+Open data
-Basic information
Entry | Database: SASBDB / ID: SASDAZ5 |
---|---|
Sample | NetrinVIV
|
Function / homology | Function and homology information regulation of glial cell migration / chemorepulsion of axon / anterior/posterior axon guidance / Cdc42 protein signal transduction / Role of second messengers in netrin-1 signaling / Netrin-1 signaling / motor neuron migration / Regulation of commissural axon pathfinding by SLIT and ROBO / negative regulation of axon extension / Netrin mediated repulsion signals ...regulation of glial cell migration / chemorepulsion of axon / anterior/posterior axon guidance / Cdc42 protein signal transduction / Role of second messengers in netrin-1 signaling / Netrin-1 signaling / motor neuron migration / Regulation of commissural axon pathfinding by SLIT and ROBO / negative regulation of axon extension / Netrin mediated repulsion signals / substrate-dependent cell migration, cell extension / mammary gland duct morphogenesis / positive regulation of cell motility / nuclear migration / DCC mediated attractive signaling / regulation of synapse assembly / inner ear morphogenesis / DSCAM interactions / basement membrane / positive regulation of axon extension / glial cell proliferation / positive regulation of glial cell proliferation / cell-cell adhesion / actin cytoskeleton / Ras protein signal transduction / DNA-binding transcription factor activity, RNA polymerase II-specific / RNA polymerase II cis-regulatory region sequence-specific DNA binding / apoptotic process / regulation of transcription by RNA polymerase II / extracellular region / nucleoplasm / cytosol Similarity search - Function |
Biological species | Homo sapiens (human) |
Citation | Journal: Neuron / Year: 2014 Title: The crystal structure of netrin-1 in complex with DCC reveals the bifunctionality of netrin-1 as a guidance cue. Authors: Lorenzo I Finci / Nina Krüger / Xiaqin Sun / Jie Zhang / Magda Chegkazi / Yu Wu / Gundolf Schenk / Haydyn D T Mertens / Dmitri I Svergun / Yan Zhang / Jia-Huai Wang / Rob Meijers / Abstract: Netrin-1 is a guidance cue that can trigger either attraction or repulsion effects on migrating axons of neurons, depending on the repertoire of receptors available on the growth cone. How a single ...Netrin-1 is a guidance cue that can trigger either attraction or repulsion effects on migrating axons of neurons, depending on the repertoire of receptors available on the growth cone. How a single chemotropic molecule can act in such contradictory ways has long been a puzzle at the molecular level. Here we present the crystal structure of netrin-1 in complex with the Deleted in Colorectal Cancer (DCC) receptor. We show that one netrin-1 molecule can simultaneously bind to two DCC molecules through a DCC-specific site and through a unique generic receptor binding site, where sulfate ions staple together positively charged patches on both DCC and netrin-1. Furthermore, we demonstrate that UNC5A can replace DCC on the generic receptor binding site to switch the response from attraction to repulsion. We propose that the modularity of binding allows for the association of other netrin receptors at the generic binding site, eliciting alternative turning responses. |
Contact author |
|
-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
---|
-Downloads & links
-Data source
SASBDB page | SASDAZ5 |
---|
-Related structure data
-External links
Related items in Molecule of the Month |
---|
-Models
Model #145 | Type: dummy / Software: dammin (5.3) / Radius of dummy atoms: 1.90 A / Chi-square value: 1.100401 Search similar-shape structures of this assembly by Omokage search (details) |
---|
-Sample
Sample | Name: NetrinVIV / Specimen concentration: 0.30-1.20 |
---|---|
Buffer | Name: MES / Concentration: 25.00 mM / pH: 7 / Comment: MES/TRIS Composition: NaCl 200.000 mM, Tris 50.000 mM, (NH4)2(SO4) 0.200 M ammonium sulfate, CaCl2 1.000 mM calcium chloride |
Entity #113 | Name: NetrinVIV / Type: protein / Description: Netrin-1 / Formula weight: 49.1 / Num. of mol.: 1 / Source: Homo sapiens / References: UniProt: O95631 Sequence: GPGLSMFAGQ AAQPDPCSDE NGHPRRCIPD FVNAAFGKDV RVSSTCGRPP ARYCVVSERG EERLRSCHLC NASDPKKAHP PAFLTDLNNP HNLTCWQSEN YLQFPHNVTL TLSLGKKFEV TYVSLQFCSP RPESMAIYKS MDYGRTWVPF QFYSTQCRKM YNRPHRAPIT ...Sequence: GPGLSMFAGQ AAQPDPCSDE NGHPRRCIPD FVNAAFGKDV RVSSTCGRPP ARYCVVSERG EERLRSCHLC NASDPKKAHP PAFLTDLNNP HNLTCWQSEN YLQFPHNVTL TLSLGKKFEV TYVSLQFCSP RPESMAIYKS MDYGRTWVPF QFYSTQCRKM YNRPHRAPIT KQNEQEAVCT DSHTDMRPLS GGLIAFSTLD GRPSAHDFDN SPVLQDWVTA TDIRVAFSRL HTFGDENEDD SELARDSYFY AVSDLQVGGR CKCNGHAARC VRDRDDSLVC DCRHNTAGPE CDRCKPFHYD RPWQRATARE ANECVACNCN LHARRCRFNM ELYKLSGRKS GGVCLNCRHN TAGRHCHYCK EGYYRDMGKP ITHRKACKAC DCHPVGAAGK TCNQTTGQCP CKDGVTGITC NRCAKGYQQS RSPIAPCIKE LHHHHHH |
-Experimental information
Beam | Instrument name: PETRA III P12 / City: Hamburg / 国: Germany / Type of source: X-ray synchrotronSynchrotron / Wavelength: 0.12 Å / Dist. spec. to detc.: 3.1 mm | ||||||||||||||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Detector | Name: Pilatus 2M | ||||||||||||||||||||||||||||||
Scan | Title: NetrinVIV / Measurement date: Aug 26, 2013 / Storage temperature: 10 °C / Cell temperature: 10 °C / Exposure time: 0.05 sec. / Number of frames: 20 / Unit: 1/nm /
| ||||||||||||||||||||||||||||||
Distance distribution function P(R) | Sofotware P(R): GNOM 5.0 / Number of points: 1176 /
| ||||||||||||||||||||||||||||||
Result | Type of curve: merged /
|