Iodine in PDB 1q8c: A Conserved Hypothetical Protein From Mycoplasma Genitalium Shows Structural Homology to Nusb Proteins

The structure of A Conserved Hypothetical Protein From Mycoplasma Genitalium Shows Structural Homology to Nusb Proteins, PDB code: 1q8c was solved by J.Liu, H.Yokota, R.Kim, S.-H.Kim, Berkeley Structural Genomics Center(Bsgc), with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	20.00 / 2.00
Space group	P 41
Cell size a, b, c (Å), α, β, γ (°)	41.401, 41.401, 99.008, 90.00, 90.00, 90.00
R / Rfree (%)	25.4 / 27.2

The structure of A Conserved Hypothetical Protein From Mycoplasma Genitalium Shows Structural Homology to Nusb Proteins also contains other interesting chemical elements:

Chlorine	(Cl)	2 atoms
Sodium	(Na)	3 atoms

The binding sites of Iodine atom in the A Conserved Hypothetical Protein From Mycoplasma Genitalium Shows Structural Homology to Nusb Proteins (pdb code 1q8c). This binding sites where shown within 5.0 Angstroms radius around Iodine atom.
In total 7 binding sites of Iodine where determined in the A Conserved Hypothetical Protein From Mycoplasma Genitalium Shows Structural Homology to Nusb Proteins, PDB code: 1q8c:
Jump to Iodine binding site number: 1; 2; 3; 4; 5; 6; 7;

Iodine binding site 1 out of 7 in the A Conserved Hypothetical Protein From Mycoplasma Genitalium Shows Structural Homology to Nusb Proteins


Mono view


Stereo pair view

A full contact list of Iodine with other atoms in the I binding site number 1 of A Conserved Hypothetical Protein From Mycoplasma Genitalium Shows Structural Homology to Nusb Proteins within 5.0Å range: probe atom residue distance (Å) B Occ A:I152 b:57.2 occ:0.60 O A:GLU55 4.0 43.5 1.0 C A:GLU55 4.1 43.5 1.0 CE1 A:HIS116 4.1 42.4 1.0 N A:TRP56 4.2 43.3 1.0 CA A:TRP56 4.2 43.5 1.0 CG A:LEU59 4.2 45.1 1.0 CB A:GLU55 4.4 43.9 1.0 O A:HOH214 4.4 57.4 1.0 CD1 A:LEU59 4.6 44.8 1.0 CB A:LEU59 4.6 43.9 1.0 CA A:GLU55 4.9 43.7 1.0 ND1 A:HIS116 4.9 43.3 1.0 CB A:TRP56 5.0 43.9 1.0

Iodine binding site 2 out of 7 in the A Conserved Hypothetical Protein From Mycoplasma Genitalium Shows Structural Homology to Nusb Proteins


Mono view


Stereo pair view

A full contact list of Iodine with other atoms in the I binding site number 2 of A Conserved Hypothetical Protein From Mycoplasma Genitalium Shows Structural Homology to Nusb Proteins within 5.0Å range: probe atom residue distance (Å) B Occ A:I153 b:58.8 occ:0.70 I A:IOD158 2.6 63.2 0.3 ND2 A:ASN54 3.6 44.5 1.0 NH2 A:ARG14 3.7 43.0 1.0 CB A:TRP56 3.8 43.9 1.0 NE A:ARG14 4.0 43.8 1.0 CG A:TRP56 4.1 43.5 1.0 CZ A:ARG14 4.3 43.5 1.0 NA A:NA162 4.4 66.3 1.0 CD1 A:TRP56 4.4 42.2 1.0 O A:HOH208 4.6 55.1 1.0 CG A:ASN54 4.7 44.6 1.0 CD2 A:TRP56 4.8 43.4 1.0

Iodine binding site 3 out of 7 in the A Conserved Hypothetical Protein From Mycoplasma Genitalium Shows Structural Homology to Nusb Proteins


Mono view


Stereo pair view

A full contact list of Iodine with other atoms in the I binding site number 3 of A Conserved Hypothetical Protein From Mycoplasma Genitalium Shows Structural Homology to Nusb Proteins within 5.0Å range: probe atom residue distance (Å) B Occ A:I154 b:58.6 occ:0.40 CB A:PRO33 3.6 45.3 1.0 CG2 A:ILE68 4.2 44.9 1.0 CD1 A:PHE69 4.2 43.5 1.0 CG1 A:ILE68 4.3 45.9 1.0 CA A:PRO33 4.3 45.1 1.0 CD1 A:LEU32 4.3 46.4 1.0 N A:PHE69 4.5 44.2 1.0 CA A:PHE69 4.6 43.9 1.0 CB A:PHE69 4.7 43.9 1.0 CG A:PRO33 4.8 45.4 1.0 CB A:ILE68 4.9 45.2 1.0 CB A:LEU32 4.9 46.1 1.0 CG A:PHE69 4.9 43.8 1.0 C A:ILE68 4.9 44.5 1.0 CD1 A:ILE68 5.0 46.4 1.0 N A:PRO33 5.0 45.5 1.0

Iodine binding site 4 out of 7 in the A Conserved Hypothetical Protein From Mycoplasma Genitalium Shows Structural Homology to Nusb Proteins


Mono view


Stereo pair view

A full contact list of Iodine with other atoms in the I binding site number 4 of A Conserved Hypothetical Protein From Mycoplasma Genitalium Shows Structural Homology to Nusb Proteins within 5.0Å range: probe atom residue distance (Å) B Occ A:I155 b:59.3 occ:0.40 CE A:LYS120 3.6 44.4 1.0 CA A:PRO121 4.1 43.5 1.0 CD1 A:ILE124 4.2 44.4 1.0 CG A:PRO121 4.2 43.6 1.0 N A:PRO121 4.3 43.7 1.0 O A:HOH175 4.3 62.3 1.0 CG A:LYS120 4.3 44.4 1.0 O A:HOH200 4.3 56.7 1.0 CB A:PRO121 4.4 43.6 1.0 NZ A:LYS120 4.5 45.3 1.0 CD A:LYS120 4.6 44.6 1.0 CD2 A:LEU150 4.6 44.9 1.0 CD A:PRO121 4.6 43.8 1.0 C A:LYS120 4.7 43.9 1.0 CB A:LYS120 4.7 44.1 1.0 O A:LYS120 4.9 44.1 1.0

Iodine binding site 5 out of 7 in the A Conserved Hypothetical Protein From Mycoplasma Genitalium Shows Structural Homology to Nusb Proteins


Mono view


Stereo pair view

A full contact list of Iodine with other atoms in the I binding site number 5 of A Conserved Hypothetical Protein From Mycoplasma Genitalium Shows Structural Homology to Nusb Proteins within 5.0Å range: probe atom residue distance (Å) B Occ A:I156 b:59.9 occ:0.40 CB A:ALA63 3.9 43.4 1.0 NA A:NA163 3.9 62.2 1.0 CA A:ALA63 4.2 43.0 1.0 CA A:ALA115 4.2 43.8 1.0 N A:ALA63 4.4 43.5 1.0 O A:LEU59 4.4 43.9 1.0 CB A:ALA115 4.4 43.9 1.0 CD2 A:LEU59 4.8 44.8 1.0 CG A:LYS62 4.8 44.6 1.0 O A:LYS114 4.8 44.5 1.0 CD1 A:LEU59 4.8 44.8 1.0 CG A:LYS114 4.9 45.2 1.0 N A:ALA115 4.9 44.2 1.0

Iodine binding site 6 out of 7 in the A Conserved Hypothetical Protein From Mycoplasma Genitalium Shows Structural Homology to Nusb Proteins


Mono view


Stereo pair view

A full contact list of Iodine with other atoms in the I binding site number 6 of A Conserved Hypothetical Protein From Mycoplasma Genitalium Shows Structural Homology to Nusb Proteins within 5.0Å range: probe atom residue distance (Å) B Occ A:I157 b:62.6 occ:0.30 ND2 A:ASN82 3.1 44.8 1.0 CA A:GLN79 3.9 44.7 1.0 CG A:GLN79 3.9 45.4 1.0 CE1 A:HIS144 4.1 44.4 1.0 CB A:GLN79 4.1 44.6 1.0 CG A:ASN82 4.1 45.0 1.0 CG A:LYS141 4.2 44.7 1.0 CB A:ASN82 4.3 44.8 1.0 O A:GLN79 4.4 45.0 1.0 OE1 A:GLN79 4.4 46.5 1.0 C A:GLN79 4.6 44.5 1.0 CD A:GLN79 4.7 46.3 1.0 N A:GLN79 4.9 44.5 1.0 ND1 A:HIS144 4.9 45.0 1.0 NZ A:LYS141 4.9 45.1 1.0 NE2 A:HIS144 5.0 43.8 1.0

Iodine binding site 7 out of 7 in the A Conserved Hypothetical Protein From Mycoplasma Genitalium Shows Structural Homology to Nusb Proteins


Mono view


Stereo pair view

A full contact list of Iodine with other atoms in the I binding site number 7 of A Conserved Hypothetical Protein From Mycoplasma Genitalium Shows Structural Homology to Nusb Proteins within 5.0Å range: probe atom residue distance (Å) B Occ A:I158 b:63.2 occ:0.30 I A:IOD153 2.6 58.8 0.7 NA A:NA162 2.7 66.3 1.0 NE A:ARG14 3.2 43.8 1.0 CD A:ARG17 3.4 46.0 1.0 ND2 A:ASN54 3.5 44.5 1.0 O A:HOH187 3.7 55.7 1.0 CD A:ARG14 3.8 44.3 1.0 CG A:ARG14 4.0 43.6 1.0 NH1 A:ARG17 4.0 46.2 1.0 CZ A:ARG14 4.3 43.5 1.0 NE A:ARG17 4.3 47.3 1.0 NH2 A:ARG14 4.4 43.0 1.0 CE3 A:TRP56 4.4 43.2 1.0 CG A:ARG17 4.4 45.4 1.0 CB A:TRP56 4.5 43.9 1.0 CD2 A:TRP56 4.5 43.4 1.0 CG A:TRP56 4.5 43.5 1.0 CG A:ASN54 4.6 44.6 1.0 CZ A:ARG17 4.6 45.6 1.0 OD1 A:ASN54 4.8 44.1 1.0 CA A:ARG14 4.9 43.5 1.0

J.Liu, H.Yokota, R.Kim, S.-H.Kim. A Conserved Hypothetical Protein From Mycoplasma Genitalium Shows Structural Homology to Nusb Proteins Proteins V. 55 1082 2004.
ISSN: ISSN 0887-3585
PubMed: 15146506
DOI: 10.1002/PROT.20119