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MH059634.1__AWD90211.1__X__00018

Bact-Vir

MH059634.1__AWD90211.1__X__00018

Identity

Accession:
MH059634 ↗
Kingdom:
phage

Quality

91.3 mean pLDDT

Cluster

Singleton — not in a non-trivial cluster

3D Structure

Domains

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

D1 high residues 14-26_103-290
PDB
Domain cluster: representative
Pfam (2)
AccessionNameScoreE-valueQ covHMM cov
PF13482.13 best RNase_H_2 26.9 6.00e-06 97.0% 63.6%
PF10108.16 DNA_pol_B_exo2 44.1 2.80e-11 83.6% 62.7%
CATH (16)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
4qclA03 3.30.420.10 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Ribonuclease H-like superfamily/Ribonuclease H 0.76 73.0 6.46e-01 100.0% 83.0%
2gv9A03 3.30.420.10 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Ribonuclease H-like superfamily/Ribonuclease H 0.75 71.0 6.82e-01 98.0% 100.0%
1q8iA03 3.30.420.10 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Ribonuclease H-like superfamily/Ribonuclease H 0.74 66.0 6.86e-01 98.0% 100.0%
1ewqA02 3.30.420.110 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › MutS, connector domain 0.72 38.0 4.94e-01 100.0% 87.3%
1y97A01 3.30.420.10 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Ribonuclease H-like superfamily/Ribonuclease H 0.67 59.0 6.00e-01 100.0% 92.5%
3hrgA02 3.30.420.260 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Protein of unknown function DUF3822, C-terminal domain 0.64 34.0 4.30e-01 74.1% 86.8%
7febA03 3.40.50.12790 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › FHIPEP family, domain 4 0.64 29.0 4.21e-01 98.5% 93.5%
1j09A01 3.40.50.620 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › HUPs 0.62 28.0 3.57e-01 99.5% 68.6%
1neiA00 3.30.160.220 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › YoaG 0.62 19.0 3.37e-01 93.0% 86.7%
3lwaA01 3.40.30.10 Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › Glutaredoxin 0.58 31.0 3.47e-01 98.0% 63.6%
4qysA02 3.40.50.1100 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.58 25.0 3.39e-01 98.0% 75.0%
4ep4A00 3.30.420.10 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Ribonuclease H-like superfamily/Ribonuclease H 0.55 42.0 4.61e-01 99.5% 96.4%
3bh1A01 3.10.630.10 Alpha Beta › Roll › dip2346 fold like › dip2346 domain like 0.52 35.0 3.29e-01 100.0% 55.2%
1asuA00 3.30.420.10 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Ribonuclease H-like superfamily/Ribonuclease H 0.51 36.0 3.95e-01 96.0% 89.5%
1qyiA01 3.40.50.1000 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › HAD superfamily/HAD-like 0.51 35.0 3.64e-01 99.5% 76.0%
2jaxA01 3.40.50.620 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › HUPs 0.50 31.0 3.71e-01 94.5% 94.4%
ECOD (40)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4951831 2484.1.1.68 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › RNase_H_2 0.81 70.0 5.91e-01 100.0% 58.0%
5080048 2484.1.1.68 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › RNase_H_2 0.81 68.0 7.34e-01 99.5% 99.4%
5028008 2484.1.1.132 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DNA_pol_B_exo2 0.80 74.0 7.65e-01 99.5% 100.0%
4990754 2484.1.1.34 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DNA_pol_B_exo1 0.78 72.0 6.86e-01 100.0% 84.9%
5076410 2484.1.1.34 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DNA_pol_B_exo1 0.78 71.0 5.64e-01 100.0% 51.4%
3951189 2484.1.1.68 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › RNase_H_2 0.76 72.0 6.88e-01 100.0% 87.0%
5043498 2484.1.1.34 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DNA_pol_B_exo1 0.75 72.0 5.61e-01 100.0% 86.4%
4432985 2484.1.1.13 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › RNase_T 0.75 61.0 6.21e-01 100.0% 85.0%
5056578 2484.1.1.34 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DNA_pol_B_exo1 0.74 71.0 6.13e-01 100.0% 69.8%
4932453 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 72.0 5.96e-01 100.0% 97.2%
4944521 2484.1.1.0 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.74 70.0 6.89e-01 98.0% 99.5%
4997716 2484.1.1.34 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DNA_pol_B_exo1 0.74 71.0 6.78e-01 100.0% 92.4%
None 0.74 70.0 4.53e-01 99.5% 26.2%
3266685 2484.1.1.34 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DNA_pol_B_exo1 0.74 71.0 4.24e-01 100.0% 33.5%
4966854 2484.1.1.0 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.74 71.0 5.64e-01 100.0% 84.4%
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 0.73 70.0 5.46e-01 100.0% 88.9%
None 0.73 70.0 4.49e-01 100.0% 48.7%
3798596 2484.1.1.0 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.73 70.0 6.75e-01 100.0% 94.2%
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 0.73 70.0 6.05e-01 100.0% 71.9%
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 0.73 70.0 4.46e-01 100.0% 47.1%
3682884 2484.1.1.13 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › RNase_T 0.71 62.0 5.94e-01 100.0% 80.9%
3683989 2484.1.1.34 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DNA_pol_B_exo1 0.70 64.0 6.37e-01 100.0% 91.4%
1138613 3255.1.1.1 a/b three-layered sandwiches › a/b domain in flagellar biosynthesis protein flhA › a/b domain in flagellar biosynthesis protein flhA › a/b domain in flagellar biosynthesis protein flhA › FHIPEP 0.68 31.0 4.35e-01 99.5% 86.9%
3822649 2484.1.1.13 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › RNase_T 0.68 58.0 5.72e-01 100.0% 84.2%
5072204 2008.1.1.0 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.68 26.0 3.44e-01 100.0% 61.8%
4632177 3255.1.1.1 a/b three-layered sandwiches › a/b domain in flagellar biosynthesis protein flhA › a/b domain in flagellar biosynthesis protein flhA › a/b domain in flagellar biosynthesis protein flhA › FHIPEP 0.67 31.0 4.50e-01 99.0% 93.7%
2971782 2484.1.1.39 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Fumble 0.66 35.0 4.56e-01 96.0% 90.4%
2410148 2484.1.1.0 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.66 61.0 5.88e-01 100.0% 87.4%
1144832 2484.1.1.63 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DUF3822 0.64 33.0 4.54e-01 74.6% 99.0%
3851543 2484.1.1.13 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › RNase_T 0.64 61.0 5.90e-01 100.0% 91.4%
3402227 2484.1.1.0 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.64 61.0 5.85e-01 100.0% 89.3%
3614072 2484.1.1.0 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.63 60.0 5.81e-01 99.5% 99.1%
4507260 3255.1.1.1 a/b three-layered sandwiches › a/b domain in flagellar biosynthesis protein flhA › a/b domain in flagellar biosynthesis protein flhA › a/b domain in flagellar biosynthesis protein flhA › FHIPEP 0.63 31.0 4.28e-01 100.0% 91.4%
3968391 3255.1.1.1 a/b three-layered sandwiches › a/b domain in flagellar biosynthesis protein flhA › a/b domain in flagellar biosynthesis protein flhA › a/b domain in flagellar biosynthesis protein flhA › FHIPEP 0.62 31.0 4.26e-01 100.0% 91.4%
3512466 2484.1.1.0 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.58 35.0 4.30e-01 90.0% 93.6%
4087895 2495.1.1.0 a/b three-layered sandwiches › Cell-division inhibitor MinC, N-terminal domain › Cell-division inhibitor MinC, N-terminal domain › Cell-division inhibitor MinC, N-terminal domain 0.57 26.0 3.60e-01 100.0% 88.9%
3953212 2484.1.1.37 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Pan_kinase 0.53 34.0 4.05e-01 99.0% 94.8%
3947532 2005.1.1.0 a/b three-layered sandwiches › HUP domain-like › HUP domains › HUP domains 0.52 30.0 3.70e-01 99.0% 90.8%
3781996 2484.1.1.0 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.51 46.0 3.71e-01 100.0% 55.3%
3934731 2484.1.1.9 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › rve 0.50 35.0 3.79e-01 98.0% 83.5%
D2 high residues 30-100
PDB
Domain cluster: representative
CATH (19)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2riqA01 1.10.20.130 Mainly Alpha › Orthogonal Bundle › Histone, subunit A › 0.68 46.0 4.79e-01 70.4% 83.3%
2rjiA00 1.10.1740.170 Mainly Alpha › Orthogonal Bundle › Rna Polymerase Sigma Factor; Chain: A › Erythrocyte binding antigen 175 region VI 0.66 41.0 3.89e-01 87.3% 53.6%
1omsA00 3.30.70.1050 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Trigger factor ribosome-binding domain 0.62 52.0 4.54e-01 100.0% 60.5%
1xb2B01 1.10.8.10 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › Ubiquitin-associated (UBA) domain 0.62 38.0 4.08e-01 84.5% 73.3%
5ubvA02 1.10.8.60 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › 0.61 36.0 3.68e-01 91.5% 57.7%
7b7tA01 1.20.1270.30 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › 0.58 43.0 3.32e-01 78.9% 86.3%
3smtA02 3.90.1420.10 Alpha Beta › Alpha-Beta Complex › set domain protein methyltransferase, domain 2 › Rubisco LSMT, substrate-binding domain 0.57 46.0 3.54e-01 88.7% 43.9%
2h21A02 3.90.1420.10 Alpha Beta › Alpha-Beta Complex › set domain protein methyltransferase, domain 2 › Rubisco LSMT, substrate-binding domain 0.57 44.0 3.36e-01 83.1% 38.8%
6al9B00 1.20.59.10 Mainly Alpha › Up-down Bundle › Chorismate Mutase Domain, subunit A › Chorismate mutase 0.56 40.0 3.70e-01 98.6% 58.2%
2xokP00 1.20.20.10 Mainly Alpha › Up-down Bundle › F1FO ATP Synthase › F1F0 ATP synthase subunit C 0.56 37.0 3.71e-01 74.6% 66.2%
3s63A00 1.10.225.10 Mainly Alpha › Orthogonal Bundle › NK-Lysin › Saposin-like 0.56 35.0 3.25e-01 80.3% 51.1%
2doeA00 1.10.10.440 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › FF domain 0.56 31.0 3.00e-01 94.4% 45.8%
3bg3A04 1.10.10.60 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Homeodomain-like 0.55 28.0 3.27e-01 88.7% 70.2%
1hciA04 1.20.58.60 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.54 38.0 3.26e-01 80.3% 45.6%
3nrhA00 1.20.120.1550 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Protein of unknown function DUF5063 0.54 45.0 3.48e-01 93.0% 72.2%
2xheA03 3.90.830.10 Alpha Beta › Alpha-Beta Complex › Syntaxin Binding Protein 1; Chain A, domain 2 › Sec1/Munc18 (SM) protein, domain 3a 0.53 39.0 3.38e-01 80.3% 100.0%
3layF00 1.20.120.1490 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › 0.51 37.0 3.62e-01 76.1% 70.5%
2vs0A00 1.10.287.1060 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like 0.51 35.0 3.38e-01 93.0% 63.4%
5gkxA00 3.90.1640.20 Alpha Beta › Alpha-Beta Complex › inorganic pyrophosphatase (n-terminal core) › TON_0340 0.50 40.0 2.85e-01 93.0% 56.0%
ECOD (23)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3198528 130.1.1.16 alpha arrays › LEM/SAP HeH motif-like › LEM/SAP HeH motif › LEM/SAP HeH motif › Ish1 0.67 47.0 5.23e-01 74.6% 100.0%
4569058 105.1.1.8 alpha duplicates or obligate multimers › HLH-like › HLH, helix-loop-helix DNA-binding domain › HLH, helix-loop-helix DNA-binding domain › Kri1 0.63 54.0 4.58e-01 97.2% 91.7%
4638127 306.7.1.1 a+b two layers › Glucose permease domain IIB-like › Trigger factor ribosome-binding domain › Trigger factor ribosome-binding domain › Trigger_N 0.63 53.0 4.61e-01 100.0% 60.0%
3334463 633.1.1.1 alpha bundles › Bromodomain-like › Bromodomain › Bromodomain › Bromodomain 0.61 52.0 4.31e-01 100.0% 99.3%
3504805 3291.1.1.1 alpha bundles › Charged multivesicular body protein 3 (CHMP3)-related › Charged multivesicular body protein 3 (CHMP3)-related › Charged multivesicular body protein 3 (CHMP3)-related › Snf7 0.59 46.0 3.75e-01 85.9% 65.7%
3786373 2004.1.1.59 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › CoaE 0.58 49.0 3.50e-01 98.6% 46.3%
4289692 306.7.1.1 a+b two layers › Glucose permease domain IIB-like › Trigger factor ribosome-binding domain › Trigger factor ribosome-binding domain › Trigger_N 0.58 48.0 4.14e-01 100.0% 57.5%
3734874 101.1.17.2 alpha arrays › HTH › HTH › FF domain › FF 0.58 37.0 3.72e-01 90.1% 65.7%
3272748 148.1.1.4 alpha arrays › Histone-like › Histone-related › Histone › CBFD_NFYB_HMF 0.57 48.0 3.94e-01 97.2% 59.3%
3819026 109.4.1.1273 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_3 0.57 29.0 2.07e-01 91.5% 16.1%
3686642 3755.4.1.0 alpha bundles › YscO-like › Phosphatidylinositol 3-kinase regulatory subunit inter-SH2 domain › Phosphatidylinositol 3-kinase regulatory subunit inter-SH2 domain 0.56 43.0 3.37e-01 83.1% 67.1%
4360723 632.7.1.1 alpha bundles › immunoglobulin/albumin-binding domain-like › Heat shock protein 70kD (HSP70), C-terminal subdomain › Heat shock protein 70kD (HSP70), C-terminal subdomain › HSP70 0.56 41.0 3.85e-01 78.9% 78.9%
3167029 101.1.17.2 alpha arrays › HTH › HTH › FF domain › FF 0.56 35.0 3.71e-01 77.5% 70.8%
3810616 148.1.1.4 alpha arrays › Histone-like › Histone-related › Histone › CBFD_NFYB_HMF 0.55 45.0 3.99e-01 95.8% 69.1%
3168854 4970.1.1.13 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 › zf-C4pol 0.55 37.0 3.20e-01 70.4% 51.4%
4496489 2498.4.1.0 mixed a+b and a/b › Zincin-like › HSP90 C-terminal domain (C-terminal part of Pfam 00183) › HSP90 C-terminal domain (C-terminal part of Pfam 00183) 0.54 39.0 2.85e-01 78.9% 55.6%
4931837 3843.1.1.28 alpha complex topology › NADH-quinone oxidoreductase subunit K › NADH-quinone oxidoreductase subunit K › NADH-quinone oxidoreductase subunit K › MbhD 0.53 37.0 3.73e-01 97.2% 72.9%
3251599 101.1.2.0 alpha arrays › HTH › HTH › winged helix domain 0.53 35.0 3.50e-01 93.0% 64.0%
3742795 7022.1.1.1 alpha bundles › central core domain of D-alanyl transfer protein › central core domain of D-alanyl transfer protein › central core domain of D-alanyl transfer protein › MBOAT 0.53 42.0 3.46e-01 88.7% 65.9%
3415357 2498.5.1.0 mixed a+b and a/b › Zincin-like › GroEL-intermediate domain like › GroEL-intermediate domain like 0.52 45.0 3.13e-01 97.2% 42.5%
5053312 101.1.2.0 alpha arrays › HTH › HTH › winged helix domain 0.51 29.0 2.69e-01 94.4% 37.9%
3855331 101.1.2.0 alpha arrays › HTH › HTH › winged helix domain 0.51 30.0 3.06e-01 93.0% 58.6%
5062726 632.22.1.0 alpha bundles › immunoglobulin/albumin-binding domain-like › Cell division protein EzrA repeats › Cell division protein EzrA repeats 0.50 39.0 3.69e-01 85.9% 69.4%