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OP009288.1__UUV45030.1__RCWHITEOAK_12__00012

Bact-Vir

OP009288.1__UUV45030.1__RCWHITEOAK_12__00012

Identity

Accession:
OP009288 ↗
Kingdom:
phage

Quality

91.9 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Casjensviridae› Rhodobacter_phage_RcWhiteOak

TaxID: 2970530

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 308-379
PDB
Domain cluster: rep: NC_021343.1__YP_008060509.1__M190_gp35__00035__D811-876
CATH (19)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1k8iA01 3.10.320.10 Alpha Beta › Roll › Class II Histocompatibility Antigen, M Beta Chain; Chain B, domain 1 › Class II Histocompatibility Antigen, M Beta Chain; Chain B, domain 1 0.60 40.0 3.96e-01 88.9% 64.9%
1a6zA01 3.30.500.10 Alpha Beta › 2-Layer Sandwich › Murine Class I Major Histocompatibility Complex, H2-DB; Chain A, domain 1 › MHC class I-like antigen recognition-like 0.58 45.0 3.30e-01 90.3% 33.0%
2aq5A01 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.58 45.0 2.99e-01 88.9% 51.3%
1hyrC01 3.30.500.10 Alpha Beta › 2-Layer Sandwich › Murine Class I Major Histocompatibility Complex, H2-DB; Chain A, domain 1 › MHC class I-like antigen recognition-like 0.58 51.0 3.76e-01 95.8% 75.0%
3jvgA01 3.30.500.10 Alpha Beta › 2-Layer Sandwich › Murine Class I Major Histocompatibility Complex, H2-DB; Chain A, domain 1 › MHC class I-like antigen recognition-like 0.56 42.0 3.16e-01 90.3% 33.5%
4wjsA01 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.56 43.0 2.84e-01 90.3% 70.3%
3qr8A02 6.20.150.10 Special › Other non-globular › Chondroitinase Ac; Chain A, domain 3 › 0.55 35.0 3.53e-01 100.0% 63.0%
5wbyC01 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.54 42.0 2.83e-01 87.5% 67.7%
1t7vA01 3.30.500.10 Alpha Beta › 2-Layer Sandwich › Murine Class I Major Histocompatibility Complex, H2-DB; Chain A, domain 1 › MHC class I-like antigen recognition-like 0.54 41.0 3.09e-01 86.1% 33.1%
1r5mA00 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.53 44.0 2.93e-01 98.6% 56.1%
1eurA00 2.120.10.10 Mainly Beta › 6 Propeller › Neuraminidase › 0.53 41.0 2.71e-01 88.9% 56.2%
4ms4B02 3.40.50.2300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Response regulator 0.52 44.0 3.30e-01 93.1% 97.8%
1zt4C01 3.30.500.10 Alpha Beta › 2-Layer Sandwich › Murine Class I Major Histocompatibility Complex, H2-DB; Chain A, domain 1 › MHC class I-like antigen recognition-like 0.51 45.0 3.42e-01 100.0% 78.2%
2ovrB02 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.51 42.0 2.81e-01 97.2% 46.0%
3l9rA01 3.30.500.10 Alpha Beta › 2-Layer Sandwich › Murine Class I Major Histocompatibility Complex, H2-DB; Chain A, domain 1 › MHC class I-like antigen recognition-like 0.51 37.0 2.87e-01 84.7% 32.6%
3ctkA01 3.40.420.10 Alpha Beta › 3-Layer(aba) Sandwich › Ricin (A subunit); domain 1 › Ricin (A subunit), domain 1 0.51 44.0 3.39e-01 98.6% 59.9%
1mmuA00 2.70.98.10 Mainly Beta › Distorted Sandwich › Beta-galactosidase; Chain A, domain 5 › 0.51 43.0 2.82e-01 97.2% 86.4%
1llnA01 3.40.420.10 Alpha Beta › 3-Layer(aba) Sandwich › Ricin (A subunit); domain 1 › Ricin (A subunit), domain 1 0.51 43.0 3.36e-01 100.0% 58.9%
1a0rB00 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.50 42.0 2.84e-01 100.0% 50.7%
ECOD (16)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3597390 77.2.1.0 ↗ beta meanders › open-sided beta-meander › Histone H3 K4-specific methyltransferase SET7/9-N › Histone H3 K4-specific methyltransferase SET7/9-N 0.68 46.0 4.08e-01 70.8% 58.1%
3912902 233.1.1.3 ↗ a+b two layers › MHC antigen-recognition domain › MHC antigen-recognition domain › MHC antigen-recognition domain › MHC_II_alpha 0.64 41.0 3.93e-01 81.9% 55.3%
3946712 79.1.1.0 ↗ beta duplicates or obligate multimers › Phage tail fiber protein trimerization domain › Phage tail fiber protein trimerization domain › Phage tail fiber protein trimerization domain 0.58 35.0 3.45e-01 80.6% 55.0%
3272437 5.1.4.39 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › ANAPC4_WD40 0.57 46.0 2.91e-01 94.4% 59.8%
3981434 79.1.1.15 ↗ beta duplicates or obligate multimers › Phage tail fiber protein trimerization domain › Phage tail fiber protein trimerization domain › Phage tail fiber protein trimerization domain › Apex 0.56 35.0 3.16e-01 80.6% 44.0%
3253837 5.1.4.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed 0.54 43.0 2.85e-01 90.3% 52.6%
4649150 63.1.1.0 ↗ beta barrels › Mannose 6-phosphate receptor domain › Mannose 6-phosphate receptor domain › Mannose 6-phosphate receptor domain 0.54 45.0 3.57e-01 95.8% 68.4%
3266580 5.1.4.1 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › WD40 0.53 42.0 3.12e-01 93.1% 80.9%
3935776 5.1.4.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed 0.53 41.0 2.76e-01 90.3% 51.3%
3406501 5.1.5.1 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 8-bladed › WD40 0.53 42.0 2.52e-01 94.4% 22.8%
3169647 5.1.4.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed 0.52 42.0 2.83e-01 94.4% 47.0%
3301044 12.3.1.3 ↗ beta sandwiches › Glycosyl hydrolase domain-like › supersandwich › supersandwich › Aldose_epim 0.52 44.0 3.30e-01 98.6% 90.7%
3246578 5.1.4.1 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › WD40 0.52 41.0 2.73e-01 97.2% 53.8%
None — 0.51 36.0 2.63e-01 70.8% 55.1%
3422222 5.3.1.2 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-Prism II › beta-Prism II › B_lectin 0.51 39.0 3.34e-01 84.7% 74.2%
3932539 5.1.4.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed 0.50 41.0 2.83e-01 97.2% 44.7%
D2 medium residues 59-106
PDB
Domain cluster: rep: NC_021343.1__YP_008060509.1__M190_gp35__00035__D811-876
CATH (30)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1ospO02 3.90.930.1 Alpha Beta › Alpha-Beta Complex › Outer Surface Protein A; domain 3 › 0.66 52.0 3.74e-01 93.8% 29.5%
3ebyA00 3.10.450.50 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.63 49.0 3.44e-01 85.4% 34.6%
1jofA00 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.63 48.0 2.89e-01 85.4% 11.8%
2wozA00 2.120.10.80 Mainly Beta › 6 Propeller › Neuraminidase › Kelch-type beta propeller 0.62 50.0 3.17e-01 100.0% 28.7%
3nqhA01 2.115.10.20 Mainly Beta › 5 Propeller › Tachylectin-2; Chain A › Glycosyl hydrolase domain; family 43 0.60 49.0 3.02e-01 91.7% 32.3%
4yfbC01 3.60.20.10 Alpha Beta › 4-Layer Sandwich › Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1 › Aminohydrolase, N-terminal nucleophile (Ntn) domain 0.60 51.0 3.18e-01 100.0% 95.1%
2i7nA02 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.59 45.0 3.21e-01 85.4% 37.4%
