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NC_019411.1__YP_006990034.1__D870_gp120__00301

Bact-Vir

NC_019411.1__YP_006990034.1__D870_gp120__00301

Identity

Accession:
NC_019411 ↗
Kingdom:
phage

Quality

68.6 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Jeanschmidtviridae› Shapirovirus› Caulobacter_phage_CcrSwift

TaxID: 2927984

Cluster

Singleton — not in a non-trivial cluster

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 3-92
PDB
D2 high residues 101-170
PDB
Domain cluster: representative
CATH (35)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2jxtA01 3.10.20.10 Alpha Beta › Roll › Ubiquitin-like (UB roll) › 0.74 58.0 5.63e-01 82.9% 88.2%
3egrA00 3.10.20.520 Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phenylacetic acid degradation B 0.72 50.0 5.29e-01 72.9% 87.3%
4u7cB04 3.30.1490.100 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › DNA polymerase, Y-family, little finger domain 0.70 48.0 4.13e-01 71.4% 58.7%
3e4vA01 2.30.110.10 Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A 0.68 58.0 4.44e-01 100.0% 47.1%
1unnC00 3.30.1490.100 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › DNA polymerase, Y-family, little finger domain 0.66 46.0 3.99e-01 72.9% 53.2%
2d5mA00 2.30.110.10 Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A 0.65 56.0 4.23e-01 100.0% 44.8%
1rfeA01 2.30.110.10 Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A 0.65 44.0 3.56e-01 71.4% 41.2%
1vl7A00 2.30.110.10 Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A 0.64 45.0 3.65e-01 74.3% 43.7%
3v98B01 2.60.60.20 Mainly Beta › Sandwich › Lipoxygenase-1 › PLAT/LH2 domain 0.63 43.0 3.61e-01 71.4% 46.2%
6se8A04 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.62 44.0 3.83e-01 74.3% 66.7%
1i7dA03 2.70.20.10 Mainly Beta › Distorted Sandwich › Topoisomerase I; domain 3 › Topoisomerase I, domain 3 0.62 42.0 3.41e-01 71.4% 94.3%
2i51B00 2.30.110.10 Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A 0.61 42.0 3.14e-01 72.9% 31.9%
3cu7A05 2.60.40.1930 Mainly Beta › Sandwich › Immunoglobulin-like › Macroglobulin (MG2) domain 0.61 41.0 3.58e-01 70.0% 48.1%
2fr5A00 3.40.140.10 Alpha Beta › 3-Layer(aba) Sandwich › Cytidine Deaminase; domain 2 › Cytidine Deaminase, domain 2 0.61 41.0 3.33e-01 70.0% 39.0%
4nreA01 2.60.60.20 Mainly Beta › Sandwich › Lipoxygenase-1 › PLAT/LH2 domain 0.61 42.0 3.56e-01 72.9% 51.7%
3oqgA00 3.40.1440.50 Alpha Beta › 3-Layer(aba) Sandwich › GIY-YIG endonuclease › 0.60 41.0 3.14e-01 71.4% 38.6%
3cwzB03 2.60.60.20 Mainly Beta › Sandwich › Lipoxygenase-1 › PLAT/LH2 domain 0.60 39.0 3.32e-01 71.4% 38.8%
1bu8A02 2.60.60.20 Mainly Beta › Sandwich › Lipoxygenase-1 › PLAT/LH2 domain 0.60 40.0 3.55e-01 70.0% 49.1%
4bq2D01 2.60.120.430 Mainly Beta › Sandwich › Jelly Rolls › Galactose-binding lectin 0.60 41.0 3.00e-01 71.4% 46.0%
2ptfA01 2.30.110.10 Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A 0.60 51.0 4.11e-01 100.0% 57.1%
3ijfX00 3.40.140.10 Alpha Beta › 3-Layer(aba) Sandwich › Cytidine Deaminase; domain 2 › Cytidine Deaminase, domain 2 0.60 41.0 3.47e-01 72.9% 44.7%
1ca1A02 2.60.60.20 Mainly Beta › Sandwich › Lipoxygenase-1 › PLAT/LH2 domain 0.59 41.0 3.45e-01 72.9% 50.8%
2fnqA01 2.60.60.20 Mainly Beta › Sandwich › Lipoxygenase-1 › PLAT/LH2 domain 0.59 40.0 3.44e-01 71.4% 50.4%
5z6pA01 2.60.120.430 Mainly Beta › Sandwich › Jelly Rolls › Galactose-binding lectin 0.59 40.0 3.01e-01 71.4% 47.8%
2z3gB00 3.40.140.10 Alpha Beta › 3-Layer(aba) Sandwich › Cytidine Deaminase; domain 2 › Cytidine Deaminase, domain 2 0.58 39.0 3.28e-01 70.0% 44.9%
1xffA00 3.60.20.10 Alpha Beta › 4-Layer Sandwich › Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1 › Aminohydrolase, N-terminal nucleophile (Ntn) domain 0.56 48.0 3.41e-01 100.0% 38.7%
3pjyA00 2.60.120.1140 Mainly Beta › Sandwich › Jelly Rolls › Protein of unknown function DUF192 0.55 41.0 3.40e-01 97.1% 43.4%
2wq4A01 2.60.120.760 Mainly Beta › Sandwich › Jelly Rolls › 0.54 36.0 3.02e-01 70.0% 45.0%
1qysA00 3.30.1710.10 Alpha Beta › 2-Layer Sandwich › top7, de novo designed protein › top7, de novo designed protein 0.53 36.0 3.33e-01 70.0% 56.5%
1khbA03 3.90.228.20 Alpha Beta › Alpha-Beta Complex › Phosphoenolpyruvate Carboxykinase; domain 3 › 0.53 43.0 2.95e-01 91.4% 71.1%
4kyzA00 3.30.70.600 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Ribosomal protein S10 0.52 36.0 2.77e-01 71.4% 50.3%
6genR01 3.90.640.10 Alpha Beta › Alpha-Beta Complex › Actin; Chain A, domain 4 › ATPase, substrate binding domain, subdomain 4 0.52 35.0 3.20e-01 70.0% 70.2%
3rj2X00 2.60.120.1150 Mainly Beta › Sandwich › Jelly Rolls › 0.50 40.0 3.27e-01 87.1% 85.7%
1mw7A02 3.30.70.980 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › YebC, transcriptional regulation domain 0.50 41.0 3.90e-01 92.9% 98.9%
2q1fA01 2.60.120.430 Mainly Beta › Sandwich › Jelly Rolls › Galactose-binding lectin 0.50 39.0 3.06e-01 88.6% 64.7%
ECOD (27)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
5080205 3115.1.1.0 ↗ a+b two layers › GP2-like › RplX-like › RplX-like 0.83 56.0 6.59e-01 70.0% 98.0%
4007508 3115.6.1.2 ↗ a+b two layers › GP2-like › Bacterial RNA polymerase subunit epsilon › Bacterial RNA polymerase subunit epsilon › PF28597 0.74 47.0 5.47e-01 70.0% 92.0%
3975705 3115.6.1.0 ↗ a+b two layers › GP2-like › Bacterial RNA polymerase subunit epsilon › Bacterial RNA polymerase subunit epsilon 0.73 47.0 5.36e-01 70.0% 92.0%
199962 3115.5.1.1 ↗ a+b two layers › GP2-like › phenylacetate-CoA oxygenase subunit PaaB › phenylacetate-CoA oxygenase subunit PaaB › PaaB 0.72 50.0 5.29e-01 72.9% 87.3%
5014007 3115.2.1.0 ↗ a+b two layers › GP2-like › GP2 › GP2 0.71 49.0 5.38e-01 74.3% 90.9%
3588755 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.69 47.0 4.70e-01 71.4% 93.2%
4964337 3115.5.1.1 ↗ a+b two layers › GP2-like › phenylacetate-CoA oxygenase subunit PaaB › phenylacetate-CoA oxygenase subunit PaaB › PaaB 0.69 48.0 5.30e-01 72.9% 96.4%
3884808 10.10.1.1 ↗ beta sandwiches › jelly-roll › Lipase/lipooxygenase domain (PLAT/LH2 domain) › Lipase/lipooxygenase domain (PLAT/LH2 domain) › PLAT 0.64 44.0 3.66e-01 71.4% 44.2%
4057352 1119.1.1.1 ↗ a+b complex topology › 6-carboxyhexanoate-CoA ligase › 6-carboxyhexanoate-CoA ligase › 6-carboxyhexanoate-CoA ligase › BioW 0.63 56.0 3.81e-01 100.0% 96.5%
3619656 10.10.1.1 ↗ beta sandwiches › jelly-roll › Lipase/lipooxygenase domain (PLAT/LH2 domain) › Lipase/lipooxygenase domain (PLAT/LH2 domain) › PLAT 0.62 41.0 3.31e-01 71.4% 34.8%
3476166 11.1.1.102 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › A2M_BRD 0.62 42.0 3.49e-01 70.0% 42.5%
2141858 11.1.1.203 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › LacZ_4 0.62 43.0 3.77e-01 74.3% 62.7%
3515328 10.10.1.0 ↗ beta sandwiches › jelly-roll › Lipase/lipooxygenase domain (PLAT/LH2 domain) › Lipase/lipooxygenase domain (PLAT/LH2 domain) 0.61 42.0 3.73e-01 71.4% 58.0%
3518442 10.10.1.1 ↗ beta sandwiches › jelly-roll › Lipase/lipooxygenase domain (PLAT/LH2 domain) › Lipase/lipooxygenase domain (PLAT/LH2 domain) › PLAT 0.60 41.0 3.38e-01 71.4% 42.3%
4938346 1.1.5.17 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › DUF447_N 0.60 52.0 4.21e-01 100.0% 57.9%
4448380 2492.1.1.1 ↗ a+b three layers › Cytidine deaminase-like › Cytidine deaminase-like › Cytidine deaminase-like › dCMP_cyt_deam_1 0.60 41.0 3.50e-01 72.9% 45.8%
4180988 1119.1.1.1 ↗ a+b complex topology › 6-carboxyhexanoate-CoA ligase › 6-carboxyhexanoate-CoA ligase › 6-carboxyhexanoate-CoA ligase › BioW 0.59 51.0 3.56e-01 98.6% 97.1%
4654177 1119.1.1.1 ↗ a+b complex topology › 6-carboxyhexanoate-CoA ligase › 6-carboxyhexanoate-CoA ligase › 6-carboxyhexanoate-CoA ligase › BioW 0.59 51.0 3.54e-01 100.0% 96.7%
3454710 1.1.17.0 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel 2 0.58 51.0 3.63e-01 100.0% 48.6%
3926936 10.10.1.1 ↗ beta sandwiches › jelly-roll › Lipase/lipooxygenase domain (PLAT/LH2 domain) › Lipase/lipooxygenase domain (PLAT/LH2 domain) › PLAT 0.58 39.0 3.38e-01 71.4% 48.7%
4175430 1119.1.1.1 ↗ a+b complex topology › 6-carboxyhexanoate-CoA ligase › 6-carboxyhexanoate-CoA ligase › 6-carboxyhexanoate-CoA ligase › BioW 0.57 50.0 3.47e-01 100.0% 95.9%
3413652 379.1.1.0 ↗ few secondary structure elements › Kazal-type serine protease inhibitors-like › Kazal-type serine protease inhibitors › Kazal-type serine protease inhibitors 0.57 38.0 4.05e-01 100.0% 81.7%
4033537 1119.1.1.1 ↗ a+b complex topology › 6-carboxyhexanoate-CoA ligase › 6-carboxyhexanoate-CoA ligase › 6-carboxyhexanoate-CoA ligase › BioW 0.56 49.0 3.45e-01 100.0% 94.8%
1921556 209.1.3.0 ↗ a+b complex topology › C-type lectin-like › C-type lectin-like 0.54 38.0 2.76e-01 74.3% 67.5%
4664972 299.1.1.0 ↗ a+b complex topology › YbaK/ProRS associated domain › YbaK/ProRS associated domain › YbaK/ProRS associated domain 0.53 46.0 3.69e-01 100.0% 60.0%
3649276 887.1.1.0 ↗ a+b two layers › Ribosomal protein L30p/L7e › Ribosomal protein L30p/L7e › Ribosomal protein L30p/L7e 0.52 45.0 3.80e-01 97.1% 99.2%
5057619 2004.1.2.0 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › PEP carboxykinase catalytic C-terminal domain 0.51 41.0 2.95e-01 94.3% 98.3%