Citrus Sinensis ID: 001267
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 | 1112 | 2.2.26 [Sep-21-2011] | |||||||
| Q9CDS1 | 877 | DNA polymerase I OS=Lacto | yes | no | 0.235 | 0.298 | 0.327 | 3e-38 | |
| P19821 | 832 | DNA polymerase I, thermos | N/A | no | 0.250 | 0.335 | 0.342 | 7e-38 | |
| O32801 | 877 | DNA polymerase I OS=Lacto | yes | no | 0.235 | 0.298 | 0.327 | 2e-37 | |
| P30313 | 831 | DNA polymerase I, thermos | yes | no | 0.250 | 0.335 | 0.342 | 6e-37 | |
| P52026 | 876 | DNA polymerase I OS=Geoba | N/A | no | 0.205 | 0.260 | 0.371 | 1e-36 | |
| P52028 | 834 | DNA polymerase I, thermos | yes | no | 0.239 | 0.318 | 0.341 | 1e-36 | |
| P80194 | 834 | DNA polymerase I, thermos | N/A | no | 0.239 | 0.318 | 0.341 | 2e-36 | |
| Q9S1G2 | 1016 | DNA polymerase I OS=Rhizo | yes | no | 0.201 | 0.220 | 0.389 | 2e-36 | |
| O52225 | 833 | DNA polymerase I, thermos | N/A | no | 0.239 | 0.319 | 0.360 | 4e-36 | |
| P59199 | 877 | DNA polymerase I OS=Strep | yes | no | 0.234 | 0.297 | 0.335 | 8e-36 |
| >sp|Q9CDS1|DPO1_LACLA DNA polymerase I OS=Lactococcus lactis subsp. lactis (strain IL1403) GN=polA PE=3 SV=1 | Back alignment and function desciption |
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Score = 161 bits (407), Expect = 3e-38, Method: Compositional matrix adjust.
Identities = 96/293 (32%), Positives = 157/293 (53%), Gaps = 31/293 (10%)
Query: 788 ACDAISALCEVCSIDSLISNF--ILPLQGSNVSG------KNGRVHCS-LNINTETGRLS 838
A D + L + + + I + I +Q + V G +G++H + T+TGRLS
Sbjct: 559 AVDVLEDLAALSPVVAKILEYRQINKVQSTYVKGLIPQIADDGKIHTRYVQDLTQTGRLS 618
Query: 839 ARRPNLQNQPALEKDRYKIRQAFIAVPGNSLIVADYGQLELRILAHLANCKSMLDAFKAG 898
+ PNLQN P ++ KIR+AF+ + L+ +DY Q+ELR+LAH++ + ++DAFK G
Sbjct: 619 SVDPNLQNIPVRLEEGRKIRKAFVPSKDSLLLSSDYSQIELRVLAHISGDEHLIDAFKHG 678
Query: 899 GDFHSRTAMNMYPHIRNAVETGQVLLEWHGEDKPPVPLLKDAFASERRKAKMLNFSIAYG 958
D H+ TAM ++ +E + D A++RR AK +NF + YG
Sbjct: 679 ADIHTSTAMRVF-----GIEKAE-----------------DVTANDRRNAKAVNFGVVYG 716
Query: 959 KTPVGLARDWKVSVEEAKKTVDLWYNERQEVLTWQEARKKESRIDNHVHTLLGRARRFPA 1018
+ GLAR+ ++ ++AK ++ ++ + T+ E +E+R V T+ R R+ P
Sbjct: 717 ISDFGLARNLGITRKDAKNYIETYFERYPGIKTYMENIVREARDKGFVETMSHRRRKIPD 776
Query: 1019 IKSLTRSQRNHIERAAINTPVQGSAADVAMCAMLEISKNARLKELGWKLLLQV 1071
I + + R ER AIN+P+QGSAAD+ AM+ + K ++ KLLLQV
Sbjct: 777 INARNFNVRGFAERTAINSPIQGSAADILKIAMINLDKALSARDFKSKLLLQV 829
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In addition to polymerase activity, this DNA polymerase exhibits 3' to 5' and 5' to 3' exonuclease activity. Lactococcus lactis subsp. lactis (strain IL1403) (taxid: 272623) EC: 2EC: .EC: 7EC: .EC: 7EC: .EC: 7 |
| >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|O32801|DPO1_LACLM DNA polymerase I OS=Lactococcus lactis subsp. cremoris (strain MG1363) GN=polA PE=3 SV=2 | Back alignment and function description |
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| >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|P52026|DPO1_GEOSE DNA polymerase I OS=Geobacillus stearothermophilus GN=polA PE=1 SV=2 | 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|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|Q9S1G2|DPO1_RHILE DNA polymerase I OS=Rhizobium leguminosarum GN=polA PE=3 SV=1 | Back alignment and function description |
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| >sp|O52225|DPO1_THEFI DNA polymerase I, thermostable OS=Thermus filiformis GN=polA PE=1 SV=1 | Back alignment and function description |
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| >sp|P59199|DPO1_STRPN DNA polymerase I OS=Streptococcus pneumoniae serotype 4 (strain ATCC BAA-334 / TIGR4) GN=polA PE=3 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 | 1112 | ||||||
| 224126389 | 834 | predicted protein [Populus trichocarpa] | 0.668 | 0.890 | 0.722 | 0.0 | |
| 224117482 | 834 | predicted protein [Populus trichocarpa] | 0.670 | 0.894 | 0.722 | 0.0 | |
| 255563979 | 963 | DNA polymerase I, putative [Ricinus comm | 0.667 | 0.770 | 0.714 | 0.0 | |
| 356499384 | 1077 | PREDICTED: uncharacterized protein LOC10 | 0.655 | 0.676 | 0.729 | 0.0 | |
| 225461738 | 1034 | PREDICTED: uncharacterized protein LOC10 | 0.652 | 0.702 | 0.730 | 0.0 | |
| 302142870 | 1118 | unnamed protein product [Vitis vinifera] | 0.652 | 0.649 | 0.730 | 0.0 | |
| 449513483 | 1126 | PREDICTED: LOW QUALITY PROTEIN: uncharac | 0.725 | 0.716 | 0.670 | 0.0 | |
| 356553303 | 847 | PREDICTED: uncharacterized protein LOC10 | 0.655 | 0.860 | 0.724 | 0.0 | |
| 449470431 | 1136 | PREDICTED: uncharacterized protein LOC10 | 0.725 | 0.710 | 0.665 | 0.0 | |
| 357494395 | 1084 | DNA polymerase [Medicago truncatula] gi| | 0.651 | 0.668 | 0.700 | 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 = 1156 bits (2991), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 564/781 (72%), Positives = 638/781 (81%), Gaps = 38/781 (4%)
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---GEDKPPVPLLKDAFASERRKAKM 950
AFKAGGDFHSRTAMNMYPHIR A+E QVLLEW+ GE+KPPVPLLKDAFASERRKAKM
Sbjct: 602 AFKAGGDFHSRTAMNMYPHIREAIEKKQVLLEWYPQPGENKPPVPLLKDAFASERRKAKM 661
Query: 951 LNFSIAYGKTPVGLARDWKVSVEEAKKTVDLWYNERQEVLTWQEARKKESRIDNHVHTLL 1010
LNFSIAYGKTPVGL+RDWKVSV EAK+TV+LWY ER+EVL WQ+ARKKE+R + V+TLL
Sbjct: 662 LNFSIAYGKTPVGLSRDWKVSVAEAKETVNLWYKERKEVLKWQQARKKEARENGRVYTLL 721
Query: 1011 GRARRFPAIKSLTRSQRNHIERAAINTPVQGSAADVAMCAMLEISKNARLKELGWKLLLQ 1070
GRAR FP++ + S R H+ERAAINTPVQGSAADVAMCAMLEISKN RL+ELGWKLLLQ
Sbjct: 722 GRARVFPSLTDASSSLRGHVERAAINTPVQGSAADVAMCAMLEISKNTRLQELGWKLLLQ 781
Query: 1071 V 1071
V
Sbjct: 782 V 782
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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|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|356499384|ref|XP_003518521.1| PREDICTED: uncharacterized protein LOC100797016 [Glycine max] | 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|449513483|ref|XP_004164337.1| PREDICTED: LOW QUALITY PROTEIN: uncharacterized 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|449470431|ref|XP_004152920.1| PREDICTED: uncharacterized protein LOC101212518 [Cucumis sativus] | Back alignment and taxonomy information |
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| >gi|357494395|ref|XP_003617486.1| DNA polymerase [Medicago truncatula] gi|355518821|gb|AET00445.1| DNA polymerase [Medicago truncatula] | 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 | 1112 | ||||||
| TAIR|locus:2036361 | 1050 | POLGAMMA2 "polymerase gamma 2" | 0.688 | 0.729 | 0.641 | 1.1e-268 | |
| DICTYBASE|DDB_G0267464 | 1369 | polA "mitochondrial DNA polyme | 0.415 | 0.337 | 0.506 | 2.3e-162 | |
| TIGR_CMR|CPS_4978 | 936 | CPS_4978 "DNA polymerase I" [C | 0.094 | 0.112 | 0.464 | 9.7e-34 | |
| TIGR_CMR|SO_4669 | 922 | SO_4669 "DNA polymerase I" [Sh | 0.097 | 0.117 | 0.456 | 1.3e-33 | |
| UNIPROTKB|Q0C2B4 | 929 | polA "DNA polymerase I" [Hypho | 0.098 | 0.117 | 0.477 | 5.6e-33 | |
| UNIPROTKB|P00582 | 928 | polA [Escherichia coli K-12 (t | 0.106 | 0.127 | 0.381 | 7.9e-33 | |
| TIGR_CMR|SPO_3844 | 933 | SPO_3844 "DNA polymerase I" [R | 0.098 | 0.116 | 0.432 | 2.1e-31 | |
| TIGR_CMR|GSU_0541 | 891 | GSU_0541 "DNA polymerase I" [G | 0.080 | 0.101 | 0.494 | 9.6e-31 | |
| UNIPROTKB|Q9KVN3 | 934 | VC_0108 "DNA polymerase I" [Vi | 0.080 | 0.096 | 0.472 | 1e-30 | |
| TIGR_CMR|VC_0108 | 934 | VC_0108 "DNA polymerase I" [Vi | 0.080 | 0.096 | 0.472 | 1e-30 |
| TAIR|locus:2036361 POLGAMMA2 "polymerase gamma 2" [Arabidopsis thaliana (taxid:3702)] | Back alignment and assigned GO terms |
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Score = 2584 (914.7 bits), Expect = 1.1e-268, P = 1.1e-268
Identities = 512/798 (64%), Positives = 600/798 (75%)
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 EDKPPVPLLKDAFASERRKAKMLNFSIAYGKTPVGLARDWKVSVEEAKKTVDLWYNERQE 988
EDKPPVPLLKDAF SERRKAKMLNFSIAYGKT VGL+RDWKVS +EA++TVDLWYN+RQE
Sbjct: 858 EDKPPVPLLKDAFGSERRKAKMLNFSIAYGKTAVGLSRDWKVSTKEAQETVDLWYNDRQE 917
Query: 989 VLTWQEARKKESRIDNHVHTLLGRARRFPAIKSLTRSQRNHIERAAINTPVQGSAADVAM 1048
V WQE RKKE+ D +V TLLGR+RRFPA KS R+QRNHI+RAAINTPVQGSAADVAM
Sbjct: 918 VRKWQEMRKKEAIEDGYVLTLLGRSRRFPASKS--RAQRNHIQRAAINTPVQGSAADVAM 975
Query: 1049 CAMLEISKNARLKELGWK 1066
CAMLEIS N +LK+LGW+
Sbjct: 976 CAMLEISINQQLKKLGWR 993
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| DICTYBASE|DDB_G0267464 polA "mitochondrial DNA polymerase A" [Dictyostelium discoideum (taxid:44689)] | Back alignment and assigned GO terms |
|---|
| 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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| UNIPROTKB|Q0C2B4 polA "DNA polymerase I" [Hyphomonas neptunium ATCC 15444 (taxid:228405)] | 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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| 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|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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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 | 0.691 |
| 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
Fail to connect to STRING server
Conserved Domains and Related Protein Families
Conserved Domains Detected by RPS-BLAST
Original result of RPS-BLAST against CDD database part I
| ID | Alignment Graph | Length |
Definition |
E-value |
| Query | 1112 | |||
| cd08640 | 371 | cd08640, DNA_pol_A_plastid_like, DNA polymerase A | 1e-176 | |
| cd06444 | 347 | cd06444, DNA_pol_A, Family A polymerase primarily | 2e-77 | |
| cd08637 | 377 | cd08637, DNA_pol_A_pol_I_C, Polymerase I functions | 2e-68 | |
| COG0749 | 593 | COG0749, PolA, DNA polymerase I - 3'-5' exonucleas | 4e-61 | |
| PRK05755 | 880 | PRK05755, PRK05755, DNA polymerase I; Provisional | 2e-59 | |
| TIGR00593 | 887 | TIGR00593, pola, DNA polymerase I | 2e-53 | |
| smart00482 | 207 | smart00482, POLAc, DNA polymerase A domain | 9e-50 | |
| cd08638 | 373 | cd08638, DNA_pol_A_theta, DNA polymerase theta is | 2e-49 | |
| pfam00476 | 383 | pfam00476, DNA_pol_A, DNA polymerase family A | 1e-47 | |
| PRK14975 | 553 | PRK14975, PRK14975, bifunctional 3'-5' exonuclease | 2e-44 | |
| cd08639 | 324 | cd08639, DNA_pol_A_Aquificae_like, Phylum Aquifica | 2e-43 | |
| cd06139 | 193 | cd06139, DNA_polA_I_Ecoli_like_exo, DEDDy 3'-5' ex | 2e-40 | |
| PRK05755 | 880 | PRK05755, PRK05755, DNA polymerase I; Provisional | 2e-21 | |
| COG0749 | 593 | COG0749, PolA, DNA polymerase I - 3'-5' exonucleas | 3e-15 | |
| cd08643 | 429 | cd08643, DNA_pol_A_pol_I_B, Polymerase I functions | 1e-09 | |
| TIGR00593 | 887 | TIGR00593, pola, DNA polymerase I | 1e-08 | |
| pfam01612 | 172 | pfam01612, DNA_pol_A_exo1, 3'-5' exonuclease | 3e-08 | |
| smart00474 | 172 | smart00474, 35EXOc, 3'-5' exonuclease | 3e-08 | |
| cd08642 | 378 | cd08642, DNA_pol_A_pol_I_A, Polymerase I functions | 4e-08 | |
| cd06140 | 178 | cd06140, DNA_polA_I_Bacillus_like_exo, inactive DE | 6e-07 |
| >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 = 519 bits (1339), Expect = e-176
Identities = 207/344 (60%), Positives = 248/344 (72%), Gaps = 21/344 (6%)
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 NMYPHIRNAVETGQVLLEWHGEDKPPVPLLKDAFASERRKAKMLNFSIAYGKTPVGLARD 967
MYPH+ AV G+VLLEW E KPP PLLKD F SERRKAK+LNFSIAYGKT GLA+D
Sbjct: 160 GMYPHVAEAVANGEVLLEWKSEGKPPAPLLKDKFKSERRKAKVLNFSIAYGKTAHGLAKD 219
Query: 968 WKVSVEEAKKTVDLWYNERQEVLTWQEARKKESRIDNHVHTLLGRARRFPAIKSLTRSQR 1027
WKV ++EA++TVD WY++R EV WQ+ KKE+R + TLLGR R P IKS R +R
Sbjct: 220 WKVKLKEAERTVDAWYSDRPEVEQWQKKTKKEARERGYTRTLLGRYRYLPDIKSRNRKKR 279
Query: 1028 NHIERAAINTPVQGSAADVAMCAMLEISKNARLKELGWKLLLQV 1071
H ERAAINTP+QGSAAD+AM AML I +N RLK LGWKLLLQ+
Sbjct: 280 GHAERAAINTPIQGSAADIAMKAMLRIYRNLRLKRLGWKLLLQI 323
|
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 |
|---|
| >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 |
|---|
| >gnl|CDD|223820 COG0749, PolA, DNA polymerase I - 3'-5' exonuclease and polymerase domains [DNA replication, recombination, and repair] | Back alignment and domain information |
|---|
| >gnl|CDD|235591 PRK05755, PRK05755, DNA polymerase I; Provisional | Back alignment and domain information |
|---|
| >gnl|CDD|233038 TIGR00593, pola, DNA polymerase I | Back alignment and domain information |
|---|
| >gnl|CDD|214687 smart00482, POLAc, DNA polymerase A domain | Back alignment and domain information |
|---|
| >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 |
|---|
| >gnl|CDD|201250 pfam00476, DNA_pol_A, DNA polymerase family A | Back alignment and domain information |
|---|
| >gnl|CDD|237876 PRK14975, PRK14975, bifunctional 3'-5' exonuclease/DNA polymerase; Provisional | Back alignment and domain information |
|---|
| >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 |
|---|
| >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 |
|---|
| >gnl|CDD|235591 PRK05755, PRK05755, DNA polymerase I; Provisional | Back alignment and domain information |
|---|
| >gnl|CDD|223820 COG0749, PolA, DNA polymerase I - 3'-5' exonuclease and polymerase domains [DNA replication, recombination, and repair] | Back alignment and domain information |
|---|
| >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 |
|---|
| >gnl|CDD|233038 TIGR00593, pola, DNA polymerase I | Back alignment and domain information |
|---|
| >gnl|CDD|216604 pfam01612, DNA_pol_A_exo1, 3'-5' exonuclease | Back alignment and domain information |
|---|
| >gnl|CDD|214681 smart00474, 35EXOc, 3'-5' exonuclease | Back alignment and domain information |
|---|
| >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 |
|---|
| >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 |
|---|
Conserved Domains Detected by HHsearch
Original result of HHsearch against CDD database
| ID | Alignment Graph | Length |
Definition |
Probability |
| Query | 1112 | |||
| 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 | |
| cd08640 | 371 | DNA_pol_A_plastid_like DNA polymerase A type from | 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 | |
| cd08638 | 373 | DNA_pol_A_theta DNA polymerase theta is a low-fide | 100.0 | |
| cd08642 | 378 | DNA_pol_A_pol_I_A Polymerase I functions primarily | 100.0 | |
| cd06444 | 347 | DNA_pol_A Family A polymerase primarily fills DNA | 100.0 | |
| cd08639 | 324 | DNA_pol_A_Aquificae_like Phylum Aquificae Pol A is | 100.0 | |
| cd08641 | 425 | DNA_pol_gammaA Pol gammaA is a family A polymerase | 100.0 | |
| smart00482 | 206 | POLAc DNA polymerase A domain. | 100.0 | |
| PRK10829 | 373 | ribonuclease D; Provisional | 99.81 | |
| PF01612 | 176 | DNA_pol_A_exo1: 3'-5' exonuclease; InterPro: IPR00 | 99.79 | |
| COG0349 | 361 | Rnd Ribonuclease D [Translation, ribosomal structu | 99.79 | |
| cd06139 | 193 | DNA_polA_I_Ecoli_like_exo DEDDy 3'-5' exonuclease | 99.78 | |
| TIGR01388 | 367 | rnd ribonuclease D. This model describes ribonucle | 99.78 | |
| cd06140 | 178 | DNA_polA_I_Bacillus_like_exo inactive DEDDy 3'-5' | 99.77 | |
| 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 | 99.63 | |
| cd06146 | 193 | mut-7_like_exo DEDDy 3'-5' exonuclease domain of C | 99.62 | |
| cd06148 | 197 | Egl_like_exo DEDDy 3'-5' exonuclease domain of Dro | 99.62 | |
| smart00474 | 172 | 35EXOc 3'-5' exonuclease. 3\' -5' exonuclease proo | 99.53 | |
