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Structure paper

TitleStructural Basis for Genetic-Code Expansion with Bulky Lysine Derivatives by an Engineered Pyrrolysyl-tRNA Synthetase.
Journal, issue, pagesCell Chem Biol, Vol. 26, Page 936-, Year 2019
Publish dateJul 18, 2018 (structure data deposition date)
AuthorsYanagisawa, T. / Kuratani, M. / Seki, E. / Hino, N. / Sakamoto, K. / Yokoyama, S.
External linksCell Chem Biol / PubMed:31031143
MethodsX-ray diffraction
Resolution1.368 - 1.842 Å
Structure data

PDB-6aac:
Crystal structure of Methanosarcina mazei PylRS(Y306A/Y384F) complexed with mAzZLys
Method: X-RAY DIFFRACTION / Resolution: 1.479 Å

PDB-6aad:
Crystal structure of Methanosarcina mazei PylRS(Y306A/Y384F) complexed with mTmdZLys
Method: X-RAY DIFFRACTION / Resolution: 1.444 Å

PDB-6aan:
Crystal structure of Methanosarcina mazei PylRS(Y306A/Y384F) complexed with mEtZLys
Method: X-RAY DIFFRACTION / Resolution: 1.51 Å

PDB-6aao:
Crystal structure of Methanosarcina mazei PylRS(Y306A/Y384F) complexed with TCO*Lys
Method: X-RAY DIFFRACTION / Resolution: 1.403 Å

PDB-6aap:
Crystal structure of Methanosarcina mazei PylRS(Y306A/Y384F) complexed with ZaeSeCys
Method: X-RAY DIFFRACTION / Resolution: 1.5 Å

PDB-6aaq:
Crystal structure of Methanosarcina mazei PylRS(Y306A/Y384F) complexed with BCNLys
Method: X-RAY DIFFRACTION / Resolution: 1.551 Å

PDB-6aaz:
Crystal structure of Methanosarcina mazei PylRS(Y306A/Y384F) complexed with pNO2ZLys
Method: X-RAY DIFFRACTION / Resolution: 1.842 Å

PDB-6ab0:
Crystal structure of Methanosarcina mazei PylRS(Y306A/Y384F) complexed with pAmPyLys
Method: X-RAY DIFFRACTION / Resolution: 1.441 Å

PDB-6ab1:
Crystal structure of Methanosarcina mazei PylRS(Y306A/Y384F) complexed with oAzZLys
Method: X-RAY DIFFRACTION / Resolution: 1.381 Å

PDB-6ab2:
Crystal structure of Methanosarcina mazei PylRS(Y306A/Y384F) complexed with oClZLys
Method: X-RAY DIFFRACTION / Resolution: 1.4 Å

PDB-6ab8:
Crystal structure of Methanosarcina mazei PylRS(Y306A/Y384F) complexed with ZLys
Method: X-RAY DIFFRACTION / Resolution: 1.753 Å

PDB-6abk:
Crystal structure of Methanosarcina mazei PylRS(Y306A/Y384F) complexed with TeocLys
Method: X-RAY DIFFRACTION / Resolution: 1.58 Å

PDB-6abl:
Crystal structure of Methanosarcina mazei PylRS(Y306A/Y384F) complexed with oBrZLys
Method: X-RAY DIFFRACTION / Resolution: 1.47 Å

PDB-6abm:
Crystal structure of Methanosarcina mazei PylRS(Y306A/Y384F) complexed with pTmdZLys
Method: X-RAY DIFFRACTION / Resolution: 1.368 Å

Chemicals

ChemComp-MG:
Unknown entry

ChemComp-ATP:
ADENOSINE-5'-TRIPHOSPHATE / ATP, energy-carrying molecule*YM / Adenosine triphosphate

ChemComp-9TR:
N6-{[(3-azidophenyl)methoxy]carbonyl}-L-lysine

ChemComp-K:
Unknown entry

ChemComp-PEG:
DI(HYDROXYETHYL)ETHER / Diethylene glycol

ChemComp-PGE:
TRIETHYLENE GLYCOL / Polyethylene glycol

ChemComp-HOH:
WATER / Water

ChemComp-9TU:
N6-[({3-[3-(trifluoromethyl)-3H-diaziren-3-yl]phenyl}methoxy)carbonyl]-L-lysine

ChemComp-9TX:
N6-{[(3-ethynylphenyl)methoxy]carbonyl}-L-lysine

ChemComp-9U0:
N6-({[(1S,2E)-cyclooct-2-en-1-yl]oxy}carbonyl)-L-lysine

ChemComp-9U6:
3-[(2-{[(benzyloxy)carbonyl]amino}ethyl)selanyl]-L-alanine

ChemComp-9U9:
N6-({[(1R,8S,9s)-bicyclo[6.1.0]non-4-yn-9-yl]methoxy}carbonyl)-L-lysine

ChemComp-9UC:
N6-{[(4-nitrophenyl)methoxy]carbonyl}-L-lysine

ChemComp-CIT:
CITRIC ACID / Citric acid

ChemComp-9UF:
N6-{[(6-aminopyridin-3-yl)methoxy]carbonyl}-L-lysine

ChemComp-PO4:
PHOSPHATE ION / Phosphate

ChemComp-9V0:
(2S)-2-azanyl-6-[(2-azidophenyl)methoxycarbonylamino]hexanoic acid

ChemComp-9V6:
(2S)-2-azanyl-6-[(2-chlorophenyl)methoxycarbonylamino]hexanoic acid

ChemComp-EDO:
1,2-ETHANEDIOL / Ethylene glycol

ChemComp-9VC:
(2S)-2-azanyl-6-(phenylmethoxycarbonylamino)hexanoic acid

ChemComp-9VF:
(2S)-2-azanyl-6-(trimethylsilylmethoxycarbonylamino)hexanoic acid

ChemComp-9VL:
(2S)-2-azanyl-6-[(2-bromophenyl)methoxycarbonylamino]hexanoic acid

ChemComp-9VR:
(2S)-2-azanyl-6-[[4-[3-(trifluoromethyl)-1,2-diazirin-3-yl]phenyl]methoxycarbonylamino]hexanoic acid

Source
  • methanosarcina mazei jcm 9314 (archaea)
KeywordsTRANSLATION / aminoacyl-tRNA synthetase / non-natural amino acids / pyrrolysyl-tRNA synthetase / tRNA

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