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P1

Euk-Vir

Amphibola_crenata_associated_bacilladnavirus_1

P1__YP_009345106__Amphibola_crenata_associated_bacilladnavirus_1__1941435

Identity

Accession:
YP_009345106 ↗
Protein ID:
P1
Kingdom:
euk

Quality

65.0 mean pLDDT

Taxonomy

Shotokuvirae› Cressdnaviricota› Arfiviricetes› Baphyvirales› Bacilladnaviridae› Protobacilladnavirus› Amphibola_crenata_associated_bacilladnavirus_1

TaxID: 1941435

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 71-327
PDB
Domain cluster: rep: hypothetical_protein__YP_004286321__Chaetoceros_protobacilladnavirus_3__2170142__D76-346
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF25628.2 best Shotoku_capsid 288.4 1.10e-85 100.0% 80.2%
CATH (56)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2izwC00 2.60.120.20 Mainly Beta › Sandwich › Jelly Rolls › 0.75 49.0 5.39e-01 100.0% 79.8%
1opoC01 2.60.120.20 Mainly Beta › Sandwich › Jelly Rolls › 0.74 47.0 5.76e-01 100.0% 97.0%
1auyB00 2.60.120.20 Mainly Beta › Sandwich › Jelly Rolls › 0.74 45.0 5.15e-01 100.0% 80.4%
1e57B00 2.60.120.20 Mainly Beta › Sandwich › Jelly Rolls › 0.74 44.0 5.22e-01 100.0% 83.1%
3jb8A00 2.60.120.20 Mainly Beta › Sandwich › Jelly Rolls › 0.73 49.0 5.73e-01 100.0% 94.1%
4nwvA01 2.60.120.20 Mainly Beta › Sandwich › Jelly Rolls › 0.72 46.0 5.41e-01 100.0% 88.6%
2tbvA00 2.60.120.20 Mainly Beta › Sandwich › Jelly Rolls › 0.72 46.0 4.46e-01 100.0% 57.0%
1wcdJ01 2.60.120.20 Mainly Beta › Sandwich › Jelly Rolls › 0.71 54.0 5.24e-01 100.0% 70.8%
7eehA01 2.60.120.620 Mainly Beta › Sandwich › Jelly Rolls › q2cbj1_9rhob like domain 0.70 34.0 3.53e-01 100.0% 47.4%
2vecA02 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.70 27.0 3.97e-01 98.4% 75.0%
2ztnA01 2.60.120.20 Mainly Beta › Sandwich › Jelly Rolls › 0.69 48.0 5.53e-01 100.0% 94.7%
2g19A00 2.60.120.620 Mainly Beta › Sandwich › Jelly Rolls › q2cbj1_9rhob like domain 0.69 31.0 3.45e-01 100.0% 50.9%
1pm4A00 2.60.120.510 Mainly Beta › Sandwich › Jelly Rolls › Mitogen Ypm 0.68 30.0 4.35e-01 97.7% 88.9%
1novA00 2.60.120.20 Mainly Beta › Sandwich › Jelly Rolls › 0.68 59.0 5.51e-01 100.0% 74.8%
1f2nC00 2.60.120.20 Mainly Beta › Sandwich › Jelly Rolls › 0.67 46.0 5.07e-01 100.0% 83.5%
1smvC00 2.60.120.20 Mainly Beta › Sandwich › Jelly Rolls › 0.67 48.0 5.21e-01 100.0% 84.2%
5j09A00 2.60.120.950 Mainly Beta › Sandwich › Jelly Rolls › Circovirus capsid protein 0.67 44.0 5.36e-01 99.6% 98.8%
2y26A02 2.60.120.20 Mainly Beta › Sandwich › Jelly Rolls › 0.67 41.0 5.03e-01 98.8% 94.4%
1a6cA02 2.60.120.20 Mainly Beta › Sandwich › Jelly Rolls › 0.67 41.0 5.06e-01 99.2% 94.5%
5aca300 2.60.120.20 Mainly Beta › Sandwich › Jelly Rolls › 0.67 45.0 4.85e-01 100.0% 78.4%
1ng0C00 2.60.120.20 Mainly Beta › Sandwich › Jelly Rolls › 0.67 47.0 5.08e-01 100.0% 83.9%
5yl1A01 2.60.120.20 Mainly Beta › Sandwich › Jelly Rolls › 0.67 46.0 5.47e-01 100.0% 100.0%
2ws9300 2.60.120.20 Mainly Beta › Sandwich › Jelly Rolls › 0.66 45.0 4.85e-01 100.0% 78.8%
6jhsA00 2.60.120.20 Mainly Beta › Sandwich › Jelly Rolls › 0.66 46.0 4.60e-01 100.0% 68.5%
3winE03 2.60.120.1090 Mainly Beta › Sandwich › Jelly Rolls › 0.66 30.0 4.44e-01 96.9% 98.2%
1f15B00 2.60.120.530 Mainly Beta › Sandwich › Jelly Rolls › Cucumovirus coat protein, subunit A 0.66 38.0 4.41e-01 100.0% 76.3%
5ewnA01 2.60.120.20 Mainly Beta › Sandwich › Jelly Rolls › 0.65 45.0 5.24e-01 100.0% 96.7%
3jciA00 2.60.120.950 Mainly Beta › Sandwich › Jelly Rolls › Circovirus capsid protein 0.65 45.0 5.24e-01 100.0% 95.3%
1f8vC00 2.60.120.20 Mainly Beta › Sandwich › Jelly Rolls › 0.65 57.0 5.35e-01 100.0% 75.9%
4xabA00 2.60.120.620 Mainly Beta › Sandwich › Jelly Rolls › q2cbj1_9rhob like domain 0.64 35.0 3.62e-01 100.0% 53.5%
1ohfA02 2.60.120.20 Mainly Beta › Sandwich › Jelly Rolls › 0.64 61.0 5.82e-01 100.0% 90.2%
8a28A02 2.60.120.200 Mainly Beta › Sandwich › Jelly Rolls › 0.64 24.0 3.26e-01 100.0% 62.0%
6eiwA01 2.60.120.20 Mainly Beta › Sandwich › Jelly Rolls › 0.63 46.0 5.29e-01 100.0% 100.0%
3kmhA00 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.63 29.0 3.21e-01 98.1% 51.8%
2waaA01 2.60.120.260 Mainly Beta › Sandwich › Jelly Rolls › Galactose-binding domain-like 0.63 30.0 4.30e-01 99.2% 95.1%
4indA03 2.60.120.1330 Mainly Beta › Sandwich › Jelly Rolls › 0.62 30.0 4.25e-01 99.6% 95.8%
3jb4C00 2.60.120.20 Mainly Beta › Sandwich › Jelly Rolls › 0.62 41.0 4.28e-01 100.0% 71.4%
3napA00 2.60.120.20 Mainly Beta › Sandwich › Jelly Rolls › 0.61 43.0 4.29e-01 100.0% 68.9%
3napC00 2.60.120.20 Mainly Beta › Sandwich › Jelly Rolls › 0.61 48.0 4.67e-01 100.0% 75.4%
1b35A00 2.60.120.20 Mainly Beta › Sandwich › Jelly Rolls › 0.60 46.0 4.67e-01 100.0% 78.5%
2ws9100 2.60.120.20 Mainly Beta › Sandwich › Jelly Rolls › 0.60 44.0 4.50e-01 100.0% 78.0%
2qfeA00 2.60.120.380 Mainly Beta › Sandwich › Jelly Rolls › 0.59 29.0 3.92e-01 97.7% 86.3%
6sk6A00 2.60.120.20 Mainly Beta › Sandwich › Jelly Rolls › 0.59 43.0 4.25e-01 100.0% 69.2%
5mqcC00 2.60.120.20 Mainly Beta › Sandwich › Jelly Rolls › 0.59 44.0 4.42e-01 100.0% 74.6%
1pgsA01 2.60.120.230 Mainly Beta › Sandwich › Jelly Rolls › 0.59 32.0 4.26e-01 99.2% 98.5%
5ep9D00 2.60.120.620 Mainly Beta › Sandwich › Jelly Rolls › q2cbj1_9rhob like domain 0.58 33.0 3.44e-01 99.6% 59.1%
6f2sH01 2.60.120.20 Mainly Beta › Sandwich › Jelly Rolls › 0.58 41.0 4.42e-01 99.6% 85.1%
1p8jA02 2.60.120.260 Mainly Beta › Sandwich › Jelly Rolls › Galactose-binding domain-like 0.57 30.0 4.07e-01 98.8% 97.0%
1df0A03 2.60.120.380 Mainly Beta › Sandwich › Jelly Rolls › 0.56 31.0 4.10e-01 99.2% 100.0%
8b38A01 2.60.120.20 Mainly Beta › Sandwich › Jelly Rolls › 0.54 43.0 4.58e-01 99.6% 95.1%
2okxA01 2.60.120.260 Mainly Beta › Sandwich › Jelly Rolls › Galactose-binding domain-like 0.53 29.0 3.48e-01 86.0% 78.6%
2bpa200 2.60.120.20 Mainly Beta › Sandwich › Jelly Rolls › 0.53 33.0 3.92e-01 98.1% 90.3%
3hr6A02 2.60.40.740 Mainly Beta › Sandwich › Immunoglobulin-like › 0.52 29.0 3.59e-01 96.5% 86.0%
4kq7A02 2.60.120.1390 Mainly Beta › Sandwich › Jelly Rolls › Protein of unknown function DUF2961 0.52 33.0 3.58e-01 100.0% 74.9%
1wkyA02 2.60.120.260 Mainly Beta › Sandwich › Jelly Rolls › Galactose-binding domain-like 0.52 30.0 3.87e-01 98.1% 100.0%
2dduA03 2.60.120.260 Mainly Beta › Sandwich › Jelly Rolls › Galactose-binding domain-like 0.50 30.0 3.78e-01 97.7% 97.4%
ECOD (61)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
328688 10.2.1.7 ↗ beta sandwiches › jelly-roll › Nucleoplasmin-like/VP (viral coat and capsid proteins) › Nucleoplasmin-like/VP (viral coat and capsid proteins) › Viral_coat 0.75 49.0 5.39e-01 100.0% 79.8%
2862065 10.2.1.15 ↗ beta sandwiches › jelly-roll › Nucleoplasmin-like/VP (viral coat and capsid proteins) › Nucleoplasmin-like/VP (viral coat and capsid proteins) › Tymo_coat 0.74 45.0 5.39e-01 100.0% 87.4%
1693522 10.2.1.49 ↗ beta sandwiches › jelly-roll › Nucleoplasmin-like/VP (viral coat and capsid proteins) › Nucleoplasmin-like/VP (viral coat and capsid proteins) › Capsid-VNN 0.72 46.0 5.40e-01 100.0% 88.1%
4930609 10.1.2.0 ↗ beta sandwiches › jelly-roll › Concanavalin A-like › GOLD domain-like (DEPRECATED) 0.71 35.0 4.67e-01 99.2% 85.7%
3314257 10.32.1.193 ↗ beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like › MP 0.71 40.0 4.77e-01 100.0% 80.0%
3194044 10.12.1.79 ↗ beta sandwiches › jelly-roll › Double-stranded beta-helix › Double-stranded beta-helix › DUF4246 0.71 33.0 2.87e-01 100.0% 29.9%
3928463 10.32.1.0 ↗ beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like 0.70 31.0 4.67e-01 97.3% 98.1%
146646 10.2.1.30 ↗ beta sandwiches › jelly-roll › Nucleoplasmin-like/VP (viral coat and capsid proteins) › Nucleoplasmin-like/VP (viral coat and capsid proteins) › SP2 0.70 48.0 5.52e-01 100.0% 92.2%
3236803 10.32.1.4 ↗ beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like › EMP24_GP25L 0.70 31.0 4.73e-01 98.1% 100.0%
4025604 10.32.1.4 ↗ beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like › EMP24_GP25L 0.69 29.0 4.32e-01 96.5% 88.2%
3796384 10.32.1.4 ↗ beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like › EMP24_GP25L 0.69 32.0 4.43e-01 99.6% 87.2%
4882965 10.2.1.1 ↗ beta sandwiches › jelly-roll › Nucleoplasmin-like/VP (viral coat and capsid proteins) › Nucleoplasmin-like/VP (viral coat and capsid proteins) › Rhv 0.69 36.0 4.68e-01 98.1% 87.1%
1114663 10.2.1.22 ↗ beta sandwiches › jelly-roll › Nucleoplasmin-like/VP (viral coat and capsid proteins) › Nucleoplasmin-like/VP (viral coat and capsid proteins) › Peptidase_A6 0.68 59.0 5.36e-01 100.0% 70.0%
5005781 10.1.2.0 ↗ beta sandwiches › jelly-roll › Concanavalin A-like › GOLD domain-like (DEPRECATED) 0.68 28.0 4.24e-01 98.4% 90.5%
4648192 10.32.1.0 ↗ beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like 0.68 28.0 4.07e-01 98.4% 82.6%
289259 10.2.1.7 ↗ beta sandwiches › jelly-roll › Nucleoplasmin-like/VP (viral coat and capsid proteins) › Nucleoplasmin-like/VP (viral coat and capsid proteins) › Viral_coat 0.68 49.0 5.20e-01 100.0% 83.1%
3701810 10.32.1.0 ↗ beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like 0.68 33.0 4.70e-01 98.1% 97.5%
5014927 10.1.2.183 ↗ beta sandwiches › jelly-roll › Concanavalin A-like › GOLD domain-like (DEPRECATED) › PPC 0.67 29.0 4.39e-01 97.7% 93.6%
4568752 10.32.1.19 ↗ beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like › PPC 0.67 29.0 4.39e-01 97.7% 93.6%
5020593 10.1.2.0 ↗ beta sandwiches › jelly-roll › Concanavalin A-like › GOLD domain-like (DEPRECATED) 0.67 31.0 3.87e-01 100.0% 68.5%
2117349 10.2.1.10 ↗ beta sandwiches › jelly-roll › Nucleoplasmin-like/VP (viral coat and capsid proteins) › Nucleoplasmin-like/VP (viral coat and capsid proteins) › Cucumo_coat 0.67 39.0 4.47e-01 100.0% 75.9%
4951620 10.1.2.0 ↗ beta sandwiches › jelly-roll › Concanavalin A-like › GOLD domain-like (DEPRECATED) 0.67 31.0 4.63e-01 99.2% 100.0%
4403193 10.32.1.244 ↗ beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like › PF29989 0.67 31.0 4.45e-01 98.1% 94.1%
3508967 10.32.1.0 ↗ beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like 0.66 29.0 4.39e-01 96.5% 95.5%
1234 10.2.1.7 ↗ beta sandwiches › jelly-roll › Nucleoplasmin-like/VP (viral coat and capsid proteins) › Nucleoplasmin-like/VP (viral coat and capsid proteins) › Viral_coat 0.66 47.0 5.35e-01 100.0% 95.3%
4958335 10.1.2.0 ↗ beta sandwiches › jelly-roll › Concanavalin A-like › GOLD domain-like (DEPRECATED) 0.66 31.0 3.82e-01 100.0% 68.5%
2099165 10.2.1.22 ↗ beta sandwiches › jelly-roll › Nucleoplasmin-like/VP (viral coat and capsid proteins) › Nucleoplasmin-like/VP (viral coat and capsid proteins) › Peptidase_A6 0.65 57.0 5.07e-01 100.0% 66.5%
3888961 10.4.1.1 ↗ beta sandwiches › jelly-roll › Spermadhesin, CUB domain › Spermadhesin, CUB domain › CUB 0.64 30.0 4.27e-01 97.7% 93.9%
5017097 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.64 30.0 3.73e-01 100.0% 67.9%
5039646 10.1.2.0 ↗ beta sandwiches › jelly-roll › Concanavalin A-like › GOLD domain-like (DEPRECATED) 0.64 30.0 4.30e-01 98.1% 93.3%
5083101 10.1.2.0 ↗ beta sandwiches › jelly-roll › Concanavalin A-like › GOLD domain-like (DEPRECATED) 0.64 32.0 4.51e-01 99.2% 100.0%
1158440 10.2.1.59 ↗ beta sandwiches › jelly-roll › Nucleoplasmin-like/VP (viral coat and capsid proteins) › Nucleoplasmin-like/VP (viral coat and capsid proteins) › STIV_turret_3rd 0.64 30.0 4.24e-01 99.2% 92.6%
5039047 10.1.2.0 ↗ beta sandwiches › jelly-roll › Concanavalin A-like › GOLD domain-like (DEPRECATED) 0.63 30.0 4.43e-01 98.4% 100.0%
3719737 10.32.1.0 ↗ beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like 0.63 31.0 4.22e-01 98.8% 90.0%
5038393 10.1.2.0 ↗ beta sandwiches › jelly-roll › Concanavalin A-like › GOLD domain-like (DEPRECATED) 0.63 32.0 4.35e-01 99.6% 91.9%
3979069 10.32.1.0 ↗ beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like 0.63 31.0 4.42e-01 99.6% 99.2%
1878989 10.2.1.29 ↗ beta sandwiches › jelly-roll › Nucleoplasmin-like/VP (viral coat and capsid proteins) › Nucleoplasmin-like/VP (viral coat and capsid proteins) › Circo_capsid 0.63 47.0 5.19e-01 100.0% 94.2%
5040908 10.2.1.0 ↗ beta sandwiches › jelly-roll › Nucleoplasmin-like/VP (viral coat and capsid proteins) › Nucleoplasmin-like/VP (viral coat and capsid proteins) 0.63 31.0 4.22e-01 98.8% 90.8%
4980801 10.1.2.0 ↗ beta sandwiches › jelly-roll › Concanavalin A-like › GOLD domain-like (DEPRECATED) 0.62 28.0 4.20e-01 98.8% 100.0%
3022795 10.2.1.0 ↗ beta sandwiches › jelly-roll › Nucleoplasmin-like/VP (viral coat and capsid proteins) › Nucleoplasmin-like/VP (viral coat and capsid proteins) 0.62 59.0 4.77e-01 100.0% 68.9%
5039150 10.1.2.0 ↗ beta sandwiches › jelly-roll › Concanavalin A-like › GOLD domain-like (DEPRECATED) 0.62 30.0 4.27e-01 99.2% 99.1%
3390429 10.32.1.0 ↗ beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like 0.62 34.0 4.42e-01 97.3% 93.8%
2526957 10.2.1.1 ↗ beta sandwiches › jelly-roll › Nucleoplasmin-like/VP (viral coat and capsid proteins) › Nucleoplasmin-like/VP (viral coat and capsid proteins) › Rhv 0.61 44.0 4.29e-01 100.0% 65.6%
3547487 10.32.1.185 ↗ beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like › Androglobin_IV 0.61 27.0 3.88e-01 97.7% 87.5%
4620910 10.32.1.183 ↗ beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like › TMEM87A-B_GOLD 0.61 36.0 4.55e-01 97.7% 96.1%
4662876 10.32.1.25 ↗ beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like › FlhE 0.60 30.0 4.14e-01 98.8% 96.7%
5040271 10.1.2.0 ↗ beta sandwiches › jelly-roll › Concanavalin A-like › GOLD domain-like (DEPRECATED) 0.58 32.0 4.23e-01 99.6% 97.1%
3486965 10.32.1.0 ↗ beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like 0.58 31.0 3.96e-01 97.7% 88.0%
2579092 10.2.1.44 ↗ beta sandwiches › jelly-roll › Nucleoplasmin-like/VP (viral coat and capsid proteins) › Nucleoplasmin-like/VP (viral coat and capsid proteins) › CRPV_capsid 0.57 46.0 4.59e-01 100.0% 79.8%
3849644 10.32.1.6 ↗ beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like › P_proprotein 0.57 31.0 4.16e-01 100.0% 98.5%
4944599 10.1.2.0 ↗ beta sandwiches › jelly-roll › Concanavalin A-like › GOLD domain-like (DEPRECATED) 0.57 30.0 3.91e-01 98.8% 91.1%
3914563 10.2.1.0 ↗ beta sandwiches › jelly-roll › Nucleoplasmin-like/VP (viral coat and capsid proteins) › Nucleoplasmin-like/VP (viral coat and capsid proteins) 0.56 31.0 3.74e-01 100.0% 79.3%
3258412 10.32.1.0 ↗ beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like 0.56 30.0 3.92e-01 98.8% 94.1%
3891946 10.32.1.6 ↗ beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like › P_proprotein 0.56 31.0 3.62e-01 100.0% 75.0%
5035617 11.1.5.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Common fold of diphtheria toxin/transcription factors/cytochrome f 0.55 36.0 4.38e-01 100.0% 98.2%
4028561 10.32.1.0 ↗ beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like 0.55 34.0 4.13e-01 98.1% 94.5%
3477632 10.32.1.0 ↗ beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like 0.54 31.0 3.82e-01 98.4% 88.7%
2810269 10.2.1.48 ↗ beta sandwiches › jelly-roll › Nucleoplasmin-like/VP (viral coat and capsid proteins) › Nucleoplasmin-like/VP (viral coat and capsid proteins) › DUF2961 0.53 34.0 3.76e-01 100.0% 78.4%
5036961 10.1.2.0 ↗ beta sandwiches › jelly-roll › Concanavalin A-like › GOLD domain-like (DEPRECATED) 0.52 34.0 3.94e-01 98.8% 91.1%
5034825 10.1.2.0 ↗ beta sandwiches › jelly-roll › Concanavalin A-like › GOLD domain-like (DEPRECATED) 0.51 29.0 3.75e-01 98.8% 100.0%
3296203 304.9.1.0 ↗ a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD 0.50 13.0 2.43e-01 91.4% 75.4%