TSSCSC-------------------------------------CCCCC----TT
T ss_pred CCCCCCCCHHHHHHHHHH--------hcCCCC-------------------------------------CCcCCCCCccc
Confidence 789999999999999998 688863 24689999999
Q ss_pred cHHHHHHHHhccCccccccCCCCCCCCCCCcccccchhcccccchhhhhHHHHHHHhHHHHHHHHHHHHhhhHhhhhhcc
Q 002293 733 GGDALKTLARNISAEYDCVDGAHDLDDSGCTEETEYKGAVASNNKIFATEQEAREACDAISALCEVCSIDSLISNFILPL 812 (940)
Q Consensus 733 d~evLe~L~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~i~~LLeyR~l~KLlstyi~~L 812 (940)
++++|++|+..||+ ++.||+||+++|+++||+++|
T Consensus 287 ~~~vL~~l~~~~p~---------------------------------------------~~~il~~r~l~Kl~sty~~~l 321 (605)
T 2kfn_A 287 SEEVLEELALDYPL---------------------------------------------PKVILEYRGLAKLKSTYTDKL 321 (605)
T ss_dssp TCCHHHHHTTTCSH---------------------------------------------HHHHHHHHHHHHHHHHTTTTG
T ss_pred cHHHHHHHHhcChH---------------------------------------------HHHHHHHHHHHHHhccHHHHH
Confidence 99999999877774 456999999999999999999
Q ss_pred ccCCccCCCCceeeeecC-CCccceeeecCCCccccCCCccchhhccceeecCCCCeEEEeeccchhHHHHHHhcCCHHH
Q 002293 813 QGSNVSGKNGRVHCSLNI-NTETGRLSARRPNLQNQPALEKDRYKIRQAFIAVPGNSLIVADYGQLELRILAHLANCKSM 891 (940)
Q Consensus 813 ~~~~~~~~dGRIH~s~nq-gTaTGRLSSs~PNLQNIP~~~~~~~~iR~~Fia~~G~~LvsaDYSQIELRILAhlS~D~~L 891 (940)
++ .+.+.+|||||+|+| +|+||||||++|||||||++++.|+.||+||+|++|++||+|||||||||||||||+|+.|
T Consensus 322 ~~-~v~~~~grih~~~~~~~t~TGRlss~~PnlQniP~r~~~g~~iR~~f~~~~g~~lv~aDysqiElRilA~ls~d~~l 400 (605)
T 2kfn_A 322 PL-MINPKTGRVHTSYHQAVTATGRLSSTDPNLQNIPVRNEEGRRIRQAFIAPEDYVIVSADYSQIELRIMAHLSRDKGL 400 (605)
T ss_dssp GG-GBCTTTSSBCCEEESSCCSSSCCEEESSCGGGSCSSSHHHHHHHHTBBCCTTEEEEEEEETTHHHHHHHHHTTCHHH
T ss_pred HH-hhCcccCeecceeEecccccCceecCCCCcccCCCCccchHhHhheeeCCCCCEEEEechhhhHHHHHHHHcCCHHH
Confidence 97 454445999999998 9999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHhcCCCchHHHHHHHcCCCccccccc
Q 002293 892 LDAFKAGGDFHSRTAMNMYPHIRNAVETG 920 (940)
Q Consensus 892 i~af~~g~DiH~~tAs~~fg~~~eeVtk~ 920 (940)
+++|++|.|||+.||+.+||+|+|+||++
T Consensus 401 ~~af~~g~Dih~~tA~~~f~~~~e~vt~~ 429 (605)
T 2kfn_A 401 LTAFAEGKDIHRATAAEVFGLPLETVTSE 429 (605)
T ss_dssp HHHHHTTCCHHHHHHHHHTTCCGGGCCHH
T ss_pred HHHHhcCCCHHHHHHHHHhCCChhhcCHH
Confidence 99999999999999999999999999853
|
| >3pv8_A DNA polymerase I; DNA polymerase I, protein-DNA complex, thymine-adenine, CLOS conformation; HET: DNA 2DT D3T; 1.52A {Geobacillus kaustophilus} PDB: 3px0_A* 3px4_A* 3px6_A* 3thv_A* 3ti0_A* 4dse_A* 4dsf_A* 4ds4_A* 4dqp_A* 4dqi_A* 4ds5_A* 4e0d_A* 4dqr_A* 4dqq_A* 3tan_A* 3tap_A* 3taq_A* 3tar_A* 4dqs_A* 3hp6_A* ... | Back alignment and structure |
|---|
| >4dfk_A DNA polymerase I, thermostable; DNA polymerase, transferase-DNA complex; HET: DNA DOC 0L5; 1.65A {Thermus aquaticus} PDB: 1jxe_A* 3ktq_A* 3lwl_A* 3lwm_A* 3m8s_A* 3m8r_A* 3oju_A* 3rr7_A* 3rr8_A* 3rrg_A* 3ojs_A* 3rtv_A* 3sv3_A* 3sv4_A* 3syz_A* 3sz2_A* 3t3f_A* 4df4_A* 4df8_A* 4dfj_A* ... | Back alignment and structure |
