SMTL ID : 6hxx.1

Potato virus Y

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

homo-35-mer

Ligands

35 x U- U- U- U- U: RNA (5'-R(P*UP*UP*UP*UP*U)-3')(Non-covalent)

U-U-U-U-U.1: 19 residues within 4Å: Chain A: N.82, G.123, S.125, P.126, N.127, I.128, T.155, R.157, Q.158, R.183, Y.184, R.188, D.201, K.221, A.224, L.225, A.228 Chain B: N.82 Ligands: U-U-U-U-U.2 Protein-ligand interaction information (PLIP) not available U-U-U-U-U.2: 22 residues within 4Å: Chain A: R.183, V.187 Chain B: N.82, G.123, S.125, P.126, N.127, I.128, T.155, R.157, Q.158, R.183, Y.184, R.188, D.201, K.221, A.224, L.225, A.228 Chain C: N.82 Ligands: U-U-U-U-U.1, U-U-U-U-U.3 Protein-ligand interaction information (PLIP) not available U-U-U-U-U.3: 22 residues within 4Å: Chain B: R.183, V.187 Chain C: N.82, G.123, S.125, P.126, N.127, I.128, T.155, R.157, Q.158, R.183, Y.184, R.188, D.201, K.221, A.224, L.225, A.228 Chain D: N.82 Ligands: U-U-U-U-U.2, U-U-U-U-U.4 Protein-ligand interaction information (PLIP) not available U-U-U-U-U.4: 22 residues within 4Å: Chain C: R.183, V.187 Chain D: N.82, G.123, S.125, P.126, N.127, I.128, T.155, R.157, Q.158, R.183, Y.184, R.188, D.201, K.221, A.224, L.225, A.228 Chain E: N.82 Ligands: U-U-U-U-U.3, U-U-U-U-U.5 Protein-ligand interaction information (PLIP) not available U-U-U-U-U.5: 22 residues within 4Å: Chain D: R.183, V.187 Chain E: N.82, G.123, S.125, P.126, N.127, I.128, T.155, R.157, Q.158, R.183, Y.184, R.188, D.201, K.221, A.224, L.225, A.228 Chain F: N.82 Ligands: U-U-U-U-U.4, U-U-U-U-U.6 Protein-ligand interaction information (PLIP) not available U-U-U-U-U.6: 22 residues within 4Å: Chain E: R.183, V.187 Chain F: N.82, G.123, S.125, P.126, N.127, I.128, T.155, R.157, Q.158, R.183, Y.184, R.188, D.201, K.221, A.224, L.225, A.228 Chain G: N.82 Ligands: U-U-U-U-U.5, U-U-U-U-U.7 Protein-ligand interaction information (PLIP) not available U-U-U-U-U.7: 22 residues within 4Å: Chain F: R.183, V.187 Chain G: N.82, G.123, S.125, P.126, N.127, I.128, T.155, R.157, Q.158, R.183, Y.184, R.188, D.201, K.221, A.224, L.225, A.228 Chain H: N.82 Ligands: U-U-U-U-U.6, U-U-U-U-U.8 Protein-ligand interaction information (PLIP) not available U-U-U-U-U.8: 22 residues within 4Å: Chain G: R.183, V.187 Chain H: N.82, G.123, S.125, P.126, N.127, I.128, T.155, R.157, Q.158, R.183, Y.184, R.188, D.201, K.221, A.224, L.225, A.228 Chain I: N.82 Ligands: U-U-U-U-U.7, U-U-U-U-U.9 Protein-ligand interaction information (PLIP) not available U-U-U-U-U.9: 22 residues within 4Å: Chain H: R.183, V.187 Chain I: N.82, G.123, S.125, P.126, N.127, I.128, T.155, R.157, Q.158, R.183, Y.184, R.188, D.201, K.221, A.224, L.225, A.228 Chain J: N.82 Ligands: U-U-U-U-U.8, U-U-U-U-U.10 Protein-ligand interaction information (PLIP) not available U-U-U-U-U.10: 23 residues within 4Å: Chain A: S.240 Chain I: R.183, V.187 