Table showing results for May 2025

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
✔	8DVi	27739	2025-05-23	2022-07-29	3.2	2.70	3.23	3.1	0.004	0.68	0.0	0.05	12.49	0.00	1.856	10.77	1.78	4.9	95.1	0.0	0.23	0.65	0.78	2.56	2.7	0.004	0.66	0.0	0.04	16.73	0.00	1.861	9.05	2.26	5.3	94.7	0.0	0.41	0.81	0.67	0.82	2.29	23693	2914	14	17	10	0	0	logfile
✔	8DVS	27744	2025-05-10	2022-07-29	3.0	3.15	2.97	3.2	0.006	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	0.002	0.55	0.0	0.04	17.47	0.00	2.490	5.73	3.29	7.5	92.5	0.0	0.57	0.45	0.71	0.85	3.05	6058	682	3	26	3	0	0	logfile
✔	7YMZ	33948	2025-05-26	2022-07-29	4.39	8.19	4.54	4.5	0.005	0.93	1.0	0.06	16.43	0.01	2.199	7.09	0.70	6.4	93.4	0.2	-1.39	0.89	0.77	—	4.5	0.004	0.74	0.0	0.04	14.04	0.00	2.445	20.00	0.00	6.8	93.2	0.0	-0.73	0.54	0.92	0.87	—	27891	3498	27	0	63	0	0	logfile
✔	8DVF	27737	2025-05-23	2022-07-28	3.3	2.89	3.37	3.2	0.004	0.68	0.0	0.05	12.51	0.00	1.862	10.34	1.78	4.9	95.1	0.0	0.22	0.64	0.75	2.04	2.9	0.003	0.62	0.0	0.04	16.94	0.00	1.892	8.71	1.98	5.0	95.0	0.0	0.26	0.83	0.66	0.79	1.97	23693	2914	14	17	10	0	0	logfile
✔	7YMN	33934	2025-05-09	2022-07-28	3.46	3.33	2.97	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	0.004	0.63	0.0	0.05	13.83	0.01	2.607	5.52	0.25	6.3	93.7	0.0	-4.49	0.33	0.37	0.81	3.97	3468	456	6	0	0	0	0	logfile
✔	8AJN	15485	2025-05-14	2022-07-28	3.0	3.89	3.13	2.9	0.006	0.94	0.0	0.05	12.63	0.01	2.334	1.89	0.60	3.8	96.2	0.0	-1.11	0.79	0.59	0.88	2.9	0.004	0.77	0.0	0.05	15.56	0.00	2.511	15.15	1.27	5.8	94.2	0.0	-1.21	1.54	0.82	0.60	0.98	12009	1530	2	0	0	0	0	logfile
✔	8DVD	27735	2025-05-21	2022-07-28	4.12	4.71	4.34	4.3	0.007	1.13	0.0	0.07	24.44	0.00	1.932	5.05	0.69	8.0	91.9	0.1	-0.76	0.79	0.74	—	4.4	0.003	0.89	0.0	0.05	12.82	0.00	2.402	8.68	0.00	7.6	92.3	0.1	-1.31	1.75	0.84	0.80	—	20804	2137	83	0	302	0	0	logfile
✔	7YMH	33928	2025-05-09	2022-07-28	3.52	3.74	3.37	3.7	0.004	0.78	0.0	0.05	13.79	0.01	2.324	3.55	0.00	4.8	95.2	0.0	-4.54	0.66	0.79	2.80	3.7	0.004	0.64	0.0	0.04	15.01	0.00	2.484	5.53	3.27	2.5	97.5	0.0	-0.22	0.51	0.67	0.80	1.77	3948	542	4	0	1	0	0	logfile
✔	7YMJ	33930	2025-05-09	2022-07-28	3.35	3.65	3.24	3.6	0.005	0.95	0.0	0.05	14.75	0.01	2.349	1.30	0.00	3.6	96.4	0.0	-3.45	0.64	0.83	2.70	3.6	0.003	0.58	0.0	0.04	15.16	0.00	2.585	1.95	3.11	3.6	96.4	0.0	0.88	0.38	0.63	0.84	1.81	3085	396	3	0	1	0	0	logfile
✔	7YMD	33927	2025-05-10	2022-07-28	4.176	4.25	4.11	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	0.003	0.70	0.0	0.04	13.97	0.00	2.490	11.43	0.00	8.4	91.6	0.0	-0.93	0.54	0.63	0.73	—	5653	705	3	0	0	0	0	logfile
✔	8AJM	15484	2025-05-14	2022-07-28	2.83	3.35	2.87	3.0	0.008	0.83	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	0.004	0.66	0.0	0.05	14.00	0.00	2.479	5.12	0.89	3.3	96.7	0.0	-0.43	3.71	0.87	0.81	3.45	12106	1540	3	0	0	0	0	logfile
✔	7YML	33931	2025-05-20	2022-07-28	2.6	2.70	2.57	2.7	0.021	1.86	0.0	0.06	22.92	0.02	2.035	11.68	1.88	2.6	97.4	0.0	1.32	0.80	0.88	4.86	2.7	0.003	0.69	0.0	0.04	16.64	0.00	2.019	9.11	1.54	2.5	97.5	0.0	2.56	0.93	0.79	0.90	3.95	18554	1848	50	0	89	7	0	logfile
✔	8DUL	27722	2025-05-16	2022-07-27	4.17	4.34	4.24	4.7	0.005	1.06	0.0	0.07	13.09	0.02	2.317	6.11	0.06	5.3	94.7	0.0	-2.03	0.56	0.49	—	4.5	0.003	0.71	0.0	0.05	12.90	0.01	2.528	13.69	0.00	5.4	94.6	0.0	-1.36	1.89	0.62	0.67	—	14203	1802	15	0	10	0	0	logfile
✔	7YM8	33924	2025-05-10	2022-07-27	2.92	3.14	2.91	3.2	0.006	0.86	0.0	0.05	16.01	0.01	2.331	4.04	0.00	4.2	95.8	0.0	-3.62	0.68	0.81	3.68	3.2	0.003	0.56	0.0	0.04	16.26	0.00	2.574	5.58	2.79	3.1	96.9	0.0	0.15	0.36	0.66	0.83	3.38	4287	556	4	0	2	0	0	logfile
✔	8DV1	27730	2025-05-10	2022-07-27	3.4	3.67	3.39	3.5	0.018	1.73	2.0	0.10	10.89	0.01	2.277	1.25	0.43	2.5	97.5	0.0	-0.24	0.79	0.80	2.48	3.5	0.004	0.79	0.0	0.05	15.53	0.00	2.395	9.24	2.29	3.7	96.3	0.0	0.72	2.66	0.79	0.82	1.97	6543	796	4	0	7	0	0	logfile
✔	8DUE	27719	2025-05-21	2022-07-27	2.9	2.30	2.90	3.0	0.003	0.53	0.0	0.04	13.30	0.00	1.926	12.84	3.40	5.9	94.1	0.0	0.26	0.55	0.66	1.93	2.9	0.003	0.67	0.0	0.04	16.50	0.00	1.950	11.52	2.64	5.9	94.1	0.0	-0.24	1.33	0.61	0.71	1.46	20904	2592	12	10	10	0	0	logfile
✔	8DUA	27718	2025-05-17	2022-07-27	4.32	5.26	4.35	4.3	0.005	0.90	4.0	0.06	19.51	0.00	1.889	5.05	0.19	5.6	94.2	0.2	-1.65	0.70	0.61	—	4.3	0.004	0.82	0.0	0.05	13.04	0.00	2.428	12.29	0.00	8.3	91.7	0.0	-1.62	2.55	0.80	0.82	—	15612	1815	33	0	87	0	0	logfile
✔	8DV2	27731	2025-05-10	2022-07-27	3.5	3.88	3.57	3.7	0.018	1.71	1.0	0.10	10.74	0.01	2.222	1.33	0.14	1.9	98.0	0.1	-0.17	0.78	0.79	2.69	3.7	0.004	0.81	0.0	0.05	15.71	0.00	2.514	8.69	3.00	3.3	96.6	0.1	1.19	4.15	0.78	0.81	2.01	6545	796	4	0	7	0	0	logfile
✔	8DTo	27706	2025-05-21	2022-07-26	3.57	3.93	3.48	3.6	0.007	0.98	0.0	0.06	19.84	0.01	2.241	3.34	0.00	4.6	95.4	0.0	-1.43	0.81	0.84	2.58	3.6	0.003	0.60	0.0	0.04	13.98	0.00	2.166	5.08	1.23	3.9	96.1	0.0	-0.38	0.28	0.81	0.85	2.54	20923	2445	54	0	146	0	0	logfile
✔	8DTP	27707	2025-05-21	2022-07-26	2.7	2.81	2.75	2.8	0.004	0.63	0.0	0.05	12.19	0.00	1.973	9.42	1.92	5.2	94.8	0.0	0.52	0.65	0.79	3.58	2.8	0.003	0.60	0.0	0.04	16.88	0.00	1.955	7.26	2.59	5.4	94.6	0.0	0.79	0.99	0.71	0.85	2.57	20944	2592	12	12	10	0	0	logfile

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