9D41: N-terminal domain of Borealin

Crystal structure of N-terminal domain of Borealin (20-88) in complex with synthetic antibody fragment. Determined by X-ray diffraction at 1.84 Å resolution. Released 20 Aug 2025.

Method: X-ray diffraction
Resolution: 1.84 Å
Organism: Homo sapiens
Chains: 3
Atoms: 4,287
Mol. weight: 57.81 kDa
Released: 20 Aug 2025

Explore 9D41 in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

9D41 contains 19 α-helices and 46 β-strands across 3 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: 2 helices, 0 β-strands

Element	Residues	Length	Sheet
α-helix	26-65	40
α-helix	70-75	6

Chain H: 8 helices, 23 β-strands

Element	Residues	Length	Sheet
β-strand	3-7	5	1
β-strand	10-12	3	2
β-strand	18-25	8	1
α-helix	29-31	3
β-strand	32-39	8	2
β-strand	46-51	6	2
β-strand	58-59	3	2
β-strand	67-72	6	1
α-helix	73-75	3
β-strand	77-82	6	1
α-helix	84-86	3
β-strand	88-96	9	2
β-strand	100F-103	4	2
β-strand	107-111	5	2
β-strand	117	1	3
α-helix	118-119	2
β-strand	120-124	5	4
β-strand	131-132	2	4
β-strand	135-145	11	4
β-strand	146	1	3
β-strand	151-154	4	5
α-helix	155-157	3
β-strand	159	1	5
β-strand	163-165	3	4
α-helix	166-168	3
β-strand	169-170	2	4
β-strand	176-185	10	4
α-helix	186-188	3
β-strand	195-200	6	5
α-helix	201-203	3
β-strand	205-210	6	5

Chain L: 9 helices, 23 β-strands

Element	Residues	Length	Sheet
β-strand	4-7	4	6
β-strand	10-13	4	7
β-strand	19-25	7	6
β-strand	29	1	8
β-strand	31	1	8
β-strand	33-38	6	7
β-strand	45-49	5	7
β-strand	53-54	2	7
α-helix	55	1
β-strand	62-67	6	6
β-strand	70-75	6	6
α-helix	80-82	3
β-strand	84-90	7	7
α-helix	96	1
β-strand	97-98	2	7
β-strand	102-106	5	7
β-strand	111	1	9
α-helix	112-113	2
β-strand	114-118	5	10
α-helix	119-121	3
α-helix	122-126	5
β-strand	129-139	11	10
β-strand	140	1	9
β-strand	145-150	6	11
β-strand	153-154	2	11
α-helix	155	1
β-strand	159-163	5	10
α-helix	164-167	4
β-strand	173-182	10	10
α-helix	183-188	6
β-strand	191-200	8	11
β-strand	203-210	8	11

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
Borealin	A	protein	69	Homo sapiens	Q53HL2 (AlphaFold model)
Fab Heavy Chain	H	protein	233	Homo sapiens
Fab Light Chain	L	protein	213	Homo sapiens

Sequence of entity 1 (A), FASTA

>9D41_1 Borealin (chains A)
KLASFLKDFDREVEIRIKQIESDRQNLLKEVDNLYNIEILRLPKALREMNWLDYFALGGN
KQALEEAAT

Sequence of entity 2 (H), FASTA

>9D41_2 Fab Heavy Chain (chains H)
EISEVQLVESGGGLVQPGGSLRLSCAASGFNFSYSSIHWVRQAPGKGLEWVASIYPYSGS
TYYADSVKGRFTISADTSKNTAYLQMNSLRAEDTAVYYCARKQVSGWWWYYGFDYWGQGT
LVTVFNQIKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGALTSGVHTFPA
VLQSSGLYSLSSVVTVPSSSLGTQTYICNVNHKPSNTKVDKKVEPKSCDKTHT

Sequence of entity 3 (L), FASTA

>9D41_3 Fab Light Chain (chains L)
SDIQMTQSPSSLSASVGDRVTITCRASQSVSSAVAWYQQKPGKAPKLLIYSASSLYSGVP
SRFSGSRSGTDFTLTISSLQPEDFATYYCQQSYWWPITFGQGTKVEIKRTVAAPSVFIFP
PSDSQLKSGTASVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTYSLSSTL
TLSKADYEKHKVYACEVTQGTTSVTKSFNRGEC

Primary citation

Crystal structure of N-terminal domain of Borealin (20-88) in complex with synthetic antibody fragment. Filippova, E.V., Hou, J., Mukherjee, S. et al. To be published.

Other PDB entries of the same protein (UniProt Q53HL2 (AlphaFold model), which also has an AlphaFold model), best resolution first:

2QFA 1.4 Å, Crystal structure of a Survivin-Borealin-INCENP core complex
6YIF 1.81 Å, Structure of Chromosomal Passenger Complex (CPC) bound to phosphorylated Histone 3…
8RUQ 2.29 Å, Borealin N-terminus in complex with H3.T3p-nucleosome
2RAW 2.4 Å, Crystal structure of the Borealin-Survivin complex
8RUP 2.42 Å, Chromosome Passenger Complex (CPC) localization module in complex with H3.T3p-nucleosome
6YIH 2.55 Å, Structure of Chromosomal Passenger Complex (CPC) bound to phosphorylated Histone 3…
7U5V 2.59 Å, Crystal structure of the Mixed Lineage Leukaemia (MLL1) SET Domain with the cofactor…
9SI3 2.83 Å, Chromosomal Passenger Complex in complex with H3T3ph Nucleosome
9SJ5 2.85 Å, Chromosomal Passenger Complex in complex with H3T3ph Nucleosome (Class1)
9SI9 2.86 Å, Chromosomal Passenger Complex in complex with H3T3ph Nucleosome (Class0)
2RAX 3.3 Å, Crystal structure of Borealin (20-78) bound to Survivin (1-120)
6YIE 3.49 Å, Structure of a Borealin-INCENP-Survivin complex

Browse structure collections

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