6QNQ

70S ribosome initiation complex (IC) with experimentally assigned potassium ions

Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.50 Å
  • R-Value Free: 0.251 
  • R-Value Work: 0.187 
  • R-Value Observed: 0.189 

wwPDB Validation   3D Report Full Report


This is version 2.1 of the entry. See complete history. 

Re-refinement Note

This entry reflects an alternative modeling of the original data in: 4v6g


Literature

Importance of potassium ions for ribosome structure and function revealed by long-wavelength X-ray diffraction.

Rozov, A., Khusainov, I., El Omari, K., Duman, R., Mykhaylyk, V., Yusupov, M., Westhof, E., Wagner, A., Yusupova, G.

(2019) Nat Commun 10: 2519-2519

  • DOI: https://doi.org/10.1038/s41467-019-10409-4
  • Primary Citation of Related Structures:  
    6QNQ, 6QNR

  • PubMed Abstract: 

    The ribosome, the largest RNA-containing macromolecular machinery in cells, requires metal ions not only to maintain its three-dimensional fold but also to perform protein synthesis. Despite the vast biochemical data regarding the importance of metal ions for efficient protein synthesis and the increasing number of ribosome structures solved by X-ray crystallography or cryo-electron microscopy, the assignment of metal ions within the ribosome remains elusive due to methodological limitations. Here we present extensive experimental data on the potassium composition and environment in two structures of functional ribosome complexes obtained by measurement of the potassium anomalous signal at the K-edge, derived from long-wavelength X-ray diffraction data. We elucidate the role of potassium ions in protein synthesis at the three-dimensional level, most notably, in the environment of the ribosome functional decoding and peptidyl transferase centers. Our data expand the fundamental knowledge of the mechanism of ribosome function and structural integrity.

    • Organizational Affiliation: 

    Institut de Génétique et de Biologie Moléculaire et Cellulaire, 67404, Illkirch, France. ar@ribostruct.com.


