SMTL ID : 3me4.1

Crystal structure of mouse RANK

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.01 Å

Oligo State

homo-dimer

Ligands

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

NA.1: 5 residues within 4Å: Chain A: C.132, A.133, F.136, S.159, V.161 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:A.133, A:S.159 Water bridges: A:S.163 NA.11: 6 residues within 4Å: Chain B: C.132, A.133, P.134, F.136, S.159, V.161 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:S.159, B:S.159

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

CL.2: 4 residues within 4Å: Chain A: Y.75, H.88, P.108, R.109 Ligand excluded by PLIP CL.12: 3 residues within 4Å: Chain B: C.132, A.133, F.136 Ligand excluded by PLIP CL.13: 4 residues within 4Å: Chain B: Y.75, H.88, K.89, R.109 Ligand excluded by PLIP

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

SO4.3: 4 residues within 4Å: Chain A: L.155, T.186, T.187, E.188 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:T.187 SO4.4: 3 residues within 4Å: Chain A: A.182, H.183, Q.184 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Q.184 Salt bridges: A:H.183

4 x GOL: GLYCEROL(Non-functional Binders)

GOL.5: 6 residues within 4Å: Chain A: W.171, T.172, N.173, C.174, T.175, E.181 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:W.171, A:C.174, A:T.175, A:T.175, A:T.175 GOL.6: 8 residues within 4Å: Chain A: H.88, V.100, D.101, N.104, A.107, P.108, R.109, R.110 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:V.100, A:N.104, A:A.107, A:R.110 GOL.7: 4 residues within 4Å: Chain A: G.94, K.95, Y.117, C.126 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:K.95 Water bridges: A:Y.117, A:R.128 GOL.8: 6 residues within 4Å: Chain A: Q.139, H.140, P.141, Q.143, V.149 Chain B: W.119 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:Q.139, A:Q.139, A:Q.143 Water bridges: A:Q.139, A:Q.143

2 x ACT: ACETATE ION(Non-functional Binders)

ACT.9: 4 residues within 4Å: Chain A: Y.54, E.74, K.84, C.85 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:C.85 ACT.10: 2 residues within 4Å: Chain A: L.154, F.157 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:F.157 Water bridges: A:C.168, A:C.168

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Liu, C. et al., Structural and Functional Insights of RANKL-RANK Interaction and Signaling. J.Immunol. (2010)

Release Date

2010-06-02

Peptides

Tumor necrosis factor receptor superfamily member 11A: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Tumor necrosis factor receptor superfamily member 11A

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