Zinc in PDB 2v4b: Crystal Structure of Human Adamts-1 Catalytic Domain and Cysteine- Rich Domain (Apo-Form)

The structure of Crystal Structure of Human Adamts-1 Catalytic Domain and Cysteine- Rich Domain (Apo-Form), PDB code: 2v4b was solved by S.Gerhardt, G.Hassall, P.Hawtin, E.Mccall, L.Flavell, C.Minshull, D.Hargreaves, A.Ting, R.A.Pauptit, A.E.Parker, W.M.Abbott, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	40.26 / 2.00
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	51.579, 64.396, 113.524, 90.00, 90.91, 90.00
R / Rfree (%)	22 / 26.3

The structure of Crystal Structure of Human Adamts-1 Catalytic Domain and Cysteine- Rich Domain (Apo-Form) also contains other interesting chemical elements:

Nickel	(Ni)	14 atoms
Magnesium	(Mg)	3 atoms
Cadmium	(Cd)	4 atoms
Sodium	(Na)	4 atoms

The binding sites of Zinc atom in the Crystal Structure of Human Adamts-1 Catalytic Domain and Cysteine- Rich Domain (Apo-Form) (pdb code 2v4b). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the Crystal Structure of Human Adamts-1 Catalytic Domain and Cysteine- Rich Domain (Apo-Form), PDB code: 2v4b:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in the Crystal Structure of Human Adamts-1 Catalytic Domain and Cysteine- Rich Domain (Apo-Form)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Crystal Structure of Human Adamts-1 Catalytic Domain and Cysteine- Rich Domain (Apo-Form) within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn1552 b:25.7 occ:1.00 NE2 A:HIS411 2.0 40.2 1.0 NE2 A:HIS401 2.3 30.8 1.0 O A:HOH2133 2.4 38.6 1.0 NE2 A:HIS405 2.4 32.8 1.0 CE1 A:HIS411 2.8 40.4 1.0 CD2 A:HIS411 3.1 40.1 1.0 CD2 A:HIS401 3.2 32.6 1.0 CD2 A:HIS405 3.2 29.8 1.0 CE1 A:HIS401 3.3 32.0 1.0 CE1 A:HIS405 3.4 30.6 1.0 ND1 A:HIS411 3.9 38.1 1.0 CG A:HIS411 4.1 38.1 1.0 OE2 A:GLU402 4.3 37.5 1.0 CG A:HIS401 4.3 31.9 1.0 ND1 A:HIS401 4.4 32.5 1.0 CG A:HIS405 4.4 31.5 1.0 O A:HOH2069 4.5 29.9 1.0 ND1 A:HIS405 4.5 29.5 1.0 OE1 A:GLU402 4.9 37.9 1.0 CD A:GLU402 5.0 36.1 1.0 CE A:MET430 5.0 33.6 1.0

Zinc binding site 2 out of 2 in the Crystal Structure of Human Adamts-1 Catalytic Domain and Cysteine- Rich Domain (Apo-Form)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Crystal Structure of Human Adamts-1 Catalytic Domain and Cysteine- Rich Domain (Apo-Form) within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn1553 b:26.7 occ:1.00 NE2 B:HIS411 2.2 39.4 1.0 NE2 B:HIS401 2.2 29.4 1.0 NE2 B:HIS405 2.5 36.9 1.0 CE1 B:HIS411 3.1 38.6 1.0 CE1 B:HIS401 3.1 29.1 1.0 CD2 B:HIS411 3.2 38.7 1.0 CD2 B:HIS401 3.2 30.4 1.0 CD2 B:HIS405 3.4 35.4 1.0 CE1 B:HIS405 3.4 34.2 1.0 ND1 B:HIS411 4.2 38.4 1.0 ND1 B:HIS401 4.3 30.8 1.0 CG B:HIS411 4.3 36.8 1.0 CG B:HIS401 4.4 30.2 1.0 OE2 B:GLU402 4.4 37.3 1.0 O B:HOH2032 4.5 40.2 1.0 ND1 B:HIS405 4.6 35.1 1.0 CG B:HIS405 4.6 34.0 1.0 CE B:MET430 4.9 31.1 1.0

S.Gerhardt, G.Hassall, P.Hawtin, E.Mccall, L.Flavell, C.Minshull, D.Hargreaves, A.Ting, R.A.Pauptit, A.E.Parker, W.M.Abbott. Crystal Structures of Human Adamts-1 Reveal A Conserved Catalytic Domain and A Disintegrin-Like Domain with A Fold Homologous to Cysteine-Rich Domains. J.Mol.Biol. V. 373 891 2007.
ISSN: ISSN 0022-2836
PubMed: 17897672
DOI: 10.1016/J.JMB.2007.07.047