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Calcium in PDB 2o4v: An Arginine Ladder in Oprp Mediates Phosphate Specific Transfer Across the Outer Membrane

Protein crystallography data

The structure of An Arginine Ladder in Oprp Mediates Phosphate Specific Transfer Across the Outer Membrane, PDB code: 2o4v was solved by T.F.Moraes, M.Bains, R.E.Hancock, N.C.Strynadka, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 62.90 / 1.94
Space group C 1 2 1
Cell size a, b, c (Å), α, β, γ (°) 255.130, 142.769, 62.025, 90.00, 99.49, 90.00
R / Rfree (%) 17.4 / 19.4

Other elements in 2o4v:

The structure of An Arginine Ladder in Oprp Mediates Phosphate Specific Transfer Across the Outer Membrane also contains other interesting chemical elements:

Chlorine (Cl) 1 atom

Calcium Binding Sites:

The binding sites of Calcium atom in the An Arginine Ladder in Oprp Mediates Phosphate Specific Transfer Across the Outer Membrane (pdb code 2o4v). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 3 binding sites of Calcium where determined in the An Arginine Ladder in Oprp Mediates Phosphate Specific Transfer Across the Outer Membrane, PDB code: 2o4v:
Jump to Calcium binding site number: 1; 2; 3;

Calcium binding site 1 out of 3 in 2o4v

Go back to Calcium Binding Sites List in 2o4v
Calcium binding site 1 out of 3 in the An Arginine Ladder in Oprp Mediates Phosphate Specific Transfer Across the Outer Membrane


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of An Arginine Ladder in Oprp Mediates Phosphate Specific Transfer Across the Outer Membrane within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca701

b:17.4
occ:1.00
O A:ASP54 2.7 13.9 1.0
OD1 A:ASP54 2.7 16.5 1.0
ND2 B:ASN173 2.8 12.1 1.0
O A:ASP235 2.8 10.3 1.0
OD1 A:ASN234 2.9 8.2 1.0
O B:GLY177 3.0 14.1 1.0
O B:HOH856 3.2 15.2 1.0
C A:ASP54 3.5 14.2 1.0
C A:ASP235 3.5 10.7 1.0
CG A:ASN234 3.7 8.3 1.0
N B:SER179 3.7 13.5 1.0
CG B:ASN173 3.8 14.4 1.0
CB B:SER179 3.9 13.0 1.0
CG A:ASP54 3.9 15.1 1.0
OD1 B:ASN173 3.9 16.8 1.0
C B:GLY177 4.0 14.6 1.0
N A:ASP235 4.1 10.4 1.0
CA B:SER179 4.1 13.1 1.0
N A:ALA55 4.2 13.7 1.0
CA A:ASP235 4.2 10.7 1.0
CA A:ALA55 4.2 13.5 1.0
CB A:ASN234 4.3 8.9 1.0
N A:ASP54 4.3 14.8 1.0
C B:ASP178 4.3 13.9 1.0
CA A:ASP54 4.3 14.5 1.0
N A:ALA236 4.4 10.9 1.0
C A:ASN234 4.5 9.8 1.0
CA B:ASP178 4.5 14.3 1.0
ND2 A:ASN234 4.6 6.9 1.0
CA A:ALA236 4.6 11.7 1.0
N B:ASP178 4.7 14.6 1.0
OG B:SER179 4.7 13.0 1.0
CB A:ASP54 4.7 14.8 1.0
OD2 A:ASP54 4.8 16.7 1.0
O A:ASN234 4.9 10.0 1.0
CA B:GLY177 5.0 14.6 1.0

Calcium binding site 2 out of 3 in 2o4v

Go back to Calcium Binding Sites List in 2o4v
Calcium binding site 2 out of 3 in the An Arginine Ladder in Oprp Mediates Phosphate Specific Transfer Across the Outer Membrane


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of An Arginine Ladder in Oprp Mediates Phosphate Specific Transfer Across the Outer Membrane within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Ca703

b:20.2
occ:1.00
O B:ASP54 2.7 12.9 1.0
OD1 B:ASP54 2.7 12.9 1.0
O B:ASP235 2.7 12.4 1.0
OD1 C:ASN173 2.7 16.3 1.0
OD1 B:ASN234 2.8 10.4 1.0
O C:GLY177 2.9 16.5 1.0
O C:HOH1319 3.2 14.8 1.0
C B:ASP54 3.5 12.9 1.0
C B:ASP235 3.5 13.1 1.0
CG C:ASN173 3.7 16.1 1.0
CG B:ASN234 3.7 12.1 1.0
N C:SER179 3.7 15.5 1.0
CB C:SER179 3.8 15.6 1.0
ND2 C:ASN173 3.9 14.7 1.0
CG B:ASP54 3.9 13.3 1.0
C C:GLY177 3.9 16.5 1.0
N B:ASP235 4.0 13.4 1.0
CA B:ASP235 4.1 13.2 1.0
CA C:SER179 4.1 15.6 1.0
N B:ALA55 4.2 12.7 1.0
CA B:ALA55 4.2 13.0 1.0
CB B:ASN234 4.3 12.4 1.0
N B:ALA236 4.3 12.9 1.0
CA B:ASP54 4.3 13.1 1.0
N B:ASP54 4.3 13.6 1.0
C C:ASP178 4.3 16.1 1.0
C B:ASN234 4.5 12.8 1.0
CA C:ASP178 4.5 16.2 1.0
CA B:ALA236 4.6 13.2 1.0
ND2 B:ASN234 4.6 10.5 1.0
N C:ASP178 4.6 16.4 1.0
OG C:SER179 4.7 15.1 1.0
CB B:ASP54 4.7 13.2 1.0
OD2 B:ASP54 4.8 15.7 1.0
CA C:GLY177 4.9 16.6 1.0
O B:ASN234 5.0 13.1 1.0

Calcium binding site 3 out of 3 in 2o4v

Go back to Calcium Binding Sites List in 2o4v
Calcium binding site 3 out of 3 in the An Arginine Ladder in Oprp Mediates Phosphate Specific Transfer Across the Outer Membrane


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 3 of An Arginine Ladder in Oprp Mediates Phosphate Specific Transfer Across the Outer Membrane within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Ca702

b:17.2
occ:1.00
OD1 C:ASP54 2.6 11.4 1.0
O C:ASP54 2.7 11.0 1.0
OD1 A:ASN173 2.7 12.2 1.0
OD1 C:ASN234 2.8 9.0 1.0
O C:ASP235 2.8 10.1 1.0
O A:GLY177 2.9 13.4 1.0
O A:HOH1311 3.2 16.9 1.0
C C:ASP54 3.4 11.0 1.0
C C:ASP235 3.5 10.0 1.0
CG A:ASN173 3.6 14.2 1.0
CG C:ASN234 3.7 9.1 1.0
N A:SER179 3.7 14.7 1.0
CG C:ASP54 3.8 10.9 1.0
ND2 A:ASN173 3.9 13.0 1.0
CB A:SER179 3.9 14.2 1.0
C A:GLY177 3.9 14.1 1.0
N C:ASP235 4.1 10.2 1.0
CA A:SER179 4.1 14.3 1.0
N C:ALA55 4.1 11.1 1.0
CA C:ASP235 4.1 10.1 1.0
CA C:ALA55 4.2 11.3 1.0
CB C:ASN234 4.3 9.5 1.0
C A:ASP178 4.3 14.7 1.0
CA C:ASP54 4.3 10.9 1.0
N C:ALA236 4.3 10.1 1.0
N C:ASP54 4.3 11.2 1.0
CA A:ASP178 4.5 14.9 1.0
C C:ASN234 4.5 9.9 1.0
N A:ASP178 4.6 14.0 1.0
CA C:ALA236 4.6 10.4 1.0
ND2 C:ASN234 4.6 8.9 1.0
OG A:SER179 4.7 15.6 1.0
OD2 C:ASP54 4.7 12.5 1.0
CB C:ASP54 4.7 10.9 1.0
CA A:GLY177 4.9 13.9 1.0
O C:ASN234 5.0 9.8 1.0

Reference:

T.F.Moraes, M.Bains, R.E.Hancock, N.C.Strynadka. An Arginine Ladder in Oprp Mediates Phosphate-Specific Transfer Across the Outer Membrane. Nat.Struct.Mol.Biol. V. 14 85 2007.
ISSN: ISSN 1545-9993
PubMed: 17187075
DOI: 10.1038/NSMB1189
Page generated: Sat Dec 12 03:48:20 2020

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