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233,605 Structures from the PDB

1,068,577 Computed Structure Models (CSM)

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QUERY: Structure Keywords HAS EXACT PHRASE "RIBOSOME"

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Search Summary

This query matches 2,358 Structures.

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Structure Determination Methodology

experimental (2,358)

Scientific Name of Source Organism

	Escherichia coli (650)
	Thermus thermophilus HB8 (373)
	Escherichia coli K-12 (316)
	Homo sapiens (316)
	Saccharomyces cerevisiae (163)
	synthetic construct (138)
	Saccharomyces cerevisiae S288C (133)
	Oryctolagus cuniculus (110)
	Thermus thermophilus (87)
	Haloarcula marismortui (72)

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Taxonomy

	Bacteria (1,394)
	Eukaryota (942)
	other sequences (138)
	Archaea (131)
	Duplodnaviria (83)
	Riboviria (75)
	unclassified bacterial viruses (7)
	Eukaryota (eukaryotes) (2)
	unclassified sequences (1)

Experimental Method

	ELECTRON MICROSCOPY (1,645)
	X-RAY DIFFRACTION (674)
	SOLUTION NMR (39)
	THEORETICAL MODEL (1)

Polymer Entity Type

	Protein (2,329)
	RNA (2,244)
	DNA (26)
	NA-hybrid (4)
	Other (1)

Refinement Resolution (Å)

	1.0 - 1.5 (1)
	1.5 - 2.0 (47)
	2.0 - 2.5 (202)
	2.5 - 3.0 (506)
	3.0 - 3.5 (725)
	3.5 - 4.0 (442)
	4.0 - 4.5 (105)
	> 4.5 (291)

Release Date

	1995 - 1999 (27)
	2000 - 2004 (134)
	2005 - 2009 (104)
	2010 - 2014 (319)
	2015 - 2019 (542)
	2020 - 2024 (1,155)
	2025 - 2029 (77)

Enzyme Classification Name

	Hydrolases (407)
	Transferases (223)
	Lyases (192)
	Isomerases (21)
	Oxidoreductases (7)
	Ligases (1)
	Translocases (1)

Membrane Protein Annotation

	OPM (10)
	PDBTM (8)
	MemProtMD (7)
	mpstruc (3)

Symmetry Type

	Asymmetric (2,314)
	Cyclic (16)
	Dihedral (1)

SCOP Classification

	Alpha and beta proteins (a+b) (160)
	Low resolution protein structures (63)
	All beta proteins (126)
	All alpha proteins (123)
	Alpha and beta proteins (a/b) (107)
	Small proteins (101)
	Peptides (86)
	Artifacts (10)
	Coiled coil proteins (2)
	Multi-domain proteins (alpha and beta) (4)

AllSelected

1 to 25 of 2,358 Structures

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1BXY \| pdb_00001bxy	Download File View File

CRYSTAL STRUCTURE OF RIBOSOMAL PROTEIN L30 FROM THERMUS THERMOPHILUS AT 1.9 A RESOLUTION: CONFORMATIONAL FLEXIBILITY OF THE MOLECULE.

Fedorov, R., Nevskaya, N., Khairullina, A., Tishchenko, S., Mikhailov, A., Garber, M., Nikonov, S.

(1999) Acta Crystallogr D Biol Crystallogr 55: 1827-1833

Released	1998-10-14
Method	X-RAY DIFFRACTION 1.9 Å
Organisms	Thermus thermophilus
Macromolecule	PROTEIN (RIBOSOMAL PROTEIN L30) (protein)

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1C04 \| pdb_00001c04	Download File View File

IDENTIFICATION OF KNOWN PROTEIN AND RNA STRUCTURES IN A 5 A MAP OF THE LARGE RIBOSOMAL SUBUNIT FROM HALOARCULA MARISMORTUI

Ban, N., Nissen, P., Capel, M., Moore, P.B., Steitz, T.A.

(1999) Nature 400: 841-847

Released	1999-08-31
Method	X-RAY DIFFRACTION 5 Å
Organisms	Haloarcula marismortui
Macromolecule	Unique protein chains: 4 Unique nucleic acid chains: 2

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1C05 \| pdb_00001c05	Download File View File

SOLUTION STRUCTURE OF RIBOSOMAL PROTEIN S4 DELTA 41, REFINED WITH DIPOLAR COUPLINGS (MINIMIZED AVERAGE STRUCTURE)

Markus, M.A., Gerstner, R.B., Draper, D.E., Torchia, D.A.

