6NWY

Modified tRNA(Pro) bound to Thermus thermophilus 70S (near-cognate)


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.50 Å
  • R-Value Free: 0.258 
  • R-Value Work: 0.240 
  • R-Value Observed: 0.241 

wwPDB Validation   3D Report Full Report


This is version 1.1 of the entry. See complete history


Literature

Structural insights into mRNA reading frame regulation by tRNA modification and slippery codon-anticodon pairing.

Hoffer, E.Hong, S.Sunita, S.Maehigashi, T.Gonzalez Jnr, R.L.Whitford, P.Dunham, C.M.

(2020) Elife 9

  • DOI: 10.7554/eLife.51898
  • Primary Citation of Related Structures:  
    6NSH, 6NTA, 6NUO, 6NWY, 6O3M, 6OSI

  • PubMed Abstract: 
  • Modifications in the tRNA anticodon loop, adjacent to the three-nucleotide anticodon, influence translation fidelity by stabilizing the tRNA to allow for accurate reading of the mRNA genetic code. One example is the N1-methylguanosine modification at guanine nucleotide 37 (m 1 G37) located in the anticodon loop andimmediately adjacent to the anticodon nucleotides 34, 35, 36 ...

    Modifications in the tRNA anticodon loop, adjacent to the three-nucleotide anticodon, influence translation fidelity by stabilizing the tRNA to allow for accurate reading of the mRNA genetic code. One example is the N1-methylguanosine modification at guanine nucleotide 37 (m 1 G37) located in the anticodon loop andimmediately adjacent to the anticodon nucleotides 34, 35, 36. The absence of m 1 G37 in tRNA Pro causes +1 frameshifting on polynucleotide, slippery codons. Here, we report structures of the bacterial ribosome containing tRNA Pro bound to either cognate or slippery codons to determine how the m 1 G37 modification prevents mRNA frameshifting. The structures reveal that certain codon-anticodon contexts and the lack of m 1 G37 destabilize interactions of tRNA Pro with the P site of the ribosome, causing large conformational changes typically only seen during EF-G-mediated translocation of the mRNA-tRNA pairs. These studies provide molecular insights into how m 1 G37 stabilizes the interactions of tRNA Pro with the ribosome in the context of a slippery mRNA codon.


    Organizational Affiliation

    Department of Biochemistry, Emory University School of Medicine, Atlanta, United States.



Macromolecules

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Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
30S ribosomal protein S2B [auth QB], DB [auth XB]256Thermus thermophilus HB8Mutation(s): 0 
Gene Names: rpsBrps2TTHA0861
UniProt
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Entity ID: 3
MoleculeChainsSequence LengthOrganismDetailsImage
30S ribosomal protein S3C [auth QC], EB [auth XC]239Thermus thermophilus HB8Mutation(s): 0 
Gene Names: rpsCrps3TTHA1686
UniProt
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Entity ID: 4
MoleculeChainsSequence LengthOrganismDetailsImage
30S ribosomal protein S4D [auth QD], FB [auth XD]209Thermus thermophilus HB8Mutation(s): 0 
Gene Names: rpsDrps4TTHA1665
UniProt
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Entity ID: 5
MoleculeChainsSequence LengthOrganismDetailsImage
30S ribosomal protein S5E [auth QE], GB [auth XE]162Thermus thermophilus HB8Mutation(s): 0 
Gene Names: rpsETTHA1675
UniProt
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Entity ID: 6
MoleculeChainsSequence LengthOrganismDetailsImage
30S ribosomal protein S6F [auth QF], HB [auth XF]101Thermus thermophilus HB8Mutation(s): 0 
Gene Names: rpsFTTHA0245
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Entity ID: 7
MoleculeChainsSequence LengthOrganismDetailsImage
30S ribosomal protein S7G [auth QG], IB [auth XG]156Thermus thermophilus HB8Mutation(s): 0 
Gene Names: rpsGrps7TTHA1696
UniProt
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Entity ID: 8
MoleculeChainsSequence LengthOrganismDetailsImage
30S ribosomal protein S8H [auth QH], JB [auth XH]138Thermus thermophilus HB8Mutation(s): 0 
Gene Names: rpsHTTHA1678
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Entity ID: 9
MoleculeChainsSequence LengthOrganismDetailsImage
30S ribosomal protein S9I [auth QI], KB [auth XI]128Thermus thermophilus HB8Mutation(s): 0 
Gene Names: rpsIrps9TTHA1464
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Entity ID: 10
MoleculeChainsSequence LengthOrganismDetailsImage
30S ribosomal protein S10J [auth QJ], LB [auth XJ]105Thermus thermophilus HB8Mutation(s): 0 
Gene Names: rpsJTTHA1693
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Entity ID: 11
MoleculeChainsSequence LengthOrganismDetailsImage
30S ribosomal protein S11K [auth QK], MB [auth XK]129Thermus thermophilus HB8Mutation(s): 0 
Gene Names: rpsKrps11TTHA1666
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Entity ID: 12
MoleculeChainsSequence LengthOrganismDetailsImage
30S ribosomal protein S12L [auth QL], NB [auth XL]132Thermus thermophilus HB8Mutation(s): 0 
Gene Names: rpsLTTHA1697
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Entity ID: 13
MoleculeChainsSequence LengthOrganismDetailsImage
30S ribosomal protein S13M [auth QM], OB [auth XM]126Thermus thermophilus HB8Mutation(s): 0 
Gene Names: rpsMrps13TTHA1667
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Entity ID: 14
MoleculeChainsSequence LengthOrganismDetailsImage
30S ribosomal protein S14 type ZN [auth QN], PB [auth XN]61Thermus thermophilus HB8Mutation(s): 0 
Gene Names: rpsZrpsNTTHA1679
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Entity ID: 15
MoleculeChainsSequence LengthOrganismDetailsImage
30S ribosomal protein S15O [auth QO], QB [auth XO]89Thermus thermophilus HB8Mutation(s): 0 
Gene Names: rpsOTTHA1138
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Entity ID: 16
MoleculeChainsSequence LengthOrganismDetailsImage
30S ribosomal protein S16P [auth QP], RB [auth XP]88Thermus thermophilus HB8Mutation(s): 0 
Gene Names: rpsPTTHA1035
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Entity ID: 17
MoleculeChainsSequence LengthOrganismDetailsImage
30S ribosomal protein S17Q [auth QQ], SB [auth XQ]105Thermus thermophilus HB8Mutation(s): 0 
Gene Names: rpsQTTHA1683
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Entity ID: 18
MoleculeChainsSequence LengthOrganismDetailsImage
30S ribosomal protein S18R [auth QR], TB [auth XR]88Thermus thermophilus HB8Mutation(s): 0 
Gene Names: rpsRTTHA0243
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Entity ID: 19
MoleculeChainsSequence LengthOrganismDetailsImage
30S ribosomal protein S19S [auth QS], UB [auth XS]93Thermus thermophilus HB8Mutation(s): 0 
Gene Names: rpsSTTHA1688
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Entity ID: 20
MoleculeChainsSequence LengthOrganismDetailsImage
30S ribosomal protein S20T [auth QT], VB [auth XT]106Thermus thermophilus HB8Mutation(s): 0 
Gene Names: rpsTrps20TTHA1397
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Entity ID: 21
MoleculeChainsSequence LengthOrganismDetailsImage
30S ribosomal protein ThxU [auth QU], WB [auth XU]27Thermus thermophilus HB8Mutation(s): 0 
Gene Names: rpsUTTHA1396
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Entity ID: 24
MoleculeChainsSequence LengthOrganismDetailsImage
50S ribosomal protein L27X [auth R0], ZB [auth Y0]85Thermus thermophilus HB8Mutation(s): 0 
Gene Names: rpmATTHA1782
UniProt
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Entity ID: 25
MoleculeChainsSequence LengthOrganismDetailsImage
50S ribosomal protein L28Y [auth R1], AC [auth Y1]98Thermus thermophilus HB8Mutation(s): 0 
Gene Names: rpmBTTHA0042
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Entity ID: 26
MoleculeChainsSequence LengthOrganismDetailsImage
50S ribosomal protein L29Z [auth R2], BC [auth Y2]72Thermus thermophilus HB8Mutation(s): 0 
Gene Names: rpmCTTHA1684
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Entity ID: 27
MoleculeChainsSequence LengthOrganismDetailsImage
50S ribosomal protein L30AA [auth R3], CC [auth Y3]60Thermus thermophilus HB8Mutation(s): 0 
Gene Names: rpmDTTHA1674
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Entity ID: 28
MoleculeChainsSequence LengthOrganismDetailsImage
50S ribosomal protein L31BA [auth R4], DC [auth Y4]71Thermus thermophilus HB8Mutation(s): 0 
Gene Names: rpmETTHA1073
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Entity ID: 29
MoleculeChainsSequence LengthOrganismDetailsImage
50S ribosomal protein L32CA [auth R5], EC [auth Y5]60Thermus thermophilus HB8Mutation(s): 0 
Gene Names: rpmFrpl32TTHA0418
UniProt
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Entity ID: 30
MoleculeChainsSequence LengthOrganismDetailsImage
50S ribosomal protein L33DA [auth R6], FC [auth Y6]54Thermus thermophilus HB8Mutation(s): 0 
Gene Names: rpmGrpl33TTHA0250
UniProt
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Entity ID: 31
MoleculeChainsSequence LengthOrganismDetailsImage
50S ribosomal protein L34EA [auth R7], GC [auth Y7]49Thermus thermophilus HB8Mutation(s): 0 
Gene Names: rpmHrpl34TTHA0446
UniProt
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Entity ID: 32
MoleculeChainsSequence LengthOrganismDetailsImage
50S ribosomal protein L35FA [auth R8], HC [auth Y8]65Thermus thermophilus HB8Mutation(s): 0 
Gene Names: rpmITTHA0552
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Entity ID: 33
MoleculeChainsSequence LengthOrganismDetailsImage
50S ribosomal protein L36GA [auth R9], IC [auth Y9]37Thermus thermophilus HB8Mutation(s): 0 
Gene Names: rpmJTTHA1668
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Entity ID: 36
MoleculeChainsSequence LengthOrganismDetailsImage
50S ribosomal protein L2JA [auth RD], LC [auth YD]276Thermus thermophilus HB8Mutation(s): 0 
Gene Names: rplBTTHA1689
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Entity ID: 37
MoleculeChainsSequence LengthOrganismDetailsImage
50S ribosomal protein L3KA [auth RE], MC [auth YE]206Thermus thermophilus HB8Mutation(s): 0 
Gene Names: rplCTTHA1692
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Entity ID: 38
MoleculeChainsSequence LengthOrganismDetailsImage
50S ribosomal protein L4LA [auth RF], NC [auth YF]210Thermus thermophilus HB8Mutation(s): 0 
Gene Names: rplDTTHA1691
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Entity ID: 39
MoleculeChainsSequence LengthOrganismDetailsImage
50S ribosomal protein L5MA [auth RG], OC [auth YG]182Thermus thermophilus HB8Mutation(s): 0 
Gene Names: rplETTHA1680
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Entity ID: 40
MoleculeChainsSequence LengthOrganismDetailsImage
50S ribosomal protein L6NA [auth RH], PC [auth YH]180Thermus thermophilus HB8Mutation(s): 0 
Gene Names: rplFTTHA1677
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Entity ID: 41
MoleculeChainsSequence LengthOrganismDetailsImage
50S ribosomal protein L9OA [auth RI], QC [auth YI]148Thermus thermophilus HB8Mutation(s): 0 
Gene Names: rplITTHA0242
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Entity ID: 42
MoleculeChainsSequence LengthOrganismDetailsImage
50S ribosomal protein L13PA [auth RN], RC [auth YN]140Thermus thermophilus HB8Mutation(s): 0 
Gene Names: rplMTTHA1465
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Entity ID: 43
MoleculeChainsSequence LengthOrganismDetailsImage
50S ribosomal protein L14QA [auth RO], SC [auth YO]122Thermus thermophilus HB8Mutation(s): 0 
Gene Names: rplNTTHA1682
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Entity ID: 44
MoleculeChainsSequence LengthOrganismDetailsImage
50S ribosomal protein L15RA [auth RP], TC [auth YP]150Thermus thermophilus HB8Mutation(s): 0 
Gene Names: rplOTTHA1673
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Entity ID: 45
MoleculeChainsSequence LengthOrganismDetailsImage
50S ribosomal protein L16SA [auth RQ], UC [auth YQ]141Thermus thermophilus HB8Mutation(s): 0 
Gene Names: rplPTTHA1685
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Entity ID: 46
MoleculeChainsSequence LengthOrganismDetailsImage
50S ribosomal protein L17TA [auth RR], VC [auth YR]118Thermus thermophilus HB8Mutation(s): 0 
Gene Names: rplQrpl17TTHA1663
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Entity ID: 47
MoleculeChainsSequence LengthOrganismDetailsImage
50S ribosomal protein L18UA [auth RS], WC [auth YS]112Thermus thermophilus HB8Mutation(s): 0 
Gene Names: rplRTTHA1676
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Entity ID: 48
MoleculeChainsSequence LengthOrganismDetailsImage
50S ribosomal protein L19VA [auth RT], XC [auth YT]146Thermus thermophilus HB8Mutation(s): 0 
Gene Names: rplSTTHA1031
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Entity ID: 49
MoleculeChainsSequence LengthOrganismDetailsImage
50S ribosomal protein L20WA [auth RU], YC [auth YU]118Thermus thermophilus HB8Mutation(s): 0 
Gene Names: rplTTTHA0553
UniProt
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Entity ID: 50
MoleculeChainsSequence LengthOrganismDetailsImage
50S ribosomal protein L21XA [auth RV], ZC [auth YV]101Thermus thermophilus HB8Mutation(s): 0 
Gene Names: rplUTTHA1783
UniProt
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Entity ID: 51
MoleculeChainsSequence LengthOrganismDetailsImage
50S ribosomal protein L22YA [auth RW], AD [auth YW]113Thermus thermophilus HB8Mutation(s): 0 
Gene Names: rplVTTHA1687
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Entity ID: 52
MoleculeChainsSequence LengthOrganismDetailsImage
50S ribosomal protein L23ZA [auth RX], BD [auth YX]96Thermus thermophilus HB8Mutation(s): 0 
Gene Names: rplWTTHA1690
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Entity ID: 53
MoleculeChainsSequence LengthOrganismDetailsImage
50S ribosomal protein L24AB [auth RY], CD [auth YY]110Thermus thermophilus HB8Mutation(s): 0 
Gene Names: rplXTTHA1681
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Entity ID: 54
MoleculeChainsSequence LengthOrganismDetailsImage
50S ribosomal protein L25BB [auth RZ], DD [auth YZ]206Thermus thermophilus HB8Mutation(s): 0 
Gene Names: rplYrpl25rptL5TTHA1589
UniProt
Find proteins for Q5SHZ1 (Thermus thermophilus (strain ATCC 27634 / DSM 579 / HB8))
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Entity ID: 1
MoleculeChainsLengthOrganismImage
16S rRNAA [auth QA], CB [auth XA]1521Thermus thermophilus HB8
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Entity ID: 22
MoleculeChainsLengthOrganismImage
E-site tRNA-ProV [auth QV], XB [auth XV]77Escherichia coli
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  • Entity ID: 23
    MoleculeChainsLengthOrganismImage
    mRNAW [auth QX], YB [auth XX]19Escherichia coli
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    Entity ID: 34
    MoleculeChainsLengthOrganismImage
    23S rRNAHA [auth RA], JC [auth YA]2915Thermus thermophilus HB8
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    Entity ID: 35
    MoleculeChainsLengthOrganismImage
    5S rRNAIA [auth RB], KC [auth YB]122Thermus thermophilus HB8
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    Small Molecules
    Ligands 3 Unique
    IDChainsName / Formula / InChI Key2D Diagram3D Interactions
    SF4
    Query on SF4

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    NG [auth QD], WBA [auth XD]IRON/SULFUR CLUSTER
    Fe4 S4
    LJBDFODJNLIPKO-VKOJMFJBAC
     Ligand Interaction
    ZN
    Query on ZN

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    AH [auth R9] , BCA [auth Y5] , DCA [auth Y6] , GCA [auth Y9] , KY [auth RY] , SG [auth QN] , VTA [auth YY] , XG [auth R5] , 
    AH [auth R9],  BCA [auth Y5],  DCA [auth Y6],  GCA [auth Y9],  KY [auth RY],  SG [auth QN],  VTA [auth YY],  XG [auth R5],  YBA [auth XN],  YG [auth R6]
    ZINC ION
    Zn
    PTFCDOFLOPIGGS-UHFFFAOYSA-N
     Ligand Interaction
    MG
    Query on MG

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    AAA [auth XA] , ABA [auth XA] , ACA [auth Y2] , ADA [auth YA] , AE [auth QA] , AEA [auth YA] , AF [auth QA] , AFA [auth YA] , 
    AAA [auth XA],  ABA [auth XA],  ACA [auth Y2],  ADA [auth YA],  AE [auth QA],  AEA [auth YA],  AF [auth QA],  AFA [auth YA],  AG [auth QA],  AGA [auth YA],  AHA [auth YA],  AI [auth RA],  AIA [auth YA],  AJ [auth RA],  AJA [auth YA],  AK [auth RA],  AKA [auth YA],  AL [auth RA],  ALA [auth YA],  AM [auth RA],  AMA [auth YA],  AN [auth RA],  ANA [auth YA],  AO [auth RA],  AOA [auth YA],  AP [auth RA],  APA [auth YA],  AQ [auth RA],  AQA [auth YA],  AR [auth RA],  ARA [auth YA],  AS [auth RA],  ASA [auth YA],  AT [auth RA],  ATA [auth YA],  AU [auth RA],  AV [auth RA],  AW [auth RA],  AX [auth RA],  AY [auth RE],  AZ [auth XA],  BAA [auth XA],  BBA [auth XA],  BDA [auth YA],  BE [auth QA],  BEA [auth YA],  BF [auth QA],  BFA [auth YA],  BG [auth QA],  BGA [auth YA],  BH [auth RA],  BHA [auth YA],  BI [auth RA],  BIA [auth YA],  BJ [auth RA],  BJA [auth YA],  BK [auth RA],  BKA [auth YA],  BL [auth RA],  BLA [auth YA],  BM [auth RA],  BMA [auth YA],  BN [auth RA],  BNA [auth YA],  BO [auth RA],  BOA [auth YA],  BP [auth RA],  BPA [auth YA],  BQ [auth RA],  BQA [auth YA],  BR [auth RA],  BRA [auth YA],  BS [auth RA],  BSA [auth YA],  BT [auth RA],  BTA [auth YA],  BU [auth RA],  BV [auth RA],  BW [auth RA],  BX [auth RA],  BY [auth RE],  BZ [auth XA],  CAA [auth XA],  CBA [auth XA],  CCA [auth Y5],  CDA [auth YA],  CE [auth QA],  CEA [auth YA],  CF [auth QA],  CFA [auth YA],  CG [auth QA],  CGA [auth YA],  CH [auth RA],  CHA [auth YA],  CI [auth RA],  CIA [auth YA],  CJ [auth RA],  CJA [auth YA],  CK [auth RA],  CKA [auth YA],  CL [auth RA],  CLA [auth YA],  CM [auth RA],  CMA [auth YA],  CN [auth RA],  CNA [auth YA],  CO [auth RA],  COA [auth YA],  CP [auth RA],  CPA [auth YA],  CQ [auth RA],  CQA [auth YA],  CR [auth RA],  CRA [auth YA],  CS [auth RA],  CSA [auth YA],  CT [auth RA],  CTA [auth YA],  CU [auth RA],  CV [auth RA],  CW [auth RA],  CX [auth RA],  CY [auth RE],  CZ [auth XA],  DAA [auth XA],  DBA [auth XA],  DDA [auth YA],  DE [auth QA],  DEA [auth YA],  DF [auth QA],  DFA [auth YA],  DG [auth QA],  DGA [auth YA],  DH [auth RA],  DHA [auth YA],  DI [auth RA],  DIA [auth YA],  DJ [auth RA],  DJA [auth YA],  DK [auth RA],  DKA [auth YA],  DL [auth RA],  DLA [auth YA],  DM [auth RA],  DMA [auth YA],  DN [auth RA],  DNA [auth YA],  DO [auth RA],  DOA [auth YA],  DP [auth RA],  DPA [auth YA],  DQ [auth RA],  DQA [auth YA],  DR [auth RA],  DRA [auth YA],  DS [auth RA],  DSA [auth YA],  DT [auth RA],  DTA [auth YA],  DU [auth RA],  DV [auth RA],  DW [auth RA],  DX [auth RA],  DY [auth RE],  DZ [auth XA],  EAA [auth XA],  EBA [auth XA],  ECA [auth Y7],  ED [auth QA],  EDA [auth YA],  EE [auth QA],  EEA [auth YA],  EF [auth QA],  EFA [auth YA],  EG [auth QA],  EGA [auth YA],  EH [auth RA],  EHA [auth YA],  EI [auth RA],  EIA [auth YA],  EJ [auth RA],  EJA [auth YA],  EK [auth RA],  EKA [auth YA],  EL [auth RA],  ELA [auth YA],  EM [auth RA],  EMA [auth YA],  EN [auth RA],  ENA [auth YA],  EO [auth RA],  EOA [auth YA],  EP [auth RA],  EPA [auth YA],  EQ [auth RA],  EQA [auth YA],  ER [auth RA],  ERA [auth YA],  ES [auth RA],  ESA [auth YA],  ET [auth RA],  ETA [auth YB],  EU [auth RA],  EV [auth RA],  EW [auth RA],  EX [auth RA],  EY [auth RF],  EZ [auth XA],  FAA [auth XA],  FBA [auth XA],  FCA [auth Y8],  FD [auth QA],  FDA [auth YA],  FE [auth QA],  FEA [auth YA],  FF [auth QA],  FFA [auth YA],  FG [auth QA],  FGA [auth YA],  FH [auth RA],  FHA [auth YA],  FI [auth RA],  FIA [auth YA],  FJ [auth RA],  FJA [auth YA],  FK [auth RA],  FKA [auth YA],  FL [auth RA],  FLA [auth YA],  FM [auth RA],  FMA [auth YA],  FN [auth RA],  FNA [auth YA],  FO [auth RA],  FOA [auth YA],  FP [auth RA],  FPA [auth YA],  FQ [auth RA],  FQA [auth YA],  FR [auth RA],  FRA [auth YA],  FS [auth RA],  FSA [auth YA],  FT [auth RA],  FTA [auth YB],  FU [auth RA],  FV [auth RA],  FW [auth RA],  FX [auth RA],  FY [auth RF],  FZ [auth XA],  GAA [auth XA],  GBA [auth XA],  GD [auth QA],  GDA [auth YA],  GE [auth QA],  GEA [auth YA],  GF [auth QA],  GFA [auth YA],  GG [auth QA],  GGA [auth YA],  GH [auth RA],  GHA [auth YA],  GI [auth RA],  GIA [auth YA],  GJ [auth RA],  GJA [auth YA],  GK [auth RA],  GKA [auth YA],  GL [auth RA],  GLA [auth YA],  GM [auth RA],  GMA [auth YA],  GN [auth RA],  GNA [auth YA],  GO [auth RA],  GOA [auth YA],  GP [auth RA],  GPA [auth YA],  GQ [auth RA],  GQA [auth YA],  GR [auth RA],  GRA [auth YA],  GS [auth RA],  GSA [auth YA],  GT [auth RA],  GTA [auth YB],  GU [auth RA],  GV [auth RA],  GW [auth RA],  GX [auth RA],  GY [auth RN],  GZ [auth XA],  HAA [auth XA],  HBA [auth XA],  HCA [auth YA],  HD [auth QA],  HDA [auth YA],  HE [auth QA],  HEA [auth YA],  HF [auth QA],  HFA [auth YA],  HG [auth QA],  HGA [auth YA],  HH [auth RA],  HHA [auth YA],  HI [auth RA],  HIA [auth YA],  HJ [auth RA],  HJA [auth YA],  HK [auth RA],  HKA [auth YA],  HL [auth RA],  HLA [auth YA],  HM [auth RA],  HMA [auth YA],  HN [auth RA],  HNA [auth YA],  HO [auth RA],  HOA [auth YA],  HP [auth RA],  HPA [auth YA],  HQ [auth RA],  HQA [auth YA],  HR [auth RA],  HRA [auth YA],  HS [auth RA],  HSA [auth YA],  HT [auth RA],  HTA [auth YB],  HU [auth RA],  HV [auth RA],  HW [auth RA],  HX [auth RA],  HY [auth RO],  HZ [auth XA],  IAA [auth XA],  IBA [auth XA],  ICA [auth YA],  ID [auth QA],  IDA [auth YA],  IE [auth QA],  IEA [auth YA],  IF [auth QA],  IFA [auth YA],  IG [auth QA],  IGA [auth YA],  IH [auth RA],  IHA [auth YA],  II [auth RA],  IIA [auth YA],  IJ [auth RA],  IJA [auth YA],  IK [auth RA],  IKA [auth YA],  IL [auth RA],  ILA [auth YA],  IM [auth RA],  IMA [auth YA],  IN [auth RA],  INA [auth YA],  IO [auth RA],  IOA [auth YA],  IP [auth RA],  IPA [auth YA],  IQ [auth RA],  IQA [auth YA],  IR [auth RA],  IRA [auth YA],  IS [auth RA],  ISA [auth YA],  IT [auth RA],  ITA [auth YB],  IU [auth RA],  IV [auth RA],  IW [auth RA],  IX [auth RA],  IY [auth RP],  IZ [auth XA],  JAA [auth XA],  JBA [auth XA],  JCA [auth YA],  JD [auth QA],  JDA [auth YA],  JE [auth QA],  JEA [auth YA],  JF [auth QA],  JFA [auth YA],  JG [auth QA],  JGA [auth YA],  JH [auth RA],  JHA [auth YA],  JI [auth RA],  JIA [auth YA],  JJ [auth RA],  JJA [auth YA],  JK [auth RA],  JKA [auth YA],  JL [auth RA],  JLA [auth YA],  JM [auth RA],  JMA [auth YA],  JN [auth RA],  JNA [auth YA],  JO [auth RA],  JOA [auth YA],  JP [auth RA],  JPA [auth YA],  JQ [auth RA],  JQA [auth YA],  JR [auth RA],  JRA [auth YA],  JS [auth RA],  JSA [auth YA],  JT [auth RA],  JTA [auth YB],  JU [auth RA],  JV [auth RA],  JW [auth RA],  JX [auth RA],  JY [auth RQ],  JZ [auth XA],  KAA [auth XA],  KBA [auth XA],  KCA [auth YA],  KD [auth QA],  KDA [auth YA],  KE [auth QA],  KEA [auth YA],  KF [auth QA],  KFA [auth YA],  KG [auth QA],  KGA [auth YA],  KH [auth RA],  KHA [auth YA],  KI [auth RA],  KIA [auth YA],  KJ [auth RA],  KJA [auth YA],  KK [auth RA],  KKA [auth YA],  KL [auth RA],  KLA [auth YA],  KM [auth RA],  KMA [auth YA],  KN [auth RA],  KNA [auth YA],  KO [auth RA],  KOA [auth YA],  KP [auth RA],  KPA [auth YA],  KQ [auth RA],  KQA [auth YA],  KR [auth RA],  KRA [auth YA],  KS [auth RA],  KSA [auth YA],  KT [auth RA],  KTA [auth YB],  KU [auth RA],  KV [auth RA],  KW [auth RA],  KX [auth RA],  KZ [auth XA],  LAA [auth XA],  LBA [auth XA],  LCA [auth YA],  LD [auth QA],  LDA [auth YA],  LE [auth QA],  LEA [auth YA],  LF [auth QA],  LFA [auth YA],  LG [auth QA],  LGA [auth YA],  LH [auth RA],  LHA [auth YA],  LI [auth RA],  LIA [auth YA],  LJ [auth RA],  LJA [auth YA],  LK [auth RA],  LKA [auth YA],  LL [auth RA],  LLA [auth YA],  LM [auth RA],  LMA [auth YA],  LN [auth RA],  LNA [auth YA],  LO [auth RA],  LOA [auth YA],  LP [auth RA],  LPA [auth YA],  LQ [auth RA],  LQA [auth YA],  LR [auth RA],  LRA [auth YA],  LS [auth RA],  LSA [auth YA],  LT [auth RA],  LTA [auth YB],  LU [auth RA],  LV [auth RA],  LW [auth RA],  LX [auth RA],  LY [auth XA],  LZ [auth XA],  MAA [auth XA],  MBA [auth XA],  MCA [auth YA],  MD [auth QA],  MDA [auth YA],  ME [auth QA],  MEA [auth YA],  MF [auth QA],  MFA [auth YA],  MG [auth QA],  MGA [auth YA],  MH [auth RA],  MHA [auth YA],  MI [auth RA],  MIA [auth YA],  MJ [auth RA],  MJA [auth YA],  MK [auth RA],  MKA [auth YA],  ML [auth RA],  MLA [auth YA],  MM [auth RA],  MMA [auth YA],  MN [auth RA],  MNA [auth YA],  MO [auth RA],  MOA [auth YA],  MP [auth RA],  MPA [auth YA],  MQ [auth RA],  MQA [auth YA],  MR [auth RA],  MRA [auth YA],  MS [auth RA],  MSA [auth YA],  MT [auth RA],  MTA [auth YD],  MU [auth RA],  MV [auth RA],  MW [auth RA],  MX [auth RA],  MY [auth XA],  MZ [auth XA],  NAA [auth XA],  NBA [auth XA],  NCA [auth YA],  ND [auth QA],  NDA [auth YA],  NE [auth QA],  NEA [auth YA],  NF [auth QA],  NFA [auth YA],  NGA [auth YA],  NH [auth RA],  NHA [auth YA],  NI [auth RA],  NIA [auth YA],  NJ [auth RA],  NJA [auth YA],  NK [auth RA],  NKA [auth YA],  NL [auth RA],  NLA [auth YA],  NM [auth RA],  NMA [auth YA],  NN [auth RA],  NNA [auth YA],  NO [auth RA],  NOA [auth YA],  NP [auth RA],  NPA [auth YA],  NQ [auth RA],  NQA [auth YA],  NR [auth RA],  NRA [auth YA],  NS [auth RA],  NSA [auth YA],  NT [auth RA],  NTA [auth YE],  NU [auth RA],  NV [auth RA],  NW [auth RA],  NX [auth RA],  NY [auth XA],  NZ [auth XA],  OAA [auth XA],  OBA [auth XA],  OCA [auth YA],  OD [auth QA],  ODA [auth YA],  OE [auth QA],  OEA [auth YA],  OF [auth QA],  OFA [auth YA],  OG [auth QF],  OGA [auth YA],  OH [auth RA],  OHA [auth YA],  OI [auth RA],  OIA [auth YA],  OJ [auth RA],  OJA [auth YA],  OK [auth RA],  OKA [auth YA],  OL [auth RA],  OLA [auth YA],  OM [auth RA],  OMA [auth YA],  ON [auth RA],  ONA [auth YA],  OO [auth RA],  OOA [auth YA],  OP [auth RA],  OPA [auth YA],  OQ [auth RA],  OQA [auth YA],  OR [auth RA],  ORA [auth YA],  OS [auth RA],  OSA [auth YA],  OT [auth RA],  OTA [auth YE],  OU [auth RA],  OV [auth RA],  OW [auth RA],  OX [auth RB],  OY [auth XA],  OZ [auth XA],  PAA [auth XA],  PBA [auth XA],  PCA [auth YA],  PD [auth QA],  PDA [auth YA],  PE [auth QA],  PEA [auth YA],  PF [auth QA],  PFA [auth YA],  PG [auth QH],  PGA [auth YA],  PH [auth RA],  PHA [auth YA],  PI [auth RA],  PIA [auth YA],  PJ [auth RA],  PJA [auth YA],  PK [auth RA],  PKA [auth YA],  PL [auth RA],  PLA [auth YA],  PM [auth RA],  PMA [auth YA],  PN [auth RA],  PNA [auth YA],  PO [auth RA],  POA [auth YA],  PP [auth RA],  PPA [auth YA],  PQ [auth RA],  PQA [auth YA],  PR [auth RA],  PRA [auth YA],  PS [auth RA],  PSA [auth YA],  PT [auth RA],  PTA [auth YF],  PU [auth RA],  PV [auth RA],  PW [auth RA],  PX [auth RB],  PY [auth XA],  PZ [auth XA],  QAA [auth XA],  QBA [auth XA],  QCA [auth