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Zinc in PDB 3d00: Crystal Structure of A Tungsten Formylmethanofuran Dehydrogenase Subunit E (Fmde)-Like Protein (SYN_00638) From Syntrophus Aciditrophicus at 1.90 A Resolution

Protein crystallography data

The structure of Crystal Structure of A Tungsten Formylmethanofuran Dehydrogenase Subunit E (Fmde)-Like Protein (SYN_00638) From Syntrophus Aciditrophicus at 1.90 A Resolution, PDB code: 3d00 was solved by Joint Center For Structural Genomics (Jcsg), with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 29.39 / 1.90
Space group P 41 21 2
Cell size a, b, c (Å), α, β, γ (°) 54.356, 54.356, 136.719, 90.00, 90.00, 90.00
R / Rfree (%) 23.3 / 26.8

Other elements in 3d00:

The structure of Crystal Structure of A Tungsten Formylmethanofuran Dehydrogenase Subunit E (Fmde)-Like Protein (SYN_00638) From Syntrophus Aciditrophicus at 1.90 A Resolution also contains other interesting chemical elements:

Chlorine (Cl) 1 atom

Zinc Binding Sites:

The binding sites of Zinc atom in the Crystal Structure of A Tungsten Formylmethanofuran Dehydrogenase Subunit E (Fmde)-Like Protein (SYN_00638) From Syntrophus Aciditrophicus at 1.90 A Resolution (pdb code 3d00). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total only one binding site of Zinc was determined in the Crystal Structure of A Tungsten Formylmethanofuran Dehydrogenase Subunit E (Fmde)-Like Protein (SYN_00638) From Syntrophus Aciditrophicus at 1.90 A Resolution, PDB code: 3d00:

Zinc binding site 1 out of 1 in 3d00

Go back to Zinc Binding Sites List in 3d00
Zinc binding site 1 out of 1 in the Crystal Structure of A Tungsten Formylmethanofuran Dehydrogenase Subunit E (Fmde)-Like Protein (SYN_00638) From Syntrophus Aciditrophicus at 1.90 A Resolution


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Crystal Structure of A Tungsten Formylmethanofuran Dehydrogenase Subunit E (Fmde)-Like Protein (SYN_00638) From Syntrophus Aciditrophicus at 1.90 A Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn200

b:38.5
occ:1.00
SG A:CYS165 2.4 43.8 1.0
SG A:CYS180 2.4 43.3 1.0
SG A:CYS168 2.5 46.5 1.0
SG A:CYS183 2.5 46.2 1.0
CB A:CYS165 3.1 43.6 1.0
CB A:CYS183 3.2 46.1 1.0
CB A:CYS168 3.3 47.4 1.0
CB A:CYS180 3.6 42.3 1.0
N A:CYS168 3.7 47.3 1.0
N A:CYS180 4.0 44.5 1.0
CA A:CYS168 4.1 47.6 1.0
N A:CYS183 4.1 45.9 1.0
CA A:CYS183 4.3 46.4 1.0
CA A:CYS180 4.3 43.5 1.0
O A:HOH237 4.5 44.1 1.0
CA A:CYS165 4.6 42.9 1.0
CB A:GLN167 4.7 49.5 1.0
O A:CYS180 4.8 45.7 1.0
C A:GLN167 4.8 48.4 1.0
C A:CYS180 4.8 43.9 1.0
C A:CYS168 4.9 47.1 1.0

Reference:

H.L.Axelrod, D.Das, P.Abdubek, T.Astakhova, C.Bakolitsa, D.Carlton, C.Chen, H.J.Chiu, T.Clayton, M.C.Deller, L.Duan, K.Ellrott, C.L.Farr, J.Feuerhelm, J.C.Grant, A.Grzechnik, G.W.Han, L.Jaroszewski, K.K.Jin, H.E.Klock, M.W.Knuth, P.Kozbial, S.S.Krishna, A.Kumar, W.W.Lam, D.Marciano, D.Mcmullan, M.D.Miller, A.T.Morse, E.Nigoghossian, A.Nopakun, L.Okach, C.Puckett, R.Reyes, N.Sefcovic, H.J.Tien, C.B.Trame, H.Van Den Bedem, D.Weekes, T.Wooten, Q.Xu, K.O.Hodgson, J.Wooley, M.A.Elsliger, A.M.Deacon, A.Godzik, S.A.Lesley, I.A.Wilson. Structures of Three Members of Pfam PF02663 (Fmde) Implicated in Microbial Methanogenesis Reveal A Conserved Alpha+Beta Core Domain and An Auxiliary C-Terminal Treble-Clef Zinc Finger. Acta Crystallogr.,Sect.F V. 66 1335 2010.
ISSN: ESSN 1744-3091
PubMed: 20944230
DOI: 10.1107/S1744309110020166
Page generated: Wed Dec 16 04:11:40 2020

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