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NC_023735.1__YP_009017707.1__CL92_gp061__00093

Bact-Vir

NC_023735.1__YP_009017707.1__CL92_gp061__00093

Identity

Accession:
NC_023735 ↗
Kingdom:
phage

Quality

73.6 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Pepyhexavirus› Rhodococcus_phage_ReqiPepy6

TaxID: 691965

Cluster

View cluster (2 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 26-75
PDB
Domain cluster: representative
CATH (25)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3ttgA00 3.30.1360.120 Alpha Beta › 2-Layer Sandwich › Gyrase A; domain 2 › Probable tRNA modification gtpase trme; domain 1 0.67 56.0 3.46e-01 100.0% 54.9%
3fm8D03 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.67 51.0 4.05e-01 86.0% 48.1%
4nswA02 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.67 50.0 3.98e-01 84.0% 42.2%
4d9gA02 3.40.50.1100 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.65 55.0 4.18e-01 96.0% 63.9%
4hhvA00 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.64 49.0 3.93e-01 84.0% 42.7%
2e1mA05 1.10.405.10 Mainly Alpha › Orthogonal Bundle › Guanine Nucleotide Dissociation Inhibitor; domain 1 › Guanine Nucleotide Dissociation Inhibitor, domain 1 0.62 39.0 3.21e-01 94.0% 35.2%
5hwoA00 3.40.47.10 Alpha Beta › 3-Layer(aba) Sandwich › Peroxisomal Thiolase; Chain A, domain 1 › Thiolase/Chalcone synthase 0.61 47.0 2.77e-01 84.0% 51.7%
5umsA02 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.61 48.0 4.06e-01 98.0% 54.9%
2e5vA01 3.50.50.60 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain 0.58 43.0 2.78e-01 84.0% 35.8%
1icwB00 2.40.50.40 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.57 39.0 3.61e-01 72.0% 95.5%
1nijA01 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.57 48.0 3.26e-01 98.0% 80.6%
3eeqA01 3.40.50.11220 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.57 45.0 3.43e-01 88.0% 48.3%
4yapA01 3.40.30.10 Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › Glutaredoxin 0.56 41.0 3.07e-01 78.0% 63.5%
2x5cA01 3.30.70.3590 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.56 39.0 3.24e-01 74.0% 83.5%
1u7pD00 3.40.50.1000 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › HAD superfamily/HAD-like 0.56 46.0 3.38e-01 100.0% 92.5%
3gv1A00 3.40.30.10 Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › Glutaredoxin 0.56 40.0 3.06e-01 82.0% 89.9%
1wraA01 3.60.15.10 Alpha Beta › 4-Layer Sandwich › Metallo-beta-lactamase; Chain A › Ribonuclease Z/Hydroxyacylglutathione hydrolase-like 0.56 46.0 2.94e-01 100.0% 24.3%
2x0jA02 3.90.110.10 Alpha Beta › Alpha-Beta Complex › L-2-Hydroxyisocaproate Dehydrogenase; Chain A, domain 2 › Lactate dehydrogenase/glycoside hydrolase, family 4, C-terminal 0.55 42.0 3.02e-01 84.0% 35.5%
4m8aA00 3.30.720.210 Alpha Beta › 2-Layer Sandwich › Signal recognition particle alu RNA binding heterodimer, srp9/1 › 0.54 42.0 3.99e-01 96.0% 71.6%
4oo3A01 3.40.50.720 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain 0.54 45.0 3.35e-01 100.0% 93.1%
2b7oA01 3.20.20.70 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Aldolase class I 0.54 45.0 2.81e-01 100.0% 30.0%
4gf0A01 3.40.30.10 Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › Glutaredoxin 0.52 44.0 3.65e-01 100.0% 67.4%
4hcsA00 2.40.50.40 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.51 40.0 3.78e-01 94.0% 74.6%
7wu1A01 3.30.870.10 Alpha Beta › 2-Layer Sandwich › Endonuclease; Chain A › Endonuclease Chain A 0.51 42.0 2.90e-01 96.0% 47.5%
