Atomistry » Calcium » PDB 7e4z-7est » 7ed1
Atomistry »
  Calcium »
    PDB 7e4z-7est »
      7ed1 »

Calcium in PDB 7ed1: Transferase From Mycobacterium Tuberculosis

Protein crystallography data

The structure of Transferase From Mycobacterium Tuberculosis, PDB code: 7ed1 was solved by D.-G.Kim, B.-J.Lee, S.J.Lee, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 29.45 / 1.65
Space group C 1 2 1
Cell size a, b, c (Å), α, β, γ (°) 116.559, 73.858, 65.196, 90, 94.73, 90
R / Rfree (%) 18.2 / 21.5

Calcium Binding Sites:

The binding sites of Calcium atom in the Transferase From Mycobacterium Tuberculosis (pdb code 7ed1). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 6 binding sites of Calcium where determined in the Transferase From Mycobacterium Tuberculosis, PDB code: 7ed1:
Jump to Calcium binding site number: 1; 2; 3; 4; 5; 6;

Calcium binding site 1 out of 6 in 7ed1

Go back to Calcium Binding Sites List in 7ed1
Calcium binding site 1 out of 6 in the Transferase From Mycobacterium Tuberculosis


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Transferase From Mycobacterium Tuberculosis within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca303

b:11.6
occ:1.00
 O A:HOH481 2.3 15.9 1.0
O A:HOH593 2.4 20.6 1.0
O1A A:COA301 2.4 12.3 1.0
O5A A:COA301 2.4 13.2 1.0
O A:HOH548 2.5 17.0 1.0
O A:HOH519 2.5 22.3 1.0
O A:HOH443 2.5 12.4 1.0
P1A A:COA301 3.6 12.8 1.0
P2A A:COA301 3.7 13.5 1.0
O3A A:COA301 3.9 11.6 1.0
O A:HOH425 4.1 17.7 1.0
O A:HOH493 4.3 13.9 1.0
ND1 A:HIS88 4.4 10.0 1.0
CE1 A:HIS88 4.4 10.9 1.0
O A:HIS88 4.5 11.5 1.0
O A:HOH513 4.5 15.0 1.0
O4A A:COA301 4.5 12.3 1.0
C5B A:COA301 4.6 10.7 1.0
O B:HOH571 4.6 28.4 1.0
OE2 A:GLU46 4.6 16.5 1.0
O5B A:COA301 4.7 11.6 1.0
O2A A:COA301 4.7 12.5 1.0
O A:HOH525 4.7 15.6 1.0
OE1 A:GLU46 4.7 14.0 1.0
O B:HOH554 4.8 7.3 1.0
O6A A:COA301 4.9 14.4 1.0

Calcium binding site 2 out of 6 in 7ed1

Go back to Calcium Binding Sites List in 7ed1
Calcium binding site 2 out of 6 in the Transferase From Mycobacterium Tuberculosis


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Transferase From Mycobacterium Tuberculosis within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca304

b:13.3
occ:1.00
 O A:HOH493 2.4 13.9 1.0
OE2 A:GLU111 2.4 13.7 1.0
O A:ALA110 2.4 12.2 1.0
OD1 A:ASP109 2.4 12.2 1.0
OD2 A:ASP109 2.5 11.9 1.0
O4A A:COA301 2.5 12.3 1.0
CG A:ASP109 2.7 12.3 1.0
O2A A:COA301 3.2 12.5 1.0
CD A:GLU111 3.4 15.0 1.0
O3A A:COA301 3.5 11.6 1.0
P2A A:COA301 3.6 13.5 1.0
C A:ALA110 3.6 12.2 1.0
CG A:GLU111 3.9 13.8 1.0
P1A A:COA301 3.9 12.8 1.0
N A:ALA110 4.0 11.3 1.0
O A:HOH525 4.1 15.6 1.0
OG1 A:THR87 4.1 10.9 1.0
CB A:ASP109 4.2 12.7 1.0
N A:GLU111 4.4 13.4 1.0
CA A:ALA110 4.5 11.1 1.0
OE1 A:GLU111 4.5 15.0 1.0
O5A A:COA301 4.5 13.2 1.0
O A:HOH590 4.5 24.0 1.0
O6A A:COA301 4.6 14.4 1.0
CA A:GLU111 4.6 13.2 1.0
O1A A:COA301 4.7 12.3 1.0
O A:HIS88 4.7 11.5 1.0
CA A:ASP109 4.8 11.3 1.0
C A:ASP109 4.8 12.2 1.0
O A:HOH519 4.8 22.3 1.0
CG A:GLU151 4.9 14.1 1.0
CB A:GLU151 4.9 13.5 1.0
CB A:GLU111 4.9 14.1 1.0
CB A:CYS89 4.9 12.4 1.0
O A:HOH412 5.0 22.9 1.0

Calcium binding site 3 out of 6 in 7ed1

Go back to Calcium Binding Sites List in 7ed1
Calcium binding site 3 out of 6 in the Transferase From Mycobacterium Tuberculosis


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 3 of Transferase From Mycobacterium Tuberculosis within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca305

b:13.8
occ:1.00
 O A:SER16 2.2 12.1 1.0
O A:HOH543 2.3 13.9 1.0
OE1 A:GLU60 2.4 17.9 1.0
O A:HOH487 2.5 16.1 1.0
O A:HOH561 2.5 15.7 1.0
OD2 A:ASP3 2.6 18.9 1.0
OE2 A:GLU60 2.7 19.9 1.0
OD1 A:ASP3 2.8 19.8 1.0
CD A:GLU60 2.9 17.4 1.0
CG A:ASP3 3.0 19.4 1.0
C A:SER16 3.5 12.4 1.0
N A:SER16 4.1 12.7 1.0
CA A:SER16 4.4 12.2 1.0
N A:ALA17 4.4 11.9 1.0
CG A:GLU60 4.4 19.1 1.0
OG A:SER16 4.4 13.1 1.0
O A:HOH533 4.4 30.5 1.0
O A:HOH405 4.5 22.9 1.0
O A:HOH403 4.5 38.4 1.0
CB A:ASP3 4.5 17.9 1.0
CA A:ALA17 4.5 12.7 1.0
O A:HOH410 4.6 24.9 1.0
O A:HOH447 4.7 15.3 1.0
CB A:ALA17 4.8 13.7 1.0
O A:HOH586 4.8 46.0 1.0

Calcium binding site 4 out of 6 in 7ed1

Go back to Calcium Binding Sites List in 7ed1
Calcium binding site 4 out of 6 in the Transferase From Mycobacterium Tuberculosis


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 4 of Transferase From Mycobacterium Tuberculosis within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Ca303

b:12.8
occ:1.00
 O B:HOH453 2.3 15.0 1.0
O2A B:COA301 2.4 12.0 1.0
O B:HOH567 2.4 21.0 1.0
O4A B:COA301 2.5 13.8 1.0
O B:HOH525 2.5 18.2 1.0
O B:HOH433 2.5 14.6 1.0
O B:HOH540 2.5 21.6 1.0
P1A B:COA301 3.6 12.5 1.0
P2A B:COA301 3.7 14.1 1.0
O3A B:COA301 3.9 13.2 1.0
O B:HOH449 4.0 17.5 1.0
O B:HOH489 4.3 15.7 1.0
ND1 B:HIS88 4.4 12.2 1.0
CE1 B:HIS88 4.4 12.1 1.0
O B:HIS88 4.4 13.0 1.0
O5A B:COA301 4.5 14.3 1.0
O B:HOH445 4.5 13.3 1.0
OE2 B:GLU46 4.6 16.8 1.0
C5B B:COA301 4.6 12.4 1.0
O1A B:COA301 4.6 14.2 1.0
O B:HOH475 4.7 17.9 1.0
O5B B:COA301 4.7 11.9 1.0
OE1 B:GLU46 4.7 14.8 1.0
O A:HOH598 4.7 26.6 1.0
O B:HOH565 4.8 7.9 1.0
O6A B:COA301 4.9 13.7 1.0
O B:HOH568 4.9 33.8 1.0

Calcium binding site 5 out of 6 in 7ed1

Go back to Calcium Binding Sites List in 7ed1
Calcium binding site 5 out of 6 in the Transferase From Mycobacterium Tuberculosis


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 5 of Transferase From Mycobacterium Tuberculosis within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Ca304

b:16.4
occ:1.00
 O B:HOH489 2.3 15.7 1.0
OE2 B:GLU111 2.4 14.6 1.0
OD1 B:ASP109 2.4 13.7 1.0
O5A B:COA301 2.4 14.3 1.0
O B:ALA110 2.5 13.1 1.0
OD2 B:ASP109 2.5 13.4 1.0
CG B:ASP109 2.8 13.6 1.0
O1A B:COA301 3.1 14.2 1.0
CD B:GLU111 3.4 15.8 1.0
P2A B:COA301 3.5 14.1 1.0
O3A B:COA301 3.6 13.2 1.0
C B:ALA110 3.7 13.9 1.0
CG B:GLU111 3.9 15.0 1.0
P1A B:COA301 3.9 12.5 1.0
O B:HOH475 4.0 17.9 1.0
N B:ALA110 4.1 11.9 1.0
OG1 B:THR87 4.1 10.9 1.0
CB B:ASP109 4.3 13.1 1.0
OE1 B:GLU111 4.5 16.1 1.0
O4A B:COA301 4.5 13.8 1.0
N B:GLU111 4.5 14.3 1.0
CA B:ALA110 4.5 12.3 1.0
O6A B:COA301 4.6 13.7 1.0
O2A B:COA301 4.7 12.0 1.0
CA B:GLU111 4.7 14.9 1.0
O B:HIS88 4.8 13.0 1.0
CA B:ASP109 4.8 12.5 1.0
O B:HOH540 4.8 21.6 1.0
C B:ASP109 4.9 12.3 1.0
CG B:GLU151 4.9 16.9 1.0
CB B:GLU151 4.9 15.2 1.0
CB B:GLU111 4.9 14.8 1.0
CB B:CYS89 4.9 12.9 1.0
NZ B:LYS155 5.0 12.5 1.0

Calcium binding site 6 out of 6 in 7ed1

Go back to Calcium Binding Sites List in 7ed1
Calcium binding site 6 out of 6 in the Transferase From Mycobacterium Tuberculosis


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 6 of Transferase From Mycobacterium Tuberculosis within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Ca305

b:15.4
occ:1.00
 O B:SER16 2.3 14.3 1.0
O B:HOH523 2.3 16.3 1.0
OE1 B:GLU60 2.3 22.1 1.0
O B:HOH527 2.4 18.9 1.0
O B:HOH459 2.5 16.2 1.0
OD2 B:ASP3 2.5 21.3 1.0
OE2 B:GLU60 2.7 22.1 1.0
OD1 B:ASP3 2.8 19.6 1.0
CD B:GLU60 2.9 19.7 1.0
CG B:ASP3 3.0 19.6 1.0
C B:SER16 3.5 14.6 1.0
N B:SER16 4.1 14.2 1.0
CG B:GLU60 4.4 19.9 1.0
CA B:SER16 4.4 13.5 1.0
N B:ALA17 4.4 13.3 1.0
OG B:SER16 4.4 13.8 1.0
O B:HOH403 4.4 22.7 1.0
CB B:ASP3 4.5 18.5 1.0
CA B:ALA17 4.5 13.0 1.0
O B:HOH416 4.5 24.2 1.0
O B:HOH505 4.7 36.1 1.0
O B:HOH422 4.7 18.4 1.0
O B:HOH458 4.7 34.1 1.0
CB B:ALA17 4.7 13.5 1.0

Reference:

D.-G.Kim, B.-J.Lee, S.J.Lee. Transferase From Mycobacterium Tuberculosis To Be Published.
Page generated: Fri Jul 19 00:24:04 2024

Last articles

Zn in 9JYW
Zn in 9IR4
Zn in 9IR3
Zn in 9GMX
Zn in 9GMW
Zn in 9JEJ
Zn in 9ERF
Zn in 9ERE
Zn in 9EGV
Zn in 9EGW
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy