Atomistry » Calcium » PDB 1c74-1cjy » 1c8i
Atomistry »
  Calcium »
    PDB 1c74-1cjy »
      1c8i »

Calcium in PDB 1c8i: Binding Mode of Hydroxylamine to Arthromyces Ramosus Peroxidase

Enzymatic activity of Binding Mode of Hydroxylamine to Arthromyces Ramosus Peroxidase

All present enzymatic activity of Binding Mode of Hydroxylamine to Arthromyces Ramosus Peroxidase:
1.11.1.7;

Protein crystallography data

The structure of Binding Mode of Hydroxylamine to Arthromyces Ramosus Peroxidase, PDB code: 1c8i was solved by H.Wariishi, D.Nonaka, T.Johjima, N.Nakamura, Y.Naruta, K.Kubo, K.Fukuyama, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 7.00 / 2.00
Space group P 42 21 2
Cell size a, b, c (Å), α, β, γ (°) 74.400, 74.400, 117.500, 90.00, 90.00, 90.00
R / Rfree (%) 16.2 / 22.3

Other elements in 1c8i:

The structure of Binding Mode of Hydroxylamine to Arthromyces Ramosus Peroxidase also contains other interesting chemical elements:

Iron (Fe) 1 atom

Calcium Binding Sites:

The binding sites of Calcium atom in the Binding Mode of Hydroxylamine to Arthromyces Ramosus Peroxidase (pdb code 1c8i). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 2 binding sites of Calcium where determined in the Binding Mode of Hydroxylamine to Arthromyces Ramosus Peroxidase, PDB code: 1c8i:
Jump to Calcium binding site number: 1; 2;

Calcium binding site 1 out of 2 in 1c8i

Go back to Calcium Binding Sites List in 1c8i
Calcium binding site 1 out of 2 in the Binding Mode of Hydroxylamine to Arthromyces Ramosus Peroxidase


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Binding Mode of Hydroxylamine to Arthromyces Ramosus Peroxidase within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca346

b:19.1
occ:1.00
OD1 A:ASP57 2.3 21.4 1.0
O A:HOH424 2.4 17.2 1.0
OD1 A:ASP77 2.5 22.4 1.0
O A:ASP57 2.5 20.5 1.0
O A:GLY75 2.5 19.8 1.0
O A:HOH425 2.6 19.8 1.0
OG A:SER79 2.6 16.6 1.0
CG A:ASP57 3.4 21.5 1.0
C A:ASP57 3.4 19.4 1.0
CG A:ASP77 3.5 20.7 1.0
C A:GLY75 3.7 19.6 1.0
CB A:SER79 3.7 15.4 1.0
CA A:ASP57 3.8 18.7 1.0
OD2 A:ASP77 3.9 22.4 1.0
N A:SER79 3.9 18.6 1.0
O A:HOH363 4.1 19.5 1.0
N A:ASP77 4.1 18.0 1.0
CB A:ASP57 4.2 16.9 1.0
OD2 A:ASP57 4.2 20.7 1.0
CA A:SER79 4.4 18.4 1.0
N A:GLY75 4.4 20.4 1.0
N A:GLY78 4.5 15.9 1.0
CA A:GLY75 4.5 18.8 1.0
O A:GLY60 4.5 17.0 1.0
N A:ALA58 4.5 19.4 1.0
N A:ILE80 4.5 18.8 1.0
CB A:ASP77 4.7 17.7 1.0
OE2 A:GLU87 4.7 16.8 1.0
N A:ALA76 4.7 18.3 1.0
CA A:ASP77 4.8 18.5 1.0
OE1 A:GLU87 4.8 18.1 1.0
C A:SER79 4.9 19.8 1.0
C A:ASP77 4.9 18.1 1.0
CB A:SER148 4.9 21.2 1.0
CA A:ALA76 4.9 18.2 1.0
C A:GLY74 5.0 22.7 1.0
C A:GLY78 5.0 17.1 1.0

Calcium binding site 2 out of 2 in 1c8i

Go back to Calcium Binding Sites List in 1c8i
Calcium binding site 2 out of 2 in the Binding Mode of Hydroxylamine to Arthromyces Ramosus Peroxidase


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Binding Mode of Hydroxylamine to Arthromyces Ramosus Peroxidase within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca347

b:17.3
occ:1.00
O A:SER185 2.4 18.1 1.0
OD1 A:ASP209 2.4 15.5 1.0
O A:THR204 2.5 18.6 1.0
OG A:SER185 2.5 17.5 1.0
OD2 A:ASP202 2.5 16.4 1.0
O A:VAL207 2.5 18.0 1.0
OG1 A:THR204 2.6 17.3 1.0
OD1 A:ASP202 2.7 15.4 1.0
CG A:ASP202 2.9 19.0 1.0
C A:THR204 3.3 17.5 1.0
C A:SER185 3.4 15.7 1.0
CG A:ASP209 3.4 16.2 1.0
CB A:SER185 3.5 16.4 1.0
CB A:THR204 3.6 15.7 1.0
CA A:SER185 3.7 17.1 1.0
C A:VAL207 3.8 16.5 1.0
OD2 A:ASP209 3.8 15.9 1.0
CA A:THR204 3.9 15.9 1.0
N A:ASP209 4.1 17.1 1.0
N A:THR204 4.2 17.8 1.0
N A:PRO205 4.3 17.6 1.0
N A:VAL207 4.4 17.2 1.0
CB A:ASP202 4.4 15.0 1.0
O A:ASP209 4.5 17.3 1.0
CA A:VAL207 4.5 16.9 1.0
O A:HOH515 4.6 20.2 1.0
CA A:PRO205 4.6 19.3 1.0
N A:LEU186 4.6 15.6 1.0
CB A:ASP209 4.6 13.0 1.0
CB A:GLN211 4.7 14.1 1.0
CB A:VAL207 4.7 12.8 1.0
N A:PHE208 4.7 17.9 1.0
CA A:ASP209 4.8 15.0 1.0
CA A:PHE208 4.8 16.6 1.0
CD1 A:LEU186 4.8 18.9 1.0
C A:ASP209 4.9 17.5 1.0
CG2 A:THR204 4.9 12.8 1.0
C A:PRO205 4.9 20.3 1.0
C A:PHE208 4.9 17.7 1.0

Reference:

H.Wariishi, D.Nonaka, T.Johjima, N.Nakamura, Y.Naruta, S.Kubo, K.Fukuyama. Direct Binding of Hydroxylamine to the Heme Iron of Arthromyces Ramosus Peroxidase. Substrate Analogue That Inhibits Compound I Formation in A Competetive Manner. J.Biol.Chem. V. 275 32919 2000.
ISSN: ISSN 0021-9258
PubMed: 10915789
DOI: 10.1074/JBC.M004223200
Page generated: Sat Dec 12 02:51:05 2020

Last articles

Zn in 8WB0
Zn in 8WAX
Zn in 8WAU
Zn in 8WAZ
Zn in 8WAY
Zn in 8WAV
Zn in 8WAW
Zn in 8WAT
Zn in 8W7M
Zn in 8WD3
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy