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233,605 Structures from the PDB

1,068,577 Computed Structure Models (CSM)

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QUERY: Citation Author = "Kori, S."

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Search Summary

This query matches 850 Structures.

Refinements

Structure Determination Methodology

experimental (850)

Scientific Name of Source Organism

	Homo sapiens (408)
	Severe acute respiratory syndrome coronavirus 2 (86)
	Mus musculus (39)
	Mycolicibacterium smegmatis MC2 155 (32)
	Mycobacterium tuberculosis H37Rv (31)
	synthetic construct (22)
	Pseudomonas aeruginosa PAO1 (19)
	Arabidopsis thaliana (18)
	Escherichia coli K-12 (12)
	Hepacivirus hominis (12)

More...

Taxonomy

	Eukaryota (528)
	Bacteria (247)
	Riboviria (145)
	other sequences (22)
	Duplodnaviria (20)
	Riboviria (RNA viruses and viroids) (10)
	Eukaryota (eukaryotes) (3)
	Archaea (2)
	Varidnaviria (2)
	unclassified sequences (1)

Experimental Method

	X-RAY DIFFRACTION (561)
	ELECTRON MICROSCOPY (271)
	SOLUTION NMR (18)

Polymer Entity Type

	Protein (841)
	DNA (31)
	RNA (24)

Refinement Resolution (Å)

	1.0 - 1.5 (25)
	1.5 - 2.0 (154)
	2.0 - 2.5 (208)
	2.5 - 3.0 (198)
	3.0 - 3.5 (144)
	3.5 - 4.0 (83)
	4.0 - 4.5 (11)
	> 4.5 (8)

Release Date

	1995 - 1999 (2)
	2000 - 2004 (19)
	2005 - 2009 (92)
	2010 - 2014 (82)
	2015 - 2019 (181)
	2020 - 2024 (454)
	2025 - 2029 (20)

Enzyme Classification Name

	Transferases (162)
	Hydrolases (178)
	Translocases (22)
	Oxidoreductases (27)
	Lyases (17)
	Isomerases (11)
	Ligases (1)

Membrane Protein Annotation

	PDBTM (131)
	mpstruc (81)
	MemProtMD (91)
	OPM (70)

Symmetry Type

	Asymmetric (562)
	Cyclic (262)
	Dihedral (40)
	Helical (8)
	Icosahedral (3)
	Octahedral (1)
	Tetrahedral (1)

SCOP Classification

	Alpha and beta proteins (a+b) (110)
	All beta proteins (58)
	Alpha and beta proteins (a/b) (52)
	Artifacts (48)
	All alpha proteins (39)
	Coiled coil proteins (1)
	Multi-domain proteins (alpha and beta) (1)

AllSelected

1 to 25 of 850 Structures

Page 1 of 34

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1AQZ \| pdb_00001aqz	Download File View File

CRYSTAL STRUCTURE OF A HIGHLY SPECIFIC ASPERGILLUS RIBOTOXIN, RESTRICTOCIN

Yang, X., Moffat, K.

(1996) Structure 4: 837-852

Released	1997-11-12
Method	X-RAY DIFFRACTION 1.7 Å
Organisms	Aspergillus restrictus
Macromolecule	RESTRICTOCIN (protein)
Unique Ligands	PO4

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1CX5 \| pdb_00001cx5	Download File View File

ANTISENSE DNA/RNA HYBRID CONTAINING MODIFIED BACKBONE

Yang, X., Han, X., Cross, C., Sanghvi, Y., Gao, X.

(1999) Biochemistry 38: 12586-12596

Released	1999-09-14
Method	SOLUTION NMR
Macromolecule	5'-D(CPGPCPGPTPT(MMT)PTPGPCPGPC) (nucleic acid) 5'-R(GPCPGPCPAPAPAPAPCPGPCPG) (nucleic acid)

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1FJ1 \| pdb_00001fj1	Download File View File

LYME DISEASE ANTIGEN OSPA IN COMPLEX WITH NEUTRALIZING ANTIBODY FAB LA-2

Ding, W., Lawson, C.L.

(2000) J Mol Biology 302: 1153-1164

Released	2000-10-11
Method	X-RAY DIFFRACTION 2.68 Å
Organisms	Borreliella burgdorferi B31 Mus musculus
Macromolecule	HYBRIDOMA ANTIBODY LA2 (HEAVY CHAIN) (protein) HYBRIDOMA ANTIBODY LA2 (LIGHT CHAIN) (protein) OUTER SURFACE PROTEIN A (protein)

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1I3W \| pdb_00001i3w	Download File View File

ACTINOMYCIN D BINDING TO CGATCGATCG

Robinson, H., Gao, Y.-G., Yang, X.-L., Sanishvili, R., Joachimiak, A., Wang, A.H.-J.

(2001) Biochemistry 40: 5587

Released	2001-05-21
Method	X-RAY DIFFRACTION 1.7 Å
Organisms	Streptomyces antibioticus
Macromolecule	ACTINOMYCIN D (protein) 5'-D(CGPAPTPCPGPAP(BRU)PCPGP)-3' (nucleic acid)

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1JBR \| pdb_00001jbr	Download File View File

Crystal Structure of the Ribotoxin Restrictocin and a 31-mer SRD RNA Inhibitor

Yang, X., Gerczei, T., Glover, L., Correll, C.C.

(2001) Nat Struct Biol 8: 968-973

Released	2001-10-26
Method	X-RAY DIFFRACTION 2.15 Å
Organisms	Aspergillus restrictus
Macromolecule	Restrictocin (protein) 31-mer SRD RNA analog (nucleic acid) 5'-R(GPCPGPCPUPCPCPUPCPAPGPUPAPCPGPAPGP(A23))-3' (nucleic acid) 5'-R(GPGPAPAPCPCPGPGPAPGPCPGP*C)-3' (nucleic acid)
Unique Ligands	K

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1JBS \| pdb_00001jbs	Download File View File

Crystal structure of ribotoxin restrictocin and a 29-mer SRD RNA analog

Yang, X., Gerczei, T., Glover, L., Correll, C.C.

(2001) Nat Struct Biol 8: 968-973

Released	2001-10-26
Method	X-RAY DIFFRACTION 1.97 Å
Organisms	Aspergillus restrictus
Macromolecule	restrictocin (protein) 29-mer sarcin/ricin domain RNA analog (nucleic acid)
Unique Ligands	K

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1JBT \| pdb_00001jbt	Download File View File

CRYSTAL STRUCTURE OF RIBOTOXIN RESTRICTOCIN COMPLEXED WITH A 29-MER SARCIN/RICIN DOMAIN RNA ANALOG

Yang, X., Gerczei, T., Glover, L., Correll, C.C.

(2001) Nat Struct Biol 8: 968-973

Released	2001-10-26
Method	X-RAY DIFFRACTION 2.7 Å
Organisms	Aspergillus restrictus
Macromolecule	RESTRICTOCIN (protein) 29-MER SARCIN/RICIN DOMAIN RNA ANALOG (nucleic acid)
Unique Ligands	K

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1K8J \| pdb_00001k8j	Download File View File

NMR STRUCTURE OF THE CK14 DNA DUPLEX: A PORTION OF THE KNOWN NF-kB SEQUENCE CK1

Volk, D.E., Yang, X., Fennewald, S.M., King, D.J., Bassett, S.E., Venkitachalam, S., Herzog, N., Luxon, B.A., Gorenstein, D.G.

(2002) Bioorg Chem 30: 396-419

Released	2003-04-15
Method	SOLUTION NMR
Macromolecule	FIRST STRAND OF CK14 DNA DUPLEX (nucleic acid) SECOND STRAND OF CK14 DNA DUPLEX (nucleic acid)

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1K8L \| pdb_00001k8l	Download File View File

XBY6: An analog of CK14 containing 6 dithiophosphate groups

Volk, D.E., Yang, X., Fennewald, S.M., King, D.J., Bassett, S.E., Venkitachalam, S., Herzog, N., Luxon, B.A., Gorenstein, D.G.

(2002) Bioorg Chem 30: 396-419

Released	2003-04-15
Method	SOLUTION NMR
Macromolecule	FIRST STRAND OF CK14 DNA DUPLEX (nucleic acid) SECOND STRAND OF CK14 DNA DUPLEX (nucleic acid)

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1K8N \| pdb_00001k8n	Download File View File

NMR structure of the XBY2 DNA duplex, an analog of CK14 containing phosphorodithioate groups at C22 and C24

Volk, D.E., Yang, X., Fennewald, S.M., King, D.J., Bassett, S.E., Venkitachalam, S., Herzog, N., Luxon, B.A., Gorenstein, D.G.

(2002) Bioorg Chem 30: 396-419

Released	2003-04-15
Method	SOLUTION NMR
Macromolecule	FIRST STRAND OF CK14 DNA DUPLEX (nucleic acid) SECOND STRAND OF CK14 DNA DUPLEX (nucleic acid)

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1LI4 \| pdb_00001li4	Download File View File

Human S-adenosylhomocysteine hydrolase complexed with neplanocin

Yang, X., Hu, Y., Yin, D.H., Turner, M.A., Wang, M., Borchardt, R.T., Howell, P.L., Kuczera, K., Schowen, R.L.

(2003) Biochemistry 42: 1900-1909

Released	2003-05-20
Method	X-RAY DIFFRACTION 2.01 Å
Organisms	Homo sapiens
Macromolecule	S-adenosylhomocysteine hydrolase (protein)
Unique Ligands	IPA, NAD, NOC

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1NBS \| pdb_00001nbs	Download File View File

Crystal structure of the specificity domain of Ribonuclease P RNA

Krasilnikov, A.S., Yang, X., Pan, T., Mondragon, A.

(2003) Nature 421: 760-764

Released	2003-02-18
Method	X-RAY DIFFRACTION 3.15 Å
Organisms	Bacillus subtilis
Macromolecule	RIBONUCLEASE P RNA (nucleic acid)
Unique Ligands	MG, PB

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1NOQ \| pdb_00001noq	Download File View File

e-motif structure

Zheng, M., Huang, X., Smith, G.K., Yang, X., Gao, X.

(1996) J Mol Biology 264: 323-336

Released	2003-02-11
Method	SOLUTION NMR
Macromolecule	5'-D(CPCPGPCPCPG)-3' (nucleic acid)

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1R5K \| pdb_00001r5k	Download File View File

Human Estrogen Receptor alpha Ligand-Binding Domain In Complex With GW5638

Wu, Y.-L., Yang, X., Ren, Z., McDonnell, D.P., Norris, J.D., Willson, T.M., Greene, G.L.

(2005) Mol Cell 18: 413-424

Released	2004-11-23
Method	X-RAY DIFFRACTION 2.7 Å
Organisms	Homo sapiens
Macromolecule	Estrogen receptor (protein)
Unique Ligands	GW5

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1RKT \| pdb_00001rkt	Download File View File

Crystal structure of yfiR, a putative transcriptional regulator from Bacillus subtilis

Anderson, W.F., Rajan, S.S., Yang, X., Midwest Center for Structural Genomics (MCSG)

(2006) Proteins 65: 255-257

Released	2004-04-13
Method	X-RAY DIFFRACTION 1.95 Å
Organisms	Bacillus subtilis
Macromolecule	protein yfiR (protein)
Unique Ligands	UNX

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1RXQ \| pdb_00001rxq	Download File View File

YfiT from Bacillus subtilis is a probable metal-dependent hydrolase with an unusual four-helix bundle topology

Rajan, S.S., Yang, X., Anderson, W.F., Midwest Center for Structural Genomics (MCSG)

(2004) Biochemistry 43: 15472-15479

Released	2004-07-20
Method	X-RAY DIFFRACTION 1.7 Å
Organisms	Bacillus subtilis
Macromolecule	yfiT (protein)
Unique Ligands	ALA, GLU, GLY, NI, SER, THR

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1TO9 \| pdb_00001to9	Download File View File

Crystal structure of THI-4 protein from Bacillus subtilis

Rajan, S.S., Shuvalova, L., Yang, X., Anderson, W.F., Midwest Center for Structural Genomics (MCSG)

To be published

Released	2004-08-10
Method	X-RAY DIFFRACTION 2.4 Å
Organisms	Bacillus subtilis
Macromolecule	THI-4 protein (protein)
Unique Ligands	HMH

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1U8X \| pdb_00001u8x	Download File View File

CRYSTAL STRUCTURE OF GLVA FROM BACILLUS SUBTILIS, A METAL-REQUIRING, NAD-DEPENDENT 6-PHOSPHO-ALPHA-GLUCOSIDASE

Rajan, S.S., Yang, X., Collart, F., Anderson, W.F., Midwest Center for Structural Genomics (MCSG)

(2004) Structure 12: 1619-1629

Released	2004-08-24
Method	X-RAY DIFFRACTION 2.05 Å
Organisms	Bacillus subtilis
Macromolecule	Maltose-6'-phosphate glucosidase (protein)
Unique Ligands	G6P, MN, NAD

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1UP4 \| pdb_00001up4	Download File View File

Structure of the 6-phospho-beta glucosidase from Thermotoga maritima at 2.85 Angstrom resolution in the monoclinic form

Varrot, A., Yip, V., Withers, S.G., Davies, G.J.

(2005) J Mol Biology 346: 423

Released	2004-11-18
Method	X-RAY DIFFRACTION 2.85 Å
Organisms	Thermotoga maritima MSB8
Macromolecule	6-PHOSPHO-BETA-GLUCOSIDASE (protein)

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1UP6 \| pdb_00001up6	Download File View File

Structure of the 6-phospho-beta glucosidase from Thermotoga maritima at 2.55 Angstrom resolution in the tetragonal form with manganese, NAD+ and glucose-6-phosphate

Varrot, A., Yip, V.L., Withers, S.G., Davies, G.J.

