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233,605 Structures from the PDB

1,068,577 Computed Structure Models (CSM)

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QUERY: Chemical ID(s) = GDP

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Search Summary

This query matches 2,199 Structures.

Refinements

Structure Determination Methodology

experimental (2,199)

Scientific Name of Source Organism

	Homo sapiens (877)
	Rattus norvegicus (343)
	Bos taurus (297)
	Gallus gallus (271)
	Sus scrofa (204)
	Mus musculus (124)
	synthetic construct (101)
	Escherichia coli (78)
	Saccharomyces cerevisiae (66)
	Escherichia coli K-12 (53)

More...

Taxonomy

	Eukaryota (1,653)
	Bacteria (469)
	other sequences (102)
	Archaea (77)
	Riboviria (25)
	Duplodnaviria (16)
	Varidnaviria (6)
	Eukaryota (eukaryotes) (4)
	unclassified bacterial viruses (2)

Experimental Method

	X-RAY DIFFRACTION (1,659)
	ELECTRON MICROSCOPY (521)
	SOLUTION NMR (15)
	ELECTRON CRYSTALLOGRAPHY (4)

Polymer Entity Type

	Protein (2,173)
	RNA (210)
	DNA (15)

Refinement Resolution (Å)

	1.0 - 1.5 (136)
	1.5 - 2.0 (432)
	2.0 - 2.5 (578)
	2.5 - 3.0 (467)
	3.0 - 3.5 (244)
	3.5 - 4.0 (161)
	4.0 - 4.5 (64)
	> 4.5 (102)

Release Date

	1985 - 1989 (2)
	1990 - 1994 (7)
	1995 - 1999 (56)
	2000 - 2004 (96)
	2005 - 2009 (234)
	2010 - 2014 (326)
	2015 - 2019 (506)
	2020 - 2024 (900)
	2025 - 2029 (72)

Enzyme Classification Name

	Hydrolases (1,393)
	Transferases (229)
	Oxidoreductases (55)
	Ligases (75)
	Lyases (38)
	Isomerases (29)

Membrane Protein Annotation

	PDBTM (24)
	mpstruc (18)
	OPM (27)
	MemProtMD (9)

Symmetry Type

	Asymmetric (1,798)
	Cyclic (331)
	Dihedral (56)
	Helical (44)

SCOP Classification

	Alpha and beta proteins (a/b) (844)
	Alpha and beta proteins (a+b) (330)
	Artifacts (343)
	All alpha proteins (284)
	All beta proteins (89)
	Small proteins (12)
	Low resolution protein structures (5)
	Coiled coil proteins (3)
	Peptides (2)
	Multi-domain proteins (alpha and beta) (4)

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AllSelected

1 to 25 of 2,199 Structures

Page 1 of 88

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1A4R \| pdb_00001a4r	Download File View File

G12V MUTANT OF HUMAN PLACENTAL CDC42 GTPASE IN THE GDP FORM

Rudolph, M.G., Vetter, I.R., Wittinghofer, A.

(1999) Protein Sci 8: 778-787

Released	1999-03-02
Method	X-RAY DIFFRACTION 2.5 Å
Organisms	Homo sapiens
Macromolecule	G25K GTP-BINDING PROTEIN (protein)
Unique Ligands	GDP, GNH, MG

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1AA9 \| pdb_00001aa9	Download File View File

HUMAN C-HA-RAS(1-171)(DOT)GDP, NMR, MINIMIZED AVERAGE STRUCTURE

Ito, Y., Yamasaki, Y., Muto, Y., Kawai, G., Nishimura, S., Miyazawa, T., Yokoyama, S., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

(1997) Biochemistry 36: 9109-9119

Released	1997-07-29
Method	SOLUTION NMR
Organisms	Homo sapiens
Macromolecule	C-HA-RAS (protein)
Unique Ligands	GDP, MG

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1AGR \| pdb_00001agr	Download File View File

COMPLEX OF ALF4-ACTIVATED GI-ALPHA-1 WITH RGS4

Tesmer, J.J.G., Sprang, S.R.

(1997) Cell 89: 251-261

Released	1997-06-16
Method	X-RAY DIFFRACTION 2.8 Å
Organisms	Rattus norvegicus
Macromolecule	GUANINE NUCLEOTIDE-BINDING PROTEIN G(I) (protein) RGS4 (protein)
Unique Ligands	ALF, CIT, GDP, MG

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1AN0 \| pdb_00001an0	Download File View File

CDC42HS-GDP COMPLEX

Kongsaeree, P., Cerione, R., Clardy, J.

To be published

Released	1999-01-13
Method	X-RAY DIFFRACTION 2.8 Å
Organisms	Homo sapiens
Macromolecule	CDC42HS-GDP (protein)
Unique Ligands	GDP, MG

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1AS2 \| pdb_00001as2	Download File View File

GDP+PI BOUND G42V GIA1

Raw, A.S., Coleman, D.E., Gilman, A.G., Sprang, S.R.

(1997) Biochemistry 36: 15660-15669

Released	1997-11-12
Method	X-RAY DIFFRACTION 2.8 Å
Organisms	Rattus norvegicus
Macromolecule	GIA1 (protein)
Unique Ligands	GDP, PO4

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1AS3 \| pdb_00001as3	Download File View File

GDP BOUND G42V GIA1

Raw, A.S., Coleman, D.E., Gilman, A.G., Sprang, S.R.

(1997) Biochemistry 36: 15660-15669

Released	1997-11-12
Method	X-RAY DIFFRACTION 2.4 Å
Organisms	Rattus norvegicus
Macromolecule	GIA1 (protein)
Unique Ligands	GDP, SO4

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1BHN \| pdb_00001bhn	Download File View File

NUCLEOSIDE DIPHOSPHATE KINASE ISOFORM A FROM BOVINE RETINA

Ladner, J.E., Abdulaev, N.G., Kakuev, D.L., Karaschuk, G.N., Tordova, M., Eisenstein, E., Fujiwara, J.H., Ridge, K.D., Gilliland, G.L.

(1999) Acta Crystallogr D Biol Crystallogr 55: 1127-1135

Released	1999-02-16
Method	X-RAY DIFFRACTION 2.4 Å
Organisms	Bos taurus
Macromolecule	NUCLEOSIDE DIPHOSPHATE TRANSFERASE (protein)
Unique Ligands	35G, GDP

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1BOF \| pdb_00001bof	Download File View File

GI-ALPHA-1 BOUND TO GDP AND MAGNESIUM

Coleman, D.E., Sprang, S.R.

(1998) Biochemistry 37: 14376-14385

Released	1999-01-06
Method	X-RAY DIFFRACTION 2.2 Å
Organisms	Rattus norvegicus
Macromolecule	GI ALPHA 1 (protein)
Unique Ligands	GDP, MG, SO4

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1BYU \| pdb_00001byu	Download File View File

CANINE GDP-RAN

Stewart, M., Kent, H.M., Mccoy, A.J.

(1998) J Mol Biology 284: 1517-1527

Released	1998-12-02
Method	X-RAY DIFFRACTION 2.15 Å
Organisms	Canis lupus familiaris
Macromolecule	PROTEIN (GTP-BINDING PROTEIN RAN) (protein)
Unique Ligands	GDP, MG

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1CC0 \| pdb_00001cc0	Download File View File

CRYSTAL STRUCTURE OF THE RHOA.GDP-RHOGDI COMPLEX

Longenecker, K.L., Read, P., Derewenda, U., Dauter, Z., Garrard, S., Walker, L., Somlyo, A.V., Somlyo, A.P., Nakamoto, R.K., Derewenda, Z.S.

(1999) Acta Crystallogr D Biol Crystallogr 55: 1503-1515

Released	2000-01-07
Method	X-RAY DIFFRACTION 5 Å
Organisms	Homo sapiens
Macromolecule	rho GDP dissociation inhibitor alpha (protein) transforming protein rhoA (protein)
Unique Ligands	GDP, MG

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1CG0 \| pdb_00001cg0	Download File View File

STRUCTURE OF ADENYLOSUCCINATE SYNTHETASE FROM E. COLI COMPLEXED WITH HADACIDIN, GDP, 6-PHOSPHORYL-IMP, AND MG2+

Choe, J.Y., Poland, B.W., Fromm, H., Honzatko, R.

(1999) Biochemistry 38: 6953-6961

Released	1999-06-17
Method	X-RAY DIFFRACTION 2.5 Å
Organisms	Escherichia coli K-12
Macromolecule	PROTEIN (ADENYLOSUCCINATE SYNTHETASE) (protein)
Unique Ligands	GDP, HDA, IMO, MG

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1CG1 \| pdb_00001cg1	Download File View File

STRUCTURE OF THE MUTANT (K16Q) OF ADENYLOSUCCINATE SYNTHETASE FROM E. COLI COMPLEXED WITH HADACIDIN, GDP, 6-PHOSPHORYL-IMP, AND MG2+

Choe, J.Y., Poland, B.W., Fromm, H., Honzatko, R.

(1999) Biochemistry 38: 6953-6961

Released	1999-06-17
Method	X-RAY DIFFRACTION 2.5 Å
Organisms	Escherichia coli K-12
Macromolecule	PROTEIN (ADENYLOSUCCINATE SYNTHETASE) (protein)
Unique Ligands	GDP, HDA, IMO, MG

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1CG3 \| pdb_00001cg3	Download File View File

STRUCTURE OF THE MUTANT (R143L) OF ADENYLOSUCCINATE SYNTHETASE FROM E. COLI COMPLEXED WITH HADACIDIN, GDP, 6-PHOSPHORYL-IMP, AND MG2+

Choe, J.Y., Poland, B.W., Fromm, H., Honzatko, R.

(1999) Biochemistry 38: 6953-6961

Released	1999-06-17
Method	X-RAY DIFFRACTION 2.5 Å
Organisms	Escherichia coli K-12
Macromolecule	PROTEIN (ADENYLOSUCCINATE SYNTHETASE) (protein)
Unique Ligands	GDP, HDA, IMO, MG

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1CG4 \| pdb_00001cg4	Download File View File

STRUCTURE OF THE MUTANT (R303L) OF ADENYLOSUCCINATE SYNTHETASE FROM E. COLI COMPLEXED WITH, GDP, 6-PHOSPHORYL-IMP, AND MG2+

Choe, J.Y., Poland, B.W., Fromm, H., Honzatko, R.

(1999) Biochemistry 38: 6953-6961

Released	1999-06-17
Method	X-RAY DIFFRACTION 2.5 Å
Organisms	Escherichia coli K-12
Macromolecule	PROTEIN (ADENYLOSUCCINATE SYNTHETASE) (protein)
Unique Ligands	GDP, IMO, MG

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1CIB \| pdb_00001cib	Download File View File

STRUCTURE OF ADENYLOSUCCINATE SYNTHETASE FROM E. COLI COMPLEXED WITH GDP, IMP, HADACIDIN, AND NO3

Hou, Z., Cashel, M., Fromm, H.J., Honzatko, R.B.

(1999) J Biological Chem 274: 17505-17510

Released	2000-04-05
Method	X-RAY DIFFRACTION 2.3 Å
Organisms	Escherichia coli K-12
Macromolecule	ADENYLOSUCCINATE SYNTHETASE (protein)
Unique Ligands	GDP, HDA, IMP, MG, NO3

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1CLQ \| pdb_00001clq	Download File View File

CRYSTAL STRUCTURE OF A REPLICATION FORK DNA POLYMERASE EDITING COMPLEX AT 2.7 A RESOLUTION

Shamoo, Y., Steitz, T.A.

(1999) Cell 99: 155-166

Released	1999-10-28
Method	X-RAY DIFFRACTION 2.7 Å
Organisms	Escherichia phage RB69
Macromolecule	PROTEIN (DNA POLYMERASE) (protein) DNA (5'-D(APGPTPAPGPTPTPCPCPGPCPG)-3') (nucleic acid) DNA (5'-D(GPCPGPGPAPAPCPTPAPCP*T)-3') (nucleic acid)
Unique Ligands	CA, GDP

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1CRP \| pdb_00001crp	Download File View File

THE SOLUTION STRUCTURE AND DYNAMICS OF RAS P21. GDP DETERMINED BY HETERONUCLEAR THREE AND FOUR DIMENSIONAL NMR SPECTROSCOPY

Kraulis, P.J., Domaille, P.J., Campbell-Burk, S.L., Van Aken, T., Laue, E.D.

(1994) Biochemistry 33: 3515-3531

Released	1994-07-31
Method	SOLUTION NMR
Organisms	Homo sapiens
Macromolecule	C-H-RAS P21 PROTEIN (protein)
Unique Ligands	GDP, MG

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1CRQ \| pdb_00001crq	Download File View File

THE SOLUTION STRUCTURE AND DYNAMICS OF RAS P21. GDP DETERMINED BY HETERONUCLEAR THREE AND FOUR DIMENSIONAL NMR SPECTROSCOPY

Kraulis, P.J., Domaille, P.J., Campbell-Burk, S.L., Van Aken, T., Laue, E.D.

(1994) Biochemistry 33: 3515-3531

Released	1994-07-31
Method	SOLUTION NMR
Organisms	Homo sapiens
Macromolecule	C-H-RAS P21 PROTEIN (protein)
Unique Ligands	GDP, MG

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1CRR \| pdb_00001crr	Download File View File

THE SOLUTION STRUCTURE AND DYNAMICS OF RAS P21. GDP DETERMINED BY HETERONUCLEAR THREE AND FOUR DIMENSIONAL NMR SPECTROSCOPY

Kraulis, P.J., Domaille, P.J., Campbell-Burk, S.L., Van Aken, T., Laue, E.D.

(1994) Biochemistry 33: 3515-3531

Released	1994-07-31
Method	SOLUTION NMR
Organisms	Homo sapiens
Macromolecule	C-H-RAS P21 PROTEIN (protein)
Unique Ligands	GDP, MG

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1D2E \| pdb_00001d2e	Download File View File

CRYSTAL STRUCTURE OF MITOCHONDRIAL EF-TU IN COMPLEX WITH GDP

Andersen, G.R., Thirup, S., Spremulli, L.L., Nyborg, J.

(2000) J Mol Biology 297: 421-436

Released	1999-09-28
Method	X-RAY DIFFRACTION 1.94 Å
Organisms	Bos taurus
Macromolecule	ELONGATION FACTOR TU (EF-TU) (protein)
Unique Ligands	GDP, MG

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1D4R \| pdb_00001d4r	Download File View File

29-mer fragment of human srp rna helix 6

Wild, K., Weichenrieder, O., Leonard, G.A., Cusack, S.

(1999) Structure 7: 1345-1352

Released	1999-12-02
Method	X-RAY DIFFRACTION 2 Å
Macromolecule	29-MER OF MODIFIED SRP RNA HELIX 6 (nucleic acid)
Unique Ligands	MG

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1D5C \| pdb_00001d5c	Download File View File

CRYSTAL STRUCTURE OF PLASMODIUM FALCIPARUM RAB6 COMPLEXED WITH GDP

Chattopadhyay, D., Langsley, G., Carson, M., Recacha, R., DeLucas, L., Smith, C.

(2000) Acta Crystallogr D Biol Crystallogr 56: 937-944

Released	2000-08-30
Method	X-RAY DIFFRACTION 2.3 Å
Organisms	Plasmodium falciparum
Macromolecule	RAB6 GTPASE (protein)
Unique Ligands	GDP, MG

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1D8T \| pdb_00001d8t	Download File View File

CRYSTAL STRUCTURE OF ELONGATION FACTOR, TU (EF-TU-MGGDP) COMPLEXED WITH GE2270A, A THIAZOLYL PEPTIDE ANTIBIOTIC

Heffron, S.E., Jurnak, F.

(2000) Biochemistry 39: 37

Released	2000-10-25
Method	X-RAY DIFFRACTION 2.35 Å
Organisms	Escherichia coli Planobispora rosea
Macromolecule	ELONGATION FACTOR TU (protein) THIOCILLIN GE2270 (protein)
Unique Ligands	ACT, GDP, MG