4CCM

60S ribosomal protein L8 histidine hydroxylase (NO66) in complex with Mn(II), N-oxalylglycine (NOG) and 60S ribosomal protein L8 (RPL8 G220C) peptide fragment (complex-1)

Summary for 4CCM

Related2XDV 4BXF 4CCJ 4CCK 4CCN 4CCO 4DIQ
DescriptorBIFUNCTIONAL LYSINE-SPECIFIC DEMETHYLASE AND HISTIDYL-HYDROXYLASE NO66, 60S RIBOSOMAL PROTEIN L8, MANGANESE (II) ION, ... (6 entities in total)
Functional Keywordsoxidoreductase, non-heme, iron-binding, dsbh, 2- oxoglutarate, dioxygenase, jmjc domain, ribosome biogenesis, nuclear protein, rpl8, beta-hydroxylation, transcription and epigenetic regulation, signaling
Biological sourceHOMO SAPIENS (HUMAN)
Total number of polymer chains4
Total molecular weight114607.29
Authors
Chowdhury, R.,Schofield, C.J. (deposition date: 2013-10-23, release date: 2014-05-14, Last modification date: 2019-02-06)
Primary citation
Chowdhury, R.,Sekirnik, R.,Brissett, N.C.,Krojer, T.,Ho, C.H.,Ng, S.S.,Clifton, I.J.,Ge, W.,Kershaw, N.J.,Fox, G.C.,Muniz, J.R.C.,Vollmar, M.,Phillips, C.,Pilka, E.S.,Kavanagh, K.L.,von Delft, F.,Oppermann, U.,McDonough, M.A.,Doherty, A.J.,Schofield, C.J.
Ribosomal oxygenases are structurally conserved from prokaryotes to humans.
Nature, 510:422-426, 2014
PubMed: 24814345 (PDB entries with the same primary citation)
DOI: 10.1038/nature13263
MImport into Mendeley
Experimental method
X-RAY DIFFRACTION (2.51 Å)
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Structure validation

RfreeClashscoreRamachandran outliersSidechain outliersRSRZ outliers 0.23513 0.2% 3.2% 2.4%MetricValuePercentile RanksWorseBetterPercentile relative to all X-ray structuresPercentile relative to X-ray structures of similar resolution

More Asymmetric unit images

Molmil generated image of 4ccm
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Molmil generated image of 4ccm
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Molmil generated image of 4ccm
rotated about y axis by 90°

More Biological unit images

Molmil generated image of 4ccm
no rotation
Molmil generated image of 4ccm
rotated about x axis by 90°
Molmil generated image of 4ccm
rotated about y axis by 90°
(*)In the case of coarse surface representation, the asymmetric unit is shown as red ribbon representation.
Coordinate files for Biological unit (4ccm.pdb1.gz [315.26 KB])
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