←Back to structures

KP162168.1__AJD83127.1__X__00003

Bact-Vir

KP162168.1__AJD83127.1__X__00003

Identity

Accession:
KP162168 ↗
Kingdom:
phage

Quality

92.0 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Zhuquevirus› Paracoccus_phage_vB_PmaS-R3

TaxID: 2494563

Cluster

View cluster (42 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 17-110
PDB
Domain cluster: rep: KT716399.1__ALH46233.1__POR1_28__00028__D1-91
CATH (26)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
4trtA01 3.10.150.10 Alpha Beta › Roll › DNA Polymerase III; Chain A, domain 2 › DNA Polymerase III, subunit A, domain 2 0.86 80.0 7.26e-01 100.0% 82.8%
3pweA01 3.10.150.10 Alpha Beta › Roll › DNA Polymerase III; Chain A, domain 2 › DNA Polymerase III, subunit A, domain 2 0.86 80.0 7.21e-01 100.0% 83.7%
4tr6A01 3.10.150.10 Alpha Beta › Roll › DNA Polymerase III; Chain A, domain 2 › DNA Polymerase III, subunit A, domain 2 0.85 79.0 6.23e-01 100.0% 61.1%
2avtB01 3.10.150.10 Alpha Beta › Roll › DNA Polymerase III; Chain A, domain 2 › DNA Polymerase III, subunit A, domain 2 0.84 79.0 6.31e-01 100.0% 60.5%
5wceA02 3.10.150.10 Alpha Beta › Roll › DNA Polymerase III; Chain A, domain 2 › DNA Polymerase III, subunit A, domain 2 0.84 78.0 6.96e-01 100.0% 84.5%
6ptrB01 3.10.150.10 Alpha Beta › Roll › DNA Polymerase III; Chain A, domain 2 › DNA Polymerase III, subunit A, domain 2 0.84 78.0 7.31e-01 100.0% 90.3%
3t0pA01 3.10.150.10 Alpha Beta › Roll › DNA Polymerase III; Chain A, domain 2 › DNA Polymerase III, subunit A, domain 2 0.84 78.0 6.24e-01 100.0% 59.3%
1vpkA01 3.10.150.10 Alpha Beta › Roll › DNA Polymerase III; Chain A, domain 2 › DNA Polymerase III, subunit A, domain 2 0.83 77.0 7.02e-01 100.0% 85.0%
5agvA02 3.10.150.10 Alpha Beta › Roll › DNA Polymerase III; Chain A, domain 2 › DNA Polymerase III, subunit A, domain 2 0.83 76.0 6.78e-01 100.0% 85.5%
5agvA01 3.10.150.10 Alpha Beta › Roll › DNA Polymerase III; Chain A, domain 2 › DNA Polymerase III, subunit A, domain 2 0.82 76.0 6.87e-01 100.0% 81.5%
1vpkA02 3.10.150.10 Alpha Beta › Roll › DNA Polymerase III; Chain A, domain 2 › DNA Polymerase III, subunit A, domain 2 0.82 76.0 6.80e-01 100.0% 81.2%
5wceA03 3.10.150.10 Alpha Beta › Roll › DNA Polymerase III; Chain A, domain 2 › DNA Polymerase III, subunit A, domain 2 0.82 76.0 6.98e-01 100.0% 86.6%
5w7zA01 3.10.150.10 Alpha Beta › Roll › DNA Polymerase III; Chain A, domain 2 › DNA Polymerase III, subunit A, domain 2 0.81 75.0 7.04e-01 100.0% 90.3%
4trtA02 3.10.150.10 Alpha Beta › Roll › DNA Polymerase III; Chain A, domain 2 › DNA Polymerase III, subunit A, domain 2 0.80 74.0 6.77e-01 100.0% 84.0%
1rwzA00 3.70.10.10 Alpha Beta › Box › Proliferating Cell Nuclear Antigen › 0.74 69.0 4.98e-01 100.0% 41.8%
1b77A00 3.70.10.10 Alpha Beta › Box › Proliferating Cell Nuclear Antigen › 0.74 68.0 5.05e-01 100.0% 41.2%
1ge8A00 3.70.10.10 Alpha Beta › Box › Proliferating Cell Nuclear Antigen › 0.72 66.0 4.84e-01 100.0% 45.0%
2ix2A01 3.70.10.10 Alpha Beta › Box › Proliferating Cell Nuclear Antigen › 0.70 62.0 4.66e-01 95.7% 44.8%
1ud9A00 3.70.10.10 Alpha Beta › Box › Proliferating Cell Nuclear Antigen › 0.69 63.0 4.63e-01 100.0% 43.8%
1ecsA00 3.10.180.10 Alpha Beta › Roll › 2,3-Dihydroxybiphenyl 1,2-Dioxygenase; domain 1 › 2,3-Dihydroxybiphenyl 1,2-Dioxygenase, domain 1 0.60 28.0 2.58e-01 75.5% 33.3%
3lzhA01 3.30.200.20 Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Phosphorylase Kinase; domain 1 0.59 30.0 3.08e-01 98.9% 49.5%
1ex4B02 2.30.30.10 Mainly Beta › Roll › SH3 type barrels. › Integrase, C-terminal domain superfamily, retroviral 0.53 25.0 3.06e-01 100.0% 67.8%
7qu9A01 3.60.120.10 Alpha Beta › 4-Layer Sandwich › Anthranilate synthase › Anthranilate synthase 0.53 39.0 2.56e-01 79.8% 79.9%
1k0eB00 3.60.120.10 Alpha Beta › 4-Layer Sandwich › Anthranilate synthase › Anthranilate synthase 0.52 39.0 2.59e-01 78.7% 76.8%
4bs9A01 3.90.930.60 Alpha Beta › Alpha-Beta Complex › Outer Surface Protein A; domain 3 › 0.52 33.0 3.32e-01 84.0% 62.1%
2p6rA02 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.50 39.0 3.12e-01 84.0% 72.4%
ECOD (24)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4995742 227.1.1.0 ↗ a+b two layers › DNA clamp › DNA clamp › DNA clamp 0.89 84.0 7.88e-01 100.0% 86.4%
4650306 227.1.1.3 ↗ a+b two layers › DNA clamp › DNA clamp › DNA clamp › DNA_pol3_beta 0.87 82.0 7.42e-01 100.0% 85.8%
4251800 227.1.1.3 ↗ a+b two layers › DNA clamp › DNA clamp › DNA clamp › DNA_pol3_beta 0.86 80.0 7.10e-01 100.0% 78.5%
1549269 227.1.1.3 ↗ a+b two layers › DNA clamp › DNA clamp › DNA clamp › DNA_pol3_beta 0.86 80.0 7.29e-01 100.0% 83.5%
4234515 227.1.1.3 ↗ a+b two layers › DNA clamp › DNA clamp › DNA clamp › DNA_pol3_beta 0.86 80.0 7.27e-01 100.0% 86.7%
1871494 227.1.1.3 ↗ a+b two layers › DNA clamp › DNA clamp › DNA clamp › DNA_pol3_beta 0.85 79.0 7.22e-01 100.0% 84.3%
158230 227.1.1.3 ↗ a+b two layers › DNA clamp › DNA clamp › DNA clamp › DNA_pol3_beta 0.85 79.0 7.07e-01 100.0% 85.8%
4480621 227.1.1.3 ↗ a+b two layers › DNA clamp › DNA clamp › DNA clamp › DNA_pol3_beta 0.85 79.0 7.20e-01 100.0% 84.2%
3387600 227.1.1.3 ↗ a+b two layers › DNA clamp › DNA clamp › DNA clamp › DNA_pol3_beta 0.84 78.0 7.15e-01 100.0% 85.0%
5977 227.1.1.3 ↗ a+b two layers › DNA clamp › DNA clamp › DNA clamp › DNA_pol3_beta 0.83 77.0 7.02e-01 100.0% 85.0%
2987540 227.1.1.3 ↗ a+b two layers › DNA clamp › DNA clamp › DNA clamp › DNA_pol3_beta 0.82 76.0 6.77e-01 100.0% 77.7%
5978 227.1.1.7 ↗ a+b two layers › DNA clamp › DNA clamp › DNA clamp › DNA_pol3_beta_2 0.82 76.0 6.91e-01 100.0% 84.6%
4315973 227.1.1.3 ↗ a+b two layers › DNA clamp › DNA clamp › DNA clamp › DNA_pol3_beta 0.82 76.0 6.84e-01 100.0% 85.6%
4995743 227.1.1.0 ↗ a+b two layers › DNA clamp › DNA clamp › DNA clamp 0.82 75.0 6.89e-01 100.0% 82.5%
1549270 227.1.1.7 ↗ a+b two layers › DNA clamp › DNA clamp › DNA clamp › DNA_pol3_beta_2 0.80 74.0 6.81e-01 100.0% 85.5%
4939065 227.1.1.1 ↗ a+b two layers › DNA clamp › DNA clamp › DNA clamp › PCNA_N 0.76 71.0 6.48e-01 100.0% 85.0%
5990 227.1.1.1 ↗ a+b two layers › DNA clamp › DNA clamp › DNA clamp › PCNA_N 0.74 69.0 6.25e-01 100.0% 83.6%
5980 227.1.1.9 ↗ a+b two layers › DNA clamp › DNA clamp › DNA clamp › DNA_PPF 0.74 68.0 6.43e-01 100.0% 85.5%
3389498 5.1.4.179 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › Beta-prop_Vps41 0.55 42.0 2.90e-01 83.0% 71.6%
3219425 5.1.3.238 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed › PF29568 0.54 37.0 3.40e-01 71.3% 95.2%
3699699 5.1.4.179 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › Beta-prop_Vps41 0.54 40.0 3.12e-01 79.8% 77.8%
3518334 5.1.4.179 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › Beta-prop_Vps41 0.54 40.0 2.72e-01 79.8% 88.3%
3625202 719.1.1.0 ↗ beta barrels › XRCC4, N-terminal domain-like › XRCC4, N-terminal domain › XRCC4, N-terminal domain 0.53 36.0 4.08e-01 100.0% 94.3%
4938286 274.1.1.0 ↗ a+b two layers › Pili subunits › Pili subunits › Pili subunits 0.52 40.0 3.80e-01 95.7% 68.7%
D2 high residues 123-226
PDB
Domain cluster: rep: IMGVR_UViG_3300028564_000083-3300028564-Ga0255344_100350621__D115-222
D3 high residues 232-332
PDB
Domain cluster: representative
CATH (13)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
4tr6A01 3.10.150.10 Alpha Beta › Roll › DNA Polymerase III; Chain A, domain 2 › DNA Polymerase III, subunit A, domain 2 0.76 64.0 5.23e-01 90.1% 64.4%
3pweA01 3.10.150.10 Alpha Beta › Roll › DNA Polymerase III; Chain A, domain 2 › DNA Polymerase III, subunit A, domain 2 0.76 64.0 5.98e-01 90.1% 88.6%
6ptrB01 3.10.150.10 Alpha Beta › Roll › DNA Polymerase III; Chain A, domain 2 › DNA Polymerase III, subunit A, domain 2 0.75 62.0 6.02e-01 89.1% 94.7%
1vpkA01 3.10.150.10 Alpha Beta › Roll › DNA Polymerase III; Chain A, domain 2 › DNA Polymerase III, subunit A, domain 2 0.75 63.0 5.93e-01 90.1% 90.0%
5wceA02 3.10.150.10 Alpha Beta › Roll › DNA Polymerase III; Chain A, domain 2 › DNA Polymerase III, subunit A, domain 2 0.74 65.0 5.98e-01 94.1% 90.7%
3ifvC00 3.70.10.10 Alpha Beta › Box › Proliferating Cell Nuclear Antigen › 0.71 65.0 4.86e-01 100.0% 51.2%
1rwzA00 3.70.10.10 Alpha Beta › Box › Proliferating Cell Nuclear Antigen › 0.69 62.0 4.68e-01 100.0% 49.2%
1b77A00 3.70.10.10 Alpha Beta › Box › Proliferating Cell Nuclear Antigen › 0.69 62.0 4.75e-01 100.0% 50.9%
2ix2A01 3.70.10.10 Alpha Beta › Box › Proliferating Cell Nuclear Antigen › 0.63 56.0 4.37e-01 98.0% 84.6%
3kihC01 2.20.25.510 Mainly Beta › Single Sheet › N-terminal domain of TfIIb › 0.62 21.0 3.32e-01 81.2% 82.4%
1e88A03 2.10.70.10 Mainly Beta › Ribbon › Complement Module; domain 1 › Complement Module, domain 1 0.55 23.0 3.19e-01 94.1% 83.3%
1ex4B02 2.30.30.10 Mainly Beta › Roll › SH3 type barrels. › Integrase, C-terminal domain superfamily, retroviral 0.54 27.0 3.33e-01 92.1% 78.0%
5h3xA03 3.40.970.40 Alpha Beta › 3-Layer(aba) Sandwich › Ribonuclease HI; Chain A › fibrinogen binding protein from staphylococcus aureus domain like 0.51 22.0 2.97e-01 78.2% 89.7%
ECOD (8)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4995743 227.1.1.0 ↗ a+b two layers › DNA clamp › DNA clamp › DNA clamp 0.78 68.0 6.44e-01 94.1% 91.7%
5980 227.1.1.9 ↗ a+b two layers › DNA clamp › DNA clamp › DNA clamp › DNA_PPF 0.74 61.0 5.96e-01 88.1% 84.5%
3936915 227.1.1.0 ↗ a+b two layers › DNA clamp › DNA clamp › DNA clamp 0.74 62.0 5.66e-01 90.1% 90.8%
4995744 227.1.1.0 ↗ a+b two layers › DNA clamp › DNA clamp › DNA clamp 0.70 62.0 5.85e-01 99.0% 95.1%
3602548 227.1.1.1 ↗ a+b two layers › DNA clamp › DNA clamp › DNA clamp › PCNA_N 0.70 58.0 5.41e-01 90.1% 89.6%
5074320 227.1.1.0 ↗ a+b two layers › DNA clamp › DNA clamp › DNA clamp 0.66 55.0 5.12e-01 93.1% 91.5%
5023031 227.1.1.1 ↗ a+b two layers › DNA clamp › DNA clamp › DNA clamp › PCNA_N 0.65 55.0 5.19e-01 95.0% 93.6%
3624696 3351.1.1.1 ↗ a/b three-layered sandwiches › Atg7 N-terminal domain-like › N-terminal domain in E1 enzyme Atg7 › N-terminal domain in E1 enzyme Atg7 › ATG7_N 0.53 41.0 3.93e-01 83.2% 90.8%