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MN497415.1__QGH73812.1__X__00021

Bact-Vir

MN497415.1__QGH73812.1__X__00021

Identity

Accession:
MN497415 ↗
Kingdom:
phage

Quality

95.6 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Vibrio_phage_vB_VhaM_VH-8

TaxID: 2660693

Cluster

Singleton — not in a non-trivial cluster

3D Structure

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Domains

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

D1 high residues 104-164
PDB
Domain cluster: representative
CATH (23)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1a62A01 1.10.720.10 Mainly Alpha › Orthogonal Bundle › Transcription Termination Factor Rho, Rna-binding Domain; Chain A, Domain 1 › 0.83 57.0 6.46e-01 72.1% 100.0%
1e7lA02 1.10.720.10 Mainly Alpha › Orthogonal Bundle › Transcription Termination Factor Rho, Rna-binding Domain; Chain A, Domain 1 › 0.82 62.0 6.45e-01 80.3% 94.5%
2n1fA00 1.10.533.10 Mainly Alpha › Orthogonal Bundle › Death Domain, Fas › Death Domain, Fas 0.72 63.0 5.63e-01 100.0% 84.3%
6ncvA00 1.10.533.10 Mainly Alpha › Orthogonal Bundle › Death Domain, Fas › Death Domain, Fas 0.71 62.0 5.47e-01 100.0% 83.5%
3ezqA00 1.10.533.10 Mainly Alpha › Orthogonal Bundle › Death Domain, Fas › Death Domain, Fas 0.69 58.0 4.85e-01 100.0% 66.1%
2mpcA00 1.10.533.10 Mainly Alpha › Orthogonal Bundle › Death Domain, Fas › Death Domain, Fas 0.67 57.0 5.10e-01 98.4% 84.4%
1x6iB00 1.10.150.250 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Flavinator of succinate dehydrogenase 0.66 48.0 4.27e-01 100.0% 54.0%
2p0tA02 1.10.60.30 Mainly Alpha › Orthogonal Bundle › Diphtheria Toxin Repressor; domain 2 › PSPTO4464-like domains 0.65 46.0 4.45e-01 77.0% 98.6%
7fsfA02 3.30.56.80 Alpha Beta › 2-Layer Sandwich › Phenylalanyl-tRNA Synthetase; Chain B, domain 1 › 0.63 49.0 4.80e-01 91.8% 76.8%
3e9lA02 1.20.80.40 Mainly Alpha › Up-down Bundle › Acyl-CoA Binding Protein › Prp8 RNase H domain, fingers region 0.61 51.0 4.47e-01 100.0% 61.1%
4p17A02 1.10.8.270 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › putative rabgap domain of human tbc1 domain family member 14 like domains 0.61 44.0 3.65e-01 96.7% 42.7%
3fghA00 1.10.30.10 Mainly Alpha › Orthogonal Bundle › DNA Binding (I), subunit A › High mobility group box domain 0.61 42.0 4.13e-01 90.2% 65.7%
1t9kA01 1.20.120.420 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › translation initiation factor eif-2b, domain 1 0.58 43.0 3.39e-01 82.0% 92.1%
7ys6A01 1.20.1070.10 Mainly Alpha › Up-down Bundle › Rhopdopsin 7-helix transmembrane proteins › Rhodopsin 7-helix transmembrane proteins 0.56 49.0 3.21e-01 100.0% 36.3%
3errA01 1.20.920.60 Mainly Alpha › Up-down Bundle › Histone Acetyltransferase; Chain A › 0.56 46.0 3.28e-01 96.7% 46.2%
2oqoA00 1.10.3810.10 Mainly Alpha › Orthogonal Bundle › Penicillin binding protein transpeptidase fold › Biosynthetic peptidoglycan transglycosylase-like 0.56 48.0 3.48e-01 98.4% 38.7%
2ruhA00 1.10.245.10 Mainly Alpha › Orthogonal Bundle › MDM2 › SWIB/MDM2 domain 0.56 47.0 3.79e-01 100.0% 86.3%
3hzsA00 1.10.3810.10 Mainly Alpha › Orthogonal Bundle › Penicillin binding protein transpeptidase fold › Biosynthetic peptidoglycan transglycosylase-like 0.56 49.0 3.39e-01 100.0% 35.4%
3cbuA02 1.20.1050.10 Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › 0.54 36.0 2.93e-01 70.5% 70.1%
7e84A03 1.10.287.70 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.54 42.0 3.43e-01 86.9% 60.2%
5dicA00 1.10.238.20 Mainly Alpha › Orthogonal Bundle › Recoverin; domain 1 › Pheromone/general odorant binding protein domain 0.53 35.0 2.93e-01 70.5% 69.6%
1e1dA02 1.20.1270.20 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › 0.52 44.0 4.02e-01 100.0% 72.6%
2qffA00 1.20.1270.10 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › 0.51 43.0 4.08e-01 100.0% 82.4%
ECOD (33)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3737653 130.1.1.0 ↗ alpha arrays › LEM/SAP HeH motif-like › LEM/SAP HeH motif › LEM/SAP HeH motif 0.81 60.0 6.45e-01 78.7% 100.0%
3197455 130.1.1.1 ↗ alpha arrays › LEM/SAP HeH motif-like › LEM/SAP HeH motif › LEM/SAP HeH motif › SAP 0.80 72.0 6.90e-01 100.0% 94.3%
4649575 130.1.1.45 ↗ alpha arrays › LEM/SAP HeH motif-like › LEM/SAP HeH motif › LEM/SAP HeH motif › PF29669 0.80 70.0 7.05e-01 100.0% 98.3%
3794285 130.1.1.0 ↗ alpha arrays › LEM/SAP HeH motif-like › LEM/SAP HeH motif › LEM/SAP HeH motif 0.79 70.0 6.55e-01 100.0% 85.3%
3368018 130.1.1.0 ↗ alpha arrays › LEM/SAP HeH motif-like › LEM/SAP HeH motif › LEM/SAP HeH motif 0.79 69.0 6.62e-01 96.7% 85.7%
4282729 130.1.1.45 ↗ alpha arrays › LEM/SAP HeH motif-like › LEM/SAP HeH motif › LEM/SAP HeH motif › PF29669 0.78 70.0 6.02e-01 100.0% 64.2%
3893471 130.1.1.1 ↗ alpha arrays › LEM/SAP HeH motif-like › LEM/SAP HeH motif › LEM/SAP HeH motif › SAP 0.78 65.0 6.56e-01 95.1% 93.3%
3192631 130.1.1.1 ↗ alpha arrays › LEM/SAP HeH motif-like › LEM/SAP HeH motif › LEM/SAP HeH motif › SAP 0.78 68.0 6.57e-01 98.4% 92.9%
3423812 130.1.1.0 ↗ alpha arrays › LEM/SAP HeH motif-like › LEM/SAP HeH motif › LEM/SAP HeH motif 0.77 68.0 6.84e-01 96.7% 98.3%
3734131 130.1.1.1 ↗ alpha arrays › LEM/SAP HeH motif-like › LEM/SAP HeH motif › LEM/SAP HeH motif › SAP 0.77 66.0 6.51e-01 98.4% 100.0%
3216816 130.1.1.0 ↗ alpha arrays › LEM/SAP HeH motif-like › LEM/SAP HeH motif › LEM/SAP HeH motif 0.76 65.0 6.60e-01 96.7% 98.3%
3198528 130.1.1.16 ↗ alpha arrays › LEM/SAP HeH motif-like › LEM/SAP HeH motif › LEM/SAP HeH motif › Ish1 0.76 58.0 6.08e-01 83.6% 94.5%
3393892 130.1.1.1 ↗ alpha arrays › LEM/SAP HeH motif-like › LEM/SAP HeH motif › LEM/SAP HeH motif › SAP 0.76 64.0 6.21e-01 96.7% 85.7%
3479898 130.1.1.0 ↗ alpha arrays › LEM/SAP HeH motif-like › LEM/SAP HeH motif › LEM/SAP HeH motif 0.75 63.0 6.04e-01 96.7% 82.9%
169890 130.1.1.1 ↗ alpha arrays › LEM/SAP HeH motif-like › LEM/SAP HeH motif › LEM/SAP HeH motif › SAP 0.75 65.0 5.50e-01 100.0% 70.2%
3925195 130.1.1.0 ↗ alpha arrays › LEM/SAP HeH motif-like › LEM/SAP HeH motif › LEM/SAP HeH motif 0.74 64.0 6.36e-01 100.0% 100.0%
3927575 130.1.1.0 ↗ alpha arrays › LEM/SAP HeH motif-like › LEM/SAP HeH motif › LEM/SAP HeH motif 0.73 61.0 6.14e-01 91.8% 98.3%
3964225 130.1.1.0 ↗ alpha arrays › LEM/SAP HeH motif-like › LEM/SAP HeH motif › LEM/SAP HeH motif 0.73 55.0 5.40e-01 82.0% 83.1%
4890803 110.1.1.4 ↗ alpha arrays › DEATH domain › DEATH domain › DEATH domain › PYRIN 0.72 63.0 5.35e-01 100.0% 72.8%
4489811 103.17.1.0 ↗ alpha arrays › RuvA-C › HMG-CoA reductase flap domain › HMG-CoA reductase flap domain 0.69 46.0 4.92e-01 96.7% 84.0%
3916150 110.1.1.0 ↗ alpha arrays › DEATH domain › DEATH domain › DEATH domain 0.65 54.0 4.95e-01 96.7% 83.5%
3533062 110.1.1.0 ↗ alpha arrays › DEATH domain › DEATH domain › DEATH domain 0.63 53.0 4.73e-01 100.0% 82.1%
4354455 152.1.2.1 ↗ alpha arrays › RPB6/omega subunit-like › RPB6/omega subunit-like › RNA polymerase omega subunit › RNA_pol_Rpb6 0.63 49.0 4.75e-01 96.7% 77.1%
3637966 101.1.2.79 ↗ alpha arrays › HTH › HTH › winged helix domain › RNA_pol_I_A49 0.62 46.0 3.54e-01 80.3% 59.3%
3995059 1.1.5.9 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › Putative_PNPOx,PNP_phzG_C 0.58 42.0 2.94e-01 100.0% 21.3%
3332367 108.1.1.0 ↗ alpha arrays › EF-hand › EF-hand-related › EF-hand 0.58 47.0 4.13e-01 95.1% 79.0%
4491625 152.1.2.1 ↗ alpha arrays › RPB6/omega subunit-like › RPB6/omega subunit-like › RNA polymerase omega subunit › RNA_pol_Rpb6 0.58 42.0 4.05e-01 88.5% 68.6%
3957408 148.1.3.0 ↗ alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain 0.56 40.0 3.75e-01 98.4% 60.0%
4015915 190.1.1.3 ↗ alpha arrays › HMG-box-like › HMG-box › HMG-box › HMG_box_2 0.55 44.0 4.06e-01 88.5% 67.5%
4044894 235.1.1.5 ↗ a+b complex topology › Lysozyme-like › Lysozyme-like › Lysozyme-like › Transgly 0.55 47.0 3.14e-01 98.4% 30.2%
3262410 650.1.1.0 ↗ alpha bundles › Chaperone J-domain › Chaperone J-domain › Chaperone J-domain 0.54 37.0 3.50e-01 77.0% 60.0%
4115523 7579.1.1.6 ↗ a/b three-layered sandwiches › alpha/beta-Hydrolases › alpha/beta-Hydrolases › alpha/beta-Hydrolases › Abhydrolase_1 0.51 40.0 2.55e-01 86.9% 26.9%
4939871 101.1.2.896 ↗ alpha arrays › HTH › HTH › winged helix domain › DUF2551 0.50 40.0 3.43e-01 90.2% 65.7%
D2 medium residues 1-98
PDB
Domain cluster: rep: MK268344.1__AZU98217.1__CPT_Munch_273__00273__D1-98
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF02945.22 best Endonuclease_7 42.8 5.50e-11 95.9% 90.2%
CATH (9)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1e7lA01 3.40.1800.10 Alpha Beta › 3-Layer(aba) Sandwich › His-Me finger endonuclease fold › His-Me finger endonucleases 0.89 64.0 7.12e-01 74.5% 100.0%
3goxA03 3.40.1800.10 Alpha Beta › 3-Layer(aba) Sandwich › His-Me finger endonuclease fold › His-Me finger endonucleases 0.70 54.0 5.87e-01 94.9% 97.5%
1z1bA01 3.30.160.60 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › Classic Zinc Finger 0.65 33.0 4.13e-01 83.7% 82.5%
3bjaA00 1.10.10.10 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain 0.59 30.0 2.70e-01 87.8% 33.8%
2bv6A00 1.10.10.10 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain 0.58 31.0 2.79e-01 87.8% 34.6%
1t0fA01 3.40.1350.10 Alpha Beta › 3-Layer(aba) Sandwich › Trna Endonuclease; Chain: A, domain 1 › 0.51 37.0 3.19e-01 76.5% 79.6%
1o9jC01 3.40.605.10 Alpha Beta › 3-Layer(aba) Sandwich › Aldehyde Dehydrogenase; Chain A, domain 1 › Aldehyde Dehydrogenase; Chain A, domain 1 0.51 42.0 3.04e-01 91.8% 91.1%
4i8qA01 3.40.605.10 Alpha Beta › 3-Layer(aba) Sandwich › Aldehyde Dehydrogenase; Chain A, domain 1 › Aldehyde Dehydrogenase; Chain A, domain 1 0.50 42.0 3.00e-01 91.8% 92.1%
6pnuB01 3.40.605.10 Alpha Beta › 3-Layer(aba) Sandwich › Aldehyde Dehydrogenase; Chain A, domain 1 › Aldehyde Dehydrogenase; Chain A, domain 1 0.50 41.0 2.99e-01 90.8% 92.8%
ECOD (13)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
8235 378.1.1.3 ↗ few secondary structure elements › His-Me finger endonucleases › His-Me finger endonucleases › His-Me finger endonucleases › Endonuclease_7 0.84 76.0 7.46e-01 95.9% 99.0%
5081423 378.1.1.3 ↗ few secondary structure elements › His-Me finger endonucleases › His-Me finger endonucleases › His-Me finger endonucleases › Endonuclease_7 0.75 53.0 6.03e-01 88.8% 97.3%
1002460 378.1.1.3 ↗ few secondary structure elements › His-Me finger endonucleases › His-Me finger endonucleases › His-Me finger endonucleases › Endonuclease_7 0.70 54.0 5.81e-01 94.9% 95.2%
3587782 378.1.1.0 ↗ few secondary structure elements › His-Me finger endonucleases › His-Me finger endonucleases › His-Me finger endonucleases 0.64 50.0 4.83e-01 81.6% 78.2%
3762097 376.1.1.1 ↗ few secondary structure elements › RING/U-box-like › RING/U-box-like › RING/U-box › zf-C3HC4 0.56 42.0 4.32e-01 79.6% 87.4%
3965953 7524.1.1.1 ↗ a/b three-layered sandwiches › ALDH-like › ALDH-like › ALDH-like › Aldedh 0.53 38.0 2.77e-01 73.5% 94.1%
4081902 7524.1.1.1 ↗ a/b three-layered sandwiches › ALDH-like › ALDH-like › ALDH-like › Aldedh 0.52 38.0 2.80e-01 76.5% 86.2%
4256847 7524.1.1.1 ↗ a/b three-layered sandwiches › ALDH-like › ALDH-like › ALDH-like › Aldedh 0.51 43.0 3.11e-01 91.8% 88.4%
3289903 7524.1.1.1 ↗ a/b three-layered sandwiches › ALDH-like › ALDH-like › ALDH-like › Aldedh 0.51 42.0 3.07e-01 90.8% 95.7%
4081887 7524.1.1.1 ↗ a/b three-layered sandwiches › ALDH-like › ALDH-like › ALDH-like › Aldedh 0.51 42.0 3.09e-01 91.8% 92.9%
3649331 101.1.2.245 ↗ alpha arrays › HTH › HTH › winged helix domain › PORR 0.50 44.0 3.00e-01 96.9% 82.5%
3742854 7524.1.1.1 ↗ a/b three-layered sandwiches › ALDH-like › ALDH-like › ALDH-like › Aldedh 0.50 40.0 2.80e-01 85.7% 44.8%
3560727 220.1.1.185 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › RH_dom 0.50 38.0 4.04e-01 81.6% 90.6%