SMTL ID : 3ij3.1 (2 other biounits)

1.8 Angstrom Resolution Crystal Structure of Cytosol Aminopeptidase from Coxiella burnetii

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

homo-hexamer

Ligands

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

CL.1: 5 residues within 4Å: Chain A: L.176, I.177, T.179, K.271, M.274 Ligand excluded by PLIP CL.17: 5 residues within 4Å: Chain B: L.176, I.177, T.179, K.271, M.274 Ligand excluded by PLIP CL.33: 5 residues within 4Å: Chain C: L.176, I.177, T.179, K.271, M.274 Ligand excluded by PLIP CL.49: 5 residues within 4Å: Chain D: L.176, I.177, T.179, K.271, M.274 Ligand excluded by PLIP CL.65: 5 residues within 4Å: Chain E: L.176, I.177, T.179, K.271, M.274 Ligand excluded by PLIP CL.81: 5 residues within 4Å: Chain F: L.176, I.177, T.179, K.271, M.274 Ligand excluded by PLIP

6 x LI: LITHIUM ION(Non-covalent)

LI.2: 6 residues within 4Å: Chain A: K.250, D.255, D.273, E.334, T.361 Ligands: SO4.3 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.255, A:D.273, A:E.334, H2O.1 LI.18: 6 residues within 4Å: Chain B: K.250, D.255, D.273, E.334, T.361 Ligands: SO4.19 4 PLIP interactions: 3 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:D.255, B:D.273, B:E.334, H2O.17 LI.34: 6 residues within 4Å: Chain C: K.250, D.255, D.273, E.334, T.361 Ligands: SO4.35 4 PLIP interactions: 3 interactions with chain C, 1 Ligand-Water interactions Metal complexes: C:D.255, C:D.273, C:E.334, H2O.32 LI.50: 6 residues within 4Å: Chain D: K.250, D.255, D.273, E.334, T.361 Ligands: SO4.51 4 PLIP interactions: 3 interactions with chain D, 1 Ligand-Water interactions Metal complexes: D:D.255, D:D.273, D:E.334, H2O.48 LI.66: 6 residues within 4Å: Chain E: K.250, D.255, D.273, E.334, T.361 Ligands: SO4.67 4 PLIP interactions: 3 interactions with chain E, 1 Ligand-Water interactions Metal complexes: E:D.255, E:D.273, E:E.334, H2O.64 LI.82: 6 residues within 4Å: Chain F: K.250, D.255, D.273, E.334, T.361 Ligands: SO4.83 4 PLIP interactions: 3 interactions with chain F, 1 Ligand-Water interactions Metal complexes: F:D.255, F:D.273, F:E.334, H2O.79

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

SO4.3: 10 residues within 4Å: Chain A: K.250, D.332, A.333, E.334, G.335, R.336, S.358, T.359, R.365 Ligands: LI.2 Ligand excluded by PLIP SO4.4: 10 residues within 4Å: Chain A: G.308, S.309, R.310 Chain B: G.308, S.309, R.310 Chain C: G.308, S.309 Ligands: SO4.20, SO4.36 Ligand excluded by PLIP SO4.5: 6 residues within 4Å: Chain A: R.336, R.365, S.420, S.421, G.427, T.430 Ligand excluded by PLIP SO4.6: 5 residues within 4Å: Chain A: K.203, K.236, I.240, R.295, E.349 Ligand excluded by PLIP SO4.7: 3 residues within 4Å: Chain A: K.161, R.162, Q.290 Ligand excluded by PLIP SO4.19: 10 residues within 4Å: Chain B: K.250, D.332, A.333, E.334, G.335, R.336, S.358, T.359, R.365 Ligands: LI.18 Ligand excluded by PLIP SO4.20: 10 residues within 4Å: Chain A: G.308, S.309 Chain B: G.308, S.309, R.310 Chain C: G.308, S.309, R.310 Ligands: SO4.4, SO4.36 Ligand excluded by PLIP SO4.21: 6 residues within 4Å: Chain B: R.336, R.365, S.420, S.421, G.427, T.430 Ligand excluded by PLIP SO4.22: 5 residues within 4Å: Chain B: K.203, K.236, I.240, R.295, E.349 Ligand excluded by PLIP SO4.23: 3 residues within 4Å: Chain B: K.161, R.162, Q.290 Ligand excluded by PLIP SO4.35: 10 residues within 4Å: Chain C: K.250, D.332, A.333, E.334, G.335, R.336, S.358, T.359, R.365 Ligands: LI.34 Ligand excluded by PLIP SO4.36: 10 residues within 4Å: Chain A: G.308, S.309, R.310 Chain B: G.308, S.309 Chain C: G.308, S.309, R.310 Ligands: SO4.4, SO4.20 Ligand excluded by PLIP SO4.37: 6 residues within 4Å: Chain C: R.336, R.365, S.420, S.421, G.427, T.430 Ligand excluded by PLIP SO4.38: 5 residues within 4Å: Chain C: K.203, K.236, I.240, R.295, E.349 Ligand excluded by PLIP SO4.39: 3 residues within 4Å: Chain C: K.161, R.162, Q.290 Ligand excluded by PLIP SO4.51: 10 residues within 4Å: Chain D: K.250, D.332, A.333, E.334, G.335, R.336, S.358, T.359, R.365 Ligands: LI.50 Ligand excluded by PLIP SO4.52: 10 residues within 4Å: Chain D: G.308, S.309, R.310 Chain E: G.308, S.309, R.310 Chain F: G.308, S.309 Ligands: SO4.68, SO4.84 Ligand excluded by PLIP SO4.53: 6 residues within 4Å: Chain D: R.336, R.365, S.420, S.421, G.427, T.430 Ligand excluded by PLIP SO4.54: 5 residues within 4Å: Chain D: K.203, K.236, I.240, R.295, E.349 Ligand excluded by PLIP SO4.55: 3 residues within 4Å: Chain D: K.161, R.162, Q.290 Ligand excluded by PLIP SO4.67: 10 residues within 4Å: Chain E: K.250, D.332, A.333, E.334, G.335, R.336, S.358, T.359, R.365 Ligands: LI.66 Ligand excluded by PLIP SO4.68: 10 residues within 4Å: Chain D: G.308, S.309 Chain E: G.308, S.309, R.310 Chain F: G.308, S.309, R.310 Ligands: SO4.52, SO4.84 Ligand excluded by PLIP SO4.69: 6 residues within 4Å: Chain E: R.336, R.365, S.420, S.421, G.427, T.430 Ligand excluded by PLIP SO4.70: 5 residues within 4Å: Chain E: K.203, K.236, I.240, R.295, E.349 Ligand excluded by PLIP SO4.71: 3 residues within 4Å: Chain E: K.161, R.162, Q.290 Ligand excluded by PLIP SO4.83: 10 residues within 4Å: Chain F: K.250, D.332, A.333, E.334, G.335, R.336, S.358, T.359, R.365 Ligands: LI.82 Ligand excluded by PLIP SO4.84: 10 residues within 4Å: Chain D: G.308, S.309, R.310 Chain E: G.308, S.309 Chain F: G.308, S.309, R.310 Ligands: SO4.52, SO4.68 Ligand excluded by PLIP SO4.85: 6 residues within 4Å: Chain F: R.336, R.365, S.420, S.421, G.427, T.430 Ligand excluded by PLIP SO4.86: 5 residues within 4Å: Chain F: K.203, K.236, I.240, R.295, E.349 Ligand excluded by PLIP SO4.87: 3 residues within 4Å: Chain F: K.161, R.162, Q.290 Ligand excluded by PLIP

18 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.8: 4 residues within 4Å: Chain A: R.407, L.410, K.411, H.437 Ligand excluded by PLIP EDO.9: 3 residues within 4Å: Chain A: S.147, P.148, Y.149 Ligand excluded by PLIP EDO.10: 3 residues within 4Å: Chain A: T.214, E.215, T.320 Ligand excluded by PLIP EDO.24: 4 residues within 4Å: Chain B: R.407, L.410, K.411, H.437 Ligand excluded by PLIP EDO.25: 3 residues within 4Å: Chain B: S.147, P.148, Y.149 Ligand excluded by PLIP EDO.26: 3 residues within 4Å: Chain B: T.214, E.215, T.320 Ligand excluded by PLIP EDO.40: 4 residues within 4Å: Chain C: R.407, L.410, K.411, H.437 Ligand excluded by PLIP EDO.41: 3 residues within 4Å: Chain C: S.147, P.148, Y.149 Ligand excluded by PLIP EDO.42: 3 residues within 4Å: Chain C: T.214, E.215, T.320 Ligand excluded by PLIP EDO.56: 4 residues within 4Å: Chain D: R.407, L.410, K.411, H.437 Ligand excluded by PLIP EDO.57: 3 residues within 4Å: Chain D: S.147, P.148, Y.149 Ligand excluded by PLIP EDO.58: 3 residues within 4Å: Chain D: T.214, E.215, T.320 Ligand excluded by PLIP EDO.72: 4 residues within 4Å: Chain E: R.407, L.410, K.411, H.437 Ligand excluded by PLIP EDO.73: 3 residues within 4Å: Chain E: S.147, P.148, Y.149 Ligand excluded by PLIP EDO.74: 3 residues within 4Å: Chain E: T.214, E.215, T.320 Ligand excluded by PLIP EDO.88: 4 residues within 4Å: Chain F: R.407, L.410, K.411, H.437 Ligand excluded by PLIP EDO.89: 3 residues within 4Å: Chain F: S.147, P.148, Y.149 Ligand excluded by PLIP EDO.90: 3 residues within 4Å: Chain F: T.214, E.215, T.320 Ligand excluded by PLIP

6 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.11: 4 residues within 4Å: Chain A: L.172, L.176, T.179, M.184 No protein-ligand interaction detected (PLIP) PEG.27: 4 residues within 4Å: Chain B: L.172, L.176, T.179, M.184 No protein-ligand interaction detected (PLIP) PEG.43: 4 residues within 4Å: Chain C: L.172, L.176, T.179, M.184 No protein-ligand interaction detected (PLIP) PEG.59: 4 residues within 4Å: Chain D: L.172, L.176, T.179, M.184 No protein-ligand interaction detected (PLIP) PEG.75: 4 residues within 4Å: Chain E: L.172, L.176, T.179, M.184 No protein-ligand interaction detected (PLIP) PEG.91: 4 residues within 4Å: Chain F: L.172, L.176, T.179, M.184 No protein-ligand interaction detected (PLIP)

12 x PGE: TRIETHYLENE GLYCOL(Non-functional Binders)

PGE.12: 5 residues within 4Å: Chain A: A.322, R.323, K.324, D.416, H.437 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:K.324 PGE.13: 5 residues within 4Å: Chain A: S.381, L.382, A.385, Y.476, Q.480 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Q.379 Water bridges: A:S.381 PGE.28: 5 residues within 4Å: Chain B: A.322, R.323, K.324, D.416, H.437 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:K.324 PGE.29: 5 residues within 4Å: Chain B: S.381, L.382, A.385, Y.476, Q.480 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:Q.379 Water bridges: B:S.381 PGE.44: 5 residues within 4Å: Chain C: A.322, R.323, K.324, D.416, H.437 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:K.324 PGE.45: 5 residues within 4Å: Chain C: S.381, L.382, A.385, Y.476, Q.480 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:Q.379 Water bridges: C:S.381 PGE.60: 5 residues within 4Å: Chain D: A.322, R.323, K.324, D.416, H.437 1 PLIP interactions: 1 interactions with chain D Hydrogen bonds: D:K.324 PGE.61: 5 residues within 4Å: Chain D: S.381, L.382, A.385, Y.476, Q.480 3 PLIP interactions: 3 interactions with chain D Hydrogen bonds: D:Q.379, D:Y.476 Water bridges: D:S.381 PGE.76: 5 residues within 4Å: Chain E: A.322, R.323, K.324, D.416, H.437 1 PLIP interactions: 1 interactions with chain E Hydrogen bonds: E:K.324 PGE.77: 5 residues within 4Å: Chain E: S.381, L.382, A.385, Y.476, Q.480 3 PLIP interactions: 3 interactions with chain E Hydrogen bonds: E:Q.379, E:Y.476 Water bridges: E:S.381 PGE.92: 5 residues within 4Å: Chain F: A.322, R.323, K.324, D.416, H.437 1 PLIP interactions: 1 interactions with chain F Hydrogen bonds: F:K.324 PGE.93: 5 residues within 4Å: Chain F: S.381, L.382, A.385, Y.476, Q.480 3 PLIP interactions: 3 interactions with chain F Hydrogen bonds: F:Q.379, F:Y.476 Water bridges: F:S.381

