6XZZ: BCL6 BTB domain

Crystal structure of the BCL6 BTB domain in complex with the NCoR1 BBD2 peptide. Determined by X-ray diffraction at 1.39 Å resolution. Released 2 Dec 2020.

Method: X-ray diffraction
Resolution: 1.39 Å
Organism: Homo sapiens
Chains: 2
Atoms: 1,257
Mol. weight: 16.71 kDa
Ligands: TFA
Released: 2 Dec 2020

Explore 6XZZ in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

6XZZ contains 7 α-helices and 5 β-strands across 2 chains. Residue ranges use author residue numbering, as in the PDB file, from PDBe. To see them in 3D, choose the Cartoon representation with Secondary structure coloring: helices, sheets and coils get different colors.

Chain A: 7 helices, 4 β-strands

Element	Residues	Length	Sheet
β-strand	7-11	5	1
α-helix	14-27	14
β-strand	34-38	5	2
β-strand	41-45	5	2
α-helix	47-53	7
α-helix	55-61	7
β-strand	71-73	3	2
α-helix	74-75	2
α-helix	80-92	13
α-helix	102-112	11
α-helix	115-127	13

Chain B: 0 helices, 1 β-strand

Element	Residues	Length	Sheet
β-strand	1736-1740	5	1

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
B-cell lymphoma 6 protein	A	protein	126	Homo sapiens	P41182 (AlphaFold model)
Nuclear receptor corepressor 1	B	protein	17	Homo sapiens	O75376 (AlphaFold model)

Sequence of entity 1 (A), FASTA

>6XZZ_1 B-cell lymphoma 6 protein (chains A)
GPDSQIQFTRHASDVLLNLNRLRSRDILTDVVIVVSREQFRAHKTVLMACSGLFYSIFTD
QLKRNLSVINLDPEINPEGFNILLDFMYTSRLNLREGNIMAVMATAMYLQMEHVVDTCRK
FIKASE

Sequence of entity 2 (B), FASTA

>6XZZ_2 Nuclear receptor corepressor 1 (chains B)
RERIAAASSDLYLRPGS

Ligands and cofactors

ID	Name	Formula	Copies
TFA	trifluoroacetic acid	C2 H F3 O2	1

Water and common crystallization additives (NA, CL) are not listed.

Primary citation

Functionalization of the BCL6 BTB domain into a noncovalent crystallization chaperone. Zacharchenko, T., Wright, S. IUCrJ (2021) 8:154-160. DOI 10.1107/S2052252520015754 · PubMed

Other PDB entries of the same protein (UniProt P41182 (AlphaFold model), which also has an AlphaFold model), best resolution first:

7LWE 1.17 Å, Crystal structure of the BCL6 BTB domain in complex with OICR-7629
7RV1 1.17 Å, Crystal structure of the BCL6 BTB domain in complex with OICR-8826
7OKL 1.2 Å, Crystal structure of human BCL6 BTB domain in complex with compound 13e
7LWF 1.22 Å, Crystal structure of the BCL6 BTB domain in complex with OICR-9320
7RV4 1.25 Å, Crystal structure of the BCL6 BTB domain in complex with OICR-9153
7RV8 1.25 Å, Crystal structure of the BCL6 BTB domain in complex with OICR-10268
7RUY 1.27 Å, Crystal structure of the BCL6 BTB domain in complex with OICR-8388
7RV2 1.29 Å, Crystal structure of the BCL6 BTB domain in complex with OICR-8828
1R29 1.3 Å, Crystal Structure of the B-Cell Lymphoma 6 (BCL6) BTB Domain to 1.3 Angstrom
7LWG 1.3 Å, Crystal structure of the BCL6 BTB domain in complex with OICR-12694
7RUW 1.3 Å, Crystal structure of the BCL6 BTB domain in complex with OICR-7859
7RUX 1.3 Å, Crystal structure of the BCL6 BTB domain in complex with OICR-8311

Browse structure collections

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