←Back to structures

MT028491.1__QIG65680.1__phiOC_p014__00014

Bact-Vir

MT028491.1__QIG65680.1__phiOC_p014__00014

Identity

Accession:
MT028491 ↗
Kingdom:
phage

Quality

66.5 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Pantevenvirales› Kyanoviridae› Ochrobactrum_phage_vB_OspM_OC

TaxID: 2712956

Cluster

Singleton — not in a non-trivial cluster

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 79-243
PDB
Domain cluster: rep: NC_006884.2__YP_214683.1__PSSM4_122__00136__D71-181_258-287
CATH (31)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2yfaB01 1.20.1440.210 Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › 0.61 41.0 4.74e-01 90.3% 95.0%
1r2jA03 1.20.140.10 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Butyryl-CoA Dehydrogenase, subunit A, domain 3 0.59 36.0 3.85e-01 71.5% 68.8%
2jx0A00 1.20.120.330 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Nucleotidyltransferases domain 2 0.58 39.0 4.30e-01 90.9% 84.0%
2c0uA03 1.20.140.10 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Butyryl-CoA Dehydrogenase, subunit A, domain 3 0.58 39.0 3.88e-01 72.1% 65.1%
2b0hA01 1.20.120.230 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Alpha-catenin/vinculin-like 0.58 42.0 4.70e-01 90.9% 96.9%
1sziA02 1.20.120.340 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Flagellar protein FliS 0.57 40.0 4.38e-01 90.9% 86.1%
3m9vA03 1.20.140.10 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Butyryl-CoA Dehydrogenase, subunit A, domain 3 0.57 39.0 4.00e-01 71.5% 72.0%
2z1qB04 1.20.140.10 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Butyryl-CoA Dehydrogenase, subunit A, domain 3 0.57 34.0 3.71e-01 70.3% 69.9%
1xwmA00 1.20.58.220 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphate transport system protein phou homolog 2; domain 2 0.57 48.0 4.39e-01 89.7% 94.8%
6todA01 1.20.1070.10 Mainly Alpha › Up-down Bundle › Rhopdopsin 7-helix transmembrane proteins › Rhodopsin 7-helix transmembrane proteins 0.56 49.0 4.04e-01 95.8% 91.9%
3ok8A00 1.20.1270.60 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Arfaptin homology (AH) domain/BAR domain 0.56 40.0 3.65e-01 73.9% 89.5%
2rfqC03 1.20.140.10 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Butyryl-CoA Dehydrogenase, subunit A, domain 3 0.56 37.0 3.70e-01 70.9% 64.0%
8a1gC01 1.20.1270.60 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Arfaptin homology (AH) domain/BAR domain 0.55 40.0 3.91e-01 73.9% 93.9%
2wb7A03 1.20.120.870 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › pT26-6p, five-helical bundle domain 0.55 40.0 4.33e-01 84.8% 90.4%
4yjwA00 1.20.120.930 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Uncharacterised protein PF12889, N-terminal DUF3829 0.54 41.0 4.25e-01 90.3% 85.0%
4nqiD00 1.20.1270.60 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Arfaptin homology (AH) domain/BAR domain 0.54 39.0 3.48e-01 73.9% 82.8%
4djhA01 1.20.1070.10 Mainly Alpha › Up-down Bundle › Rhopdopsin 7-helix transmembrane proteins › Rhodopsin 7-helix transmembrane proteins 0.54 48.0 4.09e-01 100.0% 90.6%
2gs4A00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.54 37.0 3.85e-01 70.3% 98.1%
4jkvB02 1.20.1070.10 Mainly Alpha › Up-down Bundle › Rhopdopsin 7-helix transmembrane proteins › Rhodopsin 7-helix transmembrane proteins 0.54 48.0 3.78e-01 97.6% 81.0%
