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
✔	9D3A	46529	2025-06-20	2024-08-09	3.78	4.08	3.86	4.0	0.003	0.50	0.0	0.04	11.56	0.00	2.190	7.34	1.55	6.5	93.5	0.0	-1.93	0.67	0.66	2.13	4.0	0.006	0.72	0.0	0.05	14.02	0.00	2.469	8.61	3.03	8.2	91.8	0.0	-1.65	2.62	0.68	0.67	1.72	24270	3133	13	0	6	0	0	logfile
✔	9D32	46512	2025-06-05	2024-08-09	3.1	3.43	3.09	3.5	0.004	0.60	0.0	0.04	11.07	0.00	2.012	4.59	3.02	2.1	97.9	0.0	0.80	0.67	0.80	4.48	3.5	0.002	0.51	0.0	0.04	13.69	0.00	2.141	3.91	2.31	1.7	98.3	0.0	1.48	0.36	0.66	0.80	3.37	6130	778	5	0	11	0	0	logfile
✔	9D3D	46532	2025-06-15	2024-08-09	3.41	3.73	3.55	3.7	0.003	0.64	0.0	0.04	10.40	0.00	1.972	4.07	1.04	3.0	97.0	0.0	-1.46	0.73	0.85	3.48	3.7	0.004	0.73	0.0	0.05	12.98	0.00	2.389	4.45	2.65	4.1	95.9	0.0	-0.34	0.48	0.73	0.86	2.64	17243	1973	50	0	130	0	0	logfile
✔	9D39	46528	2025-06-21	2024-08-09	3.65	3.33	—	3.7	0.003	0.57	0.0	0.04	17.77	0.00	2.219	12.35	0.19	7.4	92.5	0.1	-1.47	0.78	0.78	1.34	3.7	0.003	0.62	0.0	0.04	17.65	0.00	2.422	10.13	3.08	6.9	93.0	0.1	-1.13	0.32	0.78	0.77	1.02	24275	3134	10	0	5	0	0	logfile
✔	9D38	46527	2025-06-21	2024-08-09	3.95	3.73	—	2.2	0.002	0.57	0.0	0.04	16.64	0.00	2.098	11.28	0.12	7.3	92.5	0.2	-1.80	0.80	0.76	0.89	2.2	0.002	0.65	0.0	0.04	16.80	0.00	2.494	8.67	3.04	7.1	92.7	0.2	-1.38	0.36	0.80	0.77	0.75	24024	3120	12	0	5	0	0	logfile
✔	9D37	46526	2025-06-21	2024-08-09	3.34	2.50	—	2.0	0.002	0.46	0.0	0.04	12.56	0.00	2.266	4.72	1.44	5.5	94.5	0.0	-1.98	0.79	0.77	2.61	2.0	0.004	0.59	0.0	0.04	14.51	0.00	2.526	5.51	2.87	6.7	93.3	0.1	-1.28	0.91	0.80	0.80	2.11	24274	3133	14	0	6	1	0	logfile
✔	9J3M	61119	2025-06-05	2024-08-08	2.77	3.11	2.78	3.0	0.005	0.76	0.0	0.04	12.77	0.01	2.196	11.06	0.00	3.5	96.5	0.0	-2.56	0.51	0.80	3.68	3.0	0.004	0.69	0.0	0.05	15.13	0.00	2.449	8.00	2.19	2.2	97.8	0.0	1.24	0.38	0.53	0.81	3.51	4700	599	3	0	2	0	0	logfile
✔	9D1W	46478	2025-06-15	2024-08-08	3.44	3.87	3.53	3.8	0.003	0.69	0.0	0.04	14.31	0.00	1.921	4.26	1.73	4.3	95.6	0.1	-1.22	0.66	0.82	2.83	3.8	0.004	0.75	0.0	0.05	14.95	0.00	2.506	3.87	3.23	5.1	94.8	0.1	-0.86	0.58	0.61	0.80	2.63	17036	1965	39	0	118	0	0	logfile
✔	9J3J	61117	2025-06-05	2024-08-08	2.83	3.29	2.87	3.2	0.004	0.73	1.0	0.04	12.62	0.01	2.222	10.47	0.00	3.9	96.1	0.0	-0.36	0.49	0.81	3.49	3.2	0.003	0.60	0.0	0.04	15.82	0.00	2.567	7.88	1.56	3.5	96.5	0.0	1.99	0.41	0.49	0.81	2.61	4779	612	2	0	0	0	0	logfile
✔	9GF8	51311	2025-06-06	2024-08-08	3.5	2.86	3.52	3.8	0.002	0.42	0.0	0.04	10.77	0.00	2.210	4.44	0.96	3.0	97.0	0.0	0.32	0.63	0.66	1.43	3.8	0.004	0.56	0.0	0.04	15.26	0.00	2.373	6.21	4.08	3.6	96.4	0.0	0.32	1.10	0.65	0.72	1.37	7893	508	2	0	0	0	3965	logfile
✔	9J3o	61121	2025-06-05	2024-08-08	2.9	3.44	2.98	3.3	0.005	0.81	0.0	0.04	12.36	0.00	2.210	16.49	0.78	7.7	92.3	0.0	-3.34	0.41	0.73	3.90	3.3	0.004	0.71	0.0	0.04	15.97	0.00	2.567	8.85	3.12	6.7	93.3	0.0	-0.62	1.02	0.41	0.73	2.77	4845	617	2	0	0	0	0	logfile
✔	9J40	61129	2025-06-07	2024-08-08	3.4	3.62	3.40	3.7	0.009	1.37	1.0	0.06	19.90	0.01	2.278	4.65	0.68	7.6	92.2	0.2	1.49	0.60	0.76	1.80	3.7	0.005	0.76	0.0	0.04	17.98	0.01	2.566	7.76	3.49	3.8	95.9	0.4	1.85	1.20	0.63	0.78	1.16	9050	1152	4	0	12	0	0	logfile
✔	9J3X	61127	2025-06-07	2024-08-08	3.3	3.57	3.36	3.7	0.007	1.12	2.0	0.06	20.91	0.01	2.249	5.47	1.67	2.4	97.4	0.2	-1.58	0.56	0.73	1.78	3.7	0.003	0.72	0.0	0.04	17.66	0.00	2.334	9.20	2.86	2.6	97.2	0.2	2.50	0.85	0.58	0.76	1.63	8894	1156	4	0	10	0	0	logfile
✔	9J3Z	61128	2025-06-07	2024-08-08	3.5	3.74	3.56	3.8	0.005	1.14	0.0	0.06	21.17	0.01	2.187	7.41	0.77	3.1	96.7	0.3	-1.36	0.58	0.75	1.24	3.8	0.004	0.82	0.0	0.05	17.58	0.00	2.378	11.44	3.47	3.5	96.2	0.3	2.13	0.54	0.58	0.75	1.36	8491	1146	4	0	6	0	0	logfile
✘	9D2i	46497	2025-06-07	2024-08-08	2.96	—	—	—	—	—	—	—	—	—	—	—	—	—	—	—	—	—	—	—	—	—	—	—	—	—	—	—	—	—	—	—	—	—	—	—	—	—	9053	1010	6	50	2	0	0	logfile
✔	9J3N	61120	2025-06-05	2024-08-08	2.72	3.39	2.86	3.2	0.005	0.78	0.0	0.04	13.39	0.00	2.252	7.60	0.20	7.3	92.6	0.2	-2.76	0.43	0.75	3.42	3.2	0.004	0.68	0.0	0.04	15.25	0.00	2.582	7.81	3.16	5.0	95.0	0.0	0.87	0.37	0.35	0.69	3.22	4809	609	3	0	1	0	0	logfile
✔	9J38	61109	2025-06-13	2024-08-08	2.4	2.68	2.39	2.8	0.002	0.53	0.0	0.04	14.76	0.00	2.256	9.05	1.71	1.0	99.0	0.0	2.17	0.60	0.76	1.75	2.6	0.005	0.63	0.0	0.04	16.13	0.00	2.588	9.17	2.32	0.9	99.1	0.0	2.10	0.58	0.61	0.80	2.32	15596	1952	8	0	0	0	0	logfile
✔	9J3L	61118	2025-06-05	2024-08-08	2.72	3.06	2.76	2.9	0.004	0.79	0.0	0.04	13.03	0.01	2.234	10.05	0.40	5.2	94.8	0.0	-1.92	0.57	0.83	4.28	3.0	0.003	0.63	0.0	0.04	15.11	0.00	2.564	7.64	1.78	4.0	96.0	0.0	0.74	0.37	0.57	0.83	4.28	4730	602	3	0	1	0	0	logfile
✘	9J35	61106	2025-06-15	2024-08-07	2.71	2.86	2.75	2.9	0.014	1.44	4.0	0.07	15.06	0.01	2.161	4.58	0.76	7.4	92.5	0.0	-5.07	0.70	0.83	3.37	—	—	—	—	—	—	—	—	—	—	—	—	—	—	—	—	—	—	16960	2092	4	0	0	0	0	logfile
✔	9J31	61104	2025-06-07	2024-08-07	3.05	3.24	3.06	3.3	0.003	0.66	0.0	0.04	17.22	0.01	2.110	14.00	0.21	3.9	96.1	0.0	0.38	0.52	0.70	2.03	3.3	0.003	0.56	0.0	0.04	17.57	0.00	2.429	8.40	3.29	4.2	95.7	0.1	0.80	1.14	0.61	0.79	2.75	8994	1144	5	0	0	0	0	logfile

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