Table showing results for February 2025

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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
✔	8DJM	27461	2025-02-12	2022-07-01	3.23	3.66	3.31	3.6	0.029	1.53	2.0	1.04	32.65	0.00	1.844	8.23	0.82	3.7	96.3	0.0	-2.26	0.49	0.75	3.22	3.7	0.003	1.34	0.0	0.14	21.02	0.00	2.597	4.89	1.23	2.7	97.3	0.0	1.49	0.51	0.60	0.83	2.23	7032	862	7	0	8	0	0	logfile
✔	6T7D	10394	2025-02-12	2019-10-21	4.4	4.45	4.29	4.1	0.005	0.86	0.0	0.05	32.58	0.01	2.107	2.55	0.00	2.0	98.0	0.0	-2.34	0.86	0.77	—	4.1	0.006	0.74	0.0	0.04	32.06	0.00	2.069	17.83	0.00	6.1	93.9	0.0	1.96	0.72	0.87	0.83	—	8209	853	11	234	0	0	0	logfile
✔	8DJK	27460	2025-02-12	2022-06-30	3.33	3.77	3.32	3.7	0.029	1.52	1.0	1.03	32.03	0.01	1.327	7.25	0.82	5.0	95.0	0.0	-1.84	0.48	0.73	2.65	3.7	0.007	1.41	0.0	0.14	21.02	0.00	2.499	6.05	1.77	4.1	95.9	0.0	0.97	0.94	0.62	0.80	2.24	7091	870	7	0	8	0	0	logfile
✔	6M4D	30076	2025-02-14	2020-03-06	4.4	4.58	—	4.3	0.007	0.84	0.0	0.05	31.37	0.01	2.074	25.84	0.71	6.6	92.8	0.6	-2.81	0.88	0.82	—	4.3	0.006	0.74	0.0	0.04	30.54	0.01	2.086	20.77	0.00	2.7	96.7	0.6	0.59	1.42	0.88	0.83	—	10497	682	10	250	0	0	0	logfile
✔	8D2X	27153	2025-02-12	2022-05-30	3.4	3.58	3.42	3.5	0.012	1.40	0.0	0.06	30.54	0.01	2.260	6.47	0.34	6.7	93.2	0.1	-1.77	0.70	0.78	3.65	3.5	0.004	0.75	0.0	0.04	13.88	0.01	2.541	8.93	2.36	6.8	93.2	0.0	-0.14	0.60	0.72	0.80	2.63	6813	864	4	0	14	4	0	logfile
✔	8UPT	42455	2025-02-10	2023-10-23	2.8	3.38	2.84	2.9	0.016	2.20	0.0	0.16	30.45	0.01	1.072	99.56	0.00	0.0	0.0	0.0	—	0.23	0.59	—	2.9	0.006	0.72	0.0	0.04	27.67	0.01	2.087	17.90	0.00	0.0	0.0	0.0	—	1.00	0.28	0.88	—	1518	0	1	71	0	0	0	logfile
✔	7URi	26713	2025-02-10	2022-04-22	2.6	2.67	2.95	2.6	0.009	1.37	0.0	0.12	30.06	0.01	2.201	7.31	0.00	0.0	0.0	0.0	—	0.05	0.34	—	2.7	0.007	1.37	0.0	0.06	28.71	0.01	2.201	19.50	0.00	0.0	0.0	0.0	—	2.07	0.08	0.38	—	1905	0	1	90	0	0	0	logfile
✔	7Uo0	26636	2025-02-14	2022-04-12	3.4	4.47	—	3.5	0.003	2.23	0.0	0.11	29.93	0.00	2.117	7.29	2.04	6.4	93.6	0.0	-0.20	0.73	0.34	1.64	3.5	0.004	0.89	0.0	0.04	30.67	0.01	2.128	16.84	3.06	7.3	92.7	0.0	-2.92	5.04	0.83	0.62	1.37	10697	112	4	455	7	0	0	logfile
✔	8D2W	27152	2025-02-12	2022-05-30	3.4	3.58	3.39	3.5	0.012	1.39	0.0	0.05	29.93	0.01	2.277	6.85	0.84	6.5	93.3	0.1	-1.42	0.66	0.78	3.81	3.5	0.003	0.71	0.0	0.04	14.03	0.00	2.489	8.84	1.34	5.0	94.9	0.1	-0.31	1.77	0.70	0.80	3.55	6858	864	6	0	16	5	0	logfile
✔	7UR5	26705	2025-02-11	2022-04-21	2.6	2.89	2.82	2.9	0.008	1.48	0.0	0.11	29.59	0.01	2.204	2.44	0.00	0.0	0.0	0.0	—	0.05	0.58	—	2.9	0.007	0.97	0.0	0.05	27.17	0.01	1.981	14.29	0.00	0.0	0.0	0.0	—	1.53	0.08	0.70	—	5709	0	3	270	0	0	0	logfile
✔	8XPY	38563	2025-02-11	2024-01-04	3.63	3.53	3.62	1.6	0.004	0.79	0.0	0.05	29.42	0.00	2.217	10.44	4.39	10.1	89.9	0.0	-4.21	0.90	0.79	2.54	1.5	0.004	0.89	0.0	0.05	15.66	0.00	2.343	13.33	3.14	13.8	86.2	0.0	-2.24	2.12	0.92	0.84	2.10	4568	546	7	0	25	0	0	logfile
✔	9GXA	51645	2025-02-13	2024-09-29	4.01	4.77	4.07	4.0	0.004	0.65	0.0	0.04	29.32	0.00	1.931	15.93	0.00	1.6	98.4	0.0	1.51	0.85	0.76	—	4.0	0.005	0.72	0.0	0.04	30.06	0.00	2.345	16.41	0.00	2.3	97.7	0.0	1.28	1.07	0.88	0.85	—	9215	574	10	224	0	0	0	logfile
✔	6M4H	30078	2025-02-13	2020-03-07	3.9	4.39	—	3.9	0.008	0.89	0.0	0.05	29.22	0.01	1.729	27.61	2.85	3.1	96.7	0.2	-6.02	0.82	0.76	1.36	3.9	0.004	0.73	0.0	0.04	29.69	0.00	2.074	14.30	2.14	2.7	97.3	0.0	1.43	1.40	0.87	0.84	0.92	9420	656	10	206	0	0	0	logfile
✔	7D69	30591	2025-02-14	2020-09-29	3.57	3.34	—	3.6	0.009	0.88	0.0	0.05	28.86	0.01	2.062	19.76	0.00	5.2	94.8	0.0	-1.18	0.78	0.80	2.26	3.6	0.003	0.59	0.0	0.03	28.12	0.00	2.558	11.97	1.94	3.2	96.8	0.0	2.15	1.17	0.77	0.79	1.41	10857	727	10	250	0	0	0	logfile
✔	8JCC	36157	2025-02-14	2023-05-10	3.42	4.56	3.52	3.8	0.005	0.60	0.0	0.04	28.83	0.00	2.246	11.14	0.34	2.9	97.1	0.0	1.53	0.85	0.77	1.27	3.8	0.004	0.70	0.0	0.04	28.40	0.00	2.488	14.06	4.62	3.0	97.0	0.0	1.73	1.26	0.89	0.86	0.63	10358	707	10	232	0	0	0	logfile
✔	8SRP	40737	2025-02-13	2023-05-05	3.7	3.93	3.67	3.7	0.004	0.66	0.0	0.03	28.75	0.01	2.262	9.34	0.47	6.5	93.5	0.0	-1.47	0.74	0.72	2.00	3.7	0.004	0.63	0.0	0.03	28.52	0.00	2.482	10.13	3.27	7.6	92.4	0.0	-0.44	1.24	0.74	0.72	2.86	9516	849	14	214	0	0	0	logfile
✔	7X57	33010	2025-02-13	2022-03-04	3.63	3.95	—	3.8	0.003	0.63	0.0	0.03	28.74	0.01	2.286	9.90	0.20	1.4	98.6	0.0	0.39	0.82	0.76	1.31	3.8	0.007	0.75	0.0	0.04	30.20	0.00	2.385	13.31	3.76	3.3	96.7	0.0	1.82	1.24	0.84	0.81	1.35	9767	595	10	242	0	0	0	logfile
✔	8UPY	42457	2025-02-10	2023-10-23	2.8	3.43	3.00	2.9	0.012	1.65	0.0	0.12	28.73	0.01	1.040	88.62	0.00	0.0	0.0	0.0	—	0.18	0.52	—	2.9	0.006	0.78	0.0	0.04	27.61	0.01	2.038	25.14	0.00	0.0	0.0	0.0	—	1.07	0.22	0.75	—	1532	0	1	72	0	0	0	logfile
✔	8JCD	36158	2025-02-14	2023-05-11	3.14	4.04	3.34	3.7	0.003	0.57	0.0	0.04	28.68	0.00	2.208	9.70	0.69	2.6	97.2	0.1	1.81	0.86	0.85	1.25	3.7	0.004	0.64	0.0	0.04	28.79	0.00	2.396	10.33	2.57	3.5	96.4	0.1	2.62	0.50	0.86	0.84	0.84	10506	704	10	240	0	0	0	logfile
✔	8D2V	27151	2025-02-12	2022-05-30	4.1	4.15	3.87	4.1	0.010	1.27	0.0	0.05	28.64	0.01	2.262	6.24	0.75	6.2	93.8	0.0	-1.27	0.63	0.75	—	4.1	0.003	0.69	0.0	0.04	13.08	0.01	2.340	7.72	0.19	4.3	95.7	0.0	0.01	1.06	0.69	0.76	—	6388	864	4	0	10	0	0	logfile

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