RCSB PDB: Search

Warning You are using a web browser that we do not support. Our website will not work properly. Please update to a newer version or download a new web browser, such as Chrome or Firefox.

Help

Help

RCSB PDB

Deposit
- PDBx/mmCIF file
- pdb_extract
- SF-Tool
- Ligand Expo
- MAXIT
- Validation Server
- Validation API
- Information for Journals
- Validation Task Forces
- wwPDB OneDep System
- PDB-IHM
Search
Visualize
Analyze
Download
Learn
- Training Courses
- Guide to PDB Data
- Molecule of the Month
- Educational Resources
- Curricula
- Browse
- News
- SciArt Galleries
- Irving Geis
- David Goodsell
About
Careers
COVID-19

232,059 Structures from the PDB

1,068,577 Computed Structure Models (CSM)

	Include CSM
Advanced Search \| Browse Annotations		Help

Search
Query History
Browse Annotations
MyPDB

QUERY: Structure Author = "Pagala, V."

MyPDB Login

Search API

Advanced Search Query Builder

Help

Full Text

Structure Attributes

Help

NOT

Count

Add Subquery

Chemical Attributes

Sequence Similarity

Sequence Motif

Structure Similarity

Structure Motif

Chemical Similarity

Return

grouped by

Include Computed Structure Models (CSM)

Count

Clear

Search Summary

This query matches 281 Structures.

Refinements

Structure Determination Methodology

experimental (281)

Scientific Name of Source Organism

	Homo sapiens (209)
	Mus musculus (16)
	Pieris rapae (5)
	Agrobacterium sp. (4)
	Bifidobacterium bifidum (4)
	Arabidopsis thaliana (3)
	Aspergillus aculeatus (3)
	Bifidobacterium longum subsp. longum JCM 1217 (3)
	Escherichia coli (3)
	Bifidobacterium longum subsp. infantis ATCC 15697 = JCM 1222 = DSM 20088 (2)

More...

Taxonomy

	Eukaryota (251)
	Bacteria (30)
	Eukaryota (eukaryotes) (2)

Experimental Method

	SOLUTION NMR (195)
	X-RAY DIFFRACTION (85)
	ELECTRON MICROSCOPY (1)

Polymer Entity Type

	Protein (281)
	DNA (1)

Refinement Resolution (Å)

	0.5 - 1.0 (2)
	1.0 - 1.5 (6)
	1.5 - 2.0 (25)
	2.0 - 2.5 (30)
	2.5 - 3.0 (19)
	3.0 - 3.5 (4)

Release Date

	1990 - 1994 (2)
	1995 - 1999 (5)
	2000 - 2004 (21)
	2005 - 2009 (201)
	2010 - 2014 (29)
	2015 - 2019 (13)
	2020 - 2024 (10)

Enzyme Classification Name

	Hydrolases (42)
	Transferases (35)
	Oxidoreductases (5)
	Ligases (4)
	Isomerases (3)
	Lyases (2)

Membrane Protein Annotation

OPM (2)

Symmetry Type

	Asymmetric (244)
	Cyclic (26)
	Dihedral (11)
	Helical (1)

SCOP Classification

	Artifacts (132)
	Small proteins (76)
	All beta proteins (48)
	All alpha proteins (29)
	Alpha and beta proteins (a+b) (27)
	Alpha and beta proteins (a/b) (7)
	Multi-domain proteins (alpha and beta) (1)

AllSelected

1 to 25 of 281 Structures

Page 1 of 12

Sort by

Explore in 3D

1A3G	Download File View File

BRANCHED-CHAIN AMINO ACID AMINOTRANSFERASE FROM ESCHERICHIA COLI

Okada, K., Hirotsu, K., Sato, M., Hayashi, H., Kagamiyama, H.

(1997) J Biochem 121: 637-641

Released	1998-05-27
Method	X-RAY DIFFRACTION 2.5 Å
Organisms	Escherichia coli
Macromolecule	BRANCHED-CHAIN AMINO ACID AMINOTRANSFERASE (protein)
Unique Ligands	PLP

Explore in 3D

1AUG	Download File View File

CRYSTAL STRUCTURE OF THE PYROGLUTAMYL PEPTIDASE I FROM BACILLUS AMYLOLIQUEFACIENS

Odagaki, Y., Hayashi, A., Okada, K., Hirotsu, K., Kabashima, T., Ito, K., Yoshimoto, T., Tsuru, D., Sato, M., Clardy, J.

(1999) Structure 7: 399-411

Released	1999-03-23
Method	X-RAY DIFFRACTION 2 Å
Organisms	Bacillus amyloliquefaciens
Macromolecule	PYROGLUTAMYL PEPTIDASE-1 (protein)

Explore in 3D

1BDC	Download File View File

STAPHYLOCOCCUS AUREUS PROTEIN A, IMMUNOGLOBULIN-BINDING B DOMAIN, NMR, 10 STRUCTURES

Gouda, H., Torigoe, H., Saito, A., Sato, M., Arata, Y., Shimada, I.

(1992) Biochemistry 31: 9665-9672

Released	1997-01-11
Method	SOLUTION NMR
Organisms	Staphylococcus aureus
Macromolecule	STAPHYLOCOCCUS AUREUS PROTEIN A (protein)

Explore in 3D

1BDD	Download File View File

STAPHYLOCOCCUS AUREUS PROTEIN A, IMMUNOGLOBULIN-BINDING B DOMAIN, NMR, MINIMIZED AVERAGE STRUCTURE

Gouda, H., Torigoe, H., Saito, A., Sato, M., Arata, Y., Shimada, I.

(1992) Biochemistry 31: 9665-9672

Released	1997-01-11
Method	SOLUTION NMR
Organisms	Staphylococcus aureus
Macromolecule	STAPHYLOCOCCUS AUREUS PROTEIN A (protein)

Explore in 3D

1BTC	Download File View File

THREE-DIMENSIONAL STRUCTURE OF SOYBEAN BETA-AMYLASE DETERMINED AT 3.0 ANGSTROMS RESOLUTION: PRELIMINARY CHAIN TRACING OF THE COMPLEX WITH ALPHA-CYCLODEXTRIN

Mikami, B., Hehre, E.J., Sato, M., Katsube, Y., Hirose, M., Morita, Y., Sacchettini, J.C.

(1993) Biochemistry 32: 6836-6845

Released	1993-10-31
Method	X-RAY DIFFRACTION 2 Å
Organisms	Glycine max
Macromolecule	BETA-AMYLASE (protein)
Unique Ligands	BME, SO4
Unique branched monosaccharides	GLC

Explore in 3D

1ERZ	Download File View File

CRYSTAL STRUCTURE OF N-CARBAMYL-D-AMINO ACID AMIDOHYDROLASE WITH A NOVEL CATALYTIC FRAMEWORK COMMON TO AMIDOHYDROLASES

Nakai, T., Hasegawa, T., Yamashita, E., Yamamoto, M., Kumasaka, T., Ueki, T., Nanba, H., Ikenaka, Y., Takahashi, S., Sato, M., Tsukihara, T.

(2000) Structure 8: 729-737

Released	2001-04-06
Method	X-RAY DIFFRACTION 1.7 Å
Organisms	Agrobacterium sp. KNK712
Macromolecule	N-CARBAMYL-D-AMINO ACID AMIDOHYDROLASE (protein)

Explore in 3D

1IDM	Download File View File

3-ISOPROPYLMALATE DEHYDROGENASE, LOOP-DELETED CHIMERA

Sakurai, M., Ohzeki, M., Moriyama, H., Sato, M., Tanaka, N.

(1996) Acta Crystallogr D Biol Crystallogr 52: 124-128

Released	1995-09-15
Method	X-RAY DIFFRACTION 2.2 Å
Organisms	Thermus thermophilus HB8
Macromolecule	3-ISOPROPYLMALATE DEHYDROGENASE (protein)

Explore in 3D

1IOO	Download File View File

CRYSTAL STRUCTURE OF NICOTIANA ALATA GEMETOPHYTIC SELF-INCOMPATIBILITY ASSOCIATED SF11-RNASE

Ida, K., Sato, M., Sakiyama, F., Norioka, S., Yamamoto, M., Kumasaka, T., Yamashita, E.

(2001) J Mol Biol 314: 103-112

Released	2002-05-08
Method	X-RAY DIFFRACTION 1.55 Å
Organisms	Nicotiana alata
Macromolecule	SF11-RNASE (protein)
Unique branched monosaccharides	BMA, MAN, NAG, XYP

Explore in 3D

1IPD	Download File View File

THREE-DIMENSIONAL STRUCTURE OF A HIGHLY THERMOSTABLE ENZYME, 3-ISOPROPYLMALATE DEHYDROGENASE OF THERMUS THERMOPHILUS AT 2.2 ANGSTROMS RESOLUTION

Imada, K., Sato, M., Tanaka, N., Katsube, Y., Matsuura, Y., Oshima, T.

(1991) J Mol Biol 222: 725-738

Released	1993-10-31
Method	X-RAY DIFFRACTION 2.2 Å
Organisms	Thermus thermophilus
Macromolecule	3-ISOPROPYLMALATE DEHYDROGENASE (protein)
Unique Ligands	SO4

Explore in 3D

1UF4	Download File View File

Crystal structure of C171A/V236A Mutant of N-carbamyl-D-amino acid amidohydrolase

Hashimoto, H., Aoki, M., Shimizu, T., Nakai, T., Morikawa, H., Ikenaka, Y., Takahashi, S., Sato, M.

To be published

Released	2004-06-08
Method	X-RAY DIFFRACTION 2.15 Å
Organisms	Agrobacterium sp.
Macromolecule	N-carbamyl-D-amino acid amidohydrolase (protein)

Explore in 3D

1UF5	Download File View File

Crystal structure of C171A/V236A Mutant of N-carbamyl-D-amino acid amidohydrolase complexed with N-carbamyl-D-methionine

Hashimoto, H., Aoki, M., Shimizu, T., Nakai, T., Morikawa, H., Ikenaka, Y., Takahashi, S., Sato, M.

To be published

Released	2004-06-08
Method	X-RAY DIFFRACTION 1.6 Å
Organisms	Agrobacterium sp.
Macromolecule	N-carbamyl-D-amino acid amidohydrolase (protein)
Unique Ligands	CDT, EDO

Explore in 3D

1UF7	Download File View File

Crystal structure of C171A/V236A Mutant of N-carbamyl-D-amino acid amidohydrolase complexed with N-carbamyl-D-valine

Hashimoto, H., Aoki, M., Shimizu, T., Nakai, T., Morikawa, H., Ikenaka, Y., Takahashi, S., Sato, M.

To be published

Released	2004-06-08
Method	X-RAY DIFFRACTION 1.9 Å
Organisms	Agrobacterium sp.
Macromolecule	N-carbamyl-D-amino acid amidohydrolase (protein)
Unique Ligands	CDV

Explore in 3D

1UF8	Download File View File

Crystal structure of C171A/V236A Mutant of N-carbamyl-D-amino acid amidohydrolase complexed with N-carbamyl-D-Phenylalanine

Hashimoto, H., Aoki, M., Shimizu, T., Nakai, T., Morikawa, H., Ikenaka, Y., Takahashi, S., Sato, M.

To be published

Released	2004-06-08
Method	X-RAY DIFFRACTION 1.8 Å
Organisms	Agrobacterium sp.
Macromolecule	N-carbamyl-D-amino acid amidohydrolase (protein)
Unique Ligands	ING

Explore in 3D

1UHN	Download File View File

The crystal structure of the calcium binding protein AtCBL2 from Arabidopsis thaliana

Nagae, M., Nozawa, A., Koizumi, N., Sano, H., Hashimoto, H., Sato, M., Shimizu, T.

(2003) J Biol Chem 278: 42240-42246

Released	2003-11-04
Method	X-RAY DIFFRACTION 2.1 Å
Organisms	Arabidopsis thaliana
Macromolecule	calcineurin B-like protein 2 (protein)
Unique Ligands	CA

Explore in 3D

1V5Q	Download File View File

Solution Structure of the PDZ Domain from Mouse Glutamate Receptor Interacting Protein 1A-L (GRIP1) Homolog

Sato, M., Tochio, N., Koshiba, S., Inoue, M., Kigawa, T., Yokoyama, S., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

To be published

Released	2004-05-25
Method	SOLUTION NMR
Organisms	Mus musculus
Macromolecule	Glutamate Receptor Interacting Protein 1A-L Homolog (protein)

Explore in 3D

1V63	Download File View File

Solution structure of the 6th HMG box of mouse UBF1

Sato, M., Saito, K., Koshiba, S., Inoue, M., Kigawa, T., Yokoyama, S., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

To be published

Released	2004-05-27
Method	SOLUTION NMR
Organisms	Mus musculus
Macromolecule	Nucleolar transcription factor 1 (protein)

Explore in 3D

1WD8	Download File View File

Calcium free form of human peptidylarginine deiminase type4 (PAD4)

Arita, K., Hashimoto, H., Shimizu, T., Nakashima, K., Yamada, M., Sato, M.

(2004) Nat Struct Mol Biol 11: 777-783

Released	2004-07-13
Method	X-RAY DIFFRACTION 2.8 Å
Organisms	Homo sapiens
Macromolecule	Protein-arginine deiminase type IV (protein)

Explore in 3D

1WD9	Download File View File

Calcium bound form of human peptidylarginine deiminase type4 (PAD4)

Arita, K., Hashimoto, H., Shimizu, T., Nakashima, K., Yamada, M., Sato, M.

(2004) Nat Struct Mol Biol 11: 777-783

Released	2004-07-13
Method	X-RAY DIFFRACTION 2.6 Å
Organisms	Homo sapiens
Macromolecule	Protein-arginine deiminase type IV (protein)
Unique Ligands	CA, SO4

Explore in 3D

1WDA	Download File View File

Crystal structure of human peptidylarginine deiminase type4 (PAD4) in complex with benzoyl-L-arginine amide

Arita, K., Hashimoto, H., Shimizu, T., Nakashima, K., Yamada, M., Sato, M.

(2004) Nat Struct Mol Biol 11: 777-783

Released	2004-07-13
Method	X-RAY DIFFRACTION 2.3 Å
Organisms	Homo sapiens
Macromolecule	Protein-arginine deiminase type IV (protein)
Unique Ligands	BAG, CA, SO4