YA],  QD [auth QA],  QDA [auth YA],  QE [auth QA],  QEA [auth YA],  QF [auth QA],  QFA [auth YA],  QG [auth QH],  QGA [auth YA],  QH [auth RA],  QHA [auth YA],  QI [auth RA],  QIA [auth YA],  QJ [auth RA],  QJA [auth YA],  QK [auth RA],  QKA [auth YA],  QL [auth RA],  QLA [auth YA],  QM [auth RA],  QMA [auth YA],  QN [auth RA],  QNA [auth YA],  QO [auth RA],  QOA [auth YA],  QP [auth RA],  QPA [auth YA],  QQ [auth RA],  QQA [auth YA],  QR [auth RA],  QRA [auth YA],  QS [auth RA],  QSA [auth YA],  QT [auth RA],  QTA [auth YQ],  QU [auth RA],  QV [auth RA],  QW [auth RA],  QX [auth RB],  QY [auth XA],  QZ [auth XA],  RAA [auth XA],  RBA [auth XA],  RCA [auth YA],  RD [auth QA],  RDA [auth YA],  RE [auth QA],  REA [auth YA],  RF [auth QA],  RFA [auth YA],  RG [auth QL],  RGA [auth YA],  RH [auth RA],  RHA [auth YA],  RI [auth RA],  RIA [auth YA],  RJ [auth RA],  RJA [auth YA],  RK [auth RA],  RKA [auth YA],  RL [auth RA],  RLA [auth YA],  RM [auth RA],  RMA [auth YA],  RN [auth RA],  RNA [auth YA],  RO [auth RA],  ROA [auth YA],  RP [auth RA],  RPA [auth YA],  RQ [auth RA],  RQA [auth YA],  RR [auth RA],  RRA [auth YA],  RS [auth RA],  RSA [auth YA],  RT [auth RA],  RTA [auth YR],  RU [auth RA],  RV [auth RA],  RW [auth RA],  RX [auth RB],  RY [auth XA],  RZ [auth XA],  SAA [auth XA],  SBA [auth XA],  SCA [auth YA],  SD [auth QA],  SDA [auth YA],  SE [auth QA],  SEA [auth YA],  SF [auth QA],  SFA [auth YA],  SGA [auth YA],  SH [auth RA],  SHA [auth YA],  SI [auth RA],  SIA [auth YA],  SJ [auth RA],  SJA [auth YA],  SK [auth RA],  SKA [auth YA],  SL [auth RA],  SLA [auth YA],  SM [auth RA],  SMA [auth YA],  SN [auth RA],  SNA [auth YA],  SO [auth RA],  SOA [auth YA],  SP [auth RA],  SPA [auth YA],  SQ [auth RA],  SQA [auth YA],  SR [auth RA],  SRA [auth YA],  SS [auth RA],  SSA [auth YA],  ST [auth RA],  STA [auth YR],  SU [auth RA],  SV [auth RA],  SW [auth RA],  SX [auth RB],  SY [auth XA],  SZ [auth XA],  TAA [auth XA],  TBA [auth XA],  TCA [auth YA],  TD [auth QA],  TDA [auth YA],  TE [auth QA],  TEA [auth YA],  TF [auth QA],  TFA [auth YA],  TG [auth R0],  TGA [auth YA],  TH [auth RA],  THA [auth YA],  TI [auth RA],  TIA [auth YA],  TJ [auth RA],  TJA [auth YA],  TK [auth RA],  TKA [auth YA],  TL [auth RA],  TLA [auth YA],  TM [auth RA],  TMA [auth YA],  TN [auth RA],  TNA [auth YA],  TO [auth RA],  TOA [auth YA],  TP [auth RA],  TPA [auth YA],  TQ [auth RA],  TQA [auth YA],  TR [auth RA],  TRA [auth YA],  TS [auth RA],  TSA [auth YA],  TT [auth RA],  TTA [auth YU],  TU [auth RA],  TV [auth RA],  TW [auth RA],  TX [auth RB],  TY [auth XA],  TZ [auth XA],  UAA [auth XA],  UBA [auth XA],  UCA [auth YA],  UD [auth QA],  UDA [auth YA],  UE [auth QA],  UEA [auth YA],  UF [auth QA],  UFA [auth YA],  UG [auth R0],  UGA [auth YA],  UH [auth RA],  UHA [auth YA],  UI [auth RA],  UIA [auth YA],  UJ [auth RA],  UJA [auth YA],  UK [auth RA],  UKA [auth YA],  UL [auth RA],  ULA [auth YA],  UM [auth RA],  UMA [auth YA],  UN [auth RA],  UNA [auth YA],  UO [auth RA],  UOA [auth YA],  UP [auth RA],  UPA [auth YA],  UQ [auth RA],  UQA [auth YA],  UR [auth RA],  URA [auth YA],  US [auth RA],  USA [auth YA],  UT [auth RA],  UTA [auth YX],  UU [auth RA],  UV [auth RA],  UW [auth RA],  UX [auth RB],  UY [auth XA],  UZ [auth XA],  VAA [auth XA],  VBA [auth XA],  VCA [auth YA],  VD [auth QA],  VDA [auth YA],  VE [auth QA],  VEA [auth YA],  VF [auth QA],  VFA [auth YA],  VG [auth R1],  VGA [auth YA],  VH [auth RA],  VHA [auth YA],  VI [auth RA],  VIA [auth YA],  VJ [auth RA],  VJA [auth YA],  VK [auth RA],  VKA [auth YA],  VL [auth RA],  VLA [auth YA],  VM [auth RA],  VMA [auth YA],  VN [auth RA],  VNA [auth YA],  VO [auth RA],  VOA [auth YA],  VP [auth RA],  VPA [auth YA],  VQ [auth RA],  VQA [auth YA],  VR [auth RA],  VRA [auth YA],  VS [auth RA],  VSA [auth YA],  VT [auth RA],  VU [auth RA],  VV [auth RA],  VW [auth RA],  VX [auth RB],  VY [auth XA],  VZ [auth XA],  WAA [auth XA],  WCA [auth YA],  WD [auth QA],  WDA [auth YA],  WE [auth QA],  WEA [auth YA],  WF [auth QA],  WFA [auth YA],  WG [auth R3],  WGA [auth YA],  WH [auth RA],  WHA [auth YA],  WI [auth RA],  WIA [auth YA],  WJ [auth RA],  WJA [auth YA],  WK [auth RA],  WKA [auth YA],  WL [auth RA],  WLA [auth YA],  WM [auth RA],  WMA [auth YA],  WN [auth RA],  WNA [auth YA],  WO [auth RA],  WOA [auth YA],  WP [auth RA],  WPA [auth YA],  WQ [auth RA],  WQA [auth YA],  WR [auth RA],  WRA [auth YA],  WS [auth RA],  WSA [auth YA],  WT [auth RA],  WU [auth RA],  WV [auth RA],  WW [auth RA],  WX [auth RB],  WY [auth XA],  WZ [auth XA],  XAA [auth XA],  XBA [auth XE],  XCA [auth YA],  XD [auth QA],  XDA [auth YA],  XE [auth QA],  XEA [auth YA],  XF [auth QA],  XFA [auth YA],  XGA [auth YA],  XH [auth RA],  XHA [auth YA],  XI [auth RA],  XIA [auth YA],  XJ [auth RA],  XJA [auth YA],  XK [auth RA],  XKA [auth YA],  XL [auth RA],  XLA [auth YA],  XM [auth RA],  XMA [auth YA],  XN [auth RA],  XNA [auth YA],  XO [auth RA],  XOA [auth YA],  XP [auth RA],  XPA [auth YA],  XQ [auth RA],  XQA [auth YA],  XR [auth RA],  XRA [auth YA],  XS [auth RA],  XSA [auth YA],  XT [auth RA],  XU [auth RA],  XV [auth RA],  XW [auth RA],  XX [auth RB],  XY [auth XA],  XZ [auth XA],  YAA [auth XA],  YCA [auth YA],  YD [auth QA],  YDA [auth YA],  YE [auth QA],  YEA [auth YA],  YF [auth QA],  YFA [auth YA],  YGA [auth YA],  YH [auth RA],  YHA [auth YA],  YI [auth RA],  YIA [auth YA],  YJ [auth RA],  YJA [auth YA],  YK [auth RA],  YKA [auth YA],  YL [auth RA],  YLA [auth YA],  YM [auth RA],  YMA [auth YA],  YN [auth RA],  YNA [auth YA],  YO [auth RA],  YOA [auth YA],  YP [auth RA],  YPA [auth YA],  YQ [auth RA],  YQA [auth YA],  YR [auth RA],  YRA [auth YA],  YS [auth RA],  YSA [auth YA],  YT [auth RA],  YU [auth RA],  YV [auth RA],  YW [auth RA],  YX [auth RB],  YY [auth XA],  YZ [auth XA],  ZAA [auth XA],  ZBA [auth Y1],  ZCA [auth YA],  ZD [auth QA],  ZDA [auth YA],  ZE [auth QA],  ZEA [auth YA],  ZF [auth QA],  ZFA [auth YA],  ZG [auth R8],  ZGA [auth YA],  ZH [auth RA],  ZHA [auth YA],  ZI [auth RA],  ZIA [auth YA],  ZJ [auth RA],  ZJA [auth YA],  ZK [auth RA],  ZKA [auth YA],  ZL [auth RA],  ZLA [auth YA],  ZM [auth RA],  ZMA [auth YA],  ZN [auth RA],  ZNA [auth YA],  ZO [auth RA],  ZOA [auth YA],  ZP [auth RA],  ZPA [auth YA],  ZQ [auth RA],  ZQA [auth YA],  ZR [auth RA],  ZRA [auth YA],  ZS [auth RA],  ZSA [auth YA],  ZT [auth RA],  ZU [auth RA],  ZV [auth RA],  ZW [auth RA],  ZX [auth RD],  ZY [auth XA],  ZZ [auth XA]
    MAGNESIUM ION
    Mg
    JLVVSXFLKOJNIY-UHFFFAOYSA-N
     Ligand Interaction
    Experimental Data & Validation

    Experimental Data

    • Method: X-RAY DIFFRACTION
    • Resolution: 3.50 Å
    • R-Value Free: 0.258 
    • R-Value Work: 0.240 
    • R-Value Observed: 0.241 
    • Space Group: P 21 21 21
    Unit Cell:
    Length ( Å )Angle ( ˚ )
    a = 210.74α = 90
    b = 450.26β = 90
    c = 626.11γ = 90
    Software Package:
    Software NamePurpose
    XDSdata reduction
    XSCALEdata scaling
    PHENIXphasing
    Cootmodel building
    PHENIXrefinement
    PDB_EXTRACTdata extraction

    Structure Validation

    View Full Validation Report



    Entry History & Funding Information

    Deposition Data


    Funding OrganizationLocationGrant Number
    National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)United StatesR01GM093278
    National Science Foundation (NSF, United States)United StatesCHE 1808711

    Revision History  (Full details and data files)

    • Version 1.0: 2020-10-14
      Type: Initial release
    • Version 1.1: 2020-10-21
      Changes: Database references