Zinc in PDB 4l9m: Autoinhibited State of the Ras-Specific Exchange Factor RASGRP1

The structure of Autoinhibited State of the Ras-Specific Exchange Factor RASGRP1, PDB code: 4l9m was solved by J.S.Iwig, Y.Vercoulen, R.Das, T.Barros, A.Limnander, Y.Che, J.G.Pelton, D.E.Wemmer, J.P.Roose, J.Kuriyan, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	47.44 / 3.00
Space group	P 61 2 2
Cell size a, b, c (Å), α, β, γ (°)	76.380, 76.380, 408.370, 90.00, 90.00, 120.00
R / Rfree (%)	22.4 / 26.9

The binding sites of Zinc atom in the Autoinhibited State of the Ras-Specific Exchange Factor RASGRP1 (pdb code 4l9m). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the Autoinhibited State of the Ras-Specific Exchange Factor RASGRP1, PDB code: 4l9m:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in the Autoinhibited State of the Ras-Specific Exchange Factor RASGRP1


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Autoinhibited State of the Ras-Specific Exchange Factor RASGRP1 within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn703 b:93.5 occ:1.00 ND1 A:HIS542 2.1 89.3 1.0 SG A:CYS572 2.1 91.7 1.0 SG A:CYS575 2.2 91.9 1.0 SG A:CYS591 2.2 0.1 1.0 CE1 A:HIS542 2.8 89.5 1.0 CG A:HIS542 3.1 89.5 1.0 CB A:CYS591 3.1 0.1 1.0 CA A:CYS591 3.4 0.3 1.0 CB A:CYS575 3.4 95.9 1.0 CB A:CYS572 3.5 87.9 1.0 O A:CYS591 3.6 0.0 1.0 CB A:HIS542 3.6 89.6 1.0 N A:CYS575 3.8 98.5 1.0 NE2 A:HIS542 3.8 89.8 1.0 CD2 A:HIS542 4.0 89.7 1.0 C A:CYS591 4.0 0.3 1.0 CA A:CYS575 4.2 96.8 1.0 CA A:HIS542 4.3 0.4 1.0 OD1 A:ASN543 4.4 0.9 1.0 N A:CYS591 4.6 0.8 1.0 CA A:CYS572 4.8 88.0 1.0 N A:ASN543 4.8 0.2 1.0 C A:ASP574 4.9 0.5 1.0 CB A:ASP574 4.9 0.5 1.0 C A:CYS575 4.9 93.1 1.0

Zinc binding site 2 out of 2 in the Autoinhibited State of the Ras-Specific Exchange Factor RASGRP1


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Autoinhibited State of the Ras-Specific Exchange Factor RASGRP1 within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn704 b:71.9 occ:1.00 ND1 A:HIS580 2.1 76.4 1.0 SG A:CYS583 2.2 80.7 1.0 SG A:CYS558 2.3 71.8 1.0 SG A:CYS555 2.3 71.3 1.0 CB A:CYS558 2.8 73.0 1.0 CE1 A:HIS580 3.0 76.0 1.0 CG A:HIS580 3.1 77.1 1.0 CB A:CYS555 3.3 70.2 1.0 CB A:CYS583 3.4 78.8 1.0 CB A:HIS580 3.5 78.0 1.0 N A:CYS558 3.6 72.7 1.0 CA A:CYS558 3.8 72.9 1.0 N A:HIS580 3.9 72.4 1.0 NE2 A:HIS580 4.1 76.3 1.0 CD2 A:HIS580 4.2 77.0 1.0 CA A:HIS580 4.3 73.0 1.0 ND2 A:ASN557 4.5 0.4 1.0 C A:CYS558 4.6 72.2 1.0 CA A:CYS555 4.7 70.2 1.0 CA A:CYS583 4.7 75.9 1.0 CB A:ASN557 4.8 0.2 1.0 C A:ASN557 4.8 76.5 1.0 N A:CYS583 4.8 76.0 1.0 C A:CYS579 5.0 73.2 1.0 N A:ALA559 5.0 97.8 1.0

J.S.Iwig, Y.Vercoulen, R.Das, T.Barros, A.Limnander, Y.Che, J.G.Pelton, D.E.Wemmer, J.P.Roose, J.Kuriyan. Structural Analysis of Autoinhibition in the Ras-Specific Exchange Factor RASGRP1. Elife V. 2 00813 2013.
ISSN: ESSN 2050-084X
PubMed: 23908768
DOI: 10.7554/ELIFE.00813