Atomistry » Iodine » PDB 5w4i-6axx » 5zkz
Atomistry »
  Iodine »
    PDB 5w4i-6axx »
      5zkz »

Iodine in PDB 5zkz: Crystal Structures of Mutant Endo-Beta-1,4-Xylanase II(Y77F) Complexed with Xylotriose

Enzymatic activity of Crystal Structures of Mutant Endo-Beta-1,4-Xylanase II(Y77F) Complexed with Xylotriose

All present enzymatic activity of Crystal Structures of Mutant Endo-Beta-1,4-Xylanase II(Y77F) Complexed with Xylotriose:
3.2.1.8;

Protein crystallography data

The structure of Crystal Structures of Mutant Endo-Beta-1,4-Xylanase II(Y77F) Complexed with Xylotriose, PDB code: 5zkz was solved by X.Zhang, Q.Wan, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 45.08 / 1.30
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 49.195, 59.109, 69.709, 90.00, 90.00, 90.00
R / Rfree (%) 17.3 / 17.6

Iodine Binding Sites:

The binding sites of Iodine atom in the Crystal Structures of Mutant Endo-Beta-1,4-Xylanase II(Y77F) Complexed with Xylotriose (pdb code 5zkz). This binding sites where shown within 5.0 Angstroms radius around Iodine atom.
In total 3 binding sites of Iodine where determined in the Crystal Structures of Mutant Endo-Beta-1,4-Xylanase II(Y77F) Complexed with Xylotriose, PDB code: 5zkz:
Jump to Iodine binding site number: 1; 2; 3;

Iodine binding site 1 out of 3 in 5zkz

Go back to Iodine Binding Sites List in 5zkz
Iodine binding site 1 out of 3 in the Crystal Structures of Mutant Endo-Beta-1,4-Xylanase II(Y77F) Complexed with Xylotriose


Mono view


Stereo pair view

A full contact list of Iodine with other atoms in the I binding site number 1 of Crystal Structures of Mutant Endo-Beta-1,4-Xylanase II(Y77F) Complexed with Xylotriose within 5.0Å range:
probe atom residue distance (Å) B Occ
A:I205

b:11.5
occ:1.00
H A:SER146 2.8 13.5 1.0
HG A:SER146 3.3 13.9 0.7
O A:HOH392 3.4 15.9 1.0
H A:SER147 3.5 14.0 1.0
HB2 A:ARG145 3.5 12.7 1.0
HA A:ARG145 3.5 12.3 1.0
O A:HOH333 3.6 12.6 1.0
N A:SER146 3.6 11.2 1.0
OG A:SER146 3.9 11.6 0.7
O A:HOH303 4.1 20.5 1.0
CA A:ARG145 4.2 10.2 1.0
N A:SER147 4.2 11.6 1.0
CB A:ARG145 4.2 10.5 1.0
HB2 A:SER146 4.2 16.6 0.3
HB2 A:SER147 4.3 13.4 1.0
HG A:SER146 4.4 18.1 0.3
HB3 A:ARG145 4.4 12.7 1.0
C A:ARG145 4.4 9.3 1.0
CA A:SER146 4.5 12.1 1.0
O A:HOH533 4.5 19.8 1.0
HG A:SER147 4.5 13.8 1.0
C A:SER146 4.7 11.2 1.0
CB A:SER146 4.8 13.8 1.0
CB A:SER147 5.0 11.1 1.0

Iodine binding site 2 out of 3 in 5zkz

Go back to Iodine Binding Sites List in 5zkz
Iodine binding site 2 out of 3 in the Crystal Structures of Mutant Endo-Beta-1,4-Xylanase II(Y77F) Complexed with Xylotriose


Mono view


Stereo pair view

A full contact list of Iodine with other atoms in the I binding site number 2 of Crystal Structures of Mutant Endo-Beta-1,4-Xylanase II(Y77F) Complexed with Xylotriose within 5.0Å range:
probe atom residue distance (Å) B Occ
A:I206

b:31.3
occ:1.00
HE A:ARG119 3.3 27.1 1.0
HE1 A:TYR135 3.3 18.0 1.0
HA A:THR120 3.4 14.2 1.0
HG2 A:ARG119 3.6 16.2 1.0
HB2 A:GLN121 3.6 16.1 1.0
NE A:ARG119 3.7 22.6 1.0
HH21 A:ARG119 3.7 42.9 1.0
O A:ARG119 3.8 14.9 1.0
HD1 A:TYR135 3.9 15.6 1.0
C A:THR120 4.1 11.7 1.0
CE1 A:TYR135 4.1 15.0 1.0
CA A:THR120 4.1 11.8 1.0
O A:HOH518 4.2 32.4 1.0
NH2 A:ARG119 4.2 35.7 1.0
O A:HOH530 4.2 42.1 1.0
C A:ARG119 4.2 12.1 1.0
HB3 A:ARG119 4.3 16.0 1.0
O A:HOH423 4.3 21.8 1.0
O A:HOH395 4.3 31.1 1.0
CZ A:ARG119 4.3 29.9 1.0
CD1 A:TYR135 4.3 13.0 1.0
N A:GLN121 4.3 12.5 1.0
CG A:ARG119 4.4 13.5 1.0
N A:THR120 4.4 10.6 1.0
O A:THR120 4.4 11.1 1.0
CB A:GLN121 4.5 13.4 1.0
H A:GLN121 4.5 15.0 1.0
HB3 A:GLN121 4.5 16.1 1.0
CD A:ARG119 4.5 17.9 1.0
O A:HOH441 4.8 19.0 1.0
CB A:ARG119 4.8 13.3 1.0
HH22 A:ARG119 4.8 42.9 1.0
HD2 A:ARG119 4.9 21.5 1.0
CA A:GLN121 5.0 12.3 1.0

Iodine binding site 3 out of 3 in 5zkz

Go back to Iodine Binding Sites List in 5zkz
Iodine binding site 3 out of 3 in the Crystal Structures of Mutant Endo-Beta-1,4-Xylanase II(Y77F) Complexed with Xylotriose


Mono view


Stereo pair view

A full contact list of Iodine with other atoms in the I binding site number 3 of Crystal Structures of Mutant Endo-Beta-1,4-Xylanase II(Y77F) Complexed with Xylotriose within 5.0Å range:
probe atom residue distance (Å) B Occ
A:I207

b:29.1
occ:1.00
H A:MET169 2.8 17.5 0.6
H A:MET169 2.8 17.5 0.4
HE3 A:LYS56 3.0 17.3 1.0
HG2 A:MET169 3.1 16.8 1.0
O A:HOH467 3.3 30.1 1.0
HA A:THR168 3.3 17.4 0.4
HA A:THR168 3.3 17.4 0.6
HG23 A:THR168 3.5 20.6 0.6
O A:HOH368 3.6 24.7 1.0
HB2 A:MET169 3.8 17.0 1.0
CE A:LYS56 3.9 14.4 1.0
N A:MET169 3.9 14.5 1.0
CG A:MET169 3.9 14.0 1.0
HG3 A:LYS56 3.9 19.2 1.0
HZ2 A:LYS56 4.0 22.8 1.0
HD2 A:LYS56 4.1 17.5 1.0
HG3 A:MET169 4.2 16.8 1.0
CA A:THR168 4.2 14.5 0.4
CA A:THR168 4.2 14.4 0.6
CB A:MET169 4.3 14.1 1.0
NZ A:LYS56 4.3 19.0 1.0
HB A:THR168 4.4 18.6 0.4
CG2 A:THR168 4.4 17.2 0.6
HZ1 A:LYS56 4.4 22.8 1.0
CD A:LYS56 4.4 14.5 1.0
HG22 A:THR168 4.5 19.1 0.4
O A:HOH391 4.5 24.4 1.0
HG22 A:THR168 4.5 20.6 0.6
O A:GLY167 4.5 14.5 1.0
HE2 A:LYS56 4.5 17.3 1.0
C A:THR168 4.6 12.4 0.4
C A:THR168 4.6 12.4 0.6
CG A:LYS56 4.7 15.9 1.0
CA A:MET169 4.8 11.5 1.0
CB A:THR168 4.8 15.5 0.4
CB A:THR168 4.8 15.5 0.6
HA A:THR55 4.9 16.2 1.0

Reference:

Q.Wan, X.Zhang. Crystal Structures of Endo-Beta-1,4-Xylanase II To Be Published.
Page generated: Sun Dec 13 19:42:19 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