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Zinc in PDB 4qhp: Crystal Structure of Aminopeptidase N in Complex with the Phosphinic Dipeptide Analogue Ll-(R,S)-Hphep[CH2]Phe(4-CH2NH2)

Enzymatic activity of Crystal Structure of Aminopeptidase N in Complex with the Phosphinic Dipeptide Analogue Ll-(R,S)-Hphep[CH2]Phe(4-CH2NH2)

All present enzymatic activity of Crystal Structure of Aminopeptidase N in Complex with the Phosphinic Dipeptide Analogue Ll-(R,S)-Hphep[CH2]Phe(4-CH2NH2):
3.4.11.2;

Protein crystallography data

The structure of Crystal Structure of Aminopeptidase N in Complex with the Phosphinic Dipeptide Analogue Ll-(R,S)-Hphep[CH2]Phe(4-CH2NH2), PDB code: 4qhp was solved by B.Nocek, A.Joachimiak, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 32.30 / 1.60
Space group H 3
Cell size a, b, c (Å), α, β, γ (°) 223.760, 223.760, 57.876, 90.00, 90.00, 120.00
R / Rfree (%) 15.4 / 17.8

Zinc Binding Sites:

The binding sites of Zinc atom in the Crystal Structure of Aminopeptidase N in Complex with the Phosphinic Dipeptide Analogue Ll-(R,S)-Hphep[CH2]Phe(4-CH2NH2) (pdb code 4qhp). 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 Aminopeptidase N in Complex with the Phosphinic Dipeptide Analogue Ll-(R,S)-Hphep[CH2]Phe(4-CH2NH2), PDB code: 4qhp:

Zinc binding site 1 out of 1 in 4qhp

Go back to Zinc Binding Sites List in 4qhp
Zinc binding site 1 out of 1 in the Crystal Structure of Aminopeptidase N in Complex with the Phosphinic Dipeptide Analogue Ll-(R,S)-Hphep[CH2]Phe(4-CH2NH2)


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 Aminopeptidase N in Complex with the Phosphinic Dipeptide Analogue Ll-(R,S)-Hphep[CH2]Phe(4-CH2NH2) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn908

b:10.0
occ:0.47
 OE1 A:GLU316 1.9 12.4 1.0
H132 A:32Q901 2.0 13.3 0.8
NE2 A:HIS297 2.1 10.6 1.0
NE2 A:HIS293 2.1 11.0 1.0
O13 A:32Q901 2.2 11.1 0.8
O12 A:32Q901 2.2 10.7 0.8
CD A:GLU316 2.6 12.3 1.0
OE2 A:GLU316 2.6 12.4 1.0
P11 A:32Q901 2.7 8.8 0.8
CD2 A:HIS293 3.0 9.9 1.0
CE1 A:HIS297 3.1 10.0 1.0
CD2 A:HIS297 3.1 11.6 1.0
HD2 A:HIS293 3.1 11.9 1.0
CE1 A:HIS293 3.2 11.4 1.0
HE1 A:HIS297 3.2 12.0 1.0
HD2 A:HIS297 3.3 14.0 1.0
HE2 A:TYR377 3.4 12.1 1.0
HE1 A:HIS293 3.5 13.7 1.0
HH A:TYR377 3.5 18.0 1.0
N10 A:32Q901 3.5 5.6 0.8
H162 A:32Q901 3.7 27.4 0.8
C3 A:32Q901 3.8 8.9 0.8
HA A:GLU316 4.0 9.7 1.0
H101 A:32Q901 4.0 6.7 0.8
CG A:GLU316 4.1 9.6 1.0
H131 A:32Q901 4.1 22.5 0.8
HG21 A:THR319 4.1 12.6 1.0
CE2 A:TYR377 4.1 10.1 1.0
ND1 A:HIS297 4.2 7.6 1.0
HB A:THR319 4.2 11.7 1.0
C11 A:32Q901 4.2 16.2 0.8
OH A:TYR377 4.2 15.0 1.0
CG A:HIS293 4.2 9.2 1.0
CG A:HIS297 4.2 8.3 1.0
H102 A:32Q901 4.2 6.7 0.8
OE1 A:GLU260 4.3 10.1 1.0
ND1 A:HIS293 4.3 12.0 1.0
HG3 A:GLU316 4.4 11.5 1.0
HZ1 A:LYS315 4.4 11.3 1.0
C16 A:32Q901 4.5 22.8 0.8
C13 A:32Q901 4.5 18.8 0.8
HB3 A:GLU316 4.5 10.1 1.0
OE1 A:GLU294 4.6 14.1 1.0
CZ A:TYR377 4.6 14.4 1.0
H31 A:32Q901 4.6 10.7 0.8
HG2 A:GLU316 4.6 11.5 1.0
H12 A:32Q901 4.7 13.2 0.8
HG22 A:THR319 4.7 12.6 1.0
CB A:GLU316 4.7 8.4 1.0
CG2 A:THR319 4.7 10.5 1.0
HZ2 A:LYS315 4.7 11.3 1.0
H111 A:32Q901 4.7 19.5 0.8
OE2 A:GLU294 4.7 16.3 1.0
CD A:GLU260 4.7 9.2 1.0
OE2 A:GLU260 4.8 10.2 1.0
CA A:GLU316 4.8 8.1 1.0
HG3 A:LYS315 4.8 12.3 1.0
H361 A:32Q901 4.9 26.7 0.8
C1 A:32Q901 4.9 11.0 0.8
CB A:THR319 4.9 9.7 1.0
HD1 A:HIS297 4.9 9.1 1.0
C18 A:32Q901 5.0 20.1 0.8

Reference:

S.Vassiliou, E.Weglarz-Tomczak, L.Berlicki, M.Paweczak, B.Nocek, R.Mulligan, A.Joachimiak, A.Mucha. Structure-Guided, Single-Point Modifications in the Phosphinic Dipeptide Structure Yield Highly Potent and Selective Inhibitors of Neutral Aminopeptidases. J.Med.Chem. V. 57 8140 2014.
ISSN: ISSN 0022-2623
PubMed: 25192493
DOI: 10.1021/JM501071F
Page generated: Sun Oct 27 06:35:26 2024

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