Chlorine in PDB 8znt: Catalytic Antibody T99

The structure of Catalytic Antibody T99_C220A, PDB code: 8znt was solved by J.Kobayashi, H.Yoshida, M.Tsuyuguchi, R.Kato, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

*Resolution Low / High (Å)*	28.11 / 2.61
*Space group*	P 1
*Cell size a, b, c (Å), α, β, γ (°)*	77.085, 85.326, 104.58, 106.77, 91.44, 116.91
*R / R_free (%)*	19.5 / 25.4

Other elements in 8znt:

The structure of Catalytic Antibody T99_C220A also contains other interesting chemical elements:

Potassium

(K)

9 atoms

Chlorine Binding Sites:

Pages:

>>> Page 1 <<< Page 2, Binding sites: 11 - 13;

Binding sites:

The binding sites of Chlorine atom in the Catalytic Antibody T99_C220A (pdb code 8znt). This binding sites where shown within 5.0 Angstroms radius around Chlorine atom.
In total 13 binding sites of Chlorine where determined in the Catalytic Antibody T99_C220A, PDB code: 8znt:
Jump to Chlorine binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Chlorine binding site 1 out of 13 in 8znt

Chlorine binding site 1 out of 13 in the Catalytic Antibody T99_C220A

Mono view

Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 1 of Catalytic Antibody T99_C220A within 5.0Å range:

probe	atom	residue	distance (Å)	B	Occ
A:Cl311 b:60.5 occ:1.00	N	A:GLU56	3.5	68.0	1.0
	CD1	A:TYR40	3.7	56.9	1.0
	N	A:LEU39	3.7	54.9	1.0
	CA	A:TYR38	3.9	73.7	1.0
	C	A:TYR38	3.9	62.9	1.0
	CD2	A:TYR38	3.9	70.5	1.0
	CE2	H:PHE122	3.9	54.0	1.0
	CB	A:TYR40	4.0	64.0	1.0
	CB	A:TYR55	4.0	50.6	1.0
	C	A:LEU39	4.1	49.6	1.0
	CB	A:TYR38	4.1	70.7	1.0
	N	A:TYR40	4.2	46.3	1.0
	O	H:HOH416	4.2	39.0	1.0
	CA	A:GLU56	4.2	66.3	1.0
	CA	A:TYR55	4.3	60.6	1.0
	O	A:LEU39	4.3	56.1	1.0
	CG	A:TYR40	4.3	59.4	1.0
	C	A:TYR55	4.4	58.6	1.0
	CA	A:LEU39	4.4	58.3	1.0
	CG	A:TYR38	4.5	77.3	1.0
	CA	A:TYR40	4.6	57.3	1.0
	O	A:TYR38	4.6	59.9	1.0
	CG	A:GLU56	4.6	76.9	1.0
	CE1	A:TYR40	4.7	52.0	1.0
	CZ	H:PHE122	4.7	41.9	1.0
	CD2	A:TYR55	4.8	63.1	1.0
	CD2	H:PHE122	4.8	44.5	1.0
	CE2	A:TYR38	4.9	90.8	1.0
	CG	A:TYR55	4.9	60.1	1.0
	CB	A:GLU56	5.0	67.3	1.0

Chlorine binding site 2 out of 13 in 8znt

Chlorine binding site 2 out of 13 in the Catalytic Antibody T99_C220A

Mono view

Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 2 of Catalytic Antibody T99_C220A within 5.0Å range:

probe	atom	residue	distance (Å)	B	Occ
B:Cl308 b:50.2 occ:1.00	N	B:LEU39	3.5	47.6	1.0
	CA	B:TYR38	3.6	51.0	1.0
	N	B:GLU56	3.7	52.6	1.0
	C	B:TYR38	3.7	42.9	1.0
	CD1	B:TYR40	3.7	36.3	1.0
	CD1	B:TYR38	3.8	44.8	1.0
	CB	B:TYR38	3.8	55.3	1.0
	C	B:LEU39	4.0	40.0	1.0
	O	B:LEU39	4.0	39.2	1.0
	CB	B:TYR40	4.2	39.5	1.0
	CA	B:LEU39	4.2	37.0	1.0
	CB	B:TYR55	4.3	54.3	1.0
	N	B:TYR40	4.3	39.1	1.0
	CA	B:GLU56	4.3	56.3	1.0
	CG	B:TYR38	4.3	62.4	1.0
	CG	B:TYR40	4.4	42.0	1.0
	O	B:TYR38	4.4	37.5	1.0
	CG	B:GLU56	4.5	57.7	1.0
	CA	B:TYR55	4.6	38.2	1.0
	C	B:TYR55	4.6	41.3	1.0
	CE1	B:TYR40	4.6	37.5	1.0
	CA	B:TYR40	4.8	47.7	1.0
	CE1	B:TYR38	4.9	50.0	1.0
	N	B:TYR38	5.0	44.9	1.0

Chlorine binding site 3 out of 13 in 8znt

Chlorine binding site 3 out of 13 in the Catalytic Antibody T99_C220A

Mono view

Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 3 of Catalytic Antibody T99_C220A within 5.0Å range:

probe	atom	residue	distance (Å)	B	Occ
B:Cl309 b:50.1 occ:1.00	N	B:ASN158	3.1	53.7	1.0
	CB	B:ALA199	3.3	33.1	1.0
	N	B:ASP157	3.6	50.8	1.0
	O	B:LYS155	3.8	53.7	1.0
	CA	B:ASN158	3.9	63.4	1.0
	O	B:VAL197	3.9	43.6	1.0
	CB	B:LYS155	3.9	53.6	1.0
	CA	B:ASP157	4.0	48.2	1.0
	C	B:LYS155	4.0	55.4	1.0
	N	B:ALA199	4.0	45.6	1.0
	C	B:ASP157	4.1	52.3	1.0
	CG1	B:VAL197	4.2	47.5	1.0
	CA	B:ALA199	4.3	45.5	1.0
	C	B:VAL156	4.3	54.0	1.0
	C	B:VAL197	4.4	42.1	1.0
	N	B:VAL156	4.4	50.9	1.0
	CB	B:VAL197	4.5	45.2	1.0
	CA	B:VAL156	4.5	43.7	1.0
	CA	B:LYS155	4.6	51.1	1.0
	CB	B:ASN158	4.6	55.1	1.0
	CH2	F:TRP100	4.6	52.7	1.0
	C	B:TYR198	4.7	43.0	1.0
	CZ2	F:TRP100	4.7	44.8	1.0
	N	B:TYR198	4.8	38.4	1.0
	ND2	B:ASN158	4.9	60.0	1.0
	CA	B:TYR198	4.9	35.8	1.0

Chlorine binding site 4 out of 13 in 8znt

Chlorine binding site 4 out of 13 in the Catalytic Antibody T99_C220A

Mono view

Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 4 of Catalytic Antibody T99_C220A within 5.0Å range:

probe	atom	residue	distance (Å)	B	Occ
B:Cl310 b:45.6 occ:1.00	N	C:LEU160	3.4	41.7	1.0
	N	B:VAL116	3.4	32.6	1.0
	CA	B:THR115	3.9	39.8	1.0
	CA	C:ALA159	3.9	40.2	1.0
	CG	C:LEU160	4.0	44.8	1.0
	CG2	B:VAL116	4.1	29.3	1.0
	CB	B:THR115	4.1	30.3	1.0
	CB	C:LEU160	4.1	25.9	1.0
	CB	B:VAL116	4.2	40.8	1.0
	C	C:ALA159	4.2	45.1	1.0
	C	B:THR115	4.2	37.8	1.0
	CB	C:ALA159	4.3	30.8	1.0
	CA	C:LEU160	4.4	35.8	1.0
	CA	B:VAL116	4.4	41.7	1.0
	CG2	B:THR115	4.5	29.1	1.0
	O	C:ASN158	4.6	43.9	1.0
	CD1	C:LEU160	4.8	32.4	1.0

Chlorine binding site 5 out of 13 in 8znt

Chlorine binding site 5 out of 13 in the Catalytic Antibody T99_C220A

Mono view

Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 5 of Catalytic Antibody T99_C220A within 5.0Å range:

probe	atom	residue	distance (Å)	B	Occ
C:Cl310 b:59.7 occ:1.00	N	C:GLU56	3.4	51.5	1.0
	CD1	C:TYR40	3.6	57.8	1.0
	N	C:LEU39	3.7	56.5	1.0
	CG	C:GLU56	3.9	62.6	1.0
	CA	C:TYR38	3.9	66.5	1.0
	C	C:TYR38	4.0	63.6	1.0
	CD1	C:TYR38	4.0	77.8	1.0
	CA	C:GLU56	4.0	60.0	1.0
	C	C:LEU39	4.1	52.6	1.0
	O	C:LEU39	4.1	64.4	1.0
	CB	C:TYR38	4.2	59.7	1.0
	CB	C:TYR55	4.2	56.3	1.0
	CB	C:TYR40	4.3	56.8	1.0
	CA	C:LEU39	4.4	51.0	1.0
	N	C:TYR40	4.4	54.9	1.0
	CG	C:TYR40	4.4	50.5	1.0
	CE1	C:TYR40	4.4	56.0	1.0
	C	C:TYR55	4.4	52.5	1.0
	CA	C:TYR55	4.5	55.1	1.0
	CB	C:GLU56	4.6	60.7	1.0
	CG	C:TYR38	4.6	73.8	1.0
	O	C:TYR38	4.7	55.8	1.0
	CA	C:TYR40	4.8	55.6	1.0
	CD2	C:TYR55	4.9	55.4	1.0
	CE1	C:TYR38	5.0	79.1	1.0

Chlorine binding site 6 out of 13 in 8znt

Chlorine binding site 6 out of 13 in the Catalytic Antibody T99_C220A

Mono view

Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 6 of Catalytic Antibody T99_C220A within 5.0Å range:

probe	atom	residue	distance (Å)	B	Occ
D:Cl310 b:50.9 occ:1.00	N	D:GLU56	3.4	48.7	1.0
	N	D:LEU39	3.6	47.8	1.0
	CD1	D:TYR40	3.8	39.5	1.0
	CA	D:TYR38	3.8	56.3	1.0
	C	D:TYR38	3.8	49.7	1.0
	CD1	D:TYR38	3.9	63.2	1.0
	C	D:LEU39	4.0	46.2	1.0
	O	D:LEU39	4.0	41.0	1.0
	CG	D:GLU56	4.0	58.0	1.0
	CA	D:GLU56	4.0	50.8	1.0
	CB	D:TYR40	4.1	37.8	1.0
	CB	D:TYR38	4.1	51.9	1.0
	CB	D:TYR55	4.1	43.8	1.0
	N	D:TYR40	4.3	42.1	1.0
	C	D:TYR55	4.3	50.1	1.0
	CA	D:LEU39	4.4	38.0	1.0
	CA	D:TYR55	4.4	42.4	1.0
	CG	D:TYR40	4.4	36.9	1.0
	CG	D:TYR38	4.5	60.3	1.0
	CB	D:GLU56	4.6	52.3	1.0
	O	D:TYR38	4.7	42.6	1.0
	CA	D:TYR40	4.7	43.8	1.0
	CE1	D:TYR40	4.7	37.5	1.0
	CD2	D:TYR55	4.8	47.6	1.0
	CE1	D:TYR38	4.9	61.5	1.0
	O	D:SER37	5.0	47.9	1.0

Chlorine binding site 7 out of 13 in 8znt

Chlorine binding site 7 out of 13 in the Catalytic Antibody T99_C220A

Mono view

Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 7 of Catalytic Antibody T99_C220A within 5.0Å range:

probe	atom	residue	distance (Å)	B	Occ
D:Cl311 b:52.1 occ:1.00	N	D:ASN158	3.2	51.9	1.0
	O	D:LYS155	3.5	47.8	1.0
	CB	D:ALA199	3.5	46.1	1.0
	N	D:ASP157	3.8	44.2	1.0
	CA	D:ASN158	3.9	50.1	1.0
	C	D:LYS155	3.9	50.9	1.0
	CG1	D:VAL197	3.9	35.3	1.0
	CB	D:LYS155	4.0	44.2	1.0
	O	D:VAL197	4.0	51.6	1.0
	C	D:ASP157	4.2	50.9	1.0
	CA	D:ASP157	4.2	48.1	1.0
	N	D:ALA199	4.2	47.9	1.0
	CB	D:VAL197	4.4	45.4	1.0
	N	D:VAL156	4.4	54.5	1.0
	C	D:VAL156	4.4	49.0	1.0
	C	D:VAL197	4.5	44.7	1.0
	CA	D:ALA199	4.5	43.9	1.0
	CA	D:VAL156	4.6	39.1	1.0
	CA	D:LYS155	4.6	42.6	1.0
	CB	D:ASN158	4.7	46.1	1.0
	C	D:TYR198	4.8	38.6	1.0
	N	D:TYR198	4.9	48.5	1.0

Chlorine binding site 8 out of 13 in 8znt

Chlorine binding site 8 out of 13 in the Catalytic Antibody T99_C220A

Mono view

Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 8 of Catalytic Antibody T99_C220A within 5.0Å range:

probe	atom	residue	distance (Å)	B	Occ
E:Cl311 b:48.5 occ:1.00	N	E:GLU56	3.2	51.7	1.0
	N	E:LEU39	3.7	59.6	1.0
	C	E:TYR38	3.8	58.8	1.0
	CA	E:TYR38	3.8	67.6	1.0
	CA	E:GLU56	3.9	63.6	1.0
	CD1	E:TYR40	3.9	42.1	1.0
	CD2	E:TYR38	4.0	54.1	1.0
	C	E:LEU39	4.0	51.3	1.0
	O	E:LEU39	4.0	46.9	1.0
	CB	E:TYR38	4.0	56.4	1.0
	CB	E:TYR40	4.1	47.1	1.0
	CB	E:TYR55	4.2	33.8	1.0
	CG	E:GLU56	4.2	64.8	1.0
	C	E:TYR55	4.2	54.9	1.0
	CA	E:TYR55	4.3	57.3	1.0
	N	E:TYR40	4.3	42.2	1.0
	O	E:TYR38	4.4	53.5	1.0
	CA	E:LEU39	4.4	48.4	1.0
	CG	E:TYR40	4.4	40.0	1.0
	CG	E:TYR38	4.5	65.9	1.0
	CB	E:GLU56	4.6	59.5	1.0
	CA	E:TYR40	4.7	46.4	1.0
	CE1	E:TYR40	4.9	41.5	1.0
	CD1	E:TYR55	4.9	52.9	1.0

Chlorine binding site 9 out of 13 in 8znt

Chlorine binding site 9 out of 13 in the Catalytic Antibody T99_C220A

Mono view

Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 9 of Catalytic Antibody T99_C220A within 5.0Å range:

probe	atom	residue	distance (Å)	B	Occ
E:Cl312 b:52.4 occ:1.00	N	E:ASN158	3.1	43.2	1.0
	CG1	E:VAL197	3.5	44.0	1.0
	CB	E:LYS155	3.6	46.3	1.0
	CA	E:ASN158	3.7	40.3	1.0
	N	E:ASP157	3.7	41.3	1.0
	CB	E:ALA199	4.0	47.9	1.0
	C	E:ASP157	4.0	39.6	1.0
	CA	E:ASP157	4.1	37.9	1.0
	C	E:LYS155	4.1	43.2	1.0
	O	E:LYS155	4.2	51.0	1.0
	O	E:VAL197	4.2	46.1	1.0
	CB	E:VAL197	4.3	38.3	1.0
	NZ	E:LYS155	4.3	51.7	1.0
	N	E:VAL156	4.4	40.2	1.0
	CE	E:LYS155	4.4	58.6	1.0
	C	E:VAL156	4.4	41.4	1.0
	CD	E:LYS155	4.4	39.1	1.0
	CA	E:LYS155	4.5	41.0	1.0
	CG	E:LYS155	4.6	45.0	1.0
	CA	E:VAL156	4.7	39.0	1.0
	C	E:VAL197	4.7	40.6	1.0
	CB	E:ASN158	4.7	44.7	1.0
	N	E:ALA199	4.7	38.4	1.0
	C	E:ASN158	4.8	42.9	1.0
	N	E:ALA159	5.0	40.2	1.0

Chlorine binding site 10 out of 13 in 8znt

Chlorine binding site 10 out of 13 in the Catalytic Antibody T99_C220A

Mono view

Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 10 of Catalytic Antibody T99_C220A within 5.0Å range:

probe	atom	residue	distance (Å)	B	Occ
F:Cl310 b:48.3 occ:1.00	N	F:GLU56	3.2	42.2	1.0
	N	F:LEU39	3.6	46.7	1.0
	C	F:TYR38	3.8	50.4	1.0
	CA	F:TYR38	3.8	50.9	1.0
	CA	F:GLU56	3.8	38.3	1.0
	O	F:LEU39	3.9	37.8	1.0
	C	F:LEU39	3.9	35.9	1.0
	CD1	F:TYR40	3.9	33.3	1.0
	CE1	B:PHE122	4.0	35.7	1.0
	CG	F:GLU56	4.0	53.2	1.0
	CB	F:TYR40	4.2	37.3	1.0
	CB	F:TYR38	4.2	47.7	1.0
	C	F:TYR55	4.2	35.2	1.0
	CA	F:LEU39	4.2	36.9	1.0
	N	F:TYR40	4.2	40.1	1.0
	CB	F:TYR55	4.3	31.2	1.0
	CA	F:TYR55	4.3	35.6	1.0
	CG	F:TYR40	4.5	30.1	1.0
	CB	F:GLU56	4.5	34.8	1.0
	O	F:TYR38	4.5	48.4	1.0
	CD2	F:TYR38	4.6	57.5	1.0
	CA	F:TYR40	4.7	44.0	1.0
	CD1	B:PHE122	4.7	40.1	1.0
	CG	F:TYR38	4.8	62.6	1.0
	CZ	B:PHE122	4.8	47.2	1.0
	CE1	F:TYR40	4.9	37.5	1.0
	O	F:SER37	5.0	49.2	1.0

Reference:

T.Uda, R.Kato, Y.Shigeta, S.Hirota, J.Kobayashi, H.Yoshida, M.Tsuyuguchi, K.Hengphasatporn, M.Tsujita, H.Taguchi, E.Hifumi. Structural and Biochemical Differences Between Non-Catalytic and Catalytic Antibodies. Mabs V. 17 03978 2025.
ISSN: ESSN 1942-0870
PubMed: 40356286
DOI: 10.1080/19420862.2025.2503978

Chlorine in PDB 8znt: Catalytic Antibody T99_C220A

Protein crystallography data

Other elements in 8znt:

Chlorine Binding Sites:

Pages:

Binding sites:

Chlorine binding site 1 out of 13 in 8znt

Chlorine binding site 2 out of 13 in 8znt

Chlorine binding site 3 out of 13 in 8znt

Chlorine binding site 4 out of 13 in 8znt

Chlorine binding site 5 out of 13 in 8znt

Chlorine binding site 6 out of 13 in 8znt

Chlorine binding site 7 out of 13 in 8znt

Chlorine binding site 8 out of 13 in 8znt

Chlorine binding site 9 out of 13 in 8znt

Chlorine binding site 10 out of 13 in 8znt

Reference:

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