Macromolecules

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Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
30S ribosomal protein S2B [auth 1E],
GB [auth 12]		256Thermus thermophilus HB8Mutation(s): 0 
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Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
30S ribosomal protein S3C [auth 2E],
HB [auth 22]		239Thermus thermophilus HB8Mutation(s): 0 
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Entity ID: 4
MoleculeChains Sequence LengthOrganismDetailsImage
30S ribosomal protein S4D [auth 3E],
IB [auth 32]		209Thermus thermophilus HB8Mutation(s): 0 
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Entity ID: 5
MoleculeChains Sequence LengthOrganismDetailsImage
30S ribosomal protein S5E [auth 4E],
JB [auth 42]		162Thermus thermophilus HB8Mutation(s): 0 
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Entity ID: 6
MoleculeChains Sequence LengthOrganismDetailsImage
30S ribosomal protein S6F [auth 5E],
KB [auth 52]		101Thermus thermophilus HB8Mutation(s): 0 
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Entity ID: 7
MoleculeChains Sequence LengthOrganismDetailsImage
30S ribosomal protein S7G [auth 6E],
LB [auth 62]		156Thermus thermophilus HB8Mutation(s): 0 
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Entity ID: 8
MoleculeChains Sequence LengthOrganismDetailsImage
30S ribosomal protein S8H [auth 7E],
MB [auth 72]		138Thermus thermophilus HB8Mutation(s): 0 
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Entity ID: 9
MoleculeChains Sequence LengthOrganismDetailsImage
30S ribosomal protein S9I [auth 8E],
NB [auth 82]		128Thermus thermophilus HB8Mutation(s): 0 
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Entity ID: 10
MoleculeChains Sequence LengthOrganismDetailsImage
30S ribosomal protein S10J [auth 1I],
OB [auth 1A]		105Thermus thermophilus HB8Mutation(s): 0 
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Entity ID: 11
MoleculeChains Sequence LengthOrganismDetailsImage
30S ribosomal protein S11K [auth 2I],
PB [auth 2A]		129Thermus thermophilus HB8Mutation(s): 0 
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Entity ID: 12
MoleculeChains Sequence LengthOrganismDetailsImage
30S ribosomal protein S12L [auth 3I],
QB [auth 3A]		132Thermus thermophilus HB8Mutation(s): 0 
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Entity ID: 13
MoleculeChains Sequence LengthOrganismDetailsImage
30S ribosomal protein S13M [auth 4I],
RB [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],
SB [auth 5A]		61Thermus thermophilus HB8Mutation(s): 0 
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Entity ID: 15
MoleculeChains Sequence LengthOrganismDetailsImage
30S ribosomal protein S15O [auth 6I],
TB [auth 6A]		89Thermus thermophilus HB8Mutation(s): 0 
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Entity ID: 16
MoleculeChains Sequence LengthOrganismDetailsImage
30S ribosomal protein S16P [auth 7I],
UB [auth 7A]		88Thermus thermophilus HB8Mutation(s): 0 
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Entity ID: 17
MoleculeChains Sequence LengthOrganismDetailsImage
30S ribosomal protein S17Q [auth 8I],
VB [auth 8A]		105Thermus thermophilus HB8Mutation(s): 0 
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Entity ID: 18
MoleculeChains Sequence LengthOrganismDetailsImage
30S ribosomal protein S18R [auth 9I],
WB [auth 9A]		88Thermus thermophilus HB8Mutation(s): 0 
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Entity ID: 19
MoleculeChains Sequence LengthOrganismDetailsImage
30S ribosomal protein S19S [auth AI],
XB [auth AA]		93Thermus thermophilus HB8Mutation(s): 0 
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Entity ID: 20
MoleculeChains Sequence LengthOrganismDetailsImage
30S ribosomal protein S20T [auth BI],
YB [auth BA]		106Thermus thermophilus HB8Mutation(s): 0 
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Entity ID: 21
MoleculeChains Sequence LengthOrganismDetailsImage
30S ribosomal protein ThxU [auth 1F],
ZB [auth 1B]		27Thermus thermophilus HB8Mutation(s): 0 
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Entity ID: 27
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L1BA [auth 71]229Thermus thermophilus HB8Mutation(s): 0 
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Entity ID: 28
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L2CA [auth 11],
FC [auth 19]		276Thermus thermophilus HB8Mutation(s): 0 
UniProt
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Entity ID: 29
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L3DA [auth 21],
GC [auth 29]		206Thermus thermophilus HB8Mutation(s): 0 
UniProt
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Entity ID: 30
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L4EA [auth 31],
HC [auth 39]		210Thermus thermophilus HB8Mutation(s): 0 
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Entity ID: 31
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L5FA [auth 41],
IC [auth 49]		182Thermus thermophilus HB8Mutation(s): 0 
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Entity ID: 32
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L6GA [auth 51],
JC [auth 59]		180Thermus thermophilus HB8Mutation(s): 0 
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Entity ID: 33
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L9HA [auth 61],
KC [auth 69]		148Thermus thermophilus HB8Mutation(s): 0 
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Entity ID: 34
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L10IA [auth 38]173Thermus thermophilus HB8Mutation(s): 0 
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Entity ID: 35
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L13JA [auth 58],
LC [auth 15]		140Thermus thermophilus HB8Mutation(s): 0 
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Entity ID: 36
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L14KA [auth 68],
MC [auth 25]		122Thermus thermophilus HB8Mutation(s): 0 
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Entity ID: 37
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L15LA [auth 78],
NC [auth 35]		150Thermus thermophilus HB8Mutation(s): 0 
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Entity ID: 38
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L16MA [auth 88],
OC [auth 45]		141Thermus thermophilus HB8Mutation(s): 0 
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Entity ID: 39
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L17NA [auth 98],
PC [auth 55]		118Thermus thermophilus HB8Mutation(s): 0 
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Entity ID: 40
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L18OA [auth A8],
QC [auth 65]		112Thermus thermophilus HB8Mutation(s): 0 
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Entity ID: 41
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L19PA [auth B8],
RC [auth 75]		146Thermus thermophilus HB8Mutation(s): 0 
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Entity ID: 42
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L20QA [auth C8],
SC [auth 85]		118Thermus thermophilus HB8Mutation(s): 0 
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Entity ID: 43
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L21RA [auth D8],
TC [auth 95]		101Thermus thermophilus HB8Mutation(s): 0 
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Entity ID: 44
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L22SA [auth E8],
UC [auth A5]		113Thermus thermophilus HB8Mutation(s): 0 
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Entity ID: 45
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L23TA [auth F8],
VC [auth B5]		96Thermus thermophilus HB8Mutation(s): 0 
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Entity ID: 46
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L24UA [auth G8],
WC [auth C5]		110Thermus thermophilus HB8Mutation(s): 0 
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Entity ID: 47
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L25VA [auth H8],
XC [auth D5]		206Thermus thermophilus HB8Mutation(s): 0 
UniProt
Find proteins for Q5SHZ1 (Thermus thermophilus (strain ATCC 27634 / DSM 579 / HB8))
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Entity ID: 48
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L27WA [auth I8],
YC [auth E5]		85Thermus thermophilus HB8Mutation(s): 0 
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Entity ID: 49
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L28XA [auth J8],
ZC [auth F5]		96Thermus thermophilus HB8Mutation(s): 0 
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Entity ID: 50
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L29AD [auth G5],
YA [auth K8]		72Thermus thermophilus HB8Mutation(s): 0 
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Find proteins for Q5SHP6 (Thermus thermophilus (strain ATCC 27634 / DSM 579 / HB8))
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Entity ID: 51
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L30BD [auth H5],
ZA [auth L8]		60Thermus thermophilus HB8Mutation(s): 0 
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Entity ID: 52
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L31AB [auth M8],
CD [auth I5]		71Thermus thermophilus HB8Mutation(s): 0 
UniProt
Find proteins for Q5SJE1 (Thermus thermophilus (strain ATCC 27634 / DSM 579 / HB8))
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Entity ID: 53
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L32BB [auth N8],
DD [auth J5]		60Thermus thermophilus HB8Mutation(s): 0 
UniProt
Find proteins for P80339 (Thermus thermophilus (strain ATCC 27634 / DSM 579 / HB8))
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Entity ID: 54
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L33CB [auth O8],
ED [auth K5]		54Thermus thermophilus HB8Mutation(s): 0 
UniProt
Find proteins for P35871 (Thermus thermophilus (strain ATCC 27634 / DSM 579 / HB8))
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Entity ID: 55
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L34DB [auth P8],
FD [auth L5]		49Thermus thermophilus HB8Mutation(s): 0 
UniProt
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Entity ID: 56
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L35EB [auth Q8],
GD [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],
FB [auth 1G]		1,522Thermus thermophilus HB8
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Entity ID: 22
MoleculeChains LengthOrganismImage
E. coli tRNAfMetBC [auth 3L],
V [auth 1K],
X [auth 3K]		77Escherichia coli K-12
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Entity ID: 23
MoleculeChains LengthOrganismImage
E. coli tRNAfMetW [auth 2K]77Escherichia coli K-12
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Entity ID: 24
MoleculeChains LengthOrganismImage
mRNACC [auth 4L],
Y [auth 4K]		27Escherichia coli K-12
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Entity ID: 25
MoleculeChains LengthOrganismImage
23S ribosomal RNADC [auth 14],
Z [auth 1H]		2,917Thermus thermophilus HB8
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Entity ID: 26
MoleculeChains LengthOrganismImage
5S ribosomal RNAAA [auth 16],
EC [auth 1J]		122Thermus thermophilus HB8
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Entity ID: 57
MoleculeChains LengthOrganismImage
E. coli tRNAfMetAC [auth 2L]77Escherichia coli K-12
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Small Molecules
Ligands 4 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
SF4
Query on SF4
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AJ [auth 3E],
SJA [auth 32]		IRON/SULFUR CLUSTER
Fe4 S4
LJBDFODJNLIPKO-UHFFFAOYSA-N
ZN
Query on ZN
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FJ [auth 5I],
VJA [auth 5A]		ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
K (Subject of Investigation/LOI)
Query on K
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AE [auth 13]
AEA [auth 11]
AFA [auth 1G]
AK [auth 1H]
AKA [auth 14]
AE [auth 13],
AEA [auth 11],
AFA [auth 1G],
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],
BE [auth 13],
BFA [auth 1G],
BJ [auth 5E],
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],
CE [auth 13],
CEA [auth 21],
CFA [auth 1G],
CK [auth 1H],
CKA [auth 14],
CL [auth 1H],
CLA [auth 14],
CM [auth 1H],
CMA [auth 14],
CN [auth 1H],
CNA [auth 14],
DE [auth 13],
DFA [auth 1G],
DK [auth 1H],
DKA [auth 14],
DL [auth 1H],
DLA [auth 14],
DM [auth 1H],
DMA [auth 14],
DN [auth 1H],
DNA [auth 14],
EE [auth 13],
EEA [auth 31],
EFA [auth 1G],
EJ [auth 5I],
EK [auth 1H],
EKA [auth 14],
EL [auth 1H],
ELA [auth 14],
EM [auth 1H],
EMA [auth 14],
EN [auth 1H],
ENA [auth 14],
FE [auth 13],
FEA [auth 31],
FFA [auth 1G],
FK [auth 1H],
FKA [auth 14],
FL [auth 1H],
FLA [auth 14],
FM [auth 1H],
FMA [auth 14],
FN [auth 1H],
FNA [auth 14],
GE [auth 13],
GEA [auth 41],
GFA [auth 1G],
GK [auth 1H],
GKA [auth 14],
GL [auth 1H],
GLA [auth 14],
GM [auth 1H],
GMA [auth 14],
GN [auth 1H],
GNA [auth 14],
HD [auth 13],
HE [auth 13],
HEA [auth 41],
HFA [auth 1G],
HJ [auth 8I],
HK [auth 1H],
HKA [auth 14],
HL [auth 1H],
HLA [auth 14],
HM [auth 1H],
HMA [auth 14],
HN [auth 1H],
HNA [auth 14],
ID [auth 13],
IE [auth 13],
IFA [auth 1G],
IK [auth 1H],
IKA [auth 14],
IL [auth 1H],
ILA [auth 14],
IM [auth 1H],
IMA [auth 14],
IN [auth 1H],
INA [auth 14],
JD [auth 13],
JE [auth 13],
JFA [auth 1G],
JK [auth 1H],
JKA [auth 14],
JL [auth 1H],
JLA [auth 14],
JM [auth 1H],
JMA [auth 14],
JN [auth 1H],
JNA [auth 14],
KD [auth 13],
KE [auth 13],
KFA [auth 1G],
KK [auth 1H],
KKA [auth 14],
KL [auth 1H],
KLA [auth 14],
KM [auth 1H],
KMA [auth 14],
KN [auth 1H],
KNA [auth 14],
LD [auth 13],
LE [auth 13],
LFA [auth 1G],
LJ [auth 1H],
LK [auth 1H],
LKA [auth 14],
LL [auth 1H],
LLA [auth 14],
LM [auth 1H],
LMA [auth 14],
LN [auth 1H],
LNA [auth 14],
MD [auth 13],
ME [auth 13],
MFA [auth 1G],
MJ [auth 1H],
MK [auth 1H],
MKA [auth 14],
ML [auth 1H],
MLA [auth 14],
MM [auth 1H],
MMA [auth 14],
MN [auth 1H],
MNA [auth 14],
ND [auth 13],
NE [auth 13],
NFA [auth 1G],
NJ [auth 1H],
NK [auth 1H],
NKA [auth 14],
NL [auth 1H],
NLA [auth 14],
NM [auth 1H],
NMA [auth 14],
NN [auth 1H],
NNA [auth 14],
OD [auth 13],
OE [auth 13],
OFA [auth 1G],
OJ [auth 1H],
OK [auth 1H],
OKA [auth 14],
OL [auth 1H],
OLA [auth 14],
OM [auth 1H],
OMA [auth 14],
ON [auth 1H],
ONA [auth 14],
PD [auth 13],
PE [auth 13],
PFA [auth 1G],
PJ [auth 1H],
PK [auth 1H],
PKA [auth 14],
PL [auth 1H],
PLA [auth 14],
PM [auth 1H],
PMA [auth 14],
PN [auth 1H],
QD [auth 13],
QDA [auth 16],
QE [auth 13],
QFA [auth 1G],
QJ [auth 1H],
QJA [auth 32],
QK [auth 1H],
QKA [auth 14],
QL [auth 1H],
QLA [auth 14],
QM [auth 1H],
QMA [auth 14],
QN [auth 1H],
RD [auth 13],
RDA [auth 16],
RE [auth 13],
RFA [auth 1G],
RJ [auth 1H],
RK [auth 1H],
RKA [auth 14],
RL [auth 1H],
RLA [auth 14],
RM [auth 1H],
RMA [auth 14],
RN [auth 1H],
SD [auth 13],
SJ [auth 1H],
SK [auth 1H],
SKA [auth 14],
SL [auth 1H],
SLA [auth 14],
SM [auth 1H],
SMA [auth 14],
SN [auth 1H],
TD [auth 13],
TEA [auth 1G],
TJ [auth 1H],
TJA [auth 52],
TK [auth 1H],
TKA [auth 14],
TL [auth 1H],
TLA [auth 14],
TM [auth 1H],
TMA [auth 14],
TN [auth 1H],
UD [auth 13],
UEA [auth 1G],
UJ [auth 1H],
UJA [auth 3A],
UK [auth 1H],
UKA [auth 14],
UL [auth 1H],
ULA [auth 14],
UM [auth 1H],
UMA [auth 14],
UN [auth 1H],
UZA [auth 19],
VD [auth 13],
VEA [auth 1G],
VJ [auth 1H],
VK [auth 1H],
VKA [auth 14],
VL [auth 1H],
VLA [auth 14],
VM [auth 1H],
VMA [auth 14],
VN [auth 1H],
VZA [auth 29],
WD [auth 13],
WEA [auth 1G],
WJ [auth 1H],
WJA [auth BA],
WK [auth 1H],
WKA [auth 14],
WL [auth 1H],
WLA [auth 14],
WM [auth 1H],
WMA [auth 14],
WN [auth 1H],
WZA [auth 29],
XD [auth 13],
XEA [auth 1G],
XJ [auth 1H],
XK [auth 1H],
XKA [auth 14],
XL [auth 1H],
XLA [auth 14],
XM [auth 1H],
XMA [auth 14],
XN [auth 1H],
YD [auth 13],
YEA [auth 1G],
YJ [auth 1H],
YK [auth 1H],
YKA [auth 14],
YL [auth 1H],
YLA [auth 14],
YM [auth 1H],
YMA [auth 14],
YN [auth 1H],
ZD [auth 13],
ZEA [auth 1G],
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],
ZZA [auth 39]
POTASSIUM ION
K
NPYPAHLBTDXSSS-UHFFFAOYSA-N
MG
Query on MG
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AAA [auth 1H]
AAB [auth 55]
ABA [auth 1H]
ACA [auth 1H]
ADA [auth 1H]
AAA [auth 1H],
AAB [auth 55],
ABA [auth 1H],
ACA [auth 1H],
ADA [auth 1H],
AF [auth 13],
AG [auth 13],
AGA [auth 1G],
AH [auth 13],
AHA [auth 1G],
AI [auth 13],
AIA [auth 1G],
AJA [auth 1G],
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],
BAB [auth E5],
BBA [auth 1H],
BCA [auth 1H],
BDA [auth 1H],
BEA [auth 21],
BF [auth 13],
BG [auth 13],
BGA [auth 1G],
BH [auth 13],
BHA [auth 1G],
BI [auth 13],
BIA [auth 1G],
BJA [auth 1G],
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 1H],
CF [auth 13],
CG [auth 13],
CGA [auth 1G],
CH [auth 13],
CHA [auth 1G],
CI [auth 13],
CIA [auth 1G],
CJ [auth 8E],
CJA [auth 1G],
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 1H],
DEA [auth 21],
DF [auth 13],
DG [auth 13],
DGA [auth 1G],
DH [auth 13],
DHA [auth 1G],
DI [auth 13],
DIA [auth 1G],
DJ [auth 4I],
DJA [auth 1G],
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 1H],
EF [auth 13],
EG [auth 13],
EGA [auth 1G],
EH [auth 13],
EHA [auth 1G],
EI [auth 13],
EIA [auth 1G],
EJA [auth 1G],
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],
EZA [auth 14],
FAA [auth 1H],
FBA [auth 1H],
FCA [auth 1H],
FDA [auth 1H],
FF [auth 13],
FG [auth 13],
FGA [auth 1G],
FH [auth 13],
FHA [auth 1G],
FI [auth 13],
FIA [auth 1G],
FJA [auth 1G],
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],
FZA [auth 14],
GAA [auth 1H],
GBA [auth 1H],
GCA [auth 1H],
GDA [auth 1H],
GF [auth 13],
GG [auth 13],
GGA [auth 1G],
GH [auth 13],
GHA [auth 1G],
GI [auth 13],
GIA [auth 1G],
GJ [auth 7I],
GJA [auth 1G],
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 14],
HAA [auth 1H],
HBA [auth 1H],
HCA [auth 1H],
HDA [auth 1H],
HF [auth 13],
HG [auth 13],
HGA [auth 1G],
HH [auth 13],
HHA [auth 1G],
HI [auth 13],
HIA [auth 1G],
HJA [auth 1G],
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 14],
IAA [auth 1H],
IBA [auth 1H],
ICA [auth 1H],
IDA [auth 1H],
IEA [auth 41],
IF [auth 13],
IG [auth 13],
IGA [auth 1G],
IH [auth 13],
IHA [auth 1G],
II [auth 13],
IIA [auth 1G],
IJ [auth BI],
IJA [auth 1G],
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 14],
JAA [auth 1H],
JBA [auth 1H],
JCA [auth 1H],
JDA [auth 1H],
JEA [auth 78],
JF [auth 13],
JG [auth 13],
JGA [auth 1G],
JH [auth 13],
JHA [auth 1G],
JI [auth 13],
JIA [auth 1G],
JJ [auth BI],
JJA [auth 1G],
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 14],
KAA [auth 1H],
KBA [auth 1H],
KCA [auth 1H],
KDA [auth 1H],
KEA [auth D8],
KF [auth 13],
KG [auth 13],
KGA [auth 1G],
KH [auth 13],
KHA [auth 1G],
KI [auth 13],
KIA [auth 1G],
KJ [auth 2K],
KJA [auth 1G],
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 14],
LAA [auth 1H],
LBA [auth 1H],
LCA [auth 1H],
LDA [auth 1H],
LEA [auth D8],
LF [auth 13],
LG [auth 13],
LGA [auth 1G],
LH [auth 13],
LHA [auth 1G],
LI [auth 13],
LIA [auth 1G],
LJA [auth 1G],
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 14],
MAA [auth 1H],
MBA [auth 1H],
MCA [auth 1H],
MDA [auth 1H],
MEA [auth D8],
MF [auth 13],
MG [auth 13],
MGA [auth 1G],
MH [auth 13],
MHA [auth 1G],
MI [auth 13],
MIA [auth 1G],
MJA [auth 1G],
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 14],
NAA [auth 1H],
NBA [auth 1H],
NCA [auth 1H],
NDA [auth 1H],
NEA [auth G8],
NF [auth 13],
NG [auth 13],
NGA [auth 1G],
NH [auth 13],
NHA [auth 1G],
NI [auth 13],
NIA [auth 1G],
NJA [auth 1G],
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 14],
OAA [auth 1H],
OBA [auth 1H],
OCA [auth 1H],
ODA [auth 1H],
OEA [auth I8],
OF [auth 13],
OG [auth 13],
OGA [auth 1G],
OH [auth 13],
OHA [auth 1G],
OI [auth 13],
OIA [auth 1G],
OJA [auth 1G],
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 14],
PAA [auth 1H],
PBA [auth 1H],
