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- SASDDC3: Human mitochondrial cysteine desulfurase-ISCU (NFS1, ISD11, Acp a... -

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Basic information

Entry
Database: SASBDB / ID: SASDDC3
SampleHuman mitochondrial cysteine desulfurase-ISCU (NFS1, ISD11, Acp and ISCU heterodimer complex)
  • Cysteine desulfurase, mitochondrial (protein), NFS1, Homo sapiens
  • LYR motif-containing protein 4 (protein), ISD11, Homo sapiens
  • Acyl carrier protein (protein), Escherichia coli (strain K12)
  • Iron-sulfur cluster assembly enzyme ISCU, mitochondrial (protein), ISCU, Homo sapiens
Function / homology
Function and homology information


negative regulation of iron ion import across plasma membrane / molybdopterin cofactor metabolic process / Molybdenum cofactor biosynthesis / L-cysteine desulfurase complex / iron incorporation into metallo-sulfur cluster / [4Fe-4S] cluster assembly / positive regulation of aconitate hydratase activity / Mitochondrial iron-sulfur cluster biogenesis / Complex III assembly / positive regulation of mitochondrial electron transport, NADH to ubiquinone ...negative regulation of iron ion import across plasma membrane / molybdopterin cofactor metabolic process / Molybdenum cofactor biosynthesis / L-cysteine desulfurase complex / iron incorporation into metallo-sulfur cluster / [4Fe-4S] cluster assembly / positive regulation of aconitate hydratase activity / Mitochondrial iron-sulfur cluster biogenesis / Complex III assembly / positive regulation of mitochondrial electron transport, NADH to ubiquinone / Maturation of TCA enzymes and regulation of TCA cycle / cysteine desulfurase / cysteine desulfurase activity / mitochondrial [2Fe-2S] assembly complex / Mo-molybdopterin cofactor biosynthetic process / iron-sulfur cluster assembly complex / [2Fe-2S] cluster assembly / lipid biosynthetic process / lipid A biosynthetic process / iron-sulfur cluster assembly / iron-sulfur cluster binding / phosphopantetheine binding / acyl binding / acyl carrier activity / ferrous iron binding / fatty acid biosynthetic process / 2 iron, 2 sulfur cluster binding / pyridoxal phosphate binding / Maturation of replicase proteins / intracellular iron ion homeostasis / molecular adaptor activity / nuclear body / mitochondrial matrix / iron ion binding / response to xenobiotic stimulus / centrosome / lipid binding / protein homodimerization activity / mitochondrion / zinc ion binding / nucleoplasm / nucleus / metal ion binding / cytosol / cytoplasm
Similarity search - Function
LYRM4, LYR domain / : / ISC system FeS cluster assembly, IscU scaffold / Cysteine desulfurase IscS / NIF system FeS cluster assembly, NifU, N-terminal / NifU-like N terminal domain / Cysteine desulfurase / Aminotransferase class-V, pyridoxal-phosphate binding site / Aminotransferases class-V pyridoxal-phosphate attachment site. / Aminotransferase class V domain ...LYRM4, LYR domain / : / ISC system FeS cluster assembly, IscU scaffold / Cysteine desulfurase IscS / NIF system FeS cluster assembly, NifU, N-terminal / NifU-like N terminal domain / Cysteine desulfurase / Aminotransferase class-V, pyridoxal-phosphate binding site / Aminotransferases class-V pyridoxal-phosphate attachment site. / Aminotransferase class V domain / Aminotransferase class-V / Complex 1 LYR protein domain / Complex 1 protein (LYR family) / Acyl carrier protein (ACP) / Phosphopantetheine attachment site / Phosphopantetheine attachment site. / Phosphopantetheine attachment site / ACP-like superfamily / Carrier protein (CP) domain profile. / Phosphopantetheine binding ACP domain / Pyridoxal phosphate-dependent transferase, small domain / Pyridoxal phosphate-dependent transferase, major domain / Pyridoxal phosphate-dependent transferase
Similarity search - Domain/homology
Acyl carrier protein / Iron-sulfur cluster assembly enzyme ISCU / LYR motif-containing protein 4 / Cysteine desulfurase
Similarity search - Component
Biological speciesHomo sapiens (human)
Escherichia coli (strain K12) (bacteria)
CitationJournal: Structure / Year: 2018
Title: Architectural Features of Human Mitochondrial Cysteine Desulfurase Complexes from Crosslinking Mass Spectrometry and Small-Angle X-Ray Scattering.
Authors: Kai Cai / Ronnie O Frederick / Hesam Dashti / John L Markley /
Abstract: Cysteine desulfurase plays a central role in mitochondrial iron-sulfur cluster biogenesis by generating sulfur through the conversion of L-cysteine to L-alanine and by serving as the platform for ...Cysteine desulfurase plays a central role in mitochondrial iron-sulfur cluster biogenesis by generating sulfur through the conversion of L-cysteine to L-alanine and by serving as the platform for assembling other components of the biosynthetic machinery, including ISCU, frataxin, and ferredoxin. The human mitochondrial cysteine desulfurase complex consists of two copies each of NFS1, ISD11, and acyl carrier protein. We describe results from chemical crosslinking coupled with tandem mass spectrometry and small-angle X-ray scattering studies that are consistent with a closed NFS1 dimer rather than an open one for both the cysteine desulfurase-ISCU and cysteine desulfurase-ISCU-frataxin complexes. We present a structural model for the cysteine desulfurase-ISCU-frataxin complex derived from chemical crosslinking restraints in conjunction with the recent crystal structure of the cysteine desulfurase-ISCU-zinc complex and distance constraints from nuclear magnetic resonance.
Contact author
  • Kai Cai (University of Wisconsin-Madison, Madison, WI, USA)

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Structure visualization

Structure viewerMolecule:
MolmilJmol/JSmol

Downloads & links

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Models

Model #1771
Type: atomic / Radius of dummy atoms: 1.90 A / Chi-square value: 6.620329 / P-value: 0.000007
Search similar-shape structures of this assembly by Omokage search (details)
Model #1773
Type: atomic / Radius of dummy atoms: 1.90 A
Search similar-shape structures of this assembly by Omokage search (details)

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Sample

SampleName: Human mitochondrial cysteine desulfurase-ISCU (NFS1, ISD11, Acp and ISCU heterodimer complex)
Specimen concentration: 2.00-10.00 / Entity id: 958 / 959 / 960 / 961
BufferName: 20 mM HEPES, 150 mM NaCl, 5 mM TCEP / pH: 7.5 / Comment: HNT Buffer
Entity #958Name: NFS1 / Type: protein / Description: Cysteine desulfurase, mitochondrial / Formula weight: 44.913 / Num. of mol.: 2 / Source: Homo sapiens / References: UniProt: Q9Y697
Sequence: GPVLRPLYMD VQATTPLDPR VLDAMLPYLI NYYGNPHSRT HAYGWESEAA MERARQQVAS LIGADPREII FTSGATESNN IAIKGVARFY RSRKKHLITT QTEHKCVLDS CRSLEAEGFQ VTYLPVQKSG IIDLKELEAA IQPDTSLVSV MTVNNEIGVK QPIAEIGRIC ...Sequence:
GPVLRPLYMD VQATTPLDPR VLDAMLPYLI NYYGNPHSRT HAYGWESEAA MERARQQVAS LIGADPREII FTSGATESNN IAIKGVARFY RSRKKHLITT QTEHKCVLDS CRSLEAEGFQ VTYLPVQKSG IIDLKELEAA IQPDTSLVSV MTVNNEIGVK QPIAEIGRIC SSRKVYFHTD AAQAVGKIPL DVNDMKIDLM SISGHKIYGP KGVGAIYIRR RPRVRVEALQ SGGGQERGMR SGTVPTPLVV GLGAACEVAQ QEMEYDHKRI SKLSERLIQN IMKSLPDVVM NGDPKHHYPG CINLSFAYVE GESLLMALKD VALSSGSACT SASLEPSYVL RAIGTDEDLA HSSIRFGIGR FTTEEEVDYT VEKCIQHVKR LREMSPLWEM VQDGIDLKSI KWTQH
Entity #959Name: ISD11 / Type: protein / Description: LYR motif-containing protein 4 / Formula weight: 11.581 / Num. of mol.: 2 / Source: Homo sapiens / References: UniProt: Q9HD34
Sequence:
MAASSRAQVL SLYRAMLRES KRFSAYNYRT YAVRRIRDAF RENKNVKDPV EIQTLVNKAK RDLGVIRRQV HIGQLYSTDK LIIENRDMPR THHHHHH
Entity #960Type: protein / Description: Acyl carrier protein / Formula weight: 11.5 / Num. of mol.: 2 / Source: Escherichia coli (strain K12) / References: UniProt: P0A6A8
Sequence:
PspP0A6A8A CPECOLIAcy lcarrierpr oteinOSEsc herichiaco li(strainK12)GNacpPP E1SV2MSTIE ERVKKIIGEQ LGVKQEEVTN NASFVEDLGA DSLDTVELVM ALEEEFDTEI PDEEAEKITT VQAAIDYING HQA
Entity #961Name: ISCU / Type: protein
Description: Iron-sulfur cluster assembly enzyme ISCU, mitochondrial
Formula weight: 14.655 / Num. of mol.: 2 / Source: Homo sapiens / References: UniProt: Q9H1K1
Sequence:
RLYHKKVVDH YENPRNVGSL DKTSKNVGTG LVGAPACGDV MKLQIQVDEK GKIVDARFKT FGCGSAIASS SLATEWVKGK TVEEALTIKN TDIAKELCLP PVKLHCSMLA EDAIKAALAD YKLKQEPKKG EAEKK

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Experimental information

BeamInstrument name: NMRFAM Bruker Nanostar / City: Madison, WI / 国: USA / Type of source: X-ray in house / Wavelength: 0.15418 Å / Dist. spec. to detc.: 1 mm
DetectorName: VÅNTEC-2000 / Type: MikroGap / Pixsize x: 200 mm
Scan
Title: Human mitochondrial cysteine desulfurase-ISCU (NFS1, ISD11, Acp and ISCU heterodimer complex)
Measurement date: May 22, 2017 / Storage temperature: 25 °C / Cell temperature: 25 °C / Exposure time: 3600 sec. / Number of frames: 4 / Unit: 1/A /
MinMax
Q0.0014 0.2276
Distance distribution function P(R)
Sofotware P(R): GNOM 4.5a / Number of points: 130 /
MinMax
Q0.02134 0.2048
P(R) point15 144
R0 136.5
Result
Type of curve: single_conc
Comments: The solution SAXS study of cysteine desulfurase complex containing the scaffold protein ISCU
ExperimentalPorod
MW160 kDa-
Volume-218 nm3

P(R)GuinierGuinier error
Forward scattering, I06367 6223.9 21
Radius of gyration, Rg4.02 nm3.87 nm0.3

MinMaxError
D-13.65 0.5
Guinier point15 23 -

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