Chain J: N.82, G.123, S.125, P.126, N.127, I.128, T.155, R.157, Q.158, R.183, Y.184, R.188, D.201, K.221, A.224, L.225, A.228 Chain K: N.82 Ligands: U-U-U-U-U.9, U-U-U-U-U.11 Protein-ligand interaction information (PLIP) not available U-U-U-U-U.11: 23 residues within 4Å: Chain B: S.240 Chain J: R.183, V.187 Chain K: N.82, G.123, S.125, P.126, N.127, I.128, T.155, R.157, Q.158, R.183, Y.184, R.188, D.201, K.221, A.224, L.225, A.228 Chain L: N.82 Ligands: U-U-U-U-U.10, U-U-U-U-U.12 Protein-ligand interaction information (PLIP) not available U-U-U-U-U.12: 23 residues within 4Å: Chain C: S.240 Chain K: R.183, V.187 Chain L: N.82, G.123, S.125, P.126, N.127, I.128, T.155, R.157, Q.158, R.183, Y.184, R.188, D.201, K.221, A.224, L.225, A.228 Chain M: N.82 Ligands: U-U-U-U-U.11, U-U-U-U-U.13 Protein-ligand interaction information (PLIP) not available U-U-U-U-U.13: 23 residues within 4Å: Chain D: S.240 Chain L: R.183, V.187 Chain M: N.82, G.123, S.125, P.126, N.127, I.128, T.155, R.157, Q.158, R.183, Y.184, R.188, D.201, K.221, A.224, L.225, A.228 Chain N: N.82 Ligands: U-U-U-U-U.12, U-U-U-U-U.14 Protein-ligand interaction information (PLIP) not available U-U-U-U-U.14: 23 residues within 4Å: Chain E: S.240 Chain M: R.183, V.187 Chain N: N.82, G.123, S.125, P.126, N.127, I.128, T.155, R.157, Q.158, R.183, Y.184, R.188, D.201, K.221, A.224, L.225, A.228 Chain O: N.82 Ligands: U-U-U-U-U.13, U-U-U-U-U.15 Protein-ligand interaction information (PLIP) not available U-U-U-U-U.15: 23 residues within 4Å: Chain F: S.240 Chain N: R.183, V.187 Chain O: N.82, G.123, S.125, P.126, N.127, I.128, T.155, R.157, Q.158, R.183, Y.184, R.188, D.201, K.221, A.224, L.225, A.228 Chain P: N.82 Ligands: U-U-U-U-U.14, U-U-U-U-U.16 Protein-ligand interaction information (PLIP) not available U-U-U-U-U.16: 23 residues within 4Å: Chain G: S.240 Chain O: R.183, V.187 Chain P: N.82, G.123, S.125, P.126, N.127, I.128, T.155, R.157, Q.158, R.183, Y.184, R.188, D.201, K.221, A.224, L.225, A.228 Chain Q: N.82 Ligands: U-U-U-U-U.15, U-U-U-U-U.17 Protein-ligand interaction information (PLIP) not available U-U-U-U-U.17: 23 residues within 4Å: Chain H: S.240 Chain P: R.183, V.187 Chain Q: N.82, G.123, S.125, P.126, N.127, I.128, T.155, R.157, Q.158, R.183, Y.184, R.188, D.201, K.221, A.224, L.225, A.228 Chain R: N.82 Ligands: U-U-U-U-U.16, U-U-U-U-U.18 Protein-ligand interaction information (PLIP) not available U-U-U-U-U.18: 23 residues within 4Å: Chain I: S.240 Chain Q: R.183, V.187 Chain R: N.82, G.123, S.125, P.126, N.127, I.128, T.155, R.157, Q.158, R.183, Y.184, R.188, D.201, K.221, A.224, L.225, A.228 Chain S: N.82 Ligands: U-U-U-U-U.17, U-U-U-U-U.19 Protein-ligand interaction information (PLIP) not available U-U-U-U-U.19: 23 residues within 4Å: Chain J: S.240 Chain R: R.183, V.187 Chain S: N.82, G.123, S.125, P.126, N.127, I.128, T.155, R.157, Q.158, R.183, Y.184, R.188, D.201, K.221, A.224, L.225, A.228 Chain T: N.82 Ligands: U-U-U-U-U.18, U-U-U-U-U.20 Protein-ligand interaction information (PLIP) not available U-U-U-U-U.20: 23 residues within 4Å: Chain K: S.240 Chain S: R.183, V.187 Chain T: N.82, G.123, S.125, P.126, N.127, I.128, T.155, R.157, Q.158, R.183, Y.184, R.188, D.201, K.221, A.224, L.225, A.228 Chain U: N.82 Ligands: U-U-U-U-U.19, U-U-U-U-U.21 Protein-ligand interaction information (PLIP) not available U-U-U-U-U.21: 23 residues within 4Å: Chain L: S.240 Chain T: R.183, V.187 Chain U: N.82, G.123, S.125, P.126, N.127, I.128, T.155, R.157, Q.158, R.183, Y.184, R.188, D.201, K.221, A.224, L.225, A.228 Chain V: N.82 Ligands: U-U-U-U-U.20, U-U-U-U-U.22 Protein-ligand interaction information (PLIP) not available U-U-U-U-U.22: 23 residues within 4Å: Chain M: S.240 Chain U: R.183, V.187 Chain V: N.82, G.123, S.125, P.126, N.127, I.128, T.155, R.157, Q.158, R.183, Y.184, R.188, D.201, K.221, A.224, L.225, A.228 Chain W: N.82 Ligands: U-U-U-U-U.21, U-U-U-U-U.23 Protein-ligand interaction information (PLIP) not available U-U-U-U-U.23: 23 residues within 4Å: Chain N: S.240 Chain V: R.183, V.187 Chain W: N.82, G.123, S.125, P.126, N.127, I.128, T.155, R.157, Q.158, R.183, Y.184, R.188, D.201, K.221, A.224, L.225, A.228 Chain X: N.82 Ligands: U-U-U-U-U.22, U-U-U-U-U.24 Protein-ligand interaction information (PLIP) not available U-U-U-U-U.24: 23 residues within 4Å: Chain O: S.240 Chain W: R.183, V.187 Chain X: N.82, G.123, S.125, P.126, N.127, I.128, T.155, R.157, Q.158, R.183, Y.184, R.188, D.201, K.221, A.224, L.225, A.228 Chain Y: N.82 Ligands: U-U-U-U-U.23, U-U-U-U-U.25 Protein-ligand interaction information (PLIP) not available U-U-U-U-U.25: 23 residues within 4Å: Chain P: S.240 Chain X: R.183, V.187 Chain Y: N.82, G.123, S.125, P.126, N.127, I.128, T.155, R.157, Q.158, R.183, Y.184, R.188, D.201, K.221, A.224, L.225, A.228 Chain Z: N.82 Ligands: U-U-U-U-U.24, U-U-U-U-U.26 Protein-ligand interaction information (PLIP) not available U-U-U-U-U.26: 23 residues within 4Å: Chain 0: N.82 Chain Q: S.240 Chain Y: R.183, V.187 Chain Z: N.82, G.123, S.125, P.126, N.127, I.128, T.155, R.157, Q.158, R.183, Y.184, R.188, D.201, K.221, A.224, L.225, A.228 Ligands: U-U-U-U-U.25, U-U-U-U-U.27 Protein-ligand interaction information (PLIP) not available U-U-U-U-U.27: 23 residues within 4Å: Chain 0: N.82, G.123, S.125, P.126, N.127, I.128, T.155, R.157, Q.158, R.183, Y.184, R.188, D.201, K.221, A.224, L.225, A.228 Chain 1: N.82 Chain R: S.240 Chain Z: R.183, V.187 Ligands: U-U-U-U-U.26, U-U-U-U-U.28 Protein-ligand interaction information (PLIP) not available U-U-U-U-U.28: 23 residues within 4Å: Chain 0: R.183, V.187 Chain 1: N.82, G.123, S.125, P.126, N.127, I.128, T.155, R.157, Q.158, R.183, Y.184, R.188, D.201, K.221, A.224, L.225, A.228 Chain 2: N.82 Chain S: S.240 Ligands: U-U-U-U-U.27, U-U-U-U-U.29 Protein-ligand interaction information (PLIP) not available U-U-U-U-U.29: 23 residues within 4Å: Chain 1: R.183, V.187 Chain 2: N.82, G.123, S.125, P.126, N.127, I.128, T.155, R.157, Q.158, R.183, Y.184, R.188, D.201, K.221, A.224, L.225, A.228 Chain 3: N.82 Chain T: S.240 Ligands: U-U-U-U-U.28, U-U-U-U-U.30 Protein-ligand interaction information (PLIP) not available U-U-U-U-U.30: 23 residues within 4Å: Chain 2: R.183, V.187 Chain 3: N.82, G.123, S.125, P.126, N.127, I.128, T.155, R.157, Q.158, R.183, Y.184, R.188, D.201, K.221, A.224, L.225, A.228 Chain 4: N.82 Chain U: S.240 Ligands: U-U-U-U-U.29, U-U-U-U-U.31 Protein-ligand interaction information (PLIP) not available U-U-U-U-U.31: 23 residues within 4Å: Chain 3: R.183, V.187 Chain 4: N.82, G.123, S.125, P.126, N.127, I.128, T.155, R.157, Q.158, R.183, Y.184, R.188, D.201, K.221, A.224, L.225, A.228 Chain 5: N.82 Chain V: S.240 Ligands: U-U-U-U-U.30, U-U-U-U-U.32 Protein-ligand interaction information (PLIP) not available U-U-U-U-U.32: 23 residues within 4Å: Chain 4: R.183, V.187 Chain 5: N.82, G.123, S.125, P.126, N.127, I.128, T.155, R.157, Q.158, R.183, Y.184, R.188, D.201, K.221, A.224, L.225, A.228 Chain 6: N.82 Chain W: S.240 Ligands: U-U-U-U-U.31, U-U-U-U-U.33 Protein-ligand interaction information (PLIP) not available U-U-U-U-U.33: 23 residues within 4Å: Chain 5: R.183, V.187 Chain 6: N.82, G.123, S.125, P.126, N.127, I.128, T.155, R.157, Q.158, R.183, Y.184, R.188, D.201, K.221, A.224, L.225, A.228 Chain 7: N.82 Chain X: S.240 Ligands: U-U-U-U-U.32, U-U-U-U-U.34 Protein-ligand interaction information (PLIP) not available U-U-U-U-U.34: 23 residues within 4Å: Chain 6: R.183, V.187 Chain 7: N.82, G.123, S.125, P.126, N.127, I.128, T.155, R.157, Q.158, R.183, Y.184, R.188, D.201, K.221, A.224, L.225, A.228 Chain 8: N.82 Chain Y: S.240 Ligands: U-U-U-U-U.33, U-U-U-U-U.35 Protein-ligand interaction information (PLIP) not available U-U-U-U-U.35: 21 residues within 4Å: Chain 7: R.183, V.187 Chain 8: N.82, G.123, S.125, P.126, N.127, I.128, T.155, R.157, Q.158, R.183, Y.184, R.188, D.201, K.221, A.224, L.225, A.228 Chain Z: S.240 Ligands: U-U-U-U-U.34 Protein-ligand interaction information (PLIP) not available

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kezar, A. et al., Structural basis for the multitasking nature of the potato virus Y coat protein. Sci Adv (2019)

Release Date

2019-08-07

Peptides

Coat protein: ABCDEFGHIJKLMNOPQRSTUVWXYZ012345678

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
AA

B
AB

C
AC

D
AD

E
AE

F
AF

G
AG

H
AH

I
AI

J
AJ

K
AK

L
AL

M
AM

N
AN

O
AO

P
AP

Q
AQ

R
AR

S
AS

T
AT

U
AU

V
AV

W
AW

X
AX

Y
AY

Z
AZ

0
BA

1
BB

2
BC

3
BD

4
BE

5
BF

6
BG

7
BH

8
BI

Coat protein

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