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233,605 Structures from the PDB

1,068,577 Computed Structure Models (CSM)

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QUERY: Citation Author = "Aranda, R."

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Search Summary

This query matches 31 Structures.

Refinements

Structure Determination Methodology

experimental (31)

Scientific Name of Source Organism

	Homo sapiens (10)
	Cystovirus phi6 (3)
	Mus musculus (3)
	Orthotospovirus tomatomaculae (3)
	Emaravirus fici (2)
	Puumala virus p360 (2)
	Rift Valley fever virus (2)
	Severe acute respiratory syndrome coronavirus 2 (2)
	Arabidopsis thaliana (1)
	Emaravirus tritici (1)

More...

Taxonomy

	Riboviria (17)
	Eukaryota (15)
	Bacteria (1)
	other sequences (1)

Experimental Method

	X-RAY DIFFRACTION (26)
	ELECTRON MICROSCOPY (5)

Polymer Entity Type

	Protein (31)
	RNA (1)

Refinement Resolution (Å)

	1.0 - 1.5 (6)
	1.5 - 2.0 (5)
	2.0 - 2.5 (5)
	2.5 - 3.0 (8)
	3.0 - 3.5 (2)
	3.5 - 4.0 (2)
	4.0 - 4.5 (2)
	> 4.5 (1)

Release Date

	2005 - 2009 (2)
	2010 - 2014 (6)
	2015 - 2019 (5)
	2020 - 2024 (18)

Enzyme Classification Name

Hydrolases (5)

Membrane Protein Annotation

OPM (3)

Symmetry Type

	Asymmetric (16)
	Cyclic (17)

SCOP Classification

	All beta proteins (4)
	Artifacts (3)
	All alpha proteins (1)

AllSelected

1 to 25 of 31 Structures

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3CHM \| pdb_00003chm	Download File View File

Crystal structure of PCI domain from A. thaliana COP9 signalosome subunit 7 (CSN7)

Dessau, M., Hirsch, J.A.

(2008) Plant Cell 20: 2815-2834

Released	2008-10-28
Method	X-RAY DIFFRACTION 1.5 Å
Organisms	Arabidopsis thaliana
Macromolecule	COP9 signalosome complex subunit 7 (protein)
Unique Ligands	ACT, MG

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3G7T \| pdb_00003g7t	Download File View File

Crystal structure of dengue virus type 1 envelope protein in the postfusion conformation

Modis, Y.

(2009) J Virol 83: 4338-4344

Released	2009-04-21
Method	X-RAY DIFFRACTION 3.5 Å
Organisms	dengue virus type 1
Macromolecule	Envelope protein (protein)
Unique Ligands	CL

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4DQ5 \| pdb_00004dq5	Download File View File

Structural Investigation of Bacteriophage Phi6 Lysin (WT)

Dessau, M.A., Modis, Y.

(2012) PLoS Genet 8: e1003102-e1003102

Released	2013-01-02
Method	X-RAY DIFFRACTION 1.395 Å
Organisms	Cystovirus phi6
Macromolecule	Membrane protein Phi6 P5wt (protein)
Unique Ligands	AES

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4DQ7 \| pdb_00004dq7	Download File View File

Structural Investigation of Bacteriophage Phi6 Lysin (V207F mutant)

Dessau, M.A., Modis, Y.

(2012) PLoS Genet 8: e1003102-e1003102

Released	2013-01-02
Method	X-RAY DIFFRACTION 1.4 Å
Organisms	Cystovirus phi6
Macromolecule	Membrane protein Phi6 P5 (protein)

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4DQJ \| pdb_00004dqj	Download File View File

Structural Investigation of Bacteriophage Phi6 Lysin (in complex with chitotetraose)

Dessau, M.A., Modis, Y.

(2012) PLoS Genet 8: e1003102-e1003102

Released	2013-01-02
Method	X-RAY DIFFRACTION 1.23 Å
Organisms	Cystovirus phi6
Macromolecule	Membrane protein Phi6 P5 (protein)
Unique Ligands	AES
Unique branched monosaccharides	NAG

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4HJ1 \| pdb_00004hj1	Download File View File

Crystal structure of glycoprotein C from Rift Valley Fever Virus (glycosylated)

Dessau, M., Modis, Y.

(2013) Proc Natl Acad Sci U S A 110: 1696-1701

Released	2013-01-16
Method	X-RAY DIFFRACTION 1.9 Å
Organisms	Rift Valley fever virus
Macromolecule	ENVELOPE GLYCOPROTEIN (protein)
Unique Ligands	GOL, MES, NAG
Unique branched monosaccharides	BMA, NAG

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4HJC \| pdb_00004hjc	Download File View File

Crystal structure of glycoprotein C from Rift Valley Fever Virus (non-glycosylated)

Dessau, M., Modis, Y.

(2013) Proc Natl Acad Sci U S A 110: 1696-1701

Released	2013-01-16
Method	X-RAY DIFFRACTION 4.15 Å
Organisms	Rift Valley fever virus
Macromolecule	ENVELOPE GLYCOPROTEIN (protein)

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4NO4 \| pdb_00004no4	Download File View File

Crystal Structure of Galectin-1 L11A mutant

Dessau, M.

To be published

Released	2014-12-03
Method	X-RAY DIFFRACTION 1.399 Å
Organisms	Rattus norvegicus
Macromolecule	Galectin-1 (protein)
Unique Ligands	GOL, MG, SO4
Unique branched monosaccharides	BGC, GAL

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5J81 \| pdb_00005j81	Download File View File

Crystal structure of Glycoprotein C from Puumala virus in the post-fusion conformation (pH 6.0)

Willensky, S., Dessau, M.

(2016) PLoS Pathog 12: e1005948-e1005948

Released	2016-10-05
Method	X-RAY DIFFRACTION 1.8 Å
Organisms	Puumala virus p360
Macromolecule	Envelopment polyprotein (protein)
Unique Ligands	ACT, P33, SO4
Unique branched monosaccharides	BMA, NAG

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5J9H \| pdb_00005j9h	Download File View File

Crystal structure of Glycoprotein C from Puumala virus in the post-fusion conformation (pH 8.0)

Willensky, S., Dessau, M.

(2016) PLoS Pathog 12: e1005948-e1005948

Released	2016-10-05
Method	X-RAY DIFFRACTION 2.5 Å
Organisms	Puumala virus p360
Macromolecule	Envelopment polyprotein (protein)
Unique Ligands	SO4
Unique branched monosaccharides	BMA, NAG

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5NV1 \| pdb_00005nv1	Download File View File

SH3 domain from Mouse cortactin (C 2 2 21 crystal form)

Twafra, S., Dessau, M.

To be published

Released	2018-08-15
Method	X-RAY DIFFRACTION 1.51 Å
Organisms	Mus musculus
Macromolecule	Src substrate cortactin (protein)
Unique Ligands	GOL, MES, MG

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5NVJ \| pdb_00005nvj	Download File View File

SH3 domain from Mouse cortactin (C 1 2 1 crystal form)

Twafra, S., Dessau, M.

To be published

Released	2018-08-15
Method	X-RAY DIFFRACTION 1.18 Å
Organisms	Mus musculus
Macromolecule	Src substrate cortactin (protein)
Unique Ligands	BEN, CIT, GOL

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5NXJ \| pdb_00005nxj	Download File View File

SH3 domain from Mouse cortactin (P 1 21 1 crystal form)

Twafra, S., Dessau, M.

To be published

Released	2018-05-30
Method	X-RAY DIFFRACTION 2.282 Å
Organisms	Mus musculus
Macromolecule	Src substrate cortactin (protein)
Unique Ligands	IPA

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6Y9L \| pdb_00006y9l	Download File View File

Crystal structure of TSWV glycoprotein N ectodomain (sGn)

Dessau, M., Bahat, Y.

(2020) Proc Natl Acad Sci U S A 117: 26237

Released	2020-09-30
Method	X-RAY DIFFRACTION 4.1 Å
Organisms	Orthotospovirus tomatomaculae
Macromolecule	Glycoprotein (protein)
Unique Ligands	NAG
Unique branched monosaccharides	BMA, NAG

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6Y9M \| pdb_00006y9m	Download File View File

Crystal structure of TSWV glycoprotein N ectodomain (sGn)

Dessau, M., Bahat, Y.

(2020) Proc Natl Acad Sci U S A 117: 26237

Released	2020-09-30
Method	X-RAY DIFFRACTION 3.4 Å
Organisms	Tomato spotted wilt virus (strain Brazilian BR-01)
Macromolecule	Glycoprotein (protein)
Unique Ligands	PO4, SO4
Unique branched monosaccharides	BMA, FUC, NAG

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6YA0 \| pdb_00006ya0	Download File View File

Crystal structure of TSWV glycoprotein N ectodomain (Trypsin treated)

Dessau, M., Bahat, Y.

(2020) Proc Natl Acad Sci U S A 117: 26237

Released	2020-09-30
Method	X-RAY DIFFRACTION 2.86 Å
Organisms	Orthotospovirus tomatomaculae
Macromolecule	Glycoprotein (protein)
Unique Ligands	ACT, NAG, NH4
Unique branched monosaccharides	BMA, NAG

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6YA2 \| pdb_00006ya2	Download File View File

Crystal structure of TSWV glycoprotein N ectodomain (Trypsin treated)

Dessau, M., Bahat, Y.

(2020) Proc Natl Acad Sci U S A 117: 26237

Released	2020-09-30
Method	X-RAY DIFFRACTION 2.5 Å
Organisms	Orthotospovirus tomatomaculae
Macromolecule	Glycoprotein (protein)
Unique Ligands	NAG
Unique branched monosaccharides	NAG

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6ZFX \| pdb_00006zfx	Download File View File

hSARM1 GraFix-ed

Sporny, M., Guez-Haddad, J., Khazma, T., Yaron, A., Dessau, M., Mim, C., Isupov, M.N., Zalk, R., Hons, M., Opatowsky, Y.

(2020) Elife 9:

Released	2020-11-18
Method	ELECTRON MICROSCOPY 2.88 Å
Organisms	Homo sapiens
Macromolecule	NAD(+) hydrolase SARM1 (protein)
Unique Ligands	S1N

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6ZG0 \| pdb_00006zg0	Download File View File

SARM1 SAM1-2 domains

Sporny, M., Guez-Haddad, J., Khazma, T., Yaron, A., Dessau, M., Mim, C., Isupov, M.N., Zalk, R., Hons, M., Opatowsky, Y.

(2020) Elife 9:

Released	2020-11-11
Method	ELECTRON MICROSCOPY 7.7 Å
Organisms	Homo sapiens
Macromolecule	NAD(+) hydrolase SARM1 (protein)
Unique Ligands	BME, EDO, PEG, PGE

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6ZG1 \| pdb_00006zg1	Download File View File

SARM1 SAM1-2 domains

Sporny, M., Guez-Haddad, J., Khazma, T., Yaron, A., Dessau, M., Mim, C., Isupov, M.N., Zalk, R., Hons, M., Opatowsky, Y.

(2020) Elife 9:

Released	2020-11-11
Method	ELECTRON MICROSCOPY 3.77 Å
Organisms	Homo sapiens
Macromolecule	Sterile alpha and TIR motif-containing protein 1 (protein)
Unique Ligands	BME, EDO, PEG, PGE

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7ANW \| pdb_00007anw	Download File View File

hSARM1 NAD+ complex

Sporny, M., Guez-Haddad, J., Khazma, T., Yaron, A., Mim, C., Isupov, M.N., Zalk, R., Dessau, M., Hons, M., Opatowsky, Y.

(2020) Elife 9:

Released	2020-11-11
Method	ELECTRON MICROSCOPY 2.68 Å
Organisms	Homo sapiens
Macromolecule	NAD(+) hydrolase SARM1 (protein)
Unique Ligands	NAD

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7NVJ \| pdb_00007nvj	Download File View File

Crystal structure of UFC1 Y110A & F121A

Manoj Kumar, P., Padala, P., Isupov, M.N., Wiener, R.

(2021) Nat Commun 12: 5708-5708

Released	2021-09-29
Method	X-RAY DIFFRACTION 2.2 Å
Organisms	Homo sapiens
Macromolecule	Ubiquitin-fold modifier-conjugating enzyme 1 (protein)
Unique Ligands	GOL

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7NVK \| pdb_00007nvk	Download File View File

Crystal structure of UBA5 fragment fused to the N-terminus of UFC1

Manoj Kumar, P., Padala, P., Isupov, M.N., Wiener, R.

(2021) Nat Commun 12: 5708-5708

Released	2021-09-29
Method	X-RAY DIFFRACTION 2.651 Å
Organisms	Homo sapiens
Macromolecule	Ubiquitin-like modifier-activating enzyme 5,Ubiquitin-fold modifier-conjugating enzyme 1 (protein)

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7NW1 \| pdb_00007nw1	Download File View File

Crystal structure of UFC1 in complex with UBA5

Manoj Kumar, P., Padala, P., Isupov, M.N., Wiener, R.

(2021) Nat Commun 12: 5708-5708

Released	2021-09-29
Method	X-RAY DIFFRACTION 1.95 Å
Organisms	Homo sapiens
Macromolecule	Ubiquitin-fold modifier-conjugating enzyme 1 (protein) Ubiquitin-like modifier-activating enzyme 5 (protein)
Unique Ligands	EDO, GOL, PEG, PGE

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7WBZ \| pdb_00007wbz	Download File View File

Crystal structure of the SARS-Cov-2 RBD in complex with Fab 2303

Xiang, Y., Ma, B.

(2022) Commun Biol 5: 789-789

Released	2022-08-31
Method	X-RAY DIFFRACTION 2.42 Å
Organisms	Homo sapiens Severe acute respiratory syndrome coronavirus 2
Macromolecule	2303 heavy chain (protein) 2303 light chain (protein) Spike protein S1 (protein)
Unique Ligands	NAG

1 to 25 of 31 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

3CHM | pdb_00003chm

3G7T | pdb_00003g7t

4DQ5 | pdb_00004dq5

4DQ7 | pdb_00004dq7

4DQJ | pdb_00004dqj

4HJ1 | pdb_00004hj1

4HJC | pdb_00004hjc

4NO4 | pdb_00004no4

5J81 | pdb_00005j81

5J9H | pdb_00005j9h

5NV1 | pdb_00005nv1

5NVJ | pdb_00005nvj

5NXJ | pdb_00005nxj

6Y9L | pdb_00006y9l

6Y9M | pdb_00006y9m

6YA0 | pdb_00006ya0

6YA2 | pdb_00006ya2

6ZFX | pdb_00006zfx

6ZG0 | pdb_00006zg0

6ZG1 | pdb_00006zg1

7ANW | pdb_00007anw

7NVJ | pdb_00007nvj

7NVK | pdb_00007nvk

7NW1 | pdb_00007nw1

7WBZ | pdb_00007wbz