Magnesium in PDB 6vzv: TTLL6 Bound to Gamma-Elongation Analog

The structure of TTLL6 Bound to Gamma-Elongation Analog, PDB code: 6vzv was solved by K.K.Mahalingan, E.K.Keenen, M.Strickland, Y.Li, Y.Liu, H.L.Ball, M.E.Tanner, N.Tjandra, A.Roll-Mecak, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	45.84 / 2.33
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	75.072, 109.716, 173.032, 90.00, 90.26, 90.00
R / Rfree (%)	18.2 / 21.1

The binding sites of Magnesium atom in the TTLL6 Bound to Gamma-Elongation Analog (pdb code 6vzv). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 8 binding sites of Magnesium where determined in the TTLL6 Bound to Gamma-Elongation Analog, PDB code: 6vzv:
Jump to Magnesium binding site number: 1; 2; 3; 4; 5; 6; 7; 8;

Magnesium binding site 1 out of 8 in the TTLL6 Bound to Gamma-Elongation Analog


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of TTLL6 Bound to Gamma-Elongation Analog within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg603 b:33.4 occ:1.00 O27 A:S3A601 2.0 33.0 1.0 O3B A:ADP602 2.0 32.2 1.0 O A:HOH714 2.1 28.8 1.0 OD1 A:ASN361 2.1 39.4 1.0 OE2 A:GLU359 2.2 32.8 1.0 OE1 A:GLU359 2.3 30.4 1.0 CD A:GLU359 2.6 34.2 1.0 P24 A:S3A601 3.1 31.8 1.0 PB A:ADP602 3.1 29.6 1.0 CG A:ASN361 3.2 34.4 1.0 O26 A:S3A601 3.3 33.5 1.0 O1B A:ADP602 3.3 27.3 1.0 ND2 A:ASN361 3.6 33.0 1.0 MG A:MG604 3.8 31.8 1.0 NZ A:LYS125 3.9 32.2 1.0 CA A:CYS179 3.9 28.6 1.0 O12 A:S3A601 4.0 35.4 1.0 CB A:CYS179 4.0 28.2 1.0 CG A:GLU359 4.1 33.0 1.0 O A:GLY178 4.1 37.8 1.0 O2B A:ADP602 4.2 33.3 1.0 O A:HOH720 4.2 44.4 1.0 O3A A:ADP602 4.2 34.1 1.0 C9 A:S3A601 4.3 33.3 1.0 O25 A:S3A601 4.3 30.8 1.0 O8 A:S3A601 4.3 37.9 1.0 N A:GLN180 4.5 27.1 1.0 O1A A:ADP602 4.5 28.2 1.0 CB A:ASN361 4.5 31.7 1.0 CE A:LYS125 4.6 42.5 1.0 C A:CYS179 4.7 29.4 1.0 C6 A:S3A601 4.8 38.8 1.0 OD2 A:ASP346 4.8 40.0 1.0 N A:CYS179 4.9 30.4 1.0 C10 A:S3A601 4.9 25.2 1.0 C1 A:S3A601 4.9 35.5 1.0 C A:GLY178 4.9 34.0 1.0 CB A:GLU359 4.9 36.3 1.0 PA A:ADP602 5.0 30.4 1.0

