PDB-4fzh: Structure of the Ulster Strain Newcastle Disease Virus Hemaggluti...

ID or keywords:

Entry

Database: PDB / ID: 4fzh

Title

Structure of the Ulster Strain Newcastle Disease Virus Hemagglutinin-Neuraminidase Reveals Auto-Inhibitory Interactions Associated with Low Virulence

Components

Hemagglutinin-neuraminidase

Keywords

HYDROLASE

Function / homology

Function and homology information

exo-alpha-sialidase / exo-alpha-sialidase activity / host cell surface receptor binding / symbiont entry into host cell / viral envelope / virion attachment to host cell / host cell plasma membrane / virion membrane / membrane
Similarity search - Function

Biological species

Newcastle disease virus

Method

X-RAY DIFFRACTION /

SYNCHROTRON /

MOLECULAR REPLACEMENT / Resolution: 3.5008 Å

Authors

Yuan, P. / Paterson, R.G. / Leser, G.P. / Lamb, R.A. / Jardetzky, T.S.

Citation

Journal: Plos Pathog. / Year: 2012
Title: Structure of the ulster strain newcastle disease virus hemagglutinin-neuraminidase reveals auto-inhibitory interactions associated with low virulence.
Authors: Yuan, P. / Paterson, R.G. / Leser, G.P. / Lamb, R.A. / Jardetzky, T.S.

History

Deposition	Jul 6, 2012	Deposition site: RCSB / Processing site: RCSB
Revision 1.0	Sep 5, 2012	Provider: repository / Type: Initial release
Revision 2.0	Jul 29, 2020	Group: Atomic model / Data collection ...Atomic model / Data collection / Database references / Derived calculations / Structure summary Category: atom_site / chem_comp ...atom_site / chem_comp / entity / pdbx_branch_scheme / pdbx_chem_comp_identifier / pdbx_entity_branch / pdbx_entity_branch_descriptor / pdbx_entity_branch_link / pdbx_entity_branch_list / pdbx_entity_nonpoly / pdbx_nonpoly_scheme / pdbx_struct_assembly_gen / struct_asym / struct_conn / struct_ref_seq_dif / struct_site / struct_site_gen Item: _atom_site.B_iso_or_equiv / _atom_site.Cartn_x ..._atom_site.B_iso_or_equiv / _atom_site.Cartn_x / _atom_site.Cartn_y / _atom_site.Cartn_z / _atom_site.auth_asym_id / _atom_site.auth_seq_id / _atom_site.label_asym_id / _atom_site.label_entity_id / _chem_comp.name / _chem_comp.type / _pdbx_entity_nonpoly.entity_id / _pdbx_entity_nonpoly.name / _pdbx_struct_assembly_gen.asym_id_list / _struct_conn.pdbx_dist_value / _struct_conn.pdbx_leaving_atom_flag / _struct_conn.pdbx_role / _struct_conn.ptnr1_auth_asym_id / _struct_conn.ptnr1_auth_comp_id / _struct_conn.ptnr1_auth_seq_id / _struct_conn.ptnr1_label_asym_id / _struct_conn.ptnr1_label_atom_id / _struct_conn.ptnr1_label_comp_id / _struct_conn.ptnr1_label_seq_id / _struct_conn.ptnr2_auth_asym_id / _struct_conn.ptnr2_auth_seq_id / _struct_conn.ptnr2_label_asym_id / _struct_ref_seq_dif.details Description: Carbohydrate remediation / Provider: repository / Type: Remediation
Revision 2.1	Sep 13, 2023	Group: Data collection / Database references ...Data collection / Database references / Refinement description / Structure summary Category: chem_comp / chem_comp_atom ...chem_comp / chem_comp_atom / chem_comp_bond / database_2 / pdbx_initial_refinement_model Item: _chem_comp.pdbx_synonyms / _database_2.pdbx_DOI / _database_2.pdbx_database_accession
Revision 2.2	Nov 27, 2024	Group: Structure summary / Category: pdbx_entry_details / pdbx_modification_feature

Structure viewer	Molecule: MolmilJmol/JSmol

-
Download

PDBx/mmCIF format	4fzh.cif.gz	778.7 KB	Display	PDBx/mmCIF format
PDB format	pdb4fzh.ent.gz	658.4 KB	Display	PDB format
PDBx/mmJSON format	4fzh.json.gz		Tree view	PDBx/mmJSON format
Others	Other downloads

-
Validation report

Arichive directory	https://data.pdbj.org/pub/pdb/validation_reports/fz/4fzh ftp://data.pdbj.org/pub/pdb/validation_reports/fz/4fzh	HTTPS FTP

-
Related structure data

Related structure data	1e8tS S: Starting model for refinement
Similar structure data	1ykj-2 5ni4-d 4e7s-d 6o5h-d 1ez0-d 6f2y-d 2e8z-d 5e26-d Search similar-shape structures by Omokage search (details) Search similar-shape structures by Omokage search (details) Search similar-shape structures by Omokage search (details) Similarity search - Function & homologyF&H Search Similarity search - FunctionF&H Search Similarity search - HomologyF&H Search

-
Links

PDB pages	PDBj / wwPDB / NCBI
Related items in Molecule of the Month	#231 - Mar 2019 Measles Virus Proteins similarity (3) #113 - May 2009 Influenza Neuraminidase similarity (2)

Deposited unit

A: Hemagglutinin-neuraminidase

B: Hemagglutinin-neuraminidase

C: Hemagglutinin-neuraminidase

D: Hemagglutinin-neuraminidase

hetero molecules

239 kDa, 4 polymers
Search similar-shape structures of this assembly by Omokage search (details)

1

Idetical with deposited unit
defined by author

2

A: Hemagglutinin-neuraminidase

B: Hemagglutinin-neuraminidase

hetero molecules

defined by software
120 kDa, 2 polymers
Search similar-shape structures of this assembly by Omokage search (details)

3

C: Hemagglutinin-neuraminidase

D: Hemagglutinin-neuraminidase

hetero molecules

defined by software
120 kDa, 2 polymers
Search similar-shape structures of this assembly by Omokage search (details)

Unit cell

Length a, b, c (Å)	124.606, 124.606, 284.914
Angle α, β, γ (deg.)	90.00, 90.00, 120.00
Int Tables number	152
Space group name H-M	P3₁21

#1: Protein

Hemagglutinin-neuraminidase

Mass: 59032.398 Da / Num. of mol.: 4 / Fragment: HEAD DOMAIN UNP Residues 124-616
Source method: isolated from a genetically manipulated source
Source: (gene. exp.)

Newcastle disease virus / Strain: chicken/N. Ireland/Ulster/67 / Gene: HN / Production host:

Spodoptera frugiperda (fall armyworm) / References: UniProt: P12558, exo-alpha-sialidase

#2: Polysaccharide

2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose

Type: oligosaccharide / Mass: 424.401 Da / Num. of mol.: 4
Source method: isolated from a genetically manipulated source

Descriptor	Type	Program
DGlcpNAcb1-4DGlcpNAcb1-	Glycam Condensed Sequence	GMML 1.0
WURCS=2.0/1,2,1/[a2122h-1b_1-5_2*NCC/3=O]/1-1/a4-b1	WURCS	PDB2Glycan 1.1.0
[]{[(4+1)][b-D-GlcpNAc]{[(4+1)][b-D-GlcpNAc]{}}}	LINUCS	PDB-CARE

#3: Sugar

ChemComp-NAG / 2-acetamido-2-deoxy-beta-D-glucopyranose / N-acetyl-beta-D-glucosamine / 2-acetamido-2-deoxy-beta-D-glucose / 2-acetamido-2-deoxy-D-glucose / 2-acetamido-2-deoxy-glucose / N-ACETYL-D-GLUCOSAMINE

Type: D-saccharide, beta linking / Mass: 221.208 Da / Num. of mol.: 7
Source method: isolated from a genetically manipulated source
Formula: C₈H₁₅NO₆

Identifier	Type	Program
DGlcpNAcb	CONDENSED IUPAC CARBOHYDRATE SYMBOL	GMML 1.0
N-acetyl-b-D-glucopyranosamine	COMMON NAME	GMML 1.0
b-D-GlcpNAc	IUPAC CARBOHYDRATE SYMBOL	PDB-CARE 1.0
GlcNAc	SNFG CARBOHYDRATE SYMBOL	GMML 1.0

Has protein modification

Y

-
Experiment

Experiment	Method: X-RAY DIFFRACTION / Number of used crystals: 1

-
Sample preparation

Crystal	Density Matthews: 2.7 Å³/Da / Density % sol: 54.51 %
Crystal grow	Temperature: 291 K / Method: evaporation / pH: 7.5 Details: 17% PEG 8000, 200 mM MgCl2, 100 mM Tris, pH 7.5, EVAPORATION, temperature 291K

-
Data collection

Diffraction	Mean temperature: 77.2 K
Diffraction source	Source: SYNCHROTRON / Site: APS / Beamline: 24-ID-E / Wavelength: 0.97916 Å
Detector	Type: ADSC QUANTUM 315 / Detector: CCD / Date: Feb 16, 2011
Radiation	Monochromator: Cryo-Cooled double crystal / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray
Radiation wavelength	Wavelength: 0.97916 Å / Relative weight: 1
Reflection	Resolution: 3.5→46.913 Å / Num. obs: 33126

-
Processing

Software

Name	Version	Classification
HKL-2000		data collection
CCP4		model building
PHASER	for MR	phasing
PHENIX	(phenix.refine: 1.7.1_743)	refinement
HKL-2000		data reduction
HKL-2000		data scaling
CCP4		phasing

Refinement

Method to determine structure:

MOLECULAR REPLACEMENT
Starting model: PDB ENTRY 1E8T

1e8t

Resolution: 3.5008→46.913 Å / SU ML: 1.05 / σ(F): 1.34 / Phase error: 31.78 / Stereochemistry target values: ML

	R_factor	Num. reflection	% reflection
R_free	0.3042	1662	5.06 %
R_work	0.2361	-	-
obs	0.2395	32817	99.13 %

Solvent computation

Shrinkage radii: 0.83 Å / VDW probe radii: 1.1 Å / Solvent model: FLAT BULK SOLVENT MODEL / B_sol: 87.582 Å² / k_sol: 0.268 e/Å³

Displacement parameters

	B_aniso -1	B_aniso -2
1-	0 Å²	0 Å²
2-	-	0 Å²
3-	-	-

Refinement step

Cycle: LAST / Resolution: 3.5008→46.913 Å

	Protein	Nucleic acid	Ligand	Solvent	Total
Num. atoms	15032	0	210	0	15242

Refine LS restraints

Refine-ID	Type	Dev ideal	Number
X-RAY DIFFRACTION	f_bond_d	0.006	15659
X-RAY DIFFRACTION	f_angle_d	1.04	21291
X-RAY DIFFRACTION	f_dihedral_angle_d	15.401	5664
X-RAY DIFFRACTION	f_chiral_restr	0.071	2400
X-RAY DIFFRACTION	f_plane_restr	0.005	2735

LS refinement shell

Resolution (Å)	R_factor R_free	Num. reflection R_free	R_factor R_work	Num. reflection R_work	Refine-ID	% reflection obs (%)
3.5008-3.6037	0.4389	121	0.3493	2585	X-RAY DIFFRACTION	100
3.6037-3.72	0.3356	132	0.3117	2578	X-RAY DIFFRACTION	100
3.72-3.8529	0.3551	138	0.3054	2568	X-RAY DIFFRACTION	100
3.8529-4.0071	0.378	158	0.2896	2569	X-RAY DIFFRACTION	100
4.0071-4.1894	0.3651	140	0.2707	2564	X-RAY DIFFRACTION	100
4.1894-4.4101	0.3126	141	0.2371	2593	X-RAY DIFFRACTION	100
4.4101-4.6862	0.2538	140	0.2077	2580	X-RAY DIFFRACTION	100
4.6862-5.0476	0.2482	128	0.1866	2596	X-RAY DIFFRACTION	99
5.0476-5.5548	0.2658	147	0.206	2601	X-RAY DIFFRACTION	100
5.5548-6.3569	0.3661	144	0.2498	2639	X-RAY DIFFRACTION	100
6.3569-8.0026	0.2804	137	0.2106	2629	X-RAY DIFFRACTION	99
8.0026-46.9176	0.2781	136	0.224	2653	X-RAY DIFFRACTION	94

Refinement TLS params.

