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Open data
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Basic information
Entry | ![]() | |||||||||
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Title | Full-length cross-linked Contactin 2 (CNTN2) | |||||||||
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![]() | contactins / adhesion molecule / protein structure / conformational changes / homodimer / MEMBRANE PROTEIN | |||||||||
Function / homology | ![]() establishment of protein localization to juxtaparanode region of axon / presynaptic membrane organization / reduction of food intake in response to dietary excess / L1CAM interactions / clustering of voltage-gated potassium channels / protein localization to juxtaparanode region of axon / dendrite self-avoidance / NrCAM interactions / cell-cell adhesion mediator activity / axon initial segment ...establishment of protein localization to juxtaparanode region of axon / presynaptic membrane organization / reduction of food intake in response to dietary excess / L1CAM interactions / clustering of voltage-gated potassium channels / protein localization to juxtaparanode region of axon / dendrite self-avoidance / NrCAM interactions / cell-cell adhesion mediator activity / axon initial segment / node of Ranvier / juxtaparanode region of axon / NCAM1 interactions / fat cell differentiation / homophilic cell adhesion via plasma membrane adhesion molecules / side of membrane / synapse organization / axon guidance / brain development / myelin sheath / postsynaptic membrane / cell adhesion / axon / synapse / plasma membrane Similarity search - Function | |||||||||
Biological species | ![]() | |||||||||
Method | single particle reconstruction / cryo EM / Resolution: 3.54 Å | |||||||||
![]() | Liu JL / Fan SF / Ren GR / Rudenko GR | |||||||||
Funding support | ![]()
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![]() | ![]() Title: Molecular mechanism of Contactin 2 homophilic interaction Authors: Fan SF / Liu JL / Chofflett NC / Bailey AB / Russell WR / Zhang ZZ / Takahashi HT / Ren GR / Rudenko GR | |||||||||
History |
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Structure visualization
Supplemental images |
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Downloads & links
-EMDB archive
Map data | ![]() | 100.5 MB | ![]() | |
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Header (meta data) | ![]() ![]() | 16.3 KB 16.3 KB | Display Display | ![]() |
FSC (resolution estimation) | ![]() | 10.6 KB | Display | ![]() |
Images | ![]() | 65.6 KB | ||
Filedesc metadata | ![]() | 6.2 KB | ||
Others | ![]() ![]() | 116 MB 116 MB | ||
Archive directory | ![]() ![]() | HTTPS FTP |
-Validation report
Summary document | ![]() | 736.6 KB | Display | ![]() |
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Full document | ![]() | 736.2 KB | Display | |
Data in XML | ![]() | 18.4 KB | Display | |
Data in CIF | ![]() | 23.4 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 9ba4MC ![]() 9ba5C M: atomic model generated by this map C: citing same article ( |
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Similar structure data | Similarity search - Function & homology ![]() |
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Links
EMDB pages | ![]() ![]() |
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Related items in Molecule of the Month |
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Map
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Projections & slices | Image control
Images are generated by Spider. | ||||||||||||||||||||||||||||||||||||
Voxel size | X=Y=Z: 1.05 Å | ||||||||||||||||||||||||||||||||||||
Density |
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Symmetry | Space group: 1 | ||||||||||||||||||||||||||||||||||||
Details | EMDB XML:
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-Supplemental data
-Half map: #2
File | emd_44395_half_map_1.map | ||||||||||||
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Projections & Slices |
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Density Histograms |
-Half map: #1
File | emd_44395_half_map_2.map | ||||||||||||
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Projections & Slices |
