PDB-3lzq: Crystal Structure Analysis of Manganese treated P19 protein from ...

ID or keywords:

Entry

Database: PDB / ID: 3lzq

Title

Crystal Structure Analysis of Manganese treated P19 protein from Campylobacter jejuni at 1.41 A at pH 9

Components

P19 protein

Keywords

TRANSPORT PROTEIN /

copper binding / iron transport / iron uptake / P19 delition

Function / homology

Function and homology information

metal ion binding
Similarity search - Function

Biological species

Campylobacter jejuni (Campylobacter)

Method

X-RAY DIFFRACTION /

SYNCHROTRON /

MOLECULAR REPLACEMENT / Resolution: 1.41 Å

Authors

Doukov, T.I. / Chan, A.C.K. / Scofield, M. / Ramin, A.B. / Tom-Yew, S.A.L. / Murphy, M.E.P.

Citation

Journal: J.Mol.Biol. / Year: 2010
Title: Structure and Function of P19, a High-Affinity Iron Transporter of the Human Pathogen Campylobacter jejuni.
Authors: Chan, A.C. / Doukov, T.I. / Scofield, M. / Tom-Yew, S.A. / Ramin, A.B. / Mackichan, J.K. / Gaynor, E.C. / Murphy, M.E.

History

Deposition	Mar 1, 2010	Deposition site: RCSB / Processing site: RCSB
Revision 1.0	Jul 21, 2010	Provider: repository / Type: Initial release
Revision 1.1	Jul 13, 2011	Group: Version format compliance
Revision 1.2	Feb 21, 2024	Group: Data collection / Database references / Derived calculations Category: chem_comp_atom / chem_comp_bond ...chem_comp_atom / chem_comp_bond / database_2 / pdbx_struct_conn_angle / struct_conn / struct_ref_seq_dif / struct_site Item: _database_2.pdbx_DOI / _database_2.pdbx_database_accession ..._database_2.pdbx_DOI / _database_2.pdbx_database_accession / _pdbx_struct_conn_angle.ptnr1_auth_asym_id / _pdbx_struct_conn_angle.ptnr1_auth_comp_id / _pdbx_struct_conn_angle.ptnr1_auth_seq_id / _pdbx_struct_conn_angle.ptnr1_label_alt_id / _pdbx_struct_conn_angle.ptnr1_label_asym_id / _pdbx_struct_conn_angle.ptnr1_label_atom_id / _pdbx_struct_conn_angle.ptnr1_label_comp_id / _pdbx_struct_conn_angle.ptnr1_label_seq_id / _pdbx_struct_conn_angle.ptnr2_auth_asym_id / _pdbx_struct_conn_angle.ptnr2_auth_comp_id / _pdbx_struct_conn_angle.ptnr2_auth_seq_id / _pdbx_struct_conn_angle.ptnr2_label_asym_id / _pdbx_struct_conn_angle.ptnr2_label_atom_id / _pdbx_struct_conn_angle.ptnr2_label_comp_id / _pdbx_struct_conn_angle.ptnr3_auth_asym_id / _pdbx_struct_conn_angle.ptnr3_auth_comp_id / _pdbx_struct_conn_angle.ptnr3_auth_seq_id / _pdbx_struct_conn_angle.ptnr3_label_asym_id / _pdbx_struct_conn_angle.ptnr3_label_atom_id / _pdbx_struct_conn_angle.ptnr3_label_comp_id / _pdbx_struct_conn_angle.ptnr3_label_seq_id / _pdbx_struct_conn_angle.value / _struct_conn.pdbx_dist_value / _struct_conn.pdbx_ptnr1_label_alt_id / _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_comp_id / _struct_conn.ptnr2_auth_seq_id / _struct_conn.ptnr2_label_asym_id / _struct_conn.ptnr2_label_atom_id / _struct_conn.ptnr2_label_comp_id / _struct_conn.ptnr2_label_seq_id / _struct_ref_seq_dif.details / _struct_site.pdbx_auth_asym_id / _struct_site.pdbx_auth_comp_id / _struct_site.pdbx_auth_seq_id
Revision 1.3	Apr 3, 2024	Group: Refinement description / Category: pdbx_initial_refinement_model

Structure viewer	Molecule: MolmilJmol/JSmol

-
Download

PDBx/mmCIF format	3lzq.cif.gz	153.7 KB	Display	PDBx/mmCIF format
PDB format	pdb3lzq.ent.gz	123.6 KB	Display	PDB format
PDBx/mmJSON format	3lzq.json.gz		Tree view	PDBx/mmJSON format
Others	Other downloads

-
Validation report

Arichive directory	https://data.pdbj.org/pub/pdb/validation_reports/lz/3lzq ftp://data.pdbj.org/pub/pdb/validation_reports/lz/3lzq	HTTPS FTP

-
Related structure data

Related structure data	3lzlC 3lznC 3lzoC 3lzpC 3lzrC 2o6c 2o6d 2o6e 2o6f C: citing same article (ref.)
Similar structure data	6wef-2 3lzr-d 6wee-2 5i0w-d 5i0v-d 6wef-6 3lzp-d 3lzn-d 3lzo-d 6wef-4 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

Deposited unit

A: P19 protein

B: P19 protein

hetero molecules

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

1

Idetical with deposited unit
defined by author&software

Unit cell

Length a, b, c (Å)	54.357, 73.619, 75.049
Angle α, β, γ (deg.)	90.00, 90.00, 90.00
Int Tables number	18
Space group name H-M	P2₁2₁2

#1: Protein	P19 protein Mass: 17590.859 Da / Num. of mol.: 2 / Fragment: residues 22-179 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Campylobacter jejuni (Campylobacter) / Strain: 81-176 / Gene: CJJ81176_1650, Gene Cj81176_1659 / Plasmid: pET19 / Production host: Escherichia coli (E. coli) / Strain (production host): BL21(DE3) / References: UniProt: A1W1R1, UniProt: A0A0H3PA01*PLUS
#2: Chemical	ChemComp-CU / COPPER (II) ION / Copper Mass: 63.546 Da / Num. of mol.: 2 / Source method: obtained synthetically / Formula: Cu
#3: Chemical	ChemComp-MN / MANGANESE (II) ION Mass: 54.938 Da / Num. of mol.: 2 / Source method: obtained synthetically / Formula: Mn
#4: Chemical	ChemComp-SO4 / SULFATE ION / Sulfate Mass: 96.063 Da / Num. of mol.: 2 / Source method: obtained synthetically / Formula: SO₄
#5: Water	ChemComp-HOH / water / Water Mass: 18.015 Da / Num. of mol.: 314 / Source method: isolated from a natural source / Formula: H₂O

-
Experiment

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

-
Sample preparation

Crystal	Density Matthews: 2.13 Å³/Da / Density % sol: 42.36 %
Crystal grow	Temperature: 298 K / Method: vapor diffusion, hanging drop / pH: 9 Details: 50% POLYETHYLENE GLYCOL (PEG) 250, 0.1 M CHES (2-(N-CYCLOHEXYLAMINO) ETHANE SULFONIC ACID) BUFFER PH 9.0, CRYO FROZEN WITHOUT ANY ADDITION, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 298K

-
Data collection

Diffraction	Mean temperature: 100 K
Diffraction source	Source: SYNCHROTRON / Site: SSRL / Beamline: BL9-2 / Wavelength: 0.979 Å
Detector	Type: MARMOSAIC 300 mm CCD / Detector: CCD / Date: Nov 27, 2006 Details: Rh coated flat mirror, toroidal focusing mirror, Si 111 monochromator
Radiation	Monochromator: Si 111 monochromator / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray
Radiation wavelength	Wavelength: 0.979 Å / Relative weight: 1
Reflection	Resolution: 1.41→19.21 Å / Num. obs: 54201 / % possible obs: 93.1 % / Observed criterion σ(F): -3 / Observed criterion σ(I): -3 / Redundancy: 4 % / B_iso Wilson estimate: 24 Å² / R_merge(I) obs: 0.028 / Net I/σ(I): 22
Reflection shell	Resolution: 1.41→1.49 Å / Redundancy: 3.8 % / R_merge(I) obs: 0.383 / Mean I/σ(I) obs: 3.1 / Num. unique all: 6391 / % possible all: 76.8

-
Processing

Software

Name	Classification
Blu-Ice	data collection
REFMAC	refinement
XDS	data reduction
XSCALE	data scaling
REFMAC	phasing

Refinement

Method to determine structure:

MOLECULAR REPLACEMENT
Starting model: P6222 incomplete SeMAD model at 2.8 A resolution.

Resolution: 1.41→19.21 Å / Cor.coef. F_o:F_c: 0.973 / Cor.coef. F_o:F_c free: 0.959 / SU B: 3.637 / SU ML: 0.061 / Isotropic thermal model: Anisotropic / Cross valid method: THROUGHOUT / ESU R: 0.081 / ESU R Free: 0.072 / Stereochemistry target values: MAXIMUM LIKELIHOOD / Details: HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS

	R_factor	Num. reflection	% reflection	Selection details
R_free	0.20822	2674	4.9 %	RANDOM
R_work	0.16688	-	-	-
obs	0.16889	51527	92.54 %	-
all	-	54201	-	-

Solvent computation

Ion probe radii: 0.8 Å / Shrinkage radii: 0.8 Å / VDW probe radii: 1.4 Å / Solvent model: BABINET MODEL WITH MASK

Displacement parameters

B_iso mean: 21.28 Å²

	B_aniso -1	B_aniso -2	B_aniso -3
1-	-1.2 Å²	0 Å²	0 Å²
2-	-	2.7 Å²	0 Å²
3-	-	-	-1.5 Å²

Refine analyze

	Free	Obs
Luzzati coordinate error	0.072 Å	0.081 Å

Refinement step

Cycle: LAST / Resolution: 1.41→19.21 Å

	Protein	Nucleic acid	Ligand	Solvent	Total
Num. atoms	2465	0	14	314	2793

Refine LS restraints

Refine-ID	Type	Dev ideal	Dev ideal target	Number
X-RAY DIFFRACTION	r_bond_refined_d	0.014	0.022	2588
X-RAY DIFFRACTION	r_bond_other_d	0.001	0.02	1762
X-RAY DIFFRACTION	r_angle_refined_deg	1.549	1.972	3514
X-RAY DIFFRACTION	r_angle_other_deg	1.825	3	4323
X-RAY DIFFRACTION	r_dihedral_angle_1_deg	6.707	5	326
X-RAY DIFFRACTION	r_dihedral_angle_2_deg	37.853	25.41	122
X-RAY DIFFRACTION	r_dihedral_angle_3_deg	12.878	15	424
X-RAY DIFFRACTION	r_dihedral_angle_4_deg	12.663	15	6
X-RAY DIFFRACTION	r_chiral_restr	0.099	0.2	354
X-RAY DIFFRACTION	r_gen_planes_refined	0.007	0.021	2924
X-RAY DIFFRACTION	r_gen_planes_other	0.003	0.02	502
X-RAY DIFFRACTION	r_mcbond_it	2.729	3	1587
X-RAY DIFFRACTION	r_mcbond_other	0.953	3	653
X-RAY DIFFRACTION	r_mcangle_it	3.814	5	2550
X-RAY DIFFRACTION	r_scbond_it	5.858	8	1001
X-RAY DIFFRACTION	r_scangle_it	7.678	11	960
X-RAY DIFFRACTION	r_rigid_bond_restr	2.098	3	4344

LS refinement shell

Resolution: 1.41→1.448 Å / Total num. of bins used: 20

	R_factor	Num. reflection	% reflection
R_free	0.392	142	-
R_work	0.327	2639	-
obs	-	-	65.17 %