3kmiA00 1.20.120.940 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Putative aromatic acid exporter, C-terminal domain 0.53 44.0 4.40e-01 88.5% 99.4%
4mk6A00 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.53 38.0 3.68e-01 98.8% 63.3%
1wdzA00 1.20.1270.60 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Arfaptin homology (AH) domain/BAR domain 0.53 38.0 3.42e-01 73.9% 88.3%
1n1bB02 1.10.600.10 Mainly Alpha › Orthogonal Bundle › Farnesyl Diphosphate Synthase › Farnesyl Diphosphate Synthase 0.53 45.0 3.72e-01 100.0% 50.8%
1xg2B00 1.20.140.40 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Invertase/pectin methylesterase inhibitor family protein 0.52 35.0 3.72e-01 100.0% 74.8%
2ijqA00 1.10.3450.10 Mainly Alpha › Orthogonal Bundle › Hyaluronidase domain-like › TTHA0068-like 0.52 37.0 3.93e-01 85.5% 82.8%
1rktA02 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.52 38.0 4.00e-01 93.9% 83.4%
2ap3A00 1.20.120.570 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › YkyA-like 0.51 43.0 4.10e-01 90.3% 81.2%
3ggyA00 1.20.1260.60 Mainly Alpha › Up-down Bundle › Ferritin › Vacuolar protein sorting-associated protein Ist1 0.51 36.0 3.53e-01 72.1% 86.6%
7ys6A01 1.20.1070.10 Mainly Alpha › Up-down Bundle › Rhopdopsin 7-helix transmembrane proteins › Rhodopsin 7-helix transmembrane proteins 0.51 45.0 3.93e-01 100.0% 94.4%
4akgA04 1.20.58.1120 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Dynein motor heavy chain, linker domain, subdomain 4 0.51 43.0 4.45e-01 92.7% 96.8%
3pltA00 1.20.1270.60 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Arfaptin homology (AH) domain/BAR domain 0.50 36.0 3.33e-01 73.3% 79.9%
ECOD (16)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3654456 3758.1.1.0 ↗ alpha bundles › Bacterial hemolysins-like › Bacterial hemolysins › Bacterial hemolysins 0.69 49.0 3.94e-01 72.1% 97.4%
4981140 604.5.1.2 ↗ alpha bundles › Spectrin repeat-like › PhoU-like (Pfam 01895) › PhoU-like (Pfam 01895) › PhoU 0.61 47.0 5.04e-01 87.9% 93.6%
3609309 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.58 41.0 3.70e-01 70.9% 99.6%
3674097 605.4.1.11 ↗ alpha duplicates or obligate multimers › ROP-like › ROP protein › ROP protein › ALMT 0.56 31.0 3.93e-01 76.4% 92.6%
3190030 109.4.1.681 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › Fungal_trans_2 0.56 45.0 4.10e-01 85.5% 78.6%
3921635 603.2.1.0 ↗ alpha bundles › STAT-like › STAT › STAT 0.55 39.0 3.75e-01 72.1% 71.1%
5010536 604.5.1.0 ↗ alpha bundles › Spectrin repeat-like › PhoU-like (Pfam 01895) › PhoU-like (Pfam 01895) 0.55 46.0 4.45e-01 89.1% 97.8%
3438470 633.23.1.0 ↗ alpha bundles › Bromodomain-like › Claudin › Claudin 0.55 46.0 4.18e-01 90.9% 98.7%
3363809 4177.1.1.8 ↗ alpha duplicates or obligate multimers › BAR/IMD domain-like › BAR/IMD domain-like › BAR/IMD domain-like › BAR_3 0.53 39.0 3.34e-01 74.5% 75.7%
3417442 4177.1.1.0 ↗ alpha duplicates or obligate multimers › BAR/IMD domain-like › BAR/IMD domain-like › BAR/IMD domain-like 0.53 38.0 3.17e-01 74.5% 70.5%
3487018 5001.1.1.0 ↗ alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like 0.53 48.0 3.66e-01 100.0% 78.3%
3881209 1188.1.1.1 ↗ alpha bundles › ZIP zinc transporter › ZIP zinc transporter › ZIP zinc transporter › Zip 0.52 44.0 3.76e-01 90.9% 74.2%
3219989 5001.1.1.41 ↗ alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › 7TM_GPCR_Srw 0.52 45.0 3.62e-01 97.0% 85.4%
