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233,605 Structures from the PDB

1,068,577 Computed Structure Models (CSM)

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QUERY: Citation Author = "Yang, B.X."

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Search Summary

This query matches 37 Structures.

Refinements

Structure Determination Methodology

experimental (37)

Scientific Name of Source Organism

	Homo sapiens (11)
	Saccharomyces cerevisiae (11)
	Pseudomonas aeruginosa (7)
	Escherichia coli K-12 (3)
	Geobacillus stearothermophilus (3)
	Pseudomonas aeruginosa PAO1 (3)
	Bacillus subtilis subsp. subtilis str. 168 (2)
	Escherichia coli (2)
	Phikzvirus phiKZ (2)
	Sus scrofa (1)

Taxonomy

	Eukaryota (22)
	Bacteria (14)
	Duplodnaviria (2)

Experimental Method

	ELECTRON MICROSCOPY (30)
	X-RAY DIFFRACTION (7)

Polymer Entity Type

	Protein (37)
	RNA (10)
	DNA (9)

Refinement Resolution (Å)

	1.0 - 1.5 (1)
	1.5 - 2.0 (2)
	2.0 - 2.5 (4)
	2.5 - 3.0 (4)
	3.0 - 3.5 (12)
	3.5 - 4.0 (7)
	> 4.5 (7)

Release Date

	2015 - 2019 (5)
	2020 - 2024 (32)

Enzyme Classification Name

	Hydrolases (15)
	Transferases (5)

Symmetry Type

	Asymmetric (29)
	Cyclic (8)
	Helical (1)

SCOP Classification

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

AllSelected

1 to 25 of 37 Structures

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5FT0 \| pdb_00005ft0	Download File View File

Crystal structure of gp37(Dip) from bacteriophage phiKZ

Van den Bossche, A., Hardwick, S.W., Ceyssens, P.J., Hendrix, H., Voet, M., Dendooven, T., Bandyra, K.J., De Maeyer, M., Aertsen, A., Noben, J.P., Luisi, B.F., Lavigne, R.

(2016) Elife 5:

Released	2016-08-03
Method	X-RAY DIFFRACTION 2.2 Å
Organisms	Phikzvirus phiKZ
Macromolecule	GP37 (protein)
Unique Ligands	ARG, K

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5FT1 \| pdb_00005ft1	Download File View File

Crystal structure of gp37(Dip) from bacteriophage phiKZ bound to RNase E of Pseudomonas aeruginosa

Van den Bossche, A., Hardwick, S.W., Ceyssens, P.J., Hendrix, H., Voet, M., Dendooven, T., Bandyra, K.J., De Maeyer, M., Aertsen, A., Noben, J.P., Luisi, B.F., Lavigne, R.

(2016) Elife 5:

Released	2016-08-03
Method	X-RAY DIFFRACTION 2.75 Å
Organisms	Phikzvirus phiKZ Pseudomonas aeruginosa
Macromolecule	GP37 (protein) RIBONUCLEASE E (protein)

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6O1K \| pdb_00006o1k	Download File View File

Architectural principles for Hfq/Crc-mediated regulation of gene expression. Hfq-Crc-amiE 2:2:2 complex (core complex)

Pei, X.Y., Dendooven, T., Sonnleitner, E., Chen, S., Blasi, U., Luisi, B.F.

(2019) Elife 8:

Released	2019-03-13
Method	ELECTRON MICROSCOPY 3.13 Å
Organisms	Pseudomonas aeruginosa Pseudomonas aeruginosa PAO1
Macromolecule	Catabolite repression control protein (protein) RNA-binding protein Hfq (protein) RNA (5'-R(APAPAPAPAPUPAPAPCPAPAPCPAPAPGPAPGPG)-3') (nucleic acid)

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6O1L \| pdb_00006o1l	Download File View File

Architectural principles for Hfq/Crc-mediated regulation of gene expression Hfq-Crc-amiE 2:3:2 complex

Pei, X.Y., Dendooven, T., Sonnleitner, E., Chen, S., Blasi, U., Luisi, B.F.

