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| | <StructureSection load='5k8a' size='340' side='right'caption='[[5k8a]], [[Resolution|resolution]] 2.00Å' scene=''> | | <StructureSection load='5k8a' size='340' side='right'caption='[[5k8a]], [[Resolution|resolution]] 2.00Å' scene=''> |
| | == Structural highlights == | | == Structural highlights == |
| - | <table><tr><td colspan='2'>[[5k8a]] is a 8 chain structure with sequence from [http://en.wikipedia.org/wiki/Lk3_transgenic_mice Lk3 transgenic mice]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5K8A OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=5K8A FirstGlance]. <br> | + | <table><tr><td colspan='2'>[[5k8a]] is a 8 chain structure with sequence from [https://en.wikipedia.org/wiki/Mus_musculus Mus musculus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5K8A OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5K8A FirstGlance]. <br> |
| - | </td></tr><tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=PCA:PYROGLUTAMIC+ACID'>PCA</scene></td></tr> | + | </td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.999Å</td></tr> |
| - | <tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://proteopedia.org/fgij/fg.htm?mol=5k8a FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5k8a OCA], [http://pdbe.org/5k8a PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5k8a RCSB], [http://www.ebi.ac.uk/pdbsum/5k8a PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5k8a ProSAT]</span></td></tr> | + | <tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=PCA:PYROGLUTAMIC+ACID'>PCA</scene></td></tr> |
| | + | <tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=5k8a FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5k8a OCA], [https://pdbe.org/5k8a PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5k8a RCSB], [https://www.ebi.ac.uk/pdbsum/5k8a PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5k8a ProSAT]</span></td></tr> |
| | </table> | | </table> |
| | <div style="background-color:#fffaf0;"> | | <div style="background-color:#fffaf0;"> |
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| | </StructureSection> | | </StructureSection> |
| | [[Category: Large Structures]] | | [[Category: Large Structures]] |
| - | [[Category: Lk3 transgenic mice]] | + | [[Category: Mus musculus]] |
| - | [[Category: Gallagher, D T]] | + | [[Category: Gallagher DT]] |
| - | [[Category: Galvin, C V]] | + | [[Category: Galvin CV]] |
| - | [[Category: Karageorgos, I]] | + | [[Category: Karageorgos I]] |
| - | [[Category: Marino, J P]] | + | [[Category: Marino JP]] |
| - | [[Category: Immune system]]
| + | |
| - | [[Category: Measurement standard]]
| + | |
| - | [[Category: Pseudo-tetragonal packing]]
| + | |
| Structural highlights
Publication Abstract from PubMed
The reported data describe the crystallization, crystal packing, structure determination and twinning of the unliganded Fab (antigen-binding fragment) from the NISTmAb (standard reference material 8671). The raw atomic coordinates are available as Protein Data Bank structure 5K8A and biological aspects are described in the article, (Karageorgos et al., 2017) [1]. Crystal data show that the packing is unique, and show the basis for the crystal's twinned growth. Twinning is a common and often serious problem in protein structure determination by x-ray crystallography [2]. In the present case the twinning is due to a small deviation (about 0.3 nm) from 4-fold symmetry in the primary intermolecular interface. The deviation produces pseudosymmetry, generating slightly different conformations of the protein, and alternating strong and weak forms of key packing interfaces throughout the lattice.
Data on crystal organization in the structure of the Fab fragment from the NIST reference antibody, RM 8671.,Gallagher DT, Karageorgos I, Hudgens JW, Galvin CV Data Brief. 2017 Nov 8;16:29-36. doi: 10.1016/j.dib.2017.11.013. eCollection 2018, Feb. PMID:29167817[1]
From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.
References
- ↑ Gallagher DT, Karageorgos I, Hudgens JW, Galvin CV. Data on crystal organization in the structure of the Fab fragment from the NIST reference antibody, RM 8671. Data Brief. 2017 Nov 8;16:29-36. doi: 10.1016/j.dib.2017.11.013. eCollection 2018, Feb. PMID:29167817 doi:http://dx.doi.org/10.1016/j.dib.2017.11.013
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