6V8A: Human CtBP1

Human CtBP1 (28-375) in complex with AMP. Determined by X-ray diffraction at 2.35 Å resolution. Released 3 Feb 2021.

Method: X-ray diffraction
Resolution: 2.35 Å
Organism: Homo sapiens
Chains: 1
Atoms: 2,753
Mol. weight: 41.03 kDa
Ligands: CA, AMP
Released: 3 Feb 2021

Explore 6V8A in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

6V8A contains 18 α-helices and 17 β-strands across 1 chain. 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: 18 helices, 17 β-strands

Element	Residues	Length	Sheet
α-helix	27-28	2
β-strand	29-32	4	1
α-helix	42-45	4
β-strand	50-53	4	1
α-helix	59-61	3
α-helix	64-69	6
β-strand	70-75	6	1
β-strand	81	1	2
α-helix	83-87	5
β-strand	94-97	4	1
β-strand	105	1	2
α-helix	107-112	6
β-strand	116-118	3	1
α-helix	125-141	17
α-helix	143-151	9
α-helix	159-165	7
β-strand	176-180	5	3
α-helix	184-195	12
β-strand	199-203	5	3
α-helix	208	1
α-helix	211-214	4
β-strand	218-220	3	3
α-helix	223-229	7
β-strand	232-235	4	3
β-strand	247	1	4
α-helix	249-252	4
α-helix	256	1
β-strand	259-263	5	3
α-helix	267-269	3
β-strand	270	1	4
α-helix	272-281	10
β-strand	284-289	6	3
β-strand	310-312	3	3
α-helix	321-340	20
β-strand	350	1	1

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
C-terminal-binding protein 1	A	protein	369	Homo sapiens	Q13363 (AlphaFold model)

Sequence of entity 1 (A), FASTA

>6V8A_1 C-terminal-binding protein 1 (chains A)
MGSSHHHHHHSSGLVPRGSHMPLVALLDGRDCTVEMPILKDVATVAFCDAQSTQEIHEKV
LNEAVGALMYHTITLTREDLEKFKALRIIVRIGSGFDNIDIKSAGDLGIAVCNVPAASVE
ETADSTLCHILNLYRRATWLHQALREGTRVQSVEQIREVASGAARIRGETLGIIGLGRTG
QAVALRAKAFGFNVLFYDPYLSDGVERALGLQRVSTLQDLLFHSDCVTLHCGLNEHNHHL
INDFTVKQMRQGAFLVNTARGGLVDEKALAQALKEGRIRGAALDVHESEPFSFSQGPLKD
APNLICTPHAAWYSEQASIEMREEAAREIRRAITGRIPDSLKNCVNKDHLTAATHWASMD
PAVVHPELN

Ligands and cofactors

ID	Name	Formula	Copies
CA	Calcium ion	Ca	1
AMP	Adenosine monophosphate	C10 H14 N5 O7 P	1

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

Primary citation

NAD(H) phosphates mediate tetramer assembly of human C-terminal binding protein (CtBP). Nichols, J.C., Schiffer, C.A., Royer Jr., W.E. J Biol Chem (2021) 296:100351-100351. DOI 10.1016/j.jbc.2021.100351 · PubMed

Other PDB entries of the same protein (UniProt Q13363 (AlphaFold model), which also has an AlphaFold model), best resolution first:

1MX3 1.95 Å, Crystal structure of CtBP dehydrogenase core holo form
4U6S 2.1 Å, CtBP1 in complex with substrate phenylpyruvate
9WRJ 2.2 Å, Crystal structure of CtBP1 in complex with PALI1
4U6Q 2.3 Å, CtBP1 bound to inhibitor 2-(hydroxyimino)-3-phenylpropanoic acid
7KWM 2.3 Å, CtBP1 (28-375) L182F/V185T - AMP
4LCE 2.38 Å, CtBP1 in complex with substrate MTOB
6CDR 2.4 Å, Human CtBP1 (28-378)
6V89 2.45 Å, Human CtBP1 (28-375) in complex with AMP
6CDF 2.6 Å, Human CtBP1 (28-378)
8ARI 3.0 Å, Cryo-EM structure of human CtBP1/RAI2(303-362) delta(331-341) filament

Browse structure collections

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