Atomistry » Strontium » PDB 2hdf-3i5a » 2spt
Atomistry »
  Strontium »
    PDB 2hdf-3i5a »
      2spt »

Strontium in PDB 2spt: Differences in the Metal Ion Structure Between Sr-and Ca-Prothrombin Fragment 1

Enzymatic activity of Differences in the Metal Ion Structure Between Sr-and Ca-Prothrombin Fragment 1

All present enzymatic activity of Differences in the Metal Ion Structure Between Sr-and Ca-Prothrombin Fragment 1:
3.4.21.5;

Protein crystallography data

The structure of Differences in the Metal Ion Structure Between Sr-and Ca-Prothrombin Fragment 1, PDB code: 2spt was solved by A.Tulinsky, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 7.00 / 2.50
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 39.690, 54.120, 131.170, 90.00, 90.00, 90.00
R / Rfree (%) n/a / n/a

Strontium Binding Sites:

The binding sites of Strontium atom in the Differences in the Metal Ion Structure Between Sr-and Ca-Prothrombin Fragment 1 (pdb code 2spt). This binding sites where shown within 5.0 Angstroms radius around Strontium atom.
In total 8 binding sites of Strontium where determined in the Differences in the Metal Ion Structure Between Sr-and Ca-Prothrombin Fragment 1, PDB code: 2spt:
Jump to Strontium binding site number: 1; 2; 3; 4; 5; 6; 7; 8;

Strontium binding site 1 out of 8 in 2spt

Go back to Strontium Binding Sites List in 2spt
Strontium binding site 1 out of 8 in the Differences in the Metal Ion Structure Between Sr-and Ca-Prothrombin Fragment 1


Mono view


Stereo pair view

A full contact list of Strontium with other atoms in the Sr binding site number 1 of Differences in the Metal Ion Structure Between Sr-and Ca-Prothrombin Fragment 1 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Sr171

b:35.2
occ:1.00
 OE11 A:CGU30 2.2 34.2 1.0
OE21 A:CGU30 2.6 36.4 1.0
OE12 A:CGU26 2.7 37.5 1.0
OE21 A:CGU26 2.7 36.9 1.0
CD1 A:CGU30 3.3 34.0 1.0
CD1 A:CGU26 3.5 37.2 1.0
CD2 A:CGU30 3.6 35.0 1.0
CD2 A:CGU26 3.7 37.6 1.0
CG A:CGU30 3.8 34.4 1.0
OE11 A:CGU26 4.2 37.8 1.0
CG A:CGU26 4.3 36.8 1.0
OE12 A:CGU30 4.4 33.5 1.0
OE22 A:CGU30 4.7 37.0 1.0
SR A:SR172 4.8 42.5 1.0
OE22 A:CGU26 4.8 39.2 1.0
O A:CGU26 4.9 32.1 1.0

Strontium binding site 2 out of 8 in 2spt

Go back to Strontium Binding Sites List in 2spt
Strontium binding site 2 out of 8 in the Differences in the Metal Ion Structure Between Sr-and Ca-Prothrombin Fragment 1


Mono view


Stereo pair view

A full contact list of Strontium with other atoms in the Sr binding site number 2 of Differences in the Metal Ion Structure Between Sr-and Ca-Prothrombin Fragment 1 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Sr172

b:42.5
occ:1.00
 OE21 A:CGU30 2.6 36.4 1.0
OE22 A:CGU30 2.7 37.0 1.0
OE12 A:CGU27 2.9 37.6 1.0
CD2 A:CGU30 3.1 35.0 1.0
OE12 A:CGU8 3.5 46.4 1.0
CD1 A:CGU8 3.6 46.0 1.0
OE11 A:CGU27 3.7 37.8 1.0
CD1 A:CGU27 3.7 36.3 1.0
O A:HOH191 3.8 43.5 1.0
OE11 A:CGU8 3.9 45.2 1.0
CG A:CGU8 4.1 45.7 1.0
SR A:SR173 4.2 41.4 1.0
CG A:CGU30 4.6 34.4 1.0
OE21 A:CGU26 4.6 36.9 1.0
ND2 A:ASN2 4.7 44.1 1.0
SR A:SR171 4.8 35.2 1.0
CB A:CGU8 4.8 44.0 1.0
O A:CGU26 4.9 32.1 1.0
OE12 A:CGU26 4.9 37.5 1.0
CD2 A:CGU26 4.9 37.6 1.0
OD1 A:ASN2 5.0 42.5 1.0

Strontium binding site 3 out of 8 in 2spt

Go back to Strontium Binding Sites List in 2spt
Strontium binding site 3 out of 8 in the Differences in the Metal Ion Structure Between Sr-and Ca-Prothrombin Fragment 1


