cryo-EM Re-Refine

Table showing results for January 2025

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peach highlight: initial model; blue highlight: re-refined model

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Status	PDB code	EMDB code	Date processed	Release Date	Resolution	D₉₉	D_FSC	D_Model	Bond rmsd	Angle rmsd	Cβ devts	Chirality	Dihedral rmsd	Plane rmsd	Min nonbonded	Clashscore	Rota outliers	Rama allowed	Rama favored	Rama outliers	Z-score	CC_box	CC_mask	EMRinger	D_Model	Bond rmsd	Angle rmsd	Cβ devts	Chirality	Dihedral rmsd	Plane rmsd	Min nonbonded	Clashscore	Rota outliers	Rama allowed	Rama favored	Rama outliers	Z-score	RMSD	CC_box	CC_mask	EMRinger	# atoms	# residues	# chains	# nucleotides	Logfile
✘	3J06	5185	2025-01-19	2011-04-26	3.3	2.88	—	3.5	0.011	2.34	441.0	0.15	21.60	0.01	1.607	79.64	14.71	21.1	65.4	13.5	-7.24	0.56	0.80	1.90	—	—	—	—	—	—	—	—	—	—	—	—	—	—	—	—	—	—	62916	7595	98	147	logfile
✘	2XEA	1730	2025-01-19	2010-05-12	4.6	4.10	—	4.2	0.012	2.12	0.0	0.12	20.75	0.02	1.226	2.63	3.68	8.6	90.1	1.3	-3.51	0.39	0.42	—	—	—	—	—	—	—	—	—	—	—	—	—	—	—	—	—	—	—	62671	7546	98	147	logfile
✘	3A5X	1641	2025-01-13	2009-08-13	4.0	—	—	—	—	—	—	—	—	—	—	—	—	—	—	—	-4.41	—	—	—	—	—	—	—	—	—	—	—	—	—	—	—	—	—	—	—	—	—	3616	494	1	0	logfile