RCSB PDB: Search

1B01 \| pdb_00001b01	Download File View File

TRANSCRIPTIONAL REPRESSOR COPG/DNA COMPLEX

Gomis-Rueth, F.X., Sola, M., Acebo, P., Parraga, A., Guasch, A., Eritja, R., Gonzalez, A., Espinosa, M., del Solar, G., Coll, M.

(1998) EMBO J 17: 7404-7415

Released	1999-11-19
Method	X-RAY DIFFRACTION 2.56 Å
Organisms	Streptococcus agalactiae
Macromolecule	TRANSCRIPTIONAL REPRESSOR COPG (protein) DNA (5'-D(CPCPCPGPTPGPCPAPCPTPCPAPAPTPGPCPAPAPT)-3') (nucleic acid) DNA (5'-D(GPAPTPTPGPCPAPTPTPGPAPGPTPGPCPAPCPGPG)-3') (nucleic acid)

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1EA4 \| pdb_00001ea4	Download File View File

TRANSCRIPTIONAL REPRESSOR COPG/22bp dsDNA COMPLEX

Gomis-Rueth, F.X., Costa, M., Sola, M., Acebo, P., Eritja, R., Espinosa, M., Solar, G.D., Coll, M.

(2001) J Mol Biology 310: 403

Released	2001-07-05
Method	X-RAY DIFFRACTION 2.95 Å
Organisms	Streptococcus agalactiae
Macromolecule	TRANSCRIPTIONAL REPRESSOR COPG (protein) DNA (5'-D(TPAPAPCPCPGPTPGP CPAPCPTPCPAPAPTPGPCPAPAPTPC)-3') (nucleic acid) DNA(5'-D(APGPAPTPTPGPCPAPTP TPGPAPGPTPGPCPAPCPGPGPTPT)-3') (nucleic acid)

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1ML1 \| pdb_00001ml1	Download File View File

PROTEIN ENGINEERING WITH MONOMERIC TRIOSEPHOSPHATE ISOMERASE: THE MODELLING AND STRUCTURE VERIFICATION OF A SEVEN RESIDUE LOOP

Thanki, N., Zeelen, J.P., Mathieu, M., Jaenicke, R., Abagyan, R.A., Wierenga, R., Schliebs, W.

(1997) Protein Eng 10: 159-167

Released	1997-03-12
Method	X-RAY DIFFRACTION 2.6 Å
Organisms	Trypanosoma brucei brucei
Macromolecule	TRIOSEPHOSPHATE ISOMERASE (protein)
Unique Ligands	PGA

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263D \| pdb_0000263d	Download File View File

ISOHELICITY AND PHASING IN DRUG-DNA SEQUENCE RECOGNITION: CRYSTAL STRUCTURE OF A TRIS(BENZIMIDAZOLE)-OLIGONUCLEOTIDE COMPLEX

Clark, G.R., Gray, E.J., Neidle, S., Li, Y.-H., Leupin, W.

(1996) Biochemistry 35: 13745-13752

Released	1996-10-15
Method	X-RAY DIFFRACTION 2.2 Å
Macromolecule	DNA (5'-D(CPGPCPAPAPAPTPTPTPGPCPG)-3') (nucleic acid)
Unique Ligands	TBZ

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264D \| pdb_0000264d	Download File View File

THREE-DIMENSIONAL CRYSTAL STRUCTURE OF THE A-TRACT DNA DODECAMER D(CGCAAATTTGCG) COMPLEXED WITH THE MINOR-GROOVE-BINDING DRUG HOECHST 33258

Vega, M.C., Garcia-Saez, I., Aymami, J., Eritja, R., Van Der Marel, G.A., Van Boom, J.H., Rich, A., Coll, M.

(1994) Eur J Biochem 222: 721-726

Released	1995-03-31
Method	X-RAY DIFFRACTION 2.44 Å
Macromolecule	DNA (5'-D(CPGPCPAPAPAPTPTPTPGPCPG)-3') (nucleic acid)
Unique Ligands	HT

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2CPG \| pdb_00002cpg	Download File View File

TRANSCRIPTIONAL REPRESSOR COPG

Gomis-Rueth, F.X., Sola, M., Acebo, P., Parraga, A., Guasch, A., Eritja, R., Gonzalez, A., Espinosa, M., del Solar, G., Coll, M.

(1998) EMBO J 17: 7404-7415

Released	1999-11-19
Method	X-RAY DIFFRACTION 1.6 Å
Organisms	Streptococcus agalactiae
Macromolecule	TRANSCRIPTIONAL REPRESSOR COPG (protein)
Unique Ligands	CL

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2LYG \| pdb_00002lyg	Download File View File

Fuc_TBA

Gomez-Pinto, I., Vengut-Climent, E., Lucas, R., Avio, A., Eritja, R., Gonzalez-Ibaez, C., Morales, J.

(2013) Chemistry 19: 1920-1927

Released	2014-01-29
Method	SOLUTION NMR
Macromolecule	DNA (5'-D(PGPGPTPTPGPGPTPGPTPGPGPTPTPGP*G)-3') (nucleic acid)
Unique Ligands	1CF

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2N9F \| pdb_00002n9f	Download File View File

Glucose as non natural nucleobase

Gomez-Pinto, I., Vengut-Climent, E., Lucas, R., Avino, A., Eritja, R., Gonzalez-Ibanez, C., Morales, J., Penalver, P., Fonseca-Guerra, C., Bickelhaupt, M.

(2016) Angew Chem Int Ed Engl 55: 8643-8647

Released	2016-08-31
Method	SOLUTION NMR
Organisms	synthetic construct
Macromolecule	DNA (5'-D(CPTPAPGPCPGPGPTPCPAPTPC)-3') (nucleic acid) DNA (5'-D(GPAPTPGPAPCP(4JA)PGPCPTPAPG)-3') (nucleic acid)

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2N9H \| pdb_00002n9h	Download File View File

Glucose as a nuclease mimic in DNA

Gomez-Pinto, I., Vengut-Climent, E., Lucas, R., Avino, A., Eritja, R., Gonzalez-Ibanez, C., Morales, J., Muro, A., Penalver, P., Fonseca-Guerra, C., Bickelhaupt, M.

(2016) Angew Chem Int Ed Engl 55: 8643-8647

Released	2016-08-31
Method	SOLUTION NMR
Organisms	synthetic construct
Macromolecule	DNA (5'-D(CPTPAPGPCP(GL6)PGPTPCPAPTPC)-3') (nucleic acid) DNA (5'-D(GPAPTPGPAPCPTPGPCPTPAPG)-3') (nucleic acid)

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467D \| pdb_0000467d	Download File View File

The structure of a decamer forming a four-way junction

Ortiz-Lombardia, M., Coll, M.

(1999) Nat Struct Biol 6: 913-917

Released	2000-04-22
Method	X-RAY DIFFRACTION 2.16 Å
Macromolecule	DNA (5'-D(CPCPGPGPGPAPCPCPGPG)-3') (nucleic acid)

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7NBK \| pdb_00007nbk	Download File View File

Solution structure of DNA duplex containing a 2'-deoxy-2'2'-difluorodeoxycytidine (gemcitabine) modification

Cabrero, C., Martin-Pintado, N., Mazzini, S., Gargallo, R., Eritja, R., Avino, A., Gonzalez, C.

(2021) Chemistry

Released	2021-04-07
Method	SOLUTION NMR
Organisms	synthetic construct
Macromolecule	DNA (5'-D(CPGPTPAP(FFC)PG)-3') (nucleic acid)

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7NBL \| pdb_00007nbl	Download File View File

Solution structure of DNA:RNA hybrid containing a 2'-deoxy-2'2'-difluorodeoxycytidine (gemcitabine) modification

Cabrero, C., Martin-Pintado, N., Mazzini, S., Gargallo, R., Eritja, R., Avino, A., Gonzalez, C.

(2021) Chemistry

Released	2021-04-07
Method	SOLUTION NMR
Organisms	synthetic construct
Macromolecule	DNA (5'-D(CPTPAP(FFC)PAPCPGPG)-3') (nucleic acid) RNA (5'-R(CPCPGPUPGPUPAPG)-3') (nucleic acid)

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7NEJ \| pdb_00007nej	Download File View File

Solution structure of DNA:RNA hybrid duplex

Cabrero, C., Martin-Pintado, N., Mazzini, S., Gargallo, R., Eritja, R., Avino, A., Gonzalez, C.

(2021) Chemistry

Released	2021-04-07
Method	SOLUTION NMR
Organisms	synthetic construct
Macromolecule	DNA (5'-D(CPTPAPCPAPCPGPG)-3') (nucleic acid) RNA (5'-R(CPCPGPUPGPUPAPG)-3') (nucleic acid)

1B01 | pdb_00001b01

TRANSCRIPTIONAL REPRESSOR COPG/DNA COMPLEX

1EA4 | pdb_00001ea4

TRANSCRIPTIONAL REPRESSOR COPG/22bp dsDNA COMPLEX

1ML1 | pdb_00001ml1

PROTEIN ENGINEERING WITH MONOMERIC TRIOSEPHOSPHATE ISOMERASE: THE MODELLING AND STRUCTURE VERIFICATION OF A SEVEN RESIDUE LOOP

263D | pdb_0000263d

ISOHELICITY AND PHASING IN DRUG-DNA SEQUENCE RECOGNITION: CRYSTAL STRUCTURE OF A TRIS(BENZIMIDAZOLE)-OLIGONUCLEOTIDE COMPLEX

264D | pdb_0000264d

THREE-DIMENSIONAL CRYSTAL STRUCTURE OF THE A-TRACT DNA DODECAMER D(CGCAAATTTGCG) COMPLEXED WITH THE MINOR-GROOVE-BINDING DRUG HOECHST 33258

2CPG | pdb_00002cpg

TRANSCRIPTIONAL REPRESSOR COPG

2LYG | pdb_00002lyg

Fuc_TBA

2N9F | pdb_00002n9f

Glucose as non natural nucleobase

2N9H | pdb_00002n9h

Glucose as a nuclease mimic in DNA

467D | pdb_0000467d

The structure of a decamer forming a four-way junction

7NBK | pdb_00007nbk

Solution structure of DNA duplex containing a 2'-deoxy-2'2'-difluorodeoxycytidine (gemcitabine) modification

7NBL | pdb_00007nbl

Solution structure of DNA:RNA hybrid containing a 2'-deoxy-2'2'-difluorodeoxycytidine (gemcitabine) modification

7NEJ | pdb_00007nej

Solution structure of DNA:RNA hybrid duplex

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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

1B01 | pdb_00001b01

1EA4 | pdb_00001ea4

1ML1 | pdb_00001ml1

263D | pdb_0000263d

264D | pdb_0000264d

2CPG | pdb_00002cpg

2LYG | pdb_00002lyg

2N9F | pdb_00002n9f

2N9H | pdb_00002n9h

467D | pdb_0000467d

7NBK | pdb_00007nbk

7NBL | pdb_00007nbl

7NEJ | pdb_00007nej