| cd06142 | 178 | RNaseD_exo DEDDy 3'-5' exonuclease domain of Ribon | 99.49 | |
| cd06147 | 192 | Rrp6p_like_exo DEDDy 3'-5' exonuclease domain of y | 99.41 | |
| cd00007 | 155 | 35EXOc 3'-5' exonuclease. The 35EXOc domain is res | 99.35 | |
| cd09018 | 150 | DEDDy_polA_RNaseD_like_exo DEDDy 3'-5' exonuclease | 99.3 | |
| KOG3657 | 1075 | consensus Mitochondrial DNA polymerase gamma, cata | 99.14 | |
| KOG2206 | 687 | consensus Exosome 3'-5' exoribonuclease complex, s | 98.85 | |
| cd06128 | 151 | DNA_polA_exo DEDDy 3'-5' exonuclease domain of fam | 98.84 | |
| COG2176 | 1444 | PolC DNA polymerase III, alpha subunit (gram-posit | 98.78 | |
| PRK05711 | 240 | DNA polymerase III subunit epsilon; Provisional | 98.64 | |
| PRK07942 | 232 | DNA polymerase III subunit epsilon; Provisional | 98.59 | |
| TIGR01406 | 225 | dnaQ_proteo DNA polymerase III, epsilon subunit, P | 98.54 | |
| PRK09146 | 239 | DNA polymerase III subunit epsilon; Validated | 98.49 | |
| PRK06063 | 313 | DNA polymerase III subunit epsilon; Provisional | 98.49 | |
| PRK07740 | 244 | hypothetical protein; Provisional | 98.48 | |
| PRK06310 | 250 | DNA polymerase III subunit epsilon; Validated | 98.46 | |
| PRK06309 | 232 | DNA polymerase III subunit epsilon; Validated | 98.44 | |
| PRK05601 | 377 | DNA polymerase III subunit epsilon; Validated | 98.39 | |
| PRK07246 | 820 | bifunctional ATP-dependent DNA helicase/DNA polyme | 98.39 | |
| PRK06807 | 313 | DNA polymerase III subunit epsilon; Validated | 98.36 | |
| cd06131 | 167 | DNA_pol_III_epsilon_Ecoli_like DEDDh 3'-5' exonucl | 98.32 | |
| TIGR01298 | 200 | RNaseT ribonuclease T. in gamma-subdivision Proteo | 98.29 | |
| TIGR00573 | 217 | dnaq exonuclease, DNA polymerase III, epsilon subu | 98.29 | |
| TIGR01405 | 1213 | polC_Gram_pos DNA polymerase III, alpha chain, Gra | 98.23 | |
| PRK05168 | 211 | ribonuclease T; Provisional | 98.22 | |
| TIGR01407 | 850 | dinG_rel DnaQ family exonuclease/DinG family helic | 98.22 | |
| cd06134 | 189 | RNaseT DEDDh 3'-5' exonuclease domain of RNase T. | 98.22 | |
| cd06137 | 161 | DEDDh_RNase DEDDh 3'-5' exonuclease domain of the | 98.21 | |
| PRK07883 | 557 | hypothetical protein; Validated | 98.15 | |
| PRK08517 | 257 | DNA polymerase III subunit epsilon; Provisional | 98.15 | |
| PRK09182 | 294 | DNA polymerase III subunit epsilon; Validated | 98.14 | |
| cd06136 | 177 | TREX1_2 DEDDh 3'-5' exonuclease domain of three pr | 98.13 | |
| PRK09145 | 202 | DNA polymerase III subunit epsilon; Validated | 98.12 | |
| PRK08074 | 928 | bifunctional ATP-dependent DNA helicase/DNA polyme | 98.09 | |
| PRK07247 | 195 | DNA polymerase III subunit epsilon; Validated | 98.06 | |
| PRK06195 | 309 | DNA polymerase III subunit epsilon; Validated | 98.05 | |
| smart00479 | 169 | EXOIII exonuclease domain in DNA-polymerase alpha | 98.03 | |
| cd06149 | 157 | ISG20 DEDDh 3'-5' exonuclease domain of Interferon | 98.03 | |
| PRK07983 | 219 | exodeoxyribonuclease X; Provisional | 97.97 | |
| cd06144 | 152 | REX4_like DEDDh 3'-5' exonuclease domain of RNA ex | 97.79 | |
| PRK00448 | 1437 | polC DNA polymerase III PolC; Validated | 97.77 | |
| cd06130 | 156 | DNA_pol_III_epsilon_like an uncharacterized bacter | 97.74 | |
| PRK07748 | 207 | sporulation inhibitor KapD; Provisional | 97.59 | |
| cd06145 | 150 | REX1_like DEDDh 3'-5' exonuclease domain of RNA ex | 97.58 | |
| cd06125 | 96 | DnaQ_like_exo DnaQ-like (or DEDD) 3'-5' exonucleas | 97.51 | |
| PRK05359 | 181 | oligoribonuclease; Provisional | 97.49 | |
| cd06127 | 159 | DEDDh DEDDh 3'-5' exonuclease domain family. DEDDh | 97.45 | |
| cd06138 | 183 | ExoI_N N-terminal DEDDh 3'-5' exonuclease domain o | 97.43 | |
| cd06135 | 173 | Orn DEDDh 3'-5' exonuclease domain of oligoribonuc | 97.4 | |
| COG0847 | 243 | DnaQ DNA polymerase III, epsilon subunit and relat | 97.36 | |
| cd06133 | 176 | ERI-1_3'hExo_like DEDDh 3'-5' exonuclease domain o | 97.33 | |
| PRK11779 | 476 | sbcB exonuclease I; Provisional | 97.32 | |
| cd05160 | 199 | DEDDy_DNA_polB_exo DEDDy 3'-5' exonuclease domain | 97.31 | |
| PRK06722 | 281 | exonuclease; Provisional | 97.27 | |
| PF13482 | 164 | RNase_H_2: RNase_H superfamily; PDB: 1TKD_A 1TK5_A | 96.73 | |
| KOG2207 | 617 | consensus Predicted 3'-5' exonuclease [Replication | 96.6 | |
| PF10108 | 209 | DNA_pol_B_exo2: Predicted 3'-5' exonuclease relate | 96.42 | |
| cd05785 | 207 | DNA_polB_like2_exo Uncharacterized bacterial subgr | 96.34 | |
| PTZ00315 | 582 | 2'-phosphotransferase; Provisional | 96.25 | |
| cd05780 | 195 | DNA_polB_Kod1_like_exo DEDDy 3'-5' exonuclease dom | 96.15 | |
| cd05781 | 188 | DNA_polB_B3_exo DEDDy 3'-5' exonuclease domain of | 95.45 | |
| cd05782 | 208 | DNA_polB_like1_exo Uncharacterized bacterial subgr | 94.8 | |
| COG3359 | 278 | Predicted exonuclease [DNA replication, recombinat | 92.85 | |
| cd05784 | 193 | DNA_polB_II_exo DEDDy 3'-5' exonuclease domain of | 92.24 | |
| cd05779 | 204 | DNA_polB_epsilon_exo DEDDy 3'-5' exonuclease domai | 90.65 | |
| KOG0950 | 1008 | consensus DNA polymerase theta/eta, DEAD-box super | 90.31 | |
| PF00940 | 405 | RNA_pol: DNA-dependent RNA polymerase; InterPro: I | 90.22 | |
| cd05777 | 230 | DNA_polB_delta_exo DEDDy 3'-5' exonuclease domain | 90.08 | |
| cd05783 | 204 | DNA_polB_B1_exo DEDDy 3'-5' exonuclease domain of | 89.93 | |
| KOG2249 | 280 | consensus 3'-5' exonuclease [Replication, recombin | 87.17 | |
| KOG3657 | 1075 | consensus Mitochondrial DNA polymerase gamma, cata | 86.85 | |
| PHA02528 | 881 | 43 DNA polymerase; Provisional | 84.56 |
| >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=2.5e-124 Score=1096.93 Aligned_cols=580 Identities=32% Similarity=0.439 Sum_probs=514.5
Q ss_pred CeEEecCHHHHHHHHHHHhccCCCcEEEEEeccCCCCcccCccccccceEEEEeeeCCCcccCCCceEEEEeCCCC-Chh
Q 001267 344 NVMVVDNVSAAKKVVWMLTNKYKHLVHACDTEVAKIDVKQETPVDHGEVICFSIYSGPEADFGNGKSCIWVDLLDG-GGR 422 (1112)
Q Consensus 344 ~y~lV~t~e~L~~lv~~L~~a~~~~~VAfDTETtGLd~~~d~IVG~g~Ii~fsi~~~~~IqI~~~~~~~~ID~~~~-~~~ 422 (1112)
.|..+++.+.+..++..+..+ +.+++||||++++++...++| +++...+ ..+|++..+. ..-
T Consensus 2 ~~~~~~~~~~~~~~~~~~~~~---~~~a~~~et~~l~~~~~~lvg------~s~~~~~--------~~~yi~~~~~~~~~ 64 (593)
T COG0749 2 PYGTITDLAVLNAWLTKLNAA---ANIAFDTETDGLDPHGADLVG------LSVASEE--------EAAYIPLLHGPEQL 64 (593)
T ss_pred cchhhhHHHHHHHHHHHHhhc---ccceeeccccccCcccCCeeE------EEeeccc--------cceeEeeccchhhh
Confidence 355677888889999888886 349999999999998888776 4443322 3466666541 112
Q ss_pred hhHhhhhhhhcCCCceEEEeccHHHHHHHHHcCCCCCCccchHHHHHHhcCCCCCCCCCCCHHHHHhccccccccchhhc
Q 001267 423 DLLNEFAPFFEDPSIKKVWHNYSFDNHVLENYGLKVSGFHADTMHMARLWDSSRRTEGGYSLEALTGDRKVMSEDKKAYQ 502 (1112)
Q Consensus 423 ~vL~~Lk~~Led~~v~KV~HNaKfDl~vL~r~GI~l~~~vfDTmIAAyLLdp~~~~~~s~sLd~La~~~~~~~~~~Lg~~ 502 (1112)
.+...|++||+++...+++||+|+|+++|.++|+. .+..+|||||+|+++|+.. .|++++|+.+ +++++
T Consensus 65 ~~~~~l~~~l~~~~~~kv~~~~K~d~~~l~~~Gi~-~~~~~DtmlasYll~~~~~---~~~~~~l~~r-------~l~~~ 133 (593)
T COG0749 65 NVLAALKPLLEDEGIKKVGQNLKYDYKVLANLGIE-PGVAFDTMLASYLLNPGAG---AHNLDDLAKR-------YLGLE 133 (593)
T ss_pred hhHHHHHHHhhCcccchhccccchhHHHHHHcCCc-ccchHHHHHHHhccCcCcC---cCCHHHHHHH-------hcCCc
Confidence 37888999999999999999999999999999966 5789999999999999875 6999999998 55553
Q ss_pred ccccCCCCcccccccchhhhhhcccccccCCCCCccccccchhHhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccc
Q 001267 503 KDMSKGNTDEGFMGKISMKDIFGRRKLKKDGSAGKISTIAPVEELQREERELWISYSAFDSINTLKLYKSLKKKLLEMSW 582 (1112)
Q Consensus 503 ~~l~~~~~~eel~GK~s~k~lfgK~k~kkq~s~~~~w~~~pL~~~~~~~~e~~l~YAA~DA~~tlrL~e~L~~kLee~~~ 582 (1112)
.+. +++++||+. ++.++ ...+ .+....|++.|++++++|+..|.++|.+.
