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233,605 Structures from the PDB

1,068,577 Computed Structure Models (CSM)

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QUERY: Citation Author = "Xia, S."

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Search Summary

This query matches 137 Structures.

Refinements

Structure Determination Methodology

experimental (137)

Scientific Name of Source Organism

	Escherichia phage RB69 (75)
	Homo sapiens (29)
	synthetic construct (14)
	Severe acute respiratory syndrome coronavirus 2 (13)
	Bacillus cereus VD045 (8)
	Maribacter polysiphoniae (6)
	Influenza A virus (A/Udorn/307/1972(H3N2)) (4)
	Human coronavirus 229E (3)
	Mus musculus (3)
	Human immunodeficiency virus 1 (2)

More...

Taxonomy

	Duplodnaviria (75)
	Eukaryota (32)
	Riboviria (26)
	Bacteria (15)
	other sequences (14)
	Archaea (2)

Experimental Method

	X-RAY DIFFRACTION (106)
	ELECTRON MICROSCOPY (31)

Polymer Entity Type

	Protein (137)
	DNA (82)
	RNA (5)

Refinement Resolution (Å)

	1.0 - 1.5 (1)
	1.5 - 2.0 (41)
	2.0 - 2.5 (50)
	2.5 - 3.0 (15)
	3.0 - 3.5 (12)
	3.5 - 4.0 (12)
	4.0 - 4.5 (4)
	> 4.5 (2)

Release Date

	2005 - 2009 (3)
	2010 - 2014 (79)
	2015 - 2019 (9)
	2020 - 2024 (45)
	2025 - 2029 (1)

Enzyme Classification Name

	Hydrolases (90)
	Transferases (78)
	Oxidoreductases (3)
	Ligases (2)
	Isomerases (1)

Membrane Protein Annotation

	PDBTM (7)
	OPM (6)
	MemProtMD (5)
	mpstruc (2)

Symmetry Type

	Asymmetric (109)
	Cyclic (22)
	Dihedral (6)

SCOP Classification

	Alpha and beta proteins (a/b) (58)
	Multi-domain proteins (alpha and beta) (55)
	Alpha and beta proteins (a+b) (6)
	Artifacts (2)
	All beta proteins (1)

AllSelected

1 to 25 of 137 Structures

Page 1 of 6

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2NS6 \| pdb_00002ns6	Download File View File

Crystal Structure of the Minimal Relaxase Domain of MobA from Plasmid R1162

Monzingo, A.F., Ozburn, A., Xia, S., Meyer, R.J., Robertus, J.D.

(2007) J Mol Biology 366: 165-178

Released	2007-02-06
Method	X-RAY DIFFRACTION 2.1 Å
Organisms	Pseudomonas aeruginosa
Macromolecule	Mobilization protein A (protein)
Unique Ligands	MN

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3EE8 \| pdb_00003ee8	Download File View File

Structure of NS1 effector domain

Xia, S., Monzingo, A.F., Robertus, J.D.

(2009) Acta Crystallogr D Biol Crystallogr 65: 11-17

Released	2009-01-13
Method	X-RAY DIFFRACTION 2.6 Å
Organisms	Influenza A virus (A/Udorn/307/1972(H3N2))
Macromolecule	Non-structural protein 1 (protein)

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3EE9 \| pdb_00003ee9	Download File View File

Structure of NS1 effector domain

Xia, S., Monzingo, A.F., Robertus, J.D.

(2009) Acta Crystallogr D Biol Crystallogr 65: 11-17

Released	2009-01-13
Method	X-RAY DIFFRACTION 2.14 Å
Organisms	Influenza A virus (A/Udorn/307/1972(H3N2))
Macromolecule	Non-structural protein 1 (protein)
Unique Ligands	SO4

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3KWG \| pdb_00003kwg	Download File View File

X-ray structure of NS1 effector domain W187A mutant

Xia, S., Robertus, J.D.

(2010) Arch Biochem Biophys 494: 198-204

Released	2010-02-02
Method	X-RAY DIFFRACTION 2.21 Å
Organisms	Influenza A virus (A/Udorn/307/1972(H3N2))
Macromolecule	Non-structural protein 1 (protein)

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3KWI \| pdb_00003kwi	Download File View File

X-ray structure of NS1 effector domain W187Y mutant

Xia, S., Robertus, J.D.