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	5.1908	-3.9966	-1.4439	7.8313	5.0889	3.7414	0.0805	-0.4965	-0.1203	0.0231	0.1772	-0.3075	0.0674	-0.0275	-0.2576	0.1283	-0.0121	-0.008	0.0939	0.0537	0.2201	27.883	11.651	37.68
2	0.7822	0.2837	0.2168	1.0159	-0.4856	0.4343	0.0816	-0.1939	-0.1639	-0.0303	-0.0746	-0.2108	0.0117	-0.0437	-0.0071	0.175	-0.0166	0.0107	0.0718	0.0065	0.2768	24.246	13.428	32.467
3	0.048	-0.1818	0.5539	0.9247	-2.8903	9.0867	0.0055	-0.0573	0.0379	0.1131	0.3785	0.0783	-0.3626	-1.2839	-0.3839	0.2739	0.1642	0.0975	0.3271	0.1105	0.3651	9.274	26.589	30.468
4	2.2186	-0.3924	-2.1412	0.1993	0.6663	2.7593	-0.0337	-0.0239	-0.1286	-0.0174	-0.0322	0.0033	-0.0265	-0.0192	0.0659	0.101	0.0252	0.0148	0.0358	0.0108	0.1526	23.813	14.835	26.444
5	1.2056	0.0885	-0.8423	0.1204	0.7442	7.9288	-0.0741	0.1023	-0.2196	0.0504	-0.068	0.0401	0.4172	-0.5752	0.1421	0.1265	-0.0167	0.0591	0.0743	-0.033	0.2078	13.465	8.5	36.536
6	0.8891	0.0175	-1.9795	0.1272	-0.2576	4.8068	0.0449	0.1065	-0.0008	-0.0116	-0.0479	-0.0013	-0.0988	-0.1803	0.003	0.1118	0.0232	0.0148	0.0572	-0.0047	0.1432	16.224	19.884	34.559
7	3.1553	-1.5153	-1.8244	1.3654	-0.4487	3.8672	-0.1015	0.0993	-0.1633	0.0615	-0.006	0.0718	0.143	-0.1445	0.1075	0.1825	-0.0222	0.0236	0.0196	0.0155	0.147	12.333	10.849	48.011
8	0.2558	0.027	-1.16	0.6691	-0.7294	7.1739	-0.0442	0.1071	-0.107	0.0324	-0.023	0.1054	0.2046	-0.379	0.0672	0.0595	0.0008	0.0001	0.0671	-0.0551	0.1838	17.619	6.454	18.626
9	0.7338	0.7066	-2.7204	1.8648	-1.1486	12.2767	0.0468	-0.0162	0.0611	-0.0247	0.0844	0.1248	-0.0238	0.2556	-0.1312	0.1017	0.0458	-0.0156	0.0623	-0.059	0.1854	23.984	2.398	11.673
10	1.8048	-0.1063	0.1545	1.5671	2.5359	5.5745	-0.1051	-0.1811	-0.1812	0.1069	0.0954	-0.0209	0.1472	0.3476	0.0097	0.0973	0.0024	0.0115	0.0604	0.0282	0.1699	21.257	8.418	39.936
11	0.3683	-0.0404	-0.5857	0.151	0.0654	0.9534	-0.0028	0.0011	-0.0502	0.0246	-0.0446	0.0066	0.0254	-0.026	0.0474	0.0973	0.0023	-0.0078	0.0787	-0.0033	0.1514	19.4403	11.3567	31.924
12	8.9785	8.5678	0.2888	28.869	11.1369	5.7137	-0.0297	0.6059	-0.4294	-0.1931	0.6768	-1.5574	-0.1346	0.1147	-0.6471	0.3199	-0.104	0.0124	0.6226	-0.0139	0.2594	28.166	23.983	-1.75
13	2.1534	2.3368	2.9643	2.6057	3.0721	5.2511	-0.2988	0.4635	0.0936	-0.2392	0.4561	0.1175	-0.4618	0.6353	-0.1573	0.1854	-0.0272	0.0054	0.2151	0.0515	0.1317	24.501	26.447	4.959
14	4.9346	0.4036	-2.0875	4.1648	-3.4552	8.0204	0.0459	0.6254	-0.5626	-0.0844	-0.108	0.3185	0.3673	-0.9071	0.0621	0.0725	-0.0378	-0.0115	0.2254	-0.1163	0.1338	15.961	5.454	2.993
15	0.8257	0.2356	0.8615	0.7048	0.5079	2.0095	-0.0083	0.2563	0.0928	0.0117	0.08	-0.0674	-0.1997	0.0084	-0.0717	0.1032	0.0493	0.0017	0.1642	0.0257	0.127	22.023	21.602	10.569
16	2.5693	0.2633	1.7106	0.0637	0.7067	8.934	-0.166	-0.0908	0.1114	-0.0298	0.0406	0.0182	-0.3277	0.761	0.1254	0.077	-0.0268	-0.0328	0.1783	0.0285	0.0798	11.237	24.635	-6.996
17	0.7453	-0.2371	1.319	1.118	-0.6239	2.3856	-0.0179	0.1269	-0.0518	-0.0453	0.0953	0.0069	-0.0294	0.1587	-0.0774	0.04	0.0253	-0.0176	0.1808	-0.0402	0.0767	18.993	14.169	1.436
18	1.1291	0.3625	2.0751	1.0404	0.029	4.3161	-0.1512	0.2854	0.0039	-0.1079	0.1887	0.0252	-0.1544	0.4742	-0.0375	0.0858	-0.0241	-0.0203	0.2125	0.0277	0.0787	13.851	23.911	-4.069
19	4.5559	0.9939	4.2654	0.7159	-1.4641	15.5044	-0.0665	0.095	-0.1012	0.0214	0.1682	-0.0255	-0.2113	-0.7555	-0.1017	0.0905	0.0818	0.0266	0.2449	0.0124	0.1	11.119	23.522	19.311
20	3.3819	0.3843	-1.7452	2.2165	-1.9971	11.932	0.2097	0.1455	0.2031	0.257	0.0556	0.261	-0.6308	-0.0236	-0.2653	0.1935	0.0623	0.0494	0.0271	0.0085	0.1678	17.609	31.491	28.391
21	1.1753	0.3486	1.3744	1.3157	-0.2489	1.9678	-0.3024	0.4139	0.1077	-0.0523	0.2002	0.1226	-0.3597	0.4569	0.1021	0.1728	-0.0348	0.0033	0.3402	0.0318	0.1966	19.212	27.359	-1.067
22	0.4744	0.0577	0.6137	0.0195	0.0659	0.8019	-0.0356	0.1051	-0.0184	-0.0048	0.0421	-0.0335	-0.0649	0.1087	-0.0066	0.177	0.014	0.0053	0.1534	0.0112	0.1664	18.5737	23.0564	4.7129

