4W2E

Crystal structure of Elongation Factor 4 (EF4/LepA) bound to the Thermus thermophilus 70S ribosome


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.90 Å
  • R-Value Free: 0.304 
  • R-Value Work: 0.238 
  • R-Value Observed: 0.241 

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Literature

Crystal structure of elongation factor 4 bound to a clockwise ratcheted ribosome.

Gagnon, M.G.Lin, J.Bulkley, D.Steitz, T.A.

(2014) Science 345: 684-687

  • DOI: https://doi.org/10.1126/science.1253525
  • Primary Citation of Related Structures:  
    4W2E

  • PubMed Abstract: 

    Elongation factor 4 (EF4/LepA) is a highly conserved guanosine triphosphatase translation factor. It was shown to promote back-translocation of tRNAs on posttranslocational ribosome complexes and to compete with elongation factor G for interaction with pretranslocational ribosomes, inhibiting the elongation phase of protein synthesis. Here, we report a crystal structure of EF4-guanosine diphosphate bound to the Thermus thermophilus ribosome with a P-site tRNA at 2.9 angstroms resolution. The C-terminal domain of EF4 reaches into the peptidyl transferase center and interacts with the acceptor stem of the peptidyl-tRNA in the P site. The ribosome is in an unusual state of ratcheting with the 30S subunit rotated clockwise relative to the 50S subunit, resulting in a remodeled decoding center. The structure is consistent with EF4 functioning either as a back-translocase or a ribosome sequester.


  • Organizational Affiliation

    Department of Molecular Biophysics and Biochemistry, Yale University, New Haven, CT 06520-8114, USA. Howard Hughes Medical Institute, Yale University, New Haven, CT 06520-8114, USA.


Macromolecules

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Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L2C [auth D]276Thermus thermophilus HB8Mutation(s): 0 
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Entity ID: 4
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L3D [auth E]206Thermus thermophilus HB8Mutation(s): 0 
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Entity ID: 5
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L4E [auth F]205Thermus thermophilus HB8Mutation(s): 0 
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Entity ID: 6
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L5F [auth G]182Thermus thermophilus HB8Mutation(s): 0 
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Entity ID: 7
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L6G [auth H]180Thermus thermophilus HB8Mutation(s): 0 
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Entity ID: 8
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L10H [auth J]173Thermus thermophilus HB8Mutation(s): 0 
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Entity ID: 9
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L11I [auth K]147Thermus thermophilus HB8Mutation(s): 0 
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Entity ID: 10
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L13J [auth N]140Thermus thermophilus HB8Mutation(s): 0 
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Entity ID: 11
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L14K [auth O]122Thermus thermophilus HB8Mutation(s): 0 
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Entity ID: 12
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L15L [auth P]150Thermus thermophilus HB8Mutation(s): 0 
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Entity ID: 13
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L16M [auth Q]141Thermus thermophilus HB8Mutation(s): 0 
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Entity ID: 14
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L17N [auth R]118Thermus thermophilus HB8Mutation(s): 0 
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Entity ID: 15
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L18O [auth S]112Thermus thermophilus HB8Mutation(s): 0 
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Entity ID: 16
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L19P [auth T]146Thermus thermophilus HB8Mutation(s): 0 
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Entity ID: 17
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L20Q [auth U]118Thermus thermophilus HB8Mutation(s): 0 
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Entity ID: 18
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L21R [auth V]101Thermus thermophilus HB8Mutation(s): 0 
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Entity ID: 19
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L22S [auth W]113Thermus thermophilus HB8Mutation(s): 0 
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Entity ID: 20
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L23T [auth X]96Thermus thermophilus HB8Mutation(s): 0 
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Entity ID: 21
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L24U [auth Y]110Thermus thermophilus HB8Mutation(s): 0 
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Entity ID: 22
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L25V [auth Z]206Thermus thermophilus HB8Mutation(s): 0 
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Entity ID: 23
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L27W [auth 0]85Thermus thermophilus HB8Mutation(s): 0 
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Entity ID: 24
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L28X [auth 1]98Thermus thermophilus HB8Mutation(s): 0 
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Entity ID: 25
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L29Y [auth 2]72Thermus thermophilus HB8Mutation(s): 0 
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Entity ID: 26
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L30Z [auth 3]60Thermus thermophilus HB8Mutation(s): 0 
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Entity ID: 27
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L31AA [auth 4]71Thermus thermophilus HB8Mutation(s): 0 
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Entity ID: 28
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L32BA [auth 5]60Thermus thermophilus HB8Mutation(s): 0 
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Entity ID: 29
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L33CA [auth 6]54Thermus thermophilus HB8Mutation(s): 0 
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Entity ID: 30
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L34DA [auth 7]49Thermus thermophilus HB8Mutation(s): 0 
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Entity ID: 31
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L35EA [auth 8]65Thermus thermophilus HB8Mutation(s): 0 
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Entity ID: 32
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L36FA [auth 9]37Thermus thermophilus HB8Mutation(s): 0 
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Entity ID: 35
MoleculeChains Sequence LengthOrganismDetailsImage
30S ribosomal protein S2IA [auth b]256Thermus thermophilus HB8Mutation(s): 0 
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Entity ID: 36
MoleculeChains Sequence LengthOrganismDetailsImage
30S ribosomal protein S3JA [auth c]239Thermus thermophilus HB8Mutation(s): 0 
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Entity ID: 37
MoleculeChains Sequence LengthOrganismDetailsImage
30S ribosomal protein S4KA [auth d]209Thermus thermophilus HB8Mutation(s): 0 
