RCSB PDB: Search

Warning You are using a web browser that we do not support. Our website will not work properly. Please update to a newer version or download a new web browser, such as Chrome or Firefox.

Help

Help

RCSB PDB

Deposit
- PDBx/mmCIF file
- pdb_extract
- SF-Tool
- Ligand Expo
- MAXIT
- Validation Server
- Validation API
- Information for Journals
- Validation Task Forces
- wwPDB OneDep System
- PDB-IHM
Search
Visualize
Analyze
Download
Learn
- Training Courses
- Guide to PDB Data
- Molecule of the Month
- Educational Resources
- Curricula
- Browse
- News
- SciArt Galleries
- Irving Geis
- David Goodsell
About
Careers
COVID-19

233,605 Structures from the PDB

1,068,577 Computed Structure Models (CSM)

	Include CSM
Advanced Search \| Browse Annotations		Help

Search
Query History
Browse Annotations
MyPDB

QUERY: Citation Author = "Liu, J.J."

MyPDB Login

Search API

Advanced Search Query Builder

Help

Full Text

Structure Attributes

Help

NOT

Count

Add Subquery

Chemical Attributes

Sequence Similarity

Sequence Motif

Structure Similarity

Structure Motif

Chemical Similarity

Return

grouped by

Include Computed Structure Models (CSM)

Count

Clear

Search Summary

This query matches 38 Structures.

Refinements

Structure Determination Methodology

experimental (38)

Scientific Name of Source Organism

	Escherichia coli K-12 (11)
	Homo sapiens (7)
	Xenopus laevis (6)
	synthetic construct (4)
	Deltaproteobacteria bacterium (3)
	Streptococcus pyogenes M1 GAS (3)
	Lachnospiraceae bacterium ND2006 (2)
	Listeria phage LP-101 (2)
	Moraxella bovoculi (2)
	Saccharomyces cerevisiae S288C (2)

More...

Taxonomy

	Bacteria (22)
	Eukaryota (17)
	other sequences (4)
	Duplodnaviria (3)
	unclassified bacterial viruses (1)

Experimental Method

	X-RAY DIFFRACTION (25)
	ELECTRON MICROSCOPY (13)

Polymer Entity Type

	Protein (38)
	RNA (9)
	DNA (7)

Refinement Resolution (Å)

	1.0 - 1.5 (3)
	1.5 - 2.0 (12)
	2.0 - 2.5 (5)
	2.5 - 3.0 (2)
	3.0 - 3.5 (4)
	3.5 - 4.0 (7)
	4.0 - 4.5 (2)
	> 4.5 (3)

Release Date

	2010 - 2014 (10)
	2015 - 2019 (26)
	2020 - 2024 (1)
	2025 - 2029 (1)

Enzyme Classification Name

	Transferases (17)
	Hydrolases (8)
	Ligases (9)

Symmetry Type

	Asymmetric (25)
	Cyclic (13)
	Dihedral (1)

SCOP Classification

	All alpha proteins (9)
	Alpha and beta proteins (a+b) (1)

AllSelected

1 to 25 of 38 Structures

Page 1 of 2

Sort by

Explore in 3D

3LE6 \| pdb_00003le6	Download File View File

The structure of cyclin dependent kinase 2 (CKD2) with a pyrazolobenzodiazepine inhibitor

Lukacs, C.M., Swain, A., Crowther, R.L., Kammlott, R.U., Liu, J.J.

(2010) Bioorg Med Chem Lett 20: 5984-5987

Released	2010-11-17
Method	X-RAY DIFFRACTION 2 Å
Organisms	Homo sapiens
Macromolecule	Cell division protein kinase 2 (protein)
Unique Ligands	2BZ

Explore in 3D

3U7D \| pdb_00003u7d	Download File View File

Crystal structure of the KRIT1/CCM1 FERM domain in complex with the heart of glass (HEG1) cytoplasmic tail

Gingras, A.R., Liu, J.J., Ginsberg, M.H., Assembly, Dynamics and Evolution of Cell-Cell and Cell-Matrix Adhesions (CELLMAT)

(2012) J Cell Biol 199: 39-48

Released	2012-09-12
Method	X-RAY DIFFRACTION 2.49 Å
Organisms	Homo sapiens
Macromolecule	Krev interaction trapped protein 1 (protein) Protein HEG homolog 1 (protein)

Explore in 3D

4J3E \| pdb_00004j3e	Download File View File

The 1.9A crystal structure of humanized Xenopus Mdm2 with nutlin-3a

Graves, B.J., Lukacs, C.M., Kammlott, R.U., Crowther, R.

(2013) ACS Med Chem Lett 4: 466-469

Released	2013-04-24
Method	X-RAY DIFFRACTION 1.91 Å
Organisms	Xenopus laevis
Macromolecule	E3 ubiquitin-protein ligase Mdm2 (protein)
Unique Ligands	NUT, SO4

Explore in 3D

4JRG \| pdb_00004jrg	Download File View File

The 1.9A crystal structure of humanized Xenopus MDM2 with RO5313109 - a pyrrolidine MDM2 inhibitor

Graves, B.J., Janson, C.A., Lukacs, C.

(2013) J Med Chem 56: 5979-5983

Released	2013-07-24
Method	X-RAY DIFFRACTION 1.9 Å
Organisms	Xenopus laevis
Macromolecule	E3 ubiquitin-protein ligase Mdm2 (protein)
Unique Ligands	I09

Explore in 3D

4JSC \| pdb_00004jsc	Download File View File

The 2.5A crystal structure of humanized Xenopus MDM2 with RO5316533 - a pyrrolidine MDM2 inhibitor

Janson, C.A., Lukacs, C., Graves, B.

(2013) J Med Chem 56: 5979-5983

Released	2013-07-24
Method	X-RAY DIFFRACTION 2.5 Å
Organisms	Xenopus laevis
Macromolecule	E3 ubiquitin-protein ligase Mdm2 (protein)
Unique Ligands	1OY

Explore in 3D

4LWT \| pdb_00004lwt	Download File View File

The 1.6A Crystal Structure of Humanized Xenopus MDM2 with RO5027344

Graves, B.J., Lukacs, C., Kammlott, U.

(2014) Bioorg Med Chem 22: 4001-4009

Released	2014-07-16
Method	X-RAY DIFFRACTION 1.6 Å
Organisms	Xenopus laevis
Macromolecule	E3 ubiquitin-protein ligase Mdm2 (protein)
Unique Ligands	20Q, SO4

Explore in 3D

4LWU \| pdb_00004lwu	Download File View File

The 1.14A Crystal Structure of Humanized Xenopus MDM2 with RO5499252

Graves, B.J., Lukacs, C., Janson, C.A.

(2014) Bioorg Med Chem 22: 4001-4009

Released	2014-07-16
Method	X-RAY DIFFRACTION 1.14 Å
Organisms	Xenopus laevis
Macromolecule	E3 ubiquitin-protein ligase Mdm2 (protein)
Unique Ligands	20U, SO4

Explore in 3D

4LWV \| pdb_00004lwv	Download File View File

The 2.3A Crystal Structure of Humanized Xenopus MDM2 with RO5545353

Graves, B.J., Lukacs, C., Janson, C.A.

(2014) ACS Med Chem Lett 5: 124-127

Released	2014-07-02
Method	X-RAY DIFFRACTION 2.32 Å
Organisms	Xenopus laevis
Macromolecule	E3 ubiquitin-protein ligase Mdm2 (protein)
Unique Ligands	20W, SO4

Explore in 3D

4OAS \| pdb_00004oas	Download File View File

co-crystal structure of MDM2 (17-111) in complex with compound 25

Huang, X.

(2014) J Med Chem 57: 1454-1472

Released	2014-02-19
Method	X-RAY DIFFRACTION 1.7 Å
Organisms	Homo sapiens
Macromolecule	E3 ubiquitin-protein ligase Mdm2 (protein)
Unique Ligands	2SW, SO4

Explore in 3D

4QO4 \| pdb_00004qo4	Download File View File

co-crystal structure of MDM2 (17-111) with compound 16, {(3R,5R,6S)-5-(3-CHLOROPHENYL)-6-(4-CHLOROPHENYL)-1-[(1S)-1-(6-CYCLOPROPYLPYRIDIN-2-YL)PROPYL]-3-METHYL-2-OXOPIPERIDIN-3-YL}ACETIC ACID

Huang, X.

(2014) ACS Med Chem Lett 5: 894-899

Released	2014-07-16
Method	X-RAY DIFFRACTION 1.7 Å
Organisms	Homo sapiens
Macromolecule	E3 ubiquitin-protein ligase Mdm2 (protein)
Unique Ligands	35S

Explore in 3D

4QOC \| pdb_00004qoc	Download File View File

crystal structure of compound 16 bound to MDM2(17-111), {(3R,5R,6S)-5-(3-CHLOROPHENYL)-6-(4-CHLOROPHENYL)-1-[(1S)-1-CYCLOPROPYL-2-(PYRROLIDIN-1-YLSULFONYL)ETHYL]-3-METHYL-2-OXOPIPERIDIN-3-YL}ACETIC ACID

Huang, X.

