SMTL ID : 2z2q.3 (3 other biounits)

Crystal structure of Flock House Virus

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.70 Å

Oligo State

hetero-oligomer

Ligands

24 x CA: CALCIUM ION(Non-covalent)

CA.1: 4 residues within 4Å: Chain B: D.220, G.272 Chain D: T.156, D.160 4 PLIP interactions: 2 interactions with chain B, 1 interactions with chain D, 1 Ligand-Water interactions Metal complexes: B:D.220, B:G.272, D:D.160, H2O.106 CA.2: 6 residues within 4Å: Chain B: D.248, E.250 Chain D: D.248, E.250 Chain F: D.248, E.250 No protein-ligand interaction detected (PLIP) CA.5: 4 residues within 4Å: Chain D: D.220, G.272 Chain F: T.156, D.160 4 PLIP interactions: 1 interactions with chain F, 2 interactions with chain D, 1 Ligand-Water interactions Metal complexes: F:D.160, D:D.220, D:G.272, H2O.74 CA.7: 4 residues within 4Å: Chain B: T.156, D.160 Chain F: D.220, G.272 4 PLIP interactions: 2 interactions with chain F, 1 interactions with chain B, 1 Ligand-Water interactions Metal complexes: F:D.220, F:G.272, B:D.160, H2O.172 CA.9: 4 residues within 4Å: Chain I: D.220, G.272 Chain K: T.156, D.160 4 PLIP interactions: 2 interactions with chain I, 1 interactions with chain K, 1 Ligand-Water interactions Metal complexes: I:D.220, I:G.272, K:D.160, H2O.303 CA.10: 6 residues within 4Å: Chain I: D.248, E.250 Chain K: D.248, E.250 Chain M: D.248, E.250 No protein-ligand interaction detected (PLIP) CA.13: 4 residues within 4Å: Chain K: D.220, G.272 Chain M: T.156, D.160 4 PLIP interactions: 2 interactions with chain K, 1 interactions with chain M, 1 Ligand-Water interactions Metal complexes: K:D.220, K:G.272, M:D.160, H2O.271 CA.15: 4 residues within 4Å: Chain I: T.156, D.160 Chain M: D.220, G.272 4 PLIP interactions: 2 interactions with chain M, 1 interactions with chain I, 1 Ligand-Water interactions Metal complexes: M:D.220, M:G.272, I:D.160, H2O.369 CA.17: 4 residues within 4Å: Chain P: D.220, G.272 Chain R: T.156, D.160 4 PLIP interactions: 2 interactions with chain P, 1 interactions with chain R, 1 Ligand-Water interactions Metal complexes: P:D.220, P:G.272, R:D.160, H2O.500 CA.18: 6 residues within 4Å: Chain P: D.248, E.250 Chain R: D.248, E.250 Chain T: D.248, E.250 No protein-ligand interaction detected (PLIP) CA.21: 4 residues within 4Å: Chain R: D.220, G.272 Chain T: T.156, D.160 4 PLIP interactions: 2 interactions with chain R, 1 interactions with chain T, 1 Ligand-Water interactions Metal complexes: R:D.220, R:G.272, T:D.160, H2O.468 CA.23: 4 residues within 4Å: Chain P: T.156, D.160 Chain T: D.220, G.272 4 PLIP interactions: 2 interactions with chain T, 1 interactions with chain P, 1 Ligand-Water interactions Metal complexes: T:D.220, T:G.272, P:D.160, H2O.566 CA.25: 4 residues within 4Å: Chain W: D.220, G.272 Chain Y: T.156, D.160 4 PLIP interactions: 2 interactions with chain W, 1 interactions with chain Y, 1 Ligand-Water interactions Metal complexes: W:D.220, W:G.272, Y:D.160, H2O.697 CA.26: 6 residues within 4Å: Chain 0: D.248, E.250 Chain W: D.248, E.250 Chain Y: D.248, E.250 No protein-ligand interaction detected (PLIP) CA.29: 4 residues within 4Å: Chain 0: T.156, D.160 Chain Y: D.220, G.272 4 PLIP interactions: 1 interactions with chain 0, 2 interactions with chain Y, 1 Ligand-Water interactions Metal complexes: 0:D.160, Y:D.220, Y:G.272, H2O.665 CA.31: 4 residues within 4Å: Chain 0: D.220, G.272 Chain W: T.156, D.160 4 PLIP interactions: 2 interactions with chain 0, 1 interactions with chain W, 1 Ligand-Water interactions Metal complexes: 0:D.220, 0:G.272, W:D.160, H2O.763 CA.33: 4 residues within 4Å: Chain 3: D.220, G.272 Chain 5: T.156, D.160 4 PLIP interactions: 1 interactions with chain 5, 2 interactions with chain 3, 1 Ligand-Water interactions Metal complexes: 5:D.160, 3:D.220, 3:G.272, H2O.894 CA.34: 6 residues within 4Å: Chain 3: D.248, E.250 Chain 5: D.248, E.250 Chain 7: D.248, E.250 No protein-ligand interaction detected (PLIP) CA.37: 4 residues within 4Å: Chain 5: D.220, G.272 Chain 7: T.156, D.160 4 PLIP interactions: 2 interactions with chain 5, 1 interactions with chain 7, 1 Ligand-Water interactions Metal complexes: 5:D.220, 5:G.272, 7:D.160, H2O.862 CA.39: 4 residues within 4Å: Chain 3: T.156, D.160 Chain 7: D.220, G.272 4 PLIP interactions: 1 interactions with chain 3, 2 interactions with chain 7, 1 Ligand-Water interactions Metal complexes: 3:D.160, 7:D.220, 7:G.272, H2O.960 CA.41: 4 residues within 4Å: Chain a: D.220, G.272 Chain c: T.156, D.160 4 PLIP interactions: 2 interactions with chain a, 1 interactions with chain c, 1 Ligand-Water interactions Metal complexes: a:D.220, a:G.272, c:D.160, H2O.1091 CA.42: 6 residues within 4Å: Chain a: D.248, E.250 Chain c: D.248, E.250 Chain e: D.248, E.250 No protein-ligand interaction detected (PLIP) CA.45: 4 residues within 4Å: Chain c: D.220, G.272 Chain e: T.156, D.160 4 PLIP interactions: 2 interactions with chain c, 1 interactions with chain e, 1 Ligand-Water interactions Metal complexes: c:D.220, c:G.272, e:D.160, H2O.1059 CA.47: 4 residues within 4Å: Chain a: T.156, D.160 Chain e: D.220, G.272 4 PLIP interactions: 2 interactions with chain e, 1 interactions with chain a, 1 Ligand-Water interactions Metal complexes: e:D.220, e:G.272, a:D.160, H2O.1157

24 x SO4: SULFATE ION(Non-functional Binders)

SO4.3: 9 residues within 4Å: Chain B: G.257, Q.259, T.260, P.263, A.264 Chain F: Q.200, F.201, P.202, S.210 Ligand excluded by PLIP SO4.4: 3 residues within 4Å: Chain B: R.86 Chain D: R.86 Chain F: R.86 Ligand excluded by PLIP SO4.6: 8 residues within 4Å: Chain B: Q.200, F.201, P.202 Chain D: G.257, Q.259, T.260, P.263, A.264 Ligand excluded by PLIP SO4.8: 9 residues within 4Å: Chain D: Q.200, F.201, P.202, S.210 Chain F: G.257, Q.259, T.260, P.263, A.264 Ligand excluded by PLIP SO4.11: 9 residues within 4Å: Chain I: G.257, Q.259, T.260, P.263, A.264 Chain M: Q.200, F.201, P.202, S.210 Ligand excluded by PLIP SO4.12: 3 residues within 4Å: Chain I: R.86 Chain K: R.86 Chain M: R.86 Ligand excluded by PLIP SO4.14: 8 residues within 4Å: Chain I: Q.200, F.201, P.202 Chain K: G.257, Q.259, T.260, P.263, A.264 Ligand excluded by PLIP SO4.16: 9 residues within 4Å: Chain K: Q.200, F.201, P.202, S.210 Chain M: G.257, Q.259, T.260, P.263, A.264 Ligand excluded by PLIP SO4.19: 9 residues within 4Å: Chain P: G.257, Q.259, T.260, P.263, A.264 Chain T: Q.200, F.201, P.202, S.210 Ligand excluded by PLIP SO4.20: 3 residues within 4Å: Chain P: R.86 Chain R: R.86 Chain T: R.86 Ligand excluded by PLIP SO4.22: 8 residues within 4Å: Chain P: Q.200, F.201, P.202 Chain R: G.257, Q.259, T.260, P.263, A.264 Ligand excluded by PLIP SO4.24: 9 residues within 4Å: Chain R: Q.200, F.201, P.202, S.210 Chain T: G.257, Q.259, T.260, P.263, A.264 Ligand excluded by PLIP SO4.27: 9 residues within 4Å: Chain 0: Q.200, F.201, P.202, S.210 Chain W: G.257, Q.259, T.260, P.263, A.264 Ligand excluded by PLIP SO4.28: 3 residues within 4Å: Chain 0: R.86 Chain W: R.86 Chain Y: R.86 Ligand excluded by PLIP SO4.30: 8 residues within 4Å: Chain W: Q.200, F.201, P.202 Chain Y: G.257, Q.259, T.260, P.263, A.264 Ligand excluded by PLIP SO4.32: 9 residues within 4Å: Chain 0: G.257, Q.259, T.260, P.263, A.264 Chain Y: Q.200, F.201, P.202, S.210 Ligand excluded by PLIP SO4.35: 9 residues within 4Å: Chain 3: G.257, Q.259, T.260, P.263, A.264 Chain 7: Q.200, F.201, P.202, S.210 Ligand excluded by PLIP SO4.36: 3 residues within 4Å: Chain 3: R.86 Chain 5: R.86 Chain 7: R.86 Ligand excluded by PLIP SO4.38: 8 residues within 4Å: Chain 3: Q.200, F.201, P.202 Chain 5: G.257, Q.259, T.260, P.263, A.264 Ligand excluded by PLIP SO4.40: 9 residues within 4Å: Chain 5: Q.200, F.201, P.202, S.210 Chain 7: G.257, Q.259, T.260, P.263, A.264 Ligand excluded by PLIP SO4.43: 9 residues within 4Å: Chain a: G.257, Q.259, T.260, P.263, A.264 Chain e: Q.200, F.201, P.202, S.210 Ligand excluded by PLIP SO4.44: 3 residues within 4Å: Chain a: R.86 Chain c: R.86 Chain e: R.86 Ligand excluded by PLIP SO4.46: 8 residues within 4Å: Chain a: Q.200, F.201, P.202 Chain c: G.257, Q.259, T.260, P.263, A.264 Ligand excluded by PLIP SO4.48: 9 residues within 4Å: Chain c: Q.200, F.201, P.202, S.210 Chain e: G.257, Q.259, T.260, P.263, A.264 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Johnson, J.E. et al., Structural Definition in the Auto Catalytic Maturation of Icosahedral Virus. To be Published

Release Date

2008-07-15

Peptides

Coat protein beta: BDFIKMPRTWY0357ace
Coat protein gamma: CEGJLNQSUXZ1468bdf

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

B
A

D
C

F
E

I
A

K
C

M
E

P
A

R
C

T
E

W
A

Y
C

0
E

3
A

5
C

7
E

a
A

c
C

e
E

C
B

E
D

G
F

J
B

L
D

N
F

Q
B

S
D

U
F

X
B

Z
D

1
F

4
B

6
D

8
F

b
B

d
D

f
F

Coat protein beta

Coat protein gamma

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