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OQ508957.1__WGH49721.1__X__00005

Bact-Vir

OQ508957.1__WGH49721.1__X__00005

Identity

Accession:
OQ508957 ↗
Kingdom:
phage

Quality

93.2 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Alishewanella_phage_vB_AspM_Slickus01

TaxID: 3038239

Cluster

View cluster (11 members)

3D Structure

Download PDB Download Scores JSON

Domains

high = three domain segmentations agree, medium = two domain segmentations agree. Numbered high-first then medium, N→C within each tier.

D1 high residues 3-102
PDB
Domain cluster: rep: IMGVR_UViG_3300022888_000153-3300022888-Ga0233428_10060381__D1-103
CATH (17)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1z47A03 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.80 35.0 5.01e-01 99.0% 87.8%
1gutA00 2.40.50.100 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › RNA polymerase II/Efflux pump adaptor protein, barrel-sandwich hybrid domain 0.77 35.0 4.33e-01 99.0% 67.2%
1ci3M02 2.40.50.100 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › RNA polymerase II/Efflux pump adaptor protein, barrel-sandwich hybrid domain 0.75 35.0 4.47e-01 99.0% 75.9%
1rl2A01 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.70 31.0 4.04e-01 99.0% 73.2%
4f98A00 2.30.140.50 Mainly Beta › Roll › Spermidine Synthase; Chain: A, domain 2 › Protein of unknown function DUF2790 0.67 30.0 3.78e-01 70.0% 69.4%
1jnrB02 6.20.260.10 Special › Other non-globular › Signal recognition particle alu RNA binding heterodimer, srp9/1 › Adenylylsulphate reductase, beta subunit, C-terminal domain 0.66 29.0 3.22e-01 72.0% 48.2%
2xcmC00 2.60.40.790 Mainly Beta › Sandwich › Immunoglobulin-like › 0.56 31.0 3.28e-01 99.0% 58.7%
6gbuD00 2.30.30.40 Mainly Beta › Roll › SH3 type barrels. › SH3 Domains 0.55 25.0 3.03e-01 92.0% 59.4%
1b69A00 3.30.160.60 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › Classic Zinc Finger 0.55 32.0 3.67e-01 97.0% 81.2%
1n02A00 2.30.60.10 Mainly Beta › Roll › HIV-inactivating Protein, Cyanovirin-n › Cyanovirin-N 0.54 45.0 4.50e-01 96.0% 88.2%
2jzkA00 2.30.60.10 Mainly Beta › Roll › HIV-inactivating Protein, Cyanovirin-n › Cyanovirin-N 0.53 44.0 4.43e-01 95.0% 89.3%
3c96A01 3.50.50.60 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain 0.53 41.0 3.43e-01 82.0% 67.3%
3nixB00 3.50.50.60 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain 0.53 40.0 2.68e-01 81.0% 52.7%
2jzlA00 2.30.60.10 Mainly Beta › Roll › HIV-inactivating Protein, Cyanovirin-n › Cyanovirin-N 0.52 45.0 4.40e-01 95.0% 89.2%
1vqwA01 3.50.50.60 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain 0.51 38.0 2.71e-01 80.0% 44.2%
2zgyA01 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.50 43.0 3.57e-01 99.0% 52.8%
1mbyA00 2.40.50.930 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.50 34.0 3.76e-01 100.0% 94.7%
ECOD (38)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
5068388 2.4.1.0 ↗ beta barrels › OB-fold › MOP-like › MOP-like 0.80 33.0 4.48e-01 99.0% 72.7%
11143 2484.1.1.34 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DNA_pol_B_exo1 0.79 72.0 4.80e-01 100.0% 26.7%
4949765 2.1.1.0 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.77 70.0 5.86e-01 99.0% 84.8%
4129953 325.1.7.3 ↗ a+b complex topology › alpha/beta-Hammerhead/Barrel-sandwich hybrid › alpha/beta-Hammerhead/Barrel-sandwich hybrid › Single hybrid motif › Apocytochr_F_C 0.76 35.0 4.26e-01 99.0% 67.7%
3411042 4.8.1.0 ↗ beta barrels › SH3 › Chromo domain-like › Chromo domain-like 0.75 33.0 4.18e-01 93.0% 68.3%
4502878 325.1.7.3 ↗ a+b complex topology › alpha/beta-Hammerhead/Barrel-sandwich hybrid › alpha/beta-Hammerhead/Barrel-sandwich hybrid › Single hybrid motif › Apocytochr_F_C 0.75 36.0 4.54e-01 99.0% 76.7%
4982659 2484.1.1.34 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DNA_pol_B_exo1 0.74 67.0 4.57e-01 100.0% 92.3%
4927935 2.1.1.0 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.73 36.0 4.15e-01 97.0% 64.0%
5076410 2484.1.1.34 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DNA_pol_B_exo1 0.71 64.0 4.29e-01 99.0% 88.4%
4255589 218.1.1.8 ↗ a+b two layers › Enolase-N/ribosomal protein › Enolase N-terminal domain-like › Enolase N-terminal domain-like › HrcA 0.70 39.0 4.00e-01 100.0% 55.0%
3981607 3816.1.1.1 ↗ beta barrels › Polymyxin B resistance protein › Polymyxin B resistance protein › Polymyxin B resistance protein › PmrD 0.69 37.0 4.18e-01 97.0% 67.5%
3719687 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.69 37.0 4.24e-01 96.0% 70.7%
4026408 4.1.1.219 ↗ beta barrels › SH3 › SH3 › SH3 › LSM12_LSM 0.67 31.0 3.15e-01 95.0% 42.0%
4927362 802.1.1.0 ↗ a+b two layers › Hypothetical protein TM0160 › Hypothetical protein TM0160 › Hypothetical protein TM0160 0.67 32.0 4.40e-01 92.0% 97.8%
5010537 319.1.1.0 ↗ beta sandwiches › HSP20-like › HSP20-like chaperones › HSP20-like chaperones 0.67 35.0 3.89e-01 99.0% 63.3%
1178369 705.1.1.1 ↗ beta duplicates or obligate multimers › Cyanovirin-N › Cyanovirin-N › Cyanovirin-N › CVNH 0.66 31.0 4.28e-01 82.0% 89.8%
3928430 4.1.1.223 ↗ beta barrels › SH3 › SH3 › SH3 › KIF2A-like_1st 0.65 32.0 3.76e-01 83.0% 67.1%
3754695 319.1.1.0 ↗ beta sandwiches › HSP20-like › HSP20-like chaperones › HSP20-like chaperones 0.65 34.0 3.21e-01 99.0% 40.8%
3575385 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.64 33.0 3.39e-01 95.0% 50.0%
3991073 4.8.1.0 ↗ beta barrels › SH3 › Chromo domain-like › Chromo domain-like 0.64 30.0 3.97e-01 97.0% 81.8%
4028996 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.63 35.0 3.04e-01 95.0% 37.2%
3629974 220.1.1.52 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › SNX17_FERM_C 0.62 34.0 3.41e-01 97.0% 53.0%
3975926 2.4.1.17 ↗ beta barrels › OB-fold › MOP-like › MOP-like › DUF7765 0.61 38.0 4.12e-01 97.0% 74.1%
4077485 325.1.7.0 ↗ a+b complex topology › alpha/beta-Hammerhead/Barrel-sandwich hybrid › alpha/beta-Hammerhead/Barrel-sandwich hybrid › Single hybrid motif 0.60 30.0 3.51e-01 99.0% 69.2%
4581503 391.1.2.3 ↗ few secondary structure elements › Fibronectin type I module-like › Fibronectin type I module-like › VWC domain-related › SVWC 0.58 30.0 3.38e-01 85.0% 63.7%
4236690 391.1.2.0 ↗ few secondary structure elements › Fibronectin type I module-like › Fibronectin type I module-like › VWC domain-related 0.58 30.0 3.51e-01 85.0% 68.9%
3398908 391.1.2.0 ↗ few secondary structure elements › Fibronectin type I module-like › Fibronectin type I module-like › VWC domain-related 0.56 33.0 3.82e-01 73.0% 81.4%
4020029 2003.1.3.26 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › Nucleotide-binding domain › FMO-like, NAD_binding_8 0.56 43.0 2.68e-01 81.0% 63.8%
3961395 2003.1.2.6 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › FAD/NAD(P)-binding domain › FMO-like,NAD_binding_8 0.56 42.0 2.71e-01 81.0% 74.0%
5064060 896.1.1.4 ↗ a+b two layers › SRP9/14-like › Signal recognition particle alu RNA binding heterodimer SRP9/14-related › Signal recognition particle alu RNA binding heterodimer SRP9/14-related › DDE_Tnp_IS66 0.56 32.0 3.63e-01 100.0% 78.6%
3924597 330.16.1.0 ↗ a+b two layers › dsRBD-like › ODA16 N-terminal domain › ODA16 N-terminal domain 0.56 32.0 3.80e-01 100.0% 82.9%
4275948 220.1.1.52 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › SNX17_FERM_C 0.55 35.0 3.29e-01 97.0% 53.3%
3736330 2003.1.2.6 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › FAD/NAD(P)-binding domain › FMO-like,NAD_binding_8 0.55 41.0 2.62e-01 81.0% 69.7%
3607454 220.1.1.306 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › PH_22 0.53 36.0 3.65e-01 96.0% 70.0%
2983288 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.52 33.0 3.52e-01 92.0% 71.9%
4408024 325.1.7.3 ↗ a+b complex topology › alpha/beta-Hammerhead/Barrel-sandwich hybrid › alpha/beta-Hammerhead/Barrel-sandwich hybrid › Single hybrid motif › Apocytochr_F_C 0.52 28.0 3.31e-01 96.0% 81.7%
4947406 2484.4.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Nitrogenase accessory factor-like › Nitrogenase accessory factor-like 0.52 34.0 3.33e-01 97.0% 59.1%
223811 3583.1.1.1 ↗ few secondary structure elements › FusB family Zn-binding domain › FusB family Zn-binding domain › FusB family Zn-binding domain › FBP_C 0.51 39.0 3.64e-01 99.0% 66.1%
D2 high residues 108-321
PDB
Domain cluster: rep: DNA_polymerase_catalytic_subunit__YP_401712__Human_gammaherpesvirus_4__10376__D288-457
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF03104.26 best DNA_pol_B_exo1 47.8 1.70e-12 77.6% 62.4%
CATH (12)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1q8iA03 3.30.420.10 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Ribonuclease H-like superfamily/Ribonuclease H 0.88 73.0 7.90e-01 100.0% 98.9%
1noyB02 3.30.420.10 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Ribonuclease H-like superfamily/Ribonuclease H 0.87 85.0 8.34e-01 100.0% 98.2%
1d5aA02 3.30.420.10 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Ribonuclease H-like superfamily/Ribonuclease H 0.86 74.0 7.37e-01 100.0% 87.6%
1s5jA02 3.30.420.10 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Ribonuclease H-like superfamily/Ribonuclease H 0.85 75.0 7.88e-01 98.6% 99.5%
2gv9A03 3.30.420.10 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Ribonuclease H-like superfamily/Ribonuclease H 0.83 80.0 7.96e-01 100.0% 99.1%
3iayA03 3.30.420.10 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Ribonuclease H-like superfamily/Ribonuclease H 0.83 79.0 7.93e-01 100.0% 98.1%
2e6mA00 3.30.420.10 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Ribonuclease H-like superfamily/Ribonuclease H 0.80 55.0 5.89e-01 100.0% 79.0%
4fvmA03 3.30.420.10 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Ribonuclease H-like superfamily/Ribonuclease H 0.78 74.0 7.19e-01 100.0% 97.9%
4qclA03 3.30.420.10 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Ribonuclease H-like superfamily/Ribonuclease H 0.77 74.0 6.71e-01 100.0% 80.1%
3ctzA01 3.40.350.10 Alpha Beta › 3-Layer(aba) Sandwich › Creatine Amidinohydrolase; Chain A, domain 1 › Creatinase/prolidase N-terminal domain 0.59 36.0 4.22e-01 82.7% 83.7%
4tkzA00 3.40.50.510 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Phosphotransferase system, mannose-type IIA component 0.54 28.0 3.54e-01 100.0% 81.5%
4rxmA01 3.40.50.2300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Response regulator 0.51 29.0 3.70e-01 83.6% 93.8%
ECOD (68)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4939488 2484.1.1.34 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DNA_pol_B_exo1 0.93 79.0 6.92e-01 100.0% 63.4%
11143 2484.1.1.34 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DNA_pol_B_exo1 0.90 88.0 7.00e-01 100.0% 61.1%
5017082 2484.1.1.34 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DNA_pol_B_exo1 0.90 76.0 6.23e-01 100.0% 52.4%
4972474 2484.1.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.87 80.0 5.37e-01 100.0% 29.9%
4953654 2484.1.1.34 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DNA_pol_B_exo1 0.86 77.0 6.39e-01 100.0% 57.6%
5056578 2484.1.1.34 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DNA_pol_B_exo1 0.86 76.0 6.68e-01 100.0% 66.1%
4934764 2484.1.1.34 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DNA_pol_B_exo1 0.86 76.0 6.19e-01 100.0% 53.7%
5027090 2484.1.1.34 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DNA_pol_B_exo1 0.86 77.0 7.32e-01 100.0% 80.8%
4649118 2484.1.1.197 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DNA_pol_B_exo1, DNA_pol_B_exo2 0.86 79.0 6.20e-01 100.0% 51.4%
5067181 2484.1.1.34 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DNA_pol_B_exo1 0.85 77.0 6.00e-01 100.0% 48.2%
4932479 2484.1.1.34 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DNA_pol_B_exo1 0.85 75.0 6.51e-01 100.0% 63.6%
None — 0.85 78.0 5.04e-01 100.0% 24.3%
5035328 2484.1.1.34 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DNA_pol_B_exo1 0.85 74.0 7.13e-01 100.0% 81.3%
3802227 2484.1.1.197 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DNA_pol_B_exo1, DNA_pol_B_exo2 0.85 79.0 5.03e-01 100.0% 23.9%
3266685 2484.1.1.34 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DNA_pol_B_exo1 0.85 78.0 4.71e-01 100.0% 17.5%
None — 0.85 78.0 5.07e-01 100.0% 25.4%
3605750 2484.1.1.34 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DNA_pol_B_exo1 0.85 78.0 4.94e-01 100.0% 22.3%
5069333 2484.1.1.34 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DNA_pol_B_exo1 0.85 69.0 5.53e-01 100.0% 47.2%
3584771 2484.1.1.197 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DNA_pol_B_exo1, DNA_pol_B_exo2 0.85 78.0 6.86e-01 100.0% 68.8%
3619240 304.48.1.59 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › DNA_pol_B_exo1, DNA_pol_B_exo2 0.85 78.0 5.12e-01 100.0% 26.7%
3798596 2484.1.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.85 78.0 7.66e-01 100.0% 90.2%
4879892 2.1.1.25 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › DNA_pol_B_exo1 0.85 70.0 7.00e-01 87.4% 83.4%
3683989 2484.1.1.34 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DNA_pol_B_exo1 0.85 71.0 7.23e-01 100.0% 88.1%
5005285 2484.1.1.34 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DNA_pol_B_exo1 0.85 79.0 7.58e-01 100.0% 87.7%
5029084 2484.1.1.34 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DNA_pol_B_exo1 0.84 75.0 7.35e-01 100.0% 87.1%
4805117 2484.1.1.161 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.84 55.0 5.48e-01 71.5% 64.1%
3558197 2484.1.1.34 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DNA_pol_B_exo1 0.84 81.0 7.66e-01 100.0% 87.8%
3628202 304.48.1.0 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like 0.84 81.0 5.47e-01 100.0% 32.5%
3368695 2484.1.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.84 81.0 6.40e-01 100.0% 55.1%
5076614 2484.1.1.328 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DNA_pol_B 0.84 77.0 5.28e-01 100.0% 32.2%
None — 0.84 81.0 5.51e-01 100.0% 33.6%
4218318 2484.1.1.295 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DNA_pol_B_exo1, RNase_H_2 0.83 76.0 6.46e-01 100.0% 62.8%
1822623 2484.1.1.34 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DNA_pol_B_exo1 0.83 80.0 7.26e-01 100.0% 79.9%
4983222 2484.1.1.34 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DNA_pol_B_exo1 0.83 76.0 6.20e-01 100.0% 56.1%
5051934 2484.1.1.34 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DNA_pol_B_exo1 0.83 79.0 7.79e-01 100.0% 93.8%
4972218 2484.1.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.83 76.0 5.59e-01 100.0% 40.6%
4948574 2484.1.1.34 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DNA_pol_B_exo1 0.83 75.0 5.93e-01 100.0% 50.2%
4022366 2484.1.1.161 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.83 80.0 5.48e-01 100.0% 33.7%
3797773 2484.1.1.34 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DNA_pol_B_exo1 0.83 80.0 7.01e-01 100.0% 75.9%
None — 0.83 80.0 6.48e-01 100.0% 59.5%
3710418 2484.1.1.34 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DNA_pol_B_exo1 0.83 80.0 6.41e-01 100.0% 57.9%
None — 0.83 80.0 5.47e-01 100.0% 33.9%
4951831 2484.1.1.68 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › RNase_H_2 0.82 63.0 5.49e-01 100.0% 55.1%
3471270 2484.1.1.34 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DNA_pol_B_exo1 0.82 77.0 6.64e-01 97.7% 67.1%
5050645 2484.1.1.68 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › RNase_H_2 0.82 68.0 6.43e-01 100.0% 73.2%
3794217 2.1.1.0 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.82 79.0 5.70e-01 100.0% 42.3%
3404726 2484.1.1.34 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DNA_pol_B_exo1 0.82 79.0 6.94e-01 100.0% 76.3%
4975018 2484.1.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.82 55.0 5.78e-01 100.0% 74.4%
4891100 2484.1.1.161 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.82 74.0 6.82e-01 94.9% 77.2%
3684974 304.48.1.0 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like 0.82 78.0 5.34e-01 100.0% 34.7%
3206356 304.114.1.0 ↗ a+b two layers › Alpha-beta plaits › Family B DNA polymerase insertion domain › Family B DNA polymerase insertion domain 0.81 78.0 6.17e-01 100.0% 57.2%
3784398 2484.1.1.34 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DNA_pol_B_exo1 0.81 78.0 7.30e-01 100.0% 88.6%
3705562 304.48.1.0 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like 0.81 78.0 5.32e-01 100.0% 32.8%
3825992 2484.1.1.34 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DNA_pol_B_exo1 0.81 78.0 7.35e-01 100.0% 88.0%
5000651 2484.1.1.34 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DNA_pol_B_exo1 0.81 78.0 6.19e-01 100.0% 57.7%
4023334 2484.1.1.34 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DNA_pol_B_exo1 0.81 77.0 6.96e-01 100.0% 81.8%
3932596 2484.1.1.34 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DNA_pol_B_exo1 0.80 77.0 7.44e-01 100.0% 90.6%
4929239 2484.1.1.34 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DNA_pol_B_exo1 0.80 77.0 6.54e-01 100.0% 65.8%
4997716 2484.1.1.34 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DNA_pol_B_exo1 0.80 72.0 7.11e-01 100.0% 88.9%
3496492 2484.1.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.79 77.0 6.78e-01 100.0% 77.2%
3192875 304.114.1.0 ↗ a+b two layers › Alpha-beta plaits › Family B DNA polymerase insertion domain › Family B DNA polymerase insertion domain 0.79 76.0 5.63e-01 100.0% 44.3%
3606428 2484.1.1.34 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DNA_pol_B_exo1 0.79 76.0 7.32e-01 100.0% 91.1%
4323378 2484.1.1.34 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DNA_pol_B_exo1 0.77 74.0 6.56e-01 100.0% 78.6%
4874454 2.1.1.25 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › DNA_pol_B_exo1 0.77 74.0 6.76e-01 100.0% 80.8%
5041307 2484.1.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.76 48.0 4.43e-01 73.4% 51.5%
3089543 2484.1.1.34 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DNA_pol_B_exo1 0.73 58.0 5.93e-01 82.2% 92.4%
4982339 2484.1.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.65 38.0 3.28e-01 73.4% 38.4%
3988172 2010.1.1.3 ↗ a/b three-layered sandwiches › EDD domain › EDD domain › EDD domain › EIIA-man 0.54 28.0 3.47e-01 100.0% 77.8%
D3 high residues 360-566
PDB
Domain cluster: representative
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF00136.27 best DNA_pol_B 61.6 8.90e-17 99.0% 35.8%
CATH (19)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3rkoG00 1.10.287.3510 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.83 24.0 3.57e-01 81.2% 56.0%
4fxdA04 3.90.1600.10 Alpha Beta › Alpha-Beta Complex › Palm domain of DNA polymerase › B family DNA polymerase, palm domain 0.82 47.0 5.52e-01 92.3% 77.1%
1x4tA01 1.10.287.660 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.82 24.0 5.00e-01 86.5% 100.0%
2crbA00 1.20.58.80 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphotransferase system, lactose/cellobiose-type IIA subunit 0.74 25.0 3.81e-01 87.9% 69.1%
1zpyA00 6.10.140.1960 Special › Helix non-globular › Helix Hairpins › 0.68 31.0 4.75e-01 96.1% 100.0%
2lm9A00 1.20.58.970 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.66 28.0 4.20e-01 86.0% 87.5%
6xz3A01 1.20.120.230 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Alpha-catenin/vinculin-like 0.66 28.0 3.67e-01 86.5% 69.2%
3bvoA02 1.20.1280.20 Mainly Alpha › Up-down Bundle › Monooxygenase › HscB, C-terminal domain 0.61 24.0 3.52e-01 87.4% 80.2%
2ddhA04 1.20.140.10 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Butyryl-CoA Dehydrogenase, subunit A, domain 3 0.61 31.0 3.74e-01 74.9% 72.7%
4m70I00 1.20.5.4130 Mainly Alpha › Up-down Bundle › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › 0.58 28.0 3.91e-01 70.5% 89.8%
1gqeA03 3.30.160.20 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.55 24.0 3.70e-01 90.3% 100.0%
2zueA03 1.10.730.10 Mainly Alpha › Orthogonal Bundle › Isoleucyl-tRNA Synthetase; Domain 1 › Isoleucyl-tRNA Synthetase; Domain 1 0.54 26.0 3.35e-01 84.5% 78.2%
4etrB00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.53 27.0 3.49e-01 87.9% 82.8%
3i9wA00 1.20.58.920 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.52 31.0 2.84e-01 76.3% 43.7%
2wzkA01 1.20.1310.10 Mainly Alpha › Up-down Bundle › 5 helical Cullin repeat like › Cullin Repeats 0.51 28.0 3.38e-01 92.8% 81.1%
3t6gB00 1.20.120.230 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Alpha-catenin/vinculin-like 0.51 31.0 3.84e-01 79.7% 94.0%
4w8pA02 1.20.120.230 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Alpha-catenin/vinculin-like 0.51 30.0 3.77e-01 82.1% 93.8%
1wkbA03 1.10.730.10 Mainly Alpha › Orthogonal Bundle › Isoleucyl-tRNA Synthetase; Domain 1 › Isoleucyl-tRNA Synthetase; Domain 1 0.51 26.0 3.38e-01 80.2% 85.1%
1xwjA01 1.20.120.230 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Alpha-catenin/vinculin-like 0.50 31.0 3.81e-01 81.2% 96.2%
ECOD (44)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4590991 192.6.1.0 ↗ alpha bundles › Long alpha-hairpin › Epsilon subunit of F1F0-ATP synthase C-terminal domain › Epsilon subunit of F1F0-ATP synthase C-terminal domain 0.91 21.0 5.27e-01 78.3% 97.9%
3558196 304.48.1.3 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › DNA_pol_B 0.87 75.0 6.57e-01 100.0% 63.9%
None — 0.86 75.0 5.08e-01 100.0% 28.9%
3628202 304.48.1.0 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like 0.86 75.0 5.00e-01 100.0% 27.7%
None — 0.86 75.0 5.05e-01 100.0% 29.1%
4977369 304.48.1.3 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › DNA_pol_B 0.83 74.0 6.83e-01 100.0% 75.2%
3480546 304.48.1.0 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like 0.83 72.0 6.52e-01 94.7% 69.4%
4029141 304.48.1.3 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › DNA_pol_B 0.83 65.0 5.98e-01 95.2% 64.2%
4932480 304.48.1.3 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › DNA_pol_B 0.83 65.0 6.34e-01 93.2% 75.0%
4981193 304.48.1.0 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like 0.82 71.0 6.51e-01 100.0% 71.8%
4022366 2484.1.1.161 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.81 72.0 4.88e-01 100.0% 29.8%
5041308 304.48.1.3 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › DNA_pol_B 0.81 65.0 5.87e-01 93.2% 63.3%
4942685 304.48.1.3 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › DNA_pol_B 0.81 72.0 5.27e-01 100.0% 39.2%
4970593 304.48.1.0 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like 0.81 72.0 6.63e-01 100.0% 75.6%
4956224 304.48.1.3 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › DNA_pol_B 0.80 70.0 6.65e-01 100.0% 78.7%
3089539 304.48.1.3 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › DNA_pol_B 0.80 74.0 6.46e-01 95.2% 76.3%
