SMTL ID : 6uio.1

Crystal structure of mouse CRES (Cystatin-Related Epididymal Spermatogenic)

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.83 Å

Oligo State

homo-tetramer

Ligands

22 x IOD: IODIDE ION(Non-functional Binders)

IOD.1: 4 residues within 4Å: Chain A: F.21, E.25, N.103, L.104 Ligand excluded by PLIP IOD.2: 4 residues within 4Å: Chain A: N.14, P.97, W.98 Chain B: A.13 Ligand excluded by PLIP IOD.13: 7 residues within 4Å: Chain B: N.12, N.14, L.46, M.52, Y.54 Chain D: A.13, K.16 Ligand excluded by PLIP IOD.14: 4 residues within 4Å: Chain B: I.8, N.9 Chain D: S.11, K.16 Ligand excluded by PLIP IOD.15: 4 residues within 4Å: Chain B: N.27, K.28, K.67, P.68 Ligand excluded by PLIP IOD.16: 4 residues within 4Å: Chain B: Y.26, K.107, E.108, C.109 Ligand excluded by PLIP IOD.17: 5 residues within 4Å: Chain A: I.8, N.9, N.12 Chain B: S.11, K.16 Ligand excluded by PLIP IOD.18: 4 residues within 4Å: Chain B: N.14, P.97, W.98 Chain D: A.13 Ligand excluded by PLIP IOD.19: 2 residues within 4Å: Chain B: D.39, K.40 Ligand excluded by PLIP IOD.29: 6 residues within 4Å: Chain C: C.65, L.69, N.70, N.71, E.73, C.75 Ligand excluded by PLIP IOD.30: 5 residues within 4Å: Chain C: K.24, N.27, L.69 Chain D: D.50 Ligands: I2I.37 Ligand excluded by PLIP IOD.31: 6 residues within 4Å: Chain A: A.13, K.16 Chain C: N.12, N.14, M.52, Y.54 Ligand excluded by PLIP IOD.32: 6 residues within 4Å: Chain C: R.51, G.94, A.95, L.96, E.101, N.103 Ligand excluded by PLIP IOD.33: 4 residues within 4Å: Chain C: Y.26, K.107, E.108, C.109 Ligand excluded by PLIP IOD.34: 4 residues within 4Å: Chain C: L.104, L.105, S.106, K.107 Ligand excluded by PLIP IOD.35: 4 residues within 4Å: Chain C: S.11, K.16 Chain D: I.8, N.9 Ligand excluded by PLIP IOD.36: 8 residues within 4Å: Chain C: A.13, K.16 Chain D: I.8, N.12, N.14, L.46, M.52, Y.54 Ligand excluded by PLIP IOD.48: 1 residues within 4Å: Chain D: K.80 Ligand excluded by PLIP IOD.49: 6 residues within 4Å: Chain D: N.27, K.28, V.35, K.67, P.68, L.69 Ligand excluded by PLIP IOD.50: 6 residues within 4Å: Chain D: R.51, G.94, A.95, L.96, E.101, N.103 Ligand excluded by PLIP IOD.51: 6 residues within 4Å: Chain D: Q.55, S.90, L.92, S.106, K.107, E.108 Ligand excluded by PLIP IOD.52: 4 residues within 4Å: Chain D: Y.26, K.107, E.108, C.109 Ligand excluded by PLIP

2 x I2I: molecular iodine(Non-covalent)

I2I.3: 9 residues within 4Å: Chain A: I.8, N.12, N.14, V.15, L.46, M.52, Y.54 Chain B: A.13, K.16 No protein-ligand interaction detected (PLIP) I2I.37: 7 residues within 4Å: Chain C: N.27, K.28, V.35, K.67, P.68, L.69 Ligands: IOD.30 No protein-ligand interaction detected (PLIP)