PCA [auth 1H],
PDA [auth 1H],
PEA [auth I8],
PF [auth 13],
PG [auth 13],
PGA [auth 1G],
PH [auth 13],
PHA [auth 1G],
PI [auth 13],
PIA [auth 1G],
PJA [auth 1G],
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 1J],
QAA [auth 1H],
QBA [auth 1H],
QCA [auth 1H],
QEA [auth J8],
QF [auth 13],
QG [auth 13],
QGA [auth 1G],
QH [auth 13],
QHA [auth 1G],
QI [auth 13],
QIA [auth 1G],
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 1J],
RAA [auth 1H],
RBA [auth 1H],
RCA [auth 1H],
REA [auth N8],
RF [auth 13],
RG [auth 13],
RGA [auth 1G],
RH [auth 13],
RHA [auth 1G],
RI [auth 13],
RIA [auth 1G],
RJA [auth 32],
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 1J],
SAA [auth 1H],
SBA [auth 1H],
SCA [auth 1H],
SDA [auth 16],
SE [auth 13],
SEA [auth Q8],
SF [auth 13],
SFA [auth 1G],
SG [auth 13],
SGA [auth 1G],
SH [auth 13],
SHA [auth 1G],
SI [auth 13],
SIA [auth 1G],
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 1J],
TAA [auth 1H],
TBA [auth 1H],
TCA [auth 1H],
TDA [auth 16],
TE [auth 13],
TF [auth 13],
TFA [auth 1G],
TG [auth 13],
TGA [auth 1G],
TH [auth 13],
THA [auth 1G],
TI [auth 13],
TIA [auth 1G],
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 1J],
UAA [auth 1H],
UBA [auth 1H],
UCA [auth 1H],
UDA [auth 16],
UE [auth 13],
UF [auth 13],
UFA [auth 1G],
UG [auth 13],
UGA [auth 1G],
UH [auth 13],
UHA [auth 1G],
UI [auth 13],
UIA [auth 1G],
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],
VAA [auth 1H],
VBA [auth 1H],
VCA [auth 1H],
VDA [auth 16],
VE [auth 13],
VF [auth 13],
VFA [auth 1G],
VG [auth 13],
VGA [auth 1G],
VH [auth 13],
VHA [auth 1G],
VI [auth 13],
VIA [auth 1G],
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],
WAA [auth 1H],
WBA [auth 1H],
WCA [auth 1H],
WDA [auth 16],
WE [auth 13],
WF [auth 13],
WFA [auth 1G],
WG [auth 13],
WGA [auth 1G],
WH [auth 13],
WHA [auth 1G],
WI [auth 13],
WIA [auth 1G],
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],
XAA [auth 1H],
XBA [auth 1H],
XCA [auth 1H],
XDA [auth 16],
XE [auth 13],
XF [auth 13],
XFA [auth 1G],
XG [auth 13],
XGA [auth 1G],
XH [auth 13],
XHA [auth 1G],
XI [auth 13],
XIA [auth 1G],
XJA [auth 2L],
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],
XZA [auth 29],
YAA [auth 1H],
YBA [auth 1H],
YCA [auth 1H],
YDA [auth 16],
YE [auth 13],
YF [auth 13],
YFA [auth 1G],
YG [auth 13],
YGA [auth 1G],
YH [auth 13],
YHA [auth 1G],
YI [auth 13],
YIA [auth 1G],
YJA [auth 2L],
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 29],
ZAA [auth 1H],
ZBA [auth 1H],
ZCA [auth 1H],
ZDA [auth 16],
ZE [auth 13],
ZF [auth 13],
ZFA [auth 1G],
ZG [auth 13],
ZGA [auth 1G],
ZH [auth 13],
ZHA [auth 1G],
ZI [auth 3E],
ZIA [auth 1G],
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]
MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
Modified Residues  1 Unique
IDChains TypeFormula2D DiagramParent
0TD
Query on 0TD		L [auth 3I],
QB [auth 3A]		L-PEPTIDE LINKINGC5 H9 N O4 SASP
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.50 Å
  • R-Value Free: 0.251 
  • R-Value Work: 0.187 
  • R-Value Observed: 0.189 
  • Space Group: P 21 21 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 210.46α = 90
b = 452.18β = 90
c = 626.12γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
XDSdata reduction
XSCALEdata scaling
PHASERphasing
PDB_EXTRACTdata extraction

Structure Validation

View Full Validation Report



View more in-depth experimental data
Entry History & Funding Information

Deposition Data

Funding OrganizationLocationGrant Number
French National Research AgencyFranceANR-15-CE11-0021-01
French National Research AgencyFranceANR-16-CE11-0007-01

Revision History  (Full details and data files)

  • Version 1.0: 2019-06-19
    Type: Initial release
  • Version 1.1: 2019-08-21
    Changes: Data collection
  • Version 2.0: 2020-11-18
    Changes: Atomic model, Data collection, Derived calculations, Refinement description
  • Version 2.1: 2024-01-24
    Changes: Data collection, Database references, Refinement description