- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.90 Å
- Oligo State
- homo-dimer
- Ligands
- 8 x AZI: AZIDE ION(Non-covalent)
- 4 x MN: MANGANESE (II) ION(Non-covalent)
MN.4: 4 residues within 4Å:- Chain A: D.10, Y.12, N.14, D.19
5 PLIP interactions:3 interactions with chain A, 2 Ligand-Water interactions- Metal complexes: A:D.10, A:Y.12, A:D.19, H2O.2, H2O.2
MN.5: 4 residues within 4Å:- Chain A: E.8, D.10, D.19, H.24
6 PLIP interactions:4 interactions with chain A, 2 Ligand-Water interactions- Metal complexes: A:E.8, A:D.10, A:D.19, A:H.24, H2O.2, H2O.4
MN.20: 4 residues within 4Å:- Chain B: D.10, Y.12, N.14, D.19
5 PLIP interactions:3 interactions with chain B, 2 Ligand-Water interactions- Metal complexes: B:D.10, B:Y.12, B:D.19, H2O.9, H2O.10
MN.21: 4 residues within 4Å:- Chain B: E.8, D.10, D.19, H.24
6 PLIP interactions:4 interactions with chain B, 2 Ligand-Water interactions- Metal complexes: B:E.8, B:D.10, B:D.19, B:H.24, H2O.10, H2O.12
- 2 x NA: SODIUM ION(Non-functional Binders)
NA.6: 3 residues within 4Å:- Chain A: L.107, N.131
- Chain B: E.122
2 PLIP interactions:1 interactions with chain A, 1 interactions with chain B- Hydrogen bonds: A:N.131
- Water bridges: B:E.122
NA.22: 3 residues within 4Å:- Chain B: L.107, N.131, N.153
1 PLIP interactions:1 interactions with chain B- Hydrogen bonds: B:N.131
- 14 x GOL: GLYCEROL(Non-functional Binders)
GOL.7: 4 residues within 4Å:- Chain A: N.44, S.201, D.203, S.204
2 PLIP interactions:2 interactions with chain A- Hydrogen bonds: A:N.44
- Water bridges: A:N.44
GOL.8: 4 residues within 4Å:- Chain A: A.1, P.222, S.223, P.234
3 PLIP interactions:3 interactions with chain A- Hydrogen bonds: A:S.223, A:S.223, A:P.234
GOL.9: 8 residues within 4Å:- Chain A: Y.12, N.14, G.98, L.99, Y.100, A.207, D.208, R.228
6 PLIP interactions:6 interactions with chain A- Hydrogen bonds: A:N.14, A:L.99, A:Y.100, A:Y.100, A:D.208, A:R.228
GOL.10: 10 residues within 4Å:- Chain A: S.113, N.124, A.125, L.126, V.179, H.180
- Chain B: M.129, D.139
- Ligands: AZI.2, AZI.18
3 PLIP interactions:3 interactions with chain A- Hydrogen bonds: A:S.113, A:S.113, A:H.180
GOL.11: 5 residues within 4Å:- Chain A: Y.12, P.13, N.14, T.15, D.16
4 PLIP interactions:4 interactions with chain A- Hydrogen bonds: A:T.15, A:T.15, A:D.16, A:D.16
GOL.12: 4 residues within 4Å:- Chain A: Q.143, G.144, S.220, I.221
3 PLIP interactions:3 interactions with chain A- Hydrogen bonds: A:G.144, A:I.221
- Water bridges: A:Q.143
GOL.13: 4 residues within 4Å:- Chain A: A.38, S.72, A.73, T.74
5 PLIP interactions:5 interactions with chain A- Hydrogen bonds: A:T.74
- Water bridges: A:K.39, A:S.72, A:S.72, A:T.74
GOL.14: 5 residues within 4Å:- Chain A: K.138, L.140, I.141, Y.176
- Chain B: P.178
2 PLIP interactions:2 interactions with chain A- Water bridges: A:D.136, A:L.142
GOL.23: 5 residues within 4Å:- Chain B: A.38, K.39, S.72, A.73, T.74
3 PLIP interactions:3 interactions with chain B- Hydrogen bonds: B:K.39, B:K.39, B:T.74
GOL.24: 10 residues within 4Å:- Chain A: D.139
- Chain B: S.113, K.114, L.115, N.124, A.125, L.126, P.178, V.179, H.180
4 PLIP interactions:3 interactions with chain B, 1 interactions with chain A- Hydrogen bonds: B:P.178, B:H.180
- Water bridges: B:N.124, A:D.139
GOL.25: 11 residues within 4Å:- Chain B: Y.12, N.14, T.97, G.98, L.99, Y.100, A.207, D.208, G.227, R.228
- Ligands: GOL.26
7 PLIP interactions:7 interactions with chain B- Hydrogen bonds: B:N.14, B:N.14, B:G.98, B:L.99, B:Y.100, B:Y.100, B:R.228
GOL.26: 3 residues within 4Å:- Chain B: Y.12, L.99
- Ligands: GOL.25
No protein-ligand interaction detected (PLIP)GOL.27: 4 residues within 4Å:- Chain B: Q.143, G.144, S.220, I.221
4 PLIP interactions:4 interactions with chain B- Hydrogen bonds: B:Q.143, B:Q.143, B:G.144, B:I.221
GOL.28: 5 residues within 4Å:- Chain B: R.228, L.229, P.234, D.235, A.236
3 PLIP interactions:3 interactions with chain B- Hydrogen bonds: B:R.228, B:R.228, B:A.236
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
-
Lopez-Jaramillo, F.J. et al., Structure of concanavalin A at pH 8: bound solvent and crystal contacts. Acta Crystallogr.,Sect.D (2004)
- Release Date
- 2004-03-30
- Peptides
- concanavalin A: AB
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
1B
2
SMTL ID : 1nxd.7 (7 other biounits)
Crystal structure of MnMn Concanavalin A
concanavalin A
Toggle Identical (AB)Related Entries With Identical Sequence
1apn.1 | 1bxh.1 | 1c57.1 | 1ces.1 | 1cjp.1 | 1con.1 | 1cvn.1 | 1dq0.1 | 1dq1.1 | 1dq2.1 | 1dq4.1 | 1dq5.1 | 1dq6.1 | 1enq.1 | 1enr.1 | 1ens.1 | 1gic.1 | 1gkb.1 | 1hqw.1 | 1i3h.1 | 1jbc.1 | 1jn2.1 | 1jn2.2 | 1joj.1 | 1joj.2 | 1jui.1 | 1jui.2 | 1jw6.1 | 1jw6.2 | 1jyc.1 more...less...1jyc.2 |
1jyi.1 |
1jyi.2 |
1nls.1 |
1nxd.1 |
1nxd.2 |
1nxd.3 |
1nxd.4 |
1nxd.5 |
1nxd.6 |
1nxd.8 |
1ona.1 |
1qdc.1 |
1qdo.1 |
1qgl.1 |
1qny.1 |
1scr.1 |
1scs.1 |
1tei.1 |
1tei.2 |
1tei.3 |
1val.1 |
1vam.1 |
1vln.1 |
1vln.2 |
1xqn.1 |
2a7a.1 |
2ctv.1 |
2enr.1 |
2g4i.1 |
2uu8.1 |
2yz4.1 |
3d4k.1 |
3enr.1 |
3nwk.1 |
3nwk.2 |
3nwk.3 |
3nwk.4 |
3qlq.1 |
4czs.1 |
4p9w.1 |
4p9x.1 |
4p9y.1 |
4pf5.1 |
5cna.1 |
5o6n.1 |
5wey.1 |
5ygm.1 |
5z5l.1 |
5z5l.2 |
5z5n.1 |
5z5p.1 |
5z5y.1 |
5z5y.2 |
5zac.1 |
6ahg.1 |
6gw9.1 |
6h2m.1