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233,605 Structures from the PDB

1,068,577 Computed Structure Models (CSM)

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QUERY: Structure Author = "Shuman, S."

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Search Summary

This query matches 160 Structures.

Refinements

Structure Determination Methodology

experimental (160)

Scientific Name of Source Organism

	Acetivibrio thermocellus ATCC 27405 (16)
	Naegleria gruberi (16)
	Schizosaccharomyces pombe (15)
	Pyrococcus horikoshii OT3 (12)
	Mycolicibacterium smegmatis (11)
	Mycolicibacterium smegmatis MC2 155 (9)
	Candida albicans SC5314 (7)
	synthetic construct (7)
	Encephalitozoon cuniculi (6)
	Escherichia coli K-12 (6)

More...

Taxonomy

	Eukaryota (64)
	Bacteria (58)
	Archaea (20)
	Varidnaviria (11)
	other sequences (7)
	Duplodnaviria (5)
	Viruses incertae sedis (1)
	unclassified sequences (1)

Experimental Method

	X-RAY DIFFRACTION (150)
	ELECTRON MICROSCOPY (7)
	SOLUTION NMR (3)

Polymer Entity Type

	Protein (159)
	DNA (17)
	RNA (6)
	NA-hybrid (2)

Refinement Resolution (Å)

	1.0 - 1.5 (9)
	1.5 - 2.0 (61)
	2.0 - 2.5 (53)
	2.5 - 3.0 (25)
	3.0 - 3.5 (4)
	3.5 - 4.0 (5)

Release Date

	1995 - 1999 (3)
	2000 - 2004 (12)
	2005 - 2009 (14)
	2010 - 2014 (39)
	2015 - 2019 (34)
	2020 - 2024 (57)
	2025 - 2029 (1)

Enzyme Classification Name

	Transferases (47)
	Hydrolases (35)
	Ligases (38)
	Isomerases (9)
	Lyases (1)

Symmetry Type

	Asymmetric (134)
	Cyclic (24)
	Dihedral (5)

SCOP Classification

	Alpha and beta proteins (a/b) (10)
	Alpha and beta proteins (a+b) (14)
	All beta proteins (5)
	Artifacts (1)

AllSelected

1 to 25 of 160 Structures

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1A41 \| pdb_00001a41	Download File View File

TYPE 1-TOPOISOMERASE CATALYTIC FRAGMENT FROM VACCINIA VIRUS

Cheng, C., Kussie, P., Pavletich, N., Shuman, S.

(1998) Cell 92: 841-850

Released	1999-06-01
Method	X-RAY DIFFRACTION 2.3 Å
Organisms	Vaccinia virus
Macromolecule	TOPOISOMERASE I (protein)
Unique Ligands	SO4

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1D8H \| pdb_00001d8h	Download File View File

X-RAY CRYSTAL STRUCTURE OF YEAST RNA TRIPHOSPHATASE IN COMPLEX WITH SULFATE AND MANGANESE IONS.

Lima, C.D., Wang, L.K., Shuman, S.

(1999) Cell 99: 533-543

Released	1999-11-29
Method	X-RAY DIFFRACTION 2 Å
Organisms	Saccharomyces cerevisiae
Macromolecule	mRNA TRIPHOSPHATASE CET1 (protein)
Unique Ligands	MN, SO4

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1D8I \| pdb_00001d8i	Download File View File

X-RAY CRYSTAL STRUCTURE OF YEAST RNA TRIPHOSPHATASE IN COMPLEX WITH A SULFATE ION.

Lima, C.D., Wang, L.K., Shuman, S.

(1999) Cell 99: 533-543

Released	1999-11-29
Method	X-RAY DIFFRACTION 2.05 Å
Organisms	Saccharomyces cerevisiae
Macromolecule	MRNA TRIPHOSPHATASE CET1 (protein)
Unique Ligands	SO4

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1FVI \| pdb_00001fvi	Download File View File

CRYSTAL STRUCTURE OF CHLORELLA VIRUS DNA LIGASE-ADENYLATE

Odell, M., Sriskanda, V., Shuman, S., Nikolov, D.B.

(2000) Mol Cell 6: 1183-1193

Released	2000-11-22
Method	X-RAY DIFFRACTION 2 Å
Organisms	Chlorella virus
Macromolecule	CHLORELLA VIRUS DNA LIGASE-ADENYLATE (protein)
Unique Ligands	AMP, SO4

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1I9S \| pdb_00001i9s	Download File View File

CRYSTAL STRUCTURE OF THE RNA TRIPHOSPHATASE DOMAIN OF MOUSE MRNA CAPPING ENZYME

Changela, A., Ho, C.K., Martins, A., Shuman, S., Mondragon, A.

(2001) EMBO J 20: 2575-2586

Released	2001-05-23
Method	X-RAY DIFFRACTION 1.65 Å
Organisms	Mus musculus
Macromolecule	MRNA CAPPING ENZYME (protein)
Unique Ligands	CAC, IPA, MG, SO4

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1I9T \| pdb_00001i9t	Download File View File

CRYSTAL STRUCTURE OF THE OXIDIZED RNA TRIPHOSPHATASE DOMAIN OF MOUSE MRNA CAPPING ENZYME

Changela, A., Ho, C.K., Martins, A., Shuman, S., Mondragon, A.

(2001) EMBO J 20: 2575-2586

Released	2001-05-23
Method	X-RAY DIFFRACTION 1.7 Å
Organisms	Mus musculus
Macromolecule	MRNA CAPPING ENZYME (protein)
Unique Ligands	CAC, IPA, MG, SO4

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1LY1 \| pdb_00001ly1	Download File View File

Structure and Mechanism of T4 Polynucleotide Kinase

Wang, L.K., Lima, C.D., Shuman, S.

(2002) EMBO J 21: 3873-3880

Released	2002-07-17
Method	X-RAY DIFFRACTION 2 Å
Organisms	Tequatrovirus T4
Macromolecule	polynucleotide kinase (protein)
Unique Ligands	SO4

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1P16 \| pdb_00001p16	Download File View File

Structure of an mRNA capping enzyme bound to the phosphorylated carboxyl-terminal domain of RNA polymerase II

Fabrega, C., Shen, V., Shuman, S., Lima, C.D.

(2003) Mol Cell 11: 1549-1561

Released	2003-07-15
Method	X-RAY DIFFRACTION 2.7 Å
Organisms	Candida albicans
Macromolecule	mRNA capping enzyme alpha subunit (protein) phosphorylated peptide from C-terminal of RNA polymerase II (protein)
Unique Ligands	5GP, GTP, PO4

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1P8L \| pdb_00001p8l	Download File View File

New Crystal Structure of Chlorella Virus DNA Ligase-Adenylate

Odell, M., Malinina, L., Teplova, M., Shuman, S.

(2003) Nucleic Acids Res 31: 5090-5100

Released	2003-08-26
Method	X-RAY DIFFRACTION 2.95 Å
Organisms	Paramecium bursaria Chlorella virus 1
Macromolecule	PBCV-1 DNA ligase (protein)
Unique Ligands	AMP

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1RI1 \| pdb_00001ri1	Download File View File

Structure and mechanism of mRNA cap (guanine N-7) methyltransferase

Fabrega, C., Hausmann, S., Shen, V., Shuman, S., Lima, C.D.

(2004) Mol Cell 13: 77-89

Released	2004-02-03
Method	X-RAY DIFFRACTION 2.5 Å
Organisms	Encephalitozoon cuniculi
Macromolecule	mRNA CAPPING ENZYME (protein)
Unique Ligands	GTG, SAH

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1RI2 \| pdb_00001ri2	Download File View File

Structure and mechanism of mRNA cap (guanine N-7) methyltransferase

Fabrega, C., Hausmann, S., Shen, V., Shuman, S., Lima, C.D.

(2004) Mol Cell 13: 77-89

Released	2004-02-03
Method	X-RAY DIFFRACTION 2.7 Å
Organisms	Encephalitozoon cuniculi
Macromolecule	mRNA CAPPING ENZYME (protein)
Unique Ligands	GTG

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1RI3 \| pdb_00001ri3	Download File View File

Structure and mechanism of mRNA cap (guanine N-7) methyltransferase

Fabrega, C., Hausmann, S., Shen, V., Shuman, S., Lima, C.D.

(2004) Mol Cell 13: 77-89

Released	2004-02-03
Method	X-RAY DIFFRACTION 2.5 Å
Organisms	Encephalitozoon cuniculi
Macromolecule	mRNA CAPPING ENZYME (protein)
Unique Ligands	SAH

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1RI4 \| pdb_00001ri4	Download File View File

Structure and mechanism of mRNA cap (guanine N-7) methyltransferase

Fabrega, C., Hausmann, S., Shen, V., Shuman, S., Lima, C.D.

(2004) Mol Cell 13: 77-89

Released	2004-02-03
Method	X-RAY DIFFRACTION 2.4 Å
Organisms	Encephalitozoon cuniculi
Macromolecule	mRNA CAPPING ENZYME (protein)
Unique Ligands	SAM

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1RI5 \| pdb_00001ri5	Download File View File

Structure and mechanism of mRNA cap (guanine N-7) methyltransferase

Fabrega, C., Hausmann, S., Shen, V., Shuman, S., Lima, C.D., Burley, S.K., New York SGX Research Center for Structural Genomics (NYSGXRC)

(2004) Mol Cell 13: 77-89

Released	2004-02-03
Method	X-RAY DIFFRACTION 2.1 Å
Organisms	Encephalitozoon cuniculi
Macromolecule	mRNA CAPPING ENZYME (protein)

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1S68 \| pdb_00001s68	Download File View File

Structure and Mechanism of RNA Ligase

Ho, C.K., Wang, L.K., Lima, C.D., Shuman, S.

(2004) Structure 12: 327-339

Released	2004-02-24
Method	X-RAY DIFFRACTION 1.9 Å
Organisms	Tequatrovirus T4
Macromolecule	RNA Ligase 2 (protein)
Unique Ligands	AMP

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1VS0 \| pdb_00001vs0	Download File View File

Crystal Structure of the Ligase Domain from M. tuberculosis LigD at 2.4A

Akey, D., Martins, A., Aniukwu, J., Glickman, M.S., Shuman, S., Berger, J.M., TB Structural Genomics Consortium (TBSGC)

(2006) J Biological Chem 281: 13412-13423

Released	2006-02-28
Method	X-RAY DIFFRACTION 2.4 Å
Organisms	Mycobacterium tuberculosis H37Rv
Macromolecule	Putative DNA ligase-like protein Rv0938/MT0965 (protein)
Unique Ligands	CL, MG, ZN

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1YN9 \| pdb_00001yn9	Download File View File

Crystal structure of baculovirus RNA 5'-phosphatase complexed with phosphate

Changela, A., Martins, A., Shuman, S., Mondragon, A.

(2005) J Biological Chem 280: 17848-17856

Released	2005-02-22
Method	X-RAY DIFFRACTION 1.5 Å
Organisms	Autographa californica nucleopolyhedrovirus
Macromolecule	polynucleotide 5'-phosphatase (protein)
Unique Ligands	PO4

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1Z3C \| pdb_00001z3c	Download File View File

Encephalitozooan cuniculi mRNA Cap (Guanine-N7) Methyltransferasein complexed with AzoAdoMet

Hausmann, S., Zhang, S., Fabrega, C., Schneller, S.W., Lima, C.D., Shuman, S.

(2005) J Biological Chem 280: 20404-20412

Released	2005-03-22
Method	X-RAY DIFFRACTION 2.2 Å
Organisms	Encephalitozoon cuniculi
Macromolecule	mRNA CAPPING ENZYME (protein)
Unique Ligands	SA8

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2F4Q \| pdb_00002f4q	Download File View File

Crystal Structure of Deinococcus radiodurans topoisomerase IB

Patel, A., Shuman, S., Mondragon, A.

(2006) J Biological Chem 281: 6030-6037

Released	2005-12-27
Method	X-RAY DIFFRACTION 1.75 Å
Organisms	Deinococcus radiodurans
Macromolecule	type I topoisomerase, putative (protein)

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2FAO \| pdb_00002fao	Download File View File

Crystal Structure of Pseudomonas aeruginosa LigD polymerase domain

Zhu, H., Nandakumar, J., Aniukwu, J., Wang, L.K., Glickman, M.S., Lima, C.D., Shuman, S.

