Table showing results for June 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
✔	9JVW	61845	2025-06-08	2024-10-09	3.41	3.87	3.45	3.8	0.008	1.12	0.0	0.08	14.78	0.01	2.210	7.00	0.29	5.2	94.8	0.0	-3.94	0.47	0.64	1.70	3.8	0.003	0.68	0.0	0.04	16.06	0.00	2.500	7.67	2.36	3.4	96.6	0.0	1.42	1.29	0.54	0.72	1.61	9480	1245	6	0	6	0	0	logfile
✔	9DWM	47255	2025-06-12	2024-10-09	4.2	5.01	—	4.2	0.005	0.61	0.0	0.04	30.43	0.00	2.339	6.64	0.00	3.0	97.0	0.0	2.59	0.90	0.88	—	4.2	0.007	0.67	0.0	0.04	30.61	0.00	2.493	13.94	0.00	6.8	93.2	0.0	1.48	1.45	0.90	0.89	—	11175	1065	12	289	0	0	0	logfile
✔	9DVR	47216	2025-06-12	2024-10-08	2.7	2.19	2.70	2.0	0.004	0.60	0.0	0.05	10.96	0.00	2.024	4.58	0.89	4.7	95.3	0.0	-0.53	0.80	0.79	4.34	1.9	0.003	0.60	0.0	0.05	15.02	0.00	2.551	5.32	2.54	4.8	95.2	0.0	-0.75	0.35	0.80	0.79	3.78	13692	1682	6	0	8	0	0	logfile
✔	9JUP	61833	2025-06-07	2024-10-08	3.1	2.60	3.37	3.0	0.004	0.57	0.0	0.04	16.34	0.00	1.964	8.84	0.00	4.0	96.0	0.0	1.64	0.56	0.76	2.56	3.0	0.004	0.61	0.0	0.04	16.97	0.00	1.913	9.70	3.41	4.6	95.3	0.1	1.27	0.37	0.59	0.80	2.51	8656	1118	2	0	4	0	0	logfile
✔	9DVP	47214	2025-06-17	2024-10-08	2.81	2.91	2.70	2.9	0.006	1.06	0.0	0.05	19.96	0.00	2.221	5.24	0.89	2.0	98.0	0.0	3.60	0.57	0.81	2.63	2.9	0.003	0.53	0.0	0.03	18.20	0.00	2.189	4.28	1.68	2.0	98.0	0.0	2.81	0.90	0.59	0.84	3.04	19372	1143	6	0	13	2	9494	logfile
✔	9DW5	47236	2025-06-08	2024-10-08	3.8	4.25	3.96	4.1	0.005	0.76	0.0	0.04	14.41	0.00	2.012	6.90	2.49	2.8	97.2	0.1	0.83	0.63	0.78	1.61	4.1	0.003	0.67	0.0	0.04	14.81	0.00	1.963	7.74	4.53	3.7	96.3	0.0	0.92	0.74	0.62	0.78	1.27	9748	1464	3	0	3	0	0	logfile
✘	9JUL	61829	2025-06-07	2024-10-08	3.1	3.11	3.25	3.2	0.005	0.76	0.0	0.05	14.49	0.01	2.238	12.44	0.74	5.3	94.7	0.0	0.64	0.65	0.81	2.08	—	—	—	—	—	—	—	—	—	—	—	—	—	—	—	—	—	—	9005	1165	2	0	1	0	0	logfile
✔	9DVL	47210	2025-06-11	2024-10-08	2.97	3.20	2.94	3.3	0.005	0.67	0.0	0.05	17.61	0.00	2.242	5.83	0.90	2.2	97.8	0.0	3.62	0.57	0.81	2.45	3.2	0.003	0.50	0.0	0.04	16.55	0.00	2.481	4.30	1.65	3.1	96.9	0.0	2.77	1.01	0.54	0.84	2.95	12774	756	4	0	10	0	6284	logfile
✔	9JUN	61831	2025-06-07	2024-10-08	3.4	3.25	3.71	3.4	0.003	0.57	0.0	0.04	14.49	0.00	2.212	11.17	0.00	5.8	94.2	0.0	1.31	0.56	0.74	1.09	3.3	0.003	0.63	0.0	0.04	16.63	0.00	2.516	10.23	1.69	5.4	94.6	0.0	1.18	0.77	0.62	0.81	1.74	8971	1165	1	0	0	0	0	logfile
✔	9JUo	61832	2025-06-07	2024-10-08	3.1	2.82	3.07	3.2	0.005	0.70	0.0	0.05	16.18	0.00	2.047	13.24	0.43	5.3	94.7	0.0	0.76	0.65	0.81	1.94	3.2	0.003	0.62	0.0	0.04	16.32	0.00	1.972	8.81	2.26	4.7	95.3	0.0	1.40	0.43	0.67	0.83	1.77	8858	1144	2	0	4	0	0	logfile
✔	9DVQ	47215	2025-06-11	2024-10-08	2.7	2.09	2.68	1.8	0.005	0.66	0.0	0.05	16.04	0.01	2.109	3.63	0.81	3.5	96.5	0.0	-0.57	0.70	0.77	4.23	1.8	0.003	0.58	0.0	0.05	16.80	0.00	2.487	1.83	2.49	3.8	96.2	0.0	-0.59	1.95	0.85	0.86	4.39	12791	1560	5	0	8	0	0	logfile
✔	9DVN	47212	2025-06-17	2024-10-08	2.75	2.89	2.70	2.9	0.006	1.05	0.0	0.05	19.74	0.00	2.215	4.57	0.99	2.2	97.8	0.0	3.70	0.61	0.79	2.58	2.9	0.003	0.54	0.0	0.03	17.83	0.00	2.263	4.57	2.08	2.8	97.2	0.0	2.94	0.67	0.63	0.85	3.44	19422	1145	6	0	14	2	9521	logfile
✔	9DVJ	47208	2025-06-11	2024-10-08	2.52	2.45	2.32	3.3	0.004	0.65	0.0	0.05	17.14	0.00	2.229	3.63	0.75	1.1	98.9	0.0	3.78	0.50	0.80	2.42	3.2	0.003	0.50	0.0	0.04	16.68	0.00	2.408	4.17	1.05	2.3	97.7	0.0	2.93	1.32	0.50	0.83	2.48	12710	754	4	0	6	0	6258	logfile
✔	9DVM	47211	2025-06-17	2024-10-08	2.92	3.05	2.90	3.1	0.006	1.06	0.0	0.05	19.91	0.00	2.233	4.49	0.39	2.3	97.7	0.0	3.67	0.63	0.81	3.09	3.0	0.005	0.88	1.0	0.04	18.25	0.00	2.205	5.76	1.77	2.0	98.0	0.0	2.92	1.03	0.64	0.87	3.14	19525	1152	6	0	14	2	9572	logfile
✔	9JUJ	61827	2025-06-07	2024-10-08	3.4	3.22	3.39	3.5	0.005	0.76	0.0	0.05	14.45	0.00	2.215	14.60	0.21	4.7	95.3	0.0	0.13	0.52	0.66	0.35	3.4	0.004	0.68	0.0	0.04	17.15	0.00	2.497	12.83	2.21	5.1	94.9	0.0	0.54	1.29	0.57	0.75	1.20	8971	1165	1	0	0	0	0	logfile
✔	9DVo	47213	2025-06-17	2024-10-08	3.1	3.16	2.93	3.2	0.006	1.06	0.0	0.05	20.32	0.00	2.208	5.71	0.79	1.9	98.1	0.0	3.39	0.61	0.81	2.73	3.2	0.003	0.52	0.0	0.03	18.25	0.00	2.394	5.71	2.06	2.7	97.3	0.0	2.90	1.18	0.60	0.84	2.79	19515	1152	6	0	12	2	9572	logfile
✔	9JUM	61830	2025-06-08	2024-10-08	3.1	3.55	3.61	3.4	0.005	0.76	0.0	0.05	15.66	0.01	1.922	15.77	0.00	4.1	95.9	0.0	0.83	0.70	0.83	1.75	3.4	0.003	0.69	0.0	0.04	16.09	0.00	2.010	13.04	1.69	4.7	95.3	0.0	1.70	0.48	0.71	0.85	1.60	9069	1165	2	0	5	0	0	logfile
✔	9JUK	61828	2025-06-07	2024-10-08	3.3	2.84	3.64	3.3	0.004	0.64	0.0	0.04	16.73	0.01	2.036	14.03	0.11	4.9	95.1	0.0	0.83	0.54	0.70	1.78	3.3	0.003	0.59	0.0	0.04	16.99	0.00	2.004	11.61	2.32	5.4	94.6	0.0	1.09	0.41	0.54	0.72	1.72	9035	1165	2	0	4	0	0	logfile
✔	9DW9	47239	2025-06-11	2024-10-08	2.8	3.05	2.88	3.1	0.004	0.67	1.0	0.04	15.32	0.00	1.931	2.37	1.69	2.2	97.8	0.0	0.50	0.68	0.87	3.80	3.1	0.002	0.49	0.0	0.04	16.33	0.00	2.047	2.77	1.07	2.4	97.6	0.0	1.58	0.32	0.68	0.87	2.99	12332	1511	5	0	19	3	0	logfile
✔	9DVK	47209	2025-06-11	2024-10-08	3.06	3.17	2.87	3.4	0.004	0.68	0.0	0.04	17.97	0.00	2.258	5.42	0.74	1.1	98.9	0.0	3.52	0.52	0.76	2.02	3.4	0.003	0.50	0.0	0.03	16.63	0.00	2.401	5.80	1.93	2.0	98.0	0.0	2.83	1.05	0.48	0.79	1.64	12839	760	4	0	6	0	6319	logfile

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