6QL9

Structure of Fatty acid synthase complex from Saccharomyces cerevisiae at 2.9 Angstrom


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.82 Å
  • R-Value Free: 0.211 
  • R-Value Work: 0.192 
  • R-Value Observed: 0.193 

wwPDB Validation   3D Report Full Report


Ligand Structure Quality Assessment 


This is version 1.2 of the entry. See complete history


Literature

Discovery of a Regulatory Subunit of the Yeast Fatty Acid Synthase.

Singh, K.Graf, B.Linden, A.Sautner, V.Urlaub, H.Tittmann, K.Stark, H.Chari, A.

(2020) Cell 180: 1130-1143.e20

  • DOI: 10.1016/j.cell.2020.02.034
  • Primary Citation of Related Structures:  
    6QL5, 6QL6, 6QL7, 6QL9

  • PubMed Abstract: 
  • Fatty acid synthases (FASs) are central to metabolism but are also of biotechnological interest for the production of fine chemicals and biofuels from renewable resources. During fatty acid synthesis, the growing fatty acid chain is thought to be shuttled by the dynamic acyl carrier protein domain to several enzyme active sites ...

    Fatty acid synthases (FASs) are central to metabolism but are also of biotechnological interest for the production of fine chemicals and biofuels from renewable resources. During fatty acid synthesis, the growing fatty acid chain is thought to be shuttled by the dynamic acyl carrier protein domain to several enzyme active sites. Here, we report the discovery of a γ subunit of the 2.6 megadalton α 6 6 S. cerevisiae FAS, which is shown by high-resolution structures to stabilize a rotated FAS conformation and rearrange ACP domains from equatorial to axial positions. The γ subunit spans the length of the FAS inner cavity, impeding reductase activities of FAS, regulating NADPH turnover by kinetic hysteresis at the ketoreductase, and suppressing off-pathway reactions at the enoylreductase. The γ subunit delineates the functional compartment within FAS. As a scaffold, it may be exploited to incorporate natural and designed enzymatic activities that are not present in natural FAS.


    Organizational Affiliation

    Department of Structural Dynamics, Max Planck Institute for Biophysical Chemistry, 37077 Göttingen, Germany. Electronic address: ashwin.chari@mpibpc.mpg.de.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Fatty acid synthase subunit alpha
A, B, C, D, E, F
A, B, C, D, E, F
1887Saccharomyces cerevisiae S288CMutation(s): 0 
Gene Names: FAS2YPL231WP1409
EC: 2.3.1.86 (PDB Primary Data), 1.1.1.100 (PDB Primary Data), 2.3.1.41 (PDB Primary Data)
UniProt
Find proteins for P19097 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Explore P19097 
Go to UniProtKB:  P19097
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP19097
Protein Feature View
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  • Reference Sequence
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Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
Fatty acid synthase subunit betaG, J2051Saccharomyces cerevisiae S288CMutation(s): 0 
Gene Names: FAS1YKL182W
EC: 2.3.1.86 (PDB Primary Data), 4.2.1.59 (PDB Primary Data), 1.3.1.9 (PDB Primary Data), 2.3.1.38 (PDB Primary Data), 2.3.1.39 (PDB Primary Data), 3.1.2.14 (PDB Primary Data)
UniProt
Find proteins for P07149 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Explore P07149 
Go to UniProtKB:  P07149
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP07149
Protein Feature View
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  • Reference Sequence
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Entity ID: 3
MoleculeChainsSequence LengthOrganismDetailsImage
Fatty acid synthase subunit betaH, I, K, L2051Saccharomyces cerevisiae S288CMutation(s): 0 
Gene Names: FAS1YKL182W
EC: 2.3.1.86 (PDB Primary Data), 4.2.1.59 (PDB Primary Data), 1.3.1.9 (PDB Primary Data), 2.3.1.38 (PDB Primary Data), 2.3.1.39 (PDB Primary Data), 3.1.2.14 (PDB Primary Data)
UniProt
Find proteins for P07149 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Explore P07149 
Go to UniProtKB:  P07149
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP07149
Protein Feature View
Expand
  • Reference Sequence
Small Molecules
Ligands 8 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
FMN
Query on FMN

Download Ideal Coordinates CCD File 
BE [auth J],
JE [auth K],
ME [auth L],
OD [auth G],
SD [auth H],
BE [auth J],
JE [auth K],
ME [auth L],
OD [auth G],
SD [auth H],
ZD [auth I]
FLAVIN MONONUCLEOTIDE
C17 H21 N4 O9 P
FVTCRASFADXXNN-SCRDCRAPSA-N
 Ligand Interaction
A2P
Query on A2P

Download Ideal Coordinates CCD File 
AD [auth E],
DA [auth A],
JC [auth D],
MB [auth C],
ND [auth F],
AD [auth E],
DA [auth A],
JC [auth D],
MB [auth C],
ND [auth F],
VA [auth B]
ADENOSINE-2'-5'-DIPHOSPHATE
C10 H15 N5 O10 P2
AEOBEOJCBAYXBA-KQYNXXCUSA-N
 Ligand Interaction
PNS
Query on PNS

Download Ideal Coordinates CCD File 
CD [auth F],
EA [auth B],
KC [auth E],
M [auth A],
NB [auth D],
CD [auth F],
EA [auth B],
KC [auth E],
M [auth A],
NB [auth D],
WA [auth C]
4'-PHOSPHOPANTETHEINE
C11 H23 N2 O7 P S
JDMUPRLRUUMCTL-VIFPVBQESA-N
 Ligand Interaction
PGE
Query on PGE

Download Ideal Coordinates CCD File 
BD [auth E]TRIETHYLENE GLYCOL
C6 H14 O4
ZIBGPFATKBEMQZ-UHFFFAOYSA-N
 Ligand Interaction
MLI
Query on MLI

Download Ideal Coordinates CCD File 
CE [auth J],
PD [auth G]
MALONATE ION
C3 H2 O4
OFOBLEOULBTSOW-UHFFFAOYSA-L
 Ligand Interaction
EDO
Query on EDO

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AB [auth C],
AC [auth D],
BB [auth C],
CB [auth C],
DB [auth C],
AB [auth C],
AC [auth D],
BB [auth C],
CB [auth C],
DB [auth C],
DD [auth F],
DE [auth J],
EB [auth C],
ED [auth F],
EE [auth J],
FB [auth C],
FD [auth F],
FE [auth J],
GA [auth B],
GB [auth C],
GD [auth F],
GE [auth J],
HA [auth B],
HB [auth C],
HD [auth F],
IA [auth B],
ID [auth F],
JA [auth B],
JD [auth F],
KA [auth B],
KD [auth F],
LA [auth B],
LC [auth E],
MA [auth B],
MC [auth E],
N [auth A],
NA [auth B],
NC [auth E],
O [auth A],
OA [auth B],
OB [auth D],
OC [auth E],
P [auth A],
PA [auth B],
PB [auth D],
PC [auth E],
Q [auth A],
QB [auth D],
QC [auth E],
R [auth A],
RB [auth D],
RC [auth E],
S [auth A],
SB [auth D],
SC [auth E],
T [auth A],
TB [auth D],
TC [auth E],
U [auth A],
UB [auth D],
UC [auth E],
V [auth A],
VB [auth D],
VC [auth E],
W [auth A],
WB [auth D],
WC [auth E],
WD [auth H],
XB [auth D],
YB [auth D],
ZA [auth C],
ZB [auth D]
1,2-ETHANEDIOL
C2 H6 O2
LYCAIKOWRPUZTN-UHFFFAOYSA-N
 Ligand Interaction
ACT
Query on ACT

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FA [auth B],
TD [auth H],
UD [auth H],
VD [auth H],
XA [auth C],
FA [auth B],
TD [auth H],
UD [auth H],
VD [auth H],
XA [auth C],
YA [auth C]
ACETATE ION
C2 H3 O2
QTBSBXVTEAMEQO-UHFFFAOYSA-M
 Ligand Interaction
NA
Query on NA

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AA [auth A],
AE [auth I],
BA [auth A],
BC [auth D],
CA [auth A],
AA [auth A],
AE [auth I],
BA [auth A],
BC [auth D],
CA [auth A],
CC [auth D],
DC [auth D],
EC [auth D],
FC [auth D],
GC [auth D],
HC [auth D],
HE [auth J],
IB [auth C],
IC [auth D],
IE [auth J],
JB [auth C],
KB [auth C],
KE [auth K],
LB [auth C],
LD [auth F],
LE [auth K],
MD [auth F],
NE [auth L],
OE [auth L],
QA [auth B],
QD [auth G],
RA [auth B],
RD [auth G],
SA [auth B],
TA [auth B],
UA [auth B],
X [auth A],
XC [auth E],
XD [auth H],
Y [auth A],
YC [auth E],
YD [auth H],
Z [auth A],
ZC [auth E]
SODIUM ION
Na
FKNQFGJONOIPTF-UHFFFAOYSA-N
 Ligand Interaction
Modified Residues  1 Unique
IDChainsTypeFormula2D DiagramParent
J8W
Query on J8W
H, I, K, L L-PEPTIDE LINKINGC6 H9 N O6SER
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.82 Å
  • R-Value Free: 0.211 
  • R-Value Work: 0.192 
  • R-Value Observed: 0.193 
  • Space Group: P 1 21 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 217.616α = 90
b = 347.596β = 107.88
c = 265.266γ = 90
Software Package:
Software NamePurpose
REFMACrefinement
XDSdata reduction
Aimlessdata scaling
MOLREPphasing

Structure Validation

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Ligand Structure Quality Assessment 



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
German Research FoundationGermanySFB860-TP A5

Revision History  (Full details and data files)

  • Version 1.0: 2020-03-18
    Type: Initial release
  • Version 1.1: 2020-03-25
    Changes: Database references
  • Version 1.2: 2020-04-08
    Changes: Database references