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NC_073468.1__YP_010755044.1__QEH42_gp013__00013

Bact-Vir

NC_073468.1__YP_010755044.1__QEH42_gp013__00013

Identity

Accession:
NC_073468 ↗
Kingdom:
phage

Quality

88.9 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Pumpernickelvirus› Microbacterium_phage_Pumpernickel

TaxID: 2885983

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 4-182
PDB
Domain cluster: rep: IMGVR_UViG_2529292698_000003-2529292698-2529621123__D4-162
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF18406.7 best DUF1281_C 41.0 2.00e-10 46.4% 64.8%
CATH (17)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2ijrA01 3.30.70.1270 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Api92-like domains 0.79 42.0 5.73e-01 83.8% 96.9%
1ygyA04 3.30.70.260 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › ACT domain 0.74 33.0 5.01e-01 71.5% 100.0%
2ywwA01 3.30.70.140 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Aspartate carbamoyltransferase regulatory subunit, N-terminal domain 0.69 34.0 4.72e-01 79.3% 94.5%
3s9dD01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.63 26.0 3.48e-01 79.9% 70.8%
6lpnA03 3.30.70.2190 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.61 37.0 4.53e-01 93.9% 93.9%
3ue2A01 3.30.70.330 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › RRM (RNA recognition motif) domain 0.61 32.0 4.28e-01 92.7% 100.0%
2rilA00 3.30.70.100 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.59 32.0 4.18e-01 97.2% 95.8%
4bbyB04 3.30.70.3450 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.57 32.0 4.12e-01 93.9% 95.2%
4g65B02 3.30.70.1450 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Regulator of K+ conductance, C-terminal domain 0.57 27.0 3.62e-01 81.0% 85.9%
4f8bA00 3.30.1130.10 Alpha Beta › 2-Layer Sandwich › GTP Cyclohydrolase I, domain 2 › GTP cyclohydrolase I, C-terminal domain/NADPH-dependent 7-cyano-7-deazaguanine reductase, N-terminal domain 0.56 32.0 3.55e-01 89.9% 69.1%
1oo0A00 3.30.1560.10 Alpha Beta › 2-Layer Sandwich › Mago nashi protein › Mago nashi 0.56 23.0 2.57e-01 95.0% 43.8%
2nyhA00 3.30.70.1240 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › DOPA-like domains 0.56 34.0 4.07e-01 94.4% 91.4%
5xyiU00 3.30.70.600 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Ribosomal protein S10 0.54 29.0 3.97e-01 92.2% 100.0%
6tmfM00 3.30.70.600 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Ribosomal protein S10 0.54 31.0 4.04e-01 70.4% 100.0%
1cqkA00 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.51 22.0 2.85e-01 78.2% 67.3%
5oj2A04 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.51 23.0 2.90e-01 78.8% 69.0%
2wngA02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.50 26.0 3.30e-01 85.5% 81.3%
ECOD (18)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3953844 304.24.1.34 ↗ a+b two layers › Alpha-beta plaits › EF-G C-terminal domain-like › EF-G C-terminal domain-like › DUF3145 0.66 40.0 4.38e-01 89.9% 72.4%
3740762 304.9.1.1 ↗ a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD › RRM_1 0.65 37.0 4.75e-01 99.4% 95.2%
3243593 304.3.1.0 ↗ a+b two layers › Alpha-beta plaits › HMA-related › HMA, heavy metal-associated domain 0.65 34.0 4.38e-01 79.9% 86.7%
3179514 304.8.1.2 ↗ a+b two layers › Alpha-beta plaits › ACT-like › ACT-like › ACT 0.63 32.0 4.41e-01 70.4% 97.8%
3505044 304.24.1.16 ↗ a+b two layers › Alpha-beta plaits › EF-G C-terminal domain-like › EF-G C-terminal domain-like › PrmA 0.62 32.0 4.31e-01 93.3% 93.7%
3601974 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.62 35.0 4.06e-01 78.8% 76.2%
3797657 304.55.2.0 ↗ a+b two layers › Alpha-beta plaits › Origin of replication-binding domains › Transposase IS200-like 0.62 38.0 4.77e-01 70.9% 100.0%
4084908 304.8.1.0 ↗ a+b two layers › Alpha-beta plaits › ACT-like › ACT-like 0.61 32.0 4.38e-01 92.2% 98.9%
3973644 304.4.1.0 ↗ a+b two layers › Alpha-beta plaits › Dimeric alpha+beta barrel › Dimeric alpha+beta barrel 0.59 38.0 4.52e-01 93.3% 95.8%
3288997 304.125.1.2 ↗ a+b two layers › Alpha-beta plaits › ferredoxin-like domain in Api92-like proteins › ferredoxin-like domain in Api92-like proteins › DUF6461 0.57 39.0 4.21e-01 93.9% 82.0%
3973733 310.3.1.2 ↗ a+b two layers › RRF/tRNA synthetase additional domain-like › General secretion pathway protein M (EpsM) periplasmic domain-related › General secretion pathway protein M (EpsM) periplasmic domain-related › T2SSM 0.56 29.0 3.73e-01 72.1% 84.8%
3328471 304.9.1.1 ↗ a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD › RRM_1 0.56 32.0 3.92e-01 84.9% 89.1%
3831462 304.9.1.0 ↗ a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD 0.56 32.0 3.00e-01 94.4% 43.0%
4500557 304.109.1.1 ↗ a+b two layers › Alpha-beta plaits › Ribosomal proteins S24e, L23 and L15e › Ribosomal proteins S24e, L23 and L15e › Ribosomal_L23 0.56 27.0 3.51e-01 87.7% 79.0%
3307658 304.9.1.80 ↗ a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD › PF27577 0.55 36.0 3.58e-01 95.0% 62.2%
3583072 304.34.1.0 ↗ a+b two layers › Alpha-beta plaits › Nucleoside diphosphate kinases › Nucleoside diphosphate kinases 0.54 31.0 3.82e-01 94.4% 88.7%
3739694 7033.1.1.1 ↗ a+b complex topology › Ribonuclease P protein subunit p40 › Ribonuclease P protein subunit p40 › Ribonuclease P protein subunit p40 › Ribonuc_P_40 0.52 42.0 3.41e-01 85.5% 91.6%
5014949 11.1.5.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Common fold of diphtheria toxin/transcription factors/cytochrome f 0.51 32.0 3.45e-01 80.4% 72.7%