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Zinc in PDB 5swc: The Structure of the Beta-Carbonic Anhydrase Ccaa

Enzymatic activity of The Structure of the Beta-Carbonic Anhydrase Ccaa

All present enzymatic activity of The Structure of the Beta-Carbonic Anhydrase Ccaa:
4.2.1.1;

Protein crystallography data

The structure of The Structure of the Beta-Carbonic Anhydrase Ccaa, PDB code: 5swc was solved by M.S.Kimber, L.Mcgurn, S.A.White, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 48.82 / 1.45
Space group I 4
Cell size a, b, c (Å), α, β, γ (°) 202.950, 202.950, 70.510, 90.00, 90.00, 90.00
R / Rfree (%) 13.1 / 14.7

Other elements in 5swc:

The structure of The Structure of the Beta-Carbonic Anhydrase Ccaa also contains other interesting chemical elements:

Chlorine (Cl) 5 atoms

Zinc Binding Sites:

The binding sites of Zinc atom in the The Structure of the Beta-Carbonic Anhydrase Ccaa (pdb code 5swc). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 6 binding sites of Zinc where determined in the The Structure of the Beta-Carbonic Anhydrase Ccaa, PDB code: 5swc:
Jump to Zinc binding site number: 1; 2; 3; 4; 5; 6;

Zinc binding site 1 out of 6 in 5swc

Go back to Zinc Binding Sites List in 5swc
Zinc binding site 1 out of 6 in the The Structure of the Beta-Carbonic Anhydrase Ccaa


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of The Structure of the Beta-Carbonic Anhydrase Ccaa within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn301

b:11.9
occ:1.00
NE2 A:HIS98 2.1 9.8 1.0
O B:HOH422 2.1 12.7 1.0
SG A:CYS39 2.3 11.3 1.0
SG A:CYS101 2.3 12.2 1.0
HB2 A:ASP41 2.9 14.2 1.0
HA A:CYS101 3.0 13.7 1.0
CE1 A:HIS98 3.0 12.4 1.0
CD2 A:HIS98 3.1 11.2 1.0
HE1 A:HIS98 3.2 14.9 1.0
CB A:CYS101 3.2 11.6 1.0
HB2 A:CYS39 3.2 13.3 1.0
CB A:CYS39 3.2 11.1 1.0
HD2 A:HIS98 3.3 13.5 1.0
HB2 A:CYS101 3.3 13.9 1.0
HB3 A:CYS39 3.3 13.3 1.0
H A:GLY102 3.4 17.4 1.0
CA A:CYS101 3.5 11.4 1.0
O2 B:FMT303 3.6 20.9 1.0
H A:GLY64 3.7 12.2 1.0
CB A:ASP41 3.8 11.9 1.0
O1 B:FMT303 3.9 19.3 1.0
H A:ALA103 3.9 16.1 1.0
OD2 A:ASP41 3.9 12.7 1.0
N A:GLY102 3.9 14.5 1.0
HA2 A:GLY64 4.0 13.7 1.0
HB3 A:ASP41 4.0 14.2 1.0
H A:ASP41 4.1 13.0 1.0
HB3 A:CYS101 4.1 13.9 1.0
C B:FMT303 4.1 19.2 1.0
ND1 A:HIS98 4.1 13.3 1.0
C A:CYS101 4.2 13.5 1.0
CG A:HIS98 4.2 11.2 1.0
O A:HOH439 4.3 12.3 1.0
CG A:ASP41 4.4 12.1 1.0
N A:GLY64 4.4 10.2 1.0
HB3 A:ALA103 4.5 17.8 1.0
CA A:GLY64 4.7 11.4 1.0
N A:ALA103 4.7 13.4 1.0
CA A:CYS39 4.7 10.9 1.0
N A:CYS101 4.8 12.5 1.0
N A:ASP41 4.8 10.8 1.0
HB2 A:ALA103 4.9 17.8 1.0
CA A:ASP41 4.9 11.0 1.0
HD1 A:HIS98 4.9 15.9 1.0
HA A:CYS39 4.9 13.1 1.0
OD1 A:ASN65 4.9 11.6 1.0
HA A:ALA63 5.0 13.7 1.0

Zinc binding site 2 out of 6 in 5swc

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Zinc binding site 2 out of 6 in the The Structure of the Beta-Carbonic Anhydrase Ccaa