(1999) J Mol Biology 292: 375-387

Released	1999-09-29
Method	SOLUTION NMR
Organisms	Geobacillus stearothermophilus
Macromolecule	RIBOSOMAL PROTEIN S4 DELTA 41 (protein)

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1C06 \| pdb_00001c06	Download File View File

SOLUTION STRUCTURE OF RIBOSOMAL PROTEIN S4 DELTA 41, REFINED WITH DIPOLAR COUPLINGS (ENSEMBLE OF 16 STRUCTURES)

Markus, M.A., Gerstner, R.B., Draper, D.E., Torchia, D.A.

(1999) J Mol Biology 292: 375-387

Released	1999-09-29
Method	SOLUTION NMR
Organisms	Geobacillus stearothermophilus
Macromolecule	RIBOSOMAL PROTEIN S4 DELTA 41 (protein)

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1C2W \| pdb_00001c2w	Download File View File

23S RRNA STRUCTURE FITTED TO A CRYO-ELECTRON MICROSCOPIC MAP AT 7.5 ANGSTROMS RESOLUTION

Brimacombe, R., Mueller, F.

(2000) J Mol Biology 298: 35-59

Released	2000-04-10
Method	ELECTRON MICROSCOPY 7.5 Å
Organisms	Escherichia coli
Macromolecule	23S RIBOSOMAL RNA (nucleic acid)

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1C2X \| pdb_00001c2x	Download File View File

5S RRNA STRUCTURE FITTED TO A CRYO-ELECTRON MICROSCOPIC MAP AT 7.5 ANGSTROMS RESOLUTION

Brimacombe, R., Mueller, F.

(2000) J Mol Biology 298: 35-59

Released	2000-04-10
Method	ELECTRON MICROSCOPY 7.5 Å
Organisms	Escherichia coli
Macromolecule	5S RIBOSOMAL RNA (nucleic acid)

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1CE7 \| pdb_00001ce7	Download File View File

MISTLETOE LECTIN I FROM VISCUM ALBUM

Krauspenhaar, R., Eschenburg, S., Perbandt, M., Kornilov, V., Konareva, N., Mikailova, I., Stoeva, S., Wacker, R., Maier, T., Singh, T.P., Mikhailov, A., Voelter, W., Betzel, C.

(1999) Biochem Biophys Res Commun 257: 418-424

Released	2000-03-20
Method	X-RAY DIFFRACTION 2.7 Å
Organisms	Viscum album
Macromolecule	PROTEIN (RIBOSOME-INACTIVATING PROTEIN TYPE II) (protein)
Unique Ligands	NAG

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1CJS \| pdb_00001cjs	Download File View File

CRYSTAL STRUCTURE OF RIBOSOMAL PROTEIN L1 FROM METHANOCOCCUS JANNASCHII

Nevskaya, N., Tishchenko, S., Fedorov, R., Al-Karadaghi, S., Liljas, A., Kraft, A., Piendl, W., Garber, M., Nikonov, S.

(2000) Structure 8: 363-371

Released	2000-05-31
Method	X-RAY DIFFRACTION 2.3 Å
Organisms	Methanocaldococcus jannaschii
Macromolecule	50S RIBOSOMAL PROTEIN L1P (protein)

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1CK2 \| pdb_00001ck2	Download File View File

YEAST (SACCHAROMYCES CEREVISIAE) RIBOSOMAL PROTEIN L30

Mao, H., Willamson, J.R.

(1999) J Mol Biology 292: 345-359

Released	1999-10-14
Method	SOLUTION NMR
Organisms	Saccharomyces cerevisiae
Macromolecule	60S RIBOSOMAL PROTEIN L30 (protein)

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1CN7 \| pdb_00001cn7	Download File View File

Yeast ribosomal protein L30

Mao, H., Willamson, J.R.

(1999) J Mol Biology 292: 345-359

Released	1999-10-14
Method	SOLUTION NMR
Organisms	Saccharomyces cerevisiae
Macromolecule	60S RIBOSOMAL PROTEIN L30E (protein)

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1CQU \| pdb_00001cqu	Download File View File

SOLUTION STRUCTURE OF THE N-TERMINAL DOMAIN OF RIBOSOMAL PROTEIN L9

Hua, Y., Kuhlman, B., Hoffman, D., Raleigh, D.P.

(1999) J Mol Biology 289: 167-174

Released	2002-04-27
Method	SOLUTION NMR
Organisms	Geobacillus stearothermophilus
Macromolecule	50S RIBOSOMAL PROTEIN L9 (protein)

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1D6K \| pdb_00001d6k	Download File View File

NMR SOLUTION STRUCTURE OF THE 5S RRNA E-LOOP/L25 COMPLEX

Stoldt, M., Wohnert, J., Ohlenschlager, O., Gorlach, M., Brown, L.R.

(1999) EMBO J 18: 6508-6521

Released	1999-11-22
Method	SOLUTION NMR
Organisms	Escherichia coli
Macromolecule	RIBOSOMAL PROTEIN L25 (protein) 5S RRNA E-LOOP (5SE) (nucleic acid)

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1DD3 \| pdb_00001dd3	Download File View File

CRYSTAL STRUCTURE OF RIBOSOMAL PROTEIN L12 FROM THERMOTOGA MARITIMA

Wahl, M.C., Bourenkov, G.P., Bartunik, H.D., Huber, R.

(2000) EMBO J 19: 174-186

Released	2000-11-13
Method	X-RAY DIFFRACTION 2 Å
Organisms	Thermotoga maritima
Macromolecule	50S RIBOSOMAL PROTEIN L7/L12 (protein)

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1DD4 \| pdb_00001dd4	Download File View File

Crystal structure of ribosomal protein l12 from thermotoga maritim

Wahl, M.C., Bourenkov, G.P., Bartunik, H.D., Huber, R.

(2000) EMBO J 19: 174-186

Released	2000-11-13
Method	X-RAY DIFFRACTION 2.4 Å
Organisms	Thermotoga maritima
Macromolecule	50S RIBOSOMAL PROTEIN L7/L12 (protein)
Unique Ligands	TBR

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1DD5 \| pdb_00001dd5	Download File View File

CRYSTAL STRUCTURE OF THERMOTOGA MARITIMA RIBOSOME RECYCLING FACTOR, RRF

Selmer, M., Al-Karadaghi, S., Hirokawa, G., Kaji, A., Liljas, A.

(1999) Science 286: 2349-2352

Released	1999-12-22
Method	X-RAY DIFFRACTION 2.55 Å
Organisms	Thermotoga maritima
Macromolecule	RIBOSOME RECYCLING FACTOR (protein)
Unique Ligands	ACY

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1DFE \| pdb_00001dfe	Download File View File

NMR STRUCTURE OF RIBOSOMAL PROTEIN L36 FROM THERMUS THERMOPHILUS

Hard, T., Rak, A., Allard, P., Kloo, L., Garber, M.

(2000) J Mol Biology 296: 169-180

Released	1999-12-01
Method	SOLUTION NMR
Organisms	Thermus thermophilus
Macromolecule	L36 RIBOSOMAL PROTEIN (protein)
Unique Ligands	ZN

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1DFU \| pdb_00001dfu	Download File View File

CRYSTAL STRUCTURE OF E.COLI RIBOSOMAL PROTEIN L25 COMPLEXED WITH A 5S RRNA FRAGMENT AT 1.8 A RESOLUTION

Lu, M., Steitz, T.A.

(2000) Proc Natl Acad Sci U S A 97: 2023-2028

Released	1999-12-02
Method	X-RAY DIFFRACTION 1.8 Å
Organisms	Escherichia coli
Macromolecule	RIBOSOMAL PROTEIN L25 (protein) 5S RRNA (nucleic acid)
Unique Ligands	MG

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1DGZ \| pdb_00001dgz	Download File View File

RIBOSMAL PROTEIN L36 FROM THERMUS THERMOPHILUS: NMR STRUCTURE ENSEMBLE

Hard, T., Rak, A., Allard, P., Kloo, L., Garber, M.

(2000) J Mol Biology 296: 169-180

Released	1999-12-08
Method	SOLUTION NMR
Organisms	Thermus thermophilus
Macromolecule	PROTEIN (L36 RIBOSOMAL PROTEIN) (protein)
Unique Ligands	ZN

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1DK1 \| pdb_00001dk1	Download File View File

DETAILED VIEW OF A KEY ELEMENT OF THE RIBOSOME ASSEMBLY: CRYSTAL STRUCTURE OF THE S15-RRNA COMPLEX

Nikulin, A., Serganov, A., Ennifar, E., Tischenko, S., Nevskaya, N.

(2000) Nat Struct Biol 7: 273-277

Released	2000-04-02
Method	X-RAY DIFFRACTION 2.8 Å
Organisms	Thermus thermophilus
Macromolecule	30S RIBOSOMAL PROTEIN S15 (protein) RRNA FRAGMENT (nucleic acid)
Unique Ligands	K, MG, NA

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1DV4 \| pdb_00001dv4	Download File View File

PARTIAL STRUCTURE OF 16S RNA OF THE SMALL RIBOSOMAL SUBUNIT FROM THERMUS THERMOPHILUS

Tocilj, A., Schlunzen, F., Janell, D., Gluhmann, M., Hansen, H., Harms, J., Bashan, A., Bartels, H., Agmon, I., Franceschi, F., Yonath, A.

(1999) Proc Natl Acad Sci U S A 96: 14252-14257

Released	2000-02-02
Method	X-RAY DIFFRACTION 4.5 Å
Organisms	Geobacillus stearothermophilus Thermus thermophilus
Macromolecule	RIBOSOMAL PROTEIN S5 (protein) RIBOSOMAL PROTEIN S7 (protein) 16S RIBOSOMAL RNA (nucleic acid)
Unique Ligands	WO2

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1EG0 \| pdb_00001eg0	Download File View File

FITTING OF COMPONENTS WITH KNOWN STRUCTURE INTO AN 11.5 A CRYO-EM MAP OF THE E.COLI 70S RIBOSOME

Gabashvili, I.S., Agrawal, R.K., Spahn, C.M.T., Grassucci, R.A., Svergun, D.I., Frank, J., Penczek, P.

(2000) Cell 100: 537-549

Released	2000-03-06
Method	ELECTRON MICROSCOPY 11.5 Å
Organisms	Escherichia coli
Macromolecule	Unique protein chains: 11 Unique nucleic acid chains: 4

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1EH1 \| pdb_00001eh1	Download File View File

RIBOSOME RECYCLING FACTOR FROM THERMUS THERMOPHILUS

Toyoda, T., Tin, O.F., Ito, K., Fujiwara, T., Kumasaka, T., Yamamoto, M., Garber, M.B., Nakamura, Y.

(2000) RNA 6: 1432-1444

Released	2000-11-15
Method	X-RAY DIFFRACTION 2.6 Å
Organisms	Thermus thermophilus
Macromolecule	RIBOSOME RECYCLING FACTOR (protein)

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1EMI \| pdb_00001emi	Download File View File

STRUCTURE OF 16S RRNA IN THE REGION AROUND RIBOSOMAL PROTEIN S8.

Lancaster, L., Culver, G.M., Yusupova, G.Z., Cate, J.H., Yuspov, M.M., Noller, H.F.

(2000) RNA 6: 717-729

Released	2000-06-12
Method	X-RAY DIFFRACTION 7.5 Å
Organisms	Thermus thermophilus
Macromolecule	RIBOSOMAL PROTEIN S8 (protein) 16S RIBOSOMAL RNA (nucleic acid)

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1EMW \| pdb_00001emw	Download File View File

SOLUTION STRUCTURE OF THE RIBOSOMAL PROTEIN S16 FROM THERMUS THERMOPHILUS

Allard, P., Rak, A.V., Wimberly, B.T., Clemons Jr., W.M., Kalinin, A., Helgstrand, M., Garber, M.B., Ramakrishnan, V., Hard, T.

(2000) Structure 8: 875-882

Released	2000-08-09
Method	SOLUTION NMR
Organisms	Thermus thermophilus
Macromolecule	S16 RIBOSOMAL PROTEIN (protein)

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1F7Y \| pdb_00001f7y	Download File View File

THE CRYSTAL STRUCTURE OF TWO UUCG LOOPS HIGHLIGHTS THE ROLE PLAYED BY 2'-HYDROXYL GROUPS IN ITS UNUSUAL STABILITY

Ennifar, E., Nikouline, A., Serganov, A., Tishchenko, S., Nevskaya, N., Garber, M., Ehresmann, B., Ehresmann, C., Nikonov, S., Dumas, P.

(2000) J Mol Biology 304: 35-42

Released	2000-11-22
Method	X-RAY DIFFRACTION 2.8 Å
Organisms	Thermus thermophilus
Macromolecule	30S RIBOSOMAL PROTEIN S15 (protein) 16S RIBOSOMAL RNA FRAGMENT (nucleic acid)
Unique Ligands	K, MG, NA

1 to 25 of 2,358 Structures

Page 1 of 95

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Structure Determination Methodology

Scientific Name of Source Organism

Taxonomy

Experimental Method

Polymer Entity Type

Refinement Resolution (Å)

Release Date

Enzyme Classification Name

Membrane Protein Annotation

Symmetry Type

SCOP Classification

1BXY | pdb_00001bxy

1C04 | pdb_00001c04

1C05 | pdb_00001c05

1C06 | pdb_00001c06

1C2W | pdb_00001c2w

1C2X | pdb_00001c2x

1CE7 | pdb_00001ce7

1CJS | pdb_00001cjs

1CK2 | pdb_00001ck2

1CN7 | pdb_00001cn7

1CQU | pdb_00001cqu

1D6K | pdb_00001d6k

1DD3 | pdb_00001dd3

1DD4 | pdb_00001dd4

1DD5 | pdb_00001dd5

1DFE | pdb_00001dfe

1DFU | pdb_00001dfu

1DGZ | pdb_00001dgz

1DK1 | pdb_00001dk1

1DV4 | pdb_00001dv4

1EG0 | pdb_00001eg0

1EH1 | pdb_00001eh1

1EMI | pdb_00001emi

1EMW | pdb_00001emw

1F7Y | pdb_00001f7y