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

SO4.4: 2 residues within 4Å: Chain A: K.28, E.29 Ligand excluded by PLIP SO4.5: 3 residues within 4Å: Chain A: K.33, Y.34, L.83 Ligand excluded by PLIP SO4.6: 11 residues within 4Å: Chain A: K.16, V.19, V.38, K.40, I.41 Chain C: Y.4, G.6, L.46, Q.47, I.48 Ligands: CL.10 Ligand excluded by PLIP SO4.7: 6 residues within 4Å: Chain A: S.88, C.89, S.90, E.108, C.109, K.110 Ligand excluded by PLIP SO4.8: 7 residues within 4Å: Chain A: K.24, N.27, V.35, K.67, L.69 Chain C: T.49, D.50 Ligand excluded by PLIP SO4.9: 6 residues within 4Å: Chain A: Y.34, N.64, K.66, Q.78, K.80, L.83 Ligand excluded by PLIP SO4.20: 7 residues within 4Å: Chain A: L.46, Q.47, I.48 Chain B: V.19, V.38, K.40, I.41 Ligand excluded by PLIP SO4.21: 3 residues within 4Å: Chain B: G.6, S.7, K.45 Ligand excluded by PLIP SO4.22: 3 residues within 4Å: Chain B: K.80, E.82, L.83 Ligand excluded by PLIP SO4.38: 4 residues within 4Å: Chain A: A.13 Chain C: N.14, P.97, W.98 Ligand excluded by PLIP SO4.39: 2 residues within 4Å: Chain C: R.62, K.85 Ligand excluded by PLIP SO4.40: 4 residues within 4Å: Chain C: D.39, K.40, Q.59, K.86 Ligand excluded by PLIP SO4.53: 5 residues within 4Å: Chain D: E.29, L.104, L.105, S.106, K.107 Ligand excluded by PLIP SO4.54: 2 residues within 4Å: Chain D: G.6, S.7 Ligand excluded by PLIP SO4.55: 5 residues within 4Å: Chain C: N.71, T.72 Chain D: L.92, L.105, S.106 Ligand excluded by PLIP SO4.56: 4 residues within 4Å: Chain D: I.8, N.9, I.10, S.11 Ligand excluded by PLIP SO4.57: 6 residues within 4Å: Chain B: G.6, I.8, L.46, I.48 Chain D: K.16, I.41 Ligand excluded by PLIP SO4.58: 2 residues within 4Å: Chain D: R.62, K.85 Ligand excluded by PLIP

8 x CL: CHLORIDE ION(Non-functional Binders)

CL.10: 4 residues within 4Å: Chain A: K.40, I.41 Chain C: G.6 Ligands: SO4.6 Ligand excluded by PLIP CL.11: 3 residues within 4Å: Chain A: Y.26, M.87, C.109 Ligand excluded by PLIP CL.12: 3 residues within 4Å: Chain A: L.96, N.99, E.101 Ligand excluded by PLIP CL.23: 2 residues within 4Å: Chain B: L.92 Chain D: N.74 Ligand excluded by PLIP CL.24: 3 residues within 4Å: Chain B: L.96, N.99, E.101 Ligand excluded by PLIP CL.25: 5 residues within 4Å: Chain B: R.51, G.94, A.95, E.101, N.103 Ligand excluded by PLIP CL.41: 3 residues within 4Å: Chain C: D.32, K.33, Y.34 Ligand excluded by PLIP CL.42: 3 residues within 4Å: Chain C: R.51, N.103, L.105 Ligand excluded by PLIP

2 x MES: 2-(N-MORPHOLINO)-ETHANESULFONIC ACID(Non-covalent)

MES.26: 8 residues within 4Å: Chain B: Y.34, N.64, K.66, I.76, Q.78, K.79, K.80, L.83 7 PLIP interactions: 7 interactions with chain B Hydrogen bonds: B:N.64, B:Q.78, B:K.79, B:K.80, B:K.80 Salt bridges: B:K.79, B:K.80 MES.43: 7 residues within 4Å: Chain C: Y.34, N.64, I.76, Q.78, K.79, K.80, L.83 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:Q.78 Salt bridges: C:K.80

6 x NA: SODIUM ION(Non-functional Binders)

NA.27: 3 residues within 4Å: Chain B: I.10, K.16, I.41 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:K.16 NA.28: 5 residues within 4Å: Chain B: D.50 Chain D: K.24, N.27, V.35, L.69 1 PLIP interactions: 1 interactions with chain D Water bridges: D:N.27 NA.44: 6 residues within 4Å: Chain C: S.90, F.91, L.92, S.106, K.107, E.108 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:S.106 NA.45: 2 residues within 4Å: Chain C: S.7, K.45 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:S.7, C:K.45 NA.46: 4 residues within 4Å: Chain C: A.13 Chain D: N.14, P.97, W.98 2 PLIP interactions: 2 interactions with chain D Hydrogen bonds: D:N.14, D:N.14 NA.47: 4 residues within 4Å: Chain C: Q.47, T.49, R.51, E.53 4 PLIP interactions: 4 interactions with chain C Hydrogen bonds: C:Q.47, C:T.49, C:E.53, C:E.53

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Hewetson, A. et al., Maturation of the functional mouse CRES amyloid from globular form. Proc.Natl.Acad.Sci.USA (2020)

Release Date

2020-07-01

Peptides

Cystatin-8: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

B
C

C
D

D
A

Cystatin-8