Method: refined / Refine-ID: X-RAY DIFFRACTION

ID	L11 (°²)	L12 (°²)	L13 (°²)	L22 (°²)	L23 (°²)	L33 (°²)	S11 (Å °)	S12 (Å °)	S13 (Å °)	S21 (Å °)	S22 (Å °)	S23 (Å °)	S31 (Å °)	S32 (Å °)	S33 (Å °)	T11 (Å²)	T12 (Å²)	T13 (Å²)	T22 (Å²)	T23 (Å²)	T33 (Å²)	Origin x (Å)	Origin y (Å)	Origin z (Å)
1	2.315	1.2735	-1.0237	2.5115	-0.4922	1.9107	-0.1606	-0.6292	0.2961	0.4268	0.6404	0.5157	-0.3167	-0.9782	-0.2548	0.478	0.1462	0.2162	2.2035	-0.447	0.7659	-31.0727	11.6002	15.2727
2	7.9856	0.156	-6.5819	3.3591	-0.8057	5.5644	-1.3375	-0.7672	0.3722	-0.1343	0.7171	0.1602	-0.2875	0.4006	0.1352	0.481	0.0981	-0.0265	1.9502	-0.5739	1.056	-25.0094	20.9551	10.9265
3	1.4861	-0.2695	0.5807	5.5131	-1.8645	1.0204	-0.3038	-0.9777	0.8312	0.611	0.2018	-1.6076	-0.3924	-0.1069	0.156	0.6709	0.072	-0.223	1.5069	-0.424	1.0459	-7.452	16.6226	15.7058
4	3.0425	-0.6117	-0.3501	5.2258	0.2789	0.9357	-0.1619	-0.4651	-0.2306	0.4297	-0.0858	-0.7622	0.1148	0.0008	0.2006	0.4342	0.1201	0.103	1.6078	-0.1634	0.5085	-11.7224	-2.8531	17.0556
5	6.278	0.0945	-1.3813	4.4336	-1.4236	1.4794	0.0145	-1.0656	-0.6591	0.0481	0.4339	0.2525	0.0039	-0.0321	-0.2876	0.3029	0.0078	0.0624	1.2318	-0.3362	0.5617	-29.0486	0.8903	9.5564
6	1.78	-1.2507	2.2469	2.4949	0.5577	5.6872	-0.2824	-0.4674	-0.1126	0.4557	0.1272	0.9845	0.8192	-1.1653	0.2016	0.444	-0.0776	0.4495	1.5337	-0.406	0.8269	-37.7858	5.0094	9.3495
7	1.9942	1.2226	1.6831	5.6441	-3.5598	5.7304	-0.1474	0.3929	0.7132	-1.1453	0.3846	1.0272	1.5216	-0.2436	-0.1549	0.6295	0.1275	-0.0029	1.2037	-0.2875	1.1227	-30.1404	2.3219	-10.3838
8	4.2555	0.0693	-0.261	0.8263	-1.4691	2.6193	-0.1143	-0.5339	0.9398	0.3256	-0.261	-0.3236	-0.8918	-0.5484	0.1843	0.7778	0.1944	0.1284	0.9949	-0.6405	1.6857	-29.7864	37.0701	-0.6993
9	3.8111	-0.552	0.2228	1.5008	-1.6041	2.8545	-0.4458	-0.1961	0.8905	0.2942	0.25	0.4291	-0.2191	-0.819	0.2059	0.6326	0.172	0.058	1.1344	-0.3895	1.6811	-48.466	40.0216	-5.8794
10	4.0171	1.8983	0.0939	2.2267	0.0339	3.2854	-0.3918	0.7648	0.8717	-0.1418	0.2132	0.2348	-0.0403	0.0202	0.2256	0.3678	0.1431	0.0052	0.8233	-0.1855	1.2846	-31.7094	36.5994	-12.8091
11	4.1787	5.2279	-3.5929	6.8838	-2.9801	9.4454	0.8736	-1.0908	-0.3165	-0.3236	-1.4145	0.4902	-0.6307	0.8389	0.3657	0.4992	0.0365	0.1102	1.0001	-0.4725	1.2772	-22.9601	34.6591	-9.0915
12	7.7509	5.0339	-0.6924	6.7195	-2.8852	7.3003	-0.0978	-0.0145	0.2815	-1.447	-0.2147	-1.578	0.6299	0.2784	0.1714	0.5987	0.1487	0.0198	1.0741	-0.0028	1.2159	-30.2551	18.1357	-20.2885
13	0.7092	-0.4745	-0.2135	1.6043	-0.5854	4.1526	-0.0034	-0.9986	0.0988	1.2736	0.2431	-0.2699	-0.0501	0.1358	0.1316	2.3419	0.3453	-1.4162	1.3745	-0.0531	0.9424	1.6124	45.4824	44.3325
14	2.7836	-0.672	1.6765	1.7851	0.5827	1.5863	0.1607	-0.2089	-0.4791	1.1828	1.1248	-0.3286	0.3046	0.7212	-0.8094	2.1071	0.4349	-0.8762	1.484	-0.4274	1.4259	4.091	40.8089	33.57
15	4.6091	-2.7172	-0.1612	7.1559	1.1422	0.3026	0.3883	0.0703	-0.9341	0.8212	0.3328	0.0779	0.2573	0.3327	-0.6161	1.8857	0.1275	-0.6256	1.0445	-0.1114	0.8938	-10.7224	46.2782	23.5817
16	2.3151	-1.5681	-0.7197	4.5858	0.4383	0.2505	-0.3447	-0.2378	0.2922	1.2612	0.3871	-0.4428	0.4681	-0.6054	-0.0333	1.7985	0.0755	-0.304	1.4121	0.1219	0.7107	-15.5762	61.1529	34.3508
17	4.1176	-1.4787	2.3728	1.5661	0.4139	5.4099	-0.3385	-1.2402	0.4022	-0.1518	0.4597	-0.2349	1.0251	-0.9482	-0.0839	2.3471	0.2936	-0.7655	0.9811	-0.0689	1.0062	-6.2278	61.9768	43.5357
18	2.7572	0.5475	1.2244	1.173	0.1625	2.4735	-0.0497	-1.1716	-0.0098	0.6026	0.0699	-0.5157	-0.6892	0.0176	-0.1037	2.2979	0.211	-1.3827	1.2454	-0.4824	1.3588	6.4828	53.7349	44.7501
19	5.7393	-0.238	3.7398	2.1488	2.7475	9.6983	-0.3929	-0.7799	0.1813	0.4823	0.9382	0.053	-1.5312	-0.5229	-0.091	2.8091	0.6682	-0.899	1.1678	-0.2562	1.0981	8.0807	52.27	50.1131
20	4.6697	0.0983	-0.9383	0.5713	-1.1238	2.2845	0.9701	-0.7345	0.4165	1.4733	0.1463	-1.4057	0.6119	1.2127	-0.1883	1.5662	0.953	-0.9259	0.9203	-0.2674	2.0894	18.5978	65.2958	36.5536
21	0.1408	0.3842	-0.3968	3.2925	-0.1519	1.6479	0.6082	0.3683	-0.698	-0.6868	-0.5841	-0.8254	0.597	0.4057	-0.0126	2.329	0.7327	-1.1312	1.5718	-0.3901	2.2262	20.1669	31.0343	25.5072
22	1.7451	-0.5293	-0.2126	0.3302	0.474	0.9659	0.0049	0.1831	-0.3574	0.3947	0.1982	-0.7782	0.2632	0.8303	-0.029	1.9293	1.0606	-1.4477	1.2576	-0.3226	2.3685	35.6088	26.7762	36.8947
23	0.8996	0.382	-0.1798	2.2355	-1.4125	0.9746	0.1767	0.3313	-0.3191	0.7061	0.3344	-1.4865	0.2931	1.1311	-0.49	1.5333	0.6344	-0.6708	1.4813	-0.4946	2.3557	30.5365	36.5129	22.0024
24	4.1816	-5.4813	-5.4631	7.1621	7.152	7.1419	0.668	1.7171	1.3078	-1.2359	-0.9404	-0.7474	-2.2522	-2.6688	0.4645	1.7462	0.3417	-0.5888	1.7629	-0.1078	2.3843	22.163	38.2618	17.3037
25	1.1582	0.7076	-0.8268	3.1993	2.831	4.5752	0.2182	-0.218	0.9745	-1.1225	0.0176	-1.4143	-0.1747	0.0162	-0.185	1.5776	0.6562	-0.5699	1.8864	-0.3607	2.5769	30.6017	56.1943	25.6525

Refinement TLS group

ID	Refine-ID	Refine TLS-ID	Selection details
1	X-RAY DIFFRACTION	1	chain 'A' and (resseq 124:192)
2	X-RAY DIFFRACTION	2	chain 'A' and (resseq 193:229)
3	X-RAY DIFFRACTION	3	chain 'A' and (resseq 230:300)
4	X-RAY DIFFRACTION	4	chain 'A' and (resseq 301:459)
5	X-RAY DIFFRACTION	5	chain 'A' and (resseq 460:555)
6	X-RAY DIFFRACTION	6	chain 'A' and (resseq 556:571)
7	X-RAY DIFFRACTION	7	chain 'A' and (resseq 578:615)
8	X-RAY DIFFRACTION	8	chain 'B' and (resseq 124:192)
9	X-RAY DIFFRACTION	9	chain 'B' and (resseq 193:459)
10	X-RAY DIFFRACTION	10	chain 'B' and (resseq 460:555)
11	X-RAY DIFFRACTION	11	chain 'B' and (resseq 556:571)
12	X-RAY DIFFRACTION	12	chain 'B' and (resseq 578:615)
13	X-RAY DIFFRACTION	13	chain 'C' and (resseq 124:192)
14	X-RAY DIFFRACTION	14	chain 'C' and (resseq 193:229)
15	X-RAY DIFFRACTION	15	chain 'C' and (resseq 230:300)
16	X-RAY DIFFRACTION	16	chain 'C' and (resseq 301:423)
17	X-RAY DIFFRACTION	17	chain 'C' and (resseq 424:506)
18	X-RAY DIFFRACTION	18	chain 'C' and (resseq 507:555)
19	X-RAY DIFFRACTION	19	chain 'C' and (resseq 556:571)
20	X-RAY DIFFRACTION	20	chain 'C' and (resseq 578:615)
21	X-RAY DIFFRACTION	21	chain 'D' and (resseq 124:192)
22	X-RAY DIFFRACTION	22	chain 'D' and (resseq 193:459)
23	X-RAY DIFFRACTION	23	chain 'D' and (resseq 460:555)
24	X-RAY DIFFRACTION	24	chain 'D' and (resseq 556:571)
25	X-RAY DIFFRACTION	25	chain 'D' and (resseq 578:615)

-
News

-
Feb 9, 2022. New format data for meta-information of EMDB entries

New format data for meta-information of EMDB entries

Version 3 of the EMDB header file is now the official format.
The previous official version 1.9 will be removed from the archive.

