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NC_048123.1__YP_009817554.1__HOU78_gp09__00009

Bact-Vir

NC_048123.1__YP_009817554.1__HOU78_gp09__00009

Identity

Accession:
NC_048123 ↗
Kingdom:
phage

Quality

58.4 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Autographivirales› Cyclitvirus› Vibrio_phage_1.204.O._10N.222.46.F12

TaxID: 1881263

Cluster

Singleton — not in a non-trivial cluster

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 5-108
PDB
Domain cluster: rep: NC_027397.1__YP_009153046.1__ACQ41_gp20__00020__D9-117
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF03906.21 best Phage_T7_tail 63.2 3.40e-17 100.0% 80.0%
D2 medium residues 152-228
PDB
D3 medium residues 229-283
PDB
D4 medium residues 284-343
PDB
D5 medium residues 484-541
PDB
D6 medium residues 542-622
PDB
D7 medium residues 623-705
PDB
D8 medium residues 706-792
PDB
Domain cluster: representative
CATH (14)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2ey4D00 2.40.10.230 Mainly Beta › Beta Barrel › Thrombin, subunit H › Probable tRNA pseudouridine synthase domain 0.77 41.0 4.46e-01 90.8% 61.3%
3u28C00 2.40.10.230 Mainly Beta › Beta Barrel › Thrombin, subunit H › Probable tRNA pseudouridine synthase domain 0.72 40.0 3.99e-01 90.8% 52.2%
6f2mA02 2.40.30.290 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › 0.67 39.0 3.91e-01 88.5% 57.5%
2eqnA01 2.40.10.230 Mainly Beta › Beta Barrel › Thrombin, subunit H › Probable tRNA pseudouridine synthase domain 0.67 38.0 3.87e-01 90.8% 56.3%
2rdeA02 2.40.10.220 Mainly Beta › Beta Barrel › Thrombin, subunit H › predicted glycosyltransferase like domains 0.63 42.0 3.85e-01 90.8% 53.2%
3kewA01 2.40.30.130 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › 0.62 34.0 3.54e-01 89.7% 57.1%
3cp7B02 2.40.10.10 Mainly Beta › Beta Barrel › Thrombin, subunit H › Trypsin-like serine proteases 0.61 38.0 3.64e-01 94.3% 52.4%
2sfaA01 2.40.10.10 Mainly Beta › Beta Barrel › Thrombin, subunit H › Trypsin-like serine proteases 0.60 34.0 3.39e-01 90.8% 51.6%
5hmaA02 2.40.10.10 Mainly Beta › Beta Barrel › Thrombin, subunit H › Trypsin-like serine proteases 0.59 35.0 3.37e-01 94.3% 50.0%
3wdhA01 2.60.40.2320 Mainly Beta › Sandwich › Immunoglobulin-like › 0.58 34.0 3.33e-01 90.8% 53.1%
4p02A03 2.40.10.220 Mainly Beta › Beta Barrel › Thrombin, subunit H › predicted glycosyltransferase like domains 0.57 40.0 3.54e-01 90.8% 51.6%
2mk5A00 2.30.30.40 Mainly Beta › Roll › SH3 type barrels. › SH3 Domains 0.56 37.0 3.22e-01 79.3% 43.5%
2cxiA01 3.30.56.10 Alpha Beta › 2-Layer Sandwich › Phenylalanyl-tRNA Synthetase; Chain B, domain 1 › 0.56 34.0 3.54e-01 90.8% 65.8%
1r77A00 2.30.30.40 Mainly Beta › Roll › SH3 type barrels. › SH3 Domains 0.54 36.0 3.45e-01 80.5% 57.6%
ECOD (39)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
5000784 1.1.7.20 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › Gar1 0.83 44.0 4.19e-01 90.8% 46.0%
3602200 1.1.7.0 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C 0.78 41.0 4.57e-01 90.8% 64.3%
4259810 1.1.7.20 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › Gar1 0.78 42.0 4.39e-01 90.8% 57.5%
5074238 1.1.7.0 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C 0.77 41.0 4.43e-01 90.8% 61.3%
5041953 1.1.7.0 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C 0.77 41.0 4.96e-01 88.5% 78.3%
5041607 1.1.7.0 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C 0.76 41.0 4.44e-01 90.8% 62.2%
5077063 1.1.7.20 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › Gar1 0.76 41.0 4.42e-01 90.8% 61.3%
5038467 1.1.7.0 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C 0.76 42.0 4.44e-01 92.0% 60.8%
4933363 1.1.7.20 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › Gar1 0.76 41.0 4.42e-01 90.8% 62.2%
4991129 1.1.7.0 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C 0.75 41.0 4.18e-01 90.8% 54.8%
5017568 1.1.7.20 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › Gar1 0.74 42.0 4.38e-01 90.8% 61.3%
5048051 1.1.7.20 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › Gar1 0.74 42.0 4.19e-01 92.0% 55.1%
3347366 1.1.16.1 ↗ beta barrels › cradle loop barrel › RIFT-related › Mammalian cell entry (MCE) domain › MlaD 0.74 40.0 3.63e-01 90.8% 40.9%
4969578 1.1.7.0 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C 0.73 40.0 4.31e-01 90.8% 62.2%
4945432 1.1.7.0 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C 0.73 40.0 4.11e-01 90.8% 55.3%
3959311 1.1.16.1 ↗ beta barrels › cradle loop barrel › RIFT-related › Mammalian cell entry (MCE) domain › MlaD 0.73 40.0 3.90e-01 90.8% 49.5%
4964309 1.1.7.20 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › Gar1 0.73 41.0 4.39e-01 90.8% 64.9%
3714390 1.1.7.20 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › Gar1 0.73 41.0 3.61e-01 90.8% 39.2%
4263415 1.1.7.20 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › Gar1 0.72 40.0 4.02e-01 90.8% 53.3%
3596757 1.1.7.0 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C 0.72 41.0 3.83e-01 90.8% 46.7%
3710481 1.1.7.20 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › Gar1 0.72 41.0 4.07e-01 90.8% 54.4%
3959024 1.1.16.0 ↗ beta barrels › cradle loop barrel › RIFT-related › Mammalian cell entry (MCE) domain 0.72 39.0 3.69e-01 90.8% 44.8%
3956627 1.1.16.1 ↗ beta barrels › cradle loop barrel › RIFT-related › Mammalian cell entry (MCE) domain › MlaD 0.72 39.0 3.32e-01 90.8% 33.6%
4926946 1.1.7.20 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › Gar1 0.72 41.0 4.19e-01 90.8% 58.8%
5035997 1.1.7.0 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C 0.72 39.0 4.29e-01 90.8% 65.7%
5059785 1.1.7.0 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C 0.71 40.0 4.24e-01 90.8% 61.3%
3388880 1.1.7.20 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › Gar1 0.69 40.0 3.70e-01 92.0% 45.5%
5041618 1.1.7.20 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › Gar1 0.69 40.0 3.96e-01 90.8% 54.3%
3387073 1.1.5.16 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › MreC 0.69 43.0 3.25e-01 90.8% 28.1%
5010595 1.1.7.0 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C 0.68 41.0 4.16e-01 90.8% 61.2%
5023947 1.1.17.0 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel 2 0.68 42.0 3.34e-01 93.1% 32.4%
4942485 1.1.7.20 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › Gar1 0.67 41.0 4.26e-01 90.8% 66.3%
5002426 1.1.7.20 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › Gar1 0.66 40.0 4.07e-01 92.0% 62.4%
3530890 2004.1.1.402 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › CABIT 0.61 45.0 4.50e-01 83.9% 77.3%
1309427 1.1.5.13 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › Peptidase_S6 0.59 40.0 2.86e-01 93.1% 24.6%
1293364 4.1.1.59 ↗ beta barrels › SH3 › SH3 › SH3 › SH3_5 0.56 37.0 3.22e-01 79.3% 43.5%
3988893 4.1.1.59 ↗ beta barrels › SH3 › SH3 › SH3 › SH3_5 0.53 34.0 3.66e-01 81.6% 76.0%
4032300 4.1.1.59 ↗ beta barrels › SH3 › SH3 › SH3 › SH3_5 0.53 35.0 3.50e-01 81.6% 65.6%
4640695 318.1.1.1 ↗ a+b two layers › Ribosomal protein L6 › Ribosomal protein L6 › Ribosomal protein L6 › Ribosomal_L6 0.52 31.0 2.92e-01 88.5% 47.6%
D9 medium residues 793-848
PDB
Domain cluster: representative
CATH (12)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1c5eA00 2.40.300.10 Mainly Beta › Beta Barrel › Virus Head Decoration Protein; Chain: A, › Head decoration protein D 0.75 65.0 5.48e-01 100.0% 57.9%
2fmcA00 3.20.120.10 Alpha Beta › Alpha-Beta Barrel › hfbii hydrophobin › Hydrophobin 0.62 45.0 4.03e-01 78.6% 85.4%
1wu2A04 2.40.340.10 Mainly Beta › Beta Barrel › Beta-clip › MoeA, C-terminal, domain IV 0.60 51.0 4.69e-01 100.0% 87.0%
3meuB02 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.58 39.0 3.60e-01 85.7% 52.7%
7ekdA01 2.60.120.330 Mainly Beta › Sandwich › Jelly Rolls › B-lactam Antibiotic, Isopenicillin N Synthase; Chain 0.57 41.0 2.62e-01 80.4% 79.6%
6tdyD01 2.40.10.170 Mainly Beta › Beta Barrel › Thrombin, subunit H › 0.56 41.0 3.76e-01 100.0% 60.0%
4fo9A02 3.30.40.10 Alpha Beta › 2-Layer Sandwich › Herpes Virus-1 › Zinc/RING finger domain, C3HC4 (zinc finger) 0.55 42.0 3.47e-01 89.3% 65.0%
5t89Y06 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.54 40.0 3.42e-01 80.4% 70.7%
1g8lA04 2.40.340.10 Mainly Beta › Beta Barrel › Beta-clip › MoeA, C-terminal, domain IV 0.54 43.0 4.09e-01 100.0% 94.6%
4p5nA00 2.30.30.1060 Mainly Beta › Roll › SH3 type barrels. › 0.52 44.0 4.03e-01 94.6% 71.6%
4iupA02 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.51 42.0 3.92e-01 92.9% 73.6%
7qttV01 2.40.100.10 Mainly Beta › Beta Barrel › Cyclophilin › Cyclophilin-like 0.50 40.0 3.09e-01 94.6% 99.3%
ECOD (39)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
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) 0.86 77.0 5.90e-01 98.2% 46.7%
5033307 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) 0.84 76.0 5.58e-01 100.0% 41.4%
5022524 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) 0.69 58.0 5.41e-01 100.0% 74.3%
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 0.68 58.0 5.74e-01 100.0% 91.7%
4461457 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.67 44.0 4.25e-01 92.9% 59.4%
5016125 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) 0.67 53.0 5.42e-01 100.0% 94.5%
3627842 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.67 45.0 3.87e-01 89.3% 44.4%
3945811 70.4.1.7 ↗ beta barrels › beta-clip › Head decoration protein D (gpD, major capsid protein D) › Head decoration protein D (gpD, major capsid protein D) › XM1_gp53_minor_capsid 0.66 57.0 5.65e-01 100.0% 93.3%
3296865 4.1.1.237 ↗ beta barrels › SH3 › SH3 › SH3 › KOW4_SPT5 0.65 45.0 3.71e-01 94.6% 39.0%
4963571 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) 0.65 53.0 5.13e-01 100.0% 81.5%
4403216 4.1.1.237 ↗ beta barrels › SH3 › SH3 › SH3 › KOW4_SPT5 0.65 44.0 4.10e-01 94.6% 55.7%