5025209 304.48.1.3 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › DNA_pol_B 0.80 65.0 6.18e-01 97.1% 73.2%
3801150 304.48.1.3 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › DNA_pol_B 0.80 70.0 6.10e-01 96.1% 63.4%
5017083 304.48.1.3 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › DNA_pol_B 0.79 73.0 6.50e-01 100.0% 72.6%
4405472 4970.1.1.1 ↗ alpha bundles › fingers domain in bacteriophage RB69-like DNA polymerase I › fingers domain in bacteriophage RB69-like DNA polymerase I › fingers domain in bacteriophage RB69-like DNA polymerase I › DNA_pol_B 0.78 41.0 5.30e-01 79.2% 85.6%
4959101 304.48.1.3 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › DNA_pol_B 0.78 69.0 6.42e-01 97.6% 76.7%
5012084 304.48.1.3 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › DNA_pol_B 0.78 64.0 6.17e-01 96.6% 77.3%
4972474 2484.1.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.77 69.0 4.64e-01 100.0% 28.3%
5019480 304.48.1.3 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › DNA_pol_B 0.77 73.0 4.79e-01 100.0% 27.9%
5044377 304.48.1.3 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › DNA_pol_B 0.77 66.0 6.20e-01 97.1% 75.1%
5005286 304.48.1.3 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › DNA_pol_B 0.77 72.0 6.19e-01 100.0% 66.2%
4983223 304.48.1.3 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › DNA_pol_B 0.76 64.0 6.00e-01 98.6% 72.8%
3597965 304.48.1.0 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like 0.75 64.0 5.94e-01 93.2% 73.1%
5073476 304.48.1.3 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › DNA_pol_B 0.75 60.0 5.74e-01 97.1% 72.8%
3831499 304.48.1.63 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › DNA_pol_B, DUF1744 0.72 69.0 4.58e-01 100.0% 47.0%
3317444 304.48.1.3 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › DNA_pol_B 0.72 69.0 5.12e-01 100.0% 75.1%
3586032 605.1.1.237 ↗ alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase › Patched 0.72 29.0 4.13e-01 84.5% 75.2%
4996404 304.48.1.0 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like 0.71 51.0 5.94e-01 82.6% 99.3%
3918098 604.6.1.57 ↗ alpha bundles › Spectrin repeat-like › GAT-like domain › GAT-like domain › Not3 0.70 27.0 3.92e-01 89.9% 73.3%
4276636 304.48.1.3 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › DNA_pol_B 0.69 66.0 5.50e-01 100.0% 70.6%
3586442 604.6.1.1 ↗ alpha bundles › Spectrin repeat-like › GAT-like domain › GAT-like domain › GAT 0.68 26.0 3.61e-01 85.0% 67.3%
3229885 4044.1.1.0 ↗ alpha bundles › Helical bundle domain in prismane-like proteins › Helical bundle domain in prismane-like proteins › Helical bundle domain in prismane-like proteins 0.66 29.0 4.20e-01 73.4% 87.8%
3528863 604.6.1.1 ↗ alpha bundles › Spectrin repeat-like › GAT-like domain › GAT-like domain › GAT 0.66 25.0 3.43e-01 87.9% 64.3%
3467886 192.6.1.5 ↗ alpha bundles › Long alpha-hairpin › Epsilon subunit of F1F0-ATP synthase C-terminal domain › Epsilon subunit of F1F0-ATP synthase C-terminal domain › RWP-RK 0.62 31.0 4.27e-01 81.2% 93.3%
4672676 101.1.9.17 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain › MerR_1 0.58 28.0 3.44e-01 87.9% 70.0%
5081365 601.33.1.0 ↗ alpha bundles › Four-helical up-and-down bundle › CHAD domain › CHAD domain 0.57 31.0 3.67e-01 79.2% 74.5%
3745786 633.6.1.2 ↗ alpha bundles › Bromodomain-like › Acyl-CoA dehydrogenase C-terminal domain-like › Acyl-CoA dehydrogenase C-terminal domain-like › ACOX 0.57 32.0 3.16e-01 75.8% 51.2%
4954644 192.7.1.0 ↗ alpha bundles › Long alpha-hairpin › tRNA-binding arm › tRNA-binding arm 0.56 28.0 3.74e-01 88.4% 85.8%
3241046 633.6.1.2 ↗ alpha bundles › Bromodomain-like › Acyl-CoA dehydrogenase C-terminal domain-like › Acyl-CoA dehydrogenase C-terminal domain-like › ACOX 0.55 31.0 3.35e-01 82.6% 63.4%