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NC_054726.1__YP_010059640.1__KHQ86_gp135__00164

Bact-Vir

NC_054726.1__YP_010059640.1__KHQ86_gp135__00164

Identity

Accession:
NC_054726 ↗
Kingdom:
phage

Quality

89.4 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Stormageddonvirus› Gordonia_phage_Stormageddon

TaxID: 2656541

Cluster

View cluster (8 members)

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 5-147
PDB
Domain cluster: representative
CATH (27)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1oxxK02 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.62 17.0 2.96e-01 79.0% 71.1%
1wiiA01 2.20.25.190 Mainly Beta › Single Sheet › N-terminal domain of TfIIb › 0.61 20.0 3.05e-01 79.7% 67.7%
1wu7A03 3.40.50.800 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Anticodon-binding domain 0.59 34.0 4.15e-01 95.1% 84.5%
1httA02 3.40.50.800 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Anticodon-binding domain 0.58 35.0 4.13e-01 94.4% 85.7%
2hezA00 3.60.60.10 Alpha Beta › 4-Layer Sandwich › Penicillin V Acylase; Chain A › Penicillin V Acylase; Chain A 0.58 53.0 4.09e-01 99.3% 98.4%
2oqcA00 3.60.60.10 Alpha Beta › 4-Layer Sandwich › Penicillin V Acylase; Chain A › Penicillin V Acylase; Chain A 0.58 53.0 4.08e-01 100.0% 95.3%
2bjfA01 3.60.60.10 Alpha Beta › 4-Layer Sandwich › Penicillin V Acylase; Chain A › Penicillin V Acylase; Chain A 0.58 53.0 4.08e-01 100.0% 98.7%
2q5iA03 3.40.50.800 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Anticodon-binding domain 0.58 35.0 3.80e-01 94.4% 71.1%
1nj1A02 3.40.50.800 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Anticodon-binding domain 0.57 35.0 4.09e-01 95.1% 83.7%
2pvaA00 3.60.60.10 Alpha Beta › 4-Layer Sandwich › Penicillin V Acylase; Chain A › Penicillin V Acylase; Chain A 0.57 52.0 3.97e-01 99.3% 94.3%
3netB02 3.40.50.800 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Anticodon-binding domain 0.57 34.0 3.99e-01 94.4% 83.7%
1adjB02 3.40.50.800 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Anticodon-binding domain 0.57 33.0 3.97e-01 94.4% 86.2%
2i4lB02 3.40.50.800 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Anticodon-binding domain 0.57 34.0 4.04e-01 94.4% 84.2%
4hwtA02 3.40.50.800 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Anticodon-binding domain 0.57 33.0 3.77e-01 94.4% 75.5%
2j3lA01 3.40.50.800 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Anticodon-binding domain 0.56 35.0 3.89e-01 96.5% 77.0%
5e3iA02 3.40.50.800 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Anticodon-binding domain 0.56 34.0 4.07e-01 94.4% 86.9%
1g5hB02 3.40.50.800 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Anticodon-binding domain 0.56 34.0 3.96e-01 95.1% 82.2%
5hkeA01 3.60.60.10 Alpha Beta › 4-Layer Sandwich › Penicillin V Acylase; Chain A › Penicillin V Acylase; Chain A 0.55 50.0 3.91e-01 99.3% 98.7%
4wi1A02 3.40.50.800 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Anticodon-binding domain 0.55 35.0 3.76e-01 95.1% 73.2%
4fw1A02 2.30.30.10 Mainly Beta › Roll › SH3 type barrels. › Integrase, C-terminal domain superfamily, retroviral 0.55 21.0 3.28e-01 88.8% 88.9%
1dz1A00 2.40.50.40 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.55 23.0 3.09e-01 91.6% 72.9%
2lw7A02 3.40.50.800 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Anticodon-binding domain 0.54 32.0 3.57e-01 94.4% 72.8%
1atiB02 3.40.50.800 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Anticodon-binding domain 0.53 35.0 3.94e-01 94.4% 83.9%
3wirA03 2.60.420.10 Mainly Beta › Sandwich › Maltose phosphorylase, domain 3 › Maltose phosphorylase, domain 3 0.53 23.0 3.06e-01 92.3% 76.8%
3ot2A00 3.90.1570.10 Alpha Beta › Alpha-Beta Complex › tt1808, chain A › tt1808, chain A 0.52 36.0 3.39e-01 70.6% 81.0%
1w9pA02 3.10.50.10 Alpha Beta › Roll › Chitinase A; domain 3 › 0.51 22.0 3.04e-01 76.9% 82.5%
7cfdA01 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.51 20.0 2.62e-01 93.0% 61.6%
ECOD (61)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3646226 375.1.1.31 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › Elf1 0.61 23.0 3.07e-01 86.0% 61.3%
4381486 7502.1.1.0 ↗ a/b three-layered sandwiches › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS 0.60 35.0 4.35e-01 97.2% 92.0%
