SMTL ID : 4ddj.1

Crystal structure of saposin A in complex with lauryldimethylamine-N-oxide (LDAO)

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

homo-dimer

Ligands

40 x LDA: LAURYL DIMETHYLAMINE-N-OXIDE(Non-covalent)(Non-functional Binders)

LDA.1: 7 residues within 4Å: Chain A: Y.32, L.33, K.35, T.36, W.39 Ligands: LDA.7, LDA.8 Ligand excluded by PLIP LDA.2: 9 residues within 4Å: Chain A: M.19, D.22, T.25, E.28, I.29, I.64 Ligands: LDA.3, LDA.9, LDA.19 Ligand excluded by PLIP LDA.3: 8 residues within 4Å: Chain A: E.28, Y.32, L.33, L.57, I.60 Ligands: LDA.2, LDA.7, LDA.9 Ligand excluded by PLIP LDA.4: 9 residues within 4Å: Chain A: L.78, N.79, L.80 Chain B: Y.56 Ligands: LDA.5, LDA.6, LDA.14, LDA.15, LDA.37 Ligand excluded by PLIP LDA.5: 9 residues within 4Å: Chain A: A.77, L.78, N.79 Chain B: I.52, Y.56 Ligands: LDA.4, LDA.10, LDA.37, LDA.38 Ligand excluded by PLIP LDA.6: 5 residues within 4Å: Chain A: V.12, L.80 Chain B: S.48 Ligands: LDA.4, LDA.15 Ligand excluded by PLIP LDA.7: 6 residues within 4Å: Chain A: Y.32 Ligands: LDA.1, LDA.3, LDA.8, LDA.9, LDA.29 Ligand excluded by PLIP LDA.8: 8 residues within 4Å: Chain A: W.39 Ligands: LDA.1, LDA.7, LDA.29, LDA.31, LDA.32, LDA.34, LDA.39 Ligand excluded by PLIP LDA.9: 6 residues within 4Å: Ligands: LDA.2, LDA.3, LDA.7, LDA.19, LDA.27, LDA.28 Ligand excluded by PLIP LDA.10: 6 residues within 4Å: Chain A: A.77, L.78 Ligands: LDA.5, LDA.11, LDA.16, LDA.38 Ligand excluded by PLIP LDA.11: 10 residues within 4Å: Chain A: E.67, R.70, E.73, V.74, A.77 Ligands: LDA.10, LDA.12, LDA.13, LDA.16, LDA.28 Ligand excluded by PLIP LDA.12: 7 residues within 4Å: Chain A: E.67, M.68 Ligands: LDA.11, LDA.13, LDA.16, LDA.19, LDA.28 Ligand excluded by PLIP LDA.13: 9 residues within 4Å: Chain A: V.12, A.15, A.16, M.68 Ligands: LDA.11, LDA.12, LDA.14, LDA.15, LDA.19 Ligand excluded by PLIP LDA.14: 6 residues within 4Å: Chain B: W.39 Ligands: LDA.4, LDA.13, LDA.15, LDA.28, LDA.37 Ligand excluded by PLIP LDA.15: 9 residues within 4Å: Chain A: V.12 Chain B: L.40, M.45 Ligands: LDA.4, LDA.6, LDA.13, LDA.14, LDA.37, LDA.40 Ligand excluded by PLIP LDA.16: 3 residues within 4Å: Ligands: LDA.10, LDA.11, LDA.12 Ligand excluded by PLIP LDA.17: 8 residues within 4Å: Chain A: T.36, W.39, C.49, V.53 Ligands: LDA.24, LDA.25, LDA.34, LDA.35 Ligand excluded by PLIP LDA.18: 7 residues within 4Å: Chain A: Y.56, V.59, I.60, I.63, I.64 Ligands: LDA.25, LDA.30 Ligand excluded by PLIP LDA.19: 7 residues within 4Å: Chain A: M.19, L.20 Ligands: LDA.2, LDA.9, LDA.12, LDA.13, LDA.28 Ligand excluded by PLIP LDA.20: 6 residues within 4Å: Chain A: P.41, M.45 Chain B: D.11, V.12, A.15 Ligands: LDA.35 Ligand excluded by PLIP LDA.21: 7 residues within 