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  Sodium
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    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
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    PDB 1tk6-1uxt
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    PDB 1xcu-1yf1
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    PDB 2cc7-2dec
    PDB 2deg-2ein
    PDB 2eit-2fjb
    PDB 2fld-2gg8
    PDB 2gg9-2h9j
    PDB 2h9k-2ien
    PDB 2ieo-2jih
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    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
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    PDB 3b2n-3bos
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    PDB 4aga-4eae
      4aga
      4ain
      4alo
      4amj
      4aob
      4atf
      4ax9
      4ayv
      4ayy
      4d99
      4d9t
      4d9u
      4dd8
      4ddo
      4df2
      4dfg
      4dgv
      4dih
      4dii
      4dka
      4dn0
      4do9
      4doa
      4dob
      4doc
      4dou
      4dpp
      4dpq
      4drr
      4drt
      4dt7
      4dw8
      4dxk
      4dxz
      4dy7
      4e0s
      4e0t
      4e0u
      4e11
      4e14
      4e1j
      4e6k
      4e6p
      4e71
      4e77
      4e7r
      4e96
      4eaa
      4eab
      4eae
    PDB 4ecn-4g8t
    PDB 4gdt-8icw
    PDB 8icx-9icy

Sodium in the structure of Crystal Structure of A Haloacid Dehalogenase-Like Hydrolase (Target Efi-900331) From Bacteroides Thetaiotaomicron With Bound Na Crystal Form I (pdb 4dw8)

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The binding sites of Sodium atom in the structure of Crystal Structure of A Haloacid Dehalogenase-Like Hydrolase (Target Efi-900331) From Bacteroides Thetaiotaomicron With Bound Na Crystal Form I (pdb code 4dw8). This binding sites where shown with 5.0 Angstroms radius around Sodium atom.
The 4dw8 structure was solved by M.W.VETTING, S.R.WASSERMAN, L.L.MORISCO, S.SOJITRA, K.N.ALLEN, D.DUNAWAY-MARIANO, H.J.IMKER, J.A.GERLT, S.C.ALMO, ENZYME FUNCTION INITIATIVE(EFI), with X-Ray Crystallography technique, brief refinement statistics is given in the table below:

*Resolution (A)*	20.3-1.5
*Space group*	P2₁2₁2₁
*a (A)*	43.669
*b (A)*	73.133
*c (A)*	82.572
*alpha (°)*	90.00
*beta (°)*	90.00
*gamma (°)*	90.00
*R_factor (%)*	18.1
*R_free (%)*	21.1

Sodium Binding Sites:

Sodium binding site 1 out of 1 in 4dw8

Click to enlarge

stereopicture of Sodium binding site 1 out of 1 in 4dw8

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Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 1 of Sodium in the PDB 4dw8. 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: Asp9, A: Leu10, A: Asp11, A: Gly12, A: Thr13, A: Asp219, A: Gly220, A: Asn222, A: Asp223, A: Hoh415, A: Hoh488, A: Hoh504, A: Hoh528, A: Hoh553, A: Hoh605,

conact list:

Atom	Atom	Distance (A)
Na	CB A:*Asp*9	4.29
Na	OD2 A:*Asp*9	2.40
Na	OD1 A:*Asp*9	3.92
Na	CG A:*Asp*9	3.32
Na	C A:*Leu*10	4.98
Na	O A:*Asp*11	2.28
Na	N A:*Asp*11	4.37
Na	CB A:*Asp*11	4.34
Na	C A:*Asp*11	3.42
Na	CA A:*Asp*11	4.23
Na	N A:*Gly*12	4.39
Na	C A:*Gly*12	4.92
Na	CA A:*Gly*12	4.55
Na	OG1 A:*Thr*13	4.39
Na	N A:*Asp*219	4.85
Na	CB A:*Asp*219	4.70
Na	OD2 A:*Asp*219	2.38
Na	OD1 A:*Asp*219	3.55
Na	CG A:*Asp*219	3.32
Na	N A:*Gly*220	4.47
Na	CA A:*Gly*220	4.97
Na	OD1 A:*Asn*222	4.81
Na	OD2 A:*Asp*223	3.80
Na	CG A:*Asp*223	4.83
Na	O A:*Hoh*415	4.80
Na	O A:*Hoh*488	2.43
Na	O A:*Hoh*504	2.62
Na	O A:*Hoh*528	2.41
Na	O A:*Hoh*553	4.88
Na	O A:*Hoh*605	4.86

Sodium in the structure of Crystal Structure of A Haloacid Dehalogenase-Like Hydrolase (Target Efi-900331) From Bacteroides Thetaiotaomicron With Bound Na Crystal Form I (pdb 4dw8)

Sodium Binding Sites:

Sodium binding site 1 out of 1 in 4dw8

conact list:

interactive model: