SMTL ID : 8xx9.1

Rhodothermus marinus alpha-amylase RmGH13_47A CBM48-A-B-C domains

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.55 Å

Oligo State

monomer

Ligands

1 x MN: MANGANESE (II) ION(Non-covalent)

MN.1: 4 residues within 4Å: Chain A: N.267, H.294, D.301, G.336 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:H.294, A:D.301, A:G.336, H2O.3, H2O.5

1 x CA: CALCIUM ION(Non-covalent)

CA.2: 4 residues within 4Å: Chain A: E.219, F.220, G.222, D.237 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:E.219, A:F.220, A:G.222, A:D.237, H2O.2

2 x MES: 2-(N-MORPHOLINO)-ETHANESULFONIC ACID(Non-covalent)

MES.3: 8 residues within 4Å: Chain A: V.189, A.190, R.191, T.196, D.199, T.200, W.538, R.541 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:A.190, A:R.191, A:R.541 MES.4: 6 residues within 4Å: Chain A: D.130, P.131, I.133, P.134, S.135, L.141 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:S.135

1 x MPD: (4S)-2-METHYL-2,4-PENTANEDIOL(Non-functional Binders)

MPD.5: 6 residues within 4Å: Chain A: D.422, P.423, N.424, F.425, S.426, H.579 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.424

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Miyasaka, Y. et al., Structural basis for the recognition of alpha-1,6-branched alpha-glucan by GH13_47 alpha-amylase from Rhodothermus marinus. Proteins (2024)

Release Date

2024-02-07

Peptides

alpha-amylase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

alpha-amylase