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234,440 Structures from the PDB

1,068,577 Computed Structure Models (CSM)

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QUERY: Gene Name = "RNF31"

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Search Summary

This query matches 36 Structures.

Refinements

Structure Determination Methodology

experimental (36)

Scientific Name of Source Organism

	Homo sapiens (35)
	synthetic construct (8)
	Bos taurus (2)
	Mus musculus (2)
	Shigella flexneri 5a str. M90T (1)

Taxonomy

	Eukaryota (36)
	other sequences (8)
	Bacteria (1)

Experimental Method

	X-RAY DIFFRACTION (35)
	SOLUTION NMR (1)

Polymer Entity Type

Protein (36)

Refinement Resolution (Å)

	1.5 - 2.0 (6)
	2.0 - 2.5 (16)
	2.5 - 3.0 (8)
	3.0 - 3.5 (4)
	4.0 - 4.5 (1)

Release Date

	2005 - 2009 (1)
	2010 - 2014 (11)
	2015 - 2019 (10)
	2020 - 2024 (14)

Enzyme Classification Name

	Transferases (36)
	Ligases (15)
	Hydrolases (3)

Symmetry Type

	Asymmetric (35)
	Cyclic (2)
	Dihedral (1)

SCOP Classification

	Alpha and beta proteins (a+b) (2)
	Artifacts (1)
	Small proteins (1)

AllSelected

1 to 25 of 36 Structures

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2CT7 \| pdb_00002ct7	Download File View File

Solution Structure of the IBR domain of the RING finger protein 31 protein

Miyamoto, K., Koshiba, S., Tomizawa, T., Inoue, M., Kigawa, T., Yokoyama, S., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

To be published

Released	2005-11-23
Method	SOLUTION NMR
Organisms	Homo sapiens
Macromolecule	RING finger protein 31 (protein)
Unique Ligands	ZN

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4DBG \| pdb_00004dbg	Download File View File

Crystal structure of HOIL-1L-UBL complexed with a HOIP-UBA derivative

Yagi, H., Hiromoto, T., Mizushima, T., Kurimoto, E., Kato, K.

(2012) EMBO Rep 13: 462-468

Released	2012-04-04
Method	X-RAY DIFFRACTION 2.71 Å
Organisms	Homo sapiens
Macromolecule	RING finger protein 31 (protein) RanBP-type and C3HC4-type zinc finger-containing protein 1 (protein)

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4JUY \| pdb_00004juy	Download File View File

Crystal structure of the PUB domain of E3 ubiquitin ligase RNF31

Dong, A., Hu, J., Li, Y., Wernimont, A., Bountra, C., Arrowsmith, C.H., Edwards, A.M., Tong, Y., Structural Genomics Consortium (SGC)

To be published

Released	2013-04-10
Method	X-RAY DIFFRACTION 2.4 Å
Organisms	Homo sapiens
Macromolecule	E3 ubiquitin-protein ligase RNF31 (protein)
Unique Ligands	UNX

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4LJO \| pdb_00004ljo	Download File View File

Structure of an active ligase (HOIP)/ubiquitin transfer complex

Rana, R.R., Stieglitz, B., Koliopoulos, M.G., Morris-Davies, A.C., Christodoulou, E., Howell, S., Brown, N.R., Rittinger, K.

(2013) Nature 503: 422-426

Released	2013-10-16
Method	X-RAY DIFFRACTION 1.564 Å
Organisms	Bos taurus Homo sapiens
Macromolecule	E3 ubiquitin-protein ligase RNF31 (protein) Polyubiquitin-C (protein)
Unique Ligands	IMD, ZN

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4LJP \| pdb_00004ljp	Download File View File

Structure of an active ligase (HOIP-H889A)/ubiquitin transfer complex

Rana, R.R., Stieglitz, B., Koliopoulos, M.G., Morris-Davies, A.C., Christodoulou, E., Howell, S., Brown, N.R., Rittinger, K.

(2013) Nature 503: 422-426

Released	2013-10-16
Method	X-RAY DIFFRACTION 2.15 Å
Organisms	Bos taurus Homo sapiens
Macromolecule	E3 ubiquitin-protein ligase RNF31 (protein) Polyubiquitin-C (protein)
Unique Ligands	ZN

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4LJQ \| pdb_00004ljq	Download File View File

Crystal structure of the catalytic core of E3 ligase HOIP

Stieglitz, B., Rana, R.R., Koliopoulos, M.G., Morris-Davies, A.C., Christodoulou, E., Howell, S., Brown, N.R., Rittinger, K.

(2013) Nature 503: 422-426

Released	2013-10-16
Method	X-RAY DIFFRACTION 2.45 Å
Organisms	Homo sapiens
Macromolecule	E3 ubiquitin-protein ligase RNF31 (protein)
Unique Ligands	ZN

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4OWF \| pdb_00004owf	Download File View File

Crystal structure of the NEMO CoZi in complex with HOIP NZF1 domain

Rahighi, S., Fujita, H., Kawasaki, M., Kato, R., Iwai, K., Wakatsuki, S.

(2014) Mol Cell Biol 34: 1322-1335

Released	2014-02-12
Method	X-RAY DIFFRACTION 2 Å
Organisms	Homo sapiens Mus musculus
Macromolecule	E3 ubiquitin-protein ligase RNF31 (protein) NF-kappa-B essential modulator (protein)
Unique Ligands	ZN

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4OYJ \| pdb_00004oyj	Download File View File

Structure of the apo HOIP PUB domain

Elliott, P.R., Komander, D.

(2014) Mol Cell 54: 335-348

Released	2014-05-21
Method	X-RAY DIFFRACTION 3 Å
Organisms	Homo sapiens
Macromolecule	E3 ubiquitin-protein ligase RNF31 (protein)
Unique Ligands	SO4

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4OYK \| pdb_00004oyk	Download File View File

Structure of HOIP PUB domain bound to OTULIN PIM

Elliott, P.R., Komander, D.

(2014) Mol Cell 54: 335-348

Released	2014-05-21
Method	X-RAY DIFFRACTION 2.0001 Å
Organisms	Homo sapiens
Macromolecule	E3 ubiquitin-protein ligase RNF31 (protein) Ubiquitin thioesterase otulin (protein)
Unique Ligands	CL

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4P09 \| pdb_00004p09	Download File View File

Crystal structure of HOIP PUB domain

Akutsu, M., Schaeffer, V., Olma, M.H., Gomes, L.C., Kawasaki, M., Dikic, I.

(2014) Mol Cell 54: 349-361

Released	2014-05-07
Method	X-RAY DIFFRACTION 1.7 Å
Organisms	Homo sapiens
Macromolecule	E3 ubiquitin-protein ligase RNF31 (protein)

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4P0A \| pdb_00004p0a	Download File View File

Crystal structure of HOIP PUB domain in complex with p97 PIM

Akutsu, M., Schaeffer, V., Olma, M.H., Gomes, L.C., Kawasaki, M., Dikic, I.

(2014) Mol Cell 54: 349-361

Released	2014-05-07
Method	X-RAY DIFFRACTION 2.3001 Å
Organisms	Homo sapiens
Macromolecule	E3 ubiquitin-protein ligase RNF31 (protein) Transitional endoplasmic reticulum ATPase (protein)

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4P0B \| pdb_00004p0b	Download File View File

Crystal structure of HOIP PUB domain in complex with OTULIN PIM

Akutsu, M., Schaeffer, V., Olma, M.H., Gomes, L.C., Kawasaki, M., Dikic, I.

(2014) Mol Cell 54: 349-361

Released	2014-05-07
Method	X-RAY DIFFRACTION 2.7005 Å
Organisms	Homo sapiens
Macromolecule	E3 ubiquitin-protein ligase RNF31 (protein) Ubiquitin thioesterase otulin (protein)

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5EDV \| pdb_00005edv	Download File View File

Structure of the HOIP-RBR/UbcH5B~ubiquitin transfer complex

Lechtenberg, B.C., Mace, P.D., Sanishvili, R., Riedl, S.J.

(2016) Nature 529: 546-550

Released	2016-01-20
Method	X-RAY DIFFRACTION 3.48 Å
Organisms	Homo sapiens
Macromolecule	E3 ubiquitin-protein ligase RNF31 (protein) Polyubiquitin-B (protein) Ubiquitin-conjugating enzyme E2 D2 (protein)
Unique Ligands	ZN

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5LJN \| pdb_00005ljn	Download File View File

Structure of the HOIP PUB domain bound to SPATA2 PIM peptide

Elliott, P.R., Komander, D.

(2016) Mol Cell 63: 990-1005

Released	2016-08-24
Method	X-RAY DIFFRACTION 2.701 Å
Organisms	Homo sapiens
Macromolecule	E3 ubiquitin-protein ligase RNF31 (protein) Spermatogenesis-associated protein 2 (protein)
Unique Ligands	GOL, SO4

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5X0W \| pdb_00005x0w	Download File View File

Molecular mechanism for the binding between Sharpin and HOIP

Liu, J., Li, F., Cheng, X., Pan, L.

(2017) Cell Rep 21: 27-36

Released	2017-10-18
Method	X-RAY DIFFRACTION 3 Å
Organisms	Homo sapiens
Macromolecule	E3 ubiquitin-protein ligase RNF31 (protein) Sharpin (protein)

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5Y3T \| pdb_00005y3t	Download File View File

Crystal structure of hetero-trimeric core of LUBAC: HOIP double-UBA complexed with HOIL-1L UBL and SHARPIN UBL

Tokunaga, A., Fujita, H., Ariyoshi, M., Ohki, I., Tochio, H., Iwai, K., Shirakawa, M.

(2018) Cell Rep 23: 1192-1204

Released	2018-05-02
Method	X-RAY DIFFRACTION 2.4 Å
Organisms	Mus musculus
Macromolecule	E3 ubiquitin-protein ligase RNF31 (protein) RanBP-type and C3HC4-type zinc finger-containing protein 1 (protein) Sharpin (protein)
Unique Ligands	GOL

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6GZY \| pdb_00006gzy	Download File View File

HOIP-fragment5 complex

Johansson, H., Tsai, Y.C.I., Fantom, K., Chung, C.W., Martino, L., House, D., Rittinger, K.

(2019) J Am Chem Soc 141: 2703-2712

Released	2019-01-30
Method	X-RAY DIFFRACTION 2.15 Å
Organisms	Homo sapiens
Macromolecule	E3 ubiquitin-protein ligase RNF31 (protein)
Unique Ligands	EDO, FHH, NA, PGE, SO4, ZN

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6KC5 \| pdb_00006kc5	Download File View File

HOIP-HOIPIN1 complex

Sato, Y., Fukai, S.

(2020) Commun Biol 3: 163-163

Released	2020-04-15
Method	X-RAY DIFFRACTION 1.543 Å
Organisms	Homo sapiens
Macromolecule	E3 ubiquitin-protein ligase RNF31 (protein)
Unique Ligands	D5U, EPE, GOL, ZN

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6KC6 \| pdb_00006kc6	Download File View File

HOIP-HOIPIN8 complex

Sato, Y., Fukai, S.

(2020) Commun Biol 3: 163-163

Released	2020-04-15
Method	X-RAY DIFFRACTION 2.123 Å
Organisms	Homo sapiens
Macromolecule	E3 ubiquitin-protein ligase RNF31 (protein)
Unique Ligands	CL, D60, GOL, ZN

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6SC5 \| pdb_00006sc5	Download File View File

dAb3/HOIP-RBR-Ligand2

Tsai, Y.-C.I., Johansson, H., House, D., Rittinger, K.

(2020) Cell Chem Biol 27: 83

Released	2019-11-27
Method	X-RAY DIFFRACTION 2.1 Å
Organisms	Homo sapiens synthetic construct
Macromolecule	E3 ubiquitin-protein ligase RNF31 (protein) Single domain antibody (protein)
Unique Ligands	CL, L6B, SO4, ZN

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6SC6 \| pdb_00006sc6	Download File View File

dAb3/HOIP-RBR apo structure

Tsai, Y.-C.I., House, D., Rittinger, K.

(2020) Cell Chem Biol 27: 83

Released	2019-11-27
Method	X-RAY DIFFRACTION 2.25 Å
Organisms	Homo sapiens synthetic construct
Macromolecule	E3 ubiquitin-protein ligase RNF31 (protein) Single domain antibody (protein)
Unique Ligands	CL, SO4, ZN

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6SC7 \| pdb_00006sc7	Download File View File

dAb3/HOIP-RBR-Ligand3

Tsai, Y.-C.I., Johansson, H., House, D., Rittinger, K.

(2020) Cell Chem Biol 27: 83

Released	2019-11-27
Method	X-RAY DIFFRACTION 2.56 Å
Organisms	Homo sapiens synthetic construct
Macromolecule	E3 ubiquitin-protein ligase RNF31 (protein) Single domain antibody (protein)
Unique Ligands	CL, L6H, SO4, ZN

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6SC8 \| pdb_00006sc8	Download File View File

dAb3/HOIP-RBR-Ligand4

Tsai, Y.-C.I., Johansson, H., House, D., Rittinger, K.

(2020) Cell Chem Biol 27: 83

Released	2019-11-27
Method	X-RAY DIFFRACTION 2.106 Å
Organisms	Homo sapiens synthetic construct
Macromolecule	E3 ubiquitin-protein ligase RNF31 (protein) Single domain antibody (protein)
Unique Ligands	CL, L6E, SO4, ZN

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6SC9 \| pdb_00006sc9	Download File View File

dAb3/HOIP-RBR-HOIPIN-8

Tsai, Y.-C.I., Johansson, H., House, D., Rittinger, K.

(2020) Cell Chem Biol 27: 83

Released	2019-11-27
Method	X-RAY DIFFRACTION 2.47 Å
Organisms	Homo sapiens synthetic construct
Macromolecule	E3 ubiquitin-protein ligase RNF31 (protein) Single domain antibody (protein)
Unique Ligands	CL, L68, SO4, ZN

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7TV4 \| pdb_00007tv4	Download File View File

Crystal structure of NEMO CoZi in complex with HOIP NZF1 and linear diubiquitin

Rahighi, S., Iyer, M., Oveisi, H.

(2022) Sci Rep 12: 12241-12241

Released	2022-08-17
Method	X-RAY DIFFRACTION 4.2 Å
Organisms	Homo sapiens
Macromolecule	E3 ubiquitin-protein ligase RNF31 (protein) NF-kappa-B essential modulator (protein) Polyubiquitin-C (protein)
Unique Ligands	ZN

1 to 25 of 36 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

Symmetry Type

SCOP Classification

2CT7 | pdb_00002ct7

4DBG | pdb_00004dbg

4JUY | pdb_00004juy

4LJO | pdb_00004ljo

4LJP | pdb_00004ljp

4LJQ | pdb_00004ljq

4OWF | pdb_00004owf

4OYJ | pdb_00004oyj

4OYK | pdb_00004oyk

4P09 | pdb_00004p09

4P0A | pdb_00004p0a

4P0B | pdb_00004p0b

5EDV | pdb_00005edv

5LJN | pdb_00005ljn

5X0W | pdb_00005x0w

5Y3T | pdb_00005y3t

6GZY | pdb_00006gzy

6KC5 | pdb_00006kc5

6KC6 | pdb_00006kc6

6SC5 | pdb_00006sc5

6SC6 | pdb_00006sc6

6SC7 | pdb_00006sc7

6SC8 | pdb_00006sc8

6SC9 | pdb_00006sc9

7TV4 | pdb_00007tv4