Atomistry » Iron » PDB 1k2r-1kqg » 1kbp
Atomistry »
  Iron »
    PDB 1k2r-1kqg »
      1kbp »

Iron in PDB 1kbp: Kidney Bean Purple Acid Phosphatase

Enzymatic activity of Kidney Bean Purple Acid Phosphatase

All present enzymatic activity of Kidney Bean Purple Acid Phosphatase:
3.1.3.2;

Protein crystallography data

The structure of Kidney Bean Purple Acid Phosphatase, PDB code: 1kbp was solved by T.Klabunde, N.Strater, B.Krebs, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 10.00 / 2.65
Space group C 2 2 21
Cell size a, b, c (Å), α, β, γ (°) 132.700, 347.300, 128.700, 90.00, 90.00, 90.00
R / Rfree (%) 19.5 / 23.3

Other elements in 1kbp:

The structure of Kidney Bean Purple Acid Phosphatase also contains other interesting chemical elements:

Zinc (Zn) 4 atoms

Iron Binding Sites:

The binding sites of Iron atom in the Kidney Bean Purple Acid Phosphatase (pdb code 1kbp). This binding sites where shown within 5.0 Angstroms radius around Iron atom.
In total 4 binding sites of Iron where determined in the Kidney Bean Purple Acid Phosphatase, PDB code: 1kbp:
Jump to Iron binding site number: 1; 2; 3; 4;

Iron binding site 1 out of 4 in 1kbp

Go back to Iron Binding Sites List in 1kbp
Iron binding site 1 out of 4 in the Kidney Bean Purple Acid Phosphatase


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 1 of Kidney Bean Purple Acid Phosphatase within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe438

b:33.8
occ:1.00
OH A:TYR167 2.1 27.1 1.0
OD2 A:ASP135 2.1 31.2 1.0
NE2 A:HIS325 2.3 25.4 1.0
OD2 A:ASP164 2.3 29.8 1.0
CZ A:TYR167 3.2 22.8 1.0
CG A:ASP135 3.2 30.9 1.0
CD2 A:HIS325 3.3 28.9 1.0
CE1 A:HIS325 3.3 28.1 1.0
CG A:ASP164 3.3 28.9 1.0
ZN A:ZN439 3.3 40.6 1.0
CE2 A:TYR167 3.7 24.5 1.0
CB A:ASP164 3.7 22.1 1.0
CB A:ASP135 3.9 22.1 1.0
OD1 A:ASP135 4.2 28.3 1.0
CD2 A:HIS202 4.2 14.8 1.0
CE1 A:TYR167 4.3 11.0 1.0
O A:HIS323 4.4 31.4 1.0
ND1 A:HIS325 4.4 30.3 1.0
CG A:HIS325 4.4 28.8 1.0
OD1 A:ASP164 4.4 32.2 1.0
CA A:HIS323 4.5 16.5 1.0
NE2 A:HIS286 4.5 16.2 1.0
CE1 A:HIS286 4.6 20.1 1.0
NE2 A:HIS202 4.6 15.2 1.0
CA A:ASP135 4.7 20.7 1.0
C A:HIS323 4.8 19.8 1.0
N A:HIS323 4.9 17.6 1.0
ND1 A:HIS323 4.9 26.3 1.0

Iron binding site 2 out of 4 in 1kbp

Go back to Iron Binding Sites List in 1kbp
Iron binding site 2 out of 4 in the Kidney Bean Purple Acid Phosphatase


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 2 of Kidney Bean Purple Acid Phosphatase within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Fe438

b:52.5
occ:1.00
OH B:TYR167 2.0 41.5 1.0
OD2 B:ASP135 2.0 35.6 1.0
OD2 B:ASP164 2.2 42.4 1.0
NE2 B:HIS325 2.3 51.9 1.0
CZ B:TYR167 3.1 35.7 1.0
CG B:ASP135 3.2 31.5 1.0
CG B:ASP164 3.2 43.2 1.0
CE1 B:HIS325 3.3 57.1 1.0
ZN B:ZN439 3.3 49.6 1.0
CD2 B:HIS325 3.3 56.6 1.0
CB B:ASP164 3.6 36.8 1.0
CE2 B:TYR167 3.7 33.2 1.0
CB B:ASP135 3.8 33.2 1.0
CD2 B:HIS202 4.1 49.7 1.0
OD1 B:ASP135 4.1 35.3 1.0
CE1 B:TYR167 4.3 23.7 1.0
OD1 B:ASP164 4.3 46.9 1.0
O B:HIS323 4.4 40.2 1.0
ND1 B:HIS325 4.4 56.4 1.0
NE2 B:HIS286 4.5 32.9 1.0
CG B:HIS325 4.5 56.2 1.0
NE2 B:HIS202 4.5 54.6 1.0
CE1 B:HIS286 4.5 36.8 1.0
CA B:HIS323 4.5 36.2 1.0
CA B:ASP135 4.7 30.4 1.0
C B:HIS323 4.8 38.8 1.0
N B:HIS323 4.9 31.8 1.0
ND1 B:HIS323 5.0 37.1 1.0

Iron binding site 3 out of 4 in 1kbp

Go back to Iron Binding Sites List in 1kbp
Iron binding site 3 out of 4 in the Kidney Bean Purple Acid Phosphatase


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 3 of Kidney Bean Purple Acid Phosphatase within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Fe438

b:30.4
occ:1.00
OD2 C:ASP135 2.0 26.3 1.0
OH C:TYR167 2.1 32.9 1.0
OD2 C:ASP164 2.2 29.1 1.0
NE2 C:HIS325 2.4 28.0 1.0
ZN C:ZN439 3.2 42.6 1.0
CZ C:TYR167 3.2 21.7 1.0
CG C:ASP135 3.2 29.4 1.0
CG C:ASP164 3.3 27.6 1.0
CD2 C:HIS325 3.3 26.9 1.0
CE1 C:HIS325 3.4 28.2 1.0
CB C:ASP164 3.7 25.4 1.0
CE2 C:TYR167 3.7 14.8 1.0
CB C:ASP135 3.9 23.6 1.0
OD1 C:ASP135 4.1 33.3 1.0
CD2 C:HIS202 4.2 27.5 1.0
CE1 C:TYR167 4.3 21.4 1.0
O C:HIS323 4.4 34.1 1.0
OD1 C:ASP164 4.4 28.7 1.0
NE2 C:HIS286 4.4 21.9 1.0
CA C:HIS323 4.4 20.7 1.0
CE1 C:HIS286 4.5 26.3 1.0
ND1 C:HIS325 4.5 23.7 1.0
CG C:HIS325 4.5 28.3 1.0
NE2 C:HIS202 4.6 34.0 1.0
CA C:ASP135 4.7 20.7 1.0
C C:HIS323 4.7 24.5 1.0
N C:HIS323 4.8 23.0 1.0
ND1 C:HIS323 4.9 27.6 1.0

Iron binding site 4 out of 4 in 1kbp

Go back to Iron Binding Sites List in 1kbp
Iron binding site 4 out of 4 in the Kidney Bean Purple Acid Phosphatase


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 4 of Kidney Bean Purple Acid Phosphatase within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Fe438

b:33.8
occ:1.00
OD2 D:ASP135 2.0 26.7 1.0
OH D:TYR167 2.0 29.1 1.0
OD2 D:ASP164 2.2 28.0 1.0
NE2 D:HIS325 2.4 38.6 1.0
CG D:ASP135 3.1 28.4 1.0
CZ D:TYR167 3.1 25.7 1.0
CG D:ASP164 3.2 27.5 1.0
ZN D:ZN439 3.3 44.3 1.0
CD2 D:HIS325 3.3 44.3 1.0
CE1 D:HIS325 3.4 42.5 1.0
CB D:ASP164 3.6 28.8 1.0
CE2 D:TYR167 3.7 19.6 1.0
CB D:ASP135 3.8 28.9 1.0
OD1 D:ASP135 4.1 22.1 1.0
CD2 D:HIS202 4.1 26.8 1.0
CE1 D:TYR167 4.2 23.6 1.0
OD1 D:ASP164 4.3 27.7 1.0
NE2 D:HIS286 4.4 18.5 1.0
CE1 D:HIS286 4.4 17.8 1.0
O D:HIS323 4.5 35.4 1.0
CA D:HIS323 4.5 27.9 1.0
ND1 D:HIS325 4.5 43.7 1.0
CG D:HIS325 4.5 43.9 1.0
NE2 D:HIS202 4.6 22.4 1.0
CA D:ASP135 4.6 29.5 1.0
N D:HIS323 4.8 18.8 1.0
C D:HIS323 4.8 30.6 1.0
ND1 D:HIS323 5.0 29.5 1.0

Reference:

T.Klabunde, N.Strater, R.Frohlich, H.Witzel, B.Krebs. Mechanism of Fe(III)-Zn(II) Purple Acid Phosphatase Based on Crystal Structures. J.Mol.Biol. V. 259 737 1996.
ISSN: ISSN 0022-2836
PubMed: 8683579
DOI: 10.1006/JMBI.1996.0354
Page generated: Sun Dec 13 14:20:52 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