[English] 日本語
![](img/lk-miru.gif)
- EMDB-24844: Human KATP channel in open conformation, focused on Kir and one S... -
+
Open data
-
Basic information
Entry | Database: EMDB / ID: EMD-24844 | |||||||||
---|---|---|---|---|---|---|---|---|---|---|
Title | Human KATP channel in open conformation, focused on Kir and one SUR, position 3 | |||||||||
![]() | focused on Kir and one SUR after sharpening (B-factor: 53.4), position 3 | |||||||||
![]() |
| |||||||||
Function / homology | ![]() negative regulation of neuroblast migration / positive regulation of uterine smooth muscle relaxation / ATP sensitive Potassium channels / Defective ABCC8 can cause hypo- and hyper-glycemias / positive regulation of tight junction disassembly / potassium ion-transporting ATPase complex / negative regulation of blood-brain barrier permeability / response to resveratrol / ATP-activated inward rectifier potassium channel activity / glutamate secretion, neurotransmission ...negative regulation of neuroblast migration / positive regulation of uterine smooth muscle relaxation / ATP sensitive Potassium channels / Defective ABCC8 can cause hypo- and hyper-glycemias / positive regulation of tight junction disassembly / potassium ion-transporting ATPase complex / negative regulation of blood-brain barrier permeability / response to resveratrol / ATP-activated inward rectifier potassium channel activity / glutamate secretion, neurotransmission / inward rectifying potassium channel / negative regulation of low-density lipoprotein particle clearance / cell body fiber / sulfonylurea receptor activity / ventricular cardiac muscle tissue development / CAMKK-AMPK signaling cascade / positive regulation of potassium ion transport / ATPase-coupled monoatomic cation transmembrane transporter activity / regulation of monoatomic ion transmembrane transport / response to pH / inorganic cation transmembrane transport / neuromuscular process / ankyrin binding / negative regulation of glial cell proliferation / response to ATP / : / response to zinc ion / response to testosterone / intracellular glucose homeostasis / potassium ion import across plasma membrane / action potential / positive regulation of insulin secretion involved in cellular response to glucose stimulus / potassium channel activity / intercalated disc / ATPase-coupled transmembrane transporter activity / axolemma / ABC-type transporter activity / negative regulation of insulin secretion / negative regulation of angiogenesis / potassium ion transmembrane transport / T-tubule / heat shock protein binding / positive regulation of protein localization to plasma membrane / potassium ion transport / acrosomal vesicle / response to ischemia / Regulation of insulin secretion / female pregnancy / determination of adult lifespan / cellular response to glucose stimulus / response to insulin / visual learning / sarcolemma / transmembrane transport / memory / ADP binding / synaptic vesicle membrane / cellular response to nicotine / nuclear envelope / positive regulation of tumor necrosis factor production / response to estradiol / cellular response to tumor necrosis factor / presynaptic membrane / transmembrane transporter binding / response to lipopolysaccharide / endosome / response to hypoxia / response to xenobiotic stimulus / neuronal cell body / glutamatergic synapse / apoptotic process / ATP hydrolysis activity / ATP binding / membrane / plasma membrane Similarity search - Function | |||||||||
Biological species | ![]() | |||||||||
Method | single particle reconstruction / cryo EM / Resolution: 3.9 Å | |||||||||
![]() | Zhao C / MacKinnon R | |||||||||
Funding support | ![]()
| |||||||||
![]() | ![]() Title: Molecular structure of an open human K channel. Authors: Chen Zhao / Roderick MacKinnon / ![]() Abstract: K channels are metabolic sensors that translate intracellular ATP/ADP balance into membrane excitability. The molecular composition of K includes an inward-rectifier potassium channel (Kir) and an ...K channels are metabolic sensors that translate intracellular ATP/ADP balance into membrane excitability. The molecular composition of K includes an inward-rectifier potassium channel (Kir) and an ABC transporter-like sulfonylurea receptor (SUR). Although structures of K have been determined in many conformations, in all cases, the pore in Kir is closed. Here, we describe human pancreatic K (hK) structures with an open pore at 3.1- to 4.0-Å resolution using single-particle cryo-electron microscopy (cryo-EM). Pore opening is associated with coordinated structural changes within the ATP-binding site and the channel gate in Kir. Conformational changes in SUR are also observed, resulting in an area reduction of contact surfaces between SUR and Kir. We also observe that pancreatic hK exhibits the unique (among inward-rectifier channels) property of PIP-independent opening, which appears to be correlated with a docked cytoplasmic domain in the absence of PIP. | |||||||||
History |
|
-
Structure visualization
Movie |
![]() |
---|---|
Structure viewer | EM map: ![]() ![]() ![]() |
Supplemental images |
-
Downloads & links
-EMDB archive
Map data | ![]() | 173.8 MB | ![]() | |
---|---|---|---|---|
Header (meta data) | ![]() ![]() | 15.1 KB 15.1 KB | Display Display | ![]() |
FSC (resolution estimation) | ![]() | 12.7 KB | Display | ![]() |
Images | ![]() | 141.1 KB | ||
Archive directory | ![]() ![]() | HTTPS FTP |
-Validation report
Summary document | ![]() | 523.6 KB | Display | ![]() |
---|---|---|---|---|
Full document | ![]() | 523.1 KB | Display | |
Data in XML | ![]() | 13.3 KB | Display | |
Data in CIF | ![]() | 18 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 7s5zMC ![]() 7s5tC ![]() 7s5vC ![]() 7s5xC ![]() 7s5yC ![]() 7s60C ![]() 7s61C M: atomic model generated by this map C: citing same article ( |
---|---|
Similar structure data |
-
Links
EMDB pages | ![]() ![]() |
---|---|
Related items in Molecule of the Month |
-
Map
File | ![]() | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Annotation | focused on Kir and one SUR after sharpening (B-factor: 53.4), position 3 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Voxel size | X=Y=Z: 1.3 Å | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Density |
| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Symmetry | Space group: 1 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Details | EMDB XML:
CCP4 map header:
|
-Supplemental data
-
Sample components
-Entire : Human KATP channel composed of Kir6.2 (C166S G334D) and SUR1
Entire | Name: Human KATP channel composed of Kir6.2 (C166S G334D) and SUR1 |
---|---|
Components |
|
-Supramolecule #1: Human KATP channel composed of Kir6.2 (C166S G334D) and SUR1
Supramolecule | Name: Human KATP channel composed of Kir6.2 (C166S G334D) and SUR1 type: complex / ID: 1 / Parent: 0 / Macromolecule list: #1-#2 |
---|---|
Source (natural) | Organism: ![]() |
Recombinant expression | Organism: ![]() |
Molecular weight | Theoretical: 881.87 kDa/nm |
-Supramolecule #2: Kir6.2 (C166S G334D) subunit of human KATP
Supramolecule | Name: Kir6.2 (C166S G334D) subunit of human KATP / type: complex / ID: 2 / Parent: 1 / Macromolecule list: #1 |
---|---|
Source (natural) | Organism: ![]() |
Recombinant expression | Organism: ![]() |
-Supramolecule #3: SUR1 subunit of human KATP
Supramolecule | Name: SUR1 subunit of human KATP / type: complex / ID: 3 / Parent: 1 / Macromolecule list: #2 |
---|---|
Source (natural) | Organism: ![]() |
Recombinant expression | Organism: ![]() |
-Macromolecule #1: ATP-sensitive inward rectifier potassium channel 11
Macromolecule | Name: ATP-sensitive inward rectifier potassium channel 11 / type: protein_or_peptide / ID: 1 / Number of copies: 4 / Enantiomer: LEVO |
---|---|
Source (natural) | Organism: ![]() |
Molecular weight | Theoretical: 43.622746 KDa |
Recombinant expression | Organism: ![]() |
Sequence | String: MLSRKGIIPE EYVLTRLAED PAKPRYRARQ RRARFVSKKG NCNVAHKNIR EQGRFLQDVF TTLVDLKWPH TLLIFTMSFL CSWLLFAMA WWLIAFAHGD LAPSEGTAEP CVTSIHSFSS AFLFSIEVQV TIGFGGRMVT EECPLAILIL IVQNIVGLMI N AIMLGSIF ...String: MLSRKGIIPE EYVLTRLAED PAKPRYRARQ RRARFVSKKG NCNVAHKNIR EQGRFLQDVF TTLVDLKWPH TLLIFTMSFL CSWLLFAMA WWLIAFAHGD LAPSEGTAEP CVTSIHSFSS AFLFSIEVQV TIGFGGRMVT EECPLAILIL IVQNIVGLMI N AIMLGSIF MKTAQAHRRA ETLIFSKHAV IALRHGRLCF MLRVGDLRKS MIISATIHMQ VVRKTTSPEG EVVPLHQVDI PM ENGVGGN SIFLVAPLII YHVIDANSPL YDLAPSDLHH HQDLEIIVIL EGVVETTGIT TQARTSYLAD EILWGQRFVP IVA EEDGRY SVDYSKFDNT VKVPTPLCTA RQLDEDHSLL EALTLASARG PLRKRSVPMA KAKPKFSISP DSLS |
-Macromolecule #2: ATP-binding cassette sub-family C member 8
Macromolecule | Name: ATP-binding cassette sub-family C member 8 / type: protein_or_peptide / ID: 2 / Number of copies: 1 / Enantiomer: LEVO |
---|---|
Source (natural) | Organism: ![]() |
Molecular weight | Theoretical: 177.237266 KDa |
Recombinant expression | Organism: ![]() |
Sequence | String: MGPLAFCGSE NHSAAYRVDQ GVLNNGCFVD ALNVVPHVFL LFITFPILFI GWGSQSSKVH IHHSTWLHFP GHNLRWILTF MLLFVLVCE IAEGILSDGV TESHHLHLYM PAGMAFMAAV TSVVYYHNIE TSNFPKLLIA LLVYWTLAFI TKTIKFVKFL D HAIGFSQL ...String: MGPLAFCGSE NHSAAYRVDQ GVLNNGCFVD ALNVVPHVFL LFITFPILFI GWGSQSSKVH IHHSTWLHFP GHNLRWILTF MLLFVLVCE IAEGILSDGV TESHHLHLYM PAGMAFMAAV TSVVYYHNIE TSNFPKLLIA LLVYWTLAFI TKTIKFVKFL D HAIGFSQL RFCLTGLLVI LYGMLLLVEV NVIRVRRYIF FKTPREVKPP EDLQDLGVRF LQPFVNLLSK GTYWWMNAFI KT AHKKPID LRAIGKLPIA MRALTNYQRL CEAFDAQVRK DIQGTQGARA IWQALSHAFG RRLVLSSTFR ILADLLGFAG PLC IFGIVD HLGKENDVFQ PKTQFLGVYF VSSQEFLANA YVLAVLLFLA LLLQRTFLQA SYYVAIETGI NLRGAIQTKI YNKI MHLST SNLSMGEMTA GQICNLVAID TNQLMWFFFL CPNLWAMPVQ IIVGVILLYY ILGVSALIGA AVIILLAPVQ YFVAT KLSQ AQRSTLEYSN ERLKQTNEML RGIKLLKLYA WENIFRTRVE TTRRKEMTSL RAFAIYTSIS IFMNTAIPIA AVLITF VGH VSFFKEADFS PSVAFASLSL FHILVTPLFL LSSVVRSTVK ALVSVQKLSE FLSSAEIREE QCAPHEPTPQ GPASKYQ AV PLRVVNRKRP AREDCRGLTG PLQSLVPSAD GDADNCCVQI MGGYFTWTPD GIPTLSNITI RIPRGQLTMI VGQVGCGK S SLLLAALGEM QKVSGAVFWS SLPDSEIGED PSPERETATD LDIRKRGPVA YASQKPWLLN ATVEENIIFE SPFNKQRYK MVIEACSLQP DIDILPHGDQ TQIGERGINL SGGQRQRISV ARALYQHANV VFLDDPFSAL DIHLSDHLMQ AGILELLRDD KRTVVLVTH KLQYLPHADW IIAMKDGTIQ REGTLKDFQR SECQLFEHWK TLMNRQDQEL EKETVTERKA TEPPQGLSRA M SSRDGLLQ DEEEEEEEAA ESEEDDNLSS MLHQRAEIPW RACAKYLSSA GILLLSLLVF SQLLKHMVLV AIDYWLAKWT DS ALTLTPA ARNCSLSQEC TLDQTVYAMV FTVLCSLGIV LCLVTSVTVE WTGLKVAKRL HRSLLNRIIL APMRFFETTP LGS ILNRFS SDCNTIDQHI PSTLECLSRS TLLCVSALAV ISYVTPVFLV ALLPLAIVCY FIQKYFRVAS RDLQQLDDTT QLPL LSHFA ETVEGLTTIR AFRYEARFQQ KLLEYTDSNN IASLFLTAAN RWLEVRMEYI GACVVLIAAV TSISNSLHRE LSAGL VGLG LTYALMVSNY LNWMVRNLAD MELQLGAVKR IHGLLKTEAE SYEGLLAPSL IPKNWPDQGK IQIQNLSVRY DSSLKP VLK HVNALIAPGQ KIGICGRTGS GKSSFSLAFF RMVDTFEGHI IIDGIDIAKL PLHTLRSRLS IILQDPVLFS GTIRFNL DP ERKCSDSTLW EALEIAQLKL VVKALPGGLD AIITEGGENF SQGQRQLFCL ARAFVRKTSI FIMDEATASI DMATENIL Q KVVMTAFADR TVVTIAHRVH TILSADLVIV LKRGAILEFD KPEKLLSRKD SVFASFVRAD K |
-Macromolecule #3: ADENOSINE-5'-DIPHOSPHATE
Macromolecule | Name: ADENOSINE-5'-DIPHOSPHATE / type: ligand / ID: 3 / Number of copies: 1 / Formula: ADP |
---|---|
Molecular weight | Theoretical: 427.201 Da |
Chemical component information | ![]() ChemComp-ADP: |
-Macromolecule #4: MAGNESIUM ION
Macromolecule | Name: MAGNESIUM ION / type: ligand / ID: 4 / Number of copies: 2 / Formula: MG |
---|---|
Molecular weight | Theoretical: 24.305 Da |
-Macromolecule #5: ADENOSINE-5'-TRIPHOSPHATE
Macromolecule | Name: ADENOSINE-5'-TRIPHOSPHATE / type: ligand / ID: 5 / Number of copies: 1 / Formula: ATP |
---|---|
Molecular weight | Theoretical: 507.181 Da |
Chemical component information | ![]() ChemComp-ATP: |
-Experimental details
-Structure determination
Method | cryo EM |
---|---|
![]() | single particle reconstruction |
Aggregation state | particle |
-
Sample preparation
Concentration | 6.83 mg/mL |
---|---|
Buffer | pH: 8.5 |
Grid | Model: Quantifoil R1.2/1.3 / Support film - Material: CARBON / Support film - topology: HOLEY / Pretreatment - Type: GLOW DISCHARGE |
Vitrification | Cryogen name: ETHANE / Chamber humidity: 100 % / Chamber temperature: 289 K / Instrument: FEI VITROBOT MARK IV |
-
Electron microscopy
Microscope | FEI TITAN KRIOS |
---|---|
Image recording | Film or detector model: GATAN K2 SUMMIT (4k x 4k) / Detector mode: SUPER-RESOLUTION / Average electron dose: 57.0 e/Å2 |
Electron beam | Acceleration voltage: 300 kV / Electron source: ![]() |
Electron optics | C2 aperture diameter: 100.0 µm / Illumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELD |
Experimental equipment | ![]() Model: Titan Krios / Image courtesy: FEI Company |