Atomistry » Calcium » PDB 1zf0-2a2z » 244d
Atomistry »
  Calcium »
    PDB 1zf0-2a2z »
      244d »

Calcium in PDB 244d: The High-Resolution Crystal Structure of A Parallel- Stranded Guanine Tetraplex

Protein crystallography data

The structure of The High-Resolution Crystal Structure of A Parallel- Stranded Guanine Tetraplex, PDB code: 244d was solved by G.Laughlan, A.I.H.Murchie, D.G.Norman, M.H.Moore, P.C.E.Moody, D.M.J.Lilley, B.Luisi, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 8.00 / 1.20
Space group P 1
Cell size a, b, c (Å), α, β, γ (°) 28.760, 35.470, 56.770, 74.39, 77.64, 89.73
R / Rfree (%) 12.4 / 17.6

Other elements in 244d:

The structure of The High-Resolution Crystal Structure of A Parallel- Stranded Guanine Tetraplex also contains other interesting chemical elements:

Sodium (Na) 14 atoms

Calcium Binding Sites:

The binding sites of Calcium atom in the The High-Resolution Crystal Structure of A Parallel- Stranded Guanine Tetraplex (pdb code 244d). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 9 binding sites of Calcium where determined in the The High-Resolution Crystal Structure of A Parallel- Stranded Guanine Tetraplex, PDB code: 244d:
Jump to Calcium binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9;

Calcium binding site 1 out of 9 in 244d

Go back to Calcium Binding Sites List in 244d
Calcium binding site 1 out of 9 in the The High-Resolution Crystal Structure of A Parallel- Stranded Guanine Tetraplex


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of The High-Resolution Crystal Structure of A Parallel- Stranded Guanine Tetraplex within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca177

b:8.4
occ:1.00
 O D:HOH420 2.4 23.2 1.0
O A:HOH182 2.4 8.1 1.0
O D:HOH321 2.4 21.1 1.0
O D:HOH196 2.4 8.7 1.0
O D:HOH300 2.4 19.1 1.0
O D:HOH339 2.4 22.0 1.0
O D:HOH186 2.5 8.6 1.0
O G:HOH185 2.5 9.3 1.0
OP2 D:DG32 4.3 9.6 1.0
OP1 D:DG32 4.4 8.9 1.0
O F:HOH235 4.4 11.0 1.0
N2 A:DG2 4.5 5.8 1.0
N2 G:DG62 4.5 7.3 1.0
O F:HOH600 4.5 37.3 1.0
O4' A:DG3 4.5 7.7 1.0
O F:HOH357 4.6 28.7 1.0
O4' G:DG63 4.6 10.2 1.0
O D:HOH595 4.7 35.7 1.0
O D:HOH303 4.8 26.2 1.0
O D:HOH341 4.8 27.9 1.0
P D:DG32 4.9 7.8 1.0
N3 A:DG2 4.9 5.4 1.0
N3 G:DG62 4.9 7.0 1.0
C4' A:DG3 4.9 7.8 1.0
O G:HOH302 4.9 23.2 1.0

Calcium binding site 2 out of 9 in 244d

Go back to Calcium Binding Sites List in 244d
Calcium binding site 2 out of 9 in the The High-Resolution Crystal Structure of A Parallel- Stranded Guanine Tetraplex


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of The High-Resolution Crystal Structure of A Parallel- Stranded Guanine Tetraplex within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca179

b:11.1
occ:1.00
 O D:HOH292 2.4 17.1 1.0
O D:HOH233 2.4 16.1 1.0
O D:HOH227 2.4 13.1 1.0
O D:HOH276 2.5 16.7 1.0
O A:HOH323 2.5 16.6 1.0
O D:HOH298 2.5 16.9 1.0
O D:HOH231 2.5 12.5 1.0
OP2 D:DG34 4.4 13.6 1.0
O3' A:DG5 4.5 10.8 1.0
OP1 D:DG33 4.5 11.0 1.0
C4' A:DG5 4.5 10.0 1.0
O D:HOH248 4.7 13.9 1.0
OP1 A:DT6 4.8 14.5 1.0
OP2 D:DG33 4.8 10.4 1.0
O D:HOH512 4.9 38.4 1.0

Calcium binding site 3 out of 9 in 244d

Go back to Calcium Binding Sites List in 244d
Calcium binding site 3 out of 9 in the The High-Resolution Crystal Structure of A Parallel- Stranded Guanine Tetraplex


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 3 of The High-Resolution Crystal Structure of A Parallel- Stranded Guanine Tetraplex within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Ca178

b:7.1
occ:1.00
 O A:HOH180 2.4 8.3 1.0
O B:HOH193 2.4 7.6 1.0
O A:HOH266 2.4 14.7 1.0
O E:HOH220 2.4 10.3 1.0
O I:HOH218 2.4 12.2 1.0
O F:HOH183 2.5 7.5 1.0
O A:HOH181 2.5 7.5 1.0
O B:HOH210 4.3 12.4 1.0
OP2 A:DG2 4.3 10.5 1.0
N2 F:DG52 4.4 6.4 1.0
N2 B:DG12 4.5 6.8 1.0
O A:HOH279 4.5 22.6 1.0
O I:HOH224 4.5 12.8 1.0
OP1 A:DG2 4.5 9.9 1.0
O A:HOH254 4.6 17.7 1.0
O4' B:DG13 4.6 8.4 1.0
O E:HOH230 4.6 12.0 1.0
O4' F:DG53 4.6 8.0 1.0
C4' B:DG13 4.8 9.4 1.0
N3 F:DG52 4.9 5.9 1.0
O5' E:DT41 4.9 11.6 1.0
O E:HOH386 4.9 23.0 1.0
N3 B:DG12 4.9 5.6 1.0
C5' B:DG13 4.9 10.3 1.0
P A:DG2 5.0 9.2 1.0
O I:HOH282 5.0 17.5 1.0

Calcium binding site 4 out of 9 in 244d

Go back to Calcium Binding Sites List in 244d
Calcium binding site 4 out of 9 in the The High-Resolution Crystal Structure of A Parallel- Stranded Guanine Tetraplex


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 4 of The High-Resolution Crystal Structure of A Parallel- Stranded Guanine Tetraplex within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Ca176

b:9.2
occ:1.00
 O C:HOH191 2.4 10.2 1.0
O B:HOH428 2.4 21.5 1.0
O B:HOH215 2.4 9.4 1.0
O B:HOH356 2.4 27.8 1.0
O B:HOH400 2.4 22.0 1.0
O E:HOH197 2.5 9.7 1.0
O B:HOH187 2.5 8.9 1.0
O E:HOH382 2.6 29.0 1.0
N2 E:DG42 4.4 8.2 1.0
OP2 B:DG12 4.4 9.9 1.0
N2 C:DG22 4.5 5.7 1.0
O C:HOH273 4.5 14.8 1.0
OP1 B:DG12 4.5 9.7 1.0
O4' C:DG23 4.5 9.6 1.0
O4' E:DG43 4.5 9.9 1.0
O B:HOH435 4.6 42.6 1.0
O B:HOH283 4.6 21.6 1.0
O B:HOH344 4.7 19.3 1.0
C4' C:DG23 4.8 10.6 1.0
N3 E:DG42 4.9 6.5 1.0
O E:HOH295 4.9 24.9 1.0
N3 C:DG22 4.9 5.5 1.0
P B:DG12 4.9 9.1 1.0

Calcium binding site 5 out of 9 in 244d

Go back to Calcium Binding Sites List in 244d
Calcium binding site 5 out of 9 in the The High-Resolution Crystal Structure of A Parallel- Stranded Guanine Tetraplex


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 5 of The High-Resolution Crystal Structure of A Parallel- Stranded Guanine Tetraplex within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Ca175

b:9.5
occ:1.00
 O D:HOH256 2.4 11.5 1.0
O C:HOH507 2.4 19.2 1.0
O C:HOH190 2.4 10.7 1.0
O C:HOH234 2.4 17.7 1.0
O H:HOH232 2.5 10.7 1.0
O D:HOH222 2.5 10.4 1.0
OP2 C:DG22 4.3 12.2 1.0
O D:HOH239 4.4 13.4 1.0
N2 D:DG32 4.4 7.6 1.0
N2 H:DG72 4.4 8.1 1.0
O4' D:DG33 4.5 9.8 1.0
OP1 C:DG22 4.6 13.9 1.0
O C:HOH473 4.6 31.5 1.0
O4' H:DG73 4.8 13.0 1.0
N3 D:DG32 4.8 5.6 1.0
N3 H:DG72 4.9 7.6 1.0
O H:HOH330 4.9 33.2 1.0
P C:DG22 4.9 11.3 1.0
C4' D:DG33 5.0 9.9 1.0

Calcium binding site 6 out of 9 in 244d

Go back to Calcium Binding Sites List in 244d
Calcium binding site 6 out of 9 in the The High-Resolution Crystal Structure of A Parallel- Stranded Guanine Tetraplex


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 6 of The High-Resolution Crystal Structure of A Parallel- Stranded Guanine Tetraplex within 5.0Å range:
probe atom residue distance (Å) B Occ
L:Ca174

b:7.8
occ:1.00
 O L:HOH261 2.4 12.4 1.0
O O:HOH229 2.4 10.1 1.0
O N:HOH201 2.4 8.2 1.0
O L:HOH244 2.4 13.3 1.0
O N:HOH207 2.5 7.7 1.0
O L:HOH228 2.5 9.5 1.0
OP2 N:DG132 4.3 10.2 1.0
N2 L:DG112 4.4 7.2 1.0
O O:HOH255 4.4 14.7 1.0
N2 O:DG142 4.4 7.1 1.0
O L:HOH290 4.4 21.0 1.0
OP1 N:DG132 4.5 12.0 1.0
O4' O:DG143 4.7 8.2 1.0
O4' L:DG113 4.8 11.1 1.0
O L:HOH296 4.8 25.4 1.0
N3 O:DG142 4.8 6.3 1.0
O L:HOH360 4.8 29.7 1.0
N3 L:DG112 4.9 6.0 1.0
P N:DG132 4.9 9.4 1.0

Calcium binding site 7 out of 9 in 244d

Go back to Calcium Binding Sites List in 244d
Calcium binding site 7 out of 9 in the The High-Resolution Crystal Structure of A Parallel- Stranded Guanine Tetraplex


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 7 of The High-Resolution Crystal Structure of A Parallel- Stranded Guanine Tetraplex within 5.0Å range:
probe atom residue distance (Å) B Occ
M:Ca171

b:7.9
occ:1.00
 O P:HOH253 2.3 24.0 1.0
O P:HOH541 2.4 18.7 1.0
O M:HOH188 2.4 8.6 1.0
O P:HOH267 2.4 16.3 1.0
O P:HOH213 2.4 8.5 1.0
O J:HOH206 2.4 9.5 1.0
O P:HOH198 2.5 7.6 1.0
N2 J:DG92 4.4 7.4 1.0
O P:HOH534 4.4 23.8 1.0
O M:HOH211 4.4 9.9 1.0
O P:HOH240 4.4 16.9 1.0
O E:HOH613 4.5 38.5 1.0
N2 M:DG122 4.5 6.5 1.0
OP2 P:DG152 4.5 10.0 1.0
O4' M:DG123 4.5 8.3 1.0
OP1 P:DG152 4.5 11.6 1.0
O4' J:DG93 4.6 9.5 1.0
O E:HOH464 4.7 31.9 1.0
C4' M:DG123 4.8 9.3 1.0
O J:HOH331 4.8 21.3 1.0
N3 M:DG122 4.8 5.8 1.0
N3 J:DG92 4.9 7.0 1.0
O I:HOH280 4.9 19.4 1.0
C5' M:DG123 5.0 9.7 1.0
P P:DG152 5.0 8.7 1.0

Calcium binding site 8 out of 9 in 244d

Go back to Calcium Binding Sites List in 244d
Calcium binding site 8 out of 9 in the The High-Resolution Crystal Structure of A Parallel- Stranded Guanine Tetraplex


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 8 of The High-Resolution Crystal Structure of A Parallel- Stranded Guanine Tetraplex within 5.0Å range:
probe atom residue distance (Å) B Occ
N:Ca173

b:7.7
occ:1.00
 O M:HOH293 2.4 17.1 1.0
O N:HOH184 2.4 8.1 1.0
O M:HOH291 2.4 19.9 1.0
O M:HOH216 2.4 8.9 1.0
O M:HOH195 2.5 7.4 1.0
O I:HOH189 2.5 7.9 1.0
O M:HOH373 2.5 20.2 1.0
O M:HOH402 2.5 24.2 1.0
O M:HOH616 4.3 41.4 1.0
OP1 M:DG122 4.4 8.5 1.0
OP2 M:DG122 4.4 8.5 1.0
O L:HOH260 4.4 12.6 1.0
N2 I:DG82 4.4 6.4 1.0
N2 N:DG132 4.5 6.2 1.0
O4' N:DG133 4.5 7.8 1.0
O M:HOH558 4.6 31.8 1.0
O4' I:DG83 4.7 9.1 1.0
O L:HOH432 4.7 30.7 1.0
O M:HOH421 4.7 32.4 1.0
O M:HOH691 4.7 25.7 1.0
O I:HOH309 4.9 20.0 1.0
N3 N:DG132 4.9 5.3 1.0
P M:DG122 4.9 7.3 1.0
N3 I:DG82 4.9 5.8 1.0
C4' N:DG133 4.9 7.3 1.0

Calcium binding site 9 out of 9 in 244d

Go back to Calcium Binding Sites List in 244d
Calcium binding site 9 out of 9 in the The High-Resolution Crystal Structure of A Parallel- Stranded Guanine Tetraplex


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 9 of The High-Resolution Crystal Structure of A Parallel- Stranded Guanine Tetraplex within 5.0Å range:
probe atom residue distance (Å) B Occ
P:Ca172

b:9.4
occ:1.00
 O P:HOH192 2.4 10.1 1.0
O O:HOH202 2.4 10.3 1.0
O O:HOH199 2.4 9.1 1.0
O O:HOH392 2.5 21.3 1.0
O K:HOH226 2.5 9.8 1.0
O P:HOH364 2.5 19.4 1.0
O O:HOH460 2.5 24.9 1.0
O O:HOH409 2.5 27.8 1.0
OP2 O:DG142 4.4 11.4 1.0
N2 K:DG102 4.4 7.8 1.0
OP1 O:DG142 4.4 10.8 1.0
O P:HOH275 4.4 14.7 1.0
O4' P:DG153 4.5 9.4 1.0
N2 P:DG152 4.5 6.6 1.0
O4' K:DG103 4.6 11.7 1.0
O O:HOH308 4.7 21.8 1.0
C4' P:DG153 4.8 10.1 1.0
O K:HOH325 4.8 25.3 1.0
O O:HOH395 4.8 27.1 1.0
O O:HOH372 4.9 21.3 1.0
N3 K:DG102 4.9 7.0 1.0
N3 P:DG152 4.9 5.9 1.0
P O:DG142 5.0 10.2 1.0

Reference:

G.Laughlan, A.I.Murchie, D.G.Norman, M.H.Moore, P.C.Moody, D.M.Lilley, B.Luisi. The High-Resolution Crystal Structure of A Parallel-Stranded Guanine Tetraplex. Science V. 265 520 1994.
ISSN: ISSN 0036-8075
PubMed: 8036494
Page generated: Fri Jul 12 08:30:10 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