6Y27: HLA-B2709

Crystal structure of HLA-B2709 complexed with the nona-peptide mA. Determined by X-ray diffraction at 1.38 Å resolution. Released 23 Dec 2020.

Method: X-ray diffraction
Resolution: 1.38 Å
Organisms: Homo sapiens, synthetic construct
Chains: 3
Atoms: 4,089
Mol. weight: 45.11 kDa
Released: 23 Dec 2020

Explore 6Y27 in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

6Y27 contains 15 α-helices and 30 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: 12 helices, 19 β-strands

Element	Residues	Length	Sheet
β-strand	3-12	10	1
α-helix	20	1
β-strand	21-28	8	1
β-strand	31-37	7	1
β-strand	46-47	2	1
α-helix	50-52	3
α-helix	57-84	28
β-strand	94-103	10	1
β-strand	109-118	10	1
β-strand	121-126	6	1
β-strand	133-135	3	1
α-helix	138-149	12
α-helix	152-161	10
α-helix	163-174	12
α-helix	176-179	4
α-helix	182	1
β-strand	183	1	2
α-helix	184-185	2
β-strand	186-195	10	3
β-strand	198-208	11	3
β-strand	209	1	2
β-strand	214-219	6	4
β-strand	222-223	2	4
α-helix	225-227	3
β-strand	229-230	2	3
α-helix	231-233	3
β-strand	234-235	2	3
β-strand	241-250	10	3
α-helix	254-256	3
β-strand	257-262	6	4
β-strand	270-272	3	4

Chain B: 3 helices, 11 β-strands

Element	Residues	Length	Sheet
β-strand	3	1	5
α-helix	4-5	2
β-strand	6-11	6	6
β-strand	21-30	10	6
β-strand	31	1	5
β-strand	36-41	6	7
β-strand	44-45	2	7
α-helix	46	1
β-strand	50-51	2	6
α-helix	52-54	3
β-strand	55-56	2	6
β-strand	62-70	9	6
β-strand	78-83	6	7
β-strand	91-94	4	7

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
Lymphocyte antigen HLA-B27	A	protein	276	Homo sapiens	A0A2R7Z5J3 (AlphaFold model)
Beta-2-microglobulin	B	protein	100	Homo sapiens	P61769 (AlphaFold model)
mA	C	protein	9	synthetic construct

Sequence of entity 1 (A), FASTA

>6Y27_1 Lymphocyte antigen HLA-B27 (chains A)
GSHSMRYFHTSVSRPGRGEPRFITVGYVDDTLFVRFDSDAASPREEPRAPWIEQEGPEYW
DRETQICKAKAQTDREDLRTLLRYYNQSEAGSHTLQNMYGCDVGPDGRLLRGYHQHAYDG
KDYIALNEDLSSWTAADTAAQITQRKWEAARVAEQLRAYLEGECVEWLRRYLENGKETLQ
RADPPKTHVTHHPISDHEATLRCWALGFYPAEITLTWQRDGEDQTQDTELVETRPAGDRT
FQKWAAVVVPSGEEQRYTCHVQHEGLPKPLTLRWEP

Sequence of entity 2 (B), FASTA

>6Y27_2 Beta-2-microglobulin (chains B)
MIQRTPKIQVYSRHPAENGKSNFLNCYVSGFHPSDIEVDLLKNGERIEKVEHSDLSFSKD
WSFYLLYYTEFTPTEKDEYACRVNHVTLSQPKIVKWDRDM

Sequence of entity 3 (C), FASTA

>6Y27_3 mA (chains C)
GRLNAPIKV

Primary citation

A CENTRAL PEPTIDE RESIDUE CAN CONTROL MHC POLYMORPHISM-DEPENDENT ANTIGEN PRESENTATION. Loll, B., Rueckert, C., Ziegler, B.-U. et al. To be published.

Other PDB entries of the same protein (UniProt A0A2R7Z5J3 (AlphaFold model), which also has an AlphaFold model), best resolution first:

6Y29 1.28 Å, Crystal structure of HLA-B2709 complexed with the nona-peptide mE
6Y2B 1.37 Å, Crystal structure of HLA-B2709 complexed with the nona-peptide mQ
7ALO 1.8 Å, Structure of B*27:09/photoRL9

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