6VFD

Tryptophan synthase mutant Q114A in complex with cesium ion at the metal coordination site and 2-aminophenol quinonoid at the enzyme beta site


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.70 Å
  • R-Value Free: 0.224 
  • R-Value Work: 0.195 
  • R-Value Observed: 0.196 

Starting Model: experimental
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This is version 1.1 of the entry. See complete history


Literature

Tryptophan synthase mutant Q114A in complex with cesium ion at the metal coordination site and 2-aminophenol quinonoid at the enzyme beta site.

Hilario, E.Fan, L.Dunn, M.F.Mueller, L.J.

To be published.

Macromolecules
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Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Tryptophan synthase alpha chain268Salmonella enterica subsp. enterica serovar TyphimuriumMutation(s): 0 
Gene Names: trpADD95_04145
EC: 4.2.1.20
UniProt
Find proteins for P00929 (Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720))
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UniProt GroupP00929
Sequence Annotations
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  • Reference Sequence
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Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Tryptophan synthase beta chain397Salmonella enterica subsp. enterica serovar TyphimuriumMutation(s): 1 
Gene Names: 
trpBAAP89_02045ABO94_19170AF480_03975AF488_06015AF489_02660AIC76_02215AU613_22485AXR84_21850AXU58_18720C2253_17845CD48_01255CE87_00490CET98_00490CQG18_02715CVR97_02985D4369_03495D4380_02480D4401_03780D4E62_00155D6360_05135D7F20_01770D7H43_22440DD95_04150DJ388_09100DKJ11_03255DKU57_01740DLM31_00170DNV30_02640DO698_02865DOJ90_01720DOQ88_05395DQ848_22185DRM14_00170DSF69_00170DSR36_00155DUW48_00170E2F01_02625EBO41_01950EBP31_03920EGU67_04975EHB24_02705EHC98_05585EIW53_01745F0A00_14785F0A01_15745F0A02_08960F0A03_20195F0A04_22070F0A05_01740F0A06_01905F0A07_12870F0A08_01425F0U66_12100FKA80_16460FKA81_16995FKA82_17080FKA83_17705FKA84_18900FKA85_16755FKA86_15095FKA87_20420FKA88_00465FKA89_17495FKA90_04050FKA91_03380FKA92_00475FKA93_04425FKA94_02440FKA95_00475FKA96_03185FKA97_05420FKA98_04655FKA99_00465FKB00_08210FKB01_00475FKB02_00470FKB03_06095FKB12_08200FKB15_09545FKB19_17260FYL57_17810FYL66_01025FYL68_08225FYL69_04355FYL71_20365FYL73_06975FYL74_10415FYL75_12085FYL77_17200FYL81_18315FYL84_11395FYL90_05690FYL92_04810FYL93_03130FYL94_11585FYL96_18520FYM06_17485FYM08_08630FYM09_19335FYM12_03600FYM54_08665FZ992_19115FZ993_02220FZ994_08290FZ995_12310FZ996_09230FZ997_15170FZ998_14625FZ999_17455GW08_03175JO10_00490LZ63_02660NG18_14010NU83_02660QA89_14465QB40_00170QD15_05225RJ78_16500SAMEA4398682_02247UPM260_1493Y934_00965YG50_13195YI33_00155YR17_00170YT65_03520ZA53_18735ZB89_05455ZC54_00170

EC: 4.2.1.20
UniProt
Find proteins for P0A2K1 (Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720))
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UniProt GroupP0A2K1
Sequence Annotations
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  • Reference Sequence
Small Molecules
Ligands 6 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
1D0 (Subject of Investigation/LOI)
Query on 1D0

Download Ideal Coordinates CCD File 
I [auth B](2E)-2-[({3-hydroxy-2-methyl-5-[(phosphonooxy)methyl]pyridin-4-yl}methyl)imino]-3-[(2-hydroxyphenyl)amino]propanoic acid
C17 H20 N3 O8 P
MKNJFLJOSVXALN-XMHGGMMESA-N
CS
Query on CS

Download Ideal Coordinates CCD File 
V [auth B],
W [auth B],
X [auth B]
CESIUM ION
Cs
NCMHKCKGHRPLCM-UHFFFAOYSA-N
SER
Query on SER

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E [auth A],
J [auth B]
SERINE
C3 H7 N O3
MTCFGRXMJLQNBG-REOHCLBHSA-N
DMS
Query on DMS

Download Ideal Coordinates CCD File 
F [auth A]
M [auth B]
N [auth B]
O [auth B]
P [auth B]
F [auth A],
M [auth B],
N [auth B],
O [auth B],
P [auth B],
Q [auth B],
R [auth B],
S [auth B],
T [auth B],
U [auth B]
DIMETHYL SULFOXIDE
C2 H6 O S
IAZDPXIOMUYVGZ-UHFFFAOYSA-N
EDO
Query on EDO

Download Ideal Coordinates CCD File 
C [auth A],
D [auth A],
K [auth B],
L [auth B]
1,2-ETHANEDIOL
C2 H6 O2
LYCAIKOWRPUZTN-UHFFFAOYSA-N
CL
Query on CL

Download Ideal Coordinates CCD File 
AA [auth B]
BA [auth B]
CA [auth B]
DA [auth B]
EA [auth B]
AA [auth B],
BA [auth B],
CA [auth B],
DA [auth B],
EA [auth B],
FA [auth B],
G [auth A],
GA [auth B],
H [auth A],
HA [auth B],
IA [auth B],
JA [auth B],
KA [auth B],
LA [auth B],
Y [auth B],
Z [auth B]
CHLORIDE ION
Cl
VEXZGXHMUGYJMC-UHFFFAOYSA-M
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.70 Å
  • R-Value Free: 0.224 
  • R-Value Work: 0.195 
  • R-Value Observed: 0.196 
  • Space Group: C 1 2 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 183.079α = 90
b = 59.34β = 94.85
c = 67.44γ = 90
Software Package:
Software NamePurpose
MOSFLMdata reduction
SCALAdata scaling
MOLREPphasing
REFMACrefinement
PDB_EXTRACTdata extraction

Structure Validation

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Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Institutes of Health/National Human Genome Research Institute (NIH/NHGRI)United States2R01GM097569-06A1

Revision History  (Full details and data files)

  • Version 1.0: 2020-08-05
    Type: Initial release
  • Version 1.1: 2023-10-11
    Changes: Data collection, Database references, Refinement description