4WCE

The crystal structure of the large ribosomal subunit of Staphylococcus aureus


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.53 Å
  • R-Value Free: 0.246 
  • R-Value Work: 0.202 
  • R-Value Observed: 0.204 

wwPDB Validation   3D Report Full Report


This is version 1.3 of the entry. See complete history


Literature

Structural insights into species-specific features of the ribosome from the pathogen Staphylococcus aureus.

Eyal, Z.Matzov, D.Krupkin, M.Wekselman, I.Paukner, S.Zimmerman, E.Rozenberg, H.Bashan, A.Yonath, A.

(2015) Proc Natl Acad Sci U S A 112: E5805-E5814

  • DOI: https://doi.org/10.1073/pnas.1517952112
  • Primary Citation of Related Structures:  
    4WCE, 4WF9, 4WFA, 4WFB

  • PubMed Abstract: 
  • The emergence of bacterial multidrug resistance to antibiotics threatens to cause regression to the preantibiotic era. Here we present the crystal structure of the large ribosomal subunit from Staphylococcus aureus, a versatile Gram-positive aggressive pathogen, and its complexes with the known antibiotics linezolid and telithromycin, as well as with a new, highly potent pleuromutilin derivative, BC-3205 ...

    The emergence of bacterial multidrug resistance to antibiotics threatens to cause regression to the preantibiotic era. Here we present the crystal structure of the large ribosomal subunit from Staphylococcus aureus, a versatile Gram-positive aggressive pathogen, and its complexes with the known antibiotics linezolid and telithromycin, as well as with a new, highly potent pleuromutilin derivative, BC-3205. These crystal structures shed light on specific structural motifs of the S. aureus ribosome and the binding modes of the aforementioned antibiotics. Moreover, by analyzing the ribosome structure and comparing it with those of nonpathogenic bacterial models, we identified some unique internal and peripheral structural motifs that may be potential candidates for improving known antibiotics and for use in the design of selective antibiotic drugs against S. aureus.


    Organizational Affiliation

    Department of Structural Biology, Weizmann Institute of Science, Rehovot 7610001, Israel ada.yonath@weizmann.ac.il.



Macromolecules

Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 3
MoleculeChainsSequence LengthOrganismDetailsImage
50S ribosomal protein L2C [auth A]277Staphylococcus aureus subsp. aureus NCTC 8325Mutation(s): 0 
Gene Names: rplBSAOUHSC_02509
UniProt
Find proteins for P60430 (Staphylococcus aureus (strain NCTC 8325 / PS 47))
Explore P60430 
Go to UniProtKB:  P60430
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP60430
Protein Feature View
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 4
MoleculeChainsSequence LengthOrganismDetailsImage
50S ribosomal protein L3D [auth B]220Staphylococcus aureus subsp. aureus NCTC 8325Mutation(s): 0 
Gene Names: rplCSAOUHSC_02512
UniProt
Find proteins for Q2FW06 (Staphylococcus aureus (strain NCTC 8325 / PS 47))
Explore Q2FW06 
Go to UniProtKB:  Q2FW06
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ2FW06
Protein Feature View
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 5
MoleculeChainsSequence LengthOrganismDetailsImage
50S ribosomal protein L4E [auth C]207Staphylococcus aureus subsp. aureus NCTC 8325Mutation(s): 0 
Gene Names: rplDSAOUHSC_02511
UniProt
Find proteins for Q2FW07 (Staphylococcus aureus (strain NCTC 8325 / PS 47))
Explore Q2FW07 
Go to UniProtKB:  Q2FW07
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ2FW07
Protein Feature View
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 6
MoleculeChainsSequence LengthOrganismDetailsImage
50S ribosomal protein L5F [auth D]179Staphylococcus aureus subsp. aureus NCTC 8325Mutation(s): 0 
Gene Names: rplESAOUHSC_02500
UniProt
Find proteins for Q2FW18 (Staphylococcus aureus (strain NCTC 8325 / PS 47))
Explore Q2FW18 
Go to UniProtKB:  Q2FW18
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ2FW18
Protein Feature View
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 7
MoleculeChainsSequence LengthOrganismDetailsImage
50S ribosomal protein L6G [auth E]178Staphylococcus aureus subsp. aureus NCTC 8325Mutation(s): 0 
Gene Names: rplFSAOUHSC_02496
UniProt
Find proteins for Q2FW21 (Staphylococcus aureus (strain NCTC 8325 / PS 47))
Explore Q2FW21 
Go to UniProtKB:  Q2FW21
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ2FW21
Protein Feature View
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 8
MoleculeChainsSequence LengthOrganismDetailsImage
50S ribosomal protein L13H [auth G]145Staphylococcus aureus subsp. aureus NCTC 8325Mutation(s): 0 
Gene Names: rplMSAOUHSC_02478
UniProt
Find proteins for Q2FW38 (Staphylococcus aureus (strain NCTC 8325 / PS 47))
Explore Q2FW38 
Go to UniProtKB:  Q2FW38
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ2FW38
Protein Feature View
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 9
MoleculeChainsSequence LengthOrganismDetailsImage
50S ribosomal protein L14I [auth H]122Staphylococcus aureus subsp. aureus NCTC 8325Mutation(s): 0 
Gene Names: rplNSAOUHSC_02502
UniProt
Find proteins for Q2FW16 (Staphylococcus aureus (strain NCTC 8325 / PS 47))
Explore Q2FW16 
Go to UniProtKB:  Q2FW16
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ2FW16
Protein Feature View
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 10
MoleculeChainsSequence LengthOrganismDetailsImage
50S ribosomal protein L15J [auth I]146Staphylococcus aureus subsp. aureus NCTC 8325Mutation(s): 0 
Gene Names: rplOSAOUHSC_02492
UniProt
Find proteins for P0A0F8 (Staphylococcus aureus (strain NCTC 8325 / PS 47))
Explore P0A0F8 
Go to UniProtKB:  P0A0F8
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP0A0F8
Protein Feature View
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 11
MoleculeChainsSequence LengthOrganismDetailsImage
50S ribosomal protein L16K [auth J]144Staphylococcus aureus subsp. aureus NCTC 8325Mutation(s): 0 
Gene Names: rplPSAOUHSC_02505
UniProt
Find proteins for Q2FW13 (Staphylococcus aureus (strain NCTC 8325 / PS 47))
Explore Q2FW13 
Go to UniProtKB:  Q2FW13
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ2FW13
Protein Feature View
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 12
MoleculeChainsSequence LengthOrganismDetailsImage
50S ribosomal protein L17L [auth K]122Staphylococcus aureus subsp. aureus NCTC 8325Mutation(s): 0 
Gene Names: rplQSAOUHSC_02484
UniProt
Find proteins for Q2FW33 (Staphylococcus aureus (strain NCTC 8325 / PS 47))
Explore Q2FW33 
Go to UniProtKB:  Q2FW33
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ2FW33
Protein Feature View
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 13
MoleculeChainsSequence LengthOrganismDetailsImage
50S ribosomal protein L18M [auth L]119Staphylococcus aureus subsp. aureus NCTC 8325Mutation(s): 0 
Gene Names: rplRSAOUHSC_02495
UniProt
Find proteins for Q2FW22 (Staphylococcus aureus (strain NCTC 8325 / PS 47))
Explore Q2FW22 
Go to UniProtKB:  Q2FW22
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ2FW22
Protein Feature View
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 14
MoleculeChainsSequence LengthOrganismDetailsImage
50S ribosomal protein L19N [auth M]116Staphylococcus aureus subsp. aureus NCTC 8325Mutation(s): 0 
Gene Names: rplSSAOUHSC_01211
UniProt
Find proteins for Q2FZ42 (Staphylococcus aureus (strain NCTC 8325 / PS 47))
Explore Q2FZ42 
Go to UniProtKB:  Q2FZ42
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ2FZ42
Protein Feature View
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 15
MoleculeChainsSequence LengthOrganismDetailsImage
50S ribosomal protein L20O [auth N]118Staphylococcus aureus subsp. aureus NCTC 8325Mutation(s): 0 
Gene Names: rplTSAOUHSC_01784
UniProt
Find proteins for Q2FXQ1 (Staphylococcus aureus (strain NCTC 8325 / PS 47))
Explore Q2FXQ1 
Go to UniProtKB:  Q2FXQ1
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ2FXQ1
Protein Feature View
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 16
MoleculeChainsSequence LengthOrganismDetailsImage
50S ribosomal protein L21P [auth O]102Staphylococcus aureus subsp. aureus NCTC 8325Mutation(s): 0 
Gene Names: rplUSAOUHSC_01757
UniProt
Find proteins for Q2FXS8 (Staphylococcus aureus (strain NCTC 8325 / PS 47))
Explore Q2FXS8 
Go to UniProtKB:  Q2FXS8
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ2FXS8
Protein Feature View
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 17
MoleculeChainsSequence LengthOrganismDetailsImage
50S ribosomal protein L22Q [auth P]117Staphylococcus aureus subsp. aureus NCTC 8325Mutation(s): 0 
Gene Names: rplVSAOUHSC_02507
UniProt
Find proteins for Q2FW11 (Staphylococcus aureus (strain NCTC 8325 / PS 47))
Explore Q2FW11 
Go to UniProtKB:  Q2FW11
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ2FW11
Protein Feature View
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 18
MoleculeChainsSequence LengthOrganismDetailsImage
50S ribosomal protein L23R [auth Q]91Staphylococcus aureus subsp. aureus NCTC 8325Mutation(s): 0 
Gene Names: rplWSAOUHSC_02510
UniProt
Find proteins for Q2FW08 (Staphylococcus aureus (strain NCTC 8325 / PS 47))
Explore Q2FW08 
Go to UniProtKB:  Q2FW08
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ2FW08
Protein Feature View
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 19
MoleculeChainsSequence LengthOrganismDetailsImage
50S ribosomal protein L24S [auth R]105Staphylococcus aureus subsp. aureus NCTC 8325Mutation(s): 0 
Gene Names: rplXSAOUHSC_02501
UniProt
Find proteins for Q2FW17 (Staphylococcus aureus (strain NCTC 8325 / PS 47))
Explore Q2FW17 
Go to UniProtKB:  Q2FW17
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ2FW17
Protein Feature View
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 20
MoleculeChainsSequence LengthOrganismDetailsImage
50S ribosomal protein L25T [auth S]217Staphylococcus aureus subsp. aureus NCTC 8325Mutation(s): 0 
Gene Names: rplYctcSAOUHSC_00474
UniProt
Find proteins for Q2G0S0 (Staphylococcus aureus (strain NCTC 8325 / PS 47))
Explore Q2G0S0 
Go to UniProtKB:  Q2G0S0
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ2G0S0
Protein Feature View
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 21
MoleculeChainsSequence LengthOrganismDetailsImage
50S ribosomal protein L27U [auth T]94Staphylococcus aureus subsp. aureus NCTC 8325Mutation(s): 0 
Gene Names: rpmASAOUHSC_01755
UniProt
Find proteins for Q2FXT0 (Staphylococcus aureus (strain NCTC 8325 / PS 47))
Explore Q2FXT0 
Go to UniProtKB:  Q2FXT0
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ2FXT0
Protein Feature View
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 22
MoleculeChainsSequence LengthOrganismDetailsImage
50S ribosomal protein L28V [auth U]62Staphylococcus aureus subsp. aureus NCTC 8325Mutation(s): 0 
Gene Names: rpmBSAOUHSC_01191
UniProt
Find proteins for Q2FZ60 (Staphylococcus aureus (strain NCTC 8325 / PS 47))
Explore Q2FZ60 
Go to UniProtKB:  Q2FZ60
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ2FZ60
Protein Feature View
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 23
MoleculeChainsSequence LengthOrganismDetailsImage
50S ribosomal protein L29W [auth V]69Staphylococcus aureus subsp. aureus NCTC 8325Mutation(s): 0 
Gene Names: rpmCSAOUHSC_02504
UniProt
Find proteins for Q2FW14 (Staphylococcus aureus (strain NCTC 8325 / PS 47))
Explore Q2FW14 
Go to UniProtKB:  Q2FW14
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ2FW14
Protein Feature View
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 24
MoleculeChainsSequence LengthOrganismDetailsImage
50S ribosomal protein L30X [auth W]59Staphylococcus aureus subsp. aureus NCTC 8325Mutation(s): 0 
Gene Names: rpmDSAOUHSC_02493
UniProt
Find proteins for P0A0G2 (Staphylococcus aureus (strain NCTC 8325 / PS 47))
Explore P0A0G2 
Go to UniProtKB:  P0A0G2
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP0A0G2
Protein Feature View
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 25
MoleculeChainsSequence LengthOrganismDetailsImage
50S ribosomal protein L32Y [auth Z]58Staphylococcus aureus subsp. aureus NCTC 8325Mutation(s): 0 
Gene Names: rpmFSAOUHSC_01078
UniProt
Find proteins for Q2FZF1 (Staphylococcus aureus (strain NCTC 8325 / PS 47))
Explore Q2FZF1 
Go to UniProtKB:  Q2FZF1
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ2FZF1
Protein Feature View
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 26
MoleculeChainsSequence LengthOrganismDetailsImage
50S ribosomal protein L34Z [auth 2]45Staphylococcus aureus subsp. aureus NCTC 8325Mutation(s): 0 
Gene Names: rpmHSAOUHSC_03055
UniProt
Find proteins for Q2FUQ0 (Staphylococcus aureus (strain NCTC 8325 / PS 47))
Explore Q2FUQ0 
Go to UniProtKB:  Q2FUQ0
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ2FUQ0
Protein Feature View
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 27
MoleculeChainsSequence LengthOrganismDetailsImage
50S ribosomal protein L35AA [auth 3]66Staphylococcus aureus subsp. aureus NCTC 8325Mutation(s): 0 
Gene Names: rpmISAOUHSC_01785
UniProt
Find proteins for Q2FXQ0 (Staphylococcus aureus (strain NCTC 8325 / PS 47))
Explore Q2FXQ0 
Go to UniProtKB:  Q2FXQ0
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ2FXQ0
Protein Feature View
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 28
MoleculeChainsSequence LengthOrganismDetailsImage
50S ribosomal protein L36BA [auth 4]37Staphylococcus aureus subsp. aureus NCTC 8325Mutation(s): 0 
Gene Names: rpmJSAOUHSC_02488
UniProt
Find proteins for Q2FW29 (Staphylococcus aureus (strain NCTC 8325 / PS 47))
Explore Q2FW29 
Go to UniProtKB:  Q2FW29
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ2FW29
Protein Feature View
Expand
  • Reference Sequence
Find similar nucleic acids by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChainsLengthOrganismImage
23S rRNAA [auth X]2,923Staphylococcus aureus subsp. aureus NCTC 8325
Protein Feature View
Expand
  • Reference Sequence
Find similar nucleic acids by:  (by identity cutoff)  |  3D Structure
Entity ID: 2
MoleculeChainsLengthOrganismImage
5S rRNAB [auth Y]114Staphylococcus aureus subsp. aureus NCTC 8325
Protein Feature View
Expand
  • Reference Sequence
Small Molecules
Ligands 6 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
EPE
Query on EPE

Download Ideal Coordinates CCD File 
AM [auth X]4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID
C8 H18 N2 O4 S
JKMHFZQWWAIEOD-UHFFFAOYSA-N
 Ligand Interaction
SPD
Query on SPD

Download Ideal Coordinates CCD File 
BM [auth X],
CM [auth X],
DM [auth X],
EM [auth X]
SPERMIDINE
C7 H19 N3
ATHGHQPFGPMSJY-UHFFFAOYSA-N
 Ligand Interaction
MPD
Query on MPD

Download Ideal Coordinates CCD File 
CA [auth X],
DA [auth X],
EA [auth X],
FA [auth X],
GA [auth X],
CA [auth X],
DA [auth X],
EA [auth X],
FA [auth X],
GA [auth X],
HA [auth X],
IA [auth X],
JA [auth X],
JN [auth Z],
KA [auth X],
LA [auth X],
MA [auth X]
(4S)-2-METHYL-2,4-PENTANEDIOL
C6 H14 O2
SVTBMSDMJJWYQN-YFKPBYRVSA-N
 Ligand Interaction
MN
Query on MN

Download Ideal Coordinates CCD File 
AB [auth X],
AC [auth X],
AD [auth X],
AF [auth X],
AG [auth X],
AB [auth X],
AC [auth X],
AD [auth X],
AF [auth X],
AG [auth X],
AH [auth X],
AI [auth X],
AJ [auth X],
AK [auth X],
AL [auth X],
BC [auth X],
BD [auth X],
BF [auth X],
BG [auth X],
BH [auth X],
BI [auth X],
BJ [auth X],
BK [auth X],
BL [auth X],
CC [auth X],
CF [auth X],
CG [auth X],
CH [auth X],
CI [auth X],
CJ [auth X],
CK [auth X],
CL [auth X],
DC [auth X],
DF [auth X],
DG [auth X],
DH [auth X],
DI [auth X],
DJ [auth X],
DK [auth X],
DL [auth X],
DN [auth I],
EC [auth X],
EF [auth X],
EG [auth X],
EH [auth X],
EI [auth X],
EJ [auth X],
EK [auth X],
EL [auth X],
EN [auth I],
FC [auth X],
FF [auth X],
FG [auth X],
FH [auth X],
FI [auth X],
FJ [auth X],
FK [auth X],
FL [auth X],
FN [auth J],
GC [auth X],
GF [auth X],
GG [auth X],
GH [auth X],
GI [auth X],
GJ [auth X],
GK [auth X],
GL [auth X],
HC [auth X],
HE [auth X],
HG [auth X],
HH [auth X],
HI [auth X],
HJ [auth X],
HK [auth X],
HL [auth X],
HN [auth R],
IC [auth X],
IE [auth X],
IG [auth X],
IH [auth X],
II [auth X],
IJ [auth X],
IK [auth X],
IL [auth X],
IN [auth R],
JC [auth X],
JE [auth X],
JF [auth X],
JG [auth X],
JH [auth X],
JI [auth X],
JJ [auth X],
JK [auth X],
KC [auth X],
KF [auth X],
KG [auth X],
KH [auth X],
KI [auth X],
KJ [auth X],
KK [auth X],
LC [auth X],
LF [auth X],
LG [auth X],
LH [auth X],
LI [auth X],
LJ [auth X],
LK [auth X],
MC [auth X],
MF [auth X],
MG [auth X],
MH [auth X],
MI [auth X],
MJ [auth X],
MK [auth X],
MM [auth X],
NA [auth X],
NC [auth X],
ND [auth X],
NF [auth X],
NG [auth X],
NH [auth X],
NI [auth X],
NJ [auth X],
NK [auth X],
NM [auth X],
OC [auth X],
OE [auth X],
OF [auth X],
OG [auth X],
OH [auth X],
OI [auth X],
OJ [auth X],
OK [auth X],
OM [auth X],
PA [auth X],
PB [auth X],
PC [auth X],
PE [auth X],
PG [auth X],
PH [auth X],
PI [auth X],
PJ [auth X],
PK [auth X],
PM [auth X],
QA [auth X],
QB [auth X],
QC [auth X],
QE [auth X],
QF [auth X],
QG [auth X],
QH [auth X],
QI [auth X],
QJ [auth X],
QK [auth X],
RB [auth X],
RC [auth X],
RE [auth X],
RF [auth X],
RH [auth X],
RI [auth X],
RJ [auth X],
RK [auth X],
RM [auth Y],
SA [auth X],
SB [auth X],
SC [auth X],
SE [auth X],
SF [auth X],
SH [auth X],
SI [auth X],
SJ [auth X],
SK [auth X],
TB [auth X],
TC [auth X],
TE [auth X],
TF [auth X],
TH [auth X],
TI [auth X],
TJ [auth X],
TK [auth X],
TM [auth Y],
UB [auth X],
UC [auth X],
UE [auth X],
UF [auth X],
UH [auth X],
UI [auth X],
UJ [auth X],
UK [auth X],
VB [auth X],
VC [auth X],
VE [auth X],
VF [auth X],
VH [auth X],
VI [auth X],
VJ [auth X],
VK [auth X],
WB [auth X],
WC [auth X],
WE [auth X],
WF [auth X],
WG [auth X],
WH [auth X],
WI [auth X],
WJ [auth X],
WK [auth X],
XB [auth X],
XC [auth X],
XE [auth X],
XF [auth X],
XG [auth X],
XH [auth X],
XI [auth X],
XJ [auth X],
XK [auth X],
XL [auth X],
XM [auth B],
YB [auth X],
YC [auth X],
YE [auth X],
YF [auth X],
YG [auth X],
YH [auth X],
YI [auth X],
YJ [auth X],
YK [auth X],
ZA [auth X],
ZB [auth X],
ZC [auth X],
ZE [auth X],
ZF [auth X],
ZG [auth X],
ZH [auth X],
ZI [auth X],
ZJ [auth X],
ZK [auth X]
MANGANESE (II) ION
Mn
WAEMQWOKJMHJLA-UHFFFAOYSA-N
 Ligand Interaction
EOH
Query on EOH

Download Ideal Coordinates CCD File 
FM [auth X],
GM [auth X],
HM [auth X],
IM [auth X],
JM [auth X],
FM [auth X],
GM [auth X],
HM [auth X],
IM [auth X],
JM [auth X],
KM [auth X],
LM [auth X]
ETHANOL
C2 H6 O
LFQSCWFLJHTTHZ-UHFFFAOYSA-N
 Ligand Interaction
MG
Query on MG

Download Ideal Coordinates CCD File 
AE [auth X],
AN [auth G],
BB [auth X],
BE [auth X],
BN [auth G],
AE [auth X],
AN [auth G],
BB [auth X],
BE [auth X],
BN [auth G],
CB [auth X],
CD [auth X],
CE [auth X],
CN [auth I],
DB [auth X],
DD [auth X],
DE [auth X],
EB [auth X],
ED [auth X],
EE [auth X],
FB [auth X],
FD [auth X],
FE [auth X],
GB [auth X],
GD [auth X],
GE [auth X],
GN [auth O],
HB [auth X],
HD [auth X],
HF [auth X],
IB [auth X],
ID [auth X],
IF [auth X],
JB [auth X],
JD [auth X],
JL [auth X],
KB [auth X],
KD [auth X],
KE [auth X],
KL [auth X],
LB [auth X],
LD [auth X],
LE [auth X],
LL [auth X],
MB [auth X],
MD [auth X],
ME [auth X],
ML [auth X],
NB [auth X],
NE [auth X],
NL [auth X],
OA [auth X],
OB [auth X],
OD [auth X],
OL [auth X],
PD [auth X],
PF [auth X],
PL [auth X],
QD [auth X],
QL [auth X],
QM [auth Y],
RA [auth X],
RD [auth X],
RG [auth X],
RL [auth X],
SD [auth X],
SG [auth X],
SL [auth X],
SM [auth Y],
TA [auth X],
TD [auth X],
TG [auth X],
TL [auth X],
UA [auth X],
UD [auth X],
UG [auth X],
UL [auth X],
UM [auth Y],
VA [auth X],
VD [auth X],
VG [auth X],
VL [auth X],
VM [auth B],
WA [auth X],
WD [auth X],
WL [auth X],
WM [auth B],
XA [auth X],
XD [auth X],
YA [auth X],
YD [auth X],
YL [auth X],
YM [auth C],
ZD [auth X],
ZL [auth X],
ZM [auth G]
MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.53 Å
  • R-Value Free: 0.246 
  • R-Value Work: 0.202 
  • R-Value Observed: 0.204 
  • Space Group: P 65 2 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 279.756α = 90
b = 279.756β = 90
c = 872.725γ = 120
Software Package:
Software NamePurpose
PHENIXrefinement
DENZOdata reduction
PDB_EXTRACTdata extraction
SCALEPACKdata scaling
PHASERphasing

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2015-10-21
    Type: Initial release
  • Version 1.1: 2015-10-28
    Changes: Structure summary
  • Version 1.2: 2015-11-04
    Changes: Database references
  • Version 1.3: 2020-05-27
    Changes: Database references