|---|
| >1x9m_A DNA polymerase; DNA ploymerase, N-2-acetylaminofluorene, replication block, mutagenesis, transferase/electron transport/DNA complex; HET: DNA 2DT 8FG; 2.10A {Enterobacteria phage T7} SCOP: c.55.3.5 e.8.1.1 PDB: 1skr_A* 1skw_A* 1sl0_A* 1sks_A* 1sl2_A* 1t7p_A* 1t8e_A* 1tk0_A* 1tk5_A* 1tk8_A* 1tkd_A* 1sl1_A* 1x9s_A* 1x9w_A* 1zyq_A* 2ajq_A* | Back alignment and structure |
|---|
| >1bgx_T TAQ DNA polymerase; DNA polymerase, FAB, PCR, inhibition, helix-coil dynamics, inhibitor design, complex (polymerase/inhibitor); 2.30A {Thermus aquaticus} SCOP: a.60.7.1 c.120.1.2 c.55.3.5 e.8.1.1 PDB: 1cmw_A 1tau_A* 1taq_A* | Back alignment and structure |
|---|
| >1yt3_A Ribonuclease D, RNAse D; exoribonuclease, exonuclease, hydrolase, tRNA processing, hydrolase,translation; 1.60A {Escherichia coli} SCOP: a.60.8.3 a.60.8.3 c.55.3.5 | Back alignment and structure |
|---|
| >3saf_A Exosome component 10; exoribonuclease, RNA exosome, hydrolase; 2.50A {Homo sapiens} PDB: 3sag_A 3sah_A 2cpr_A | Back alignment and structure |
|---|
| >2hbj_A Exosome complex exonuclease RRP6; RNA metabolism, RNA surveillance, RNA processing, hydrolase, gene regulation; 2.10A {Saccharomyces cerevisiae} SCOP: a.60.8.4 c.55.3.5 PDB: 2hbk_A 2hbl_A* 2hbm_A* | Back alignment and structure |
|---|
| >2e6m_A Werner syndrome ATP-dependent helicase homolog; APO form, hydrolase; 2.00A {Mus musculus} PDB: 2e6l_A 2fby_A 2fbv_A 2fbx_A 2fbt_A 2fc0_A* | Back alignment and structure |
|---|
| >3ikm_A DNA polymerase subunit gamma-1; human mitochondrial DNA polymerase, disease mutation, DNA replication, DNA-binding, DNA-directed DNA polymerase; HET: DNA; 3.24A {Homo sapiens} | Back alignment and structure |
|---|
| >3cym_A Uncharacterized protein BAD_0989; structural genomics, unknown function; 2.10A {Bifidobacterium adolescentis atcc 1570ORGANISM_TAXID} | Back alignment and structure |
|---|
| >1vk0_A Hypothetical protein; homohexamer, AT5G06450, struc genomics, protein structure initiative, center for eukaryot structural genomics, CESG; 2.10A {Arabidopsis thaliana} SCOP: c.55.3.5 PDB: 2q3s_A | Back alignment and structure |
|---|
| >3v9w_A Ribonuclease T; DEDD nucleases family, EXO-nucleases, hydrolase-DNA complex; HET: DNA; 1.70A {Escherichia coli} PDB: 3ngy_A 3v9u_A* 3ngz_A* 3va3_A* 3v9z_A* 3nh0_A 3nh2_A 3nh1_A* 3v9s_A* 3v9x_A* 3va0_A* 2is3_A | Back alignment and structure |
|---|
| >2p1j_A POLIII, DNA polymerase III POLC-type; structural genomics, exonuclease, PSI-2, protein structure initiative; HET: DNA; 2.50A {Thermotoga maritima MSB8} | Back alignment and structure |
|---|
| >2gui_A DNA polymerase III epsilon subunit; DNA polymerase proofreading domain, transferase; HET: DNA U5P; 1.60A {Escherichia coli} SCOP: c.55.3.5 PDB: 1j54_A* 1j53_A* 2ido_A* 2xy8_A* | Back alignment and structure |
