Atomistry » Manganese » PDB 1uvj-1vzx » 1vs1
Atomistry »
  Manganese »
    PDB 1uvj-1vzx »
      1vs1 »

Manganese in PDB 1vs1: Crystal Structure of 3-Deoxy-D-Arabino-Heptulosonate-7- Phosphate Synthase (Dahp Synthase) From Aeropyrum Pernix in Complex with MN2+ and Pep

Enzymatic activity of Crystal Structure of 3-Deoxy-D-Arabino-Heptulosonate-7- Phosphate Synthase (Dahp Synthase) From Aeropyrum Pernix in Complex with MN2+ and Pep

All present enzymatic activity of Crystal Structure of 3-Deoxy-D-Arabino-Heptulosonate-7- Phosphate Synthase (Dahp Synthase) From Aeropyrum Pernix in Complex with MN2+ and Pep:
2.5.1.54;

Protein crystallography data

The structure of Crystal Structure of 3-Deoxy-D-Arabino-Heptulosonate-7- Phosphate Synthase (Dahp Synthase) From Aeropyrum Pernix in Complex with MN2+ and Pep, PDB code: 1vs1 was solved by I.A.Shumilin, L.Zhou, J.Wu, R.W.Woodard, R.Bauerle, R.H.Kretsinger, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 20.00 / 2.30
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 54.768, 130.404, 78.362, 90.00, 110.61, 90.00
R / Rfree (%) 17.3 / 21.8

Manganese Binding Sites:

The binding sites of Manganese atom in the Crystal Structure of 3-Deoxy-D-Arabino-Heptulosonate-7- Phosphate Synthase (Dahp Synthase) From Aeropyrum Pernix in Complex with MN2+ and Pep (pdb code 1vs1). This binding sites where shown within 5.0 Angstroms radius around Manganese atom.
In total 4 binding sites of Manganese where determined in the Crystal Structure of 3-Deoxy-D-Arabino-Heptulosonate-7- Phosphate Synthase (Dahp Synthase) From Aeropyrum Pernix in Complex with MN2+ and Pep, PDB code: 1vs1:
Jump to Manganese binding site number: 1; 2; 3; 4;

Manganese binding site 1 out of 4 in 1vs1

Go back to Manganese Binding Sites List in 1vs1
Manganese binding site 1 out of 4 in the Crystal Structure of 3-Deoxy-D-Arabino-Heptulosonate-7- Phosphate Synthase (Dahp Synthase) From Aeropyrum Pernix in Complex with MN2+ and Pep


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 1 of Crystal Structure of 3-Deoxy-D-Arabino-Heptulosonate-7- Phosphate Synthase (Dahp Synthase) From Aeropyrum Pernix in Complex with MN2+ and Pep within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mn301

b:42.5
occ:1.00
 OE2 A:GLU242 2.1 49.3 1.0
O A:HOH313 2.3 42.6 1.0
OD1 A:ASP253 2.4 47.4 1.0
NE2 A:HIS216 2.4 50.0 1.0
SG A:CYS46 2.6 33.5 1.0
CD A:GLU242 3.0 31.5 1.0
OE1 A:GLU242 3.1 30.2 1.0
CE1 A:HIS216 3.2 41.1 1.0
O1 A:PEP302 3.3 45.2 1.0
CB A:CYS46 3.4 31.4 1.0
CD2 A:HIS216 3.5 31.5 1.0
CG A:ASP253 3.6 52.4 1.0
C1 A:PEP302 4.0 47.5 1.0
NE2 A:GLN256 4.0 39.2 1.0
CA A:CYS46 4.1 32.0 1.0
CB A:ASP253 4.2 50.0 1.0
ND1 A:HIS216 4.3 40.9 1.0
CG A:GLU242 4.4 33.7 1.0
NZ A:LYS75 4.4 37.8 1.0
C3 A:PEP302 4.4 37.5 1.0
NH2 A:ARG70 4.5 36.4 1.0
OD2 A:ASP253 4.5 45.1 1.0
CG A:HIS216 4.5 35.9 1.0
C2 A:PEP302 4.7 52.2 1.0
O2' A:PEP302 4.7 40.5 1.0
C A:CYS46 5.0 32.0 1.0

Manganese binding site 2 out of 4 in 1vs1

Go back to Manganese Binding Sites List in 1vs1
Manganese binding site 2 out of 4 in the Crystal Structure of 3-Deoxy-D-Arabino-Heptulosonate-7- Phosphate Synthase (Dahp Synthase) From Aeropyrum Pernix in Complex with MN2+ and Pep


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 2 of Crystal Structure of 3-Deoxy-D-Arabino-Heptulosonate-7- Phosphate Synthase (Dahp Synthase) From Aeropyrum Pernix in Complex with MN2+ and Pep within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mn301

b:49.1
occ:1.00
 OE2 B:GLU242 2.1 50.1 1.0
O B:HOH304 2.4 48.8 1.0
NE2 B:HIS216 2.5 48.5 1.0
OD1 B:ASP253 2.6 47.9 1.0
SG B:CYS46 2.7 34.9 1.0
CD B:GLU242 3.0 37.3 1.0
CB B:CYS46 3.3 30.0 1.0
OE1 B:GLU242 3.3 35.6 1.0
CE1 B:HIS216 3.4 37.3 1.0
O1 B:PEP303 3.5 44.4 1.0
CD2 B:HIS216 3.5 30.5 1.0
CG B:ASP253 3.7 56.9 1.0
CA B:CYS46 4.1 32.1 1.0
C1 B:PEP303 4.2 46.4 1.0
NE2 B:GLN256 4.2 39.5 1.0
CB B:ASP253 4.3 48.7 1.0
NZ B:LYS75 4.3 32.4 1.0
CG B:GLU242 4.4 30.2 1.0
ND1 B:HIS216 4.5 43.0 1.0
CG B:HIS216 4.6 35.7 1.0
OD2 B:ASP253 4.6 54.2 1.0
NH2 B:ARG70 4.8 33.9 1.0
O2' B:PEP303 4.8 39.0 1.0
C3 B:PEP303 4.8 33.2 1.0
C2 B:PEP303 4.9 47.0 1.0
C B:CYS46 4.9 32.2 1.0
CE B:LYS75 4.9 33.5 1.0
O2 B:PEP303 4.9 45.6 1.0

Manganese binding site 3 out of 4 in 1vs1

Go back to Manganese Binding Sites List in 1vs1
Manganese binding site 3 out of 4 in the Crystal Structure of 3-Deoxy-D-Arabino-Heptulosonate-7- Phosphate Synthase (Dahp Synthase) From Aeropyrum Pernix in Complex with MN2+ and Pep


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 3 of Crystal Structure of 3-Deoxy-D-Arabino-Heptulosonate-7- Phosphate Synthase (Dahp Synthase) From Aeropyrum Pernix in Complex with MN2+ and Pep within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Mn301

b:51.5
occ:1.00
 OE2 C:GLU242 2.0 50.0 1.0
O C:HOH340 2.2 69.8 1.0
NE2 C:HIS216 2.6 48.9 1.0
OD1 C:ASP253 2.6 55.0 1.0
SG C:CYS46 2.7 38.7 1.0
O1 C:PEP304 2.9 54.1 1.0
CD C:GLU242 3.2 36.2 1.0
CE1 C:HIS216 3.2 42.2 1.0
CB C:CYS46 3.4 30.1 1.0
CD2 C:HIS216 3.7 32.7 1.0
CG C:ASP253 3.7 56.0 1.0
OE1 C:GLU242 3.8 38.0 1.0
C1 C:PEP304 3.8 60.1 1.0
NZ C:LYS75 4.0 35.8 1.0
CA C:CYS46 4.1 32.1 1.0
CG C:GLU242 4.3 35.0 1.0
NE2 C:GLN256 4.3 41.2 1.0
ND1 C:HIS216 4.3 43.6 1.0
CB C:ASP253 4.4 49.6 1.0
O2' C:PEP304 4.5 41.3 1.0
OD2 C:ASP253 4.5 47.1 1.0
NH2 C:ARG70 4.5 29.3 1.0
CG C:HIS216 4.6 37.0 1.0
C2 C:PEP304 4.8 58.9 1.0
C3 C:PEP304 4.8 54.8 1.0
CE C:LYS75 4.8 38.8 1.0
C C:CYS46 4.8 32.5 1.0
NH1 C:ARG70 4.9 34.8 1.0
O C:CYS46 4.9 33.0 1.0

Manganese binding site 4 out of 4 in 1vs1

Go back to Manganese Binding Sites List in 1vs1
Manganese binding site 4 out of 4 in the Crystal Structure of 3-Deoxy-D-Arabino-Heptulosonate-7- Phosphate Synthase (Dahp Synthase) From Aeropyrum Pernix in Complex with MN2+ and Pep


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 4 of Crystal Structure of 3-Deoxy-D-Arabino-Heptulosonate-7- Phosphate Synthase (Dahp Synthase) From Aeropyrum Pernix in Complex with MN2+ and Pep within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Mn301

b:45.6
occ:1.00
 OE2 D:GLU242 1.9 44.3 1.0
OD2 D:ASP253 2.3 49.6 1.0
SG D:CYS46 2.5 34.0 1.0
O D:HOH306 2.6 63.9 1.0
NE2 D:HIS216 2.6 48.9 1.0
O1 D:PEP305 3.0 50.7 1.0
CD D:GLU242 3.0 36.4 1.0
CB D:CYS46 3.3 30.2 1.0
CE1 D:HIS216 3.3 36.7 1.0
CG D:ASP253 3.4 57.0 1.0
OE1 D:GLU242 3.5 36.6 1.0
CD2 D:HIS216 3.6 35.2 1.0
C1 D:PEP305 4.0 52.7 1.0
CA D:CYS46 4.1 31.9 1.0
CB D:ASP253 4.1 49.7 1.0
NE2 D:GLN256 4.1 43.4 1.0
CG D:GLU242 4.3 34.5 1.0
OD1 D:ASP253 4.3 56.9 1.0
NZ D:LYS75 4.4 31.1 1.0
NH2 D:ARG70 4.4 26.9 1.0
ND1 D:HIS216 4.4 41.1 1.0
C3 D:PEP305 4.5 40.8 1.0
CG D:HIS216 4.6 37.4 1.0
O2' D:PEP305 4.8 52.4 1.0
C2 D:PEP305 4.9 48.2 1.0
C D:CYS46 4.9 32.3 1.0

Reference:

I.A.Shumilin, L.Zhou, J.Wu, R.W.Woodard, R.Bauerle, R.H.Kretsinger. Crystal Structure of 3-Deoxy-D-Arabino-Heptulosonate-7-Phosphate Synthase (Dahp Synthase) From Aeropyrum Pernix in Complex with MN2+ and Pep To Be Published.
Page generated: Sat Oct 5 12:49:38 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