4042731 7502.1.1.1 ↗ a/b three-layered sandwiches › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › HGTP_anticodon 0.60 35.0 4.19e-01 94.4% 86.3%
5032068 7502.1.1.1 ↗ a/b three-layered sandwiches › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › HGTP_anticodon 0.60 33.0 4.02e-01 94.4% 81.1%
4352252 7502.1.1.1 ↗ a/b three-layered sandwiches › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › HGTP_anticodon 0.60 34.0 4.14e-01 94.4% 86.0%
4600127 7502.1.1.1 ↗ a/b three-layered sandwiches › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › HGTP_anticodon 0.60 35.0 3.82e-01 94.4% 69.5%
4317320 7502.1.1.1 ↗ a/b three-layered sandwiches › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › HGTP_anticodon 0.59 35.0 4.12e-01 94.4% 83.7%
4947286 7502.1.1.0 ↗ a/b three-layered sandwiches › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS 0.59 35.0 3.88e-01 94.4% 72.2%
4979299 7502.1.1.0 ↗ a/b three-layered sandwiches › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS 0.59 35.0 3.87e-01 95.1% 72.2%
5081385 7502.1.1.0 ↗ a/b three-layered sandwiches › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS 0.59 35.0 2.46e-01 95.1% 19.8%
4595485 7502.1.1.1 ↗ a/b three-layered sandwiches › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › HGTP_anticodon 0.59 35.0 3.67e-01 95.1% 63.0%
4038226 7502.1.1.1 ↗ a/b three-layered sandwiches › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › HGTP_anticodon 0.59 34.0 4.06e-01 94.4% 82.0%
4133993 7502.1.1.1 ↗ a/b three-layered sandwiches › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › HGTP_anticodon 0.59 34.0 4.20e-01 94.4% 91.1%
4392197 7502.1.1.1 ↗ a/b three-layered sandwiches › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › HGTP_anticodon 0.58 34.0 4.05e-01 94.4% 83.0%
4595963 7502.1.1.0 ↗ a/b three-layered sandwiches › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS 0.58 35.0 4.17e-01 94.4% 88.4%
4441518 7502.1.1.1 ↗ a/b three-layered sandwiches › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › HGTP_anticodon 0.58 35.0 4.17e-01 95.1% 88.4%
4125289 7502.1.1.1 ↗ a/b three-layered sandwiches › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › HGTP_anticodon 0.58 34.0 4.10e-01 94.4% 86.2%
4532648 7502.1.1.1 ↗ a/b three-layered sandwiches › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › HGTP_anticodon 0.58 34.0 3.97e-01 94.4% 80.8%
3076049 210.1.2.2 ↗ a+b four layers › Ntn/PP2C › Ntn › Penicillin acylase, catalytic domain › CBAH 0.58 53.0 4.05e-01 100.0% 93.6%
4459236 7502.1.1.0 ↗ a/b three-layered sandwiches › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS 0.58 35.0 4.08e-01 94.4% 84.0%
4149625 7502.1.1.1 ↗ a/b three-layered sandwiches › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › HGTP_anticodon 0.58 34.0 4.05e-01 94.4% 82.8%
4525386 210.1.2.2 ↗ a+b four layers › Ntn/PP2C › Ntn › Penicillin acylase, catalytic domain › CBAH 0.58 52.0 4.10e-01 99.3% 96.1%
4064887 7502.1.1.1 ↗ a/b three-layered sandwiches › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › HGTP_anticodon 0.58 34.0 4.01e-01 94.4% 83.0%
4112874 7502.1.1.1 ↗ a/b three-layered sandwiches › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › HGTP_anticodon 0.58 34.0 3.69e-01 94.4% 67.2%
3981268 210.1.2.2 ↗ a+b four layers › Ntn/PP2C › Ntn › Penicillin acylase, catalytic domain › CBAH 0.58 53.0 4.06e-01 100.0% 95.7%
4345074 7502.1.1.1 ↗ a/b three-layered sandwiches › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › HGTP_anticodon 0.58 34.0 3.92e-01 95.1% 79.6%
4286008 7502.1.1.1 ↗ a/b three-layered sandwiches › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › HGTP_anticodon 0.58 34.0 3.99e-01 94.4% 82.0%
4394756 7502.1.1.1 ↗ a/b three-layered sandwiches › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › HGTP_anticodon 0.58 33.0 3.90e-01 94.4% 80.0%
4078006 7502.1.1.1 ↗ a/b three-layered sandwiches › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › HGTP_anticodon 0.58 34.0 3.94e-01 94.4% 80.0%
4626959 210.1.2.2 ↗ a+b four layers › Ntn/PP2C › Ntn › Penicillin acylase, catalytic domain › CBAH 0.58 52.0 4.01e-01 100.0% 95.1%
4054592 7502.1.1.1 ↗ a/b three-layered sandwiches › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › HGTP_anticodon 0.57 33.0 3.89e-01 94.4% 80.0%
5064174 7502.1.1.1 ↗ a/b three-layered sandwiches › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › HGTP_anticodon 0.57 33.0 3.99e-01 94.4% 85.1%
4419877 7502.1.1.1 ↗ a/b three-layered sandwiches › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › HGTP_anticodon 0.57 35.0 3.71e-01 94.4% 68.0%
4946047 7502.1.1.0 ↗ a/b three-layered sandwiches › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS 0.57 34.0 4.01e-01 97.2% 84.0%
4427469 7502.1.1.1 ↗ a/b three-layered sandwiches › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › HGTP_anticodon 0.57 35.0 3.60e-01 94.4% 63.0%
4384939 7502.1.1.1 ↗ a/b three-layered sandwiches › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › HGTP_anticodon 0.57 33.0 4.02e-01 95.1% 87.2%
4966836 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.57 22.0 3.38e-01 95.1% 89.1%
4415964 7502.1.1.1 ↗ a/b three-layered sandwiches › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › HGTP_anticodon 0.57 34.0 4.03e-01 94.4% 84.8%
4956219 7502.1.1.1 ↗ a/b three-layered sandwiches › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › HGTP_anticodon 0.56 35.0 3.78e-01 95.1% 72.5%
4564801 7502.1.1.1 ↗ a/b three-layered sandwiches › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › HGTP_anticodon 0.56 33.0 3.92e-01 94.4% 85.3%
4441936 7502.1.1.1 ↗ a/b three-layered sandwiches › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › HGTP_anticodon 0.56 35.0 3.67e-01 96.5% 66.9%
4120451 7502.1.1.1 ↗ a/b three-layered sandwiches › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › HGTP_anticodon 0.56 35.0 3.68e-01 96.5% 66.7%
4136172 7502.1.1.1 ↗ a/b three-layered sandwiches › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › HGTP_anticodon 0.56 33.0 3.94e-01 94.4% 86.3%
4248887 7502.1.1.1 ↗ a/b three-layered sandwiches › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › HGTP_anticodon 0.56 35.0 3.65e-01 96.5% 67.7%
4218691 7502.1.1.1 ↗ a/b three-layered sandwiches › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › HGTP_anticodon 0.56 34.0 4.12e-01 95.1% 94.4%
4031949 210.1.2.4 ↗ a+b four layers › Ntn/PP2C › Ntn › Penicillin acylase, catalytic domain › AAT 0.56 44.0 3.43e-01 83.9% 65.9%
1014 66.1.1.2 ↗ beta sandwiches › ISP domain › ISP domain › ISP domain › Rieske_2 0.56 20.0 3.10e-01 90.2% 91.1%
4381621 7502.1.1.1 ↗ a/b three-layered sandwiches › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › HGTP_anticodon 0.55 35.0 3.11e-01 95.1% 45.6%
4176748 7502.1.1.1 ↗ a/b three-layered sandwiches › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › HGTP_anticodon 0.55 34.0 3.68e-01 94.4% 70.4%
4538597 7502.1.1.1 ↗ a/b three-layered sandwiches › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › HGTP_anticodon 0.55 36.0 4.01e-01 96.5% 83.6%
4241758 7502.1.1.1 ↗ a/b three-layered sandwiches › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › HGTP_anticodon 0.55 35.0 3.80e-01 95.1% 75.8%
3077774 7502.1.1.1 ↗ a/b three-layered sandwiches › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › HGTP_anticodon 0.55 34.0 3.57e-01 95.1% 65.7%
4238930 7502.1.1.1 ↗ a/b three-layered sandwiches › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › HGTP_anticodon 0.55 34.0 3.99e-01 94.4% 88.0%
4163844 7502.1.1.1 ↗ a/b three-layered sandwiches › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › HGTP_anticodon 0.54 33.0 3.88e-01 94.4% 88.4%
3919131 7502.1.1.1 ↗ a/b three-layered sandwiches › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › HGTP_anticodon 0.54 35.0 3.82e-01 95.1% 77.5%
3393174 7502.1.1.1 ↗ a/b three-layered sandwiches › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › HGTP_anticodon 0.54 35.0 3.90e-01 94.4% 81.7%
3784471 7502.1.1.1 ↗ a/b three-layered sandwiches › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › HGTP_anticodon 0.54 35.0 4.01e-01 94.4% 87.3%
4562754 7502.1.1.1 ↗ a/b three-layered sandwiches › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › HGTP_anticodon 0.52 33.0 3.86e-01 94.4% 90.0%
4600223 616.1.1.33 ↗ alpha arrays › S15/NS1 RNA-binding domain › S15/NS1 RNA-binding domain › S15/NS1 RNA-binding domain › UPF0262 0.52 30.0 3.08e-01 100.0% 57.2%
3505956 5.1.3.2 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed › Ldl_recept_b 0.51 39.0 3.13e-01 79.0% 88.6%
3591168 7502.1.1.0 ↗ a/b three-layered sandwiches › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS 0.51 32.0 3.70e-01 95.8% 86.5%