PDB entry 6y9v

View 6y9v on RCSB PDB site
Description: structure of the native full-length hiv-1 capsid protein in complex with cyclophilin a from helical assembly (-8,13)
Deposited on 2020-03-10, released 2020-08-19
The last revision was dated 2021-02-10, with a file datestamp of 2021-02-05.
Experiment type: EM
Resolution: 6.9 Å
R-factor: N/A
AEROSPACI score: 0.02 (click here for full SPACI score report)

Chains and heterogens:

  • Chain 'A':
    Compound: Gag-Pol polyprotein
    Species: Human immunodeficiency virus 1 [TaxId:11676]
    Gene: gag-pol
    Database cross-references and differences (RAF-indexed):
  • Chain 'B':
    Compound: Gag-Pol polyprotein
    Species: Human immunodeficiency virus 1 [TaxId:11676]
    Gene: gag-pol
    Database cross-references and differences (RAF-indexed):
  • Chain 'C':
    Compound: Gag-Pol polyprotein
    Species: Human immunodeficiency virus 1 [TaxId:11676]
    Gene: gag-pol
    Database cross-references and differences (RAF-indexed):
  • Chain 'D':
    Compound: Gag-Pol polyprotein
    Species: Human immunodeficiency virus 1 [TaxId:11676]
    Gene: gag-pol
    Database cross-references and differences (RAF-indexed):
  • Chain 'G':
    Compound: Gag-Pol polyprotein
    Species: Human immunodeficiency virus 1 [TaxId:11676]
    Gene: gag-pol
    Database cross-references and differences (RAF-indexed):
  • Chain 'H':
    Compound: Gag-Pol polyprotein
    Species: Human immunodeficiency virus 1 [TaxId:11676]
    Gene: gag-pol
    Database cross-references and differences (RAF-indexed):
  • Chain 'J':
    Compound: Peptidyl-prolyl cis-trans isomerase A
    Species: Homo sapiens [TaxId:9606]
    Gene: PPIA, CYPA
    Database cross-references and differences (RAF-indexed):
  • Chain 'N':
    Compound: Gag-Pol polyprotein
    Species: Human immunodeficiency virus 1 [TaxId:11676]
    Gene: gag-pol
    Database cross-references and differences (RAF-indexed):
  • Chain 'Y':
    Compound: Gag-Pol polyprotein
    Species: Human immunodeficiency virus 1 [TaxId:11676]
    Gene: gag-pol
    Database cross-references and differences (RAF-indexed):
  • Chain 'd':
    Compound: Gag-Pol polyprotein
    Species: Human immunodeficiency virus 1 [TaxId:11676]
    Gene: gag-pol
    Database cross-references and differences (RAF-indexed):
  • Chain 'e':
    Compound: Gag-Pol polyprotein
    Species: Human immunodeficiency virus 1 [TaxId:11676]
    Gene: gag-pol
    Database cross-references and differences (RAF-indexed):
  • Chain 'j':
    Compound: Gag-Pol polyprotein
    Species: Human immunodeficiency virus 1 [TaxId:11676]
    Gene: gag-pol
    Database cross-references and differences (RAF-indexed):
  • Chain 'k':
    Compound: Gag-Pol polyprotein
    Species: Human immunodeficiency virus 1 [TaxId:11676]
    Gene: gag-pol
    Database cross-references and differences (RAF-indexed):

PDB Chain Sequences:
This PDB entry is not classified in SCOPe 2.08, so the chain sequences below are not included in the ASTRAL sequence sets.

  • Chain 'A':
    Sequence, based on SEQRES records:
    >6y9vA (A:)
pivqniqgqmvhqaisprtlnawvkvveekafspevipmfsalsegatpqdlntmlntvg
ghqaamqmlketineeaaewdrvhpvhagpiapgqmreprgsdiagttstlqeqigwmtn
nppipvgeiykrwiilglnkivrmysptsildirqgpkepfrdyvdrfyktlraeqasqe
vknwmtetllvqnanpdcktilkalgpaatleemmtacqg

    Sequence, based on observed residues (ATOM records):
    >6y9vA (A:)
pivqniqgqmvhqaisprtlnawvkvveekafspevipmfsalsegatpqdlntmlntvg
ghqaamqmlketineeaaewdrvhpvhagpiapgqmreprgsdiagttstlqeqigwmtn
nppipvgeiykrwiilglnkivrmys

  • Chain 'B':
    Sequence; same for both SEQRES and ATOM records:
    >6y9vB (B:)
pivqniqgqmvhqaisprtlnawvkvveekafspevipmfsalsegatpqdlntmlntvg
ghqaamqmlketineeaaewdrvhpvhagpiapgqmreprgsdiagttstlqeqigwmtn
nppipvgeiykrwiilglnkivrmysptsildirqgpkepfrdyvdrfyktlraeqasqe
vknwmtetllvqnanpdcktilkalgpaatleemmtacqg

  • Chain 'C':
    Sequence; same for both SEQRES and ATOM records:
    >6y9vC (C:)
pivqniqgqmvhqaisprtlnawvkvveekafspevipmfsalsegatpqdlntmlntvg
ghqaamqmlketineeaaewdrvhpvhagpiapgqmreprgsdiagttstlqeqigwmtn
nppipvgeiykrwiilglnkivrmysptsildirqgpkepfrdyvdrfyktlraeqasqe
vknwmtetllvqnanpdcktilkalgpaatleemmtacqg

  • Chain 'D':
    Sequence; same for both SEQRES and ATOM records:
    >6y9vD (D:)
pivqniqgqmvhqaisprtlnawvkvveekafspevipmfsalsegatpqdlntmlntvg
ghqaamqmlketineeaaewdrvhpvhagpiapgqmreprgsdiagttstlqeqigwmtn
nppipvgeiykrwiilglnkivrmysptsildirqgpkepfrdyvdrfyktlraeqasqe
vknwmtetllvqnanpdcktilkalgpaatleemmtacqg

  • Chain 'G':
    Sequence; same for both SEQRES and ATOM records:
    >6y9vG (G:)
pivqniqgqmvhqaisprtlnawvkvveekafspevipmfsalsegatpqdlntmlntvg
ghqaamqmlketineeaaewdrvhpvhagpiapgqmreprgsdiagttstlqeqigwmtn
nppipvgeiykrwiilglnkivrmysptsildirqgpkepfrdyvdrfyktlraeqasqe
vknwmtetllvqnanpdcktilkalgpaatleemmtacqg

  • Chain 'H':
    Sequence; same for both SEQRES and ATOM records:
    >6y9vH (H:)
pivqniqgqmvhqaisprtlnawvkvveekafspevipmfsalsegatpqdlntmlntvg
ghqaamqmlketineeaaewdrvhpvhagpiapgqmreprgsdiagttstlqeqigwmtn
nppipvgeiykrwiilglnkivrmysptsildirqgpkepfrdyvdrfyktlraeqasqe
vknwmtetllvqnanpdcktilkalgpaatleemmtacqg

  • Chain 'J':
    Sequence; same for both SEQRES and ATOM records:
    >6y9vJ (J:)
vnptvffdiavdgeplgrvsfelfadkvpktaenfralstgekgfgykgscfhriipgfm
cqggdftrhngtggksiygekfedenfilkhtgpgilsmanagpntngsqffictaktew
ldgkhvvfgkvkegmniveamerfgsrngktskkitiadcgqle

  • Chain 'N':
    Sequence, based on SEQRES records:
    >6y9vN (N:)
pivqniqgqmvhqaisprtlnawvkvveekafspevipmfsalsegatpqdlntmlntvg
ghqaamqmlketineeaaewdrvhpvhagpiapgqmreprgsdiagttstlqeqigwmtn
nppipvgeiykrwiilglnkivrmysptsildirqgpkepfrdyvdrfyktlraeqasqe
vknwmtetllvqnanpdcktilkalgpaatleemmtacqg

    Sequence, based on observed residues (ATOM records):
    >6y9vN (N:)
ptsildirqgpkepfrdyvdrfyktlraeqasqevknwmtetllvqnanpdcktilkalg
paatleemmtacqg

  • Chain 'Y':
    Sequence, based on SEQRES records:
    >6y9vY (Y:)
pivqniqgqmvhqaisprtlnawvkvveekafspevipmfsalsegatpqdlntmlntvg
ghqaamqmlketineeaaewdrvhpvhagpiapgqmreprgsdiagttstlqeqigwmtn
nppipvgeiykrwiilglnkivrmysptsildirqgpkepfrdyvdrfyktlraeqasqe
vknwmtetllvqnanpdcktilkalgpaatleemmtacqg

    Sequence, based on observed residues (ATOM records):
    >6y9vY (Y:)
pivqniqgqmvhqaisprtlnawvkvveekafspevipmfsalsegatpqdlntmlntvg
ghqaamqmlketineeaaewdrvhpvhagpiapgqmreprgsdiagttstlqeqigwmtn
nppipvgeiykrwiilglnkivrmys

  • Chain 'd':
    Sequence; same for both SEQRES and ATOM records:
    >6y9vd (d:)
pivqniqgqmvhqaisprtlnawvkvveekafspevipmfsalsegatpqdlntmlntvg
ghqaamqmlketineeaaewdrvhpvhagpiapgqmreprgsdiagttstlqeqigwmtn
nppipvgeiykrwiilglnkivrmysptsildirqgpkepfrdyvdrfyktlraeqasqe
vknwmtetllvqnanpdcktilkalgpaatleemmtacqg

  • Chain 'e':
    Sequence; same for both SEQRES and ATOM records:
    >6y9ve (e:)
pivqniqgqmvhqaisprtlnawvkvveekafspevipmfsalsegatpqdlntmlntvg
ghqaamqmlketineeaaewdrvhpvhagpiapgqmreprgsdiagttstlqeqigwmtn
nppipvgeiykrwiilglnkivrmysptsildirqgpkepfrdyvdrfyktlraeqasqe
vknwmtetllvqnanpdcktilkalgpaatleemmtacqg

  • Chain 'j':
    Sequence, based on SEQRES records:
    >6y9vj (j:)
pivqniqgqmvhqaisprtlnawvkvveekafspevipmfsalsegatpqdlntmlntvg
ghqaamqmlketineeaaewdrvhpvhagpiapgqmreprgsdiagttstlqeqigwmtn
nppipvgeiykrwiilglnkivrmysptsildirqgpkepfrdyvdrfyktlraeqasqe
vknwmtetllvqnanpdcktilkalgpaatleemmtacqg

    Sequence, based on observed residues (ATOM records):
    >6y9vj (j:)
ptsildirqgpkepfrdyvdrfyktlraeqasqevknwmtetllvqnanpdcktilkalg
paatleemmtacqg

  • Chain 'k':
    Sequence; same for both SEQRES and ATOM records:
    >6y9vk (k:)
pivqniqgqmvhqaisprtlnawvkvveekafspevipmfsalsegatpqdlntmlntvg
ghqaamqmlketineeaaewdrvhpvhagpiapgqmreprgsdiagttstlqeqigwmtn
nppipvgeiykrwiilglnkivrmysptsildirqgpkepfrdyvdrfyktlraeqasqe
vknwmtetllvqnanpdcktilkalgpaatleemmtacqg