SCOPe 2.05: Protein: automated matches

Lineage for Protein: automated matches

Root: SCOPe 2.05
Class b: All beta proteins [48724] (176 folds)

Fold b.121: Nucleoplasmin-like/VP (viral coat and capsid proteins) [88632] (7 superfamilies)
sandwich; 8 strands in 2 sheets; jelly-roll; some members can have additional 1-2 strands
characteristic interaction between the domains of this fold allows the formation of five-fold and pseudo six-fold assemblies

Superfamily b.121.4: Positive stranded ssRNA viruses [88633] (10 families)

Family b.121.4.1: Picornaviridae-like VP (VP1, VP2, VP3 and VP4) [88634] (10 proteins)
the order of the chains N-VP0-VP3-VP1-C is as in the polyprotein; VP0 is cleaved later upon capsid assembly to VP4 and VP2
there is a different order in the shuffled genome of insect picorna-like proteins (Cricket paralysis virus)

Protein automated matches [190854] (11 species)
not a true protein

Species:

Coxsackievirus a16 (strain tainan/5079/98) [TaxId:231417] [277504] (1 PDB entry)
- Domain for 5c8c:
  - Domain d5c8cc_: 5c8c C: [277505]
    Other proteins in same PDB: d5c8ca_
    automated match to d5c4wc_
    complexed with cl, k, ste
Coxsackievirus a16 [TaxId:31704] [276274] (3 PDB entries)
1. Domain for 5abj:
  - Domain d5abjc_: 5abj C: [276645]
    Other proteins in same PDB: d5abja_, d5abjb_
    automated match to d5c4wc_
    complexed with cl, na, ym2
2. Domain for 5c4w:
  - Domain d5c4wc_: 5c4w C: [276275]
    Other proteins in same PDB: d5c4wa_, d5c4wb_
    automated match to d3vbhc_
    complexed with cl, k, na, sph
3. Domain for 5c9a:
  - Domain d5c9ac_: 5c9a C: [276278]
    Other proteins in same PDB: d5c9aa_
    automated match to d3vbhc_
    complexed with cl, k, sph
Coxsackievirus a24 [TaxId:12089] [260750] (4 PDB entries)
1. Domains for 4q4v:
  1. Domain d4q4v1_: 4q4v 1: [267264]
    automated match to d2plv1_
  2. Domain d4q4v3_: 4q4v 3: [267265]
    automated match to d4q4y3_
2. Domains for 4q4w:
  1. Domain d4q4w1_: 4q4w 1: [267266]
    automated match to d2plv1_
    complexed with ca, cl, hez
  2. Domain d4q4w3_: 4q4w 3: [267267]
    automated match to d4q4y3_
    complexed with ca, cl, hez
3. Domains for 4q4x:
  1. Domain d4q4x1_: 4q4x 1: [260751]
    automated match to d2plv1_
    complexed with ca, cl, hez, na, sia
  2. Domain d4q4x3_: 4q4x 3: [263630]
    automated match to d4q4y3_
    complexed with ca, cl, hez, na, sia
4. Domains for 4q4y:
  1. Domain d4q4y1_: 4q4y 1: [263631]
    automated match to d2plv1_
    complexed with ca, cl, hez, mg, myr, sia
  2. Domain d4q4y3_: 4q4y 3: [260752]
    automated match to d1hxs3_
    complexed with ca, cl, hez, mg, myr, sia
Foot-and-mouth disease virus - type a [TaxId:12111] [196861] (4 PDB entries)
1. Domains for 4gh4:
  1. Domain d4gh4a_: 4gh4 A: [252214]
    automated match to d4iv1a_
  2. Domain d4gh4c_: 4gh4 C: [252215]
    automated match to d1fmd3_
2. Domains for 4iv1:
  1. Domain d4iv1a_: 4iv1 A: [223403]
    automated match to d4iv3a_
  2. Domain d4iv1c_: 4iv1 C: [223404]
    automated match to d4iv3c_
3. Domains for 4iv3:
  1. Domain d4iv3a_: 4iv3 A: [196862]
    automated match to d1zba1_
  2. Domain d4iv3c_: 4iv3 C: [196863]
    automated match to d1zba3_
4. Domains for 5d8a:
  1. Domain d5d8aa_: 5d8a A: [277131]
    automated match to d1fmd1_
  2. Domain d5d8ac_: 5d8a C: [277140]
    automated match to d4iv1c_
Foot-and-mouth disease virus [TaxId:12110] [188180] (2 PDB entries)
1. Domains for 1zba:
  1. Domain d1zba1_: 1zba 1: [162437]
    automated match to d1qqp1_
  2. Domain d1zba3_: 1zba 3: [162438]
    automated match to d1bbt3_
2. Domains for 1zbe:
  1. Domain d1zbe1_: 1zbe 1: [241128]
    automated match to d1fmd1_
  2. Domain d1zbe3_: 1zbe 3: [241129]
    automated match to d1fmd3_
Foot-and-mouth disease virus [TaxId:12122] [255673] (1 PDB entry)
- Domain for 2wzr:
  - Domain d2wzr3_: 2wzr 3: [244363]
    Other proteins in same PDB: d2wzr1_
    automated match to d1fmd3_
Human coxsackievirus B3 [TaxId:12072] [194627] (1 PDB entry)
- Domain for 4gb3:
  - Domain d4gb31_: 4gb3 1: [194628]
    Other proteins in same PDB: d4gb33_
    automated match to d1cov1_
    complexed with myr, plm
Human echovirus 7 [TaxId:46018] [255678] (1 PDB entry)
- Domains for 2x5i:
  1. Domain d2x5ia_: 2x5i A: [244422]
    automated match to d1cov1_
    complexed with dao
  2. Domain d2x5ic_: 2x5i C: [244423]
    automated match to d1cov3_
    complexed with dao
Human enterovirus 71 [TaxId:39054] [195913] (11 PDB entries)
1. Domain for 3vbf:
  - Domain d3vbfc_: 3vbf C: [195914]
    Other proteins in same PDB: d3vbfa_, d3vbfb_
    automated match to d1bev3_
    complexed with amp, cl, k, na, sph
2. Domain for 3vbh:
  - Domain d3vbhc_: 3vbh C: [217748]
    Other proteins in same PDB: d3vbha_, d3vbhb_
    automated match to d3vbfc_
    complexed with cl, k, na, sph
3. Domain for 3zfe:
  - Domain d3zfec_: 3zfe C: [196803]
    Other proteins in same PDB: d3zfea_, d3zfeb_
    automated match to d1bev3_
    complexed with cl, na, sph
4. Domain for 4cdq:
  - Domain d4cdqc_: 4cdq C: [236692]
    Other proteins in same PDB: d4cdqa_, d4cdqb_
    automated match to d3vbfc_
    complexed with 7vr, na
5. Domain for 4cdu:
  - Domain d4cduc_: 4cdu C: [236697]
    Other proteins in same PDB: d4cdua_, d4cdub_
    automated match to d3vbfc_
    complexed with cl, na, ym2
6. Domain for 4cdw:
  - Domain d4cdwc_: 4cdw C: [236693]
    Other proteins in same PDB: d4cdwa_, d4cdwb_
    automated match to d3vbfc_
    complexed with na, vr2
7. Domain for 4cdx:
  - Domain d4cdxc_: 4cdx C: [236696]
    Other proteins in same PDB: d4cdxa_, d4cdxb_
    automated match to d3vbfc_
    complexed with jf0, na
8. Domain for 4cew:
  - Domain d4cewc_: 4cew C: [236699]
    Other proteins in same PDB: d4cewa_, d4cewb_
    automated match to d3vbfc_
    complexed with 7j5
9. Domain for 4cey:
  - Domain d4ceyc_: 4cey C: [236698]
    Other proteins in same PDB: d4ceya_, d4ceyb_
    automated match to d3vbfc_
    complexed with 906, na
10. Domains for 4rqp:
  1. Domain d4rqpb_: 4rqp B: [261955]
    Other proteins in same PDB: d4rqpc_, d4rqpg_, d4rqpk_, d4rqpo_
    automated match to d3vbhc_
  2. Domain d4rqpf_: 4rqp F: [261954]
    Other proteins in same PDB: d4rqpc_, d4rqpg_, d4rqpk_, d4rqpo_
    automated match to d3vbhc_
  3. Domain d4rqpj_: 4rqp J: [261957]
    Other proteins in same PDB: d4rqpc_, d4rqpg_, d4rqpk_, d4rqpo_
    automated match to d3vbhc_
  4. Domain d4rqpn_: 4rqp N: [261961]
    Other proteins in same PDB: d4rqpc_, d4rqpg_, d4rqpk_, d4rqpo_
    automated match to d3vbhc_
  5. Domain d4rqpr_: 4rqp R: [261966]
    Other proteins in same PDB: d4rqpc_, d4rqpg_, d4rqpk_, d4rqpo_
    automated match to d3vbhc_
11. Domains for 4rr3:
  1. Domain d4rr3b_: 4rr3 B: [267406]
    automated match to d3vbhc_
  2. Domain d4rr3f_: 4rr3 F: [267407]
    automated match to d3vbhc_
  3. Domain d4rr3j_: 4rr3 J: [267408]
    automated match to d3vbhc_
  4. Domain d4rr3n_: 4rr3 N: [267409]
    automated match to d3vbhc_
  5. Domain d4rr3r_: 4rr3 R: [267410]
    automated match to d3vbhc_
Human rhinovirus 14 [TaxId:12131] [258112] (1 PDB entry)
- Domains for 4pdw:
  1. Domain d4pdwa_: 4pdw A: [258113]
    automated match to d1k5ma_
    complexed with 2xk, gol
  2. Domain d4pdwc_: 4pdw C: [258114]
    automated match to d1rhi3_
    complexed with 2xk, gol
Human rhinovirus 2 [TaxId:12130] [256100] (1 PDB entry)
- Domain for 3tn9:
  - Domain d3tn93_: 3tn9 3: [249961]
    automated match to d1aym3_

More info for Protein automated matches from b.121.4.1: Picornaviridae-like VP (VP1, VP2, VP3 and VP4)

Timeline for Protein automated matches from b.121.4.1: Picornaviridae-like VP (VP1, VP2, VP3 and VP4):

Protein automated matches from b.121.4.1: Picornaviridae-like VP (VP1, VP2, VP3 and VP4) first appeared in SCOPe 2.01
Protein automated matches from b.121.4.1: Picornaviridae-like VP (VP1, VP2, VP3 and VP4) appears in SCOPe 2.04
Protein automated matches from b.121.4.1: Picornaviridae-like VP (VP1, VP2, VP3 and VP4) appears in SCOPe 2.06
Protein automated matches from b.121.4.1: Picornaviridae-like VP (VP1, VP2, VP3 and VP4) appears in the current release, SCOPe 2.08