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Chlorine in PDB 7pzz: Crystal Structure of Serine Hydroxymethyltransferase, Isoform 2 From Arabidopsis Thaliana (SHM2)

Enzymatic activity of Crystal Structure of Serine Hydroxymethyltransferase, Isoform 2 From Arabidopsis Thaliana (SHM2)

All present enzymatic activity of Crystal Structure of Serine Hydroxymethyltransferase, Isoform 2 From Arabidopsis Thaliana (SHM2):
2.1.2.1;

Protein crystallography data

The structure of Crystal Structure of Serine Hydroxymethyltransferase, Isoform 2 From Arabidopsis Thaliana (SHM2), PDB code: 7pzz was solved by M.Ruszkowski, B.Sekula, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 53.84 / 1.65
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 115.201, 131.236, 151.389, 90, 90, 90
R / Rfree (%) 15.8 / 17.8

Chlorine Binding Sites:

The binding sites of Chlorine atom in the Crystal Structure of Serine Hydroxymethyltransferase, Isoform 2 From Arabidopsis Thaliana (SHM2) (pdb code 7pzz). This binding sites where shown within 5.0 Angstroms radius around Chlorine atom.
In total 4 binding sites of Chlorine where determined in the Crystal Structure of Serine Hydroxymethyltransferase, Isoform 2 From Arabidopsis Thaliana (SHM2), PDB code: 7pzz:
Jump to Chlorine binding site number: 1; 2; 3; 4;

Chlorine binding site 1 out of 4 in 7pzz

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Chlorine binding site 1 out of 4 in the Crystal Structure of Serine Hydroxymethyltransferase, Isoform 2 From Arabidopsis Thaliana (SHM2)


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 1 of Crystal Structure of Serine Hydroxymethyltransferase, Isoform 2 From Arabidopsis Thaliana (SHM2) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl607

b:27.2
occ:1.00
 NH1 A:ARG430 2.9 37.2 1.0
OG A:SER82 3.2 18.7 1.0
CD A:PRO81 3.5 16.7 1.0
CD A:ARG430 3.5 29.1 1.0
CG A:PRO81 3.6 21.9 1.0
N A:SER82 3.6 15.1 1.0
CB A:SER82 3.6 16.6 1.0
CZ A:ARG430 3.7 37.4 1.0
CE1 A:HIS260 3.7 19.3 1.0
NE2 A:HIS260 3.9 17.1 1.0
CG2 A:ILE80 3.9 16.9 1.0
NE A:ARG430 3.9 38.1 1.0
CE1 B:TYR112 4.0 38.0 1.0
N A:PRO81 4.0 15.1 1.0
OD1 A:ASN413 4.1 33.3 1.0
CA A:SER82 4.2 14.6 1.0
ND2 A:ASN413 4.3 41.3 1.0
OH B:TYR112 4.3 36.5 1.0
C A:PRO81 4.4 15.4 1.0
CG A:ASN413 4.5 37.6 1.0
CB A:PRO81 4.5 20.4 1.0
CA A:PRO81 4.5 14.3 1.0
CZ B:TYR112 4.7 34.4 1.0
O B:HOH900 4.7 27.4 1.0
C A:ILE80 4.7 14.4 1.0
NH2 A:ARG430 4.7 39.1 1.0
CG A:ARG430 4.8 26.3 1.0
CD1 B:TYR112 5.0 36.9 1.0

Chlorine binding site 2 out of 4 in 7pzz

Go back to Chlorine Binding Sites List in 7pzz
Chlorine binding site 2 out of 4 in the Crystal Structure of Serine Hydroxymethyltransferase, Isoform 2 From Arabidopsis Thaliana (SHM2)


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 2 of Crystal Structure of Serine Hydroxymethyltransferase, Isoform 2 From Arabidopsis Thaliana (SHM2) within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Cl608

b:27.9
occ:1.00
 OG B:SER82 3.2 21.1 1.0
NE B:ARG430 3.3 42.6 1.0
N B:SER82 3.6 16.0 1.0
NH2 B:ARG430 3.6 50.7 1.0
CG B:PRO81 3.6 23.6 1.0
CB B:SER82 3.6 18.9 1.0
ND2 B:ASN413 3.7 49.7 1.0
CD B:PRO81 3.7 20.8 1.0
CE1 B:HIS260 3.8 20.8 1.0
CZ B:ARG430 3.8 45.9 1.0
CG2 B:ILE80 3.9 21.4 1.0
NE2 B:HIS260 4.0 19.8 1.0
N B:PRO81 4.0 17.9 1.0
CA B:SER82 4.2 14.8 1.0
CD B:ARG430 4.2 32.5 1.0
CE2 A:TYR112 4.3 34.5 1.0
C B:PRO81 4.4 17.1 1.0
CB B:PRO81 4.4 22.2 1.0
CA B:PRO81 4.5 16.9 1.0
OH A:TYR112 4.6 44.0 1.0
C B:ILE80 4.7 17.7 1.0
O A:HOH957 4.7 31.6 1.0
CG B:ASN413 4.9 46.9 1.0
CG B:ARG430 5.0 34.7 1.0

Chlorine binding site 3 out of 4 in 7pzz

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Chlorine binding site 3 out of 4 in the Crystal Structure of Serine Hydroxymethyltransferase, Isoform 2 From Arabidopsis Thaliana (SHM2)


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 3 of Crystal Structure of Serine Hydroxymethyltransferase, Isoform 2 From Arabidopsis Thaliana (SHM2) within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Cl613

b:22.1
occ:1.00
 OG C:SER82 3.1 17.9 1.0
ND2 C:ASN413 3.3 29.9 1.0
CG C:PRO81 3.5 21.1 1.0
N C:SER82 3.5 15.4 1.0
CB C:SER82 3.6 15.0 1.0
CD C:PRO81 3.6 17.6 1.0
NH1 C:ARG430 3.6 32.0 1.0
O C:HOH994 3.7 32.5 1.0
CD C:ARG430 3.7 30.4 1.0
CE1 C:HIS260 3.7 17.2 1.0
CG2 C:ILE80 3.9 15.9 1.0
N C:PRO81 4.0 14.4 1.0
NE2 C:HIS260 4.0 16.8 1.0
CA C:SER82 4.2 14.9 1.0
CZ C:ARG430 4.2 34.6 1.0
NE C:ARG430 4.3 29.4 1.0
O D:HOH853 4.3 38.8 1.0
C C:PRO81 4.3 14.7 1.0
CG C:ASN413 4.3 34.1 1.0
CB C:PRO81 4.4 16.4 1.0
CA C:PRO81 4.4 14.7 1.0
CB C:ASN413 4.5 26.4 1.0
C C:ILE80 4.7 13.5 1.0
O C:HOH1150 4.8 27.9 1.0
CG C:ARG430 4.8 29.4 1.0
O D:HOH779 4.9 34.9 1.0

Chlorine binding site 4 out of 4 in 7pzz

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Chlorine binding site 4 out of 4 in the Crystal Structure of Serine Hydroxymethyltransferase, Isoform 2 From Arabidopsis Thaliana (SHM2)


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 4 of Crystal Structure of Serine Hydroxymethyltransferase, Isoform 2 From Arabidopsis Thaliana (SHM2) within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Cl609

b:29.4
occ:1.00
 OG D:SER82 3.3 21.5 1.0
NE D:ARG430 3.3 31.7 1.0
OH C:TYR112 3.4 30.0 1.0
NH2 D:ARG430 3.5 36.8 1.0
N D:SER82 3.5 17.8 1.0
CB D:SER82 3.6 18.4 1.0
CD D:PRO81 3.6 19.1 1.0
CG D:PRO81 3.6 25.9 1.0
CE1 D:HIS260 3.7 20.6 1.0
CZ D:ARG430 3.8 30.7 1.0
CG2 D:ILE80 3.9 21.8 1.0
NE2 D:HIS260 3.9 20.4 1.0
N D:PRO81 3.9 22.2 1.0
O D:HOH1045 4.1 33.1 1.0
ND2 D:ASN413 4.1 37.1 1.0
CA D:SER82 4.2 17.4 1.0
C D:PRO81 4.3 20.3 1.0
CZ C:TYR112 4.3 29.9 1.0
CD D:ARG430 4.3 27.6 1.0
CB D:PRO81 4.4 23.2 1.0
CA D:PRO81 4.4 18.9 1.0
CE2 C:TYR112 4.6 24.9 1.0
C D:ILE80 4.6 18.3 1.0
O D:HOH1128 5.0 37.0 1.0
ND1 D:HIS260 5.0 19.4 1.0

Reference:

I.Nogues, B.Sekula, S.Angelaccio, M.Grzechowiak, A.Tramonti, R.Contestabile, M.Ruszkowski. Arabidopsis Thaliana Serine Hydroxymethyltransferases: Functions, Structures, and Perspectives. Plant Physiol Biochem. V. 187 37 2022.
ISSN: ESSN 1873-2690
PubMed: 35947902
DOI: 10.1016/J.PLAPHY.2022.07.025
Page generated: Sun Jul 13 06:03:12 2025

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