Atomistry » Potassium » PDB 5g17-5imu » 5hhl
Atomistry »
  Potassium »
    PDB 5g17-5imu »
      5hhl »

Potassium in PDB 5hhl: Reverse Transcriptase Domain of Group II Intron Maturase From Eubacterium Rectale in P21 Space Group

Protein crystallography data

The structure of Reverse Transcriptase Domain of Group II Intron Maturase From Eubacterium Rectale in P21 Space Group, PDB code: 5hhl was solved by C.Zhao, A.M.Pyle, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 49.14 / 2.10
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 74.830, 119.860, 161.470, 90.00, 92.08, 90.00
R / Rfree (%) 20.1 / 23.8

Potassium Binding Sites:

The binding sites of Potassium atom in the Reverse Transcriptase Domain of Group II Intron Maturase From Eubacterium Rectale in P21 Space Group (pdb code 5hhl). This binding sites where shown within 5.0 Angstroms radius around Potassium atom.
In total 8 binding sites of Potassium where determined in the Reverse Transcriptase Domain of Group II Intron Maturase From Eubacterium Rectale in P21 Space Group, PDB code: 5hhl:
Jump to Potassium binding site number: 1; 2; 3; 4; 5; 6; 7; 8;

Potassium binding site 1 out of 8 in 5hhl

Go back to Potassium Binding Sites List in 5hhl
Potassium binding site 1 out of 8 in the Reverse Transcriptase Domain of Group II Intron Maturase From Eubacterium Rectale in P21 Space Group


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 1 of Reverse Transcriptase Domain of Group II Intron Maturase From Eubacterium Rectale in P21 Space Group within 5.0Å range:
probe atom residue distance (Å) B Occ
A:K301

b:51.5
occ:1.00
 OD1 A:ASP139 2.8 30.7 1.0
O A:CYS228 2.8 27.0 1.0
O A:ILE140 2.8 33.4 1.0
OD1 A:ASP227 2.8 28.9 1.0
O A:HOH477 2.9 33.7 0.7
O A:HOH426 3.5 34.0 1.0
N A:CYS228 3.7 26.5 1.0
O A:HOH496 3.7 81.1 1.0
C A:CYS228 3.7 28.5 1.0
C A:ILE140 3.8 40.7 1.0
O A:HOH477 3.9 33.7 0.3
CG A:ASP227 4.0 34.0 1.0
CG A:ASP139 4.0 34.9 1.0
CG2 A:ILE229 4.0 26.7 1.0
N A:ILE140 4.2 39.7 1.0
O A:HOH489 4.2 28.5 1.0
C A:ASP227 4.3 29.1 1.0
CA A:CYS228 4.3 26.5 1.0
C A:ASP139 4.4 38.9 1.0
CA A:ASP227 4.4 33.7 1.0
CA A:ASP139 4.6 36.6 1.0
N A:ASP141 4.6 30.7 1.0
CA A:ILE140 4.6 40.3 1.0
N A:ILE229 4.6 26.6 1.0
CA A:ASP141 4.7 32.6 1.0
OD2 A:ASP139 4.8 37.3 1.0
CE1 A:TYR272 4.8 26.1 1.0
OD2 A:ASP227 4.8 30.7 1.0
CB A:ASP227 4.9 32.1 1.0
CD1 A:TYR272 4.9 23.8 1.0
O A:ASP139 4.9 37.5 1.0
CB A:ASP139 4.9 40.3 1.0
CA A:ILE229 5.0 26.9 1.0

Potassium binding site 2 out of 8 in 5hhl

Go back to Potassium Binding Sites List in 5hhl
Potassium binding site 2 out of 8 in the Reverse Transcriptase Domain of Group II Intron Maturase From Eubacterium Rectale in P21 Space Group


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 2 of Reverse Transcriptase Domain of Group II Intron Maturase From Eubacterium Rectale in P21 Space Group within 5.0Å range:
probe atom residue distance (Å) B Occ
B:K301

b:52.4
occ:1.00
 O B:CYS228 2.8 31.1 1.0
OD1 B:ASP139 2.8 59.2 1.0
O B:ILE140 2.8 47.6 1.0
OD1 B:ASP227 2.8 34.0 1.0
O B:HOH414 3.3 30.4 1.0
N B:CYS228 3.6 25.6 1.0
C B:ILE140 3.6 41.1 1.0
C B:CYS228 3.7 32.0 1.0
O B:HOH534 3.7 44.2 1.0
CG B:ASP227 4.0 36.1 1.0
CG B:ASP139 4.0 43.4 1.0
O B:HOH450 4.0 35.1 1.0
N B:ILE140 4.0 43.1 1.0
C B:ASP227 4.2 27.5 1.0
CG2 B:ILE229 4.2 24.8 1.0
CA B:CYS228 4.2 26.1 1.0
CA B:ASP227 4.3 34.4 1.0
C B:ASP139 4.3 30.8 1.0
N B:ASP141 4.3 37.7 1.0
CA B:ASP141 4.5 41.4 1.0
CA B:ILE140 4.5 44.9 1.0
CA B:ASP139 4.6 28.1 1.0
N B:ILE229 4.6 31.1 1.0
OD2 B:ASP139 4.8 57.4 1.0
CB B:ASP227 4.8 35.7 1.0
OD2 B:ASP227 4.8 33.1 1.0
CE1 B:TYR272 4.9 27.5 1.0
O B:ASP139 4.9 34.1 1.0
CB B:ASP139 4.9 31.1 1.0

Potassium binding site 3 out of 8 in 5hhl

Go back to Potassium Binding Sites List in 5hhl
Potassium binding site 3 out of 8 in the Reverse Transcriptase Domain of Group II Intron Maturase From Eubacterium Rectale in P21 Space Group


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 3 of Reverse Transcriptase Domain of Group II Intron Maturase From Eubacterium Rectale in P21 Space Group within 5.0Å range:
probe atom residue distance (Å) B Occ
C:K301

b:47.0
occ:1.00
 O C:ILE140 2.8 33.7 1.0
OD1 C:ASP227 2.8 29.6 1.0
OD1 C:ASP139 2.8 27.8 1.0
O C:CYS228 2.8 23.7 1.0
O C:HOH487 2.8 34.4 1.0
O C:HOH441 3.4 29.6 1.0
N C:CYS228 3.7 24.7 1.0
C C:CYS228 3.7 25.0 1.0
C C:ILE140 3.8 34.7 1.0
O C:HOH490 3.8 39.3 1.0
CG C:ASP227 3.9 29.0 1.0
CG C:ASP139 4.0 35.0 1.0
CG2 C:ILE229 4.2 30.9 1.0
N C:ILE140 4.2 41.7 1.0
O C:HOH482 4.2 25.9 1.0
C C:ASP227 4.3 25.2 1.0
C C:ASP139 4.4 44.1 1.0
CA C:CYS228 4.4 29.7 1.0
CA C:ASP227 4.4 25.7 1.0
N C:ASP141 4.6 30.8 1.0
CA C:ASP139 4.6 38.0 1.0
CA C:ASP141 4.6 32.6 1.0
CA C:ILE140 4.6 43.3 1.0
N C:ILE229 4.6 24.0 1.0
OD2 C:ASP227 4.7 29.8 1.0
OD2 C:ASP139 4.8 33.4 1.0
CB C:ASP227 4.8 23.7 1.0
CE1 C:TYR272 4.8 35.0 1.0
O C:ASP139 4.8 33.1 1.0
CD1 C:TYR272 4.9 34.1 1.0
CB C:ASP139 4.9 28.5 1.0

Potassium binding site 4 out of 8 in 5hhl

Go back to Potassium Binding Sites List in 5hhl
Potassium binding site 4 out of 8 in the Reverse Transcriptase Domain of Group II Intron Maturase From Eubacterium Rectale in P21 Space Group


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 4 of Reverse Transcriptase Domain of Group II Intron Maturase From Eubacterium Rectale in P21 Space Group within 5.0Å range:
probe atom residue distance (Å) B Occ
D:K301

b:44.0
occ:1.00
 OD1 D:ASP227 2.7 35.2 1.0
O D:ILE140 2.7 33.4 1.0
OD1 D:ASP139 2.7 27.9 1.0
O D:CYS228 2.8 17.8 1.0
O D:HOH463 3.0 62.3 1.0
O D:HOH440 3.3 29.9 1.0
C D:ILE140 3.7 35.0 1.0
N D:CYS228 3.7 25.4 1.0
C D:CYS228 3.7 23.7 1.0
O D:HOH513 3.8 42.5 1.0
CG D:ASP227 3.9 33.3 1.0
N D:ILE140 4.0 31.7 1.0
CG D:ASP139 4.0 27.4 1.0
CG2 D:ILE229 4.2 25.0 1.0
C D:ASP139 4.2 29.4 1.0
C D:ASP227 4.3 23.1 1.0
CA D:CYS228 4.3 27.8 1.0
CA D:ASP227 4.4 31.4 1.0
CA D:ILE140 4.4 37.5 1.0
CA D:ASP139 4.5 27.0 1.0
N D:ASP141 4.5 32.9 1.0
CA D:ASP141 4.6 36.8 1.0
O D:HOH457 4.6 34.0 1.0
N D:ILE229 4.7 24.4 1.0
OD2 D:ASP227 4.7 34.8 1.0
CB D:ASP227 4.8 30.9 1.0
OD2 D:ASP139 4.8 40.3 1.0
O D:ASP139 4.8 39.9 1.0
CB D:ASP139 4.8 31.0 1.0
CE1 D:TYR272 5.0 22.1 1.0

Potassium binding site 5 out of 8 in 5hhl

Go back to Potassium Binding Sites List in 5hhl
Potassium binding site 5 out of 8 in the Reverse Transcriptase Domain of Group II Intron Maturase From Eubacterium Rectale in P21 Space Group


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 5 of Reverse Transcriptase Domain of Group II Intron Maturase From Eubacterium Rectale in P21 Space Group within 5.0Å range:
probe atom residue distance (Å) B Occ
E:K301

b:57.7
occ:1.00
 OD1 E:ASP139 2.7 26.4 1.0
O E:CYS228 2.7 27.9 1.0
OD1 E:ASP227 2.8 36.0 1.0
O E:ILE140 2.8 46.0 1.0
O E:HOH464 2.8 43.0 1.0
O E:HOH434 3.4 32.9 1.0
C E:ILE140 3.7 45.0 1.0
N E:CYS228 3.7 22.5 1.0
C E:CYS228 3.7 29.0 1.0
CG E:ASP227 3.9 39.2 1.0
CG E:ASP139 4.0 33.9 1.0
N E:ILE140 4.0 45.8 1.0
O E:HOH479 4.1 49.2 1.0
CG2 E:ILE229 4.2 26.8 1.0
C E:ASP227 4.3 36.9 1.0
CA E:CYS228 4.3 23.4 1.0
C E:ASP139 4.3 40.9 1.0
CA E:ASP227 4.4 32.6 1.0
O E:HOH474 4.4 43.5 1.0
N E:ASP141 4.4 42.7 1.0
CA E:ASP141 4.5 39.3 1.0
CA E:ILE140 4.5 56.4 1.0
CA E:ASP139 4.6 36.0 1.0
N E:ILE229 4.7 34.9 1.0
OD2 E:ASP227 4.7 37.3 1.0
OD2 E:ASP139 4.7 32.0 1.0
CB E:ASP227 4.8 31.0 1.0
O E:ASP139 4.9 41.3 1.0
CB E:ASP139 4.9 28.0 1.0
CE1 E:TYR272 4.9 36.2 1.0

Potassium binding site 6 out of 8 in 5hhl

Go back to Potassium Binding Sites List in 5hhl
Potassium binding site 6 out of 8 in the Reverse Transcriptase Domain of Group II Intron Maturase From Eubacterium Rectale in P21 Space Group


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 6 of Reverse Transcriptase Domain of Group II Intron Maturase From Eubacterium Rectale in P21 Space Group within 5.0Å range:
probe atom residue distance (Å) B Occ
F:K301

b:51.5
occ:1.00
 OD1 F:ASP139 2.8 35.9 1.0
OD1 F:ASP227 2.8 48.4 1.0
O F:ILE140 2.8 36.7 1.0
O F:CYS228 2.9 27.9 1.0
O F:HOH509 3.3 34.2 1.0
O F:HOH444 3.6 29.9 1.0
C F:ILE140 3.7 42.8 1.0
C F:CYS228 3.8 27.8 1.0
N F:CYS228 3.9 27.8 1.0
CG F:ASP227 3.9 45.3 1.0
CG2 F:ILE229 4.0 27.2 1.0
N F:ILE140 4.0 38.6 1.0
CG F:ASP139 4.0 36.0 1.0
O F:HOH471 4.1 42.5 1.0
C F:ASP139 4.3 36.0 1.0
O F:HOH505 4.3 37.6 1.0
C F:ASP227 4.4 30.7 1.0
CA F:ILE140 4.5 50.1 1.0
CA F:ASP139 4.5 35.6 1.0
CA F:ASP227 4.5 33.9 1.0
CA F:CYS228 4.5 28.0 1.0
N F:ASP141 4.6 38.0 1.0
OD2 F:ASP227 4.7 37.5 1.0
N F:ILE229 4.7 28.8 1.0
CA F:ASP141 4.7 41.5 1.0
OD2 F:ASP139 4.8 36.2 1.0
O F:ASP139 4.8 36.4 1.0
CB F:ASP227 4.9 29.4 1.0
CB F:ASP139 4.9 35.8 1.0
CA F:ILE229 4.9 33.1 1.0
CE1 F:TYR272 5.0 29.6 1.0

Potassium binding site 7 out of 8 in 5hhl

Go back to Potassium Binding Sites List in 5hhl
Potassium binding site 7 out of 8 in the Reverse Transcriptase Domain of Group II Intron Maturase From Eubacterium Rectale in P21 Space Group


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 7 of Reverse Transcriptase Domain of Group II Intron Maturase From Eubacterium Rectale in P21 Space Group within 5.0Å range:
probe atom residue distance (Å) B Occ
G:K301

b:44.9
occ:1.00
 OD1 G:ASP139 2.7 27.0 1.0
OD1 G:ASP227 2.7 41.3 1.0
O G:ILE140 2.8 36.3 1.0
O G:CYS228 2.8 21.3 1.0
O G:HOH467 3.6 41.6 1.0
O G:HOH431 3.6 31.0 1.0
C G:ILE140 3.7 41.0 1.0
C G:CYS228 3.7 25.4 1.0
N G:CYS228 3.7 32.3 1.0
N G:ILE140 3.8 34.3 1.0
CG G:ASP227 3.9 39.4 1.0
CG G:ASP139 3.9 32.4 1.0
CG2 G:ILE229 4.0 23.4 1.0
C G:ASP139 4.2 31.4 1.0
C G:ASP227 4.3 28.2 1.0
CA G:CYS228 4.3 26.2 1.0
CA G:ILE140 4.4 45.3 1.0
CA G:ASP227 4.4 36.6 1.0
CA G:ASP139 4.4 24.7 1.0
N G:ASP141 4.5 32.4 1.0
N G:ILE229 4.6 29.6 1.0
OD2 G:ASP227 4.6 41.5 1.0
O G:HOH441 4.6 29.9 1.0
CE1 G:TYR272 4.7 29.5 1.0
CA G:ASP141 4.7 32.1 1.0
OD2 G:ASP139 4.8 32.4 1.0
CD1 G:TYR272 4.8 33.5 1.0
CB G:ASP227 4.8 29.9 1.0
CB G:ASP139 4.8 29.8 1.0
O G:ASP139 4.8 32.4 1.0
CA G:ILE229 4.9 25.8 1.0

Potassium binding site 8 out of 8 in 5hhl

Go back to Potassium Binding Sites List in 5hhl
Potassium binding site 8 out of 8 in the Reverse Transcriptase Domain of Group II Intron Maturase From Eubacterium Rectale in P21 Space Group


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 8 of Reverse Transcriptase Domain of Group II Intron Maturase From Eubacterium Rectale in P21 Space Group within 5.0Å range:
probe atom residue distance (Å) B Occ
H:K301

b:60.9
occ:1.00
 OD1 H:ASP139 2.7 47.0 1.0
OD1 H:ASP227 2.8 38.9 1.0
O H:CYS228 2.8 33.7 1.0
O H:ILE140 2.8 60.6 1.0
O H:HOH420 2.9 49.2 1.0
O H:HOH436 3.4 39.4 1.0
O H:HOH417 3.5 48.8 1.0
C H:ILE140 3.7 53.1 1.0
C H:CYS228 3.7 37.4 1.0
N H:CYS228 3.8 32.4 1.0
CG H:ASP139 3.9 40.7 1.0
CG H:ASP227 4.0 36.8 1.0
CG2 H:ILE229 4.0 27.9 1.0
N H:ILE140 4.0 47.6 1.0
C H:ASP139 4.3 59.5 1.0
C H:ASP227 4.3 43.5 1.0
O H:HOH461 4.3 45.9 1.0
CA H:CYS228 4.4 38.3 1.0
CA H:ASP227 4.5 41.7 1.0
N H:ASP141 4.5 45.9 1.0
CA H:ASP139 4.5 43.5 1.0
CA H:ILE140 4.5 53.2 1.0
CA H:ASP141 4.6 39.5 1.0
N H:ILE229 4.7 48.2 1.0
OD2 H:ASP139 4.7 42.6 1.0
OD2 H:ASP227 4.7 34.1 1.0
CB H:ASP139 4.8 36.8 1.0
CB H:ASP227 4.8 33.5 1.0
CE1 H:TYR272 4.9 44.7 1.0
O H:ASP139 4.9 55.8 1.0
CA H:ILE229 5.0 46.7 1.0

Reference:

C.Zhao, A.M.Pyle. Crystal Structures of A Group II Intron Maturase Reveal A Missing Link in Spliceosome Evolution. Nat.Struct.Mol.Biol. V. 23 558 2016.
ISSN: ESSN 1545-9985
PubMed: 27136328
DOI: 10.1038/NSMB.3224
Page generated: Sun Dec 13 23:58:58 2020

Last articles

Zn in 8WB0
Zn in 8WAX
Zn in 8WAU
Zn in 8WAZ
Zn in 8WAY
Zn in 8WAV
Zn in 8WAW
Zn in 8WAT
Zn in 8W7M
Zn in 8WD3
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy