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

235,183 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 "TRANSFERASE/ANTIBIOTIC"

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 145 Structures.

Refinements

Structure Determination Methodology

experimental (145)

Scientific Name of Source Organism

	Escherichia coli (28)
	Escherichia coli K-12 (16)
	Pseudomonas aeruginosa (9)
	Micromonospora griseorubida (7)
	Homo sapiens (6)
	Actinomadura sp. (5)
	Enterobacter cloacae (5)
	Thermus thermophilus HB8 (5)
	Bacillus sp. (in: firmicutes) (4)
	Enterococcus casseliflavus (4)

More...

Taxonomy

	Bacteria (137)
	Eukaryota (8)
	Archaea (1)

Experimental Method

	X-RAY DIFFRACTION (145)
	NEUTRON DIFFRACTION (3)

Polymer Entity Type

	Protein (145)
	DNA (4)

Refinement Resolution (Å)

	1.0 - 1.5 (11)
	1.5 - 2.0 (58)
	2.0 - 2.5 (51)
	2.5 - 3.0 (17)
	3.0 - 3.5 (5)
	3.5 - 4.0 (5)

Release Date

	2000 - 2004 (4)
	2005 - 2009 (6)
	2010 - 2014 (52)
	2015 - 2019 (71)
	2020 - 2024 (12)

Enzyme Classification Name

	Transferases (108)
	Ligases (2)
	Hydrolases (1)

Membrane Protein Annotation

	PDBTM (4)
	MemProtMD (3)
	OPM (3)
	mpstruc (2)

Symmetry Type

	Asymmetric (79)
	Cyclic (61)
	Dihedral (17)
	Octahedral (14)

SCOP Classification

	Alpha and beta proteins (a/b) (40)
	Alpha and beta proteins (a+b) (19)
	Artifacts (22)
	All alpha proteins (9)
	All beta proteins (2)

AllSelected

1 to 25 of 145 Structures

Page 1 of 6

Sort by

Explore in 3D

1KHR \| pdb_00001khr	Download File View File

Crystal Structure of Vat(D) in Complex with Virginiamycin and Coenzyme A

Sugantino, M., Roderick, S.L.

(2002) Biochemistry 41: 2209-2216

Released	2002-02-20
Method	X-RAY DIFFRACTION 2.8 Å
Organisms	Enterococcus faecium
Macromolecule	STREPTOGRAMIN A ACETYLTRANSFERASE (protein)
Unique Ligands	COA, VIR

Explore in 3D

1PN3 \| pdb_00001pn3	Download File View File

Crystal Structure of TDP-epi-Vancosaminyltransferase GtfA in complexes with TDP and the acceptor substrate DVV.

Mulichak, A.M., Losey, H.C., Lu, W., Wawrzak, Z., Walsh, C.T., Garavito, R.M.

(2003) Proc Natl Acad Sci U S A 100: 9238

Released	2003-08-12
Method	X-RAY DIFFRACTION 2.8 Å
Organisms	Amycolatopsis orientalis
Macromolecule	DESVANCOSAMINYL VANCOMYCIN (protein) GLYCOSYLTRANSFERASE GTFA (protein)
Unique Ligands	BGC, TYD

Explore in 3D

1PNV \| pdb_00001pnv	Download File View File

Crystal Structure of TDP-epi-Vancosaminyltransferase GtfA in complexes with TDP and Vancomycin

Mulichak, A.M., Losey, H.C., Lu, W., Wawrzak, Z., Walsh, C.T., Garavito, R.M.

(2003) Proc Natl Acad Sci U S A 100: 9238

Released	2003-08-12
Method	X-RAY DIFFRACTION 2.8 Å
Organisms	Amycolatopsis orientalis
Macromolecule	GLYCOSYLTRANSFERASE GTFA (protein) VANCOMYCIN (protein)
Unique Ligands	TYD
Unique branched monosaccharides	BGC, RER

Explore in 3D

1RRV \| pdb_00001rrv	Download File View File

X-ray crystal structure of TDP-vancosaminyltransferase GtfD as a complex with TDP and the natural substrate, desvancosaminyl vancomycin.

Mulichak, A.M., Lu, W., Losey, H.C., Walsh, C.T., Garavito, R.M.

(2004) Biochemistry 43: 5170

Released	2004-05-18
Method	X-RAY DIFFRACTION 2 Å
Organisms	Amycolatopsis orientalis
Macromolecule	DESVANCOSAMINYL VANCOMYCIN (protein) GLYCOSYLTRANSFERASE GTFD (protein)
Unique Ligands	BGC, GOL, K, TYD

Explore in 3D

3D3H \| pdb_00003d3h	Download File View File

Crystal structure of a complex of the peptidoglycan glycosyltransferase domain from Aquifex aeolicus and neryl moenomycin A

Yuan, Y., Sliz, P., Walker, S.

(2008) ACS Chem Biol 3: 429-436

Released	2008-07-22
Method	X-RAY DIFFRACTION 2.31 Å
Organisms	Aquifex aeolicus
Macromolecule	Penicillin-insensitive transglycosylase (protein)
Unique Ligands	M4O

Explore in 3D

3H5R \| pdb_00003h5r	Download File View File

Crystal structure of E. coli MccB + Succinimide

Regni, C.A., Roush, R.F., Miller, D., Nourse, A., Walsh, C.T., Schulman, B.A.

(2009) EMBO J 28: 1953-1964

Released	2009-06-16
Method	X-RAY DIFFRACTION 2.1 Å
Organisms	Escherichia coli
Macromolecule	MccB protein (protein) Microcin C7 analog (protein)
Unique Ligands	SO4, ZN

Explore in 3D

3H9G \| pdb_00003h9g	Download File View File

Crystal structure of E. coli MccB + MccA-N7isoASN

Regni, C.A., Roush, R.F., Miller, D., Nourse, A., Walsh, C.T., Schulman, B.A.

(2009) EMBO J 28: 1953-1964

Released	2009-06-16
Method	X-RAY DIFFRACTION 2.2 Å
Organisms	Escherichia coli
Macromolecule	MccB protein (protein) Microcin C7 analog (protein)
Unique Ligands	SO4, ZN

Explore in 3D

3H9J \| pdb_00003h9j	Download File View File

Crystal structure of E. coli MccB + AMPCPP + SeMeT MccA

Regni, C.A., Roush, R.F., Miller, D., Nourse, A., Walsh, C.T., Schulman, B.A.

(2009) EMBO J 28: 1953-1964

Released	2009-06-16
Method	X-RAY DIFFRACTION 2.3 Å
Organisms	Escherichia coli
Macromolecule	MccB protein (protein) Microcin C7 ANALOG (protein)
Unique Ligands	APC, SO4, ZN

Explore in 3D

3H9Q \| pdb_00003h9q	Download File View File

Crystal structure of E. coli MccB + SeMet MccA

Regni, C.A., Roush, R.F., Miller, D., Nourse, A., Walsh, C.T., Schulman, B.A.

(2009) EMBO J 28: 1953-1964

Released	2009-06-16
Method	X-RAY DIFFRACTION 2.63 Å
Organisms	Escherichia coli
Macromolecule	MccB protein (protein) Microcin C7 ANALOG (protein)
Unique Ligands	SO4, ZN

Explore in 3D

3JZ0 \| pdb_00003jz0	Download File View File

LinB complexed with clindamycin and AMPCPP

Morar, M., Wright, G.D.

(2009) Structure 17: 1649-1659

Released	2009-11-03
Method	X-RAY DIFFRACTION 2 Å
Organisms	Enterococcus faecium
Macromolecule	Lincosamide nucleotidyltransferase (protein)
Unique Ligands	APC, CLY, MG

Explore in 3D

3KR6 \| pdb_00003kr6	Download File View File

MurA dead-end complex with fosfomycin

Schonbrunn, E.

(2010) Biochemistry 49: 4276-4282

Released	2010-04-28
Method	X-RAY DIFFRACTION 1.7 Å
Organisms	Escherichia coli K-12
Macromolecule	UDP-N-acetylglucosamine 1-carboxyvinyltransferase (protein)
Unique Ligands	FFQ, UD1

Explore in 3D

3LTH \| pdb_00003lth	Download File View File

E. cloacae MurA dead-end complex with UNAG and fosfomycin

Schonbrunn, E.

(2010) Biochemistry 49: 4276-4282

Released	2010-05-05
Method	X-RAY DIFFRACTION 1.75 Å
Organisms	Enterobacter cloacae
Macromolecule	UDP-N-acetylglucosamine 1-carboxyvinyltransferase (protein)
Unique Ligands	FFQ, UD1

Explore in 3D

3MG9 \| pdb_00003mg9	Download File View File

Teg 12 Binary Structure Complexed with the Teicoplanin Aglycone

Bick, M.J., Banik, J.J., Darst, S.A., Brady, S.F.

(2010) Biochemistry 49: 4159

Released	2010-06-09
Method	X-RAY DIFFRACTION 2.27 Å
Organisms	Nonomuraea gerenzanensis uncultured soil bacterium
Macromolecule	TEG12 (protein) TEICOPLANIN AGLYCONE (protein)
Unique Ligands	FMT, GOL

Explore in 3D

3MGB \| pdb_00003mgb	Download File View File

Teg 12 Ternary Structure Complexed with PAP and the Teicoplanin Aglycone

Bick, M.J., Banik, J.J., Darst, S.A., Brady, S.F.

(2010) Biochemistry 49: 4159

Released	2010-06-09
Method	X-RAY DIFFRACTION 2.04 Å
Organisms	Nonomuraea gerenzanensis uncultured soil bacterium
Macromolecule	TEG12 (protein) TEICOPLANIN AGLYCONE (protein)
Unique Ligands	ACT, CL, PAP

Explore in 3D

3OTH \| pdb_00003oth	Download File View File

Crystal Structure of CalG1, Calicheamicin Glycostyltransferase, TDP and calicheamicin alpha3I bound form

Chang, A., Singh, S., Bingman, C.A., Thorson, J.S., Phillips Jr., G.N., Center for Eukaryotic Structural Genomics (CESG), Enzyme Discovery for Natural Product Biosynthesis (NatPro)

(2011) Proc Natl Acad Sci U S A 108: 17649-17654

Released	2010-12-15
Method	X-RAY DIFFRACTION 2.301 Å
Organisms	Micromonospora echinospora
Macromolecule	CalG1 (protein)
Unique Ligands	CLJ, TYD

Explore in 3D

3OTI \| pdb_00003oti	Download File View File

Crystal Structure of CalG3, Calicheamicin Glycostyltransferase, TDP and calicheamicin T0 bound form

Chang, A., Singh, S., Bingman, C.A., Thorson, J.S., Phillips Jr., G.N., Center for Eukaryotic Structural Genomics (CESG), Enzyme Discovery for Natural Product Biosynthesis (NatPro)

(2011) Proc Natl Acad Sci U S A 108: 17649-17654

Released	2010-12-15
Method	X-RAY DIFFRACTION 1.597 Å
Organisms	Micromonospora echinospora
Macromolecule	CalG3 (protein)
Unique Ligands	C0T, CL, TYD

Explore in 3D

3RE4 \| pdb_00003re4	Download File View File

Crystal Structure of Archaeoglobus Fulgidus Rio1 Kinase bound to Toyocamycin.

Kiburu, I.N., LaRonde-LeBlanc, N.

(2012) PLoS One 7: e37371-e37371

Released	2012-05-09
Method	X-RAY DIFFRACTION 1.997 Å
Organisms	Archaeoglobus fulgidus
Macromolecule	RIO-type serine/threonine-protein kinase Rio1 (protein)
Unique Ligands	TO1

Explore in 3D

3RSC \| pdb_00003rsc	Download File View File

Crystal Structure of CalG2, Calicheamicin Glycosyltransferase, TDP and calicheamicin T0 bound form

Chang, A., Helmich, K.E., Singh, S., Bingman, C.A., Thorson, J.S., Phillips Jr., G.N., Center for Eukaryotic Structural Genomics (CESG), Enzyme Discovery for Natural Product Biosynthesis (NatPro)

(2011) Proc Natl Acad Sci U S A 108: 17649-17654

Released	2011-08-10
Method	X-RAY DIFFRACTION 2.19 Å
Organisms	Micromonospora echinospora
Macromolecule	CalG2 (protein)
Unique Ligands	C0T, PO4, TYD

Explore in 3D

3S95 \| pdb_00003s95	Download File View File

Crystal structure of the human LIMK1 kinase domain in complex with staurosporine

Beltrami, A., Chaikuad, A., Daga, N., Elkins, J.M., Mahajan, P., Savitsky, P., Vollmar, M., Krojer, T., Muniz, J.R.C., Fedorov, O., Allerston, C.K., Yue, W.W., Gileadi, O., von Delft, F., Arrowsmith, C.H., Edwards, A.M., Weigelt, J., Bountra, C., Knapp, S., Bullock, A., Structural Genomics Consortium (SGC)

To be published

Released	2011-07-06
Method	X-RAY DIFFRACTION 1.65 Å
Organisms	Homo sapiens
Macromolecule	LIM domain kinase 1 (protein)
Unique Ligands	CL, GOL, MRD, NA, STU, TRS

Explore in 3D

3SG8 \| pdb_00003sg8	Download File View File

Crystal Structure of Aminoglycoside-2''-Phosphotransferase Type IVa Tobramycin Complex

Shi, K., Houston, D.R., Berghuis, A.M.

(2011) Biochemistry 50: 6237-6244

Released	2011-06-29
Method	X-RAY DIFFRACTION 1.8 Å
Organisms	Enterococcus casseliflavus
Macromolecule	APH(2'')-Id (protein)
Unique Ligands	CL, TOY

Explore in 3D

3SG9 \| pdb_00003sg9	Download File View File

Crystal Structure of Aminoglycoside-2''-Phosphotransferase Type IVa Kanamycin A Complex

Shi, K., Houston, D.R., Berghuis, A.M.

(2011) Biochemistry 50: 6237-6244

Released	2011-06-29
Method	X-RAY DIFFRACTION 2.15 Å
Organisms	Enterococcus casseliflavus
Macromolecule	APH(2'')-Id (protein)
Unique Ligands	CL, KAN

Explore in 3D

3SSN \| pdb_00003ssn	Download File View File

MycE Methyltransferase from the Mycinamycin Biosynthetic Pathway in Complex with Mg, SAH, and Mycinamycin VI

Akey, D.L., Smith, J.L.

(2011) J Mol Biology 413: 438-450

Released	2011-08-24
Method	X-RAY DIFFRACTION 2.392 Å
Organisms	Micromonospora griseorubida
Macromolecule	Methyltransferase (protein)
Unique Ligands	DMS, GOL, MG, MVI, SAH

Explore in 3D

3TM0 \| pdb_00003tm0	Download File View File

Crystal Structure of 3',5"-Aminoglycoside Phosphotransferase Type IIIa AMPPNP Butirosin A Complex

Berghuis, A.M., Fong, D.H.

(2009) Antimicrob Agents Chemother 53: 3049-3055

Released	2011-10-19
Method	X-RAY DIFFRACTION 2.1 Å
Organisms	Enterococcus faecalis
Macromolecule	Aminoglycoside 3'-phosphotransferase (protein)
Unique Ligands	ANP, B31, MG