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OP009281.1__UUV44453.1__RCMENCHIE_84__00084

Bact-Vir

OP009281.1__UUV44453.1__RCMENCHIE_84__00084

Identity

Accession:
OP009281 ↗
Kingdom:
phage

Quality

67.0 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Rhodobacter_phage_RcMenchie

TaxID: 2970523

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 59-133
PDB
Domain cluster: rep: GOV_bin_1711_contig-70_0_prodigal-single.1__X__X__00089__D65-167
CATH (35)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2f5kA01 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.82 53.0 6.40e-01 97.3% 100.0%
2efiA00 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.81 55.0 4.92e-01 100.0% 52.0%
5kcoA01 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.80 49.0 5.52e-01 96.0% 79.7%
6my0A02 2.30.30.30 Mainly Beta › Roll › SH3 type barrels. › 0.78 53.0 5.64e-01 100.0% 80.0%
2lccA00 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.78 56.0 5.62e-01 100.0% 73.7%
6bogA02 2.30.30.930 Mainly Beta › Roll › SH3 type barrels. › 0.73 48.0 5.26e-01 100.0% 83.3%
4fssB00 2.30.30.40 Mainly Beta › Roll › SH3 type barrels. › SH3 Domains 0.73 55.0 6.02e-01 100.0% 96.7%
4qqgG00 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.73 54.0 5.52e-01 100.0% 80.6%
3pieC09 2.30.30.750 Mainly Beta › Roll › SH3 type barrels. › 0.72 61.0 5.46e-01 100.0% 67.7%
1jegA00 2.30.30.40 Mainly Beta › Roll › SH3 type barrels. › SH3 Domains 0.72 53.0 5.84e-01 100.0% 96.7%
2v1qA00 2.30.30.40 Mainly Beta › Roll › SH3 type barrels. › SH3 Domains 0.71 52.0 5.78e-01 98.7% 96.7%
6ghmC02 2.30.30.40 Mainly Beta › Roll › SH3 type barrels. › SH3 Domains 0.70 52.0 5.55e-01 98.7% 90.6%
2kxcA00 2.30.30.40 Mainly Beta › Roll › SH3 type barrels. › SH3 Domains 0.70 53.0 5.59e-01 100.0% 89.6%
1i1jB00 2.30.30.40 Mainly Beta › Roll › SH3 type barrels. › SH3 Domains 0.68 56.0 5.01e-01 100.0% 64.4%
1mv3A01 2.30.30.40 Mainly Beta › Roll › SH3 type barrels. › SH3 Domains 0.67 57.0 5.82e-01 100.0% 95.9%
1m9sA04 2.30.30.170 Mainly Beta › Roll › SH3 type barrels. › 0.66 58.0 5.55e-01 100.0% 83.7%
3askA02 2.30.30.1150 Mainly Beta › Roll › SH3 type barrels. › 0.65 49.0 3.92e-01 100.0% 40.4%
3cpfA01 2.30.30.30 Mainly Beta › Roll › SH3 type barrels. › 0.64 42.0 4.49e-01 100.0% 78.5%
2l3rA02 2.30.30.30 Mainly Beta › Roll › SH3 type barrels. › 0.64 48.0 4.91e-01 100.0% 83.6%
4epcA02 2.30.30.170 Mainly Beta › Roll › SH3 type barrels. › 0.64 52.0 5.40e-01 97.3% 93.0%
1sg5A01 2.30.30.400 Mainly Beta › Roll › SH3 type barrels. › Rof-like 0.63 43.0 4.32e-01 100.0% 68.8%
7xpkA01 2.30.30.490 Mainly Beta › Roll › SH3 type barrels. › Bromo adjacent homology (BAH) domain 0.60 56.0 4.38e-01 100.0% 53.1%
3c6kA02 2.30.140.10 Mainly Beta › Roll › Spermidine Synthase; Chain: A, domain 2 › Spermidine synthase, tetramerisation domain 0.58 37.0 4.12e-01 93.3% 87.5%
3cpxA02 2.40.30.40 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Peptidase M42, domain 2 0.58 30.0 3.21e-01 98.7% 54.8%
1inlC02 2.30.140.10 Mainly Beta › Roll › Spermidine Synthase; Chain: A, domain 2 › Spermidine synthase, tetramerisation domain 0.57 37.0 3.99e-01 93.3% 78.1%
3g1jA00 2.30.30.350 Mainly Beta › Roll › SH3 type barrels. › mobile metagenome of vibrio cholerae. Integron cassette protein vch_cass4. 0.56 49.0 4.63e-01 100.0% 81.1%