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Entity ID: 38
MoleculeChains Sequence LengthOrganismDetailsImage
30S ribosomal protein S5LA [auth e]162Thermus thermophilus HB8Mutation(s): 0 
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Entity ID: 39
MoleculeChains Sequence LengthOrganismDetailsImage
30S ribosomal protein S6MA [auth f]101Thermus thermophilus HB8Mutation(s): 0 
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Entity ID: 40
MoleculeChains Sequence LengthOrganismDetailsImage
30S ribosomal protein S7NA [auth g]156Thermus thermophilus HB8Mutation(s): 0 
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Entity ID: 41
MoleculeChains Sequence LengthOrganismDetailsImage
30S ribosomal protein S8OA [auth h]138Thermus thermophilus HB8Mutation(s): 0 
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Entity ID: 42
MoleculeChains Sequence LengthOrganismDetailsImage
30S ribosomal protein S9PA [auth i]128Thermus thermophilus HB8Mutation(s): 0 
UniProt
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Entity ID: 43
MoleculeChains Sequence LengthOrganismDetailsImage
30S ribosomal protein S10QA [auth j]105Thermus thermophilus HB8Mutation(s): 0 
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Entity ID: 44
MoleculeChains Sequence LengthOrganismDetailsImage
30S ribosomal protein S11RA [auth k]129Thermus thermophilus HB8Mutation(s): 0 
UniProt
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Entity ID: 45
MoleculeChains Sequence LengthOrganismDetailsImage
30S ribosomal protein S12SA [auth l]132Thermus thermophilus HB8Mutation(s): 0 
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Entity ID: 46
MoleculeChains Sequence LengthOrganismDetailsImage
30S ribosomal protein S13TA [auth m]126Thermus thermophilus HB8Mutation(s): 0 
UniProt
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Entity ID: 47
MoleculeChains Sequence LengthOrganismDetailsImage
30S ribosomal protein S14 type ZUA [auth n]61Thermus thermophilus HB8Mutation(s): 0 
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Entity ID: 48
MoleculeChains Sequence LengthOrganismDetailsImage
30S ribosomal protein S15VA [auth o]89Thermus thermophilus HB8Mutation(s): 0 
UniProt
Find proteins for Q5SJ76 (Thermus thermophilus (strain ATCC 27634 / DSM 579 / HB8))
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Entity ID: 49
MoleculeChains Sequence LengthOrganismDetailsImage
30S ribosomal protein S16WA [auth p]88Thermus thermophilus HB8Mutation(s): 0 
UniProt
Find proteins for Q5SJH3 (Thermus thermophilus (strain ATCC 27634 / DSM 579 / HB8))
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UniProt GroupQ5SJH3
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Entity ID: 50
MoleculeChains Sequence LengthOrganismDetailsImage
30S ribosomal protein S17XA [auth q]105Thermus thermophilus HB8Mutation(s): 0 
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Entity ID: 51
MoleculeChains Sequence LengthOrganismDetailsImage
30S ribosomal protein S18YA [auth r]88Thermus thermophilus HB8Mutation(s): 0 
UniProt
Find proteins for Q5SLQ0 (Thermus thermophilus (strain ATCC 27634 / DSM 579 / HB8))
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UniProt GroupQ5SLQ0
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Entity ID: 52
MoleculeChains Sequence LengthOrganismDetailsImage
30S ribosomal protein S19ZA [auth s]93Thermus thermophilus HB8Mutation(s): 0 
UniProt
Find proteins for Q5SHP2 (Thermus thermophilus (strain ATCC 27634 / DSM 579 / HB8))
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Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ5SHP2
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Entity ID: 53
MoleculeChains Sequence LengthOrganismDetailsImage
30S ribosomal protein S20AB [auth t]106Thermus thermophilus HB8Mutation(s): 0 
UniProt
Find proteins for P80380 (Thermus thermophilus (strain ATCC 27634 / DSM 579 / HB8))
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Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP80380
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Entity ID: 54
MoleculeChains Sequence LengthOrganismDetailsImage
30S ribosomal protein ThxBB [auth u]27Thermus thermophilus HB8Mutation(s): 0 
UniProt
Find proteins for Q5SIH3 (Thermus thermophilus (strain ATCC 27634 / DSM 579 / HB8))
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Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ5SIH3
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Entity ID: 56
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L9, Elongation factor 4EB [auth y]679Thermus thermophilus HB8Mutation(s): 0 
Gene Names: rplITTHA0242lepATTHA0741
UniProt
Find proteins for Q5SLQ1 (Thermus thermophilus (strain ATCC 27634 / DSM 579 / HB8))
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Find proteins for Q5SKA7 (Thermus thermophilus (strain ATCC 27634 / DSM 579 / HB8))
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UniProt GroupsQ5SLQ1Q5SKA7
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Entity ID: 1
MoleculeChains LengthOrganismImage
23S Ribosomal RNA2,915Thermus thermophilus
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Entity ID: 2
MoleculeChains LengthOrganismImage
5S Ribosomal RNA122Thermus thermophilus
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Entity ID: 33
MoleculeChains LengthOrganismImage
E-site tRNACB [auth w],
GA [auth x]
76Escherichia coli
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Entity ID: 34
MoleculeChains LengthOrganismImage
16S Ribosomal RNAHA [auth a]1,521Thermus thermophilus
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Entity ID: 55
MoleculeChains LengthOrganismImage
mRNADB [auth v]18synthetic construct
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Small Molecules
Ligands 5 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
GDP
Query on GDP

