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235,183 Structures from the PDB

1,068,577 Computed Structure Models (CSM)

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QUERY: Citation Author = "Nissen, P."

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Search Summary

This query matches 32 Structures.

Refinements

Structure Determination Methodology

experimental (32)

Scientific Name of Source Organism

	Homo sapiens (12)
	Thermus aquaticus (4)
	Thermus thermophilus HB8 (4)
	Bacillus subtilis (3)
	Escherichia coli (3)
	Saccharomyces cerevisiae (3)
	Bos taurus (2)
	Danio rerio (1)
	Escherichia coli BL21 (1)
	Escherichia coli K-12 (1)

More...

Taxonomy

	Eukaryota (18)
	Bacteria (16)

Experimental Method

	X-RAY DIFFRACTION (29)
	ELECTRON MICROSCOPY (3)

Polymer Entity Type

	Protein (31)
	RNA (7)

Refinement Resolution (Å)

	0.5 - 1.0 (1)
	1.0 - 1.5 (1)
	1.5 - 2.0 (7)
	2.0 - 2.5 (5)
	2.5 - 3.0 (12)
	3.0 - 3.5 (3)
	> 4.5 (3)

Release Date

	1985 - 1989 (1)
	1990 - 1994 (1)
	1995 - 1999 (9)
	2000 - 2004 (3)
	2005 - 2009 (1)
	2010 - 2014 (7)
	2015 - 2019 (6)
	2020 - 2024 (4)

Enzyme Classification Name

	Hydrolases (6)
	Ligases (1)
	Transferases (3)

Symmetry Type

	Asymmetric (23)
	Cyclic (8)

SCOP Classification

	All beta proteins (14)
	Alpha and beta proteins (a+b) (5)
	Alpha and beta proteins (a/b) (10)
	Artifacts (4)
	All alpha proteins (3)
	Low resolution protein structures (1)
	Small proteins (1)

AllSelected

1 to 25 of 32 Structures

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1AYO \| pdb_00001ayo	Download File View File

RECEPTOR BINDING DOMAIN OF BOVINE ALPHA-2-MACROGLOBULIN

Jenner, L.B., Husted, L., Thirup, S., Sottrup-Jensen, L., Nyborg, J.

(1998) Structure 6: 595-604

Released	1998-11-25
Method	X-RAY DIFFRACTION 1.9 Å
Organisms	Bos taurus
Macromolecule	ALPHA-2-MACROGLOBULIN (protein)
Unique Ligands	CA
Unique branched monosaccharides	NAG

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1B23 \| pdb_00001b23	Download File View File

E. coli cysteinyl-tRNA and T. aquaticus elongation factor EF-TU:GTP ternary complex

Nissen, P., Kjeldgaard, M., Thirup, S., Nyborg, J.

(1999) Structure 7: 143-156

Released	1998-12-07
Method	X-RAY DIFFRACTION 2.6 Å
Organisms	Escherichia coli Thermus aquaticus
Macromolecule	ELONGATION FACTOR TU (protein) CYSTEINYL TRNA (nucleic acid)
Unique Ligands	CYS, GNP, MG, SO4

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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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1EFC \| pdb_00001efc	Download File View File

INTACT ELONGATION FACTOR FROM E.COLI

Song, H., Parsons, M.R., Rowsell, S., Leonard, G., Phillips, S.E.V.

(1999) J Mol Biology 285: 1245-1256

Released	1999-03-18
Method	X-RAY DIFFRACTION 2.05 Å
Organisms	Escherichia coli
Macromolecule	PROTEIN (ELONGATION FACTOR) (protein)
Unique Ligands	GDP, MG

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1EFT \| pdb_00001eft	Download File View File

THE CRYSTAL STRUCTURE OF ELONGATION FACTOR EF-TU FROM THERMUS AQUATICUS IN THE GTP CONFORMATION

Kjeldgaard, M., Nissen, P., Thirup, S., Nyborg, J.

(1993) Structure 1: 35-50

Released	1994-08-31
Method	X-RAY DIFFRACTION 2.5 Å
Organisms	Thermus aquaticus
Macromolecule	ELONGATION FACTOR TU (protein)
Unique Ligands	GNP, MG

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1ETU \| pdb_00001etu	Download File View File

STRUCTURAL DETAILS OF THE BINDING OF GUANOSINE DIPHOSPHATE TO ELONGATION FACTOR TU FROM E. COLI AS STUDIED BY X-RAY CRYSTALLOGRAPHY

Clark, B.F.C., Lacour, T.F.M., Kjeldgaard, M., Morikawa, K., Nyborg, J., Rubin, R., Thirup, S.

(1985) EMBO J 4: 2385-2388

Released	1988-07-16
Method	X-RAY DIFFRACTION 2.9 Å
Organisms	Escherichia coli K-12
Macromolecule	ELONGATION FACTOR TU (protein)
Unique Ligands	GDP, MG

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1LS2 \| pdb_00001ls2	Download File View File

Fitting of EF-Tu and tRNA in the Low Resolution Cryo-EM Map of an EF-Tu Ternary Complex (GDP and Kirromycin) Bound to E. coli 70S Ribosome

Valle, M., Sengupta, J., Swami, N.K., Grassucci, R.A., Burkhardt, N., Nierhaus, K.H., Agrawal, R.K., Frank, J.

(2002) EMBO J 21: 3557-3567

Released	2002-06-26
Method	ELECTRON MICROSCOPY 16.8 Å
Organisms	Escherichia coli Saccharomyces cerevisiae
Macromolecule	Elongation Factor Tu (protein) Phenylalanine transfer RNA (nucleic acid)

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1LU3 \| pdb_00001lu3	Download File View File

Separate Fitting of the Anticodon Loop Region of tRNA (nucleotide 26-42) in the Low Resolution Cryo-EM Map of an EF-Tu Ternary Complex (GDP and Kirromycin) Bound to E. coli 70S Ribosome

Valle, M., Sengupta, J., Swami, N.K., Grassucci, R.A., Burkhardt, N., Nierhaus, K.H., Agrawal, R.K., Frank, J.

(2002) EMBO J 21: 3557-3567

Released	2002-06-26
Method	ELECTRON MICROSCOPY 16.8 Å
Organisms	Saccharomyces cerevisiae
Macromolecule	PHENYLALANINE TRANSFER RNA (nucleic acid)

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1OB2 \| pdb_00001ob2	Download File View File

E. coli elongation factor EF-Tu complexed with the antibiotic kirromycin, a GTP analog, and Phe-tRNA

Kristensen, O., Nissen, P., Nyborg, J.

To be published

Released	2004-05-27
Method	X-RAY DIFFRACTION 3.35 Å
Organisms	Escherichia coli BL21 Saccharomyces cerevisiae
Macromolecule	ELONGATION FACTOR TU (protein) TRANSFER-RNA, PHE (nucleic acid)
Unique Ligands	GNP, KIR, MG
Unique branched monosaccharides	FRU, GLC

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1PSR \| pdb_00001psr	Download File View File

HUMAN PSORIASIN (S100A7)

Brodersen, D.E., Etzerodt, M., Madsen, P., Celis, J., Thoegersen, H.C., Nyborg, J., Kjeldgaard, M.

(1998) Structure 6: 477-489

Released	1999-01-13
Method	X-RAY DIFFRACTION 1.05 Å
Organisms	Homo sapiens
Macromolecule	PSORIASIN (protein)
Unique Ligands	HO

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1TTT \| pdb_00001ttt	Download File View File

Phe-tRNA, elongation factoR EF-TU:GDPNP ternary complex

Nissen, P., Kjeldgaard, M., Thirup, S., Polekhina, G., Reshetnikova, L., Clark, B.F.C., Nyborg, J.

(1995) Science 270: 1464-1472

Released	1996-12-23
Method	X-RAY DIFFRACTION 2.7 Å
Organisms	Thermus aquaticus
Macromolecule	OF ELONGATION FACTOR TU (EF-TU) (protein) TRANSFER RIBONUCLEIC ACID (YEAST, PHE) (nucleic acid)
Unique Ligands	GNP, MG, PHE

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1TUI \| pdb_00001tui	Download File View File

INTACT ELONGATION FACTOR TU IN COMPLEX WITH GDP

Polekhina, G., Thirup, S., Kjeldgaard, M., Nissen, P., Lippmann, C., Nyborg, J.

(1996) Structure 4: 1141-1151

Released	1997-06-05
Method	X-RAY DIFFRACTION 2.7 Å
Organisms	Thermus aquaticus
Macromolecule	ELONGATION FACTOR TU (protein)
Unique Ligands	GDP, MG

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1ZC8 \| pdb_00001zc8	Download File View File

Coordinates of tmRNA, SmpB, EF-Tu and h44 fitted into Cryo-EM map of the 70S ribosome and tmRNA complex

Valle, M., Gillet, R., Kaur, S., Henne, A., Ramakrishnan, V., Frank, J.

(2003) Science 300: 127-130

Released	2005-04-19
Method	ELECTRON MICROSCOPY 13 Å
Organisms	Thermus thermophilus
Macromolecule	Unique protein chains: 2 Unique nucleic acid chains: 9

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2PSR \| pdb_00002psr	Download File View File

HUMAN PSORIASIN (S100A7) CA2+ AND ZN2+ BOUND FORM (CRYSTAL FORM II)

Brodersen, D.E., Nyborg, J., Kjeldgaard, M.

(1999) Biochemistry 38: 1695-1704

Released	1999-06-15
Method	X-RAY DIFFRACTION 2.05 Å
Organisms	Homo sapiens
Macromolecule	PSORIASIN (protein)
Unique Ligands	CA, ZN

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3KFU \| pdb_00003kfu	Download File View File

Crystal structure of the transamidosome

Blaise, M., Bailly, M., Frechin, M., Thirup, S., Becker, H.D., Kern, D.

(2010) EMBO J 29: 3118-3129

Released	2010-08-25
Method	X-RAY DIFFRACTION 3 Å
Organisms	Thermus thermophilus HB8
Macromolecule	Aspartyl/glutamyl-tRNA(Asn/Gln) amidotransferase subunit B (protein) Glutamyl-tRNA(Gln) amidotransferase subunit A (protein) Glutamyl-tRNA(Gln) amidotransferase subunit C (protein) Non-discriminating and archaeal-type aspartyl-tRNA synthetase (protein) tRNA-Asn (nucleic acid)
Unique Ligands	MG, ZN

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3PSR \| pdb_00003psr	Download File View File

HUMAN PSORIASIN (S100A7) CA2+ BOUND FORM (CRYSTAL FORM I)

Brodersen, D.E., Nyborg, J., Kjeldgaard, M.

(1999) Biochemistry 38: 1695-1704

Released	1999-06-15
Method	X-RAY DIFFRACTION 2.5 Å
Organisms	Homo sapiens
Macromolecule	PSORIASIN (protein)
Unique Ligands	CA, ZN

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4A1I \| pdb_00004a1i	Download File View File

ykud from B.subtilis

Blaise, M., Fuglsang Midtgaard, S., Roi Midtgaard, S., Boesen, T., Thirup, S.

To be published

Released	2012-09-26
Method	X-RAY DIFFRACTION 1.76 Å
Organisms	Bacillus subtilis
Macromolecule	PUTATIVE L, D-TRANSPEPTIDASE YKUD (protein)
Unique Ligands	CD, CL, SO4

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4A1J \| pdb_00004a1j	Download File View File

Ykud L,D-transpeptidase from B.subtilis

Blaise, M., Fuglsang Midtgaard, S., Roi Midtgaard, S., Boesen, T., Thirup, S.

To be published

Released	2012-09-26
Method	X-RAY DIFFRACTION 2.2 Å
Organisms	Bacillus subtilis
Macromolecule	PUTATIVE L, D-TRANSPEPTIDASE YKUD (protein)
Unique Ligands	SO4

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4A1K \| pdb_00004a1k	Download File View File

Ykud L,D-transpeptidase

Blaise, M., Fuglsang Midtgaard, S., Roi Midtgaard, S., Boesen, T., Thirup, S.

To be published

Released	2012-09-26
Method	X-RAY DIFFRACTION 1.75 Å
Organisms	Bacillus subtilis
Macromolecule	PUTATIVE L, D-TRANSPEPTIDASE YKUD (protein)
Unique Ligands	SO4

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4ACJ \| pdb_00004acj	Download File View File

Crystal structure of the TLDC domain of Oxidation resistance protein 2 from zebrafish

Blaise, M., B Alsarraf, H.M.A., Wong, J.E.M.M., Midtgaard, S.R., Laroche, F., Schack, L., Spaink, H., Stougaard, J., Thirup, S.

(2012) Proteins 80: 1694

Released	2012-02-08
Method	X-RAY DIFFRACTION 0.97 Å
Organisms	Danio rerio
Macromolecule	WU\:FB25H12 PROTEIN, (protein)

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4MSL \| pdb_00004msl	Download File View File

Crystal structure of the Vps10p domain of human sortilin/NTS3 in complex with AF40431

Andersen, J.L., Strandbygaard, D., Thirup, S.

(2014) Acta Crystallogr D Biol Crystallogr 70: 451-460

Released	2014-02-12
Method	X-RAY DIFFRACTION 2.7 Å
Organisms	Homo sapiens
Macromolecule	Sortilin (protein)
Unique Ligands	2ET, PG4
Unique branched monosaccharides	BMA, MAN, NAG

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4N7E \| pdb_00004n7e	Download File View File

Crystal structure of the Vps10p domain of human sortilin/NTS3 in complex with AF38469

Andersen, J.L., Strandbygaard, D., Thirup, S.

(2014) Bioorg Med Chem Lett 24: 177-180

Released	2014-01-22
Method	X-RAY DIFFRACTION 2.7 Å
Organisms	Homo sapiens
Macromolecule	Sortilin (protein)
Unique Ligands	2JQ, PGE
Unique branched monosaccharides	BMA, NAG

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4UZ2 \| pdb_00004uz2	Download File View File

Crystal structure of the N-terminal LysM domains from the putative NlpC/P60 D,L endopeptidase from T. thermophilus

Wong, J.E.M.M., Blaise, M.

(2015) Acta Crystallogr D Biol Crystallogr 71: 592

Released	2015-01-14
Method	X-RAY DIFFRACTION 2.5 Å
Organisms	Thermus thermophilus HB8
Macromolecule	CELL WALL-BINDING ENDOPEPTIDASE-RELATED PROTEIN (protein)

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4UZ3 \| pdb_00004uz3	Download File View File

Crystal structure of the N-terminal LysM domains from the putative NlpC/P60 D,L endopeptidase from T. thermophilus bound to N-acetyl-chitohexaose

Wong, J.E.M.M., Blaise, M.

(2015) Acta Crystallogr D Biol Crystallogr 71: 592

Released	2015-01-14
Method	X-RAY DIFFRACTION 1.75 Å
Organisms	Thermus thermophilus HB8
Macromolecule	CELL WALL-BINDING ENDOPEPTIDASE-RELATED PROTEIN (protein)
Unique Ligands	DIO, NDG, SO4
Unique branched monosaccharides	NAG, NDG

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4XCM \| pdb_00004xcm	Download File View File

Crystal structure of the putative NlpC/P60 D,L endopeptidase from T. thermophilus

Wong, J., Midtgaard, S., Gysel, K., Thygesen, M.B., Sorensen, K.K., Jensen, K.J., Stougaard, J., Thirup, S., Blaise, M.

(2015) Acta Crystallogr D Biol Crystallogr 71: 592-605

Released	2015-01-14
Method	X-RAY DIFFRACTION 2.65 Å
Organisms	Thermus thermophilus HB8
Macromolecule	Cell wall-binding endopeptidase-related protein (protein)

1 to 25 of 32 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

1AYO | pdb_00001ayo

1B23 | pdb_00001b23

1D2E | pdb_00001d2e

1EFC | pdb_00001efc

1EFT | pdb_00001eft

1ETU | pdb_00001etu

1LS2 | pdb_00001ls2

1LU3 | pdb_00001lu3

1OB2 | pdb_00001ob2

1PSR | pdb_00001psr

1TTT | pdb_00001ttt

1TUI | pdb_00001tui

1ZC8 | pdb_00001zc8

2PSR | pdb_00002psr

3KFU | pdb_00003kfu

3PSR | pdb_00003psr

4A1I | pdb_00004a1i

4A1J | pdb_00004a1j

4A1K | pdb_00004a1k

4ACJ | pdb_00004acj

4MSL | pdb_00004msl

4N7E | pdb_00004n7e

4UZ2 | pdb_00004uz2

4UZ3 | pdb_00004uz3

4XCM | pdb_00004xcm