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NC_053015.1__YP_010000244.1__JT357_gp22__00022

Bact-Vir

NC_053015.1__YP_010000244.1__JT357_gp22__00022

Identity

Accession:
NC_053015 ↗
Kingdom:
phage

Quality

60.5 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Casjensviridae› Newforgelanevirus› Pectobacterium_phage_MA12

TaxID: 2686474

Cluster

Singleton — not in a non-trivial cluster

3D Structure

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Domains

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

D1 high residues 17-105
PDB
D2 high residues 108-190
PDB
Domain cluster: rep: MW677529.1__QXN72676.1__RCZAHN_67__00067__D79-157
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF19419.6 best DUF5983 32.0 1.80e-07 100.0% 82.2%
CATH (13)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3tfiA00 3.30.1360.120 Alpha Beta › 2-Layer Sandwich › Gyrase A; domain 2 › Probable tRNA modification gtpase trme; domain 1 0.55 44.0 2.91e-01 88.0% 37.9%
2lojA01 2.10.70.10 Mainly Beta › Ribbon › Complement Module; domain 1 › Complement Module, domain 1 0.54 28.0 3.48e-01 83.1% 100.0%
3hyiA01 3.10.28.10 Alpha Beta › Roll › Endonuclease I-creI › Homing endonucleases 0.54 38.0 2.98e-01 74.7% 82.2%
6kmoB00 3.40.50.1820 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Alpha/Beta hydrolase fold, catalytic domain 0.54 37.0 2.51e-01 72.3% 57.0%
6ofsA04 3.30.830.10 Alpha Beta › 2-Layer Sandwich › Cytochrome Bc1 Complex; Chain A, domain 1 › Metalloenzyme, LuxS/M16 peptidase-like 0.52 42.0 3.39e-01 94.0% 88.0%
1vkwA01 3.40.109.10 Alpha Beta › 3-Layer(aba) Sandwich › NADH Oxidase › NADH Oxidase 0.52 41.0 3.72e-01 90.4% 74.4%
2wb6A00 3.90.1150.90 Alpha Beta › Alpha-Beta Complex › Aspartate Aminotransferase, domain 1 › 0.51 33.0 3.04e-01 79.5% 47.4%
1llnA01 3.40.420.10 Alpha Beta › 3-Layer(aba) Sandwich › Ricin (A subunit); domain 1 › Ricin (A subunit), domain 1 0.51 36.0 2.92e-01 75.9% 53.1%
4bv4R00 3.80.10.10 Alpha Beta › Alpha-Beta Horseshoe › Leucine-rich repeat, LRR (right-handed beta-alpha superhelix) › Ribonuclease Inhibitor 0.51 38.0 2.46e-01 80.7% 30.0%
3bqxA00 3.10.180.10 Alpha Beta › Roll › 2,3-Dihydroxybiphenyl 1,2-Dioxygenase; domain 1 › 2,3-Dihydroxybiphenyl 1,2-Dioxygenase, domain 1 0.50 41.0 3.59e-01 94.0% 94.2%
4paaA03 3.30.1360.120 Alpha Beta › 2-Layer Sandwich › Gyrase A; domain 2 › Probable tRNA modification gtpase trme; domain 1 0.50 41.0 3.26e-01 94.0% 61.4%
1txdA02 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.50 41.0 3.69e-01 92.8% 86.8%
3oreA01 3.30.1360.40 Alpha Beta › 2-Layer Sandwich › Gyrase A; domain 2 › 0.50 35.0 3.74e-01 73.5% 95.5%
ECOD (21)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3982864 101.1.2.658 ↗ alpha arrays › HTH › HTH › winged helix domain › DUF5983 0.84 78.0 7.81e-01 100.0% 97.6%
3285963 873.1.1.7 ↗ a+b complex topology › H-NOX domain › H-NOX domain › H-NOX domain › Arabinose_bd 0.59 44.0 3.46e-01 83.1% 54.4%
3973671 873.1.1.0 ↗ a+b complex topology › H-NOX domain › H-NOX domain › H-NOX domain 0.58 44.0 3.42e-01 83.1% 53.0%
4120044 304.11.1.2 ↗ a+b two layers › Alpha-beta plaits › Probable ACP-binding domain of malonyl-CoA ACP transacylase › Probable ACP-binding domain of malonyl-CoA ACP transacylase › SAT 0.58 45.0 4.66e-01 89.2% 93.3%
4077309 331.1.1.6 ↗ a+b two layers › TBP-like › TATA-box binding protein-like › TATA-box binding protein-like › DUF3378 0.58 43.0 4.44e-01 80.7% 88.7%
None — 0.56 45.0 3.44e-01 88.0% 83.5%
3182879 304.11.1.2 ↗ a+b two layers › Alpha-beta plaits › Probable ACP-binding domain of malonyl-CoA ACP transacylase › Probable ACP-binding domain of malonyl-CoA ACP transacylase › SAT 0.55 40.0 4.14e-01 84.3% 82.5%
3968949 873.1.1.7 ↗ a+b complex topology › H-NOX domain › H-NOX domain › H-NOX domain › Arabinose_bd 0.55 41.0 3.29e-01 83.1% 54.2%
5051008 873.1.1.0 ↗ a+b complex topology › H-NOX domain › H-NOX domain › H-NOX domain 0.54 40.0 3.23e-01 79.5% 52.6%
3728757 3016.1.1.0 ↗ a+b two layers › C-terminal domain in some PLP-dependent transferases › C-terminal domain in some PLP-dependent transferases › C-terminal domain in some PLP-dependent transferases 0.54 38.0 3.86e-01 73.5% 93.8%
4990980 243.3.1.0 ↗ a+b two layers › Cystatin-like › Cystatin/monellin › Cystatin/monellin 0.54 37.0 3.55e-01 71.1% 96.8%
5020278 3012.1.1.19 ↗ a+b two layers › Cof C2 cap domain › Cof C2 cap domain › Cof C2 cap domain › PF27313 0.54 40.0 3.66e-01 81.9% 67.0%
3659272 206.1.1.20 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › PK_Tyr_Ser-Thr 0.53 38.0 2.66e-01 75.9% 56.1%
None — 0.52 39.0 2.93e-01 92.8% 30.2%
None — 0.52 40.0 3.06e-01 92.8% 34.1%
4141111 304.120.1.6 ↗ a+b two layers › Alpha-beta plaits › Ferredoxin-like domain in ThiI › Ferredoxin-like domain in ThiI › ThiI_fer 0.51 39.0 4.07e-01 83.1% 98.7%
3413137 2006.1.1.3 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › HAD-like › Trehalose_PPase 0.51 41.0 3.02e-01 91.6% 56.9%
1122389 207.1.1.130 ↗ beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Leucine-rich repeats › Leucine-rich repeats › LRR_1, LRR_5, LRR_8 0.51 38.0 2.46e-01 80.7% 30.0%
3411894 3012.1.1.0 ↗ a+b two layers › Cof C2 cap domain › Cof C2 cap domain › Cof C2 cap domain 0.51 38.0 3.89e-01 85.5% 83.7%
5081432 873.1.1.0 ↗ a+b complex topology › H-NOX domain › H-NOX domain › H-NOX domain 0.50 39.0 3.16e-01 85.5% 67.1%
3424939 206.1.1.1 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › Pkinase 0.50 41.0 2.88e-01 96.4% 49.1%