2xdqB02 3.40.50.1980 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Nitrogenase molybdenum iron protein domain 0.51 41.0 3.50e-01 100.0% 53.3%
ECOD (25)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4144852 220.1.1.126 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › Ycf4 0.76 65.0 5.05e-01 96.0% 55.6%
4484723 220.1.1.126 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › Ycf4 0.74 62.0 4.96e-01 96.0% 56.7%
4257154 220.1.1.126 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › Ycf4 0.73 61.0 4.81e-01 96.0% 51.9%
3226288 2484.1.1.190 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › FBA_2 0.72 61.0 3.90e-01 100.0% 52.4%
3797728 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.71 55.0 4.64e-01 86.0% 52.9%
3593319 304.48.1.0 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like 0.70 51.0 3.58e-01 84.0% 82.2%
3291744 2484.1.1.4 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › RNase_H 0.68 56.0 4.85e-01 96.0% 90.0%
4202129 2484.1.1.25 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › RuvC 0.65 53.0 3.88e-01 100.0% 61.9%
4982751 7597.1.1.0 ↗ a/b three-layered sandwiches › Endolysin C-terminal domain › Endolysin C-terminal domain › Endolysin C-terminal domain 0.64 47.0 3.96e-01 100.0% 48.8%
3493556 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.63 48.0 3.76e-01 84.0% 38.2%
3515993 220.1.1.13 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › DCP1 0.62 46.0 3.55e-01 84.0% 34.2%
3920905 220.1.1.19 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › Rttp106-like_middle 0.58 45.0 3.66e-01 100.0% 45.2%
3683094 109.4.1.1272 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_2, PPR_3, E_motif 0.58 45.0 2.53e-01 86.0% 14.5%
4928575 2002.3.1.2 ↗ a/b barrels › TIM beta/alpha-barrel › Glycoside hydrolase/deacetylase › Glycoside hydrolase/deacetylase › Polysacc_deac_1 0.56 48.0 3.15e-01 98.0% 95.8%
5081548 2008.1.1.7 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › ERCC4 0.56 47.0 3.44e-01 100.0% 63.2%
3396736 65.1.1.0 ↗ beta sandwiches › Composite domain of metallo-dependent hydrolases › Composite domain of metallo-dependent hydrolases › Composite domain of metallo-dependent hydrolases 0.56 45.0 4.21e-01 96.0% 90.8%
3626345 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.56 42.0 3.33e-01 84.0% 38.2%
4954148 4143.1.1.6 ↗ a+b two layers › THUMP domain-like › THUMP domain-like › THUMP domain-like › Pus10_THUMP_arc 0.54 49.0 3.41e-01 100.0% 35.5%
4213616 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 43.0 3.69e-01 98.0% 82.1%
1117773 1.1.13.24 ↗ beta barrels › cradle loop barrel › RIFT-related › Phage tail proteins › DTP-pb9_A-dom_C,DTP-pb9_A-dom_N 0.53 45.0 4.10e-01 96.0% 100.0%
1346783 7515.1.1.2 ↗ a/b three-layered sandwiches › Alkaline phosphatase-like › Alkaline phosphatase-like › Alkaline phosphatase-like › Sulfatase 0.53 44.0 2.65e-01 100.0% 48.7%
3343688 4104.1.1.0 ↗ beta sandwiches › EscU C-terminal domain-like › EscU C-terminal domain-like › EscU C-terminal domain-like 0.53 43.0 3.52e-01 98.0% 51.4%
1388503 4263.2.1.1 ↗ a+b two layers › TTHA1528-like › FtsH Periplasmic Domain › FtsH Periplasmic Domain › FtsH_ext 0.53 41.0 3.85e-01 96.0% 70.6%
4881988 220.1.1.19 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › Rttp106-like_middle 0.52 40.0 3.65e-01 92.0% 65.4%
4929231 2002.3.1.2 ↗ a/b barrels › TIM beta/alpha-barrel › Glycoside hydrolase/deacetylase › Glycoside hydrolase/deacetylase › Polysacc_deac_1 0.52 45.0 2.82e-01 100.0% 87.4%