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233,605 Structures from the PDB

1,068,577 Computed Structure Models (CSM)

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QUERY: Structure Author = "Yagi, T."

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Search Summary

This query matches 48 Structures.

Refinements

Structure Determination Methodology

experimental (48)

Scientific Name of Source Organism

	Haloarcula marismortui (28)
	Thermus thermophilus HB8 (7)
	Escherichia coli K-12 (5)
	Escherichia phage RB69 (4)
	Homo sapiens (4)
	synthetic construct (3)
	Escherichia coli DH1 (2)
	Haloarcula marismortui ATCC 43049 (2)
	Streptomyces californicus (2)
	Escherichia coli (1)

More...

Taxonomy

	Archaea (28)
	Bacteria (14)
	Duplodnaviria (4)
	Eukaryota (4)
	other sequences (3)

Experimental Method

X-RAY DIFFRACTION (48)

Polymer Entity Type

	Protein (48)
	RNA (35)
	DNA (4)
	NA-hybrid (1)

Refinement Resolution (Å)

	1.5 - 2.0 (5)
	2.0 - 2.5 (6)
	2.5 - 3.0 (23)
	3.0 - 3.5 (14)

Release Date

	2005 - 2009 (27)
	2010 - 2014 (13)
	2015 - 2019 (4)
	2020 - 2024 (4)

Enzyme Classification Name

	Hydrolases (8)
	Isomerases (4)
	Transferases (4)

Symmetry Type

Asymmetric (48)

SCOP Classification

	Low resolution protein structures (14)
	Alpha and beta proteins (a+b) (23)
	All alpha proteins (23)
	Alpha and beta proteins (a/b) (27)
	All beta proteins (23)
	Small proteins (23)
	Peptides (10)
	Multi-domain proteins (alpha and beta) (4)

AllSelected

1 to 25 of 48 Structures

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1YHQ \| pdb_00001yhq	Download File View File

Crystal Structure Of Azithromycin Bound To The G2099A Mutant 50S Ribosomal Subunit Of Haloarcula Marismortui

Tu, D., Blaha, G., Moore, P.B., Steitz, T.A.

(2005) Cell 121: 257-270

Released	2005-04-26
Method	X-RAY DIFFRACTION 2.4 Å
Organisms	Haloarcula marismortui
Macromolecule	Unique protein chains: 29 Unique nucleic acid chains: 2
Unique Ligands	CD, CL, K, MG, NA, SR, ZIT

Explore in 3D

1YI2 \| pdb_00001yi2	Download File View File

Crystal Structure Of Erythromycin Bound To The G2099A Mutant 50S Ribosomal Subunit Of Haloarcula Marismortui

Tu, D., Blaha, G., Moore, P.B., Steitz, T.A.

(2005) Cell 121: 257-270

Released	2005-04-26
Method	X-RAY DIFFRACTION 2.65 Å
Organisms	Haloarcula marismortui
Macromolecule	Unique protein chains: 29 Unique nucleic acid chains: 2
Unique Ligands	CD, CL, ERY, K, MG, NA

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1YIJ \| pdb_00001yij	Download File View File

Crystal Structure Of Telithromycin Bound To The G2099A Mutant 50S Ribosomal Subunit Of Haloarcula Marismortui

Tu, D., Blaha, G., Moore, P.B., Steitz, T.A.

(2005) Cell 121: 257-270

Released	2005-04-26
Method	X-RAY DIFFRACTION 2.6 Å
Organisms	Haloarcula marismortui
Macromolecule	Unique protein chains: 29 Unique nucleic acid chains: 2
Unique Ligands	CD, CL, K, MG, NA, TEL

Explore in 3D

1YIT \| pdb_00001yit	Download File View File

Crystal Structure Of Virginiamycin M and S Bound To The 50S Ribosomal Subunit Of Haloarcula Marismortui

Tu, D., Blaha, G., Moore, P.B., Steitz, T.A.

