Table showing results for January 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
✔	8YNK	39425	2025-01-20	2024-03-11	3.62	4.24	3.85	4.0	0.002	0.40	0.0	0.03	13.75	0.00	2.242	4.95	0.00	3.0	97.0	0.0	1.98	0.81	0.82	0.72	4.0	0.002	0.61	0.0	0.04	16.08	0.00	2.496	6.98	1.82	3.0	97.0	0.0	1.81	0.84	0.82	0.83	0.66	11564	1409	8	0	0	0	0	logfile
✔	9EMC	19817	2025-01-20	2024-03-11	3.26	3.86	3.07	3.6	0.011	1.34	0.0	0.08	18.59	0.01	2.075	5.04	1.44	2.5	97.5	0.0	-3.73	0.75	0.68	0.35	3.6	0.003	0.57	0.0	0.04	17.58	0.00	1.897	5.55	1.62	2.4	97.6	0.0	1.52	1.15	0.82	0.90	2.05	15489	1977	12	0	12	0	0	logfile
✔	9B03	44026	2025-01-25	2024-03-11	2.95	3.69	—	3.2	0.005	0.96	0.0	0.06	13.38	0.01	2.097	1.93	0.00	3.0	97.0	0.0	-2.06	0.84	0.83	2.02	3.2	0.006	0.75	0.0	0.05	14.86	0.00	1.955	8.63	0.97	4.3	95.7	0.0	0.93	0.46	0.85	0.84	1.80	23896	3020	14	0	12	0	0	logfile
✔	8YNL	39426	2025-01-21	2024-03-11	3.55	4.16	3.78	4.0	0.002	0.39	0.0	0.03	13.83	0.00	2.280	5.24	0.00	1.9	98.1	0.0	1.87	0.80	0.83	0.94	4.0	0.002	0.57	0.0	0.04	16.21	0.00	2.407	6.55	1.35	3.1	96.9	0.0	1.64	2.03	0.81	0.84	0.67	12977	1583	9	0	0	0	0	logfile
✔	8YN1	39411	2025-01-22	2024-03-10	3.09	2.91	3.04	2.9	0.008	0.91	0.0	0.05	15.15	0.01	2.145	8.06	0.00	5.3	94.5	0.1	-1.49	0.76	0.79	3.15	3.0	0.002	0.55	0.0	0.04	16.55	0.00	2.019	4.36	1.40	3.2	96.8	0.0	0.57	0.94	0.79	0.83	2.29	12186	1495	5	0	2	0	0	logfile
✔	8YN9	39419	2025-01-16	2024-03-10	2.3	2.56	2.39	2.5	0.004	0.63	0.0	0.06	10.63	0.00	2.237	4.32	0.73	1.5	98.5	0.0	1.12	0.70	0.84	5.10	2.6	0.002	0.51	0.0	0.04	13.41	0.00	2.524	5.26	1.57	2.2	97.8	0.0	1.68	0.38	0.71	0.85	4.29	9048	1130	6	0	8	2	0	logfile
✔	8YN3	39413	2025-01-15	2024-03-10	2.56	2.65	2.55	2.7	0.003	0.46	0.0	0.05	9.76	0.00	2.248	3.92	0.79	1.4	98.6	0.0	1.26	0.72	0.86	4.65	2.7	0.002	0.50	0.0	0.04	14.19	0.00	2.459	4.22	1.81	2.1	97.9	0.0	1.79	0.40	0.71	0.86	3.53	8201	1042	6	0	2	0	0	logfile
✔	9AZ4	44012	2025-01-25	2024-03-10	3.37	4.52	—	2.1	0.007	1.06	0.0	0.06	13.82	0.01	2.069	2.58	0.00	3.5	96.4	0.0	-2.13	0.89	0.84	1.76	2.1	0.004	0.65	0.0	0.04	14.51	0.00	1.932	7.86	0.43	3.2	96.8	0.0	1.24	0.38	0.89	0.84	1.53	23865	3015	14	0	12	0	0	logfile
✔	8YN5	39415	2025-01-16	2024-03-10	2.7	2.85	2.67	2.8	0.002	0.53	0.0	0.06	9.60	0.00	2.209	4.33	0.42	1.6	98.4	0.0	1.27	0.71	0.85	4.97	2.8	0.003	0.56	0.0	0.04	13.44	0.00	2.534	5.38	1.67	1.9	98.1	0.0	1.75	1.17	0.72	0.86	3.63	9047	1141	6	0	6	0	0	logfile
✔	8YN4	39414	2025-01-15	2024-03-10	2.97	3.15	2.94	3.1	0.002	0.40	0.0	0.04	8.47	0.00	2.276	4.44	0.33	1.1	98.9	0.0	1.49	0.67	0.81	3.52	3.1	0.005	0.64	0.0	0.04	14.59	0.00	2.475	7.13	3.51	2.3	97.7	0.0	1.53	1.24	0.68	0.82	3.29	8661	1127	6	0	2	0	0	logfile
✔	8YN2	39412	2025-01-15	2024-03-10	2.66	2.92	2.71	2.9	0.003	0.56	0.0	0.06	9.78	0.00	2.180	4.42	0.64	1.5	98.5	0.0	1.29	0.71	0.85	4.63	2.9	0.002	0.53	0.0	0.04	13.92	0.00	2.529	4.54	1.91	2.2	97.8	0.0	2.16	0.49	0.71	0.84	3.40	8979	1131	6	0	6	0	0	logfile
✔	8YMP	39402	2025-01-16	2024-03-09	2.6	3.14	2.77	3.2	0.008	1.42	12.0	0.09	25.41	0.01	2.057	14.00	37.57	10.6	87.2	2.2	-3.93	0.45	0.50	1.19	3.1	0.003	0.85	0.0	0.04	18.76	0.01	2.438	12.55	3.23	6.1	93.9	0.0	0.26	1.91	0.52	0.72	2.83	9570	1184	4	0	2	0	0	logfile
✔	8YMK	39396	2025-01-13	2024-03-09	3.7	3.92	1.91	7.8	0.005	1.22	1.0	0.06	11.93	0.01	2.212	16.34	0.00	14.1	84.4	1.6	-1.73	0.59	0.62	-0.11	7.7	0.003	1.14	0.0	0.06	13.52	0.00	2.612	12.37	4.51	11.2	87.5	1.3	-1.02	1.84	0.60	0.63	-0.04	2744	452	2	0	0	0	0	logfile
✔	8YMQ	39403	2025-01-17	2024-03-09	2.6	3.01	2.76	2.9	0.011	1.48	10.0	0.11	23.72	0.01	1.982	10.17	32.64	8.2	89.6	2.2	-3.41	0.55	0.71	2.94	3.0	0.004	0.70	0.0	0.04	18.52	0.01	2.455	7.16	4.32	6.1	93.9	0.0	0.75	1.21	0.61	0.87	2.83	10524	1302	4	0	4	0	0	logfile
✔	9EMM	19820	2025-01-22	2024-03-08	3.7	4.11	3.92	4.0	0.005	0.65	0.0	0.04	18.07	0.00	2.087	9.82	0.25	10.6	89.3	0.1	-1.68	0.81	0.84	1.42	4.0	0.003	0.66	0.0	0.04	18.32	0.00	2.351	6.76	2.95	9.0	90.9	0.1	-1.39	0.31	0.80	0.84	1.26	18401	2305	5	0	0	0	0	logfile
✔	9AYW	44000	2025-01-26	2024-03-08	3.0	3.21	3.04	3.2	0.005	0.78	0.0	0.06	14.17	0.01	2.290	2.83	0.00	4.0	96.0	0.0	-0.76	0.68	0.81	3.01	3.2	0.003	0.55	0.0	0.04	15.73	0.00	2.358	3.77	1.95	3.0	97.0	0.0	0.50	1.57	0.70	0.84	3.01	24813	3123	6	0	30	0	0	logfile
✔	9EME	19818	2025-01-13	2024-03-08	2.92	3.09	2.69	3.1	0.015	2.12	0.0	0.12	14.21	0.01	2.019	0.00	0.00	0.0	100.0	0.0	-4.40	0.34	0.61	5.02	3.1	0.003	0.62	0.0	0.04	15.93	0.00	2.500	3.86	1.13	5.5	94.5	0.0	-3.06	1.19	0.49	0.82	4.97	4140	552	6	0	0	0	0	logfile
✔	9EMN	19821	2025-01-20	2024-03-08	3.3	3.55	3.25	3.5	0.003	0.59	0.0	0.04	17.62	0.01	2.236	5.30	0.38	6.0	94.0	0.0	-2.43	0.76	0.84	2.72	3.5	0.005	0.70	0.0	0.05	17.99	0.01	2.461	4.41	3.30	7.3	92.7	0.0	-2.07	0.96	0.75	0.83	2.87	14680	1829	4	0	0	0	0	logfile
✔	9EM9	19814	2025-01-15	2024-03-07	3.76	4.06	3.82	4.0	0.004	0.75	0.0	0.04	14.92	0.01	1.853	3.14	0.00	5.1	94.9	0.0	-0.71	0.80	0.71	2.12	3.9	0.003	0.76	0.0	0.04	15.65	0.00	1.889	9.23	2.15	2.6	97.4	0.0	0.49	1.46	0.84	0.77	1.85	8182	1024	4	0	4	0	0	logfile
✔	9EMA	19815	2025-01-20	2024-03-07	2.4	2.98	2.39	2.8	0.008	1.07	0.0	0.06	18.26	0.01	1.999	1.44	0.42	1.3	98.6	0.1	-0.24	0.80	0.76	1.87	2.7	0.003	0.51	0.0	0.04	18.16	0.00	1.906	3.92	0.66	2.1	97.9	0.0	1.76	1.41	0.86	0.92	3.94	15562	1974	12	0	13	0	0	logfile

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