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 Crystal Structure of Barley Grain Peroxidase 1 (pdb 1bgp)

The binding sites of Sodium atom in the structure of Crystal Structure of Barley Grain Peroxidase 1 (pdb code 1bgp). This binding sites where shown with 5.0 Angstroms radius around Sodium atom.
The 1bgp structure was solved by A.HENRIKSEN, with X-Ray Crystallography technique, brief refinement statistics is given in the table below:
Resolution (A)38.0-1.9
Space groupP21212
a (A)71.920
b (A)105.060
c (A)40.950
alpha (°)90.00
beta (°)90.00
gamma (°)90.00
Rfactor (%)19.2
Rfree (%)23

Sodium Binding Sites:

Sodium binding site 1 out of 1 in 1bgp

Sodium binding site 1 out of 1 in 1bgp
Click to enlarge
stereopicture of Sodium binding site 1 out of 1 in 1bgp
Click to enlarge
Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 1 of Sodium in the PDB 1bgp. 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: Asp50, A: Cys51, A: Val53, A: Gln54, A: Gly55, A: Cys56, A: Asp57, A: Ala58, A: Ser59, A: Val60,

conact list:

AtomAtomDistance (A)
NaO A:Asp502.46
NaCB A:Asp504.20
NaOD2 A:Asp503.81
NaC A:Asp503.40
NaOD1 A:Asp502.59
NaCG A:Asp503.30
NaCA A:Asp503.89
NaN A:Cys514.48
NaCA A:Cys514.87
NaO A:Val532.30
NaN A:Val534.60
NaCB A:Val534.39
NaC A:Val533.50
NaCG1 A:Val534.86
NaCA A:Val534.39
NaN A:Gln544.41
NaOE1 A:Gln544.63
NaCB A:Gln544.24
NaC A:Gln544.41
NaCA A:Gln544.54
NaO A:Gly552.40
NaN A:Gly553.68
NaC A:Gly553.56
NaCA A:Gly554.26
NaN A:Cys564.60
NaC A:Cys564.94
NaCA A:Cys564.80
NaN A:Asp574.02
NaCB A:Asp574.82
NaOD2 A:Asp574.25
NaC A:Asp574.74
NaOD1 A:Asp572.64
NaCG A:Asp573.71
NaCA A:Asp574.72
NaN A:Ala584.41
NaC A:Ala584.83
NaN A:Ser593.82
NaCB A:Ser593.70
NaOG A:Ser592.53
NaC A:Ser594.82
NaCA A:Ser594.27
NaN A:Val604.38
NaCG1 A:Val604.50

interactive model:

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