Atomistry » Zinc » PDB 1y8f-1yj6 » 1ych
Atomistry »
  Zinc »
    PDB 1y8f-1yj6 »
      1ych »

Zinc in PDB 1ych: X-Ray Crystal Structures of Moorella Thermoacetica Fpra. Novel Diiron Site Structure and Mechanistic Insights Into A Scavenging Nitric Oxide Reductase

Protein crystallography data

The structure of X-Ray Crystal Structures of Moorella Thermoacetica Fpra. Novel Diiron Site Structure and Mechanistic Insights Into A Scavenging Nitric Oxide Reductase, PDB code: 1ych was solved by R.Silaghi-Dumitrescu, D.M.Kurtz, W.N.Lanzilotta, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 43.91 / 2.80
Space group P 43 21 2
Cell size a, b, c (Å), α, β, γ (°) 160.327, 160.327, 279.144, 90.00, 90.00, 90.00
R / Rfree (%) 22.4 / 24.5

Other elements in 1ych:

The structure of X-Ray Crystal Structures of Moorella Thermoacetica Fpra. Novel Diiron Site Structure and Mechanistic Insights Into A Scavenging Nitric Oxide Reductase also contains other interesting chemical elements:

Iron (Fe) 8 atoms

Zinc Binding Sites:

The binding sites of Zinc atom in the X-Ray Crystal Structures of Moorella Thermoacetica Fpra. Novel Diiron Site Structure and Mechanistic Insights Into A Scavenging Nitric Oxide Reductase (pdb code 1ych). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 8 binding sites of Zinc where determined in the X-Ray Crystal Structures of Moorella Thermoacetica Fpra. Novel Diiron Site Structure and Mechanistic Insights Into A Scavenging Nitric Oxide Reductase, PDB code: 1ych:
Jump to Zinc binding site number: 1; 2; 3; 4; 5; 6; 7; 8;

Zinc binding site 1 out of 8 in 1ych

Go back to Zinc Binding Sites List in 1ych
Zinc binding site 1 out of 8 in the X-Ray Crystal Structures of Moorella Thermoacetica Fpra. Novel Diiron Site Structure and Mechanistic Insights Into A Scavenging Nitric Oxide Reductase


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of X-Ray Crystal Structures of Moorella Thermoacetica Fpra. Novel Diiron Site Structure and Mechanistic Insights Into A Scavenging Nitric Oxide Reductase within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn600

b:91.6
occ:1.00
OE2 A:GLU60 2.7 66.2 1.0
OG A:SER2 3.0 77.5 1.0
CB A:SER2 3.2 76.3 1.0
CD A:GLU60 3.8 68.2 1.0
CA A:SER2 3.8 74.7 1.0
OE1 A:GLU60 4.2 70.0 1.0
N A:SER2 4.3 75.1 1.0
O A:HOH768 4.9 66.2 1.0

Zinc binding site 2 out of 8 in 1ych

Go back to Zinc Binding Sites List in 1ych
Zinc binding site 2 out of 8 in the X-Ray Crystal Structures of Moorella Thermoacetica Fpra. Novel Diiron Site Structure and Mechanistic Insights Into A Scavenging Nitric Oxide Reductase


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of X-Ray Crystal Structures of Moorella Thermoacetica Fpra. Novel Diiron Site Structure and Mechanistic Insights Into A Scavenging Nitric Oxide Reductase within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn601

b:82.8
occ:1.00
NE2 A:HIS271 2.5 59.8 1.0
OD2 A:ASP275 3.0 60.6 1.0
OD1 A:ASP275 3.0 61.1 1.0
CE1 A:HIS271 3.2 59.7 1.0
CG A:ASP275 3.4 60.0 1.0
CD2 A:HIS271 3.7 58.7 1.0
ND1 A:HIS271 4.4 58.4 1.0
CG A:HIS271 4.7 57.2 1.0
CB A:ASP275 4.8 56.2 1.0

Zinc binding site 3 out of 8 in 1ych

Go back to Zinc Binding Sites List in 1ych
Zinc binding site 3 out of 8 in the X-Ray Crystal Structures of Moorella Thermoacetica Fpra. Novel Diiron Site Structure and Mechanistic Insights Into A Scavenging Nitric Oxide Reductase


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of X-Ray Crystal Structures of Moorella Thermoacetica Fpra. Novel Diiron Site Structure and Mechanistic Insights Into A Scavenging Nitric Oxide Reductase within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn610

b:90.9
occ:1.00
OE2 B:GLU60 2.9 62.9 1.0
CB B:SER2 3.2 76.3 1.0
OG B:SER2 3.4 78.0 1.0
CA B:SER2 3.8 76.1 1.0
CD B:GLU60 3.8 63.6 1.0
OE1 B:GLU60 4.0 63.5 1.0
N B:SER2 4.5 75.0 1.0

Zinc binding site 4 out of 8 in 1ych

Go back to Zinc Binding Sites List in 1ych
Zinc binding site 4 out of 8 in the X-Ray Crystal Structures of Moorella Thermoacetica Fpra. Novel Diiron Site Structure and Mechanistic Insights Into A Scavenging Nitric Oxide Reductase


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of X-Ray Crystal Structures of Moorella Thermoacetica Fpra. Novel Diiron Site Structure and Mechanistic Insights Into A Scavenging Nitric Oxide Reductase within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn611

b:86.5
occ:1.00
NE2 B:HIS271 2.5 65.1 1.0
OD2 B:ASP275 2.6 62.7 1.0
OD1 B:ASP275 2.8 62.7 1.0
CG B:ASP275 3.1 63.1 1.0
CE1 B:HIS271 3.3 65.8 1.0
CD2 B:HIS271 3.5 64.7 1.0
ND1 B:HIS271 4.5 65.6 1.0
CB B:ASP275 4.6 60.4 1.0
CG B:HIS271 4.6 64.7 1.0

Zinc binding site 5 out of 8 in 1ych

Go back to Zinc Binding Sites List in 1ych
Zinc binding site 5 out of 8 in the X-Ray Crystal Structures of Moorella Thermoacetica Fpra. Novel Diiron Site Structure and Mechanistic Insights Into A Scavenging Nitric Oxide Reductase


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 5 of X-Ray Crystal Structures of Moorella Thermoacetica Fpra. Novel Diiron Site Structure and Mechanistic Insights Into A Scavenging Nitric Oxide Reductase within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Zn620

b:80.5
occ:1.00
OE2 C:GLU60 2.7 50.0 1.0
CB C:SER2 3.0 72.8 1.0
OG C:SER2 3.0 75.5 1.0
CA C:SER2 3.6 69.8 1.0
CD C:GLU60 3.7 53.0 1.0
OE1 C:GLU60 4.0 55.1 1.0
N C:SER2 4.2 69.3 1.0

Zinc binding site 6 out of 8 in 1ych

Go back to Zinc Binding Sites List in 1ych
Zinc binding site 6 out of 8 in the X-Ray Crystal Structures of Moorella Thermoacetica Fpra. Novel Diiron Site Structure and Mechanistic Insights Into A Scavenging Nitric Oxide Reductase


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 6 of X-Ray Crystal Structures of Moorella Thermoacetica Fpra. Novel Diiron Site Structure and Mechanistic Insights Into A Scavenging Nitric Oxide Reductase within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Zn621

b:96.1
occ:1.00
NE2 C:HIS271 2.5 54.3 1.0
OD2 C:ASP275 3.0 64.0 1.0
OD1 C:ASP275 3.2 64.4 1.0
CE1 C:HIS271 3.4 55.6 1.0
CG C:ASP275 3.5 64.4 1.0
CD2 C:HIS271 3.6 53.7 1.0
ND1 C:HIS271 4.6 55.1 1.0
CG C:HIS271 4.7 54.9 1.0
CB C:ASP275 5.0 62.4 1.0

Zinc binding site 7 out of 8 in 1ych

Go back to Zinc Binding Sites List in 1ych
Zinc binding site 7 out of 8 in the X-Ray Crystal Structures of Moorella Thermoacetica Fpra. Novel Diiron Site Structure and Mechanistic Insights Into A Scavenging Nitric Oxide Reductase


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 7 of X-Ray Crystal Structures of Moorella Thermoacetica Fpra. Novel Diiron Site Structure and Mechanistic Insights Into A Scavenging Nitric Oxide Reductase within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Zn630

b:81.8
occ:1.00
OE2 D:GLU60 2.7 63.8 1.0
CB D:SER2 2.9 75.1 1.0
OG D:SER2 3.2 75.3 1.0
CA D:SER2 3.7 73.8 1.0
CD D:GLU60 3.8 63.6 1.0
N D:SER2 4.2 74.2 1.0
OE1 D:GLU60 4.3 65.1 1.0

Zinc binding site 8 out of 8 in 1ych

Go back to Zinc Binding Sites List in 1ych
Zinc binding site 8 out of 8 in the X-Ray Crystal Structures of Moorella Thermoacetica Fpra. Novel Diiron Site Structure and Mechanistic Insights Into A Scavenging Nitric Oxide Reductase


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 8 of X-Ray Crystal Structures of Moorella Thermoacetica Fpra. Novel Diiron Site Structure and Mechanistic Insights Into A Scavenging Nitric Oxide Reductase within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Zn631

b:93.0
occ:1.00
NE2 D:HIS271 2.7 53.3 1.0
OD1 D:ASP275 3.0 65.3 1.0
OD2 D:ASP275 3.3 68.6 1.0
CG D:ASP275 3.5 64.6 1.0
CE1 D:HIS271 3.6 54.4 1.0
CD2 D:HIS271 3.7 51.0 1.0
ND1 D:HIS271 4.7 52.6 1.0
CG D:HIS271 4.8 50.5 1.0
CB D:ASP275 4.9 61.2 1.0

Reference:

R.Silaghi-Dumitrescu, D.M.Kurtz Jr, L.G.Ljungdahl, W.N.Lanzilotta. X-Ray Crystal Structures of Moorella Thermoacetica Fpra. Novel Diiron Site Structure and Mechanistic Insights Into A Scavenging Nitric Oxide Reductase. Biochemistry V. 44 6492 2005.
ISSN: ISSN 0006-2960
PubMed: 15850383
DOI: 10.1021/BI0473049
Page generated: Wed Dec 16 03:14:04 2020

Last articles

Zn in 7VD8
Zn in 7V1R
Zn in 7V1Q
Zn in 7VPF
Zn in 7T85
Zn in 7T5F
Zn in 7NF9
Zn in 7M4M
Zn in 7M4O
Zn in 7M4N
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy