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

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

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 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 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

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