Atomistry » Zinc » PDB 1wfp-1wur » 1wn6
Atomistry »
  Zinc »
    PDB 1wfp-1wur »
      1wn6 »

Zinc in PDB 1wn6: Crystal Structure of Blasticidin S Deaminase (Bsd) Complexed with Tetrahedral Intermediate of Blasticidin S

Enzymatic activity of Crystal Structure of Blasticidin S Deaminase (Bsd) Complexed with Tetrahedral Intermediate of Blasticidin S

All present enzymatic activity of Crystal Structure of Blasticidin S Deaminase (Bsd) Complexed with Tetrahedral Intermediate of Blasticidin S:
3.5.4.23;

Protein crystallography data

The structure of Crystal Structure of Blasticidin S Deaminase (Bsd) Complexed with Tetrahedral Intermediate of Blasticidin S, PDB code: 1wn6 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) 19.64 / 1.80
Space group P 43 21 2
Cell size a, b, c (Å), α, β, γ (°) 54.690, 54.690, 197.632, 90.00, 90.00, 90.00
R / Rfree (%) 21.8 / 24.3

Other elements in 1wn6:

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

Arsenic (As) 2 atoms

Zinc Binding Sites:

The binding sites of Zinc atom in the Crystal Structure of Blasticidin S Deaminase (Bsd) Complexed with Tetrahedral Intermediate of Blasticidin S (pdb code 1wn6). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the Crystal Structure of Blasticidin S Deaminase (Bsd) Complexed with Tetrahedral Intermediate of Blasticidin S, PDB code: 1wn6:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in 1wn6

Go back to Zinc Binding Sites List in 1wn6
Zinc binding site 1 out of 2 in the Crystal Structure of Blasticidin S Deaminase (Bsd) Complexed with Tetrahedral Intermediate of Blasticidin S


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Crystal Structure of Blasticidin S Deaminase (Bsd) Complexed with Tetrahedral Intermediate of Blasticidin S within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn1001

b:25.8
occ:1.00
 SG A:CYS91 2.1 28.8 1.0
SG A:CYS54 2.2 21.1 1.0
SG A:CYS88 2.3 20.9 1.0
O A:HOH1021 2.6 24.9 1.0
O6 A:BST1003 2.7 32.9 1.0
CB A:CYS54 3.0 20.6 1.0
CB A:CYS91 3.3 24.8 1.0
CB A:CYS88 3.3 20.7 1.0
N A:CYS91 3.7 21.1 1.0
C4 A:BST1003 3.9 28.3 1.0
CA A:CYS91 4.0 22.7 1.0
N A:CYS88 4.0 20.3 1.0
CA A:CYS88 4.1 20.3 1.0
N3 A:BST1003 4.2 25.0 1.0
C5 A:BST1003 4.3 27.9 1.0
CA A:CYS54 4.4 18.4 1.0
C A:CYS88 4.5 19.5 1.0
O A:CYS88 4.6 19.8 1.0
C A:ARG90 4.8 21.1 1.0
CB A:ARG90 4.8 21.0 1.0
C2 A:BST1003 4.8 21.8 1.0
N A:CYS54 4.8 18.5 1.0
OE1 A:GLU56 4.9 22.8 1.0
C6 A:BST1003 4.9 25.5 1.0
N A:ARG90 5.0 18.4 1.0

Zinc binding site 2 out of 2 in 1wn6

Go back to Zinc Binding Sites List in 1wn6
Zinc binding site 2 out of 2 in the Crystal Structure of Blasticidin S Deaminase (Bsd) Complexed with Tetrahedral Intermediate of Blasticidin S


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Crystal Structure of Blasticidin S Deaminase (Bsd) Complexed with Tetrahedral Intermediate of Blasticidin S within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn1002

b:25.9
occ:1.00
 SG B:CYS91 2.2 30.9 1.0
SG B:CYS54 2.2 21.1 1.0
SG B:CYS88 2.4 21.3 1.0
O B:HOH1011 2.5 27.9 1.0
O6 B:BST1004 2.9 31.5 1.0
CB B:CYS54 3.0 20.2 1.0
CB B:CYS91 3.3 22.6 1.0
CB B:CYS88 3.4 20.0 1.0
N B:CYS91 3.7 21.1 1.0
N B:CYS88 4.0 22.9 1.0
C4 B:BST1004 4.0 29.0 1.0
CA B:CYS91 4.0 20.8 1.0
CA B:CYS88 4.2 21.0 1.0
N3 B:BST1004 4.2 27.6 1.0
CA B:CYS54 4.4 18.2 1.0
C5 B:BST1004 4.4 28.5 1.0
C B:CYS88 4.6 21.1 1.0
O B:CYS88 4.6 21.2 1.0
C B:ARG90 4.8 20.3 1.0
N B:CYS54 4.8 16.6 1.0
CB B:ARG90 4.8 21.6 1.0
C2 B:BST1004 4.8 23.9 1.0
OE1 B:GLU56 4.9 23.3 1.0
C6 B:BST1004 4.9 27.0 1.0
N B:ARG90 5.0 19.1 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: Wed Dec 16 03:10:14 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