Atomistry » Arsenic » PDB 2xod-3g2f » 2z3i
Atomistry »
  Arsenic »
    PDB 2xod-3g2f »
      2z3i »

Arsenic in PDB 2z3i: Crystal Structure of Blasticidin S Deaminase (Bsd) Mutant E56Q Complexed with Substrate

Enzymatic activity of Crystal Structure of Blasticidin S Deaminase (Bsd) Mutant E56Q Complexed with Substrate

All present enzymatic activity of Crystal Structure of Blasticidin S Deaminase (Bsd) Mutant E56Q Complexed with Substrate:
3.5.4.23;

Protein crystallography data

The structure of Crystal Structure of Blasticidin S Deaminase (Bsd) Mutant E56Q Complexed with Substrate, PDB code: 2z3i was solved by T.Kumasaka, M.Yamamoto, M.Furuichi, M.Nakasako, M.Kimura, I.Yamaguchi, T.Ueki, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 50.00 / 1.80
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 55.330, 69.578, 145.990, 90.00, 90.00, 90.00
R / Rfree (%) 17.5 / 22

Other elements in 2z3i:

The structure of Crystal Structure of Blasticidin S Deaminase (Bsd) Mutant E56Q Complexed with Substrate also contains other interesting chemical elements:

Zinc (Zn) 4 atoms

Arsenic Binding Sites:

The binding sites of Arsenic atom in the Crystal Structure of Blasticidin S Deaminase (Bsd) Mutant E56Q Complexed with Substrate (pdb code 2z3i). This binding sites where shown within 5.0 Angstroms radius around Arsenic atom.
In total 4 binding sites of Arsenic where determined in the Crystal Structure of Blasticidin S Deaminase (Bsd) Mutant E56Q Complexed with Substrate, PDB code: 2z3i:
Jump to Arsenic binding site number: 1; 2; 3; 4;

Arsenic binding site 1 out of 4 in 2z3i

Go back to Arsenic Binding Sites List in 2z3i
Arsenic binding site 1 out of 4 in the Crystal Structure of Blasticidin S Deaminase (Bsd) Mutant E56Q Complexed with Substrate


Mono view


Stereo pair view

A full contact list of Arsenic with other atoms in the As binding site number 1 of Crystal Structure of Blasticidin S Deaminase (Bsd) Mutant E56Q Complexed with Substrate within 5.0Å range:
probe atom residue distance (Å) B Occ
A:As3001

b:0.7
occ:1.00
 AS A:CAC3001 0.0 0.7 1.0
O2 A:CAC3001 1.7 0.5 1.0
O1 A:CAC3001 1.7 0.7 1.0
C2 A:CAC3001 2.0 0.7 1.0
C1 A:CAC3001 2.0 0.6 1.0
SG A:CYS73 3.7 20.4 1.0
CB A:CYS73 3.7 18.7 1.0
CG A:GLU7 3.8 41.0 1.0
O A:HOH3076 4.1 53.4 1.0
CB A:ALA115 4.6 20.4 1.0
OE1 A:GLU7 4.7 43.0 1.0
N A:GLU7 4.7 40.2 1.0
CG A:GLU6 4.7 45.6 1.0
CD A:GLU7 4.8 40.8 1.0
CA A:GLU7 4.8 39.3 1.0
OG A:SER4 4.8 49.1 1.0
CB A:GLU7 4.9 39.5 1.0

Arsenic binding site 2 out of 4 in 2z3i

Go back to Arsenic Binding Sites List in 2z3i
Arsenic binding site 2 out of 4 in the Crystal Structure of Blasticidin S Deaminase (Bsd) Mutant E56Q Complexed with Substrate


Mono view


Stereo pair view

A full contact list of Arsenic with other atoms in the As binding site number 2 of Crystal Structure of Blasticidin S Deaminase (Bsd) Mutant E56Q Complexed with Substrate within 5.0Å range:
probe atom residue distance (Å) B Occ
B:As3002

b:0.2
occ:1.00
 AS B:CAC3002 0.0 0.2 1.0
O1 B:CAC3002 1.7 0.1 1.0
O2 B:CAC3002 1.7 0.3 1.0
C1 B:CAC3002 2.0 0.2 1.0
C2 B:CAC3002 2.0 0.2 1.0
OE2 B:GLU7 3.4 45.0 1.0
O B:HOH3021 3.5 35.9 1.0
CD B:GLU7 3.8 41.7 1.0
SG B:CYS73 4.0 17.8 1.0
CB B:GLU7 4.1 38.9 1.0
CB B:ALA115 4.1 18.9 1.0
CB B:CYS73 4.2 14.2 1.0
O B:HOH3051 4.2 48.7 1.0
CD B:LYS103 4.3 24.3 1.0
CG B:GLU7 4.3 41.3 1.0
OE1 B:GLU7 4.4 46.4 1.0
OG B:SER4 4.7 51.5 1.0
NZ B:LYS103 4.9 34.4 1.0

Arsenic binding site 3 out of 4 in 2z3i

Go back to Arsenic Binding Sites List in 2z3i
Arsenic binding site 3 out of 4 in the Crystal Structure of Blasticidin S Deaminase (Bsd) Mutant E56Q Complexed with Substrate


Mono view


Stereo pair view

A full contact list of Arsenic with other atoms in the As binding site number 3 of Crystal Structure of Blasticidin S Deaminase (Bsd) Mutant E56Q Complexed with Substrate within 5.0Å range:
probe atom residue distance (Å) B Occ
C:As3003

b:29.2
occ:1.00
 AS C:CAC3003 0.0 29.2 1.0
O1 C:CAC3003 1.7 38.5 1.0
O2 C:CAC3003 1.7 35.0 1.0
C2 C:CAC3003 2.0 34.5 1.0
C1 C:CAC3003 2.0 31.2 1.0
SG C:CYS73 2.4 17.2 1.0
CB C:CYS73 3.3 15.6 1.0
CG C:GLU7 3.8 24.3 1.0
CB C:ALA115 3.8 25.7 1.0
CG1 C:ILE105 4.1 19.0 1.0
CD1 C:ILE105 4.1 19.6 1.0
O C:HOH3120 4.4 33.4 1.0
OE1 C:GLU7 4.6 26.0 1.0
CA C:CYS73 4.7 14.9 1.0
CA C:GLU7 4.7 23.5 1.0
CD C:GLU7 4.8 25.5 1.0
O C:HOH3119 4.8 46.1 1.0
CB C:GLU7 4.8 23.7 1.0
N C:GLU7 4.9 23.6 1.0
O C:HOH3086 4.9 53.8 1.0
CD1 C:LEU10 4.9 21.8 1.0

Arsenic binding site 4 out of 4 in 2z3i

Go back to Arsenic Binding Sites List in 2z3i
Arsenic binding site 4 out of 4 in the Crystal Structure of Blasticidin S Deaminase (Bsd) Mutant E56Q Complexed with Substrate


Mono view


Stereo pair view

A full contact list of Arsenic with other atoms in the As binding site number 4 of Crystal Structure of Blasticidin S Deaminase (Bsd) Mutant E56Q Complexed with Substrate within 5.0Å range:
probe atom residue distance (Å) B Occ
D:As3004

b:0.7
occ:1.00
 AS D:CAC3004 0.0 0.7 1.0
O1 D:CAC3004 1.7 0.5 1.0
O2 D:CAC3004 1.7 0.6 1.0
C1 D:CAC3004 2.0 0.7 1.0
C2 D:CAC3004 2.0 0.7 1.0
SG D:CYS73 3.4 25.1 1.0
OE1 D:GLU7 3.8 60.6 1.0
CB D:CYS73 3.8 21.1 1.0
O D:HOH3116 3.9 38.7 1.0
CB D:GLU7 3.9 53.5 1.0
CB D:ALA115 4.0 33.0 1.0
CD D:GLU7 4.1 59.8 1.0
O D:HOH3082 4.4 59.3 1.0
OE2 D:GLU7 4.6 61.2 1.0
CG D:GLU7 4.6 56.0 1.0
CA D:GLU7 4.7 52.9 1.0
CE D:LYS103 4.7 36.5 1.0
N D:GLU7 4.8 54.5 1.0

Reference:

T.Kumasaka, M.Yamamoto, M.Furuichi, M.Nakasako, A.H.Teh, M.Kimura, I.Yamaguchi, T.Ueki. Crystal Structures of Blasticidin S Deaminase (Bsd): Implications For Dynamic Properties of Catalytic Zinc J.Biol.Chem. V. 282 37103 2007.
ISSN: ISSN 0021-9258
PubMed: 17959604
DOI: 10.1074/JBC.M704476200
Page generated: Sun Jul 6 23:18:04 2025

Last articles

Ca in 5YBZ
Ca in 5YA6
Ca in 5YBY
Ca in 5Y8X
Ca in 5Y9B
Ca in 5Y7G
Ca in 5Y8A
Ca in 5Y31
Ca in 5Y7F
Ca in 5Y5E
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy