Structure of PDB 5dzw Chain A

Receptor sequence

>5dzwA (length=417) Species: 10090 (Mus musculus)

QIHYSIPEEAKHGTFVGRIAQDLGLELTELVPRLFRVASKDRGDLLEVNL
QNGILFVNSRIDREELCGRSAECSIHLEVIVDRPLQVFHVEVEVRDINDN
PPRFPTTQKNLFIAESRPLDTWFPLEGASDADIGINAVLTYRLSPNDYFS
LEKPSNDERVKGLGLVLRKSLDREETPEIILVLTVTDGGKPELTGSVQLL
ITVLDANDNAPVFDRSLYTVKLPENVPNGTLVVKVNASDLDEGVNGDIMY
SFSTDISPNVKYKFHIDPVSGEIIVKGYIDFEECKSYEILIEGIDKGQLP
LSGHCKVIVQVEDINDNVPELEFKSLSLPIRENSPVGTVIALISVSDRDT
GVNGQVTCSLTSHVPFKLVSTFKNYYSLVLDSALDRETTADYKVVVTARD
GGSPSLWATASVSVEVA

3D structure

• PDB: 5dzw Structural Basis of Diverse Homophilic Recognition by Clustered alpha- and beta-Protocadherins.
• Chain: A
• Resolution: 2.43 Å

Interaction with ligand

Site #	Ligand	Ligand chain	Binding residues on receptor (original residue number in PDB)	Binding residues on receptor (residue number reindexed from 1)	Binding affinity
BS01	MAN	A	D391 S413 E415	D391 S413 E415
BS02	CA	A	E8 E64 D96 I97 D99 D132	E8 E64 D96 I97 D99 D132
BS03	CA	A	E8 E9 D62 E64 D99	E8 E9 D62 E64 D99
BS04	CA	A	N98 N100 D130 D132 N136	N98 N100 D130 D132 N136
BS05	CA	A	E115 E174 D205 A206 D208 D241	E115 E174 D205 A206 D208 D241
BS06	CA	A	E115 D172 E174 D208 N209	E115 D172 E174 D208 N209
BS07	CA	A	N207 N209 D239 D241 N245 D295	N207 N209 D239 D241 N245 D295
BS08	CA	A	E224 D280 E282 D316 N317	E224 D280 E282 D316 N317
BS09	CA	A	E224 E282 D313 I314 D316 D349	E224 E282 D313 I314 D316 D349
BS10	CA	A	N315 N317 D347 D349 N353 D400	N315 N317 D347 D349 N353 D400

Gene Ontology

Molecular Function

• GO:0005509 calcium ion binding

Biological Process

• GO:0007155 cell adhesion
• GO:0007156 homophilic cell adhesion via plasma membrane adhesion molecules

Cellular Component

• GO:0005886 plasma membrane
• GO:0016020 membrane

External links

• PDB: RCSB:5dzw, PDBe:5dzw, PDBj:5dzw
• PDBsum: 5dzw
• PubMed: 27161523
• UniProt: O88689|PCDA4_MOUSE Protocadherin alpha-4 (Gene Name=Pcdha4)