T Consensus 134 -----~~~---------~~~i~~kg~--~~~~~----~~~~--------~~~~~~y~a~~a~~~~~L~~~l~~~l~~~-- 183 (593)
T COG0749 134 -----TIT---------FEDIAGKGK--KQLTF----ADVK--------LEKATEYAAEDADATLRLESILEPELLKT-- 183 (593)
T ss_pred -----cch---------hHHhhcccc--ccCcc----ccch--------HHHHHHHHHHHHHHHHHHHHHHHHHhhhh--
Confidence 222 344555543 22221 1123 36678999999999999999999998874
Q ss_pred ccCCCCCCCchHHHHHHHHhcchHHHHHHhhhcCcccCHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCccccCCCHH
Q 001267 583 KLDGKPVPGKSMFDFYQEYWQPFGEILVKMETEGMLVDREYLSEIEKVARAEQEAAVNRFRKWASKHCPDAKYMNVGSDT 662 (1112)
Q Consensus 583 ~~~~~~~~~~~l~~Ly~~IEmPL~~VLa~ME~~GI~VD~e~L~~L~~~l~~e~e~leeei~~~~~~~~~~g~~fNi~S~k 662 (1112)
..|..+|++||||+..||+.||.+||.||.++|.++..++..++..++++|++. +|++||++|||
T Consensus 184 ---------~~L~~l~~~iE~Pl~~VLa~ME~~Gi~vD~~~L~~l~~el~~~l~~le~eiy~l------aG~~FNi~SPK 248 (593)
T COG0749 184 ---------PVLLELYEEIEMPLVRVLARMERNGIKVDVQYLKELSKELGCELAELEEEIYEL------AGEEFNINSPK 248 (593)
T ss_pred ---------hhHHHHHHHHhccHHHHHHHhHhcCceecHHHHHHHHHHHHHHHHHHHHHHHHH------hcCcCCCCCHH
Confidence 467999999999999999999999999999999999999999999999999665 68899999999
Q ss_pred HHHHHhhCCCCCCCCCCCCCCcccccccCCCccccccCCCCCcccccchhcccccCCCCccccccCCCcCcHHHHHHHHh
Q 001267 663 QLRQLLFGGKPNSKDDSESLPIERIFKVPNTEGVIAEGKKTPSKFRNITLRSIGVDLPTEMYTATGWPSVGGDALKTLAR 742 (1112)
Q Consensus 663 QL~~lLFe~~~~~k~~~l~Lp~er~~k~~~~~~~~~~~kk~~~~~~~~~l~~~G~~lp~~~~TktG~~Std~~vLe~La~ 742 (1112)
||+.+||+ +++||. ..++||||+|||+++||++|+.
T Consensus 249 QL~~ILfe--------Kl~Lp~------------------------------------~~kKtktG~yST~~~vLe~L~~ 284 (593)
T COG0749 249 QLGEILFE--------KLGLPP------------------------------------GLKKTKTGNYSTDAEVLEKLAD 284 (593)
T ss_pred HHHHHHHH--------hcCCCc------------------------------------cccccCCCCCccHHHHHHHHhh
Confidence 99999999 799972 1246899999999999999998
Q ss_pred ccCccccccCCCCCCCCCCCcccccccccccccchhhhhHHHHHHHhHHHHHHHHHHhHhhhhhhhhcccccCCccCCCC
Q 001267 743 NISAEYDCVDGAHDLDDSGCTEETEYKGAVASNNKIFATEQEAREACDAISALCEVCSIDSLISNFILPLQGSNVSGKNG 822 (1112)
Q Consensus 743 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~Lle~r~l~Kl~styv~~l~~~~v~~~dG 822 (1112)
.||+ ++.||+||+|+||.|||+++|++ ++++.+|
T Consensus 285 ~h~i---------------------------------------------~~~iL~~Rql~KLksTY~d~L~~-~i~~~t~ 318 (593)
T COG0749 285 DHPL---------------------------------------------PKLILEYRQLAKLKSTYTDGLPK-LINPDTG 318 (593)
T ss_pred cCcc---------------------------------------------HHHHHHHHHHHHHHHHhhhccHH-hhCCCCC
Confidence 7775 35699999999999999999997 6777779
Q ss_pred ceeecccc-cCcccccccCCCCcccCCCCccchhhhcceEEcCCCCeEEEecccchhHHHHHHhcCchHHHHHHHcCCCc
Q 001267 823 RVHCSLNI-NTETGRLSARRPNLQNQPALEKDRYKIRQAFIAVPGNSLIVADYGQLELRILAHLANCKSMLDAFKAGGDF 901 (1112)
Q Consensus 823 RIH~s~n~-~T~TGRlSss~PNLQNIP~~~~~g~~iR~~Fia~~G~~lvsaDySQIELRIlAhlS~D~~Li~af~~G~Di 901 (1112)
||||+|+| +|+||||||++|||||||+|++.|+.||++|+|++||.++++||||||||||||+|+|+.|++||.+|.||
T Consensus 319 RIHTsf~Q~~t~TGRLSSsdPNLQNIPiRse~Gr~IR~aFva~~g~~~i~aDYSQIELRilAHls~D~~Ll~AF~~g~Di 398 (593)
T COG0749 319 RIHTSFNQTGTATGRLSSSDPNLQNIPIRSEEGRKIRKAFVAEKGYTLISADYSQIELRILAHLSQDEGLLRAFTEGEDI 398 (593)
T ss_pred ccCcchHHHHHHhhcccCCCCCcccCCcCCHhHHhhhhceeCCCCCeEEEechHHHHHHHHHHhcCCHHHHHHHhcCccH
Confidence 99999998 99999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhHHHhhhccccccccccchhhhcccCCCCCCCCcccccChHHHHhhHHHhhhhhhCCCcccchhhhCCCHHHHHHHHHH
Q 001267 902 HSRTAMNMYPHIRNAVETGQVLLEWHGEDKPPVPLLKDAFASERRKAKMLNFSIAYGKTPVGLARDWKVSVEEAKKTVDL 981 (1112)
Q Consensus 902 H~~tA~~ifg~~~e~v~~~~~~~~w~~~~~p~v~~~~~vt~~~R~~AK~vnfGiiYG~g~~~La~~lgis~~EAk~~id~ 981 (1112)
|+.||+.+||++.+ +|++++|+.||++|||++||||++|||+++|||..||+.+|++
T Consensus 399 H~~TA~~vFgv~~~-----------------------~Vt~e~Rr~AKaINFGiiYG~safgLa~~L~I~~~eA~~~I~~ 455 (593)
T COG0749 399 HTATAAEVFGVPIE-----------------------EVTSEQRRKAKAINFGLIYGMSAFGLAQQLGIPRKEAKEYIDR 455 (593)
T ss_pred HHHHHHHHhCCChh-----------------------hCCHHHhhhhhhhccceeeccchhhHHHHcCCChHHHHHHHHH
Confidence 99999999998543 5688999999999999999999999999999999999999999
Q ss_pred HHHhChhHHHHHHHHHHHHHhCCeEecccCCcccCCCCCccChhhhhhhhhhhHhhhhhhHHHHHHHHHHHHHHHHHHhc
Q 001267 982 WYNERQEVLTWQEARKKESRIDNHVHTLLGRARRFPAIKSLTRSQRNHIERAAINTPVQGSAADVAMCAMLEISKNARLK 1061 (1112)
Q Consensus 982 ff~~yP~Vk~~~~~~~~~A~~~GyV~Tl~GRrr~lp~~~s~n~~~r~~~eR~avN~~IQGSAADI~K~AMi~i~~~~~l~ 1061 (1112)
||++||+|+.|+++++++|+++|||+|++||||++|+++++|...|+.+||.|+|+|||||||||+|.|||.++..+.-.
T Consensus 456 YF~rypgv~~ym~~~~~~ar~~GyV~Tl~gRRry~p~i~s~n~~~R~~aER~AiNaPIQGTAADiiK~AMI~vd~~l~~~ 535 (593)
T COG0749 456 YFERYPGVKEYMERTKEEAREDGYVETLFGRRRYLPDINSSNRVVRAAAERAAINAPIQGTAADIIKLAMIKVDKALKEE 535 (593)
T ss_pred HHHhChHHHHHHHHHHHHHHHcCceeecccccccCcccccCCHHHHHHHHHHHhcCcCcccHHHHHHHHHHhHHHHHhhc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999966555
Q ss_pred CCCceEEeEccceeeeeecchhcHHHHHHHHHHHhcCCCCCCcccccccC
Q 001267 1062 ELGWKLLLQVLFFFSFSFFSIIVIVSCQGIVLANAMHPMFGKSSRLHYDV 1111 (1112)
Q Consensus 1062 ~~~~~llLqVHDElv~Ev~~~~~ae~~~~~v~~~Me~a~~~~~~~l~~d~ 1111 (1112)
+...||+|||||||+||||+++ ++++.++|++.||++ ....|||.||+
T Consensus 536 ~~~~rllLQVHDELvfEv~~~e-~e~~~~~v~~~Me~a-~~L~VPL~vdv 583 (593)
T COG0749 536 KLKARLLLQVHDELVFEVPKEE-LEEVKKLLKAIMENA-VNLSVPLEVDV 583 (593)
T ss_pred chhhhhHHhhhhhhhhcCcHhH-HHHHHHHHHHHHHHh-hccCCceEEec
Confidence 5678999999999999999985 999999999999999 88999999996
|
|
| >TIGR00593 pola DNA polymerase I | Back alignment and domain information |
|---|
| >PRK05755 DNA polymerase I; Provisional | Back alignment and domain information |
|---|
| >PRK14975 bifunctional 3'-5' exonuclease/DNA polymerase; Provisional | Back alignment and domain information |
|---|
| >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 |
|---|
| >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 |
|---|
| >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 |
|---|
| >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 |
|---|
| >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 |
|---|
| >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 |
|---|
| >cd06444 DNA_pol_A Family A polymerase primarily fills DNA gaps that arise during DNA repair, recombination and replication | Back alignment and domain information |
|---|
| >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 |
|---|
| >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 |
|---|
| >smart00482 POLAc DNA polymerase A domain | Back alignment and domain information |
|---|
| >PRK10829 ribonuclease D; Provisional | Back alignment and domain information |
|---|
| >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 |
|---|
| >COG0349 Rnd Ribonuclease D [Translation, ribosomal structure and biogenesis] | 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 |
|---|
| >TIGR01388 rnd ribonuclease D | 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 |
|---|
| >cd06129 RNaseD_like DEDDy 3'-5' exonuclease domain of RNase D, WRN, and similar proteins | Back alignment and domain information |
|---|
| >cd06141 WRN_exo DEDDy 3'-5' exonuclease domain of WRN and similar proteins | Back alignment and domain information |
|---|
| >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 |
|---|
| >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 |
|---|
| >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 |
|---|
| >KOG3657 consensus Mitochondrial DNA polymerase gamma, catalytic subunit [Replication, recombination and repair] | 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 |
|---|
| >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 |
|---|
| >PRK07942 DNA polymerase III subunit epsilon; Provisional | Back alignment and domain information |
|---|
| >TIGR01406 dnaQ_proteo DNA polymerase III, epsilon subunit, Proteobacterial | Back alignment and domain information |
|---|
| >PRK09146 DNA polymerase III subunit epsilon; Validated | Back alignment and domain information |
|---|
| >PRK06063 DNA polymerase III subunit epsilon; Provisional | 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 |
|---|
| >PRK06309 DNA polymerase III subunit epsilon; Validated | Back alignment and domain information |
|---|
| >PRK05601 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 |
|---|
| >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 |
|---|
| >TIGR01298 RNaseT ribonuclease T | Back alignment and domain information |
|---|
| >TIGR00573 dnaq exonuclease, DNA polymerase III, epsilon subunit family | Back alignment and domain information |
|---|
| >TIGR01405 polC_Gram_pos DNA polymerase III, alpha chain, Gram-positive type | Back alignment and domain information |
|---|
| >PRK05168 ribonuclease T; Provisional | Back alignment and domain information |
|---|
| >TIGR01407 dinG_rel DnaQ family exonuclease/DinG family helicase, putative | Back alignment and domain information |
|---|
| >cd06134 RNaseT DEDDh 3'-5' exonuclease domain of RNase T | 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 |
|---|
| >PRK07883 hypothetical protein; Validated | Back alignment and domain information |
|---|
| >PRK08517 DNA polymerase III subunit epsilon; Provisional | Back alignment and domain information |
|---|
| >PRK09182 DNA polymerase III subunit epsilon; Validated | 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 |
|---|
| >PRK09145 DNA polymerase III subunit epsilon; Validated | 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 |
|---|
| >PRK06195 DNA polymerase III subunit epsilon; 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 |
|---|
| >cd06149 ISG20 DEDDh 3'-5' exonuclease domain of Interferon Stimulated Gene product of 20 kDa, and similar proteins | Back alignment and domain information |
|---|
| >PRK07983 exodeoxyribonuclease X; Provisional | 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 |
|---|
| >PRK00448 polC DNA polymerase III PolC; Validated | 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 |
|---|
| >PRK07748 sporulation inhibitor KapD; 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 |
|---|
| >cd06135 Orn DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins | 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 |
|---|
| >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 |
|---|
| >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 |
|---|
| >PRK06722 exonuclease; Provisional | 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 |
|---|
| >KOG2207 consensus Predicted 3'-5' exonuclease [Replication, recombination and repair] | 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 |
|---|
| >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 |
|---|
| >PTZ00315 2'-phosphotransferase; Provisional | 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 |
|---|
| >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 |
|---|
| >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 |
|---|
| >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 |
|---|
| >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 |
|---|
| >KOG0950 consensus DNA polymerase theta/eta, DEAD-box superfamily [General function prediction only] | Back alignment and domain information |
|---|
| >PF00940 RNA_pol: DNA-dependent RNA polymerase; InterPro: IPR002092 DNA-directed RNA polymerases 2 | 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 |
|---|
| >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 |
|---|
| >KOG2249 consensus 3'-5' exonuclease [Replication, recombination and repair] | Back alignment and domain information |
|---|
| >KOG3657 consensus Mitochondrial DNA polymerase gamma, catalytic subunit [Replication, recombination and repair] | Back alignment and domain information |
|---|
| >PHA02528 43 DNA polymerase; Provisional | 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 | 1112 | ||||
| 1bgx_T | 832 | Taq Polymerase In Complex With Tp7, An Inhibitory F | 9e-37 | ||
| 3ktq_A | 540 | Crystal Structure Of An Active Ternary Complex Of T | 1e-36 | ||
| 5ktq_A | 543 | Large Fragment Of Taq Dna Polymerase Bound To Dctp | 1e-36 | ||
| 2ktq_A | 538 | Open Ternary Complex Of The Large Fragment Of Dna P | 1e-36 | ||
| 1qtm_A | 539 | Ddttp-trapped Closed Ternary Complex Of The Large F | 1e-36 | ||
| 1qss_A | 539 | Ddgtp-Trapped Closed Ternary Complex Of The Large F | 2e-36 | ||
| 4ktq_A | 539 | Binary Complex Of The Large Fragment Of Dna Polymer | 2e-36 | ||
| 3po4_A | 540 | Structure Of A Mutant Of The Large Fragment Of Dna | 6e-36 | ||
| 1taq_A | 832 | Structure Of Taq Dna Polymerase Length = 832 | 4e-35 | ||
| 3tan_A | 592 | Crystal Structure Of Bacillus Dna Polymerase I Larg | 2e-34 | ||
| 4dqi_A | 592 | Ternary Complex Of Bacillus Dna Polymerase I Large | 2e-34 | ||
| 2hhq_A | 580 | O6-Methyl-Guanine:t Pair In The Polymerase-10 Basep | 3e-34 | ||
| 1l3s_A | 580 | Crystal Structure Of Bacillus Dna Polymerase I Frag | 3e-34 | ||
| 2xy6_A | 581 | Crystal Structure Of A Salicylic Aldehyde Basepair | 3e-34 | ||
| 2xy5_A | 581 | Crystal Structure Of An Artificial Salen-Copper Bas | 3e-34 | ||
| 1lv5_A | 580 | Crystal Structure Of The Closed Conformation Of Bac | 3e-34 | ||
| 2xo7_A | 580 | Crystal Structure Of A Da:o-Allylhydroxylamine-Dc B | 3e-34 | ||
| 3bdp_A | 580 | Dna Polymerase IDNA COMPLEX Length = 580 | 3e-34 | ||
| 2xy7_A | 580 | Crystal Structure Of A Salicylic Aldehyde Base In T | 3e-34 | ||
| 1u45_A | 580 | 8oxoguanine At The Pre-Insertion Site Of The Polyme | 4e-34 | ||
| 3ht3_A | 579 | Crystal Structure Of Fragment Dna Polymerase I From | 4e-34 | ||
| 1kfs_A | 605 | Dna Polymerase I Klenow Fragment (e.c.2.7.7.7) Muta | 6e-34 | ||
| 1d8y_A | 605 | Crystal Structure Of The Complex Of Dna Polymerase | 6e-34 | ||
| 1dpi_A | 605 | Structure Of Large Fragment Of Escherichia Coli Dna | 7e-34 | ||
| 3pv8_A | 592 | Crystal Structure Of Bacillus Dna Polymerase I Larg | 7e-34 | ||
| 1kln_A | 605 | Dna Polymerase I Klenow Fragment (E.C.2.7.7.7) Muta | 7e-34 | ||
| 2hvh_A | 580 | Ddctp:o6meg Pair In The Polymerase Active Site (0 P | 7e-34 | ||
| 3hp6_A | 580 | Crystal Structure Of Fragment Dna Polymerase I From | 8e-34 | ||
| 3eyz_A | 580 | Cocrystal Structure Of Bacillus Fragment Dna Polyme | 8e-34 | ||
| 2hhw_A | 580 | Ddttp:o6-Methyl-Guanine Pair In The Polymerase Acti | 8e-34 | ||
| 4dqq_A | 592 | Ternary Complex Of Bacillus Dna Polymerase I Large | 1e-33 | ||
| 3hpo_A | 580 | Crystal Structure Of Fragment Dna Polymerase I From | 4e-33 | ||
| 2y1i_A | 580 | Crystal Structure Of A S-Diastereomer Analogue Of T | 6e-33 | ||
| 4dle_A | 540 | Ternary Structure Of The Large Fragment Of Taq Dna | 7e-31 |
| >pdb|1BGX|T Chain T, Taq Polymerase In Complex With Tp7, An Inhibitory Fab Length = 832 | 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|5KTQ|A Chain A, Large Fragment Of Taq Dna Polymerase Bound To Dctp Length = 543 | 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|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|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|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|1TAQ|A Chain A, Structure Of Taq Dna Polymerase Length = 832 | 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|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|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|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|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|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|3BDP|A Chain A, Dna Polymerase IDNA COMPLEX 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|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|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|1DPI|A Chain A, Structure Of Large Fragment Of Escherichia Coli Dna Polymerase I Complexed With DTMP Length = 605 | 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|1KLN|A Chain A, Dna Polymerase I Klenow Fragment (E.C.2.7.7.7) MutantDNA Complex Length = 605 | 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|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|3EYZ|A Chain A, Cocrystal Structure Of Bacillus Fragment Dna Polymerase I With Duplex Dna (Open Form) Length = 580 | 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|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 |
| >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|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|4DLE|A Chain A, Ternary Structure Of The Large Fragment Of Taq Dna Polymerase: 4- Fluoroproline Variant Length = 540 | Back alignment and structure |
Structure Templates Detected by RPS-BLAST
Original result of RPS-BLAST against PDB70 database
| >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 |
|---|
Score = 228 bits (584), Expect = 6e-65
Identities = 92/264 (34%), Positives = 138/264 (52%), Gaps = 31/264 (11%)
Query: 810 LPLQGSNVSGKNGRVHCSLNIN-TETGRLSARRPNLQNQPA-LEKDRYKIRQAFIAVPGN 867
LP + + GR+H N T TGRLS+ PNLQN P + +IR+AFIA G
Sbjct: 257 LPDL---IHPRTGRLHTRFNQTATATGRLSSSDPNLQNIPVRTPLGQ-RIRRAFIAEEGW 312
Query: 868 SLIVADYGQLELRILAHLANCKSMLDAFKAGGDFHSRTAMNMYPHIRNAVETGQVLLEWH 927
L+ DY Q+ELR+LAHL+ ++++ F+ G D H+ TA M+ V V
Sbjct: 313 LLVALDYSQIELRVLAHLSGDENLIRVFQEGRDIHTETASWMF-----GVPREAVDPL-- 365
Query: 928 GEDKPPVPLLKDAFASERRKAKMLNFSIAYGKTPVGLARDWKVSVEEAKKTVDLWYNERQ 987
RR AK +NF + YG + L+++ + EEA+ ++ ++
Sbjct: 366 ----------------MRRAAKTINFGVLYGMSAHRLSQELAIPYEEAQAFIERYFQSFP 409
Query: 988 EVLTWQEARKKESRIDNHVHTLLGRARRFPAIKSLTRSQRNHIERAAINTPVQGSAADVA 1047
+V W E +E R +V TL GR R P +++ +S R ER A N PVQG+AAD+
Sbjct: 410 KVRAWIEKTLEEGRRRGYVETLFGRRRYVPDLEARVKSVREAAERMAFNMPVQGTAADLM 469
Query: 1048 MCAMLEISKNARLKELGWKLLLQV 1071
AM+++ RL+E+G ++LLQV
Sbjct: 470 KLAMVKLFP--RLEEMGARMLLQV 491
|
| >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 |
|---|
| >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 |
|---|
| >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 |
|---|
| >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 |
|---|
| >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 | 1112 | |||
| 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 | |
| 1bgx_T | 832 | TAQ DNA polymerase; DNA polymerase, FAB, PCR, inhi | 100.0 | |
| 1x9m_A | 698 | DNA polymerase; DNA ploymerase, N-2-acetylaminoflu | 100.0 | |
| 3ikm_A | 1172 | DNA polymerase subunit gamma-1; human mitochondria | 100.0 | |
| 1yt3_A | 375 | Ribonuclease D, RNAse D; exoribonuclease, exonucle | 99.81 | |
| 3saf_A | 428 | Exosome component 10; exoribonuclease, RNA exosome | 99.78 | |
| 2e6m_A | 208 | Werner syndrome ATP-dependent helicase homolog; AP | 99.73 | |
| 2hbj_A | 410 | Exosome complex exonuclease RRP6; RNA metabolism, | 99.71 | |
| 3cym_A | 440 | Uncharacterized protein BAD_0989; structural genom | 99.52 | |
| 1vk0_A | 206 | Hypothetical protein; homohexamer, AT5G06450, stru | 99.39 | |
| 3v9w_A | 235 | Ribonuclease T; DEDD nucleases family, EXO-nucleas | 98.93 | |
| 2p1j_A | 186 | POLIII, DNA polymerase III POLC-type; structural g | 98.37 | |
| 3mxm_B | 242 | Three prime repair exonuclease 1; RNAse H-like fol | 98.33 | |
| 2gui_A | 194 | DNA polymerase III epsilon subunit; DNA polymerase | 98.3 | |
| 1y97_A | 238 | Three prime repair exonuclease 2; TREX2, hydrolase | 98.24 | |
| 2f96_A | 224 | Ribonuclease T; RNAse, RNT, RNAse T, tRNA hydrolas | 98.14 | |
| 3u3y_B | 314 | Three prime repair exonuclease 1; RNAse H fold, 3' | 97.96 | |
| 1w0h_A | 204 | 3'-5' exonuclease ERI1; nuclease domain, hydrolase | 97.84 | |
| 3tr8_A | 186 | Oligoribonuclease; transcription, hydrolase; 2.50A | 97.77 | |
| 1wlj_A | 189 | Interferon stimulated gene 20KDA; exoribonuclease, | 97.75 | |
| 2qxf_A | 482 | Exodeoxyribonuclease I; alpha-beta domain, DNAQ su | 97.68 | |
| 2igi_A | 180 | Oligoribonuclease; RNAse, exoribonuclease, exonucl | 97.48 | |
| 1zbh_A | 299 | 3'-5' exonuclease ERI1; histone mRNA 3'-END-specif | 97.39 | |
| 2xri_A | 224 | ERI1 exoribonuclease 3; hydrolase, metal binding; | 97.11 | |
| 2gbz_A | 194 | Oligoribonuclease; ORN, deddh, structural genomics | 96.98 | |
| 1zbu_A | 349 | ERI-1 homolog, 3'-5' exonuclease ERI1; hydrolase; | 96.85 | |
| 3cg7_A | 308 | CRN-4, cell death-related nuclease 4; hydrolase, a | 96.81 | |
| 4gmj_B | 285 | CCR4-NOT transcription complex subunit 7; mRNA dec | 94.08 | |
| 1noy_A | 388 | Protein (DNA polymerase (E.C.2.7.7.7)); exonucleas | 92.75 | |
| 1qht_A | 775 | Protein (DNA polymerase); archaea, hyperthermostab | 92.67 | |
| 3qex_A | 903 | DNA polymerase, GP43; difluorotoluene nucleoside; | 91.17 | |
| 1s5j_A | 847 | DNA polymerase I; replication, disulfide bonds, tr | 87.2 | |
| 2d5r_A | 252 | CCR4-NOT transcription complex subunit 7; poly(A) | 86.82 | |
| 2p51_A | 333 | SPCC18.06C protein; DEDD nuclease fold, hydrolase, | 83.48 |
| >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=7.7e-118 Score=1075.25 Aligned_cols=582 Identities=27% Similarity=0.368 Sum_probs=511.0
Q ss_pred CCCeEEecCHHHHHHHHHHHhccCCCcEEEEEeccCCCCcccCccccccceEEEEeeeCCCcccCCCceEEEEeCCC---
Q 001267 342 YSNVMVVDNVSAAKKVVWMLTNKYKHLVHACDTEVAKIDVKQETPVDHGEVICFSIYSGPEADFGNGKSCIWVDLLD--- 418 (1112)
Q Consensus 342 ~~~y~lV~t~e~L~~lv~~L~~a~~~~~VAfDTETtGLd~~~d~IVG~g~Ii~fsi~~~~~IqI~~~~~~~~ID~~~--- 418 (1112)
|.+|.+|++.+++.++++.|... ++|+|||||||++++.+++++ +++++.. +..+|++...
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 56789999999999999988765 579999999999998888876 4454322 2245664322
Q ss_pred -----CChhhhHhhhhhhhcCCCceEEEeccHHHHHHHHHcCCCCCCccchHHHHHHhcCCCCCCCCCCCHHHHHhcccc
Q 001267 419 -----GGGRDLLNEFAPFFEDPSIKKVWHNYSFDNHVLENYGLKVSGFHADTMHMARLWDSSRRTEGGYSLEALTGDRKV 493 (1112)
Q Consensus 419 -----~~~~~vL~~Lk~~Led~~v~KV~HNaKfDl~vL~r~GI~l~~~vfDTmIAAyLLdp~~~~~~s~sLd~La~~~~~ 493 (1112)
.+..++++.|+++|+++.+.||+||++||+.+|.++|+.+.+++||||+|+||++|+.. +|+|++|+.+
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 11345678899999999999999999999999999999998889999999999999764 6999999987
Q ss_pred ccccchhhcccccCCCCcccccccchhhhhhcccccccCCCCCccccccchhHhhHhHHHHHHHHHHHHHHHHHHHHHHH
Q 001267 494 MSEDKKAYQKDMSKGNTDEGFMGKISMKDIFGRRKLKKDGSAGKISTIAPVEELQREERELWISYSAFDSINTLKLYKSL 573 (1112)
Q Consensus 494 ~~~~~Lg~~~~l~~~~~~eel~GK~s~k~lfgK~k~kkq~s~~~~w~~~pL~~~~~~~~e~~l~YAA~DA~~tlrL~e~L 573 (1112)
||++. . ..+++++||++. + .+|..+|+ +.+..||+.||.++++||+.|
T Consensus 142 ----~Lg~~-----~---------i~~~~~~gKg~~--~----~~~~~~~l--------e~~~~yAa~Da~~~~~L~~~L 189 (605)
T 2kfn_A 142 ----WLKHK-----T---------ITFEEIAGKGKN--Q----LTFNQIAL--------EEAGRYAAEDADVTLQLHLKM 189 (605)
T ss_dssp ----HSCCC-----C---------CCHHHHHCSSTT--C----CCGGGSCH--------HHHHHHHHHHHHHHHHHHHHH
T ss_pred ----hcCCC-----c---------ccHHHHhCCCcc--c----CCcccCCH--------HHHHHHHHHHHHHHHHHHHHH
Confidence 44432 1 123445665431 1 14654553 457899999999999999999
Q ss_pred HHHHhh-cccccCCCCCCCchHHHHHHHHhcchHHHHHHhhhcCcccCHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCC
Q 001267 574 KKKLLE-MSWKLDGKPVPGKSMFDFYQEYWQPFGEILVKMETEGMLVDREYLSEIEKVARAEQEAAVNRFRKWASKHCPD 652 (1112)
Q Consensus 574 ~~kLee-~~~~~~~~~~~~~~l~~Ly~~IEmPL~~VLa~ME~~GI~VD~e~L~~L~~~l~~e~e~leeei~~~~~~~~~~ 652 (1112)
.++|++ . ++++||.++|||+++||++||.+||.||.+.|+++..++..+++.++++++++ +
T Consensus 190 ~~~L~~~~------------~l~~L~~~iE~Pl~~vLa~ME~~Gi~vD~~~l~~~~~~~~~~~~~l~~~i~~~------~ 251 (605)
T 2kfn_A 190 WPDLQKHK------------GPLNVFENIEMPLVPVLSRIERNGVKIDPKVLHNHSEELTLRLAELEKKAHEI------A 251 (605)
T ss_dssp HHHTTSCH------------HHHHHHHHTHHHHHHHHHHHHHHCBCBCHHHHHHHHHHHHHHHHHHHHHHHHH------S
T ss_pred HHHHHHHh------------hHHHHHHHHHhHHHHHHHHHHHcCeEeCHHHHHHHHHHHHHHHHHHHHHHHHH------h
Confidence 999975 3 68999999999999999999999999999999999999999999999999776 4
Q ss_pred CccccCCCHHHHHHHhhCCCCCCCCCCCCCCcccccccCCCccccccCCCCCcccccchhcccccCCCCccccccCCCcC
Q 001267 653 AKYMNVGSDTQLRQLLFGGKPNSKDDSESLPIERIFKVPNTEGVIAEGKKTPSKFRNITLRSIGVDLPTEMYTATGWPSV 732 (1112)
Q Consensus 653 g~~fNi~S~kQL~~lLFe~~~~~k~~~l~Lp~er~~k~~~~~~~~~~~kk~~~~~~~~~l~~~G~~lp~~~~TktG~~St 732 (1112)
|+.||++||+||+++||+ ++|||+ .++||||+|||
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 788999999999999998 688863 24688999999
Q ss_pred cHHHHHHHHhccCccccccCCCCCCCCCCCcccccccccccccchhhhhHHHHHHHhHHHHHHHHHHhHhhhhhhhhccc
Q 001267 733 GGDALKTLARNISAEYDCVDGAHDLDDSGCTEETEYKGAVASNNKIFATEQEAREACDAISALCEVCSIDSLISNFILPL 812 (1112)
Q Consensus 733 d~~vLe~La~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~Lle~r~l~Kl~styv~~l 812 (1112)
+++||++|+..||+ ++.||+||+++|++|||+++|
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 99999999976663 467999999999999999999
Q ss_pred ccCCccCCCCceeecccc-cCcccccccCCCCcccCCCCccchhhhcceEEcCCCCeEEEecccchhHHHHHHhcCchHH
Q 001267 813 QGSNVSGKNGRVHCSLNI-NTETGRLSARRPNLQNQPALEKDRYKIRQAFIAVPGNSLIVADYGQLELRILAHLANCKSM 891 (1112)
Q Consensus 813 ~~~~v~~~dGRIH~s~n~-~T~TGRlSss~PNLQNIP~~~~~g~~iR~~Fia~~G~~lvsaDySQIELRIlAhlS~D~~L 891 (1112)
+. .+.+.||||||+||| +|+||||||++|||||||++++.|+.||+||+|++||+||+|||||||||||||||+|+.|
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 455445999999998 9999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHcCCCchhHHHhhhccccccccccchhhhcccCCCCCCCCcccccChHHHHhhHHHhhhhhhCCCcccchhhhCCC
Q 001267 892 LDAFKAGGDFHSRTAMNMYPHIRNAVETGQVLLEWHGEDKPPVPLLKDAFASERRKAKMLNFSIAYGKTPVGLARDWKVS 971 (1112)
Q Consensus 892 i~af~~G~DiH~~tA~~ifg~~~e~v~~~~~~~~w~~~~~p~v~~~~~vt~~~R~~AK~vnfGiiYG~g~~~La~~lgis 971 (1112)
+++|++|.|||+.||+.+||++.+ +|++++|+.||++|||++||||+++||+++|||
T Consensus 401 ~~af~~g~Dih~~tA~~~f~~~~e-----------------------~vt~~~R~~aK~~~fg~~YG~~~~~la~~l~i~ 457 (605)
T 2kfn_A 401 LTAFAEGKDIHRATAAEVFGLPLE-----------------------TVTSEQRRSAKAINFGLIYGMSAFGLARQLNIP 457 (605)
T ss_dssp HHHHHTTCCHHHHHHHHHTTCCGG-----------------------GCCHHHHHHHHHHHHHHHTTCCTTHHHHHHTCC
T ss_pred HHHHhcCCCHHHHHHHHHhCCChh-----------------------hcCHHHHhhhhhhhccccccCCHHHHHHHcCCC
Confidence 999999999999999999998654 457899999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHhChhHHHHHHHHHHHHHhCCeEecccCCcccCCCCCccChhhhhhhhhhhHhhhhhhHHHHHHHHHH
Q 001267 972 VEEAKKTVDLWYNERQEVLTWQEARKKESRIDNHVHTLLGRARRFPAIKSLTRSQRNHIERAAINTPVQGSAADVAMCAM 1051 (1112)
Q Consensus 972 ~~EAk~~id~ff~~yP~Vk~~~~~~~~~A~~~GyV~Tl~GRrr~lp~~~s~n~~~r~~~eR~avN~~IQGSAADI~K~AM 1051 (1112)
.+||++++++||++||+|++|++.+.++|+++|||+|++||||++|++++.|...|+.++|+|+|+|||||||||+|.||
T Consensus 458 ~~ea~~~i~~~~~~~p~v~~~~~~~~~~a~~~g~v~tl~GRrr~~p~~~s~~~~~r~~~~r~a~N~~iQgsaaDi~k~am 537 (605)
T 2kfn_A 458 RKEAQKYMDLYFERYPGVLEYMERTRAQAKEQGYVETLDGRRLYLPDIKSSNGARRAAAERAAINAPMQGTAADIIKRAM 537 (605)
T ss_dssp TTTHHHHHHHHHHHCHHHHHHHHHHHHHHHHHSEEECTTCCEEECTTTTCSSHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHCccHHHHHHHHHHHHHHcCcEECCCCCeEECCcccCCCchhhhhhhhhHhhHHhHHHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHhcCCCceEEeEccceeeeeecchhcHHHHHHHHHHHhcCCCCCCcccccccC
Q 001267 1052 LEISKNARLKELGWKLLLQVLFFFSFSFFSIIVIVSCQGIVLANAMHPMFGKSSRLHYDV 1111 (1112)
Q Consensus 1052 i~i~~~~~l~~~~~~llLqVHDElv~Ev~~~~~ae~~~~~v~~~Me~a~~~~~~~l~~d~ 1111 (1112)
+++++.+...+++++|++||||||+||||++. ++.+.++|+++|+++ ....+||.||+
T Consensus 538 ~~~~~~l~~~~~~~~~~l~vHDEl~~ev~~~~-~~~~~~~v~~~M~~~-~~l~vpl~v~~ 595 (605)
T 2kfn_A 538 IAVDAWLQAEQPRVRMIMQVHDELVFEVHKDD-VDAVAKQIHQLMENC-TRLDVPLLVEV 595 (605)
T ss_dssp HHHHHHHHHHCCSEEEEEEETTEEEEEEETTT-HHHHHHHHHHHHHHS-SCSSSCCCEEE
T ss_pred HHHHHHHHhcCCCceeeEEeccEEEEEcCHHH-HHHHHHHHHHHHhcc-CCCCCeEEEec
Confidence 99999655456789999999999999999985 889999999999999 67899999885
|
| >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 |
|---|
| >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 |
|---|
| >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 |
|---|
| >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 |
|---|
| >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 |
|---|
| >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 |
|---|
| >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 |
|---|
| >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 |
|---|
| >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 |
|---|
| >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 |
|---|
| >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 |
|---|
| >1w0h_A 3'-5' exonuclease ERI1; nuclease domain, hydrolase; HET: AMP; 1.59A {Homo sapiens} SCOP: c.55.3.5 | Back alignment and structure |
|---|
| >3tr8_A Oligoribonuclease; transcription, hydrolase; 2.50A {Coxiella burnetii} | 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 |
|---|
| >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 |
|---|
| >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 |
|---|
| >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 |
|---|
| >2xri_A ERI1 exoribonuclease 3; hydrolase, metal binding; 2.15A {Homo sapiens} | Back alignment and structure |
|---|
| >2gbz_A Oligoribonuclease; ORN, deddh, structural genomics, hydrolase; 2.30A {Xanthomonas campestris PV} | Back alignment and structure |
|---|
| >1zbu_A ERI-1 homolog, 3'-5' exonuclease ERI1; hydrolase; HET: AMP; 3.00A {Homo sapiens} | 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 |
|---|
| >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 |
|---|
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 |
| 1112 | ||||
| d1kfsa2 | 410 | e.8.1.1 (A:519-928) DNA polymerase I (Klenow fragm | 1e-40 | |
| d1kfsa2 | 410 | e.8.1.1 (A:519-928) DNA polymerase I (Klenow fragm | 5e-07 | |
| d2hhva2 | 408 | e.8.1.1 (A:469-876) DNA polymerase I (Klenow fragm | 1e-32 | |
| d2hhva2 | 408 | e.8.1.1 (A:469-876) DNA polymerase I (Klenow fragm | 6e-06 | |
| d1qtma2 | 409 | e.8.1.1 (A:423-831) DNA polymerase I (Klenow fragm | 1e-26 | |
| d1qtma2 | 409 | e.8.1.1 (A:423-831) DNA polymerase I (Klenow fragm | 1e-06 | |
| d1x9ma2 | 494 | e.8.1.1 (A:211-704) T7 phage DNA polymerase {Bacte | 2e-19 | |
| d2hhva1 | 171 | c.55.3.5 (A:298-468) Exonuclease domain of prokary | 8e-08 | |
| d1vk0a_ | 206 | c.55.3.5 (A:) Hypothetical protein AT5G06450 {Thal | 2e-06 | |
| 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 = 153 bits (387), Expect = 1e-40
Identities = 96/284 (33%), Positives = 144/284 (50%), Gaps = 25/284 (8%)
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 NMYPHIRNAVETGQVLLEWHGEDKPPVPLLKDAFASERRKAKMLNFSIAYGKTPVGLARD 967
++ V + Q RR AK +NF + YG + GLAR
Sbjct: 222 EVFGLPLETVTSEQ-----------------------RRSAKAINFGLIYGMSAFGLARQ 258
Query: 968 WKVSVEEAKKTVDLWYNERQEVLTWQEARKKESRIDNHVHTLLGRARRFPAIKSLTRSQR 1027
+ +EA+K +DL++ VL + E + +++ +V TL GR P IKS ++R
Sbjct: 259 LNIPRKEAQKYMDLYFERYPGVLEYMERTRAQAKEQGYVETLDGRRLYLPDIKSSNGARR 318
Query: 1028 NHIERAAINTPVQGSAADVAMCAMLEISKNARLKELGWKLLLQV 1071
ERAAIN P+QG+AAD+ AM+ + + ++ ++++QV
Sbjct: 319 AAAERAAINAPMQGTAADIIKRAMIAVDAWLQAEQPRVRMIMQV 362
|
| >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 |
|---|
| >d1x9ma2 e.8.1.1 (A:211-704) T7 phage DNA polymerase {Bacteriophage T7 [TaxId: 10760]} Length = 494 | 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 |
|---|
| >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 | 1112 | |||
| 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 | 99.86 | |
| d2hbka2 | 292 | Exosome complex exonuclease RRP6 {Baker's yeast (S | 99.83 | |
| d2hhva1 | 171 | Exonuclease domain of prokaryotic DNA polymerase { | 99.8 | |
| d1vk0a_ | 206 | Hypothetical protein AT5G06450 {Thale-cress (Arabi | 99.48 | |
| d1wlja_ | 173 | Interferon-stimulated gene 20 kDa protein, ISG20 { | 98.35 | |
| d1x9ma1 | 204 | Exonuclease domain of T7 DNA polymerase {Bacteriop | 98.28 | |
| d3b6oa1 | 226 | Three prime repair exonuclease 1, TREX1 {Mouse (Mu | 98.05 | |
| d2guia1 | 174 | N-terminal exonuclease domain of the epsilon subun | 97.8 | |
| d1y97a1 | 228 | Three prime repair exonuclease 2, TREX2 {Human (Ho | 97.67 | |
| d2qxfa1 | 467 | Exonuclease I {Escherichia coli K12 (Escherichia c | 96.71 | |
| d2f96a1 | 202 | Ribonuclease T {Pseudomonas aeruginosa [TaxId: 287 | 96.49 | |
| d2d5ra1 | 252 | CCR4-NOT transcription complex subunit 7, CAF1 {Hu | 95.49 | |
| d1tgoa1 | 347 | Exonuclease domain of family B DNA polymerases {Ar | 94.97 | |
| d2igia1 | 180 | Oligoribonuclease {Escherichia coli [TaxId: 562]} | 93.3 | |
| d1w0ha_ | 200 | Exonuclease ERI1 {Human (Homo sapiens) [TaxId: 960 | 91.9 | |
| d1s5ja1 | 410 | Exonuclease domain of family B DNA polymerases {Su | 90.19 | |
| d1q8ia1 | 388 | Exonuclease domain of family B DNA polymerases {Es | 89.27 | |
| d1mswd_ | 882 | T7 RNA polymerase {Bacteriophage T7 [TaxId: 10760] | 81.47 |
| >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=5.5e-83 Score=735.51 Aligned_cols=398 Identities=30% Similarity=0.413 Sum_probs=363.9
Q ss_pred chHHHHHHHHhcchHHHHHHhhhcCcccCHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCccccCCCHHHHHHHhhCC
Q 001267 592 KSMFDFYQEYWQPFGEILVKMETEGMLVDREYLSEIEKVARAEQEAAVNRFRKWASKHCPDAKYMNVGSDTQLRQLLFGG 671 (1112)
Q Consensus 592 ~~l~~Ly~~IEmPL~~VLa~ME~~GI~VD~e~L~~L~~~l~~e~e~leeei~~~~~~~~~~g~~fNi~S~kQL~~lLFe~ 671 (1112)
++++++|+++|||++++|++||.+||+||++.|+++...+..+++.+++++.++ .|..||++|++||+.+||+
T Consensus 2 ~g~~~~~~~iE~~~~~~la~Me~~Gi~vD~e~l~~~~~~~~~~~~~l~~~~~~~------~g~~fn~~S~~ql~~~Lf~- 74 (410)
T d1kfsa2 2 KGPLNVFENIEMPLVPVLSRIERNGVKIDPKVLHNHSEELTLRLAELEKKAHEI------AGEEFNLSSTKQLQTILFE- 74 (410)
T ss_dssp HHHHHHHHHTHHHHHHHHHHHHHHCBCBCHHHHHHHHHHHHHHHHHHHHHHHHH------SSSCCCSCTTTTSHHHHTT-
T ss_pred CcHHHHHHHHHHHHHHHHHHHHHhCEEECHHHHHHHHHHHHHHHHHHHHHHHHH------hCCcCCCCCHHHHHHHHHH-
Confidence 478999999999999999999999999999999999999999999999999776 4678999999999999998
Q ss_pred CCCCCCCCCCCCcccccccCCCccccccCCCCCcccccchhcccccCCCCccccccCCCcCcHHHHHHHHhccCcccccc
Q 001267 672 KPNSKDDSESLPIERIFKVPNTEGVIAEGKKTPSKFRNITLRSIGVDLPTEMYTATGWPSVGGDALKTLARNISAEYDCV 751 (1112)
Q Consensus 672 ~~~~k~~~l~Lp~er~~k~~~~~~~~~~~kk~~~~~~~~~l~~~G~~lp~~~~TktG~~Std~~vLe~La~~~~~~~~~~ 751 (1112)
.+|+|+ .++|++|.++|++++|+.+...+|
T Consensus 75 -------~lgl~~-------------------------------------~~~t~~g~~~t~~~~L~~~~~~~~------ 104 (410)
T d1kfsa2 75 -------KQGIKP-------------------------------------LKKTPGGAPSTSEEVLEELALDYP------ 104 (410)
T ss_dssp -------TSSCSC-------------------------------------CCCCC----TTTCCHHHHHTTTCH------
T ss_pred -------hcCCCC-------------------------------------CccCCCCCcccchhhhhccccccH------
Confidence 577753 356889999999999998876544
Q ss_pred CCCCCCCCCCCcccccccccccccchhhhhHHHHHHHhHHHHHHHHHHhHhhhhhhhhcccccCCccCCCCceeecccc-
Q 001267 752 DGAHDLDDSGCTEETEYKGAVASNNKIFATEQEAREACDAISALCEVCSIDSLISNFILPLQGSNVSGKNGRVHCSLNI- 830 (1112)
Q Consensus 752 ~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~Lle~r~l~Kl~styv~~l~~~~v~~~dGRIH~s~n~- 830 (1112)
.++.|++||++.|+.+||++++.. .....|||||++|++
T Consensus 105 ---------------------------------------~~~~l~~~r~~~k~~~~~~~~~~~-~~~~~~gri~~~~~~~ 144 (410)
T d1kfsa2 105 ---------------------------------------LPKVILEYRGLAKLKSTYTDKLPL-MINPKTGRVHTSYHQA 144 (410)
T ss_dssp ---------------------------------------HHHHHHHHHHHHHHHHHTTTTGGG-GBCTTTSSBCCEEESS
T ss_pred ---------------------------------------HHHHHHHHHHHHHHHHHhhhhhhh-ccCCCCCceeeeEeec
Confidence 346789999999999999998875 345578999999998
Q ss_pred cCcccccccCCCCcccCCCCccchhhhcceEEcCCCCeEEEecccchhHHHHHHhcCchHHHHHHHcCCCchhHHHhhhc
Q 001267 831 NTETGRLSARRPNLQNQPALEKDRYKIRQAFIAVPGNSLIVADYGQLELRILAHLANCKSMLDAFKAGGDFHSRTAMNMY 910 (1112)
Q Consensus 831 ~T~TGRlSss~PNLQNIP~~~~~g~~iR~~Fia~~G~~lvsaDySQIELRIlAhlS~D~~Li~af~~G~DiH~~tA~~if 910 (1112)
+|.|||+||++|||||+|++++.|+.+|+||+|+||++||++||||||+||+||+|+|+.|+++|++|.|+|+.+|+.+|
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 89999999999999999999888899999999999999999999999999999999999999999999999999999999
Q ss_pred cccccccccchhhhcccCCCCCCCCcccccChHHHHhhHHHhhhhhhCCCcccchhhhCCCHHHHHHHHHHHHHhChhHH
Q 001267 911 PHIRNAVETGQVLLEWHGEDKPPVPLLKDAFASERRKAKMLNFSIAYGKTPVGLARDWKVSVEEAKKTVDLWYNERQEVL 990 (1112)
Q Consensus 911 g~~~e~v~~~~~~~~w~~~~~p~v~~~~~vt~~~R~~AK~vnfGiiYG~g~~~La~~lgis~~EAk~~id~ff~~yP~Vk 990 (1112)
|++++ ++++++|+.||+++||++||||+.+||+++|+|.+||++++++|+++||+|.
T Consensus 225 ~~~~~-----------------------~~~~~~R~~aK~~~~g~~YG~G~~~la~~l~~s~~eA~~~~~~~~~~~p~i~ 281 (410)
T d1kfsa2 225 GLPLE-----------------------TVTSEQRRSAKAINFGLIYGMSAFGLARQLNIPRKEAQKYMDLYFERYPGVL 281 (410)
T ss_dssp TCCTT-----------------------TCCHHHHHHHHHHHHHHHTTCCHHHHHHHHTCCTTTHHHHHHHHHHHCHHHH
T ss_pred CCCch-----------------------hcccchhhhhhheeeehhhcccHHHHHHHcCCCHHHHHHHHHHHHHHCCChh
Confidence 98654 4567899999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHhCCeEecccCCcccCCCCCccChhhhhhhhhhhHhhhhhhHHHHHHHHHHHHHHHHHHhcCCCceEEeE
Q 001267 991 TWQEARKKESRIDNHVHTLLGRARRFPAIKSLTRSQRNHIERAAINTPVQGSAADVAMCAMLEISKNARLKELGWKLLLQ 1070 (1112)
Q Consensus 991 ~~~~~~~~~A~~~GyV~Tl~GRrr~lp~~~s~n~~~r~~~eR~avN~~IQGSAADI~K~AMi~i~~~~~l~~~~~~llLq 1070 (1112)
+|++.+...|+++||+.|++|||+++|+..+.+...|...+|+++|+|||||||||+|.||+++++.+...+.+++++++
T Consensus 282 ~~~~~~~~~a~~~g~v~t~~Grr~~~~~~~~~~~~~r~~~~r~a~N~~iQg~aadi~k~a~~~i~~~l~~~~~~~~~v~~ 361 (410)
T d1kfsa2 282 EYMERTRAQAKEQGYVETLDGRRLYLPDIKSSNGARRAAAERAAINAPMQGTAADIIKRAMIAVDAWLQAEQPRVRMIMQ 361 (410)
T ss_dssp HHHHHHHHHHHHHSEEECTTCCEEECTTTTCSSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCSEEEEEE
T ss_pred HHHHHHHHHHHHcCceecccCccccCCCcccchHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHHHhcCCCCEEEEE
Confidence 99999999999999999999999999999988888888899999999999999999999999999876666778999999
Q ss_pred ccceeeeeecchhcHHHHHHHHHHHhcCCCCCCcccccccC
Q 001267 1071 VLFFFSFSFFSIIVIVSCQGIVLANAMHPMFGKSSRLHYDV 1111 (1112)
Q Consensus 1071 VHDElv~Ev~~~~~ae~~~~~v~~~Me~a~~~~~~~l~~d~ 1111 (1112)
|||||++|||++. ++++.++|++||+++ +...+||.+|.
T Consensus 362 VHDEiv~ev~~~~-~~~~~~~i~~~M~~~-~~~~vPl~~e~ 400 (410)
T d1kfsa2 362 VHDELVFEVHKDD-VDAVAKQIHQLMENC-TRLDVPLLVEV 400 (410)
T ss_dssp ETTEEEEEEETTT-HHHHHHHHHHHHHHS-SCSSSCCCEEE
T ss_pred eceeeEEEEcHHH-HHHHHHHHHHHHhcc-ccCCCceEeec
Confidence 9999999999986 888889999999998 66678998874
|
| >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 |
|---|
| >d3b6oa1 c.55.3.5 (A:9-234) Three prime repair exonuclease 1, TREX1 {Mouse (Mus musculus) [TaxId: 10090]} | 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 |
|---|
| >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 |
|---|
| >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 |
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| >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 |
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| >d2igia1 c.55.3.5 (A:1-180) Oligoribonuclease {Escherichia coli [TaxId: 562]} | Back information, alignment and structure |
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| >d1w0ha_ c.55.3.5 (A:) Exonuclease ERI1 {Human (Homo sapiens) [TaxId: 9606]} | Back information, alignment and structure |
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| >d1s5ja1 c.55.3.5 (A:40-449) Exonuclease domain of family B DNA polymerases {Sulfolobus solfataricus [TaxId: 2287]} | Back information, alignment and structure |
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| >d1q8ia1 c.55.3.5 (A:2-389) Exonuclease domain of family B DNA polymerases {Escherichia coli [TaxId: 562]} | Back information, alignment and structure |
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| >d1mswd_ e.8.1.3 (D:) T7 RNA polymerase {Bacteriophage T7 [TaxId: 10760]} | Back information, alignment and structure |
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