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233,605 Structures from the PDB

1,068,577 Computed Structure Models (CSM)

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QUERY: Gene Name = "gapA1"

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Search Summary

This query matches 16 Structures.

Refinements

Structure Determination Methodology

experimental (16)

Scientific Name of Source Organism

	Homo sapiens (15)
	Danio rerio (3)

Taxonomy

Eukaryota (16)

Experimental Method

	X-RAY DIFFRACTION (14)
	SOLUTION NMR (2)

Polymer Entity Type

Protein (16)

Refinement Resolution (Å)

	1.0 - 1.5 (1)
	1.5 - 2.0 (1)
	2.0 - 2.5 (5)
	2.5 - 3.0 (5)
	3.0 - 3.5 (1)
	3.5 - 4.0 (1)

Release Date

	2000 - 2004 (3)
	2005 - 2009 (5)
	2015 - 2019 (6)
	2020 - 2024 (2)

Enzyme Classification Name

	Transferases (16)
	Ligases (3)

Symmetry Type

	Asymmetric (13)
	Cyclic (3)

SCOP Classification

	All beta proteins (4)
	Alpha and beta proteins (a+b) (2)
	Artifacts (2)

AllSelected

1 to 16 of 16 Structures

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1LB4 \| pdb_00001lb4	Download File View File

TRAF6 apo structure

Ye, H., Arron, J.R., Lamothe, B., Cirilli, M., Kobayashi, T., Shevde, N.K., Segal, D., Dzivenu, O., Vologodskaia, M., Yim, M., Du, K., Singh, S., Pike, J.W., Darnay, B.G., Choi, Y., Wu, H.

(2002) Nature 418: 443-447

Released	2002-07-31
Method	X-RAY DIFFRACTION 2.4 Å
Organisms	Homo sapiens
Macromolecule	TNF receptor-associated factor 6 (protein)

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1LB5 \| pdb_00001lb5	Download File View File

TRAF6-RANK Complex

Ye, H., Arron, J.R., Lamothe, B., Cirilli, M., Kobayashi, T., Shevde, N.K., Segal, D., Dzivenu, O., Vologodskaia, M., Yim, M., Du, K., Singh, S., Pike, J.W., Darnay, B.G., Choi, Y., Wu, H.

(2002) Nature 418: 443-447

Released	2002-07-31
Method	X-RAY DIFFRACTION 2.4 Å
Organisms	Homo sapiens
Macromolecule	TNF receptor-associated factor 6 (protein) receptor activator of nuclear factor-kappa B (protein)

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1LB6 \| pdb_00001lb6	Download File View File

TRAF6-CD40 Complex

Ye, H., Arron, J.R., Lamothe, B., Cirilli, M., Kobayashi, T., Shevde, N.K., Segal, D., Dzivenu, O., Vologodskaia, M., Yim, M., Du, K., Singh, S., Pike, J.W., Darnay, B.G., Choi, Y., Wu, H.

(2002) Nature 418: 443-447

Released	2002-07-31
Method	X-RAY DIFFRACTION 1.8 Å
Organisms	Homo sapiens
Macromolecule	CD40 antigen (protein) TNF receptor-associated factor 6 (protein)

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2ECI \| pdb_00002eci	Download File View File

Solution structure of the RING domain of the human TNF receptor-associated factor 6 protein

Miyamoto, K., Sato, M., Koshiba, S., Watanabe, S., Harada, T., Kigawa, T., Yokoyama, S., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

To be published

Released	2008-03-18
Method	SOLUTION NMR
Organisms	Homo sapiens
Macromolecule	TNF receptor-associated factor 6 (protein)
Unique Ligands	ZN

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2JMD \| pdb_00002jmd	Download File View File

Solution Structure of the Ring Domain of Human TRAF6

Mercier, P., Lewis, M.J., Hau, D.D., Saltibus, L.F., Xiao, W., Spyracopoulos, L.

(2007) Protein Sci 16: 602-614

Released	2007-04-10
Method	SOLUTION NMR
Organisms	Homo sapiens
Macromolecule	TNF receptor-associated factor 6 (protein)
Unique Ligands	ZN

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3HCS \| pdb_00003hcs	Download File View File

Crystal structure of the N-terminal domain of TRAF6

Yin, Q., Lin, S.-C., Lamothe, B., Lu, M., Lo, Y.-C., Hura, G., Zheng, L., Rich, R.L., Campos, A.D., Myszka, D.G., Lenardo, M.J., Darnay, B.G., Wu, H.

(2009) Nat Struct Mol Biol 16: 658-666

Released	2009-05-26
Method	X-RAY DIFFRACTION 2.2 Å
Organisms	Homo sapiens
Macromolecule	TNF receptor-associated factor 6 (protein)
Unique Ligands	ZN

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3HCT \| pdb_00003hct	Download File View File

Crystal structure of TRAF6 in complex with Ubc13 in the P1 space group

Yin, Q., Lin, S.-C., Lamothe, B., Lu, M., Lo, Y.-C., Hura, G., Zheng, L., Rich, R.L., Campos, A.D., Myszka, D.G., Lenardo, M.J., Darnay, B.G., Wu, H.

(2009) Nat Struct Mol Biol 16: 658-666

Released	2009-05-26
Method	X-RAY DIFFRACTION 2.1 Å
Organisms	Homo sapiens
Macromolecule	TNF receptor-associated factor 6 (protein) Ubiquitin-conjugating enzyme E2 N (protein)
Unique Ligands	ZN

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3HCU \| pdb_00003hcu	Download File View File

Crystal structure of TRAF6 in complex with Ubc13 in the C2 space group

Yin, Q., Lin, S.-C., Lamothe, B., Lu, M., Lo, Y.-C., Hura, G., Zheng, L., Rich, R.L., Campos, A.D., Myszka, D.G., Lenardo, M.J., Darnay, B.G., Wu, H.

(2009) Nat Struct Mol Biol 16: 658-666

Released	2009-05-26
Method	X-RAY DIFFRACTION 2.6 Å
Organisms	Homo sapiens
Macromolecule	TNF receptor-associated factor 6 (protein) Ubiquitin-conjugating enzyme E2 N (protein)
Unique Ligands	ZN

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4Z8M \| pdb_00004z8m	Download File View File

Crystal structure of the MAVS-TRAF6 complex

Shi, Z.B., Zhou, Z.

(2015) J Biological Chem 290: 26811-26820

Released	2015-09-23
Method	X-RAY DIFFRACTION 2.95 Å
Organisms	Homo sapiens
Macromolecule	Peptide from Mitochondrial antiviral-signaling protein (protein) TNF receptor-associated factor 6 (protein)

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5VNZ \| pdb_00005vnz	Download File View File

Structure of a TRAF6-Ubc13~Ub complex

Middleton, A.J., Day, C.L.

(2017) Nat Commun 8: 1788-1788

Released	2017-12-06
Method	X-RAY DIFFRACTION 3.41 Å
Organisms	Danio rerio Homo sapiens
Macromolecule	TNF receptor-associated factor 6 (protein) Ubiquitin (protein) Ubiquitin-conjugating enzyme E2 N (protein)
Unique Ligands	ZN

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5VO0 \| pdb_00005vo0	Download File View File

Structure of a TRAF6-Ubc13~Ub complex

Middleton, A.J., Day, C.L.

(2017) Nat Commun 8: 1788-1788

Released	2017-12-06
Method	X-RAY DIFFRACTION 3.9 Å
Organisms	Danio rerio Homo sapiens
Macromolecule	TNF receptor-associated factor 6 (protein) Ubiquitin (protein) Ubiquitin-conjugating enzyme E2 N (protein)
Unique Ligands	K, ZN

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5ZUJ \| pdb_00005zuj	Download File View File

Binding and Enhanced Binding between Key Immunity Proteins TRAF6 and TIFA

Huang, W.C., Maestre-Reyna, M., Hsiao, T.C., Tsai, M.D.

(2019) Chembiochem 20: 140-146

Released	2018-12-05
Method	X-RAY DIFFRACTION 2.6 Å
Organisms	Homo sapiens
Macromolecule	TNF receptor-associated factor 6 (protein) peptide 170-184 from TRAF-interacting protein with FHA domain-containing protein A (protein)

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6A33 \| pdb_00006a33	Download File View File

Binding and Enhanced Binding between Key Immunity Proteins TRAF6 and TIFA

Huang, W.C., Liao, J.H., Hsiao, T.C., Maestre-Reyna, M., Bessho, Y., Tsai, M.D.

