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Zinc in PDB 7etd: Crystal Structure of Abhpai-Zn-(4S)-Kdglu Complex, Class II Aldolase, Hpai From Acinetobacter Baumannii

Enzymatic activity of Crystal Structure of Abhpai-Zn-(4S)-Kdglu Complex, Class II Aldolase, Hpai From Acinetobacter Baumannii

All present enzymatic activity of Crystal Structure of Abhpai-Zn-(4S)-Kdglu Complex, Class II Aldolase, Hpai From Acinetobacter Baumannii:
4.1.2.52;

Protein crystallography data

The structure of Crystal Structure of Abhpai-Zn-(4S)-Kdglu Complex, Class II Aldolase, Hpai From Acinetobacter Baumannii, PDB code: 7etd was solved by P.Watthaisong, A.Binlaeh, A.Jaruwat, P.Chaiyen, P.Chitnumsub, S.Maenpuen, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 23.58 / 1.90
Space group C 1 2 1
Cell size a, b, c (Å), α, β, γ (°) 147.229, 90.525, 86.412, 90, 122.01, 90
R / Rfree (%) 16.5 / 18.7

Other elements in 7etd:

The structure of Crystal Structure of Abhpai-Zn-(4S)-Kdglu Complex, Class II Aldolase, Hpai From Acinetobacter Baumannii also contains other interesting chemical elements:

Calcium (Ca) 1 atom

Zinc Binding Sites:

The binding sites of Zinc atom in the Crystal Structure of Abhpai-Zn-(4S)-Kdglu Complex, Class II Aldolase, Hpai From Acinetobacter Baumannii (pdb code 7etd). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 3 binding sites of Zinc where determined in the Crystal Structure of Abhpai-Zn-(4S)-Kdglu Complex, Class II Aldolase, Hpai From Acinetobacter Baumannii, PDB code: 7etd:
Jump to Zinc binding site number: 1; 2; 3;

Zinc binding site 1 out of 3 in 7etd

Go back to Zinc Binding Sites List in 7etd
Zinc binding site 1 out of 3 in the Crystal Structure of Abhpai-Zn-(4S)-Kdglu Complex, Class II Aldolase, Hpai From Acinetobacter Baumannii


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 Abhpai-Zn-(4S)-Kdglu Complex, Class II Aldolase, Hpai From Acinetobacter Baumannii within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn302

b:16.8
occ:1.00
 OE2 A:GLU151 2.0 13.5 1.0
OD2 A:ASP177 2.1 9.4 1.0
O5 A:KDG301 2.1 25.3 1.0
O C:HOH447 2.2 12.3 1.0
O A:HOH424 2.2 13.2 1.0
O6B A:KDG301 2.3 19.0 1.0
C5 A:KDG301 2.6 27.6 1.0
C6 A:KDG301 2.9 25.5 1.0
CD A:GLU151 3.0 12.9 1.0
CG A:ASP177 3.1 9.6 1.0
OE1 A:GLU151 3.4 12.6 1.0
CB A:ASP177 3.5 9.6 1.0
C4 A:KDG301 3.6 31.9 1.0
NE2 A:GLN149 3.7 11.3 1.0
O A:HOH451 3.8 9.5 1.0
NH1 A:ARG72 3.9 9.8 1.0
O6A A:KDG301 4.2 27.3 1.0
OD1 A:ASP177 4.2 9.7 1.0
O C:VAL120 4.3 10.1 1.0
CG A:GLU151 4.3 11.7 1.0
N A:ASP177 4.4 10.3 1.0
OE1 A:GLU46 4.5 9.5 1.0
CD A:GLN149 4.5 11.3 1.0
CA A:ASP177 4.6 9.9 1.0
CA A:GLY174 4.6 13.4 1.0
CB A:GLU151 4.7 11.7 1.0
OE1 A:GLN149 4.7 12.5 1.0
C3 A:KDG301 4.7 36.5 1.0
CZ A:ARG72 4.8 9.3 1.0
NE2 A:HIS47 4.8 7.3 1.0
CD2 A:HIS47 5.0 7.2 1.0

Zinc binding site 2 out of 3 in 7etd

Go back to Zinc Binding Sites List in 7etd
Zinc binding site 2 out of 3 in the Crystal Structure of Abhpai-Zn-(4S)-Kdglu Complex, Class II Aldolase, Hpai From Acinetobacter Baumannii


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 Abhpai-Zn-(4S)-Kdglu Complex, Class II Aldolase, Hpai From Acinetobacter Baumannii within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn301

b:16.8
occ:1.00
 OE2 B:GLU151 2.1 12.9 1.0
O B:HOH418 2.1 11.1 1.0
OD2 B:ASP177 2.1 10.7 1.0
O A:HOH450 2.1 12.4 1.0
O5 B:KDG300 2.2 27.6 1.0
O6B B:KDG300 2.3 19.4 1.0
C5 B:KDG300 2.7 27.5 1.0
C6 B:KDG300 3.0 25.6 1.0
CD B:GLU151 3.0 12.5 1.0
CG B:ASP177 3.1 10.7 1.0
OE1 B:GLU151 3.4 12.4 1.0
CB B:ASP177 3.5 10.7 1.0
C4 B:KDG300 3.6 30.7 1.0
NE2 B:GLN149 3.7 11.6 1.0
O B:HOH438 3.8 10.6 1.0
NH1 B:ARG72 3.9 8.7 1.0
O6A B:KDG300 4.2 25.6 1.0
OD1 B:ASP177 4.2 10.7 1.0
O A:VAL120 4.3 10.2 1.0
CG B:GLU151 4.3 11.6 1.0
OE1 B:GLU46 4.4 9.5 1.0
N B:ASP177 4.5 10.6 1.0
CD B:GLN149 4.6 11.6 1.0
CA B:ASP177 4.6 10.6 1.0
CA B:GLY174 4.6 13.0 1.0
OE1 B:GLN149 4.7 12.0 1.0
CB B:GLU151 4.7 11.3 1.0
C3 B:KDG300 4.7 35.2 1.0
CZ B:ARG72 4.8 8.5 1.0
NE2 B:HIS47 4.9 7.1 1.0

Zinc binding site 3 out of 3 in 7etd

Go back to Zinc Binding Sites List in 7etd
Zinc binding site 3 out of 3 in the Crystal Structure of Abhpai-Zn-(4S)-Kdglu Complex, Class II Aldolase, Hpai From Acinetobacter Baumannii


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Crystal Structure of Abhpai-Zn-(4S)-Kdglu Complex, Class II Aldolase, Hpai From Acinetobacter Baumannii within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Zn301

b:16.3
occ:1.00
 OE2 C:GLU151 2.1 11.8 1.0
O C:HOH420 2.1 11.3 1.0
OD2 C:ASP177 2.1 9.5 1.0
O B:HOH484 2.2 11.8 1.0
O5 C:KDG300 2.2 27.0 1.0
O6A C:KDG300 2.3 17.5 1.0
C5 C:KDG300 2.6 26.3 1.0
C6 C:KDG300 2.9 24.1 1.0
CD C:GLU151 3.0 11.8 1.0
CG C:ASP177 3.1 9.8 1.0
OE1 C:GLU151 3.4 11.1 1.0
CB C:ASP177 3.5 10.0 1.0
C4 C:KDG300 3.5 29.6 1.0
NE2 C:GLN149 3.7 11.1 1.0
NH1 C:ARG72 3.8 8.2 1.0
O C:HOH449 3.9 11.2 1.0
O6B C:KDG300 4.1 26.8 1.0
OD1 C:ASP177 4.2 9.7 1.0
O B:VAL120 4.3 9.3 1.0
CG C:GLU151 4.3 11.1 1.0
OE1 C:GLU46 4.4 9.0 1.0
N C:ASP177 4.5 10.4 1.0
CD C:GLN149 4.6 10.7 1.0
CA C:ASP177 4.6 10.2 1.0
CA C:GLY174 4.6 13.3 1.0
OE1 C:GLN149 4.7 11.5 1.0
CB C:GLU151 4.7 10.9 1.0
C3 C:KDG300 4.7 34.1 1.0
CZ C:ARG72 4.8 7.9 1.0
NE2 C:HIS47 4.9 7.1 1.0

Reference:

P.Watthaisong, A.Binlaeh, A.Jaruwat, N.Lawan, J.Tantipisit, J.Jaroensuk, L.Chuaboon, J.Phonbuppha, R.Tinikul, P.Chaiyen, P.Chitnumsub, S.Maenpuen. Catalytic and Structural Insights Into A Stereospecific and Thermostable Class II Aldolase Hpai From Acinetobacter Baumannii. J.Biol.Chem. 01280 2021.
ISSN: ESSN 1083-351X
PubMed: 34624314
DOI: 10.1016/J.JBC.2021.101280
Page generated: Tue Oct 29 20:00:07 2024

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