cryo-EM Re-Refine

Table showing results for February 2024

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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	# other	# H	Logfile
✘	3JA8	6338	2024-02-21	2015-05-09	3.8	3.83	—	3.8	0.014	1.57	0.0	0.06	10.98	0.01	1.749	29.23	0.37	7.9	91.0	1.1	-4.26	0.68	0.80	2.30	—	—	—	—	—	—	—	—	—	—	—	—	—	—	—	—	—	—	29838	3786	12	0	6	0	logfile
✘	3J8H	2807	2024-02-14	2014-10-26	3.8	3.95	—	3.8	0.006	1.31	4.0	0.05	10.89	0.01	1.488	33.49	2.47	5.3	92.8	1.9	-2.06	0.65	0.64	1.52	—	—	—	—	—	—	—	—	—	—	—	—	—	—	—	—	—	—	111160	12796	12	0	2276	0	logfile
✘	4CE4	2490	2024-02-15	2013-11-08	4.9	—	—	—	—	—	—	—	—	—	—	—	—	—	—	—	—	—	—	—	—	—	—	—	—	—	—	—	—	—	—	—	—	—	—	—	—	—	65473	3572	40	1437	984	0	logfile
✘	3J5Q	5776	2024-02-17	2013-10-28	3.8	—	—	—	—	—	—	—	—	—	—	—	—	—	—	—	—	—	—	—	—	—	—	—	—	—	—	—	—	—	—	—	—	—	—	—	—	—	18556	2448	8	0	44	292	logfile
✘	2XEA	1730	2024-02-14	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	0	0	logfile
✘	3A5X	1641	2024-02-13	2009-08-13	4.0	—	—	—	—	—	—	—	—	—	—	—	—	—	—	—	-4.41	—	—	—	—	—	—	—	—	—	—	—	—	—	—	—	—	—	—	—	—	—	3616	494	1	0	0	0	logfile