Table showing results for December 2024

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
✔	7YES	33776	2024-12-31	2022-07-06	3.4	3.49	—	3.4	0.002	0.53	0.0	0.04	14.11	0.00	2.209	4.52	0.18	6.8	92.6	0.6	0.91	0.80	0.86	2.46	3.4	0.003	0.56	0.0	0.04	15.80	0.00	2.467	3.66	1.66	6.8	92.7	0.6	1.05	0.88	0.83	0.90	2.52	14679	1863	6	0	1	0	0	logfile
✔	8DKi	27489	2024-12-27	2022-07-05	3.32	3.57	3.29	3.6	0.003	0.64	0.0	0.05	13.79	0.00	2.204	9.78	0.21	4.6	95.4	0.0	-0.62	0.62	0.84	2.61	3.6	0.006	0.69	0.0	0.05	15.91	0.00	2.599	10.01	2.90	7.3	92.7	0.0	-0.52	0.33	0.61	0.87	2.85	4365	552	3	0	0	0	0	logfile
✔	8DKM	27490	2024-12-27	2022-07-05	3.39	3.59	3.11	3.6	0.003	0.67	0.0	0.04	13.47	0.00	2.241	7.23	0.83	6.4	93.6	0.0	-0.94	0.62	0.84	2.67	3.6	0.003	0.58	0.0	0.04	15.57	0.00	2.604	5.51	3.32	6.2	93.8	0.0	-0.08	0.39	0.61	0.86	2.38	4383	553	4	0	1	0	0	logfile
✔	7YE6	33765	2024-12-30	2022-07-05	3.4	3.40	3.44	3.3	0.003	0.68	0.0	0.05	13.34	0.00	2.254	5.29	0.28	8.2	91.8	0.0	-4.95	0.61	0.58	1.56	3.4	0.003	0.77	0.0	0.05	15.56	0.00	2.193	11.59	2.35	8.3	91.7	0.0	-2.91	1.27	0.67	0.70	1.18	13804	1781	6	0	0	0	0	logfile
✔	7YE4	33763	2024-12-30	2022-07-05	3.4	3.54	3.36	3.5	0.003	0.68	0.0	0.05	13.68	0.00	2.352	4.16	0.07	6.4	93.6	0.0	-5.13	0.65	0.71	1.84	3.5	0.004	0.69	0.0	0.04	16.18	0.00	2.368	8.47	3.09	10.0	90.0	0.0	-2.78	0.68	0.68	0.78	1.87	13877	1791	6	0	0	0	0	logfile
✔	7YEA	33768	2024-12-31	2022-07-05	3.82	4.08	3.84	3.9	0.008	0.84	0.0	0.05	13.81	0.01	2.099	22.75	0.00	7.6	92.4	0.0	-1.40	0.81	0.72	1.21	3.9	0.003	0.79	0.0	0.04	15.79	0.00	2.471	11.34	1.46	4.0	96.0	0.0	0.27	1.01	0.82	0.72	0.59	16016	2034	2	0	0	0	0	logfile
✔	8DKE	27488	2024-12-27	2022-07-05	3.18	3.43	3.12	3.4	0.003	0.74	2.0	0.05	14.40	0.01	2.179	7.36	0.83	6.2	93.8	0.0	-0.95	0.57	0.85	3.68	3.4	0.003	0.56	0.0	0.04	15.64	0.00	2.592	4.48	2.07	6.6	93.4	0.0	0.27	0.28	0.56	0.85	3.37	4369	553	3	0	0	0	0	logfile
✔	7YEG	33772	2024-12-29	2022-07-05	3.73	3.29	3.71	3.5	0.002	0.48	0.0	0.04	13.19	0.00	2.191	5.16	0.37	3.1	96.8	0.0	-4.62	0.61	0.57	0.60	3.5	0.003	0.69	0.0	0.04	15.52	0.00	1.872	9.26	2.16	4.6	95.4	0.0	-1.61	1.79	0.59	0.55	1.05	49974	6306	24	0	51	0	0	logfile
✔	8ACC	15346	2024-12-27	2022-07-05	2.9	3.30	2.80	3.3	0.002	0.70	0.0	0.05	13.62	0.00	2.200	6.25	0.00	11.4	86.5	2.2	-2.46	0.20	0.81	4.38	3.3	0.005	0.70	0.0	0.05	17.26	0.00	2.479	6.55	3.95	12.7	86.5	0.9	-1.75	0.60	0.20	0.84	3.72	1779	231	2	5	0	0	0	logfile
✔	8ACB	15345	2024-12-27	2022-07-05	2.6	2.88	1.65	2.9	0.004	0.71	0.0	0.08	15.24	0.00	2.257	7.47	0.00	7.8	92.2	0.0	-0.81	0.21	0.81	4.10	2.9	0.003	0.59	0.0	0.04	17.75	0.00	2.583	4.88	1.14	8.7	91.3	0.0	-0.52	1.22	0.20	0.84	3.54	1815	220	2	5	0	0	0	logfile
✔	7YDM	33753	2024-12-28	2022-07-04	2.89	2.31	2.90	2.1	0.007	0.72	0.0	0.05	13.26	0.01	2.115	3.82	0.00	5.0	95.0	0.0	-0.11	0.79	0.80	3.14	2.1	0.002	0.52	0.0	0.04	16.13	0.00	2.438	2.59	1.70	2.9	97.1	0.0	1.11	0.37	0.80	0.81	1.85	8131	1031	5	0	0	0	0	logfile
✔	7YDQ	33756	2024-12-27	2022-07-04	4.04	4.32	4.02	4.4	0.006	0.83	0.0	0.04	17.50	0.01	2.262	10.34	0.57	3.2	96.8	0.0	1.21	0.46	0.63	—	4.4	0.003	0.72	0.0	0.04	14.02	0.00	2.545	8.57	0.19	3.2	96.8	0.0	0.91	0.57	0.57	0.69	—	4778	598	2	0	1	0	0	logfile
✔	7YDi	33748	2024-12-29	2022-07-04	3.98	3.84	3.72	3.8	0.003	0.70	0.0	0.05	14.60	0.00	1.938	5.91	0.67	3.8	96.2	0.0	-0.82	0.64	0.62	0.76	3.8	0.005	0.95	1.0	0.05	16.35	0.00	2.376	9.35	3.04	4.1	95.8	0.1	-0.15	2.18	0.72	0.73	1.15	9675	1229	5	0	5	0	0	logfile
✔	7YDJ	33749	2024-12-28	2022-07-04	3.03	2.35	3.04	2.1	0.006	0.73	0.0	0.05	12.73	0.00	2.184	6.74	0.10	6.2	93.8	0.0	-0.66	0.75	0.75	2.66	2.1	0.003	0.63	0.0	0.04	14.85	0.00	2.587	4.00	0.94	4.2	95.8	0.0	0.55	0.35	0.75	0.76	2.51	8751	1111	5	0	0	0	0	logfile
✔	7YDH	33747	2024-12-28	2022-07-04	3.1	2.35	3.15	2.2	0.006	0.80	0.0	0.05	12.11	0.00	2.153	6.24	0.73	4.3	95.7	0.0	0.01	0.74	0.73	3.58	2.2	0.004	0.69	0.0	0.04	14.55	0.00	2.431	5.21	2.09	3.7	96.2	0.1	0.75	0.43	0.74	0.75	2.73	8764	1116	5	0	0	0	0	logfile
✔	7YDP	33755	2024-12-28	2022-07-04	3.1	2.36	3.18	2.1	0.005	0.73	0.0	0.05	12.57	0.00	2.123	11.85	0.00	5.2	94.8	0.0	-1.21	0.68	0.65	1.63	2.1	0.004	0.71	0.0	0.04	15.04	0.01	2.510	8.78	2.20	5.0	95.0	0.0	-0.20	0.38	0.69	0.66	1.20	8028	1022	5	0	0	0	0	logfile
✔	8DK5	27483	2024-12-31	2022-07-02	2.71	3.29	2.87	3.2	0.011	1.11	3.0	0.07	27.41	0.01	2.088	9.15	0.39	4.6	95.3	0.2	-0.97	0.74	0.79	3.50	3.2	0.004	0.64	0.0	0.04	27.50	0.00	2.333	6.70	2.64	4.5	95.5	0.0	1.27	1.59	0.69	0.77	3.28	15618	1210	12	298	0	0	0	logfile
✔	7YD1	33745	2024-12-27	2022-07-02	2.99	2.38	7.99	2.2	0.002	0.49	0.0	0.04	9.00	0.00	2.215	6.14	5.46	10.0	90.0	0.0	-4.06	0.75	0.74	3.20	2.2	0.006	0.78	0.0	0.05	13.49	0.01	2.529	9.22	2.73	10.9	89.1	0.0	-2.11	0.59	0.77	0.79	3.03	3305	428	3	0	0	0	0	logfile
✔	8DK3	27482	2024-12-28	2022-07-01	3.28	4.10	3.38	3.6	0.006	0.58	0.0	0.04	16.40	0.00	1.869	3.66	0.85	6.8	93.2	0.0	-0.13	0.85	0.87	2.42	3.7	0.005	0.59	0.0	0.04	17.70	0.00	1.896	2.21	1.22	5.3	94.7	0.0	0.04	0.39	0.86	0.88	2.38	8905	999	7	52	4	0	0	logfile
✔	7YCi	33740	2024-12-28	2022-07-01	2.98	4.31	3.09	3.2	0.002	0.48	0.0	0.02	24.35	0.00	1.521	15.79	0.00	0.0	0.0	0.0	—	0.93	0.84	—	3.3	0.007	0.68	0.0	0.04	24.68	0.00	1.863	22.55	0.00	0.0	0.0	0.0	—	1.23	0.95	0.90	—	8474	0	3	395	4	0	0	logfile

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