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: Enzyme Classification Number = 3.5.4.5

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 29 Structures.

Refinements

Structure Determination Methodology

experimental (29)

Scientific Name of Source Organism

	Bacillus subtilis (4)
	Escherichia coli (4)
	Enterococcus (3)
	Mus musculus (3)
	Mycobacterium tuberculosis (3)
	Homo sapiens (2)
	Arabidopsis thaliana (1)
	Bacillus anthracis (1)
	Burkholderia pseudomallei (1)
	Klebsiella pneumoniae subsp. pneumoniae MGH 78578 (1)

More...

Taxonomy

	Bacteria (22)
	Eukaryota (7)

Experimental Method

X-RAY DIFFRACTION (29)

Polymer Entity Type

Protein (29)

Refinement Resolution (Å)

	1.0 - 1.5 (2)
	1.5 - 2.0 (11)
	2.0 - 2.5 (14)
	2.5 - 3.0 (1)
	3.0 - 3.5 (1)

Release Date

	1995 - 1999 (4)
	2000 - 2004 (6)
	2005 - 2009 (5)
	2010 - 2014 (6)
	2015 - 2019 (3)
	2020 - 2024 (5)

Enzyme Classification Name

Hydrolases (29)

Symmetry Type

	Dihedral (21)
	Cyclic (11)
	Asymmetric (1)

SCOP Classification

	Alpha and beta proteins (a/b) (23)
	Artifacts (4)

AllSelected

1 to 25 of 29 Structures

Page 1 of 2

Sort by

Explore in 3D

1AF2 \| pdb_00001af2	Download File View File

CRYSTAL STRUCTURE OF CYTIDINE DEAMINASE COMPLEXED WITH URIDINE

Xiang, S., Carter, C.W.

(1997) Biochemistry 36: 4768-4774

Released	1997-07-07
Method	X-RAY DIFFRACTION 2.3 Å
Organisms	Escherichia coli
Macromolecule	CYTIDINE DEAMINASE (protein)
Unique Ligands	U5P, ZN

Explore in 3D

1ALN \| pdb_00001aln	Download File View File

CRYSTAL STRUCTURE OF CYTIDINE DEAMINASE COMPLEXED WITH 3-DEAZACYTIDINE

Xiang, S., Carter, C.W.

(1996) Biochemistry 35: 1335-1341

Released	1997-09-17
Method	X-RAY DIFFRACTION 2.3 Å
Organisms	Escherichia coli
Macromolecule	CYTIDINE DEAMINASE (protein)
Unique Ligands	CTD, ZN

Explore in 3D

1CTT \| pdb_00001ctt	Download File View File

TRANSITION-STATE SELECTIVITY FOR A SINGLE OH GROUP DURING CATALYSIS BY CYTIDINE DEAMINASE

Xiang, S., Short, S.A., Wolfenden, R., Carter, C.W.

(1995) Biochemistry 34: 4516-4523

Released	1995-05-08
Method	X-RAY DIFFRACTION 2.2 Å
Organisms	Escherichia coli
Macromolecule	CYTIDINE DEAMINASE (protein)
Unique Ligands	DHZ, ZN

Explore in 3D

1CTU \| pdb_00001ctu	Download File View File

TRANSITION-STATE SELECTIVITY FOR A SINGLE OH GROUP DURING CATALYSIS BY CYTIDINE DEAMINASE

Xiang, S., Short, S.A., Wolfenden, R., Carter, C.W.

(1995) Biochemistry 34: 4516-4523

Released	1995-05-08
Method	X-RAY DIFFRACTION 2.3 Å
Organisms	Escherichia coli
Macromolecule	CYTIDINE DEAMINASE (protein)
Unique Ligands	ZEB, ZN

Explore in 3D

1JTK \| pdb_00001jtk	Download File View File

Crystal structure of cytidine deaminase from Bacillus subtilis in complex with the inhibitor tetrahydrodeoxyuridine

Johansson, E., Mejlhede, N., Neuhard, J., Larsen, S.

(2002) Biochemistry 41: 2563-2570

Released	2002-04-10
Method	X-RAY DIFFRACTION 2.04 Å
Organisms	Bacillus subtilis
Macromolecule	cytidine deaminase (protein)
Unique Ligands	THU, ZN

Explore in 3D

1MQ0 \| pdb_00001mq0	Download File View File

Crystal Structure of Human Cytidine Deaminase

Chung, S.J., Fromme, J.C., Verdine, G.L.

(2005) J Med Chem 48: 658-660

Released	2003-11-04
Method	X-RAY DIFFRACTION 2.4 Å
Organisms	Homo sapiens
Macromolecule	Cytidine Deaminase (protein)
Unique Ligands	BRD, ZN

Explore in 3D

1R5T \| pdb_00001r5t	Download File View File

The Crystal Structure of Cytidine Deaminase CDD1, an Orphan C to U editase from Yeast

Xie, K., Sowden, M.P., Dance, G.S.C., Torelli, A.T., Smith, H.C., Wedekind, J.E.

(2004) Proc Natl Acad Sci U S A 101: 8114-8119

Released	2004-05-25
Method	X-RAY DIFFRACTION 2 Å
Organisms	Saccharomyces cerevisiae
Macromolecule	Cytidine deaminase (protein)
Unique Ligands	ZN

Explore in 3D

1UWZ \| pdb_00001uwz	Download File View File

Bacillus subtilis cytidine deaminase with an Arg56 - Ala substitution

Johansson, E., Neuhard, J., Willemoes, M., Larsen, S.

(2004) Biochemistry 43: 6020

Released	2004-05-20
Method	X-RAY DIFFRACTION 1.99 Å
Organisms	Bacillus subtilis
Macromolecule	CYTIDINE DEAMINASE (protein)
Unique Ligands	THU, ZN

Explore in 3D

1UX0 \| pdb_00001ux0	Download File View File

Bacillus subtilis cytidine deaminase with an Arg56 - Gln substitution

Johansson, E., Neuhard, J., Willemoes, M., Larsen, S.

(2004) Biochemistry 43: 6020

Released	2004-05-20
Method	X-RAY DIFFRACTION 1.99 Å
Organisms	Bacillus subtilis
Macromolecule	CYTIDINE DEAMINASE (protein)
Unique Ligands	THU, ZN

Explore in 3D

1UX1 \| pdb_00001ux1	Download File View File

Bacillus subtilis cytidine deaminase with a Cys53His and an Arg56Gln substitution

Johansson, E., Neuhard, J., Willemoes, M., Larsen, S.

(2004) Biochemistry 43: 6020

Released	2004-05-20
Method	X-RAY DIFFRACTION 2.36 Å
Organisms	Bacillus subtilis
Macromolecule	CYTIDINE DEAMINASE (protein)
Unique Ligands	THU, TRS, ZN

Explore in 3D

1ZAB \| pdb_00001zab	Download File View File

Crystal Structure of Mouse Cytidine Deaminase Complexed with 3-Deazauridine

Teh, A.H.

(2006) Biochemistry 45: 7825-7833

Released	2006-04-11
Method	X-RAY DIFFRACTION 2.36 Å
Organisms	Mus musculus
Macromolecule	Cytidine deaminase (protein)
Unique Ligands	SO4, URD, ZN

Explore in 3D

2D30 \| pdb_00002d30	Download File View File

Crystal Structure of Cytidine Deaminase Cdd-2 (BA4525) from Bacillus Anthracis at 2.40A Resolution

Levdikov, V.M., Blagova, E.V., Fogg, M.J., Brannigan, J.A., Moroz, O.V., Wilkinson, A.J., Wilson, K.S., Structural Proteomics in Europe (SPINE)

To be published

Released	2006-09-19
Method	X-RAY DIFFRACTION 2.4 Å
Organisms	Bacillus anthracis
Macromolecule	cytidine deaminase (protein)
Unique Ligands	ZN

Explore in 3D

2FR5 \| pdb_00002fr5	Download File View File

Crystal Structure of Mouse Cytidine Deaminase Complexed with Tetrahydrouridine

Teh, A.H.

(2006) Biochemistry 45: 7825-7833

Released	2006-07-11
Method	X-RAY DIFFRACTION 1.48 Å
Organisms	Mus musculus
Macromolecule	Cytidine deaminase (protein)
Unique Ligands	SO4, TYU, ZN

Explore in 3D

2FR6 \| pdb_00002fr6	Download File View File

Crystal Structure of Mouse Cytidine Deaminase Complexed with Cytidine

Teh, A.H.

(2006) Biochemistry 45: 7825-7833

Released	2006-07-11
Method	X-RAY DIFFRACTION 2.07 Å
Organisms	Mus musculus
Macromolecule	Cytidine deaminase (protein)
Unique Ligands	CTN, NH3, SO4, URI, ZN

Explore in 3D

3DMO \| pdb_00003dmo	Download File View File

1.6 A crystal structure of cytidine deaminase from Burkholderia pseudomallei

Seattle Structural Genomics Center for Infectious Disease (SSGCID)

To be published

Released	2008-07-15
Method	X-RAY DIFFRACTION 1.6 Å
Organisms	Burkholderia pseudomallei
Macromolecule	Cytidine deaminase (protein)
Unique Ligands	MRD, PO4, ZN

Explore in 3D

3IJF \| pdb_00003ijf	Download File View File

Crystal structure of cytidine deaminase from Mycobacterium tuberculosis

De Azevedo Jr., W.F., Basso, L.A., Santos, D.S.

(2010) J Struct Biol 169: 413-423

Released	2010-03-02
Method	X-RAY DIFFRACTION 1.99 Å
Organisms	Mycobacterium tuberculosis
Macromolecule	Cytidine deaminase (protein)
Unique Ligands	ZN

Explore in 3D

3MPZ \| pdb_00003mpz	Download File View File

Crystal structure of CYTIDINE DEAMINASE from Mycobacterium smegmatis

Seattle Structural Genomics Center for Infectious Disease (SSGCID)

(2015) Tuberculosis (Edinb) 95: 142-148

Released	2010-05-19
Method	X-RAY DIFFRACTION 1.7 Å
Organisms	Mycolicibacterium smegmatis MC2 155
Macromolecule	Cytidine deaminase (protein)
Unique Ligands	ZN

Explore in 3D

3R2N \| pdb_00003r2n	Download File View File

Crystal structure of cytidine deaminase from Mycobacterium leprae

Seattle Structural Genomics Center for Infectious Disease (SSGCID)

(2015) Tuberculosis (Edinb) 95: 142-148

Released	2011-03-23
Method	X-RAY DIFFRACTION 2.3 Å
Organisms	Mycobacterium leprae Br4923
Macromolecule	Cytidine deaminase (protein)
Unique Ligands	EDO, GOL, ZN

Explore in 3D

4EG2 \| pdb_00004eg2	Download File View File

2.2 Angstrom Crystal Structure of Cytidine deaminase from Vibrio cholerae in Complex with Zinc and Uridine

Minasov, G., Wawrzak, Z., Skarina, T., Wang, Y., Grimshaw, S., Papazisi, L., Savchenko, A., Anderson, W.F., Center for Structural Genomics of Infectious Diseases (CSGID)

To be published

Released	2012-05-02
Method	X-RAY DIFFRACTION 2.2 Å
Organisms	Vibrio cholerae
Macromolecule	Cytidine deaminase (protein)
Unique Ligands	ACT, MG, URI, ZN

Explore in 3D

4F3W \| pdb_00004f3w	Download File View File

Crystal structure of cytidine deaminase Cdd from Mycobacterium marinum

Seattle Structural Genomics Center for Infectious Disease (SSGCID)

(2015) Tuberculosis (Edinb) 95: 142-148

Released	2012-05-23
Method	X-RAY DIFFRACTION 1.8 Å
Organisms	Mycobacterium marinum M
Macromolecule	Cytidine deaminase Cdd (protein)
Unique Ligands	ZN

Explore in 3D

4J4J \| pdb_00004j4j	Download File View File

Crystal structure of the APOBEC3F Vif binding domain

Siu, K.K., Sultana, A., Lee, J.E.

(2013) Nat Commun 4: 2593-2593

Released	2013-11-06
Method	X-RAY DIFFRACTION 3.1 Å
Organisms	Homo sapiens
Macromolecule	DNA dC->dU-editing enzyme APOBEC-3F (protein)
Unique Ligands	ZN

Explore in 3D

4WIF \| pdb_00004wif	Download File View File

Crystal structure of E47Q mutant cytidine deaminase from Mycobacterium tuberculosis (MtCDA E47Q)

Trivella, D.B., Sanchez-Quitian, A.Z., Basso, L.A., Santos, D.S.

(2015) RSC Adv

Released	2015-09-09
Method	X-RAY DIFFRACTION 1.8 Å
Organisms	Mycobacterium tuberculosis
Macromolecule	Cytidine deaminase (protein)
Unique Ligands	ZN

Explore in 3D

4WIG \| pdb_00004wig	Download File View File

Crystal structure of E47D mutant cytidine deaminase from Mycobacterium tuberculosis (MtCDA E47D)

Trivella, D.B.B., Sanchez-Quitian, A.Z., Basso, L.A., Santos, D.S.

(2015) RSC Adv 5: 830-840

Released	2015-08-12
Method	X-RAY DIFFRACTION 1.758 Å
Organisms	Mycobacterium tuberculosis
Macromolecule	Cytidine deaminase (protein)
Unique Ligands	ZN

Explore in 3D

6K63 \| pdb_00006k63	Download File View File

The crystal structure of cytidine deaminase from Klebsiella pneumoniae

Liu, W., Shang, F., Lan, J., Chen, Y., Wang, L., Xu, Y.

(2019) Biochem Biophys Res Commun 519: 280-286

Released	2019-07-31
Method	X-RAY DIFFRACTION 2.073 Å
Organisms	Klebsiella pneumoniae subsp. pneumoniae MGH 78578
Macromolecule	Cytidine deaminase (protein)
Unique Ligands	DIO, ZN