4HD9: Native human MAdCAM-1 D1D2 domain

Crystal structure of native human MAdCAM-1 D1D2 domain. Determined by X-ray diffraction at 1.7 Å resolution. Released 23 Jan 2013.

Method: X-ray diffraction
Resolution: 1.7 Å
Organism: Homo sapiens
Chains: 1
Atoms: 1,888
Mol. weight: 22.57 kDa
Ligands: NAG
Released: 23 Jan 2013

Explore 4HD9 in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

4HD9 contains 4 α-helices and 21 β-strands across 1 chain. 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: 4 helices, 21 β-strands

Element	Residues	Length	Sheet
β-strand	4-7	4	1
β-strand	12-16	5	2
β-strand	21-27	7	1
β-strand	35-40	6	2
β-strand	48-51	4	2
β-strand	54-59	6	1
α-helix	64-66	3
β-strand	68-76	9	2
β-strand	79-90	12	2
β-strand	91	1	3
β-strand	95-99	5	4
β-strand	103	1	5
β-strand	109-117	9	4
β-strand	118	1	3
β-strand	125-131	7	6
β-strand	134-135	2	6
β-strand	140-141	2	4
β-strand	145-148	4	4
α-helix	149-150	2
β-strand	161-168	8	4
α-helix	176-177	2
β-strand	179-188	10	6
β-strand	191-200	10	6
β-strand	201	1	5
α-helix	202	1

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
Mucosal addressin cell adhesion molecule 1	A	protein	209	Homo sapiens	Q13477 (AlphaFold model)

Sequence of entity 1 (A), FASTA

>4HD9_1 Mucosal addressin cell adhesion molecule 1 (chains A)
VKPLQVEPPEPVVAVALGASRQLTCRLACADRGASVQWRGLDTSLGAVQSDTGRSVLTVR
NASLSAAGTRVCVGSCGGRTFQHTVQLLVYAFPNQLTVSPAALVPGDPEVACTAHKVTPV
DPNALSFSLLVGGQELEGAQALGPEVQEEEEEPQGDEDVLFRVTERWRLPPLGTPVPPAL
YCQATMRLPGLELSHRQAIPVLHHHHHHH

Ligands and cofactors

ID	Name	Formula	Copies
NAG	2-acetamido-2-deoxy-beta-D-glucopyranose	C8 H15 N O6	1

Primary citation

A Different Fold with an Integrin-Binding Loop Specialized for Flexibility in Mucosal Addressin Cell Adhesion Molecule-1. Springer, T., Yu, Y., Zhu, J. et al. To be published.

Other PDB entries of the same protein (UniProt Q13477 (AlphaFold model), which also has an AlphaFold model), best resolution first:

4HBQ 1.4 Å, Crystal structure of a loop deleted mutant of Human MAdCAM-1 D1D2
1GSM 1.9 Å, A reassessment of the MAdCAM-1 structure and its role in integrin recognition.
1BQS 2.2 Å, The crystal structure of mucosal addressin cell adhesion molecule-1 (madcam-1)
4HCR 2.3 Å, Crystal structure of human MAdCAM-1 D1D2 complexed with Fab PF-547659
4HC1 2.87 Å, Crystal structure of a loop deleted mutant of human MAdCAM-1 D1D2 complexed with Fab 10G3
9P95 3.05 Å, CryoEM structure of integrin alpha4beta7 bound to MAdCAM-1

Browse structure collections

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