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Zinc in PDB 9h0b: Crystal Structure of the Porcine Hemagglutinating Encephalomyelitis Virus (Phev) Receptor Binding Domain in Complex with Porcine DPEP1.

Enzymatic activity of Crystal Structure of the Porcine Hemagglutinating Encephalomyelitis Virus (Phev) Receptor Binding Domain in Complex with Porcine DPEP1.

All present enzymatic activity of Crystal Structure of the Porcine Hemagglutinating Encephalomyelitis Virus (Phev) Receptor Binding Domain in Complex with Porcine DPEP1.:
3.4.13.19; 3.5.2.6;

Protein crystallography data

The structure of Crystal Structure of the Porcine Hemagglutinating Encephalomyelitis Virus (Phev) Receptor Binding Domain in Complex with Porcine DPEP1., PDB code: 9h0b was solved by I.Fernandez, F.Rey, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 48.33 / 2.25
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 96.72, 73.01, 136.62, 90, 91.94, 90
R / Rfree (%) 19.8 / 23.5

Zinc Binding Sites:

Pages:

>>> Page 1 <<< Page 2, Binding sites: 11 - 16;

Binding sites:

The binding sites of Zinc atom in the Crystal Structure of the Porcine Hemagglutinating Encephalomyelitis Virus (Phev) Receptor Binding Domain in Complex with Porcine DPEP1. (pdb code 9h0b). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 16 binding sites of Zinc where determined in the Crystal Structure of the Porcine Hemagglutinating Encephalomyelitis Virus (Phev) Receptor Binding Domain in Complex with Porcine DPEP1., PDB code: 9h0b:
Jump to Zinc binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Zinc binding site 1 out of 16 in 9h0b

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Zinc binding site 1 out of 16 in the Crystal Structure of the Porcine Hemagglutinating Encephalomyelitis Virus (Phev) Receptor Binding Domain in Complex with Porcine DPEP1.


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Crystal Structure of the Porcine Hemagglutinating Encephalomyelitis Virus (Phev) Receptor Binding Domain in Complex with Porcine DPEP1. within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn401

b:60.7
occ:1.00
 NE2 C:GLN50 2.3 43.9 1.0
O C:HOH558 2.6 42.2 1.0
OE1 B:GLU366 2.7 70.5 1.0
CD C:GLN50 3.2 35.9 1.0
OE2 B:GLU366 3.3 75.1 1.0
CD B:GLU366 3.3 64.5 1.0
OE1 C:GLN50 3.4 40.2 1.0
OD1 C:ASP53 4.1 48.0 1.0
CD B:PRO367 4.3 39.4 1.0
OD2 C:ASP53 4.4 63.9 1.0
CG C:GLN50 4.6 36.9 1.0
CG C:ASP53 4.7 53.0 1.0
CG B:GLU366 4.7 48.3 1.0
O B:HOH660 5.0 59.6 1.0
CG B:PRO367 5.0 46.7 1.0

Zinc binding site 2 out of 16 in 9h0b

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Zinc binding site 2 out of 16 in the Crystal Structure of the Porcine Hemagglutinating Encephalomyelitis Virus (Phev) Receptor Binding Domain in Complex with Porcine DPEP1.


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Crystal Structure of the Porcine Hemagglutinating Encephalomyelitis Virus (Phev) Receptor Binding Domain in Complex with Porcine DPEP1. within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn402

b:58.5
occ:1.00
 ND1 B:HIS359 2.3 40.7 1.0
CE1 B:HIS359 3.2 40.5 1.0
CG B:HIS359 3.2 36.6 1.0
CB B:HIS359 3.6 30.0 1.0
NE2 B:HIS359 4.3 33.6 1.0
CD2 B:HIS359 4.3 37.1 1.0

Zinc binding site 3 out of 16 in 9h0b

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Zinc binding site 3 out of 16 in the Crystal Structure of the Porcine Hemagglutinating Encephalomyelitis Virus (Phev) Receptor Binding Domain in Complex with Porcine DPEP1.


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Crystal Structure of the Porcine Hemagglutinating Encephalomyelitis Virus (Phev) Receptor Binding Domain in Complex with Porcine DPEP1. within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn403

b:63.7
occ:1.00
 NE2 B:GLN50 2.3 36.7 1.0
OE1 C:GLU366 2.6 62.4 1.0
O B:HOH671 2.7 61.0 1.0
OE2 C:GLU366 3.1 69.2 1.0
CD B:GLN50 3.1 36.6 1.0
OE1 B:GLN50 3.1 37.6 1.0
CD C:GLU366 3.1 63.5 1.0
OD1 B:ASP53 4.0 44.5 1.0
OD2 B:ASP53 4.4 62.6 1.0
CD C:PRO367 4.4 38.4 1.0
CG B:GLN50 4.5 40.4 1.0
CG C:GLU366 4.5 51.4 1.0
CG B:ASP53 4.6 54.6 1.0
O C:HOH561 4.6 46.3 1.0

Zinc binding site 4 out of 16 in 9h0b

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Zinc binding site 4 out of 16 in the Crystal Structure of the Porcine Hemagglutinating Encephalomyelitis Virus (Phev) Receptor Binding Domain in Complex with Porcine DPEP1.


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of Crystal Structure of the Porcine Hemagglutinating Encephalomyelitis Virus (Phev) Receptor Binding Domain in Complex with Porcine DPEP1. within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn404

b:64.3
occ:1.00
 NE2 B:HIS63 2.2 46.1 1.0
CE1 B:HIS63 2.7 40.0 1.0
CD2 B:HIS63 3.5 41.1 1.0
ND1 B:HIS63 3.9 43.1 1.0
CG B:HIS63 4.3 42.2 1.0

Zinc binding site 5 out of 16 in 9h0b

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Zinc binding site 5 out of 16 in the Crystal Structure of the Porcine Hemagglutinating Encephalomyelitis Virus (Phev) Receptor Binding Domain in Complex with Porcine DPEP1.


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 5 of Crystal Structure of the Porcine Hemagglutinating Encephalomyelitis Virus (Phev) Receptor Binding Domain in Complex with Porcine DPEP1. within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn405

b:85.3
occ:1.00
 NE2 B:HIS194 2.3 62.2 1.0
CD2 B:HIS194 3.0 61.1 1.0
CE1 B:HIS194 3.5 61.4 1.0
O B:HOH693 3.8 42.9 1.0
CG B:HIS194 4.2 59.3 1.0
CG B:GLU366 4.4 48.3 1.0
ND1 B:HIS194 4.4 60.9 1.0
O B:HOH660 4.7 59.6 1.0
CD B:GLU366 4.8 64.5 1.0

Zinc binding site 6 out of 16 in 9h0b

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Zinc binding site 6 out of 16 in the Crystal Structure of the Porcine Hemagglutinating Encephalomyelitis Virus (Phev) Receptor Binding Domain in Complex with Porcine DPEP1.


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 6 of Crystal Structure of the Porcine Hemagglutinating Encephalomyelitis Virus (Phev) Receptor Binding Domain in Complex with Porcine DPEP1. within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn406

b:32.0
occ:1.00
 OE1 B:GLU141 2.1 27.2 1.0
OD2 B:ASP38 2.2 27.4 1.0
NE2 B:HIS36 2.3 29.4 1.0
CD B:GLU141 2.8 31.6 1.0
OE2 B:GLU141 2.9 24.3 1.0
CG B:ASP38 3.0 36.0 1.0
OD1 B:ASP38 3.2 33.9 1.0
CD2 B:HIS36 3.2 27.1 1.0
ZN B:ZN407 3.2 31.6 1.0
CE1 B:HIS36 3.3 27.9 1.0
OD1 B:ASP304 3.8 27.8 1.0
O B:HOH606 3.9 33.6 1.0
OG B:SER82 4.1 25.6 1.0
NE2 B:HIS235 4.1 27.1 1.0
CG B:GLU141 4.3 24.8 1.0
CG B:HIS36 4.4 29.4 1.0
ND1 B:HIS36 4.4 27.2 1.0
CB B:ASP38 4.4 30.7 1.0
O B:HOH675 4.6 43.7 1.0
CB B:SER82 4.6 26.0 1.0
CB B:TYR84 4.7 23.9 1.0
CE1 B:HIS235 4.7 28.3 1.0
CB B:GLU141 4.8 26.1 1.0
CG B:TYR84 4.8 30.9 1.0
CD2 B:HIS235 4.8 28.4 1.0
CG B:ASP304 4.9 25.7 1.0
CA B:GLY307 5.0 23.1 1.0

Zinc binding site 7 out of 16 in 9h0b

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Zinc binding site 7 out of 16 in the Crystal Structure of the Porcine Hemagglutinating Encephalomyelitis Virus (Phev) Receptor Binding Domain in Complex with Porcine DPEP1.


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 7 of Crystal Structure of the Porcine Hemagglutinating Encephalomyelitis Virus (Phev) Receptor Binding Domain in Complex with Porcine DPEP1. within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn407

b:31.6
occ:1.00
 OE2 B:GLU141 2.0 24.3 1.0
NE2 B:HIS214 2.2 27.9 1.0
NE2 B:HIS235 2.3 27.1 1.0
O B:HOH665 3.0 23.3 1.0
CD2 B:HIS214 3.1 26.1 1.0
CD B:GLU141 3.1 31.6 1.0
CD2 B:HIS235 3.1 28.4 1.0
ZN B:ZN406 3.2 32.0 1.0
O B:HOH606 3.2 33.6 1.0
CE1 B:HIS214 3.3 31.1 1.0
CE1 B:HIS235 3.3 28.3 1.0
OE1 B:GLU141 3.6 27.2 1.0
NH2 B:ARG246 3.8 23.2 1.0
NE2 B:HIS36 3.9 29.4 1.0
OD1 B:ASP304 4.2 27.8 1.0
NE2 B:HIS168 4.2 31.4 1.0
CG B:HIS214 4.3 26.3 1.0
OD2 B:ASP304 4.3 33.1 1.0
CD2 B:HIS168 4.3 33.0 1.0
CG B:GLU141 4.3 24.8 1.0
CG B:HIS235 4.3 30.1 1.0
ND1 B:HIS214 4.4 32.0 1.0
CD2 B:HIS36 4.4 27.1 1.0
ND1 B:HIS235 4.4 32.4 1.0
CE1 B:HIS36 4.6 27.9 1.0
CG B:ASP304 4.6 25.7 1.0
CZ B:ARG246 4.8 29.5 1.0
NE B:ARG246 4.9 30.5 1.0

Zinc binding site 8 out of 16 in 9h0b

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Zinc binding site 8 out of 16 in the Crystal Structure of the Porcine Hemagglutinating Encephalomyelitis Virus (Phev) Receptor Binding Domain in Complex with Porcine DPEP1.


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 8 of Crystal Structure of the Porcine Hemagglutinating Encephalomyelitis Virus (Phev) Receptor Binding Domain in Complex with Porcine DPEP1. within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn408

b:73.6
occ:1.00
 O B:HIS158 2.2 30.8 1.0
NE2 C:HIS158 2.4 49.4 1.0
CD2 C:HIS158 3.0 39.0 1.0
ND1 B:HIS158 3.1 42.5 1.0
C B:HIS158 3.4 34.0 1.0
O B:HOH661 3.4 39.5 1.0
O C:HOH501 3.4 31.3 1.0
CE1 C:HIS158 3.5 46.1 1.0
CE1 B:HIS158 3.9 37.2 1.0
CG B:HIS158 4.0 56.3 1.0
CA B:HIS158 4.1 34.6 1.0
CG C:HIS158 4.2 54.4 1.0
CB B:HIS158 4.2 32.5 1.0
N B:LEU159 4.4 28.7 1.0
ND1 C:HIS158 4.4 37.6 1.0
CA B:LEU159 4.7 36.2 1.0
O C:HIS158 4.8 36.5 1.0
NE2 B:HIS158 4.9 50.8 1.0

Zinc binding site 9 out of 16 in 9h0b

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Zinc binding site 9 out of 16 in the Crystal Structure of the Porcine Hemagglutinating Encephalomyelitis Virus (Phev) Receptor Binding Domain in Complex with Porcine DPEP1.


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 9 of Crystal Structure of the Porcine Hemagglutinating Encephalomyelitis Virus (Phev) Receptor Binding Domain in Complex with Porcine DPEP1. within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn409

b:41.0
occ:1.00
 ND1 B:HIS289 2.3 31.7 1.0
O B:HOH704 2.5 30.1 1.0
CE1 B:HIS289 3.0 28.4 1.0
CG B:HIS289 3.4 36.2 1.0
CB B:HIS289 3.9 26.3 1.0
NE2 B:HIS289 4.1 30.5 1.0
O B:HOH656 4.2 34.9 1.0
CD2 B:HIS289 4.4 35.3 1.0
CA B:HIS289 4.5 35.1 1.0
CD2 B:LEU241 4.6 43.3 1.0
CG B:LEU241 4.8 34.6 1.0

Zinc binding site 10 out of 16 in 9h0b

Go back to Zinc Binding Sites List in 9h0b
Zinc binding site 10 out of 16 in the Crystal Structure of the Porcine Hemagglutinating Encephalomyelitis Virus (Phev) Receptor Binding Domain in Complex with Porcine DPEP1.


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 10 of Crystal Structure of the Porcine Hemagglutinating Encephalomyelitis Virus (Phev) Receptor Binding Domain in Complex with Porcine DPEP1. within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Zn401

b:58.6
occ:1.00
 ND1 C:HIS359 2.3 46.6 1.0
CE1 C:HIS359 3.2 44.8 1.0
CG C:HIS359 3.2 47.3 1.0
CB C:HIS359 3.5 40.6 1.0
NE2 C:HIS359 4.3 41.8 1.0
CD2 C:HIS359 4.3 43.5 1.0

Reference:

J.Dufloo, I.Fernandez, F.A.Rey, R.Sanjuan. DPEP1 Is the Cell Receptor of Theporcine Hemagglutinanting Encephalomyelitis Virus To Be Published.
Page generated: Fri Aug 22 18:00:34 2025

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