Atomistry » Chlorine » PDB 5bve-5c2a » 5c1b
Atomistry »
  Chlorine »
    PDB 5bve-5c2a »
      5c1b »

Chlorine in PDB 5c1b: P97-DELTA709-728 in Complex with A UFD1-Shp Peptide

Enzymatic activity of P97-DELTA709-728 in Complex with A UFD1-Shp Peptide

All present enzymatic activity of P97-DELTA709-728 in Complex with A UFD1-Shp Peptide:
3.6.4.6;

Protein crystallography data

The structure of P97-DELTA709-728 in Complex with A UFD1-Shp Peptide, PDB code: 5c1b was solved by P.Haenzelmann, H.Schindelin, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 49.14 / 3.08
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 140.715, 180.664, 254.958, 90.00, 90.00, 90.00
R / Rfree (%) 19.8 / 24

Other elements in 5c1b:

The structure of P97-DELTA709-728 in Complex with A UFD1-Shp Peptide also contains other interesting chemical elements:

Magnesium (Mg) 12 atoms

Chlorine Binding Sites:

The binding sites of Chlorine atom in the P97-DELTA709-728 in Complex with A UFD1-Shp Peptide (pdb code 5c1b). This binding sites where shown within 5.0 Angstroms radius around Chlorine atom.
In total 6 binding sites of Chlorine where determined in the P97-DELTA709-728 in Complex with A UFD1-Shp Peptide, PDB code: 5c1b:
Jump to Chlorine binding site number: 1; 2; 3; 4; 5; 6;

Chlorine binding site 1 out of 6 in 5c1b

Go back to Chlorine Binding Sites List in 5c1b
Chlorine binding site 1 out of 6 in the P97-DELTA709-728 in Complex with A UFD1-Shp Peptide


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 1 of P97-DELTA709-728 in Complex with A UFD1-Shp Peptide within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl905

b:98.4
occ:1.00
H A:ASP630 2.7 92.3 1.0
HH11 A:ARG586 2.7 0.6 1.0
HD13 A:ILE601 2.8 0.7 1.0
HB2 A:ASP630 2.9 86.8 1.0
HD12 A:ILE601 3.1 0.7 1.0
CD1 A:ILE601 3.2 0.1 1.0
HD11 A:ILE601 3.3 0.7 1.0
HA A:ALA583 3.3 0.7 1.0
N A:ASP630 3.4 76.9 1.0
HD3 A:ARG586 3.4 0.5 1.0
NH1 A:ARG586 3.5 0.5 1.0
HA A:ILE629 3.5 0.1 1.0
HB2 A:ALA583 3.5 0.8 1.0
HD11 A:ILE633 3.5 91.9 1.0
CB A:ASP630 3.6 72.3 1.0
HB3 A:ASP630 3.6 86.8 1.0
HH12 A:ARG586 3.7 0.6 1.0
HD12 A:ILE633 3.8 91.9 1.0
HG13 A:ILE629 3.9 0.2 1.0
HD2 A:ARG586 4.0 0.5 1.0
CA A:ALA583 4.0 87.2 1.0
CD1 A:ILE633 4.1 76.6 1.0
HG21 A:ILE601 4.1 84.4 1.0
CA A:ASP630 4.1 68.7 1.0
CB A:ALA583 4.1 84.0 1.0
CD A:ARG586 4.1 0.8 1.0
N A:ALA583 4.3 78.3 1.0
O A:ILE628 4.3 85.4 1.0
C A:ILE629 4.3 79.2 1.0
CA A:ILE629 4.3 85.9 1.0
HB1 A:ALA583 4.4 0.8 1.0
H A:ALA583 4.4 93.9 1.0
HB A:ILE582 4.4 0.1 1.0
HG22 A:ILE582 4.4 91.5 1.0
HA A:ASP630 4.6 82.5 1.0
CZ A:ARG586 4.6 0.1 1.0
HD13 A:ILE633 4.6 91.9 1.0
CG1 A:ILE629 4.7 84.4 1.0
CG1 A:ILE601 4.7 91.8 1.0
HG12 A:ILE629 4.7 0.2 1.0
C A:ILE582 4.8 89.2 1.0
NE A:ARG586 4.8 0.5 1.0
CG A:ASP630 4.9 88.4 1.0
CG2 A:ILE601 5.0 70.4 1.0
HB3 A:ALA583 5.0 0.8 1.0

Chlorine binding site 2 out of 6 in 5c1b

Go back to Chlorine Binding Sites List in 5c1b
Chlorine binding site 2 out of 6 in the P97-DELTA709-728 in Complex with A UFD1-Shp Peptide


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 2 of P97-DELTA709-728 in Complex with A UFD1-Shp Peptide within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Cl905

b:0.2
occ:1.00
H B:ASP630 2.6 0.7 1.0
HD13 B:ILE601 2.7 0.4 1.0
HB2 B:ASP630 2.9 0.6 1.0
HD12 B:ILE601 3.2 0.4 1.0
CD1 B:ILE601 3.2 0.3 1.0
HD11 B:ILE601 3.2 0.4 1.0
HD11 B:ILE633 3.3 0.7 1.0
N B:ASP630 3.4 87.2 1.0
HA B:ILE629 3.4 0.2 1.0
HH11 B:ARG586 3.4 0.0 1.0
HB2 B:ALA583 3.4 97.4 1.0
HD12 B:ILE633 3.5 0.7 1.0
HA B:ALA583 3.5 95.5 1.0
HB3 B:ASP630 3.6 0.6 1.0
CB B:ASP630 3.6 94.7 1.0
HG13 B:ILE629 3.7 0.3 1.0
CD1 B:ILE633 3.9 86.5 1.0
HD3 B:ARG586 3.9 0.5 1.0
HG21 B:ILE601 4.1 0.3 1.0
NH1 B:ARG586 4.1 0.2 1.0
CA B:ASP630 4.1 93.1 1.0
CB B:ALA583 4.1 81.2 1.0
CA B:ALA583 4.2 79.6 1.0
CA B:ILE629 4.2 86.8 1.0
C B:ILE629 4.2 77.7 1.0
HH12 B:ARG586 4.3 0.0 1.0
O B:ILE628 4.3 91.4 1.0
HD13 B:ILE633 4.3 0.7 1.0
HB1 B:ALA583 4.4 97.4 1.0
N B:ALA583 4.4 68.3 1.0
H B:ALA583 4.4 81.9 1.0
HB B:ILE582 4.5 89.8 1.0
CG1 B:ILE629 4.5 0.1 1.0
HG12 B:ILE629 4.5 0.3 1.0
HD2 B:ARG586 4.6 0.5 1.0
HA B:ASP630 4.6 0.7 1.0
CG1 B:ILE601 4.7 99.7 1.0
HG22 B:ILE582 4.7 75.5 1.0
CD B:ARG586 4.7 0.6 1.0
HB3 B:LEU579 4.8 81.5 1.0
CG2 B:ILE601 4.9 98.6 1.0
CG B:ASP630 4.9 98.1 1.0
HG12 B:ILE601 5.0 0.7 1.0
HB3 B:ALA583 5.0 97.4 1.0
HG13 B:ILE633 5.0 1.0 1.0
O B:LEU579 5.0 0.2 1.0

Chlorine binding site 3 out of 6 in 5c1b

Go back to Chlorine Binding Sites List in 5c1b
Chlorine binding site 3 out of 6 in the P97-DELTA709-728 in Complex with A UFD1-Shp Peptide


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 3 of P97-DELTA709-728 in Complex with A UFD1-Shp Peptide within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Cl901

b:0.9
occ:1.00
H C:ASP630 2.5 0.2 1.0
HD13 C:ILE601 2.9 0.8 1.0
HB2 C:ASP630 2.9 0.1 1.0
HH11 C:ARG586 3.1 0.3 1.0
HD11 C:ILE601 3.2 0.8 1.0
HD12 C:ILE601 3.2 0.8 1.0
HA C:ILE629 3.3 0.6 1.0
N C:ASP630 3.3 83.5 1.0
CD1 C:ILE601 3.3 0.5 1.0
HB2 C:ALA583 3.3 0.1 1.0
HA C:ALA583 3.3 0.8 1.0
HB3 C:ASP630 3.6 0.1 1.0
CB C:ASP630 3.6 0.1 1.0
HD11 C:ILE633 3.7 0.8 1.0
HG13 C:ILE629 3.7 0.2 1.0
HD3 C:ARG586 3.8 0.3 1.0
HD12 C:ILE633 3.8 0.8 1.0
NH1 C:ARG586 3.9 0.4 1.0
CA C:ALA583 4.0 93.2 1.0
CB C:ALA583 4.0 94.2 1.0
HH12 C:ARG586 4.0 0.3 1.0
CA C:ASP630 4.0 89.9 1.0
CA C:ILE629 4.1 95.5 1.0
C C:ILE629 4.1 89.2 1.0
HB1 C:ALA583 4.2 0.1 1.0
O C:ILE628 4.2 95.7 1.0
CD1 C:ILE633 4.2 0.5 1.0
HD2 C:ARG586 4.2 0.3 1.0
N C:ALA583 4.3 90.1 1.0
HG21 C:ILE601 4.3 0.6 1.0
H C:ALA583 4.3 0.1 1.0
CG1 C:ILE629 4.5 91.0 1.0
HG12 C:ILE629 4.5 0.2 1.0
CD C:ARG586 4.5 0.1 1.0
HG22 C:ILE582 4.5 81.8 1.0
HB C:ILE582 4.5 0.4 1.0
HA C:ASP630 4.5 0.8 1.0
HD13 C:ILE633 4.7 0.8 1.0
CG1 C:ILE601 4.8 0.0 1.0
HB3 C:ALA583 4.8 0.1 1.0
C C:ILE582 4.9 93.3 1.0
CB C:ILE629 4.9 95.2 1.0
CG C:ASP630 4.9 0.1 1.0
HB3 C:LEU579 4.9 92.6 1.0
CZ C:ARG586 5.0 0.2 1.0

Chlorine binding site 4 out of 6 in 5c1b

Go back to Chlorine Binding Sites List in 5c1b
Chlorine binding site 4 out of 6 in the P97-DELTA709-728 in Complex with A UFD1-Shp Peptide


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 4 of P97-DELTA709-728 in Complex with A UFD1-Shp Peptide within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Cl901

b:0.0
occ:1.00
H D:ASP630 2.7 0.2 1.0
HD13 D:ILE601 2.8 0.5 1.0
HB2 D:ASP630 3.0 0.0 1.0
HD12 D:ILE601 3.2 0.5 1.0
HH11 D:ARG586 3.2 0.9 1.0
HD11 D:ILE601 3.2 0.5 1.0
CD1 D:ILE601 3.2 0.1 1.0
HB2 D:ALA583 3.4 0.9 1.0
HA D:ALA583 3.4 0.6 1.0
N D:ASP630 3.4 96.0 1.0
HA D:ILE629 3.5 0.1 1.0
HD11 D:ILE633 3.5 0.5 1.0
HB3 D:ASP630 3.6 0.0 1.0
CB D:ASP630 3.7 0.2 1.0
HD12 D:ILE633 3.7 0.5 1.0
HD3 D:ARG586 3.7 0.2 1.0
HG13 D:ILE629 3.8 0.7 1.0
NH1 D:ARG586 3.9 0.6 1.0
CA D:ALA583 4.0 99.7 1.0
CD1 D:ILE633 4.0 97.1 1.0
CB D:ALA583 4.1 88.2 1.0
HG21 D:ILE601 4.1 0.6 1.0
HH12 D:ARG586 4.1 0.9 1.0
CA D:ASP630 4.2 0.8 1.0
N D:ALA583 4.3 0.7 1.0
HB1 D:ALA583 4.3 0.9 1.0
CA D:ILE629 4.3 0.6 1.0
C D:ILE629 4.3 0.6 1.0
H D:ALA583 4.3 0.1 1.0
HD2 D:ARG586 4.4 0.2 1.0
HB D:ILE582 4.4 0.9 1.0
O D:ILE628 4.4 0.5 1.0
CD D:ARG586 4.5 0.0 1.0
HD13 D:ILE633 4.5 0.5 1.0
CG1 D:ILE629 4.6 93.9 1.0
HG22 D:ILE582 4.6 0.7 1.0
HG12 D:ILE629 4.6 0.7 1.0
HA D:ASP630 4.6 0.5 1.0
CG1 D:ILE601 4.7 0.7 1.0
HB3 D:LEU579 4.9 86.9 1.0
HB3 D:ALA583 4.9 0.9 1.0
C D:ILE582 4.9 0.1 1.0
O D:LEU579 4.9 92.3 1.0
CG D:ASP630 5.0 0.3 1.0
CG2 D:ILE601 5.0 85.5 1.0
CZ D:ARG586 5.0 0.9 1.0

Chlorine binding site 5 out of 6 in 5c1b

Go back to Chlorine Binding Sites List in 5c1b
Chlorine binding site 5 out of 6 in the P97-DELTA709-728 in Complex with A UFD1-Shp Peptide


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 5 of P97-DELTA709-728 in Complex with A UFD1-Shp Peptide within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Cl905

b:0.8
occ:1.00
H E:ASP630 2.5 0.7 1.0
HD13 E:ILE601 2.8 0.4 1.0
HB2 E:ASP630 2.9 0.7 1.0
HH11 E:ARG586 3.2 0.8 1.0
HD12 E:ILE601 3.2 0.4 1.0
CD1 E:ILE601 3.3 0.8 1.0
HD11 E:ILE601 3.3 0.4 1.0
N E:ASP630 3.3 85.5 1.0
HA E:ILE629 3.4 0.9 1.0
HD11 E:ILE633 3.4 0.2 1.0
HB2 E:ALA583 3.5 92.9 1.0
HA E:ALA583 3.5 0.8 1.0
HB3 E:ASP630 3.5 0.7 1.0
CB E:ASP630 3.5 90.6 1.0
HD12 E:ILE633 3.6 0.2 1.0
HG13 E:ILE629 3.6 0.6 1.0
HD3 E:ARG586 3.9 0.6 1.0
NH1 E:ARG586 3.9 0.1 1.0
CD1 E:ILE633 4.0 0.7 1.0
HG21 E:ILE601 4.0 92.8 1.0
CA E:ASP630 4.0 80.9 1.0
HH12 E:ARG586 4.1 0.8 1.0
CB E:ALA583 4.1 77.4 1.0
CA E:ALA583 4.1 94.0 1.0
CA E:ILE629 4.2 90.7 1.0
C E:ILE629 4.2 93.3 1.0
HB1 E:ALA583 4.3 92.9 1.0
HD2 E:ARG586 4.4 0.6 1.0
O E:ILE628 4.4 95.5 1.0
CG1 E:ILE629 4.4 0.6 1.0
HG12 E:ILE629 4.4 0.6 1.0
N E:ALA583 4.4 1.0 1.0
HD13 E:ILE633 4.5 0.2 1.0
H E:ALA583 4.5 0.4 1.0
HA E:ASP630 4.5 97.0 1.0
CD E:ARG586 4.6 0.1 1.0
HB E:ILE582 4.7 88.4 1.0
CG1 E:ILE601 4.7 0.5 1.0
HG22 E:ILE582 4.8 88.6 1.0
CG E:ASP630 4.8 90.9 1.0
CG2 E:ILE601 4.9 77.4 1.0
HB3 E:ALA583 5.0 92.9 1.0
HG13 E:ILE633 5.0 0.8 1.0
CB E:ILE629 5.0 95.7 1.0

Chlorine binding site 6 out of 6 in 5c1b

Go back to Chlorine Binding Sites List in 5c1b
Chlorine binding site 6 out of 6 in the P97-DELTA709-728 in Complex with A UFD1-Shp Peptide


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 6 of P97-DELTA709-728 in Complex with A UFD1-Shp Peptide within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Cl905

b:0.7
occ:1.00
H F:ASP630 2.7 0.2 1.0
HD13 F:ILE601 2.8 0.1 1.0
HD11 F:ILE601 3.1 0.1 1.0
HB2 F:ASP630 3.1 0.3 1.0
CD1 F:ILE601 3.2 0.7 1.0
HD12 F:ILE601 3.2 0.1 1.0
HB2 F:ALA583 3.3 77.4 1.0
HA F:ALA583 3.3 80.2 1.0
HH11 F:ARG586 3.3 0.5 1.0
HA F:ILE629 3.4 0.0 1.0
N F:ASP630 3.5 88.5 1.0
HD11 F:ILE633 3.6 0.0 1.0
HG13 F:ILE629 3.7 0.7 1.0
HB3 F:ASP630 3.7 0.3 1.0
HD12 F:ILE633 3.7 0.0 1.0
CB F:ASP630 3.8 0.4 1.0
HD3 F:ARG586 3.8 0.7 1.0
CA F:ALA583 3.9 66.8 1.0
CB F:ALA583 3.9 64.5 1.0
CD1 F:ILE633 4.1 0.5 1.0
NH1 F:ARG586 4.1 0.9 1.0
N F:ALA583 4.2 68.7 1.0
HB1 F:ALA583 4.2 77.4 1.0
HG21 F:ILE601 4.2 92.3 1.0
HD2 F:ARG586 4.2 0.7 1.0
H F:ALA583 4.2 82.4 1.0
CA F:ASP630 4.2 94.7 1.0
CA F:ILE629 4.3 88.4 1.0
HB F:ILE582 4.3 94.1 1.0
HH12 F:ARG586 4.4 0.5 1.0
C F:ILE629 4.4 89.1 1.0
O F:ILE628 4.4 87.5 1.0
CD F:ARG586 4.5 0.4 1.0
HG22 F:ILE582 4.5 86.9 1.0
CG1 F:ILE629 4.5 86.4 1.0
HD13 F:ILE633 4.6 0.0 1.0
HG12 F:ILE629 4.6 0.7 1.0
CG1 F:ILE601 4.7 0.5 1.0
HA F:ASP630 4.7 0.6 1.0
HB3 F:LEU579 4.7 69.9 1.0
HB3 F:ALA583 4.8 77.4 1.0
C F:ILE582 4.8 81.2 1.0
O F:LEU579 4.8 93.5 1.0
HG12 F:ILE601 4.9 0.4 1.0

Reference:

P.Hanzelmann, H.Schindelin. Characterization of An Additional Binding Surface on the P97 N-Terminal Domain Involved in Bipartite Cofactor Interactions. Structure V. 24 140 2016.
ISSN: ISSN 0969-2126
PubMed: 26712280
DOI: 10.1016/J.STR.2015.10.027
Page generated: Sat Dec 12 11:34:00 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