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NC_052658.1__YP_009985876.1__JR323_gp255__00022

Bact-Vir

NC_052658.1__YP_009985876.1__JR323_gp255__00022

Identity

Accession:
NC_052658 ↗
Kingdom:
phage

Quality

81.1 mean pLDDT

3D Structure

Domains

high = three domain segmentations agree, medium = two domain segmentations agree. Numbered high-first then medium, N→C within each tier.

D1 high residues 2-69
PDB
Domain cluster: representative
CATH (29)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
6ghmC02 2.30.30.40 Mainly Beta › Roll › SH3 type barrels. › SH3 Domains 0.72 55.0 5.68e-01 100.0% 87.5%
2v1rA00 2.30.30.40 Mainly Beta › Roll › SH3 type barrels. › SH3 Domains 0.69 56.0 5.67e-01 100.0% 89.6%
4cc2A00 2.30.30.40 Mainly Beta › Roll › SH3 type barrels. › SH3 Domains 0.69 54.0 5.55e-01 100.0% 92.1%
3h8zA02 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.65 42.0 4.31e-01 100.0% 70.3%
8jx6A02 2.30.30.780 Mainly Beta › Roll › SH3 type barrels. › 0.64 56.0 4.91e-01 98.5% 100.0%
1v1cA00 2.30.30.40 Mainly Beta › Roll › SH3 type barrels. › SH3 Domains 0.63 51.0 5.14e-01 100.0% 91.2%
4epcA01 2.30.30.170 Mainly Beta › Roll › SH3 type barrels. › 0.61 53.0 5.01e-01 100.0% 82.7%
2l3rA02 2.30.30.30 Mainly Beta › Roll › SH3 type barrels. › 0.61 47.0 4.69e-01 100.0% 79.5%
2avwD01 3.90.70.10 Alpha Beta › Alpha-Beta Complex › Cathepsin B; Chain A › Cysteine proteinases 0.59 52.0 4.14e-01 100.0% 53.9%
1b12C01 2.10.109.10 Mainly Beta › Ribbon › Umud Fragment, subunit A › Umud Fragment, subunit A 0.59 46.0 3.78e-01 100.0% 47.1%
4nspA00 3.30.2170.10 Alpha Beta › 2-Layer Sandwich › archaeoglobus fulgidus dsm 4304 fold › archaeoglobus fulgidus dsm 4304 superfamily 0.59 50.0 3.42e-01 94.1% 77.3%
3g1jA00 2.30.30.350 Mainly Beta › Roll › SH3 type barrels. › mobile metagenome of vibrio cholerae. Integron cassette protein vch_cass4. 0.58 50.0 4.64e-01 100.0% 78.9%
1mo9A02 3.50.50.60 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain 0.57 48.0 3.94e-01 97.1% 49.6%
4mboA01 2.60.40.1280 Mainly Beta › Sandwich › Immunoglobulin-like › 0.57 41.0 3.17e-01 76.5% 65.6%
4oelB00 2.40.50.170 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Cysteine proteinases. Chain C 0.57 42.0 4.21e-01 94.1% 78.3%
2rsoA00 2.40.50.40 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.57 38.0 3.52e-01 70.6% 54.3%
3au0A01 2.60.40.1280 Mainly Beta › Sandwich › Immunoglobulin-like › 0.55 39.0 3.07e-01 76.5% 67.1%
1a1rA02 2.40.10.10 Mainly Beta › Beta Barrel › Thrombin, subunit H › Trypsin-like serine proteases 0.54 39.0 3.67e-01 76.5% 82.4%
1eqnB01 3.90.980.10 Alpha Beta › Alpha-Beta Complex › DNA primase DNAg catalytic core, N-terminal domain › DNA primase, catalytic core, N-terminal domain 0.54 43.0 3.64e-01 91.2% 61.1%
1d0cA02 3.90.440.10 Alpha Beta › Alpha-Beta Complex › Nitric Oxide Synthase;Heme Domain; Chain A, domain 2 › Nitric Oxide Synthase;Heme Domain;Chain A domain 2 0.54 37.0 3.27e-01 70.6% 91.3%
