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234,136 Structures from the PDB

1,068,577 Computed Structure Models (CSM)

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QUERY: Structure Author = "Peng, R."

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Search Summary

This query matches 67 Structures.

Refinements

Structure Determination Methodology

experimental (67)

Scientific Name of Source Organism

	Homo sapiens (16)
	synthetic construct (11)
	Coxsackievirus A10 (8)
	Influenza D virus (D/swine/Oklahoma/1334/2011) (8)
	Echovirus E6 (7)
	Mammarenavirus machupoense (7)
	Mus musculus (5)
	Vibrio phage ICP1_2011_A (4)
	Mammarenavirus lassaense (3)
	Zika virus (3)

More...

Taxonomy

	Riboviria (46)
	Eukaryota (23)
	other sequences (11)
	Duplodnaviria (6)
	Bacteria (5)

Experimental Method

	ELECTRON MICROSCOPY (48)
	X-RAY DIFFRACTION (18)
	SOLUTION NMR (1)

Polymer Entity Type

	Protein (67)
	RNA (20)
	DNA (1)

Refinement Resolution (Å)

	1.5 - 2.0 (12)
	2.0 - 2.5 (5)
	2.5 - 3.0 (2)
	3.0 - 3.5 (20)
	3.5 - 4.0 (15)
	4.0 - 4.5 (8)
	> 4.5 (4)

Release Date

	2015 - 2019 (29)
	2020 - 2024 (38)

Enzyme Classification Name

	Transferases (21)
	Hydrolases (11)
	Oxidoreductases (2)
	Lyases (1)

Membrane Protein Annotation

	MemProtMD (1)
	OPM (1)

Symmetry Type

	Asymmetric (31)
	Cyclic (16)
	Icosahedral (16)
	Dihedral (2)
	Octahedral (2)

SCOP Classification

	All beta proteins (9)
	Artifacts (3)
	Membrane and cell surface proteins and peptides (2)
	Small proteins (1)

AllSelected

1 to 25 of 67 Structures

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4UEI \| pdb_00004uei	Download File View File

Solution structure of the sterol carrier protein domain 2 of Helicoverpa armigera

Liu, X., Ma, H., Yan, X., Hong, H., Peng, J., Peng, R.

(2015) Sci Rep 5: 18186

Released	2015-12-30
Method	SOLUTION NMR
Organisms	Helicoverpa armigera
Macromolecule	STEROL CARRIER PROTEIN 2/3-OXOACYL-COA THIOLASE (protein)

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5GZN \| pdb_00005gzn	Download File View File

Structure of neutralizing antibody bound to Zika envelope protein

Wang, Q., Yang, H., Liu, X., Dai, L., Ma, T., Qi, J., Wong, G., Peng, R., Liu, S., Li, J., Li, S., Song, J., Liu, J., He, J., Yuan, H., Xiong, Y., Liao, Y., Li, J., Yang, J., Tong, Z., Griffin, B., Bi, Y., Liang, M., Xu, X., Cheng, G., Wang, P., Qiu, X., Kobinger, G., Shi, Y., Yan, J., Gao, G.F.

(2016) Sci Transl Med 8: 369ra179-369ra179

Released	2016-12-28
Method	X-RAY DIFFRACTION 3 Å
Organisms	Homo sapiens Zika virus
Macromolecule	Antibody Heavy chain (protein) Antibody light chain (protein) Genome polyprotein (protein)

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5GZO \| pdb_00005gzo	Download File View File

Structure of neutralizing antibody bound to Zika envelope protein

(2016) Sci Transl Med 8: 369ra179-369ra179

Released	2017-01-18
Method	X-RAY DIFFRACTION 2.755 Å
Organisms	Homo sapiens Zika virus
Macromolecule	Antibody heavy chain (protein) Antibody light chain (protein) Genome polyprotein (protein)

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5GZR \| pdb_00005gzr	Download File View File

Zika virus E protein complexed with a neutralizing antibody Z23-Fab

Gao, G.G., Shi, Y., Peng, R., Liu, S.

(2016) Sci Transl Med 8: 369ra179-369ra179

Released	2016-11-30
Method	ELECTRON MICROSCOPY 9.4 Å
Organisms	Homo sapiens Zika virus
Macromolecule	Z23 Fab heavy chain (protein) Z23 Fab light chain (protein) structural protein E (protein) strutural protein M (protein)

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5XEA \| pdb_00005xea	Download File View File

Structure of Thogoto virus envelope glycoprotein

Peng, R., Shi, Y., Qi, J., Gao, G.F.

(2017) Proc Natl Acad Sci U S A 114: E8905-E8912

Released	2017-10-04
Method	X-RAY DIFFRACTION 2.093 Å
Organisms	Thogoto virus (isolate SiAr 126)
Macromolecule	Envelope glycoprotein (protein)
Unique Ligands	NAG
Unique branched monosaccharides	BMA, NAG

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5XEB \| pdb_00005xeb	Download File View File

Structure of the envelope glycoprotein of Dhori virus

Peng, R., Shi, Y., Qi, J., Gao, G.F.

(2017) Proc Natl Acad Sci U S A 114: E8905-E8912

Released	2017-10-04
Method	X-RAY DIFFRACTION 2.497 Å
Organisms	Dhori virus (strain Indian/1313/61)
Macromolecule	Envelope glycoprotein (protein)
Unique Ligands	NAG

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5XLO \| pdb_00005xlo	Download File View File

Anti-CRISPR proteins AcrF1/2 bound to Csy surveillance complex with a 32nt spacer crRNA backbone region

Peng, R., Shi, Y., Gao, G.F.

(2017) Cell Res 27: 853-864

Released	2018-01-10
Method	ELECTRON MICROSCOPY 3.8 Å
Organisms	Pseudomonas aeruginosa Pseudomonas aeruginosa UCBPP-PA14 Pseudomonas phage JBD30
Macromolecule	CRISPR-associated protein Csy3 (protein) Uncharacterized protein AcrF1 (protein) crRNA with 32nt spacer sequence (nucleic acid)

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5XLP \| pdb_00005xlp	Download File View File

Anti-CRISPR proteins AcrF1/2 bound to Csy surveillance complex with a 20nt spacer crRNA backbone region

Peng, R., Shi, Y., Gao, G.F.

(2017) Cell Res 27: 853-864

Released	2018-01-10
Method	ELECTRON MICROSCOPY 4.2 Å
Organisms	Pseudomonas aeruginosa Pseudomonas aeruginosa UCBPP-PA14 Pseudomonas phage JBD30
Macromolecule	CRISPR-associated protein Csy3 (protein) Uncharacterized protein AcrF1 (protein) crRNA with 20nt spacer sequence (nucleic acid)

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6ILJ \| pdb_00006ilj	Download File View File

Cryo-EM structure of Echovirus 6 complexed with its attachment receptor CD55 at PH 5.5

Gao, G.F., Liu, S., Zhao, X., Peng, R.

(2019) Cell 177: 1553-1565.e16

Released	2019-05-15
Method	ELECTRON MICROSCOPY 3.6 Å
Organisms	Echovirus E6 Homo sapiens
Macromolecule	Capsid protein VP1 (protein) Capsid protein VP2 (protein) Capsid protein VP3 (protein) Capsid protein VP4 (protein) Complement decay-accelerating factor (protein)
Unique Ligands	SPH

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6ILK \| pdb_00006ilk	Download File View File

Cryo-EM structure of Echovirus 6 complexed with its attachment receptor CD55 at PH 7.4

Gao, G.F., Liu, S., Zhao, X., Peng, R.

(2019) Cell 177: 1553-1565.e16

Released	2019-05-15
Method	ELECTRON MICROSCOPY 3 Å
Organisms	Echovirus E6 Homo sapiens
Macromolecule	Capsid protein VP1 (protein) Capsid protein VP2 (protein) Capsid protein VP3 (protein) Capsid protein VP4 (protein) Complement decay-accelerating factor (protein)
Unique Ligands	SPH

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6ILL \| pdb_00006ill	Download File View File

Cryo-EM structure of Echovirus 6 complexed with its uncoating receptor FcRn at PH 5.5

Gao, G.F., Liu, S., Zhao, X., Peng, R.

(2019) Cell 177: 1553-1565.e16

Released	2019-05-15
Method	ELECTRON MICROSCOPY 3.8 Å
Organisms	Echovirus E6
Macromolecule	Capsid protein VP1 (protein) Capsid protein VP2 (protein) Capsid protein VP3 (protein) Capsid protein VP4 (protein)

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6ILM \| pdb_00006ilm	Download File View File

Cryo-EM structure of Echovirus 6 complexed with its uncoating receptor FcRn at PH 7.4

Gao, G.F., Liu, S., Zhao, X., Peng, R.

(2019) Cell 177: 1553-1565.e16

Released	2019-05-15
Method	ELECTRON MICROSCOPY 3.4 Å
Organisms	Echovirus E6 Homo sapiens
Macromolecule	Unique protein chains: 6
Unique Ligands	K, NA, SPH

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6ILN \| pdb_00006iln	Download File View File

Cryo-EM structure of full Echovirus 6 particle at PH 5.5

Gao, G.F., Liu, S., Zhao, X., Peng, R.

(2019) Cell 177: 1553-1565.e16

Released	2019-05-15
Method	ELECTRON MICROSCOPY 3.4 Å
Organisms	Echovirus E6
Macromolecule	Capsid protein VP1 (protein) Capsid protein VP2 (protein) Capsid protein VP3 (protein) Capsid protein VP4 (protein)
Unique Ligands	SPH

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6ILO \| pdb_00006ilo	Download File View File

Cryo-EM structure of empty Echovirus 6 particle at PH 7.4

Gao, G.F., Liu, S., Zhao, X., Peng, R.

(2019) Cell 177: 1553-1565.e16

Released	2019-05-15
Method	ELECTRON MICROSCOPY 3.2 Å
Organisms	Echovirus E6
Macromolecule	Capsid protein VP1 (protein) Capsid protein VP2 (protein) Capsid protein VP3 (protein)

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6ILP \| pdb_00006ilp	Download File View File

Cryo-EM structure of full Echovirus 6 particle at PH 7.4

Gao, G.F., Liu, S., Zhao, X., Peng, R.

(2019) Cell 177: 1553-1565.e16

Released	2019-05-15
Method	ELECTRON MICROSCOPY 2.9 Å
Organisms	Echovirus E6
Macromolecule	Capsid protein VP1 (protein) Capsid protein VP2 (protein) Capsid protein VP3 (protein) Capsid protein VP4 (protein)
Unique Ligands	SPH

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6J5C \| pdb_00006j5c	Download File View File

Louping ill virus envelope protein

Yang, X., Qi, J., Peng, R., Dai, L., Gould, E.A., Tien, P., Gao, G.F.

(2019) J Virol 93:

Released	2019-02-06
Method	X-RAY DIFFRACTION 3.6 Å
Organisms	Louping ill virus
Macromolecule	Envelope protein E (protein)

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6J5D \| pdb_00006j5d	Download File View File

Complex structure of MAb 4.2-scFv with louping ill virus envelope protein Domain III

Yang, X., Qi, J., Peng, R., Dai, L., Gould, E.A., Tien, P., Gao, G.F.

(2019) J Virol 93:

Released	2019-02-06
Method	X-RAY DIFFRACTION 1.8 Å
Organisms	Louping ill virus Mus musculus
Macromolecule	Envelope (protein) antibody heavy chain (protein) antibody light chain (protein)

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6J5F \| pdb_00006j5f	Download File View File

Complex structure of MAb 4.2-scFv with tick-borne encephalitis virus envelope protein Domain III

Yang, X., Qi, J., Peng, R., Dai, L., Gould, E.A., Tien, P., Gao, G.F.

(2019) J Virol 93:

Released	2019-02-06
Method	X-RAY DIFFRACTION 1.801 Å
Organisms	Mus musculus Tick-borne encephalitis virus
Macromolecule	Envelope protein (protein) antibody heavy chain (protein) antibody light chain (protein)

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6J5G \| pdb_00006j5g	Download File View File

Complex structure of MAb 4.2-scFv with tick-borne encephalitis virus envelope protein

Yang, X., Qi, J., Peng, R., Dai, L., Gould, E.A., Tien, P., Gao, G.F.

(2019) J Virol 93:

Released	2019-02-06
Method	X-RAY DIFFRACTION 3.291 Å
Organisms	Mus musculus Tick-borne encephalitis virus (WESTERN SUBTYPE)
Macromolecule	Envelope protein E (protein) antibody heavy chain (protein) antibody light chain (protein)

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6KL9 \| pdb_00006kl9	Download File View File

Structure of LbCas12a-crRNA complex bound to AcrVA4 (form A complex)

Peng, R., Li, Z., Xu, Y., He, S., Peng, Q., Shi, Y., Gao, G.F.

(2019) Proc Natl Acad Sci U S A 116: 18928-18936

Released	2019-09-11
Method	ELECTRON MICROSCOPY 3.25 Å
Organisms	Lachnospiraceae bacterium Moraxella bovoculi synthetic construct
Macromolecule	AcrVA4 (protein) LbCas12a (protein) RNA (42-MER) (nucleic acid)
Unique Ligands	MG

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6KLB \| pdb_00006klb	Download File View File

Structure of LbCas12a-crRNA complex bound to AcrVA4 (form B complex)

Peng, R., Li, Z., Xu, Y., He, S., Peng, Q., Shi, Y., Gao, G.F.

(2019) Proc Natl Acad Sci U S A 116: 18928-18936

Released	2019-09-11
Method	ELECTRON MICROSCOPY 4.1 Å
Organisms	Lachnospiraceae bacterium Moraxella bovoculi synthetic construct
Macromolecule	AcrVA4 (protein) LbCas12a (protein) crRNA (nucleic acid)
Unique Ligands	MG

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6KLC \| pdb_00006klc	Download File View File

Structure of apo Lassa virus polymerase

Peng, R., Xu, X., Jing, J., Peng, Q., Gao, G.F., Shi, Y.

(2020) Nature 579: 615-619

Released	2020-03-18
Method	ELECTRON MICROSCOPY 3.9 Å
Organisms	Mammarenavirus lassaense
Macromolecule	RNA-directed RNA polymerase L (protein)
Unique Ligands	MN

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6KLD \| pdb_00006kld	Download File View File

Structure of apo Machupo virus polymerase

Peng, R., Xu, X., Jing, J., Peng, Q., Gao, G.F., Shi, Y.

(2020) Nature 579: 615-619

Released	2020-03-18
Method	ELECTRON MICROSCOPY 3.58 Å
Organisms	Mammarenavirus machupoense
Macromolecule	RNA-directed RNA polymerase L (protein)
Unique Ligands	MN, ZN

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6KLE \| pdb_00006kle	Download File View File

Monomeric structure of Machupo virus polymerase bound to vRNA promoter

Peng, R., Xu, X., Jing, J., Peng, Q., Gao, G.F., Shi, Y.

(2020) Nature 579: 615-619

Released	2020-03-18
Method	ELECTRON MICROSCOPY 4.5 Å
Organisms	Mammarenavirus machupoense synthetic construct
Macromolecule	RNA-directed RNA polymerase L (protein) RNA (5'-R(GPCPCPUPAPGPGPAPUPCPCPAPCPUPGPUPGPCP*G)-3') (nucleic acid)
Unique Ligands	MN, ZN

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6KLH \| pdb_00006klh	Download File View File

Dimeric structure of Machupo virus polymerase bound to vRNA promoter

Peng, R., Xu, X., Jing, J., Peng, Q., Gao, G.F., Shi, Y.

(2020) Nature 579: 615-619

Released	2020-03-18
Method	ELECTRON MICROSCOPY 3.7 Å
Organisms	Mammarenavirus machupoense synthetic construct
Macromolecule	RNA-directed RNA polymerase L (protein) RNA (5'-R(GPCPCPUPAPGPGPAPUPCPCPAPCPUPGPUPGPCP*G)-3') (nucleic acid)
Unique Ligands	MN, ZN

1 to 25 of 67 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

4UEI | pdb_00004uei

5GZN | pdb_00005gzn

5GZO | pdb_00005gzo

5GZR | pdb_00005gzr

5XEA | pdb_00005xea

5XEB | pdb_00005xeb

5XLO | pdb_00005xlo

5XLP | pdb_00005xlp

6ILJ | pdb_00006ilj

6ILK | pdb_00006ilk

6ILL | pdb_00006ill

6ILM | pdb_00006ilm

6ILN | pdb_00006iln

6ILO | pdb_00006ilo

6ILP | pdb_00006ilp

6J5C | pdb_00006j5c

6J5D | pdb_00006j5d

6J5F | pdb_00006j5f

6J5G | pdb_00006j5g

6KL9 | pdb_00006kl9

6KLB | pdb_00006klb

6KLC | pdb_00006klc

6KLD | pdb_00006kld

6KLE | pdb_00006kle

6KLH | pdb_00006klh