5IB7

Structure of T. thermophilus 70S ribosome complex with mRNA, tRNAfMet, near-cognate tRNALys with U-G mismatch in the A-site and antibiotic paromomycin

Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.99 Å
  • R-Value Free: 0.241 
  • R-Value Work: 0.202 
  • R-Value Observed: 0.202 

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This is version 1.2 of the entry. See complete history. 


Literature

The ribosome prohibits the GU wobble geometry at the first position of the codon-anticodon helix.

Rozov, A., Westhof, E., Yusupov, M., Yusupova, G.

(2016) Nucleic Acids Res 44: 6434-6441

  • DOI: https://doi.org/10.1093/nar/gkw431
  • Primary Citation of Related Structures:  
    5IB7, 5IB8, 5IBB

  • PubMed Abstract: 

    Precise conversion of genetic information into proteins is essential to cellular health. However, a margin of error exists and is at its highest on the stage of translation of mRNA by the ribosome. Here we present three crystal structures of 70S ribosome complexes with messenger RNA and transfer RNAs and show that when a G•U base pair is at the first position of the codon-anticodon helix a conventional wobble pair cannot form because of inescapable steric clash between the guanosine of the A codon and the key nucleotide of decoding center adenosine 1493 of 16S rRNA. In our structure the rigid ribosomal decoding center, which is identically shaped for cognate or near-cognate tRNAs, forces this pair to adopt a geometry close to that of a canonical G•C pair. We further strengthen our hypothesis that spatial mimicry due either to base tautomerism or ionization dominates the translation infidelity mechanism.

    • Organizational Affiliation: 

    Department of Integrated Structural Biology, Institute of Genetics and Molecular and Cellular Biology, INSERM, U964; CNRS, UMR7104/University of Strasbourg, 1 rue Laurent Fries, 67404 Illkirch, France.


Macromolecules

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Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
30S ribosomal protein S2B [auth 1E],
FB [auth 12]		256Thermus thermophilus HB8Mutation(s): 0 
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Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
30S ribosomal protein S3C [auth 2E],
GB [auth 22]		239Thermus thermophilus HB8Mutation(s): 0 
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Entity ID: 4
MoleculeChains Sequence LengthOrganismDetailsImage
30S ribosomal protein S4D [auth 3E],
HB [auth 32]		209Thermus thermophilus HB8Mutation(s): 0 
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Entity ID: 5
MoleculeChains Sequence LengthOrganismDetailsImage
30S ribosomal protein S5E [auth 4E],
IB [auth 42]		162Thermus thermophilus HB8Mutation(s): 0 
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Entity ID: 6
MoleculeChains Sequence LengthOrganismDetailsImage
30S ribosomal protein S6F [auth 5E],
JB [auth 52]		101Thermus thermophilus HB8Mutation(s): 0 
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Entity ID: 7
MoleculeChains Sequence LengthOrganismDetailsImage
30S ribosomal protein S7G [auth 6E],
KB [auth 62]		156Thermus thermophilus HB8Mutation(s): 0 
UniProt
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Entity ID: 8
MoleculeChains Sequence LengthOrganismDetailsImage
30S ribosomal protein S8H [auth 7E],
LB [auth 72]		138Thermus thermophilus HB8Mutation(s): 0 
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Entity ID: 9
MoleculeChains Sequence LengthOrganismDetailsImage
30S ribosomal protein S9I [auth 8E],
MB [auth 82]		128Thermus thermophilus HB8Mutation(s): 0 
UniProt
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Entity ID: 10
MoleculeChains Sequence LengthOrganismDetailsImage
30S ribosomal protein S10J [auth 1I],
NB [auth 1A]		105Thermus thermophilus HB8Mutation(s): 0 
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Entity ID: 11
MoleculeChains Sequence LengthOrganismDetailsImage
30S ribosomal protein S11K [auth 2I],
OB [auth 2A]		129Thermus thermophilus HB8Mutation(s): 0 
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Entity ID: 12
MoleculeChains Sequence LengthOrganismDetailsImage
30S ribosomal protein S12L [auth 3I],
PB [auth 3A]		132Thermus thermophilus HB8Mutation(s): 0 
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Entity ID: 13
MoleculeChains Sequence LengthOrganismDetailsImage
30S ribosomal protein S13M [auth 4I],
QB [auth 4A]		126Thermus thermophilus HB8Mutation(s): 0 
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Entity ID: 14
MoleculeChains Sequence LengthOrganismDetailsImage
30S ribosomal protein S14 type ZN [auth 5I],
RB [auth 5A]		61Thermus thermophilus HB8Mutation(s): 0 
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Entity ID: 15
MoleculeChains Sequence LengthOrganismDetailsImage
30S ribosomal protein S15O [auth 6I],
SB [auth 6A]		89Thermus thermophilus HB8Mutation(s): 0 
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Entity ID: 16
MoleculeChains Sequence LengthOrganismDetailsImage
30S ribosomal protein S16P [auth 7I],
TB [auth 7A]		88Thermus thermophilus HB8Mutation(s): 0 
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Entity ID: 17
MoleculeChains Sequence LengthOrganismDetailsImage
30S ribosomal protein S17Q [auth 8I],
UB [auth 8A]		105Thermus thermophilus HB8Mutation(s): 0 
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Entity ID: 18
MoleculeChains Sequence LengthOrganismDetailsImage
30S ribosomal protein S18R [auth 9I],
VB [auth 9A]		88Thermus thermophilus HB8Mutation(s): 0 
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Entity ID: 19
MoleculeChains Sequence LengthOrganismDetailsImage
30S ribosomal protein S19S [auth AI],
WB [auth AA]		93Thermus thermophilus HB8Mutation(s): 0 
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Entity ID: 20
MoleculeChains Sequence LengthOrganismDetailsImage
30S ribosomal protein S20T [auth BI],
XB [auth BA]		106Thermus thermophilus HB8Mutation(s): 0 
UniProt
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Entity ID: 21
MoleculeChains Sequence LengthOrganismDetailsImage
30S ribosomal protein ThxU [auth 1F],
YB [auth 1B]		27Thermus thermophilus HB8Mutation(s): 0 
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Entity ID: 28
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L1BA [auth 71]229Thermus thermophilus HB8Mutation(s): 0 
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Entity ID: 29
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L2CA [auth 11],
FC [auth 19]		276Thermus thermophilus HB8Mutation(s): 0 
UniProt
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Entity ID: 30
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L3DA [auth 21],
GC [auth 29]		206Thermus thermophilus HB8Mutation(s): 0 
UniProt
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Entity ID: 31
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L4EA [auth 31],
HC [auth 39]		210Thermus thermophilus HB8Mutation(s): 0 
UniProt
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Entity ID: 32
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L5FA [auth 41],
IC [auth 49]		182Thermus thermophilus HB8Mutation(s): 0 
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Entity ID: 33
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L6GA [auth 51],
JC [auth 59]		180Thermus thermophilus HB8Mutation(s): 0 
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Entity ID: 34
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L9HA [auth 61],
KC [auth 69]		148Thermus thermophilus HB8Mutation(s): 0 
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Entity ID: 35
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L13IA [auth 58],
LC [auth 15]		140Thermus thermophilus HB8Mutation(s): 0 
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Entity ID: 36
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L14JA [auth 68],
MC [auth 25]		122Thermus thermophilus HB8Mutation(s): 0 
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Entity ID: 37
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L15KA [auth 78],
NC [auth 35]		150Thermus thermophilus HB8Mutation(s): 0 
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Entity ID: 38
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L16LA [auth 88],
OC [auth 45]		141Thermus thermophilus HB8Mutation(s): 0 
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Entity ID: 39
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L17MA [auth 98],
PC [auth 55]		118Thermus thermophilus HB8Mutation(s): 0 
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Entity ID: 40
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L18NA [auth A8],
QC [auth 65]		112Thermus thermophilus HB8Mutation(s): 0 
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Entity ID: 41
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L19OA [auth B8],
RC [auth 75]		146Thermus thermophilus HB8Mutation(s): 0 
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Entity ID: 42
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L20PA [auth C8],
SC [auth 85]		118Thermus thermophilus HB8Mutation(s): 0 
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Entity ID: 43
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L21QA [auth D8],
TC [auth 95]		101Thermus thermophilus HB8Mutation(s): 0 
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Entity ID: 44
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L22RA [auth E8],
UC [auth A5]		113Thermus thermophilus HB8Mutation(s): 0 
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Entity ID: 45
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L23SA [auth F8],
VC [auth B5]		96Thermus thermophilus HB8Mutation(s): 0 
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Entity ID: 46
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L24TA [auth G8],
WC [auth C5]		110Thermus thermophilus HB8Mutation(s): 0 
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Entity ID: 47
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L25UA [auth H8],
XC [auth D5]		206Thermus thermophilus HB8Mutation(s): 0 
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Entity ID: 48
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L27VA [auth I8],
YC [auth E5]		85Thermus thermophilus HB8Mutation(s): 0 
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Entity ID: 49
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L28WA [auth J8],
ZC [auth F5]		98Thermus thermophilus HB8Mutation(s): 0 
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Entity ID: 50
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L29AD [auth G5],
XA [auth K8]		72Thermus thermophilus HB8Mutation(s): 0 
UniProt
Find proteins for Q5SHP6 (Thermus thermophilus (strain ATCC 27634 / DSM 579 / HB8))
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UniProt GroupQ5SHP6
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Entity ID: 51
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L30BD [auth H5],
YA [auth L8]		60Thermus thermophilus HB8Mutation(s): 0 
UniProt
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Entity ID: 52
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L31ZA [auth M8]71Thermus thermophilus HB8Mutation(s): 0 
UniProt
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UniProt GroupQ5SJE1
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Entity ID: 53
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L32AB [auth N8],
CD [auth J5]		60Thermus thermophilus HB8Mutation(s): 0 
UniProt
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Entity ID: 54
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L33BB [auth O8]54Thermus thermophilus HB8Mutation(s): 0 
UniProt
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UniProt GroupP35871
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Entity ID: 55
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L34CB [auth P8],
DD [auth L5]		49Thermus thermophilus HB8Mutation(s): 0 
UniProt
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Entity ID: 56
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L35DB [auth Q8],
ED [auth M5]		65Thermus thermophilus HB8Mutation(s): 0 
UniProt
Find proteins for Q5SKU1 (Thermus thermophilus (strain ATCC 27634 / DSM 579 / HB8))
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Entity ID: 1
MoleculeChains LengthOrganismImage
16S ribosomal RNAA [auth 13],
EB [auth 1G]		1,522Thermus thermophilus HB8
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Entity ID: 22
MoleculeChains LengthOrganismImage
tRNALysV [auth 1K]76Escherichia coli K-12
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Entity ID: 23
MoleculeChains LengthOrganismImage
tRNAfMetAC [auth 2L],
W [auth 2K]		77Escherichia coli K-12
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Entity ID: 24
MoleculeChains LengthOrganismImage
tRNALysBC [auth 3L],
X [auth 3K],
ZB [auth 1L]		76Escherichia coli K-12
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Entity ID: 25
MoleculeChains LengthOrganismImage
mRNACC [auth 4L],
Y [auth 4K]		30Escherichia coli
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Entity ID: 26
MoleculeChains LengthOrganismImage
23S ribosomal RNADC [auth 14],
Z [auth 1H]		2,917Thermus thermophilus HB8
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Entity ID: 27
MoleculeChains LengthOrganismImage
5S ribosomal RNAAA [auth 16],
EC [auth 1J]		122Thermus thermophilus HB8
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Small Molecules
Ligands 5 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
PAR
Query on PAR
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PI [auth 13],
ZHA [auth 1G]		PAROMOMYCIN
C23 H45 N5 O14
UOZODPSAJZTQNH-LSWIJEOBSA-N
SF4
Query on SF4
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DIA [auth 32],
QI [auth 3E]		IRON/SULFUR CLUSTER
Fe4 S4
LJBDFODJNLIPKO-UHFFFAOYSA-N
SPE
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AIA [auth 1G],
EZA [auth 14],
FZA [auth 14]		THERMINE
C9 H24 N4
ZAXCZCOUDLENMH-UHFFFAOYSA-N
ZN
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GIA [auth 5A],
UI [auth 5I],
XDA [auth G8],
XZA [auth C5]		ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
MG
Query on MG
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AAA [auth 1H]
ABA [auth 1H]
ACA [auth 1H]
ADA [auth 1H]
AE [auth 13]
AAA [auth 1H],
ABA [auth 1H],
ACA [auth 1H],
ADA [auth 1H],
AE [auth 13],
AEA [auth P8],
AF [auth 13],
AFA [auth 1G],
AG [auth 13],
AGA [auth 1G],
AH [auth 13],
AHA [auth 1G],
AI [auth 13],
AJ [auth 1H],
AJA [auth 14],
AK [auth 1H],
AKA [auth 14],
AL [auth 1H],
ALA [auth 14],
AM [auth 1H],
AMA [auth 14],
AN [auth 1H],
ANA [auth 14],
AO [auth 1H],
AOA [auth 14],
AP [auth 1H],
APA [auth 14],
AQ [auth 1H],
AQA [auth 14],
AR [auth 1H],
ARA [auth 14],
AS [auth 1H],
ASA [auth 14],
AT [auth 1H],
ATA [auth 14],
AU [auth 1H],
AUA [auth 14],
AV [auth 1H],
AVA [auth 14],
AW [auth 1H],
AWA [auth 14],
AX [auth 1H],
AXA [auth 14],
AY [auth 1H],
AYA [auth 14],
AZ [auth 1H],
AZA [auth 14],
BAA [auth 1H],
BBA [auth 1H],
BCA [auth 1H],
BDA [auth 1H],
BE [auth 13],
BEA [auth Q8],
BF [auth 13],
BFA [auth 1G],
BG [auth 13],
BGA [auth 1G],
BH [auth 13],
BHA [auth 1G],
BI [auth 13],
BIA [auth 1G],
BJ [auth 1H],
BJA [auth 14],
BK [auth 1H],
BKA [auth 14],
BL [auth 1H],
BLA [auth 14],
BM [auth 1H],
BMA [auth 14],
BN [auth 1H],
BNA [auth 14],
BO [auth 1H],
BOA [auth 14],
BP [auth 1H],
BPA [auth 14],
BQ [auth 1H],
BQA [auth 14],
BR [auth 1H],
BRA [auth 14],
BS [auth 1H],
BSA [auth 14],
BT [auth 1H],
BTA [auth 14],
BU [auth 1H],
BUA [auth 14],
BV [auth 1H],
BVA [auth 14],
BW [auth 1H],
BWA [auth 14],
BX [auth 1H],
BXA [auth 14],
BY [auth 1H],
BYA [auth 14],
BZ [auth 1H],
BZA [auth 14],
CAA [auth 1H],
CBA [auth 1H],
CCA [auth 1H],
CDA [auth 16],
CE [auth 13],
CEA [auth 1G],
CF [auth 13],
CFA [auth 1G],
CG [auth 13],
CGA [auth 1G],
CH [auth 13],
CHA [auth 1G],
CI [auth 13],
CIA [auth 32],
CJ [auth 1H],
CJA [auth 14],
CK [auth 1H],
CKA [auth 14],
CL [auth 1H],
CLA [auth 14],
CM [auth 1H],
CMA [auth 14],
CN [auth 1H],
CNA [auth 14],
CO [auth 1H],
COA [auth 14],
CP [auth 1H],
CPA [auth 14],
CQ [auth 1H],
CQA [auth 14],
CR [auth 1H],
CRA [auth 14],
CS [auth 1H],
CSA [auth 14],
CT [auth 1H],
CTA [auth 14],
CU [auth 1H],
CUA [auth 14],
CV [auth 1H],
CVA [auth 14],
CW [auth 1H],
CWA [auth 14],
CX [auth 1H],
CXA [auth 14],
CY [auth 1H],
CYA [auth 14],
CZ [auth 1H],
CZA [auth 14],
DAA [auth 1H],
DBA [auth 1H],
DCA [auth 1H],
DDA [auth 16],
DE [auth 13],
DEA [auth 1G],
DF [auth 13],
DFA [auth 1G],
DG [auth 13],
DGA [auth 1G],
DH [auth 13],
DHA [auth 1G],
DI [auth 13],
DJ [auth 1H],
DJA [auth 14],
DK [auth 1H],
DKA [auth 14],
DL [auth 1H],
DLA [auth 14],
DM [auth 1H],
DMA [auth 14],
DN [auth 1H],
DNA [auth 14],
DO [auth 1H],
DOA [auth 14],
DP [auth 1H],
DPA [auth 14],
DQ [auth 1H],
DQA [auth 14],
DR [auth 1H],
DRA [auth 14],
DS [auth 1H],
DSA [auth 14],
DT [auth 1H],
DTA [auth 14],
DU [auth 1H],
DUA [auth 14],
DV [auth 1H],
DVA [auth 14],
DW [auth 1H],
DWA [auth 14],
DX [auth 1H],
DXA [auth 14],
DY [auth 1H],
DYA [auth 14],
DZ [auth 1H],
DZA [auth 14],
EAA [auth 1H],
EBA [auth 1H],
ECA [auth 1H],
EDA [auth 16],
EE [auth 13],
EEA [auth 1G],
EF [auth 13],
EFA [auth 1G],
EG [auth 13],
EGA [auth 1G],
EH [auth 13],
EHA [auth 1G],
EI [auth 13],
EIA [auth 42],
EJ [auth 1H],
EJA [auth 14],
EK [auth 1H],
EKA [auth 14],
EL [auth 1H],
ELA [auth 14],
EM [auth 1H],
EMA [auth 14],
EN [auth 1H],
ENA [auth 14],
EO [auth 1H],
EOA [auth 14],
EP [auth 1H],
EPA [auth 14],
EQ [auth 1H],
EQA [auth 14],
ER [auth 1H],
ERA [auth 14],
ES [auth 1H],
ESA [auth 14],
ET [auth 1H],
ETA [auth 14],
EU [auth 1H],
EUA [auth 14],
EV [auth 1H],
EVA [auth 14],
EW [auth 1H],
EWA [auth 14],
EX [auth 1H],
EXA [auth 14],
EY [auth 1H],
EYA [auth 14],
EZ [auth 1H],
FAA [auth 1H],
FBA [auth 1H],
FCA [auth 1H],
FD [auth 13],
FDA [auth 16],
FE [auth 13],
FEA [auth 1G],
FF [auth 13],
FFA [auth 1G],
FG [auth 13],
FGA [auth 1G],
FH [auth 13],
FHA [auth 1G],
FI [auth 13],
FIA [auth 52],
FJ [auth 1H],
FJA [auth 14],
FK [auth 1H],
FKA [auth 14],
FL [auth 1H],
FLA [auth 14],
FM [auth 1H],
FMA [auth 14],
FN [auth 1H],
FNA [auth 14],
FO [auth 1H],
FOA [auth 14],
FP [auth 1H],
FPA [auth 14],
FQ [auth 1H],
FQA [auth 14],
FR [auth 1H],
FRA [auth 14],
FS [auth 1H],
FSA [auth 14],
FT [auth 1H],
FTA [auth 14],
FU [auth 1H],
FUA [auth 14],
FV [auth 1H],
FVA [auth 14],
FW [auth 1H],
FWA [auth 14],
FX [auth 1H],
FXA [auth 14],
FY [auth 1H],
FYA [auth 14],
FZ [auth 1H],
GAA [auth 1H],
GBA [auth 1H],
GCA [auth 1H],
GD [auth 13],
GDA [auth 16],
GE [auth 13],
GEA [auth 1G],
GF [auth 13],
GFA [auth 1G],
GG [auth 13],
GGA [auth 1G],
GH [auth 13],
GHA [auth 1G],
GI [auth 13],
GJ [auth 1H],
GJA [auth 14],
GK [auth 1H],
GKA [auth 14],
GL [auth 1H],
GLA [auth 14],
GM [auth 1H],
GMA [auth 14],
GN [auth 1H],
GNA [auth 14],
GO [auth 1H],
GOA [auth 14],
GP [auth 1H],
GPA [auth 14],
GQ [auth 1H],
GQA [auth 14],
GR [auth 1H],
GRA [auth 14],
GS [auth 1H],
GSA [auth 14],
GT [auth 1H],
GTA [auth 14],
GU [auth 1H],
GUA [auth 14],
GV [auth 1H],
GVA [auth 14],
GW [auth 1H],
GWA [auth 14],
GX [auth 1H],
GXA [auth 14],
GY [auth 1H],
GYA [auth 14],
GZ [auth 1H],
GZA [auth 1J],
HAA [auth 1H],
HBA [auth 1H],
HCA [auth 1H],
HD [auth 13],
HDA [auth 16],
HE [auth 13],
HEA [auth 1G],
HF [auth 13],
HFA [auth 1G],
HG [auth 13],
HGA [auth 1G],
HH [auth 13],
HHA [auth 1G],
HI [auth 13],
HIA [auth 7A],
HJ [auth 1H],
HJA [auth 14],
HK [auth 1H],
HKA [auth 14],
HL [auth 1H],
HLA [auth 14],
HM [auth 1H],
HMA [auth 14],
HN [auth 1H],
HNA [auth 14],
HO [auth 1H],
HOA [auth 14],
HP [auth 1H],
HPA [auth 14],
HQ [auth 1H],
HQA [auth 14],
HR [auth 1H],
HRA [auth 14],
HS [auth 1H],
HSA [auth 14],
HT [auth 1H],
HTA [auth 14],
HU [auth 1H],
HUA [auth 14],
HV [auth 1H],
HVA [auth 14],
HW [auth 1H],
HWA [auth 14],
HX [auth 1H],
HXA [auth 14],
HY [auth 1H],
HYA [auth 14],
HZ [auth 1H],
HZA [auth 1J],
IAA [auth 1H],
IBA [auth 1H],
ICA [auth 1H],
ID [auth 13],
IDA [auth 16],
IE [auth 13],
IEA [auth 1G],
IF [auth 13],
IFA [auth 1G],
IG [auth 13],
IGA [auth 1G],
IH [auth 13],
IHA [auth 1G],
II [auth 13],
IIA [auth 2L],
IJ [auth 1H],
IJA [auth 14],
IK [auth 1H],
IKA [auth 14],
IL [auth 1H],
ILA [auth 14],
IM [auth 1H],
IMA [auth 14],
IN [auth 1H],
INA [auth 14],
IO [auth 1H],
IOA [auth 14],
IP [auth 1H],
IPA [auth 14],
IQ [auth 1H],
IQA [auth 14],
IR [auth 1H],
IRA [auth 14],
IS [auth 1H],
ISA [auth 14],
IT [auth 1H],
ITA [auth 14],
IU [auth 1H],
IUA [auth 14],
IV [auth 1H],
IVA [auth 14],
IW [auth 1H],
IWA [auth 14],
IX [auth 1H],
IXA [auth 14],
IY [auth 1H],
IYA [auth 14],
IZ [auth 1H],
IZA [auth 1J],
JAA [auth 1H],
JBA [auth 1H],
JCA [auth 1H],
JD [auth 13],
JDA [auth 16],
JE [auth 13],
JEA [auth 1G],
JF [auth 13],
JFA [auth 1G],
JG [auth 13],
JGA [auth 1G],
JH [auth 13],
JHA [auth 1G],
JI [auth 13],
JIA [auth 2L],
JJ [auth 1H],
JJA [auth 14],
JK [auth 1H],
JKA [auth 14],
JL [auth 1H],
JLA [auth 14],
JM [auth 1H],
JMA [auth 14],
JN [auth 1H],
JNA [auth 14],
JO [auth 1H],
JOA [auth 14],
JP [auth 1H],
JPA [auth 14],
JQ [auth 1H],
JQA [auth 14],
JR [auth 1H],
JRA [auth 14],
JS [auth 1H],
JSA [auth 14],
JT [auth 1H],
JTA [auth 14],
JU [auth 1H],
JUA [auth 14],
JV [auth 1H],
JVA [auth 14],
JW [auth 1H],
JWA [auth 14],
JX [auth 1H],
JXA [auth 14],
JY [auth 1H],
JYA [auth 14],
JZ [auth 1H],
JZA [auth 1J],
KAA [auth 1H],
KBA [auth 1H],
KCA [auth 1H],
KD [auth 13],
KDA [auth 16],
KE [auth 13],
KEA [auth 1G],
KF [auth 13],
KFA [auth 1G],
KG [auth 13],
KGA [auth 1G],
KH [auth 13],
KHA [auth 1G],
KI [auth 13],
KIA [auth 4L],
KJ [auth 1H],
KJA [auth 14],
KK [auth 1H],
KKA [auth 14],
KL [auth 1H],
KLA [auth 14],
KM [auth 1H],
KMA [auth 14],
KN [auth 1H],
KNA [auth 14],
KO [auth 1H],
KOA [auth 14],
KP [auth 1H],
KPA [auth 14],
KQ [auth 1H],
KQA [auth 14],
KR [auth 1H],
KRA [auth 14],
KS [auth 1H],
KSA [auth 14],
KT [auth 1H],
KTA [auth 14],
KU [auth 1H],
KUA [auth 14],
KV [auth 1H],
KVA [auth 14],
KW [auth 1H],
KWA [auth 14],
KX [auth 1H],
KXA [auth 14],
KY [auth 1H],
KYA [auth 14],
KZ [auth 1H],
KZA [auth 1J],
LAA [auth 1H],
LBA [auth 1H],
LCA [auth 1H],
LD [auth 13],
LDA [auth 16],
LE [auth 13],
LEA [auth 1G],
LF [auth 13],
LFA [auth 1G],
LG [auth 13],
LGA [auth 1G],
LH [auth 13],
LHA [auth 1G],
LI [auth 13],
LIA [auth 14],
LJ [auth 1H],
LJA [auth 14],
LK [auth 1H],
LKA [auth 14],
LL [auth 1H],
LLA [auth 14],
LM [auth 1H],
LMA [auth 14],
LN [auth 1H],
LNA [auth 14],
LO [auth 1H],
LOA [auth 14],
LP [auth 1H],
LPA [auth 14],
LQ [auth 1H],
LQA [auth 14],
LR [auth 1H],
LRA [auth 14],
LS [auth 1H],
LSA [auth 14],
LT [auth 1H],
LTA [auth 14],
LU [auth 1H],
LUA [auth 14],
LV [auth 1H],
LVA [auth 14],
LW [auth 1H],
LWA [auth 14],
LX [auth 1H],
LXA [auth 14],
LY [auth 1H],
LYA [auth 14],
LZ [auth 1H],
LZA [auth 1J],
MAA [auth 1H],
MBA [auth 1H],
MCA [auth 1H],
MD [auth 13],
MDA [auth 16],
ME [auth 13],
MEA [auth 1G],
MF [auth 13],
MFA [auth 1G],
MG [auth 13],
MGA [auth 1G],
MH [auth 13],
MHA [auth 1G],
MI [auth 13],
MIA [auth 14],
MJ [auth 1H],
MJA [auth 14],
MK [auth 1H],
MKA [auth 14],
ML [auth 1H],
MLA [auth 14],
MM [auth 1H],
MMA [auth 14],
MN [auth 1H],
MNA [auth 14],
MO [auth 1H],
MOA [auth 14],
MP [auth 1H],
MPA [auth 14],
MQ [auth 1H],
MQA [auth 14],
MR [auth 1H],
MRA [auth 14],
MS [auth 1H],
MSA [auth 14],
MT [auth 1H],
MTA [auth 14],
MU [auth 1H],
MUA [auth 14],
MV [auth 1H],
MVA [auth 14],
MW [auth 1H],
MWA [auth 14],
MX [auth 1H],
MXA [auth 14],
MY [auth 1H],
MYA [auth 14],
MZ [auth 1H],
MZA [auth 1J],
NAA [auth 1H],
NBA [auth 1H],
NCA [auth 1H],
ND [auth 13],
NDA [auth 21],
NE [auth 13],
NEA [auth 1G],
NF [auth 13],
NFA [auth 1G],
NG [auth 13],
NGA [auth 1G],
NH [auth 13],
NHA [auth 1G],
NI [auth 13],
NIA [auth 14],
NJ [auth 1H],
NJA [auth 14],
NK [auth 1H],
NKA [auth 14],
NL [auth 1H],
NLA [auth 14],
NM [auth 1H],
NMA [auth 14],
NN [auth 1H],
NNA [auth 14],
NO [auth 1H],
NOA [auth 14],
NP [auth 1H],
NPA [auth 14],
NQ [auth 1H],
NQA [auth 14],
NR [auth 1H],
NRA [auth 14],
NS [auth 1H],
NSA [auth 14],
NT [auth 1H],
NTA [auth 14],
NU [auth 1H],
NUA [auth 14],
NV [auth 1H],
NVA [auth 14],
NW [auth 1H],
NWA [auth 14],
NX [auth 1H],
NXA [auth 14],
NY [auth 1H],
NYA [auth 14],
NZ [auth 1H],
NZA [auth 1J],
OAA [auth 1H],
OBA [auth 1H],
OCA [auth 1H],
OD [auth 13],
ODA [auth 21],
OE [auth 13],
OEA [auth 1G],
OF [auth 13],
OFA [auth 1G],
OG [auth 13],
OGA [auth 1G],
OH [auth 13],
OHA [auth 1G],
OI [auth 13],
OIA [auth 14],
OJ [auth 1H],
OJA [auth 14],
OK [auth 1H],
OKA [auth 14],
OL [auth 1H],
OLA [auth 14],
OM [auth 1H],
OMA [auth 14],
ON [auth 1H],
ONA [auth 14],
OO [auth 1H],
OOA [auth 14],
OP [auth 1H],
OPA [auth 14],
OQ [auth 1H],
OQA [auth 14],
OR [auth 1H],
ORA [auth 14],
OS [auth 1H],
OSA [auth 14],
OT [auth 1H],
OTA [auth 14],
OU [auth 1H],
OUA [auth 14],
OV [auth 1H],
OVA [auth 14],
OW [auth 1H],
OWA [auth 14],
OX [auth 1H],
OXA [auth 14],
OY [auth 1H],
OYA [auth 14],
OZ [auth 1H],
OZA [auth 19],
PAA [auth 1H],
PBA [auth 1H],
PCA [auth 1H],
PD [auth 13],
PDA [auth 21],
PE [auth 13],
PEA [auth 1G],
PF [auth 13],
PFA [auth 1G],
PG [auth 13],
PGA [auth 1G],
PH [auth 13],
PHA [auth 1G],
PIA [auth 14],
PJ [auth 1H],
PJA [auth 14],
PK [auth 1H],
PKA [auth 14],
PL [auth 1H],
PLA [auth 14],
PM [auth 1H],
PMA [auth 14],
PN [auth 1H],
PNA [auth 14],
PO [auth 1H],
POA [auth 14],
PP [auth 1H],
PPA [auth 14],
PQ [auth 1H],
PQA [auth 14],
PR [auth 1H],
PRA [auth 14],
PS [auth 1H],
PSA [auth 14],
PT [auth 1H],
PTA [auth 14],
PU [auth 1H],
PUA [auth 14],
PV [auth 1H],
PVA [auth 14],
PW [auth 1H],
PWA [auth 14],
PX [auth 1H],
PXA [auth 14],
PY [auth 1H],
PYA [auth 14],
PZ [auth 1H],
PZA [auth 29],
QAA [auth 1H],
QBA [auth 1H],
QCA [auth 1H],
QD [auth 13],
QDA [auth 31],
QE [auth 13],
QEA [auth 1G],
QF [auth 13],
QFA [auth 1G],
QG [auth 13],
QGA [auth 1G],
QH [auth 13],
QHA [auth 1G],
QIA [auth 14],
QJ [auth 1H],
QJA [auth 14],
QK [auth 1H],
QKA [auth 14],
QL [auth 1H],
QLA [auth 14],
QM [auth 1H],
QMA [auth 14],
QN [auth 1H],
QNA [auth 14],
QO [auth 1H],
QOA [auth 14],
QP [auth 1H],
QPA [auth 14],
QQ [auth 1H],
QQA [auth 14],
QR [auth 1H],
QRA [auth 14],
QS [auth 1H],
QSA [auth 14],
QT [auth 1H],
QTA [auth 14],
QU [auth 1H],
QUA [auth 14],
QV [auth 1H],
QVA [auth 14],
QW [auth 1H],
QWA [auth 14],
QX [auth 1H],
QXA [auth 14],
QY [auth 1H],
QYA [auth 14],
QZ [auth 1H],
QZA [auth 39],
RAA [auth 1H],
RBA [auth 1H],
RCA [auth 1H],
RD [auth 13],
RDA [auth 31],
RE [auth 13],
REA [auth 1G],
RF [auth 13],
RFA [auth 1G],
RG [auth 13],
RGA [auth 1G],
RH [auth 13],
RHA [auth 1G],
RI [auth 3I],
RIA [auth 14],
RJ [auth 1H],
RJA [auth 14],
RK [auth 1H],
RKA [auth 14],
RL [auth 1H],
RLA [auth 14],
RM [auth 1H],
RMA [auth 14],
RN [auth 1H],
RNA [auth 14],
RO [auth 1H],
ROA [auth 14],
RP [auth 1H],
RPA [auth 14],
RQ [auth 1H],
RQA [auth 14],
RR [auth 1H],
RRA [auth 14],
RS [auth 1H],
RSA [auth 14],
RT [auth 1H],
RTA [auth 14],
RU [auth 1H],
RUA [auth 14],
RV [auth 1H],
RVA [auth 14],
RW [auth 1H],
RWA [auth 14],
RX [auth 1H],
RXA [auth 14],
RY [auth 1H],
RYA [auth 14],
RZ [auth 1H],
RZA [auth 39],
SAA [auth 1H],
SBA [auth 1H],
SCA [auth 1H],
SD [auth 13],
SDA [auth 41],
SE [auth 13],
SEA [auth 1G],
SF [auth 13],
SFA [auth 1G],
SG [auth 13],
SGA [auth 1G],
SH [auth 13],
SHA [auth 1G],
SI [auth 4I],
SIA [auth 14],
SJ [auth 1H],
SJA [auth 14],
SK [auth 1H],
SKA [auth 14],
SL [auth 1H],
SLA [auth 14],
SM [auth 1H],
SMA [auth 14],
SN [auth 1H],
SNA [auth 14],
SO [auth 1H],
SOA [auth 14],
SP [auth 1H],
SPA [auth 14],
SQ [auth 1H],
SQA [auth 14],
SR [auth 1H],
SRA [auth 14],
SS [auth 1H],
SSA [auth 14],
ST [auth 1H],
STA [auth 14],
SU [auth 1H],
SUA [auth 14],
SV [auth 1H],
SVA [auth 14],
SW [auth 1H],
SWA [auth 14],
SX [auth 1H],
SXA [auth 14],
SY [auth 1H],
SYA [auth 14],
SZ [auth 1H],
SZA [auth 25],
TAA [auth 1H],
TBA [auth 1H],
TCA [auth 1H],
TD [auth 13],
TDA [auth 78],
TE [auth 13],
TEA [auth 1G],
TF [auth 13],
TFA [auth 1G],
TG [auth 13],
TGA [auth 1G],
TH [auth 13],
THA [auth 1G],
TI [auth 5I],
TIA [auth 14],
TJ [auth 1H],
TJA [auth 14],
TK [auth 1H],
TKA [auth 14],
TL [auth 1H],
TLA [auth 14],
TM [auth 1H],
TMA [auth 14],
TN [auth 1H],
TNA [auth 14],
TO [auth 1H],
TOA [auth 14],
TP [auth 1H],
TPA [auth 14],
TQ [auth 1H],
TQA [auth 14],
TR [auth 1H],
TRA [auth 14],
TS [auth 1H],
TSA [auth 14],
TT [auth 1H],
TTA [auth 14],
TU [auth 1H],
TUA [auth 14],
TV [auth 1H],
TVA [auth 14],
TW [auth 1H],
TWA [auth 14],
TX [auth 1H],
TXA [auth 14],
TY [auth 1H],
TYA [auth 14],
TZ [auth 1H],
TZA [auth 35],
UAA [auth 1H],
UBA [auth 1H],
UCA [auth 1H],
UD [auth 13],
UDA [auth 88],
UE [auth 13],
UEA [auth 1G],
UF [auth 13],
UFA [auth 1G],
UG [auth 13],
UGA [auth 1G],
UH [auth 13],
UHA [auth 1G],
UIA [auth 14],
UJ [auth 1H],
UJA [auth 14],
UK [auth 1H],
UKA [auth 14],
UL [auth 1H],
ULA [auth 14],
UM [auth 1H],
UMA [auth 14],
UN [auth 1H],
UNA [auth 14],
UO [auth 1H],
UOA [auth 14],
UP [auth 1H],
UPA [auth 14],
UQ [auth 1H],
UQA [auth 14],
UR [auth 1H],
URA [auth 14],
US [auth 1H],
USA [auth 14],
UT [auth 1H],
UTA [auth 14],
UU [auth 1H],
UUA [auth 14],
UV [auth 1H],
UVA [auth 14],
UW [auth 1H],
UWA [auth 14],
UX [auth 1H],
UXA [auth 14],
UY [auth 1H],
UYA [auth 14],
UZ [auth 1H],
UZA [auth 45],
VAA [auth 1H],
VBA [auth 1H],
VCA [auth 1H],
VD [auth 13],
VDA [auth 88],
VE [auth 13],
VEA [auth 1G],
VF [auth 13],
VFA [auth 1G],
VG [auth 13],
VGA [auth 1G],
VH [auth 13],
VHA [auth 1G],
VI [auth 2K],
VIA [auth 14],
VJ [auth 1H],
VJA [auth 14],
VK [auth 1H],
VKA [auth 14],
VL [auth 1H],
VLA [auth 14],
VM [auth 1H],
VMA [auth 14],
VN [auth 1H],
VNA [auth 14],
VO [auth 1H],
VOA [auth 14],
VP [auth 1H],
VPA [auth 14],
VQ [auth 1H],
VQA [auth 14],
VR [auth 1H],
VRA [auth 14],
VS [auth 1H],
VSA [auth 14],
VT [auth 1H],
VTA [auth 14],
VU [auth 1H],
VUA [auth 14],
VV [auth 1H],
VVA [auth 14],
VW [auth 1H],
VWA [auth 14],
VX [auth 1H],
VXA [auth 14],
VY [auth 1H],
VYA [auth 14],
VZ [auth 1H],
VZA [auth 45],
WAA [auth 1H],
WBA [auth 1H],
WCA [auth 1H],
WD [auth 13],
WDA [auth 88],
WE [auth 13],
WEA [auth 1G],
WF [auth 13],
WFA [auth 1G],
WG [auth 13],
WGA [auth 1G],
WH [auth 13],
WHA [auth 1G],
WI [auth 2K],
WIA [auth 14],
WJ [auth 1H],
WJA [auth 14],
WK [auth 1H],
WKA [auth 14],
WL [auth 1H],
WLA [auth 14],
WM [auth 1H],
WMA [auth 14],
WN [auth 1H],
WNA [auth 14],
WO [auth 1H],
WOA [auth 14],
WP [auth 1H],
WPA [auth 14],
WQ [auth 1H],
WQA [auth 14],
WR [auth 1H],
WRA [auth 14],
WS [auth 1H],
WSA [auth 14],
WT [auth 1H],
WTA [auth 14],
WU [auth 1H],
WUA [auth 14],
WV [auth 1H],
WVA [auth 14],
WW [auth 1H],
WWA [auth 14],
WX [auth 1H],
WXA [auth 14],
WY [auth 1H],
WYA [auth 14],
WZ [auth 1H],
WZA [auth C5],
XAA [auth 1H],
XBA [auth 1H],
XCA [auth 1H],
XD [auth 13],
XE [auth 13],
XEA [auth 1G],
XF [auth 13],
XFA [auth 1G],
XG [auth 13],
XGA [auth 1G],
XH [auth 13],
XHA [auth 1G],
XI [auth 1H],
XIA [auth 14],
XJ [auth 1H],
XJA [auth 14],
XK [auth 1H],
XKA [auth 14],
XL [auth 1H],
XLA [auth 14],
XM [auth 1H],
XMA [auth 14],
XN [auth 1H],
XNA [auth 14],
XO [auth 1H],
XOA [auth 14],
XP [auth 1H],
XPA [auth 14],
XQ [auth 1H],
XQA [auth 14],
XR [auth 1H],
XRA [auth 14],
XS [auth 1H],
XSA [auth 14],
XT [auth 1H],
XTA [auth 14],
XU [auth 1H],
XUA [auth 14],
XV [auth 1H],
XVA [auth 14],
XW [auth 1H],
XWA [auth 14],
XX [auth 1H],
XXA [auth 14],
XY [auth 1H],
XYA [auth 14],
XZ [auth 1H],
YAA [auth 1H],
YBA [auth 1H],
YCA [auth 1H],
YD [auth 13],
YDA [auth I8],
YE [auth 13],
YEA [auth 1G],
YF [auth 13],
YFA [auth 1G],
YG [auth 13],
YGA [auth 1G],
YH [auth 13],
YHA [auth 1G],
YI [auth 1H],
YIA [auth 14],
YJ [auth 1H],
YJA [auth 14],
YK [auth 1H],
YKA [auth 14],
YL [auth 1H],
YLA [auth 14],
YM [auth 1H],
YMA [auth 14],
YN [auth 1H],
YNA [auth 14],
YO [auth 1H],
YOA [auth 14],
YP [auth 1H],
YPA [auth 14],
YQ [auth 1H],
YQA [auth 14],
YR [auth 1H],
YRA [auth 14],
YS [auth 1H],
YSA [auth 14],
YT [auth 1H],
YTA [auth 14],
YU [auth 1H],
YUA [auth 14],
YV [auth 1H],
YVA [auth 14],
YW [auth 1H],
YWA [auth 14],
YX [auth 1H],
YXA [auth 14],
YY [auth 1H],
YYA [auth 14],
YZ [auth 1H],
YZA [auth E5],
ZAA [auth 1H],
ZBA [auth 1H],
ZCA [auth 1H],
ZD [auth 13],
ZDA [auth I8],
ZE [auth 13],
ZEA [auth 1G],
ZF [auth 13],
ZFA [auth 1G],
ZG [auth 13],
ZGA [auth 1G],
ZH [auth 13],
ZI [auth 1H],
ZIA [auth 14],
ZJ [auth 1H],
ZJA [auth 14],
ZK [auth 1H],
ZKA [auth 14],
ZL [auth 1H],
ZLA [auth 14],
ZM [auth 1H],
ZMA [auth 14],
ZN [auth 1H],
ZNA [auth 14],
ZO [auth 1H],
ZOA [auth 14],
ZP [auth 1H],
ZPA [auth 14],
ZQ [auth 1H],
ZQA [auth 14],
ZR [auth 1H],
ZRA [auth 14],
ZS [auth 1H],
ZSA [auth 14],
ZT [auth 1H],
ZTA [auth 14],
ZU [auth 1H],
ZUA [auth 14],
ZV [auth 1H],
ZVA [auth 14],
ZW [auth 1H],
ZWA [auth 14],
ZX [auth 1H],
ZXA [auth 14],
ZY [auth 1H],
ZYA [auth 14],
ZZ [auth 1H],
ZZA [auth M5]
MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.99 Å
  • R-Value Free: 0.241 
  • R-Value Work: 0.202 
  • R-Value Observed: 0.202 
  • Space Group: P 21 21 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 209.3α = 90
b = 448.8β = 90
c = 620.2γ = 90
Software Package:
Software NamePurpose
XSCALEdata scaling
PHASERphasing
PHENIXrefinement
PDB_EXTRACTdata extraction
XDSdata reduction

Structure Validation

View Full Validation Report



Ligand Structure Quality Assessment 


View more in-depth experimental data
Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2016-05-25
    Type: Initial release
  • Version 1.1: 2016-08-10
    Changes: Database references
  • Version 1.2: 2024-01-10
    Changes: Data collection, Database references, Derived calculations, Refinement description, Structure summary