PKD domain

Available protein structures:
Pfam	structures / ECOD
PDB	RCSB PDB; PDBe; PDBj
PDBsum	structure summary
PDB	1l0qB:353–424 2c26A:1363–1442 2c4xA:1363–1442 1b4rA:277–352 1wgoA:787–869

PKD domain
PKD domain
Identifiers
Symbol	PKD
Pfam	PF00801
InterPro	IPR000601
SMART	PKD
SCOP2	1b4r / SCOPe / SUPFAM
CDD	cd00146
Pfam
Available protein structures:
Pfam	structures / ECOD
PDB	RCSB PDB; PDBe; PDBj
PDBsum	structure summary
PDB	1l0qB:353–424 2c26A:1363–1442 2c4xA:1363–1442 1b4rA:277–352 1wgoA:787–869

PKD (Polycystic Kidney Disease) domain was first identified in the polycystic kidney disease protein, polycystin-1 (PKD1 gene), and contains an Ig-like fold consisting of a beta-sandwich of seven strands in two sheets with a Greek key topology, although some members have additional strands.[1] Polycystin-1 is a large cell-surface glycoprotein involved in adhesive protein–protein and protein–carbohydrate interactions; however it is not clear if the PKD domain mediates any of these interactions.

PKD domains are also found in other proteins, usually in the extracellular parts of proteins involved in interactions with other proteins. For example, domains with a PKD-type fold are found in archaeal S-layer proteins that protect the cell from extreme environments,[2] and in the human receptor SorCS2.[3]

Human proteins containing this domain

GPNMB; PKD1; PKD1L1; PMEL; SORCS1; SORCS2; SORCS3

References

Bycroft M, Bateman A, Clarke J, Hamill SJ, Sandford R, Thomas RL, Chothia C (1999). "The structure of a PKD domain from polycystin-1: implications for polycystic kidney disease". EMBO J. 18 (2): 297–305. doi:10.1093/emboj/18.2.297. PMC 1171124. PMID 9889186.
Joachimiak A, Springer TA, Zhang RG, Wang JH, Liu JH, Jing H, Takagi J, Lindgren S (2002). "Archaeal surface layer proteins contain beta propeller, PKD, and beta helix domains and are related to metazoan cell surface proteins". Structure. 10 (10): 1453–1464. doi:10.1016/S0969-2126(02)00840-7. PMID 12377130.
Hermans-Borgmeyer I, Hampe W, Schaller HC, Rezgaoui M (2001). "The genes for the human VPS10 domain-containing receptors are large and contain many small exons". Hum. Genet. 108 (6): 529–36. doi:10.1007/s004390100504. PMID 11499680. S2CID 23375354.

This article incorporates text from the public domain Pfam and InterPro: IPR000601

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[PUB00001323-1] Bycroft M, Bateman A, Clarke J, Hamill SJ, Sandford R, Thomas RL, Chothia C (1999). "The structure of a PKD domain from polycystin-1: implications for polycystic kidney disease". EMBO J. 18 (2): 297–305. doi:10.1093/emboj/18.2.297. PMC 1171124. PMID 9889186.

[PUB00014157-2] Joachimiak A, Springer TA, Zhang RG, Wang JH, Liu JH, Jing H, Takagi J, Lindgren S (2002). "Archaeal surface layer proteins contain beta propeller, PKD, and beta helix domains and are related to metazoan cell surface proteins". Structure. 10 (10): 1453–1464. doi:10.1016/S0969-2126(02)00840-7. PMID 12377130.

[PUB00035973-3] Hermans-Borgmeyer I, Hampe W, Schaller HC, Rezgaoui M (2001). "The genes for the human VPS10 domain-containing receptors are large and contain many small exons". Hum. Genet. 108 (6): 529–36. doi:10.1007/s004390100504. PMID 11499680. S2CID 23375354.