Magnesium binding site 2 out of 8 in the TTLL6 Bound to Gamma-Elongation Analog


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of TTLL6 Bound to Gamma-Elongation Analog within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg604 b:31.8 occ:1.00 O26 A:S3A601 1.9 33.5 1.0 OD2 A:ASP346 2.0 40.0 1.0 O1A A:ADP602 2.0 28.2 1.0 O A:HOH719 2.1 34.9 1.0 OE2 A:GLU359 2.1 32.8 1.0 O1B A:ADP602 2.1 27.3 1.0 CG A:ASP346 3.2 36.9 1.0 CD A:GLU359 3.2 34.2 1.0 P24 A:S3A601 3.3 31.8 1.0 PB A:ADP602 3.3 29.6 1.0 PA A:ADP602 3.4 30.4 1.0 ND2 A:ASN264 3.7 32.5 1.0 O3A A:ADP602 3.7 34.1 1.0 MG A:MG603 3.8 33.4 1.0 CG A:GLU359 3.8 33.0 1.0 O3B A:ADP602 3.8 32.2 1.0 O27 A:S3A601 3.8 33.0 1.0 C5' A:ADP602 4.0 25.1 1.0 NH2 A:ARG241 4.0 40.9 1.0 O25 A:S3A601 4.0 30.8 1.0 OD1 A:ASP346 4.0 37.7 1.0 NH1 A:ARG241 4.1 34.3 1.0 O5' A:ADP602 4.2 24.0 1.0 O3' A:ADP602 4.2 36.4 1.0 CB A:ASP346 4.2 32.2 1.0 NH2 A:ARG219 4.2 31.1 1.0 OE1 A:GLU359 4.3 30.4 1.0 ND2 A:ASN361 4.3 33.0 1.0 O12 A:S3A601 4.4 35.4 1.0 CZ A:ARG241 4.5 43.2 1.0 O2A A:ADP602 4.5 32.8 1.0 C3' A:ADP602 4.6 32.5 1.0 O2B A:ADP602 4.6 33.3 1.0 CG A:ASN264 4.7 34.0 1.0 C4' A:ADP602 4.8 28.5 1.0 OD1 A:ASN361 4.9 39.4 1.0

Magnesium binding site 3 out of 8 in the TTLL6 Bound to Gamma-Elongation Analog


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of TTLL6 Bound to Gamma-Elongation Analog within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg603 b:31.4 occ:1.00 O26 B:S3A601 1.9 32.6 1.0 OD2 B:ASP346 1.9 36.5 1.0 O2A B:ADP602 2.0 31.4 1.0 O B:HOH713 2.1 32.6 1.0 OE2 B:GLU359 2.1 35.9 1.0 O3B B:ADP602 2.2 24.4 1.0 CG B:ASP346 3.2 32.2 1.0 CD B:GLU359 3.2 32.9 1.0 P24 B:S3A601 3.3 30.9 1.0 PA B:ADP602 3.3 28.9 1.0 PB B:ADP602 3.4 27.0 1.0 ND2 B:ASN264 3.7 32.5 1.0 CG B:GLU359 3.7 29.2 1.0 MG B:MG604 3.8 31.7 1.0 O3A B:ADP602 3.8 33.9 1.0 NH2 B:ARG241 3.8 41.0 1.0 O27 B:S3A601 3.8 32.2 1.0 C5' B:ADP602 3.9 28.6 1.0 OD1 B:ASP346 3.9 33.4 1.0 O1B B:ADP602 4.0 26.7 1.0 O25 B:S3A601 4.0 32.2 1.0 NH1 B:ARG241 4.0 31.2 1.0 O3' B:ADP602 4.1 27.8 1.0 CB B:ASP346 4.1 25.7 1.0 O5' B:ADP602 4.1 27.8 1.0 OE1 B:GLU359 4.2 32.0 1.0 NH2 B:ARG219 4.3 31.6 1.0 ND2 B:ASN361 4.3 35.0 1.0 O12 B:S3A601 4.3 32.5 1.0 CZ B:ARG241 4.4 42.4 1.0 C3' B:ADP602 4.5 30.8 1.0 O1A B:ADP602 4.5 36.9 1.0 CG B:ASN264 4.7 34.7 1.0 O2B B:ADP602 4.7 36.8 1.0 C4' B:ADP602 4.7 28.0 1.0 OD1 B:ASN361 4.8 38.1 1.0 OD1 B:ASN264 5.0 36.9 1.0

Magnesium binding site 4 out of 8 in the TTLL6 Bound to Gamma-Elongation Analog


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of TTLL6 Bound to Gamma-Elongation Analog within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg604 b:31.7 occ:1.00 O27 B:S3A601 2.0 32.2 1.0 O1B B:ADP602 2.1 26.7 1.0 O B:HOH724 2.1 23.0 1.0 OD1 B:ASN361 2.1 38.1 1.0 OE2 B:GLU359 2.2 35.9 1.0 OE1 B:GLU359 2.2 32.0 1.0 CD B:GLU359 2.5 32.9 1.0 CG B:ASN361 3.1 34.5 1.0 PB B:ADP602 3.2 27.0 1.0 P24 B:S3A601 3.2 30.9 1.0 O26 B:S3A601 3.3 32.6 1.0 O3B B:ADP602 3.4 24.4 1.0 ND2 B:ASN361 3.5 35.0 1.0 MG B:MG603 3.8 31.4 1.0 NZ B:LYS125 3.8 35.4 1.0 CA B:CYS179 4.0 31.5 1.0 CG B:GLU359 4.0 29.2 1.0 O12 B:S3A601 4.1 32.5 1.0 O3A B:ADP602 4.1 33.9 1.0 CB B:CYS179 4.2 31.5 1.0 O B:HOH739 4.2 50.4 1.0 O B:GLY178 4.2 33.5 1.0 C9 B:S3A601 4.3 33.6 1.0 O25 B:S3A601 4.3 32.2 1.0 O8 B:S3A601 4.4 37.1 1.0 O2B B:ADP602 4.4 36.8 1.0 O2A B:ADP602 4.4 31.4 1.0 CB B:ASN361 4.5 30.6 1.0 CE B:LYS125 4.5 34.3 1.0 N B:GLN180 4.6 26.9 1.0 OD2 B:ASP346 4.8 36.5 1.0 C6 B:S3A601 4.8 36.4 1.0 C B:CYS179 4.8 35.3 1.0 PA B:ADP602 4.9 28.9 1.0 CB B:GLU359 4.9 32.3 1.0 C1 B:S3A601 4.9 34.5 1.0 C10 B:S3A601 4.9 27.0 1.0 N B:CYS179 4.9 37.9 1.0 C B:GLY178 5.0 40.9 1.0

Magnesium binding site 5 out of 8 in the TTLL6 Bound to Gamma-Elongation Analog


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 5 of TTLL6 Bound to Gamma-Elongation Analog within 5.0Å range: probe atom residue distance (Å) B Occ C:Mg603 b:29.4 occ:1.00 O C:HOH725 2.0 25.6 1.0 O27 C:S3A601 2.1 30.6 1.0 O3B C:ADP602 2.1 27.3 1.0 OD1 C:ASN361 2.2 41.5 1.0 OE2 C:GLU359 2.3 34.4 1.0 OE1 C:GLU359 2.3 32.5 1.0 CD C:GLU359 2.6 33.4 1.0 CG C:ASN361 3.2 36.8 1.0 PB C:ADP602 3.3 29.3 1.0 P24 C:S3A601 3.3 32.8 1.0 O26 C:S3A601 3.5 31.7 1.0 O1B C:ADP602 3.5 28.1 1.0 ND2 C:ASN361 3.7 40.5 1.0 NZ C:LYS125 3.7 39.3 1.0 MG C:MG604 3.9 30.7 1.0 CA C:CYS179 3.9 30.0 1.0 CB C:CYS179 4.0 32.1 1.0 O C:GLY178 4.1 31.0 1.0 CG C:GLU359 4.1 29.1 1.0 O12 C:S3A601 4.2 33.6 1.0 O8 C:S3A601 4.2 37.0 1.0 C9 C:S3A601 4.3 31.3 1.0 O3A C:ADP602 4.3 31.0 1.0 O C:HOH717 4.3 42.5 1.0 O2B C:ADP602 4.4 33.5 1.0 O25 C:S3A601 4.4 29.5 1.0 CB C:ASN361 4.5 32.6 1.0 CE C:LYS125 4.5 42.4 1.0 O1A C:ADP602 4.6 33.3 1.0 C6 C:S3A601 4.7 37.3 1.0 N C:GLN180 4.7 26.2 1.0 C1 C:S3A601 4.8 32.4 1.0 C C:CYS179 4.8 34.1 1.0 N C:CYS179 4.8 30.8 1.0 C C:GLY178 4.8 37.0 1.0 OD2 C:ASP346 4.9 37.3 1.0 CB C:GLU359 4.9 33.7 1.0 C10 C:S3A601 4.9 25.0 1.0

Magnesium binding site 6 out of 8 in the TTLL6 Bound to Gamma-Elongation Analog


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 6 of TTLL6 Bound to Gamma-Elongation Analog within 5.0Å range: probe atom residue distance (Å) B Occ C:Mg604 b:30.7 occ:1.00 O26 C:S3A601 1.9 31.7 1.0 OD2 C:ASP346 1.9 37.3 1.0 O1A C:ADP602 2.0 33.3 1.0 O C:HOH726 2.1 32.4 1.0 OE2 C:GLU359 2.1 34.4 1.0 O1B C:ADP602 2.2 28.1 1.0 CG C:ASP346 3.1 30.6 1.0 CD C:GLU359 3.2 33.4 1.0 P24 C:S3A601 3.3 32.8 1.0 PA C:ADP602 3.3 31.5 1.0 PB C:ADP602 3.4 29.3 1.0 CG C:GLU359 3.7 29.1 1.0 O3A C:ADP602 3.8 31.0 1.0 ND2 C:ASN264 3.8 24.6 1.0 O27 C:S3A601 3.8 30.6 1.0 NH2 C:ARG241 3.9 41.5 1.0 O3B C:ADP602 3.9 27.3 1.0 MG C:MG603 3.9 29.4 1.0 OD1 C:ASP346 3.9 34.1 1.0 C5' C:ADP602 4.0 25.5 1.0 O25 C:S3A601 4.0 29.5 1.0 O3' C:ADP602 4.1 28.4 1.0 NH1 C:ARG241 4.1 31.8 1.0 CB C:ASP346 4.1 25.7 1.0 O5' C:ADP602 4.1 27.5 1.0 NH2 C:ARG219 4.2 35.3 1.0 OE1 C:GLU359 4.3 32.5 1.0 ND2 C:ASN361 4.3 40.5 1.0 O12 C:S3A601 4.3 33.6 1.0 CZ C:ARG241 4.4 44.3 1.0 O2A C:ADP602 4.5 36.5 1.0 C3' C:ADP602 4.5 29.8 1.0 O2B C:ADP602 4.7 33.5 1.0 CG C:ASN264 4.8 35.9 1.0 C4' C:ADP602 4.8 26.0 1.0 OD1 C:ASN361 4.8 41.5 1.0

