SMTL ID : 4ymd.1 (1 other biounit)

CL-K1 trimer bound to man(alpha1-2)man

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.87 Å

Oligo State

homo-trimer

Ligands

2 x MAN- MAN: alpha-D-mannopyranose-(1-2)-alpha-D-mannopyranose(Non-covalent)

MAN-MAN.1: 9 residues within 4Å: Chain A: R.85, E.117, N.119, A.121, E.125, E.129, N.137, D.138 Ligands: CA.4 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.85, A:E.129, A:N.137 MAN-MAN.2: 9 residues within 4Å: Chain B: R.85, R.114, E.117, N.119, E.125, E.129, N.137, D.138 Ligands: CA.8 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:R.85, B:R.114, B:R.114, B:E.129

9 x CA: CALCIUM ION(Non-covalent)

CA.3: 6 residues within 4Å: Chain A: D.92, E.96, N.120, E.125, D.126 Ligands: CA.5 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.92, A:E.96, A:E.125, A:D.126, H2O.1 CA.4: 6 residues within 4Å: Chain A: E.117, N.119, E.125, N.137, D.138 Ligands: MAN-MAN.1 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:E.117, A:E.125, A:D.138, A:D.138 CA.5: 7 residues within 4Å: Chain A: E.96, N.120, D.123, E.125, D.126 Ligands: CA.3, GOL.6 3 PLIP interactions: 2 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.126, A:D.126, H2O.1 CA.7: 6 residues within 4Å: Chain B: D.92, E.96, N.120, E.125, D.126 Ligands: CA.9 5 PLIP interactions: 4 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:D.92, B:E.96, B:E.125, B:D.126, H2O.1 CA.8: 6 residues within 4Å: Chain B: E.117, N.119, E.125, N.137, D.138 Ligands: MAN-MAN.2 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:E.117, B:E.125, B:D.138, B:D.138 CA.9: 6 residues within 4Å: Chain B: E.96, N.120, D.123, D.126 Ligands: CA.7, GOL.10 3 PLIP interactions: 3 interactions with chain B Metal complexes: B:E.96, B:D.123, B:D.126 CA.12: 6 residues within 4Å: Chain C: D.92, E.96, N.120, E.125, D.126 Ligands: CA.14 5 PLIP interactions: 5 interactions with chain C Metal complexes: C:D.92, C:D.92, C:E.96, C:E.96, C:E.125 CA.13: 6 residues within 4Å: Chain C: E.117, N.119, E.125, N.137, D.138 Ligands: GOL.11 4 PLIP interactions: 4 interactions with chain C Metal complexes: C:E.117, C:E.125, C:D.138, C:D.138 CA.14: 6 residues within 4Å: Chain C: E.96, N.120, D.123, D.126 Ligands: CA.12, GOL.15 2 PLIP interactions: 2 interactions with chain C Metal complexes: C:E.96, C:D.126

4 x GOL: GLYCEROL(Non-functional Binders)

GOL.6: 6 residues within 4Å: Chain A: D.92, L.93, E.94, E.96, D.126 Ligands: CA.5 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:D.92, A:E.94, A:E.96 GOL.10: 5 residues within 4Å: Chain B: D.92, L.93, E.96, D.126 Ligands: CA.9 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:L.93 GOL.11: 7 residues within 4Å: Chain C: E.117, N.119, E.125, N.137, D.138, V.139 Ligands: CA.13 3 PLIP interactions: 3 interactions with chain C Hydrogen bonds: C:N.119, C:N.137, C:N.137 GOL.15: 6 residues within 4Å: Chain C: D.92, L.93, E.94, E.96, D.126 Ligands: CA.14 3 PLIP interactions: 3 interactions with chain C Hydrogen bonds: C:E.96, C:E.96, C:E.96

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Girija, U.V. et al., Molecular basis of sugar recognition by collectin-K1 and the effects of mutations associated with 3MC syndrome. Bmc Biol. (2015)

Release Date

2015-04-08

Peptides

Collectin-11: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

Collectin-11

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