|---|
| >3mxm_B Three prime repair exonuclease 1; RNAse H-like fold, polyproline type II helix, hydrolase-DNA; HET: DNA; 1.75A {Mus musculus} SCOP: c.55.3.5 PDB: 3mxj_B 2ioc_B 3mxi_B* 3b6o_A* 2o4g_A* 3b6p_A* 2o4i_A 2oa8_A | Back alignment and structure |
|---|
| >1y97_A Three prime repair exonuclease 2; TREX2, hydrolase; 2.50A {Homo sapiens} SCOP: c.55.3.5 | Back alignment and structure |
|---|
| >2f96_A Ribonuclease T; RNAse, RNT, RNAse T, tRNA hydrolase, SAD, PS protein structure initiative, midwest center for structural genomics; 2.09A {Pseudomonas aeruginosa} SCOP: c.55.3.5 | Back alignment and structure |
|---|
| >3u3y_B Three prime repair exonuclease 1; RNAse H fold, 3' exonuclease, homodimer, hydrolase-DNA compl; HET: BU1; 2.28A {Mus musculus} PDB: 3u6f_B* | Back alignment and structure |
|---|
| >1wlj_A Interferon stimulated gene 20KDA; exoribonuclease, hydrolase; HET: U5P; 1.90A {Homo sapiens} SCOP: c.55.3.5 | Back alignment and structure |
|---|
| >3tr8_A Oligoribonuclease; transcription, hydrolase; 2.50A {Coxiella burnetii} | Back alignment and structure |
|---|
| >1w0h_A 3'-5' exonuclease ERI1; nuclease domain, hydrolase; HET: AMP; 1.59A {Homo sapiens} SCOP: c.55.3.5 | Back alignment and structure |
|---|
| >2qxf_A Exodeoxyribonuclease I; alpha-beta domain, DNAQ superfamily, SH3-like domain, produc structure, DNA damage, DNA repair, exonuclease; HET: TMP; 1.50A {Escherichia coli} SCOP: c.55.3.5 PDB: 1fxx_A* 3c94_A 3c95_A 3hl8_A* 3hp9_A* | Back alignment and structure |
|---|
| >1zbh_A 3'-5' exonuclease ERI1; histone mRNA 3'-END-specific recognition, structures of 3'- exonuclease and ITS RNA complex, hydrolase/RNA complex; HET: AMP; 3.00A {Homo sapiens} | Back alignment and structure |
|---|
| >2igi_A Oligoribonuclease; RNAse, exoribonuclease, exonuclease, hydrolase, mRNA decay; 1.70A {Escherichia coli} SCOP: c.55.3.5 PDB: 1yta_A 1j9a_A | Back alignment and structure |
|---|
| >2xri_A ERI1 exoribonuclease 3; hydrolase, metal binding; 2.15A {Homo sapiens} | Back alignment and structure |
|---|
| >1zbu_A ERI-1 homolog, 3'-5' exonuclease ERI1; hydrolase; HET: AMP; 3.00A {Homo sapiens} | Back alignment and structure |
|---|
| >2gbz_A Oligoribonuclease; ORN, deddh, structural genomics, hydrolase; 2.30A {Xanthomonas campestris PV} | Back alignment and structure |
|---|
| >3cg7_A CRN-4, cell death-related nuclease 4; hydrolase, apoptosis, 3'-5' exonuclease, deddh; 2.50A {Caenorhabditis elegans} PDB: 3cm5_A 3cm6_A | Back alignment and structure |
|---|
| >4gmj_B CCR4-NOT transcription complex subunit 7; mRNA decay, deadenylase, RNA bindin; HET: GOL; 2.70A {Homo sapiens} | Back alignment and structure |
|---|
| >1noy_A Protein (DNA polymerase (E.C.2.7.7.7)); exonuclease, DNA-binding, complex (nucleotidyltransferase/DNA); HET: DNA; 2.20A {Enterobacteria phage T4} SCOP: c.55.3.5 PDB: 1noz_A* | Back alignment and structure |
