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Cobalt in PDB 2nq6: Crystal Structure of Human Methionine Aminopeptidase Type 1 in Complex with 3-Tert-Butoxycarbonylaminopyridine-2-Carboxylic Acid Thiazole-2- Ylamide

Enzymatic activity of Crystal Structure of Human Methionine Aminopeptidase Type 1 in Complex with 3-Tert-Butoxycarbonylaminopyridine-2-Carboxylic Acid Thiazole-2- Ylamide

All present enzymatic activity of Crystal Structure of Human Methionine Aminopeptidase Type 1 in Complex with 3-Tert-Butoxycarbonylaminopyridine-2-Carboxylic Acid Thiazole-2- Ylamide:
3.4.11.18;

Protein crystallography data

The structure of Crystal Structure of Human Methionine Aminopeptidase Type 1 in Complex with 3-Tert-Butoxycarbonylaminopyridine-2-Carboxylic Acid Thiazole-2- Ylamide, PDB code: 2nq6 was solved by A.Addlagatta, B.W.Matthews, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 20.00 / 1.50
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 47.320, 77.825, 48.229, 90.00, 90.48, 90.00
R / Rfree (%) 17.3 / 20.3

Other elements in 2nq6:

The structure of Crystal Structure of Human Methionine Aminopeptidase Type 1 in Complex with 3-Tert-Butoxycarbonylaminopyridine-2-Carboxylic Acid Thiazole-2- Ylamide also contains other interesting chemical elements:

Calcium (Ca) 1 atom

Cobalt Binding Sites:

The binding sites of Cobalt atom in the Crystal Structure of Human Methionine Aminopeptidase Type 1 in Complex with 3-Tert-Butoxycarbonylaminopyridine-2-Carboxylic Acid Thiazole-2- Ylamide (pdb code 2nq6). This binding sites where shown within 5.0 Angstroms radius around Cobalt atom.
In total 3 binding sites of Cobalt where determined in the Crystal Structure of Human Methionine Aminopeptidase Type 1 in Complex with 3-Tert-Butoxycarbonylaminopyridine-2-Carboxylic Acid Thiazole-2- Ylamide, PDB code: 2nq6:
Jump to Cobalt binding site number: 1; 2; 3;

Cobalt binding site 1 out of 3 in 2nq6

Go back to Cobalt Binding Sites List in 2nq6
Cobalt binding site 1 out of 3 in the Crystal Structure of Human Methionine Aminopeptidase Type 1 in Complex with 3-Tert-Butoxycarbonylaminopyridine-2-Carboxylic Acid Thiazole-2- Ylamide


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 1 of Crystal Structure of Human Methionine Aminopeptidase Type 1 in Complex with 3-Tert-Butoxycarbonylaminopyridine-2-Carboxylic Acid Thiazole-2- Ylamide within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Co401

b:8.8
occ:1.00
 O A:HOH471 2.0 7.5 1.0
OD1 A:ASP240 2.0 8.7 1.0
OD1 A:ASP229 2.1 9.0 1.0
OE1 A:GLU367 2.1 9.4 1.0
O A:HOH499 2.2 9.8 1.0
OD2 A:ASP229 2.4 14.4 1.0
CG A:ASP229 2.5 9.5 1.0
CG A:ASP240 2.9 9.3 1.0
CD A:GLU367 3.0 11.9 1.0
OD2 A:ASP240 3.1 11.3 1.0
CO A:CO402 3.2 10.3 1.0
OE2 A:GLU367 3.3 8.7 1.0
O A:HOH483 3.9 13.9 1.0
OG1 A:THR231 4.0 11.3 1.0
CB A:ASP229 4.1 7.4 1.0
ND2 A:ASN242 4.1 9.1 1.0
O A:HOH472 4.1 11.5 1.0
OE2 A:GLU336 4.3 11.7 1.0
CB A:ASP240 4.3 8.1 1.0
O A:LEU241 4.4 8.6 1.0
CG A:GLU367 4.4 9.2 1.0
N A:LEU241 4.5 7.8 1.0
O A:ILE230 4.5 8.9 1.0
O A:HOH560 4.5 14.5 1.0
O A:HOH548 4.6 11.4 1.0
OE1 A:GLU336 4.6 10.7 1.0
O A:HOH546 4.6 12.7 1.0
C A:LEU241 4.7 10.2 1.0
CD A:GLU336 4.7 11.4 1.0
C A:ASP240 4.8 8.2 1.0
CA A:ASP229 4.8 7.6 1.0
CB A:ASN242 4.8 7.2 1.0
CA A:ASP240 4.9 7.5 1.0
N A:ILE230 4.9 6.5 1.0
CA A:LEU241 4.9 7.4 1.0
CB A:GLU367 4.9 8.6 1.0
CG A:ASN242 5.0 8.4 1.0

Cobalt binding site 2 out of 3 in 2nq6

Go back to Cobalt Binding Sites List in 2nq6
Cobalt binding site 2 out of 3 in the Crystal Structure of Human Methionine Aminopeptidase Type 1 in Complex with 3-Tert-Butoxycarbonylaminopyridine-2-Carboxylic Acid Thiazole-2- Ylamide


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 2 of Crystal Structure of Human Methionine Aminopeptidase Type 1 in Complex with 3-Tert-Butoxycarbonylaminopyridine-2-Carboxylic Acid Thiazole-2- Ylamide within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Co402

b:10.3
occ:1.00
 O A:HOH471 1.9 7.5 1.0
OE2 A:GLU367 2.0 8.7 1.0
OD2 A:ASP240 2.0 11.3 1.0
NE2 A:HIS303 2.1 8.8 1.0
OE1 A:GLU336 2.2 10.7 1.0
CD A:GLU367 3.0 11.9 1.0
CG A:ASP240 3.0 9.3 1.0
CE1 A:HIS303 3.0 11.3 1.0
CD2 A:HIS303 3.0 15.3 1.0
CD A:GLU336 3.1 11.4 1.0
CO A:CO401 3.2 8.8 1.0
OE1 A:GLU367 3.3 9.4 1.0
OE2 A:GLU336 3.4 11.7 1.0
OD1 A:ASP240 3.4 8.7 1.0
OG1 A:THR334 3.6 12.3 1.0
O A:HOH483 3.7 13.9 1.0
CG2 A:THR334 3.8 9.8 1.0
CB A:THR334 4.0 10.2 1.0
ND1 A:HIS303 4.1 11.0 1.0
CG A:HIS303 4.2 10.9 1.0
CB A:ASP240 4.2 8.1 1.0
O A:HOH499 4.2 9.8 1.0
CG A:GLU367 4.3 9.2 1.0
CG A:GLU336 4.4 10.1 1.0
O A:HOH546 4.8 12.7 1.0
NE2 A:HIS310 4.8 10.9 1.0
CB A:GLU336 4.9 9.8 1.0
OD2 A:ASP229 4.9 14.4 1.0
CD2 A:HIS310 5.0 13.5 1.0

Cobalt binding site 3 out of 3 in 2nq6

Go back to Cobalt Binding Sites List in 2nq6
Cobalt binding site 3 out of 3 in the Crystal Structure of Human Methionine Aminopeptidase Type 1 in Complex with 3-Tert-Butoxycarbonylaminopyridine-2-Carboxylic Acid Thiazole-2- Ylamide


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 3 of Crystal Structure of Human Methionine Aminopeptidase Type 1 in Complex with 3-Tert-Butoxycarbonylaminopyridine-2-Carboxylic Acid Thiazole-2- Ylamide within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Co403

b:12.7
occ:1.00
 N3 A:HM4410 2.1 12.7 1.0
N2 A:HM4410 2.1 15.2 1.0
O A:HOH546 2.1 12.7 1.0
NE2 A:HIS212 2.1 11.9 1.0
O A:HOH472 2.2 11.5 1.0
O A:HOH483 2.2 13.9 1.0
C5 A:HM4410 2.9 16.9 1.0
C4 A:HM4410 2.9 18.9 1.0
C6 A:HM4410 3.0 15.7 1.0
C3 A:HM4410 3.0 13.1 1.0
CD2 A:HIS212 3.1 12.8 1.0
CE1 A:HIS212 3.1 13.9 1.0
N1 A:HM4410 3.3 13.8 1.0
O A:HOH471 3.9 7.5 1.0
O1 A:HM4410 4.1 18.4 1.0
O A:HOH548 4.1 11.4 1.0
NE2 A:HIS310 4.2 10.9 1.0
ND1 A:HIS212 4.2 11.5 1.0
CG A:HIS212 4.2 10.3 1.0
C9 A:HM4410 4.2 15.5 1.0
C7 A:HM4410 4.3 20.9 1.0
O A:HOH499 4.4 9.8 1.0
OD2 A:ASP229 4.4 14.4 1.0
OE2 A:GLU336 4.5 11.7 1.0
C2 A:HM4410 4.6 16.2 1.0
S A:HM4410 4.7 17.2 1.0
C8 A:HM4410 4.8 19.5 1.0
CE1 A:HIS310 4.9 10.0 1.0

Reference:

X.Hu, A.Addlagatta, J.Lu, B.W.Matthews, J.O.Liu. Elucidation of the Function of Type 1 Human Methionine Aminopeptidase During Cell Cycle Progression. Proc.Natl.Acad.Sci.Usa V. 103 18148 2006.
ISSN: ISSN 0027-8424
PubMed: 17114291
DOI: 10.1073/PNAS.0608389103
Page generated: Tue Jul 30 15:18:59 2024

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