ACCORD: an assessment tool to determine the orientation of homodimericcoiled-coils

Collection with item attached
2017
Item details URL
http://open-repository.kisti.re.kr/cube/handle/open_repository/474188.do
DOI
10.1038/srep43318
Title
ACCORD: an assessment tool to determine the orientation of homodimericcoiled-coils
Description
We thank MJ Eck (Dana-Farber Cancer Institute) for providing the geneencoding the CCD of ROCK1. We also thank the staff at beamline 5 C ofPAL for help with X-ray data collection and at beamline 4 C of PAL andbeamline BL10C of the Photon Factory for help with SAXS data collection.This work was supported by National Research Foundation of Korea (NRF)grants from the Korean government (MEST) (NRF-2016R1E1A1A01942623 andBRL grant: No. 2015041919) and by a grant from the Institute for BasicScience (IBS-R023-D1). This research was also supported by a KoreaUniversity Grant and by the Basic Science Research Program of the NRFfunded by the Ministry of Education (NRF-2013R1A6A3A04063675 to YOJ).
abstract
The coiled-coil (CC) domain is a very important structural unit of proteins that plays critical roles in various biological functions. The major oligomeric state of CCs is a dimer, which can be either parallel or antiparallel. The orientation of each a-helix in a CC domain is critical for the molecular function of CC-containing proteins, but cannot be determined easily by sequence-based prediction. We developed a biochemical method for assessing differences between parallel and antiparallel CC homodimers and named it ACCORD (Assessment tool for homodimeric Coiled-Coil ORientation Decision). To validate this technique, we applied it to 15 different CC proteins with known structures, and the ACCORD results identified these proteins well, especially with long CCs. Furthermore, ACCORD was able to accurately determine the orientation of a CC domain of unknown directionality that was subsequently confirmed by X-ray crystallography and small angle X-ray scattering. Thus, ACCORD can be used as a tool to determine CC directionality to supplement the results of in silico prediction.
provenance
Made available in Cube on 2018-09-28T10:39:30Z (GMT). No. of bitstreams: 0
language
English
author
Kim, Byeong-Won
Jung, Yang Ouk
Kim, Min Kyung
Kwon, Do Hoon
Park, Si Hoon
Kim, Jun Hoe
Kuk, Yong-Boo
Oh, Sun-Joo
Kim, Leehyeon
Kim, Bong Heon
Yang, Woo Seok
Song, Hyun Kyu
orcid
Song, Hyun Kyu/0000-0001-5684-4059; Kim, Jun Hoe/0000-0001-5866-9952
accessioned
2018-09-28T10:39:30Z
available
2018-09-28T10:39:30Z
issued
2017
citation
SCIENTIFIC REPORTS(7)
issn
2045-2322
uri
http://open-repository.kisti.re.kr/cube/handle/open_repository/474188.do
Funder
과학기술정보통신부
Funding Program
기초과학연구원연구운영비지원
Project ID
1711061438
Jurisdiction
Rep.of Korea
Project Name
Study of Molecular Spectroscopy and Dynamics
rights
openAccess
type
article


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