←Back to structures

MW478291.1__QTZ82964.1__phiCPD_00082__00082

Bact-Vir

MW478291.1__QTZ82964.1__phiCPD_00082__00082

Identity

Accession:
MW478291 ↗
Kingdom:
phage

Quality

80.5 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Clostridium_phage_phiCp-D

TaxID: 2814704

Cluster

View cluster (42 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 medium residues 14-67
PDB
Domain cluster: representative
CATH (18)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1w8kA02 3.50.4.10 Alpha Beta › 3-Layer(bba) Sandwich › Hepatocyte Growth Factor › Hepatocyte Growth Factor 0.66 44.0 3.47e-01 100.0% 33.6%
2qyzA01 3.30.1490.160 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › ctc02137 like domains 0.60 51.0 5.17e-01 100.0% 94.3%
2od0A00 3.30.1460.30 Alpha Beta › 2-Layer Sandwich › Yope Regulator; Chain: A, › YgaC/TfoX-N like chaperone 0.59 47.0 3.84e-01 88.9% 81.6%
4fgoA00 3.10.620.30 Alpha Beta › Roll › C8orf32 fold › 0.57 49.0 3.41e-01 98.1% 32.6%
4h1sB02 3.90.780.10 Alpha Beta › Alpha-Beta Complex › 5'-nucleotidase; domain 2 › 5'-Nucleotidase, C-terminal domain 0.55 43.0 2.96e-01 88.9% 64.6%
2nysA00 2.30.30.220 Mainly Beta › Roll › SH3 type barrels. › SspB-like 0.55 46.0 3.70e-01 100.0% 62.4%
3p8bB02 2.30.30.30 Mainly Beta › Roll › SH3 type barrels. › 0.53 41.0 3.95e-01 87.0% 87.1%
3pl0B00 2.60.120.620 Mainly Beta › Sandwich › Jelly Rolls › q2cbj1_9rhob like domain 0.53 42.0 2.84e-01 94.4% 65.9%
5j3tA00 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.53 41.0 3.23e-01 88.9% 73.0%
4e4tA03 3.30.470.20 Alpha Beta › 2-Layer Sandwich › D-amino Acid Aminotransferase; Chain A, domain 1 › ATP-grasp fold, B domain 0.53 41.0 2.97e-01 98.1% 39.6%
6my0A02 2.30.30.30 Mainly Beta › Roll › SH3 type barrels. › 0.52 43.0 4.14e-01 98.1% 80.0%
1y96D00 2.30.30.100 Mainly Beta › Roll › SH3 type barrels. › 0.52 43.0 3.83e-01 98.1% 69.9%
5z0uA01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.52 42.0 3.22e-01 100.0% 39.5%
4b9wA02 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.51 40.0 3.97e-01 98.1% 85.7%
2id0A02 2.40.50.640 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.51 35.0 3.21e-01 81.5% 53.4%
4fmrB01 2.70.50.70 Mainly Beta › Distorted Sandwich › Coagulation Factor XIII; Chain A, domain 1 › 0.50 42.0 3.20e-01 100.0% 45.0%
2p1gA02 2.30.260.10 Mainly Beta › Roll › putative xylanase like fold › putative xylanase like domain 0.50 41.0 3.49e-01 98.1% 66.0%
6zgqA01 2.170.16.10 Mainly Beta › Beta Complex › Endonuclease - Pi-scei; Chain A, domain 1 › Hedgehog/Intein (Hint) domain 0.50 41.0 3.13e-01 96.3% 44.9%
ECOD (29)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3581088 3945.1.1.0 ↗ alpha superhelices › N-terminal fragment of dynein heavy chain › N-terminal fragment of dynein heavy chain › N-terminal fragment of dynein heavy chain 0.73 45.0 3.25e-01 100.0% 22.8%
4032123 4112.1.1.1 ↗ beta duplicates or obligate multimers › YopX, N-terminal domain-like › YopX, N-terminal domain-like › YopX, N-terminal domain-like › YopX 0.69 53.0 5.13e-01 100.0% 75.0%
3640318 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.67 47.0 5.05e-01 100.0% 88.9%
3595896 3529.1.1.0 ↗ beta sandwiches › Major vault protein (MVP) structural repeat domain › Major vault protein (MVP) structural repeat domain › Major vault protein (MVP) structural repeat domain 0.66 43.0 4.60e-01 100.0% 80.0%