2ikkA00 3.40.1410.10 Alpha Beta › 3-Layer(aba) Sandwich › Chorismate lyase › Chorismate lyase-like 0.56 46.0 3.71e-01 89.3% 82.2%
4b08A01 2.40.50.730 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.56 38.0 3.77e-01 72.0% 96.3%
1m4zA01 2.30.30.490 Mainly Beta › Roll › SH3 type barrels. › Bromo adjacent homology (BAH) domain 0.55 50.0 3.65e-01 100.0% 59.2%
2lc4A00 2.30.30.830 Mainly Beta › Roll › SH3 type barrels. › 0.54 41.0 3.58e-01 80.0% 69.4%
3agjF01 2.30.30.870 Mainly Beta › Roll › SH3 type barrels. › Pelota, domain A 0.54 48.0 4.05e-01 100.0% 59.1%
1sp4B00 3.90.70.10 Alpha Beta › Alpha-Beta Complex › Cathepsin B; Chain A › Cysteine proteinases 0.54 48.0 3.52e-01 100.0% 37.6%
4qrlA00 2.40.128.280 Mainly Beta › Beta Barrel › Lipocalin › 0.53 35.0 3.15e-01 88.0% 46.4%
3ml4C01 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.52 45.0 4.08e-01 100.0% 78.7%
2pd0A01 3.30.2310.50 Alpha Beta › 2-Layer Sandwich › YaeB-like fold › Protein of unknown function (DUF3228), domain 1 0.51 42.0 3.64e-01 93.3% 90.8%
ECOD (64)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
5034724 4.1.1.482 ↗ beta barrels › SH3 › SH3 › SH3 › DUF4314 0.81 55.0 6.29e-01 93.3% 94.5%
3740208 4.8.1.6 ↗ beta barrels › SH3 › Chromo domain-like › Chromo domain-like › Tudor-knot 0.80 55.0 5.86e-01 100.0% 81.5%
4069543 4.8.1.6 ↗ beta barrels › SH3 › Chromo domain-like › Chromo domain-like › Tudor-knot 0.79 54.0 5.46e-01 100.0% 70.7%
3886139 4.8.1.0 ↗ beta barrels › SH3 › Chromo domain-like › Chromo domain-like 0.79 56.0 5.99e-01 100.0% 84.6%
3730229 4.1.1.102 ↗ beta barrels › SH3 › SH3 › SH3 › Tudor_3 0.78 53.0 5.36e-01 100.0% 70.7%
4071917 4.1.1.111 ↗ beta barrels › SH3 › SH3 › SH3 › Tudor_RapA 0.77 46.0 5.43e-01 98.7% 90.0%
3702154 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.75 54.0 5.45e-01 100.0% 74.7%
3924619 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.75 53.0 4.44e-01 100.0% 45.8%
3585492 4.1.1.103 ↗ beta barrels › SH3 › SH3 › SH3 › SH3_12 0.74 63.0 5.44e-01 100.0% 60.9%
5055039 4.11.1.2 ↗ beta barrels › SH3 › LexA/Signal peptidase › LexA/Signal peptidase › Peptidase_S26 0.74 57.0 4.58e-01 100.0% 43.6%
3591144 4.8.1.0 ↗ beta barrels › SH3 › Chromo domain-like › Chromo domain-like 0.74 54.0 4.19e-01 96.0% 38.0%
3799904 4.1.1.315 ↗ beta barrels › SH3 › SH3 › SH3 › SH3_12, XRN1_D1 0.73 63.0 3.85e-01 100.0% 17.0%
3185321 4.1.1.51 ↗ beta barrels › SH3 › SH3 › SH3 › SGF29_Tudor 0.73 58.0 5.88e-01 100.0% 84.0%
3733191 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.73 62.0 3.81e-01 100.0% 17.6%
3410884 708.1.1.4 ↗ beta complex topology › ETN0001 domain-like › ETN0001 domain-like › NAC/WRKY/GCM/WOPR domain › FLYWCH 0.72 45.0 4.81e-01 94.7% 73.4%
3423859 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.71 65.0 6.14e-01 100.0% 85.6%
3251170 4.1.1.1 ↗ beta barrels › SH3 › SH3 › SH3 › SH3_1 0.71 53.0 5.52e-01 97.3% 84.3%
3630782 4.1.1.51 ↗ beta barrels › SH3 › SH3 › SH3 › SGF29_Tudor 0.71 56.0 4.47e-01 100.0% 43.4%
3812766 4.1.1.42 ↗ beta barrels › SH3 › SH3 › SH3 › Agenet 0.68 54.0 5.60e-01 100.0% 88.6%
4134242 4.1.1.129 ↗ beta barrels › SH3 › SH3 › SH3 › Tudor_5 0.68 53.0 4.57e-01 100.0% 53.9%
3978997 4.31.1.1 ↗ beta barrels › SH3 › Central WYL domain of RspWYL1 › Central WYL domain of RspWYL1 › WYL 0.68 52.0 4.77e-01 100.0% 64.2%
4947612 4.11.1.0 ↗ beta barrels › SH3 › LexA/Signal peptidase › LexA/Signal peptidase 0.67 54.0 4.36e-01 100.0% 46.4%
4031510 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.66 50.0 4.71e-01 100.0% 66.7%
3279470 4.31.1.1 ↗ beta barrels › SH3 › Central WYL domain of RspWYL1 › Central WYL domain of RspWYL1 › WYL 0.66 48.0 4.49e-01 100.0% 63.3%
3942912 4.1.1.323 ↗ beta barrels › SH3 › SH3 › SH3 › WYL 0.66 51.0 4.90e-01 100.0% 72.9%
3707346 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.66 55.0 5.36e-01 100.0% 80.7%
3289944 4.1.1.323 ↗ beta barrels › SH3 › SH3 › SH3 › WYL 0.65 49.0 4.62e-01 100.0% 66.7%
4545520 4.7.1.7 ↗ beta barrels › SH3 › RNase P subunit p29 › RNase P subunit p29 › WYL 0.65 51.0 4.87e-01 100.0% 74.1%
4542692 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.65 49.0 4.79e-01 100.0% 72.9%
3959770 4.31.1.0 ↗ beta barrels › SH3 › Central WYL domain of RspWYL1 › Central WYL domain of RspWYL1 0.65 50.0 4.75e-01 100.0% 70.0%
3953109 4.31.1.1 ↗ beta barrels › SH3 › Central WYL domain of RspWYL1 › Central WYL domain of RspWYL1 › WYL 0.64 50.0 4.63e-01 100.0% 66.3%
3829476 4.1.1.42 ↗ beta barrels › SH3 › SH3 › SH3 › Agenet 0.64 55.0 4.11e-01 100.0% 39.4%
4055974 4.1.1.248 ↗ beta barrels › SH3 › SH3 › SH3 › CABIT 0.64 50.0 4.25e-01 100.0% 51.2%
3594328 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.64 53.0 4.94e-01 100.0% 73.3%
3737927 220.1.1.294 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › PF26663 0.63 44.0 3.80e-01 94.7% 49.1%
3967111 3338.2.1.2 ↗ a+b two layers › Fragilysin-3 prodomain-like › Type II secretion chaperone CpaB › Type II secretion chaperone CpaB › BamI_lipocalin 0.62 43.0 3.60e-01 94.7% 43.2%
3385654 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.61 54.0 4.59e-01 96.0% 64.2%
3281618 4.31.1.1 ↗ beta barrels › SH3 › Central WYL domain of RspWYL1 › Central WYL domain of RspWYL1 › WYL 0.61 52.0 4.74e-01 100.0% 70.0%
3278698 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.61 55.0 4.88e-01 98.7% 82.9%
4427420 4.1.1.436 ↗ beta barrels › SH3 › SH3 › SH3 › PF29249 0.60 52.0 5.08e-01 100.0% 87.5%
5075523 2003.1.5.13 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › Spermine_synth 0.60 38.0 2.58e-01 93.3% 16.6%
3399407 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.59 54.0 4.86e-01 98.7% 88.0%
3213653 4.1.1.54 ↗ beta barrels › SH3 › SH3 › SH3 › SH3_2 0.59 53.0 5.20e-01 97.3% 92.5%
3931715 4.1.1.1 ↗ beta barrels › SH3 › SH3 › SH3 › SH3_1 0.59 51.0 4.65e-01 96.0% 96.0%
4944596 4.11.1.0 ↗ beta barrels › SH3 › LexA/Signal peptidase › LexA/Signal peptidase 0.59 53.0 4.41e-01 100.0% 59.2%
4523548 4.8.1.35 ↗ beta barrels › SH3 › Chromo domain-like › Chromo domain-like › DUF1292 0.58 47.0 4.50e-01 94.7% 75.3%
3240676 219.1.1.4 ↗ a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases › Peptidase_C2 0.58 51.0 3.64e-01 100.0% 43.0%
3706854 219.1.1.4 ↗ a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases › Peptidase_C2 0.57 51.0 3.31e-01 100.0% 28.8%
3246514 219.1.1.4 ↗ a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases › Peptidase_C2 0.57 50.0 3.59e-01 100.0% 44.3%
4517543 4.23.1.2 ↗ beta barrels › SH3 › Dom34/Pelota N-terminal domain-like › Dom34/Pelota N-terminal domain-like › PF26356 0.56 50.0 4.23e-01 100.0% 62.4%
3576622 219.1.1.4 ↗ a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases › Peptidase_C2 0.56 50.0 3.21e-01 100.0% 29.0%
3724767 219.1.1.4 ↗ a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases › Peptidase_C2 0.55 49.0 3.18e-01 100.0% 27.0%
3400166 3775.1.1.1 ↗ beta barrels › Lysosome membrane protein 2 lumenal domain › Lysosome membrane protein 2 lumenal domain › Lysosome membrane protein 2 lumenal domain › CD36 0.55 42.0 2.66e-01 84.0% 83.3%
3991018 708.1.1.16 ↗ beta complex topology › ETN0001 domain-like › ETN0001 domain-like › NAC/WRKY/GCM/WOPR domain › RYYR-CCHC 0.54 43.0 4.21e-01 94.7% 80.0%
3294494 219.1.1.4 ↗ a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases › Peptidase_C2 0.54 48.0 3.15e-01 100.0% 29.1%
3242587 708.1.1.0 ↗ beta complex topology › ETN0001 domain-like › ETN0001 domain-like › NAC/WRKY/GCM/WOPR domain 0.54 39.0 3.66e-01 94.7% 61.1%
5080017 219.1.1.0 ↗ a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases 0.53 47.0 3.71e-01 100.0% 53.8%
3974126 4.11.1.2 ↗ beta barrels › SH3 › LexA/Signal peptidase › LexA/Signal peptidase › Peptidase_S26 0.53 37.0 2.74e-01 74.7% 30.9%
3618387 708.1.1.16 ↗ beta complex topology › ETN0001 domain-like › ETN0001 domain-like › NAC/WRKY/GCM/WOPR domain › RYYR-CCHC 0.53 41.0 3.66e-01 88.0% 93.0%
4999914 4.23.1.2 ↗ beta barrels › SH3 › Dom34/Pelota N-terminal domain-like › Dom34/Pelota N-terminal domain-like › PF26356 0.52 44.0 3.79e-01 100.0% 63.8%
3935423 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.51 39.0 3.69e-01 85.3% 86.3%
3507463 2.1.1.0 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.51 43.0 3.77e-01 93.3% 98.3%
3506990 708.1.1.0 ↗ beta complex topology › ETN0001 domain-like › ETN0001 domain-like › NAC/WRKY/GCM/WOPR domain 0.51 39.0 3.90e-01 86.7% 78.8%
3713577 219.1.1.4 ↗ a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases › Peptidase_C2 0.50 45.0 2.91e-01 100.0% 28.1%
D2 high residues 322-388
PDB
Domain cluster: representative
CATH (7)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3ezqA00 1.10.533.10 Mainly Alpha › Orthogonal Bundle › Death Domain, Fas › Death Domain, Fas 0.70 56.0 4.68e-01 86.6% 83.5%
2iieA01 4.10.520.10 Few Secondary Structures › Irregular › HU Protein; Chain A › IHF-like DNA-binding proteins 0.63 44.0 3.72e-01 71.6% 55.6%
3triA02 1.10.3730.10 Mainly Alpha › Orthogonal Bundle › ProC C-terminal domain-like fold › ProC C-terminal domain-like 0.63 46.0 4.00e-01 91.0% 50.5%
7px0A01 3.30.365.10 Alpha Beta › 2-Layer Sandwich › Aldehyde Oxidoreductase; domain 4 › Aldehyde oxidase/xanthine dehydrogenase, molybdopterin binding domain 0.59 41.0 3.44e-01 73.1% 59.2%
2gscC00 1.20.1440.60 Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › 23S rRNA-intervening sequence 0.58 42.0 3.52e-01 76.1% 75.5%
3veaA02 1.10.1220.10 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant › Met repressor-like 0.54 37.0 4.00e-01 80.6% 98.1%
2lhrA00 1.20.58.1270 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.54 40.0 3.84e-01 79.1% 79.5%
D3 medium residues 144-292
PDB
Domain cluster: rep: CP000622.1__ABO60686.1__BTHphiE255_0041__00041__D49-178