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233,605 Structures from the PDB

1,068,577 Computed Structure Models (CSM)

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QUERY: Citation Author = "Skaf, M.S."

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Search Summary

This query matches 66 Structures.

Refinements

Structure Determination Methodology

experimental (66)

Scientific Name of Source Organism

	Homo sapiens (13)
	Amycolatopsis mediterranei (7)
	uncultured bacterium (6)
	Bacillus licheniformis (5)
	Lentinula edodes (5)
	Piscinibacter sakaiensis (5)
	Amycolatopsis sp. ATCC 39116 (4)
	Aureobasidium namibiae CBS 147.97 (3)
	Blastomyces gilchristii (3)
	Cryptococcus neoformans (2)

More...

Taxonomy

	Bacteria (34)
	Eukaryota (32)

Experimental Method

X-RAY DIFFRACTION (66)

Polymer Entity Type

Protein (66)

Refinement Resolution (Å)

	0.5 - 1.0 (1)
	1.0 - 1.5 (7)
	1.5 - 2.0 (40)
	2.0 - 2.5 (11)
	2.5 - 3.0 (6)
	3.5 - 4.0 (1)

Release Date

	2005 - 2009 (4)
	2010 - 2014 (11)
	2015 - 2019 (16)
	2020 - 2024 (35)

Enzyme Classification Name

	Hydrolases (17)
	Transferases (2)

Membrane Protein Annotation

OPM (1)

Symmetry Type

	Asymmetric (65)
	Cyclic (3)

SCOP Classification

	All alpha proteins (16)
	Artifacts (13)
	All beta proteins (9)
	Alpha and beta proteins (a/b) (5)

AllSelected

1 to 25 of 66 Structures

Page 1 of 3

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2YOK \| pdb_00002yok	Download File View File

Cellobiohydrolase I Cel7A from Trichoderma harzianum at 1.7 A resolution

Textor, L.C., Colussi, F., Serpa, V., Squina, F.M., Pereira Jr, N., Polikarpov, I.

(2013) FEBS J 280: 56

Released	2012-11-14
Method	X-RAY DIFFRACTION 1.67 Å
Organisms	Trichoderma harzianum
Macromolecule	EXOGLUCANASE 1 (protein)
Unique Ligands	NAG, PE4, PEG

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3HZF \| pdb_00003hzf	Download File View File

Structure of TR-alfa bound to selective thyromimetic GC-1 in C2 space group

Aparicio, R., Bleicher, L., Polikarpov, I.

(2008) BMC Struct Biol 8: 8-8

Released	2009-07-21
Method	X-RAY DIFFRACTION 2.5 Å
Organisms	Homo sapiens
Macromolecule	Thyroid hormone receptor, alpha isoform 1 variant (protein)
Unique Ligands	B72

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3ILN \| pdb_00003iln	Download File View File

X-ray structure of the laminarinase from Rhodothermus marinus

Bleicher, L., Golubev, A., Rojas, A.L., Nascimento, A.S., Polikarpov, I.

(2011) J Phys Chem B 115: 7940-7949

Released	2010-08-18
Method	X-RAY DIFFRACTION 1.95 Å
Organisms	Rhodothermus marinus
Macromolecule	Laminarinase (protein)
Unique Ligands	CA, GOL

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3ILZ \| pdb_00003ilz	Download File View File

Structure of TR-alfa bound to selective thyromimetic GC-1 in P212121 space group

Aparicio, R., Polikarpov, L., Bleicher, L.

(2008) BMC Struct Biol 8: 8-8

Released	2010-04-28
Method	X-RAY DIFFRACTION 1.85 Å
Organisms	Homo sapiens
Macromolecule	Thyroid hormone receptor, alpha isoform 1 variant (protein)
Unique Ligands	B72

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3IMY \| pdb_00003imy	Download File View File

Structure of TR-beta bound to selective thyromimetic GC-1

Bleicher, L., Polikarpov, L., Aparicio, R.

(2008) BMC Struct Biol 8: 1-13

Released	2009-09-08
Method	X-RAY DIFFRACTION 2.55 Å
Organisms	Homo sapiens
Macromolecule	Thyroid hormone receptor beta (protein)
Unique Ligands	B72

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3JZB \| pdb_00003jzb	Download File View File

Crystal Structure of TR-alfa bound to the selective thyromimetic TRIAC

Nascimento, A.S., Dias, S.M.G., Nunes, F.M., Aparicio, R.

(2009) Proc Natl Acad Sci U S A 106: 20717-20722

Released	2009-12-08
Method	X-RAY DIFFRACTION 2.007 Å
Organisms	Homo sapiens
Macromolecule	THRA protein (protein)
Unique Ligands	4HY

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3JZC \| pdb_00003jzc	Download File View File

Crystal Structure of TR-beta bound to the selective thyromimetic TRIAC

Nascimento, A.S., Dias, S.G.M., Nunes, F.M., Aparicio, R.

(2009) Proc Natl Acad Sci U S A 106: 20717-20722

Released	2009-12-08
Method	X-RAY DIFFRACTION 2.5 Å
Organisms	Homo sapiens
Macromolecule	Thyroid hormone receptor beta (protein)
Unique Ligands	4HY

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3SZ1 \| pdb_00003sz1	Download File View File

Human PPAR gamma ligand binding domain in complex with luteolin and myristic acid

Puhl, A.C., Bernardes, A., Polikarpov, I.

(2012) Mol Pharmacol 81: 788-799

Released	2012-03-21
Method	X-RAY DIFFRACTION 2.3 Å
Organisms	Homo sapiens
Macromolecule	Peroxisome proliferator-activated receptor gamma (protein)
Unique Ligands	KNA, LU2, MYR

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3T03 \| pdb_00003t03	Download File View File

Crystal structure of PPAR gamma ligand binding domain in complex with a novel partial agonist GQ-16

Rajagopalan, S., Webb, P., Baxter, J.D., Brennan, R.G., Phillips, K.J.

(2012) J Biological Chem 287: 28169-28179

Released	2012-05-23
Method	X-RAY DIFFRACTION 2.1 Å
Organisms	Homo sapiens
Macromolecule	Nuclear receptor coactivator 1 (protein) Peroxisome proliferator-activated receptor gamma (protein)
Unique Ligands	3T0

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4BCR \| pdb_00004bcr	Download File View File

Structure of PPARalpha in complex with WY14643

Bernardes, A., Muniz, J.R.C., Polikarpov, I.

(2013) J Mol Biology 425: 2878

Released	2013-05-29
Method	X-RAY DIFFRACTION 2.497 Å
Organisms	Homo sapiens
Macromolecule	PEROXISOME PROLIFERATOR-ACTIVATED RECEPTOR ALPHA (protein)
Unique Ligands	EDO, WY1

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4EM9 \| pdb_00004em9	Download File View File

Human PPAR gamma in complex with nonanoic acids

Liberato, M.V., Nascimento, A.S., Polikarpov, I.

(2012) PLoS One 7: e36297-e36297

Released	2013-03-06
Method	X-RAY DIFFRACTION 2.1 Å
Organisms	Homo sapiens
Macromolecule	Peroxisome proliferator-activated receptor gamma (protein)
Unique Ligands	GOL, KNA, TCE

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4EMA \| pdb_00004ema	Download File View File

Human peroxisome proliferator-activated receptor gamma in complex with rosiglitazone

Liberato, M.V., Nascimento, A.S., Polikarpov, I.

(2012) PLoS One 7: e36297-e36297

Released	2013-03-06
Method	X-RAY DIFFRACTION 2.545 Å
Organisms	Homo sapiens
Macromolecule	Peroxisome proliferator-activated receptor gamma (protein)
Unique Ligands	BRL

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4H7M \| pdb_00004h7m	Download File View File

The X-ray Crystal Structure of the Trichoderma harzianum Endoglucanase 3 from family GH12

Liberato, M.V., Polikarpov, I.

(2013) PLoS One 8: e59069-e59069

Released	2013-04-03
Method	X-RAY DIFFRACTION 2.068 Å
Organisms	Trichoderma harzianum
Macromolecule	Endo-1,4-beta-glucanase (protein)

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4LNW \| pdb_00004lnw	Download File View File

Crystal structure of TR-alpha bound to T3 in a second site

Puhl, A.C., Aparicio, R., Polikarpov, I.

(2014) Mol Endocrinol 28: 534-545

Released	2014-03-19
Method	X-RAY DIFFRACTION 1.9 Å
Organisms	Homo sapiens
Macromolecule	Thyroid hormone receptor alpha (protein)
Unique Ligands	T3

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4LNX \| pdb_00004lnx	Download File View File

Crystal structure of TR-alpha bound to T4 in a second site

Puhl, A.C., Aparicio, R., Polikarpov, I.

(2014) Mol Endocrinol 28: 534-545

Released	2014-03-19
Method	X-RAY DIFFRACTION 2.05 Å
Organisms	Homo sapiens
Macromolecule	Thyroid hormone receptor alpha (protein)
Unique Ligands	T3, T44

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4TUF \| pdb_00004tuf	Download File View File

Catalytic domain of the major endoglucanase from Xanthomonas campestris pv. campestris

Puhl, A.C., Rosseto, F.R., Polikarpov, I.

To be published

Released	2015-10-14
Method	X-RAY DIFFRACTION 2.7 Å
Organisms	Xanthomonas campestris pv. campestris str. ATCC 33913
Macromolecule	Major extracellular endoglucanase (protein)
Unique Ligands	2HP

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4YZP \| pdb_00004yzp	Download File View File

Crystal structure of a tri-modular GH5 (subfamily 4) endo-beta-1, 4-glucanase from Bacillus licheniformis

Liberato, M.V., Popov, A., Polikarpov, I.

(2016) Sci Rep 6: 23473-23473

Released	2016-09-07
Method	X-RAY DIFFRACTION 1.7 Å
Organisms	Bacillus licheniformis
Macromolecule	Cellulose hydrolase (protein)

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4YZT \| pdb_00004yzt	Download File View File

Crystal structure of a tri-modular GH5 (subfamily 4) endo-beta-1, 4-glucanase from Bacillus licheniformis complexed with cellotetraose

Liberato, M.V., Popov, A., Polikarpov, I.

(2016) Sci Rep 6: 23473-23473

Released	2016-09-07
Method	X-RAY DIFFRACTION 1.665 Å
Organisms	Bacillus licheniformis
Macromolecule	Cellulose hydrolase (protein)
Unique Ligands	EDO
Unique branched monosaccharides	BGC

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5KJQ \| pdb_00005kjq	Download File View File

X-ray structure of PcCel45A in complex with cellobiose expressed in Aspergillus nidullans

Godoy, A.S., Ramia, M.P., Camilo, C.M., Polikarpov, I.

(2018) Sci Rep 8: 3678-3678

Released	2017-06-21
Method	X-RAY DIFFRACTION 1.704 Å
Organisms	Phanerodontia chrysosporium
Macromolecule	Endoglucanase V-like protein (protein)
Unique Ligands	SO4
Unique branched monosaccharides	BGC

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5NCB \| pdb_00005ncb	Download File View File

Crystal structure of Amycolatopsis cytochrome P450 GcoA in complex with guaiacol.

Mallinson, S.J.B., Johnson, C.W., Neidle, E.L., Beckham, G.T., McGeehan, J.E.

(2018) Nat Commun 9: 2487-2487

Released	2018-07-04
Method	X-RAY DIFFRACTION 1.44 Å
Organisms	Amycolatopsis sp. ATCC 39116
Macromolecule	Cytochrome P450 (protein)
Unique Ligands	HEM, JZ3

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5OGX \| pdb_00005ogx	Download File View File

Crystal structure of Amycolatopsis cytochrome P450 reductase GcoB.

Mallinson, S.J.B., Johnson, C.W., Neidle, E.L., Beckham, G.T., McGeehan, J.E.

(2018) Nat Commun 9: 2487-2487

Released	2018-07-04
Method	X-RAY DIFFRACTION 1.72 Å
Organisms	Amycolatopsis methanolica 239
Macromolecule	Cytochrome P450 reductase (protein)
Unique Ligands	BR, FAD, FES, NA