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Sodium in PDB 3odf: Comparison of the Character and the Speed of X-Ray-Induced Structural Changes of Porcine Pancreatic Elastase at Two Temperatures, 100 and 15K. the Data Set Was Collected From Region A of the Crystal. Second Step of Radiation Damage

Enzymatic activity of Comparison of the Character and the Speed of X-Ray-Induced Structural Changes of Porcine Pancreatic Elastase at Two Temperatures, 100 and 15K. the Data Set Was Collected From Region A of the Crystal. Second Step of Radiation Damage

All present enzymatic activity of Comparison of the Character and the Speed of X-Ray-Induced Structural Changes of Porcine Pancreatic Elastase at Two Temperatures, 100 and 15K. the Data Set Was Collected From Region A of the Crystal. Second Step of Radiation Damage:
3.4.21.36;

Protein crystallography data

The structure of Comparison of the Character and the Speed of X-Ray-Induced Structural Changes of Porcine Pancreatic Elastase at Two Temperatures, 100 and 15K. the Data Set Was Collected From Region A of the Crystal. Second Step of Radiation Damage, PDB code: 3odf was solved by T.Petrova, S.Ginell, A.Mitschler, A.Cousido-Siah, I.Hazemann, A.Podjarny, A.Joachimiak, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 9.81 / 1.10
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 50.034, 57.742, 74.449, 90.00, 90.00, 90.00
R / Rfree (%) 12.2 / 14.7

Sodium Binding Sites:

The binding sites of Sodium atom in the Comparison of the Character and the Speed of X-Ray-Induced Structural Changes of Porcine Pancreatic Elastase at Two Temperatures, 100 and 15K. the Data Set Was Collected From Region A of the Crystal. Second Step of Radiation Damage (pdb code 3odf). 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 Comparison of the Character and the Speed of X-Ray-Induced Structural Changes of Porcine Pancreatic Elastase at Two Temperatures, 100 and 15K. the Data Set Was Collected From Region A of the Crystal. Second Step of Radiation Damage, PDB code: 3odf:

Sodium binding site 1 out of 1 in 3odf

Go back to Sodium Binding Sites List in 3odf
Sodium binding site 1 out of 1 in the Comparison of the Character and the Speed of X-Ray-Induced Structural Changes of Porcine Pancreatic Elastase at Two Temperatures, 100 and 15K. the Data Set Was Collected From Region A of the Crystal. Second Step of Radiation Damage


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Comparison of the Character and the Speed of X-Ray-Induced Structural Changes of Porcine Pancreatic Elastase at Two Temperatures, 100 and 15K. the Data Set Was Collected From Region A of the Crystal. Second Step of Radiation Damage within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na280

b:13.0
occ:1.00
 O A:ASN72 2.3 13.1 1.0
O A:GLN75 2.3 16.7 1.0
OE2 A:GLU70 2.3 15.9 0.8
OE2 A:GLU80 2.4 12.9 0.9
OD1 A:ASN77 2.4 15.2 1.0
O A:HOH394 2.8 23.9 0.5
O A:HOH518 2.9 27.6 0.5
CG A:ASN77 3.3 14.5 1.0
CD A:GLU70 3.3 15.4 0.8
C A:ASN72 3.4 11.5 1.0
CD A:GLU80 3.4 13.0 0.9
C A:GLN75 3.5 16.3 1.0
OE1 A:GLU70 3.7 18.0 0.8
N A:ASN77 3.7 14.2 1.0
CG A:GLU80 3.9 13.0 1.0
N A:ASN72 3.9 10.6 1.0
CB A:ASN77 4.0 13.8 1.0
CA A:ASN72 4.1 11.5 1.0
ND2 A:ASN77 4.2 14.3 1.0
CA A:ASN76 4.3 16.4 1.0
N A:GLN75 4.3 17.2 1.0
N A:ASN76 4.3 16.4 1.0
C A:ASN76 4.4 15.2 1.0
N A:LEU73 4.4 11.4 1.0
CB A:ASN72 4.4 12.9 1.0
OE1 A:GLU80 4.5 14.0 0.9
CA A:ASN77 4.5 14.3 1.0
CA A:GLN75 4.5 17.6 1.0
N A:HIS71 4.6 10.2 1.0
CA A:LEU73 4.6 12.5 1.0
C A:LEU73 4.6 16.0 1.0
CG A:GLU70 4.6 13.1 1.0
O A:LEU73 4.8 18.7 1.0
N A:ASN74 4.9 16.8 0.3
N A:ASN74 4.9 16.8 0.7
OH A:TYR82 5.0 21.2 1.0

Reference:

T.Petrova, S.Ginell, A.Mitschler, Y.Kim, V.Y.Lunin, G.Joachimiak, A.Cousido-Siah, I.Hazemann, A.Podjarny, K.Lazarski, A.Joachimiak. X-Ray-Induced Deterioration of Disulfide Bridges at Atomic Resolution. Acta Crystallogr.,Sect.D V. 66 1075 2010.
ISSN: ISSN 0907-4449
PubMed: 20944241
DOI: 10.1107/S0907444910033986
Page generated: Mon Oct 7 11:58:32 2024

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