Atomistry » Iron » PDB 5zm9-6air » 6a2u
Atomistry »
  Iron »
    PDB 5zm9-6air »
      6a2u »

Iron in PDB 6a2u: Crystal Structure of Gamma-Alpha Subunit Complex From Burkholderia Cepacia Fad Glucose Dehydrogenase

Enzymatic activity of Crystal Structure of Gamma-Alpha Subunit Complex From Burkholderia Cepacia Fad Glucose Dehydrogenase

All present enzymatic activity of Crystal Structure of Gamma-Alpha Subunit Complex From Burkholderia Cepacia Fad Glucose Dehydrogenase:
1.1.5.9;

Protein crystallography data

The structure of Crystal Structure of Gamma-Alpha Subunit Complex From Burkholderia Cepacia Fad Glucose Dehydrogenase, PDB code: 6a2u was solved by H.Yoshida, K.Kojima, K.Yoshimatsu, M.Shiota, T.Yamazaki, S.Ferri, W.Tsugawa, S.Kamitori, K.Sode, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 43.74 / 2.60
Space group P 65 2 2
Cell size a, b, c (Å), α, β, γ (°) 110.521, 110.521, 524.877, 90.00, 90.00, 120.00
R / Rfree (%) 20.4 / 26.1

Iron Binding Sites:

The binding sites of Iron atom in the Crystal Structure of Gamma-Alpha Subunit Complex From Burkholderia Cepacia Fad Glucose Dehydrogenase (pdb code 6a2u). This binding sites where shown within 5.0 Angstroms radius around Iron atom.
In total 6 binding sites of Iron where determined in the Crystal Structure of Gamma-Alpha Subunit Complex From Burkholderia Cepacia Fad Glucose Dehydrogenase, PDB code: 6a2u:
Jump to Iron binding site number: 1; 2; 3; 4; 5; 6;

Iron binding site 1 out of 6 in 6a2u

Go back to Iron Binding Sites List in 6a2u
Iron binding site 1 out of 6 in the Crystal Structure of Gamma-Alpha Subunit Complex From Burkholderia Cepacia Fad Glucose Dehydrogenase


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 1 of Crystal Structure of Gamma-Alpha Subunit Complex From Burkholderia Cepacia Fad Glucose Dehydrogenase within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Fe702

b:32.4
occ:1.00
 FE1 B:F3S702 0.0 32.4 1.0
S3 B:F3S702 2.2 34.1 1.0
S2 B:F3S702 2.2 36.2 1.0
S1 B:F3S702 2.2 31.7 1.0
SG B:CYS212 2.3 29.9 1.0
FE4 B:F3S702 3.0 38.3 1.0
FE3 B:F3S702 3.0 36.3 1.0
CB B:CYS212 3.5 28.5 1.0
N B:GLY214 3.6 21.9 1.0
N B:CYS213 3.8 29.9 1.0
CA B:CYS212 4.0 29.5 1.0
CA B:GLY214 4.0 26.6 1.0
S4 B:F3S702 4.1 32.4 1.0
N B:ASN215 4.2 37.9 1.0
C B:CYS212 4.3 29.1 1.0
CD B:ARG201 4.5 33.7 1.0
NE B:ARG201 4.6 33.8 1.0
C B:GLY214 4.6 34.4 1.0
C B:CYS213 4.7 27.5 1.0
CG B:PRO339 4.7 22.7 1.0
CA B:CYS213 4.9 29.3 1.0
SG B:CYS218 4.9 32.3 1.0
CB B:ALA226 4.9 35.1 1.0
SG B:CYS222 5.0 28.9 1.0
OD1 B:ASN215 5.0 41.5 1.0
N B:ASN216 5.0 32.5 1.0

Iron binding site 2 out of 6 in 6a2u

Go back to Iron Binding Sites List in 6a2u
Iron binding site 2 out of 6 in the Crystal Structure of Gamma-Alpha Subunit Complex From Burkholderia Cepacia Fad Glucose Dehydrogenase


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 2 of Crystal Structure of Gamma-Alpha Subunit Complex From Burkholderia Cepacia Fad Glucose Dehydrogenase within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Fe702

b:36.3
occ:1.00
 FE3 B:F3S702 0.0 36.3 1.0
S3 B:F3S702 2.2 34.1 1.0
S4 B:F3S702 2.2 32.4 1.0
S1 B:F3S702 2.2 31.7 1.0
SG B:CYS222 2.3 28.9 1.0
FE4 B:F3S702 3.0 38.3 1.0
FE1 B:F3S702 3.0 32.4 1.0
CB B:CYS222 3.1 27.2 1.0
CA B:CYS222 3.7 29.2 1.0
OD1 B:ASN215 3.7 41.5 1.0
CB B:ASN215 4.1 35.9 1.0
S2 B:F3S702 4.1 36.2 1.0
CG B:ASN215 4.4 37.9 1.0
CD B:PRO223 4.4 33.4 1.0
CB B:ALA226 4.6 35.1 1.0
CG1 B:ILE224 4.7 31.6 1.0
C B:CYS222 4.7 26.9 1.0
CG B:MET227 4.7 34.8 1.0
N B:ASN215 4.8 37.9 1.0
N B:CYS222 4.8 31.8 1.0
N B:PRO223 4.9 32.3 1.0
SD B:MET227 4.9 33.1 1.0

Iron binding site 3 out of 6 in 6a2u

Go back to Iron Binding Sites List in 6a2u
Iron binding site 3 out of 6 in the Crystal Structure of Gamma-Alpha Subunit Complex From Burkholderia Cepacia Fad Glucose Dehydrogenase


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 3 of Crystal Structure of Gamma-Alpha Subunit Complex From Burkholderia Cepacia Fad Glucose Dehydrogenase within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Fe702

b:38.3
occ:1.00
 FE4 B:F3S702 0.0 38.3 1.0
S3 B:F3S702 2.2 34.1 1.0
S4 B:F3S702 2.2 32.4 1.0
S2 B:F3S702 2.2 36.2 1.0
SG B:CYS218 2.3 32.3 1.0
FE3 B:F3S702 3.0 36.3 1.0
FE1 B:F3S702 3.0 32.4 1.0
CB B:CYS218 3.4 36.9 1.0
N B:CYS218 3.5 36.6 1.0
CA B:CYS218 3.5 35.0 1.0
N B:ASN217 3.9 35.1 1.0
S1 B:F3S702 4.2 31.7 1.0
N B:ASN216 4.2 32.5 1.0
C B:ASN217 4.3 37.8 1.0
SD B:MET227 4.4 33.1 1.0
NE B:ARG201 4.5 33.8 1.0
CA B:ASN216 4.5 34.5 1.0
CA B:PRO339 4.5 23.4 1.0
C B:ASN216 4.7 32.5 1.0
CA B:ASN217 4.7 36.2 1.0
NH2 B:ARG201 4.8 29.7 1.0
CB B:PRO339 4.8 22.6 1.0
CB B:ASN215 4.9 35.9 1.0
C B:ASN215 4.9 34.2 1.0
N B:ASN215 4.9 37.9 1.0
CB B:CYS222 4.9 27.2 1.0
SG B:CYS222 4.9 28.9 1.0
SG B:CYS212 5.0 29.9 1.0
CZ B:ARG201 5.0 34.4 1.0

Iron binding site 4 out of 6 in 6a2u

Go back to Iron Binding Sites List in 6a2u
Iron binding site 4 out of 6 in the Crystal Structure of Gamma-Alpha Subunit Complex From Burkholderia Cepacia Fad Glucose Dehydrogenase


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 4 of Crystal Structure of Gamma-Alpha Subunit Complex From Burkholderia Cepacia Fad Glucose Dehydrogenase within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Fe702

b:27.9
occ:1.00
 FE1 D:F3S702 0.0 27.9 1.0
S3 D:F3S702 2.2 28.3 1.0
S2 D:F3S702 2.2 28.1 1.0
S1 D:F3S702 2.2 35.9 1.0
SG D:CYS212 2.3 24.8 1.0
FE4 D:F3S702 3.0 29.1 1.0
FE3 D:F3S702 3.0 35.3 1.0
CB D:CYS212 3.4 22.1 1.0
N D:GLY214 3.7 22.8 1.0
N D:CYS213 3.8 24.3 1.0
CA D:CYS212 3.8 22.0 1.0
N D:ASN215 4.1 29.9 1.0
S4 D:F3S702 4.1 35.4 1.0
C D:CYS212 4.2 22.3 1.0
CA D:GLY214 4.2 26.2 1.0
CB D:ALA226 4.6 26.8 1.0
NE D:ARG201 4.6 26.8 1.0
CD D:ARG201 4.6 22.5 1.0
C D:GLY214 4.7 26.8 1.0
C D:CYS213 4.7 23.9 1.0
CG D:PRO339 4.8 24.6 1.0
CA D:CYS213 4.8 29.6 1.0
CB D:ASN215 4.9 24.4 1.0
SG D:CYS218 4.9 26.9 1.0
OD1 D:ASN215 5.0 39.3 1.0

Iron binding site 5 out of 6 in 6a2u

Go back to Iron Binding Sites List in 6a2u
Iron binding site 5 out of 6 in the Crystal Structure of Gamma-Alpha Subunit Complex From Burkholderia Cepacia Fad Glucose Dehydrogenase


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 5 of Crystal Structure of Gamma-Alpha Subunit Complex From Burkholderia Cepacia Fad Glucose Dehydrogenase within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Fe702

b:35.3
occ:1.00
 FE3 D:F3S702 0.0 35.3 1.0
S3 D:F3S702 2.2 28.3 1.0
S4 D:F3S702 2.2 35.4 1.0
S1 D:F3S702 2.2 35.9 1.0
SG D:CYS222 2.3 27.5 1.0
FE1 D:F3S702 3.0 27.9 1.0
FE4 D:F3S702 3.0 29.1 1.0
CB D:CYS222 3.2 24.6 1.0
CA D:CYS222 3.9 23.7 1.0
OD1 D:ASN215 4.0 39.3 1.0
CD D:PRO223 4.0 32.6 1.0
CB D:ASN215 4.1 24.4 1.0
S2 D:F3S702 4.1 28.1 1.0
CB D:ALA226 4.5 26.8 1.0
CG D:ASN215 4.5 27.7 1.0
C D:CYS222 4.6 27.2 1.0
N D:PRO223 4.6 31.3 1.0
CG1 D:ILE224 4.7 27.1 1.0
CG D:MET227 4.7 27.9 1.0
SD D:MET227 4.9 31.1 1.0
N D:ALA226 4.9 25.3 1.0
N D:ASN215 4.9 29.9 1.0

Iron binding site 6 out of 6 in 6a2u

Go back to Iron Binding Sites List in 6a2u
Iron binding site 6 out of 6 in the Crystal Structure of Gamma-Alpha Subunit Complex From Burkholderia Cepacia Fad Glucose Dehydrogenase


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 6 of Crystal Structure of Gamma-Alpha Subunit Complex From Burkholderia Cepacia Fad Glucose Dehydrogenase within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Fe702

b:29.1
occ:1.00
 FE4 D:F3S702 0.0 29.1 1.0
S3 D:F3S702 2.2 28.3 1.0
S4 D:F3S702 2.2 35.4 1.0
S2 D:F3S702 2.2 28.1 1.0
SG D:CYS218 2.3 26.9 1.0
FE1 D:F3S702 3.0 27.9 1.0
FE3 D:F3S702 3.0 35.3 1.0
N D:CYS218 3.5 25.2 1.0
CB D:CYS218 3.5 28.9 1.0
CA D:CYS218 3.6 29.5 1.0
N D:ASN217 3.9 28.8 1.0
S1 D:F3S702 4.2 35.9 1.0
N D:ASN216 4.2 27.3 1.0
C D:ASN217 4.3 27.4 1.0
NE D:ARG201 4.4 26.8 1.0
CA D:PRO339 4.5 23.0 1.0
CA D:ASN216 4.5 25.2 1.0
SD D:MET227 4.5 31.1 1.0
NH2 D:ARG201 4.6 24.0 1.0
C D:ASN216 4.6 25.3 1.0
CA D:ASN217 4.7 26.2 1.0
CB D:ASN215 4.7 24.4 1.0
CB D:PRO339 4.8 25.2 1.0
CZ D:ARG201 4.8 21.8 1.0
SG D:CYS212 4.8 24.8 1.0
N D:ASN215 4.9 29.9 1.0
C D:ASN215 4.9 27.8 1.0
SG D:CYS222 4.9 27.5 1.0
CB D:CYS222 4.9 24.6 1.0

Reference:

H.Yoshida, K.Kojima, M.Shiota, K.Yoshimatsu, T.Yamazaki, S.Ferri, W.Tsugawa, S.Kamitori, K.Sode. X-Ray Structure of the Direct Electron Transfer-Type Fad Glucose Dehydrogenase Catalytic Subunit Complexed with A Hitchhiker Protein. Acta Crystallogr D Struct V. 75 841 2019BIOL.
ISSN: ISSN 2059-7983
PubMed: 31478907
DOI: 10.1107/S2059798319010878
Page generated: Tue Aug 6 13:25:24 2024

Last articles

Zn in 9MJ5
Zn in 9HNW
Zn in 9G0L
Zn in 9FNE
Zn in 9DZN
Zn in 9E0I
Zn in 9D32
Zn in 9DAK
Zn in 8ZXC
Zn in 8ZUF
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy