5BXF: Apo FcRn Structure at pH 4.5

Apo FcRn Structure at pH 4.5. Determined by X-ray diffraction at 2.85 Å resolution. Released 11 Nov 2015.

Method: X-ray diffraction
Resolution: 2.85 Å
Organism: Homo sapiens
Chains: 4
Atoms: 5,797
Mol. weight: 94.25 kDa
Released: 11 Nov 2015

Explore 5BXF in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

5BXF contains 21 α-helices and 61 β-strands across 4 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: 9 helices, 18 β-strands

Element	Residues	Length	Sheet
β-strand	7-14	8	1
α-helix	17-18	2
β-strand	24-30	7	1
β-strand	33-39	7	1
β-strand	46-47	2	1
α-helix	49-53	5
α-helix	60-80	21
β-strand	89-98	10	1
β-strand	104-112	9	1
β-strand	115-121	7	1
β-strand	126-128	3	1
α-helix	132-143	12
α-helix	147-153	7
α-helix	154-158	5
α-helix	159-169	11
α-helix	171-175	5
β-strand	178	1	2
α-helix	179-180	2
β-strand	181-188	8	3
β-strand	193-203	11	3
β-strand	204	1	2
β-strand	208-213	6	4
β-strand	218	1	4
β-strand	223-228	6	3
β-strand	234-243	10	3
β-strand	251-256	6	4
β-strand	263-265	3	4

Chain B: 2 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
β-strand	55-56	2	6
β-strand	62-70	9	6
β-strand	78-83	6	7
β-strand	91-94	4	7

Chain C: 8 helices, 21 β-strands

Element	Residues	Length	Sheet
β-strand	7-14	8	8
α-helix	17-18	2
β-strand	24-30	7	8
β-strand	33-39	7	8
β-strand	46-47	2	8
α-helix	49-53	5
α-helix	60-78	19
β-strand	89-96	8	8
β-strand	98-99	2	9
β-strand	103-104	2	9
β-strand	107	1	8
β-strand	110-112	3	8
β-strand	115-121	7	8
β-strand	126-129	4	8
α-helix	132-142	11
α-helix	149-153	5
α-helix	154-158	5
α-helix	159-169	11
α-helix	171-175	5
β-strand	178	1	10
β-strand	181-188	8	11
β-strand	193-203	11	11
β-strand	204	1	10
β-strand	209-212	4	12
β-strand	219	1	12
β-strand	223-228	6	11
β-strand	234-243	10	11
β-strand	252-255	4	12
β-strand	263-265	3	12

Chain D: 2 helices, 11 β-strands

Element	Residues	Length	Sheet
β-strand	3	1	13
α-helix	4-5	2
β-strand	6-11	6	14
β-strand	21-30	10	14
β-strand	31	1	13
β-strand	36-41	6	15
β-strand	44-45	2	15
β-strand	50-51	2	14
β-strand	55-56	2	14
β-strand	62-70	9	14
β-strand	78-83	6	15
α-helix	90	1
β-strand	91-94	4	15

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
IgG receptor FcRn large subunit p51	A, C	protein	300	Homo sapiens	P55899 (AlphaFold model)
Beta-2-microglobulin	B, D	protein	119	Homo sapiens	P61769 (AlphaFold model)

Sequence of entity 1 (A, C), FASTA

>5BXF_1 IgG receptor FcRn large subunit p51 (chains A, C)
MGVPRPQPWALGLLLFLLPGSLGAESHLSLLYHLTAVSSPAPGTPAFWVSGWLGPQQYLS
YNSLRGEAEPCGAWVWENQVSWYWEKETTDLRIKEKLFLEAFKALGGKGPYTLQGLLGCE
LGPDNTSVPTAKFALNGEEFMNFDLKQGTWGGDWPEALAISQRWQQQDKAANKELTFLLF
SCPHRLREHLERGRGNLEWKEPPSMRLKARPSSPGFSVLTCSAFSFYPPELQLRFLRNGL
AAGTGQGDFGPNSDGSFHASSSLTVKSGDEHHYCCIVQHAGLAQPLRVELVDHHHHHHVD

Sequence of entity 2 (B, D), FASTA

>5BXF_2 Beta-2-microglobulin (chains B, D)
MSRSVALAVLALLSLSGLEAIQRTPKIQVYSRHPAENGKSNFLNCYVSGFHPSDIEVDLL
KNGERIEKVEHSDLSFSKDWSFYLLYYTEFTPTEKDEYACRVNHVTLSQPKIVKWDRDM

Primary citation

Human Fc-Receptor Neonatal at low pH gives insights into different states of FcRn. Nam, H.-J., Taha, M. To be published.

Other PDB entries of the same protein (UniProt P55899 (AlphaFold model), which also has an AlphaFold model), best resolution first:

6C98 1.85 Å, Crystal structure of FcRn bound to UCB-84
6QIO 1.95 Å, Ternary complex of FcRn ectodomain, FcRn binding optimised human serum albumin and the…
6C97 2.0 Å, Crystal structure of FcRn at pH3
6C99 2.0 Å, Crystal structure of FcRn bound to UCB-303
9TF0 2.26 Å, Structure of echovirus 18 in complex with neonatal Fc receptor
6NHA 2.38 Å, Crystal structure of SYNT001, a human FcRn blocking monoclonal antibody
6LA6 2.39 Å, Cryo-EM structure of echovirus 11 complexed with its uncoating receptor FcRn at pH 7.4
4K71 2.4 Å, Crystal structure of a high affinity Human Serum Albumin variant bound to the Neonatal…
6WNA 2.4 Å, Next generation monomeric IgG4 Fc
9MI6 2.41 Å, Crystal structure of human FcRn in complex with nipocalimab Fab fragment
6QIP 2.45 Å, Ternary complex of FcRn ectodomain, FcRn binding optimised human serum albumin and the…
6WOL 2.49 Å, Next generation monomeric IgG4 Fc bound to neonatal Fc receptor

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