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Zinc in PDB 1rft: Crystal Structure of Pyridoxal Kinase Complexed with Amp- Pcp and Pyridoxamine

Enzymatic activity of Crystal Structure of Pyridoxal Kinase Complexed with Amp- Pcp and Pyridoxamine

All present enzymatic activity of Crystal Structure of Pyridoxal Kinase Complexed with Amp- Pcp and Pyridoxamine:
2.7.1.35;

Protein crystallography data

The structure of Crystal Structure of Pyridoxal Kinase Complexed with Amp- Pcp and Pyridoxamine, PDB code: 1rft was solved by D.-C.Liang, T.Jiang, M.-H.Li, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 20.00 / 2.80
Space group P 31 2 1
Cell size a, b, c (Å), α, β, γ (°) 103.687, 103.687, 58.604, 90.00, 90.00, 120.00
R / Rfree (%) 21.4 / 26.8

Other elements in 1rft:

The structure of Crystal Structure of Pyridoxal Kinase Complexed with Amp- Pcp and Pyridoxamine also contains other interesting chemical elements:

Potassium (K) 1 atom

Zinc Binding Sites:

The binding sites of Zinc atom in the Crystal Structure of Pyridoxal Kinase Complexed with Amp- Pcp and Pyridoxamine (pdb code 1rft). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total only one binding site of Zinc was determined in the Crystal Structure of Pyridoxal Kinase Complexed with Amp- Pcp and Pyridoxamine, PDB code: 1rft:

Zinc binding site 1 out of 1 in 1rft

Go back to Zinc Binding Sites List in 1rft
Zinc binding site 1 out of 1 in the Crystal Structure of Pyridoxal Kinase Complexed with Amp- Pcp and Pyridoxamine


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 Pyridoxal Kinase Complexed with Amp- Pcp and Pyridoxamine within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn403

b:29.9
occ:1.00
 O1B A:ACP401 2.5 20.4 1.0
O2G A:ACP401 2.7 31.3 1.0
C3B A:ACP401 2.7 25.8 1.0
PB A:ACP401 3.0 19.9 1.0
PG A:ACP401 3.3 30.6 1.0
O2B A:ACP401 3.7 21.3 1.0
OH A:TYR127 3.8 32.2 1.0
O1G A:ACP401 3.9 31.7 1.0
OE2 A:GLU153 4.1 8.6 1.0
K A:K404 4.2 53.8 1.0
OD1 A:ASP113 4.2 6.9 1.0
ND2 A:ASN150 4.2 17.8 1.0
CG1 A:VAL115 4.2 6.2 1.0
OE1 A:GLU153 4.3 5.3 1.0
O3A A:ACP401 4.3 24.0 1.0
CG2 A:VAL115 4.5 3.1 1.0
OD2 A:ASP113 4.5 10.7 1.0
CA A:GLY234 4.6 11.7 1.0
OD1 A:ASN150 4.6 16.6 1.0
O3G A:ACP401 4.6 29.6 1.0
CG A:ASN150 4.7 16.1 1.0
CD A:GLU153 4.7 7.5 1.0
CG A:ASP113 4.8 9.6 1.0
CB A:VAL115 4.8 7.5 1.0
CA A:VAL115 5.0 8.8 1.0

Reference:

M.-H.Li, F.Kwok, W.-R.Chang, S.-Q.Liu, S.C.L.Lo, J.-P.Zhang, T.Jiang, D.-C.Liang. Conformational Changes in the Reaction of Pyridoxal Kinase J.Biol.Chem. V. 279 17459 2004.
ISSN: ISSN 0021-9258
PubMed: 14722069
DOI: 10.1074/JBC.M312380200
Page generated: Wed Oct 16 18:33:31 2024

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