1HJC: Runx-1/AML1/CBFALPHA runt domain

Crystal structure of runx-1/AML1/CBFALPHA runt domain bound to a DNA fragment from the csf-1R promoter. Determined by X-ray diffraction at 2.65 Å resolution. Released 9 Mar 2001.

Method: X-ray diffraction
Resolution: 2.65 Å
Organisms: MUS MUSCULUS, HOMO SAPIENS
Chains: 6
Atoms: 3,184
Mol. weight: 47.03 kDa
Released: 9 Mar 2001

Explore 1HJC in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

1HJC contains 0 α-helices and 27 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: 0 helices, 13 β-strands

Element	Residues	Length	Sheet
β-strand	62-64	3	1
β-strand	70-73	4	1
β-strand	78-80	3	2
β-strand	90-93	4	1
β-strand	102-108	7	3
β-strand	117-118	2	4
β-strand	121-123	3	3
β-strand	125	1	1
β-strand	128-130	3	1
β-strand	135-136	2	4
β-strand	146-152	7	3
β-strand	158-166	9	3
β-strand	167-169	3	2

Chain D: 0 helices, 14 β-strands

Element	Residues	Length	Sheet
β-strand	62-64	3	5
β-strand	70-73	4	5
β-strand	78-80	3	6
β-strand	90-93	4	5
β-strand	102-108	7	7
β-strand	115	1	7
β-strand	117-118	2	8
β-strand	121-123	3	7
β-strand	124	1	5
β-strand	128-130	3	5
β-strand	135-136	2	8
β-strand	146-152	7	7
β-strand	158-166	9	7
β-strand	167-169	3	6

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
Runt-related transcription factor 1	A, D	protein	123	MUS MUSCULUS	Q03347 (AlphaFold model)
DNA (5'-(gpapapcptpcptpgptpgpgp tptpgpcpg)-3')	B, E	DNA	16	HOMO SAPIENS
DNA (5'-(cpcpgpcpapapcpcpapcpap* gpapgptpt)-3')	C, F	DNA	16	HOMO SAPIENS

Sequence of entity 1 (A, D), FASTA

>1HJC_1 RUNT-RELATED TRANSCRIPTION FACTOR 1 (chains A, D)
GELVRTDSPNFLCSVLPTHWRCNKTLPIAFKVVALGDVPDGTLVTVMAGNDENYSAELRN
ATAAMKNQVARFNDLRFVGRSGRGKSFTLTITVFTNPPQVATYHRAIKITVDGPREPRRH
RQK

Sequence of entity 2 (B, E), FASTA

>1HJC_2 DNA (5'-(*GP*AP*AP*CP*TP*CP*TP*GP*TP*GP*GP* TP*TP*GP*CP*G)-3') (chains B, E)
GAACTCTGTGGTTGCG

Sequence of entity 3 (C, F), FASTA

>1HJC_3 DNA (5'-(CP*CP*GP*CP*AP*AP*CP*CP*AP*CP*AP* GP*AP*GP*TP*T)-3') (chains C, F)
CCGCAACCACAGAGTT

Primary citation

Structural Analyses of DNA Recognition by the Aml1/Runx-1 Runt Domain and its Allosteric Control by Cbfbeta. Tahirov, T.H., Inoue-Bungo, T., Morii, H. et al. Cell (2001) 104:755. DOI 10.1016/S0092-8674(01)00271-9 · PubMed

Other PDB entries of the same protein (UniProt Q03347 (AlphaFold model), which also has an AlphaFold model), best resolution first:

1EAQ 1.25 Å, The RUNX1 Runt domain at 1.25A resolution: A structural switch and specifically bound…
1EAO 1.4 Å, THE RUNX1 Runt domain at 1.4A resolution: a structural switch and specifically bound…
1EAN 1.7 Å, THE RUNX1 Runt domain at 1.70A resolution: A structural switch and specifically bound…
4L18 2.3 Å, Crystal structure of Runx1 and Ets1 bound to TCR alpha promoter (crystal form 3)
3WTS 2.35 Å, Crystal structure of the complex comprised of ETS1, RUNX1, CBFBETA, and the tcralpha…
3WTT 2.35 Å, Crystal structure of the complex comprised of phosphorylated ETS1, RUNX1, CBFBETA, and…
3WU1 2.4 Å, Crystal structure of the ETS1-RUNX1-DNA ternary complex
4L0Y 2.5 Å, Crystal structure of Runx1 and Ets1 bound to TCR alpha promoter (crystal form 1)
2J6W 2.6 Å, R164N mutant of the RUNX1 Runt domain
3WTU 2.7 Å, Crystal structure of the complex comprised of ETS1 (V170A), RUNX1, CBFBETA, and the…
3WTV 2.7 Å, Crystal structure of the complex comprised of ETS1(V170G), RUNX1, CBFBETA, and the…
3WTY 2.7 Å, Crystal structure of the complex comprised of ETS1(G333P), RUNX1, CBFBETA, and the…

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