(2014) Bioorg Med Chem Lett 24: 3782-3785

Released	2015-05-06
Method	X-RAY DIFFRACTION 1.7 Å
Organisms	Homo sapiens
Macromolecule	E3 ubiquitin-protein ligase Mdm2 (protein)
Unique Ligands	35T

Explore in 3D

5EJ4 \| pdb_00005ej4	Download File View File

EcMenD-ThDP-Mn2+ complex soaked with 2-ketoglutarate for 15 min

Song, H.G., Dong, C., Chen, Y.Z., Sun, Y.R., Guo, Z.H.

(2016) J Am Chem Soc 138: 7244-7247

Released	2016-06-01
Method	X-RAY DIFFRACTION 1.773 Å
Organisms	Escherichia coli K-12
Macromolecule	2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase (protein)
Unique Ligands	FMT, GOL, MN, TD6

Explore in 3D

5EJ5 \| pdb_00005ej5	Download File View File

EcMenD-ThDP-Mn2+ complex soaked with 2-ketoglutarate for 1.5 h

Song, H.G., Dong, C., Chen, Y.Z., Sun, Y.R., Guo, Z.H.

(2016) J Am Chem Soc 138: 7244-7247

Released	2016-06-01
Method	X-RAY DIFFRACTION 2.3 Å
Organisms	Escherichia coli K-12
Macromolecule	2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase (protein)
Unique Ligands	GOL, MN, TD6

Explore in 3D

5EJ6 \| pdb_00005ej6	Download File View File

EcMenD-ThDP-Mn2+ complex soaked with 2-ketoglutarate for 2min then soaked with isochorismate for 2 min

Song, H.G., Dong, C., Chen, Y.Z., Sun, Y.R., Guo, Z.H.

(2016) J Am Chem Soc 138: 7244-7247

Released	2016-06-01
Method	X-RAY DIFFRACTION 2.243 Å
Organisms	Escherichia coli K-12
Macromolecule	2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase (protein)
Unique Ligands	MN, TD6

Explore in 3D

5EJ7 \| pdb_00005ej7	Download File View File

EcMenD-ThDP-Mn2+ complex soaked with 2-ketoglutarate for 21 s

Song, H.G., Dong, C., Chen, Y.Z., Sun, Y.R., Guo, Z.H.

(2016) J Am Chem Soc 138: 7244-7247

Released	2016-06-01
Method	X-RAY DIFFRACTION 1.56 Å
Organisms	Escherichia coli K-12
Macromolecule	2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase (protein)
Unique Ligands	GOL, MN, TD6

Explore in 3D

5EJ8 \| pdb_00005ej8	Download File View File

EcMenD-ThDP-Mn2+ complex structure soaked with 2-ketoglutarate for 2 min

Song, H.G., Dong, C., Chen, Y.Z., Sun, Y.R., Guo, Z.H.

(2016) J Am Chem Soc 138: 7244-7247

Released	2016-06-01
Method	X-RAY DIFFRACTION 1.34 Å
Organisms	Escherichia coli K-12
Macromolecule	2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase (protein)
Unique Ligands	EDO, FMT, GOL, MG, MN, TD6, TRS

Explore in 3D

5EJ9 \| pdb_00005ej9	Download File View File

EcMenD-ThDP-Mn2+ complex soaked with 2-ketoglutarate for 2 min and isochorismate for 13 min

Song, H.G., Dong, C., Chen, Y.Z., Sun, Y.R., Guo, Z.H.

(2016) J Am Chem Soc 138: 7244-7247

Released	2016-06-01
Method	X-RAY DIFFRACTION 1.72 Å
Organisms	Escherichia coli K-12
Macromolecule	2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase (protein)
Unique Ligands	FMT, GOL, MN, TPP

Explore in 3D

5EJA \| pdb_00005eja	Download File View File

EcMenD-ThDP-Mn2+ complex soaked with 2-ketoglutarate for 2 min and soaked with isochorismate for 7 min

Song, H.G., Dong, C., Chen, Y.Z., Sun, Y.R., Guo, Z.H.

(2016) J Am Chem Soc 138: 7244-7247

Released	2016-06-01
Method	X-RAY DIFFRACTION 1.6 Å
Organisms	Escherichia coli K-12
Macromolecule	2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase (protein)
Unique Ligands	GOL, MN, TD6

Explore in 3D

5GPD \| pdb_00005gpd	Download File View File

Crystal structure of the binding domain of SREBP from fission yeast

Gong, X., Qian, H.W., Wu, J.P., Yan, N.

(2016) Cell Res 26: 1197-1211

Released	2016-11-23
Method	X-RAY DIFFRACTION 3.501 Å
Organisms	Schizosaccharomyces pombe 972h-
Macromolecule	Sterol regulatory element-binding protein 1 (protein)

Explore in 3D

5GRS \| pdb_00005grs	Download File View File

Complex structure of the fission yeast SREBP-SCAP binding domains

Gong, X., Qian, H.W., Wu, J.P., Yan, N.

(2016) Cell Res 26: 1197-1211

Released	2016-12-14
Method	ELECTRON MICROSCOPY 5.4 Å
Organisms	Schizosaccharomyces pombe 972h-
Macromolecule	Sterol regulatory element-binding protein 1 (protein) Sterol regulatory element-binding protein cleavage-activating protein (protein)

Explore in 3D

5VGB \| pdb_00005vgb	Download File View File

Crystal structure of NmeCas9 HNH domain bound to anti-CRISPR AcrIIC1

Harrington, L.B., Doxzen, K.W., Ma, E., Knott, G.J., Kranzusch, P.J., Doudna, J.A.

(2017) Cell 170: 1224-1233.e15

Released	2017-08-30
Method	X-RAY DIFFRACTION 1.497 Å
Organisms	Neisseria meningitidis
Macromolecule	Anti-CRISPR protein (AcrIIC1) (protein) CRISPR-associated endonuclease Cas9 (protein)
Unique Ligands	GOL, SO4

Explore in 3D

5VVJ \| pdb_00005vvj	Download File View File

Cas1-Cas2 bound to half-site intermediate

Wright, A.V., Knott, G.J., Doxzen, K.W., Doudna, J.A.

(2017) Science 357: 1113-1118

Released	2017-08-02
Method	X-RAY DIFFRACTION 3.89 Å
Organisms	Escherichia coli K-12 synthetic construct
Macromolecule	CRISPR-associated endonuclease Cas1 (protein) CRISPR-associated endoribonuclease Cas2 (protein) DNA (112-MER) (nucleic acid) DNA (28-MER) (nucleic acid)

Explore in 3D

5VVK \| pdb_00005vvk	Download File View File

Cas1-Cas2 bound to full-site mimic

Wright, A.V., Knott, G.J., Doxzen, K.D., Doudna, J.A.

(2017) Science 357: 1113-1118

Released	2017-08-02
Method	X-RAY DIFFRACTION 2.9 Å
Organisms	Escherichia coli K-12 synthetic construct
Macromolecule	Unique protein chains: 2 Unique nucleic acid chains: 4

Explore in 3D

5VVL \| pdb_00005vvl	Download File View File

Cas1-Cas2 bound to full-site mimic with Ni

Wright, A.V., Knott, G.J., Doxzen, K.D., Doudna, J.A.

(2017) Science 357: 1113-1118

Released	2017-08-02
Method	X-RAY DIFFRACTION 3.31 Å
Organisms	Escherichia coli K-12 synthetic construct
Macromolecule	Unique protein chains: 2 Unique nucleic acid chains: 4
Unique Ligands	NI

Explore in 3D

5VZL \| pdb_00005vzl	Download File View File

cryo-EM structure of the Cas9-sgRNA-AcrIIA4 anti-CRISPR complex

Jiang, F., Liu, J.J., Nogales, E., Doudna, J.A.

(2017) Sci Adv 3: e1701620-e1701620

Released	2017-07-26
Method	ELECTRON MICROSCOPY 3.9 Å
Organisms	Bacteriophage sp. Streptococcus pyogenes M1 GAS
Macromolecule	CRISPR-associated endonuclease Cas9 (protein) phage anti-CRISPR AcrIIA4 (protein) single guide RNA (116-MER) (nucleic acid)

1 to 25 of 38 Structures

Page 1 of 2

Sort by

About
About Us
Citing Us
Publications
Team
Careers
Usage & Privacy

Support
Contact Us
Help
Website FAQ
Glossary
Service Status

RCSB PDB is hosted by

RCSB PDB is a member of the

RCSB Partners
Nucleic Acid Knowledgebase

wwPDB Partners
RCSB PDB
PDBe
PDBj
BMRB
EMDB

RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729.

Prepare Data

Validate Data

Deposit Data

Help and Resources

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

3LE6 | pdb_00003le6

3U7D | pdb_00003u7d

4J3E | pdb_00004j3e

4JRG | pdb_00004jrg

4JSC | pdb_00004jsc

4LWT | pdb_00004lwt

4LWU | pdb_00004lwu

4LWV | pdb_00004lwv

4OAS | pdb_00004oas

4QO4 | pdb_00004qo4

4QOC | pdb_00004qoc

5EJ4 | pdb_00005ej4

5EJ5 | pdb_00005ej5

5EJ6 | pdb_00005ej6

5EJ7 | pdb_00005ej7

5EJ8 | pdb_00005ej8

5EJ9 | pdb_00005ej9

5EJA | pdb_00005eja

5GPD | pdb_00005gpd

5GRS | pdb_00005grs

5VGB | pdb_00005vgb

5VVJ | pdb_00005vvj

5VVK | pdb_00005vvk

5VVL | pdb_00005vvl

5VZL | pdb_00005vzl