SMTL ID : 5ixx.1

Crystal structure of the signaling protein complex 4

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.35 Å

Oligo State

homo-dimer

Ligands

2 x HEM: PROTOPORPHYRIN IX CONTAINING FE(Covalent)

HEM.1: 24 residues within 4Å: Chain A: M.1, Y.2, V.5, W.74, T.78, Y.83, L.87, F.97, L.101, L.104, H.105, V.108, L.115, R.116, P.118, F.120, Y.134, S.136, R.138, L.141, M.144, V.145, L.148 Ligands: 6EX.2 30 PLIP interactions: 30 interactions with chain A, Hydrophobic interactions: A:V.5, A:W.74, A:T.78, A:Y.83, A:L.87, A:F.97, A:L.101, A:L.101, A:L.104, A:V.108, A:V.108, A:L.115, A:L.115, A:P.118, A:F.120, A:Y.134, A:L.141, A:V.145, A:L.148, A:L.148, A:L.148 Hydrogen bonds: A:Y.2, A:R.116, A:R.116, A:R.116, A:Y.134 Water bridges: A:M.1 Salt bridges: A:R.138, A:R.138 Metal complexes: A:H.105 HEM.4: 24 residues within 4Å: Chain B: M.1, Y.2, V.5, W.74, T.78, Y.83, L.87, F.97, L.101, L.104, H.105, V.108, L.115, R.116, P.118, F.120, Y.134, S.136, R.138, L.141, M.144, V.145, L.148 Ligands: 6EX.5 26 PLIP interactions: 26 interactions with chain B, Hydrophobic interactions: B:V.5, B:W.74, B:T.78, B:Y.83, B:L.87, B:F.97, B:L.101, B:L.104, B:V.108, B:V.108, B:L.115, B:P.118, B:F.120, B:F.120, B:L.141, B:V.145, B:L.148, B:L.148 Hydrogen bonds: B:Y.2, B:R.116, B:R.116, B:R.116 Water bridges: B:R.138 Salt bridges: B:R.138, B:R.138 Metal complexes: B:H.105

2 x 6EX: 1-(1H-imidazol-1-yl)ethan-1-one(Non-covalent)

6EX.2: 7 residues within 4Å: Chain A: V.5, F.70, W.74, H.105, M.144, L.148 Ligands: HEM.1 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:V.5, A:F.70 pi-Stacking: A:W.74 6EX.5: 7 residues within 4Å: Chain B: V.5, F.70, W.74, H.105, M.144, L.148 Ligands: HEM.4 1 PLIP interactions: 1 interactions with chain B Hydrophobic interactions: B:V.5

1 x MLI: MALONATE ION(Non-functional Binders)

MLI.3: 6 residues within 4Å: Chain A: M.12, H.16, H.17, K.61, L.66, A.69 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:L.66, A:A.69 Salt bridges: A:H.16, A:H.17, A:H.17, A:K.61

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kumar, V. et al., Crystal structure of the signaling protein complex 4. To Be Published

Release Date

2017-08-09

Peptides

Alr2278 protein: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Alr2278 protein

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