Atomistry » Sodium » PDB 7ypz-7zi1 » 7z6j
Atomistry »
  Sodium »
    PDB 7ypz-7zi1 »
      7z6j »

Sodium in PDB 7z6j: X-Ray Structure of the Adduct Obtained Upon Reaction of [RH2(OCOCH3) (OCOCF3)3] with Hewl

Enzymatic activity of X-Ray Structure of the Adduct Obtained Upon Reaction of [RH2(OCOCH3) (OCOCF3)3] with Hewl

All present enzymatic activity of X-Ray Structure of the Adduct Obtained Upon Reaction of [RH2(OCOCH3) (OCOCF3)3] with Hewl:
3.2.1.17;

Protein crystallography data

The structure of X-Ray Structure of the Adduct Obtained Upon Reaction of [RH2(OCOCH3) (OCOCF3)3] with Hewl, PDB code: 7z6j was solved by D.Loreto, A.Merlino, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 39.31 / 1.53
Space group P 43 21 2
Cell size a, b, c (Å), α, β, γ (°) 78.61, 78.61, 37.41, 90, 90, 90
R / Rfree (%) 19.5 / 24.9

Other elements in 7z6j:

The structure of X-Ray Structure of the Adduct Obtained Upon Reaction of [RH2(OCOCH3) (OCOCF3)3] with Hewl also contains other interesting chemical elements:

Rhodium (Rh) 5 atoms

Sodium Binding Sites:

The binding sites of Sodium atom in the X-Ray Structure of the Adduct Obtained Upon Reaction of [RH2(OCOCH3) (OCOCF3)3] with Hewl (pdb code 7z6j). 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 X-Ray Structure of the Adduct Obtained Upon Reaction of [RH2(OCOCH3) (OCOCF3)3] with Hewl, PDB code: 7z6j:

Sodium binding site 1 out of 1 in 7z6j

Go back to Sodium Binding Sites List in 7z6j
Sodium binding site 1 out of 1 in the X-Ray Structure of the Adduct Obtained Upon Reaction of [RH2(OCOCH3) (OCOCF3)3] with Hewl


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of X-Ray Structure of the Adduct Obtained Upon Reaction of [RH2(OCOCH3) (OCOCF3)3] with Hewl within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na202

b:28.9
occ:1.00
 HG A:SER72 2.0 32.0 0.0
O A:SER60 2.2 25.9 1.0
O A:HOH397 2.3 29.7 1.0
OG A:SER72 2.4 32.1 1.0
O A:ARG73 2.4 33.5 1.0
O A:CYS64 2.5 22.4 1.0
O A:HOH370 2.5 22.7 1.0
HB2 A:SER72 3.0 31.7 1.0
HA A:ASN65 3.1 22.1 1.0
CB A:SER72 3.2 30.7 1.0
C A:SER60 3.4 23.9 1.0
C A:ARG73 3.5 32.0 1.0
C A:CYS64 3.5 21.5 1.0
HB2 A:SER60 3.6 20.2 1.0
HA A:SER60 3.8 21.5 1.0
HB A:THR69 3.8 22.6 1.0
HB3 A:SER72 3.9 31.7 1.0
H A:CYS64 4.0 22.0 1.0
CA A:ASN65 4.0 23.0 1.0
H A:ASP66 4.0 19.6 1.0
HB2 A:ASN74 4.0 26.8 1.0
CA A:SER60 4.0 21.1 1.0
N A:ARG73 4.0 31.3 1.0
HA A:ASN74 4.1 27.1 1.0
C A:SER72 4.1 34.8 1.0
H A:ARG73 4.2 32.3 1.0
N A:ASN65 4.2 21.5 1.0
CA A:SER72 4.3 33.7 1.0
CB A:SER60 4.3 20.4 1.0
N A:ASN74 4.4 29.2 1.0
O A:ARG61 4.4 29.4 1.0
CA A:ARG73 4.4 32.2 1.0
HA A:ARG61 4.4 29.4 1.0
C A:ARG61 4.4 29.5 1.0
N A:ARG61 4.4 25.6 1.0
N A:CYS64 4.5 21.3 1.0
CA A:ASN74 4.6 26.6 1.0
OD1 A:ASN65 4.6 29.0 1.0
O A:HOH399 4.7 32.4 1.0
O A:SER72 4.7 33.1 1.0
CA A:CYS64 4.7 22.8 1.0
CA A:ARG61 4.7 29.8 1.0
CB A:THR69 4.7 23.5 1.0
N A:ASP66 4.7 19.9 1.0
HB2 A:ASN65 4.7 23.8 1.0
H A:TRP63 4.8 23.0 1.0
CB A:ASN74 4.8 26.6 1.0
HA A:ARG73 4.8 33.1 1.0
N A:TRP62 4.8 25.8 1.0
HG22 A:THR69 4.8 23.3 1.0
HG1 A:THR69 4.8 20.0 0.0
C A:ASN65 4.9 19.3 1.0
CB A:ASN65 4.9 23.5 1.0
HA A:SER72 4.9 32.9 1.0
O A:THR69 4.9 23.5 1.0
H A:TRP62 5.0 26.8 1.0

Reference:

D.Loreto, A.Esposito, N.Demitri, A.Guaragna, A.Merlino. Reactivity of A Fluorine-Containing Dirhodium Tetracarboxylate Compound with Proteins To Be Published.
Page generated: Wed Oct 9 10:01:07 2024

Last articles

Zn in 9JYW
Zn in 9IR4
Zn in 9IR3
Zn in 9GMX
Zn in 9GMW
Zn in 9JEJ
Zn in 9ERF
Zn in 9ERE
Zn in 9EGV
Zn in 9EGW
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy