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capsid_protein

Euk-Vir

Human_feces_smacovirus_2

capsid_protein__YP_009508864__Human_feces_smacovirus_2__1820158

Identity

Accession:
YP_009508864 ↗
Protein ID:
capsid_protein
Kingdom:
euk

Quality

63.2 mean pLDDT

Taxonomy

Shotokuvirae› Cressdnaviricota› Arfiviricetes› Cremevirales› Smacoviridae› Porprismacovirus› Human_feces_smacovirus_2

TaxID: 1820158

Cluster

View cluster (49 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 medium residues 1-60_74-171_212-337
PDB
Domain cluster: representative
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF23784.2 best Smaco_capsid 243.0 6.70e-72 100.0% 84.9%
CATH (50)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
5j09A00 2.60.120.950 Mainly Beta › Sandwich › Jelly Rolls › Circovirus capsid protein 0.79 47.0 6.12e-01 90.1% 98.8%
3jciA00 2.60.120.950 Mainly Beta › Sandwich › Jelly Rolls › Circovirus capsid protein 0.75 49.0 6.01e-01 94.7% 97.9%
1pm4A00 2.60.120.510 Mainly Beta › Sandwich › Jelly Rolls › Mitogen Ypm 0.70 28.0 4.33e-01 87.3% 88.0%
2opkB01 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.70 23.0 4.09e-01 88.0% 89.4%
3cewA01 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.70 23.0 3.68e-01 89.8% 74.5%
2ws9201 2.60.120.20 Mainly Beta › Sandwich › Jelly Rolls › 0.69 43.0 5.08e-01 91.2% 88.7%
4nwvA01 2.60.120.20 Mainly Beta › Sandwich › Jelly Rolls › 0.69 41.0 4.98e-01 93.0% 89.1%
1opoC01 2.60.120.20 Mainly Beta › Sandwich › Jelly Rolls › 0.69 40.0 5.17e-01 93.0% 98.2%
1auyB00 2.60.120.20 Mainly Beta › Sandwich › Jelly Rolls › 0.68 38.0 4.64e-01 93.0% 81.5%
4rft000 2.60.120.20 Mainly Beta › Sandwich › Jelly Rolls › 0.68 39.0 5.07e-01 93.0% 96.9%
1e57B00 2.60.120.20 Mainly Beta › Sandwich › Jelly Rolls › 0.68 38.0 4.70e-01 93.0% 84.2%
4llfD01 2.60.120.20 Mainly Beta › Sandwich › Jelly Rolls › 0.67 40.0 4.95e-01 93.0% 93.3%
1nlqE00 2.60.120.340 Mainly Beta › Sandwich › Jelly Rolls › Nucleoplasmin core domain 0.66 25.0 4.27e-01 86.6% 100.0%
2tbvA00 2.60.120.20 Mainly Beta › Sandwich › Jelly Rolls › 0.66 39.0 3.97e-01 91.2% 57.3%
4indA02 2.60.120.1310 Mainly Beta › Sandwich › Jelly Rolls › 0.66 27.0 4.37e-01 87.7% 98.2%
2izwC00 2.60.120.20 Mainly Beta › Sandwich › Jelly Rolls › 0.66 41.0 4.69e-01 93.0% 82.2%
6mrmC01 2.60.120.20 Mainly Beta › Sandwich › Jelly Rolls › 0.65 39.0 4.89e-01 92.6% 96.4%
4indA03 2.60.120.1330 Mainly Beta › Sandwich › Jelly Rolls › 0.65 29.0 4.30e-01 89.8% 95.8%
2ztnA01 2.60.120.20 Mainly Beta › Sandwich › Jelly Rolls › 0.64 41.0 5.00e-01 93.0% 95.8%
5yl1A01 2.60.120.20 Mainly Beta › Sandwich › Jelly Rolls › 0.64 41.0 5.07e-01 91.2% 100.0%
5ewnA01 2.60.120.20 Mainly Beta › Sandwich › Jelly Rolls › 0.64 41.0 4.97e-01 93.0% 97.8%
5jzgA00 2.60.120.20 Mainly Beta › Sandwich › Jelly Rolls › 0.63 38.0 4.28e-01 91.9% 73.9%
1cwpA00 2.60.120.220 Mainly Beta › Sandwich › Jelly Rolls › Satellite virus coat domain 0.62 33.0 4.38e-01 93.3% 94.0%
1f2nC00 2.60.120.20 Mainly Beta › Sandwich › Jelly Rolls › 0.62 40.0 4.62e-01 93.0% 85.8%
1cov100 2.60.120.20 Mainly Beta › Sandwich › Jelly Rolls › 0.62 41.0 4.22e-01 91.9% 68.8%
2id4A02 2.60.120.260 Mainly Beta › Sandwich › Jelly Rolls › Galactose-binding domain-like 0.62 31.0 4.34e-01 90.8% 97.1%
2waaA01 2.60.120.260 Mainly Beta › Sandwich › Jelly Rolls › Galactose-binding domain-like 0.61 27.0 4.10e-01 89.4% 95.1%
1p8jA02 2.60.120.260 Mainly Beta › Sandwich › Jelly Rolls › Galactose-binding domain-like 0.61 30.0 4.25e-01 89.4% 97.0%
2ws9100 2.60.120.20 Mainly Beta › Sandwich › Jelly Rolls › 0.61 42.0 4.49e-01 91.9% 78.9%
1ng0C00 2.60.120.20 Mainly Beta › Sandwich › Jelly Rolls › 0.61 40.0 4.52e-01 93.0% 84.9%
2y26A02 2.60.120.20 Mainly Beta › Sandwich › Jelly Rolls › 0.60 35.0 4.46e-01 92.6% 96.3%
6sk6A00 2.60.120.20 Mainly Beta › Sandwich › Jelly Rolls › 0.60 41.0 4.20e-01 91.9% 69.6%
6f2sH01 2.60.120.20 Mainly Beta › Sandwich › Jelly Rolls › 0.60 39.0 4.46e-01 90.1% 85.1%
4bcuA00 2.60.120.20 Mainly Beta › Sandwich › Jelly Rolls › 0.60 37.0 4.51e-01 89.8% 91.5%
1tme200 2.60.120.20 Mainly Beta › Sandwich › Jelly Rolls › 0.60 44.0 4.62e-01 93.0% 81.6%
2vvfA02 2.60.120.730 Mainly Beta › Sandwich › Jelly Rolls › 0.60 28.0 4.10e-01 90.1% 96.9%
2qfeA00 2.60.120.380 Mainly Beta › Sandwich › Jelly Rolls › 0.60 27.0 3.88e-01 89.1% 87.8%
1s58A00 2.170.30.10 Mainly Beta › Beta Complex › Empty Capsid Viral Protein 2 › Parvovirus coat protein VP1/VP2 0.59 53.0 4.23e-01 94.0% 88.0%
2zoeB02 2.60.120.1080 Mainly Beta › Sandwich › Jelly Rolls › 0.58 26.0 3.42e-01 87.3% 73.7%
7clyA01 2.60.40.150 Mainly Beta › Sandwich › Immunoglobulin-like › C2 domain 0.58 22.0 2.81e-01 84.5% 54.0%
1vphB00 2.60.120.460 Mainly Beta › Sandwich › Jelly Rolls › YjbQ-like 0.58 29.0 4.14e-01 89.1% 100.0%
3es1A02 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.58 23.0 3.37e-01 89.8% 80.2%
1c8dA00 2.170.30.10 Mainly Beta › Beta Complex › Empty Capsid Viral Protein 2 › Parvovirus coat protein VP1/VP2 0.58 52.0 4.15e-01 95.1% 95.3%
4qc8A00 2.170.30.10 Mainly Beta › Beta Complex › Empty Capsid Viral Protein 2 › Parvovirus coat protein VP1/VP2 0.57 51.0 4.23e-01 95.1% 95.8%
8a28A02 2.60.120.200 Mainly Beta › Sandwich › Jelly Rolls › 0.54 28.0 3.95e-01 87.3% 100.0%
1novA00 2.60.120.20 Mainly Beta › Sandwich › Jelly Rolls › 0.54 43.0 4.25e-01 91.9% 75.7%
1f8vC00 2.60.120.20 Mainly Beta › Sandwich › Jelly Rolls › 0.54 44.0 4.28e-01 91.9% 77.2%
3ww3A00 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.53 27.0 2.91e-01 89.8% 56.7%
4xuoA00 2.60.120.260 Mainly Beta › Sandwich › Jelly Rolls › Galactose-binding domain-like 0.51 29.0 3.80e-01 89.8% 99.4%
1f08B00 3.40.1310.10 Alpha Beta › 3-Layer(aba) Sandwich › Replication Protein E1; Chain: A, › 0.50 20.0 2.72e-01 82.4% 66.9%
ECOD (60)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
5064648 10.1.2.0 ↗ beta sandwiches › jelly-roll › Concanavalin A-like › GOLD domain-like (DEPRECATED) 0.76 29.0 4.99e-01 89.4% 100.0%
2710690 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 0.76 50.0 5.95e-01 94.7% 93.0%
4557440 10.32.1.4 ↗ beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like › EMP24_GP25L 0.75 29.0 4.83e-01 89.1% 97.1%
3236803 10.32.1.4 ↗ beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like › EMP24_GP25L 0.75 29.0 4.94e-01 89.1% 100.0%
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 0.73 51.0 6.01e-01 94.4% 97.1%
2539045 10.2.1.12 ↗ beta sandwiches › jelly-roll › Nucleoplasmin-like/VP (viral coat and capsid proteins) › Nucleoplasmin-like/VP (viral coat and capsid proteins) › Luteo_coat 0.73 38.0 5.20e-01 93.0% 96.6%
4969217 10.1.2.0 ↗ beta sandwiches › jelly-roll › Concanavalin A-like › GOLD domain-like (DEPRECATED) 0.73 29.0 4.76e-01 90.8% 99.0%
5060962 10.1.2.0 ↗ beta sandwiches › jelly-roll › Concanavalin A-like › GOLD domain-like (DEPRECATED) 0.72 28.0 4.68e-01 88.7% 98.1%
5047633 10.1.2.183 ↗ beta sandwiches › jelly-roll › Concanavalin A-like › GOLD domain-like (DEPRECATED) › PPC 0.72 29.0 4.78e-01 90.1% 100.0%
5014927 10.1.2.183 ↗ beta sandwiches › jelly-roll › Concanavalin A-like › GOLD domain-like (DEPRECATED) › PPC 0.72 28.0 4.57e-01 88.4% 93.6%
4568752 10.32.1.19 ↗ beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like › PPC 0.72 28.0 4.57e-01 88.4% 93.6%
3992318 10.32.1.177 ↗ beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like › UPF0669 0.72 29.0 4.22e-01 90.1% 78.5%
3862309 10.32.1.4 ↗ beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like › EMP24_GP25L 0.71 29.0 3.64e-01 90.1% 59.4%
3437261 10.32.1.194 ↗ beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like › APD1-4_N 0.71 31.0 4.80e-01 88.7% 100.0%
4002321 10.32.1.0 ↗ beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like 0.71 28.0 4.64e-01 88.7% 100.0%
3933402 10.32.1.4 ↗ beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like › EMP24_GP25L 0.70 29.0 4.59e-01 90.1% 94.8%
3624991 10.32.1.0 ↗ beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like 0.70 26.0 4.34e-01 88.0% 92.4%
3344591 10.2.1.81 ↗ beta sandwiches › jelly-roll › Nucleoplasmin-like/VP (viral coat and capsid proteins) › Nucleoplasmin-like/VP (viral coat and capsid proteins) › MP 0.70 36.0 4.24e-01 90.8% 68.8%
1693524 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 0.69 40.0 4.89e-01 93.0% 87.3%
1724852 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 0.69 40.0 5.15e-01 93.0% 97.6%
1264422 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 0.68 43.0 4.86e-01 93.3% 80.4%
5044901 10.1.2.0 ↗ beta sandwiches › jelly-roll › Concanavalin A-like › GOLD domain-like (DEPRECATED) 0.68 29.0 4.40e-01 90.8% 93.9%
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 0.68 41.0 4.97e-01 93.0% 89.2%
5020631 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.68 28.0 3.73e-01 91.9% 66.9%
3831811 10.32.1.0 ↗ beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like 0.68 30.0 4.59e-01 88.7% 98.3%
4927390 10.1.2.0 ↗ beta sandwiches › jelly-roll › Concanavalin A-like › GOLD domain-like (DEPRECATED) 0.68 28.0 4.27e-01 87.7% 90.0%
5040234 10.1.2.0 ↗ beta sandwiches › jelly-roll › Concanavalin A-like › GOLD domain-like (DEPRECATED) 0.67 29.0 4.51e-01 89.8% 98.3%
5020586 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.67 28.0 3.69e-01 91.5% 66.9%
3336470 10.32.1.194 ↗ beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like › APD1-4_N 0.67 28.0 4.50e-01 87.7% 100.0%
5039646 10.1.2.0 ↗ beta sandwiches › jelly-roll › Concanavalin A-like › GOLD domain-like (DEPRECATED) 0.67 29.0 4.38e-01 88.7% 93.3%
3314257 10.32.1.193 ↗ beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like › MP 0.67 35.0 4.42e-01 90.5% 81.1%
5058946 10.1.2.0 ↗ beta sandwiches › jelly-roll › Concanavalin A-like › GOLD domain-like (DEPRECATED) 0.67 27.0 4.42e-01 89.8% 100.0%
5038393 10.1.2.0 ↗ beta sandwiches › jelly-roll › Concanavalin A-like › GOLD domain-like (DEPRECATED) 0.67 30.0 4.42e-01 89.8% 91.1%
5003083 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.67 28.0 3.70e-01 93.0% 67.3%
4980801 10.1.2.0 ↗ beta sandwiches › jelly-roll › Concanavalin A-like › GOLD domain-like (DEPRECATED) 0.66 27.0 4.39e-01 88.7% 100.0%
4958335 10.1.2.0 ↗ beta sandwiches › jelly-roll › Concanavalin A-like › GOLD domain-like (DEPRECATED) 0.66 28.0 3.63e-01 91.9% 66.1%
1758310 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 39.0 4.61e-01 93.0% 80.9%
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 0.66 41.0 4.69e-01 93.0% 82.2%
3719737 10.32.1.0 ↗ beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like 0.66 29.0 4.29e-01 89.8% 90.8%
2542980 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 0.65 39.0 4.63e-01 92.6% 85.3%
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 0.65 28.0 4.30e-01 89.4% 95.9%
4966023 10.2.1.0 ↗ beta sandwiches › jelly-roll › Nucleoplasmin-like/VP (viral coat and capsid proteins) › Nucleoplasmin-like/VP (viral coat and capsid proteins) 0.64 30.0 4.49e-01 89.1% 100.0%
3786014 10.32.1.237 ↗ beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like › Mid1 0.63 32.0 4.47e-01 87.7% 97.9%
4448434 10.32.1.0 ↗ beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like 0.63 30.0 4.15e-01 88.7% 90.0%
3996582 10.32.1.6 ↗ beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like › P_proprotein 0.62 31.0 4.36e-01 90.5% 97.8%
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 0.62 42.0 4.20e-01 91.9% 66.0%
3869890 10.32.1.0 ↗ beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like 0.62 31.0 4.13e-01 89.1% 87.1%
143450 10.2.1.37 ↗ beta sandwiches › jelly-roll › Nucleoplasmin-like/VP (viral coat and capsid proteins) › Nucleoplasmin-like/VP (viral coat and capsid proteins) › Nepo_coat_C 0.60 35.0 4.46e-01 92.6% 96.3%
2841541 10.2.1.11 ↗ beta sandwiches › jelly-roll › Nucleoplasmin-like/VP (viral coat and capsid proteins) › Nucleoplasmin-like/VP (viral coat and capsid proteins) › Gemini_coat 0.60 39.0 4.46e-01 90.5% 84.4%
379700 10.2.1.8 ↗ beta sandwiches › jelly-roll › Nucleoplasmin-like/VP (viral coat and capsid proteins) › Nucleoplasmin-like/VP (viral coat and capsid proteins) › Polyhedrin 0.60 37.0 4.18e-01 97.5% 78.9%
3547487 10.32.1.185 ↗ beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like › Androglobin_IV 0.59 25.0 3.71e-01 88.7% 88.3%
5040271 10.1.2.0 ↗ beta sandwiches › jelly-roll › Concanavalin A-like › GOLD domain-like (DEPRECATED) 0.59 30.0 4.21e-01 89.4% 98.6%
4631095 10.32.1.0 ↗ beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like 0.58 30.0 4.06e-01 89.4% 92.7%
3447537 10.12.1.3 ↗ beta sandwiches › jelly-roll › Double-stranded beta-helix › Double-stranded beta-helix › Cupin_1 0.56 24.0 2.85e-01 88.0% 55.1%
3258412 10.32.1.0 ↗ beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like 0.56 27.0 3.80e-01 89.8% 94.8%
3243464 10.32.1.0 ↗ beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like 0.55 28.0 3.96e-01 89.4% 100.0%
3994660 10.1.1.0 ↗ beta sandwiches › jelly-roll › Concanavalin A-like › Concanavalin A-like lectins/glucanases 0.53 28.0 3.78e-01 88.7% 95.3%
3993514 10.32.1.6 ↗ beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like › P_proprotein 0.52 30.0 3.81e-01 90.5% 94.5%
3599907 10.32.1.0 ↗ beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like 0.52 25.0 3.57e-01 88.7% 98.5%
4615128 10.32.1.0 ↗ beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like 0.50 27.0 3.61e-01 89.4% 96.7%