2mm0A00 2.10.70.110 Mainly Beta › Ribbon › Complement Module; domain 1 › 0.59 39.0 3.67e-01 97.9% 53.1%
4bthB01 3.60.20.10 Alpha Beta › 4-Layer Sandwich › Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1 › Aminohydrolase, N-terminal nucleophile (Ntn) domain 0.58 47.0 3.03e-01 100.0% 28.9%
1w7cA03 3.10.450.40 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.57 48.0 3.72e-01 100.0% 53.0%
1k8kD02 3.30.1460.20 Alpha Beta › 2-Layer Sandwich › Yope Regulator; Chain: A, › 0.56 47.0 3.56e-01 100.0% 65.6%
6eugA00 2.115.10.20 Mainly Beta › 5 Propeller › Tachylectin-2; Chain A › Glycosyl hydrolase domain; family 43 0.56 44.0 2.73e-01 95.8% 53.6%
4gzvA00 2.40.128.490 Mainly Beta › Beta Barrel › Lipocalin › Uncharacterised protein PF14869 family, DUF4488 0.56 47.0 3.51e-01 100.0% 47.5%
1zxtA01 2.40.50.40 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.55 36.0 3.41e-01 79.2% 50.8%
4obiA00 2.60.320.10 Mainly Beta › Sandwich › mini-chromosome maintenance (MCM) complex, domain 2 › N-utilization substance G protein NusG, insert domain 0.55 40.0 3.43e-01 87.5% 43.7%
2x8fA01 2.115.10.20 Mainly Beta › 5 Propeller › Tachylectin-2; Chain A › Glycosyl hydrolase domain; family 43 0.55 44.0 2.78e-01 100.0% 39.1%
1ye8A00 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.55 46.0 3.24e-01 100.0% 36.3%
2xu7A00 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.55 44.0 2.74e-01 100.0% 28.6%
1ecsA00 3.10.180.10 Alpha Beta › Roll › 2,3-Dihydroxybiphenyl 1,2-Dioxygenase; domain 1 › 2,3-Dihydroxybiphenyl 1,2-Dioxygenase, domain 1 0.54 38.0 3.03e-01 87.5% 32.5%
4pz7A01 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.54 38.0 2.79e-01 72.9% 62.8%
3syjA02 2.160.20.20 Mainly Beta › 3 Solenoid › Pectate Lyase C-like › 0.53 38.0 2.17e-01 79.2% 15.4%
1a15A00 2.40.50.40 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.53 35.0 3.16e-01 81.2% 47.8%
2qqzA01 3.10.180.10 Alpha Beta › Roll › 2,3-Dihydroxybiphenyl 1,2-Dioxygenase; domain 1 › 2,3-Dihydroxybiphenyl 1,2-Dioxygenase, domain 1 0.53 34.0 2.69e-01 70.8% 27.0%
3tw8A01 3.30.450.200 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › Longin module 0.52 41.0 3.08e-01 91.7% 38.4%
3n54B01 6.20.190.10 Special › Other non-globular › Nuclear Transport Factor 2; Chain: A, › Nutrient germinant receptor protein C, domain 1 0.52 35.0 3.37e-01 72.9% 77.0%
4e4fA01 3.30.390.10 Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › Enolase-like, N-terminal domain 0.52 39.0 2.95e-01 85.4% 62.4%
1jv2B04 4.10.1240.30 Few Secondary Structures › Irregular › Hormone receptor fold › 0.52 40.0 3.41e-01 89.6% 95.3%
1lomA00 2.30.60.10 Mainly Beta › Roll › HIV-inactivating Protein, Cyanovirin-n › Cyanovirin-N 0.52 33.0 2.74e-01 77.1% 30.7%
1golA01 3.30.200.20 Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Phosphorylase Kinase; domain 1 0.50 39.0 3.10e-01 100.0% 77.3%
3omzA01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.50 41.0 3.32e-01 97.9% 45.6%
ECOD (25)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3940320 2007.1.2.4 ↗ a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › Periplasmic binding protein-like I › ANF_receptor 0.72 63.0 4.07e-01 100.0% 39.6%
5023640 292.2.1.0 ↗ a+b two layers › RIP/Polo-box domain › Polo-box domain › Polo-box domain 0.71 59.0 5.05e-01 100.0% 57.0%
3395020 11.1.4.3 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Prealbumin-like › CBM_20 0.67 49.0 3.71e-01 79.2% 85.0%
4032230 298.3.1.1 ↗ a+b two layers › FwdE/GAPDH domain-like › Serine dehydratase beta chain-like › Serine dehydratase beta chain-like › SDH_beta 0.67 57.0 4.10e-01 95.8% 71.4%
5032595 2004.1.1.42 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › T2SSE 0.66 56.0 3.24e-01 100.0% 36.9%
3915318 2007.1.2.4 ↗ a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › Periplasmic binding protein-like I › ANF_receptor 0.66 55.0 3.31e-01 100.0% 40.5%
3507332 2484.5.1.2 ↗ mixed a+b and a/b › Ribonuclease H-like › RNaseH-like domain in reverse transcriptase › RNaseH-like domain in reverse transcriptase › RT_RNaseH 0.65 44.0 3.20e-01 70.8% 25.7%
3248518 243.1.1.12 ↗ a+b two layers › Cystatin-like › NTF2-like › NTF2-like › TIM21 0.65 56.0 4.20e-01 100.0% 48.0%
5009374 2004.1.1.42 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › T2SSE 0.63 53.0 3.03e-01 100.0% 12.7%
3693368 1205.2.1.1 ↗ a+b two layers › C-terminal domain of CdiA toxin › C-terminal domain of P. aeruginosa CdiA › C-terminal domain of P. aeruginosa CdiA › PF31217 0.62 47.0 3.61e-01 85.4% 34.8%
2526324 7086.1.1.0 ↗ 0.62 48.0 3.99e-01 100.0% 46.3%
3227940 2007.1.2.4 ↗ a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › Periplasmic binding protein-like I › ANF_receptor 0.60 48.0 3.23e-01 100.0% 45.1%
4226755 2004.1.1.782 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › SMC_N, AAA_23, AAA_29, SbcC_Walker_B 0.60 52.0 3.03e-01 97.9% 24.9%
5033931 5.1.4.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed 0.60 51.0 3.07e-01 100.0% 24.9%
3301063 2484.1.1.39 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Fumble 0.59 44.0 3.20e-01 85.4% 36.2%
4139105 243.6.1.9 ↗ a+b two layers › Cystatin-like › Pre-PUA domain › Pre-PUA domain › TGT_C2 0.58 49.0 3.41e-01 97.9% 39.4%
4052358 325.1.7.0 ↗ a+b complex topology › alpha/beta-Hammerhead/Barrel-sandwich hybrid › alpha/beta-Hammerhead/Barrel-sandwich hybrid › Single hybrid motif 0.56 39.0 3.62e-01 79.2% 90.0%
4349950 325.1.7.0 ↗ a+b complex topology › alpha/beta-Hammerhead/Barrel-sandwich hybrid › alpha/beta-Hammerhead/Barrel-sandwich hybrid › Single hybrid motif 0.54 36.0 3.44e-01 77.1% 55.0%
4068978 325.1.7.0 ↗ a+b complex topology › alpha/beta-Hammerhead/Barrel-sandwich hybrid › alpha/beta-Hammerhead/Barrel-sandwich hybrid › Single hybrid motif 0.54 36.0 3.14e-01 77.1% 44.0%
3581875 2484.1.1.2 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Actin 0.54 44.0 2.70e-01 100.0% 42.9%
4107506 325.1.7.0 ↗ a+b complex topology › alpha/beta-Hammerhead/Barrel-sandwich hybrid › alpha/beta-Hammerhead/Barrel-sandwich hybrid › Single hybrid motif 0.53 35.0 3.23e-01 77.1% 50.8%
3913579 386.1.1.279 ↗ few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › PF27065 0.53 37.0 3.69e-01 100.0% 72.7%
3907533 64.1.1.0 ↗ beta meanders › WW domain-like › WW domain › WW domain 0.52 33.0 3.44e-01 79.2% 72.5%
4127839 325.1.7.0 ↗ a+b complex topology › alpha/beta-Hammerhead/Barrel-sandwich hybrid › alpha/beta-Hammerhead/Barrel-sandwich hybrid › Single hybrid motif 0.52 34.0 3.03e-01 72.9% 42.7%
4266498 218.1.1.1 ↗ a+b two layers › Enolase-N/ribosomal protein › Enolase N-terminal domain-like › Enolase N-terminal domain-like › MR_MLE_N 0.51 39.0 3.26e-01 85.4% 92.6%