(2019) Elife 8:

Released	2019-03-13
Method	ELECTRON MICROSCOPY 3.37 Å
Organisms	Pseudomonas aeruginosa Pseudomonas aeruginosa PAO1
Macromolecule	Catabolite repression control protein (protein) RNA-binding protein Hfq (protein) RNA (5'-R(APAPAPAPAPUPAPAPCPAPAPCPAPAPGPAPGPG)-3') (nucleic acid)

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6O1M \| pdb_00006o1m	Download File View File

Architectural principles for Hfq/Crc-mediated regulation of gene expression. Hfq-Crc-amiE 2:4:2 complex

Pei, X.Y., Dendooven, T., Sonnleitner, E., Chen, S., Blasi, U., Luisi, B.F.

(2019) Elife 8:

Released	2019-03-13
Method	ELECTRON MICROSCOPY 3.15 Å
Organisms	Pseudomonas aeruginosa Pseudomonas aeruginosa PAO1
Macromolecule	Catabolite repression control protein (protein) RNA-binding protein Hfq (protein) RNA (5'-R(APAPAPAPAPUPAPAPCPAPAPCPAPAPGPAPGPG)-3') (nucleic acid)

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6TG6 \| pdb_00006tg6	Download File View File

Toprim domain of RNase M5

Oerum, S., Catala, M., Tisne, C.

(2020) Mol Cell 80: 227

Released	2020-09-23
Method	X-RAY DIFFRACTION 1.3 Å
Organisms	Geobacillus stearothermophilus
Macromolecule	Ribonuclease M5 (protein)

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6TGJ \| pdb_00006tgj	Download File View File

RNA-binding domain of RNase M5

Oerum, S., Catala, M., Degut, C., Tisne, C.

(2020) Mol Cell 80: 227

Released	2020-09-30
Method	X-RAY DIFFRACTION 1.5 Å
Organisms	Geobacillus stearothermophilus
Macromolecule	Ribonuclease M5 (protein)

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6TNN \| pdb_00006tnn	Download File View File

Mini-RNase III (Mini-III) bound to 50S ribosome with precursor 23S rRNA

Oerum, S., Dendooven, T., Gilet, L., Catala, M., Degut, C., Trinquier, A., Barraud, P., Luisi, B., Condon, C., Tisne, C.

(2020) Mol Cell 80: 227

Released	2020-09-30
Method	ELECTRON MICROSCOPY 3.07 Å
Organisms	Bacillus subtilis subsp. subtilis str. 168
Macromolecule	Unique protein chains: 28 Unique nucleic acid chains: 2
Unique Ligands	MG, ZN

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6TPQ \| pdb_00006tpq	Download File View File

RNase M5 bound to 50S ribosome with precursor 5S rRNA

Oerum, S., Dendooven, T., Gilet, L., Catala, M., Degut, C., Trinquier, A., Barraud, P., Luisi, B., Condon, C., Tisne, C.

(2020) Mol Cell 80: 227

Released	2020-09-30
Method	ELECTRON MICROSCOPY 3.07 Å
Organisms	Bacillus subtilis subsp. subtilis str. 168 Geobacillus stearothermophilus
Macromolecule	Unique protein chains: 28 Unique nucleic acid chains: 2
Unique Ligands	MG, ZN

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7AU2 \| pdb_00007au2	Download File View File

Cryo-EM structure of human exostosin-like 3 (EXTL3)

Wilson, L.F.L., Dendooven, T., Hardwick, S.W., Chirgadze, D.Y., Luisi, B.F., Logan, D.T., Mani, K., Dupree, P.

(2022) Nat Commun 13: 3314-3314

Released	2022-05-18
Method	ELECTRON MICROSCOPY 2.43 Å
Organisms	Homo sapiens
Macromolecule	Exostosin-like 3 (protein)
Unique branched monosaccharides	BMA, MAN, NAG

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7AUA \| pdb_00007aua	Download File View File

Cryo-EM structure of human exostosin-like 3 (EXTL3) in complex with UDP

Wilson, L.F.L., Dendooven, T., Hardwick, S.W., Chirgadze, D.Y., Luisi, B.F., Logan, D.T., Mani, K., Dupree, P.

(2022) Nat Commun 13: 3314-3314

Released	2022-05-18
Method	ELECTRON MICROSCOPY 2.93 Å
Organisms	Homo sapiens
Macromolecule	Exostosin-like 3 (protein)
Unique Ligands	MN, UDP
Unique branched monosaccharides	BMA, MAN, NAG

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7OGK \| pdb_00007ogk	Download File View File

A cooperative PNPase-Hfq-RNA carrier complex facilitates bacterial riboregulation. PNPase-3'ETS(leuZ)

Dendooven, T., Sinha, D., Roesoleva, A., Cameron, T.A., De Lay, N., Luisi, B.F., Bandyra, K.

(2021) Mol Cell 81: 2901

Released	2021-07-07
Method	ELECTRON MICROSCOPY 3.4 Å
Organisms	Escherichia coli Escherichia coli K-12
Macromolecule	Polyribonucleotide nucleotidyltransferase (protein) 3'ETS(LeuZ) (nucleic acid)

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7OGL \| pdb_00007ogl	Download File View File

A cooperative PNPase-Hfq-RNA carrier complex facilitates bacterial riboregulation. apo-PNPase

Dendooven, T., Sinha, D., Roesoleva, A., Cameron, T.A., De Lay, N., Luisi, B.F., Bandyra, K.

(2021) Mol Cell 81: 2901

Released	2021-07-07
Method	ELECTRON MICROSCOPY 3.4 Å
Organisms	Escherichia coli K-12
Macromolecule	Polyribonucleotide nucleotidyltransferase (protein)

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7OGM \| pdb_00007ogm	Download File View File

A cooperative PNPase-Hfq-RNA carrier complex facilitates bacterial riboregulation. PNPase-3'ETS(leuZ)-Hfq

Dendooven, T., Sinha, D., Roesoleva, A., Cameron, T.A., De Lay, N., Luisi, B.F., Bandyra, K.

(2021) Mol Cell 81: 2901

Released	2021-07-07
Method	ELECTRON MICROSCOPY 3.7 Å
Organisms	Escherichia coli Escherichia coli K-12
Macromolecule	Polyribonucleotide nucleotidyltransferase (protein) RNA-binding protein Hfq (protein) 3'ETS(LeuZ) (nucleic acid)

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7PB4 \| pdb_00007pb4	Download File View File

Cenp-HIK 3-protein complex

Bellini, D., Yatskevich, S., Muir, W.K., Barford, D.

(2022) Science 376: 844-852

Released	2022-04-27
Method	X-RAY DIFFRACTION 2.49 Å
Organisms	Homo sapiens
Macromolecule	Centromere protein H (protein) Centromere protein I (protein) Centromere protein K (protein)

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7PB8 \| pdb_00007pb8	Download File View File

Crystal structure of the CENP-OPQUR complex

Bellini, D., Yatskevich, S., Muir, K.W., Barford, D.

(2022) Science 376: 844-852

Released	2022-04-27
Method	X-RAY DIFFRACTION 3.68 Å
Organisms	Homo sapiens
Macromolecule	Centromere protein O (protein) Centromere protein P (protein) Centromere protein Q (protein) Centromere protein R (protein) Centromere protein U (protein)

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7PII \| pdb_00007pii	Download File View File

Structure of the human CCAN CENP-A alpha-satellite complex

Yatskevich, S., Muir, K.W., Bellini, D., Barford, D.

(2022) Science 376: 844-852

Released	2022-05-25
Method	ELECTRON MICROSCOPY 2.68 Å
Organisms	Homo sapiens
Macromolecule	Unique protein chains: 5 Unique nucleic acid chains: 2

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7PKN \| pdb_00007pkn	Download File View File

Structure of the human CCAN deltaCT complex

Muir, K.W., Yatskevich, S., Bellini, D., Barford, D.

(2022) Science 376: 844-852

Released	2022-04-27
Method	ELECTRON MICROSCOPY 3.2 Å
Organisms	Homo sapiens
Macromolecule	Unique protein chains: 11

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7R5R \| pdb_00007r5r	Download File View File

Structure of the human CCAN CENP-A alpha-satellite complex

Yatskevich, S., Muir, K.W., Bellini, D., Zhang, Z., Yang, J., Tischer, T., Predin, M., Dendooven, T., McLaughlin, S.H., Barford, D.

