Table showing results for December 2024

The table shows a selection of parameters. Activate more columns using the drop-down menus below.
peach highlight: initial model; blue highlight: re-refined model

Resolution

• Resolution
• D₉₉
• D_FSC
• D_Model
• D_Model refined

Map vs model

• CC_box
• CC_mask
• EMRinger
• CC_box refined
• CC_mask refined
• EMRinger refined

Geometry

• Bond rmsd
• Angle rmsd
• Cβ devts
• Chirality
• Dihedral rmsd
• Plane rmsd
• Min nonbonded
• Clashscore
• Rota outliers
• Bond rmsd refined
• Angle rmsd refined
• Cβ devts refined
• Chirality refined
• Dihedral rmsd refined
• Plane rmsd refined
• Min nonbonded refined
• Clashscore refined
• Rota outliers refined
• RMSD

Ramachandran

• Rama allowed
• Rama favored
• Rama outliers
• Z-score
• Rama allowed refined
• Rama favored refined
• Rama outliers refined
• Z-score refined

Composition

• # atoms
• # residues
• # chains
• # nucleotides
• # other
• # water
• # H

Other

• Date processed
• Release Date

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Status	PDB code	EMDB code	Date processed	Release Date	Resolution	D99	DFSC	DModel	Bond rmsd	Angle rmsd	Cβ devts	Chirality	Dihedral rmsd	Plane rmsd	Min nonbonded	Clashscore	Rota outliers	Rama allowed	Rama favored	Rama outliers	Z-score	CCbox	CCmask	EMRinger	DModel	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	CCbox	CCmask	EMRinger	# atoms	# residues	# chains	# nucleotides	# other	# water	# H	Logfile
✔	7YNo	33967	2024-12-27	2022-07-31	2.8	2.92	2.23	3.1	0.008	0.79	0.0	0.05	12.19	0.00	2.252	22.12	0.00	7.3	92.7	0.0	-3.47	0.41	0.77	5.69	3.1	0.004	0.71	0.0	0.06	14.81	0.00	2.629	7.63	1.94	5.1	94.9	0.0	-2.19	0.91	0.43	0.80	5.36	2562	366	8	0	2	0	0	logfile
✔	7YNS	33970	2024-12-27	2022-07-31	3.0	2.79	2.25	3.1	0.009	0.66	0.0	0.06	11.51	0.00	2.233	10.18	0.00	5.1	94.9	0.0	-3.28	0.51	0.87	6.08	3.1	0.004	0.58	0.0	0.05	14.02	0.00	2.630	4.80	1.55	4.5	95.5	0.0	-2.06	0.91	0.48	0.88	5.05	2526	366	6	0	0	0	0	logfile
✔	7YNR	33969	2024-12-27	2022-07-31	2.9	2.79	1.55	3.2	0.003	0.46	0.0	0.05	10.05	0.00	2.424	7.49	0.00	1.7	98.3	0.0	-3.30	0.41	0.87	6.76	3.2	0.002	0.46	0.0	0.05	12.90	0.00	2.622	3.65	0.00	4.0	96.0	0.0	-1.89	0.22	0.42	0.88	5.75	2526	366	6	0	0	0	0	logfile
✔	7YNi	33962	2024-12-27	2022-07-31	3.26	3.56	3.00	3.6	0.004	0.66	0.0	0.04	10.92	0.01	2.206	19.26	0.00	5.0	94.5	0.5	0.78	0.44	0.69	1.96	3.6	0.003	0.67	0.0	0.04	14.08	0.01	2.517	12.38	2.09	4.6	95.0	0.3	1.53	0.94	0.48	0.72	1.36	4387	594	3	0	1	0	0	logfile
✔	7YNP	33968	2024-12-27	2022-07-31	2.8	2.38	2.15	3.4	0.012	0.97	0.0	0.06	13.69	0.00	2.265	10.48	0.00	6.5	93.5	0.0	-3.88	0.39	0.78	4.28	3.5	0.006	1.99	2.0	0.05	15.32	0.00	1.761	8.57	4.26	4.5	95.5	0.0	-2.05	1.77	0.33	0.79	5.31	2568	366	8	0	2	0	0	logfile
✔	7YNT	33971	2024-12-27	2022-07-31	3.1	2.98	2.27	4.1	0.004	0.59	0.0	0.06	11.35	0.00	2.275	13.34	0.00	8.9	91.1	0.0	-5.55	0.42	0.70	4.17	4.1	0.005	0.69	0.0	0.06	13.95	0.00	2.573	9.24	1.67	11.3	88.7	0.0	-4.16	0.47	0.37	0.66	4.05	2364	348	6	0	0	0	0	logfile
✔	7YNJ	33963	2024-12-27	2022-07-31	3.33	3.63	3.37	3.7	0.004	0.68	0.0	0.04	12.78	0.01	2.249	13.26	0.00	3.8	96.2	0.0	1.41	0.55	0.72	1.45	3.7	0.004	0.65	0.0	0.04	15.34	0.01	2.592	12.23	3.54	4.8	95.2	0.0	1.33	0.42	0.53	0.74	0.97	4371	592	3	0	1	0	0	logfile
✔	7YNG	33961	2024-12-27	2022-07-30	3.1	3.08	2.33	3.4	0.009	0.85	0.0	0.06	13.71	0.00	2.192	9.66	0.00	10.4	89.6	0.0	-4.25	0.36	0.76	3.68	3.4	0.002	0.49	0.0	0.05	14.82	0.00	2.483	2.60	0.37	3.0	97.0	0.0	-2.05	0.39	0.35	0.75	3.65	2628	378	6	0	0	0	0	logfile
✔	8DW3	27750	2024-12-28	2022-07-30	4.26	4.66	4.43	4.4	0.013	0.95	0.0	0.05	17.59	0.01	2.105	15.23	0.10	5.7	94.2	0.1	-0.89	0.75	0.69	—	4.4	0.003	0.72	0.0	0.05	13.41	0.00	2.428	12.09	0.00	6.6	93.3	0.1	-0.95	1.20	0.78	0.80	—	9351	1223	7	0	3	0	0	logfile
✔	7YNA	33956	2024-12-30	2022-07-30	3.64	3.83	3.70	3.7	0.007	0.73	0.0	0.05	16.96	0.01	2.143	10.32	0.60	16.1	83.8	0.1	-4.75	0.84	0.88	2.34	3.7	0.003	0.60	0.0	0.04	17.57	0.00	2.482	4.56	1.56	9.2	90.8	0.0	-2.00	1.13	0.84	0.86	1.91	13784	1536	3	63	0	0	0	logfile
✔	7YN9	33955	2024-12-30	2022-07-30	3.53	3.69	3.50	3.6	0.007	0.83	0.0	0.05	16.33	0.01	2.151	9.81	0.38	15.4	84.4	0.2	-5.33	0.81	0.86	2.74	3.6	0.002	0.63	0.0	0.04	17.34	0.00	2.397	5.55	1.74	9.4	90.5	0.1	-2.72	0.41	0.80	0.84	2.30	13068	1514	2	38	0	0	0	logfile
✔	7YNB	33957	2024-12-30	2022-07-30	3.46	3.65	3.47	3.6	0.005	0.72	0.0	0.05	18.41	0.01	2.127	7.12	1.26	11.0	88.8	0.2	-4.52	0.83	0.87	2.37	3.6	0.003	0.63	0.0	0.04	18.47	0.00	2.475	3.95	1.26	10.0	90.0	0.0	-1.76	1.15	0.84	0.89	2.01	13847	1536	3	66	0	0	0	logfile
✔	8DW2	27749	2024-12-29	2022-07-30	4.11	4.56	4.33	4.3	0.003	0.81	0.0	0.05	17.65	0.01	2.127	18.20	0.48	6.2	93.7	0.1	-0.94	0.76	0.78	—	4.3	0.003	0.72	0.0	0.05	13.96	0.01	2.401	13.38	0.00	7.4	92.5	0.1	-0.84	1.04	0.77	0.80	—	9364	1223	7	0	3	0	0	logfile
✔	7YNC	33958	2024-12-30	2022-07-30	3.14	3.40	3.24	3.4	0.003	0.65	0.0	0.04	18.05	0.01	2.130	6.93	1.04	10.6	89.4	0.1	-4.51	0.77	0.84	2.55	3.4	0.005	0.71	0.0	0.05	18.55	0.01	2.383	4.54	2.16	12.1	87.9	0.0	-2.13	1.17	0.80	0.88	2.51	13848	1536	3	66	0	0	0	logfile
✔	8DVS	27744	2024-12-27	2022-07-29	3.0	3.15	2.97	3.2	0.002	0.47	0.0	0.04	15.92	0.00	2.271	7.41	1.32	6.8	93.2	0.0	-1.94	0.68	0.80	2.76	3.1	0.003	0.58	0.0	0.04	17.35	0.00	2.479	5.64	3.12	8.5	91.5	0.0	0.46	0.47	0.70	0.85	3.46	6058	682	3	26	3	0	0	logfile
✔	8DVU	27745	2024-12-27	2022-07-29	2.9	3.07	2.86	3.0	0.002	0.51	0.0	0.04	16.46	0.00	2.164	6.25	1.01	6.2	93.8	0.0	-2.23	0.73	0.84	3.49	3.0	0.004	0.59	0.0	0.04	17.92	0.00	2.006	4.91	3.18	7.5	92.5	0.0	0.26	0.42	0.70	0.84	3.57	6170	669	3	36	3	0	0	logfile
✔	8AJL	15482	2024-12-28	2022-07-28	2.77	3.00	2.84	3.0	0.006	0.73	0.0	0.05	12.92	0.01	1.956	1.79	0.03	4.7	95.3	0.0	-0.64	0.47	0.65	4.04	3.0	0.003	0.59	0.0	0.04	14.50	0.00	2.331	2.98	0.93	3.3	96.7	0.0	-0.20	1.26	0.61	0.80	3.82	51875	3327	15	0	63	0	25130	logfile
✔	7YMD	33927	2024-12-27	2022-07-28	4.176	4.25	4.12	4.2	0.002	0.48	0.0	0.04	12.74	0.00	2.026	9.75	0.00	7.4	92.6	0.0	0.16	0.61	0.69	—	4.2	0.004	0.72	0.0	0.04	14.05	0.00	2.450	11.25	0.00	8.5	91.5	0.0	-0.85	0.52	0.63	0.73	—	5653	705	3	0	0	0	0	logfile
✔	8AJM	15484	2024-12-30	2022-07-28	2.83	3.35	2.87	3.0	0.008	0.82	0.0	0.07	11.45	0.01	2.252	1.43	0.52	2.3	97.7	0.0	0.01	0.88	0.82	3.72	3.0	0.003	0.65	0.0	0.05	13.93	0.00	2.512	4.88	0.89	3.3	96.7	0.0	-0.40	3.71	0.87	0.81	3.46	12106	1540	3	0	0	0	0	logfile
✔	7YMN	33934	2024-12-27	2022-07-28	3.46	3.33	3.01	3.9	0.007	0.73	0.0	0.05	12.25	0.00	2.234	11.60	0.00	17.6	82.4	0.0	-5.43	0.38	0.81	4.13	3.5	0.003	0.59	0.0	0.05	13.64	0.00	2.607	5.23	0.00	5.4	94.6	0.0	-4.44	0.34	0.38	0.81	4.09	3468	456	6	0	0	0	0	logfile

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