Phosphorus in PDB 1a2u: Staphylococcal Nuclease, V23C Variant, Complex with 1-N-Butane Thiol and 3',5'-Thymidine Diphosphate

Enzymatic activity of Staphylococcal Nuclease, V23C Variant, Complex with 1-N-Butane Thiol and 3',5'-Thymidine Diphosphate

All present enzymatic activity of Staphylococcal Nuclease, V23C Variant, Complex with 1-N-Butane Thiol and 3',5'-Thymidine Diphosphate:
3.1.31.1;

Protein crystallography data

The structure of Staphylococcal Nuclease, V23C Variant, Complex with 1-N-Butane Thiol and 3',5'-Thymidine Diphosphate, PDB code: 1a2u was solved by R.Wynn, P.C.Harkins, F.M.Richards, R.O.Fox, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 6.00 / 2.00
Space group P 41
Cell size a, b, c (Å), α, β, γ (°) 48.500, 48.500, 63.100, 90.00, 90.00, 90.00
R / Rfree (%) 17.4 / n/a

Phosphorus Binding Sites:

The binding sites of Phosphorus atom in the Staphylococcal Nuclease, V23C Variant, Complex with 1-N-Butane Thiol and 3',5'-Thymidine Diphosphate (pdb code 1a2u). This binding sites where shown within 5.0 Angstroms radius around Phosphorus atom.
In total 2 binding sites of Phosphorus where determined in the Staphylococcal Nuclease, V23C Variant, Complex with 1-N-Butane Thiol and 3',5'-Thymidine Diphosphate, PDB code: 1a2u:
Jump to Phosphorus binding site number: 1; 2;

Phosphorus binding site 1 out of 2 in 1a2u

Go back to Phosphorus Binding Sites List in 1a2u
Phosphorus binding site 1 out of 2 in the Staphylococcal Nuclease, V23C Variant, Complex with 1-N-Butane Thiol and 3',5'-Thymidine Diphosphate


Mono view


Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 1 of Staphylococcal Nuclease, V23C Variant, Complex with 1-N-Butane Thiol and 3',5'-Thymidine Diphosphate within 5.0Å range:
probe atom residue distance (Å) B Occ
A:P151

b:33.9
occ:1.00
P2 A:THP151 0.0 33.9 1.0
O6P A:THP151 1.4 36.5 1.0
O4P A:THP151 1.5 38.2 1.0
O5P A:THP151 1.5 29.7 1.0
O5' A:THP151 1.6 36.3 1.0
H2 A:HOH212 2.6 0.0 1.0
HE A:ARG35 2.6 0.0 1.0
C5' A:THP151 2.7 37.0 1.0
H2 A:HOH216 2.8 0.0 1.0
HH21 A:ARG35 2.9 0.0 1.0
HH22 A:ARG87 3.1 0.0 1.0
O A:HOH212 3.1 31.9 1.0
HH12 A:ARG87 3.1 0.0 1.0
H1 A:HOH212 3.2 0.0 1.0
H2 A:HOH243 3.4 0.0 1.0
O A:HOH216 3.5 49.3 1.0
NE A:ARG35 3.5 29.9 1.0
NH2 A:ARG35 3.8 31.6 1.0
C4' A:THP151 3.8 37.0 1.0
CA A:CA150 3.8 39.6 1.0
O A:HOH243 3.9 70.6 1.0
NH2 A:ARG87 4.0 24.4 1.0
NH1 A:ARG87 4.0 22.7 1.0
CZ A:ARG35 4.1 31.5 1.0
H1 A:HOH216 4.2 0.0 1.0
OD1 A:ASP40 4.4 36.7 1.0
O4' A:THP151 4.4 38.0 1.0
CZ A:ARG87 4.5 25.0 1.0
CD A:ARG35 4.6 24.7 1.0
HH22 A:ARG35 4.6 0.0 1.0
H1 A:HOH243 4.6 0.0 1.0
OH A:TYR113 4.7 32.4 1.0
OD2 A:ASP21 4.8 30.4 1.0
HH21 A:ARG87 4.8 0.0 1.0
HH11 A:ARG87 4.8 0.0 1.0
CE2 A:TYR113 5.0 30.6 1.0

Phosphorus binding site 2 out of 2 in 1a2u

Go back to Phosphorus Binding Sites List in 1a2u
Phosphorus binding site 2 out of 2 in the Staphylococcal Nuclease, V23C Variant, Complex with 1-N-Butane Thiol and 3',5'-Thymidine Diphosphate


Mono view


Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 2 of Staphylococcal Nuclease, V23C Variant, Complex with 1-N-Butane Thiol and 3',5'-Thymidine Diphosphate within 5.0Å range:
probe atom residue distance (Å) B Occ
A:P151

b:41.3
occ:1.00
P1 A:THP151 0.0 41.3 1.0
O2P A:THP151 1.5 42.0 1.0
O1P A:THP151 1.5 51.5 1.0
O3P A:THP151 1.5 52.4 1.0
O3' A:THP151 1.7 44.4 1.0
HZ3 A:LYS84 2.3 0.0 1.0
HH A:TYR85 2.7 0.0 1.0
C3' A:THP151 2.7 36.1 1.0
NZ A:LYS84 3.2 57.1 1.0
HZ2 A:LYS84 3.3 0.0 1.0
C4' A:THP151 3.4 37.0 1.0
HZ1 A:LYS84 3.6 0.0 1.0
OH A:TYR85 3.6 36.1 1.0
C2' A:THP151 4.0 29.2 1.0
CE A:LYS84 4.3 44.9 1.0
O4' A:THP151 4.3 38.0 1.0
CE2 A:TYR85 4.4 33.0 1.0
CZ A:TYR85 4.5 35.9 1.0
C5' A:THP151 4.5 37.0 1.0
C1' A:THP151 4.6 35.8 1.0

Reference:

R.Wynn, P.C.Harkins, F.M.Richards, R.O.Fox. Mobile Unnatural Amino Acid Side Chains in the Core of Staphylococcal Nuclease. Protein Sci. V. 5 1026 1996.
ISSN: ISSN 0961-8368
PubMed: 8762134
Page generated: Fri Sep 25 12:04:20 2020

Last articles

Zn in 7M6U
Zn in 7NNG
Zn in 7NEE
Zn in 7NEU
Zn in 7M3K
Zn in 7KWD
Zn in 7KYH
Zn in 7KNG
Zn in 7KY2
Zn in 7KYF
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy