6I7V

Ribosomal protein paralogs bL31 and bL36


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.90 Å
  • R-Value Free: 0.255 
  • R-Value Work: 0.186 
  • R-Value Observed: 0.186 

Starting Model: experimental
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wwPDB Validation   3D Report Full Report


Ligand Structure Quality Assessment 


This is version 1.3 of the entry. See complete history

Re-refinement Note

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


Literature

Bacterial ribosome heterogeneity: Changes in ribosomal protein composition during transition into stationary growth phase.

Lilleorg, S.Reier, K.Pulk, A.Liiv, A.Tammsalu, T.Peil, L.Cate, J.D.Remme, J.

(2018) Biochimie 156: 169-180

  • DOI: https://doi.org/10.1016/j.biochi.2018.10.013
  • Primary Citation of Related Structures:  
    6I7V

  • PubMed Abstract: 

    Ribosomes consist of many small proteins and few large RNA molecules. Both components are necessary for ribosome functioning during translation. According to widely accepted view, bacterial ribosomes contain always the same complement of ribosomal proteins. Comparative bacterial genomics data indicates that several ribosomal proteins are encoded by multiple paralogous genes suggesting structural heterogeneity of ribosomes. In E. coli, two r-proteins bL31 and bL36 are encoded by two genes: rpmE and ykgM encode bL31 protein paralogs bL31A and bL31B, and rpmJ and ykgO encode bL36 protein paralogs bL36A and bL36B respectively. We have found several similarities and differences between ribosomes of exponential and stationary growth phases by using quantitative mass spectrometry and X-ray crystallography. First, composition of ribosome associating proteins changes profoundly as cells transition from exponential to stationary growth phase. Ribosomal core proteins bL31A and bL36A are replaced by bL31B and bL36B, respectively. Second, our X-ray structure of the 70S ribosome demonstrates that bL31B and bL36B proteins have similar ribosome binding sites to their A counterparts. Third, ribosome subpopulations containing A or B paralogs existed simultaneously demonstrating that E. coli ribosomes are heterogeneous with respect to their paralogous ribosomal protein composition that changes via protein exchange.


  • Organizational Affiliation

    Institute of Molecular and Cell Biology, University of Tartu, Riia 23B, Tartu, 51010, Estonia.


Macromolecules

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Entity ID: 6
MoleculeChains Sequence LengthOrganismDetailsImage
30S ribosomal protein S2AA [auth BB],
G [auth AB]
218Escherichia coliMutation(s): 0 
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Entity ID: 7
MoleculeChains Sequence LengthOrganismDetailsImage
30S ribosomal protein S3BA [auth BC],
H [auth AC]
206Escherichia coliMutation(s): 0 
UniProt
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Entity ID: 8
MoleculeChains Sequence LengthOrganismDetailsImage
30S ribosomal protein S4CA [auth BD],
I [auth AD]
205Escherichia coliMutation(s): 0 
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Entity ID: 9
MoleculeChains Sequence LengthOrganismDetailsImage
30S ribosomal protein S5DA [auth BE],
J [auth AE]
150Escherichia coliMutation(s): 0 
UniProt
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Entity ID: 10
MoleculeChains Sequence LengthOrganismDetailsImage
30S ribosomal protein S6EA [auth BF],
K [auth AF]
100Escherichia coliMutation(s): 0 
UniProt
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Entity ID: 11
MoleculeChains Sequence LengthOrganismDetailsImage
30S ribosomal protein S7FA [auth BG],
L [auth AG]
151Escherichia coliMutation(s): 0 
UniProt
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Entity ID: 12
MoleculeChains Sequence LengthOrganismDetailsImage
30S ribosomal protein S8GA [auth BH],
M [auth AH]
129Escherichia coliMutation(s): 0 
UniProt
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Entity ID: 13
MoleculeChains Sequence LengthOrganismDetailsImage
30S ribosomal protein S9HA [auth BI],
N [auth AI]
127Escherichia coliMutation(s): 0 
UniProt
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Entity ID: 14
MoleculeChains Sequence LengthOrganismDetailsImage
30S ribosomal protein S10IA [auth BJ],
O [auth AJ]
98Escherichia coliMutation(s): 0 
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Entity ID: 15
MoleculeChains Sequence LengthOrganismDetailsImage
30S ribosomal protein S11JA [auth BK],
P [auth AK]
117Escherichia coliMutation(s): 0 
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Entity ID: 16
MoleculeChains Sequence LengthOrganismDetailsImage
30S ribosomal protein S12Q [auth AL]123Escherichia coliMutation(s): 0 
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Entity ID: 17
MoleculeChains Sequence LengthOrganismDetailsImage
30S ribosomal protein S13LA [auth BM],
R [auth AM]
114Escherichia coliMutation(s): 0 
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Entity ID: 18
MoleculeChains Sequence LengthOrganismDetailsImage
30S ribosomal protein S14MA [auth BN],
S [auth AN]
100Escherichia coliMutation(s): 0 
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Entity ID: 19
MoleculeChains Sequence LengthOrganismDetailsImage
30S ribosomal protein S15NA [auth BO],
T [auth AO]
88Escherichia coliMutation(s): 0 
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Entity ID: 20
MoleculeChains Sequence LengthOrganismDetailsImage
30S ribosomal protein S16OA [auth BP],
U [auth AP]
82Escherichia coliMutation(s): 0 
UniProt
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Entity ID: 21
MoleculeChains Sequence LengthOrganismDetailsImage
30S ribosomal protein S17PA [auth BQ],
V [auth AQ]
80Escherichia coliMutation(s): 0 
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Entity ID: 22
MoleculeChains Sequence LengthOrganismDetailsImage
30S ribosomal protein S18QA [auth BR],
W [auth AR]
55Escherichia coliMutation(s): 0 
UniProt
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Entity ID: 23
MoleculeChains Sequence LengthOrganismDetailsImage
30S ribosomal protein S19RA [auth BS],
X [auth AS]
79Escherichia coliMutation(s): 0 
UniProt
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Entity ID: 24
MoleculeChains Sequence LengthOrganismDetailsImage
30S ribosomal protein S20SA [auth BT],
Y [auth AT]
85Escherichia coliMutation(s): 0 
UniProt
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Entity ID: 25
MoleculeChains Sequence LengthOrganismDetailsImage
30S ribosomal protein S21TA [auth BU],
Z [auth AU]
54Escherichia coliMutation(s): 0 
UniProt
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Entity ID: 26
MoleculeChains Sequence LengthOrganismDetailsImage
30S ribosomal protein S12KA [auth BL]123Escherichia coliMutation(s): 0 
UniProt
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Entity ID: 27
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L2UA [auth CC],
XB [auth DC]
271Escherichia coliMutation(s): 0 
UniProt
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Entity ID: 28
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L3VA [auth CD]209Escherichia coliMutation(s): 0 
UniProt
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Entity ID: 29
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L4WA [auth CE],
ZB [auth DE]
201Escherichia coliMutation(s): 0 
UniProt
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Entity ID: 30
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L5AC [auth DF],
XA [auth CF]
177Escherichia coliMutation(s): 0 
UniProt
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Entity ID: 31
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L6BC [auth DG],
YA [auth CG]
176Escherichia coliMutation(s): 0 
UniProt
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Entity ID: 32
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L9CC [auth DH],
ZA [auth CH]
148Escherichia coliMutation(s): 0 
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Entity ID: 33
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L11AB [auth CJ],
DC [auth DJ]
141Escherichia coliMutation(s): 0 
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Entity ID: 34
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L13BB [auth CK],
EC [auth DK]
142Escherichia coliMutation(s): 0 
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Entity ID: 35
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L14CB [auth CL],
FC [auth DL]
123Escherichia coliMutation(s): 0 
UniProt
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Entity ID: 36
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L15DB [auth CM],
GC [auth DM]
144Escherichia coliMutation(s): 0 
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Entity ID: 37
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L16EB [auth CN],
HC [auth DN]
136Escherichia coliMutation(s): 0 
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Entity ID: 38
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L17FB [auth CO],
IC [auth DO]
120Escherichia coliMutation(s): 0 
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Entity ID: 39
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L18GB [auth CP],
JC [auth DP]
117Escherichia coliMutation(s): 0 
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Entity ID: 40
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L19HB [auth CQ],
KC [auth DQ]
114Escherichia coliMutation(s): 0 
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Entity ID: 41
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L20IB [auth CR],
LC [auth DR]
117Escherichia coliMutation(s): 0 
UniProt
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Entity ID: 42
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L21JB [auth CS],
MC [auth DS]
103Escherichia coliMutation(s): 0 
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Entity ID: 43
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L22KB [auth CT],
NC [auth DT]
110Escherichia coliMutation(s): 0 
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Entity ID: 44
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L23LB [auth CU],
OC [auth DU]
93Escherichia coliMutation(s): 0 
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Entity ID: 45
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L24MB [auth CV],
PC [auth DV]
102Escherichia coliMutation(s): 0 
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Entity ID: 46
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L25NB [auth CW],
QC [auth DW]
94Escherichia coliMutation(s): 0 
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Entity ID: 47
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L27OB [auth CX],
RC [auth DX]
76Escherichia coliMutation(s): 0 
UniProt
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Entity ID: 48
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L28PB [auth CY],
SC [auth DY]
77Escherichia coliMutation(s): 0 
UniProt
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Entity ID: 49
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L29QB [auth CZ],
TC [auth DZ]
62Escherichia coliMutation(s): 0 
UniProt
Find proteins for P0A7M6 (Escherichia coli (strain K12))
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UniProt GroupP0A7M6
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Entity ID: 50
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L30RB [auth C0],
UC [auth D0]
58Escherichia coliMutation(s): 0 
UniProt
Find proteins for P0AG51 (Escherichia coli (strain K12))
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UniProt GroupP0AG51
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Entity ID: 51
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L32SB [auth C1],
VC [auth D1]
56Escherichia coliMutation(s): 0 
UniProt
Find proteins for P0A7N4 (Escherichia coli (strain K12))
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Entity ID: 52
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L33TB [auth C2],
WC [auth D2]
51Escherichia coliMutation(s): 0 
UniProt
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Entity ID: 53
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L34UB [auth C3],
XC [auth D3]
46Escherichia coliMutation(s): 0 
UniProt
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Entity ID: 54
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L35VB [auth C4],
YC [auth D4]
64Escherichia coliMutation(s): 0 
UniProt
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Entity ID: 55
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L36 2WB [auth C5],
ZC [auth D5]
45Escherichia coliMutation(s): 0 
UniProt
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Entity ID: 56
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L3YB [auth DD]209Escherichia coliMutation(s): 0 
UniProt
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Entity ID: 57
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L31 type BAD [auth D7]68Escherichia coliMutation(s): 0 
UniProt
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Entity ID: 1
MoleculeChains LengthOrganismImage
16S ribosomal RNAA [auth AA]1,533Escherichia coli
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Entity ID: 2
MoleculeChains LengthOrganismImage
16S ribosomal RNAB [auth BA]1,533Escherichia coli
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Entity ID: 3
MoleculeChains LengthOrganismImage
23S ribosomal RNAC [auth DA]2,903Escherichia coli
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Entity ID: 4
MoleculeChains LengthOrganismImage
23S ribsomal RNAD [auth CA]2,904Escherichia coli
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Entity ID: 5
MoleculeChains LengthOrganismImage
5S ribosomal RNAE [auth DB],
F [auth CB]
119Escherichia coli
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Small Molecules
Ligands 11 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
1PE
Query on 1PE

Download Ideal Coordinates CCD File 
NI [auth DA],
SJ [auth DA]
PENTAETHYLENE GLYCOL
C10 H22 O6
JLFNLZLINWHATN-UHFFFAOYSA-N
PG4
Query on PG4

Download Ideal Coordinates CCD File 
BJ [auth DA],
HW [auth DQ],
JW [auth DR],
NW [auth DS],
OF [auth BA]
TETRAETHYLENE GLYCOL
C8 H18 O5
UWHCKJMYHZGTIT-UHFFFAOYSA-N
GUN
Query on GUN

Download Ideal Coordinates CCD File 
FK [auth DA]GUANINE
C5 H5 N5 O
UYTPUPDQBNUYGX-UHFFFAOYSA-N
PGE
Query on PGE

Download Ideal Coordinates CCD File 
MW [auth DS]
ND [auth AA]
OI [auth DA]
PW [auth DT]
QW [auth DU]
MW [auth DS],
ND [auth AA],
OI [auth DA],
PW [auth DT],
QW [auth DU],
TJ [auth DA],
TW [auth D3],
WV [auth DD]
TRIETHYLENE GLYCOL
C6 H14 O4
ZIBGPFATKBEMQZ-UHFFFAOYSA-N
SPD
Query on SPD

Download Ideal Coordinates CCD File 
KI [auth DA],
PI [auth DA],
XJ [auth DA]
SPERMIDINE
C7 H19 N3
ATHGHQPFGPMSJY-UHFFFAOYSA-N
MPD
Query on MPD

Download Ideal Coordinates CCD File 
AW [auth DK]
DW [auth DN]
EK [auth DA]
OW [auth DT]
PD [auth AA]
AW [auth DK],
DW [auth DN],
EK [auth DA],
OW [auth DT],
PD [auth AA],
UJ [auth DA],
WI [auth DA],
YI [auth DA],
YJ [auth DA],
YV [auth DE],
ZI [auth DA],
ZJ [auth DA],
ZV [auth DE]
(4S)-2-METHYL-2,4-PENTANEDIOL
C6 H14 O2
SVTBMSDMJJWYQN-YFKPBYRVSA-N
PEG
Query on PEG

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AK [auth DA]
DJ [auth DA]
EW [auth DP]
GW [auth DQ]
OJ [auth DA]
AK [auth DA],
DJ [auth DA],
EW [auth DP],
GW [auth DQ],
OJ [auth DA],
PJ [auth DA],
QJ [auth DA],
SW [auth D1],
UW [auth D3]
DI(HYDROXYETHYL)ETHER
C4 H10 O3
MTHSVFCYNBDYFN-UHFFFAOYSA-N
PUT
Query on PUT

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BW [auth DM]
FW [auth DP]
HJ [auth DA]
LI [auth DA]
QI [auth DA]
BW [auth DM],
FW [auth DP],
HJ [auth DA],
LI [auth DA],
QI [auth DA],
VW [auth D5],
WJ [auth DA]
1,4-DIAMINOBUTANE
C4 H12 N2
KIDHWZJUCRJVML-UHFFFAOYSA-N
EDO
Query on EDO

Download Ideal Coordinates CCD File 
CK [auth DA]
DK [auth DA]
FJ [auth DA]
JV [auth DB]
KJ [auth DA]
CK [auth DA],
DK [auth DA],
FJ [auth DA],
JV [auth DB],
KJ [auth DA],
KV [auth DB],
LJ [auth DA],
LV [auth DB],
LW [auth DR],
MJ [auth DA],
NJ [auth DA],
RW [auth D1]
1,2-ETHANEDIOL
C2 H6 O2
LYCAIKOWRPUZTN-UHFFFAOYSA-N
ACY
Query on ACY

Download Ideal Coordinates CCD File 
IJ [auth DA],
RJ [auth DA],
XI [auth DA]
ACETIC ACID
C2 H4 O2
QTBSBXVTEAMEQO-UHFFFAOYSA-N
MG
Query on MG

Download Ideal Coordinates CCD File 
AE [auth AA]
AF [auth AA]
AG [auth BA]
AH [auth BA]
AI [auth DA]
AE [auth AA],
AF [auth AA],
AG [auth BA],
AH [auth BA],
AI [auth DA],
AJ [auth DA],
AL [auth DA],
AM [auth DA],
AN [auth DA],
AO [auth DA],
AP [auth CA],
AQ [auth CA],
AR [auth CA],
AS [auth CA],
AT [auth CA],
AU [auth CA],
AV [auth CA],
BD [auth AA],
BE [auth AA],
BF [auth AA],
BG [auth BA],
BH [auth BA],
BI [auth DA],
BK [auth DA],
BL [auth DA],
BM [auth DA],
BN [auth DA],
BO [auth DA],
BP [auth CA],
BQ [auth CA],
BR [auth CA],
BS [auth CA],
BT [auth CA],
BU [auth CA],
BV [auth CA],
CD [auth AA],
CE [auth AA],
CF [auth AA],
CG [auth BA],
CH [auth BA],
CI [auth DA],
CJ [auth DA],
CL [auth DA],
CM [auth DA],
CN [auth DA],
CO [auth DA],
CP [auth CA],
CQ [auth CA],
CR [auth CA],
CS [auth CA],
CT [auth CA],
CU [auth CA],
CV [auth CA],
CW [auth DM],
DD [auth AA],
DE [auth AA],
DF [auth AA],
DG [auth BA],
DH [auth BA],
DI [auth DA],
DL [auth DA],
DM [auth DA],
DN [auth DA],
DO [auth DA],
DP [auth CA],
DQ [auth CA],
DR [auth CA],
DS [auth CA],
DT [auth CA],
DU [auth CA],
DV [auth CA],
ED [auth AA],
EE [auth AA],
EF [auth AA],
EG [auth BA],
EH [auth BA],
EI [auth DA],
EJ [auth DA],
EL [auth DA],
EM [auth DA],
EN [auth DA],
EO [auth DA],
EP [auth CA],
EQ [auth CA],
ER [auth CA],
ES [auth CA],
ET [auth CA],
EU [auth CA],
EV [auth CA],
FD [auth AA],
FE [auth AA],
FF [auth AA],
FG [auth BA],
FH [auth BA],
FI [auth DA],
FL [auth DA],
FM [auth DA],
FN [auth DA],
FO [auth DA],
FP [auth CA],
FQ [auth CA],
FR [auth CA],
FS [auth CA],
FT [auth CA],
FU [auth CA],
FV [auth CA],
GD [auth AA],
GE [auth AA],
GF [auth AA],
GG [auth BA],
GH [auth DA],
GI [auth DA],
GJ [auth DA],
GK [auth DA],
GL [auth DA],
GM [auth DA],
GN [auth DA],
GO [auth DA],
GP [auth CA],
GQ [auth CA],
GR [auth CA],
GS [auth CA],
GT [auth CA],
GU [auth CA],
GV [auth CA],
HD [auth AA],
HE [auth AA],
HF [auth AA],
HG [auth BA],
HH [auth DA],
HI [auth DA],
HK [auth DA],
HL [auth DA],
HM [auth DA],
HN [auth DA],
HO [auth DA],
HP [auth CA],
HQ [auth CA],
HR [auth CA],
HS [auth CA],
HT [auth CA],
HU [auth CA],
HV [auth CA],
ID [auth AA],
IE [auth AA],
IF [auth BA],
IG [auth BA],
IH [auth DA],
II [auth DA],
IK [auth DA],
IL [auth DA],
IM [auth DA],
IN [auth DA],
IO [auth DA],
IP [auth CA],
IQ [auth CA],
IR [auth CA],
IS [auth CA],
IT [auth CA],
IU [auth CA],
IV [auth CA],
IW [auth DR],
JD [auth AA],
JE [auth AA],
JF [auth BA],
JG [auth BA],
JH [auth DA],
JI [auth DA],
JJ [auth DA],
JK [auth DA],
JL [auth DA],
JM [auth DA],
JN [auth DA],
JO [auth DA],
JP [auth CA],
JQ [auth CA],
JR [auth CA],
JS [auth CA],
JT [auth CA],
JU [auth CA],
KD [auth AA],
KE [auth AA],
KF [auth BA],
KG [auth BA],
KH [auth DA],
KK [auth DA],
KL [auth DA],
KM [auth DA],
KN [auth DA],
KO [auth DA],
KP [auth CA],
KQ [auth CA],
KR [auth CA],
KS [auth CA],
KT [auth CA],
KU [auth CA],
KW [auth DR],
LD [auth AA],
LE [auth AA],
LF [auth BA],
LG [auth BA],
LH [auth DA],
LK [auth DA],
LL [auth DA],
LM [auth DA],
LN [auth DA],
LO [auth DA],
LP [auth CA],
LQ [auth CA],
LR [auth CA],
LS [auth CA],
LT [auth CA],
LU [auth CA],
MD [auth AA],
ME [auth AA],
MF [auth BA],
MG [auth BA],
MH [auth DA],
MI [auth DA],
MK [auth DA],
ML [auth DA],
MM [auth DA],
MN [auth DA],
MO [auth DA],
MP [auth CA],
MQ [auth CA],
MR [auth CA],
MS [auth CA],
MT [auth CA],
MU [auth CA],
MV [auth DB],
NE [auth AA],
NF [auth BA],
NG [auth BA],
NH [auth DA],
NK [auth DA],
NL [auth DA],
NM [auth DA],
NN [auth DA],
NO [auth DA],
NP [auth CA],
NQ [auth CA],
NR [auth CA],
NS [auth CA],
NT [auth CA],
NU [auth CA],
NV [auth DB],
OD [auth AA],
OE [auth AA],
OG [auth BA],
OH [auth DA],
OK [auth DA],
OL [auth DA],
OM [auth DA],
ON [auth DA],
OO [auth DA],
OP [auth CA],
OQ [auth CA],
OR [auth CA],
OS [auth CA],
OT [auth CA],
OU [auth CA],
OV [auth DB],
PE [auth AA],
PF [auth BA],
PG [auth BA],
PH [auth DA],
PK [auth DA],
PL [auth DA],
PM [auth DA],
PN [auth DA],
PO [auth CA],
PP [auth CA],
PQ [auth CA],
PR [auth CA],
PS [auth CA],
PT [auth CA],
PU [auth CA],
PV [auth DB],
QD [auth AA],
QE [auth AA],
QF [auth BA],
QG [auth BA],
QH [auth DA],
QK [auth DA],
QL [auth DA],
QM [auth DA],
QN [auth DA],
QO [auth CA],
QP [auth CA],
QQ [auth CA],
QR [auth CA],
QS [auth CA],
QT [auth CA],
QU [auth CA],
QV [auth CB],
RD [auth AA],
RE [auth AA],
RF [auth BA],
RG [auth BA],
RH [auth DA],
RI [auth DA],
RK [auth DA],
RL [auth DA],
RM [auth DA],
RN [auth DA],
RO [auth CA],
RP [auth CA],
RQ [auth CA],
RR [auth CA],
RS [auth CA],
RT [auth CA],
RU [auth CA],
RV [auth CB],
SD [auth AA],
SE [auth AA],
SF [auth BA],
SG [auth BA],
SH [auth DA],
SI [auth DA],
SK [auth DA],
SL [auth DA],
SM [auth DA],
SN [auth DA],
SO [auth CA],
SP [auth CA],
SQ [auth CA],
SR [auth CA],
SS [auth CA],
ST [auth CA],
SU [auth CA],
SV [auth CB],
TD [auth AA],
TE [auth AA],
TF [auth BA],
TG [auth BA],
TH [auth DA],
TI [auth DA],
TK [auth DA],
TL [auth DA],
TM [auth DA],
TN [auth DA],
TO [auth CA],
TP [auth CA],
TQ [auth CA],
TR [auth CA],
TS [auth CA],
TT [auth CA],
TU [auth CA],
TV [auth CM],
UD [auth AA],
UE [auth AA],
UF [auth BA],
UG [auth BA],
UH [auth DA],
UI [auth DA],
UK [auth DA],
UL [auth DA],
UM [auth DA],
UN [auth DA],
UO [auth CA],
UP [auth CA],
UQ [auth CA],
UR [auth CA],
US [auth CA],
UT [auth CA],
UU [auth CA],
UV [auth CR],
VD [auth AA],
VE [auth AA],
VF [auth BA],
VG [auth BA],
VH [auth DA],
VI [auth DA],
VJ [auth DA],
VK [auth DA],
VL [auth DA],
VM [auth DA],
VN [auth DA],
VO [auth CA],
VP [auth CA],
VQ [auth CA],
VR [auth CA],
VS [auth CA],
VT [auth CA],
VU [auth CA],
VV [auth C3],
WD [auth AA],
WE [auth AA],
WF [auth BA],
WG [auth BA],
WH [auth DA],
WK [auth DA],
WL [auth DA],
WM [auth DA],
WN [auth DA],
WO [auth CA],
WP [auth CA],
WQ [auth CA],
WR [auth CA],
WS [auth CA],
WT [auth CA],
WU [auth CA],
WW [auth D5],
XD [auth AA],
XE [auth AA],
XF [auth BA],
XG [auth BA],
XH [auth DA],
XK [auth DA],
XL [auth DA],
XM [auth DA],
XN [auth DA],
XO [auth CA],
XP [auth CA],
XQ [auth CA],
XR [auth CA],
XS [auth CA],
XT [auth CA],
XU [auth CA],
XV [auth DD],
YD [auth AA],
YE [auth AA],
YF [auth BA],
YG [auth BA],
YH [auth DA],
YK [auth DA],
YL [auth DA],
YM [auth DA],
YN [auth DA],
YO [auth CA],
YP [auth CA],
YQ [auth CA],
YR [auth CA],
YS [auth CA],
YT [auth CA],
YU [auth CA],
ZD [auth AA],
ZE [auth AA],
ZF [auth BA],
ZG [auth BA],
ZH [auth DA],
ZK [auth DA],
ZL [auth DA],
ZM [auth DA],
ZN [auth DA],
ZO [auth CA],
ZP [auth CA],
ZQ [auth CA],
ZR [auth CA],
ZS [auth CA],
ZT [auth CA],
ZU [auth CA]
MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
Modified Residues  2 Unique
IDChains TypeFormula2D DiagramParent
D2T
Query on D2T
Q [auth AL]L-PEPTIDE LINKINGC5 H9 N O4 SASP
MEQ
Query on MEQ
YB [auth DD]L-PEPTIDE LINKINGC6 H12 N2 O3GLN
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.90 Å
  • R-Value Free: 0.255 
  • R-Value Work: 0.186 
  • R-Value Observed: 0.186 
  • Space Group: P 21 21 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 212.02α = 90
b = 434.57β = 90
c = 623.13γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
XDSdata reduction
XSCALEdata scaling
PHENIXphasing

Structure Validation

View Full Validation Report



Ligand Structure Quality Assessment 


Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
United States--
Estonia--

Revision History  (Full details and data files)

  • Version 1.0: 2018-12-05
    Type: Initial release
  • Version 1.1: 2021-09-08
    Changes: Data collection, Database references, Derived calculations, Structure summary
  • Version 1.2: 2024-01-24
    Changes: Data collection, Derived calculations, Refinement description
  • Version 1.3: 2024-04-24
    Changes: Data collection