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Praseodymium in PDB 5wrc: Crystal Structure of Proteinase K From Engyodontium Album

Enzymatic activity of Crystal Structure of Proteinase K From Engyodontium Album

All present enzymatic activity of Crystal Structure of Proteinase K From Engyodontium Album:
3.4.21.64;

Protein crystallography data

The structure of Crystal Structure of Proteinase K From Engyodontium Album, PDB code: 5wrc was solved by M.Sugahara, T.Nakane, M.Suzuki, T.Masuda, S.Inoue, K.Numata, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 32.70 / 1.50
Space group P 43 21 2
Cell size a, b, c (Å), α, β, γ (°) 68.600, 68.600, 108.800, 90.00, 90.00, 90.00
R / Rfree (%) 17.6 / 19.3

Praseodymium Binding Sites:

The binding sites of Praseodymium atom in the Crystal Structure of Proteinase K From Engyodontium Album (pdb code 5wrc). This binding sites where shown within 5.0 Angstroms radius around Praseodymium atom.
In total 2 binding sites of Praseodymium where determined in the Crystal Structure of Proteinase K From Engyodontium Album, PDB code: 5wrc:
Jump to Praseodymium binding site number: 1; 2;

Praseodymium binding site 1 out of 2 in 5wrc

Go back to Praseodymium Binding Sites List in 5wrc
Praseodymium binding site 1 out of 2 in the Crystal Structure of Proteinase K From Engyodontium Album


Mono view


Stereo pair view

A full contact list of Praseodymium with other atoms in the Pr binding site number 1 of Crystal Structure of Proteinase K From Engyodontium Album within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Pr1002

b:11.4
occ:0.74
O A:PRO175 2.3 12.2 1.0
OD2 A:ASP200 2.3 12.6 1.0
O A:VAL177 2.3 13.3 1.0
O A:HOH1229 2.3 21.8 1.0
O A:HOH1240 2.4 17.1 1.0
O A:HOH1168 2.4 16.6 1.0
O A:HOH1170 2.4 15.1 1.0
OD1 A:ASP200 2.5 16.2 1.0
CG A:ASP200 2.8 14.7 1.0
C A:PRO175 3.5 11.2 1.0
C A:VAL177 3.6 11.9 1.0
N A:VAL177 4.1 11.9 1.0
CA A:PRO175 4.3 13.1 1.0
CB A:ASP200 4.3 11.8 1.0
O A:VAL198 4.4 16.4 1.0
C A:SER176 4.5 13.4 1.0
N A:SER176 4.5 12.6 1.0
N A:CYS178 4.5 11.7 1.0
CA A:VAL177 4.5 12.6 1.0
CA A:CYS178 4.6 10.6 1.0
O A:GLU174 4.6 12.5 1.0
CA A:SER176 4.7 12.4 1.0
N A:THR179 4.8 9.9 1.0
O A:HOH1121 4.8 30.4 1.0
O A:HOH1220 4.9 24.2 1.0
SG A:CYS249 4.9 13.3 1.0

Praseodymium binding site 2 out of 2 in 5wrc

Go back to Praseodymium Binding Sites List in 5wrc
Praseodymium binding site 2 out of 2 in the Crystal Structure of Proteinase K From Engyodontium Album


Mono view


Stereo pair view

A full contact list of Praseodymium with other atoms in the Pr binding site number 2 of Crystal Structure of Proteinase K From Engyodontium Album within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Pr1003

b:21.9
occ:0.69
O A:HOH1161 2.4 32.2 1.0
O A:HOH1299 2.4 32.8 1.0
O A:HOH1254 2.4 32.5 1.0
O A:HOH1201 2.4 33.5 1.0
O A:HOH1107 2.4 35.3 1.0
OD1 A:ASP260 2.5 24.0 1.0
O A:THR16 2.6 20.5 1.0
OD2 A:ASP260 2.6 20.3 1.0
O A:HOH1292 2.7 24.1 1.0
CG A:ASP260 2.9 23.4 1.0
C A:THR16 3.8 18.2 1.0
CB A:ASP260 4.4 19.2 1.0
OG A:SER17 4.5 30.9 1.0
O A:HOH1297 4.6 36.0 1.0
CB A:THR16 4.6 20.7 1.0
OD1 A:ASN257 4.6 22.0 1.0
CA A:THR16 4.7 15.8 1.0
N A:SER17 4.7 17.3 1.0
CA A:SER17 4.8 18.8 1.0
O A:HOH1113 5.0 21.4 1.0

Reference:

M.Sugahara, T.Nakane, T.Masuda, M.Suzuki, S.Inoue, C.Song, R.Tanaka, T.Nakatsu, E.Mizohata, F.Yumoto, K.Tono, Y.Joti, T.Kameshima, T.Hatsui, M.Yabashi, O.Nureki, K.Numata, E.Nango, S.Iwata. Hydroxyethyl Cellulose Matrix Applied to Serial Crystallography Sci Rep V. 7 703 2017.
ISSN: ESSN 2045-2322
PubMed: 28386083
DOI: 10.1038/S41598-017-00761-0
Page generated: Wed Dec 16 02:03:09 2020

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