(2019) Chembiochem 20: 140-146

Released	2018-12-05
Method	X-RAY DIFFRACTION 2.1 Å
Organisms	Homo sapiens
Macromolecule	15-mer peptide from TRAF-interacting protein with FHA domain-containing protein A (protein) TNF receptor-associated factor 6 (protein)

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6MYD \| pdb_00006myd	Download File View File

Structure of zebrafish TRAF6 in complex with STING CTT

de Oliveira Mann, C.C., Orzalli, M.H., King, D.S., Kagan, J.C., Lee, A.S.Y., Kranzusch, P.J.

(2019) Cell Rep 27: 1165-1175.e5

Released	2019-05-01
Method	X-RAY DIFFRACTION 1.399 Å
Organisms	Danio rerio
Macromolecule	STING CTT, Transmembrane protein 173 (protein) TNF receptor-associated factor 6 (protein)
Unique Ligands	SO4

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7L3L \| pdb_00007l3l	Download File View File

Structure of TRAF5 and TRAF6 RING Hetero dimer

Das, A., Middleton, A.J., Padala, P., Day, C.L.

(2021) J Mol Biology 166844-166844

Released	2021-02-17
Method	X-RAY DIFFRACTION 2.8 Å
Organisms	Homo sapiens
Macromolecule	TNF receptor-associated factor 5 (protein) TNF receptor-associated factor 6 (protein)
Unique Ligands	ZN

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8HZ2 \| pdb_00008hz2	Download File View File

Tumor Necrosis Factor Receptor Associated Factor 6 (TRAF6) N-terminal Domain

Guven, O., Ciftci, H., DeMirci, H.

To be published

Released	2023-01-25
Method	X-RAY DIFFRACTION 2.6 Å
Organisms	Homo sapiens
Macromolecule	TNF receptor-associated factor 6 (protein)
Unique Ligands	ZN

1 to 16 of 16 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.

1LB4 | pdb_00001lb4

TRAF6 apo structure

1LB5 | pdb_00001lb5

TRAF6-RANK Complex

1LB6 | pdb_00001lb6

TRAF6-CD40 Complex

2ECI | pdb_00002eci

Solution structure of the RING domain of the human TNF receptor-associated factor 6 protein

2JMD | pdb_00002jmd

Solution Structure of the Ring Domain of Human TRAF6

3HCS | pdb_00003hcs

Crystal structure of the N-terminal domain of TRAF6

3HCT | pdb_00003hct

Crystal structure of TRAF6 in complex with Ubc13 in the P1 space group

3HCU | pdb_00003hcu

Crystal structure of TRAF6 in complex with Ubc13 in the C2 space group

4Z8M | pdb_00004z8m

Crystal structure of the MAVS-TRAF6 complex

5VNZ | pdb_00005vnz

Structure of a TRAF6-Ubc13~Ub complex

5VO0 | pdb_00005vo0

Structure of a TRAF6-Ubc13~Ub complex

5ZUJ | pdb_00005zuj

Binding and Enhanced Binding between Key Immunity Proteins TRAF6 and TIFA

6A33 | pdb_00006a33

Binding and Enhanced Binding between Key Immunity Proteins TRAF6 and TIFA

6MYD | pdb_00006myd

Structure of zebrafish TRAF6 in complex with STING CTT

7L3L | pdb_00007l3l

Structure of TRAF5 and TRAF6 RING Hetero dimer

8HZ2 | pdb_00008hz2

Tumor Necrosis Factor Receptor Associated Factor 6 (TRAF6) N-terminal Domain

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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

1LB4 | pdb_00001lb4

1LB5 | pdb_00001lb5

1LB6 | pdb_00001lb6

2ECI | pdb_00002eci

2JMD | pdb_00002jmd

3HCS | pdb_00003hcs

3HCT | pdb_00003hct

3HCU | pdb_00003hcu

4Z8M | pdb_00004z8m

5VNZ | pdb_00005vnz

5VO0 | pdb_00005vo0

5ZUJ | pdb_00005zuj

6A33 | pdb_00006a33

6MYD | pdb_00006myd

7L3L | pdb_00007l3l

8HZ2 | pdb_00008hz2