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- EMDB-61427: cryo-EM structure of Neuromedin B receptor in complex with PD168368 -
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Open data
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Basic information
Entry | ![]() | |||||||||
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Title | cryo-EM structure of Neuromedin B receptor in complex with PD168368 | |||||||||
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![]() | GPCR / inactive-state / de novo protein / MEMBRANE PROTEIN | |||||||||
Function / homology | ![]() sneeze reflex / bombesin receptor activity / positive regulation of respiratory gaseous exchange / positive regulation of osteoclast proliferation / neuropeptide receptor activity / negative regulation of interleukin-6 production / positive regulation of interferon-alpha production / antiviral innate immune response / Peptide ligand-binding receptors / phospholipase C-activating G protein-coupled receptor signaling pathway ...sneeze reflex / bombesin receptor activity / positive regulation of respiratory gaseous exchange / positive regulation of osteoclast proliferation / neuropeptide receptor activity / negative regulation of interleukin-6 production / positive regulation of interferon-alpha production / antiviral innate immune response / Peptide ligand-binding receptors / phospholipase C-activating G protein-coupled receptor signaling pathway / G alpha (q) signalling events / G protein-coupled receptor signaling pathway / plasma membrane / cytosol Similarity search - Function | |||||||||
Biological species | ![]() | |||||||||
Method | single particle reconstruction / cryo EM / Resolution: 3.6 Å | |||||||||
![]() | Gao K / Zhang X / Liu X | |||||||||
Funding support | ![]()
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![]() | ![]() Title: cryo-EM structure of Neuromedin B receptor in complex with PD168368 Authors: Gao K / Zhang X / Liu X | |||||||||
History |
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Structure visualization
Supplemental images |
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Downloads & links
-EMDB archive
Map data | ![]() | 59.6 MB | ![]() | |
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Header (meta data) | ![]() ![]() | 14.6 KB 14.6 KB | Display Display | ![]() |
Images | ![]() | 47.8 KB | ||
Filedesc metadata | ![]() | 5.7 KB | ||
Others | ![]() ![]() | 59.4 MB 59.4 MB | ||
Archive directory | ![]() ![]() | HTTPS FTP |
-Validation report
Summary document | ![]() | 746.5 KB | Display | ![]() |
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Full document | ![]() | 746.1 KB | Display | |
Data in XML | ![]() | 12.1 KB | Display | |
Data in CIF | ![]() | 14.4 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 9jf4MC 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
File | ![]() | ||||||||||||||||||||||||||||||||||||
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Projections & slices | Image control
Images are generated by Spider. | ||||||||||||||||||||||||||||||||||||
Voxel size | X=Y=Z: 1.0825 Å | ||||||||||||||||||||||||||||||||||||
Density |
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Symmetry | Space group: 1 | ||||||||||||||||||||||||||||||||||||
Details | EMDB XML:
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-Supplemental data
-Half map: #2
File | emd_61427_half_map_1.map | ||||||||||||
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Projections & Slices |
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Density Histograms |
-Half map: #1
File | emd_61427_half_map_2.map | ||||||||||||
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Projections & Slices |
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Density Histograms |
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Sample components
-Entire : Neuromedin B Receptor/de novo design fusion protein
Entire | Name: Neuromedin B Receptor/de novo design fusion protein |
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Components |
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-Supramolecule #1: Neuromedin B Receptor/de novo design fusion protein
Supramolecule | Name: Neuromedin B Receptor/de novo design fusion protein / type: complex / ID: 1 / Parent: 0 / Macromolecule list: #1 |
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Source (natural) | Organism: ![]() |
-Macromolecule #1: Neuromedin-B receptor,de novo design protein
Macromolecule | Name: Neuromedin-B receptor,de novo design protein / type: protein_or_peptide / ID: 1 / Number of copies: 1 / Enantiomer: LEVO |
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Source (natural) | Organism: ![]() |
Molecular weight | Theoretical: 56.911129 KDa |
Recombinant expression | Organism: ![]() ![]() |
Sequence | String: DYKDDDAMPS KSLSNLSVTT GANESGSVPE GWERDFLPAS DGTTTELVIR CVIPSLYLLI ITVGLLGNIM LVKIFITNSA MRSVPNIFI SNLAAGDLLL LLTCVPVDAS RYFFDEWMFG KVGCKLIPVI QLTSVGVSVW TLTALSADRY RAIVNPMDMQ T SGALLRTC ...String: DYKDDDAMPS KSLSNLSVTT GANESGSVPE GWERDFLPAS DGTTTELVIR CVIPSLYLLI ITVGLLGNIM LVKIFITNSA MRSVPNIFI SNLAAGDLLL LLTCVPVDAS RYFFDEWMFG KVGCKLIPVI QLTSVGVSVW TLTALSADRY RAIVNPMDMQ T SGALLRTC VKAMGIWVVS VLLAVPEAVF SEVARISSLD NSSFTACIPY PQTDELHPKI HSVLIFLVYF LIPLAIISIY YY HIAKHLK EKAKAGAEIA AHPDAFLFLL FAAFGVVLTG DPEDRALWAE LLALVERAAP GIARALAAAY RAAEEAYRAG GPV AGFRAG ILGACAGVDA ETRLPLTARI VDLLRTIRAL RDDEAALRAL VDALGAELRA LLAPVAADAE ELDALLARLA DLAL VALRE LAKLSESEMD AFIADLTAAV EAMAKQMETR KRLAKIVLVF VGCFIFCWFP NHILYMYRSF NYNEIDPSLG HMIVT LVAR VLSFGNSCVN PFALYLLSES FRRHFNSQLC HHHHHH UniProtKB: Neuromedin-B receptor, Neuromedin-B receptor |
-Macromolecule #2: (2~{S})-3-(1~{H}-indol-3-yl)-2-methyl-2-[(4-nitrophenyl)carbamoyl...
Macromolecule | Name: (2~{S})-3-(1~{H}-indol-3-yl)-2-methyl-2-[(4-nitrophenyl)carbamoylamino]-~{N}-[(1-pyridin-2-ylcyclohexyl)methyl]propanamide type: ligand / ID: 2 / Number of copies: 1 / Formula: A1D63 |
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Molecular weight | Theoretical: 554.639 Da |
-Experimental details
-Structure determination
Method | cryo EM |
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![]() | single particle reconstruction |
Aggregation state | particle |
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Sample preparation
Buffer | pH: 7.5 |
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Vitrification | Cryogen name: ETHANE |
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Electron microscopy
Microscope | FEI TITAN KRIOS |
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Image recording | Film or detector model: GATAN K3 (6k x 4k) / Average electron dose: 50.0 e/Å2 |
Electron beam | Acceleration voltage: 300 kV / Electron source: ![]() |
Electron optics | Illumination mode: SPOT SCAN / Imaging mode: BRIGHT FIELD / Nominal defocus max: 1.8 µm / Nominal defocus min: 1.1 µm |
Experimental equipment | ![]() Model: Titan Krios / Image courtesy: FEI Company |