3287731 604.1.1.0 ↗ alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat 0.52 44.0 4.18e-01 91.5% 91.2%
3728797 109.4.1.170 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › CLASP_N 0.52 41.0 2.78e-01 83.6% 87.6%
3245320 5054.1.1.0 ↗ alpha complex topology › Voltage-gated ion channels › Voltage-gated ion channels › Voltage-gated ion channels 0.51 40.0 3.95e-01 86.7% 77.1%
D2 medium residues 572-604_636-666
PDB
Domain cluster: representative
CATH (26)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2m9mA00 3.40.50.10130 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.73 53.0 4.13e-01 78.1% 42.4%
1j24A00 3.40.50.10130 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.69 50.0 3.97e-01 78.1% 48.9%
1nmnA00 3.30.420.140 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › YqgF/RNase H-like domain 0.63 46.0 3.84e-01 79.7% 75.8%
2wsiA00 3.40.50.620 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › HUPs 0.62 44.0 2.94e-01 76.6% 26.0%
5im4F00 3.40.50.510 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Phosphotransferase system, mannose-type IIA component 0.62 47.0 3.80e-01 84.4% 86.3%
4isyA02 3.40.640.10 Alpha Beta › 3-Layer(aba) Sandwich › Aspartate Aminotransferase; domain 2 › Type I PLP-dependent aspartate aminotransferase-like (Major domain) 0.60 49.0 3.38e-01 95.3% 28.3%
2ib0A01 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.59 40.0 3.22e-01 70.3% 91.1%
3m1lA02 3.40.50.720 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain 0.59 48.0 3.51e-01 96.9% 76.2%
3ni2A01 3.40.50.12780 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › ANL, N-terminal domain 0.59 49.0 3.05e-01 98.4% 81.8%
4m8kA00 3.40.50.1110 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › SGNH hydrolase 0.59 46.0 3.31e-01 90.6% 78.9%
2dwkA00 1.20.58.900 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › RUN domain 0.58 39.0 2.97e-01 70.3% 89.4%
1iv0A00 3.30.420.140 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › YqgF/RNase H-like domain 0.57 41.0 3.65e-01 78.1% 87.8%
3i3wA03 3.40.120.10 Alpha Beta › 3-Layer(aba) Sandwich › Alpha-D-Glucose-1,6-Bisphosphate; Chain A, domain 3 › Alpha-D-Glucose-1,6-Bisphosphate, subunit A, domain 3 0.57 41.0 3.88e-01 79.7% 62.2%
3lp8A01 3.40.50.20 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.56 37.0 3.35e-01 75.0% 46.7%
4f3xA01 3.40.605.10 Alpha Beta › 3-Layer(aba) Sandwich › Aldehyde Dehydrogenase; Chain A, domain 1 › Aldehyde Dehydrogenase; Chain A, domain 1 0.56 47.0 3.20e-01 100.0% 82.3%
3qq5A02 3.40.50.11420 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.56 41.0 3.56e-01 81.2% 86.2%
2yv7A02 1.20.1050.10 Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › 0.55 46.0 3.64e-01 93.8% 67.4%
4bx8B02 3.40.50.1910 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Sec1/Munc18 (SM) protein, domain 2 0.55 43.0 3.11e-01 92.2% 65.8%
3ilxA02 1.10.287.2170 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.54 35.0 3.85e-01 75.0% 95.5%
3qi7A02 3.40.50.11390 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.54 44.0 3.40e-01 98.4% 59.3%
1e9yA02 3.30.280.10 Alpha Beta › 2-Layer Sandwich › Urease; subunit A › Urease, gamma-like subunit 0.52 38.0 3.44e-01 82.8% 75.2%
3lxrF00 1.10.4120.20 Mainly Alpha › Orthogonal Bundle › SopE-like GEF fold › 0.52 36.0 2.62e-01 71.9% 64.6%
3rotA02 3.40.50.2300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Response regulator 0.52 41.0 3.35e-01 92.2% 78.8%
4lunU00 1.25.40.180 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › 0.52 42.0 2.85e-01 100.0% 63.7%
2wjwA02 3.40.50.2300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Response regulator 0.51 40.0 3.14e-01 92.2% 56.4%
3mwmA01 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 0.50 28.0 2.73e-01 79.7% 45.3%
ECOD (19)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4134001 7516.1.1.0 ↗ a/b three-layered sandwiches › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases 0.68 50.0 3.45e-01 79.7% 25.7%
3263386 2008.1.1.0 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.63 46.0 3.97e-01 78.1% 81.0%
3998537 7573.1.1.1 ↗ a/b three-layered sandwiches › PRTase-like › PRTase-like › PRTase-like › Pribosyltran 0.62 49.0 3.48e-01 87.5% 79.5%
4147958 298.4.1.0 ↗ a+b two layers › FwdE/GAPDH domain-like › V-type ATPase subunit E › V-type ATPase subunit E 0.61 46.0 3.99e-01 85.9% 60.2%
3379577 2003.1.1.52 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › NAD(P)-binding Rossmann-fold domains › RmlD_sub_bind 0.59 43.0 3.07e-01 78.1% 36.7%
3768565 2007.1.6.0 ↗ a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › Aminoacid dehydrogenase-like, N-terminal domain 0.57 48.0 3.89e-01 100.0% 49.6%
4943545 4143.1.1.11 ↗ a+b two layers › THUMP domain-like › THUMP domain-like › THUMP domain-like › UPF0020 0.56 41.0 3.59e-01 84.4% 69.1%
4016560 109.3.1.2 ↗ alpha superhelices › Repetitive alpha hairpins › Ankyrin repeat › Ankyrin repeat › Ank,Ank_2 0.56 44.0 3.28e-01 90.6% 78.3%
4205651 2007.1.4.3 ↗ a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › Phosphofructokinase N-terminal domain › NAD_kinase 0.55 44.0 3.76e-01 92.2% 73.9%
5068766 7592.1.1.3 ↗ a/b three-layered sandwiches › CARF (CRISPR-associated Rossmann fold) domains › CARF (CRISPR-associated Rossmann fold) domains › CARF (CRISPR-associated Rossmann fold) domains › DUF6293_N 0.55 42.0 3.30e-01 89.1% 56.8%
5005258 2484.1.1.302 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Cas12f1-like_TNB 0.54 40.0 2.92e-01 82.8% 56.6%
4979550 247.1.1.11 ↗ a+b four layers › Metallo-hydrolase/oxidoreductase › Metallo-hydrolase/oxidoreductase › Metallo-hydrolase/oxidoreductase › Lactamase_B_2 0.54 41.0 2.93e-01 84.4% 78.0%
4393411 2007.1.4.3 ↗ a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › Phosphofructokinase N-terminal domain › NAD_kinase 0.53 42.0 3.51e-01 93.8% 66.2%
4998556 247.1.1.53 ↗ a+b four layers › Metallo-hydrolase/oxidoreductase › Metallo-hydrolase/oxidoreductase › Metallo-hydrolase/oxidoreductase › Beta-Casp 0.53 45.0 2.87e-01 93.8% 84.5%
5075020 2006.1.4.2 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › PIN domain-like › PIN 0.52 41.0 3.36e-01 92.2% 65.7%
4586630 2007.1.4.3 ↗ a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › Phosphofructokinase N-terminal domain › NAD_kinase 0.51 41.0 3.53e-01 93.8% 70.4%
3669835 101.1.2.278 ↗ alpha arrays › HTH › HTH › winged helix domain › CNDH2_C 0.51 38.0 3.46e-01 79.7% 89.4%
5003298 2004.1.1.42 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › T2SSE 0.51 42.0 2.52e-01 100.0% 35.1%
4983366 2006.1.4.0 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › PIN domain-like 0.50 38.0 3.14e-01 84.4% 66.4%