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
✔	9J0Y	61062	2025-06-09	2024-08-03	3.14	3.39	3.13	3.4	0.006	0.99	0.0	0.06	14.83	0.01	1.596	4.14	0.00	8.2	91.8	0.0	-5.36	0.62	0.86	3.58	3.4	0.004	0.70	0.0	0.04	16.19	0.00	2.492	6.33	2.33	8.1	91.9	0.0	-1.16	0.58	0.62	0.87	3.03	10936	1300	5	0	4	0	0	logfile
✔	9J15	61068	2025-06-06	2024-08-03	3.4	3.60	3.43	3.6	0.007	0.97	0.0	0.06	9.60	0.01	2.342	1.40	0.00	8.3	91.7	0.0	-6.55	0.60	0.82	3.40	3.6	0.002	0.68	0.0	0.04	14.53	0.00	2.532	3.26	0.76	5.5	94.5	0.0	-0.39	1.71	0.64	0.86	2.06	7458	1008	6	2	0	2	0	logfile
✔	9J17	61070	2025-06-06	2024-08-03	3.4	3.79	3.56	3.9	0.003	1.11	8.0	0.09	15.66	0.00	1.191	10.78	0.54	9.4	90.6	0.0	-1.32	0.56	0.79	2.07	3.9	0.003	0.62	0.0	0.04	16.32	0.00	2.446	5.81	4.17	9.8	90.2	0.0	-0.37	0.36	0.59	0.81	2.33	7052	944	4	0	2	0	0	logfile
✔	9J12	61065	2025-06-06	2024-08-03	3.9	4.27	4.12	4.3	0.003	0.86	1.0	0.04	14.03	0.01	2.142	10.98	0.00	8.0	92.0	0.0	-2.39	0.57	0.76	1.08	4.3	0.003	0.81	0.0	0.04	15.55	0.00	2.484	9.52	3.93	6.4	93.6	0.0	-1.27	0.69	0.58	0.78	1.10	7441	1007	2	0	0	0	0	logfile
✔	9J10	61064	2025-06-13	2024-08-03	2.43	3.10	2.37	2.7	0.007	1.16	0.0	0.06	14.36	0.01	1.057	10.98	0.00	4.1	95.9	0.0	-4.12	0.68	0.87	3.99	2.7	0.003	0.64	0.0	0.04	15.26	0.00	2.552	5.57	1.05	4.0	96.0	0.0	0.34	0.57	0.68	0.88	3.53	14816	1780	10	0	4	4	0	logfile
✘	9J16	61069	2025-06-06	2024-08-03	3.4	3.63	3.45	3.6	0.007	0.97	0.0	0.06	9.60	0.01	2.342	1.46	0.00	8.2	91.8	0.0	-6.55	0.61	0.83	2.92	—	—	—	—	—	—	—	—	—	—	—	—	—	—	—	—	—	—	7458	1008	6	2	0	2	0	logfile
✔	9CZ3	46060	2025-06-05	2024-08-03	2.7	3.45	2.66	2.2	0.020	1.86	0.0	0.12	25.03	0.02	2.701	0.17	0.00	1.1	98.9	0.0	2.48	0.56	0.81	5.99	2.3	0.100	2.85	0.0	0.16	29.74	0.01	1.742	51.09	20.00	11.1	88.9	0.0	-1.38	3.79	0.58	0.82	3.60	5580	270	90	0	90	0	3150	logfile
✔	9J14	61067	2025-06-06	2024-08-03	3.49	3.71	3.52	3.8	0.004	0.81	0.0	0.04	16.00	0.00	1.674	9.86	0.26	10.9	89.1	0.0	-0.73	0.62	0.82	1.41	3.8	0.002	0.63	0.0	0.04	16.28	0.00	2.524	5.14	3.00	9.5	90.5	0.0	0.06	0.57	0.64	0.83	2.03	7218	970	4	0	2	0	0	logfile
✔	9J0X	61061	2025-06-19	2024-08-03	3.0	3.56	3.04	3.5	0.005	1.03	4.0	0.06	13.89	0.01	1.217	8.65	0.00	9.1	90.9	0.0	-4.85	0.70	0.83	2.71	3.5	0.003	0.74	0.0	0.04	15.88	0.00	2.340	8.31	1.92	8.1	91.9	0.0	-1.14	0.63	0.70	0.85	2.35	22042	2714	6	0	4	0	0	logfile
✔	9J18	61071	2025-06-06	2024-08-03	3.5	3.78	3.57	3.9	0.005	0.93	4.0	0.06	15.23	0.00	2.105	10.02	0.55	10.8	89.2	0.0	-1.88	0.58	0.80	1.48	3.9	0.003	0.69	0.0	0.04	15.61	0.00	2.294	5.12	3.97	10.1	89.9	0.0	-0.76	1.18	0.56	0.79	1.02	6944	930	4	0	2	0	0	logfile
✔	9J13	61066	2025-06-06	2024-08-03	3.4	3.75	3.49	3.8	0.006	0.87	2.0	0.07	13.30	0.00	2.139	7.65	0.25	8.0	92.0	0.0	-1.46	0.62	0.83	2.18	3.8	0.002	0.54	0.0	0.04	14.84	0.00	2.505	5.12	1.52	6.1	93.9	0.0	-0.33	1.15	0.63	0.85	2.01	7440	1008	2	0	0	0	0	logfile
✘	9GCU	51237	2025-06-17	2024-08-02	2.8	3.33	2.68	3.1	0.003	0.67	0.0	0.04	13.27	0.00	2.040	12.45	0.09	2.0	98.0	0.0	0.35	0.86	0.85	2.65	—	—	—	—	—	—	—	—	—	—	—	—	—	—	—	—	—	—	20023	2508	16	0	10	83	0	logfile
✔	9GCK	51231	2025-06-11	2024-08-02	3.7	4.29	3.77	3.0	0.015	1.89	4.0	0.12	21.02	0.01	1.954	10.65	0.77	5.0	94.7	0.2	-2.69	0.82	0.70	0.99	2.8	0.004	0.75	0.0	0.04	21.21	0.00	2.437	18.78	1.54	4.1	95.8	0.1	-0.26	2.78	0.80	0.62	0.54	12298	1287	6	90	0	0	0	logfile
✔	9CYX	46053	2025-06-29	2024-08-02	3.3	2.98	3.31	3.0	0.006	0.78	0.0	0.05	13.96	0.01	2.214	6.22	0.47	4.3	95.7	0.0	-0.39	0.41	0.81	3.01	3.0	0.004	0.63	0.0	0.05	15.93	0.01	2.330	4.32	2.28	4.6	95.4	0.0	-0.10	0.33	0.40	0.83	2.40	34537	4377	6	0	0	0	0	logfile
✘	9CYT	46049	2025-06-28	2024-08-02	3.7	3.06	3.50	3.0	0.004	0.63	0.0	0.05	14.10	0.01	2.137	6.34	0.21	4.0	96.0	0.0	-0.18	0.41	0.78	2.33	—	—	—	—	—	—	—	—	—	—	—	—	—	—	—	—	—	—	33991	4390	10	0	0	0	0	logfile
✔	9GCM	51234	2025-06-04	2024-08-02	3.1	3.68	3.12	3.3	0.004	0.65	0.0	0.03	20.80	0.01	2.142	16.26	0.93	3.2	96.2	0.5	-0.05	0.80	0.79	2.49	3.3	0.004	0.69	0.0	0.04	20.64	0.00	2.208	11.68	1.86	4.3	95.1	0.5	0.27	0.51	0.80	0.79	2.19	4466	377	4	66	0	0	0	logfile
✔	9CY3	46005	2025-06-05	2024-08-01	3.2	3.35	3.19	3.3	0.005	0.96	0.0	0.06	14.28	0.01	2.331	3.67	0.00	3.1	96.9	0.0	-1.30	0.59	0.70	1.72	3.3	0.003	0.61	0.0	0.04	15.72	0.00	2.493	7.63	3.32	3.5	96.5	0.0	1.08	1.24	0.62	0.75	1.50	5078	653	3	0	1	0	0	logfile
✔	9CY1	46004	2025-06-05	2024-08-01	3.15	3.48	3.25	3.4	0.005	0.91	0.0	0.05	13.40	0.01	2.269	3.69	0.00	2.7	97.3	0.0	-0.80	0.61	0.78	2.30	3.4	0.004	0.57	0.0	0.04	15.43	0.00	2.451	6.59	3.12	3.6	96.4	0.0	1.30	0.52	0.61	0.82	2.96	5026	649	2	0	0	0	0	logfile
✔	9CY4	46006	2025-06-05	2024-08-01	3.41	3.58	3.45	3.6	0.006	1.21	5.0	0.09	15.13	0.01	2.310	3.97	0.00	3.9	96.1	0.0	-3.09	0.58	0.73	1.85	3.6	0.004	0.76	1.0	0.05	16.57	0.01	2.570	11.72	3.28	5.6	94.4	0.0	0.69	1.26	0.62	0.79	1.03	5183	672	3	0	1	0	0	logfile
✔	9iZX	61045	2025-06-12	2024-08-01	3.0	4.21	3.05	3.5	0.002	0.51	0.0	0.04	8.95	0.00	1.332	4.11	0.46	2.3	97.6	0.1	-0.23	0.85	0.69	1.91	3.5	0.004	0.83	0.0	0.05	13.73	0.00	2.561	11.83	2.23	3.6	96.2	0.1	0.98	2.61	0.90	0.86	1.92	14152	1857	4	0	0	0	0	logfile

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