|---|
| >1qht_A Protein (DNA polymerase); archaea, hyperthermostable, family B polymer alpha family polymerase, transferase; 2.10A {Thermococcus SP} SCOP: c.55.3.5 e.8.1.1 PDB: 1tgo_A 2xhb_A* 2vwj_A* 2vwk_A* 1wns_A* 1wn7_A 1qqc_A* 4ahc_A* 4ail_C* 3a2f_A* 2jgu_A* 1d5a_A | Back alignment and structure |
|---|
| >3ikm_A DNA polymerase subunit gamma-1; human mitochondrial DNA polymerase, disease mutation, DNA replication, DNA-binding, DNA-directed DNA polymerase; HET: DNA; 3.24A {Homo sapiens} | Back alignment and structure |
|---|
| >3qex_A DNA polymerase, GP43; difluorotoluene nucleoside; HET: DNA DOC DGT; 1.73A {Enterobacteria phage RB69} PDB: 3qei_A* 3qer_A* 3qes_A* 3qet_A* 3qep_A* 3qew_A* 3qev_A* 3s9h_A* 3sq0_A* 4dtn_A* 4dto_A* 4dtp_A* 4dtr_A* 4dts_A* 4dtu_A* 4dtx_A* 4e3s_A* 4fjm_A* 4fjl_A* 3spz_A* ... | Back alignment and structure |
|---|
| >1s5j_A DNA polymerase I; replication, disulfide bonds, transferase; HET: DNA; 2.40A {Sulfolobus solfataricus} SCOP: c.55.3.5 e.8.1.1 | Back alignment and structure |
|---|
| >2d5r_A CCR4-NOT transcription complex subunit 7; poly(A) deadenylase, antiproliferative protein, transcription; 2.50A {Homo sapiens} SCOP: c.55.3.9 | Back alignment and structure |
|---|
| >2p51_A SPCC18.06C protein; DEDD nuclease fold, hydrolase, gene regulation; 1.40A {Schizosaccharomyces pombe} PDB: 3g0z_A 3g10_A | Back alignment and structure |
|---|
| >3k59_A POL II, DNA polymerase II; protein-DNA complex, DNA damage, DNA repair, DNA-binding; HET: DNA DOC DCP; 1.92A {Escherichia coli} PDB: 3k57_A* 3k58_A* 3k5l_A* 3k5m_A* 3k5n_A* 3k5o_A* 3maq_A* 1q8i_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 |
| 940 | ||||
| d1kfsa2 | 410 | e.8.1.1 (A:519-928) DNA polymerase I (Klenow fragm | 8e-17 | |
| d1kfsa2 | 410 | e.8.1.1 (A:519-928) DNA polymerase I (Klenow fragm | 3e-07 | |
| d2hhva2 | 408 | e.8.1.1 (A:469-876) DNA polymerase I (Klenow fragm | 7e-12 | |
| d2hhva2 | 408 | e.8.1.1 (A:469-876) DNA polymerase I (Klenow fragm | 4e-06 | |
| d1qtma2 | 409 | e.8.1.1 (A:423-831) DNA polymerase I (Klenow fragm | 6e-10 | |
| d1qtma2 | 409 | e.8.1.1 (A:423-831) DNA polymerase I (Klenow fragm | 9e-07 | |
| d2hhva1 | 171 | c.55.3.5 (A:298-468) Exonuclease domain of prokary | 6e-08 | |
| d1vk0a_ | 206 | c.55.3.5 (A:) Hypothetical protein AT5G06450 {Thal | 2e-06 | |
| d1x9ma2 | 494 | e.8.1.1 (A:211-704) T7 phage DNA polymerase {Bacte | 1e-05 | |
| d1kfsa1 | 195 | c.55.3.5 (A:324-518) Exonuclease domain of prokary | 2e-05 |
| >d1kfsa2 e.8.1.1 (A:519-928) DNA polymerase I (Klenow fragment) {Escherichia coli [TaxId: 562]} Length = 410 | Back information, alignment and structure |
|---|
class: Multi-domain proteins (alpha and beta) fold: DNA/RNA polymerases superfamily: DNA/RNA polymerases family: DNA polymerase I domain: DNA polymerase I (Klenow fragment) species: Escherichia coli [TaxId: 562]
Score = 81.4 bits (200), Expect = 8e-17
Identities = 50/134 (37%), Positives = 69/134 (51%), Gaps = 2/134 (1%)
Query: 789 CDAISALCEVCSIDSLISNFILPLQGSNVSGKNGRVHCSLNI-NTETGRLSARRPNLQNQ 847
+ E + L S + ++ K GRVH S + T TGRLS+ PNLQN
Sbjct: 103 YPLPKVILEYRGLAKLKSTYTDK-LPLMINPKTGRVHTSYHQAVTATGRLSSTDPNLQNI 161
Query: 848 PALEKDRYKIRQAFIAVPGNSLIVADYGQLELRILAHLANCKSMLDAFKAGGDFHSRTAM 907
P ++ +IRQAFIA ++ ADY Q+ELRI+AHL+ K +L AF G D H TA
Sbjct: 162 PVRNEEGRRIRQAFIAPEDYVIVSADYSQIELRIMAHLSRDKGLLTAFAEGKDIHRATAA 221
Query: 908 NMYPHIRNAVETGQ 921
++ V + Q
Sbjct: 222 EVFGLPLETVTSEQ 235
|
| >d1kfsa2 e.8.1.1 (A:519-928) DNA polymerase I (Klenow fragment) {Escherichia coli [TaxId: 562]} Length = 410 | Back information, alignment and structure |
|---|
| >d2hhva2 e.8.1.1 (A:469-876) DNA polymerase I (Klenow fragment) {Bacillus stearothermophilus, newly identified strain as yet unnamed [TaxId: 1422]} Length = 408 | Back information, alignment and structure |
|---|
| >d2hhva2 e.8.1.1 (A:469-876) DNA polymerase I (Klenow fragment) {Bacillus stearothermophilus, newly identified strain as yet unnamed [TaxId: 1422]} Length = 408 | Back information, alignment and structure |
|---|
| >d1qtma2 e.8.1.1 (A:423-831) DNA polymerase I (Klenow fragment) {Thermus aquaticus [TaxId: 271]} Length = 409 | Back information, alignment and structure |
|---|
| >d1qtma2 e.8.1.1 (A:423-831) DNA polymerase I (Klenow fragment) {Thermus aquaticus [TaxId: 271]} Length = 409 | Back information, alignment and structure |
|---|
| >d2hhva1 c.55.3.5 (A:298-468) Exonuclease domain of prokaryotic DNA polymerase {Bacillus stearothermophilus, newly identified strain as yet unnamed [TaxId: 1422]} Length = 171 | Back information, alignment and structure |
|---|
| >d1vk0a_ c.55.3.5 (A:) Hypothetical protein AT5G06450 {Thale-cress (Arabidopsis thaliana) [TaxId: 3702]} Length = 206 | Back information, alignment and structure |
|---|
| >d1x9ma2 e.8.1.1 (A:211-704) T7 phage DNA polymerase {Bacteriophage T7 [TaxId: 10760]} Length = 494 | Back information, alignment and structure |
|---|
| >d1kfsa1 c.55.3.5 (A:324-518) Exonuclease domain of prokaryotic DNA polymerase {Escherichia coli [TaxId: 562]} Length = 195 | 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 |
| Query | 940 | |||
| d1kfsa2 | 410 | DNA polymerase I (Klenow fragment) {Escherichia co | 100.0 | |
| d1qtma2 | 409 | DNA polymerase I (Klenow fragment) {Thermus aquati | 100.0 | |
| d2hhva2 | 408 | DNA polymerase I (Klenow fragment) {Bacillus stear | 100.0 | |
| d1x9ma2 | 494 | T7 phage DNA polymerase {Bacteriophage T7 [TaxId: | 100.0 | |
| d1kfsa1 | 195 | Exonuclease domain of prokaryotic DNA polymerase { | 99.87 | |
| d1yt3a3 | 193 | Ribonuclease D, catalytic domain {Escherichia coli | 99.87 | |
| d2hbka2 | 292 | Exosome complex exonuclease RRP6 {Baker's yeast (S | 99.87 | |
| d2hhva1 | 171 | Exonuclease domain of prokaryotic DNA polymerase { | 99.81 | |
| d1vk0a_ | 206 | Hypothetical protein AT5G06450 {Thale-cress (Arabi | 99.49 | |
| d1wlja_ | 173 | Interferon-stimulated gene 20 kDa protein, ISG20 { | 98.44 | |
| d1x9ma1 | 204 | Exonuclease domain of T7 DNA polymerase {Bacteriop | 98.22 | |
| d2guia1 | 174 | N-terminal exonuclease domain of the epsilon subun | 97.8 | |
| d3b6oa1 | 226 | Three prime repair exonuclease 1, TREX1 {Mouse (Mu | 97.79 | |
| d1y97a1 | 228 | Three prime repair exonuclease 2, TREX2 {Human (Ho | 97.31 | |
| d2qxfa1 | 467 | Exonuclease I {Escherichia coli K12 (Escherichia c | 96.84 | |
| d2f96a1 | 202 | Ribonuclease T {Pseudomonas aeruginosa [TaxId: 287 | 96.58 | |
| d1tgoa1 | 347 | Exonuclease domain of family B DNA polymerases {Ar | 95.82 | |
| d2d5ra1 | 252 | CCR4-NOT transcription complex subunit 7, CAF1 {Hu | 95.64 | |
| d2igia1 | 180 | Oligoribonuclease {Escherichia coli [TaxId: 562]} | 93.37 | |
| d1w0ha_ | 200 | Exonuclease ERI1 {Human (Homo sapiens) [TaxId: 960 | 91.69 | |
| d1q8ia1 | 388 | Exonuclease domain of family B DNA polymerases {Es | 91.45 | |
| d1s5ja1 | 410 | Exonuclease domain of family B DNA polymerases {Su | 90.9 |
| >d1kfsa2 e.8.1.1 (A:519-928) DNA polymerase I (Klenow fragment) {Escherichia coli [TaxId: 562]} | Back information, alignment and structure |
|---|
class: Multi-domain proteins (alpha and beta) fold: DNA/RNA polymerases superfamily: DNA/RNA polymerases family: DNA polymerase I domain: DNA polymerase I (Klenow fragment) species: Escherichia coli [TaxId: 562]
Probab=100.00 E-value=2e-49 Score=443.46 Aligned_cols=232 Identities=31% Similarity=0.430 Sum_probs=209.2
Q ss_pred chHHHHHHHHhcchHHHHHHHhHcCcccCHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCccccCCCHHHHHHHhcCC
Q 002293 592 KSMFDFYQEYWQPFGEILVKMETEGMLVDREYLSEIEKVARAEQEAAVNRFRKWASKHCPDAKYMNVGSDTQLRQLLFGG 671 (940)
Q Consensus 592 ~~l~~Ly~~IEmPL~~VLa~ME~~GI~VD~E~L~el~~~l~~e~e~le~ei~~~a~k~~~~g~~fNl~SpkQL~~lLF~~ 671 (940)
.+++++|+++|||++++|++||.+||+||.+.|+++...+..+++.+++++..++ |.+||++|++||+++||+
T Consensus 2 ~g~~~~~~~iE~~~~~~la~Me~~Gi~vD~e~l~~~~~~~~~~~~~l~~~~~~~~------g~~fn~~S~~ql~~~Lf~- 74 (410)
T d1kfsa2 2 KGPLNVFENIEMPLVPVLSRIERNGVKIDPKVLHNHSEELTLRLAELEKKAHEIA------GEEFNLSSTKQLQTILFE- 74 (410)
T ss_dssp HHHHHHHHHTHHHHHHHHHHHHHHCBCBCHHHHHHHHHHHHHHHHHHHHHHHHHS------SSCCCSCTTTTSHHHHTT-
T ss_pred CcHHHHHHHHHHHHHHHHHHHHHhCEEECHHHHHHHHHHHHHHHHHHHHHHHHHh------CCcCCCCCHHHHHHHHHH-
Confidence 3789999999999999999999999999999999999999999999999998775 678999999999999998
Q ss_pred CCCCCCCCCCCCcccccccCCCccccccCCCCCcccccchhcccccCCCCccccccCCCcCcHHHHHHHHhccCcccccc
Q 002293 672 KPNSKDDSESLPIERIFKVPNTEGVIAEGKKTPSKFRNITLRSIGVDLPTEMYTATGWPSVGGDALKTLARNISAEYDCV 751 (940)
Q Consensus 672 ~~~~~~~~l~LP~er~~k~~~~~~~~~~~Kktp~~~~~i~l~~lG~~lp~~~kTktG~~STd~evLe~L~~~~p~~~~~~ 751 (940)
.+|+|+ .++|++|.+||++++|+.+...+|.
