Crystal structure of IOMA-class CLK31 Fab from an HIV-1 naive donor in complex with a germline-targeting gp120 engineered outer domain eOD-GT8 at 2.6 A

Summary for 6D2P

DescriptorGermline-targeting HIV-1 gp120 engineered outer domain eOD-GT8, IOMAclass naive CLK31 Fab heavy chain, IOMAclass naive CLK31 Fab light chain, ... (5 entities in total)
Functional Keywordshiv-1 gp120, engineered outer domain (eod), germline targeting, cd4 binding site, ioma-class naive human germline antibody, immune system, viral-protein complex, healthy hiv-1 negative donor
Biological sourceHomo sapiens (Human)
Total number of polymer chains3
Total molecular weight66465.18
Sarkar, A.,Wilson, I.A. (deposition date: 2018-04-13, release date: 2019-01-16)
Primary citation
Havenar-Daughton, C.,Sarkar, A.,Kulp, D.W.,Toy, L.,Hu, X.,Deresa, I.,Kalyuzhniy, O.,Kaushik, K.,Upadhyay, A.A.,Menis, S.,Landais, E.,Cao, L.,Diedrich, J.K.,Kumar, S.,Schiffner, T.,Reiss, S.M.,Seumois, G.,Yates, J.R.,Paulson, J.C.,Bosinger, S.E.,Wilson, I.A.,Schief, W.R.,Crotty, S.
The human naive B cell repertoire contains distinct subclasses for a germline-targeting HIV-1 vaccine immunogen.
Sci Transl Med, 10:-, 2018
PubMed: 29973404 (PDB entries with the same primary citation)
DOI: 10.1126/scitranslmed.aat0381
MImport into Mendeley
Experimental method

Structure validation

RfreeClashscoreRamachandran outliersSidechain outliersRSRZ outliers 0.27060 1.8% 3.5%MetricValuePercentile RanksWorseBetterPercentile relative to all X-ray structuresPercentile relative to X-ray structures of similar resolution

More Asymmetric unit images

Molmil generated image of 6d2p
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Molmil generated image of 6d2p
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