(2005) Cell 121: 257

Released	2005-04-26
Method	X-RAY DIFFRACTION 2.8 Å
Organisms	Haloarcula marismortui Streptomyces virginiae
Macromolecule	Unique protein chains: 30 Unique nucleic acid chains: 2
Unique Ligands	CD, CL, K, MG, NA, VIR

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1YJ9 \| pdb_00001yj9	Download File View File

Crystal Structure Of The Mutant 50S Ribosomal Subunit Of Haloarcula Marismortui Containing a three residue deletion in L22

Tu, D., Blaha, G., Moore, P.B., Steitz, T.A.

(2005) Cell 121: 257-270

Released	2005-04-26
Method	X-RAY DIFFRACTION 2.8 Å
Organisms	Haloarcula marismortui
Macromolecule	Unique protein chains: 29 Unique nucleic acid chains: 2
Unique Ligands	CD, CL, K, MG, NA

Explore in 3D

1YJN \| pdb_00001yjn	Download File View File

Crystal Structure Of Clindamycin Bound To The G2099A Mutant 50S Ribosomal Subunit Of Haloarcula Marismortui

Tu, D., Blaha, G., Moore, P.B., Steitz, T.A.

(2005) Cell 121: 257-270

Released	2005-04-26
Method	X-RAY DIFFRACTION 3 Å
Organisms	Haloarcula marismortui
Macromolecule	Unique protein chains: 29 Unique nucleic acid chains: 2
Unique Ligands	CD, CL, CLY, K, MG, NA

Explore in 3D

1YJW \| pdb_00001yjw	Download File View File

Crystal Structure Of Quinupristin Bound To The G2099A Mutant 50S Ribosomal Subunit Of Haloarcula Marismortui

Tu, D., Blaha, G., Moore, P.B., Steitz, T.A.

(2005) Cell 121: 257

Released	2005-04-26
Method	X-RAY DIFFRACTION 2.9 Å
Organisms	Haloarcula marismortui Streptomyces graminofaciens
Macromolecule	Unique protein chains: 30 Unique nucleic acid chains: 2
Unique Ligands	CD, CL, K, MG, NA

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2OTJ \| pdb_00002otj	Download File View File

13-deoxytedanolide bound to the large subunit of Haloarcula marismortui

Blaha, G., Schroeder, S.J., Tirado-Rives, J.

(2007) J Mol Biology 367: 1471-1479

Released	2007-04-03
Method	X-RAY DIFFRACTION 2.9 Å
Organisms	Haloarcula marismortui
Macromolecule	Unique protein chains: 29 Unique nucleic acid chains: 2
Unique Ligands	13T, CD, CL, K, MG, NA

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2OTL \| pdb_00002otl	Download File View File

Girodazole bound to the large subunit of Haloarcula marismortui

Blaha, G., Schroeder, S.J., Tirado-Rives, J.

(2007) J Mol Biology 367: 1471-1479

Released	2007-04-03
Method	X-RAY DIFFRACTION 2.7 Å
Organisms	Haloarcula marismortui
Macromolecule	Unique protein chains: 29 Unique nucleic acid chains: 2
Unique Ligands	CD, CL, GIR, K, MG, NA

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2QEX \| pdb_00002qex	Download File View File

Negamycin Binds to the Wall of the Nascent Chain Exit Tunnel of the 50S Ribosomal Subunit

Schroeder, S.J., Blaha, G.

(2007) Antimicrob Agents Chemother 51: 4462-4465

Released	2008-09-30
Method	X-RAY DIFFRACTION 2.9 Å
Organisms	Haloarcula marismortui
Macromolecule	Unique protein chains: 29 Unique nucleic acid chains: 2
Unique Ligands	CD, CL, K, MG, NA, NEG

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3CB4 \| pdb_00003cb4	Download File View File

The Crystal Structure of LepA

Evans, R.N., Blaha, G., Bailey, S., Steitz, T.A.

(2008) Proc Natl Acad Sci U S A 105: 4673-4678

Released	2008-03-18
Method	X-RAY DIFFRACTION 2.8 Å
Organisms	Escherichia coli K-12
Macromolecule	GTP-binding protein lepA (protein)

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3CC2 \| pdb_00003cc2	Download File View File

The Refined Crystal Structure of the Haloarcula Marismortui Large Ribosomal Subunit at 2.4 Angstrom Resolution with rrnA Sequence for the 23S rRNA and Genome-derived Sequences for r-Proteins

Gurel, G., Blaha, G.

(2008) J Mol Biology 379: 505-519

Released	2008-05-20
Method	X-RAY DIFFRACTION 2.4 Å
Organisms	Haloarcula marismortui
Macromolecule	Unique protein chains: 29 Unique nucleic acid chains: 2
Unique Ligands	CD, CL, K, MG, NA

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3CC4 \| pdb_00003cc4	Download File View File

Co-crystal Structure of Anisomycin Bound to the 50S Ribosomal Subunit

Blaha, G., Gurel, G.

(2008) J Mol Biology 379: 505-519

Released	2008-05-20
Method	X-RAY DIFFRACTION 2.7 Å
Organisms	Haloarcula marismortui
Macromolecule	Unique protein chains: 29 Unique nucleic acid chains: 2
Unique Ligands	ANM, CD, CL, K, MG, NA, SR

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3CC7 \| pdb_00003cc7	Download File View File

Structure of Anisomycin resistant 50S Ribosomal Subunit: 23S rRNA mutation C2487U

Blaha, G., Gurel, G.

(2008) J Mol Biology 379: 505-519

Released	2008-05-20
Method	X-RAY DIFFRACTION 2.7 Å
Organisms	Haloarcula marismortui
Macromolecule	Unique protein chains: 29 Unique nucleic acid chains: 2
Unique Ligands	CD, CL, K, MG, NA, SR

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3CCE \| pdb_00003cce	Download File View File

Structure of Anisomycin resistant 50S Ribosomal Subunit: 23S rRNA mutation U2535A

Blaha, G., Gurel, G.

(2008) J Mol Biology 379: 505-519

Released	2008-05-20
Method	X-RAY DIFFRACTION 2.75 Å
Organisms	Haloarcula marismortui
Macromolecule	Unique protein chains: 29 Unique nucleic acid chains: 2
Unique Ligands	CD, CL, K, MG, NA, SR

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3CCJ \| pdb_00003ccj	Download File View File

Structure of Anisomycin resistant 50S Ribosomal Subunit: 23S rRNA mutation C2534U

Blaha, G., Gurel, G.

(2008) J Mol Biology 379: 505-519

Released	2008-05-20
Method	X-RAY DIFFRACTION 3.3 Å
Organisms	Haloarcula marismortui
Macromolecule	Unique protein chains: 29 Unique nucleic acid chains: 2
Unique Ligands	CD, CL, K, MG, NA, SR

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3CCL \| pdb_00003ccl	Download File View File

Structure of Anisomycin resistant 50S Ribosomal Subunit: 23S rRNA mutation U2535C. Density for Anisomycin is visible but not included in model.

Blaha, G., Gurel, G.

(2008) J Mol Biology 379: 505-519

Released	2008-05-20
Method	X-RAY DIFFRACTION 2.9 Å
Organisms	Haloarcula marismortui
Macromolecule	Unique protein chains: 29 Unique nucleic acid chains: 2
Unique Ligands	CD, CL, K, MG, NA, SR

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3CCM \| pdb_00003ccm	Download File View File

Structure of Anisomycin resistant 50S Ribosomal Subunit: 23S rRNA mutation G2611U

Blaha, G., Gurel, G.

(2008) J Mol Biology 379: 505-519

Released	2008-05-20
Method	X-RAY DIFFRACTION 2.55 Å
Organisms	Haloarcula marismortui
Macromolecule	Unique protein chains: 29 Unique nucleic acid chains: 2
Unique Ligands	CD, CL, K, MG, NA, SR

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3CCQ \| pdb_00003ccq	Download File View File

Structure of Anisomycin resistant 50S Ribosomal Subunit: 23S rRNA mutation A2488U

Blaha, G., Gurel, G.

(2008) J Mol Biology 379: 505-519

Released	2008-05-20
Method	X-RAY DIFFRACTION 2.9 Å
Organisms	Haloarcula marismortui
Macromolecule	Unique protein chains: 29 Unique nucleic acid chains: 2
Unique Ligands	CD, CL, K, MG, NA, SR

Explore in 3D

3CCR \| pdb_00003ccr	Download File View File

Structure of Anisomycin resistant 50S Ribosomal Subunit: 23S rRNA mutation A2488C. Density for anisomycin is visible but not included in the model.

Blaha, G., Gurel, G.

(2008) J Mol Biology 379: 505-519

Released	2008-05-20
Method	X-RAY DIFFRACTION 3 Å
Organisms	Haloarcula marismortui
Macromolecule	Unique protein chains: 29 Unique nucleic acid chains: 2
Unique Ligands	CD, CL, K, MG, NA, SR

Explore in 3D

3CCS \| pdb_00003ccs	Download File View File

Structure of Anisomycin resistant 50S Ribosomal Subunit: 23S rRNA mutation G2482A

Blaha, G., Gurel, G.

(2008) J Mol Biology 379: 505-519

Released	2008-05-20
Method	X-RAY DIFFRACTION 2.95 Å
Organisms	Haloarcula marismortui
Macromolecule	Unique protein chains: 29 Unique nucleic acid chains: 2
Unique Ligands	CD, CL, K, MG, NA, SR

Explore in 3D

3CCU \| pdb_00003ccu	Download File View File

Structure of Anisomycin resistant 50S Ribosomal Subunit: 23S rRNA mutation G2482C

Blaha, G., Gurel, G.

(2008) J Mol Biology 379: 505-519

Released	2008-05-20
Method	X-RAY DIFFRACTION 2.8 Å
Organisms	Haloarcula marismortui
Macromolecule	Unique protein chains: 29 Unique nucleic acid chains: 2
Unique Ligands	CD, CL, K, MG, NA, SR

Explore in 3D

3CCV \| pdb_00003ccv	Download File View File

Structure of Anisomycin resistant 50S Ribosomal Subunit: 23S rRNA mutation G2616A

Blaha, G., Gurel, G.

(2008) J Mol Biology 379: 505-519

Released	2008-05-20
Method	X-RAY DIFFRACTION 2.9 Å
Organisms	Haloarcula marismortui
Macromolecule	Unique protein chains: 29 Unique nucleic acid chains: 2
Unique Ligands	CD, CL, K, MG, NA, SR

Explore in 3D

3CD6 \| pdb_00003cd6	Download File View File

Co-cystal of large Ribosomal Subunit mutant G2616A with CC-Puromycin

Blaha, G., Gurel, G.

(2008) J Mol Biology 379: 505-519

Released	2008-05-20
Method	X-RAY DIFFRACTION 2.75 Å
Organisms	Haloarcula marismortui
Macromolecule	Unique protein chains: 29 Unique nucleic acid chains: 3
Unique Ligands	CD, CL, K, MG, NA, SR

Explore in 3D

3G4S \| pdb_00003g4s	Download File View File

Co-crystal structure of Tiamulin bound to the large ribosomal subunit

Gurel, G., Blaha, G., Moore, P.B., Steitz, T.A.

(2009) J Mol Biology 389: 146-156

Released	2009-04-28
Method	X-RAY DIFFRACTION 3.2 Å
Organisms	Haloarcula marismortui
Macromolecule	Unique protein chains: 29 Unique nucleic acid chains: 2
Unique Ligands	CD, CL, K, MG, MUL, NA, SR

1 to 25 of 48 Structures

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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

Symmetry Type

SCOP Classification

1YHQ | pdb_00001yhq

1YI2 | pdb_00001yi2

1YIJ | pdb_00001yij

1YIT | pdb_00001yit

1YJ9 | pdb_00001yj9

1YJN | pdb_00001yjn

1YJW | pdb_00001yjw

2OTJ | pdb_00002otj

2OTL | pdb_00002otl

2QEX | pdb_00002qex

3CB4 | pdb_00003cb4

3CC2 | pdb_00003cc2

3CC4 | pdb_00003cc4

3CC7 | pdb_00003cc7

3CCE | pdb_00003cce

3CCJ | pdb_00003ccj

3CCL | pdb_00003ccl

3CCM | pdb_00003ccm

3CCQ | pdb_00003ccq

3CCR | pdb_00003ccr

3CCS | pdb_00003ccs

3CCU | pdb_00003ccu

3CCV | pdb_00003ccv

3CD6 | pdb_00003cd6

3G4S | pdb_00003g4s