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of The Structure of the Beta-Carbonic Anhydrase Ccaa within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn301

b:12.4
occ:1.00
O A:HOH417 2.0 13.0 1.0
NE2 B:HIS98 2.1 11.7 1.0
SG B:CYS39 2.3 11.8 1.0
SG B:CYS101 2.3 12.4 1.0
HB2 B:ASP41 3.0 13.7 1.0
HA B:CYS101 3.0 14.4 1.0
CE1 B:HIS98 3.0 12.8 1.0
CD2 B:HIS98 3.1 13.3 1.0
HE1 B:HIS98 3.2 15.3 1.0
HB2 B:CYS39 3.2 12.9 1.0
CB B:CYS39 3.2 10.8 1.0
CB B:CYS101 3.2 12.9 1.0
HD2 B:HIS98 3.3 15.9 1.0
HB2 B:CYS101 3.3 15.5 1.0
HB3 B:CYS39 3.3 12.9 1.0
H B:GLY102 3.5 17.9 1.0
O2 A:FMT304 3.5 21.9 1.0
CA B:CYS101 3.5 12.0 1.0
H B:GLY64 3.7 13.1 1.0
CB B:ASP41 3.8 11.4 1.0
H B:ALA103 3.8 17.1 1.0
O1 A:FMT304 3.9 20.4 1.0
OD2 B:ASP41 3.9 13.0 1.0
HB3 B:ASP41 3.9 13.7 1.0
HA2 B:GLY64 4.0 13.5 1.0
N B:GLY102 4.0 14.9 1.0
C A:FMT304 4.0 20.6 1.0
H B:ASP41 4.1 13.1 1.0
HB3 B:CYS101 4.1 15.5 1.0
ND1 B:HIS98 4.2 13.8 1.0
C B:CYS101 4.2 14.9 1.0
CG B:HIS98 4.2 13.0 1.0
O B:HOH450 4.3 12.0 1.0
CG B:ASP41 4.4 12.8 1.0
N B:GLY64 4.4 10.9 1.0
HB3 B:ALA103 4.5 16.8 1.0
N B:ALA103 4.7 14.2 1.0
CA B:GLY64 4.7 11.3 1.0
CA B:CYS39 4.7 10.5 1.0
N B:CYS101 4.8 13.9 1.0
N B:ASP41 4.8 10.9 1.0
HB2 B:ALA103 4.9 16.8 1.0
HA B:CYS39 4.9 12.6 1.0
HD1 B:HIS98 4.9 16.5 1.0
CA B:ASP41 4.9 11.8 1.0
OD1 B:ASN65 5.0 11.8 1.0
HA B:ALA63 5.0 14.2 1.0

Zinc binding site 3 out of 6 in 5swc

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Zinc binding site 3 out of 6 in the The Structure of the Beta-Carbonic Anhydrase Ccaa


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of The Structure of the Beta-Carbonic Anhydrase Ccaa within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Zn301

b:17.1
occ:1.00
O C:HOH406 2.0 17.6 1.0
NE2 C:HIS98 2.1 19.2 1.0
SG C:CYS39 2.3 15.7 1.0
SG C:CYS101 2.3 17.8 1.0
HB2 C:ASP41 2.9 21.3 1.0
HA C:CYS101 2.9 22.8 1.0
CE1 C:HIS98 3.0 18.8 1.0
CD2 C:HIS98 3.1 18.2 1.0
HE1 C:HIS98 3.2 22.5 1.0
CB C:CYS101 3.2 18.0 1.0
CB C:CYS39 3.2 15.7 1.0
HB2 C:CYS101 3.2 21.6 1.0
HB2 C:CYS39 3.2 18.8 1.0
HB3 C:CYS39 3.3 18.8 1.0
HD2 C:HIS98 3.3 21.9 1.0
H C:GLY102 3.4 24.1 1.0
CA C:CYS101 3.5 19.0 1.0
O1 C:FMT304 3.6 23.7 1.0
H C:GLY64 3.7 17.9 1.0
O2 C:FMT304 3.7 21.3 1.0
CB C:ASP41 3.8 17.8 1.0
H C:ALA103 3.8 23.0 1.0
N C:GLY102 3.9 20.1 1.0
OD2 C:ASP41 3.9 19.3 1.0
HA2 C:GLY64 4.0 18.2 1.0
HB3 C:ASP41 4.0 21.3 1.0
C C:FMT304 4.0 22.2 1.0
H C:ASP41 4.1 18.1 1.0
HB3 C:CYS101 4.1 21.6 1.0
C C:CYS101 4.1 22.7 1.0
ND1 C:HIS98 4.1 18.8 1.0
CG C:HIS98 4.2 18.5 1.0
O C:HOH434 4.3 17.6 1.0
CG C:ASP41 4.3 18.9 1.0
N C:GLY64 4.4 14.9 1.0
HB3 C:ALA103 4.5 22.3 1.0
CA C:GLY64 4.7 15.2 1.0
N C:ALA103 4.7 19.2 1.0
CA C:CYS39 4.7 14.2 1.0
N C:CYS101 4.8 19.4 1.0
N C:ASP41 4.8 15.1 1.0
HD1 C:HIS98 4.9 22.5 1.0
CA C:ASP41 4.9 15.8 1.0
HB2 C:ALA103 5.0 22.3 1.0
HA C:CYS39 5.0 17.0 1.0
OD1 C:ASN65 5.0 15.7 1.0
HA C:ALA63 5.0 18.4 1.0

Zinc binding site 4 out of 6 in 5swc

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Zinc binding site 4 out of 6 in the The Structure of the Beta-Carbonic Anhydrase Ccaa


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of The Structure of the Beta-Carbonic Anhydrase Ccaa within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Zn301

b:15.0
occ:1.00
O C:HOH409 2.1 16.3 1.0
NE2 D:HIS98 2.1 14.7 1.0
SG D:CYS39 2.3 14.2 1.0
SG D:CYS101 2.3 15.0 1.0
HB2 D:ASP41 2.9 17.7 1.0
HA D:CYS101 2.9 16.8 1.0
CE1 D:HIS98 3.0 16.2 1.0
CD2 D:HIS98 3.0 14.7 1.0
CB D:CYS39 3.2 13.6 1.0
HE1 D:HIS98 3.2 19.5 1.0
HB2 D:CYS39 3.2 16.3 1.0
HD2 D:HIS98 3.2 17.6 1.0
CB D:CYS101 3.3 15.5 1.0
HB3 D:CYS39 3.3 16.3 1.0
HB2 D:CYS101 3.3 18.6 1.0
H D:GLY102 3.4 22.3 1.0
CA D:CYS101 3.5 14.0 1.0
O1 C:FMT303 3.6 22.8 1.0
H D:GLY64 3.8 14.3 1.0
O2 C:FMT303 3.8 20.2 1.0
CB D:ASP41 3.8 14.7 1.0
H D:ALA103 3.8 19.4 1.0
OD2 D:ASP41 3.9 15.7 1.0
N D:GLY102 4.0 18.6 1.0
C C:FMT303 4.0 20.8 1.0
HA2 D:GLY64 4.0 15.7 1.0
HB3 D:ASP41 4.0 17.7 1.0
H D:ASP41 4.0 17.4 1.0
ND1 D:HIS98 4.1 16.8 1.0
HB3 D:CYS101 4.1 18.6 1.0
C D:CYS101 4.2 17.6 1.0
CG D:HIS98 4.2 15.1 1.0
O D:HOH429 4.3 15.9 1.0
CG D:ASP41 4.4 16.1 1.0
N D:GLY64 4.4 11.9 1.0
HB3 D:ALA103 4.5 22.3 1.0
N D:ALA103 4.7 16.2 1.0
CA D:CYS39 4.7 13.6 1.0
CA D:GLY64 4.7 13.1 1.0
N D:CYS101 4.8 17.1 1.0
N D:ASP41 4.8 14.5 1.0
HB2 D:ALA103 4.8 22.3 1.0
CA D:ASP41 4.9 15.2 1.0
HA D:CYS39 4.9 16.3 1.0
HD1 D:HIS98 4.9 20.1 1.0
HA D:ALA63 5.0 14.9 1.0
H C:FMT303 5.0 24.9 1.0
OD1 D:ASN65 5.0 14.8 1.0

Zinc binding site 5 out of 6 in 5swc

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Zinc binding site 5 out of 6 in the The Structure of the Beta-Carbonic Anhydrase Ccaa


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 5 of The Structure of the Beta-Carbonic Anhydrase Ccaa within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Zn301

b:14.2
occ:1.00
O E:HOH411 2.0 16.1 1.0
NE2 E:HIS98 2.1 12.7 1.0
SG E:CYS39 2.3 14.5 1.0
SG E:CYS101 2.3 14.2 1.0
HB2 E:ASP41 2.9 18.3 1.0
HA E:CYS101 3.0 16.3 1.0
CE1 E:HIS98 3.0 13.2 1.0
CD2 E:HIS98 3.1 13.1 1.0
HE1 E:HIS98 3.2 15.9 1.0
CB E:CYS39 3.2 14.0 1.0
HB2 E:CYS39 3.2 16.8 1.0
CB E:CYS101 3.2 15.1 1.0
HD2 E:HIS98 3.2 15.7 1.0
HB2 E:CYS101 3.3 18.1 1.0
HB3 E:CYS39 3.3 16.8 1.0
H E:GLY102 3.4 19.0 1.0
CA E:CYS101 3.5 13.6 1.0
O2 E:FMT305 3.5 22.4 1.0
H E:GLY64 3.8 15.0 1.0
O1 E:FMT305 3.8 19.5 1.0
CB E:ASP41 3.8 15.2 1.0
H E:ALA103 3.9 17.3 1.0
N E:GLY102 3.9 15.8 1.0
OD2 E:ASP41 3.9 16.4 1.0
C E:FMT305 4.0 19.6 1.0
HA2 E:GLY64 4.0 16.9 1.0
HB3 E:ASP41 4.0 18.3 1.0
H E:ASP41 4.1 17.7 1.0
HB3 E:CYS101 4.1 18.1 1.0
C E:CYS101 4.1 16.0 1.0
ND1 E:HIS98 4.1 15.6 1.0
CG E:HIS98 4.2 13.6 1.0
O E:HOH434 4.3 13.3 1.0
CG E:ASP41 4.4 15.8 1.0
N E:GLY64 4.4 12.5 1.0
HB3 E:ALA103 4.5 18.4 1.0
CA E:CYS39 4.7 13.6 1.0
CA E:GLY64 4.7 14.1 1.0
N E:ALA103 4.7 14.4 1.0
N E:CYS101 4.8 15.0 1.0
N E:ASP41 4.8 14.8 1.0
HA E:CYS39 4.9 16.3 1.0
HB2 E:ALA103 4.9 18.4 1.0
CA E:ASP41 4.9 15.3 1.0
HA E:ALA63 4.9 14.4 1.0
HD1 E:HIS98 4.9 18.7 1.0
H E:FMT305 4.9 23.6 1.0
OD1 E:ASN65 4.9 13.8 1.0

Zinc binding site 6 out of 6 in 5swc

Go back to Zinc Binding Sites List in 5swc
Zinc binding site 6 out of 6 in the The Structure of the Beta-Carbonic Anhydrase Ccaa


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 6 of The Structure of the Beta-Carbonic Anhydrase Ccaa within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Zn301

b:14.6
occ:1.00
O E:HOH410 2.1 15.2 1.0
NE2 F:HIS98 2.1 14.4 1.0
SG F:CYS39 2.3 13.5 1.0
SG F:CYS101 2.3 14.5 1.0
HB2 F:ASP41 2.9 18.9 1.0
HA F:CYS101 3.0 18.6 1.0
CE1 F:HIS98 3.0 15.2 1.0
CD2 F:HIS98 3.1 14.7 1.0
HE1 F:HIS98 3.2 18.3 1.0
CB F:CYS101 3.2 15.1 1.0
CB F:CYS39 3.2 13.6 1.0
HB2 F:CYS39 3.2 16.3 1.0
HB2 F:CYS101 3.3 18.1 1.0
HD2 F:HIS98 3.3 17.7 1.0
HB3 F:CYS39 3.3 16.3 1.0
H F:GLY102 3.4 20.5 1.0
O1 E:FMT306 3.5 22.2 1.0
CA F:CYS101 3.5 15.5 1.0
H F:GLY64 3.7 15.2 1.0
O2 E:FMT306 3.8 19.3 1.0
CB F:ASP41 3.8 15.7 1.0
H F:ALA103 3.8 18.2 1.0
N F:GLY102 3.9 17.1 1.0
OD2 F:ASP41 4.0 16.8 1.0
HB3 F:ASP41 4.0 18.9 1.0
HA2 F:GLY64 4.0 14.8 1.0
C E:FMT306 4.1 20.9 1.0
H F:ASP41 4.1 15.9 1.0
HB3 F:CYS101 4.1 18.1 1.0
C F:CYS101 4.1 15.7 1.0
ND1 F:HIS98 4.1 16.0 1.0
CG F:HIS98 4.2 15.7 1.0
O F:HOH444 4.3 13.5 1.0
CG F:ASP41 4.4 15.4 1.0
N F:GLY64 4.4 12.7 1.0
HB3 F:ALA103 4.5 19.6 1.0
N F:ALA103 4.7 15.2 1.0
CA F:CYS39 4.7 12.6 1.0
CA F:GLY64 4.7 12.3 1.0
N F:CYS101 4.8 15.8 1.0
N F:ASP41 4.8 13.2 1.0
HB2 F:ALA103 4.8 19.6 1.0
CA F:ASP41 4.9 15.0 1.0
HD1 F:HIS98 4.9 19.2 1.0
HA F:CYS39 4.9 15.2 1.0
HA F:ALA63 5.0 15.1 1.0
OD1 F:ASN65 5.0 13.8 1.0

Reference:

L.D.Mcgurn, M.Moazami-Goudarzi, S.A.White, T.Suwal, B.Brar, J.Q.Tang, G.S.Espie, M.S.Kimber. The Structure, Kinetics and Interactions of the Beta-Carboxysomal Beta-Carbonic Anhydrase, Ccaa. Biochem. J. V. 473 4559 2016.
ISSN: ESSN 1470-8728
PubMed: 27729545
DOI: 10.1042/BCJ20160773
Page generated: Mon Oct 28 08:07:13 2024

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