3705470 3529.1.1.0 ↗ beta sandwiches › Major vault protein (MVP) structural repeat domain › Major vault protein (MVP) structural repeat domain › Major vault protein (MVP) structural repeat domain 0.63 42.0 4.55e-01 100.0% 82.2%
3274154 224.1.1.0 ↗ a+b three layers › Gelsolin-like › Gelsolin-like › Gelsolin-like 0.61 39.0 3.26e-01 100.0% 34.7%
4259070 375.13.1.1 ↗ few secondary structure elements › Rubredoxin-like › Mycobacterium tuberculosis Topoisomerase I C-terminal domain › Mycobacterium tuberculosis Topoisomerase I C-terminal domain › Toprim_C_rpt 0.61 42.0 4.35e-01 85.2% 76.0%
4049910 375.14.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-like domain in leucyl-tRNA synthetase (LS1) › Rubredoxin-like domain in leucyl-tRNA synthetase (LS1) 0.61 45.0 4.77e-01 96.3% 100.0%
None — 0.60 48.0 2.90e-01 100.0% 13.2%
4970537 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.58 40.0 4.46e-01 100.0% 97.5%
4019073 4154.1.1.0 ↗ beta duplicates or obligate multimers › E2F-DP heterodimerization region › E2F-DP heterodimerization region › E2F-DP heterodimerization region 0.58 52.0 4.21e-01 100.0% 66.0%
3190961 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.58 51.0 4.74e-01 100.0% 94.3%
3611469 6.1.1.30 ↗ beta duplicates or obligate multimers › beta-Trefoil › beta-Trefoil › beta-Trefoil › CFAP161 0.57 47.0 3.27e-01 100.0% 99.1%
3251940 4.1.1.51 ↗ beta barrels › SH3 › SH3 › SH3 › SGF29_Tudor 0.57 44.0 4.00e-01 87.0% 73.3%
3410114 11.1.1.179 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › Ig_3 0.56 42.0 3.31e-01 83.3% 38.3%
3928506 376.1.1.20 ↗ few secondary structure elements › RING/U-box-like › RING/U-box-like › RING/U-box › zf-RING_UBOX 0.55 37.0 3.28e-01 72.2% 57.6%
3279470 4.31.1.1 ↗ beta barrels › SH3 › Central WYL domain of RspWYL1 › Central WYL domain of RspWYL1 › WYL 0.54 44.0 3.81e-01 98.1% 57.8%
1394554 4.1.1.3 ↗ beta barrels › SH3 › SH3 › SH3 › KOW 0.53 41.0 3.91e-01 87.0% 84.4%
3511375 4.1.1.349 ↗ beta barrels › SH3 › SH3 › SH3 › ROF 0.53 45.0 3.94e-01 100.0% 62.4%
5042892 4.1.1.3 ↗ beta barrels › SH3 › SH3 › SH3 › KOW 0.53 41.0 3.99e-01 87.0% 90.0%
3656401 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.52 44.0 4.02e-01 98.1% 82.7%
3926175 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.52 39.0 3.48e-01 87.0% 64.7%
3602511 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.51 42.0 3.89e-01 100.0% 72.9%
4400936 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.51 38.0 3.93e-01 81.5% 94.0%
5032809 4.11.1.0 ↗ beta barrels › SH3 › LexA/Signal peptidase › LexA/Signal peptidase 0.51 41.0 3.29e-01 100.0% 77.7%
3255511 375.1.1.179 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › TFIIE_alpha 0.51 40.0 2.83e-01 100.0% 25.8%
3979552 219.1.1.90 ↗ a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases › DUF1287 0.51 40.0 3.02e-01 100.0% 38.9%
4956630 4.11.1.2 ↗ beta barrels › SH3 › LexA/Signal peptidase › LexA/Signal peptidase › Peptidase_S26 0.51 41.0 3.12e-01 100.0% 41.3%
3625628 391.1.1.7 ↗ few secondary structure elements › Fibronectin type I module-like › Fibronectin type I module-like › Fibronectin type I module › Fn1_2 0.50 36.0 3.32e-01 77.8% 93.3%
D2 medium residues 68-137
PDB
Domain cluster: rep: MK448710.1__QBX16110.1__Javan233_0030__00030__D34-99
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF09643.16 best YopX 23.8 5.30e-05 94.3% 40.6%