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AJ972879.2__CCE26337.1__X__00315

Bact-Vir

AJ972879.2__CCE26337.1__X__00315

Identity

Accession:
AJ972879 ↗
Kingdom:
phage

Quality

81.2 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Yersinia_phage_phiR1-37

TaxID: 331278

Cluster

View cluster (2 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 4-107_291-318
PDB
Domain cluster: rep: term2_saliva_scaffold_1_prodigal-single.1__X__X__00117__D395-534_709-736
Pfam (2)
AccessionNameScoreE-valueQ covHMM cov
PF01751.29 best Toprim 33.4 5.80e-08 78.0% 86.5%
PF00986.27 DNA_gyraseB_C 32.2 1.30e-07 28.0% 52.4%
CATH (10)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2xcqA01 3.40.50.670 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.88 85.0 7.32e-01 100.0% 85.1%
2zjtA01 3.40.50.670 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.85 58.0 6.22e-01 99.2% 79.5%
6tg6A01 3.40.1360.10 Alpha Beta › 3-Layer(aba) Sandwich › Dna Topoisomerase Vi A Subunit; Chain: A, domain 2 › 0.72 51.0 5.67e-01 94.7% 92.3%
5bq3A02 3.40.50.2300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Response regulator 0.66 41.0 3.91e-01 78.8% 52.9%
2xdqA03 3.40.50.1980 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Nitrogenase molybdenum iron protein domain 0.57 38.0 3.89e-01 94.7% 69.4%
4rxuA02 3.40.50.2300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Response regulator 0.54 40.0 3.54e-01 79.5% 52.8%
2o3jB01 3.40.50.720 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain 0.53 46.0 4.00e-01 97.0% 94.3%
2qagB00 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.51 45.0 3.75e-01 100.0% 82.5%
3m9wA02 3.40.50.2300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Response regulator 0.50 40.0 3.77e-01 97.0% 69.8%
4upiA01 3.40.720.10 Alpha Beta › 3-Layer(aba) Sandwich › Alkaline Phosphatase, subunit A › Alkaline Phosphatase, subunit A 0.50 44.0 2.99e-01 97.0% 70.1%
ECOD (25)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4238497 2006.1.3.1 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › Toprim domain › DNA_gyraseB_C,Toprim 0.97 95.0 7.56e-01 100.0% 74.8%
3164150 2006.1.3.1 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › Toprim domain › DNA_gyraseB_C,Toprim 0.97 94.0 7.58e-01 100.0% 75.6%
None — 0.96 94.0 7.37e-01 100.0% 70.7%
3964707 2006.1.3.0 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › Toprim domain 0.96 93.0 7.45e-01 100.0% 75.7%
4124102 2006.1.3.0 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › Toprim domain 0.96 93.0 7.32e-01 100.0% 72.9%
None — 0.96 93.0 7.37e-01 100.0% 74.9%
3520955 2006.1.3.1 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › Toprim domain › DNA_gyraseB_C,Toprim 0.96 93.0 7.08e-01 100.0% 64.9%
4406660 2006.1.3.1 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › Toprim domain › DNA_gyraseB_C,Toprim 0.96 93.0 7.31e-01 100.0% 70.8%
4945733 2006.1.3.0 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › Toprim domain 0.95 92.0 7.17e-01 100.0% 73.2%
2452014 2006.1.3.1 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › Toprim domain › DNA_gyraseB_C,Toprim 0.94 90.0 7.14e-01 100.0% 73.6%
4100838 2006.1.3.1 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › Toprim domain › DNA_gyraseB_C,Toprim 0.93 90.0 7.28e-01 100.0% 72.8%
1878568 2006.1.3.1 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › Toprim domain › DNA_gyraseB_C,Toprim 0.91 75.0 7.46e-01 95.5% 82.8%
3789608 2006.1.3.0 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › Toprim domain 0.90 85.0 6.50e-01 100.0% 65.8%
1165402 2006.1.3.3 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › Toprim domain › Toprim,TOPRIM_C 0.89 69.0 6.69e-01 79.5% 77.8%
4878011 2006.1.3.21 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › Toprim domain › TOPRIM_C 0.89 86.0 7.08e-01 100.0% 76.1%
3594652 2006.1.3.0 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › Toprim domain 0.89 84.0 6.41e-01 100.0% 64.7%
3213306 2006.1.3.21 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › Toprim domain › TOPRIM_C 0.88 84.0 6.43e-01 100.0% 67.0%
3551383 2006.1.3.3 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › Toprim domain › Toprim,TOPRIM_C 0.87 83.0 6.20e-01 100.0% 62.4%
None — 0.83 72.0 6.32e-01 89.4% 67.2%
3192495 7525.1.1.2 ↗ a/b three-layered sandwiches › Phosphoglycerate mutase-like › Phosphoglycerate mutase-like › Phosphoglycerate mutase-like › His_Phos_2 0.62 49.0 3.40e-01 85.6% 65.6%
3698933 2004.1.1.46 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › MCM 0.57 41.0 3.20e-01 72.7% 62.9%
4209998 7523.1.1.23 ↗ a/b three-layered sandwiches › Periplasmic binding protein-like II › Periplasmic binding protein-like II › Periplasmic binding protein-like II › PBP_like_2 0.55 40.0 3.22e-01 90.9% 38.5%
4013103 2008.1.1.99 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › PDDEXK_12 0.54 47.0 3.94e-01 97.7% 94.9%
3322036 2004.1.1.296 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › MCM_bind 0.53 37.0 3.10e-01 71.2% 74.8%
3788836 7585.1.1.1 ↗ a/b three-layered sandwiches › Rossmann-like domains in Sec1/munc18-like proteins › Rossmann-like domains in Sec1/munc18-like proteins › Rossmann-like domains in Sec1/munc18-like proteins › Sec1 0.52 42.0 3.32e-01 86.4% 75.1%
D2 medium residues 112-288
PDB
Domain cluster: rep: OR836606.1__WRM43413.1__X__00082__D46-191
CATH (2)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3nuhB02 3.30.300.370 Alpha Beta › 2-Layer Sandwich › GMP Synthetase; Chain A, domain 3 › 0.69 43.0 5.11e-01 100.0% 90.9%
2od4B01 3.30.70.100 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.55 25.0 3.53e-01 72.3% 87.6%
ECOD (1)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3964724 3675.1.1.1 ↗ a+b complex topology › DNA gyrase subunit B insertion domain › DNA gyrase subunit B insertion domain › DNA gyrase subunit B insertion domain › GyrB_insert 0.62 49.0 5.17e-01 80.8% 100.0%