Chemical elements
    Physical Properties
    Chemical Properties
    PDB 131d-1bli
    PDB 1bph-1d10
    PDB 1d11-1ej2
    PDB 1eja-1gb5
    PDB 1gb6-1goh
    PDB 1gq2-1ikp
    PDB 1ikq-1jz1
    PDB 1jz2-1kvs
    PDB 1kvt-1me8
    PDB 1mg2-1nsz
    PDB 1nta-1oyt
    PDB 1p0s-1qjs
    PDB 1qnj-1s5d
    PDB 1s5e-1tjp
    PDB 1tk6-1uxt
    PDB 1uxu-1vzq
    PDB 1w15-1xc6
    PDB 1xcu-1yf1
    PDB 1ygg-1zko
    PDB 1zkp-2afh
    PDB 2agv-2bhc
    PDB 2bhp-2cc6
    PDB 2cc7-2dec
    PDB 2deg-2ein
    PDB 2eit-2fjb
    PDB 2fld-2gg8
    PDB 2gg9-2h9j
    PDB 2h9k-2ien
    PDB 2ieo-2jih
    PDB 2jin-2omd
    PDB 2omg-2p77
    PDB 2p78-2q68
    PDB 2q69-2qz7
    PDB 2qzi-2v35
    PDB 2v3h-2vwo
    PDB 2vx4-2wig
    PDB 2wij-2x1z
    PDB 2x20-2xmk
    PDB 2xmm-2zfq
    PDB 2zfr-3a6s
    PDB 3a6t-3b1e
    PDB 3b2n-3bos
    PDB 3bov-3ccr
    PDB 3ccs-3d7r
    PDB 3d97-3e3y
    PDB 3e40-3erp
    PDB 3euw-3fgw
    PDB 3fh4-3g3r
    PDB 3g3s-3gxw
    PDB 3gyz-3hwt
    PDB 3hww-3ijp
    PDB 3imm-3k0g
    PDB 3k13-3l7x
    PDB 3l88-3max
    PDB 3mbb-3mr1
    PDB 3mty-3nu3
    PDB 3nu4-3ot1
    PDB 3ow2-3qwc
    PDB 3qx5-3tfr
    PDB 3tfs-3v6o
    PDB 3v72-4ag2
    PDB 4aga-4eae
    PDB 4ecn-4g8t
    PDB 4gdt-8icw
    PDB 8icx-9icy

Sodium in the structure of Recombination-Like Structure of D(Ccgcgg) (pdb 192d)

The binding sites of Sodium atom in the structure of Recombination-Like Structure of D(Ccgcgg) (pdb code 192d). This binding sites where shown with 5.0 Angstroms radius around Sodium atom.
The 192d structure was solved by L.MALININA, L.URPI, X.SALAS, T.HUYNH-DINH, J.A.SUBIRANA, with X-Ray Crystallography technique, brief refinement statistics is given in the table below:
Resolution (A)8.0-1.9
Space groupC2221
a (A)34.330
b (A)44.040
c (A)38.270
alpha (°)90.00
beta (°)90.00
gamma (°)90.00
Rfactor (%)18.5
Rfree (%)n/a

Sodium Binding Sites:

Sodium binding site 1 out of 1 in 192d

Sodium binding site 1 out of 1 in 192d
Click to enlarge
stereopicture of Sodium binding site 1 out of 1 in 192d
Click to enlarge
Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 1 of Sodium in the PDB 192d. Coordination sphere was calculated for all residues within 5.0 Angstroms distance from the central Sodium atom, shown by VdW sphere
Residues shown as a stick model or VDW spheres: A: Dc2, A: Dg3, A: Dc4, B: Dg9, B: Dc10, A: Hoh14, A: Hoh15, A: Hoh46, B: Hoh31, B: Hoh36,

conact list:

AtomAtomDistance (A)
NaC6 A:Dc24.87
NaC5 A:Dc24.76
NaOP2 A:Dc24.56
NaC8 A:Dg34.98
NaC6 A:Dg33.60
NaN1 A:Dg34.84
NaC5 A:Dg34.03
NaN7 A:Dg33.73
NaO6 A:Dg32.58
NaH41 A:Dc44.49
NaH42 A:Dc44.41
NaN4 A:Dc44.72
NaO6 B:Dg94.72
NaH41 B:Dc104.11
NaH42 B:Dc103.34
NaN4 B:Dc104.08
NaO A:Hoh142.44
NaH1 A:Hoh143.26
NaH2 A:Hoh142.35
NaO A:Hoh152.47
NaH1 A:Hoh152.25
NaH2 A:Hoh152.22
NaH2 A:Hoh464.95
NaO B:Hoh314.91
NaH1 B:Hoh314.01
NaO B:Hoh364.98

interactive model:

© Copyright 2008-2012 by