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JKA [auth y]GUANOSINE-5'-DIPHOSPHATE
C10 H15 N5 O11 P2
QGWNDRXFNXRZMB-UUOKFMHZSA-N
SF4
Query on SF4

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RJA [auth d]IRON/SULFUR CLUSTER
Fe4 S4
LJBDFODJNLIPKO-UHFFFAOYSA-N
PHE
Query on PHE

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FKA [auth w]PHENYLALANINE
C9 H11 N O2
COLNVLDHVKWLRT-QMMMGPOBSA-N
ZN
Query on ZN

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ACA [auth 5]
CCA [auth 6]
ICA [auth 9]
TBA [auth Y]
YBA [auth 4]
ACA [auth 5],
CCA [auth 6],
ICA [auth 9],
TBA [auth Y],
YBA [auth 4],
YJA [auth n]
ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
MG
Query on MG

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AAA [auth B]
ABA [auth O]
AC [auth A]
AD [auth A]
ADA [auth a]
AAA [auth B],
ABA [auth O],
AC [auth A],
AD [auth A],
ADA [auth a],
AE [auth A],
AEA [auth a],
AF [auth A],
AFA [auth a],
AG [auth A],
AGA [auth a],
AH [auth A],
AHA [auth a],
AI [auth A],
AIA [auth a],
AJ [auth A],
AJA [auth a],
AK [auth A],
AKA [auth w],
AL [auth A],
AM [auth A],
AN [auth A],
AO [auth A],
AP [auth A],
AQ [auth A],
AR [auth A],
AS [auth A],
AT [auth A],
AU [auth A],
AV [auth A],
AW [auth A],
AX [auth A],
AY [auth A],
AZ [auth A],
BAA [auth B],
BBA [auth P],
BC [auth A],
BCA [auth 6],
BD [auth A],
BDA [auth a],
BE [auth A],
BEA [auth a],
BF [auth A],
BFA [auth a],
BG [auth A],
BGA [auth a],
BH [auth A],
BHA [auth a],
BI [auth A],
BIA [auth a],
BJ [auth A],
BJA [auth a],
BK [auth A],
BKA [auth w],
BL [auth A],
BM [auth A],
BN [auth A],
BO [auth A],
BP [auth A],
BQ [auth A],
BR [auth A],
BS [auth A],
BT [auth A],
BU [auth A],
BV [auth A],
BW [auth A],
BX [auth A],
BY [auth A],
BZ [auth A],
CAA [auth B],
CBA [auth P],
CC [auth A],
CD [auth A],
CDA [auth a],
CE [auth A],
CEA [auth a],
CF [auth A],
CFA [auth a],
CG [auth A],
CGA [auth a],
CH [auth A],
CHA [auth a],
CI [auth A],
CIA [auth a],
CJ [auth A],
CJA [auth a],
CK [auth A],
CKA [auth w],
CL [auth A],
CM [auth A],
CN [auth A],
CO [auth A],
CP [auth A],
CQ [auth A],
CR [auth A],
CS [auth A],
CT [auth A],
CU [auth A],
CV [auth A],
CW [auth A],
CX [auth A],
CY [auth A],
CZ [auth A],
DAA [auth B],
DBA [auth Q],
DC [auth A],
DCA [auth 7],
DD [auth A],
DDA [auth a],
DE [auth A],
DEA [auth a],
DF [auth A],
DFA [auth a],
DG [auth A],
DGA [auth a],
DH [auth A],
DHA [auth a],
DI [auth A],
DIA [auth a],
DJ [auth A],
DJA [auth a],
DK [auth A],
DKA [auth w],
DL [auth A],
DM [auth A],
DN [auth A],
DO [auth A],
DP [auth A],
DQ [auth A],
DR [auth A],
DS [auth A],
DT [auth A],
DU [auth A],
DV [auth A],
DW [auth A],
DX [auth A],
DY [auth A],
DZ [auth A],
EAA [auth B],
EBA [auth Q],
EC [auth A],
ECA [auth 7],
ED [auth A],
EDA [auth a],
EE [auth A],
EEA [auth a],
EF [auth A],
EFA [auth a],
EG [auth A],
EGA [auth a],
EH [auth A],
EHA [auth a],
EI [auth A],
EIA [auth a],
EJ [auth A],
EJA [auth a],
EK [auth A],
EKA [auth w],
EL [auth A],
EM [auth A],
EN [auth A],
EO [auth A],
EP [auth A],
EQ [auth A],
ER [auth A],
ES [auth A],
ET [auth A],
EU [auth A],
EV [auth A],
EW [auth A],
EX [auth A],
EY [auth A],
EZ [auth A],
FAA [auth B],
FB [auth A],
FBA [auth Q],
FC [auth A],
FCA [auth 7],
FD [auth A],
FDA [auth a],
FE [auth A],
FEA [auth a],
FF [auth A],
FFA [auth a],
FG [auth A],
FGA [auth a],
FH [auth A],
FHA [auth a],
FI [auth A],
FIA [auth a],
FJ [auth A],
FJA [auth a],
FK [auth A],
FL [auth A],
FM [auth A],
FN [auth A],
FO [auth A],
FP [auth A],
FQ [auth A],
FR [auth A],
FS [auth A],
FT [auth A],
FU [auth A],
FV [auth A],
FW [auth A],
FX [auth A],
FY [auth A],
FZ [auth A],
GAA [auth B],
GB [auth A],
GBA [auth Q],
GC [auth A],
GCA [auth 8],
GD [auth A],
GDA [auth a],
GE [auth A],
GEA [auth a],
GF [auth A],
GFA [auth a],
GG [auth A],
GGA [auth a],
GH [auth A],
GHA [auth a],
GI [auth A],
GIA [auth a],
GJ [auth A],
GJA [auth a],
GK [auth A],
GKA [auth v],
GL [auth A],
GM [auth A],
GN [auth A],
GO [auth A],
GP [auth A],
GQ [auth A],
GR [auth A],
GS [auth A],
GT [auth A],
GU [auth A],
GV [auth A],
GW [auth A],
GX [auth A],
GY [auth A],
GZ [auth A],
HAA [auth B],
HB [auth A],
HBA [auth Q],
HC [auth A],
HCA [auth 9],
HD [auth A],
HDA [auth a],
HE [auth A],
HEA [auth a],
HF [auth A],
HFA [auth a],
HG [auth A],
HGA [auth a],
HH [auth A],
HHA [auth a],
HI [auth A],
HIA [auth a],
HJ [auth A],
HJA [auth a],
HK [auth A],
HKA [auth y],
HL [auth A],
HM [auth A],
HN [auth A],
HO [auth A],
HP [auth A],
HQ [auth A],
HR [auth A],
HS [auth A],
HT [auth A],
HU [auth A],
HV [auth A],
HW [auth A],
HX [auth A],
HY [auth A],
HZ [auth A],
IAA [auth D],
IB [auth A],
IBA [auth R],
IC [auth A],
ID [auth A],
IDA [auth a],
IE [auth A],
IEA [auth a],
IF [auth A],
IFA [auth a],
IG [auth A],
IGA [auth a],
IH [auth A],
IHA [auth a],
II [auth A],
IIA [auth a],
IJ [auth A],
IJA [auth a],
IK [auth A],
IKA [auth y],
IL [auth A],
IM [auth A],
IN [auth A],
IO [auth A],
IP [auth A],
IQ [auth A],
IR [auth A],
IS [auth A],
IT [auth A],
IU [auth A],
IV [auth A],
IW [auth A],
IX [auth A],
IY [auth A],
IZ [auth A],
JAA [auth D],
JB [auth A],
JBA [auth R],
JC [auth A],
JCA [auth x],
JD [auth A],
JDA [auth a],
JE [auth A],
JEA [auth a],
JF [auth A],
JFA [auth a],
JG [auth A],
JGA [auth a],
JH [auth A],
JHA [auth a],
JI [auth A],
JIA [auth a],
JJ [auth A],
JJA [auth a],
JK [auth A],
JL [auth A],
JM [auth A],
JN [auth A],
JO [auth A],
JP [auth A],
JQ [auth A],
JR [auth A],
JS [auth A],
JT [auth A],
JU [auth A],
JV [auth A],
JW [auth A],
JX [auth A],
JY [auth A],
JZ [auth A],
KAA [auth D],
KB [auth A],
KBA [auth R],
KC [auth A],
KCA [auth x],
KD [auth A],
KDA [auth a],
KE [auth A],
KEA [auth a],
KF [auth A],
KFA [auth a],
KG [auth A],
KGA [auth a],
KH [auth A],
KHA [auth a],
KI [auth A],
KIA [auth a],
KJ [auth A],
KJA [auth a],
KK [auth A],
KL [auth A],
KM [auth A],
KN [auth A],
KO [auth A],
KP [auth A],
KQ [auth A],
KR [auth A],
KS [auth A],
KT [auth A],
KU [auth A],
KV [auth A],
KW [auth A],
KX [auth A],
KY [auth A],
KZ [auth A],
LAA [auth D],
LB [auth A],
LBA [auth U],
LC [auth A],
LCA [auth x],
LD [auth A],
LDA [auth a],
LE [auth A],
LEA [auth a],
LF [auth A],
LFA [auth a],
LG [auth A],
LGA [auth a],
LH [auth A],
LHA [auth a],
LI [auth A],
LIA [auth a],
LJ [auth A],
LJA [auth a],
LK [auth A],
LL [auth A],
LM [auth A],
LN [auth A],
LO [auth A],
LP [auth A],
LQ [auth A],
LR [auth A],
LS [auth A],
LT [auth A],
LU [auth A],
LV [auth A],
LW [auth A],
LX [auth A],
LY [auth A],
LZ [auth A],
MAA [auth D],
MB [auth A],
MBA [auth U],
MC [auth A],
MCA [auth a],
MD [auth A],
MDA [auth a],
ME [auth A],
MEA [auth a],
MF [auth A],
MFA [auth a],
MG [auth A],
MGA [auth a],
MH [auth A],
MHA [auth a],
MI [auth A],
MIA [auth a],
MJ [auth A],
MJA [auth a],
MK [auth A],
ML [auth A],
MM [auth A],
MN [auth A],
MO [auth A],
MP [auth A],
MQ [auth A],
MR [auth A],
MS [auth A],
MT [auth A],
MU [auth A],
MV [auth A],
MW [auth A],
MX [auth A],
MY [auth A],
MZ [auth A],
NAA [auth E],
NB [auth A],
NBA [auth U],
NC [auth A],
NCA [auth a],
ND [auth A],
NDA [auth a],
NE [auth A],
NEA [auth a],
NF [auth A],
NFA [auth a],
NG [auth A],
NGA [auth a],
NH [auth A],
NHA [auth a],
NI [auth A],
NIA [auth a],
NJ [auth A],
NJA [auth a],
NK [auth A],
NL [auth A],
NM [auth A],
NN [auth A],
NO [auth A],
NP [auth A],
NQ [auth A],
NR [auth A],
NS [auth A],
NT [auth A],
NU [auth A],
NV [auth A],
NW [auth A],
NX [auth A],
NY [auth A],
NZ [auth A],
OAA [auth E],
OB [auth A],
OBA [auth U],
OC [auth A],
OCA [auth a],
OD [auth A],
ODA [auth a],
OE [auth A],
OEA [auth a],
OF [auth A],
OFA [auth a],
OG [auth A],
OGA [auth a],
OH [auth A],
OHA [auth a],
OI [auth A],
OIA [auth a],
OJ [auth A],
OJA [auth a],
OK [auth A],
OL [auth A],
OM [auth A],
ON [auth A],
OO [auth A],
OP [auth A],
OQ [auth A],
OR [auth A],
OS [auth A],
OT [auth A],
OU [auth A],
OV [auth A],
OW [auth A],
OX [auth A],
OY [auth A],
OZ [auth A],
PAA [auth E],
PB [auth A],
PBA [auth V],
PC [auth A],
PCA [auth a],
PD [auth A],
PDA [auth a],
PE [auth A],
PEA [auth a],
PF [auth A],
PFA [auth a],
PG [auth A],
PGA [auth a],
PH [auth A],
PHA [auth a],
PI [auth A],
PIA [auth a],
PJ [auth A],
PJA [auth a],
PK [auth A],
PL [auth A],
PM [auth A],
PN [auth A],
PO [auth A],
PP [auth A],
PQ [auth A],
PR [auth A],
PS [auth A],
PT [auth A],
PU [auth A],
PV [auth A],
PW [auth A],
PX [auth A],
PY [auth A],
PZ [auth A],
QAA [auth E],
QB [auth A],
QBA [auth V],
QC [auth A],
QCA [auth a],
QD [auth A],
QDA [auth a],
QE [auth A],
QEA [auth a],
QF [auth A],
QFA [auth a],
QG [auth A],
QGA [auth a],
QH [auth A],
QHA [auth a],
QI [auth A],
QIA [auth a],
QJ [auth A],
QJA [auth a],
QK [auth A],
QL [auth A],
QM [auth A],
QN [auth A],
QO [auth A],
QP [auth A],
QQ [auth A],
QR [auth A],
QS [auth A],
QT [auth A],
QU [auth A],
QV [auth A],
QW [auth A],
QX [auth A],
QY [auth A],
QZ [auth B],
RAA [auth F],
RB [auth A],
RBA [auth W],
RC [auth A],
RCA [auth a],
RD [auth A],
RDA [auth a],
RE [auth A],
REA [auth a],
RF [auth A],
RFA [auth a],
RG [auth A],
RGA [auth a],
RH [auth A],
RHA [auth a],
RI [auth A],
RIA [auth a],
RJ [auth A],
RK [auth A],
RL [auth A],
RM [auth A],
RN [auth A],
RO [auth A],
RP [auth A],
RQ [auth A],
RR [auth A],
RS [auth A],
RT [auth A],
RU [auth A],
RV [auth A],
RW [auth A],
RX [auth A],
RY [auth A],
RZ [auth B],
SAA [auth F],
SB [auth A],
SBA [auth X],
SC [auth A],
SCA [auth a],
SD [auth A],
SDA [auth a],
SE [auth A],
SEA [auth a],
SF [auth A],
SFA [auth a],
SG [auth A],
SGA [auth a],
SH [auth A],
SHA [auth a],
SI [auth A],
SIA [auth a],
SJ [auth A],
SJA [auth e],
SK [auth A],
SL [auth A],
SM [auth A],
SN [auth A],
SO [auth A],
SP [auth A],
SQ [auth A],
SR [auth A],
SS [auth A],
ST [auth A],
SU [auth A],
SV [auth A],
SW [auth A],
SX [auth A],
SY [auth A],
SZ [auth B],
TAA [auth F],
TB [auth A],
TC [auth A],
TCA [auth a],
TD [auth A],
TDA [auth a],
TE [auth A],
TEA [auth a],
TF [auth A],
TFA [auth a],
TG [auth A],
TGA [auth a],
TH [auth A],
THA [auth a],
TI [auth A],
TIA [auth a],
TJ [auth A],
TJA [auth f],
TK [auth A],
TL [auth A],
TM [auth A],
TN [auth A],
TO [auth A],
TP [auth A],
TQ [auth A],
TR [auth A],
TS [auth A],
TT [auth A],
TU [auth A],
TV [auth A],
TW [auth A],
TX [auth A],
TY [auth A],
TZ [auth B],
UAA [auth F],
UB [auth A],
UBA [auth Z],
UC [auth A],
UCA [auth a],
UD [auth A],
UDA [auth a],
UE [auth A],
UEA [auth a],
UF [auth A],
UFA [auth a],
UG [auth A],
UGA [auth a],
UH [auth A],
UHA [auth a],
UI [auth A],
UIA [auth a],
UJ [auth A],
UJA [auth l],
UK [auth A],
UL [auth A],
UM [auth A],
UN [auth A],
UO [auth A],
UP [auth A],
UQ [auth A],
UR [auth A],
US [auth A],
UT [auth A],
UU [auth A],
UV [auth A],
UW [auth A],
UX [auth A],
UY [auth A],
UZ [auth B],
VAA [auth F],
VB [auth A],
VBA [auth 0],
VC [auth A],
VCA [auth a],
VD [auth A],
VDA [auth a],
VE [auth A],
VEA [auth a],
VF [auth A],
VFA [auth a],
VG [auth A],
VGA [auth a],
VH [auth A],
VHA [auth a],
VI [auth A],
VIA [auth a],
VJ [auth A],
VJA [auth l],
VK [auth A],
VL [auth A],
VM [auth A],
VN [auth A],
VO [auth A],
VP [auth A],
VQ [auth A],
VR [auth A],
VS [auth A],
VT [auth A],
VU [auth A],
VV [auth A],
VW [auth A],
VX [auth A],
VY [auth A],
VZ [auth B],
WAA [auth G],
WB [auth A],
WBA [auth 0],
WC [auth A],
WCA [auth a],
WD [auth A],
WDA [auth a],
WE [auth A],
WEA [auth a],
WF [auth A],
WFA [auth a],
WG [auth A],
WGA [auth a],
WH [auth A],
WHA [auth a],
WI [auth A],
WIA [auth a],
WJ [auth A],
WJA [auth m],
WK [auth A],
WL [auth A],
WM [auth A],
WN [auth A],
WO [auth A],
WP [auth A],
WQ [auth A],
WR [auth A],
WS [auth A],
WT [auth A],
WU [auth A],
WV [auth A],
WW [auth A],
WX [auth A],
WY [auth A],
WZ [auth B],
XAA [auth G],
XB [auth A],
XBA [auth 0],
XC [auth A],
XCA [auth a],
XD [auth A],
XDA [auth a],
XE [auth A],
XEA [auth a],
XF [auth A],
XFA [auth a],
XG [auth A],
XGA [auth a],
XH [auth A],
XHA [auth a],
XI [auth A],
XIA [auth a],
XJ [auth A],
XJA [auth n],
XK [auth A],
XL [auth A],
XM [auth A],
XN [auth A],
XO [auth A],
XP [auth A],
XQ [auth A],
XR [auth A],
XS [auth A],
XT [auth A],
XU [auth A],
XV [auth A],
XW [auth A],
XX [auth A],
XY [auth A],
XZ [auth B],
YAA [auth G],
YB [auth A],
YC [auth A],
YCA [auth a],
YD [auth A],
YDA [auth a],
YE [auth A],
YEA [auth a],
YF [auth A],
YFA [auth a],
YG [auth A],
YGA [auth a],
YH [auth A],
YHA [auth a],
YI [auth A],
YIA [auth a],
YJ [auth A],
YK [auth A],
YL [auth A],
YM [auth A],
YN [auth A],
YO [auth A],
YP [auth A],
YQ [auth A],
YR [auth A],
YS [auth A],
YT [auth A],
YU [auth A],
YV [auth A],
YW [auth A],
YX [auth A],
YY [auth A],
YZ [auth B],
ZAA [auth N],
ZB [auth A],
ZBA [auth 5],
ZC [auth A],
ZCA [auth a],
ZD [auth A],
ZDA [auth a],
ZE [auth A],
ZEA [auth a],
ZF [auth A],
ZFA [auth a],
ZG [auth A],
ZGA [auth a],
ZH [auth A],
ZHA [auth a],
ZI [auth A],
ZIA [auth a],
ZJ [auth A],
ZJA [auth w],
ZK [auth A],
ZL [auth A],
ZM [auth A],
ZN [auth A],
ZO [auth A],
ZP [auth A],
ZQ [auth A],
ZR [auth A],
ZS [auth A],
ZT [auth A],
ZU [auth A],
ZV [auth A],
ZW [auth A],
ZX [auth A],
ZY [auth A],
ZZ [auth B]
MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.90 Å
  • R-Value Free: 0.304 
  • R-Value Work: 0.238 
  • R-Value Observed: 0.241 
  • Space Group: P 21 21 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 239.29α = 90
b = 272.85β = 90
c = 431.88γ = 90
Software Package:
Software NamePurpose
XSCALEdata scaling
PHASERphasing
PHENIXrefinement
PDB_EXTRACTdata extraction
XDSdata reduction

Structure Validation

View Full Validation Report



Ligand Structure Quality Assessment 


Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2014-10-01
    Type: Initial release
  • Version 1.1: 2014-10-15
    Changes: Structure summary
  • Version 1.2: 2014-11-12
    Changes: Database references
  • Version 1.3: 2014-12-10
    Changes: Other
  • Version 1.4: 2014-12-17
    Changes: Other
  • Version 1.5: 2017-08-16
    Changes: Refinement description, Source and taxonomy
  • Version 2.0: 2019-07-03
    Changes: Data collection, Derived calculations, Non-polymer description, Structure summary
  • Version 3.0: 2023-07-26
    Changes: Advisory, Atomic model, Data collection, Database references, Derived calculations, Non-polymer description, Other, Polymer sequence, Source and taxonomy, Structure summary