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Sodium in PDB 4et9: Hen Egg-White Lysozyme Solved From 5 Fs Free-Electron Laser Pulse Data

Enzymatic activity of Hen Egg-White Lysozyme Solved From 5 Fs Free-Electron Laser Pulse Data

All present enzymatic activity of Hen Egg-White Lysozyme Solved From 5 Fs Free-Electron Laser Pulse Data:
3.2.1.17;

Protein crystallography data

The structure of Hen Egg-White Lysozyme Solved From 5 Fs Free-Electron Laser Pulse Data, PDB code: 4et9 was solved by S.Boutet, L.Lomb, G.Williams, T.Barends, A.Aquila, R.B.Doak, U.Weierstall, D.Deponte, J.Steinbrener, R.Shoeman, M.Messerschmidt, A.Barty, T.White, S.Kassemeyer, R.Kirian, M.Seibert, P.Montanez, C.Kenney, R.Herbst, P.Hart, J.Pines, G.Haller, S.Gruner, H.Philllip, M.Tate, M.Hromalik, L.Koerner, N.Van Bakel, J.Morse, W.Ghonsalves, D.Arnlund, M.Bogan, C.Calemann, R.Fromme, C.Hampton, M.Hunter, L.Johansson, G.Katona, C.Kupitz, M.Liang, A.Martin, K.Nass, L.Redecke, F.Stellato, N.Timneanu, D.Wang, N.Zatsepin, D.Schafer, K.Defever, R.Neutze, P.Fromme, J.Spence, H.Chapman, I.Schlichting, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 35.30 / 1.90
Space group P 43 21 2
Cell size a, b, c (Å), α, β, γ (°) 79.000, 79.000, 38.000, 90.00, 90.00, 90.00
R / Rfree (%) 18.9 / 22.7

Other elements in 4et9:

The structure of Hen Egg-White Lysozyme Solved From 5 Fs Free-Electron Laser Pulse Data also contains other interesting chemical elements:

Chlorine (Cl) 1 atom

Sodium Binding Sites:

The binding sites of Sodium atom in the Hen Egg-White Lysozyme Solved From 5 Fs Free-Electron Laser Pulse Data (pdb code 4et9). 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 Hen Egg-White Lysozyme Solved From 5 Fs Free-Electron Laser Pulse Data, PDB code: 4et9:

Sodium binding site 1 out of 1 in 4et9

Go back to Sodium Binding Sites List in 4et9
Sodium binding site 1 out of 1 in the Hen Egg-White Lysozyme Solved From 5 Fs Free-Electron Laser Pulse Data


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Hen Egg-White Lysozyme Solved From 5 Fs Free-Electron Laser Pulse Data within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na201

b:43.8
occ:1.00
OG A:SER72 3.4 31.4 1.0
ND2 A:ASN65 3.4 34.5 1.0
O A:ARG73 3.5 35.2 1.0
O A:HOH302 3.5 28.9 1.0
C A:ARG73 3.7 37.6 1.0
CA A:ASN65 3.8 29.3 1.0
CB A:ASN65 3.8 28.0 1.0
CB A:ASN74 3.8 31.9 1.0
O A:HOH305 3.8 56.2 1.0
O A:SER72 3.9 35.4 1.0
O A:CYS64 4.0 26.5 1.0
CG A:ASN65 4.0 36.5 1.0
C A:SER72 4.1 43.3 1.0
O A:HOH315 4.1 30.2 1.0
N A:ASN74 4.1 32.8 1.0
CA A:ASN74 4.3 34.2 1.0
N A:ASN65 4.3 29.4 1.0
CB A:SER72 4.4 35.3 1.0
CA A:ARG73 4.4 37.2 1.0
C A:CYS64 4.4 28.8 1.0
N A:ARG73 4.4 33.4 1.0
CG A:ASN74 4.7 31.4 1.0
CA A:SER72 4.8 39.6 1.0
O A:SER60 4.9 29.0 1.0
C A:ASN65 5.0 26.0 1.0
ND2 A:ASN74 5.0 30.8 1.0

Reference:

S.Boutet, L.Lomb, G.J.Williams, T.R.Barends, A.Aquila, R.B.Doak, U.Weierstall, D.P.Deponte, J.Steinbrener, R.L.Shoeman, M.Messerschmidt, A.Barty, T.A.White, S.Kassemeyer, R.A.Kirian, M.M.Seibert, P.A.Montanez, C.Kenney, R.Herbst, P.Hart, J.Pines, G.Haller, S.M.Gruner, H.T.Philipp, M.W.Tate, M.Hromalik, L.J.Koerner, N.Van Bakel, J.Morse, W.Ghonsalves, D.Arnlund, M.J.Bogan, C.Caleman, R.Fromme, C.Y.Hampton, M.S.Hunter, L.C.Johansson, G.Katona, C.Kupitz, M.Liang, A.V.Martin, K.Nass, L.Redecke, F.Stellato, N.Timneanu, D.Wang, N.A.Zatsepin, D.Schafer, J.Defever, R.Neutze, P.Fromme, J.C.Spence, H.N.Chapman, I.Schlichting. High-Resolution Protein Structure Determination By Serial Femtosecond Crystallography. Science V. 337 362 2012.
ISSN: ISSN 0036-8075
PubMed: 22653729
DOI: 10.1126/SCIENCE.1217737
Page generated: Mon Oct 7 15:12:19 2024

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