[English] 日本語
Yorodumi
- SASDDS8: Neural/ectodermal development factor IMP-L2 (Imp-L2 IBP) -

+
Open data


ID or keywords:

Loading...

-
Basic information

Entry
Database: SASBDB / ID: SASDDS8
SampleNeural/ectodermal development factor IMP-L2
  • Neural/ectodermal development factor IMP-L2 (protein), Imp-L2 IBP, Drosophila melanogaster
Function / homology
Function and homology information


positive regulation of entry into reproductive diapause / dendrite self-avoidance / cell-cell adhesion mediator activity / insulin binding / response to starvation / homophilic cell adhesion via plasma membrane adhesion molecules / negative regulation of lipid storage / positive regulation of insulin receptor signaling pathway / negative regulation of insulin receptor signaling pathway / determination of adult lifespan ...positive regulation of entry into reproductive diapause / dendrite self-avoidance / cell-cell adhesion mediator activity / insulin binding / response to starvation / homophilic cell adhesion via plasma membrane adhesion molecules / negative regulation of lipid storage / positive regulation of insulin receptor signaling pathway / negative regulation of insulin receptor signaling pathway / determination of adult lifespan / axon guidance / axon / extracellular space / plasma membrane
Similarity search - Function
Immunoglobulin I-set / Immunoglobulin I-set domain / Immunoglobulin subtype 2 / Immunoglobulin C-2 Type / Immunoglobulin subtype / Immunoglobulin / Ig-like domain profile. / Immunoglobulin-like domain / Immunoglobulin-like domain superfamily / Immunoglobulin-like fold
Similarity search - Domain/homology
Neural/ectodermal development factor IMP-L2
Similarity search - Component
Biological speciesDrosophila melanogaster (fruit fly)
CitationJournal: Nat Commun / Year: 2018
Title: Structures of insect Imp-L2 suggest an alternative strategy for regulating the bioavailability of insulin-like hormones.
Authors: Nikolaj Kulahin Roed / Cristina M Viola / Ole Kristensen / Gerd Schluckebier / Mathias Norrman / Waseem Sajid / John D Wade / Asser Sloth Andersen / Claus Kristensen / Timothy R Ganderton / ...Authors: Nikolaj Kulahin Roed / Cristina M Viola / Ole Kristensen / Gerd Schluckebier / Mathias Norrman / Waseem Sajid / John D Wade / Asser Sloth Andersen / Claus Kristensen / Timothy R Ganderton / Johan P Turkenburg / Pierre De Meyts / Andrzej M Brzozowski /
Abstract: The insulin/insulin-like growth factor signalling axis is an evolutionary ancient and highly conserved hormonal system involved in the regulation of metabolism, growth and lifespan in animals. Human ...The insulin/insulin-like growth factor signalling axis is an evolutionary ancient and highly conserved hormonal system involved in the regulation of metabolism, growth and lifespan in animals. Human insulin is stored in the pancreas, while insulin-like growth factor-1 (IGF-1) is maintained in blood in complexes with IGF-binding proteins (IGFBP1-6). Insect insulin-like polypeptide binding proteins (IBPs) have been considered as IGFBP-like structural and functional homologues. Here, we report structures of the Drosophila IBP Imp-L2 in its free form and bound to Drosophila insulin-like peptide 5 and human IGF-1. Imp-L2 contains two immunoglobulin-like fold domains and its architecture is unrelated to human IGFBPs, suggesting a distinct strategy for bioavailability regulation of insulin-like hormones. Similar hormone binding modes may exist in other insect vectors, as the IBP sequences are highly conserved. Therefore, these findings may open research routes towards a rational interference of transmission of diseases such as malaria, dengue and yellow fevers.
Contact author
  • Mathias Norrman (Novo Nordisk A/S)

-
Structure visualization

Downloads & links

-
Models

-
Sample

SampleName: Neural/ectodermal development factor IMP-L2 / Specimen concentration: 3.20-12.80
BufferName: phosphate buffered saline / pH: 7.4
Entity #1134Name: Imp-L2 IBP / Type: protein / Description: Neural/ectodermal development factor IMP-L2 / Formula weight: 29.895 / Num. of mol.: 2 / Source: Drosophila melanogaster / References: UniProt: Q09024
Sequence: MEAKMNLHVC ALALLLFGSI ATVRGRAVDL VDDSNDVDNS IEAEEEKPRN RAFEADWLKF TKTPPTKLQQ ADGATIEIVC EMMGSQVPSI QWVVGHLPRS ELDDLDSNQV AEEAPSAIVR VRSSHIIDHV LSEARTYTCV GRTGSKTIYA STVVHPPRSS RLTPEKTYPG ...Sequence:
MEAKMNLHVC ALALLLFGSI ATVRGRAVDL VDDSNDVDNS IEAEEEKPRN RAFEADWLKF TKTPPTKLQQ ADGATIEIVC EMMGSQVPSI QWVVGHLPRS ELDDLDSNQV AEEAPSAIVR VRSSHIIDHV LSEARTYTCV GRTGSKTIYA STVVHPPRSS RLTPEKTYPG AQKPRIIYTE KTHLDLMGSN IQLPCRVHAR PRAEITWLNN ENKEIVQGHR HRVLANGDLL ISEIKWEDMG NYKCIARNVV GKDTADTFVY PVLNEED

-
Experimental information

BeamInstrument name: ESRF ID14-3 / City: Grenoble / : France / Type of source: X-ray synchrotron / Wavelength: 0.093 Å / Dist. spec. to detc.: 2.43 mm
DetectorName: Pilatus 1M / Type: Dectris / Pixsize x: 172 mm
Scan
Title: Neural/ectodermal development factor IMP-L2 / Measurement date: Nov 20, 2011 / Storage temperature: 5 °C / Cell temperature: 25 °C / Exposure time: 10 sec. / Number of frames: 10 / Unit: 1/nm /
MinMax
Q0.074 5.5155
ResultType of curve: merged /
ExperimentalPorod
MW63 kDa-
Volume-93 nm3

GuinierGuinier error
Forward scattering, I040.91 0.038
Radius of gyration, Rg3.07 nm0.02

MinMax
D-12
Guinier point31 61

+
About Yorodumi

-
News

-
Feb 9, 2022. New format data for meta-information of EMDB entries

New format data for meta-information of EMDB entries

  • Version 3 of the EMDB header file is now the official format.
  • The previous official version 1.9 will be removed from the archive.

Related info.:EMDB header

External links:wwPDB to switch to version 3 of the EMDB data model

-
Aug 12, 2020. Covid-19 info

Covid-19 info

URL: https://pdbjlvh1.pdbj.org/emnavi/covid19.php

New page: Covid-19 featured information page in EM Navigator.

Related info.:Covid-19 info / Mar 5, 2020. Novel coronavirus structure data

+
Mar 5, 2020. Novel coronavirus structure data

Novel coronavirus structure data

Related info.:Yorodumi Speices / Aug 12, 2020. Covid-19 info

External links:COVID-19 featured content - PDBj / Molecule of the Month (242):Coronavirus Proteases

+
Jan 31, 2019. EMDB accession codes are about to change! (news from PDBe EMDB page)

EMDB accession codes are about to change! (news from PDBe EMDB page)

  • The allocation of 4 digits for EMDB accession codes will soon come to an end. Whilst these codes will remain in use, new EMDB accession codes will include an additional digit and will expand incrementally as the available range of codes is exhausted. The current 4-digit format prefixed with “EMD-” (i.e. EMD-XXXX) will advance to a 5-digit format (i.e. EMD-XXXXX), and so on. It is currently estimated that the 4-digit codes will be depleted around Spring 2019, at which point the 5-digit format will come into force.
  • The EM Navigator/Yorodumi systems omit the EMD- prefix.

Related info.:Q: What is EMD? / ID/Accession-code notation in Yorodumi/EM Navigator

External links:EMDB Accession Codes are Changing Soon! / Contact to PDBj

+
Jul 12, 2017. Major update of PDB

Major update of PDB

  • wwPDB released updated PDB data conforming to the new PDBx/mmCIF dictionary.
  • This is a major update changing the version number from 4 to 5, and with Remediation, in which all the entries are updated.
  • In this update, many items about electron microscopy experimental information are reorganized (e.g. em_software).
  • Now, EM Navigator and Yorodumi are based on the updated data.

External links:wwPDB Remediation / Enriched Model Files Conforming to OneDep Data Standards Now Available in the PDB FTP Archive

-
Yorodumi

Thousand views of thousand structures

  • Yorodumi is a browser for structure data from EMDB, PDB, SASBDB, etc.
  • This page is also the successor to EM Navigator detail page, and also detail information page/front-end page for Omokage search.
  • The word "yorodu" (or yorozu) is an old Japanese word meaning "ten thousand". "mi" (miru) is to see.

Related info.:EMDB / PDB / SASBDB / Comparison of 3 databanks / Yorodumi Search / Aug 31, 2016. New EM Navigator & Yorodumi / Yorodumi Papers / Jmol/JSmol / Function and homology information / Changes in new EM Navigator and Yorodumi

Read more