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OL963731.1__USM11446.1__vBCbaSRXM_1__00001

Bact-Vir

OL963731.1__USM11446.1__vBCbaSRXM_1__00001

Identity

Accession:
OL963731 ↗
Kingdom:
phage

Quality

75.8 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Citromicrobium_phage_vB_CbaS-RXM

TaxID: 2909582

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 medium residues 2-39
PDB
Domain cluster: representative
CATH (52)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
4llgM00 3.10.20.510 Alpha Beta › Roll › Ubiquitin-like (UB roll) › RNA polymerase inhibitor 0.82 70.0 6.44e-01 97.4% 90.0%
3oqgA00 3.40.1440.50 Alpha Beta › 3-Layer(aba) Sandwich › GIY-YIG endonuclease › 0.70 58.0 3.81e-01 100.0% 35.8%
2pw9C02 3.10.20.10 Alpha Beta › Roll › Ubiquitin-like (UB roll) › 0.69 57.0 5.06e-01 100.0% 87.9%
2pw9C03 3.40.140.10 Alpha Beta › 3-Layer(aba) Sandwich › Cytidine Deaminase; domain 2 › Cytidine Deaminase, domain 2 0.67 54.0 3.86e-01 100.0% 33.3%
4ehiA02 3.40.140.20 Alpha Beta › 3-Layer(aba) Sandwich › Cytidine Deaminase; domain 2 › AICAR transformylase, duplication domain 0.66 54.0 3.71e-01 100.0% 28.2%
1zczA03 3.40.140.20 Alpha Beta › 3-Layer(aba) Sandwich › Cytidine Deaminase; domain 2 › AICAR transformylase, duplication domain 0.66 53.0 3.86e-01 100.0% 35.4%
3lpxB02 3.30.1360.40 Alpha Beta › 2-Layer Sandwich › Gyrase A; domain 2 › 0.65 45.0 3.48e-01 73.7% 62.8%
5xbfA01 3.10.20.90 Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1 0.64 51.0 4.06e-01 94.7% 98.9%
7pjjA02 2.60.120.260 Mainly Beta › Sandwich › Jelly Rolls › Galactose-binding domain-like 0.64 50.0 3.59e-01 100.0% 27.9%
2vsdA00 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.64 52.0 4.04e-01 100.0% 46.2%
1zczA02 3.40.140.20 Alpha Beta › 3-Layer(aba) Sandwich › Cytidine Deaminase; domain 2 › AICAR transformylase, duplication domain 0.63 47.0 3.63e-01 100.0% 35.9%
2w3jA00 2.60.120.260 Mainly Beta › Sandwich › Jelly Rolls › Galactose-binding domain-like 0.63 54.0 3.73e-01 100.0% 33.6%
1ti2B03 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.63 50.0 4.02e-01 100.0% 44.0%
3ocpB00 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.63 56.0 3.84e-01 100.0% 29.7%
4rz7A02 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.63 57.0 3.88e-01 100.0% 31.4%
4dqnA01 3.30.470.10 Alpha Beta › 2-Layer Sandwich › D-amino Acid Aminotransferase; Chain A, domain 1 › Aminotransferase class 4, branched-chain amino acid transferase, N-terminal domain 0.62 45.0 3.07e-01 81.6% 84.8%
6grqA01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.62 50.0 3.98e-01 100.0% 50.0%
4devD01 2.60.120.260 Mainly Beta › Sandwich › Jelly Rolls › Galactose-binding domain-like 0.62 53.0 3.70e-01 100.0% 33.6%
1ne6A01 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.62 55.0 3.79e-01 100.0% 31.1%
1cczA01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.61 51.0 3.94e-01 100.0% 60.2%
3fysA01 3.40.50.10170 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.61 44.0 3.02e-01 81.6% 98.0%
4myjA04 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.61 53.0 3.67e-01 100.0% 29.5%
1gttA01 3.90.850.10 Alpha Beta › Alpha-Beta Complex › Fumarylacetoacetate hydrolase; domain 2 › Fumarylacetoacetase-like, C-terminal domain 0.60 50.0 3.18e-01 100.0% 30.3%
5e16A00 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.60 52.0 3.54e-01 100.0% 27.5%
