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Nickel in PDB 3lag: The Crystal Structure of A Functionally Unknown Protein RPA4178 From Rhodopseudomonas Palustris CGA009

Protein crystallography data

The structure of The Crystal Structure of A Functionally Unknown Protein RPA4178 From Rhodopseudomonas Palustris CGA009, PDB code: 3lag was solved by K.Tan, E.Evdokimova, M.Kudritska, A.Savchenko, A.Edwards, A.Joachimiak, Midwest Center For Structural Genomics (Mcsg), with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 26.98 / 1.15
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 42.871, 59.243, 65.380, 90.00, 90.00, 90.00
R / Rfree (%) 18.5 / 22.1

Nickel Binding Sites:

The binding sites of Nickel atom in the The Crystal Structure of A Functionally Unknown Protein RPA4178 From Rhodopseudomonas Palustris CGA009 (pdb code 3lag). This binding sites where shown within 5.0 Angstroms radius around Nickel atom.
In total 2 binding sites of Nickel where determined in the The Crystal Structure of A Functionally Unknown Protein RPA4178 From Rhodopseudomonas Palustris CGA009, PDB code: 3lag:
Jump to Nickel binding site number: 1; 2;

Nickel binding site 1 out of 2 in 3lag

Go back to Nickel Binding Sites List in 3lag
Nickel binding site 1 out of 2 in the The Crystal Structure of A Functionally Unknown Protein RPA4178 From Rhodopseudomonas Palustris CGA009


Mono view


Stereo pair view

A full contact list of Nickel with other atoms in the Ni binding site number 1 of The Crystal Structure of A Functionally Unknown Protein RPA4178 From Rhodopseudomonas Palustris CGA009 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ni98

b:13.8
occ:1.00
O2 A:FMT100 2.0 12.8 1.0
NE2 A:HIS34 2.1 13.4 1.0
NE2 A:HIS32 2.1 10.7 1.0
O1 A:FMT100 2.1 14.4 1.0
NE2 A:HIS76 2.2 14.7 1.0
C A:FMT100 2.2 12.0 1.0
O A:HOH116 2.5 15.0 1.0
CE1 A:HIS34 2.9 11.8 1.0
CE1 A:HIS32 3.1 10.8 1.0
CD2 A:HIS32 3.1 12.0 1.0
CE1 A:HIS76 3.1 13.0 1.0
CD2 A:HIS34 3.1 11.7 1.0
CD2 A:HIS76 3.3 11.6 1.0
O A:HOH194 4.0 25.5 1.0
ND1 A:HIS34 4.1 11.6 1.0
O A:HOH183 4.1 24.3 1.0
OE2 A:GLU90 4.2 15.8 1.0
ND1 A:HIS32 4.2 10.9 1.0
CG A:HIS34 4.2 10.9 1.0
CG A:HIS32 4.2 11.2 1.0
OE1 A:GLU90 4.2 17.0 1.0
ND1 A:HIS76 4.3 12.9 1.0
O A:HOH317 4.3 21.3 1.0
CG A:HIS76 4.4 11.4 1.0
OH A:TYR38 4.4 12.3 1.0
CD A:GLU90 4.6 16.1 1.0
CG2 A:VAL78 4.7 10.6 1.0
CZ A:TYR38 4.8 10.4 1.0

Nickel binding site 2 out of 2 in 3lag

Go back to Nickel Binding Sites List in 3lag
Nickel binding site 2 out of 2 in the The Crystal Structure of A Functionally Unknown Protein RPA4178 From Rhodopseudomonas Palustris CGA009


Mono view


Stereo pair view

A full contact list of Nickel with other atoms in the Ni binding site number 2 of The Crystal Structure of A Functionally Unknown Protein RPA4178 From Rhodopseudomonas Palustris CGA009 within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Ni98

b:10.2
occ:0.90
O1 B:FMT99 2.1 13.0 1.0
NE2 B:HIS32 2.1 10.7 1.0
NE2 B:HIS34 2.1 9.6 1.0
NE2 B:HIS76 2.1 13.5 1.0
O2 B:FMT99 2.1 13.2 1.0
C B:FMT99 2.2 11.3 1.0
O B:HOH302 2.3 12.1 1.0
CE1 B:HIS34 3.0 9.7 1.0
CE1 B:HIS32 3.0 9.9 1.0
CD2 B:HIS32 3.1 11.6 1.0
CE1 B:HIS76 3.1 12.7 1.0
CD2 B:HIS76 3.1 11.7 1.0
CD2 B:HIS34 3.2 10.2 1.0
O B:HOH164 4.0 22.8 1.0
OE1 B:GLU90 4.1 18.4 1.0
ND1 B:HIS32 4.2 10.9 1.0
ND1 B:HIS34 4.2 9.2 1.0
OE2 B:GLU90 4.2 16.6 1.0
ND1 B:HIS76 4.2 11.7 1.0
CG B:HIS32 4.2 11.4 1.0
O B:HOH154 4.2 22.0 1.0
CG B:HIS76 4.3 10.8 1.0
CG B:HIS34 4.3 9.5 1.0
O B:HOH338 4.4 21.7 1.0
OH B:TYR38 4.4 11.3 1.0
CD B:GLU90 4.5 17.5 1.0
CG2 B:VAL78 4.8 11.4 1.0
CZ B:TYR38 5.0 10.2 1.0

Reference:

K.Tan, E.Evdokimova, M.Kudritska, A.Savchenko, A.Edwards, A.Joachimiak. The Crystal Structure of A Functionally Unknown Protein RPA4178 From Rhodopseudomonas Palustris CGA009 To Be Published.
Page generated: Fri Sep 25 08:26:46 2020
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