Compound three letter code : 6UB
 
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Entry Information
Entry status  (1)
REL
(4)
 
Experimental methods  (2)
Electron Microscopy
(2)
X-ray diffraction
(2)
 
Authors  (28)
Catterall WA
(2)
Gamal El-Din TM
(2)
Gao S
(2)
Tang L
(2)
Yan N
(2)
Zheng N
(2)
Chen J
(1)
El-Din TM
(1)
Fan X
(1)
Gamal EL-Din TM
(1)
Huang G
(1)
Huang J
(1)
Jin X
(1)
Lenaeus MJ
(1)
Li Z
(1)
Liu L
(1)
Pan X
(1)
Pryde DC
(1)
Scheuer T
(1)
Song C
(1)
Swanson TM
(1)
Wang Y
(1)
Wang Z
(1)
Wu T
(1)
Xue L
(1)
Yao X
(1)
Yu Y
(1)
Zheng Y
(1)
 
Homo / hetero assembly  (2)
hetero
(2)
homo
(2)
 
Assembly composition  (2)
protein structure
(2)
protein/protein complex
(2)
 
Assembly polymer count  (2)
tetramer
(3)
trimer
(1)
 
Resolution distribution
2.5 - 3
(3)
3.0 - 3.5
(1)
 
Release year distribution
2015 - 2020
(3)
2020 - 2025
(2)
 
Journal  (4)
Angew Chem Int Ed Engl
(1)
Cell
(1)
Mol Pharmacol
(1)
Nature
(1)
 
Macromolecules
Organism superkingdom  (2)
Bacteria
(2)
Eukaryota
(2)
 
Organism name  (4)
Aliarcobacter butzleri RM4018
(2)
Dendroaspis polylepis polylepis
(1)
Homo sapiens
(1)
Oryctolagus cuniculus
(1)
 
Molecule name  (23)
Ion transport domain-containing protein
(2)
Ion transport protein
(2)
Voltage-dependent calcium channel subunit alpha-2-1
(2)
Voltage-dependent calcium channel subunit alpha-2/delta-1
(2)
Voltage-dependent calcium channel subunit delta-1
(2)
Voltage-gated calcium channel subunit alpha-2/delta-1
(2)
CAB3
(1)
CaS
(1)
Calciseptin
(1)
Calciseptine
(1)
Calcium channel voltage-dependent subunit beta 3
(1)
Calcium channel, L type, alpha-1 polypeptide, isoform 1, cardiac muscle
(1)
Calcium channel, L type, alpha-1 polypeptide, isoform 3, skeletal muscle
(1)
DHPR
(1)
Dihydropyridine receptor alpha-1S subunit
(1)
Dihydropyridine-sensitive L-type, skeletal muscle calcium channel subunit gamma
(1)
L-type calcium channel blocker
(1)
Voltage-dependent L-type calcium channel subunit alpha-1C
(1)
Voltage-dependent L-type calcium channel subunit alpha-1S
(1)
Voltage-dependent L-type calcium channel subunit beta-3
(1)
Voltage-dependent calcium channel gamma-1 subunit
(1)
Voltage-gated calcium channel subunit alpha Cav1.1
(1)
Voltage-gated calcium channel subunit alpha Cav1.2
(1)
 
Molecule type  (1)
Protein
(4)
 
Gene names  (17)
Abu_1752
(2)
CACNA2D1
(2)
CACNL2A
(2)
CCHL2A
(2)
CACH1
(1)
CACH2
(1)
CACN2
(1)
CACNA1C
(1)
CACNA1S
(1)
CACNB3
(1)
CACNG1
(1)
CACNL1A1
(1)
CACNL1A3
(1)
CACNLB3
(1)
CACNLG
(1)
CCHL1A1
(1)
MHS3
(1)
 
Interacting Molecules  (6)
Voltage-dependent calcium channel subunit alpha-2/delta-1
(2)
Calciseptin
(1)
Voltage-dependent L-type calcium channel subunit alpha-1C
(1)
Voltage-dependent L-type calcium channel subunit alpha-1S
(1)
Voltage-dependent L-type calcium channel subunit beta-3
(1)
Voltage-dependent calcium channel gamma-1 subunit
(1)
 
Interacting ligands  (12)
6UB : amlodipine
(4)
CA : CALCIUM ION
(4)
3PE : 1,2-Distearoyl-sn-glycerophosphoethanolamine
(2)
CLR : CHOLESTEROL
(1)
D6C : [(2~{S},3~{R})-5-[2-(dimethylamino)ethyl]-2-(4-methoxyphenyl)-4-oxidanylidene-2,3-dihydro-1,5-benzothiazepin-3-yl] ethanoate
(1)
G3P : SN-GLYCEROL-3-PHOSPHATE
(1)
LPC : [1-MYRISTOYL-GLYCEROL-3-YL]PHOSPHONYLCHOLINE
(1)
MC3 : 1,2-DIMYRISTOYL-RAC-GLYCERO-3-PHOSPHOCHOLINE
(1)
NAG : 2-acetamido-2-deoxy-beta-D-glucopyranose
(1)
PC1 : 1,2-DIACYL-SN-GLYCERO-3-PHOSPHOCHOLINE
(1)
POV : (2S)-3-(hexadecanoyloxy)-2-[(9Z)-octadec-9-enoyloxy]propyl 2-(trimethylammonio)ethyl phosphate
(1)
PT5 : [(2R)-1-octadecanoyloxy-3-[oxidanyl-[(1R,2R,3S,4R,5R,6S)-2,3,6-tris(oxidanyl)-4,5-diphosphonooxy-cyclohexyl]oxy-phospho ryl]oxy-propan-2-yl] (8Z)-icosa-5,8,11,14-tetraenoate
(1)
 
Function and Biology
Biological function  (17)
metal ion binding
(4)
monoatomic ion channel activity
(4)
calcium channel activity
(2)
calcium channel regulator activity
(2)
calmodulin binding
(2)
high voltage-gated calcium channel activity
(2)
identical protein binding
(2)
monoatomic cation channel activity
(2)
protein binding
(2)
voltage-gated calcium channel activity
(2)
voltage-gated sodium channel activity
(2)
alpha-actinin binding
(1)
ion channel regulator activity
(1)
toxin activity
(1)
transmembrane transporter binding
(1)
voltage-gated calcium channel activity involved in AV node cell action potential
(1)
voltage-gated calcium channel activity involved in cardiac muscle cell action potential
(1)
 
Biological process  (37)
monoatomic ion transmembrane transport
(4)
monoatomic ion transport
(4)
transmembrane transport
(4)
calcium ion import across plasma membrane
(2)
calcium ion transmembrane transport
(2)
calcium ion transport
(2)
monoatomic cation transmembrane transport
(2)
positive regulation of muscle contraction
(2)
sodium ion transmembrane transport
(2)
T cell receptor signaling pathway
(1)
calcium ion transmembrane transport via high voltage-gated calcium channel
(1)
calcium ion transport into cytosol
(1)
camera-type eye development
(1)
cardiac conduction
(1)
cardiac muscle cell action potential involved in contraction
(1)
cell communication by electrical coupling involved in cardiac conduction
(1)
cellular response to caffeine
(1)
chemical synaptic transmission
(1)
embryonic forelimb morphogenesis
(1)
heart development
(1)
immune system development
(1)
membrane depolarization during AV node cell action potential
(1)
membrane depolarization during atrial cardiac muscle cell action potential
(1)
membrane depolarization during cardiac muscle cell action potential
(1)
modulation of process of another organism
(1)
muscle contraction
(1)
positive regulation of adenylate cyclase activity
(1)
positive regulation of cytosolic calcium ion concentration
(1)
positive regulation of high voltage-gated calcium channel activity
(1)
protein localization to plasma membrane
(1)
regulation of calcium ion transmembrane transport via high voltage-gated calcium channel
(1)
regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion
(1)
regulation of heart rate by cardiac conduction
(1)
regulation of membrane repolarization during action potential
(1)
regulation of ryanodine-sensitive calcium-release channel activity
(1)
regulation of ventricular cardiac muscle cell action potential
(1)
release of sequestered calcium ion into cytosol
(1)
 
Biological cell component  (21)
membrane
(4)
plasma membrane
(4)
L-type voltage-gated calcium channel complex
(2)
T-tubule
(2)
monoatomic ion channel complex
(2)
sarcolemma
(2)
voltage-gated calcium channel complex
(2)
voltage-gated sodium channel complex
(2)
Z disc
(1)
cell projection
(1)
cilium
(1)
cytoplasm
(1)
cytosol
(1)
dendrite
(1)
extracellular region
(1)
nucleoplasm
(1)
perikaryon
(1)
postsynaptic density
(1)
postsynaptic density membrane
(1)
postsynaptic membrane
(1)
synapse
(1)
 
Sequence and Structure classification
Pfam accession / name  (12)
PF00520 : Ion_trans
(4)
PF08016 : PKD_channel
(4)
PF00092 : VWA
(2)
PF08399 : VWA_N
(2)
PF08473 : VGCC_alpha2
(2)
PF08763 : Ca_chan_IQ
(2)
PF16885 : CAC1F_C
(2)
PF16905 : GPHH
(2)
PF00625 : Guanylate_kin
(1)
PF12052 : VGCC_beta4Aa_N
(1)
PF13903 : Claudin_2
(1)
PF21947 : Toxin_cobra-type
(1)
 
Experimental Information
Diffraction protocol  (1)
Single wavelength
(2)
 
Diffraction radiation source type  (1)
Synchrotron
(2)
 
Diffraction source  (1)
ALS BEAMLINE 8.2.1
(2)
 
Synchrotron site  (1)
ALS
(2)
 
Diffraction detector type  (1)
CCD
(2)
 
Refinement software  (2)
PHENIX
(2)
REFMAC
(1)
 
Representative Structures
Representative Structures
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Entries 1 to 4 of 4
Entries 1 to 4 of 4
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Structure of CavAb in complex with amlodipine
Tang L, Gamal EL-Din TM, Swanson TM, Pryde DC, Scheuer T, Zheng N, Catterall WA
Nature (2016) [PMID: 27556947  ]
Assembly composition: protein only structure
Bound ligands: CA    MC3    CA    6UB    MC3   
Assembly name: Ion transport domain-containing protein (Preferred)   search this complex
PDBe complex ID: PDB-CPX-108631 (Preferred)   search this ID
PDBe-KB: A8EVM5   
X-ray diffraction
3.2Å resolution
Released: 31 Aug 2016
Model geometry
Fit model/data
5kmd
5kmd
5kmd
Human L-type voltage-gated calcium channel Cav1.2 in the presence of calciseptine, amlodipine and pinaverium at 2.9 Angstrom resolution
Gao S, Yao X, Yan N
Cell (2023) [PMID: 37972591  ]
Assembly composition: protein/protein complex
Bound ligands: CLR    CA    NAG    CA    CLR    6UB    NAG    PT5    3PE    3PE   
Carbohydrate polymer components:
Molecule 1 - NAG(3)
Molecule 2 - NAG(2)
Molecule 3 - NAG(4)
Assembly name: Cav1.2 voltage-gated calcium channel complex, CACNA2D1-CACNB3 variant and Calciseptin (Preferred)   search this complex
PDBe complex ID: PDB-CPX-236277 (Preferred)   search this ID
PDBe-KB: Q13936    P54289    P22947    P54284    Q13936   
Electron Microscopy
2.9Å resolution
Released: 6 Dec 2023
Model geometry
Fit model/data
Data not analysed
8we8
8we8
8we8
Rabbit Cav1.1 in the presence of 100 micromolar amlodipine in nanodiscs at 2.9 Angstrom resolution
Yan N, Gao S
Angew Chem Int Ed Engl (2021) [PMID: 33125829  ]
Source organism: Oryctolagus cuniculus  
Assembly composition: protein/protein complex
Bound ligands: CA    PC1    CA    POV    6UB    PC1    POV    3PE    3PE   
Assembly name: Voltage-dependent calcium channel (Preferred)   search this complex
PDBe complex ID: PDB-CPX-139486 (Preferred)   search this ID
PDBe-KB: P07293    P19518    P13806   
Electron Microscopy
2.9Å resolution
Released: 18 Nov 2020
Model geometry
Fit model/data
Data not analysed
7jpx
7jpx
7jpx
Structure of CavAb in complex with Diltiazem and Amlodipine
Tang L
Mol Pharmacol (2019) [PMID: 31391290  ]
Assembly composition: protein only structure
Bound ligands: G3P    LPC    CA    G3P    CA    D6C    LPC    6UB   
Assembly name: Ion transport domain-containing protein (Preferred)   search this complex
PDBe complex ID: PDB-CPX-108631 (Preferred)   search this ID
PDBe-KB: A8EVM5   
X-ray diffraction
2.803Å resolution
Released: 23 Oct 2019
Model geometry
Fit model/data
6ke5
6ke5
6ke5
Entries 1 to 4 of 4
Entries 1 to 4 of 4