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PPR_Contig_984988_prodigal-single.1__X__X__00095

Bact-Vir

PPR_Contig_984988_prodigal-single.1__X__X__00095

Identity

Kingdom:
phage

Quality

79.5 mean pLDDT

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 5-127
PDB
Domain cluster: rep: KJ803031.1__AID16847.1__vBDshPR2C_32__00032__D58-159
CATH (4)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
6xgqb01 2.40.300.10 Mainly Beta › Beta Barrel › Virus Head Decoration Protein; Chain: A, › Head decoration protein D 0.70 51.0 5.85e-01 89.4% 100.0%
3gqhA01 2.40.300.10 Mainly Beta › Beta Barrel › Virus Head Decoration Protein; Chain: A, › Head decoration protein D 0.65 59.0 6.00e-01 100.0% 98.4%
1ep3B01 2.40.30.10 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Translation factors 0.53 29.0 3.14e-01 88.6% 62.6%
3girA04 2.40.30.110 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Aminomethyltransferase beta-barrel domains 0.51 28.0 3.37e-01 71.5% 82.1%
ECOD (9)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
2559744 70.4.1.2 ↗ beta barrels › beta-clip › Head decoration protein D (gpD, major capsid protein D) › Head decoration protein D (gpD, major capsid protein D) › Phage_head_fibr 0.81 39.0 5.70e-01 74.8% 100.0%
2526359 70.4.1.2 ↗ beta barrels › beta-clip › Head decoration protein D (gpD, major capsid protein D) › Head decoration protein D (gpD, major capsid protein D) › Phage_head_fibr 0.79 39.0 5.36e-01 100.0% 96.7%
3513462 70.4.1.8 ↗ beta barrels › beta-clip › Head decoration protein D (gpD, major capsid protein D) › Head decoration protein D (gpD, major capsid protein D) › Phage_cement 0.74 37.0 5.09e-01 100.0% 98.3%
5083719 70.4.1.0 ↗ beta barrels › beta-clip › Head decoration protein D (gpD, major capsid protein D) › Head decoration protein D (gpD, major capsid protein D) 0.72 67.0 6.66e-01 99.2% 98.4%
2640772 70.4.1.1 ↗ beta barrels › beta-clip › Head decoration protein D (gpD, major capsid protein D) › Head decoration protein D (gpD, major capsid protein D) › HDPD 0.69 52.0 5.76e-01 91.9% 96.0%
4937267 70.4.1.0 ↗ beta barrels › beta-clip › Head decoration protein D (gpD, major capsid protein D) › Head decoration protein D (gpD, major capsid protein D) 0.68 62.0 6.29e-01 99.2% 99.2%
364260 70.4.1.3 ↗ beta barrels › beta-clip › Head decoration protein D (gpD, major capsid protein D) › Head decoration protein D (gpD, major capsid protein D) › Peptidase_G2 0.64 59.0 5.36e-01 100.0% 98.8%
3516152 70.1.1.1 ↗ beta barrels › beta-clip › MoeA C-terminal domain-like › MoeA C-terminal domain-like › MoeA_C 0.58 37.0 4.43e-01 87.0% 95.3%
1176867 70.1.1.1 ↗ beta barrels › beta-clip › MoeA C-terminal domain-like › MoeA C-terminal domain-like › MoeA_C 0.55 36.0 4.02e-01 86.2% 87.9%
D2 high residues 273-363
PDB
Domain cluster: rep: OV032902.1__CAH0447963.1__SM033_00139__00139__D168-264
CATH (12)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1qexA02 2.60.120.640 Mainly Beta › Sandwich › Jelly Rolls › gp9 0.82 77.0 7.33e-01 100.0% 93.2%
4dnyA00 2.60.120.1230 Mainly Beta › Sandwich › Jelly Rolls › 0.68 62.0 5.80e-01 100.0% 85.3%
1hf2A02 2.160.20.70 Mainly Beta › 3 Solenoid › Pectate Lyase C-like › 0.65 51.0 4.87e-01 100.0% 73.6%
3zx1A01 2.60.40.420 Mainly Beta › Sandwich › Immunoglobulin-like › Cupredoxins - blue copper proteins 0.61 49.0 4.11e-01 87.9% 65.0%
4f7kA01 2.60.40.420 Mainly Beta › Sandwich › Immunoglobulin-like › Cupredoxins - blue copper proteins 0.59 46.0 4.16e-01 83.5% 75.2%
4v02C00 2.160.20.70 Mainly Beta › 3 Solenoid › Pectate Lyase C-like › 0.58 47.0 4.36e-01 100.0% 68.0%
4f7kA03 2.60.40.420 Mainly Beta › Sandwich › Immunoglobulin-like › Cupredoxins - blue copper proteins 0.57 44.0 4.12e-01 83.5% 67.5%
4kruA00 3.20.20.80 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Glycosidases 0.54 40.0 3.08e-01 79.1% 48.1%
2zfuA02 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.54 47.0 3.93e-01 97.8% 78.3%
5jgjA01 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.54 44.0 3.35e-01 92.3% 87.7%
3p8kA00 3.60.110.10 Alpha Beta › 4-Layer Sandwich › Nitrilase/N-carbamoyl-D-aminoacid amidohydrolase › Carbon-nitrogen hydrolase 0.52 45.0 3.25e-01 96.7% 44.0%
7f4oA01 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.52 38.0 3.04e-01 79.1% 60.7%
ECOD (8)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
184462 520.1.1.1 ↗ beta sandwiches › gp9 N-terminal domain-like › gp9 N-terminal domain-related › gp9 N-terminal domain-related › T4_gp9_10 0.82 77.0 6.10e-01 100.0% 57.1%
1070458 520.1.1.1 ↗ beta sandwiches › gp9 N-terminal domain-like › gp9 N-terminal domain-related › gp9 N-terminal domain-related › T4_gp9_10 0.81 76.0 6.18e-01 100.0% 63.1%
5030451 274.1.1.0 ↗ a+b two layers › Pili subunits › Pili subunits › Pili subunits 0.66 49.0 4.66e-01 78.0% 92.4%
4940715 274.1.1.0 ↗ a+b two layers › Pili subunits › Pili subunits › Pili subunits 0.65 48.0 4.53e-01 78.0% 89.1%
3484290 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.57 46.0 3.97e-01 92.3% 88.4%
None — 0.56 48.0 3.28e-01 95.6% 59.3%
4651440 207.5.1.1 ↗ beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Cell-division inhibitor MinC-C › Cell-division inhibitor MinC-C › MinC_C 0.54 46.0 4.40e-01 100.0% 92.7%
3963299 207.5.1.1 ↗ beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Cell-division inhibitor MinC-C › Cell-division inhibitor MinC-C › MinC_C 0.52 47.0 4.42e-01 100.0% 83.6%
D3 medium residues 195-251
PDB