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
✔	8YEH	39195	2025-05-23	2024-02-22	2.86	2.96	2.77	18.0	0.003	0.56	0.0	0.05	12.54	0.01	2.218	3.97	0.00	3.1	96.9	0.0	-0.16	0.08	0.00	0.19	18.0	0.003	0.69	0.0	0.04	15.29	0.00	2.508	10.15	2.16	5.7	94.3	0.0	-1.26	0.96	0.23	0.19	0.05	25195	3225	15	0	0	0	0	logfile
✔	8YEG	39194	2025-05-19	2024-02-22	3.1	3.37	3.10	3.3	0.005	0.65	0.0	0.05	13.91	0.00	2.047	5.78	0.00	6.1	93.9	0.0	-1.31	0.73	0.84	3.36	3.3	0.003	0.54	0.0	0.04	15.45	0.00	2.485	4.22	2.18	4.8	95.2	0.0	-1.26	0.28	0.73	0.85	3.09	18221	2330	7	0	0	0	0	logfile
✔	8YEF	39193	2025-05-19	2024-02-22	4.3	4.72	4.48	4.4	0.005	0.90	0.0	0.06	13.94	0.01	2.234	10.30	0.10	6.0	94.0	0.0	-1.67	0.86	0.83	—	4.4	0.004	0.69	0.0	0.04	14.09	0.00	2.399	18.29	0.00	6.6	93.4	0.0	-1.45	0.46	0.86	0.84	—	18074	2307	7	0	0	0	0	logfile
✔	8S4U	19716	2025-05-09	2024-02-22	3.09	3.17	2.96	3.1	0.006	0.65	1.0	0.05	14.85	0.01	2.272	7.16	0.24	4.2	95.8	0.0	-0.73	0.61	0.80	2.33	3.1	0.004	0.63	0.0	0.04	15.66	0.00	2.567	5.90	4.02	3.0	97.0	0.0	1.25	0.31	0.66	0.84	2.47	3980	502	3	0	1	0	0	logfile
✔	8YEi	39196	2025-05-19	2024-02-22	2.93	3.28	3.07	21.0	0.004	0.70	0.0	0.05	13.13	0.01	2.280	6.96	0.00	3.2	96.8	0.0	-1.07	0.14	0.01	0.34	21.0	0.004	0.81	0.0	0.05	15.41	0.01	2.227	19.62	2.66	7.6	92.4	0.0	-1.83	0.97	0.26	0.19	0.34	18253	2327	7	0	0	0	0	logfile
✔	8S50	19717	2025-05-26	2024-02-22	3.33	3.53	3.35	3.5	0.003	0.58	0.0	0.05	13.59	0.00	1.883	10.58	0.00	8.8	91.2	0.0	-1.25	0.78	0.81	3.26	3.5	0.002	0.50	0.0	0.04	14.32	0.00	2.442	8.20	0.00	8.2	91.8	0.0	-1.40	0.28	0.77	0.81	2.94	28654	1848	24	0	8	214	14016	logfile
✔	8YDX	39184	2025-05-24	2024-02-21	4.9	3.79	4.28	3.5	0.011	1.39	3.0	0.10	14.94	0.01	2.004	8.75	1.61	2.0	98.0	0.0	0.50	0.69	0.63	—	3.5	0.003	0.62	0.0	0.05	13.12	0.00	2.333	10.19	0.00	2.5	97.5	0.0	0.03	1.64	0.76	0.74	—	25471	3200	9	0	27	0	0	logfile
✔	8W2Z	43760	2025-05-11	2024-02-21	3.37	3.60	3.41	3.5	0.005	0.87	0.0	0.05	22.00	0.01	2.287	5.82	1.21	4.3	95.7	0.0	-1.66	0.79	0.84	1.58	3.5	0.003	0.59	0.0	0.04	22.06	0.00	2.510	9.72	2.42	6.0	94.0	0.0	-0.26	2.53	0.79	0.85	2.22	7676	525	4	170	0	0	0	logfile
✔	8W2S	43757	2025-05-10	2024-02-21	3.4	3.65	3.40	3.5	0.004	0.89	0.0	0.05	20.85	0.01	2.289	7.86	0.00	4.8	95.2	0.0	-1.36	0.79	0.81	3.39	3.5	0.004	1.04	0.0	0.04	20.75	0.00	1.847	10.28	2.05	5.7	94.3	0.0	0.78	0.53	0.80	0.83	2.19	5688	339	2	137	0	0	0	logfile
✔	8W35	43762	2025-05-09	2024-02-21	2.61	2.59	2.60	2.7	0.005	0.91	0.0	0.04	19.54	0.01	2.350	0.62	1.00	1.3	98.7	0.0	-1.65	0.47	0.62	3.21	2.7	0.002	0.47	0.0	0.03	20.23	0.00	2.570	2.90	1.00	2.2	97.8	0.0	1.54	0.39	0.64	0.75	2.79	2611	234	3	34	0	0	0	logfile
✔	8S3E	19691	2025-05-29	2024-02-20	2.39	2.88	2.50	2.8	0.003	0.76	0.0	0.07	16.61	0.00	2.107	7.04	1.81	2.4	97.6	0.0	0.94	0.65	0.78	2.68	2.8	0.009	0.75	0.0	0.06	16.76	0.00	2.211	6.44	2.11	2.4	97.6	0.0	1.35	0.35	0.59	0.75	2.51	31585	3800	16	0	68	13	0	logfile
✔	8W2o	43753	2025-05-26	2024-02-20	3.49	3.88	3.52	3.8	0.007	1.00	0.0	0.05	20.62	0.01	1.255	11.79	0.41	4.3	95.5	0.2	0.04	0.78	0.81	2.03	3.8	0.005	0.66	0.0	0.04	20.32	0.00	2.168	9.01	4.40	5.7	94.2	0.1	0.42	0.95	0.80	0.84	2.00	28117	2739	18	330	0	0	0	logfile
✔	8W22	43737	2025-05-09	2024-02-19	4.0	4.25	3.94	4.2	0.008	1.27	0.0	0.06	8.00	0.00	2.497	0.92	0.00	2.8	96.8	0.3	0.30	0.71	0.74	—	4.2	0.003	0.67	0.0	0.04	12.22	0.00	2.615	2.75	6.11	4.2	95.8	0.0	0.14	0.75	0.73	0.78	—	3750	629	3	0	0	0	0	logfile
✔	8W20	43736	2025-05-17	2024-02-19	4.3	4.55	4.31	4.4	0.008	1.34	2.0	0.06	6.79	0.01	2.278	1.60	0.45	2.6	97.2	0.3	1.23	0.68	0.69	—	4.5	0.010	0.99	0.0	0.05	8.92	0.01	2.491	6.14	0.00	6.6	93.4	0.1	0.01	2.51	0.71	0.74	—	15412	2814	11	0	0	0	0	logfile
✔	8YDB	39167	2025-05-23	2024-02-19	3.4	4.36	3.41	3.7	0.003	0.58	0.0	0.04	19.62	0.00	2.225	5.90	0.42	6.2	93.8	0.0	-0.84	0.88	0.76	2.54	3.7	0.004	0.60	0.0	0.04	19.66	0.00	2.471	7.17	3.35	6.5	93.5	0.0	-0.19	0.46	0.93	0.90	2.59	23880	2682	12	103	0	0	0	logfile
✔	8YD4	39164	2025-05-19	2024-02-19	3.69	3.77	3.56	3.8	0.002	0.40	0.0	0.04	12.13	0.00	2.278	6.19	0.71	2.1	97.9	0.0	-4.36	0.69	0.82	2.78	3.8	0.003	0.58	0.0	0.04	14.87	0.00	2.529	5.26	1.84	2.6	97.4	0.0	-0.70	0.46	0.73	0.85	2.69	18725	2436	14	0	0	0	0	logfile
✔	8YD2	39163	2025-05-19	2024-02-19	2.39	2.43	2.33	2.4	0.008	1.05	0.0	0.05	10.87	0.02	2.280	14.75	0.35	1.7	98.3	0.0	-3.61	0.67	0.83	5.52	2.5	0.003	0.66	0.0	0.04	16.90	0.00	1.408	13.60	2.79	2.1	97.9	0.0	0.48	1.13	0.72	0.88	4.55	19572	2506	28	0	14	0	0	logfile
✔	8YC0	39128	2025-05-10	2024-02-17	4.12	4.24	3.85	4.2	0.004	0.78	0.0	0.04	17.51	0.00	2.114	14.18	0.58	7.6	92.4	0.0	-0.95	0.50	0.65	—	4.2	0.003	0.77	0.0	0.04	13.88	0.00	2.467	10.21	0.00	8.0	92.0	0.0	-0.70	1.34	0.60	0.71	—	4635	583	9	0	1	0	0	logfile
✔	8YBQ	39121	2025-05-14	2024-02-16	2.59	2.96	2.71	2.9	0.005	0.78	0.0	0.05	12.29	0.00	2.153	2.18	0.67	2.6	97.4	0.0	-2.76	0.67	0.87	2.97	2.9	0.003	0.56	0.0	0.04	14.14	0.00	2.630	1.84	1.77	2.2	97.8	0.0	1.43	1.26	0.63	0.85	2.42	11700	1506	9	0	3	66	0	logfile
✔	8YBR	39122	2025-05-17	2024-02-16	2.57	2.26	2.59	2.1	0.005	0.67	0.0	0.04	12.45	0.00	2.237	3.61	0.70	6.3	93.7	0.0	-4.55	0.82	0.81	2.58	2.0	0.003	0.62	0.0	0.04	15.24	0.00	2.517	2.65	1.53	5.1	94.9	0.0	-0.17	0.54	0.84	0.85	2.68	15150	1941	3	0	0	0	0	logfile

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