(2006) Proc Natl Acad Sci U S A 103: 1711-1716

Released	2006-05-23
Method	X-RAY DIFFRACTION 1.5 Å
Organisms	Pseudomonas aeruginosa
Macromolecule	probable ATP-dependent DNA ligase (protein)
Unique Ligands	SO4

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2FAQ \| pdb_00002faq	Download File View File

Crystal Structure of Pseudomonas aeruginosa LigD polymerase domain with ATP and Manganese

Zhu, H., Nandakumar, J., Aniukwu, J., Wang, L.K., Glickman, M.S., Lima, C.D., Shuman, S.

(2006) Proc Natl Acad Sci U S A 103: 1711-1716

Released	2006-05-23
Method	X-RAY DIFFRACTION 1.9 Å
Organisms	Pseudomonas aeruginosa
Macromolecule	probable ATP-dependent DNA ligase (protein)
Unique Ligands	ATP, MN, SO4

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2FAR \| pdb_00002far	Download File View File

Crystal Structure of Pseudomonas aeruginosa LigD polymerase domain with dATP and Manganese

Zhu, H., Nandakumar, J., Aniukwu, J., Wang, L.K., Glickman, M.S., Lima, C.D., Shuman, S.

(2006) Proc Natl Acad Sci U S A 103: 1711-1716

Released	2006-05-23
Method	X-RAY DIFFRACTION 1.9 Å
Organisms	Pseudomonas aeruginosa
Macromolecule	probable ATP-dependent DNA ligase (protein)
Unique Ligands	DTP, MN, SO4

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2IA5 \| pdb_00002ia5	Download File View File

T4 polynucleotide kinase/phosphatase with bound sulfate and magnesium.

Zhu, H., Smith, P.C., Wang, L.K., Lima, C.D., Shuman, S.

(2007) Virology 366: 126-136

Released	2007-06-05
Method	X-RAY DIFFRACTION 2.9 Å
Organisms	Tequatrovirus T4
Macromolecule	Polynucleotide kinase (protein)
Unique Ligands	ARS, MG, SO4

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2LJ6 \| pdb_00002lj6	Download File View File

Solution Structure and DNA-binding Properties of the Phosphoesterase Domain of DNA Ligase D

Dutta, K., Natarajan, A., Shuman, S., Ghose, R.

(2012) Nucleic Acids Res 40: 2076-2088

Released	2011-11-16
Method	SOLUTION NMR
Organisms	Pseudomonas aeruginosa
Macromolecule	Probable ATP-dependent DNA ligase (protein)

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2OWO \| pdb_00002owo	Download File View File

Last Stop on the Road to Repair: Structure of E.coli DNA Ligase Bound to Nicked DNA-Adenylate

Shuman, S., Nandakumar, J., Nair, P.A.

(2007) Mol Cell 26: 257-271

Released	2007-05-15
Method	X-RAY DIFFRACTION 2.3 Å
Organisms	Escherichia coli K-12
Macromolecule	DNA ligase (protein) 26-MER (nucleic acid) 5'-D(APCPAPAPTPTPGPCPGPAPCP(OMC)PC)-3' (nucleic acid) 5'-D(CPAPCPTPAPTPCPGPGPAPAPTPG)-3' (nucleic acid)
Unique Ligands	AMP, SO4, ZN

1 to 25 of 160 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

1A41 | pdb_00001a41

1D8H | pdb_00001d8h

1D8I | pdb_00001d8i

1FVI | pdb_00001fvi

1I9S | pdb_00001i9s

1I9T | pdb_00001i9t

1LY1 | pdb_00001ly1

1P16 | pdb_00001p16

1P8L | pdb_00001p8l

1RI1 | pdb_00001ri1

1RI2 | pdb_00001ri2

1RI3 | pdb_00001ri3

1RI4 | pdb_00001ri4

1RI5 | pdb_00001ri5

1S68 | pdb_00001s68

1VS0 | pdb_00001vs0

1YN9 | pdb_00001yn9

1Z3C | pdb_00001z3c

2F4Q | pdb_00002f4q

2FAO | pdb_00002fao

2FAQ | pdb_00002faq

2FAR | pdb_00002far

2IA5 | pdb_00002ia5

2LJ6 | pdb_00002lj6

2OWO | pdb_00002owo