T Consensus 75 -------~lgl~~-------------------------------------~~~t~~g~~~t~~~~L~~~~~~~~~----- 105 (410)
T d1kfsa2 75 -------KQGIKP-------------------------------------LKKTPGGAPSTSEEVLEELALDYPL----- 105 (410)
T ss_dssp -------TSSCSC-------------------------------------CCCCC----TTTCCHHHHHTTTCHH-----
T ss_pred -------hcCCCC-------------------------------------CccCCCCCcccchhhhhccccccHH-----
Confidence 677753 3568899999999999988765542
Q ss_pred CCCCCCCCCCCcccccchhcccccchhhhhHHHHHHHhHHHHHHHHHHHHhhhHhhhhhccccCCccCCCCceeeeecC-
Q 002293 752 DGAHDLDDSGCTEETEYKGAVASNNKIFATEQEAREACDAISALCEVCSIDSLISNFILPLQGSNVSGKNGRVHCSLNI- 830 (940)
Q Consensus 752 ~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~i~~LLeyR~l~KLlstyi~~L~~~~~~~~dGRIH~s~nq- 830 (940)
++.|++||+++|+.++|++.+.. .....|||||++|++
T Consensus 106 ----------------------------------------~~~l~~~r~~~k~~~~~~~~~~~-~~~~~~gri~~~~~~~ 144 (410)
T d1kfsa2 106 ----------------------------------------PKVILEYRGLAKLKSTYTDKLPL-MINPKTGRVHTSYHQA 144 (410)
T ss_dssp ----------------------------------------HHHHHHHHHHHHHHHHTTTTGGG-GBCTTTSSBCCEEESS
T ss_pred ----------------------------------------HHHHHHHHHHHHHHHHhhhhhhh-ccCCCCCceeeeEeec
Confidence 46789999999999999998876 344578999999998
Q ss_pred CCccceeeecCCCccccCCCccchhhccceeecCCCCeEEEeeccchhHHHHHHhcCCHHHHHHHhcCCCchHHHHHHHc
Q 002293 831 NTETGRLSARRPNLQNQPALEKDRYKIRQAFIAVPGNSLIVADYGQLELRILAHLANCKSMLDAFKAGGDFHSRTAMNMY 910 (940)
Q Consensus 831 gTaTGRLSSs~PNLQNIP~~~~~~~~iR~~Fia~~G~~LvsaDYSQIELRILAhlS~D~~Li~af~~g~DiH~~tAs~~f 910 (940)
+|.|||+||++|||||+|++.+++..||+||+|+||++||.+||||||+|||||+|+|+.|+++|++|.|+|+.+|+.+|
T Consensus 145 gt~TGR~s~s~pnlQn~P~~~~~~~~iR~~fia~~G~~lv~~D~sqiE~Rv~A~ls~D~~l~~~~~~g~D~h~~~A~~~~ 224 (410)
T d1kfsa2 145 VTATGRLSSTDPNLQNIPVRNEEGRRIRQAFIAPEDYVIVSADYSQIELRIMAHLSRDKGLLTAFAEGKDIHRATAAEVF 224 (410)
T ss_dssp CCSSSCCEEESSCGGGSCSSSHHHHHHHTTBBCCTTEEEEEEEETTHHHHHHHHHTTCHHHHHHHHTTCCHHHHHHHHHT
T ss_pred cceeccccccCcccccCCCCCccchhhhheEecCCCCEEEEechhhCchhheeeeEecccHHHHHhcccchHhhhHHHHc
Confidence 89999999999999999999888889999999999999999999999999999999999999999999999999999999
Q ss_pred CCCccccccc
Q 002293 911 PHIRNAVETG 920 (940)
Q Consensus 911 g~~~eeVtk~ 920 (940)
|+|+++|+++
T Consensus 225 ~~~~~~~~~~ 234 (410)
T d1kfsa2 225 GLPLETVTSE 234 (410)
T ss_dssp TCCTTTCCHH
T ss_pred CCCchhcccc
Confidence 9999988775
|
| >d1qtma2 e.8.1.1 (A:423-831) DNA polymerase I (Klenow fragment) {Thermus aquaticus [TaxId: 271]} | Back information, alignment and structure |
|---|
| >d2hhva2 e.8.1.1 (A:469-876) DNA polymerase I (Klenow fragment) {Bacillus stearothermophilus, newly identified strain as yet unnamed [TaxId: 1422]} | Back information, alignment and structure |
|---|
| >d1x9ma2 e.8.1.1 (A:211-704) T7 phage DNA polymerase {Bacteriophage T7 [TaxId: 10760]} | Back information, alignment and structure |
|---|
