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
✔	8T4Y	41040	2024-12-30	2023-06-12	3.58	4.16	3.66	4.0	0.003	0.66	0.0	0.04	16.20	0.00	2.242	7.50	0.00	4.1	95.9	0.0	2.13	0.68	0.73	1.49	4.0	0.003	0.64	0.0	0.04	17.26	0.00	2.467	6.70	5.78	3.0	97.0	0.0	2.77	0.56	0.74	0.79	1.59	13348	2004	8	0	4	0	0	logfile
✔	8JPP	36486	2024-12-28	2023-06-12	3.2	3.55	3.24	3.5	0.004	0.65	0.0	0.04	15.09	0.01	2.223	8.99	0.68	4.6	95.4	0.0	-0.08	0.66	0.82	3.05	3.5	0.003	0.61	0.0	0.04	16.10	0.00	2.576	7.06	2.99	3.6	96.4	0.0	0.46	0.41	0.66	0.84	2.56	7137	922	5	0	1	0	0	logfile
✔	8PD8	17605	2024-12-31	2023-06-12	3.3	2.43	3.21	2.1	0.005	0.85	0.0	0.05	13.01	0.01	2.240	6.27	0.00	2.4	97.6	0.0	0.77	0.68	0.71	1.97	2.9	0.004	0.66	0.0	0.04	15.99	0.00	2.562	7.42	1.88	1.4	98.6	0.0	2.03	1.19	0.78	0.78	1.69	16122	2036	4	0	2	0	0	logfile
✔	8PD9	17607	2024-12-28	2023-06-12	3.6	2.49	3.49	2.3	0.005	0.73	0.0	0.04	13.44	0.01	2.197	5.39	0.11	2.1	97.9	0.0	2.01	0.64	0.68	1.57	2.2	0.003	0.64	0.0	0.04	16.59	0.00	2.476	6.78	2.50	1.1	98.9	0.0	2.07	1.90	0.73	0.75	1.84	8107	1024	2	0	1	0	0	logfile
✔	8T53	41042	2024-12-27	2023-06-12	4.1	4.29	4.68	4.1	0.002	0.59	0.0	0.04	12.60	0.00	2.201	11.96	0.00	1.8	98.2	0.0	0.81	0.45	0.45	—	4.2	0.002	0.63	0.0	0.04	13.48	0.00	2.545	9.12	0.00	2.2	97.8	0.0	1.57	0.61	0.44	0.40	—	6660	796	2	0	0	0	0	logfile
✔	8T56	41043	2024-12-30	2023-06-12	2.8	2.38	2.74	2.9	0.027	1.66	0.0	0.11	14.22	0.01	2.385	1.27	0.00	0.5	99.5	0.0	0.58	0.84	0.87	4.71	2.8	0.003	0.57	0.0	0.04	15.38	0.00	2.503	3.46	1.96	0.8	99.2	0.0	3.20	1.18	0.81	0.87	3.33	13096	1498	18	0	36	0	0	logfile
✔	8PDo	17616	2024-12-27	2023-06-12	3.1	3.28	3.06	3.3	0.006	0.66	0.0	0.04	15.62	0.00	2.068	8.31	0.00	1.9	98.1	0.0	0.19	0.60	0.81	3.39	3.3	0.003	0.50	0.0	0.04	16.93	0.00	2.591	7.43	0.84	1.4	98.6	0.0	1.60	1.11	0.59	0.82	2.28	5722	702	3	14	0	0	0	logfile
✔	8T57	41044	2024-12-28	2023-06-12	2.7	2.45	2.65	3.0	0.027	1.65	0.0	0.12	11.19	0.01	2.385	1.27	0.00	0.8	99.2	0.0	0.77	0.80	0.82	4.03	3.0	0.003	0.59	0.0	0.04	14.24	0.00	2.586	6.33	1.33	1.8	98.2	0.0	2.45	0.57	0.76	0.83	2.72	8466	1008	4	0	20	0	0	logfile
✔	8JPR	36487	2024-12-29	2023-06-12	3.4	3.63	3.40	3.7	0.003	0.56	0.0	0.04	13.51	0.00	2.111	6.61	0.00	2.2	97.8	0.0	1.04	0.69	0.82	2.53	3.6	0.003	0.56	0.0	0.04	15.55	0.00	2.072	6.47	1.53	2.2	97.8	0.0	1.91	1.07	0.67	0.87	1.85	11396	1460	4	0	8	0	0	logfile
✔	8JPo	36485	2024-12-29	2023-06-12	3.4	3.43	3.16	3.4	0.004	0.63	0.0	0.04	12.94	0.00	2.267	6.38	0.00	2.8	97.2	0.0	0.44	0.75	0.90	3.16	3.4	0.002	0.53	0.0	0.04	13.98	0.00	2.286	4.69	0.48	3.3	96.7	0.0	1.61	0.37	0.74	0.91	2.64	11476	1466	4	0	8	0	0	logfile
✔	8JPJ	36481	2024-12-29	2023-06-12	3.5	3.22	3.01	3.3	0.003	0.58	0.0	0.04	13.48	0.00	2.026	5.13	0.00	3.1	96.9	0.0	1.48	0.51	0.72	2.26	3.3	0.003	0.59	0.0	0.04	15.89	0.00	2.604	5.34	1.99	2.8	97.1	0.1	1.57	1.46	0.72	0.87	2.09	11448	1466	4	0	4	0	0	logfile
✔	8PDS	17620	2024-12-27	2023-06-12	2.9	3.01	2.88	3.0	0.004	0.58	0.0	0.04	15.09	0.00	2.230	7.92	0.16	1.6	98.4	0.0	-0.16	0.68	0.83	3.17	3.0	0.003	0.55	0.0	0.04	17.06	0.00	2.492	6.51	1.89	1.1	98.9	0.0	1.19	0.40	0.68	0.84	2.45	6056	744	5	14	0	0	0	logfile
✔	8JPS	36488	2024-12-27	2023-06-12	3.65	2.65	2.29	3.7	0.003	0.69	0.0	0.04	12.41	0.00	2.310	9.82	0.43	6.8	93.2	0.0	-0.34	0.64	0.68	1.57	3.7	0.004	0.79	0.0	0.04	15.05	0.00	2.321	12.11	3.45	7.2	92.8	0.0	-0.43	0.51	0.64	0.69	1.13	4616	640	4	0	0	0	0	logfile
✔	8JPN	36484	2024-12-28	2023-06-12	2.9	3.03	2.75	3.0	0.004	0.61	0.0	0.04	15.56	0.00	2.268	3.27	0.36	3.3	96.7	0.0	1.11	0.60	0.72	1.27	3.0	0.003	0.59	0.0	0.04	16.18	0.00	2.564	2.72	1.90	2.9	97.1	0.0	1.32	1.19	0.73	0.90	3.33	8557	1157	6	0	1	0	0	logfile
✔	8T50	41041	2024-12-30	2023-06-12	3.6	4.00	3.63	3.9	0.003	0.67	0.0	0.04	14.50	0.00	2.194	7.66	0.47	3.5	96.5	0.0	2.00	0.60	0.64	1.93	3.9	0.006	0.69	0.0	0.04	15.76	0.00	2.481	8.41	7.39	4.3	95.7	0.0	2.17	0.33	0.69	0.76	1.97	12720	1896	8	0	4	0	0	logfile
✔	8PD5	17601	2024-12-28	2023-06-11	3.4	2.30	3.32	2.1	0.003	0.53	0.0	0.04	13.12	0.00	2.148	2.18	0.00	2.2	97.8	0.0	1.83	0.61	0.77	2.43	2.1	0.003	0.51	0.0	0.04	15.85	0.00	2.597	4.06	2.28	1.7	98.3	0.0	2.40	0.97	0.68	0.81	2.22	8093	1024	1	0	0	0	0	logfile
✔	8PD2	17598	2024-12-28	2023-06-11	3.25	2.29	3.19	2.1	0.004	0.52	0.0	0.04	12.99	0.00	2.322	3.02	0.00	1.4	98.6	0.0	0.72	0.62	0.78	3.03	2.1	0.003	0.54	0.0	0.04	15.94	0.00	2.499	4.86	2.22	1.2	98.8	0.0	2.74	0.97	0.68	0.82	2.35	8270	1047	1	0	0	0	0	logfile
✔	8PD7	17602	2024-12-28	2023-06-11	3.4	2.32	3.31	2.1	0.003	0.59	0.0	0.04	12.69	0.00	2.276	3.44	0.11	1.5	98.5	0.0	1.39	0.62	0.78	2.65	2.1	0.004	0.54	0.0	0.04	15.49	0.00	2.598	4.71	2.04	2.2	97.8	0.0	2.28	0.99	0.69	0.81	2.13	8121	1028	1	0	0	0	0	logfile
✔	8PD3	17599	2024-12-28	2023-06-11	3.3	2.29	3.23	2.1	0.003	0.56	0.0	0.04	13.67	0.00	2.227	4.23	0.00	1.3	98.7	0.0	0.70	0.61	0.78	2.84	2.1	0.004	0.56	0.0	0.04	15.70	0.00	2.543	4.41	2.15	1.7	98.3	0.0	2.30	0.96	0.67	0.81	2.04	8121	1028	1	0	0	0	0	logfile
✔	8JPF	36478	2024-12-27	2023-06-11	3.02	3.21	3.41	3.3	0.008	0.81	0.0	0.04	18.98	0.00	2.214	5.45	0.46	2.7	97.3	0.0	2.25	0.48	0.75	2.58	3.3	0.003	0.69	0.0	0.04	17.63	0.00	2.460	6.81	3.21	3.0	97.0	0.0	1.74	0.94	0.45	0.78	2.35	2269	304	3	0	1	0	0	logfile

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