Refinement TLS group

ID	Refine-ID	Refine TLS-ID	Auth asym-ID	Auth seq-ID
1	X-RAY DIFFRACTION	1	A	3 - 10
2	X-RAY DIFFRACTION	2	A	11 - 25
3	X-RAY DIFFRACTION	3	A	26 - 33
4	X-RAY DIFFRACTION	4	A	34 - 63
5	X-RAY DIFFRACTION	5	A	64 - 85
6	X-RAY DIFFRACTION	6	A	86 - 105
7	X-RAY DIFFRACTION	7	A	106 - 116
8	X-RAY DIFFRACTION	8	A	117 - 134
9	X-RAY DIFFRACTION	9	A	135 - 144
10	X-RAY DIFFRACTION	10	A	145 - 158
11	X-RAY DIFFRACTION	11	A	1001 - 1165
12	X-RAY DIFFRACTION	12	B	3 - 9
13	X-RAY DIFFRACTION	13	B	10 - 23
14	X-RAY DIFFRACTION	14	B	24 - 33
15	X-RAY DIFFRACTION	15	B	34 - 69
16	X-RAY DIFFRACTION	16	B	70 - 84
17	X-RAY DIFFRACTION	17	B	85 - 105
18	X-RAY DIFFRACTION	18	B	106 - 124
19	X-RAY DIFFRACTION	19	B	125 - 130
20	X-RAY DIFFRACTION	20	B	131 - 142
21	X-RAY DIFFRACTION	21	B	143 - 158
22	X-RAY DIFFRACTION	22	B	1001 - 1149

-
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