Chlorine in PDB 6bla: Structure of AMM01 Fab, An Anti Ebv Gh/Gl Neutralizing Antibody

The structure of Structure of AMM01 Fab, An Anti Ebv Gh/Gl Neutralizing Antibody, PDB code: 6bla was solved by M.Pancera, C.Weidle, Seattle Structural Genomics Center For Infectiousdisease (Ssgcid), with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	48.81 / 1.55
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	49.893, 69.937, 136.313, 90.00, 90.00, 90.00
R / Rfree (%)	16.6 / 19.4

The binding sites of Chlorine atom in the Structure of AMM01 Fab, An Anti Ebv Gh/Gl Neutralizing Antibody (pdb code 6bla). This binding sites where shown within 5.0 Angstroms radius around Chlorine atom.
In total 6 binding sites of Chlorine where determined in the Structure of AMM01 Fab, An Anti Ebv Gh/Gl Neutralizing Antibody, PDB code: 6bla:
Jump to Chlorine binding site number: 1; 2; 3; 4; 5; 6;

Chlorine binding site 1 out of 6 in the Structure of AMM01 Fab, An Anti Ebv Gh/Gl Neutralizing Antibody


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 1 of Structure of AMM01 Fab, An Anti Ebv Gh/Gl Neutralizing Antibody within 5.0Å range: probe atom residue distance (Å) B Occ H:Cl307 b:30.8 occ:1.00 H H:TRP47 2.4 29.9 1.0 H L:PHE101 2.6 30.3 1.0 HA H:GLU46 2.7 30.9 1.0 HA L:VAL100 2.8 34.3 1.0 HD2 L:PHE101 3.1 30.1 1.0 O H:HOH446 3.2 33.5 1.0 N H:TRP47 3.3 24.9 1.0 N L:PHE101 3.4 25.2 1.0 HG13 L:VAL100 3.5 37.4 0.5 HB3 H:TRP47 3.6 29.7 1.0 CA H:GLU46 3.6 25.7 1.0 HB2 L:PHE101 3.6 30.8 1.0 CA L:VAL100 3.7 28.6 0.5 CA L:VAL100 3.7 28.5 0.5 C H:GLU46 4.0 25.1 1.0 CD2 L:PHE101 4.0 25.0 1.0 HG22 L:VAL100 4.0 50.1 0.5 HB3 H:GLU46 4.0 34.2 1.0 HB2 H:TRP47 4.0 29.7 1.0 C L:VAL100 4.1 27.8 1.0 HG12 L:VAL100 4.1 50.6 0.5 HB L:VAL100 4.1 40.9 0.5 O H:LEU45 4.1 27.8 1.0 CB H:TRP47 4.1 24.7 1.0 HG2 H:GLU46 4.1 72.2 1.0 O L:TYR99 4.2 28.1 1.0 CA H:TRP47 4.3 22.8 1.0 CB H:GLU46 4.3 28.5 1.0 CG1 L:VAL100 4.3 31.1 0.5 CB L:PHE101 4.3 25.7 1.0 O L:HOH457 4.4 39.2 1.0 CB L:VAL100 4.4 34.1 0.5 CA L:PHE101 4.4 25.3 1.0 CB L:VAL100 4.5 33.9 0.5 HG12 L:VAL100 4.6 37.4 0.5 O L:PHE101 4.6 27.3 1.0 CG L:PHE101 4.6 25.8 1.0 N H:GLU46 4.7 25.1 1.0 CG2 L:VAL100 4.7 41.8 0.5 N L:VAL100 4.7 27.2 1.0 O H:TRP47 4.7 25.9 1.0 CG1 L:VAL100 4.7 42.1 0.5 CG H:GLU46 4.8 60.1 1.0 C H:LEU45 4.8 28.4 1.0 C L:TYR99 4.8 28.5 1.0 HE2 L:PHE101 4.9 32.5 1.0 CE2 L:PHE101 4.9 27.0 1.0 C L:PHE101 5.0 26.8 1.0

Chlorine binding site 2 out of 6 in the Structure of AMM01 Fab, An Anti Ebv Gh/Gl Neutralizing Antibody


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 2 of Structure of AMM01 Fab, An Anti Ebv Gh/Gl Neutralizing Antibody within 5.0Å range: probe atom residue distance (Å) B Occ H:Cl308 b:74.4 occ:1.00 HH H:TYR79 2.5 37.4 1.0 HE1 H:TYR79 3.2 31.0 1.0 OH H:TYR79 3.3 31.1 1.0 HG21 H:THR77 3.3 32.9 1.0 HG H:SER21 3.6 32.7 1.0 HB2 H:SER21 3.7 31.2 1.0 HB3 H:SER21 3.7 31.2 1.0 CE1 H:TYR79 3.8 25.8 1.0 CZ H:TYR79 4.0 25.2 1.0 O H:HOH463 4.0 37.9 1.0 HD2 H:LYS23 4.0 0.6 1.0 CB H:SER21 4.0 26.0 1.0 OG H:SER21 4.2 27.2 1.0 HG3 H:LYS23 4.2 80.7 1.0 CG2 H:THR77 4.2 27.4 1.0 HG23 H:THR77 4.5 32.9 1.0 H22 H:PEG304 4.5 0.2 1.0 H12 H:PEG304 4.7 93.2 1.0 HG22 H:THR77 4.7 32.9 1.0 O H:HOH432 4.8 25.7 1.0 CD H:LYS23 4.8 0.1 1.0 HG2 H:LYS23 4.8 80.7 1.0 CG H:LYS23 4.8 67.2 1.0 O H:HOH549 4.8 41.7 1.0 OG1 H:THR77 4.9 27.9 1.0 O H:HOH425 4.9 36.6 1.0

Chlorine binding site 3 out of 6 in the Structure of AMM01 Fab, An Anti Ebv Gh/Gl Neutralizing Antibody


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 3 of Structure of AMM01 Fab, An Anti Ebv Gh/Gl Neutralizing Antibody within 5.0Å range: probe atom residue distance (Å) B Occ H:Cl309 b:83.8 occ:1.00 HG13 L:VAL44 3.6 38.1 1.0 O H:HOH462 3.7 32.8 1.0 HE1 H:TYR108 3.9 41.1 1.0 O L:HOH430 4.2 34.0 1.0 O L:HOH412 4.2 47.7 1.0 HG22 L:VAL44 4.2 36.4 1.0 HD1 H:TYR108 4.2 33.3 1.0 O H:HOH499 4.3 34.6 1.0 CE1 H:TYR108 4.3 34.2 1.0 CG1 L:VAL44 4.5 31.7 1.0 CD1 H:TYR108 4.5 27.7 1.0 HG11 L:VAL44 4.6 38.1 1.0 O H:ASP107 4.8 28.9 1.0 CG2 L:VAL44 5.0 30.3 1.0

Chlorine binding site 4 out of 6 in the Structure of AMM01 Fab, An Anti Ebv Gh/Gl Neutralizing Antibody


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 4 of Structure of AMM01 Fab, An Anti Ebv Gh/Gl Neutralizing Antibody within 5.0Å range: probe atom residue distance (Å) B Occ L:Cl309 b:64.6 occ:1.00 O L:HOH549 2.8 31.0 1.0 O2 L:EDO304 2.8 40.0 1.0 O L:HOH559 2.8 44.8 1.0 H22 L:EDO304 3.0 73.6 1.0 HB3 L:ARG60 3.1 34.8 1.0 HG3 L:GLU59 3.3 0.2 1.0 C2 L:EDO304 3.4 61.3 1.0 HG2 L:GLU59 3.8 0.2 1.0 CG L:GLU59 4.0 0.5 1.0 H L:ARG60 4.0 32.6 1.0 O1 L:EDO304 4.1 36.5 1.0 CB L:ARG60 4.1 28.9 1.0 H21 L:EDO304 4.1 73.6 1.0 OE2 L:GLU59 4.2 71.2 1.0 HD3 L:ARG60 4.3 35.5 1.0 N L:ARG60 4.3 27.1 1.0 C1 L:EDO304 4.4 58.3 1.0 HA L:ARG60 4.4 34.3 1.0 CA L:ARG60 4.5 28.6 1.0 HH11 L:ARG60 4.6 39.6 1.0 HB2 L:ARG60 4.6 34.8 1.0 O L:HOH557 4.6 39.5 1.0 CD L:GLU59 4.6 0.5 1.0 HO1 L:EDO304 4.7 43.8 1.0 HB2 L:ARG76 4.8 33.0 1.0 HG2 L:ARG60 4.9 33.8 1.0 C L:GLU59 4.9 28.2 1.0 H11 L:EDO304 4.9 70.0 1.0 CG L:ARG60 4.9 28.1 1.0

Chlorine binding site 5 out of 6 in the Structure of AMM01 Fab, An Anti Ebv Gh/Gl Neutralizing Antibody


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 5 of Structure of AMM01 Fab, An Anti Ebv Gh/Gl Neutralizing Antibody within 5.0Å range: probe atom residue distance (Å) B Occ L:Cl310 b:62.1 occ:1.00 O L:ALA42 3.1 27.3 1.0 O L:HOH507 3.2 39.5 1.0 HG23 L:VAL44 3.2 36.4 1.0 HB3 L:ALA42 3.3 39.3 1.0 HB3 L:GLN41 3.3 36.7 1.0 HG22 L:VAL44 3.3 36.4 1.0 H L:ALA42 3.6 35.5 1.0 CG2 L:VAL44 3.7 30.3 1.0 HG21 L:VAL44 3.9 36.4 1.0 C L:ALA42 3.9 26.1 1.0 N L:ALA42 4.0 29.6 1.0 CB L:ALA42 4.1 32.7 1.0 OE1 L:GLN41 4.2 38.1 1.0 O L:HOH508 4.2 26.6 1.0 CA L:ALA42 4.2 29.2 1.0 O L:PRO43 4.2 27.6 1.0 O L:HOH412 4.3 47.7 1.0 CB L:GLN41 4.3 30.6 1.0 O H:HOH522 4.3 33.9 1.0 HB2 L:GLN41 4.6 36.7 1.0 HB1 L:ALA42 4.7 39.3 1.0 C L:PRO43 4.7 26.8 1.0 HB2 L:ALA42 4.7 39.3 1.0 C L:GLN41 4.8 31.0 1.0 CD L:GLN41 4.9 43.7 1.0 N L:PRO43 4.9 25.7 1.0 HA L:GLN41 5.0 37.0 1.0

Chlorine binding site 6 out of 6 in the Structure of AMM01 Fab, An Anti Ebv Gh/Gl Neutralizing Antibody


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 6 of Structure of AMM01 Fab, An Anti Ebv Gh/Gl Neutralizing Antibody within 5.0Å range: probe atom residue distance (Å) B Occ L:Cl311 b:78.2 occ:1.00 H L:SER9 2.5 35.8 1.0 HD2 L:PRO8 2.5 42.7 1.0 O L:SER9 2.8 32.7 1.0 HG L:SER9 3.2 45.5 1.0 N L:SER9 3.3 29.8 1.0 HB2 L:PRO7 3.3 39.8 1.0 CD L:PRO8 3.4 35.5 1.0 OG L:SER9 3.5 37.9 1.0 N L:PRO8 3.7 31.2 1.0 C L:SER9 3.7 30.9 1.0 HB2 L:PRO8 3.9 43.1 1.0 CA L:SER9 3.9 32.2 1.0 HG2 L:PRO8 4.0 53.5 1.0 HD3 L:PRO8 4.1 42.7 1.0 CB L:PRO7 4.1 33.2 1.0 CG L:PRO8 4.2 44.5 1.0 HB3 L:PRO7 4.2 39.8 1.0 C L:PRO8 4.2 26.9 1.0 C L:PRO7 4.3 32.6 1.0 O L:HOH538 4.3 48.3 1.0 CB L:SER9 4.3 38.9 1.0 CB L:PRO8 4.3 35.9 1.0 CA L:PRO8 4.3 28.7 1.0 HA L:PRO7 4.5 38.1 1.0 CA L:PRO7 4.5 31.7 1.0 HA L:SER9 4.8 38.7 1.0 HB3 L:SER9 4.9 46.8 1.0 O L:HOH561 5.0 42.8 1.0 HB2 L:SER9 5.0 46.8 1.0 O L:HOH524 5.0 42.4 1.0 N L:VAL10 5.0 26.8 1.0

J.Snijder, M.S.Ortego, C.Weidle, A.B.Stuart, M.D.Gray, M.J.Mcelrath, M.Pancera, D.Veesler, A.T.Mcguire. An Antibody Targeting the Fusion Machinery Neutralizes Dual-Tropic Infection and Defines A Site of Vulnerability on Epstein-Barr Virus. Immunity V. 48 799 2018.
ISSN: ISSN 1097-4180
PubMed: 29669253
DOI: 10.1016/J.IMMUNI.2018.03.026