Atomistry » Iodine » PDB 2nqx-2qpy » 2qpk
Atomistry »
  Iodine »
    PDB 2nqx-2qpy »
      2qpk »

Iodine in PDB 2qpk: Crystal Structure of the Complex of Bovine Lactoperoxidase with Salicylhydroxamic Acid at 2.34 A Resolution

Enzymatic activity of Crystal Structure of the Complex of Bovine Lactoperoxidase with Salicylhydroxamic Acid at 2.34 A Resolution

All present enzymatic activity of Crystal Structure of the Complex of Bovine Lactoperoxidase with Salicylhydroxamic Acid at 2.34 A Resolution:
1.11.1.7;

Protein crystallography data

The structure of Crystal Structure of the Complex of Bovine Lactoperoxidase with Salicylhydroxamic Acid at 2.34 A Resolution, PDB code: 2qpk was solved by A.K.Singh, N.Singh, S.Sharma, P.Kaur, T.P.Singh, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 20.00 / 2.34
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 54.618, 80.553, 77.803, 90.00, 102.56, 90.00
R / Rfree (%) 17.2 / 22

Other elements in 2qpk:

The structure of Crystal Structure of the Complex of Bovine Lactoperoxidase with Salicylhydroxamic Acid at 2.34 A Resolution also contains other interesting chemical elements:

Iron (Fe) 1 atom
Calcium (Ca) 1 atom

Iodine Binding Sites:

The binding sites of Iodine atom in the Crystal Structure of the Complex of Bovine Lactoperoxidase with Salicylhydroxamic Acid at 2.34 A Resolution (pdb code 2qpk). This binding sites where shown within 5.0 Angstroms radius around Iodine atom.
In total 8 binding sites of Iodine where determined in the Crystal Structure of the Complex of Bovine Lactoperoxidase with Salicylhydroxamic Acid at 2.34 A Resolution, PDB code: 2qpk:
Jump to Iodine binding site number: 1; 2; 3; 4; 5; 6; 7; 8;

Iodine binding site 1 out of 8 in 2qpk

Go back to Iodine Binding Sites List in 2qpk
Iodine binding site 1 out of 8 in the Crystal Structure of the Complex of Bovine Lactoperoxidase with Salicylhydroxamic Acid at 2.34 A Resolution


Mono view


Stereo pair view

A full contact list of Iodine with other atoms in the I binding site number 1 of Crystal Structure of the Complex of Bovine Lactoperoxidase with Salicylhydroxamic Acid at 2.34 A Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
A:I607

b:24.6
occ:1.00
 O A:HOH736 3.4 22.7 1.0
N A:TRP46 3.5 22.5 1.0
N A:VAL342 3.5 20.4 1.0
CH2 A:TRP452 3.7 18.9 1.0
CB A:ASN341 3.8 21.5 1.0
CB A:VAL342 3.9 20.7 1.0
CA A:ARG45 3.9 21.8 1.0
CG1 A:VAL342 3.9 19.1 1.0
CZ2 A:TRP452 4.0 19.2 1.0
N A:ASN341 4.0 20.0 1.0
O A:ALA44 4.1 20.6 1.0
CE A:MET446 4.1 16.9 1.0
C A:ARG45 4.2 22.4 1.0
N A:LEU47 4.2 20.5 1.0
CD A:ARG45 4.2 21.9 1.0
CA A:ASN341 4.3 21.2 1.0
CA A:VAL342 4.3 19.9 1.0
CB A:TRP46 4.3 20.9 1.0
C A:ASN341 4.3 20.8 1.0
O A:LEU47 4.4 22.6 1.0
CA A:TRP46 4.4 20.8 1.0
CB A:SER340 4.6 17.6 1.0
CB A:ARG45 4.7 21.7 1.0
SD A:MET446 4.8 24.5 1.0
C A:TRP46 4.8 21.3 1.0
N A:ARG45 4.9 21.1 1.0
C A:SER340 4.9 19.6 1.0
C A:ALA44 4.9 20.6 1.0
OG A:SER340 4.9 15.2 1.0
CG A:TRP46 4.9 19.9 1.0
CG A:ARG45 4.9 22.3 1.0
CZ3 A:TRP452 4.9 18.8 1.0
NH1 A:ARG45 5.0 21.7 1.0

Iodine binding site 2 out of 8 in 2qpk

Go back to Iodine Binding Sites List in 2qpk
Iodine binding site 2 out of 8 in the Crystal Structure of the Complex of Bovine Lactoperoxidase with Salicylhydroxamic Acid at 2.34 A Resolution


Mono view


Stereo pair view

A full contact list of Iodine with other atoms in the I binding site number 2 of Crystal Structure of the Complex of Bovine Lactoperoxidase with Salicylhydroxamic Acid at 2.34 A Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
A:I608

b:78.7
occ:1.00
 ND2 A:ASN80 3.4 18.4 1.0
O A:HOH896 3.8 50.4 1.0
CB A:PRO145 3.9 32.7 1.0
CB A:ASN80 3.9 23.9 1.0
CG A:PRO145 4.2 31.1 1.0
O A:LYS146 4.2 44.6 1.0
CG A:ASN80 4.2 25.8 1.0
CG A:GLU77 4.2 33.0 1.0
CE A:LYS81 4.6 39.2 1.0
CG A:LYS81 4.8 30.2 1.0
CA A:GLU77 4.9 26.4 1.0
NZ A:LYS81 4.9 41.3 1.0

Iodine binding site 3 out of 8 in 2qpk

Go back to Iodine Binding Sites List in 2qpk
Iodine binding site 3 out of 8 in the Crystal Structure of the Complex of Bovine Lactoperoxidase with Salicylhydroxamic Acid at 2.34 A Resolution


Mono view


Stereo pair view

A full contact list of Iodine with other atoms in the I binding site number 3 of Crystal Structure of the Complex of Bovine Lactoperoxidase with Salicylhydroxamic Acid at 2.34 A Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
A:I609

b:58.6
occ:0.50
 NH1 A:ARG504 3.4 64.1 1.0
NH1 A:ARG96 3.7 25.5 1.0
ND2 A:ASN95 3.8 46.6 1.0
NH2 A:ARG96 3.8 26.5 1.0
CD A:ARG504 4.0 55.7 1.0
O5 A:NAG701 4.2 62.6 1.0
CZ A:ARG96 4.2 26.8 1.0
CA A:ARG504 4.4 35.9 1.0
NH1 A:ARG506 4.5 26.2 1.0
CZ A:ARG504 4.5 65.0 1.0
C1 A:NAG701 4.5 58.8 1.0
O A:ARG504 4.5 34.1 1.0
NH2 A:ARG506 4.5 31.0 1.0
C2 A:NAG701 4.6 65.1 1.0
C A:ARG504 4.7 34.3 1.0
NE A:ARG504 4.7 62.3 1.0
O7 A:NAG701 4.8 65.7 1.0
CZ A:ARG506 4.9 26.9 1.0
CG A:ASN95 4.9 38.8 1.0
O6 A:NAG701 4.9 68.9 1.0
CB A:ASN95 5.0 32.8 1.0

Iodine binding site 4 out of 8 in 2qpk

Go back to Iodine Binding Sites List in 2qpk
Iodine binding site 4 out of 8 in the Crystal Structure of the Complex of Bovine Lactoperoxidase with Salicylhydroxamic Acid at 2.34 A Resolution


Mono view


Stereo pair view

A full contact list of Iodine with other atoms in the I binding site number 4 of Crystal Structure of the Complex of Bovine Lactoperoxidase with Salicylhydroxamic Acid at 2.34 A Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
A:I610

b:64.7
occ:1.00
 N A:PHE229 3.7 38.0 1.0
N A:GLN217 3.9 40.0 1.0
OD1 A:ASN216 4.0 41.6 1.0
O A:HOH898 4.0 39.6 1.0
CG A:ASN216 4.1 38.6 1.0
CA A:PRO228 4.1 35.8 1.0
CA A:ASN216 4.2 37.0 1.0
ND2 A:ASN216 4.2 36.4 1.0
CB A:PRO228 4.3 36.1 1.0
OE2 A:GLU218 4.3 60.2 1.0
CG A:GLU218 4.3 52.4 1.0
CD2 A:PHE229 4.4 40.7 1.0
C A:PRO228 4.4 36.4 1.0
CB A:PHE229 4.5 39.4 1.0
C A:ASN216 4.6 38.3 1.0
CA A:PHE229 4.6 40.0 1.0
CB A:ASN216 4.7 36.2 1.0
CG A:PHE229 4.8 40.2 1.0
CB A:GLN217 4.8 43.0 1.0
N A:GLU218 4.8 44.1 1.0
O A:PHE229 4.8 42.2 1.0
CD A:GLU218 4.8 58.1 1.0
O A:VAL215 4.8 34.1 1.0
CA A:GLN217 4.9 42.4 1.0

Iodine binding site 5 out of 8 in 2qpk

Go back to Iodine Binding Sites List in 2qpk
Iodine binding site 5 out of 8 in the Crystal Structure of the Complex of Bovine Lactoperoxidase with Salicylhydroxamic Acid at 2.34 A Resolution


Mono view


Stereo pair view

A full contact list of Iodine with other atoms in the I binding site number 5 of Crystal Structure of the Complex of Bovine Lactoperoxidase with Salicylhydroxamic Acid at 2.34 A Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
A:I611

b:79.8
occ:1.00
 O A:HOH830 3.6 31.7 1.0
CB A:PHE309 3.9 23.4 1.0
NE1 A:TRP530 3.9 32.2 1.0
CZ2 A:TRP530 3.9 34.5 1.0
CE2 A:TRP530 4.3 31.3 1.0
N A:ARG310 4.3 26.1 1.0
OE1 A:GLU531 4.3 42.9 1.0
C A:PHE309 4.4 26.1 1.0
CB A:ARG310 4.5 27.9 1.0
CD A:GLU531 4.6 44.5 1.0
CZ2 A:TRP529 4.7 28.2 1.0
OE2 A:GLU531 4.7 46.0 1.0
O A:ILE306 4.7 26.4 1.0
CA A:ARG310 4.7 27.3 1.0
CA A:ILE306 4.7 24.9 1.0
CA A:PHE309 4.7 24.6 1.0
O A:PHE309 4.9 26.2 1.0
CG A:PHE309 5.0 23.9 1.0

Iodine binding site 6 out of 8 in 2qpk

Go back to Iodine Binding Sites List in 2qpk
Iodine binding site 6 out of 8 in the Crystal Structure of the Complex of Bovine Lactoperoxidase with Salicylhydroxamic Acid at 2.34 A Resolution


Mono view


Stereo pair view

A full contact list of Iodine with other atoms in the I binding site number 6 of Crystal Structure of the Complex of Bovine Lactoperoxidase with Salicylhydroxamic Acid at 2.34 A Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
A:I612

b:62.2
occ:1.00
 O A:GLU363 3.5 48.0 1.0
NE A:ARG397 3.5 32.6 1.0
N A:THR560 3.8 38.5 1.0
NH2 A:ARG397 3.9 37.6 1.0
CG2 A:ILE559 4.0 35.2 1.0
CE2 A:TYR365 4.1 42.0 1.0
CA A:ILE559 4.2 38.1 1.0
CZ A:ARG397 4.2 33.9 1.0
CA A:GLU363 4.2 46.9 1.0
C A:GLU363 4.2 47.3 1.0
OG1 A:THR560 4.3 41.3 1.0
CG A:LYS561 4.3 43.5 1.0
N A:LYS561 4.3 39.1 1.0
CD A:ARG397 4.4 29.4 1.0
C A:ILE559 4.5 38.2 1.0
CB A:GLU363 4.5 47.4 1.0
CB A:ILE559 4.6 37.4 1.0
CD2 A:TYR365 4.7 42.3 1.0
CB A:LYS561 4.8 40.2 1.0
CA A:THR560 4.9 39.3 1.0
O A:HIS558 4.9 42.0 1.0
CG1 A:ILE559 4.9 36.9 1.0
CZ A:TYR365 4.9 42.0 1.0
OH A:TYR365 5.0 40.1 1.0

Iodine binding site 7 out of 8 in 2qpk

Go back to Iodine Binding Sites List in 2qpk
Iodine binding site 7 out of 8 in the Crystal Structure of the Complex of Bovine Lactoperoxidase with Salicylhydroxamic Acid at 2.34 A Resolution


Mono view


Stereo pair view

A full contact list of Iodine with other atoms in the I binding site number 7 of Crystal Structure of the Complex of Bovine Lactoperoxidase with Salicylhydroxamic Acid at 2.34 A Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
A:I613

b:55.4
occ:1.00
 OG1 A:THR463 3.5 34.5 1.0
N A:LYS462 3.5 31.8 1.0
N A:THR463 3.9 33.8 1.0
O A:HOH987 3.9 51.6 1.0
CA A:GLY466 4.0 30.0 1.0
CG2 A:THR463 4.2 32.0 1.0
CB A:LYS462 4.2 34.4 1.0
CA A:PRO461 4.3 30.4 1.0
CA A:LYS462 4.3 33.4 1.0
CB A:THR463 4.4 33.4 1.0
C A:PRO461 4.4 30.7 1.0
N A:GLY466 4.5 33.4 1.0
C A:LYS462 4.6 33.2 1.0
CA A:THR463 4.7 33.5 1.0
CG A:LYS462 4.8 39.0 1.0

Iodine binding site 8 out of 8 in 2qpk

Go back to Iodine Binding Sites List in 2qpk
Iodine binding site 8 out of 8 in the Crystal Structure of the Complex of Bovine Lactoperoxidase with Salicylhydroxamic Acid at 2.34 A Resolution


Mono view


Stereo pair view

A full contact list of Iodine with other atoms in the I binding site number 8 of Crystal Structure of the Complex of Bovine Lactoperoxidase with Salicylhydroxamic Acid at 2.34 A Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
A:I614

b:72.7
occ:0.50
 O A:HOH845 3.3 31.6 1.0
N A:PHE567 3.4 30.5 1.0
CB A:PHE567 3.5 30.8 1.0
CB A:HIS565 3.5 36.5 1.0
CD2 A:PHE567 3.6 32.2 1.0
C A:HIS565 3.6 34.6 1.0
CA A:HIS565 3.6 35.9 1.0
N A:ALA566 3.9 32.4 1.0
CA A:PHE567 3.9 31.5 1.0
O A:HIS565 4.0 34.2 1.0
CG A:PHE567 4.0 30.9 1.0
N A:GLN568 4.2 32.5 1.0
C A:ALA566 4.5 30.7 1.0
C A:PHE567 4.5 31.8 1.0
CG A:HIS565 4.6 40.9 1.0
CB A:ASP311 4.6 26.4 1.0
ND1 A:HIS565 4.6 44.7 1.0
CA A:ALA566 4.7 30.7 1.0
CE2 A:PHE567 4.7 33.4 1.0
O A:HOH716 4.7 35.7 1.0
CG A:ASP311 5.0 28.2 1.0
CG A:GLN568 5.0 38.0 1.0
O A:ASP311 5.0 27.3 1.0

Reference:

P.K.Singh, H.V.Sirohi, N.Iqbal, P.Tiwari, P.Kaur, S.Sharma, T.P.Singh. Structure of Bovine Lactoperoxidase with A Partially Linked Heme Moiety at 1.98 Angstrom Resolution. Biochim.Biophys.Acta V.1865 329 2017.
ISSN: ISSN 0006-3002
PubMed: 27986533
DOI: 10.1016/J.BBAPAP.2016.12.006
Page generated: Sun Aug 11 14:20:39 2024

Last articles

Zn in 9JPJ
Zn in 9JP7
Zn in 9JPK
Zn in 9JPL
Zn in 9GN6
Zn in 9GN7
Zn in 9GKU
Zn in 9GKW
Zn in 9GKX
Zn in 9GL0
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy