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Iodine in PDB 1j2j: Crystal Structure of GGA1 Gat N-Terminal Region in Complex with ARF1 Gtp Form

Protein crystallography data

The structure of Crystal Structure of GGA1 Gat N-Terminal Region in Complex with ARF1 Gtp Form, PDB code: 1j2j was solved by T.Shiba, M.Kawasaki, H.Takatsu, T.Nogi, N.Matsugaki, N.Igarashi, M.Suzuki, R.Kato, K.Nakayama, S.Wakatsuki, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 24.85 / 1.60
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 49.410, 61.894, 76.874, 90.00, 90.00, 90.00
R / Rfree (%) 19.8 / 22.7

Other elements in 1j2j:

The structure of Crystal Structure of GGA1 Gat N-Terminal Region in Complex with ARF1 Gtp Form also contains other interesting chemical elements:

Magnesium (Mg) 1 atom

Iodine Binding Sites:

The binding sites of Iodine atom in the Crystal Structure of GGA1 Gat N-Terminal Region in Complex with ARF1 Gtp Form (pdb code 1j2j). This binding sites where shown within 5.0 Angstroms radius around Iodine atom.
In total 2 binding sites of Iodine where determined in the Crystal Structure of GGA1 Gat N-Terminal Region in Complex with ARF1 Gtp Form, PDB code: 1j2j:
Jump to Iodine binding site number: 1; 2;

Iodine binding site 1 out of 2 in 1j2j

Go back to Iodine Binding Sites List in 1j2j
Iodine binding site 1 out of 2 in the Crystal Structure of GGA1 Gat N-Terminal Region in Complex with ARF1 Gtp Form


Mono view


Stereo pair view

A full contact list of Iodine with other atoms in the I binding site number 1 of Crystal Structure of GGA1 Gat N-Terminal Region in Complex with ARF1 Gtp Form within 5.0Å range:
probe atom residue distance (Å) B Occ
A:I1

b:35.5
occ:1.00
O A:HOH1006 3.6 16.2 1.0
NE1 A:TRP66 3.6 13.6 1.0
CG A:ARG19 3.7 8.6 1.0
NH2 A:ARG19 3.8 14.9 1.0
O A:HOH1008 3.8 28.5 1.0
CG2 A:THR64 3.8 10.4 1.0
CD A:ARG19 3.8 11.2 1.0
CB A:THR64 3.9 9.0 1.0
CB A:ARG19 3.9 9.0 1.0
OG1 A:THR64 4.3 13.1 1.0
CE2 A:TRP66 4.4 15.5 1.0
CZ2 A:TRP66 4.4 20.3 1.0
O B:HOH244 4.5 34.7 1.0
CA A:ARG19 4.6 9.0 1.0
O A:HOH1203 4.6 26.3 1.0
CZ A:ARG19 4.7 13.6 1.0
NE A:ARG19 4.7 12.9 1.0
CD1 A:TRP66 4.7 10.4 1.0

Iodine binding site 2 out of 2 in 1j2j

Go back to Iodine Binding Sites List in 1j2j
Iodine binding site 2 out of 2 in the Crystal Structure of GGA1 Gat N-Terminal Region in Complex with ARF1 Gtp Form


Mono view


Stereo pair view

A full contact list of Iodine with other atoms in the I binding site number 2 of Crystal Structure of GGA1 Gat N-Terminal Region in Complex with ARF1 Gtp Form within 5.0Å range:
probe atom residue distance (Å) B Occ
B:I2

b:31.0
occ:1.00
O B:HOH235 3.4 25.8 1.0
NE B:ARG180 3.7 13.6 1.0
O B:HOH227 3.8 22.7 1.0
CD B:ARG180 3.8 14.4 1.0
O B:LYS176 4.2 12.2 1.0
N B:MET177 4.2 12.9 1.0
CA B:MET177 4.2 12.7 1.0
CB B:LYS176 4.2 14.2 1.0
C B:LYS176 4.2 12.7 1.0
CG B:ARG180 4.6 12.9 1.0
CB B:MET177 4.7 13.8 1.0
CZ B:ARG180 4.9 14.2 1.0
CA B:LYS176 4.9 13.9 1.0

Reference:

T.Shiba, M.Kawasaki, H.Takatsu, T.Nogi, N.Matsugaki, N.Igarashi, M.Suzuki, R.Kato, K.Nakayama, S.Wakatsuki. Molecular Mechanism of Membrane Recruitment of Gga By Arf in Lysosomal Protein Transport Nat.Struct.Biol. V. 10 386 2003.
ISSN: ISSN 1072-8368
PubMed: 12679809
DOI: 10.1038/NSB920
Page generated: Fri Aug 8 11:57:53 2025

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