(2010) Arch Biochem Biophys 494: 198-204

Released	2010-02-02
Method	X-RAY DIFFRACTION 2.21 Å
Organisms	Influenza A virus (A/Udorn/307/1972(H3N2))
Macromolecule	Non-structural protein 1 (protein)

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3NCI \| pdb_00003nci	Download File View File

RB69 DNA Polymerase Ternary Complex with dCTP Opposite dG at 1.8 angstrom resolution

Wang, M., Blaha, G., Steitz, T.A., Konigsberg, W.H., Wang, J.

(2011) Biochemistry 50: 581-590

Released	2011-02-02
Method	X-RAY DIFFRACTION 1.79 Å
Organisms	Escherichia phage RB69
Macromolecule	DNA polymerase (protein) DNA (5'-D(GPCPGPGPAPCPTPGPCPTPTPAP(DOC))-3') (nucleic acid) DNA (5'-D(TPCPAPGPGPTPAPAPGPCPAPGPTPCPCPGPCP*G)-3') (nucleic acid)
Unique Ligands	CA, DCP

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3NDK \| pdb_00003ndk	Download File View File

RB69 DNA Polymerase (Y567A) Ternary Complex with dCTP Opposite dG

Wang, M., Wang, J., Konigsberg, W.H.

(2011) J Mol Biology 406: 558-570

Released	2011-01-26
Method	X-RAY DIFFRACTION 2 Å
Organisms	Escherichia phage RB69
Macromolecule	DNA polymerase (protein) DNA (5'-D(GPCPGPGPAPCPTPGPCPTPTPAP(DOC))-3') (nucleic acid) DNA (5'-D(TPCPAPGPGPTPAPAPGPCPAPGPTPCPCPGPCP*G)-3') (nucleic acid)
Unique Ligands	CA, DCP

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3NE6 \| pdb_00003ne6	Download File View File

RB69 DNA Polymerase (S565G/Y567A) Ternary Complex with dCTP Opposite dG

Wang, M., Wang, J., Konigsberg, W.H.

(2011) J Mol Biology 406: 558-570

Released	2011-01-26
Method	X-RAY DIFFRACTION 2.001 Å
Organisms	Escherichia phage RB69
Macromolecule	DNA polymerase (protein) DNA (5'-D(GPCPGPGPAPCPTPGPCPTPTPAP(DOC))-3') (nucleic acid) DNA (5'-D(TPCPAPGPGPTPAPAPGPCPAPGPTPCPCPGPCP*G)-3') (nucleic acid)
Unique Ligands	CA, DCP

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3NGI \| pdb_00003ngi	Download File View File

RB69 DNA Polymerase (Y567A) Ternary Complex with dTTP Opposite dG

Wang, M., Wang, J., Konigsberg, W.H.

(2011) J Mol Biology 406: 558-570

Released	2011-01-26
Method	X-RAY DIFFRACTION 1.886 Å
Organisms	Escherichia phage RB69
Macromolecule	DNA polymerase (protein) DNA (5'-D(GPCPGPGPAPCPTPGPCPTPTPAP(DOC))-3') (nucleic acid) DNA (5'-D(TPCPAPGPGPTPAPAPGPCPAPGPTPCPCPGPCP*G)-3') (nucleic acid)
Unique Ligands	CA, TTP

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3NHG \| pdb_00003nhg	Download File View File

RB69 DNA Polymerase (S565G/Y567A) Ternary Complex with dTTP Opposite dG

Wang, M., Wang, J., Konigsberg, W.H.

(2011) J Mol Biology 406: 558-570

Released	2011-01-26
Method	X-RAY DIFFRACTION 2.5 Å
Organisms	Escherichia phage RB69
Macromolecule	DNA polymerase (protein) DNA (5'-D(GPCPGPGPAPCPTPGPCPTPTPAP(DOC))-3') (nucleic acid) DNA (5'-D(TPCPAPGPGPTPAPAPGPCPAPGPTPCPCPGPCP*G)-3') (nucleic acid)
Unique Ligands	CA, TTP

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3QEI \| pdb_00003qei	Download File View File

RB69 DNA Polymerase (L561A/S565G/Y567A) Ternary Complex with dCTP Opposite Difluorotoluene Nucleoside

Xia, S., Konigsberg, W.H., Wang, J.

(2012) Biochemistry 51: 1476-1485

Released	2012-01-25
Method	X-RAY DIFFRACTION 2.178 Å
Organisms	Escherichia phage RB69 synthetic construct
Macromolecule	DNA polymerase (protein) DNA (5'-D(GPCPGPGPAPCPTPGPCPTPTPAP(DOC))-3') (nucleic acid) DNA (5'-D(PTPCPGP(DFT)PGPTPAPAPGPCPAPGPTPCPCPGPCP*G)-3') (nucleic acid)
Unique Ligands	CA, DCP

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3QEP \| pdb_00003qep	Download File View File

RB69 DNA Polymerase (L561A/S565G/Y567A) Ternary Complex with dTTP Opposite Difluorotoluene Nucleoside

Xia, S., Konigsberg, W.H., Wang, J.

(2011) J Am Chem Soc 133: 10003-10005

Released	2011-08-31
Method	X-RAY DIFFRACTION 1.8 Å
Organisms	Escherichia phage RB69 synthetic construct
Macromolecule	DNA polymerase (protein) DNA (5'-D(GPCPGPGPAPCPTPGPCPTPTPAP(DOC))-3') (nucleic acid) DNA (5'-D(TPCPGP(DFT)PGPTPAPAPGPCPAPGPTPCPCPGPCP*G)-3') (nucleic acid)
Unique Ligands	CA, TTP

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3QER \| pdb_00003qer	Download File View File

RB69 DNA Polymerase (L561A/S565G/Y567A) Ternary Complex with dATP Opposite Difluorotoluene Nucleoside

Xia, S., Konigsberg, W.H., Wang, J.

(2012) Biochemistry 51: 1476-1485

Released	2012-01-25
Method	X-RAY DIFFRACTION 1.96 Å
Organisms	Escherichia phage RB69 synthetic construct
Macromolecule	DNA polymerase (protein) DNA (5'-D(GPCPGPGPAPCPTPGPCPTPTPAP(DOC))-3') (nucleic acid) DNA (5'-D(PTPCPGP(DFT)PGPTPAPAPGPCPAPGPTPCPCPGPCP*G)-3') (nucleic acid)
Unique Ligands	CA, DTP

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3QES \| pdb_00003qes	Download File View File

RB69 DNA Polymerase (L561A/S565G/Y567A) Ternary Complex with dGTP Opposite Difluorotoluene Nucleoside

Xia, S., Konigsberg, W.H., Wang, J.

(2012) Biochemistry 51: 1476-1485

Released	2012-01-25
Method	X-RAY DIFFRACTION 1.98 Å
Organisms	Escherichia phage RB69
Macromolecule	DNA polymerase (protein) DNA (5'-D(GPCPGPGPAPCPTPGPCPTPTPAP(DOC))-3') (nucleic acid) DNA (5'-D(TPCPGP(DFT)PGPTPAPAPGPCPAPGPTPCPCPGPCP*G)-3') (nucleic acid)
Unique Ligands	CA, DGT

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3QET \| pdb_00003qet	Download File View File

RB69 DNA Polymerase (L561A/S565G/Y567A) Ternary Complex with dTTP Opposite dT

Xia, S., Konigsberg, W.H., Wang, J.

To be published

Released	2012-01-25
Method	X-RAY DIFFRACTION 2.08 Å
Organisms	Escherichia phage RB69
Macromolecule	DNA polymerase (protein) DNA (5'-D(GPCPGPGPAPCPTPGPCPTPTPAP(DOC))-3') (nucleic acid) DNA (5'-D(TPCPAPTPGPTPAPAPGPCPAPGPTPCPCPGPCP*G)-3') (nucleic acid)
Unique Ligands	CA, TTP

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3QEV \| pdb_00003qev	Download File View File

RB69 DNA Polymerase (L561A/S565G/Y567A) Ternary Complex with dCTP Opposite dT

Xia, S., Konigsberg, W.H., Wang, J.

To be published

Released	2012-01-25
Method	X-RAY DIFFRACTION 1.77 Å
Organisms	Escherichia phage RB69 synthetic construct
Macromolecule	DNA polymerase (protein) DNA (5'-D(GPCPGPGPAPCPTPGPCPTPTPAP(DOC))-3') (nucleic acid) DNA (5'-D(TPCPGPTPGPTPAPAPGPCPAPGPTPCPCPGPCP*G)-3') (nucleic acid)
Unique Ligands	CA, DCP

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3QEW \| pdb_00003qew	Download File View File

RB69 DNA Polymerase (L561A/S565G/Y567A) Ternary Complex with dDTP Opposite dT

Xia, S., Konigsberg, W.H., Wang, J.

To be published

Released	2012-01-25
Method	X-RAY DIFFRACTION 1.84 Å
Organisms	Escherichia phage RB69 synthetic construct
Macromolecule	DNA polymerase (protein) DNA (5'-D(GPCPGPGPAPCPTPGPCPTPTPAP(DOC))-3') (nucleic acid) DNA (5'-D(TPCPAPTPGPTPAPAPGPCPAPGPTPCPCPGPCP*G)-3') (nucleic acid)
Unique Ligands	CA, DTP

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3QEX \| pdb_00003qex	Download File View File

RB69 DNA Polymerase (L561A/S565G/Y567A) Ternary Complex with dGTP Opposite dT

Xia, S., Konigsberg, W.H., Wang, J.

To be published

Released	2012-01-25
Method	X-RAY DIFFRACTION 1.73 Å
Organisms	Escherichia phage RB69 synthetic construct
Macromolecule	DNA polymerase (protein) DNA (5'-D(GPCPGPGPAPCPTPGPCPTPTPAP(DOC))-3') (nucleic acid) DNA (5'-D(TPCPAPTPGPTPAPAPGPCPAPGPTPCPCPGPCP*G)-3') (nucleic acid)
Unique Ligands	CA, DGT

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3QNN \| pdb_00003qnn	Download File View File

RB69 DNA Polymerase (Y567A) Ternary Complex with dGT Opposite 3tCo

Xia, S., Wang, M., Wang, J., Konigsberg, W.H.

(2012) Biochemistry 51: 4609-4617

Released	2012-02-08
Method	X-RAY DIFFRACTION 1.92 Å
Organisms	Escherichia phage RB69
Macromolecule	DNA polymerase (protein) DNA Primer (nucleic acid) DNA Template (nucleic acid)
Unique Ligands	CA, DGT

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3QNO \| pdb_00003qno	Download File View File

RB69 DNA Polymerase (Y567A) Ternary Complex with dATP Opposite 3tCo

Xia, S., Wang, M., Wang, J., Konigsberg, W.H.

(2012) Biochemistry 51: 4609-4617

Released	2012-03-14
Method	X-RAY DIFFRACTION 1.88 Å
Organisms	Escherichia phage RB69
Macromolecule	DNA Polymerase (protein) DNA Primer (nucleic acid) DNA Tempalte (nucleic acid)
Unique Ligands	ATP, CA

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3RWU \| pdb_00003rwu	Download File View File

RB69 DNA Polymerase (Y567A) Ternary Complex with dATP Opposite Difluorotoluene Nucleoside

Xia, S., Konigsberg, W.H., Wang, J.

(2011) J Am Chem Soc 133: 10003-10005

Released	2011-06-29
Method	X-RAY DIFFRACTION 2.33 Å
Organisms	Escherichia phage RB69
Macromolecule	DNA polymerase (protein) 5'-D(GPCPGPGPAPCPTPGPCPTPTPAP(DOC))-3' (nucleic acid) 5'-D(TPCPGP(DFT)PGPTPAPAPGPCPAPGPTPCPCPGPCP*G)-3' (nucleic acid)
Unique Ligands	ATP, CA

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3S9H \| pdb_00003s9h	Download File View File

RB69 DNA Polymerase Triple Mutant(L561A/S565G/Y567A) ternary complex with dUpNpp and a dideoxy-terminated primer in the presence of Ca2+

Wang, M., Wang, J., Konigsberg, W.H.