(2004) J Am Chem Soc 126: 8354

Released	2004-08-02
Method	X-RAY DIFFRACTION 2.55 Å
Organisms	Thermotoga maritima MSB8
Macromolecule	6-PHOSPHO-BETA-GLUCOSIDASE (protein)
Unique Ligands	G6P, MN, NAD, SO4

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1UP7 \| pdb_00001up7	Download File View File

Structure of the 6-phospho-beta glucosidase from Thermotoga maritima at 2.4 Angstrom resolution in the tetragonal form with NAD and glucose-6-phosphate

Varrot, A., Yip, V.L., Withers, S.G., Davies, G.J.

(2005) J Mol Biology 346: 423

Released	2004-11-18
Method	X-RAY DIFFRACTION 2.4 Å
Organisms	Thermotoga maritima MSB8
Macromolecule	6-PHOSPHO-BETA-GLUCOSIDASE (protein)
Unique Ligands	G6P, NAD, SO4

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1VR4 \| pdb_00001vr4	Download File View File

Crystal Structure of MCSG TArget APC22750 from Bacillus cereus

Yang, X., Brunzelle, J.S., McNamara, L.K., Minasov, G., Shuvalova, L., Collart, F.R., Anderson, W.F., Midwest Center for Structural Genomics (MCSG)

To be published

Released	2005-02-08
Method	X-RAY DIFFRACTION 2.09 Å
Organisms	Bacillus cereus ATCC 14579
Macromolecule	hypothetical protein APC22750 (protein)

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1Y2I \| pdb_00001y2i	Download File View File

Crystal Structure of MCSG Target APC27401 from Shigella flexneri

Brunzelle, J.S., Minasov, G., Yang, X., Shuvalova, L., Collart, F.R., Anderson, W.F., Midwest Center for Structural Genomics (MCSG)

To be published

Released	2005-01-04
Method	X-RAY DIFFRACTION 2.3 Å
Organisms	Shigella flexneri 2a str. 2457T
Macromolecule	Hypothetical Protein S0862 (protein)

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2A4G \| pdb_00002a4g	Download File View File

Hepatitis C Protease NS3-4A serine protease with Ketoamide Inhibitor SCH225724 Bound

Arasappan, A., Njoroge, F.G., Chan, T.Y., Bennett, F., Bogen, S.L., Chen, K., Gu, H., Hong, L., Jao, E., Liu, Y.T., Lovey, R.G., Parekh, T., Pike, R.E., Pinto, P., Santhanam, B., Venkatraman, S., Vaccaro, H., Wang, H., Yang, X., Zhu, Z., Mckittrick, B., Saksena, A.K., Girijavallabhan, V., Pichardo, J., Butkiewicz, N., Ingram, R., Malcolm, B., Prongay, A.J., Yao, N., Marten, B., Madison, V., Kemp, S., Levy, O., Lim-Wilby, M., Tamura, S., Ganguly, A.K.

(2005) Bioorg Med Chem Lett 15: 4180-4184

Released	2006-07-04
Method	X-RAY DIFFRACTION 2.5 Å
Organisms	Hepacivirus hominis Hepatitis C virus subtype 1b
Macromolecule	NS3 protease/helicase (protein) NS4a peptide (protein)
Unique Ligands	UNH, ZN

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2A4Q \| pdb_00002a4q	Download File View File

HCV NS3 protease with NS4a peptide and a covalently bound macrocyclic ketoamide compound.

Chen, K.X., Njoroge, F.G., Prongay, A., Pichardo, J., Madison, V., Girijavallabhan, V.

(2005) Bioorg Med Chem Lett 15: 4475-4478

Released	2006-07-04
Method	X-RAY DIFFRACTION 2.45 Å
Organisms	Hepacivirus hominis
Macromolecule	NS3 protease/helicase' (protein) NS4a peptide (protein)
Unique Ligands	BME, FNH, ZN

1 to 25 of 850 Structures

Page 1 of 34

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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

1AQZ | pdb_00001aqz

1CX5 | pdb_00001cx5

1FJ1 | pdb_00001fj1

1I3W | pdb_00001i3w

1JBR | pdb_00001jbr

1JBS | pdb_00001jbs

1JBT | pdb_00001jbt

1K8J | pdb_00001k8j

1K8L | pdb_00001k8l

1K8N | pdb_00001k8n

1LI4 | pdb_00001li4

1NBS | pdb_00001nbs

1NOQ | pdb_00001noq

1R5K | pdb_00001r5k

1RKT | pdb_00001rkt

1RXQ | pdb_00001rxq

1TO9 | pdb_00001to9

1U8X | pdb_00001u8x

1UP4 | pdb_00001up4

1UP6 | pdb_00001up6

1UP7 | pdb_00001up7

1VR4 | pdb_00001vr4

1Y2I | pdb_00001y2i

2A4G | pdb_00002a4g

2A4Q | pdb_00002a4q