3gm8A04 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.59 48.0 3.92e-01 100.0% 47.4%
3cu7A05 2.60.40.1930 Mainly Beta › Sandwich › Immunoglobulin-like › Macroglobulin (MG2) domain 0.59 48.0 3.62e-01 100.0% 41.5%
2a74A05 2.60.40.1930 Mainly Beta › Sandwich › Immunoglobulin-like › Macroglobulin (MG2) domain 0.59 47.0 3.59e-01 100.0% 41.9%
3m1cA04 2.60.40.3190 Mainly Beta › Sandwich › Immunoglobulin-like › Herpesvirus glycoprotein H, C-terminal domain 0.58 46.0 3.34e-01 100.0% 37.1%
2q18X02 3.90.850.10 Alpha Beta › Alpha-Beta Complex › Fumarylacetoacetate hydrolase; domain 2 › Fumarylacetoacetase-like, C-terminal domain 0.58 43.0 2.76e-01 84.2% 81.6%
3prbA01 3.10.50.40 Alpha Beta › Roll › Chitinase A; domain 3 › 0.57 47.0 3.60e-01 100.0% 85.7%
4ehoB03 3.30.450.270 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › PHY domain 0.57 43.0 2.81e-01 84.2% 36.3%
2pn5A05 2.60.40.1930 Mainly Beta › Sandwich › Immunoglobulin-like › Macroglobulin (MG2) domain 0.57 45.0 3.56e-01 100.0% 44.8%
1nw2A00 3.40.30.10 Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › Glutaredoxin 0.57 41.0 3.15e-01 89.5% 30.5%
4ggmX02 3.40.140.80 Alpha Beta › 3-Layer(aba) Sandwich › Cytidine Deaminase; domain 2 › LpxI C-terminal catalytic domain 0.57 45.0 3.25e-01 100.0% 31.3%
3n0aA02 2.60.40.1110 Mainly Beta › Sandwich › Immunoglobulin-like › 0.57 48.0 3.33e-01 100.0% 35.6%
1wv3A01 2.60.200.20 Mainly Beta › Sandwich › Tumour Suppressor Smad4 › 0.56 45.0 3.80e-01 100.0% 98.7%
4kyzA00 3.30.70.600 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Ribosomal protein S10 0.56 43.0 3.04e-01 100.0% 45.5%
2vvfA01 2.60.120.730 Mainly Beta › Sandwich › Jelly Rolls › 0.56 47.0 3.27e-01 100.0% 53.2%
5of3A00 3.90.920.10 Alpha Beta › Alpha-Beta Complex › DNA primase, PRIM domain › DNA primase, PRIM domain 0.56 41.0 2.58e-01 100.0% 12.5%
3wnoA01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.56 44.0 3.45e-01 100.0% 47.0%
2xbzA00 2.60.40.2380 Mainly Beta › Sandwich › Immunoglobulin-like › 0.55 44.0 3.17e-01 100.0% 31.8%
1wjnA00 3.10.20.90 Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1 0.54 44.0 3.49e-01 100.0% 49.5%
6se8A04 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.54 41.0 3.23e-01 100.0% 50.0%
3zq5A03 3.30.450.270 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › PHY domain 0.53 37.0 2.70e-01 86.8% 24.8%
3cswC01 3.30.470.10 Alpha Beta › 2-Layer Sandwich › D-amino Acid Aminotransferase; Chain A, domain 1 › Aminotransferase class 4, branched-chain amino acid transferase, N-terminal domain 0.53 37.0 2.88e-01 73.7% 84.0%
2oxgC00 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.53 41.0 3.24e-01 100.0% 42.6%
1vcaA02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.53 43.0 3.25e-01 100.0% 45.5%
2wq4A01 2.60.120.760 Mainly Beta › Sandwich › Jelly Rolls › 0.51 39.0 2.92e-01 100.0% 42.6%
3nyiB01 3.40.50.10170 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.51 40.0 2.78e-01 97.4% 31.2%
4m0wA03 2.60.120.1680 Mainly Beta › Sandwich › Jelly Rolls › 0.50 41.0 2.93e-01 100.0% 38.0%
1g6gB00 2.60.200.20 Mainly Beta › Sandwich › Tumour Suppressor Smad4 › 0.50 42.0 3.04e-01 100.0% 93.5%
1njhA00 2.70.180.10 Mainly Beta › Distorted Sandwich › Protein Yojf; Chain: A; › Hypothetical protein YojF 0.50 42.0 3.13e-01 100.0% 69.4%
ECOD (46)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4962335 3115.5.1.1 ↗ a+b two layers › GP2-like › phenylacetate-CoA oxygenase subunit PaaB › phenylacetate-CoA oxygenase subunit PaaB › PaaB 0.94 85.0 7.00e-01 100.0% 76.9%
