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234,136 Structures from the PDB

1,068,577 Computed Structure Models (CSM)

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QUERY: Gene Name = "AMS2"

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Search Summary

This query matches 68 Structures.

Refinements

Structure Determination Methodology

experimental (68)

Scientific Name of Source Organism

	Thermosynechococcus vestitus BP-1 (32)
	Homo sapiens (20)
	Escherichia coli (9)
	Thermus thermophilus (3)
	Saccharomyces cerevisiae (2)
	Gallus gallus (1)
	Human immunodeficiency virus type 1 (NEW YORK-5 ISOLATE) (1)
	Hyaloperonospora parasitica (1)
	Mycobacterium tuberculosis (1)
	synthetic construct (1)

Taxonomy

	Bacteria (42)
	Eukaryota (24)
	Riboviria (1)
	other sequences (1)

Experimental Method

X-RAY DIFFRACTION (68)

Polymer Entity Type

	Protein (68)
	RNA (8)

Refinement Resolution (Å)

	1.0 - 1.5 (9)
	1.5 - 2.0 (6)
	2.0 - 2.5 (38)
	2.5 - 3.0 (3)
	3.0 - 3.5 (5)
	3.5 - 4.0 (4)
	4.0 - 4.5 (2)
	> 4.5 (1)

Release Date

	1995 - 1999 (1)
	2000 - 2004 (7)
	2005 - 2009 (5)
	2010 - 2014 (12)
	2015 - 2019 (17)
	2020 - 2024 (26)

Enzyme Classification Name

	Oxidoreductases (33)
	Isomerases (10)
	Ligases (5)
	Transferases (4)
	Hydrolases (2)

Membrane Protein Annotation

	mpstruc (13)
	PDBTM (11)
	OPM (10)
	MemProtMD (1)

Symmetry Type

	Asymmetric (31)
	Cyclic (39)
	Dihedral (1)

SCOP Classification

	Alpha and beta proteins (a/b) (6)
	All beta proteins (13)
	Alpha and beta proteins (a+b) (6)
	Artifacts (3)
	Coiled coil proteins (1)
	All alpha proteins (1)

AllSelected

1 to 25 of 68 Structures

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1I1J \| pdb_00001i1j	Download File View File

STRUCTURE OF MELANOMA INHIBITORY ACTIVITY PROTEIN: A MEMBER OF A NEW FAMILY OF SECRETED PROTEINS

Lougheed, J.C., Holton, J.M., Alber, T., Bazan, J.F., Handel, T.M.

(2001) Proc Natl Acad Sci U S A 98: 5515-5520

Released	2001-05-16
Method	X-RAY DIFFRACTION 1.39 Å
Organisms	Homo sapiens
Macromolecule	MELANOMA DERIVED GROWTH REGULATORY PROTEIN (protein)

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1QSC \| pdb_00001qsc	Download File View File

CRYSTAL STRUCTURE OF THE TRAF DOMAIN OF TRAF2 IN A COMPLEX WITH A PEPTIDE FROM THE CD40 RECEPTOR

McWhirter, S.M., Pullen, S.S., Holton, J.M., Crute, J.J., Kehry, M.R., Alber, T.

(1999) Proc Natl Acad Sci U S A 96: 8408-8413

Released	1999-08-01
Method	X-RAY DIFFRACTION 2.4 Å
Organisms	Homo sapiens
Macromolecule	CD40 RECEPTOR (protein) TNF RECEPTOR ASSOCIATED FACTOR 2 (protein)

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1R4M \| pdb_00001r4m	Download File View File

APPBP1-UBA3-NEDD8, an E1-ubiquitin-like protein complex

Walden, H., Podgorski, M.S., Holton, J.M., Schulman, B.A.

(2003) Mol Cell 12: 1427-1437

Released	2003-12-23
Method	X-RAY DIFFRACTION 3 Å
Organisms	Homo sapiens
Macromolecule	Ubiquitin-like protein NEDD8 (protein) amyloid beta precursor protein-binding protein 1 (protein) ubiquitin-activating enzyme E1C (protein)
Unique Ligands	ZN

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1R4N \| pdb_00001r4n	Download File View File

APPBP1-UBA3-NEDD8, an E1-ubiquitin-like protein complex with ATP

Walden, H., Podgorski, M.S., Holton, J.M., Schulman, B.A.

(2003) Mol Cell 12: 1427-1437

Released	2003-12-23
Method	X-RAY DIFFRACTION 3.6 Å
Organisms	Homo sapiens
Macromolecule	Ubiquitin-like protein NEDD8 (protein) amyloid beta precursor protein-binding protein 1 (protein) ubiquitin-activating enzyme E1C (protein)
Unique Ligands	ATP, ZN

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1S1Q \| pdb_00001s1q	Download File View File

TSG101(UEV) domain in complex with Ubiquitin

Sundquist, W.I., Schubert, H.L., Kelly, B.N., Hill, G.C., Holton, J.M., Hill, C.P.

(2004) Mol Cell 13: 783-789

Released	2004-05-04
Method	X-RAY DIFFRACTION 2 Å
Organisms	Homo sapiens
Macromolecule	Tumor susceptibility gene 101 protein (protein) ubiquitin (protein)
Unique Ligands	ACY, CU, SO4

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1TT5 \| pdb_00001tt5	Download File View File

Structure of APPBP1-UBA3-Ubc12N26: a unique E1-E2 interaction required for optimal conjugation of the ubiquitin-like protein NEDD8

Huang, D.T., Miller, D.W., Mathew, R., Cassell, R., Holton, J.M., Roussel, M.F., Schulman, B.A.

(2004) Nat Struct Mol Biol 11: 927-935

Released	2004-09-14
Method	X-RAY DIFFRACTION 2.6 Å
Organisms	Homo sapiens
Macromolecule	Ubiquitin-conjugating enzyme E2 M (protein) amyloid protein-binding protein 1 (protein) ubiquitin-activating enzyme E1C isoform 1 (protein)
Unique Ligands	ZN

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1TXY \| pdb_00001txy	Download File View File

E. coli PriB

Keck, J.L., Lopper, M., Holton, J.M.

(2004) Structure 12: 1967-1975

Released	2004-11-16
Method	X-RAY DIFFRACTION 2 Å
Organisms	Escherichia coli
Macromolecule	Primosomal replication protein n (protein)

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1XVQ \| pdb_00001xvq	Download File View File

Crystal structure of thiol peroxidase from Mycobacterium tuberculosis

Rho, B.S., Pedelacq, J.D., Hung, L.W., Holton, J.M., Vigil, D., Kim, S.I., Park, M.S., Terwilliger, T.C., TB Structural Genomics Consortium (TBSGC)

(2006) J Mol Biology 361: 850-863

Released	2004-12-07
Method	X-RAY DIFFRACTION 1.75 Å
Organisms	Mycobacterium tuberculosis
Macromolecule	thiol peroxidase (protein)
Unique Ligands	NH4, YT3

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1Y8X \| pdb_00001y8x	Download File View File

Structural basis for recruitment of Ubc12 by an E2-binding domain in NEDD8's E1

Huang, D.T., Paydar, A., Zhuang, M., Waddell, M.B., Holton, J.M., Schulman, B.A.

(2005) Mol Cell 17: 341-350

Released	2005-02-08
Method	X-RAY DIFFRACTION 2.4 Å
Organisms	Homo sapiens
Macromolecule	Ubiquitin-activating enzyme E1C (protein) Ubiquitin-conjugating enzyme E2 M (protein)

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2NVU \| pdb_00002nvu	Download File View File

Structure of APPBP1-UBA3~NEDD8-NEDD8-MgATP-Ubc12(C111A), a trapped ubiquitin-like protein activation complex

Huang, D.T., Hunt, H.W., Zhuang, M., Ohi, M.D., Holton, J.M., Schulman, B.A.

(2007) Nature 445: 394-398

Released	2007-01-30
Method	X-RAY DIFFRACTION 2.8 Å
Organisms	Homo sapiens
Macromolecule	Maltose binding protein/NEDD8-activating enzyme E1 catalytic subunit chimera (protein) NEDD8 (protein) NEDD8-activating enzyme E1 regulatory subunit (protein) NEDD8-conjugating enzyme Ubc12 (protein)
Unique Ligands	ATP, MG, ZN

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2OVC \| pdb_00002ovc	Download File View File

Crystal structure of a coiled-coil tetramerization domain from Kv7.4 channels

Howard, R.J., Clark, K.A., Holton, J.M., Minor, D.L.

(2007) Neuron 53: 663-675

Released	2007-03-13
Method	X-RAY DIFFRACTION 2.07 Å
Organisms	Homo sapiens
Macromolecule	Potassium voltage-gated channel subfamily KQT member 4 (protein)

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3C9B \| pdb_00003c9b	Download File View File

Crystal structure of SeMet Vps75

Keck, J.L., Berndsen, C.E., Tsubota, T., Lindner, S.E., Lee, S., Holton, J.M., Kaufman, P.D., Denu, J.M.

(2008) Nat Struct Mol Biol 15: 948-956

Released	2008-08-12
Method	X-RAY DIFFRACTION 2.42 Å
Organisms	Saccharomyces cerevisiae
Macromolecule	Vacuolar protein sorting-associated protein 75 (protein)

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3C9D \| pdb_00003c9d	Download File View File

Crystal structure of Vps75

Berndsen, C.E., Tsubota, T., Lindner, S.E., Lee, S., Holton, J.M., Kaufman, P.D., Keck, J.L., Denu, J.M.

(2008) Nat Struct Mol Biol 15: 948-956

Released	2008-08-12
Method	X-RAY DIFFRACTION 2 Å
Organisms	Saccharomyces cerevisiae
Macromolecule	Vacuolar protein sorting-associated protein 75 (protein)

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3PCQ \| pdb_00003pcq	Download File View File

Femtosecond X-ray protein Nanocrystallography

Chapman, H.N., Fromme, P., Barty, A., White, T.A., Kirian, R.A., Aquila, A., Hunter, M.S., Schulz, J., Deponte, D.P., Weierstall, U., Doak, R.B., Maia, F.R.N.C., Martin, A.V., Schlichting, I., Lomb, L., Coppola, N., Shoeman, R.L., Epp, S.W., Hartmann, R., Rolles, D., Rudenko, A., Foucar, L., Kimmel, N., Weidenspointner, G., Holl, P., Liang, M., Barthelmess, M., Caleman, C., Boutet, S., Bogan, M.J., Krzywinski, J., Bostedt, C., Bajt, S., Gumprecht, L., Rudek, B., Erk, B., Schmidt, C., Homke, A., Reich, C., Pietschner, D., Struder, L., Hauser, G., Gorke, H., Ullrich, J., Herrmann, S., Schaller, G., Schopper, F., Soltau, H., Kuhnel, K.-U., Messerschmidt, M., Bozek, J.D., Hau-Riege, S.P., Frank, M., Hampton, C.Y., Sierra, R., Starodub, D., Williams, G.J., Hajdu, J., Timneanu, N., Seibert, M.M., Andreasson, J., Rocker, A., Jonsson, O., Svenda, M., Stern, S., Nass, K., Andritschke, R., Schroter, C.-D., Krasniqi, F., Bott, M., Schmidt, K.E., Wang, X., Grotjohann, I., Holton, J.M., Barends, T.R.M., Neutze, R., Marchesini, S., Fromme, R., Schorb, S., Rupp, D., Adolph, M., Gorkhover, T., Andersson, I., Hirsemann, H., Potdevin, G., Graafsma, H., Nilsson, B., Spence, J.C.H.

(2011) Nature 470: 73-77

Released	2011-02-02
Method	X-RAY DIFFRACTION 8.984 Å
Organisms	Thermosynechococcus vestitus BP-1
Macromolecule	Unique protein chains: 12
Unique Ligands	BCR, CA, CLA, LHG, LMG, PQN, SF4

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3RMR \| pdb_00003rmr	Download File View File

Crystal structure of Hyaloperonospora arabidopsidis ATR1 effector domain

Chou, S., Krasileva, K.V., Holton, J.M., Staskawicz, B.J., Alber, T.

To be published

Released	2011-07-20
Method	X-RAY DIFFRACTION 2.3 Å
Organisms	Hyaloperonospora parasitica
Macromolecule	Avirulence protein (protein)

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4NX4 \| pdb_00004nx4	Download File View File

Re-refinement of CAP-1 HIV-CA complex

Lang, P.T., Holton, J.M., Fraser, J.S., Alber, T.

(2014) Proc Natl Acad Sci U S A 111: 237-242

Released	2014-02-26
Method	X-RAY DIFFRACTION 1.5 Å
Organisms	Human immunodeficiency virus type 1 (NEW YORK-5 ISOLATE)
Macromolecule	Gag-Pol polyprotein (protein)
Unique Ligands	CL, JPR, ZN

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4TWS \| pdb_00004tws	Download File View File

Gadolinium Derivative of Tetragonal Hen Egg-White Lysozyme at 1.45 A Resolution

Holton, J.M., Classen, S., Frankel, K.A., Tainer, J.A.

(2014) FEBS J 281: 4046-4060

Released	2014-08-20
Method	X-RAY DIFFRACTION 1.45 Å
Organisms	Gallus gallus
Macromolecule	Lysozyme C (protein)
Unique Ligands	CL, DO3, GD, NA

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4V4Q \| pdb_00004v4q	Download File View File

Crystal structure of the bacterial ribosome from Escherichia coli at 3.5 A resolution.

Schuwirth, B.S., Borovinskaya, M.A., Hau, C.W., Zhang, W., Vila-Sanjurjo, A., Holton, J.M., Cate, J.H.D.

(2005) Science 310: 827-834

Released	2014-07-09
Method	X-RAY DIFFRACTION 3.46 Å
Organisms	Escherichia coli
Macromolecule	Unique protein chains: 49 Unique nucleic acid chains: 3
Unique Ligands	MG

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4V52 \| pdb_00004v52	Download File View File

Crystal structure of the bacterial ribosome from Escherichia coli in complex with neomycin.

Borovinskaya, M.A., Pai, R.D., Zhang, W., Schuwirth, B.-S., Holton, J.M., Hirokawa, G., Kaji, H., Kaji, A., Cate, J.H.D.

(2007) Nat Struct Mol Biol 14: 727-732

Released	2014-07-09
Method	X-RAY DIFFRACTION 3.21 Å
Organisms	Escherichia coli
Macromolecule	Unique protein chains: 49 Unique nucleic acid chains: 3
Unique Ligands	MG, NMY, ZN

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4V53 \| pdb_00004v53	Download File View File

Crystal structure of the bacterial ribosome from Escherichia coli in complex with gentamicin.

Borovinskaya, M.A., Pai, R.D., Zhang, W., Schuwirth, B.-S., Holton, J.M., Hirokawa, G., Kaji, H., Kaji, A., Cate, J.H.D.

(2007) Nat Struct Mol Biol 14: 727-732

Released	2014-07-09
Method	X-RAY DIFFRACTION 3.54 Å
Organisms	Escherichia coli
Macromolecule	Unique protein chains: 49 Unique nucleic acid chains: 3
Unique Ligands	LLL, MG, ZN

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4V54 \| pdb_00004v54	Download File View File

Crystal structure of the bacterial ribosome from Escherichia coli in complex with ribosome recycling factor (RRF).

Borovinskaya, M.A., Pai, R.D., Zhang, W., Schuwirth, B.-S., Holton, J.M., Hirokawa, G., Kaji, H., Kaji, A., Cate, J.H.D.

(2007) Nat Struct Mol Biol 14: 727-732

Released	2014-07-09
Method	X-RAY DIFFRACTION 3.3 Å
Organisms	Escherichia coli Thermus thermophilus
Macromolecule	Unique protein chains: 50 Unique nucleic acid chains: 3
Unique Ligands	MG, ZN

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4V55 \| pdb_00004v55	Download File View File

Crystal structure of the bacterial ribosome from Escherichia coli in complex with gentamicin and ribosome recycling factor (RRF).

Borovinskaya, M.A., Pai, R.D., Zhang, W., Schuwirth, B.-S., Holton, J.M., Hirokawa, G., Kaji, H., Kaji, A., Cate, J.H.D.

(2007) Nat Struct Mol Biol 14: 727-732

Released	2014-07-09
Method	X-RAY DIFFRACTION 4 Å
Organisms	Escherichia coli Thermus thermophilus
Macromolecule	Unique protein chains: 50 Unique nucleic acid chains: 3
Unique Ligands	LLL, MG, ZN

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4V56 \| pdb_00004v56	Download File View File

Crystal structure of the bacterial ribosome from Escherichia coli in complex with spectinomycin.

Borovinskaya, M.A., Shoji, S., Holton, J.M., Fredrick, K., Cate, J.H.D.

(2007) ACS Chem Biol 2: 545-552

Released	2014-07-09
Method	X-RAY DIFFRACTION 3.93 Å
Organisms	Escherichia coli
Macromolecule	Unique protein chains: 49 Unique nucleic acid chains: 3
Unique Ligands	MG, SCM, ZN

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4V57 \| pdb_00004v57	Download File View File

Crystal structure of the bacterial ribosome from Escherichia coli in complex with spectinomycin and neomycin.

Borovinskaya, M.A., Shoji, S., Holton, J.M., Fredrick, K., Cate, J.H.D.

(2007) ACS Chem Biol 2: 545-552

Released	2014-07-09
Method	X-RAY DIFFRACTION 3.5 Å
Organisms	Escherichia coli
Macromolecule	Unique protein chains: 49 Unique nucleic acid chains: 3
Unique Ligands	MG, NMY, SCM, ZN

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4V5Y \| pdb_00004v5y	Download File View File

Crystal structure of the bacterial ribosome from Escherichia coli in complex with paromomycin and ribosome recycling factor (RRF).

Borovinskaya, M.A., Pai, R.D., Zhang, W., Schuwirth, B.-S., Holton, J.M., Hirokawa, G., Kaji, H., Kaji, A., Cate, J.H.D.

(2007) Nat Struct Mol Biol 14: 727-732

Released	2014-07-09
Method	X-RAY DIFFRACTION 4.45 Å
Organisms	Escherichia coli Thermus thermophilus
Macromolecule	Unique protein chains: 50 Unique nucleic acid chains: 3
Unique Ligands	MG, PAR, ZN

1 to 25 of 68 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

1I1J | pdb_00001i1j

1QSC | pdb_00001qsc

1R4M | pdb_00001r4m

1R4N | pdb_00001r4n

1S1Q | pdb_00001s1q

1TT5 | pdb_00001tt5

1TXY | pdb_00001txy

1XVQ | pdb_00001xvq

1Y8X | pdb_00001y8x

2NVU | pdb_00002nvu

2OVC | pdb_00002ovc

3C9B | pdb_00003c9b

3C9D | pdb_00003c9d

3PCQ | pdb_00003pcq

3RMR | pdb_00003rmr

4NX4 | pdb_00004nx4

4TWS | pdb_00004tws

4V4Q | pdb_00004v4q

4V52 | pdb_00004v52

4V53 | pdb_00004v53

4V54 | pdb_00004v54

4V55 | pdb_00004v55

4V56 | pdb_00004v56

4V57 | pdb_00004v57

4V5Y | pdb_00004v5y