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Chlorine in PDB 2yko: Structure of the Human Line-1 ORF1P Trimer

Protein crystallography data

The structure of Structure of the Human Line-1 ORF1P Trimer, PDB code: 2yko was solved by E.Khazina, O.Weichenrieder, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 36.824 / 2.10
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 72.690, 85.420, 111.450, 90.00, 90.00, 90.00
R / Rfree (%) 20.81 / 26.39

Chlorine Binding Sites:

The binding sites of Chlorine atom in the Structure of the Human Line-1 ORF1P Trimer (pdb code 2yko). This binding sites where shown within 5.0 Angstroms radius around Chlorine atom.
In total 2 binding sites of Chlorine where determined in the Structure of the Human Line-1 ORF1P Trimer, PDB code: 2yko:
Jump to Chlorine binding site number: 1; 2;

Chlorine binding site 1 out of 2 in 2yko

Go back to Chlorine Binding Sites List in 2yko
Chlorine binding site 1 out of 2 in the Structure of the Human Line-1 ORF1P Trimer


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 1 of Structure of the Human Line-1 ORF1P Trimer within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl1324

b:30.2
occ:1.00
HD21 B:ASN142 2.3 28.0 1.0
HD21 C:ASN142 2.3 33.4 1.0
HD21 A:ASN142 2.4 27.4 1.0
ND2 B:ASN142 3.1 23.3 1.0
HA C:ILE139 3.2 34.6 1.0
ND2 C:ASN142 3.2 27.8 1.0
HG12 A:ILE139 3.3 32.7 1.0
HG12 C:ILE139 3.3 35.4 1.0
ND2 A:ASN142 3.3 22.8 1.0
HA B:ILE139 3.3 36.0 1.0
HG12 B:ILE139 3.3 40.4 1.0
HA A:ILE139 3.4 33.3 1.0
HG21 A:ILE139 3.4 35.0 1.0
HB2 C:ASN142 3.4 33.4 1.0
HG21 C:ILE139 3.5 36.2 1.0
HB2 B:ASN142 3.5 34.5 1.0
HB2 A:ASN142 3.5 32.6 1.0
HD22 B:ASN142 3.6 28.0 1.0
HD22 C:ASN142 3.6 33.4 1.0
HD22 A:ASN142 3.8 27.4 1.0
HG21 B:ILE139 3.8 25.4 1.0
HB3 B:ASN142 3.9 34.5 1.0
HB3 C:ASN142 3.9 33.4 1.0
HB3 A:ASN142 3.9 32.6 1.0
CB C:ASN142 4.0 27.8 1.0
CB B:ASN142 4.0 28.7 1.0
CG B:ASN142 4.0 30.9 1.0
CB A:ASN142 4.0 27.1 1.0
CG C:ASN142 4.0 30.0 1.0
CA C:ILE139 4.1 28.8 1.0
CG A:ASN142 4.1 28.9 1.0
CG1 C:ILE139 4.1 29.5 1.0
CG1 A:ILE139 4.1 27.2 1.0
CG1 B:ILE139 4.2 33.7 1.0
CA B:ILE139 4.2 29.9 1.0
CA A:ILE139 4.2 27.7 1.0
CG2 A:ILE139 4.3 29.2 1.0
CG2 C:ILE139 4.3 30.1 1.0
CB C:ILE139 4.4 33.0 1.0
CB A:ILE139 4.4 29.6 1.0
CB B:ILE139 4.5 27.8 1.0
HG13 C:ILE139 4.6 35.4 1.0
CG2 B:ILE139 4.6 21.1 1.0
HG13 A:ILE139 4.6 32.7 1.0
HG13 B:ILE139 4.6 40.4 1.0
O C:ILE139 4.7 28.1 1.0
HG22 A:ILE139 4.8 35.0 1.0
HG23 A:ILE139 4.8 35.0 1.0
HG23 C:ILE139 4.9 36.2 1.0
HG22 C:ILE139 4.9 36.2 1.0
O B:ILE139 4.9 28.2 1.0
O A:ILE139 4.9 24.6 1.0
C C:ILE139 4.9 26.3 1.0
N C:ILE139 5.0 28.8 1.0
O B:ARG138 5.0 33.1 1.0

Chlorine binding site 2 out of 2 in 2yko

Go back to Chlorine Binding Sites List in 2yko
Chlorine binding site 2 out of 2 in the Structure of the Human Line-1 ORF1P Trimer


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 2 of Structure of the Human Line-1 ORF1P Trimer within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl1325

b:54.6
occ:1.00
HE B:ARG135 2.1 37.4 0.5
HH21 C:ARG135 2.2 44.6 1.0
HE C:ARG135 2.3 44.6 1.0
HH21 B:ARG135 2.5 43.0 0.5
HH21 A:ARG135 2.5 52.8 1.0
NE B:ARG135 2.9 31.2 0.5
HE A:ARG135 2.9 63.1 1.0
NH2 C:ARG135 3.0 37.1 1.0
HH11 B:ARG135 3.1 43.5 0.5
NE C:ARG135 3.1 37.1 1.0
NH2 B:ARG135 3.2 35.8 0.5
HD2 B:ARG135 3.3 38.8 0.5
NH2 A:ARG135 3.3 43.9 1.0
O B:HOH2007 3.3 45.1 1.0
CZ B:ARG135 3.5 36.1 0.5
CZ C:ARG135 3.5 35.1 1.0
HD3 B:ARG135 3.6 38.8 0.5
NE A:ARG135 3.6 52.5 1.0
HA2 B:GLY132 3.6 30.8 1.0
HH22 C:ARG135 3.7 44.6 1.0
HA2 C:GLY132 3.8 44.1 1.0
HH22 A:ARG135 3.9 52.8 1.0
CD B:ARG135 3.9 32.3 0.5
CZ A:ARG135 3.9 49.3 1.0
NH1 B:ARG135 3.9 36.2 0.5
HH22 B:ARG135 3.9 43.0 0.5
HD2 B:ARG135 4.0 38.3 0.5
HB2 B:ARG135 4.0 37.5 0.5
HB2 B:ARG135 4.0 37.5 0.5
CD B:ARG135 4.1 31.9 0.5
HB2 C:ARG135 4.1 34.4 1.0
HA2 A:GLY132 4.2 37.1 1.0
HB3 B:ARG135 4.3 37.5 0.5
HH12 B:ARG135 4.3 43.5 0.5
HB3 B:ARG135 4.3 37.5 0.5
HD2 C:ARG135 4.3 39.2 1.0
CD C:ARG135 4.3 32.6 1.0
HB3 A:ARG135 4.3 39.3 1.0
HG2 A:ARG135 4.4 51.3 1.0
HA3 B:GLY132 4.4 30.8 1.0
CA B:GLY132 4.5 25.6 1.0
HA3 C:GLY132 4.5 44.1 1.0
CB B:ARG135 4.5 31.2 0.5
CB B:ARG135 4.5 31.3 0.5
HB2 A:ARG135 4.6 39.3 1.0
CA C:GLY132 4.6 36.7 1.0
HB3 C:ARG135 4.6 34.4 1.0
O B:HOH2005 4.7 39.5 1.0
HD3 B:ARG135 4.7 38.3 0.5
CB C:ARG135 4.7 28.6 1.0
CB A:ARG135 4.8 32.7 1.0
CD A:ARG135 4.8 49.0 1.0
NH1 B:ARG135 4.8 38.5 0.5
NH1 C:ARG135 4.8 30.1 1.0
CG B:ARG135 4.8 32.2 0.5
CG A:ARG135 4.9 42.7 1.0
NE B:ARG135 4.9 34.0 0.5
CG B:ARG135 4.9 32.0 0.5
CZ B:ARG135 4.9 37.8 0.5
O B:GLY132 5.0 36.1 1.0

Reference:

E.Khazina, V.Truffault, R.Buettner, S.Schmidt, M.Coles, O.Weichenrieder. Trimeric Structure and Flexibility of the L1ORF1P Protein in Human L1 Retrotransposition Nat.Struct.Mol.Biol. V. 18 1006 2011.
ISSN: ISSN 1545-9993
PubMed: 21822284
DOI: 10.1038/NSMB.2097
Page generated: Sat Dec 12 09:29:20 2020

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