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GU580940.1__ADD80865.1__ReqiDocB7gene079__00079

Bact-Vir

GU580940.1__ADD80865.1__ReqiDocB7gene079__00079

Identity

Accession:
GU580940 ↗
Kingdom:
phage

Quality

84.9 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Rhodococcus_phage_ReqiDocB7

TaxID: 691966

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 37-80
PDB
Domain cluster: representative
CATH (24)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2oo2A00 1.20.1270.90 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › AF1782-like 0.72 59.0 5.02e-01 95.5% 81.6%
7utzR02 1.20.1070.10 Mainly Alpha › Up-down Bundle › Rhopdopsin 7-helix transmembrane proteins › Rhodopsin 7-helix transmembrane proteins 0.71 59.0 3.62e-01 95.5% 92.7%
3nymA00 6.10.290.10 Special › Helix non-globular › Four Helix Bundle (Hemerythrin (Met), subunit A) › 0.70 54.0 4.02e-01 90.9% 87.1%
2p4vA01 1.10.287.180 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Transcription elongation factor, GreA/GreB, N-terminal domain 0.66 45.0 3.72e-01 70.5% 94.7%
4nswB01 1.20.1270.60 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Arfaptin homology (AH) domain/BAR domain 0.63 51.0 3.26e-01 95.5% 66.0%
3cxbA03 1.10.1740.30 Mainly Alpha › Orthogonal Bundle › Rna Polymerase Sigma Factor; Chain: A › Secreted effector protein SifA helical domain 0.63 51.0 4.26e-01 93.2% 79.0%
2ipcA04 1.10.3060.10 Mainly Alpha › Orthogonal Bundle › Helical scaffold and wing domains of SecA › Helical scaffold and wing domains of SecA 0.62 46.0 3.04e-01 90.9% 71.5%
1r6bX03 1.10.8.60 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › 0.62 53.0 4.33e-01 100.0% 72.7%
3umoA00 3.40.1190.20 Alpha Beta › 3-Layer(aba) Sandwich › UDP-N-acetylmuramoyl-L-alanine:D-glutamate ligase › Ribokinase 0.61 46.0 2.83e-01 86.4% 19.1%
4adnA01 1.20.1280.250 Mainly Alpha › Up-down Bundle › Monooxygenase › 0.60 45.0 3.69e-01 84.1% 78.8%
2af6A02 6.10.140.450 Special › Helix non-globular › Helix Hairpins › 0.59 47.0 4.26e-01 93.2% 64.5%
3rpmA02 1.20.1270.90 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › AF1782-like 0.58 44.0 3.83e-01 97.7% 74.1%
1xdxA01 3.30.1140.40 Alpha Beta › 2-Layer Sandwich › Ribosomal protein S3 C-terminal domain › Tctex-1 0.57 41.0 3.29e-01 81.8% 70.0%
2bskB00 1.10.287.810 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Mitochondrial import inner membrane translocase subunit tim13 like domains 0.54 40.0 3.60e-01 81.8% 75.4%
2lrmA00 1.10.890.30 Mainly Alpha › Orthogonal Bundle › 10k-s Protein, Hypothetical Protein A; Chain A › YmgD protein 0.54 42.0 3.68e-01 100.0% 77.4%
1jb0K00 1.20.860.20 Mainly Alpha › Up-down Bundle › Alpha-t-alpha › Photosystem I PsaK, reaction centre 0.54 37.0 3.70e-01 72.7% 82.6%
4gx0A01 1.10.287.70 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.54 45.0 3.50e-01 95.5% 47.6%
8adbA01 3.90.70.120 Alpha Beta › Alpha-Beta Complex › Cathepsin B; Chain A › 0.53 41.0 2.73e-01 88.6% 30.4%
3keyA01 1.10.10.1080 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Stn1, N-terminal wHTH domain 0.53 44.0 3.61e-01 100.0% 55.2%
1x6iB00 1.10.150.250 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Flavinator of succinate dehydrogenase 0.52 39.0 3.45e-01 100.0% 60.9%
4bzaA01 3.10.20.310 Alpha Beta › Roll › Ubiquitin-like (UB roll) › membrane protein fhac 0.52 42.0 3.72e-01 95.5% 97.1%
2e5yA02 1.20.5.440 Mainly Alpha › Up-down Bundle › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › ATP synthase delta/epsilon subunit, C-terminal domain 0.52 38.0 3.82e-01 77.3% 86.7%
5tgzA01 1.20.1070.10 Mainly Alpha › Up-down Bundle › Rhopdopsin 7-helix transmembrane proteins › Rhodopsin 7-helix transmembrane proteins 0.51 38.0 2.45e-01 95.5% 87.0%
3fggA00 1.10.3950.10 Mainly Alpha › Orthogonal Bundle › putative ecf-type sigma factor negative effector from bacillus cereus › putative ecf-type sigma factor negative effector from bacillus cereus 0.50 40.0 2.90e-01 95.5% 56.5%
ECOD (20)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
None — 0.71 48.0 2.87e-01 70.5% 12.3%
3488655 7563.1.1.6 ↗ a/b three-layered sandwiches › MCP/YpsA-related › MCP/YpsA-related › MCP/YpsA-related › LSDAT_euk 0.71 48.0 2.84e-01 70.5% 11.5%
3285010 174.1.1.7 ↗ few secondary structure elements › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain › DUF4345 0.63 42.0 3.08e-01 70.5% 77.3%
3989928 148.1.3.197 ↗ alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain › Transgly_assoc 0.63 50.0 4.25e-01 90.9% 85.3%
3262801 3788.1.1.0 ↗ alpha bundles › Viral accessory protein x (Vpx) / viral protein r (Vpr) › Viral accessory protein x (Vpx) / viral protein r (Vpr) › Viral accessory protein x (Vpx) / viral protein r (Vpr) 0.59 45.0 3.45e-01 93.2% 51.2%
5055769 604.12.1.0 ↗ alpha bundles › Spectrin repeat-like › MIT domain › MIT domain 0.59 41.0 3.41e-01 70.5% 78.8%
3211598 864.1.1.1 ↗ a+b two layers › DLC › DLC › DLC › Dynein_light 0.58 43.0 3.32e-01 79.5% 39.4%
3624567 604.1.1.0 ↗ alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat 0.58 46.0 3.11e-01 90.9% 52.9%
4374802 639.2.1.2 ↗ alpha arrays › HHA-like › Regulator of acid resistance influenced by indole (AriR) › Regulator of acid resistance influenced by indole (AriR) › DUF2767 0.58 40.0 3.58e-01 75.0% 50.8%
3690562 207.1.1.159 ↗ beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Leucine-rich repeats › Leucine-rich repeats › LRR_1, LRR_6, LRR_8, LRR_14 0.57 41.0 2.71e-01 79.5% 25.6%
3744787 633.22.1.0 ↗ alpha bundles › Bromodomain-like › Vitamin K epoxide reductase (VKOR) › Vitamin K epoxide reductase (VKOR) 0.57 45.0 3.35e-01 93.2% 59.2%
3334512 601.1.2.103 ↗ alpha bundles › Four-helical up-and-down bundle › alpha-catenin-related › I/LWEQ domain (Pfam 01608) › PUB2_N 0.56 43.0 3.20e-01 100.0% 50.7%
3640538 4120.1.1.0 ↗ few secondary structure elements › Tim10/DDP › Tim10/DDP › Tim10/DDP 0.54 36.0 3.21e-01 70.5% 51.4%
4054285 5.1.4.139 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › WD40_2 0.54 44.0 2.51e-01 90.9% 80.8%
3420557 5069.1.1.0 ↗ alpha bundles › Transmembrane heme-binding four-helical bundle › Transmembrane heme-binding four-helical bundle › Transmembrane di-heme cytochromes 0.54 40.0 2.97e-01 100.0% 82.9%
3600712 192.5.1.0 ↗ alpha bundles › Long alpha-hairpin › HR1 repeat › HR1 repeat 0.53 41.0 3.39e-01 84.1% 97.6%
3169161 5.1.4.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed 0.53 43.0 2.55e-01 100.0% 45.7%
4028506 2004.1.1.73 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › MMR_HSR1 0.52 39.0 2.44e-01 100.0% 25.2%
4413603 218.1.1.8 ↗ a+b two layers › Enolase-N/ribosomal protein › Enolase N-terminal domain-like › Enolase N-terminal domain-like › HrcA 0.51 42.0 3.20e-01 90.9% 51.0%
3189719 5063.1.1.0 ↗ alpha bundles › Photosystem I reaction center subunit X, PsaK › Photosystem I reaction center subunit X, PsaK › Photosystem I reaction center subunit X, PsaK 0.50 34.0 3.26e-01 72.7% 61.8%
D2 high residues 96-233
PDB
Domain cluster: rep: MW980063.1__QXV73701.1__X__00014__D5-142
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF19474.5 best DUF6011 50.0 2.30e-13 26.8% 89.2%
CATH (7)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3bk5A00 2.50.20.10 Mainly Beta › Clam › outer membrane lipoprotein receptor (LolB), chain A › Lipoprotein localisation LolA/LolB/LppX 0.56 41.0 3.50e-01 76.8% 90.6%
2v43A01 2.50.20.10 Mainly Beta › Clam › outer membrane lipoprotein receptor (LolB), chain A › Lipoprotein localisation LolA/LolB/LppX 0.55 40.0 3.60e-01 74.6% 86.3%
1zq1A01 2.30.30.520 Mainly Beta › Roll › SH3 type barrels. › 0.54 31.0 3.89e-01 88.4% 98.7%
3ia8A00 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.54 39.0 3.74e-01 75.4% 95.7%
2o62A02 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.53 38.0 3.89e-01 74.6% 97.8%
2l3rA02 2.30.30.30 Mainly Beta › Roll › SH3 type barrels. › 0.51 28.0 3.70e-01 96.4% 100.0%
3askA02 2.30.30.1150 Mainly Beta › Roll › SH3 type barrels. › 0.51 29.0 2.89e-01 98.6% 51.7%
ECOD (4)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3917386 233.1.1.1 ↗ a+b two layers › MHC antigen-recognition domain › MHC antigen-recognition domain › MHC antigen-recognition domain › MHC_I 0.52 40.0 3.80e-01 83.3% 86.3%
3677716 219.1.1.3 ↗ a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases › UCH 0.51 33.0 2.51e-01 91.3% 27.1%
165654 4.8.1.6 ↗ beta barrels › SH3 › Chromo domain-like › Chromo domain-like › Tudor-knot 0.51 29.0 3.66e-01 94.9% 100.0%
3739064 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.51 26.0 3.45e-01 84.1% 100.0%