(2022) Science 376: 844-852

Released	2022-04-27
Method	ELECTRON MICROSCOPY 2.44 Å
Organisms	Homo sapiens
Macromolecule	Unique protein chains: 5 Unique nucleic acid chains: 2

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7R5S \| pdb_00007r5s	Download File View File

Structure of the human CCAN bound to alpha satellite DNA

Yatskevich, S., Muir, K.W., Bellini, D., Zhang, Z., Yang, J., Tischer, T., Predin, M., Dendooven, T., McLaughlin, S.H., Barford, D.

(2022) Science 376: 844-852

Released	2022-04-27
Method	ELECTRON MICROSCOPY 2.83 Å
Organisms	Homo sapiens
Macromolecule	Unique protein chains: 15 Unique nucleic acid chains: 2

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7R5V \| pdb_00007r5v	Download File View File

Structure of the human CCAN CENP-A alpha-satellite complex

Yatskevich, S., Muir, K.W., Bellini, D., Zhang, Z., Yang, J., Tischer, T., Predin, M., Dendooven, T., McLaughlin, S.H., Barford, D.

(2022) Science 376: 844-852

Released	2022-04-27
Method	ELECTRON MICROSCOPY 4.55 Å
Organisms	Homo sapiens
Macromolecule	Unique protein chains: 11 Unique nucleic acid chains: 2

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7YWX \| pdb_00007ywx	Download File View File

Structure of the human CCAN CENP-A alpha-satellite complex

Yatskevich, S., Muir, K.W., Bellini, D., Zhang, Z., Yang, J., Tischer, T., Predin, M., Dendooven, T., McLaughlin, S.H., Barford, D.

(2022) Science 376: 844-852

Released	2022-05-18
Method	ELECTRON MICROSCOPY 12 Å
Organisms	Homo sapiens
Macromolecule	Unique protein chains: 20 Unique nucleic acid chains: 2

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7YYH \| pdb_00007yyh	Download File View File

Structure of the human CCANdeltaT CENP-A alpha-satellite complex

Yatskevich, S., Muir, K.W., Bellini, D., Zhang, Z., Yang, J., Tischer, T., Predin, M., Dendooven, T., McLaughlin, S.H., Barford, D.

(2022) Science 376: 844-852

Released	2022-05-18
Method	ELECTRON MICROSCOPY 8.9 Å
Organisms	Homo sapiens
Macromolecule	Unique protein chains: 16 Unique nucleic acid chains: 2

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8BVH \| pdb_00008bvh	Download File View File

Cryo-EM structure of the Hfq-Crc-amiE translation repression assembly.

Dendooven, T., Luisi, B.F.

(2023) EMBO J 42: e111129-e111129

Released	2023-06-07
Method	ELECTRON MICROSCOPY 3.6 Å
Organisms	Pseudomonas aeruginosa
Macromolecule	Catabolite repression control protein (protein) RNA-binding protein Hfq (protein) amiE (nucleic acid)

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8BVJ \| pdb_00008bvj	Download File View File

Hfq-Crc-estA translation repression complex

Dendooven, T., Luisi, B.F.

(2023) EMBO J 42: e111129-e111129

Released	2023-01-25
Method	ELECTRON MICROSCOPY 4.5 Å
Organisms	Pseudomonas aeruginosa
Macromolecule	Catabolite repression control protein (protein) RNA-binding protein Hfq (protein) estA mRNA (nucleic acid)

1 to 25 of 37 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

5FT0 | pdb_00005ft0

5FT1 | pdb_00005ft1

6O1K | pdb_00006o1k

6O1L | pdb_00006o1l

6O1M | pdb_00006o1m

6TG6 | pdb_00006tg6

6TGJ | pdb_00006tgj

6TNN | pdb_00006tnn

6TPQ | pdb_00006tpq

7AU2 | pdb_00007au2

7AUA | pdb_00007aua

7OGK | pdb_00007ogk

7OGL | pdb_00007ogl

7OGM | pdb_00007ogm

7PB4 | pdb_00007pb4

7PB8 | pdb_00007pb8

7PII | pdb_00007pii

7PKN | pdb_00007pkn

7R5R | pdb_00007r5r

7R5S | pdb_00007r5s

7R5V | pdb_00007r5v

7YWX | pdb_00007ywx

7YYH | pdb_00007yyh

8BVH | pdb_00008bvh

8BVJ | pdb_00008bvj