4463006 3115.2.1.0 ↗ a+b two layers › GP2-like › GP2 › GP2 0.73 58.0 5.68e-01 100.0% 97.8%
5003527 2492.1.1.7 ↗ a+b three layers › Cytidine deaminase-like › Cytidine deaminase-like › Cytidine deaminase-like › FdhD-NarQ 0.71 58.0 4.00e-01 100.0% 31.3%
4531584 4012.1.1.0 ↗ a+b two layers › SSHS domain › SSHS domain in type II DNA topoisomerase › SSHS domain in type II DNA topoisomerase 0.69 57.0 5.69e-01 100.0% 92.5%
4072109 2492.1.1.5 ↗ a+b three layers › Cytidine deaminase-like › Cytidine deaminase-like › Cytidine deaminase-like › AICARFT_IMPCHas 0.68 56.0 3.86e-01 100.0% 28.4%
4929079 821.1.1.15 ↗ a+b three layers › GIY-YIG endonuclease › GIY-YIG endonuclease › GIY-YIG endonuclease › DUF7508 0.68 54.0 4.27e-01 100.0% 43.6%
4186857 4012.1.1.0 ↗ a+b two layers › SSHS domain › SSHS domain in type II DNA topoisomerase › SSHS domain in type II DNA topoisomerase 0.66 53.0 5.30e-01 100.0% 92.5%
5083760 2492.1.1.5 ↗ a+b three layers › Cytidine deaminase-like › Cytidine deaminase-like › Cytidine deaminase-like › AICARFT_IMPCHas 0.66 54.0 3.54e-01 100.0% 22.0%
3919304 221.1.1.6 ↗ a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like › RA 0.66 52.0 4.02e-01 94.7% 84.0%
1155554 2492.1.1.5 ↗ a+b three layers › Cytidine deaminase-like › Cytidine deaminase-like › Cytidine deaminase-like › AICARFT_IMPCHas 0.66 53.0 3.57e-01 100.0% 24.7%
None — 0.66 54.0 3.60e-01 100.0% 27.2%
3546134 10.12.1.108 ↗ beta sandwiches › jelly-roll › Double-stranded beta-helix › Double-stranded beta-helix › POPDC1-3 0.65 58.0 3.75e-01 100.0% 26.9%
5008037 223.1.1.0 ↗ a+b three layers › Profilin-like › sensor domains › sensor domains 0.65 43.0 3.08e-01 71.1% 92.8%
4988126 284.1.1.1 ↗ a+b two layers › FKBP-like › FKBP-like › FKBP-like › FKBP_C 0.64 53.0 3.86e-01 100.0% 71.7%
1002416 2492.1.1.5 ↗ a+b three layers › Cytidine deaminase-like › Cytidine deaminase-like › Cytidine deaminase-like › AICARFT_IMPCHas 0.64 50.0 3.49e-01 100.0% 27.0%
3776000 11.1.1.178 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › Ig_2 0.63 53.0 4.05e-01 100.0% 45.3%
4146824 10.12.1.1 ↗ beta sandwiches › jelly-roll › Double-stranded beta-helix › Double-stranded beta-helix › cNMP_binding 0.62 57.0 3.80e-01 100.0% 28.1%
3931166 10.12.1.1 ↗ beta sandwiches › jelly-roll › Double-stranded beta-helix › Double-stranded beta-helix › cNMP_binding 0.62 55.0 3.58e-01 100.0% 23.0%
3791685 10.12.1.1 ↗ beta sandwiches › jelly-roll › Double-stranded beta-helix › Double-stranded beta-helix › cNMP_binding 0.62 55.0 3.96e-01 100.0% 36.2%
4388249 11.1.1.204 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › DUF4982 0.62 52.0 3.90e-01 100.0% 41.0%
3560928 10.12.1.1 ↗ beta sandwiches › jelly-roll › Double-stranded beta-helix › Double-stranded beta-helix › cNMP_binding 0.61 55.0 3.51e-01 100.0% 22.4%
3477098 10.12.1.1 ↗ beta sandwiches › jelly-roll › Double-stranded beta-helix › Double-stranded beta-helix › cNMP_binding 0.61 55.0 3.69e-01 100.0% 28.1%
3924084 2484.1.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.61 47.0 3.72e-01 100.0% 97.0%
3405280 10.12.1.1 ↗ beta sandwiches › jelly-roll › Double-stranded beta-helix › Double-stranded beta-helix › cNMP_binding 0.61 54.0 3.63e-01 100.0% 28.1%
3888595 11.1.1.97 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › I-set 0.61 50.0 3.61e-01 100.0% 40.0%