Related info.:EMDB header

External links:wwPDB to switch to version 3 of the EMDB data model

-
Aug 12, 2020. Covid-19 info

Covid-19 info

URL: https://pdbj.org/emnavi/covid19.php

New page: Covid-19 featured information page in EM Navigator.

Related info.:Covid-19 info / Mar 5, 2020. Novel coronavirus structure data

+
Mar 5, 2020. Novel coronavirus structure data

+
Jan 31, 2019. EMDB accession codes are about to change! (news from PDBe EMDB page)

+
Jul 12, 2017. Major update of PDB

-
Yorodumi

Thousand views of thousand structures

Yorodumi is a browser for structure data from EMDB, PDB, SASBDB, etc.
This page is also the successor to EM Navigator detail page, and also detail information page/front-end page for Omokage search.
The word "yorodu" (or yorozu) is an old Japanese word meaning "ten thousand". "mi" (miru) is to see.

Related info.:EMDB / PDB / SASBDB / Comparison of 3 databanks / Yorodumi Search / Aug 31, 2016. New EM Navigator & Yorodumi / Yorodumi Papers / Jmol/JSmol / Function and homology information / Changes in new EM Navigator and Yorodumi

-
Movie

-
Structure viewers

+
Viewer log

-
This page

-
This web site

-
Options

+
Open data

-
Basic information

-
Structure visualization

-
Downloads & links

-
Download

-
Validation report

-
Related structure data

-
Links

-
Assembly

-
Components

-
Experimental details

-
Experiment

-
Sample preparation

-
Data collection

-
Processing

+
About Yorodumi

-
News

-
Feb 9, 2022. New format data for meta-information of EMDB entries

-
Aug 12, 2020. Covid-19 info

+
Mar 5, 2020. Novel coronavirus structure data

+
Jan 31, 2019. EMDB accession codes are about to change! (news from PDBe EMDB page)

+
Jul 12, 2017. Major update of PDB

-
Yorodumi

-Movie

-Structure viewers

+Viewer log

-This page

-This web site

-Options

+Open data

-Basic information

-Structure visualization

-Downloads & links

-Download

-Validation report

-Related structure data

-Links

-Assembly

-Components

-Experimental details

-Experiment

-Sample preparation

-Data collection

-Processing

+About Yorodumi

-News

-Feb 9, 2022. New format data for meta-information of EMDB entries

-Aug 12, 2020. Covid-19 info

+Mar 5, 2020. Novel coronavirus structure data

+Jan 31, 2019. EMDB accession codes are about to change! (news from PDBe EMDB page)

+Jul 12, 2017. Major update of PDB

-Yorodumi

-
Movie

-
Structure viewers

+
Viewer log

-
This page

-
This web site

-
Options

+
Open data

-
Basic information

-
Structure visualization

-
Downloads & links

-
Download

-
Validation report

-
Related structure data

-
Links

-
Assembly

-
Components

-
Experimental details

-
Experiment

-
Sample preparation

-
Data collection

-
Processing

+
About Yorodumi

-
News

-
Feb 9, 2022. New format data for meta-information of EMDB entries

-
Aug 12, 2020. Covid-19 info

+
Mar 5, 2020. Novel coronavirus structure data

+
Jan 31, 2019. EMDB accession codes are about to change! (news from PDBe EMDB page)

+
Jul 12, 2017. Major update of PDB

-
Yorodumi