SMTL ID : 3j82.1

Electron cryo-microscopy of DNGR-1 in complex with F-actin

Coordinates

PDB Format

Method

ELECTRON MICROSCOPY

Oligo State

hetero-1-3-mer

Ligands

1 x CA: CALCIUM ION(Non-covalent)

CA.1: 3 residues within 4Å: Chain A: Q.41, E.47, E.123 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:E.123, A:E.123

3 x ADP: ADENOSINE-5'-DIPHOSPHATE(Non-covalent)

ADP.2: 10 residues within 4Å: Chain B: G.155, D.156, G.157, K.212, G.300, G.301, T.302, M.304, Y.305, K.335 7 PLIP interactions: 7 interactions with chain B Hydrogen bonds: B:D.156, B:D.156, B:G.157, B:K.212, B:T.302 Salt bridges: B:K.335 pi-Stacking: B:Y.305 ADP.3: 10 residues within 4Å: Chain C: G.155, D.156, G.157, K.212, G.300, G.301, T.302, M.304, Y.305, K.335 9 PLIP interactions: 9 interactions with chain C Hydrogen bonds: C:D.156, C:D.156, C:G.157, C:K.212, C:G.301, C:T.302 Salt bridges: C:K.17, C:K.335 pi-Stacking: C:Y.305 ADP.4: 10 residues within 4Å: Chain D: G.155, D.156, G.157, K.212, G.300, G.301, T.302, M.304, Y.305, K.335 8 PLIP interactions: 8 interactions with chain D Hydrogen bonds: D:D.156, D:D.156, D:G.157, D:K.212, D:G.301, D:T.302 Salt bridges: D:K.335 pi-Stacking: D:Y.305

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Hanc, P. et al., Structure of the Complex of F-Actin and DNGR-1, a C-Type Lectin Receptor Involved in Dendritic Cell Cross-Presentation of Dead Cell-Associated Antigens. Immunity (2015)

Release Date

2015-05-20

Peptides

C-type lectin domain family 9 member A: A
Actin, cytoplasmic 1: BCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

C-type lectin domain family 9 member A

Actin, cytoplasmic 1

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