4Å: Chain B: Y.32, L.33, K.35, T.36, W.39 Ligands: LDA.27, LDA.28 Ligand excluded by PLIP LDA.22: 9 residues within 4Å: Chain B: M.19, D.22, T.25, E.28, I.29, I.64 Ligands: LDA.23, LDA.29, LDA.39 Ligand excluded by PLIP LDA.23: 8 residues within 4Å: Chain B: E.28, Y.32, L.33, L.57, I.60 Ligands: LDA.22, LDA.27, LDA.29 Ligand excluded by PLIP LDA.24: 9 residues within 4Å: Chain A: Y.56 Chain B: L.78, N.79, L.80 Ligands: LDA.17, LDA.25, LDA.26, LDA.34, LDA.35 Ligand excluded by PLIP LDA.25: 9 residues within 4Å: Chain A: I.52, Y.56 Chain B: A.77, L.78, N.79 Ligands: LDA.17, LDA.18, LDA.24, LDA.30 Ligand excluded by PLIP LDA.26: 5 residues within 4Å: Chain A: S.48 Chain B: V.12, L.80 Ligands: LDA.24, LDA.35 Ligand excluded by PLIP LDA.27: 6 residues within 4Å: Chain B: Y.32 Ligands: LDA.9, LDA.21, LDA.23, LDA.28, LDA.29 Ligand excluded by PLIP LDA.28: 8 residues within 4Å: Chain B: W.39 Ligands: LDA.9, LDA.11, LDA.12, LDA.14, LDA.19, LDA.21, LDA.27 Ligand excluded by PLIP LDA.29: 6 residues within 4Å: Ligands: LDA.7, LDA.8, LDA.22, LDA.23, LDA.27, LDA.39 Ligand excluded by PLIP LDA.30: 6 residues within 4Å: Chain B: A.77, L.78 Ligands: LDA.18, LDA.25, LDA.31, LDA.36 Ligand excluded by PLIP LDA.31: 10 residues within 4Å: Chain B: E.67, R.70, E.73, V.74, A.77 Ligands: LDA.8, LDA.30, LDA.32, LDA.33, LDA.36 Ligand excluded by PLIP LDA.32: 7 residues within 4Å: Chain B: E.67, M.68 Ligands: LDA.8, LDA.31, LDA.33, LDA.36, LDA.39 Ligand excluded by PLIP LDA.33: 9 residues within 4Å: Chain B: V.12, A.15, A.16, M.68 Ligands: LDA.31, LDA.32, LDA.34, LDA.35, LDA.39 Ligand excluded by PLIP LDA.34: 6 residues within 4Å: Chain A: W.39 Ligands: LDA.8, LDA.17, LDA.24, LDA.33, LDA.35 Ligand excluded by PLIP LDA.35: 9 residues within 4Å: Chain A: L.40, M.45 Chain B: V.12 Ligands: LDA.17, LDA.20, LDA.24, LDA.26, LDA.33, LDA.34 Ligand excluded by PLIP LDA.36: 3 residues within 4Å: Ligands: LDA.30, LDA.31, LDA.32 Ligand excluded by PLIP LDA.37: 8 residues within 4Å: Chain B: T.36, W.39, C.49, V.53 Ligands: LDA.4, LDA.5, LDA.14, LDA.15 Ligand excluded by PLIP LDA.38: 7 residues within 4Å: Chain B: Y.56, V.59, I.60, I.63, I.64 Ligands: LDA.5, LDA.10 Ligand excluded by PLIP LDA.39: 7 residues within 4Å: Chain B: M.19, L.20 Ligands: LDA.8, LDA.22, LDA.29, LDA.32, LDA.33 Ligand excluded by PLIP LDA.40: 6 residues within 4Å: Chain A: D.11, V.12, A.15 Chain B: P.41, M.45 Ligands: LDA.15 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Popovic, K. et al., Structure of saposin A lipoprotein discs. Proc.Natl.Acad.Sci.USA (2012)

Release Date

2012-02-15

Peptides

Saposin-A: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Saposin-A

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