18 x PG4: TETRAETHYLENE GLYCOL(Non-functional Binders)

PG4.14: 7 residues within 4Å: Chain A: E.201, K.203, K.236, W.237, G.238, D.239, R.295 Ligand excluded by PLIP PG4.15: 12 residues within 4Å: Chain A: A.322, K.324, A.344, V.347, Q.404, R.407, Q.436, H.437, F.438, V.439, S.440, D.441 Ligand excluded by PLIP PG4.16: 9 residues within 4Å: Chain A: S.390, L.391, D.394, P.396, L.397, W.398 Chain D: P.401, L.402, F.403 Ligand excluded by PLIP PG4.30: 7 residues within 4Å: Chain B: E.201, K.203, K.236, W.237, G.238, D.239, R.295 Ligand excluded by PLIP PG4.31: 12 residues within 4Å: Chain B: A.322, K.324, A.344, V.347, Q.404, R.407, Q.436, H.437, F.438, V.439, S.440, D.441 Ligand excluded by PLIP PG4.32: 9 residues within 4Å: Chain B: S.390, L.391, D.394, P.396, L.397, W.398 Chain F: P.401, L.402, F.403 Ligand excluded by PLIP PG4.46: 7 residues within 4Å: Chain C: E.201, K.203, K.236, W.237, G.238, D.239, R.295 Ligand excluded by PLIP PG4.47: 12 residues within 4Å: Chain C: A.322, K.324, A.344, V.347, Q.404, R.407, Q.436, H.437, F.438, V.439, S.440, D.441 Ligand excluded by PLIP PG4.48: 9 residues within 4Å: Chain C: S.390, L.391, D.394, P.396, L.397, W.398 Chain E: P.401, L.402, F.403 Ligand excluded by PLIP PG4.62: 7 residues within 4Å: Chain D: E.201, K.203, K.236, W.237, G.238, D.239, R.295 Ligand excluded by PLIP PG4.63: 12 residues within 4Å: Chain D: A.322, K.324, A.344, V.347, Q.404, R.407, Q.436, H.437, F.438, V.439, S.440, D.441 Ligand excluded by PLIP PG4.64: 9 residues within 4Å: Chain A: P.401, L.402, F.403 Chain D: S.390, L.391, D.394, P.396, L.397, W.398 Ligand excluded by PLIP PG4.78: 7 residues within 4Å: Chain E: E.201, K.203, K.236, W.237, G.238, D.239, R.295 Ligand excluded by PLIP PG4.79: 12 residues within 4Å: Chain E: A.322, K.324, A.344, V.347, Q.404, R.407, Q.436, H.437, F.438, V.439, S.440, D.441 Ligand excluded by PLIP PG4.80: 9 residues within 4Å: Chain C: P.401, L.402, F.403 Chain E: S.390, L.391, D.394, P.396, L.397, W.398 Ligand excluded by PLIP PG4.94: 7 residues within 4Å: Chain F: E.201, K.203, K.236, W.237, G.238, D.239, R.295 Ligand excluded by PLIP PG4.95: 12 residues within 4Å: Chain F: A.322, K.324, A.344, V.347, Q.404, R.407, Q.436, H.437, F.438, V.439, S.440, D.441 Ligand excluded by PLIP PG4.96: 9 residues within 4Å: Chain B: P.401, L.402, F.403 Chain F: S.390, L.391, D.394, P.396, L.397, W.398 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Minasov, G. et al., 1.8 Angstrom Resolution Crystal Structure of Cytosol Aminopeptidase from Coxiella burnetii. TO BE PUBLISHED

Release Date

2009-08-11

Peptides

Cytosol aminopeptidase: ABCDEF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

D
A

E
A

F
A

Cytosol aminopeptidase

Related Entries With Identical Sequence