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Zinc in PDB 3ffz: Domain Organization in Clostridium Butulinum Neurotoxin Type E Is Unique: Its Implication in Faster Translocation

Enzymatic activity of Domain Organization in Clostridium Butulinum Neurotoxin Type E Is Unique: Its Implication in Faster Translocation

All present enzymatic activity of Domain Organization in Clostridium Butulinum Neurotoxin Type E Is Unique: Its Implication in Faster Translocation:
3.4.24.69;

Protein crystallography data

The structure of Domain Organization in Clostridium Butulinum Neurotoxin Type E Is Unique: Its Implication in Faster Translocation, PDB code: 3ffz was solved by D.Kumaran, S.Eswaramoorthy, S.Swaminathan, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 29.49 / 2.65
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 81.430, 172.570, 137.265, 90.00, 99.84, 90.00
R / Rfree (%) 25.3 / 30.9

Other elements in 3ffz:

The structure of Domain Organization in Clostridium Butulinum Neurotoxin Type E Is Unique: Its Implication in Faster Translocation also contains other interesting chemical elements:

Sodium (Na) 3 atoms

Zinc Binding Sites:

The binding sites of Zinc atom in the Domain Organization in Clostridium Butulinum Neurotoxin Type E Is Unique: Its Implication in Faster Translocation (pdb code 3ffz). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the Domain Organization in Clostridium Butulinum Neurotoxin Type E Is Unique: Its Implication in Faster Translocation, PDB code: 3ffz:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in 3ffz

Go back to Zinc Binding Sites List in 3ffz
Zinc binding site 1 out of 2 in the Domain Organization in Clostridium Butulinum Neurotoxin Type E Is Unique: Its Implication in Faster Translocation


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Domain Organization in Clostridium Butulinum Neurotoxin Type E Is Unique: Its Implication in Faster Translocation within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn1300

b:37.0
occ:1.00
 OE1 A:GLU251 2.0 38.6 1.0
NE2 A:HIS216 2.0 47.9 1.0
NE2 A:HIS212 2.1 32.2 1.0
O A:HOH1289 2.3 61.8 1.0
O A:HOH1318 2.5 45.2 1.0
CD A:GLU251 2.8 35.2 1.0
CD2 A:HIS216 2.9 47.0 1.0
OE2 A:GLU251 2.9 33.3 1.0
CD2 A:HIS212 3.0 30.1 1.0
CE1 A:HIS212 3.1 31.3 1.0
CE1 A:HIS216 3.1 50.8 1.0
OH A:TYR351 3.8 44.4 1.0
OE2 A:GLU213 3.9 39.3 1.0
CE2 A:TYR351 4.0 33.4 1.0
CG A:HIS216 4.1 47.8 1.0
CG A:HIS212 4.1 30.1 1.0
ND1 A:HIS212 4.1 30.7 1.0
ND1 A:HIS216 4.2 50.9 1.0
CG A:GLU251 4.2 31.4 1.0
CZ A:TYR351 4.3 36.8 1.0
CB A:GLU251 4.8 28.1 1.0
CD A:GLU213 4.8 42.0 1.0
CA A:GLU251 4.8 26.8 1.0
CG2 A:THR254 4.9 30.6 1.0
OE1 A:GLU213 5.0 46.8 1.0

Zinc binding site 2 out of 2 in 3ffz

Go back to Zinc Binding Sites List in 3ffz
Zinc binding site 2 out of 2 in the Domain Organization in Clostridium Butulinum Neurotoxin Type E Is Unique: Its Implication in Faster Translocation


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Domain Organization in Clostridium Butulinum Neurotoxin Type E Is Unique: Its Implication in Faster Translocation within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn1300

b:47.6
occ:1.00
 OE1 B:GLU251 2.0 49.7 1.0
NE2 B:HIS216 2.1 53.9 1.0
NE2 B:HIS212 2.3 55.9 1.0
O B:HOH1275 2.3 60.4 1.0
O B:HOH1284 2.4 40.5 1.0
CD2 B:HIS216 3.0 54.0 1.0
CD2 B:HIS212 3.0 53.0 1.0
CD B:GLU251 3.1 49.6 1.0
CE1 B:HIS216 3.1 55.2 1.0
CE1 B:HIS212 3.4 52.5 1.0
OE2 B:GLU251 3.4 45.1 1.0
OH B:TYR351 4.0 41.9 1.0
OE2 B:GLU213 4.1 44.3 1.0
CE2 B:TYR351 4.1 41.4 1.0
ND1 B:HIS216 4.2 53.1 1.0
CG B:HIS216 4.2 52.0 1.0
CG B:HIS212 4.3 50.4 1.0
CG B:GLU251 4.4 46.0 1.0
CZ B:TYR351 4.4 42.5 1.0
ND1 B:HIS212 4.4 51.6 1.0
OE1 B:GLU213 4.6 47.7 1.0
CA B:GLU251 4.6 44.4 1.0
CB B:GLU251 4.6 44.2 1.0
CD B:GLU213 4.7 47.4 1.0
O B:HOH1282 5.0 65.7 1.0

Reference:

D.Kumaran, S.Eswaramoorthy, W.Furey, J.Navaza, M.Sax, S.Swaminathan. Domain Organization in Clostridium Botulinum Neurotoxin Type E Is Unique: Its Implication in Faster Translocation. J.Mol.Biol. V. 386 233 2009.
ISSN: ISSN 0022-2836
PubMed: 19118561
DOI: 10.1016/J.JMB.2008.12.027
Page generated: Thu Oct 24 13:10:39 2024

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