Magnesium binding site 7 out of 8 in the TTLL6 Bound to Gamma-Elongation Analog


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 7 of TTLL6 Bound to Gamma-Elongation Analog within 5.0Å range: probe atom residue distance (Å) B Occ D:Mg603 b:30.7 occ:1.00 O26 D:S3A601 1.9 33.1 1.0 O2A D:ADP602 2.0 33.6 1.0 OD2 D:ASP346 2.0 39.4 1.0 O D:HOH739 2.0 31.1 1.0 OE2 D:GLU359 2.1 33.2 1.0 O3B D:ADP602 2.2 27.9 1.0 CD D:GLU359 3.2 32.8 1.0 CG D:ASP346 3.2 37.6 1.0 P24 D:S3A601 3.3 31.2 1.0 PB D:ADP602 3.3 30.0 1.0 PA D:ADP602 3.3 30.7 1.0 O27 D:S3A601 3.6 30.8 1.0 O1B D:ADP602 3.7 27.5 1.0 CG D:GLU359 3.7 28.3 1.0 O3A D:ADP602 3.7 31.3 1.0 MG D:MG604 3.8 31.3 1.0 ND2 D:ASN264 3.8 26.3 1.0 C5' D:ADP602 4.0 25.5 1.0 OD1 D:ASP346 4.0 36.1 1.0 NH2 D:ARG241 4.0 35.4 1.0 O25 D:S3A601 4.0 28.7 1.0 O5' D:ADP602 4.1 25.2 1.0 O3' D:ADP602 4.2 34.1 1.0 CB D:ASP346 4.2 26.6 1.0 NH1 D:ARG241 4.2 32.9 1.0 OE1 D:GLU359 4.2 31.1 1.0 NH2 D:ARG219 4.3 31.8 1.0 ND2 D:ASN361 4.3 30.3 1.0 O12 D:S3A601 4.4 33.2 1.0 O1A D:ADP602 4.5 36.5 1.0 C3' D:ADP602 4.6 35.9 1.0 CZ D:ARG241 4.6 36.1 1.0 O2B D:ADP602 4.6 32.5 1.0 CG D:ASN264 4.8 36.2 1.0 OD1 D:ASN361 4.8 36.1 1.0 C4' D:ADP602 4.8 30.1 1.0

Magnesium binding site 8 out of 8 in the TTLL6 Bound to Gamma-Elongation Analog


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 8 of TTLL6 Bound to Gamma-Elongation Analog within 5.0Å range: probe atom residue distance (Å) B Occ D:Mg604 b:31.3 occ:1.00 O27 D:S3A601 2.0 30.8 1.0 O D:HOH709 2.0 26.8 1.0 O1B D:ADP602 2.1 27.5 1.0 OD1 D:ASN361 2.1 36.1 1.0 OE2 D:GLU359 2.2 33.2 1.0 OE1 D:GLU359 2.4 31.1 1.0 CD D:GLU359 2.6 32.8 1.0 CG D:ASN361 3.2 32.7 1.0 P24 D:S3A601 3.2 31.2 1.0 PB D:ADP602 3.3 30.0 1.0 O26 D:S3A601 3.5 33.1 1.0 O3B D:ADP602 3.5 27.9 1.0 ND2 D:ASN361 3.6 30.3 1.0 MG D:MG603 3.8 30.7 1.0 CA D:CYS179 3.8 31.0 1.0 NZ D:LYS125 3.8 34.3 1.0 CB D:CYS179 4.0 33.6 1.0 O12 D:S3A601 4.0 33.2 1.0 O D:GLY178 4.1 34.7 1.0 CG D:GLU359 4.1 28.3 1.0 O D:HOH716 4.2 38.8 1.0 C9 D:S3A601 4.2 33.2 1.0 O8 D:S3A601 4.2 38.9 1.0 O2B D:ADP602 4.3 32.5 1.0 O25 D:S3A601 4.3 28.7 1.0 O3A D:ADP602 4.3 31.3 1.0 CE D:LYS125 4.5 34.8 1.0 CB D:ASN361 4.5 32.8 1.0 N D:GLN180 4.5 28.3 1.0 O2A D:ADP602 4.6 33.6 1.0 C6 D:S3A601 4.6 38.9 1.0 C D:CYS179 4.7 29.9 1.0 N D:CYS179 4.8 31.0 1.0 C1 D:S3A601 4.8 34.1 1.0 C10 D:S3A601 4.8 26.1 1.0 C D:GLY178 4.8 35.3 1.0 OD2 D:ASP346 4.9 39.4 1.0 CB D:GLU359 5.0 34.2 1.0

K.K.Mahalingan, E.K.Keenen, M.Strickland, Y.Li, Y.Liu, H.L.Ball, M.E.Tanner, N.Tjandra, A.Roll-Mecak. TTLL6 Bound to Gamma-Elongation Analog To Be Published.