SMTL ID : 2e0l.3 (2 other biounits)

Mutant Human Ribonuclease 1 (Q28L, R31L, R32L)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.60 Å

Oligo State

homo-tetramer

Ligands

16 x CD: CADMIUM ION(Non-covalent)

CD.1: 5 residues within 4Å: Chain A: E.126 Chain B: E.126 Chain C: E.126 Chain D: E.126 Ligands: CD.12 Ligand excluded by PLIP CD.2: 6 residues within 4Å: Chain A: S.124 Ligands: CL.6, CL.7, CD.13, CL.17, CL.18 Ligand excluded by PLIP CD.3: 4 residues within 4Å: Chain A: S.101 Chain B: D.127 Ligands: CL.8, CL.9 Ligand excluded by PLIP CD.4: 2 residues within 4Å: Chain A: H.120 Ligands: CL.10 Ligand excluded by PLIP CD.5: 3 residues within 4Å: Chain A: E.50, H.81 Ligands: CL.11 Ligand excluded by PLIP CD.12: 5 residues within 4Å: Chain A: E.126 Chain B: E.126 Chain C: E.126 Chain D: E.126 Ligands: CD.1 Ligand excluded by PLIP CD.13: 6 residues within 4Å: Chain B: S.124 Ligands: CD.2, CL.6, CL.7, CL.17, CL.18 Ligand excluded by PLIP CD.14: 4 residues within 4Å: Chain A: D.127 Chain B: S.101 Ligands: CL.19, CL.20 Ligand excluded by PLIP CD.15: 2 residues within 4Å: Chain B: H.120 Ligands: CL.21 Ligand excluded by PLIP CD.16: 3 residues within 4Å: Chain B: E.50, H.81 Ligands: CL.22 Ligand excluded by PLIP CD.23: 6 residues within 4Å: Chain D: S.124 Ligands: CL.26, CL.27, CD.31, CL.34, CL.35 Ligand excluded by PLIP CD.24: 4 residues within 4Å: Chain C: E.50, H.81 Ligands: CL.28, CL.29 Ligand excluded by PLIP CD.25: 2 residues within 4Å: Chain C: H.120 Ligands: CL.30 Ligand excluded by PLIP CD.31: 6 residues within 4Å: Chain C: S.124 Ligands: CD.23, CL.26, CL.27, CL.34, CL.35 Ligand excluded by PLIP CD.32: 4 residues within 4Å: Chain D: E.50, H.81 Ligands: CL.36, CL.37 Ligand excluded by PLIP CD.33: 2 residues within 4Å: Chain D: H.120 Ligands: CL.38 Ligand excluded by PLIP

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

CL.6: 6 residues within 4Å: Chain B: K.103, R.105, S.124 Ligands: CD.2, CL.7, CD.13 Ligand excluded by PLIP CL.7: 9 residues within 4Å: Chain A: R.105, V.125, E.126 Chain B: K.103, R.105 Ligands: CD.2, CL.6, CD.13, CL.18 Ligand excluded by PLIP CL.8: 7 residues within 4Å: Chain A: D.84, R.86, S.101, K.103 Chain B: V.125, D.127 Ligands: CD.3 Ligand excluded by PLIP CL.9: 5 residues within 4Å: Chain A: R.86 Chain B: K.75, V.125, D.127 Ligands: CD.3 Ligand excluded by PLIP CL.10: 4 residues within 4Å: Chain A: H.13, H.120, F.121 Ligands: CD.4 Ligand excluded by PLIP CL.11: 5 residues within 4Å: Chain A: E.50, S.79, H.81 Chain C: S.78 Ligands: CD.5 Ligand excluded by PLIP CL.17: 6 residues within 4Å: Chain A: K.103, R.105, S.124 Ligands: CD.2, CD.13, CL.18 Ligand excluded by PLIP CL.18: 9 residues within 4Å: Chain A: K.103, R.105 Chain B: R.105, V.125, E.126 Ligands: CD.2, CL.7, CD.13, CL.17 Ligand excluded by PLIP CL.19: 7 residues within 4Å: Chain A: V.125, D.127 Chain B: D.84, R.86, S.101, K.103 Ligands: CD.14 Ligand excluded by PLIP CL.20: 5 residues within 4Å: Chain A: K.75, V.125, D.127 Chain B: R.86 Ligands: CD.14 Ligand excluded by PLIP CL.21: 4 residues within 4Å: Chain B: H.13, H.120, F.121 Ligands: CD.15 Ligand excluded by PLIP CL.22: 5 residues within 4Å: Chain B: E.50, S.79, H.81 Chain D: S.78 Ligands: CD.16 Ligand excluded by PLIP CL.26: 6 residues within 4Å: Chain D: K.103, R.105, S.124 Ligands: CD.23, CL.27, CD.31 Ligand excluded by PLIP CL.27: 9 residues within 4Å: Chain C: R.105, V.125, E.126 Chain D: K.103, R.105 Ligands: CD.23, CL.26, CD.31, CL.35 Ligand excluded by PLIP CL.28: 6 residues within 4Å: Chain A: S.78 Chain C: E.50, S.79, H.81 Ligands: CD.24, CL.29 Ligand excluded by PLIP CL.29: 5 residues within 4Å: Chain A: N.77, S.78 Chain C: H.81 Ligands: CD.24, CL.28 Ligand excluded by PLIP CL.30: 4 residues within 4Å: Chain C: H.13, H.120, F.121 Ligands: CD.25 Ligand excluded by PLIP CL.34: 6 residues within 4Å: Chain C: K.103, R.105, S.124 Ligands: CD.23, CD.31, CL.35 Ligand excluded by PLIP CL.35: 9 residues within 4Å: Chain C: K.103, R.105 Chain D: R.105, V.125, E.126 Ligands: CD.23, CL.27, CD.31, CL.34 Ligand excluded by PLIP CL.36: 6 residues within 4Å: Chain B: S.78 Chain D: E.50, S.79, H.81 Ligands: CD.32, CL.37 Ligand excluded by PLIP CL.37: 5 residues within 4Å: Chain B: N.77, S.78 Chain D: H.81 Ligands: CD.32, CL.36 Ligand excluded by PLIP CL.38: 4 residues within 4Å: Chain D: H.13, H.120, F.121 Ligands: CD.33 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Yamada, H. et al., Crystal lattice engineering,' an approach to engineer protein crystal contacts by creating intermolecular symmetry: crystallization and structure determination of a mutant human RNase 1 with a hydrophobic interface of leucines. Protein Sci. (2007)

Release Date

2007-08-28

Peptides

Ribonuclease: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
B

D
B

Ribonuclease

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