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NC_054425.1__YP_010050267.1__KDJ03_gp36__00036

Bact-Vir

NC_054425.1__YP_010050267.1__KDJ03_gp36__00036

Identity

Accession:
NC_054425 ↗
Kingdom:
phage

Quality

91.9 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Korravirus› Arthrobacter_phage_MamaPearl

TaxID: 2743906

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 3-63
PDB
Domain cluster: rep: MH729379.1__AXY81274.1__AVP_158__00158__D2-65
CATH (15)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2mamA00 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.74 55.0 4.39e-01 78.7% 42.4%
2xrcC04 2.40.10.10 Mainly Beta › Beta Barrel › Thrombin, subunit H › Trypsin-like serine proteases 0.56 39.0 2.77e-01 72.1% 43.8%
1qcsA02 3.10.330.10 Alpha Beta › Roll › Vcp-like ATPase; Chain A, domain 2 › 0.56 44.0 3.73e-01 86.9% 82.9%
3zugB02 2.40.30.30 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Riboflavin kinase-like 0.56 48.0 3.74e-01 100.0% 66.9%
2xzlA02 2.40.30.230 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › 0.55 48.0 4.42e-01 98.4% 96.2%
1wbaA00 2.80.10.50 Mainly Beta › Trefoil › Trefoil (Acidic Fibroblast Growth Factor, subunit A) › 0.54 46.0 3.43e-01 100.0% 98.8%
3cpxA02 2.40.30.40 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Peptidase M42, domain 2 0.54 47.0 4.69e-01 100.0% 98.4%
1pxfA00 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.53 46.0 3.83e-01 100.0% 60.4%
1rniA02 3.30.2250.10 Alpha Beta › 2-Layer Sandwich › Prim-pol fold › Bifunctional DNA primase/polymerase domain 0.52 45.0 3.74e-01 100.0% 92.2%
1vw4X00 2.20.28.120 Mainly Beta › Single Sheet › Rubrerythrin, domain 2 › Ribosomal protein L33 0.52 37.0 3.69e-01 77.0% 73.4%
2gzbB00 2.80.10.50 Mainly Beta › Trefoil › Trefoil (Acidic Fibroblast Growth Factor, subunit A) › 0.52 43.0 3.31e-01 100.0% 98.2%
4n4iA02 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.52 40.0 3.65e-01 91.8% 77.8%
2cw8A01 2.170.16.10 Mainly Beta › Beta Complex › Endonuclease - Pi-scei; Chain A, domain 1 › Hedgehog/Intein (Hint) domain 0.51 40.0 3.12e-01 95.1% 99.4%
1aipE03 2.40.30.10 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Translation factors 0.51 36.0 3.75e-01 77.0% 98.2%
2cw5A02 2.40.30.90 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Bacterial fluorinating enzyme like 0.50 44.0 3.90e-01 100.0% 85.4%
ECOD (23)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
2392036 3430.1.1.1 ↗ a+b complex topology › Primosome assembly protein PriA 3' DNA-binding domain › Primosome assembly protein PriA 3' DNA-binding domain › Primosome assembly protein PriA 3' DNA-binding domain › PriA_3primeBD 0.82 75.0 6.03e-01 100.0% 58.4%
4554209 3430.1.1.1 ↗ a+b complex topology › Primosome assembly protein PriA 3' DNA-binding domain › Primosome assembly protein PriA 3' DNA-binding domain › Primosome assembly protein PriA 3' DNA-binding domain › PriA_3primeBD 0.82 74.0 6.05e-01 100.0% 56.4%
4486406 3430.1.1.1 ↗ a+b complex topology › Primosome assembly protein PriA 3' DNA-binding domain › Primosome assembly protein PriA 3' DNA-binding domain › Primosome assembly protein PriA 3' DNA-binding domain › PriA_3primeBD 0.82 74.0 6.03e-01 100.0% 58.2%
3385437 3430.1.1.1 ↗ a+b complex topology › Primosome assembly protein PriA 3' DNA-binding domain › Primosome assembly protein PriA 3' DNA-binding domain › Primosome assembly protein PriA 3' DNA-binding domain › PriA_3primeBD 0.81 71.0 6.03e-01 100.0% 60.0%
3838774 3430.1.1.1 ↗ a+b complex topology › Primosome assembly protein PriA 3' DNA-binding domain › Primosome assembly protein PriA 3' DNA-binding domain › Primosome assembly protein PriA 3' DNA-binding domain › PriA_3primeBD 0.81 70.0 5.83e-01 100.0% 56.2%
4421311 3430.1.1.1 ↗ a+b complex topology › Primosome assembly protein PriA 3' DNA-binding domain › Primosome assembly protein PriA 3' DNA-binding domain › Primosome assembly protein PriA 3' DNA-binding domain › PriA_3primeBD 0.80 73.0 5.95e-01 100.0% 58.2%
4674798 3430.1.1.1 ↗ a+b complex topology › Primosome assembly protein PriA 3' DNA-binding domain › Primosome assembly protein PriA 3' DNA-binding domain › Primosome assembly protein PriA 3' DNA-binding domain › PriA_3primeBD 0.80 72.0 5.87e-01 100.0% 60.9%
3964437 3430.1.1.1 ↗ a+b complex topology › Primosome assembly protein PriA 3' DNA-binding domain › Primosome assembly protein PriA 3' DNA-binding domain › Primosome assembly protein PriA 3' DNA-binding domain › PriA_3primeBD 0.80 72.0 5.85e-01 100.0% 57.3%
4254576 3430.1.1.1 ↗ a+b complex topology › Primosome assembly protein PriA 3' DNA-binding domain › Primosome assembly protein PriA 3' DNA-binding domain › Primosome assembly protein PriA 3' DNA-binding domain › PriA_3primeBD 0.79 69.0 5.82e-01 96.7% 63.0%
4990489 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.65 48.0 5.12e-01 78.7% 98.0%
4030494 375.12.1.1 ↗ few secondary structure elements › Rubredoxin-like › Nicotinate phosphoribosyltransferase C-terminal domain-related › Nicotinate phosphoribosyltransferase C-terminal domain-related › NAPRTase_C 0.62 52.0 4.33e-01 98.4% 90.4%
4027678 229.1.1.0 ↗ a+b two layers › Cdc48 domain 2-like › Cdc48 domain 2-like › Cdc48 domain 2-like 0.60 44.0 3.71e-01 80.3% 73.6%
4982797 69.1.1.4 ↗ beta complex topology › Hedgehog/intein › Hedgehog/intein › Hint › Intein_splicing 0.58 50.0 3.81e-01 98.4% 59.3%
3098472 375.1.1.3 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › Ribosomal_L33 0.57 42.0 4.38e-01 83.6% 89.3%
3920726 4.1.1.9 ↗ beta barrels › SH3 › SH3 › SH3 › TUDOR 0.55 43.0 3.85e-01 93.4% 95.0%
4947591 1.1.7.140 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › DUF87 0.54 45.0 3.75e-01 96.7% 96.5%
3319581 11.2.1.17 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › C2 domain › C2 domain › NT-C2 0.54 37.0 2.84e-01 73.8% 93.9%
4011393 6.1.1.0 ↗ beta duplicates or obligate multimers › beta-Trefoil › beta-Trefoil › beta-Trefoil 0.53 42.0 3.10e-01 88.5% 52.4%
5014865 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.53 40.0 3.32e-01 85.2% 80.9%
1949981 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.52 37.0 3.69e-01 77.0% 73.4%
4322227 1.1.4.1 ↗ beta barrels › cradle loop barrel › RIFT-related › Bacterial fluorinating enzyme-C › SAM_HAT_C 0.52 44.0 3.73e-01 100.0% 95.5%
4996262 1.1.4.1 ↗ beta barrels › cradle loop barrel › RIFT-related › Bacterial fluorinating enzyme-C › SAM_HAT_C 0.51 44.0 3.78e-01 100.0% 96.2%
5011401 1.1.4.1 ↗ beta barrels › cradle loop barrel › RIFT-related › Bacterial fluorinating enzyme-C › SAM_HAT_C 0.50 43.0 3.69e-01 100.0% 97.1%
D2 high residues 67-113
PDB
Domain cluster: representative
CATH (3)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3txsC01 1.10.287.1060 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like 0.90 65.0 5.48e-01 76.6% 49.3%
1xouB00 6.10.250.190 Special › Helix non-globular › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › 0.74 66.0 5.38e-01 97.9% 82.1%
4bf9A02 1.20.225.30 Mainly Alpha › Up-down Bundle › Bacteriocin As-48; Chain A › Dihydrouridine synthase, C-terminal recognition domain 0.69 46.0 4.02e-01 72.3% 45.2%