4edgA01 3.90.980.10 Alpha Beta › Alpha-Beta Complex › DNA primase DNAg catalytic core, N-terminal domain › DNA primase, catalytic core, N-terminal domain 0.54 44.0 3.56e-01 91.2% 58.2%
1vq8A01 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.53 36.0 3.54e-01 80.9% 62.8%
3irpX01 2.60.40.1280 Mainly Beta › Sandwich › Immunoglobulin-like › 0.53 41.0 3.21e-01 85.3% 67.8%
2k3yA01 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.53 46.0 3.94e-01 100.0% 78.3%
1khiA01 2.30.30.30 Mainly Beta › Roll › SH3 type barrels. › 0.53 40.0 3.93e-01 98.5% 76.0%
4lk4A01 2.40.10.10 Mainly Beta › Beta Barrel › Thrombin, subunit H › Trypsin-like serine proteases 0.52 40.0 3.32e-01 85.3% 83.2%
3k6yA02 2.40.10.10 Mainly Beta › Beta Barrel › Thrombin, subunit H › Trypsin-like serine proteases 0.51 40.0 3.49e-01 85.3% 68.2%
2wesA00 3.50.50.60 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain 0.51 43.0 2.64e-01 98.5% 41.1%
5jciA02 3.50.50.60 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain 0.50 43.0 3.55e-01 100.0% 97.0%
ECOD (53)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3612090 4.1.1.0 beta barrels › SH3 › SH3 › SH3 0.77 54.0 5.66e-01 100.0% 83.3%
3598499 4.1.1.0 beta barrels › SH3 › SH3 › SH3 0.74 53.0 4.19e-01 100.0% 37.1%
3794500 4.1.1.287 beta barrels › SH3 › SH3 › SH3 › DUF5641 0.72 53.0 3.81e-01 100.0% 28.6%
3616769 4.1.1.287 beta barrels › SH3 › SH3 › SH3 › DUF5641 0.71 52.0 4.67e-01 100.0% 55.8%
3581817 4.1.1.287 beta barrels › SH3 › SH3 › SH3 › DUF5641 0.71 52.0 5.32e-01 100.0% 81.5%
3512902 4.1.1.287 beta barrels › SH3 › SH3 › SH3 › DUF5641 0.70 48.0 5.25e-01 100.0% 89.1%
4000622 4.1.1.287 beta barrels › SH3 › SH3 › SH3 › DUF5641 0.70 51.0 4.22e-01 100.0% 43.3%
3517415 4.1.1.287 beta barrels › SH3 › SH3 › SH3 › DUF5641 0.70 51.0 5.19e-01 100.0% 80.0%
4207556 4.1.1.58 beta barrels › SH3 › SH3 › SH3 › SH3_3 0.69 61.0 6.10e-01 100.0% 95.7%
3505589 4.1.1.287 beta barrels › SH3 › SH3 › SH3 › DUF5641 0.69 49.0 4.11e-01 100.0% 43.3%
3505711 4.1.1.287 beta barrels › SH3 › SH3 › SH3 › DUF5641 0.68 49.0 4.58e-01 100.0% 61.2%
4091791 4.1.1.0 beta barrels › SH3 › SH3 › SH3 0.68 58.0 5.61e-01 98.5% 84.0%
3517130 4.1.1.287 beta barrels › SH3 › SH3 › SH3 › DUF5641 0.67 48.0 5.17e-01 100.0% 94.5%
3500084 4.1.1.0 beta barrels › SH3 › SH3 › SH3 0.67 56.0 5.58e-01 100.0% 88.6%
4154388 2.1.1.0 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.66 47.0 4.47e-01 75.0% 65.0%
5025280 4.6.1.2 beta barrels › SH3 › PRC-barrel domain › PRC-barrel domain › PRC 0.65 52.0 4.75e-01 100.0% 66.7%
3987601 4.1.1.0 beta barrels › SH3 › SH3 › SH3 0.64 42.0 4.69e-01 97.1% 94.0%
4386715 4.1.1.58 beta barrels › SH3 › SH3 › SH3 › SH3_3 0.63 56.0 5.24e-01 100.0% 87.1%
3810562 4.1.1.0 beta barrels › SH3 › SH3 › SH3 0.63 50.0 4.89e-01 100.0% 78.7%
3972820 4.1.1.0 beta barrels › SH3 › SH3 › SH3 0.63 54.0 5.12e-01 100.0% 81.2%
223688 2.1.1.0 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.63 39.0 4.57e-01 76.5% 95.6%
1557493 4056.1.1.6 beta barrels › Barrel domain in upper collar protein › Barrel domain in upper collar protein › Barrel domain in upper collar protein › P23-45_portal_barrel 0.62 55.0 5.24e-01 100.0% 86.4%
None 0.61 53.0 3.28e-01 98.5% 52.2%
4386702 219.1.1.45 a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases › Mac-1 0.60 54.0 3.51e-01 100.0% 25.9%
None 0.60 51.0 3.17e-01 98.5% 50.6%
3925482 2003.1.3.1 a/b three-layered sandwiches › Rossmann-like › Rossmann-related › Nucleotide-binding domain › DAO 0.59 51.0 3.17e-01 98.5% 51.7%
4219309 2003.1.3.1 a/b three-layered sandwiches › Rossmann-like › Rossmann-related › Nucleotide-binding domain › DAO 0.59 50.0 3.13e-01 98.5% 51.2%
4683120 2003.1.2.12 a/b three-layered sandwiches › Rossmann-like › Rossmann-related › FAD/NAD(P)-binding domain › DAO 0.59 50.0 3.56e-01 98.5% 55.6%
None 0.59 50.0 3.14e-01 98.5% 51.9%
4142761 2003.1.2.12 a/b three-layered sandwiches › Rossmann-like › Rossmann-related › FAD/NAD(P)-binding domain › DAO 0.59 50.0 3.48e-01 98.5% 53.3%
3168924 4.1.1.232 beta barrels › SH3 › SH3 › SH3 › SH3_Tf2-1 0.58 47.0 4.69e-01 100.0% 87.1%
None 0.58 50.0 3.05e-01 98.5% 45.9%
4162406 244.1.1.11 a+b two layers › FAD-linked reductases, C-terminal domain-like › FAD-linked reductases-C › FAD-linked reductases-C › SE 0.57 49.0 2.97e-01 98.5% 38.0%
4981041 375.1.1.299 few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › CPxCG_zf 0.57 39.0 4.35e-01 95.6% 96.0%
3931969 220.1.1.0 beta barrels › PH domain-like › PH domain-like › PH domain-like 0.57 47.0 3.96e-01 95.6% 88.0%
3617389 2003.1.3.1 a/b three-layered sandwiches › Rossmann-like › Rossmann-related › Nucleotide-binding domain › DAO 0.57 49.0 3.03e-01 98.5% 47.4%
3174528 244.1.1.11 a+b two layers › FAD-linked reductases, C-terminal domain-like › FAD-linked reductases-C › FAD-linked reductases-C › SE 0.57 49.0 3.05e-01 98.5% 45.9%
5083372 4056.1.1.0 beta barrels › Barrel domain in upper collar protein › Barrel domain in upper collar protein › Barrel domain in upper collar protein 0.57 50.0 4.69e-01 100.0% 85.9%
None 0.57 51.0 3.26e-01 100.0% 60.3%
3934192 4.1.1.0 beta barrels › SH3 › SH3 › SH3 0.57 42.0 4.38e-01 100.0% 91.7%
3784770 4.8.1.0 beta barrels › SH3 › Chromo domain-like › Chromo domain-like 0.56 48.0 4.66e-01 100.0% 88.0%
None 0.55 48.0 3.10e-01 98.5% 47.3%
1644186 2003.1.2.2 a/b three-layered sandwiches › Rossmann-like › Rossmann-related › FAD/NAD(P)-binding domain › GMC_oxred_N 0.55 49.0 3.19e-01 100.0% 82.0%
3562710 2003.1.2.29 a/b three-layered sandwiches › Rossmann-like › Rossmann-related › FAD/NAD(P)-binding domain › NAD_binding_8 0.55 49.0 3.03e-01 100.0% 69.4%
3968297 2003.1.2.24 a/b three-layered sandwiches › Rossmann-like › Rossmann-related › FAD/NAD(P)-binding domain › Pyr_redox_2 0.54 47.0 3.73e-01 100.0% 92.0%
3915992 2003.1.2.18 a/b three-layered sandwiches › Rossmann-like › Rossmann-related › FAD/NAD(P)-binding domain 0.54 49.0 2.97e-01 100.0% 66.1%
3657257 2003.1.2.1 a/b three-layered sandwiches › Rossmann-like › Rossmann-related › FAD/NAD(P)-binding domain › Pyr_redox 0.54 48.0 3.79e-01 100.0% 94.3%
None 0.53 46.0 2.85e-01 98.5% 39.0%
3173253 2003.1.2.0 a/b three-layered sandwiches › Rossmann-like › Rossmann-related › FAD/NAD(P)-binding domain 0.53 46.0 3.24e-01 100.0% 97.5%
4028923 2003.1.3.0 a/b three-layered sandwiches › Rossmann-like › Rossmann-related › Nucleotide-binding domain 0.53 46.0 2.74e-01 100.0% 27.2%
4163835 11.1.5.56 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Common fold of diphtheria toxin/transcription factors/cytochrome f › Zona_CL1 0.52 39.0 3.09e-01 80.9% 40.7%
4525111 1.1.7.126 beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › Peptidase_S7 0.51 36.0 3.43e-01 75.0% 85.0%
3335638 708.1.2.11 beta complex topology › ETN0001 domain-like › ETN0001 domain-like › Mss4-like › STEEP1 0.50 41.0 3.60e-01 89.7% 69.0%
D2 high residues 80-160
PDB
Domain cluster: representative
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF26219.1 best DUF8046 132.8 4.50e-39 100.0% 87.0%
CATH (14)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1b7eA01 3.90.350.10 Alpha Beta › Alpha-Beta Complex › Transposase Inhibitor Protein From Tn5; Chain A, domain 1 › Transposase Inhibitor Protein From Tn5; Chain A, domain 1 0.62 36.0 2.55e-01 97.5% 19.1%
1pfsA00 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.61 54.0 5.56e-01 97.5% 100.0%
4hceA00 2.40.50.860 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.56 49.0 4.24e-01 97.5% 89.1%
6rupA00 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.55 48.0 4.40e-01 100.0% 93.7%
2obdA02 3.15.10.10 Alpha Beta › Super Roll › Bactericidal permeability-increasing protein; domain 1 › Bactericidal permeability-increasing protein; domain 1 0.53 37.0 2.94e-01 75.3% 69.8%
6lofA00 2.40.155.10 Mainly Beta › Beta Barrel › Green Fluorescent Protein › Green fluorescent protein 0.52 45.0 3.65e-01 98.8% 51.2%
5odnC00 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.52 45.0 4.21e-01 100.0% 92.2%
1zhhB01 3.30.450.220 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › LuxQ periplasmic domain, N-terminal subdomain 0.51 39.0 3.16e-01 90.1% 42.0%
1se8A02 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.51 45.0 4.13e-01 100.0% 86.5%
1ue6D00 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.51 45.0 4.20e-01 100.0% 90.4%
2vlgC00 3.30.450.20 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › PAS domain 0.51 45.0 4.17e-01 100.0% 87.3%
1te5A00 3.60.20.10 Alpha Beta › 4-Layer Sandwich › Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1 › Aminohydrolase, N-terminal nucleophile (Ntn) domain 0.51 43.0 3.12e-01 97.5% 92.5%
2vl6A02 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.50 43.0 3.96e-01 100.0% 90.2%
2vw9B00 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.50 43.0 4.06e-01 100.0% 97.1%
ECOD (28)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
5018976 295.1.1.53 a+b two layers › ssDNA-binding transcriptional regulator domain-like › ssDNA-binding transcriptional regulator domain › ssDNA-binding transcriptional regulator domain › DUF3467 0.64 35.0 3.91e-01 97.5% 68.3%
4021547 206.1.3.18 a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › ATP-grasp › D123 0.63 54.0 3.79e-01 100.0% 31.6%
5002376 101.1.2.0 alpha arrays › HTH › HTH › winged helix domain 0.55 31.0 2.86e-01 98.8% 42.9%
3170704 5.1.4.0 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed 0.55 39.0 2.54e-01 75.3% 23.7%
3601975 5.1.4.0 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed 0.55 43.0 2.88e-01 86.4% 30.3%
4301874 5.1.4.16 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › CPSF_A 0.55 42.0 2.76e-01 84.0% 37.9%
4022907 243.3.1.0 a+b two layers › Cystatin-like › Cystatin/monellin › Cystatin/monellin 0.54 39.0 3.65e-01 75.3% 95.0%
3741507 2.1.1.6 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › SSB 0.54 49.0 4.56e-01 100.0% 97.0%
3205088 243.3.1.0 a+b two layers › Cystatin-like › Cystatin/monellin › Cystatin/monellin 0.54 38.0 3.40e-01 74.1% 85.0%
5016563 2.1.1.0 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.54 48.0 4.23e-01 100.0% 76.7%
5016178 2.1.1.0 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.54 47.0 4.34e-01 97.5% 80.0%
3604365 2.1.1.0 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.53 46.0 4.25e-01 97.5% 81.0%
3271375 2.1.1.0 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.53 46.0 3.60e-01 100.0% 61.7%
5030363 2.1.1.80 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › MCM_OB 0.53 47.0 4.25e-01 100.0% 83.6%
3690510 2.1.1.6 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › SSB 0.52 45.0 4.15e-01 100.0% 90.0%
3375524 2.1.1.229 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › PF30940 0.52 45.0 4.03e-01 100.0% 79.2%
3520574 5.1.2.3 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 5-bladed › DPPIV_N 0.52 42.0 3.02e-01 90.1% 31.1%
3839607 2.1.1.6 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › SSB 0.52 44.0 4.01e-01 100.0% 87.3%
3396837 295.1.1.4 a+b two layers › ssDNA-binding transcriptional regulator domain-like › ssDNA-binding transcriptional regulator domain › ssDNA-binding transcriptional regulator domain › COMM_domain 0.51 26.0 2.78e-01 88.9% 51.4%
3172086 2.1.1.15 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › tRNA_anti-codon 0.51 46.0 4.13e-01 100.0% 70.4%
4277262 2.1.1.6 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › SSB 0.51 44.0 3.99e-01 100.0% 85.6%
4938219 2.1.1.0 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.51 44.0 4.09e-01 97.5% 82.9%
4952879 2.1.1.80 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › MCM_OB 0.51 45.0 4.10e-01 100.0% 74.5%
5005288 2.1.1.0 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.51 45.0 3.64e-01 98.8% 56.8%
4680392 2.1.1.6 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › SSB 0.51 44.0 4.03e-01 100.0% 89.1%
4942779 2.1.1.80 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › MCM_OB 0.51 44.0 3.95e-01 97.5% 82.6%
3680255 2.1.1.67 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › Ten1_2 0.50 42.0 3.84e-01 100.0% 69.7%
5004339 2.1.1.0 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.50 45.0 3.54e-01 100.0% 50.6%