4321173 4.1.1.98 ↗ beta barrels › SH3 › SH3 › SH3 › ProQ_C 0.64 42.0 4.23e-01 94.6% 65.5%
5018860 219.1.1.28 ↗ a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases › CHAP 0.64 44.0 3.23e-01 91.1% 27.3%
3993250 4.1.1.333 ↗ beta barrels › SH3 › SH3 › SH3 › PF29330 0.62 38.0 3.89e-01 83.9% 63.6%
3883159 4.1.1.9 ↗ beta barrels › SH3 › SH3 › SH3 › TUDOR 0.61 41.0 3.51e-01 94.6% 43.3%
3349135 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.61 41.0 3.57e-01 91.1% 44.4%
5012061 70.1.1.0 ↗ beta barrels › beta-clip › MoeA C-terminal domain-like › MoeA C-terminal domain-like 0.61 52.0 4.91e-01 100.0% 94.2%
3451171 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.60 41.0 3.95e-01 91.1% 61.5%
3514970 4.1.1.9 ↗ beta barrels › SH3 › SH3 › SH3 › TUDOR 0.59 42.0 3.61e-01 94.6% 46.7%
3622139 4.1.1.9 ↗ beta barrels › SH3 › SH3 › SH3 › TUDOR 0.59 41.0 3.55e-01 91.1% 45.6%
3645373 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.59 41.0 3.08e-01 91.1% 30.4%
4991571 70.1.1.1 ↗ beta barrels › beta-clip › MoeA C-terminal domain-like › MoeA C-terminal domain-like › MoeA_C 0.59 49.0 4.47e-01 100.0% 87.5%
3524983 376.1.1.72 ↗ few secondary structure elements › RING/U-box-like › RING/U-box-like › RING/U-box › EHMT1-2_CRR 0.57 39.0 3.33e-01 75.0% 58.1%
3178433 4329.1.1.1 ↗ a+b complex topology › ORC1-binding domain › ORC1-binding domain › ORC1-binding domain › Sir1 0.56 45.0 3.51e-01 89.3% 53.6%
5066224 4.11.1.1 ↗ beta barrels › SH3 › LexA/Signal peptidase › LexA/Signal peptidase › Peptidase_S24 0.56 41.0 3.67e-01 83.9% 98.9%
4937121 4.11.1.1 ↗ beta barrels › SH3 › LexA/Signal peptidase › LexA/Signal peptidase › Peptidase_S24 0.56 40.0 3.38e-01 83.9% 77.4%
5067286 4.11.1.0 ↗ beta barrels › SH3 › LexA/Signal peptidase › LexA/Signal peptidase 0.56 42.0 3.73e-01 87.5% 97.8%
3792195 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.55 40.0 3.30e-01 91.1% 43.0%
5006274 4.11.1.0 ↗ beta barrels › SH3 › LexA/Signal peptidase › LexA/Signal peptidase 0.55 42.0 3.28e-01 89.3% 65.7%
5015352 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.53 37.0 3.32e-01 91.1% 50.6%
4946420 376.1.1.180 ↗ few secondary structure elements › RING/U-box-like › RING/U-box-like › RING/U-box › ResIII 0.53 42.0 4.04e-01 91.1% 96.9%
3516152 70.1.1.1 ↗ beta barrels › beta-clip › MoeA C-terminal domain-like › MoeA C-terminal domain-like › MoeA_C 0.52 42.0 3.87e-01 100.0% 89.4%
3851361 4.1.1.78 ↗ beta barrels › SH3 › SH3 › SH3 › TTD 0.51 40.0 3.26e-01 85.7% 53.3%
5034040 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.51 32.0 3.26e-01 83.9% 63.6%
3672400 10.12.1.17 ↗ beta sandwiches › jelly-roll › Double-stranded beta-helix › Double-stranded beta-helix › 2OG-FeII_Oxy,DIOX_N 0.51 43.0 2.68e-01 100.0% 90.8%
4937389 4.11.1.0 ↗ beta barrels › SH3 › LexA/Signal peptidase › LexA/Signal peptidase 0.51 37.0 3.21e-01 89.3% 84.5%
4025090 304.102.1.1 ↗ a+b two layers › Alpha-beta plaits › Pseudouridine synthase › Pseudouridine synthase › PseudoU_synth_2 0.51 40.0 2.59e-01 91.1% 50.2%
4335428 10.12.1.17 ↗ beta sandwiches › jelly-roll › Double-stranded beta-helix › Double-stranded beta-helix › 2OG-FeII_Oxy,DIOX_N 0.50 42.0 2.63e-01 100.0% 84.9%
3715885 109.3.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › Ankyrin repeat › Ankyrin repeat 0.50 38.0 3.01e-01 89.3% 67.1%