| >d1kfsa1 c.55.3.5 (A:324-518) Exonuclease domain of prokaryotic DNA polymerase {Escherichia coli [TaxId: 562]} | Back information, alignment and structure |
|---|
| >d1yt3a3 c.55.3.5 (A:1-193) Ribonuclease D, catalytic domain {Escherichia coli [TaxId: 562]} | Back information, alignment and structure |
|---|
| >d2hbka2 c.55.3.5 (A:129-420) Exosome complex exonuclease RRP6 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} | Back information, alignment and structure |
|---|
| >d2hhva1 c.55.3.5 (A:298-468) Exonuclease domain of prokaryotic DNA polymerase {Bacillus stearothermophilus, newly identified strain as yet unnamed [TaxId: 1422]} | Back information, alignment and structure |
|---|
| >d1vk0a_ c.55.3.5 (A:) Hypothetical protein AT5G06450 {Thale-cress (Arabidopsis thaliana) [TaxId: 3702]} | Back information, alignment and structure |
|---|
| >d1wlja_ c.55.3.5 (A:) Interferon-stimulated gene 20 kDa protein, ISG20 {Human (Homo sapiens) [TaxId: 9606]} | Back information, alignment and structure |
|---|
| >d1x9ma1 c.55.3.5 (A:1-210) Exonuclease domain of T7 DNA polymerase {Bacteriophage T7 [TaxId: 10760]} | Back information, alignment and structure |
|---|
| >d2guia1 c.55.3.5 (A:7-180) N-terminal exonuclease domain of the epsilon subunit of DNA polymerase III {Escherichia coli [TaxId: 562]} | Back information, alignment and structure |
|---|
| >d3b6oa1 c.55.3.5 (A:9-234) Three prime repair exonuclease 1, TREX1 {Mouse (Mus musculus) [TaxId: 10090]} | Back information, alignment and structure |
|---|
| >d1y97a1 c.55.3.5 (A:1-228) Three prime repair exonuclease 2, TREX2 {Human (Homo sapiens) [TaxId: 9606]} | Back information, alignment and structure |
|---|
| >d2qxfa1 c.55.3.5 (A:8-474) Exonuclease I {Escherichia coli K12 (Escherichia coli K-12) [TaxId: 83333]} | Back information, alignment and structure |
|---|
| >d2f96a1 c.55.3.5 (A:19-220) Ribonuclease T {Pseudomonas aeruginosa [TaxId: 287]} | Back information, alignment and structure |
|---|
| >d1tgoa1 c.55.3.5 (A:1-347) Exonuclease domain of family B DNA polymerases {Archaeon Thermococcus gorgonarius [TaxId: 71997]} | Back information, alignment and structure |
|---|
| >d2d5ra1 c.55.3.9 (A:11-262) CCR4-NOT transcription complex subunit 7, CAF1 {Human (Homo sapiens) [TaxId: 9606]} | Back information, alignment and structure |
|---|
| >d2igia1 c.55.3.5 (A:1-180) Oligoribonuclease {Escherichia coli [TaxId: 562]} | Back information, alignment and structure |
|---|
| >d1w0ha_ c.55.3.5 (A:) Exonuclease ERI1 {Human (Homo sapiens) [TaxId: 9606]} | Back information, alignment and structure |
|---|
| >d1q8ia1 c.55.3.5 (A:2-389) Exonuclease domain of family B DNA polymerases {Escherichia coli [TaxId: 562]} | Back information, alignment and structure |
|---|
| >d1s5ja1 c.55.3.5 (A:40-449) Exonuclease domain of family B DNA polymerases {Sulfolobus solfataricus [TaxId: 2287]} | Back information, alignment and structure |
|---|