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233,605 Structures from the PDB

1,068,577 Computed Structure Models (CSM)

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QUERY: Citation Author = "Chen, D.H."

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Search Summary

This query matches 30 Structures.

Refinements

Structure Determination Methodology

experimental (30)

Scientific Name of Source Organism

	Homo sapiens (10)
	Human immunodeficiency virus 1 (8)
	Human immunodeficiency virus type 1 BH10 (5)
	Danio rerio (4)
	Brome mosaic virus (3)
	Escherichia coli (2)
	Human alphaherpesvirus 3 (2)
	Lederbergvirus P22 (2)
	Rattus norvegicus (2)
	Thermochaetoides thermophila DSM 1495 (2)

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Taxonomy

	Eukaryota (20)
	Riboviria (11)
	Duplodnaviria (6)
	Bacteria (2)
	Varidnaviria (1)

Experimental Method

	ELECTRON MICROSCOPY (27)
	X-RAY DIFFRACTION (3)

Polymer Entity Type

	Protein (30)
	NA-hybrid (8)
	RNA (8)

Refinement Resolution (Å)

	2.0 - 2.5 (1)
	2.5 - 3.0 (5)
	3.0 - 3.5 (5)
	3.5 - 4.0 (8)
	4.0 - 4.5 (4)
	> 4.5 (7)

Release Date

	2005 - 2009 (4)
	2010 - 2014 (4)
	2015 - 2019 (8)
	2020 - 2024 (14)

Enzyme Classification Name

	Transferases (11)
	Hydrolases (8)
	Isomerases (2)
	Lyases (2)

Membrane Protein Annotation

	mpstruc (4)
	MemProtMD (3)
	PDBTM (3)
	OPM (1)

Symmetry Type

	Asymmetric (12)
	Cyclic (8)
	Dihedral (5)
	Icosahedral (4)
	Helical (1)

SCOP Classification

	All beta proteins (1)
	Multi-domain proteins (alpha and beta) (2)

AllSelected

1 to 25 of 30 Structures

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1TT9 \| pdb_00001tt9	Download File View File

Structure of the bifunctional and Golgi associated formiminotransferase cyclodeaminase octamer

Mao, Y., Vyas, N.K., Vyas, M.N., Chen, D.H., Ludtke, S.J., Chiu, W., Quiocho, F.A.

(2004) EMBO J 23: 2963-2971

Released	2005-06-28
Method	X-RAY DIFFRACTION 3.42 Å
Organisms	Rattus norvegicus
Macromolecule	Formimidoyltransferase-cyclodeaminase (Formiminotransferase- cyclodeaminase) (FTCD) (58 kDa microtubule-binding protein) (protein)

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2PFD \| pdb_00002pfd	Download File View File

Anisotropically refined structure of FTCD

Poon, B.K., Chen, X., Lu, M., Quiocho, F.A., Wang, Q., Ma, J.

To be published

Released	2007-04-24
Method	X-RAY DIFFRACTION 3.42 Å
Organisms	Rattus norvegicus
Macromolecule	Formimidoyltransferase-cyclodeaminase (protein)

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3C9V \| pdb_00003c9v	Download File View File

C7 Symmetrized Structure of Unliganded GroEL at 4.7 Angstrom Resolution from CryoEM

Ludtke, S.J., Baker, M.L., Chen, D.H., Song, J.L., Chuang, D., Chiu, W.

(2008) Structure 16: 441-448

Released	2008-09-02
Method	ELECTRON MICROSCOPY 4.7 Å
Organisms	Escherichia coli
Macromolecule	60 kDa chaperonin (protein)

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3CAU \| pdb_00003cau	Download File View File

D7 symmetrized structure of unliganded GroEL at 4.2 Angstrom resolution by cryoEM

Ludtke, S.J., Baker, M.L., Chen, D.H., Song, J.L., Chuang, D., Chiu, W.

(2008) Structure 16: 441-448

Released	2008-09-02
Method	ELECTRON MICROSCOPY 4.2 Å
Organisms	Escherichia coli
Macromolecule	60 kDa chaperonin (protein)

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3J32 \| pdb_00003j32	Download File View File

An asymmetric unit map from electron cryo-microscopy of Haliotis diversicolor molluscan hemocyanin isoform 1 (HdH1)

Zhang, Q., Dai, X., Cong, Y., Zhang, J., Chen, D.-H., Dougherty, M., Wang, J., Ludtke, S., Schmid, M.F., Chiu, W.

(2013) Structure 21: 604-613

Released	2013-04-17
Method	ELECTRON MICROSCOPY 4.5 Å
Organisms	Haliotis diversicolor
Macromolecule	Hemocyanin isoform 1 (protein)

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3J7L \| pdb_00003j7l	Download File View File

Full virus map of brome mosaic virus

Wang, Z., Hryc, C., Bammes, B., Afonine, P.V., Jakana, J., Chen, D.H., Liu, X., Baker, M.L., Kao, C., Ludtke, S.J., Schmid, M.F., Adams, P.D., Chiu, W.

(2014) Nat Commun 5: 4808-4808

Released	2014-09-10
Method	ELECTRON MICROSCOPY 3.8 Å
Organisms	Brome mosaic virus
Macromolecule	Capsid protein (protein)

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3J7M \| pdb_00003j7m	Download File View File

Virus model of brome mosaic virus (first half data set)

Wang, Z., Hryc, C., Bammes, B., Afonine, P.V., Jakana, J., Chen, D.H., Liu, X., Baker, M.L., Kao, C., Ludtke, S.J., Schmid, M.F., Adams, P.D., Chiu, W.

(2014) Nat Commun 5: 4808-4808

Released	2014-09-10
Method	ELECTRON MICROSCOPY 3.8 Å
Organisms	Brome mosaic virus
Macromolecule	Capsid protein (protein)

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3J7N \| pdb_00003j7n	Download File View File

Virus model of brome mosaic virus (second half data set)

Wang, Z., Hryc, C., Bammes, B., Afonine, P.V., Jakana, J., Chen, D.H., Liu, X., Baker, M.L., Kao, C., Ludtke, S.J., Schmid, M.F., Adams, P.D., Chiu, W.

(2014) Nat Commun 5: 4808-4808

Released	2014-09-10
Method	ELECTRON MICROSCOPY 3.8 Å
Organisms	Brome mosaic virus
Macromolecule	Capsid protein (protein)

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5GAI \| pdb_00005gai	Download File View File

Probabilistic Structural Models of Mature P22 Bacteriophage Portal, Hub, and Tailspike proteins

Pintilie, G., Chen, D.H., Haase-Pettingell, C.A., King, J.A., Chiu, W.

(2016) Biophys J 110: 827-839

Released	2016-02-17
Method	ELECTRON MICROSCOPY 10.5 Å
Organisms	Lederbergvirus P22
Macromolecule	Peptidoglycan hydrolase gp4 (protein) Portal protein (protein) Tail fiber protein (protein)

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5UU5 \| pdb_00005uu5	Download File View File

Bacteriophage P22 mature virion capsid protein

Hryc, C.F., Chen, D.-H., Afonine, P.V., Jakana, J., Wang, Z., Haase-Pettingell, C., Jiang, W., Adams, P.D., King, J.A., Schmid, M.F., Chiu, W.

(2017) Proc Natl Acad Sci U S A 114: 3103-3108

Released	2017-03-15
Method	ELECTRON MICROSCOPY 3.3 Å
Organisms	Lederbergvirus P22
Macromolecule	Major capsid protein (protein)

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6B19 \| pdb_00006b19	Download File View File

Architecture of HIV-1 reverse transcriptase initiation complex core

Larsen, K.P., Mathiharan, Y.K., Chen, D.H., Puglisi, J.D., Skiniotis, G., Puglisi, E.V.

(2018) Nature 557: 118-122

Released	2018-04-25
Method	ELECTRON MICROSCOPY 4.5 Å
Organisms	Homo sapiens Human immunodeficiency virus 1
Macromolecule	reverse transcriptase p51 subunit (protein) reverse transcriptase p66 subunit (protein) RNA genome fragment (nucleic acid) tRNA lysine3 (hybrid)

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6NPH \| pdb_00006nph	Download File View File

Structure of NKCC1 TM domain

Feng, L., Liao, M.F., Orlando, B., Zhang, J.R.

(2019) Nature 572: 488-492

Released	2019-07-31
Method	ELECTRON MICROSCOPY 2.9 Å
Organisms	Danio rerio
Macromolecule	Solute carrier family 12 (sodium/potassium/chloride transporter), member 2 (protein)
Unique Ligands	CL, K, POV

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6NPJ \| pdb_00006npj	Download File View File

Structure of the NKCC1 CTD

Feng, L., Liao, M.F., Orlando, B., Zhang, J.R.

(2019) Nature 572: 488-492

Released	2019-07-31
Method	ELECTRON MICROSCOPY 3.8 Å
Organisms	Danio rerio
Macromolecule	Sodium-potassium-chloride cotransporter 1 (protein)

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6NPK \| pdb_00006npk	Download File View File

Structure of the TM domain

Feng, L., Liao, M.F., Orlando, B., Zhang, J.R.

(2019) Nature 572: 488-492

Released	2019-07-31
Method	ELECTRON MICROSCOPY 3.6 Å
Organisms	Danio rerio
Macromolecule	Solute carrier family 12 (sodium/potassium/chloride transporter), member 2 (protein)

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6NPL \| pdb_00006npl	Download File View File

Cryo-EM structure of NKCC1

Feng, L., Liao, M.F., Orlando, B., Zhang, J.R.

(2019) Nature 572: 488-492

Released	2019-07-31
Method	ELECTRON MICROSCOPY 2.9 Å
Organisms	Danio rerio
Macromolecule	Solute carrier family 12 (sodium/potassium/chloride transporter), member 2 (protein)
Unique Ligands	CL, K, POV

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6OJN \| pdb_00006ojn	Download File View File

Comparative Model of SGIV Major Coat Protein (MCP) Trimer Based on Cryo-EM Map

Pintilie, G., Chen, D.-H., Tran, B.N., Jakana, J., Wu, J., Hew, C.L., Chiu, W.

(2019) Structure 27: 1561

Released	2019-06-12
Method	ELECTRON MICROSCOPY 8.6 Å
Organisms	Singapore grouper iridovirus
Macromolecule	Major capsid protein (protein)

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6VCC \| pdb_00006vcc	Download File View File

Cryo-EM structure of the Dvl2 DIX filament

Enos, M., Kan, W., Muennich, S., Chen, D.H., Skiniotis, G., Weis, W.I.

(2020) Elife 9:

Released	2020-04-29
Method	ELECTRON MICROSCOPY 3.6 Å
Organisms	Mus musculus
Macromolecule	Segment polarity protein dishevelled homolog DVL-2 (protein)

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6VLK \| pdb_00006vlk	Download File View File

A varicella-zoster virus glycoprotein

Xing, Y.

(2020) Nat Commun 11: 4141-4141

Released	2020-07-15
Method	X-RAY DIFFRACTION 2.4529 Å
Organisms	Human herpesvirus 3 strain Oka vaccine
Macromolecule	Envelope glycoprotein B (protein)
Unique Ligands	NAG
Unique branched monosaccharides	BMA, MAN, NAG

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6VN1 \| pdb_00006vn1	Download File View File

A 2.8 Angstrom Cryo-EM Structure of a Glycoprotein B-Neutralizing Antibody Complex Reveals a Critical Domain for Herpesvirus Fusion Initiation

Oliver, S.L.

(2020) Nat Commun 11: 4141-4141

Released	2020-07-15
Method	ELECTRON MICROSCOPY 2.8 Å
Organisms	Homo sapiens Human alphaherpesvirus 3
Macromolecule	Envelope glycoprotein B (protein) Human monoclonal antibody 93k variable heavy chain (protein) Human monoclonal antibody 93k variable light chain (protein)

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6WAZ \| pdb_00006waz	Download File View File

+1 extended HIV-1 reverse transcriptase initiation complex core (pre-translocation state)

Larsen, K.P., Jackson, L.N., Kappel, K., Zhang, J., Puglisi, E.V.

(2020) J Mol Biology 432: 4499-4522

Released	2020-06-24
Method	ELECTRON MICROSCOPY 4.1 Å
Organisms	Homo sapiens Human immunodeficiency virus 1 Human immunodeficiency virus type 1 BH10
Macromolecule	Reverse transcriptase p51 subunit (protein) Reverse transcriptase/ribonuclease H (protein) HIV-1 viral RNA genome fragment (nucleic acid) tRNA lysine 3 (hybrid)

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6WB0 \| pdb_00006wb0	Download File View File

+3 extended HIV-1 reverse transcriptase initiation complex core (pre-translocation state)

Larsen, K.P., Jackson, L.N., Kappel, K., Zhang, J., Puglisi, E.V.

(2020) J Mol Biology 432: 4499-4522

Released	2020-06-24
Method	ELECTRON MICROSCOPY 4.2 Å
Organisms	Homo sapiens Human immunodeficiency virus 1
Macromolecule	Reverse transcriptase/ribonuclease H (protein) reverse transcriptase p51 subunit (protein) HIV-1 viral RNA genome fragment (nucleic acid) tRNA lysine 3 (hybrid)

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6WB1 \| pdb_00006wb1	Download File View File

+3 extended HIV-1 reverse transcriptase initiation complex core (intermediate state)

Larsen, K.P., Jackson, L.N., Kappel, K., Zhang, J., Chen, D.H., Puglisi, E.V.

(2020) J Mol Biology 432: 4499-4522

Released	2020-06-24
Method	ELECTRON MICROSCOPY 4.7 Å
Organisms	Homo sapiens Human immunodeficiency virus 1 Human immunodeficiency virus type 1 BH10
Macromolecule	REVERSE TRANSCRIPTASE/RIBONUCLEASE H (protein) reverse transcriptase p51 subunit (protein) HIV-1 viral RNA genome fragment (nucleic acid) tRNA lysine 3 (hybrid)

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6WB2 \| pdb_00006wb2	Download File View File

+3 extended HIV-1 reverse transcriptase initiation complex core (displaced state)

Larsen, K.P., Jackson, L.N., Kappel, K., Zhang, J., Chen, D.H., Puglisi, E.V.

(2020) J Mol Biology 432: 4499-4522

Released	2020-06-24
Method	ELECTRON MICROSCOPY 4.5 Å
Organisms	Homo sapiens Human immunodeficiency virus 1
Macromolecule	Reverse transcriptase/ribonuclease H (protein) reverse transcriptase p51 subunit (protein) HIV-1 viral RNA genome fragment (nucleic acid) tRNA lysine 3 (hybrid)

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6XP5 \| pdb_00006xp5	Download File View File

Head-Middle module of Mediator

Zhang, H.Q., Chen, D.C., Kornberg, R.D.

(2021) Mol Cell 81: 1781-1788.e4

Released	2021-03-03
Method	ELECTRON MICROSCOPY 4.2 Å
Organisms	Thermochaetoides thermophila Thermochaetoides thermophila DSM 1495
Macromolecule	Unique protein chains: 15

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7JMN \| pdb_00007jmn	Download File View File

Tail module of Mediator complex

Zhang, H.Q., Chen, D.C.

(2021) Mol Cell 81: 1781-1788.e4

Released	2021-03-03
Method	ELECTRON MICROSCOPY 3.58 Å
Organisms	Thermochaetoides thermophila DSM 1495
Macromolecule	MED15 (protein) Mediator of RNA polymerase II transcription subunit 14 (protein) Mediator of RNA polymerase II transcription subunit 16 (protein) Mediator of RNA polymerase II transcription subunit 5 (protein) Unknown peptide (protein)

1 to 25 of 30 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

Membrane Protein Annotation

Symmetry Type

SCOP Classification

1TT9 | pdb_00001tt9

2PFD | pdb_00002pfd

3C9V | pdb_00003c9v

3CAU | pdb_00003cau

3J32 | pdb_00003j32

3J7L | pdb_00003j7l

3J7M | pdb_00003j7m

3J7N | pdb_00003j7n

5GAI | pdb_00005gai

5UU5 | pdb_00005uu5

6B19 | pdb_00006b19

6NPH | pdb_00006nph

6NPJ | pdb_00006npj

6NPK | pdb_00006npk

6NPL | pdb_00006npl

6OJN | pdb_00006ojn

6VCC | pdb_00006vcc

6VLK | pdb_00006vlk

6VN1 | pdb_00006vn1

6WAZ | pdb_00006waz

6WB0 | pdb_00006wb0

6WB1 | pdb_00006wb1

6WB2 | pdb_00006wb2

6XP5 | pdb_00006xp5

7JMN | pdb_00007jmn