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234,136 Structures from the PDB

1,068,577 Computed Structure Models (CSM)

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QUERY: Structure Author = "Yin, J."

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Search Summary

This query matches 85 Structures.

Refinements

Structure Determination Methodology

experimental (85)

Scientific Name of Source Organism

	Homo sapiens (64)
	Mus musculus (9)
	Pyrococcus abyssi GE5 (6)
	synthetic construct (4)
	Helicoverpa armigera nucleopolyhedrovirus (3)
	Hepatovirus A (3)
	Pseudomonas sp. 130 (3)
	Severe acute respiratory syndrome-related coronavirus (3)
	Archaeoglobus fulgidus (2)
	Human hepatitis A virus Hu/Northern Africa/MBB/1978 (2)

More...

Taxonomy

	Eukaryota (64)
	Archaea (9)
	Riboviria (8)
	Bacteria (6)
	other sequences (4)
	Viruses incertae sedis (3)
	Duplodnaviria (1)
	Eukaryota (eukaryotes) (1)

Experimental Method

	X-RAY DIFFRACTION (79)
	ELECTRON MICROSCOPY (4)
	SOLUTION NMR (2)

Polymer Entity Type

	Protein (85)
	DNA (2)

Refinement Resolution (Å)

	1.0 - 1.5 (4)
	1.5 - 2.0 (18)
	2.0 - 2.5 (28)
	2.5 - 3.0 (21)
	3.0 - 3.5 (7)
	3.5 - 4.0 (5)

Release Date

	1995 - 1999 (1)
	2000 - 2004 (13)
	2005 - 2009 (11)
	2010 - 2014 (14)
	2015 - 2019 (34)
	2020 - 2024 (12)

Enzyme Classification Name

	Transferases (29)
	Hydrolases (27)
	Lyases (2)
	Ligases (1)

Membrane Protein Annotation

	PDBTM (8)
	mpstruc (8)
	MemProtMD (7)
	OPM (5)

Symmetry Type

	Asymmetric (68)
	Cyclic (16)
	Dihedral (4)
	Helical (1)

SCOP Classification

	All beta proteins (19)
	Alpha and beta proteins (a+b) (33)
	Artifacts (10)
	Small proteins (4)
	Alpha and beta proteins (a/b) (3)
	Peptides (1)

AllSelected

1 to 25 of 85 Structures

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1FL5 \| pdb_00001fl5	Download File View File

THE UNLIGANDED GERMLINE PRECURSOR TO THE SULFIDE OXIDASE CATALYTIC ANTIBODY 28B4.

Yin, J., Mundorff, E.C., Yang, P.L., Wendt, K.U., Hanway, D., Stevens, R.C., Schultz, P.G.

(2001) Biochemistry 40: 10764-10773

Released	2001-11-14
Method	X-RAY DIFFRACTION 2.1 Å
Organisms	Homo sapiens Mus musculus
Macromolecule	ANTIBODY GERMLINE PRECURSOR TO ANTIBODY 28B4 (protein)
Unique Ligands	SO4

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1FL6 \| pdb_00001fl6	Download File View File

THE HAPTEN COMPLEXED GERMLINE PRECURSOR TO SULFIDE OXIDASE CATALYTIC ANTIBODY 28B4

Yin, J., Mundorff, E.C., Yang, P.L., Wendt, K.U., Hanway, D., Stevens, R.C., Schultz, P.G.

(2001) Biochemistry 40: 10764-10773

Released	2001-11-14
Method	X-RAY DIFFRACTION 2.8 Å
Organisms	Homo sapiens Mus musculus
Macromolecule	ANTIBODY GERMLINE PRECURSOR TO 28B4 (protein)
Unique Ligands	AAH

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1JPY \| pdb_00001jpy	Download File View File

Crystal structure of IL-17F

Hymowitz, S.G., Filvaroff, E.H., Yin, J., Lee, J., Cai, L., Risser, P., Maruoka, M., Mao, W., Foster, J., Kelley, R., Pan, G., Gurney, A.L., de Vos, A.M., Starovasnik, M.A.

(2001) EMBO J 20: 5332-5341

Released	2001-09-28
Method	X-RAY DIFFRACTION 2.85 Å
Organisms	Homo sapiens
Macromolecule	interleukin 17F (protein)
Unique Ligands	NAG, SO4
Unique branched monosaccharides	NAG, NDG

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1MPV \| pdb_00001mpv	Download File View File

Structure of bhpBR3, the BAFF-binding loop of BR3 embedded in a beta-hairpin peptide

Kayagaki, N., Yan, M., Seshasayee, D., Wang, H., Lee, W., French, D.M., Grewal, I.S., Cochran, A.G., Gordon, N.C., Yin, J., Starovasnik, M.A., Dixit, V.M.

(2002) Immunity 17: 515-524

Released	2002-10-30
Method	SOLUTION NMR
Organisms	Homo sapiens
Macromolecule	BLyS Receptor 3 (protein)

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1N7M \| pdb_00001n7m	Download File View File

Germline 7G12 with N-methylmesoporphyrin

Yin, J., Andryski, S.E., Beuscher IV, A.E., Stevens, R.C., Schultz, P.G.

(2003) Proc Natl Acad Sci U S A 100: 856-861

Released	2003-02-04
Method	X-RAY DIFFRACTION 1.8 Å
Organisms	Homo sapiens Mus musculus
Macromolecule	Germline Metal Chelatase Catalytic Antibody, chain H (protein) Germline Metal Chelatase Catalytic Antibody, chain L (protein)
Unique Ligands	MMP

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1NGW \| pdb_00001ngw	Download File View File

Chimeric Affinity Matured Fab 7g12 complexed with mesoporphyrin

Yin, J., Andryski, S.E., Beuscher IV, A.E., Stevens, R.C., Schultz, P.G.

(2003) Proc Natl Acad Sci U S A 100: 856-861

Released	2003-02-04
Method	X-RAY DIFFRACTION 2.6 Å
Organisms	Homo sapiens Mus musculus
Macromolecule	Mature Metal Chelatase Catalytic Antibody, Heavy chain (protein) Mature Metal Chelatase Catalytic Antibody, Light chain (protein)
Unique Ligands	MMP

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1NGX \| pdb_00001ngx	Download File View File

Chimeric Germline Fab 7g12 with jeffamine fragment bound

Yin, J., Andryski, S.E., Beuscher, A.B., Stevens, R.C., Schultz, P.G.

(2003) Proc Natl Acad Sci U S A 100: 856-861

Released	2003-03-18
Method	X-RAY DIFFRACTION 1.8 Å
Organisms	Homo sapiens Mus musculus
Macromolecule	Germline Metal Chelatase Catalytic Antibody, Heavy chain (protein) Germline Metal Chelatase Catalytic Antibody, Light chain (protein)
Unique Ligands	JEF

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1NGY \| pdb_00001ngy	Download File View File

Chimeric Mature Fab 7g12-Apo

Yin, J., Andryski, S.A., Beuscher, A.B., Stevens, R.C., Schultz, P.G.

(2003) Proc Natl Acad Sci U S A 100: 856-861

Released	2003-02-04
Method	X-RAY DIFFRACTION 2.2 Å
Organisms	Homo sapiens Mus musculus
Macromolecule	Mature Metal Chelatase Catalytic Antibody, Heavy chain (protein) Mature Metal Chelatase Catalytic Antibody, Light chain (protein)

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1NGZ \| pdb_00001ngz	Download File View File

Chimeric Germline Fab 7g12-apo

Yin, J., Andryski, S.A., Beuscher, A.B., Stevens, R.C., Schultz, P.G.

(2003) Proc Natl Acad Sci U S A 100: 856-861

Released	2003-02-04
Method	X-RAY DIFFRACTION 1.6 Å
Organisms	Homo sapiens Mus musculus
Macromolecule	Germline Metal Chelatase Catalytic Antibody, Heavy chain (protein) Germline Metal Chelatase Catalytic Antibody, Light chain (protein)

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1TJN \| pdb_00001tjn	Download File View File

Crystal structure of hypothetical protein af0721 from Archaeoglobus fulgidus

Yin, J., Xu, X.L., Cuff, M., Walker, J.R., Edwards, A., Savchenko, A., James, M.N.G., Midwest Center for Structural Genomics (MCSG)

To be published

Released	2004-09-07
Method	X-RAY DIFFRACTION 2.01 Å
Organisms	Archaeoglobus fulgidus
Macromolecule	Sirohydrochlorin cobaltochelatase (protein)

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1XU1 \| pdb_00001xu1	Download File View File

The crystal structure of APRIL bound to TACI

Hymowitz, S.G., Patel, D.R., Wallweber, H.J.A., Runyon, S., Yan, M., Yin, J., Shriver, S.K., Gordon, N.C., Pan, B., Skelton, N.J., Kelley, R.F., Starovasnik, M.A.

(2005) J Biological Chem 280: 7218-7227

Released	2004-11-09
Method	X-RAY DIFFRACTION 1.9 Å
Organisms	Homo sapiens Mus musculus
Macromolecule	Tumor necrosis factor ligand superfamily member 13 (protein) Tumor necrosis factor receptor superfamily member 13B (protein)
Unique Ligands	NI

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1XU2 \| pdb_00001xu2	Download File View File

The crystal structure of APRIL bound to BCMA

Hymowitz, S.G., Patel, D.R., Wallweber, H.J.A., Runyon, S., Yan, M., Yin, J., Shriver, S.K., Gordon, N.C., Pan, B., Skelton, N.J., Kelley, R.F., Starovasnik, M.A.

(2005) J Biological Chem 280: 7218-7227

Released	2004-11-09
Method	X-RAY DIFFRACTION 2.35 Å
Organisms	Homo sapiens Mus musculus
Macromolecule	Tumor necrosis factor ligand superfamily member 13 (protein) Tumor necrosis factor receptor superfamily member 17 (protein)
Unique Ligands	NI

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1XUT \| pdb_00001xut	Download File View File

Solution structure of TACI-CRD2

Hymowitz, S.G., Patel, D.R., Wallweber, H.J., Runyon, S., Yan, M., Yin, J., Shriver, S.K., Gordon, N.C., Pan, B., Skelton, N.J., Kelley, R.F., Starovasnik, M.A.

(2005) J Biological Chem 280: 7218-7227

Released	2004-11-09
Method	SOLUTION NMR
Organisms	Homo sapiens
Macromolecule	Tumor necrosis factor receptor superfamily member 13B (protein)

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2A4O \| pdb_00002a4o	Download File View File

Dual modes of modification of Hepatitis A virus 3C protease by a serine derived beta-lactone: selective crytstallization and high resolution structure of the His102 adduct

Yin, J., Bergmann, E.M., Cherney, M.M., Lall, M.S., Jain, R.P., Vederas, J.C., James, M.N.G.

(2005) J Mol Biology 354: 854-871

Released	2005-12-27
Method	X-RAY DIFFRACTION 1.55 Å
Organisms	Human hepatitis A virus Hu/Northern Africa/MBB/1978
Macromolecule	Probable protein P3C (protein)
Unique Ligands	ACE, BBL, NFA, VAL

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2CXV \| pdb_00002cxv	Download File View File

Dual Modes of Modification of Hepatitis A Virus 3C Protease by a Serine-Derived betaLactone: Selective Crystallization and High-resolution Structure of the His-102 Adduct

Yin, J., Bergmann, E.M., Cherney, M.M., Lall, M.S., Jain, R.P., Vederas, J.C., James, M.N.G.

(2005) J Mol Biology 354: 854-871

Released	2005-12-27
Method	X-RAY DIFFRACTION 1.4 Å
Organisms	Human hepatitis A virus Hu/Northern Africa/MBB/1978
Macromolecule	Probable protein P3C (protein)
Unique Ligands	BBL

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2DJ5 \| pdb_00002dj5	Download File View File

Crystal Structure of the vitamin B12 biosynthetic cobaltochelatase, CbiXS, from Archaeoglobus fulgidus

Yin, J., Cherney, M.M., James, M.N.G.

(2006) J Struct Funct Genomics 7: 37-50

Released	2006-09-12
Method	X-RAY DIFFRACTION 2.55 Å
Organisms	Archaeoglobus fulgidus
Macromolecule	Sirohydrochlorin cobaltochelatase (protein)
Unique Ligands	GOL, PO4

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2H6M \| pdb_00002h6m	Download File View File

An episulfide cation (thiiranium ring) trapped in the active site of HAV 3C proteinase inactivated by peptide-based ketone inhibitors

Yin, J., Cherney, M.M., Bergmann, E.M., James, M.N.

(2006) J Mol Biology 361: 673-686

Released	2006-08-08
Method	X-RAY DIFFRACTION 1.4 Å
Organisms	Hepatovirus A
Macromolecule	N-ACETYL-LEUCYL-ALANYL-ALANYL-(N,N-DIMETHYL)-GLUTAMINE-(1,4-DIOXO-3,4-DIHYDRO-1H-PHTHALAZIN-2-YL)METHYLKETONE INHIBITOR (protein) Picornain 3C (protein)
Unique Ligands	BBL

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2H9H \| pdb_00002h9h	Download File View File

An episulfide cation (thiiranium ring) trapped in the active site of HAV 3C proteinase inactivated by peptide-based ketone inhibitors

Yin, J., Cherney, M.M., Bergmann, E.M., James, M.N.

(2006) J Mol Biology 361: 673-686

Released	2006-08-08
Method	X-RAY DIFFRACTION 1.39 Å
Organisms	Hepatovirus A
Macromolecule	Hepatitis A virus protease 3C (protein) Three residue peptide (protein)
Unique Ligands	BBL

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2HAL \| pdb_00002hal	Download File View File

An episulfide cation (thiiranium ring) trapped in the active site of HAV 3C proteinase inactivated by peptide-based ketone inhibitors

Yin, J., Cherney, M.M., Bergmann, E.M., James, M.N.

(2006) J Mol Biology 361: 673-686

Released	2006-08-08
Method	X-RAY DIFFRACTION 1.35 Å
Organisms	Hepatovirus A
Macromolecule	Hepatitis A Protease 3C (protein) N-ACETYL-LEUCYL-PHENYLALANYL-PHENYLALANYL-GLUTAMATE-FLUOROMETHYLKETONE INHIBITOR (protein)
Unique Ligands	BBL

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2Z3C \| pdb_00002z3c	Download File View File

A Mechanistic view of Enzyme Inhibition and Peptide Hydrolysis in the Active Site of the SARS-CoV 3C-Like peptidase

Yin, J.

(2007) J Mol Biology 371: 1060-1074

Released	2007-07-03
Method	X-RAY DIFFRACTION 1.79 Å
Organisms	Severe acute respiratory syndrome-related coronavirus synthetic construct
Macromolecule	Replicase polyprotein 1ab (pp1ab) (protein) inhibitor (protein)
Unique Ligands	GOL

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2Z3D \| pdb_00002z3d	Download File View File

A Mechanistic view of Enzyme Inhibition and Peptide Hydrolysis in the Active Site of the SARS-CoV 3C-Like peptidase

Yin, J.

(2007) J Mol Biology 371: 1060-1074

Released	2007-07-03
Method	X-RAY DIFFRACTION 2.1 Å
Organisms	Severe acute respiratory syndrome-related coronavirus
Macromolecule	Inhibitor (protein) Replicase polyprotein 1ab (pp1ab) (protein)
Unique Ligands	GOL

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2Z3E \| pdb_00002z3e	Download File View File

A Mechanistic view of Enzyme Inhibition and Peptide Hydrolysis in the Active Site of the SARS-CoV 3C-Like peptidase

Yin, J.

(2007) J Mol Biology 371: 1060-1074

Released	2007-07-03
Method	X-RAY DIFFRACTION 2.32 Å
Organisms	Severe acute respiratory syndrome-related coronavirus
Macromolecule	ACE VAL Z3E LEU KCQ peptide (protein) Replicase polyprotein 1ab (pp1ab) (protein)
Unique Ligands	GOL

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3C0F \| pdb_00003c0f	Download File View File

Crystal Structure of a novel non-Pfam protein AF1514 from Archeoglobus fulgidus DSM 4304 solved by S-SAD using a Cr X-ray source

Li, Y., Bahti, P., Shaw, N., Song, G., Yin, J., Zhu, J.-Y., Zhang, H., Xu, H., Wang, B.-C., Liu, Z.-J.

(2008) Proteins 71: 2109-2113

Released	2008-02-05
Method	X-RAY DIFFRACTION 1.8 Å
Organisms	Archaeoglobus fulgidus DSM 4304
Macromolecule	Uncharacterized protein AF_1514 (protein)

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3FCT \| pdb_00003fct	Download File View File

MATURE METAL CHELATASE CATALYTIC ANTIBODY WITH HAPTEN

Romesberg, F.E., Santarsiero, B.D., Barnes, D., Yin, J., Spiller, B., Schultz, P.G., Stevens, R.C.

(1998) Biochemistry 37: 14404-14409

Released	1999-06-23
Method	X-RAY DIFFRACTION 2.4 Å
Organisms	Homo sapiens
Macromolecule	PROTEIN (METAL CHELATASE CATALYTIC ANTIBODY) (protein)
Unique Ligands	CA, CD, MG, MMP, NA

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3FHA \| pdb_00003fha	Download File View File

Structure of endo-beta-N-acetylglucosaminidase A

Yin, J., Li, L., Shaw, N., Li, Y., Song, J.K., Zhang, W., Xia, C., Zhang, R., Joachimiak, A., Zhang, H.C., Wang, L.X., Wang, P., Liu, Z.J.

(2009) PLoS One 4: e4658-e4658

Released	2009-04-28
Method	X-RAY DIFFRACTION 2 Å
Organisms	Glutamicibacter protophormiae
Macromolecule	Endo-beta-N-acetylglucosaminidase (protein)
Unique Ligands	CA, GOL, MG, PO4

1 to 25 of 85 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

Membrane Protein Annotation

Symmetry Type

SCOP Classification

1FL5 | pdb_00001fl5

1FL6 | pdb_00001fl6

1JPY | pdb_00001jpy

1MPV | pdb_00001mpv

1N7M | pdb_00001n7m

1NGW | pdb_00001ngw

1NGX | pdb_00001ngx

1NGY | pdb_00001ngy

1NGZ | pdb_00001ngz

1TJN | pdb_00001tjn

1XU1 | pdb_00001xu1

1XU2 | pdb_00001xu2

1XUT | pdb_00001xut

2A4O | pdb_00002a4o

2CXV | pdb_00002cxv

2DJ5 | pdb_00002dj5

2H6M | pdb_00002h6m

2H9H | pdb_00002h9h

2HAL | pdb_00002hal

2Z3C | pdb_00002z3c

2Z3D | pdb_00002z3d

2Z3E | pdb_00002z3e

3C0F | pdb_00003c0f

3FCT | pdb_00003fct

3FHA | pdb_00003fha