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NC_023735.1__YP_009017616.1__CL92_gp002__00002

Bact-Vir

NC_023735.1__YP_009017616.1__CL92_gp002__00002

Identity

Accession:
NC_023735 ↗
Kingdom:
phage

Quality

73.2 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Pepyhexavirus› Rhodococcus_phage_ReqiPepy6

TaxID: 691965

Cluster

View cluster (3 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 219-283
PDB
D2 high residues 300-350_425-577
PDB
Domain cluster: rep: SR-VP_4-6_scaffold_141_2630357_prodigal-single.1__X__X__00142__D170-386
D3 medium residues 8-63
PDB
Domain cluster: rep: ALT_09252017_20_scaffold_186_prodigal-single.1__X__X__00004__D1-56
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF18454.8 best Mtd_N 27.7 2.90e-06 55.4% 62.2%
D4 medium residues 124-203
PDB
D5 medium residues 351-424
PDB
Domain cluster: rep: NC_013698.1__YP_003359124.1__CMP1-33__00033__D618-700
CATH (31)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
4paaA03 3.30.1360.120 Alpha Beta › 2-Layer Sandwich › Gyrase A; domain 2 › Probable tRNA modification gtpase trme; domain 1 0.64 55.0 4.05e-01 94.6% 46.6%
6su1D01 2.40.33.10 Mainly Beta › Beta Barrel › M1 Pyruvate Kinase; Domain 3 › PK beta-barrel domain-like 0.63 54.0 5.13e-01 100.0% 98.9%
1x31C01 3.30.1360.120 Alpha Beta › 2-Layer Sandwich › Gyrase A; domain 2 › Probable tRNA modification gtpase trme; domain 1 0.63 54.0 4.79e-01 94.6% 78.1%
1vwxf00 2.40.10.190 Mainly Beta › Beta Barrel › Thrombin, subunit H › translation elongation factor selb, chain A, domain 4 0.63 55.0 4.90e-01 100.0% 86.2%
2zzeA03 2.40.30.130 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › 0.62 50.0 4.68e-01 100.0% 70.4%
3zugB02 2.40.30.30 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Riboflavin kinase-like 0.61 53.0 4.36e-01 100.0% 64.8%
3oo2A01 2.40.37.10 Mainly Beta › Beta Barrel › Lyase, Ornithine Decarboxylase; Chain A, domain 1 › Lyase, Ornithine Decarboxylase; Chain A, domain 1 0.61 53.0 4.30e-01 100.0% 54.0%
7ct3A01 3.30.450.30 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › Dynein light chain 2a, cytoplasmic 0.60 42.0 3.65e-01 73.0% 77.8%
4zgnB00 2.40.30.10 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Translation factors 0.60 49.0 4.47e-01 93.2% 76.7%
1kjzA03 2.40.30.10 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Translation factors 0.59 48.0 4.53e-01 91.9% 80.4%
2dkhA02 3.30.9.10 Alpha Beta › 2-Layer Sandwich › D-Amino Acid Oxidase; Chain A, domain 2 › D-Amino Acid Oxidase, subunit A, domain 2 0.59 45.0 3.95e-01 87.8% 54.4%
3zn6A02 2.60.40.3410 Mainly Beta › Sandwich › Immunoglobulin-like › 0.59 50.0 4.82e-01 100.0% 93.1%
2f1lA01 2.40.30.60 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › RimM 0.58 51.0 4.86e-01 100.0% 86.5%
1v0fB03 2.40.30.20 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › 0.56 46.0 4.51e-01 100.0% 84.7%
1txkA01 2.70.98.10 Mainly Beta › Distorted Sandwich › Beta-galactosidase; Chain A, domain 5 › 0.56 46.0 3.04e-01 97.3% 60.9%
4r70B03 3.30.450.270 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › PHY domain 0.56 38.0 3.09e-01 70.3% 53.7%