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Density Histograms |
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Sample components
-Entire : Contactin-2 full length (Ig1-FN4)
Entire | Name: Contactin-2 full length (Ig1-FN4) |
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Components |
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-Supramolecule #1: Contactin-2 full length (Ig1-FN4)
Supramolecule | Name: Contactin-2 full length (Ig1-FN4) / type: organelle_or_cellular_component / ID: 1 / Parent: 0 / Macromolecule list: #1 |
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Source (natural) | Organism: ![]() |
-Macromolecule #1: Contactin-2
Macromolecule | Name: Contactin-2 / type: protein_or_peptide / ID: 1 / Number of copies: 2 / Enantiomer: LEVO |
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Source (natural) | Organism: ![]() |
Molecular weight | Theoretical: 108.697281 KDa |
Recombinant expression | Organism: ![]() |
Sequence | String: ELGTGLESQT TFGPVFEDQP LSVLFPEEST EEQVLLACRA RASPPATYRW KMNGTEMKLE PGSRHQLVGG NLVIMNPTKA QDAGVYQCL ASNPVGTVVS REAILRFGFL QEFSKEERDP VKAHEGWGVM LPCNPPAHYP GLSYRWLLNE FPNFIPTDGR H FVSQTTGN ...String: ELGTGLESQT TFGPVFEDQP LSVLFPEEST EEQVLLACRA RASPPATYRW KMNGTEMKLE PGSRHQLVGG NLVIMNPTKA QDAGVYQCL ASNPVGTVVS REAILRFGFL QEFSKEERDP VKAHEGWGVM LPCNPPAHYP GLSYRWLLNE FPNFIPTDGR H FVSQTTGN LYIARTNASD LGNYSCLATS HMDFSTKSVF SKFAQLNLAA EDTRLFAPSI KARFPAETYA LVGQQVTLEC FA FGNPVPR IKWRKVDGSL SPQWTTAEPT LQIPSVSFED EGTYECEAEN SKGRDTVQGR IIVQAQPEWL KVISDTEADI GSN LRWGCA AAGKPRPTVR WLRNGEPLAS QNRVEVLAGD LRFSKLSLED SGMYQCVAEN KHGTIYASAE LAVQALAPDF RLNP VRRLI PAARGGEILI PCQPRAAPKA VVLWSKGTEI LVNSSRVTVT PDGTLIIRNI SRSDEGKYTC FAENFMGKAN STGIL SVRD ATKITLAPSS ADINLGDNLT LQCHASHDPT MDLTFTWTLD DFPIDFDKPG GHYRRTNVKE TIGDLTILNA QLRHGG KYT CMAQTVVDSA SKEATVLVRG PPGPPGGVVV RDIGDTTIQL SWSRGFDNHS PIAKYTLQAR TPPAGKWKQV RTNPANI EG NAETAQVLGL TPWMDYEFRV IASNILGTGE PSGPSSKIRT REAAPSVAPS GLSGGGGAPG ELIVNWTPMS REYQNGDG F GYLLSFRRQG STHWQTARVP GADAQYFVYS NESVRPYTPF EVKIRSYNRR GDGPESLTAL VYSAEEEPRV APTKVWAKG VSSSEMNVTW EPVQQDMNGI LLGYEIRYWK AGDKEAAADR VRTAGLDTSA RVSGLHPNTK YHVTVRAYNR AGTGPASPSA NATTMKPPP RRPPGNISWT FSSSSLSIKW DPVVPFRNES AVTGYKMLYQ NDLHLTPTLH LTGKNWIEIP VPEDIGHALV Q IRTTGPGG DGIPAEVHIV RNGSASTSHH HHHH UniProtKB: Contactin-2 |
-Macromolecule #3: 2-acetamido-2-deoxy-beta-D-glucopyranose
Macromolecule | Name: 2-acetamido-2-deoxy-beta-D-glucopyranose / type: ligand / ID: 3 / Number of copies: 4 / Formula: NAG |
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Molecular weight | Theoretical: 221.208 Da |
Chemical component information | ![]() ChemComp-NAG: |
-Experimental details
-Structure determination
Method | cryo EM |
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![]() | single particle reconstruction |
Aggregation state | particle |
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Sample preparation
Concentration | 0.05 mg/mL | |||||||||
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Buffer | pH: 8 Component:
Details: 10 mM HEPES pH 8.0, 50 mM NaCl | |||||||||
Vitrification | Cryogen name: ETHANE / Chamber humidity: 90 % / Chamber temperature: 281 K / Instrument: LEICA EM GP |
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Electron microscopy
Microscope | TFS KRIOS |
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Specialist optics | Energy filter - Name: GIF Bioquantum / Energy filter - Slit width: 20 eV |
Image recording | Film or detector model: GATAN K3 (6k x 4k) / Number grids imaged: 1 / Number real images: 9049 / Average exposure time: 7.39 sec. / Average electron dose: 50.0 e/Å2 |
Electron beam | Acceleration voltage: 300 kV / Electron source: ![]() |
Electron optics | Illumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELD / Nominal defocus max: 1.6 µm / Nominal defocus min: 0.6 µm / Nominal magnification: 81000 |
Sample stage | Specimen holder model: FEI TITAN KRIOS AUTOGRID HOLDER |
Experimental equipment | ![]() Model: Titan Krios / Image courtesy: FEI Company |
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Image processing
-Atomic model buiding 1
Refinement | Protocol: FLEXIBLE FIT |
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Output model | ![]() PDB-9ba4: |