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Structure paper

TitleEngineered antigen-binding fragments for enhanced crystallization of antibody:antigen complexes.
Journal, issue, pagesProtein Sci., Vol. 33, Page e4824-e4824, Year 2024
Publish dateJun 12, 2023 (structure data deposition date)
AuthorsBruce, H.A. / Singer, A.U. / Filippova, E.V. / Blazer, L.L. / Adams, J.J. / Enderle, L. / Ben-David, M. / Radley, E.H. / Mao, D.Y.L. / Pau, V. ...Bruce, H.A. / Singer, A.U. / Filippova, E.V. / Blazer, L.L. / Adams, J.J. / Enderle, L. / Ben-David, M. / Radley, E.H. / Mao, D.Y.L. / Pau, V. / Orlicky, S. / Sicheri, F. / Kurinov, I. / Atwell, S. / Kossiakoff, A.A. / Sidhu, S.S.
External linksProtein Sci. / PubMed:37945533
MethodsX-ray diffraction
Resolution1.9 - 3.5 Å
Structure data

PDB-8t58:
Structure of VHH-Fab complex with engineered FNQIKG elbow region
Method: X-RAY DIFFRACTION / Resolution: 2.23 Å

PDB-8t6i:
Structure of VHH-Fab complex with engineered Crystal Kappa region
Method: X-RAY DIFFRACTION / Resolution: 2.55 Å

PDB-8t7f:
Structure of the S1 variant of Fab F1
Method: X-RAY DIFFRACTION / Resolution: 3.5 Å

PDB-8t7g:
Structure of the CK variant of Fab F1 (FabC-F1)
Method: X-RAY DIFFRACTION / Resolution: 2 Å

PDB-8t7i:
Structure of the S1CE variant of Fab F1 (FabS1CE-F1)
Method: X-RAY DIFFRACTION / Resolution: 2.6 Å

PDB-8t8i:
Structure of VHH-Fab complex with engineered Elbow FNQIKG, Crystal Kappa and SER substitutions
Method: X-RAY DIFFRACTION / Resolution: 2.52 Å

PDB-8t9y:
Structure of VHH-Fab complex with engineered Elbow FNQIKG and Crystal Kappa regions
Method: X-RAY DIFFRACTION / Resolution: 2.52 Å

PDB-8trs:
Structure of the EphA2 CRD bound to FabS1CE_C1, trigonal form
Method: X-RAY DIFFRACTION / Resolution: 1.9 Å

PDB-8trt:
Structure of the EphA2 CRD bound to FabS1CE_C1, monoclinic form
Method: X-RAY DIFFRACTION / Resolution: 3 Å

PDB-8ts5:
Structure of the apo FabS1C_C1
Method: X-RAY DIFFRACTION / Resolution: 2.1 Å

Chemicals

ChemComp-CL:
Unknown entry

ChemComp-GOL:
GLYCEROL

ChemComp-HOH:
WATER

ChemComp-EPE:
4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID / pH buffer*YM

ChemComp-SO4:
SULFATE ION

ChemComp-EDO:
1,2-ETHANEDIOL

ChemComp-PEG:
DI(HYDROXYETHYL)ETHER

ChemComp-NA:
Unknown entry

ChemComp-SIN:
SUCCINIC ACID

ChemComp-PO4:
PHOSPHATE ION

ChemComp-BTB:
2-[BIS-(2-HYDROXY-ETHYL)-AMINO]-2-HYDROXYMETHYL-PROPANE-1,3-DIOL / pH buffer*YM

ChemComp-ACT:
ACETATE ION

Source
  • homo sapiens (human)
KeywordsIMMUNE SYSTEM / NabFab / Nanobody / Antibody Fragment / enhanced crystallization / EphA2 binding / engineered protein / Fab / expressed protein / SIGNALING PROTEIN/IMMUNE SYSTEM / Cell signalling / antibody / agonist / high affinity / clustering / activation / SIGNALING PROTEIN-IMMUNE SYSTEM complex

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