2m1cA00 3.30.450.20 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › PAS domain 0.55 39.0 3.48e-01 75.7% 81.4%
2wbiB02 2.40.110.10 Mainly Beta › Beta Barrel › Butyryl-CoA Dehydrogenase, subunit A; domain 2 › Butyryl-CoA Dehydrogenase, subunit A, domain 2 0.55 43.0 3.84e-01 89.2% 96.4%
1b3mA02 3.30.9.10 Alpha Beta › 2-Layer Sandwich › D-Amino Acid Oxidase; Chain A, domain 2 › D-Amino Acid Oxidase, subunit A, domain 2 0.55 42.0 3.27e-01 89.2% 41.5%
2oaiA00 3.30.465.10 Alpha Beta › 2-Layer Sandwich › Uridine Diphospho-n-acetylenolpyruvylglucosamine Reductase; domain 3 › 0.54 40.0 3.94e-01 79.7% 96.2%
3kyeA00 3.30.450.30 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › Dynein light chain 2a, cytoplasmic 0.54 38.0 3.33e-01 74.3% 74.8%
2bw8A00 2.60.120.180 Mainly Beta › Sandwich › Jelly Rolls › Glycoside hydrolase family 11/12, catalytic domain 0.54 45.0 3.26e-01 94.6% 43.8%
1wcuA00 2.60.120.430 Mainly Beta › Sandwich › Jelly Rolls › Galactose-binding lectin 0.54 46.0 3.72e-01 97.3% 84.6%
2nn5A00 3.30.530.20 Alpha Beta › 2-Layer Sandwich › Alpha-D-Glucose-1,6-Bisphosphate; Chain A, domain 4 › START domain 0.54 45.0 3.57e-01 98.6% 77.8%
4xpmB00 3.40.1840.10 Alpha Beta › 3-Layer(aba) Sandwich › Profilin-like › YNR034W-A-like 0.53 36.0 3.72e-01 70.3% 97.0%
2wv9A01 2.40.10.120 Mainly Beta › Beta Barrel › Thrombin, subunit H › 0.53 38.0 2.95e-01 83.8% 33.1%
3lidA03 3.30.450.20 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › PAS domain 0.52 37.0 3.42e-01 74.3% 88.5%
2r2zA00 3.30.465.10 Alpha Beta › 2-Layer Sandwich › Uridine Diphospho-n-acetylenolpyruvylglucosamine Reductase; domain 3 › 0.52 38.0 3.75e-01 82.4% 98.8%
1wgvA00 2.60.40.790 Mainly Beta › Sandwich › Immunoglobulin-like › 0.52 43.0 3.76e-01 98.6% 72.6%
2nqwA00 3.30.465.10 Alpha Beta › 2-Layer Sandwich › Uridine Diphospho-n-acetylenolpyruvylglucosamine Reductase; domain 3 › 0.51 38.0 3.71e-01 85.1% 82.8%
5llwA01 3.30.450.20 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › PAS domain 0.50 35.0 3.34e-01 73.0% 96.7%
ECOD (56)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3389763 1.1.7.45 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › eEFSec_4th 0.68 59.0 5.49e-01 100.0% 76.8%
4947671 1.1.7.0 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C 0.67 60.0 5.86e-01 100.0% 98.8%
3234172 1.1.7.45 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › eEFSec_4th 0.66 57.0 5.37e-01 100.0% 80.0%
4945251 1.1.7.0 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C 0.65 55.0 5.04e-01 100.0% 71.0%
4999166 1.1.7.0 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C 0.65 52.0 5.28e-01 100.0% 89.3%
3946118 1.1.13.0 ↗ beta barrels › cradle loop barrel › RIFT-related › Phage tail proteins 0.64 49.0 4.89e-01 81.1% 97.3%
5025767 1.1.7.0 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C 0.64 55.0 5.16e-01 100.0% 78.9%
4147655 1.1.7.9 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › tRNA-synt_2c 0.64 54.0 4.91e-01 100.0% 70.0%
4061072 1.1.7.9 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › tRNA-synt_2c 0.64 56.0 4.75e-01 100.0% 66.4%
4426391 1.1.7.9 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › tRNA-synt_2c 0.64 55.0 4.82e-01 100.0% 71.3%
4051617 1.1.7.9 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › tRNA-synt_2c 0.63 55.0 4.68e-01 100.0% 68.8%
3970300 304.107.1.1 ↗ a+b two layers › Alpha-beta plaits › Aminomethyltransferase folate-binding domain › Aminomethyltransferase folate-binding domain › GCV_T 0.63 54.0 3.58e-01 94.6% 58.4%
4976800 1.1.7.9 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › tRNA-synt_2c 0.63 53.0 5.02e-01 100.0% 78.9%
4152219 1.1.7.9 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › tRNA-synt_2c 0.63 54.0 4.66e-01 100.0% 68.0%
4159958 1.1.7.9 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › tRNA-synt_2c 0.63 54.0 4.82e-01 100.0% 75.5%
4581061 1.1.7.9 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › tRNA-synt_2c 0.63 54.0 4.83e-01 100.0% 75.5%
4496887 1.1.7.9 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › tRNA-synt_2c 0.63 51.0 4.58e-01 100.0% 62.7%
5029749 1.1.7.8 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › Ribosomal_L35Ae 0.63 55.0 5.24e-01 100.0% 91.0%
4258762 1.1.7.9 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › tRNA-synt_2c 0.63 53.0 4.67e-01 100.0% 68.3%
4215826 1.1.7.9 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › tRNA-synt_2c 0.62 53.0 4.73e-01 100.0% 75.5%
3710311 1.1.7.0 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C 0.62 54.0 4.57e-01 100.0% 92.3%
5069810 1.1.8.4 ↗ beta barrels › cradle loop barrel › RIFT-related › Aminomethyltransferase beta-barrel domain › eIF2_C 0.61 48.0 4.78e-01 91.9% 81.2%
3291162 244.1.1.0 ↗ a+b two layers › FAD-linked reductases, C-terminal domain-like › FAD-linked reductases-C › FAD-linked reductases-C 0.61 48.0 3.92e-01 87.8% 52.0%
4949140 1.1.7.13 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › TrmO 0.61 52.0 5.03e-01 100.0% 93.1%
5079595 1.1.7.9 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › tRNA-synt_2c 0.60 51.0 4.78e-01 100.0% 78.9%
3383993 244.1.1.0 ↗ a+b two layers › FAD-linked reductases, C-terminal domain-like › FAD-linked reductases-C › FAD-linked reductases-C 0.60 47.0 3.77e-01 87.8% 51.6%
4945827 1.1.8.0 ↗ beta barrels › cradle loop barrel › RIFT-related › Aminomethyltransferase beta-barrel domain 0.60 46.0 4.42e-01 87.8% 78.9%
3396144 10.21.1.1 ↗ beta sandwiches › jelly-roll › Jelly-roll domain in ADAMTS13 › Jelly-roll domain in ADAMTS13 › ADAMTS_spacer1 0.59 49.0 3.97e-01 93.2% 56.6%
4668791 1.1.8.4 ↗ beta barrels › cradle loop barrel › RIFT-related › Aminomethyltransferase beta-barrel domain › eIF2_C 0.59 47.0 4.29e-01 91.9% 66.7%
161224 1.1.8.4 ↗ beta barrels › cradle loop barrel › RIFT-related › Aminomethyltransferase beta-barrel domain › eIF2_C 0.59 46.0 4.29e-01 90.5% 74.0%
4048591 1.1.7.11 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › RimM 0.58 50.0 4.88e-01 100.0% 89.4%
3650304 66.1.1.0 ↗ beta sandwiches › ISP domain › ISP domain › ISP domain 0.58 36.0 3.91e-01 78.4% 76.7%
