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Calcium in PDB 6m4k: X-Ray Crystal Structure of Wild Type Alpha-Amylase I From Eisenia Fetida

Enzymatic activity of X-Ray Crystal Structure of Wild Type Alpha-Amylase I From Eisenia Fetida

All present enzymatic activity of X-Ray Crystal Structure of Wild Type Alpha-Amylase I From Eisenia Fetida:
3.2.1.1;

Protein crystallography data

The structure of X-Ray Crystal Structure of Wild Type Alpha-Amylase I From Eisenia Fetida, PDB code: 6m4k was solved by Y.Hirano, K.Tsukamoto, S.Ariki, Y.Naka, M.Ueda, T.Tamada, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 49.22 / 1.30
Space group P 32 2 1
Cell size a, b, c (Å), α, β, γ (°) 96.245, 96.245, 121.980, 90.00, 90.00, 120.00
R / Rfree (%) 16.7 / 18.3

Other elements in 6m4k:

The structure of X-Ray Crystal Structure of Wild Type Alpha-Amylase I From Eisenia Fetida also contains other interesting chemical elements:

Chlorine (Cl) 1 atom

Calcium Binding Sites:

The binding sites of Calcium atom in the X-Ray Crystal Structure of Wild Type Alpha-Amylase I From Eisenia Fetida (pdb code 6m4k). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total only one binding site of Calcium was determined in the X-Ray Crystal Structure of Wild Type Alpha-Amylase I From Eisenia Fetida, PDB code: 6m4k:

Calcium binding site 1 out of 1 in 6m4k

Go back to Calcium Binding Sites List in 6m4k
Calcium binding site 1 out of 1 in the X-Ray Crystal Structure of Wild Type Alpha-Amylase I From Eisenia Fetida


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of X-Ray Crystal Structure of Wild Type Alpha-Amylase I From Eisenia Fetida within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca601

b:15.1
occ:1.00
 O A:HIS217 2.3 15.6 1.0
O A:ARG174 2.4 16.3 1.0
OD1 A:ASN118 2.4 14.8 1.0
O A:HOH826 2.5 16.4 1.0
OD1 A:ASP183 2.5 16.2 1.0
O A:HOH796 2.5 16.9 1.0
OD2 A:ASP183 2.5 16.5 1.0
O A:HOH1037 2.6 16.5 1.0
CG A:ASP183 2.9 15.1 1.0
CG A:ASN118 3.5 13.8 1.0
C A:ARG174 3.5 15.7 1.0
C A:HIS217 3.5 15.8 1.0
ND2 A:ASN118 4.0 14.7 1.0
CA A:ARG174 4.1 15.5 0.5
CA A:ARG174 4.2 15.5 0.5
CB A:HIS217 4.2 14.9 1.0
O A:ASN118 4.3 15.4 1.0
CA A:HIS217 4.4 15.0 1.0
CB A:ASP183 4.4 16.1 1.0
N A:MET218 4.4 14.1 0.5
N A:MET218 4.4 14.1 0.5
N A:ASN175 4.5 17.0 1.0
ND1 A:HIS152 4.5 17.7 1.0
CA A:MET218 4.5 15.2 0.5
O A:LEU184 4.6 17.3 1.0
CG A:MET218 4.6 15.9 0.5
O A:HOH1275 4.6 20.6 1.0
CA A:MET218 4.6 15.1 0.5
CE1 A:HIS152 4.7 18.4 1.0
O A:CYS176 4.7 18.5 1.0
CB A:ASN118 4.8 14.1 1.0
CA A:ASN175 4.8 17.1 1.0
O A:VAL173 4.8 17.1 1.0
O A:HOH823 4.9 18.1 1.0
CB A:ARG174 4.9 16.8 0.5
CG A:MET218 4.9 15.2 0.5
O A:HOH981 5.0 16.8 1.0
CB A:ARG174 5.0 16.2 0.5

Reference:

Y.Hirano, K.Tsukamoto, S.Ariki, Y.Naka, M.Ueda, T.Tamada. X-Ray Crystallographic Structural Studies of Alpha-Amylase I From Eisenia Fetida. Acta Crystallogr D Struct V. 76 834 2020BIOL.
ISSN: ISSN 2059-7983
PubMed: 32876059
DOI: 10.1107/S2059798320010165
Page generated: Wed Jul 9 16:01:15 2025

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