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235,183 Structures from the PDB

1,068,577 Computed Structure Models (CSM)

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QUERY: Structure Keywords HAS EXACT PHRASE "CYTOSOLIC PROTEIN"

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Search Summary

This query matches 513 Structures.

Refinements

Structure Determination Methodology

experimental (513)

Scientific Name of Source Organism

	Homo sapiens (245)
	Mus musculus (28)
	Saccharomyces cerevisiae (23)
	Oryctolagus cuniculus (19)
	Streptomyces avidinii (18)
	Escherichia coli (17)
	Mycobacterium tuberculosis H37Rv (12)
	Gallus gallus (10)
	Vibrio harveyi (10)
	Bos taurus (8)

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Taxonomy

	Eukaryota (372)
	Bacteria (137)
	Archaea (5)
	other sequences (4)
	Duplodnaviria (1)

Experimental Method

	X-RAY DIFFRACTION (320)
	ELECTRON MICROSCOPY (185)
	SOLUTION NMR (8)

Polymer Entity Type

Protein (513)

Refinement Resolution (Å)

	1.0 - 1.5 (34)
	1.5 - 2.0 (115)
	2.0 - 2.5 (107)
	2.5 - 3.0 (99)
	3.0 - 3.5 (56)
	3.5 - 4.0 (56)
	4.0 - 4.5 (14)
	> 4.5 (24)

Release Date

	2005 - 2009 (1)
	2010 - 2014 (1)
	2015 - 2019 (70)
	2020 - 2024 (398)
	2025 - 2029 (43)

Enzyme Classification Name

	Hydrolases (169)
	Transferases (92)
	Oxidoreductases (69)
	Ligases (31)
	Lyases (31)
	Isomerases (12)

Membrane Protein Annotation

	mpstruc (4)
	OPM (1)

Symmetry Type

	Asymmetric (273)
	Cyclic (113)
	Dihedral (116)
	Helical (13)

SCOP Classification

	Alpha and beta proteins (a/b) (21)
	Alpha and beta proteins (a+b) (14)
	All beta proteins (12)
	All alpha proteins (4)
	Artifacts (4)
	Coiled coil proteins (2)
	Multi-domain proteins (alpha and beta) (3)

AllSelected

1 to 25 of 513 Structures

Page 1 of 21

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2VEC \| pdb_00002vec	Download File View File

The crystal structure of the protein YhaK from Escherichia coli

Gurmu, D., Lu, J., Johnson, K.A., Nordlund, P., Holmgren, A., Erlandsen, H.

(2008) Proteins 74: 18

Released	2008-07-01
Method	X-RAY DIFFRACTION 1.85 Å
Organisms	Escherichia coli
Macromolecule	PIRIN-LIKE PROTEIN YHAK (protein)
Unique Ligands	CL

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3TNU \| pdb_00003tnu	Download File View File

Heterocomplex of coil 2B domains of human intermediate filament proteins, keratin 5 (KRT5) and keratin 14 (KRT14)

Lee, C.H., Kim, M.S., Leahy, D.J., Coulombe, P.A.

(2012) Nat Struct Mol Biol 19: 707-715

Released	2012-06-20
Method	X-RAY DIFFRACTION 3.005 Å
Organisms	Homo sapiens
Macromolecule	Keratin, type I cytoskeletal 14 (protein) Keratin, type II cytoskeletal 5 (protein)

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5WC1 \| pdb_00005wc1	Download File View File

katanin AAA ATPase domain

Szyk, A., Roll-Mecak, A.

(2017) Nat Struct Mol Biol 24: 717-725

Released	2017-08-09
Method	X-RAY DIFFRACTION 3.3 Å
Organisms	Caenorhabditis elegans
Macromolecule	Meiotic spindle formation protein mei-1 (protein)
Unique Ligands	SO4

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5XEU \| pdb_00005xeu	Download File View File

crystal structure of Hcp2 from Salmonella typhimurium

Lin, Q.P., Gao, Z.Q., Zhang, H.

(2017) Acta Crystallogr F Struct Biol Commun 73: 463-468

Released	2017-08-16
Method	X-RAY DIFFRACTION 3 Å
Organisms	Salmonella enterica subsp. enterica serovar Typhimurium
Macromolecule	Hcp1 family type VI secretion system effector (protein)

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5YJJ \| pdb_00005yjj	Download File View File

Crystal structure of PNPase from Staphylococcus epidermidis

Raj, R., Gopal, B.

(2018) Biochem Biophys Res Commun 495: 2078-2084

Released	2018-01-31
Method	X-RAY DIFFRACTION 2.2 Å
Organisms	Staphylococcus epidermidis ATCC 12228
Macromolecule	Polyribonucleotide nucleotidyltransferase (protein)
Unique Ligands	MG, PO4

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5YU8 \| pdb_00005yu8	Download File View File

Cofilin decorated actin filament

Tanaka, K., Narita, A.

(2018) Nat Commun 9: 1860-1860

Released	2018-05-23
Method	ELECTRON MICROSCOPY 3.8 Å
Organisms	Gallus gallus
Macromolecule	Actin, alpha skeletal muscle (protein) Cofilin-2 (protein)
Unique Ligands	ADP, MG

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5YZ5 \| pdb_00005yz5	Download File View File

Crystal Structure of Human CRMP-2 with T509D-T514D-S518D-S522D mutations

Imasaki, T., Sumi, T., Aoki, M., Sakai, N., Nitta, E., Shirouzu, M., Nitta, R.

(2018) Cell Struct Funct 43: 15-23

Released	2018-03-21
Method	X-RAY DIFFRACTION 1.8 Å
Organisms	Homo sapiens
Macromolecule	Dihydropyrimidinase-related protein 2 (protein)
Unique Ligands	SO4

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5YZA \| pdb_00005yza	Download File View File

Crystal Structure of Human CRMP-2 with S522D mutation

Sumi, T., Imasaki, T., Aoki, M., Sakai, N., Nitta, E., Shirouzu, M., Nitta, R.

(2018) Cell Struct Funct 43: 15-23

Released	2018-03-21
Method	X-RAY DIFFRACTION 2.3 Å
Organisms	Homo sapiens
Macromolecule	Dihydropyrimidinase-related protein 2 (protein)

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5YZB \| pdb_00005yzb	Download File View File

Crystal Structure of Human CRMP-2 with S522D-T509D-T514D-S518D mutations crystallized with GSK3b

Imasaki, T., Sumi, T., Aoki, M., Sakai, N., Nitta, E., Shirouzu, M., Nitta, R.

(2018) Cell Struct Funct 43: 15-23

Released	2018-03-21
Method	X-RAY DIFFRACTION 2.8 Å
Organisms	Homo sapiens
Macromolecule	Dihydropyrimidinase-related protein 2 (protein)

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5ZD0 \| pdb_00005zd0	Download File View File

Solution structure of human ubiquitin with three alanine mutations in living eukaryotic cells by in-cell NMR spectroscopy

Tanaka, T., Ikeya, T., Kamoshida, H., Mishima, M., Shirakawa, M., Guentert, P., Ito, Y.

(2019) Angew Chem Int Ed Engl 58: 7284-7288

Released	2019-08-21
Method	SOLUTION NMR
Organisms	Homo sapiens
Macromolecule	ubiquitin (protein)

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5ZUE \| pdb_00005zue	Download File View File

GTP-bound, double-stranded, curved FtsZ protofilament structure

Guan, F., Yu, J., Yu, J., Liu, Y., Li, Y., Feng, X.H., Huang, K.C., Chang, Z., Ye, S.

(2018) Elife 7:

Released	2018-07-04
Method	X-RAY DIFFRACTION 2.7 Å
Organisms	Mycobacterium tuberculosis H37Rv
Macromolecule	Cell division protein FtsZ (protein)
Unique Ligands	GTP

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6BQW \| pdb_00006bqw	Download File View File

AlfA Filament bound to AMPPNP

Usluer, G.D., Kollman, J.M., DiMaio, F.

(2018) Proc Natl Acad Sci U S A 115: 3356-3361

Released	2018-02-28
Method	ELECTRON MICROSCOPY 4.2 Å
Organisms	Bacillus subtilis
Macromolecule	Bacterial actin AlfA (protein)
Unique Ligands	ANP

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6C5R \| pdb_00006c5r	Download File View File

Crystal structure of the soluble domain of the mitochondrial calcium uniporter

Fan, C., Fan, M., Fastman, N., Zhang, J., Feng, L.

(2018) Nature 559: 575-579

Released	2018-07-11
Method	X-RAY DIFFRACTION 3.09608311048 Å
Organisms	Metarhizium acridum CQMa 102
Macromolecule	calcium uniporter (protein)

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6DLO \| pdb_00006dlo	Download File View File

Crystal structure of LRRK2 WD40 domain dimer

Zhang, P., Ru, H., Wang, L., Wu, H.

(2019) Proc Natl Acad Sci U S A 116: 1579-1584

Released	2019-01-09
Method	X-RAY DIFFRACTION 2.7 Å
Organisms	Homo sapiens
Macromolecule	Leucine-rich repeat serine/threonine-protein kinase 2 (protein)

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6DLP \| pdb_00006dlp	Download File View File

Crystal structure of LRRK2 WD40 domain dimer

Zhang, P., Ru, H., Wang, L., Wu, H.

(2019) Proc Natl Acad Sci U S A 116: 1579-1584

Released	2019-01-09
Method	X-RAY DIFFRACTION 4 Å
Organisms	Homo sapiens
Macromolecule	Leucine-rich repeat serine/threonine-protein kinase 2 (protein)
Unique Ligands	PT

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6E0T \| pdb_00006e0t	Download File View File

C-terminal domain of Fission Yeast OFD1

Bianchet, M.A., Amzel, L.M., Espenshade, P.J., Yeh, T.

(2011) Structure 19: 503-514

Released	2019-09-11
Method	X-RAY DIFFRACTION 2.02 Å
Organisms	Schizosaccharomyces pombe 972h-
Macromolecule	Prolyl 3,4-dihydroxylase ofd1 (protein)

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6E50 \| pdb_00006e50	Download File View File

Crystal structure of the apo domain-swapped dimer Q108K:K40L:T51F mutant of human Cellular Retinol Binding Protein II

Ghanbarpour, A., Geiger, J.

(2019) J Am Chem Soc 141: 17125-17132

Released	2019-10-16
Method	X-RAY DIFFRACTION 1.965 Å
Organisms	Homo sapiens
Macromolecule	Retinol-binding protein 2 (protein)
Unique Ligands	ACT

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6EI6 \| pdb_00006ei6	Download File View File

CC2D1B coordinates ESRCT-III activity during the mitotic reformation of the nuclear envelope

Ventimiglia, L.N., Cuesta-Geijo, M.A., Martinelli, N., Caballe, A., Macheboeuf, P., Miguet, N., Parnham, I.M., Olmos, Y., Carlton, J.G., Weissehorn, W., martin-Serrano, J.

(2018) Dev Cell 47: 547-563.e6

Released	2018-10-10
Method	X-RAY DIFFRACTION 2.461 Å
Organisms	Drosophila melanogaster
Macromolecule	Coiled-coil and C2 domain-containing protein 1-like (protein)
Unique Ligands	PEG, SO4

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6EPJ \| pdb_00006epj	Download File View File

The ATAD2 bromodomain in complex with compound 6

Sledz, P., Caflisch, A.

(2020) ACS Med Chem Lett 11: 1573-1580

Released	2018-10-31
Method	X-RAY DIFFRACTION 1.652 Å
Organisms	Homo sapiens
Macromolecule	ATPase family AAA domain-containing protein 2 (protein)
Unique Ligands	BOH, SO4

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6EPR \| pdb_00006epr	Download File View File

The ATAD2 bromodomain in complex with compound UZH-DS15

Sledz, P., Caflisch, A.

To be published

Released	2018-10-31
Method	X-RAY DIFFRACTION 2.053 Å
Organisms	Homo sapiens
Macromolecule	ATPase family AAA domain-containing protein 2 (protein)
Unique Ligands	BQE, SO4

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6EPS \| pdb_00006eps	Download File View File

The ATAD2 bromodomain in complex with compound UZH-DQ41

Sledz, P., Caflisch, A.

To be published

Released	2018-10-31
Method	X-RAY DIFFRACTION 2.081 Å
Organisms	Homo sapiens
Macromolecule	ATPase family AAA domain-containing protein 2 (protein)
Unique Ligands	BQK, SO4

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6EPT \| pdb_00006ept	Download File View File

The ATAD2 bromodomain in complex with compound 12

Sledz, P., Caflisch, A.

(2020) ACS Med Chem Lett 11: 1573-1580

Released	2018-10-31
Method	X-RAY DIFFRACTION 1.65 Å
Organisms	Homo sapiens
Macromolecule	ATPase family AAA domain-containing protein 2 (protein)
Unique Ligands	BQQ, G1E, SO4

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6EPU \| pdb_00006epu	Download File View File

The ATAD2 bromodomain in complex with compound 2

Sledz, P., Caflisch, A.

(2020) ACS Med Chem Lett 11: 1573-1580

Released	2018-10-31
Method	X-RAY DIFFRACTION 1.8 Å
Organisms	Homo sapiens
Macromolecule	ATPase family AAA domain-containing protein 2 (protein)
Unique Ligands	BQH, SO4

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6EPV \| pdb_00006epv	Download File View File

The ATAD2 bromodomain in complex with compound 5

Sledz, P., Caflisch, A.

(2020) ACS Med Chem Lett 11: 1573-1580

Released	2018-10-31
Method	X-RAY DIFFRACTION 1.793 Å
Organisms	Homo sapiens
Macromolecule	ATPase family AAA domain-containing protein 2 (protein)
Unique Ligands	BQT, SO4

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6EPW \| pdb_00006epw	Download File View File

The ATAD2 bromodomain in complex with compound UZH-DU32

Sledz, P., Caflisch, A.

To be published

Released	2018-10-31
Method	X-RAY DIFFRACTION 1.924 Å
Organisms	Homo sapiens
Macromolecule	ATPase family AAA domain-containing protein 2 (protein)
Unique Ligands	BQ8, SO4

1 to 25 of 513 Structures

Page 1 of 21

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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

2VEC | pdb_00002vec

3TNU | pdb_00003tnu

5WC1 | pdb_00005wc1

5XEU | pdb_00005xeu

5YJJ | pdb_00005yjj

5YU8 | pdb_00005yu8

5YZ5 | pdb_00005yz5

5YZA | pdb_00005yza

5YZB | pdb_00005yzb

5ZD0 | pdb_00005zd0

5ZUE | pdb_00005zue

6BQW | pdb_00006bqw

6C5R | pdb_00006c5r

6DLO | pdb_00006dlo

6DLP | pdb_00006dlp

6E0T | pdb_00006e0t

6E50 | pdb_00006e50

6EI6 | pdb_00006ei6

6EPJ | pdb_00006epj

6EPR | pdb_00006epr

6EPS | pdb_00006eps

6EPT | pdb_00006ept

6EPU | pdb_00006epu

6EPV | pdb_00006epv

6EPW | pdb_00006epw