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Vanadium in PDB 5eaq: Two Active Site Divalent Ion in the Crystal Structure of the Hammerhead Ribozyme Bound to A Transition State Analog-MN2+

Protein crystallography data

The structure of Two Active Site Divalent Ion in the Crystal Structure of the Hammerhead Ribozyme Bound to A Transition State Analog-MN2+, PDB code: 5eaq was solved by A.Mir, B.L.Golden, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 27.43 / 3.20
Space group C 2 2 21
Cell size a, b, c (Å), α, β, γ (°) 81.251, 87.419, 105.539, 90.00, 90.00, 90.00
R / Rfree (%) 24.7 / 27.8

Other elements in 5eaq:

The structure of Two Active Site Divalent Ion in the Crystal Structure of the Hammerhead Ribozyme Bound to A Transition State Analog-MN2+ also contains other interesting chemical elements:

Manganese (Mn) 6 atoms

Vanadium Binding Sites:

The binding sites of Vanadium atom in the Two Active Site Divalent Ion in the Crystal Structure of the Hammerhead Ribozyme Bound to A Transition State Analog-MN2+ (pdb code 5eaq). This binding sites where shown within 5.0 Angstroms radius around Vanadium atom.
In total only one binding site of Vanadium was determined in the Two Active Site Divalent Ion in the Crystal Structure of the Hammerhead Ribozyme Bound to A Transition State Analog-MN2+, PDB code: 5eaq:

Vanadium binding site 1 out of 1 in 5eaq

Go back to Vanadium Binding Sites List in 5eaq
Vanadium binding site 1 out of 1 in the Two Active Site Divalent Ion in the Crystal Structure of the Hammerhead Ribozyme Bound to A Transition State Analog-MN2+


Mono view


Stereo pair view

A full contact list of Vanadium with other atoms in the V binding site number 1 of Two Active Site Divalent Ion in the Crystal Structure of the Hammerhead Ribozyme Bound to A Transition State Analog-MN2+ within 5.0Å range:
probe atom residue distance (Å) B Occ
B:V7

b:96.4
occ:1.00
V B:CVC7 0.0 96.4 1.0
O1V B:CVC7 1.6 86.0 1.0
O2V B:CVC7 1.6 91.2 1.0
O3' B:CVC7 1.9 90.0 1.0
O5' B:U8 2.0 76.8 1.0
O2' B:CVC7 2.0 90.9 1.0
C2' B:CVC7 2.8 92.6 1.0
C3' B:CVC7 2.8 89.6 1.0
C5' B:U8 3.3 81.6 1.0
C1' B:CVC7 3.6 82.3 1.0
C4' B:U8 3.8 82.6 1.0
C4' B:CVC7 3.9 75.6 1.0
N2 A:G39 4.3 73.3 1.0
O2' A:G21 4.3 89.9 1.0
O4' B:CVC7 4.4 75.3 1.0
N1 A:G39 4.4 78.0 1.0
O3' B:U8 4.7 85.1 1.0
N9 B:CVC7 4.8 74.5 1.0
O4' B:U8 4.9 87.9 1.0
C2 A:G39 4.9 77.4 1.0
C3' B:U8 4.9 83.3 1.0
C2 A:A19 5.0 90.6 1.0

Reference:

A.Mir, B.L.Golden. Two Active Site Divalent Ions in the Crystal Structure of the Hammerhead Ribozyme Bound to A Transition State Analogue. Biochemistry V. 55 633 2016.
ISSN: ISSN 0006-2960
PubMed: 26551631
DOI: 10.1021/ACS.BIOCHEM.5B01139
Page generated: Thu Oct 29 07:05:48 2020

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