(2011) Biochemistry 50: 9114-9124

Released	2011-10-12
Method	X-RAY DIFFRACTION 1.95 Å
Organisms	Escherichia phage RB69
Macromolecule	DNA polymerase (protein) 5'-D(GPCPGPGPAPCPTPGPCPTPTPAP(DOC))-3' (nucleic acid) 5'-D(TPCPAPAPGPTPAPAPGPCPAPGPTPCPCPGPCP*G)-3' (nucleic acid)
Unique Ligands	CA, DUP

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3SCX \| pdb_00003scx	Download File View File

RB69 DNA Polymerase Triple Mutant(L561A/S565G/Y567A) Ternary Complex with dUpNpp and a Deoxy-terminated Primer in the Presence of Ca2+

Wang, M., Wang, J., Konigsberg, W.H.

(2011) Biochemistry 50: 9114-9124

Released	2011-10-12
Method	X-RAY DIFFRACTION 2.35 Å
Organisms	Escherichia phage RB69
Macromolecule	DNA polymerase (protein) 5'-D(GPCPGPGPAPCPTPGPCPTPTPAPC)-3' (nucleic acid) 5'-D(TPCPAPAPGPTPAPAPGPCPAPGPTPCPCPGPCP*G)-3' (nucleic acid)
Unique Ligands	CA, DUP

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3SI6 \| pdb_00003si6	Download File View File

RB69 DNA Polymerase Triple Mutant (L561A/S565G/Y567A) Ternary Complex with dUpNpp and a Deoxy-terminated Primer in the presence of Mg2+

Wang, M., Wang, J., Konigsberg, W.H.

(2011) Biochemistry 50: 9114-9124

Released	2011-10-12
Method	X-RAY DIFFRACTION 1.85 Å
Organisms	Escherichia phage RB69
Macromolecule	DNA polymerase (protein) 5'-D(GPCPGPGPAPCPTPGPCPTPTPAPC)-3' (nucleic acid) 5'-D(TPCPAPAPGPTPAPAPGPCPAPGPTPCPCPGPCP*G)-3' (nucleic acid)
Unique Ligands	DUP, MG

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3SJJ \| pdb_00003sjj	Download File View File

RB69 DNA Polymerase Triple Mutant (L561A/S565G/Y567A) Ternary Complex with dUpNpp and a Deoxy-terminated Primer in the presence of Mn2+

Wang, M., Wang, J., Konigsberg, W.H.

(2011) Biochemistry 50: 9114-9124

Released	2011-10-12
Method	X-RAY DIFFRACTION 2.38 Å
Organisms	Escherichia phage RB69
Macromolecule	DNA polymerase (protein) 5'-D(GPCPGPGPAPCPTPGPCPTPTPAPC)-3' (nucleic acid) 5'-D(TPCPAPAPGPTPAPAPGPCPAPGPTPCPCPGPCP*G)-3' (nucleic acid)
Unique Ligands	DUP, MN

1 to 25 of 137 Structures

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RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729.

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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

Membrane Protein Annotation

Symmetry Type

SCOP Classification

2NS6 | pdb_00002ns6

3EE8 | pdb_00003ee8

3EE9 | pdb_00003ee9

3KWG | pdb_00003kwg

3KWI | pdb_00003kwi

3NCI | pdb_00003nci

3NDK | pdb_00003ndk

3NE6 | pdb_00003ne6

3NGI | pdb_00003ngi

3NHG | pdb_00003nhg

3QEI | pdb_00003qei

3QEP | pdb_00003qep

3QER | pdb_00003qer

3QES | pdb_00003qes

3QET | pdb_00003qet

3QEV | pdb_00003qev

3QEW | pdb_00003qew

3QEX | pdb_00003qex

3QNN | pdb_00003qnn

3QNO | pdb_00003qno

3RWU | pdb_00003rwu

3S9H | pdb_00003s9h

3SCX | pdb_00003scx

3SI6 | pdb_00003si6

3SJJ | pdb_00003sjj