Chemical elements
  Sodium
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    Chemical Properties
    PDB 131d-1bli
      131d
      191d
      192d
      193l
      194l
      1a2c
      1a3d
      1a46
      1a4w
      1a50
      1a5g
      1a5s
      1a5u
      1a61
      1a7t
      1a9y
      1a9z
      1ad8
      1ag9
      1ak9
      1aor
      1ass
      1at5
      1av7
      1avf
      1avt
      1b57
      1b5g
      1b5u
      1b5v
      1b5w
      1b5x
      1b5y
      1b7l
      1b7m
      1b7n
      1b7o
      1b7p
      1b7q
      1b7r
      1b7s
      1ba0
      1ba1
      1bb0
      1bch
      1bg4
      1bgp
      1bh6
      1bks
      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 Verification of Spmp Using Mutant Human Lysozymes (pdb 1b7r)






The binding sites of Sodium atom in the structure of Verification of Spmp Using Mutant Human Lysozymes (pdb code 1b7r). This binding sites where shown with 5.0 Angstroms radius around Sodium atom.
The 1b7r structure was solved by K.TAKANO, M.OTA, K.OGASAHARA, Y.YAMAGATA, K.NISHIKAWA, K.YUTANI, with X-Ray Crystallography technique, brief refinement statistics is given in the table below:
Resolution (A)8.0-1.8
Space groupP212121
a (A)56.580
b (A)61.010
c (A)33.790
alpha (°)90.00
beta (°)90.00
gamma (°)90.00
Rfactor (%)16
Rfree (%)n/a


Sodium Binding Sites:

Sodium binding site 1 out of 1 in 1b7r


Sodium binding site 1 out of 1 in 1b7r
Click to enlarge
stereopicture of Sodium binding site 1 out of 1 in 1b7r
Click to enlarge
Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 1 of Sodium in the PDB 1b7r. 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: Hoh141, A: Hoh147, A: Hoh160,

conact list:


AtomAtomDistance (A)
NaO A:Hoh1412.57
NaO A:Hoh1474.60
NaO A:Hoh1602.21

interactive model:




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