Zinc in PDB 9qm9: TMEM55B Tandem Ring-Like Domains in Complex with RILPL1 C-Terminal Peptide

All present enzymatic activity of TMEM55B Tandem Ring-Like Domains in Complex with RILPL1 C-Terminal Peptide:
3.1.3.78;

The structure of TMEM55B Tandem Ring-Like Domains in Complex with RILPL1 C-Terminal Peptide, PDB code: 9qm9 was solved by D.Waschbuesch, A.R.Khan, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	41.44 / 1.55
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	41.514, 48.442, 79.992, 90, 90, 90
R / Rfree (%)	20.5 / 24.6

The binding sites of Zinc atom in the TMEM55B Tandem Ring-Like Domains in Complex with RILPL1 C-Terminal Peptide (pdb code 9qm9). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 4 binding sites of Zinc where determined in the TMEM55B Tandem Ring-Like Domains in Complex with RILPL1 C-Terminal Peptide, PDB code: 9qm9:
Jump to Zinc binding site number: 1; 2; 3; 4;

Zinc binding site 1 out of 4 in the TMEM55B Tandem Ring-Like Domains in Complex with RILPL1 C-Terminal Peptide


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of TMEM55B Tandem Ring-Like Domains in Complex with RILPL1 C-Terminal Peptide within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn201 b:14.2 occ:1.00 SG A:CYS114 2.3 15.2 1.0 SG A:CYS94 2.3 13.4 1.0 SG A:CYS91 2.3 13.5 1.0 SG A:CYS111 2.4 15.0 1.0 CB A:CYS111 3.0 15.1 1.0 CB A:CYS91 3.2 14.1 1.0 CB A:CYS114 3.3 15.1 1.0 CB A:CYS94 3.4 13.6 1.0 N A:CYS94 3.7 13.0 1.0 N A:CYS114 3.7 17.9 1.0 CA A:CYS94 4.0 16.3 1.0 CA A:CYS114 4.1 14.9 1.0 O A:HOH307 4.4 19.9 1.0 CA A:CYS111 4.5 15.3 1.0 C A:CYS94 4.6 16.2 1.0 N A:GLN95 4.6 13.6 1.0 CB A:SER96 4.6 16.7 1.0 CB A:VAL93 4.6 13.4 1.0 CA A:CYS91 4.7 13.8 1.0 CB A:VAL113 4.7 15.4 1.0 N A:SER96 4.7 11.9 1.0 C A:VAL93 4.8 13.9 1.0 C A:VAL113 4.8 21.8 1.0 OG A:SER96 4.8 17.4 1.0 C A:CYS114 4.8 18.6 1.0 N A:ASN115 4.9 17.1 1.0

Zinc binding site 2 out of 4 in the TMEM55B Tandem Ring-Like Domains in Complex with RILPL1 C-Terminal Peptide


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of TMEM55B Tandem Ring-Like Domains in Complex with RILPL1 C-Terminal Peptide within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn202 b:17.0 occ:1.00 SG A:CYS132 2.3 15.5 1.0 SG A:CYS149 2.3 17.2 1.0 SG A:CYS154 2.3 16.9 1.0 SG A:CYS134 2.3 14.9 1.0 CB A:CYS149 3.1 17.6 1.0 CB A:CYS134 3.1 19.4 1.0 CB A:CYS154 3.2 19.2 1.0 CB A:CYS132 3.2 16.9 1.0 N A:CYS134 4.1 13.9 1.0 CA A:CYS134 4.2 16.6 1.0 CG A:ARG151 4.2 32.5 1.0 CB A:ARG151 4.2 22.5 1.0 CB A:SER136 4.5 18.9 1.0 CA A:CYS149 4.6 15.5 1.0 CA A:CYS154 4.6 18.9 1.0 CA A:CYS132 4.6 14.6 1.0 NH1 A:ARG156 4.7 19.7 1.0 CD A:ARG156 4.8 19.0 1.0 C A:CYS134 4.9 16.7 1.0 C A:CYS132 4.9 13.7 1.0 N A:LYS155 4.9 21.2 1.0 CB A:ARG156 4.9 19.6 1.0

Zinc binding site 3 out of 4 in the TMEM55B Tandem Ring-Like Domains in Complex with RILPL1 C-Terminal Peptide


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of TMEM55B Tandem Ring-Like Domains in Complex with RILPL1 C-Terminal Peptide within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn201 b:19.3 occ:1.00 SG B:CYS114 2.3 18.8 1.0 SG B:CYS111 2.3 17.2 1.0 SG B:CYS94 2.3 23.2 1.0 SG B:CYS91 2.4 17.6 1.0 CB B:CYS111 3.0 15.1 1.0 CB B:CYS91 3.2 18.8 1.0 CB B:CYS114 3.3 16.6 1.0 CB B:CYS94 3.4 24.6 1.0 N B:CYS114 3.7 18.5 1.0 N B:CYS94 3.8 18.9 1.0 CA B:CYS114 4.1 18.6 1.0 CA B:CYS94 4.1 20.3 1.0 CB B:VAL93 4.4 19.9 1.0 O B:HOH317 4.5 16.9 1.0 CA B:CYS111 4.5 16.4 1.0 CA B:CYS91 4.7 17.7 1.0 C B:CYS94 4.7 26.5 1.0 CB B:VAL113 4.7 18.1 1.0 C B:VAL93 4.8 26.0 1.0 C B:CYS114 4.8 22.4 1.0 CB B:SER96 4.8 26.6 1.0 N B:ASN115 4.9 19.6 1.0 C B:VAL113 4.9 21.9 1.0 CG1 B:VAL93 4.9 22.0 1.0 N B:GLN95 4.9 22.6 1.0 N B:SER96 5.0 21.2 1.0

Zinc binding site 4 out of 4 in the TMEM55B Tandem Ring-Like Domains in Complex with RILPL1 C-Terminal Peptide


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of TMEM55B Tandem Ring-Like Domains in Complex with RILPL1 C-Terminal Peptide within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn202 b:13.0 occ:1.00 SG B:CYS132 2.3 12.4 1.0 SG B:CYS149 2.3 13.4 1.0 SG B:CYS134 2.3 13.2 1.0 SG B:CYS154 2.3 13.8 1.0 CB B:CYS149 3.0 15.6 1.0 CB B:CYS134 3.2 12.9 1.0 CB B:CYS154 3.2 13.4 1.0 CB B:CYS132 3.3 13.2 1.0 N B:CYS134 4.0 14.1 1.0 CA B:CYS134 4.2 11.5 1.0 CB B:SER136 4.5 18.1 1.0 CA B:CYS149 4.5 12.9 1.0 CA B:CYS154 4.6 14.9 1.0 CA B:CYS132 4.7 14.9 1.0 CB B:ARG156 4.7 14.8 1.0 CB B:ARG151 4.8 13.2 1.0 CG B:ARG151 4.8 14.2 1.0 CD B:ARG151 4.8 14.8 1.0 N B:LYS155 4.8 14.5 1.0 N B:ARG156 4.8 16.5 1.0 O B:HOH302 4.8 24.0 1.0 C B:CYS134 4.9 13.8 1.0 C B:CYS132 5.0 13.3 1.0

D.Waschbuesch, A.R.Khan. TMEM55B Tandem Ring-Like Domains in Complex with RILPL1 C-Terminal Peptide To Be Published.