SMTL ID : 4bww.1

Crystal structure of spin labelled azurin T21R1.

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.48 Å

Oligo State

homo-tetramer

Ligands

4 x CU: COPPER (II) ION(Non-covalent)

CU.1: 6 residues within 4Å: Chain A: G.48, H.49, C.115, F.117, H.120, M.124 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:G.48, A:H.49, A:C.115, A:H.120 CU.4: 6 residues within 4Å: Chain B: G.48, H.49, C.115, F.117, H.120, M.124 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:G.48, B:H.49, B:C.115, B:H.120 CU.13: 6 residues within 4Å: Chain C: G.48, H.49, C.115, F.117, H.120, M.124 4 PLIP interactions: 4 interactions with chain C Metal complexes: C:G.48, C:H.49, C:C.115, C:H.120 CU.18: 6 residues within 4Å: Chain D: G.48, H.49, C.115, F.117, H.120, M.124 4 PLIP interactions: 4 interactions with chain D Metal complexes: D:G.48, D:H.49, D:C.115, D:H.120

8 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 5 residues within 4Å: Chain A: K.77, D.79, D.80, S.81, R.82 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:D.65, A:K.77, A:S.81, A:S.81 Water bridges: A:S.81 GOL.6: 4 residues within 4Å: Chain B: K.77, P.78, D.79, H.86 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:D.79, B:D.79 Water bridges: B:D.80, B:D.80, B:H.86, B:H.86 GOL.7: 7 residues within 4Å: Chain B: A.4, S.7, V.8, I.23, C.24, F.32 Ligands: SO4.9 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:S.7 Water bridges: B:A.22, B:D.26 GOL.10: 8 residues within 4Å: Chain A: A.122 Chain B: S.69, G.70, L.71, D.72, K.73 Chain C: N.45, L.71 9 PLIP interactions: 6 interactions with chain B, 3 interactions with chain C Hydrogen bonds: B:D.72, B:D.72, B:K.73, B:K.73, C:N.45 Water bridges: B:L.71, B:L.71, C:Y.75, C:Y.75 GOL.12: 8 residues within 4Å: Chain A: N.21 Chain B: V.63, M.67, T.116, F.117, P.118, G.119 Ligands: NO3.5 6 PLIP interactions: 4 interactions with chain B, 2 interactions with chain A Hydrogen bonds: B:M.67, B:T.116, B:G.119 Water bridges: B:H.120, A:N.21, A:N.21 GOL.14: 5 residues within 4Å: Chain C: L.76, K.77, P.78, D.79, H.86 4 PLIP interactions: 4 interactions with chain C Hydrogen bonds: C:D.79, C:D.79 Water bridges: C:K.73, C:L.76 GOL.15: 3 residues within 4Å: Chain C: P.39, G.40, N.41 3 PLIP interactions: 3 interactions with chain C Hydrogen bonds: C:G.40, C:G.40, C:N.41 GOL.19: 8 residues within 4Å: Chain A: N.45, L.71 Chain C: A.122 Chain D: S.69, G.70, L.71, D.72, K.73 8 PLIP interactions: 6 interactions with chain D, 2 interactions with chain A Hydrogen bonds: D:S.69, D:D.72, D:D.72, D:K.73, A:N.45 Water bridges: D:L.71, D:L.71, A:N.45

5 x NO3: NITRATE ION(Non-functional Binders)

NO3.3: 4 residues within 4Å: Chain A: A.122, K.125 Chain B: L.71, Y.75 4 PLIP interactions: 2 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:A.122, A:K.125 Water bridges: B:L.71, B:Y.75 NO3.5: 8 residues within 4Å: Chain A: N.21, A.22 Chain B: V.63, G.119, H.120, S.121, A.122 Ligands: GOL.12 7 PLIP interactions: 6 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:G.119, B:G.119, B:S.121, B:A.122 Water bridges: B:H.120, B:H.120, A:N.21 NO3.11: 5 residues within 4Å: Chain B: N.13, D.14, Q.15, P.39, G.40 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:D.14, B:Q.15, B:P.39 Water bridges: B:N.13 NO3.17: 5 residues within 4Å: Chain C: N.13, D.14, Q.15, P.39, G.40 4 PLIP interactions: 4 interactions with chain C Hydrogen bonds: C:D.14, C:Q.15, C:Q.15 Water bridges: C:N.13 NO3.20: 8 residues within 4Å: Chain C: N.21, A.22 Chain D: V.63, M.67, G.119, H.120, S.121, A.122 8 PLIP interactions: 2 interactions with chain C, 6 interactions with chain D Hydrogen bonds: C:N.21, D:G.119, D:S.121, D:S.121, D:A.122 Water bridges: C:A.22, D:H.120, D:S.121

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

SO4.8: 4 residues within 4Å: Chain B: A.4, E.5, C.6, S.7 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:A.4, B:E.5, B:C.6, B:S.7, B:S.7 SO4.9: 1 residues within 4Å: Ligands: GOL.7 1 PLIP interactions: 1 interactions with chain B Water bridges: B:T.20 SO4.16: 2 residues within 4Å: Chain C: P.43, K.44 3 PLIP interactions: 3 interactions with chain C Hydrogen bonds: C:K.44 Water bridges: C:L.42, C:N.45 SO4.21: 4 residues within 4Å: Chain D: A.4, E.5, C.6, S.7 5 PLIP interactions: 5 interactions with chain D Hydrogen bonds: D:A.4, D:A.4, D:E.5, D:C.6, D:S.7 SO4.22: 5 residues within 4Å: Chain D: E.5, C.6, D.26, S.28, C.29 3 PLIP interactions: 3 interactions with chain D Hydrogen bonds: D:E.5, D:S.28 Water bridges: D:D.26

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Florin, N. et al., High-Resolution Crystal Structure of Spin Labelled (T21R1) Azurin from Pseudomonas Aeruginosa: A Challenging Structural Benchmark for in Silico Spin Labelling Algorithms. Bmc Struct.Biol. (2014)

Release Date

2014-06-11

Peptides

AZURIN: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

AZURIN