Mono view


Stereo pair view

A full contact list of Strontium with other atoms in the Sr binding site number 3 of Differences in the Metal Ion Structure Between Sr-and Ca-Prothrombin Fragment 1 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Sr173

b:41.4
occ:1.00
 OE11 A:CGU17 2.7 40.1 1.0
OE22 A:CGU30 2.8 37.0 1.0
OE11 A:CGU27 3.0 37.8 1.0
CD1 A:CGU17 3.2 39.4 1.0
OE12 A:CGU17 3.2 39.8 1.0
OE11 A:CGU8 3.9 45.2 1.0
CD2 A:CGU30 4.0 35.0 1.0
CD1 A:CGU27 4.1 36.3 1.0
CB A:CGU30 4.1 33.5 1.0
SR A:SR174 4.1 43.6 1.0
SR A:SR172 4.2 42.5 1.0
CG A:CGU17 4.5 38.6 1.0
CA A:GLY12 4.6 33.7 1.0
CG A:CGU30 4.6 34.4 1.0
OE12 A:CGU27 4.7 37.6 1.0
OE21 A:CGU30 4.8 36.4 1.0
O A:CGU27 4.8 32.9 1.0
CD1 A:CGU8 4.8 46.0 1.0
CA A:CGU27 4.9 32.9 1.0
O A:ARG10 4.9 38.4 1.0
CD2 A:CGU17 5.0 39.6 1.0

Strontium binding site 4 out of 8 in 2spt

Go back to Strontium Binding Sites List in 2spt
Strontium binding site 4 out of 8 in the Differences in the Metal Ion Structure Between Sr-and Ca-Prothrombin Fragment 1


Mono view


Stereo pair view

A full contact list of Strontium with other atoms in the Sr binding site number 4 of Differences in the Metal Ion Structure Between Sr-and Ca-Prothrombin Fragment 1 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Sr174

b:43.6
occ:1.00
 OE21 A:CGU17 2.2 39.8 1.0
OE11 A:CGU27 2.7 37.8 1.0
OE22 A:CGU27 2.7 35.9 1.0
CD2 A:CGU17 2.8 39.6 1.0
OD1 A:ASN2 3.0 42.5 1.0
N A:ALA1 3.1 45.4 1.0
OE11 A:CGU7 3.2 41.1 1.0
OE11 A:CGU17 3.3 40.1 1.0
CG A:CGU17 3.4 38.6 1.0
N A:ASN2 3.4 45.2 1.0
CD1 A:CGU27 3.5 36.3 1.0
OE22 A:CGU17 3.6 40.7 1.0
CD1 A:CGU17 3.6 39.4 1.0
OE11 A:CGU8 3.6 45.2 1.0
CD1 A:CGU7 3.8 41.1 1.0
CD2 A:CGU27 3.9 34.5 1.0
CG A:ASN2 4.0 44.0 1.0
SR A:SR175 4.1 39.1 1.0
SR A:SR173 4.1 41.4 1.0
C A:ALA1 4.1 45.9 1.0
CA A:ALA1 4.2 45.6 1.0
CA A:ASN2 4.2 44.8 1.0
CG A:CGU27 4.2 35.1 1.0
O A:HOH181 4.2 20.9 0.7
OE12 A:CGU27 4.3 37.6 1.0
OE12 A:CGU7 4.4 39.2 1.0
CD1 A:CGU8 4.5 46.0 1.0
OE12 A:CGU8 4.6 46.4 1.0
OE12 A:CGU17 4.7 39.8 1.0
CG A:CGU7 4.7 41.8 1.0
CB A:ASN2 4.7 44.3 1.0
OE21 A:CGU27 4.8 33.8 1.0
CB A:CGU27 4.8 33.7 1.0
CB A:CGU17 4.8 36.0 1.0
ND2 A:ASN2 4.8 44.1 1.0

Strontium binding site 5 out of 8 in 2spt

Go back to Strontium Binding Sites List in 2spt
Strontium binding site 5 out of 8 in the Differences in the Metal Ion Structure Between Sr-and Ca-Prothrombin Fragment 1


Mono view


Stereo pair view

A full contact list of Strontium with other atoms in the Sr binding site number 5 of Differences in the Metal Ion Structure Between Sr-and Ca-Prothrombin Fragment 1 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Sr175

b:39.1
occ:1.00
 OE21 A:CGU17 2.6 39.8 1.0
OE11 A:CGU7 2.7 41.1 1.0
OE22 A:CGU21 2.7 37.7 1.0
OE12 A:CGU7 2.9 39.2 1.0
CD1 A:CGU7 3.1 41.1 1.0
N A:ALA1 3.1 45.4 1.0
OE21 A:CGU21 3.2 39.3 1.0
CD2 A:CGU21 3.4 37.6 1.0
CD2 A:CGU17 3.4 39.6 1.0
OE22 A:CGU17 3.5 40.7 1.0
N A:ASN2 3.9 45.2 1.0
CA A:ALA1 4.1 45.6 1.0
SR A:SR174 4.1 43.6 1.0
CB A:ALA1 4.1 45.4 1.0
C A:ALA1 4.4 45.9 1.0
O A:HOH181 4.5 20.9 0.7
N A:LYS3 4.6 44.9 1.0
CG A:CGU7 4.7 41.8 1.0
CG A:CGU21 4.8 37.4 1.0
CA A:ASN2 4.9 44.8 1.0
CG A:CGU17 4.9 38.6 1.0

Strontium binding site 6 out of 8 in 2spt

Go back to Strontium Binding Sites List in 2spt
Strontium binding site 6 out of 8 in the Differences in the Metal Ion Structure Between Sr-and Ca-Prothrombin Fragment 1


Mono view


Stereo pair view

A full contact list of Strontium with other atoms in the Sr binding site number 6 of Differences in the Metal Ion Structure Between Sr-and Ca-Prothrombin Fragment 1 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Sr176

b:37.4
occ:0.66
 OE21 A:CGU21 2.3 39.3 1.0
OE11 A:CGU21 2.9 37.9 1.0
OE12 A:CGU20 2.9 36.6 1.0
CD2 A:CGU21 3.3 37.6 1.0
CD1 A:CGU21 3.6 37.7 1.0
CG A:CGU21 3.8 37.4 1.0
CD1 A:CGU20 3.9 36.1 1.0
OE22 A:CGU21 4.4 37.7 1.0
OE11 A:CGU20 4.5 35.7 1.0
OE12 A:CGU21 4.6 38.1 1.0
CG A:CGU20 4.9 35.2 1.0
O A:ARG16 4.9 32.3 1.0

Strontium binding site 7 out of 8 in 2spt

Go back to Strontium Binding Sites List in 2spt
Strontium binding site 7 out of 8 in the Differences in the Metal Ion Structure Between Sr-and Ca-Prothrombin Fragment 1


Mono view


Stereo pair view

A full contact list of Strontium with other atoms in the Sr binding site number 7 of Differences in the Metal Ion Structure Between Sr-and Ca-Prothrombin Fragment 1 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Sr177

b:34.2
occ:0.63
 OE21 A:CGU20 2.4 34.5 1.0
OE22 A:CGU15 2.8 33.6 1.0
OE22 A:CGU20 3.1 33.8 1.0
CD2 A:CGU20 3.1 34.7 1.0
CD2 A:CGU15 3.7 33.8 1.0
OE21 A:CGU15 4.1 32.6 1.0
CG A:CGU20 4.6 35.2 1.0
NH1 A:ARG55 4.7 47.7 1.0
OE11 A:CGU20 4.7 35.7 1.0
CG A:CGU15 4.8 35.1 1.0
NH2 A:ARG55 4.9 48.1 1.0

Strontium binding site 8 out of 8 in 2spt

Go back to Strontium Binding Sites List in 2spt
Strontium binding site 8 out of 8 in the Differences in the Metal Ion Structure Between Sr-and Ca-Prothrombin Fragment 1


Mono view


Stereo pair view

A full contact list of Strontium with other atoms in the Sr binding site number 8 of Differences in the Metal Ion Structure Between Sr-and Ca-Prothrombin Fragment 1 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Sr178

b:33.8
occ:0.43
 O A:HOH199 2.2 25.1 0.9
OE12 A:CGU30 3.0 33.5 1.0
O A:CGU30 3.1 34.1 1.0
C A:CGU30 3.9 33.6 1.0
CA A:CGU30 4.0 33.3 1.0
CB A:CGU30 4.2 33.5 1.0
CD1 A:CGU30 4.2 34.0 1.0
CG A:CGU30 4.9 34.4 1.0
N A:GLY12 5.0 35.2 1.0

Reference:

T.P.Seshadri, E.Skrzypczak-Jankun, M.Yin, A.Tulinsky. Differences in the Metal Ion Structure Between Sr- and Ca-Prothrombin Fragment 1. Biochemistry V. 33 1087 1994.
ISSN: ISSN 0006-2960
PubMed: 8110739
DOI: 10.1021/BI00171A006
Page generated: Thu Oct 10 21:27:15 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