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

233,605 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 Keywords HAS EXACT PHRASE "DNA BINDING PROTEIN"

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 4,792 Structures.

Refinements

Structure Determination Methodology

experimental (4,792)

Scientific Name of Source Organism

	Homo sapiens (1,680)
	synthetic construct (821)
	Escherichia coli (292)
	Escherichia coli K-12 (175)
	Mus musculus (169)
	Saccharomyces cerevisiae (126)
	Saccharomyces cerevisiae S288C (110)
	Xenopus laevis (98)
	Arabidopsis thaliana (87)
	Mycobacterium tuberculosis H37Rv (57)

More...

Taxonomy

	Eukaryota (2,462)
	Bacteria (1,832)
	other sequences (841)
	Archaea (312)
	Duplodnaviria (113)
	Monodnaviria (62)
	Riboviria (39)
	unclassified sequences (39)
	Varidnaviria (34)
	Eukaryota (eukaryotes) (21)

More...

Experimental Method

	X-RAY DIFFRACTION (3,574)
	ELECTRON MICROSCOPY (790)
	SOLUTION NMR (427)
	SOLID-STATE NMR (2)
	SOLUTION SCATTERING (1)

Polymer Entity Type

	Protein (4,788)
	DNA (1,908)
	RNA (105)
	NA-hybrid (11)

Refinement Resolution (Å)

	0.5 - 1.0 (5)
	1.0 - 1.5 (188)
	1.5 - 2.0 (1,038)
	2.0 - 2.5 (1,086)
	2.5 - 3.0 (961)
	3.0 - 3.5 (601)
	3.5 - 4.0 (246)
	4.0 - 4.5 (113)
	> 4.5 (126)

Release Date

	1990 - 1994 (16)
	1995 - 1999 (119)
	2000 - 2004 (252)
	2005 - 2009 (408)
	2010 - 2014 (615)
	2015 - 2019 (1,308)
	2020 - 2024 (1,933)
	2025 - 2029 (141)

Enzyme Classification Name

	Hydrolases (740)
	Transferases (447)
	Lyases (189)
	Isomerases (124)
	Oxidoreductases (52)
	Ligases (37)

Symmetry Type

	Asymmetric (2,922)
	Cyclic (1,704)
	Dihedral (171)
	Helical (64)
	Tetrahedral (46)
	Octahedral (5)
	Icosahedral (1)

SCOP Classification

	All alpha proteins (887)
	Artifacts (469)
	All beta proteins (243)
	Alpha and beta proteins (a+b) (198)
	Alpha and beta proteins (a/b) (125)
	Small proteins (53)
	Multi-domain proteins (alpha and beta) (13)
	Coiled coil proteins (8)
	Peptides (15)
	Low resolution protein structures (1)

More...

AllSelected

1 to 25 of 4,792 Structures

Page 1 of 192

Sort by

Explore in 3D

1A5J \| pdb_00001a5j	Download File View File

CHICKEN B-MYB DNA BINDING DOMAIN, REPEAT 2 AND REPEAT3, NMR, 32 STRUCTURES

Mcintosh, P.B., Carr, M.D., Wollborn, U., Frenkiel, T.A., Feeney, J., Mccormick, J.E., Klempnauer, K.H.

(1998) Biochemistry 37: 9619-9629

Released	1998-07-01
Method	SOLUTION NMR
Organisms	Gallus gallus
Macromolecule	B-MYB (protein)

Explore in 3D

1ADU \| pdb_00001adu	Download File View File

EARLY E2A DNA-BINDING PROTEIN

Tucker, P.A., Kanellopoulos, P.N., Tsernoglou, D., Van Der Vliet, P.C.

(1996) J Mol Biology 257: 1-8

Released	1996-06-20
Method	X-RAY DIFFRACTION 3 Å
Organisms	Human adenovirus 5
Macromolecule	ADENOVIRUS SINGLE-STRANDED DNA-BINDING PROTEIN (protein)
Unique Ligands	ZN

Explore in 3D

1ADV \| pdb_00001adv	Download File View File

EARLY E2A DNA-BINDING PROTEIN

Kanellopoulos, P.N., Tsernoglou, D., Van Der Vliet, P.C., Tucker, P.A.

(1996) J Mol Biology 257: 1-8

Released	1996-06-20
Method	X-RAY DIFFRACTION 3.2 Å
Organisms	Human adenovirus 5
Macromolecule	ADENOVIRUS SINGLE-STRANDED DNA-BINDING PROTEIN (protein)
Unique Ligands	ZN

Explore in 3D

1AE2 \| pdb_00001ae2	Download File View File

MUTANT L32R OF GENE V PROTEIN (SINGLE-STRANDED DNA BINDING PROTEIN)

Su, S., Gao, Y.-G., Zhang, H., Terwilliger, T.C., Wang, A.H.-J.

(1997) Protein Sci 6: 771-780

Released	1997-09-04
Method	X-RAY DIFFRACTION 2 Å
Organisms	Escherichia coli
Macromolecule	GENE V PROTEIN (protein)

Explore in 3D

1AE3 \| pdb_00001ae3	Download File View File

MUTANT R82C OF GENE V PROTEIN (SINGLE-STRANDED DNA BINDING PROTEIN)

Su, S., Gao, Y.-G., Zhang, H., Terwilliger, T.C., Wang, A.H.-J.

(1997) Protein Sci 6: 771-780

Released	1997-09-04
Method	X-RAY DIFFRACTION 2 Å
Organisms	Escherichia coli
Macromolecule	GENE V PROTEIN (protein)

Explore in 3D

1ANV \| pdb_00001anv	Download File View File

ADENOVIRUS 5 DBP/URANYL FLUORIDE SOAK

Kanellopoulos, P.N., Tsernoglou, D., Van Der Vliet, P.C., Tucker, P.A.

(1996) Acta Crystallogr D Biol Crystallogr 52: 942-945

Released	1997-02-12
Method	X-RAY DIFFRACTION 2.7 Å
Organisms	Human adenovirus 5
Macromolecule	ADENOVIRUS SINGLE-STRANDED DNA-BINDING PROTEIN (protein)
Unique Ligands	IUM, ZN

Explore in 3D

1AOY \| pdb_00001aoy	Download File View File

N-TERMINAL DOMAIN OF ESCHERICHIA COLI ARGININE REPRESSOR NMR, 23 STRUCTURES

Sunnerhagen, M., Nilges, M., Otting, G.

(1997) Nat Struct Biol 4: 819-826

Released	1997-09-17
Method	SOLUTION NMR
Organisms	Escherichia coli K-12
Macromolecule	ARGININE REPRESSOR (protein)

Explore in 3D

1B22 \| pdb_00001b22	Download File View File

RAD51 (N-TERMINAL DOMAIN)

Aihara, H., Ito, Y., Kurumizaka, H., Yokoyama, S., Shibata, T., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

(1999) J Mol Biology 290: 495-504

Released	1999-12-03
Method	SOLUTION NMR
Organisms	Homo sapiens
Macromolecule	DNA REPAIR PROTEIN RAD51 (protein)

Explore in 3D

1B4O \| pdb_00001b4o	Download File View File

NMR STUDY OF SSO7D MUTANT (F31A) MINIMIZED AVERAGE STRUCTURE

Consonni, R., Santomo, L., Zetta, L.

(1999) Biochemistry 38: 12709-12717

Released	2000-01-05
Method	SOLUTION NMR
Organisms	Saccharolobus solfataricus
Macromolecule	ENDORIBONUCLEASE P2 (protein)

Explore in 3D

1B67 \| pdb_00001b67	Download File View File

CRYSTAL STRUCTURE OF THE HISTONE HMFA FROM METHANOTHERMUS FERVIDUS

Decanniere, K., Sandman, K., Reeve, J.N., Heinemann, U.

(2000) J Mol Biology 303: 35-47

Released	2000-01-17
Method	X-RAY DIFFRACTION 1.48 Å
Organisms	Methanothermus fervidus
Macromolecule	PROTEIN (HISTONE HMFA) (protein)
Unique Ligands	SO4

Explore in 3D

1B6W \| pdb_00001b6w	Download File View File

CRYSTAL STRUCTURE OF THE SELENOMETHIONINE VARIANT OF HISTONE HMFB FROM METHANOTHERMUS FERVIDUS

Decanniere, K., Sandman, K., Reeve, J.N., Heinemann, U.

(2000) J Mol Biology 303: 35-47

Released	2000-01-17
Method	X-RAY DIFFRACTION 2.05 Å
Organisms	Methanothermus fervidus
Macromolecule	PROTEIN (HISTONE HMFB) (protein)

Explore in 3D

1B8Z \| pdb_00001b8z	Download File View File

HU FROM THERMOTOGA MARITIMA

Christodoulou, E., Rypniewski, W.R., Vorgias, C.E.

(1998) Acta Crystallogr D Biol Crystallogr 54: 1043-1045

Released	2000-02-03
Method	X-RAY DIFFRACTION 1.6 Å
Organisms	Thermotoga maritima
Macromolecule	PROTEIN (HISTONELIKE PROTEIN HU) (protein)

Explore in 3D

1BBO \| pdb_00001bbo	Download File View File

HIGH-RESOLUTION SOLUTION STRUCTURE OF THE DOUBLE CYS2*HIS2 ZINC FINGER FROM THE HUMAN ENHANCER BINDING PROTEIN MBP-1

Clore, G.M., Omichinski, J.G., Gronenborn, A.M.

(1992) Biochemistry 31: 3907-3917

Released	1993-10-31
Method	SOLUTION NMR
Organisms	Homo sapiens
Macromolecule	HUMAN ENHANCER-BINDING PROTEIN MBP-1 (protein)
Unique Ligands	ZN

Explore in 3D

1BGW \| pdb_00001bgw	Download File View File

TOPOISOMERASE RESIDUES 410-1202,

Berger, J.M., Gamblin, S.J., Harrison, S.C., Wang, J.C.

(1996) Nature 379: 225-232

Released	1996-07-11
Method	X-RAY DIFFRACTION 2.7 Å
Organisms	Saccharomyces cerevisiae
Macromolecule	TOPOISOMERASE (protein)

Explore in 3D

1BM9 \| pdb_00001bm9	Download File View File

REPLICATION TERMINATOR PROTEIN FROM BACILLUS SUBTILIS

Bussiere, D.E., Bastia, D., White, S.

(1995) Cell 80: 651-660

Released	1999-01-06
Method	X-RAY DIFFRACTION 2 Å
Organisms	Bacillus subtilis
Macromolecule	REPLICATION TERMINATOR PROTEIN (protein)

Explore in 3D

1BW5 \| pdb_00001bw5	Download File View File

THE NMR SOLUTION STRUCTURE OF THE HOMEODOMAIN OF THE RAT INSULIN GENE ENHANCER PROTEIN ISL-1, 50 STRUCTURES

Ippel, J.H., Larsson, G., Behravan, G., Zdunek, J., Lundqvist, M., Schleucher, J., Lycksell, P.-O., Wijmenga, S.S.

(1999) J Mol Biology 288: 689-703

Released	1999-06-15
Method	SOLUTION NMR
Organisms	Rattus norvegicus
Macromolecule	INSULIN GENE ENHANCER PROTEIN ISL-1 (protein)

Explore in 3D

1BW6 \| pdb_00001bw6	Download File View File

HUMAN CENTROMERE PROTEIN B (CENP-B) DNA BINDIGN DOMAIN RP1

Iwahara, J., Kigawa, T., Kitagawa, K., Masumoto, H., Okazaki, T., Yokoyama, S., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

(1998) EMBO J 17: 827-837

Released	1998-10-07
Method	SOLUTION NMR
Organisms	Homo sapiens
Macromolecule	PROTEIN (CENTROMERE PROTEIN B) (protein)

Explore in 3D

1C1K \| pdb_00001c1k	Download File View File

BACTERIOPHAGE T4 GENE 59 HELICASE ASSEMBLY PROTEIN

Mueser, T.C., Jones, C.E., Nossal, N.G., Hyde, C.C.

(2000) J Mol Biology 296: 597-613

Released	2000-02-16
Method	X-RAY DIFFRACTION 1.45 Å
Organisms	Tequatrovirus T4
Macromolecule	BPT4 GENE 59 HELICASE ASSEMBLY PROTEIN (protein)
Unique Ligands	CL, IR

Explore in 3D

1C20 \| pdb_00001c20	Download File View File

SOLUTION STRUCTURE OF THE DNA-BINDING DOMAIN FROM THE DEAD RINGER PROTEIN

Iwahara, J., Clubb, R.T.

(1999) EMBO J 18: 6084-6094

Released	1999-11-10
Method	SOLUTION NMR
Organisms	Drosophila melanogaster
Macromolecule	DEAD RINGER PROTEIN (protein)

Explore in 3D

1C6V \| pdb_00001c6v	Download File View File

SIV INTEGRASE (CATALYTIC DOMAIN + DNA BIDING DOMAIN COMPRISING RESIDUES 50-293) MUTANT WITH PHE 185 REPLACED BY HIS (F185H)

Chen, Z., Yan, Y., Munshi, S., Li, Y., Zruygay-Murphy, J., Xu, B., Witmer, M., Felock, P., Wolfe, A., Sardana, V., Emini, E.A., Hazuda, D., Kuo, L.C.

(2000) J Mol Biology 296: 521-533

Released	2000-12-27
Method	X-RAY DIFFRACTION 3 Å
Organisms	Simian immunodeficiency virus
Macromolecule	PROTEIN (SIU89134) (protein) PROTEIN (SIV INTEGRASE) (protein)