3EQP: Ack1 with compound T95

Crystal Structure of Ack1 with compound T95. Determined by X-ray diffraction at 2.3 Å resolution. Released 2 Dec 2008.

Method: X-ray diffraction
Resolution: 2.3 Å
Organism: Homo sapiens
Chains: 2
Atoms: 4,580
Mol. weight: 64.28 kDa
Ligands: T95
Released: 2 Dec 2008

Explore 3EQP in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

3EQP contains 40 α-helices and 28 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: 19 helices, 14 β-strands

Element	Residues	Length	Sheet
β-strand	119-120	2	5
β-strand	126-135	10	5
β-strand	138-146	9	5
β-strand	152-159	8	5
α-helix	168-182	15
β-strand	189	1	6
α-helix	190-191	2
β-strand	192-196	5	5
α-helix	201	1
β-strand	202-206	5	5
β-strand	211-212	2	6
α-helix	213-220	8
α-helix	221-223	3
α-helix	226-245	20
β-strand	248-249	2	7
α-helix	255-257	3
β-strand	258-262	5	6
β-strand	265-268	4	6
β-strand	275-276	2	7
α-helix	277-278	2
β-strand	284-285	2	8
α-helix	294-296	3
α-helix	299-304	6
β-strand	306-307	2	8
α-helix	309-324	16
α-helix	328-329	2
α-helix	336-340	5
α-helix	341-345	5
α-helix	350-353	4
α-helix	358-367	10
α-helix	372-374	3
α-helix	376-377	2
α-helix	378-387	10

Chain B: 21 helices, 14 β-strands

Element	Residues	Length	Sheet
β-strand	119-120	2	1
α-helix	123-125	3
β-strand	126-135	10	1
β-strand	138-146	9	1
β-strand	152-159	8	1
α-helix	168-183	16
β-strand	189	1	2
α-helix	190-191	2
β-strand	192-196	5	1
α-helix	201	1
β-strand	202-206	5	1
β-strand	212	1	2
α-helix	213-217	5
α-helix	221-223	3
α-helix	226-245	20
β-strand	248-249	2	3
α-helix	255-257	3
β-strand	258-262	5	2
β-strand	265-268	4	2
β-strand	275-276	2	3
β-strand	283-285	3	4
α-helix	286-287	2
α-helix	288-290	3
α-helix	294-296	3
α-helix	299-304	6
β-strand	306-308	3	4
α-helix	309-324	16
α-helix	328-329	2
α-helix	336-340	5
α-helix	341-345	5
α-helix	350-353	4
α-helix	358-367	10
α-helix	372-374	3
α-helix	376-377	2
α-helix	378-387	10

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
Activated CDC42 kinase 1	A, B	protein	276	Homo sapiens	Q07912 (AlphaFold model)

Sequence of entity 1 (A, B), FASTA

>3EQP_1 Activated CDC42 kinase 1 (chains A, B)
LTCLIGEKDLRLLEKLGDGSFGVVRRGEWDAPSGKTVSVAVKCLKPDVLSQPEAMDDFIR
EVNAMHSLDHRNLIRLYGVVLTPPMKMVTELAPLGSLLDRLRKHQGHFLLGTLSRYAVQV
AEGMGYLESKRFIHRDLAARNLLLATRDLVKIGDFGLMRALPQNDDHYVMQEHRKVPFAW
CAPESLKTRTFSHASDTWMFGVTLWEMFTYGQEPWIGLNGSQILHKIDKEGERLPRPEDC
PQDIYNVMVQCWAHKPEDRPTFVALRDFLLEAQPTD

Ligands and cofactors

ID	Name	Formula	Copies
T95	N-(2,6-dimethylphenyl)-4-(2-ethoxyphenoxy)-2-({4-[4-(2-hydroxyethyl)piperazin-1…	C33 H38 N6 O4	2

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

Primary citation

Identification and optimization of N3,N6-diaryl-1H-pyrazolo[3,4-d]pyrimidine-3,6-diamines as a novel class of ACK1 inhibitors. Kopecky, D.J., Hao, X., Chen, Y. et al. Bioorg Med Chem Lett (2008) 18:6352-6356. DOI 10.1016/j.bmcl.2008.10.092 · PubMed

Other PDB entries of the same protein (UniProt Q07912 (AlphaFold model), which also has an AlphaFold model), best resolution first:

4HZR 1.31 Å, Crystal structure of Ack1 kinase domain
8THA 1.68 Å, 1TEL, non-compressed, double-helical crystal form
7KP6 1.79 Å, Structure of Ack1 kinase in complex with a selective inhibitor
8Q5P 1.81 Å, Structure of the lysine methyltransferase SETD2 in complex with a peptide derived from…
1U46 2.0 Å, Crystal Structure of the Unphosphorylated Kinase Domain of the Tyrosine Kinase ACK1
3EQR 2.0 Å, Crystal Structure of Ack1 with compound T74
1U4D 2.1 Å, Structure of the ACK1 Kinase Domain bound to Debromohymenialdisine
5ZXB 2.2 Å, Crystal structure of ACK1 with compound 10d
4EWH 2.5 Å, Co-crystal structure of ACK1 with inhibitor
8FZ3 2.78 Å, Sterile Alpha Motif of Human Translocation ETS Leukemia, Non-Polymer Crystal Form
1U54 2.8 Å, Crystal Structures of the Phosphorylated and Unphosphorylated Kinase Domains of the…
6VQM 2.87 Å, Crystal Structure Analysis of human ACK1

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