3590615 4019.1.1.1 ↗ alpha complex topology › alpha-helical domain in beta-lactamase/transpeptidase-like proteins › alpha-helical domain in beta-lactamase/transpeptidase-like proteins › alpha-helical domain in beta-lactamase/transpeptidase-like proteins › Beta-lactamase 0.61 43.0 2.58e-01 81.6% 96.6%
3493221 10.12.1.1 ↗ beta sandwiches › jelly-roll › Double-stranded beta-helix › Double-stranded beta-helix › cNMP_binding 0.60 54.0 3.63e-01 100.0% 28.1%
3585444 10.12.1.1 ↗ beta sandwiches › jelly-roll › Double-stranded beta-helix › Double-stranded beta-helix › cNMP_binding 0.60 52.0 3.48e-01 100.0% 26.2%
3991455 822.2.1.1 ↗ a+b two layers › GYF/BRK domain-like › BRK domain-like › BRK domain-like › BRK 0.60 46.0 4.34e-01 100.0% 69.1%
3979632 11.9.1.1 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › FAH › FAH › FAA_hydrolase 0.60 49.0 3.12e-01 100.0% 29.8%
1405817 10.12.1.1 ↗ beta sandwiches › jelly-roll › Double-stranded beta-helix › Double-stranded beta-helix › cNMP_binding 0.59 51.0 3.43e-01 100.0% 25.9%
3756439 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.59 47.0 3.35e-01 100.0% 30.7%
4331897 235.1.1.41 ↗ a+b complex topology › Lysozyme-like › Lysozyme-like › Lysozyme-like › TraH_2 0.59 48.0 3.33e-01 100.0% 25.3%
5030638 2492.1.1.16 ↗ a+b three layers › Cytidine deaminase-like › Cytidine deaminase-like › Cytidine deaminase-like › TM1506 0.57 43.0 3.24e-01 100.0% 31.1%
3920661 11.1.1.108 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › C2-set_2 0.57 46.0 3.50e-01 100.0% 45.7%
3759359 3019.1.1.0 ↗ beta sandwiches › gp11/flagellar cap protein FliD insertion domain › gp11/flagellar cap protein FliD insertion domain › gp11/flagellar cap protein FliD insertion domain 0.57 46.0 3.45e-01 100.0% 63.6%
3249004 11.2.1.8 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › C2 domain › C2 domain › PTEN_C2 0.56 47.0 3.36e-01 100.0% 36.8%
3958896 4187.2.1.0 ↗ a+b two layers › NosL/MerB-like › DUF2233 › DUF2233 0.56 45.0 4.05e-01 100.0% 73.3%
4976238 11.1.1.32 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › Desulfoferrodox 0.56 46.0 3.36e-01 100.0% 37.0%
3213885 11.1.1.97 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › I-set 0.55 48.0 3.50e-01 100.0% 55.2%
3689809 386.1.1.0 ↗ few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers 0.55 42.0 4.17e-01 100.0% 91.1%
3170947 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.54 39.0 3.69e-01 97.4% 100.0%
4958377 822.1.1.2 ↗ a+b two layers › GYF/BRK domain-like › GYF domain › GYF domain › GYF_2 0.54 41.0 3.95e-01 100.0% 77.1%
3935475 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.53 41.0 2.59e-01 100.0% 19.2%
3258276 4081.1.1.2 ↗ beta sandwiches › Baculovirus p35 protein-related › Baculovirus p35 protein-related › Baculovirus p35 protein-related › VIT 0.52 40.0 2.61e-01 100.0% 30.2%
3621341 382.1.1.0 ↗ few secondary structure elements › Snake toxin-like › Snake toxin-like › Snake toxin-like 0.51 39.0 3.39e-01 100.0% 86.7%
D2 medium residues 47-85
PDB
Domain cluster: representative
CATH (3)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1z6oA00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.76 57.0 3.46e-01 79.5% 15.1%
3ff5A00 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 0.70 47.0 4.36e-01 74.4% 51.9%
1ps9A02 3.40.50.720 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain 0.67 47.0 3.15e-01 74.4% 20.7%