Atomistry » Sodium » PDB 4fpa-4ge8 » 4g1m
Atomistry »
  Sodium »
    PDB 4fpa-4ge8 »
      4g1m »

Sodium in PDB 4g1m: Re-Refinement of Alpha V Beta 3 Structure

Protein crystallography data

The structure of Re-Refinement of Alpha V Beta 3 Structure, PDB code: 4g1m was solved by T.A.Springer, L.Mi, J.Zhu, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 65.00 / 2.90
Space group P 32 2 1
Cell size a, b, c (Å), α, β, γ (°) 129.870, 129.870, 305.900, 90.00, 90.00, 120.00
R / Rfree (%) 17.9 / 23.3

Other elements in 4g1m:

The structure of Re-Refinement of Alpha V Beta 3 Structure also contains other interesting chemical elements:

Calcium (Ca) 7 atoms

Sodium Binding Sites:

The binding sites of Sodium atom in the Re-Refinement of Alpha V Beta 3 Structure (pdb code 4g1m). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total only one binding site of Sodium was determined in the Re-Refinement of Alpha V Beta 3 Structure, PDB code: 4g1m:

Sodium binding site 1 out of 1 in 4g1m

Go back to Sodium Binding Sites List in 4g1m
Sodium binding site 1 out of 1 in the Re-Refinement of Alpha V Beta 3 Structure


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Re-Refinement of Alpha V Beta 3 Structure within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na3000

b:0.3
occ:1.00
O A:SER705 2.3 1.0 1.0
O A:MET707 2.6 0.1 1.0
OD1 A:ASP708 2.7 0.3 1.0
CG A:ASP708 3.1 0.3 1.0
C A:MET707 3.2 0.9 1.0
C A:SER705 3.5 0.8 1.0
C A:GLU706 3.5 0.3 1.0
N A:MET707 3.5 0.0 1.0
O A:GLU706 3.6 0.2 1.0
OD2 A:ASP708 3.6 0.7 1.0
CA A:MET707 3.9 0.4 1.0
CB A:ASP708 4.0 0.7 1.0
N A:ASP708 4.0 0.0 1.0
CA A:GLU706 4.1 0.3 1.0
OG A:SER705 4.2 0.3 1.0
N A:GLU706 4.2 0.2 1.0
CB A:GLU706 4.3 0.6 1.0
CB A:SER705 4.3 0.1 1.0
CA A:ASP708 4.5 0.8 1.0
CA A:SER705 4.5 0.8 1.0
CB A:MET707 4.7 0.4 1.0

Reference:

X.Dong, L.Z.Mi, J.Zhu, W.Wang, P.Hu, B.H.Luo, T.A.Springer. Alpha V Beta 3 Integrin Crystal Structures and Their Functional Implications Biochemistry V. 51 8814 2012.
ISSN: ISSN 0006-2960
PubMed: 23106217
DOI: 10.1021/BI300734N
Page generated: Tue Dec 15 06:41:20 2020

Last articles

Zn in 7VD8
Zn in 7V1R
Zn in 7V1Q
Zn in 7VPF
Zn in 7T85
Zn in 7T5F
Zn in 7NF9
Zn in 7M4M
Zn in 7M4O
Zn in 7M4N
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy