Zinc in PDB 5zhv: Crystal Structure of the Padr-Family Transcriptional Regulator RV3488 of Mycobacterium Tuberculosis H37RV in Complex with Zinc Ion

Protein crystallography data

The structure of Crystal Structure of the Padr-Family Transcriptional Regulator RV3488 of Mycobacterium Tuberculosis H37RV in Complex with Zinc Ion, PDB code: 5zhv was solved by K.Meera, R.K.Pal, A.Arora, B.K.Biswal, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 64.19 / 2.40
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 30.468, 49.208, 128.388, 90.00, 90.00, 90.00
R / Rfree (%) 21 / 26.7

Zinc Binding Sites:

The binding sites of Zinc atom in the Crystal Structure of the Padr-Family Transcriptional Regulator RV3488 of Mycobacterium Tuberculosis H37RV in Complex with Zinc Ion (pdb code 5zhv). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 4 binding sites of Zinc where determined in the Crystal Structure of the Padr-Family Transcriptional Regulator RV3488 of Mycobacterium Tuberculosis H37RV in Complex with Zinc Ion, PDB code: 5zhv:
Jump to Zinc binding site number: 1; 2; 3; 4;

Zinc binding site 1 out of 4 in 5zhv

Go back to Zinc Binding Sites List in 5zhv
Zinc binding site 1 out of 4 in the Crystal Structure of the Padr-Family Transcriptional Regulator RV3488 of Mycobacterium Tuberculosis H37RV in Complex with Zinc Ion


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Crystal Structure of the Padr-Family Transcriptional Regulator RV3488 of Mycobacterium Tuberculosis H37RV in Complex with Zinc Ion within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn201

b:70.0
occ:1.00
NE2 A:HIS16 2.3 45.9 1.0
NE2 A:HIS34 2.4 52.8 1.0
OE1 A:GLU30 2.4 53.9 1.0
CD2 A:HIS16 3.2 43.4 1.0
CE1 A:HIS16 3.3 45.0 1.0
CD2 A:HIS34 3.3 52.8 1.0
CD A:GLU30 3.3 50.0 1.0
CE1 A:HIS34 3.4 53.4 1.0
OE2 A:GLU30 4.0 50.7 1.0
CG A:GLU30 4.2 46.8 1.0
ND1 A:HIS16 4.4 43.2 1.0
CG A:HIS16 4.4 43.2 1.0
CG A:HIS34 4.5 52.3 1.0
ND1 A:HIS34 4.5 52.9 1.0
CB A:GLU30 4.9 43.2 1.0

Zinc binding site 2 out of 4 in 5zhv

Go back to Zinc Binding Sites List in 5zhv
Zinc binding site 2 out of 4 in the Crystal Structure of the Padr-Family Transcriptional Regulator RV3488 of Mycobacterium Tuberculosis H37RV in Complex with Zinc Ion


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Crystal Structure of the Padr-Family Transcriptional Regulator RV3488 of Mycobacterium Tuberculosis H37RV in Complex with Zinc Ion within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn202

b:96.4
occ:1.00
OE1 B:GLU94 2.0 59.4 1.0
OE2 B:GLU94 2.5 57.6 1.0
NE2 A:HIS12 2.5 37.8 1.0
CD B:GLU94 2.5 58.6 1.0
ND1 A:HIS34 2.7 52.9 1.0
CE1 A:HIS12 3.0 36.0 1.0
CG A:HIS34 3.2 52.3 1.0
CB A:HIS34 3.3 49.9 1.0
CD2 A:HIS12 3.6 36.1 1.0
CE1 A:HIS34 3.6 53.4 1.0
O A:HIS34 3.9 51.5 1.0
CG B:GLU94 3.9 58.0 1.0
CE2 A:TYR36 4.0 43.4 1.0
CA A:HIS34 4.1 50.1 1.0
ND1 A:HIS12 4.2 35.7 1.0
OH A:TYR36 4.2 42.9 1.0
CD2 A:HIS34 4.3 52.8 1.0
NE2 A:HIS34 4.5 52.8 1.0
CG A:HIS12 4.5 35.3 1.0
C A:HIS34 4.5 50.2 1.0
CZ A:TYR36 4.7 42.4 1.0
CB B:GLU94 4.9 56.9 1.0

Zinc binding site 3 out of 4 in 5zhv

Go back to Zinc Binding Sites List in 5zhv
Zinc binding site 3 out of 4 in the Crystal Structure of the Padr-Family Transcriptional Regulator RV3488 of Mycobacterium Tuberculosis H37RV in Complex with Zinc Ion


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Crystal Structure of the Padr-Family Transcriptional Regulator RV3488 of Mycobacterium Tuberculosis H37RV in Complex with Zinc Ion within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn203

b:99.5
occ:1.00
ND1 A:HIS15 2.0 42.7 1.0
CG A:HIS15 2.9 41.5 1.0
CE1 A:HIS15 2.9 44.7 1.0
CB A:HIS15 3.3 38.5 1.0
CG1 B:VAL95 3.3 59.4 1.0
CD2 A:HIS15 3.9 43.5 1.0
NE2 A:HIS15 4.0 45.1 1.0
NH1 A:ARG85 4.2 51.0 1.0
CB B:VAL95 4.4 57.5 1.0
CD2 A:HIS12 4.4 36.1 1.0
NE2 A:HIS12 4.6 37.8 1.0
CA A:HIS15 4.7 37.1 1.0
OE1 B:GLU94 4.9 59.4 1.0
CG A:HIS12 4.9 35.3 1.0

Zinc binding site 4 out of 4 in 5zhv

Go back to Zinc Binding Sites List in 5zhv
Zinc binding site 4 out of 4 in the Crystal Structure of the Padr-Family Transcriptional Regulator RV3488 of Mycobacterium Tuberculosis H37RV in Complex with Zinc Ion


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of Crystal Structure of the Padr-Family Transcriptional Regulator RV3488 of Mycobacterium Tuberculosis H37RV in Complex with Zinc Ion within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn201

b:42.0
occ:1.00
OE2 B:GLU30 1.9 29.8 1.0
NE2 B:HIS34 2.0 34.5 1.0
O B:HOH317 2.1 26.2 1.0
NE2 B:HIS16 2.1 35.9 1.0
CD2 B:HIS34 2.9 34.7 1.0
CE1 B:HIS16 3.0 34.6 1.0
CD B:GLU30 3.0 30.5 1.0
CE1 B:HIS34 3.0 34.6 1.0
CD2 B:HIS16 3.2 34.4 1.0
CG B:GLU30 3.5 29.9 1.0
O B:HOH309 3.8 37.6 1.0
OE1 B:GLU30 4.1 31.4 1.0
CG B:HIS34 4.1 34.4 1.0
ND1 B:HIS34 4.1 34.8 1.0
ND1 B:HIS16 4.2 33.9 1.0
CG B:HIS16 4.3 34.3 1.0
O B:GLU30 4.9 29.5 1.0
CB B:GLU30 4.9 29.6 1.0

Reference:

M.Kumari, R.K.Pal, A.K.Mishra, S.Tripathi, B.K.Biswal, K.K.Srivastava, A.Arora. Structural and Functional Characterization of the Transcriptional Regulator RV3488 Ofmycobacterium TUBERCULOSISH37RV. Biochem. J. V. 475 3393 2018.
ISSN: ESSN 1470-8728
PubMed: 30266832
DOI: 10.1042/BCJ20180356
Page generated: Wed Dec 16 11:26:50 2020

Last articles

Zn in 8PFC
Zn in 8SF0
Zn in 8SOJ
Zn in 8SOK
Zn in 8SYI
Zn in 8SLG
Zn in 8SEX
Zn in 8SEZ
Zn in 8SJG
Zn in 8SEY
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy