Uniprot accession / id : O35245  OR   Uniprot accession / id : Q13563
 
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Entry Information
Entry status  (1)
REL
(19)
 
Experimental methods  (3)
Electron Microscopy
(13)
Solution NMR
(4)
X-ray diffraction
(2)
 
Authors  (109)
Carpenter EP
(5)
Grieben M
(5)
Yu Y
(5)
DeCaen PG
(4)
Witzgall R
(4)
Arrowsmith CH
(3)
Bountra C
(3)
Cao E
(3)
Chen XZ
(3)
Edwards AM
(3)
Huiskonen JT
(3)
Pike AC
(3)
Pike ACW
(3)
Shi Y
(3)
Structural Genomics Consortium (SGC)
(3)
Su Q
(3)
Wang Z
(3)
Aryal P
(2)
Bader R
(2)
Baronina A
(2)
Besl E
(2)
Bulkley D
(2)
Buraei Z
(2)
Chen M
(2)
Chen MY
(2)
Chen X-Z
(2)
Corey RA
(2)
De Sanctis S
(2)
Esarte Palomero O
(2)
Hedger G
(2)
Heinz V
(2)
Hoffmeister H
(2)
Isacoff EY
(2)
Joos F
(2)
Kalbitzer HR
(2)
Kreuter L
(2)
Kuhlbrandt W
(2)
Kühlbrandt W
(2)
Li M-H
(2)
Li MH
(2)
Liu X
(2)
Madej MG
(2)
Morais TDC
(2)
Nasrallah C
(2)
Nazginov E
(2)
Ong AC
(2)
Ong ACM
(2)
Pillai AR
(2)
Qian F
(2)
Rhinow D
(2)
Richter RM
(2)
Ruppel S
(2)
Sansom MSP
(2)
Schmidt M
(2)
Schumann FH
(2)
Shi J
(2)
Shintre C
(2)
Tong L
(2)
Ulbrich MH
(2)
Wang Q
(2)
Wang Y
(2)
Wang ZF
(2)
Wilkes M
(2)
Yang J
(2)
Yang X
(2)
Ziegler C
(2)
Allen MD
(1)
Boggon TJ
(1)
Bulkey D
(1)
Burgess-Brown NA
(1)
Bycroft M
(1)
Cai R
(1)
Cao Y
(1)
Celic A
(1)
Chalk R
(1)
Clapham DE
(1)
Decaen PG
(1)
Ehrlich BE
(1)
El-Ajouz S
(1)
Flockerzi V
(1)
Ge X
(1)
Hodsdon ME
(1)
Hofmann L
(1)
Hu F
(1)
Hu Q
(1)
Hu R
(1)
Kennedy SD
(1)
Lei J
(1)
Mahajan P
(1)
Mei C
(1)
Mukhopadhyay S
(1)
Ng LCT
(1)
Petri ET
(1)
Qamar S
(1)
Sandford RN
(1)
Shen PS
(1)
Shintre CA
(1)
Shrestha L
(1)
Sitsapesan R
(1)
Tang J
(1)
 
More...
 
Homo / hetero assembly  (2)
homo
(18)
hetero
(1)
 
Assembly composition  (2)
protein structure
(18)
protein/protein complex
(1)
 
Assembly polymer count  (3)
tetramer
(13)
monomer
(4)
trimer
(2)
 
Resolution distribution
1.5 - 2
(2)
2.5 - 3
(6)
3.0 - 3.5
(2)
3.5 - 4
(2)
4.0 - 4.5
(3)
 
Release year distribution
2005 - 2010
(5)
2010 - 2015
(2)
2015 - 2020
(9)
2020 - 2025
(5)
2025 - 2030
(2)
 
Journal  (9)
Proc Natl Acad Sci U S A
(6)
Nat Struct Mol Biol
(3)
Biomol NMR Assign
(2)
Structure
(2)
To be published
(2)
Cell
(1)
Nat Commun
(1)
Protein Sci
(1)
Science
(1)
 
Macromolecules
Organism superkingdom  (1)
Eukaryota
(19)
 
Organism name  (1)
Homo sapiens
(19)
 
Molecule name  (7)
Autosomal dominant polycystic kidney disease type II protein
(19)
PC2
(19)
Polycystic kidney disease 2 protein
(19)
Polycystin-2
(19)
Polycystwin
(19)
R48321
(19)
Transient receptor potential cation channel subfamily P member 2
(19)
 
Molecule type  (1)
Protein
(19)
 
Gene names  (3)
PKD2
(19)
TRPP1
(19)
TRPP2
(19)
 
Interacting Molecules  (1)
Polycystin-1
(1)
 
Interacting ligands  (9)
NAG : 2-acetamido-2-deoxy-beta-D-glucopyranose
(10)
CA : CALCIUM ION
(4)
CHS : 4-AMINO-5-CYCLOHEXYL-3-HYDROXY-PENTANOIC ACID
(2)
CLR : CHOLESTEROL
(2)
PLM : PALMITIC ACID
(2)
PX6 : 1,2-DIPALMITOYL-SN-GLYCERO-3-PHOSPHATE
(2)
UMQ : UNDECYL-MALTOSIDE
(2)
AQV : 2-{2-oxo-2-[(4S)-2,2,4-trimethyl-3,4-dihydroquinolin-1(2H)-yl]ethyl}-1H-isoindole-1,3(2H)-dione
(1)
PEF : DI-PALMITOYL-3-SN-PHOSPHATIDYLETHANOLAMINE
(1)
 
Function and Biology
Biological function  (26)
calcium ion binding
(15)
ATPase binding
(2)
HLH domain binding
(2)
actinin binding
(2)
calcium channel activity
(2)
calcium-induced calcium release activity
(2)
channel activity
(2)
cytoskeletal protein binding
(2)
identical protein binding
(2)
metal ion binding
(2)
monoatomic cation channel activity
(2)
muscle alpha-actinin binding
(2)
outward rectifier potassium channel activity
(2)
phosphoprotein binding
(2)
potassium channel activity
(2)
protein binding
(2)
protein homodimerization activity
(2)
signaling receptor binding
(2)
sodium channel activity
(2)
transcription regulator inhibitor activity
(2)
transmembrane transporter binding
(2)
voltage-gated calcium channel activity
(2)
voltage-gated monoatomic cation channel activity
(2)
voltage-gated monoatomic ion channel activity
(2)
voltage-gated potassium channel activity
(2)
voltage-gated sodium channel activity
(2)
 
Biological process  (62)
Wnt signaling pathway
(2)
aorta development
(2)
branching involved in ureteric bud morphogenesis
(2)
calcium ion transmembrane transport
(2)
calcium ion transport
(2)
calcium-mediated signaling
(2)
cell surface receptor signaling pathway
(2)
cell surface receptor signaling pathway via JAK-STAT
(2)
cellular response to cAMP
(2)
cellular response to calcium ion
(2)
cellular response to fluid shear stress
(2)
cellular response to hydrostatic pressure
(2)
cellular response to osmotic stress
(2)
cellular response to reactive oxygen species
(2)
centrosome duplication
(2)
cilium organization
(2)
detection of mechanical stimulus
(2)
detection of nodal flow
(2)
determination of left/right symmetry
(2)
determination of liver left/right asymmetry
(2)
embryonic placenta development
(2)
establishment of localization in cell
(2)
heart development
(2)
heart looping
(2)
inorganic cation transmembrane transport
(2)
intracellular calcium ion homeostasis
(2)
kidney development
(2)
liver development
(2)
mesonephric duct development
(2)
mesonephric tubule development
(2)
metanephric S-shaped body morphogenesis
(2)
metanephric ascending thin limb development
(2)
metanephric cortex development
(2)
metanephric cortical collecting duct development
(2)
metanephric distal tubule development
(2)
metanephric mesenchyme development
(2)
metanephric part of ureteric bud development
(2)
metanephric smooth muscle tissue development
(2)
monoatomic ion transmembrane transport
(2)
monoatomic ion transport
(2)
negative regulation of G1/S transition of mitotic cell cycle
(2)
negative regulation of cell population proliferation
(2)
neural tube development
(2)
placenta blood vessel development
(2)
positive regulation of gene expression
(2)
positive regulation of nitric oxide biosynthetic process
(2)
positive regulation of phospholipase C-activating G protein-coupled receptor signaling pathway
(2)
positive regulation of transcription by RNA polymerase II
(2)
potassium ion transmembrane transport
(2)
potassium ion transport
(2)
protein heterotetramerization
(2)
protein homotetramerization
(2)
protein tetramerization
(2)
regulation of calcium ion import
(2)
regulation of cell cycle
(2)
regulation of cell population proliferation
(2)
release of sequestered calcium ion into cytosol
(2)
renal artery morphogenesis
(2)
renal tubule morphogenesis
(2)
sodium ion transmembrane transport
(2)
sodium ion transport
(2)
spinal cord development
(2)
 
Biological cell component  (30)
membrane
(11)
Golgi apparatus
(2)
basal cortex
(2)
basal plasma membrane
(2)
basolateral plasma membrane
(2)
cation channel complex
(2)
cell projection
(2)
cell-cell junction
(2)
ciliary basal body
(2)
ciliary membrane
(2)
cilium
(2)
cytoplasm
(2)
cytoplasmic side of endoplasmic reticulum membrane
(2)
cytoplasmic vesicle
(2)
cytoplasmic vesicle membrane
(2)
cytosol
(2)
endoplasmic reticulum
(2)
endoplasmic reticulum membrane
(2)
extracellular exosome
(2)
extracellular region
(2)
lamellipodium
(2)
lumenal side of endoplasmic reticulum membrane
(2)
migrasome
(2)
mitotic spindle
(2)
monoatomic ion channel complex
(2)
motile cilium
(2)
non-motile cilium
(2)
plasma membrane
(2)
polycystin complex
(2)
vesicle
(2)
 
Sequence and Structure classification
CATH class  (1)
Mainly Alpha
(5)
 
CATH topology  (2)
Recoverin; domain 1
(4)
Single alpha-helices involved in coiled-coils or other helix-helix interfaces
(1)
 
Pfam accession / name  (4)
PF00520 : Ion_trans
(13)
PF08016 : PKD_channel
(13)
PF20519 : Polycystin_dom
(13)
PF18109 : Fer4_24
(4)
 
Experimental Information
Diffraction protocol  (1)
Single wavelength
(2)
 
Diffraction radiation source type  (2)
Rotating anode
(1)
Synchrotron
(1)
 
Diffraction source  (2)
NSLS BEAMLINE X4C
(1)
RIGAKU
(1)
 
Synchrotron site  (1)
NSLS
(1)
 
Diffraction detector type  (2)
CCD
(1)
Image plate
(1)
 
Refinement software  (3)
PHENIX
(8)
CNS
(2)
REFMAC
(1)
 
EM microscope model  (4)
FEI TITAN KRIOS
(7)
FEI POLARA 300
(3)
JEOL 3200FSC
(2)
TFS KRIOS
(1)
 
EM detector name  (3)
GATAN K2 SUMMIT (4k x 4k)
(8)
GATAN K3 (6k x 4k)
(4)
GATAN K2 IS (4k x 4k)
(1)
 
NMR
NMR software packages  (11)
CNS
(3)
AUREMOL
(2)
TopSpin
(2)
Auremol-ISIC
(1)
CYANA
(1)
MOLMOL
(1)
NMRDraw
(1)
NMRPipe
(1)
PSVS
(1)
Sparky
(1)
Xplor-NIH
(1)
 
NMR Field Strength
500.0 - 600
(4)
600.0 - 700
(4)
700.0 - 800
(3)
800.0 - 900
(3)
 
Representative Structures
Representative Structures
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Entries 1 to 10 of 19
Entries 1 to 10 of 19
 Select all entries on this page
CryoEM structure of the human Polycystin-2/PKD2 TRP channel
Pike ACW, Grieben M, Shintre CA, Tessitore A, Shrestha L, Mukhopadhyay S, Mahajan P, Chalk R, Burgess-Brown NA, Huiskonen JT, Arrowsmith CH, Edwards AM, Bountra C, Carpenter EP, Structural Genomics Consortium (SGC)
Nat Struct Mol Biol (2017) [PMID: 27991905  ]
Source organism: Homo sapiens  
Assembly composition: protein only structure
Bound ligands: NAG    NAG   
Carbohydrate polymer components:
Molecule 1 - NAG(2)
Assembly name: Polycystin-2 (Preferred)   search this complex
PDBe complex ID: PDB-CPX-171761 (Preferred)   search this ID
PDBe-KB: Q13563   
Electron Microscopy
4.22Å resolution
Released: 24 Aug 2016
Model geometry
Fit model/data
Data not analysed
5k47
5k47
5k47
human PKD2 F604P mutant
Zheng W, Yang X, Bulkley D, Chen XZ, Cao E
Nat Commun (2018) [PMID: 29899465  ]
Source organism: Homo sapiens  
Assembly composition: protein only structure
Bound ligands: NAG    NAG   
Assembly name: Polycystin-2 (Preferred)   search this complex
PDBe complex ID: PDB-CPX-171761 (Preferred)   search this ID
PDBe-KB: Q13563   
Electron Microscopy
3.54Å resolution
Released: 27 Jun 2018
Model geometry
Fit model/data
Data not analysed
6d1w
6d1w
6d1w
Cryo-EM structure of Polycystic Kidney Disease protein 2 (PKD2), residues 198-703
Shen PS, Yang X, DeCaen PG, Liu X, Bulkley D, Clapham DE, Cao E
Cell (2016) [PMID: 27768895  ]
Source organism: Homo sapiens  
Assembly composition: protein only structure
Bound ligands: NAG    NAG   
Assembly name: Polycystin-2 (Preferred)   search this complex
PDBe complex ID: PDB-CPX-171761 (Preferred)   search this ID
PDBe-KB: Q13563   
Electron Microscopy
3Å resolution
Released: 2 Nov 2016
Model geometry
Fit model/data
Data not analysed
5t4d
5t4d
5t4d
Structure of PKD2-F604P (Polycystin-2, TRPP2) with ML-SA1
Chen MY, Su Q, Wang ZF, Yu Y
Proc Natl Acad Sci U S A (2024) [PMID: 38483987  ]
Source organism: Homo sapiens  
Assembly composition: protein only structure
Bound ligands: CA    NAG    CA    NAG    AQV    AQV   
Assembly name: Polycystin-2 (Preferred)   search this complex
PDBe complex ID: PDB-CPX-171761 (Preferred)   search this ID
PDBe-KB: Q13563   
Electron Microscopy
3Å resolution
Released: 27 Mar 2024
Model geometry
Fit model/data
Data not analysed
8hk7
8hk7
8hk7
Structure of PKD2-F604P complex
Chen MY, Su Q, Wang ZF, Yu Y
Proc Natl Acad Sci U S A (2024) [PMID: 38483987  ]
Source organism: Homo sapiens  
Assembly composition: protein only structure
Bound ligands: CA    PEF    NAG    CA    NAG    PEF   
Assembly name: Polycystin-2 (Preferred)   search this complex
PDBe complex ID: PDB-CPX-171761 (Preferred)   search this ID
PDBe-KB: Q13563   
Electron Microscopy
3Å resolution
Released: 3 Apr 2024
Model geometry
Fit model/data
Data not analysed
8k3s
8k3s
8k3s
PKD2 ion channel, F629S variant
Esarte Palomero O, DeCaen PG
To be published
Source organism: Homo sapiens  
Assembly composition: protein only structure
Bound ligands: CA    CA   
Assembly name: Polycystin-2 (Preferred)   search this complex
PDBe complex ID: PDB-CPX-171761 (Preferred)   search this ID
PDBe-KB: Q13563   
Electron Microscopy
2.76Å resolution
Released: 12 Mar 2025
Model geometry
Fit model/data
Data not analysed
9dwq
9dwq
9dwq
PKD2 ion channel, R638C variant
Esarte Palomero O, DeCaen PG
To be published
Source organism: Homo sapiens  
Assembly composition: protein only structure
Assembly name: Polycystin-2 (Preferred)   search this complex
PDBe complex ID: PDB-CPX-171761 (Preferred)   search this ID
PDBe-KB: Q13563   
Electron Microscopy
2.7Å resolution
Released: 12 Mar 2025
Model geometry
Fit model/data
Data not analysed
9dli
9dli
9dli
Cryo-EM structure of PKD2 C331S disease variant
Cao E, Wang J, Decaen PG
Proc Natl Acad Sci U S A (2020) [PMID: 32332171  ]
Source organism: Homo sapiens  
Assembly composition: protein only structure
Bound ligands: NAG    NAG   
Assembly name: Polycystin-2 (Preferred)   search this complex
PDBe complex ID: PDB-CPX-171761 (Preferred)   search this ID
PDBe-KB: Q13563   
Electron Microscopy
3.24Å resolution
Released: 22 Apr 2020
Model geometry
Fit model/data
Data not analysed
6wb8
6wb8
6wb8
cryoEM Structure of Polycystin-2 in complex with calcium and lipids
Wilkes M, Madej MG, Ziegler C
Nat Struct Mol Biol (2017) [PMID: 28092368  ]
Source organism: Homo sapiens  
Assembly composition: protein only structure
Bound ligands: CA    CHS    PX6    NAG    CA    PX6    PLM    NAG    CHS   
Carbohydrate polymer components:
Molecule 1 - NAG(2)
Assembly name: Polycystin-2 (Preferred)   search this complex
PDBe complex ID: PDB-CPX-171761 (Preferred)   search this ID
PDBe-KB: Q13563   
Electron Microscopy
4.2Å resolution
Released: 18 Jan 2017
Model geometry
Fit model/data
Data not analysed
5mkf
5mkf
5mkf
cryoEM Structure of Polycystin-2 in complex with cations and lipids
Wilkes M, Madej MG, Ziegler C
Nat Struct Mol Biol (2017) [PMID: 28092368  ]
Source organism: Homo sapiens  
Assembly composition: protein only structure
Bound ligands: CA    CHS    PX6    NAG    CA    PX6    PLM    NAG    CHS   
Carbohydrate polymer components:
Molecule 1 - NAG(2)
Assembly name: Polycystin-2 (Preferred)   search this complex
PDBe complex ID: PDB-CPX-171761 (Preferred)   search this ID
PDBe-KB: Q13563   
Electron Microscopy
4.3Å resolution
Released: 18 Jan 2017
Model geometry
Fit model/data
Data not analysed
5mke
5mke
5mke
Entries 1 to 10 of 19
Entries 1 to 10 of 19