6701 244.1.1.0 ↗ a+b two layers › FAD-linked reductases, C-terminal domain-like › FAD-linked reductases-C › FAD-linked reductases-C 0.57 45.0 4.08e-01 87.8% 76.9%
5052072 331.2.1.0 ↗ a+b two layers › TBP-like › Phosphoglucomutase, C-terminal domain › Phosphoglucomutase, C-terminal domain 0.57 45.0 4.14e-01 87.8% 93.0%
4928935 223.2.1.0 ↗ a+b three layers › Profilin-like › profilin-like › profilin-like 0.57 40.0 3.69e-01 74.3% 86.0%
1030933 1.1.7.29 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › End_beta_barrel 0.57 47.0 4.51e-01 100.0% 80.9%
4929825 223.2.1.0 ↗ a+b three layers › Profilin-like › profilin-like › profilin-like 0.56 39.0 3.40e-01 73.0% 73.9%
2770745 244.1.1.0 ↗ a+b two layers › FAD-linked reductases, C-terminal domain-like › FAD-linked reductases-C › FAD-linked reductases-C 0.56 43.0 4.00e-01 89.2% 76.0%
None — 0.55 46.0 3.35e-01 94.6% 35.5%
4995824 1.1.7.0 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C 0.55 45.0 4.61e-01 98.6% 97.3%
3877369 10.21.1.1 ↗ beta sandwiches › jelly-roll › Jelly-roll domain in ADAMTS13 › Jelly-roll domain in ADAMTS13 › ADAMTS_spacer1 0.55 45.0 3.80e-01 94.6% 57.8%
3257740 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.55 46.0 4.30e-01 97.3% 85.3%
3909622 10.21.1.1 ↗ beta sandwiches › jelly-roll › Jelly-roll domain in ADAMTS13 › Jelly-roll domain in ADAMTS13 › ADAMTS_spacer1 0.55 45.0 3.75e-01 94.6% 61.4%
5000609 223.2.1.0 ↗ a+b three layers › Profilin-like › profilin-like › profilin-like 0.54 37.0 3.24e-01 73.0% 68.8%
3566092 10.21.1.1 ↗ beta sandwiches › jelly-roll › Jelly-roll domain in ADAMTS13 › Jelly-roll domain in ADAMTS13 › ADAMTS_spacer1 0.54 45.0 3.72e-01 94.6% 60.0%
3956757 223.1.1.0 ↗ a+b three layers › Profilin-like › sensor domains › sensor domains 0.53 39.0 3.67e-01 79.7% 72.6%
4377115 5084.3.1.0 ↗ beta barrels › Outer membrane meander beta-barrels › Autotransporter › Autotransporter 0.53 41.0 2.32e-01 86.5% 31.8%
4295277 223.1.1.0 ↗ a+b three layers › Profilin-like › sensor domains › sensor domains 0.53 40.0 3.20e-01 81.1% 46.7%
4086531 2003.1.2.16 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › FAD/NAD(P)-binding domain › FAD_binding_3,NAD_binding_8 0.53 42.0 2.66e-01 89.2% 17.3%
5025215 2004.1.1.42 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › T2SSE 0.52 40.0 2.61e-01 86.5% 24.4%
3519122 4.31.1.1 ↗ beta barrels › SH3 › Central WYL domain of RspWYL1 › Central WYL domain of RspWYL1 › WYL 0.52 37.0 3.54e-01 77.0% 77.8%
3261083 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.52 45.0 4.00e-01 100.0% 67.3%
350146 223.1.1.39 ↗ a+b three layers › Profilin-like › sensor domains › sensor domains › AbfS_sensor 0.52 37.0 3.27e-01 77.0% 57.8%
5009785 321.1.1.0 ↗ a+b two layers › Glutamine synthetase-like › Glutamine synthetase/guanido kinase › Glutamine synthetase/guanido kinase 0.51 42.0 3.30e-01 97.3% 100.0%
3978997 4.31.1.1 ↗ beta barrels › SH3 › Central WYL domain of RspWYL1 › Central WYL domain of RspWYL1 › WYL 0.51 36.0 3.39e-01 77.0% 74.7%
3953109 4.31.1.1 ↗ beta barrels › SH3 › Central WYL domain of RspWYL1 › Central WYL domain of RspWYL1 › WYL 0.50 36.0 3.40e-01 77.0% 69.5%