←Back to structures

NC_024369.2__YP_009043904.1__SBVcX29_0033__00036

Bact-Vir

NC_024369.2__YP_009043904.1__SBVcX29_0033__00036

Identity

Accession:
NC_024369 ↗
Kingdom:
phage

Quality

77.0 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Vibrio_phage_X29

TaxID: 1500713

Cluster

View cluster (23 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 high residues 31-149
PDB
Domain cluster: rep: IMGVR_UViG_3300014911_000395-3300014911-Ga0180301_1000015452__D14-108
CATH (56)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3jqwC00 2.60.120.380 Mainly Beta › Sandwich › Jelly Rolls › 0.78 46.0 4.66e-01 100.0% 58.7%
3afgA03 2.60.120.380 Mainly Beta › Sandwich › Jelly Rolls › 0.73 45.0 4.79e-01 100.0% 70.6%
3es4A00 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.71 34.0 3.47e-01 95.8% 45.7%
1tg7A05 2.60.120.260 Mainly Beta › Sandwich › Jelly Rolls › Galactose-binding domain-like 0.70 46.0 4.01e-01 100.0% 44.9%
2i45D00 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.70 34.0 3.72e-01 95.8% 54.5%
3winE03 2.60.120.1090 Mainly Beta › Sandwich › Jelly Rolls › 0.69 45.0 4.70e-01 100.0% 71.8%
1yi9A02 2.60.120.230 Mainly Beta › Sandwich › Jelly Rolls › 0.67 45.0 4.35e-01 100.0% 59.9%
3k94A00 3.40.50.10240 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Thiamin pyrophosphokinase, catalytic domain 0.67 37.0 3.00e-01 95.8% 29.4%
1opoA02 2.60.40.1780 Mainly Beta › Sandwich › Immunoglobulin-like › Carmovirus coat protein 0.66 38.0 4.07e-01 100.0% 65.0%
1j0hA04 2.60.40.1180 Mainly Beta › Sandwich › Immunoglobulin-like › Golgi alpha-mannosidase II 0.65 35.0 4.12e-01 100.0% 74.7%
4e2oA02 2.60.40.1180 Mainly Beta › Sandwich › Immunoglobulin-like › Golgi alpha-mannosidase II 0.64 36.0 4.05e-01 100.0% 72.7%
2wanA05 2.60.40.1180 Mainly Beta › Sandwich › Immunoglobulin-like › Golgi alpha-mannosidase II 0.63 35.0 3.98e-01 99.2% 72.7%
4h32A02 3.90.209.20 Alpha Beta › Alpha-Beta Complex › Hemagglutinin (Ha1 Chain); Chain: A; domain 1 › Haemagglutinin, alpha/beta domain, HA1 chain 0.62 46.0 3.69e-01 100.0% 40.9%
1i5pA01 2.60.120.260 Mainly Beta › Sandwich › Jelly Rolls › Galactose-binding domain-like 0.62 43.0 3.94e-01 100.0% 53.8%
5z0uA03 2.60.40.1180 Mainly Beta › Sandwich › Immunoglobulin-like › Golgi alpha-mannosidase II 0.62 35.0 3.97e-01 100.0% 72.2%
1o7dC02 2.60.40.1180 Mainly Beta › Sandwich › Immunoglobulin-like › Golgi alpha-mannosidase II 0.62 38.0 4.23e-01 100.0% 80.9%
3isrA02 2.60.40.2250 Mainly Beta › Sandwich › Immunoglobulin-like › 0.60 37.0 3.99e-01 99.2% 72.0%
3kl0D01 2.60.40.1180 Mainly Beta › Sandwich › Immunoglobulin-like › Golgi alpha-mannosidase II 0.60 36.0 3.78e-01 100.0% 65.1%
1ig3A01 2.60.120.320 Mainly Beta › Sandwich › Jelly Rolls › Thiamin pyrophosphokinase, thiamin-binding domain 0.60 34.0 3.75e-01 95.8% 68.0%
2fd8A01 2.60.120.590 Mainly Beta › Sandwich › Jelly Rolls › Alpha-ketoglutarate-dependent dioxygenase AlkB-like 0.60 36.0 3.05e-01 100.0% 34.7%
1w99A02 2.60.120.260 Mainly Beta › Sandwich › Jelly Rolls › Galactose-binding domain-like 0.60 49.0 4.17e-01 100.0% 54.5%
2qfeA00 2.60.120.380 Mainly Beta › Sandwich › Jelly Rolls › 0.60 44.0 4.21e-01 100.0% 66.2%
4aw7A01 2.60.40.1180 Mainly Beta › Sandwich › Immunoglobulin-like › Golgi alpha-mannosidase II 0.59 37.0 3.77e-01 100.0% 62.7%
1qwrA02 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.58 35.0 4.02e-01 100.0% 80.9%
3esmA00 2.60.40.2230 Mainly Beta › Sandwich › Immunoglobulin-like › Uncharacterised protein YcnI-like PF07987, DUF1775 0.58 38.0 3.68e-01 100.0% 58.0%
3ideA02 2.60.120.660 Mainly Beta › Sandwich › Jelly Rolls › icosahedral virus 0.57 45.0 4.28e-01 100.0% 69.9%
5fq0A00 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.57 37.0 3.81e-01 100.0% 70.0%
6mfaA01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.56 31.0 3.62e-01 89.9% 77.2%
1yllA01 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.56 36.0 4.07e-01 99.2% 84.8%
4cucA05 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.56 36.0 3.66e-01 100.0% 65.5%
3tesA00 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.56 35.0 3.85e-01 99.2% 77.7%
5by5A00 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.56 37.0 3.80e-01 100.0% 69.6%
3iiiA03 2.60.120.260 Mainly Beta › Sandwich › Jelly Rolls › Galactose-binding domain-like 0.55 50.0 4.38e-01 100.0% 72.9%
2oyzA00 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.55 35.0 3.86e-01 100.0% 80.9%
5j7mA00 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.55 36.0 3.62e-01 100.0% 65.6%
1vj2A00 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.54 36.0 3.68e-01 100.0% 70.2%
1djxA03 2.60.40.150 Mainly Beta › Sandwich › Immunoglobulin-like › C2 domain 0.54 36.0 3.49e-01 89.1% 60.3%
3f65G01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.54 36.0 3.76e-01 100.0% 74.3%
3d82A00 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.53 33.0 3.57e-01 100.0% 72.5%
7pjjA02 2.60.120.260 Mainly Beta › Sandwich › Jelly Rolls › Galactose-binding domain-like 0.53 44.0 4.28e-01 100.0% 80.6%
2ztbA02 2.60.40.4280 Mainly Beta › Sandwich › Immunoglobulin-like › 0.53 35.0 3.75e-01 99.2% 79.8%
1lnsA04 2.60.120.260 Mainly Beta › Sandwich › Jelly Rolls › Galactose-binding domain-like 0.53 48.0 4.15e-01 100.0% 66.1%
1s58A00 2.170.30.10 Mainly Beta › Beta Complex › Empty Capsid Viral Protein 2 › Parvovirus coat protein VP1/VP2 0.53 47.0 3.10e-01 100.0% 85.9%
3l4cA00 2.60.40.150 Mainly Beta › Sandwich › Immunoglobulin-like › C2 domain 0.53 38.0 3.32e-01 87.4% 50.0%
1p2zA04 2.70.9.10 Mainly Beta › Distorted Sandwich › Adenovirus Type 2 Hexon; domain 4 › Adenovirus Type 2 Hexon, domain 4 0.52 46.0 3.83e-01 96.6% 100.0%
3bb6C00 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.52 39.0 4.03e-01 98.3% 82.1%
3bvxA03 2.60.40.1180 Mainly Beta › Sandwich › Immunoglobulin-like › Golgi alpha-mannosidase II 0.52 38.0 3.60e-01 100.0% 62.6%
1o5uA00 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.52 27.0 3.03e-01 100.0% 61.4%
1qunI01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.52 36.0 3.69e-01 100.0% 73.9%
3r8qA01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.52 32.0 3.57e-01 99.2% 79.3%
5l77A01 2.60.40.1180 Mainly Beta › Sandwich › Immunoglobulin-like › Golgi alpha-mannosidase II 0.52 38.0 3.70e-01 100.0% 68.4%
1ju3A02 2.60.120.260 Mainly Beta › Sandwich › Jelly Rolls › Galactose-binding domain-like 0.52 46.0 3.82e-01 100.0% 62.4%
1hkfA00 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.51 37.0 3.90e-01 94.1% 83.3%
3d0jA00 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.51 36.0 3.49e-01 100.0% 63.8%
3r8qA02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.51 31.0 3.50e-01 98.3% 81.1%
2q2eB05 2.60.40.2960 Mainly Beta › Sandwich › Immunoglobulin-like › 0.51 35.0 3.87e-01 100.0% 92.3%
ECOD (49)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
5047474 10.1.2.0 ↗ beta sandwiches › jelly-roll › Concanavalin A-like › GOLD domain-like (DEPRECATED) 0.82 48.0 5.39e-01 100.0% 73.7%
3926732 10.32.1.213 ↗ beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like › PF25883 0.77 55.0 5.01e-01 100.0% 58.0%
3928463 10.32.1.0 ↗ beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like 0.76 47.0 5.05e-01 100.0% 71.4%
5021703 10.1.2.0 ↗ beta sandwiches › jelly-roll › Concanavalin A-like › GOLD domain-like (DEPRECATED) 0.75 46.0 5.09e-01 100.0% 76.8%
4970162 10.1.2.0 ↗ beta sandwiches › jelly-roll › Concanavalin A-like › GOLD domain-like (DEPRECATED) 0.74 51.0 4.57e-01 100.0% 50.9%
4960907 10.1.2.0 ↗ beta sandwiches › jelly-roll › Concanavalin A-like › GOLD domain-like (DEPRECATED) 0.71 45.0 4.87e-01 100.0% 75.0%
3928254 10.32.1.4 ↗ beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like › EMP24_GP25L 0.71 46.0 4.67e-01 100.0% 67.0%
4974487 10.1.2.0 ↗ beta sandwiches › jelly-roll › Concanavalin A-like › GOLD domain-like (DEPRECATED) 0.68 49.0 4.36e-01 100.0% 52.9%
3742620 11.1.5.7 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Common fold of diphtheria toxin/transcription factors/cytochrome f › Adap_comp_sub 0.64 41.0 4.15e-01 100.0% 65.2%
3569611 10.32.1.0 ↗ beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like 0.64 45.0 4.59e-01 100.0% 74.8%
5071537 11.1.1.531 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › DUF11 0.63 35.0 4.11e-01 95.0% 78.3%
3580968 10.40.1.1 ↗ beta sandwiches › jelly-roll › PHR domain › PHR domain › PHR 0.62 47.0 4.19e-01 100.0% 57.0%
3917437 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.62 32.0 3.18e-01 100.0% 46.4%
5083968 10.1.2.0 ↗ beta sandwiches › jelly-roll › Concanavalin A-like › GOLD domain-like (DEPRECATED) 0.62 46.0 4.59e-01 100.0% 74.4%
3725190 10.32.1.237 ↗ beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like › Mid1 0.62 46.0 4.46e-01 100.0% 70.8%
3830329 207.1.1.0 ↗ beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Leucine-rich repeats › Leucine-rich repeats 0.61 43.0 3.50e-01 95.8% 37.8%
3520066 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.61 34.0 3.62e-01 95.8% 61.0%
3250904 11.1.1.249 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › Big_9 0.60 31.0 3.35e-01 100.0% 55.2%
157233 10.32.1.18 ↗ beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like › Endotoxin_C 0.60 49.0 4.33e-01 100.0% 60.8%
3490679 11.2.1.1 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › C2 domain › C2 domain › C2 0.60 39.0 3.58e-01 88.2% 50.3%
3498166 10.32.1.0 ↗ beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like 0.59 42.0 4.56e-01 94.1% 87.0%
3265437 11.2.1.1 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › C2 domain › C2 domain › C2 0.59 39.0 3.73e-01 89.9% 57.9%
3908806 11.1.1.297 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › Integrin_A_Ig_2 0.58 41.0 4.01e-01 100.0% 65.9%
3319846 10.32.1.192 ↗ beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like › C-JID 0.58 40.0 3.80e-01 95.8% 59.3%
5007335 11.1.5.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Common fold of diphtheria toxin/transcription factors/cytochrome f 0.57 37.0 3.33e-01 100.0% 46.7%
3784091 11.2.1.1 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › C2 domain › C2 domain › C2 0.57 37.0 3.55e-01 89.1% 57.0%
4928370 10.12.1.39 ↗ beta sandwiches › jelly-roll › Double-stranded beta-helix › Double-stranded beta-helix › Cupin_2 0.57 38.0 3.77e-01 100.0% 65.3%
3191338 10.12.1.39 ↗ beta sandwiches › jelly-roll › Double-stranded beta-helix › Double-stranded beta-helix › Cupin_2 0.57 40.0 4.15e-01 100.0% 76.5%
3393714 10.4.1.0 ↗ beta sandwiches › jelly-roll › Spermadhesin, CUB domain › Spermadhesin, CUB domain 0.56 40.0 3.57e-01 100.0% 51.8%
3925072 10.32.1.0 ↗ beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like 0.56 35.0 3.82e-01 100.0% 76.8%
4023517 10.32.1.0 ↗ beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like 0.56 45.0 4.30e-01 100.0% 74.1%
3743201 11.2.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › C2 domain › C2 domain 0.55 34.0 3.22e-01 90.8% 50.7%
3878175 11.1.1.322 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › ITGAX-like_Ig_3 0.55 45.0 3.88e-01 100.0% 55.3%
5033996 10.1.2.0 ↗ beta sandwiches › jelly-roll › Concanavalin A-like › GOLD domain-like (DEPRECATED) 0.55 50.0 3.92e-01 100.0% 64.5%
3270150 12.1.1.0 ↗ beta sandwiches › Glycosyl hydrolase domain-like › Glycosyl hydrolase domain › Glycosyl hydrolase domain 0.54 38.0 4.08e-01 100.0% 85.0%
3712498 12.1.1.0 ↗ beta sandwiches › Glycosyl hydrolase domain-like › Glycosyl hydrolase domain › Glycosyl hydrolase domain 0.54 37.0 3.66e-01 100.0% 64.6%
5046359 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.53 36.0 3.80e-01 100.0% 75.5%
5014000 10.2.1.0 ↗ beta sandwiches › jelly-roll › Nucleoplasmin-like/VP (viral coat and capsid proteins) › Nucleoplasmin-like/VP (viral coat and capsid proteins) 0.53 44.0 4.24e-01 100.0% 77.8%
4477054 10.32.1.31 ↗ beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like › PepX_C 0.53 48.0 3.95e-01 100.0% 76.8%
3593324 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.53 34.0 3.62e-01 89.9% 75.0%
3598578 10.32.1.3 ↗ beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like › Calpain_III 0.53 49.0 4.31e-01 100.0% 75.3%
3601974 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.53 37.0 3.67e-01 100.0% 66.2%
3057120 10.32.1.31 ↗ beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like › PepX_C 0.53 48.0 4.03e-01 100.0% 65.2%
5033447 10.1.2.184 ↗ beta sandwiches › jelly-roll › Concanavalin A-like › GOLD domain-like (DEPRECATED) › PepX_C 0.52 48.0 3.94e-01 100.0% 63.8%
3573640 11.2.1.16 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › C2 domain › C2 domain › PKC_C2 0.52 34.0 3.39e-01 89.9% 63.2%
3438248 11.1.5.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Common fold of diphtheria toxin/transcription factors/cytochrome f 0.51 36.0 3.29e-01 100.0% 55.0%
4982421 10.12.1.27 ↗ beta sandwiches › jelly-roll › Double-stranded beta-helix › Double-stranded beta-helix › Cupin_3 0.51 32.0 3.71e-01 97.5% 93.7%
3307728 10.32.1.192 ↗ beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like › C-JID 0.51 42.0 3.82e-01 95.8% 66.9%
4003701 10.10.1.0 ↗ beta sandwiches › jelly-roll › Lipase/lipooxygenase domain (PLAT/LH2 domain) › Lipase/lipooxygenase domain (PLAT/LH2 domain) 0.50 30.0 3.28e-01 88.2% 70.0%