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(-) Description

Title :  CRYSTAL STRUCTURE OF ARABIDOPSIS THALIANA UVR8 (UV RESISTANCE LOCUS 8)
 
Authors :  A. S. Arvai, J. M. Christie, A. J. Pratt, K. Hitomi, E. D. Getzoff
Date :  11 Jan 12  (Deposition) - 04 Apr 12  (Release) - 04 Apr 12  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.70
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A,B  (1x)
Biol. Unit 2:  A  (1x)
Biol. Unit 3:  B  (1x)
Keywords :  Uv Resistance, Uv-B Photoreceptor, Tryptophan Chromophores, Homodimer, Cop1, Chromatin-Binding Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  J. M. Christie, A. S. Arvai, K. J. Baxter, M. Heilmann, A. J. Pratt, A. O'Hara, S. M. Kelly, M. Hothorn, B. O. Smith, K. Hitomi, G. I. Jenkins E. D. Getzoff
Plant Uvr8 Photoreceptor Senses Uv-B By Tryptophan-Mediated Disruption Of Cross-Dimer Salt Bridges.
Science V. 335 1492 2012
PubMed-ID: 22323738  |  Reference-DOI: 10.1126/SCIENCE.1218091

(-) Compounds

Molecule 1 - UVB-RESISTANCE PROTEIN UVR8
    ChainsA, B
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System PlasmidPMH-HSSUMO
    Expression System Taxid562
    Expression System Vector TypePLASMID
    FragmentUNP RESIDUES 1-405
    GeneUVR8, AT5G63860, AT5G63860
    Organism CommonMOUSE-EAR CRESS,THALE-CRESS
    Organism ScientificARABIDOPSIS THALIANA
    Organism Taxid3702
    SynonymAT5G63860/MGI19_6U, AT5G63860/MGI19_6, PROTEIN UV-B RESISTANCE 8

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit AB
Biological Unit 1 (1x)AB
Biological Unit 2 (1x)A 
Biological Unit 3 (1x) B

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (0, 0)

(no "Ligand,Modified Residues,Ions" information available for 4D9S)

(-) Sites  (0, 0)

(no "Site" information available for 4D9S)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4D9S)

(-) Cis Peptide Bonds  (1, 1)

Asymmetric Unit
No.Residues
1Asp B:380 -Gly B:381

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4D9S)

(-) PROSITE Motifs  (2, 24)

Asymmetric Unit (2, 24)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1RCC1_2PS00626 Regulator of chromosome condensation (RCC1) signature 2.UVR8_ARATH20-30
 
177-187
 
229-239
 
281-291
 
333-343
 
  10A:20-30
B:20-30
A:177-187
B:177-187
A:229-239
B:229-239
A:281-291
B:281-291
A:333-343
B:333-343
2RCC1_3PS50012 Regulator of chromosome condensation (RCC1) repeat profile.UVR8_ARATH34-85
 
87-138
 
139-190
 
191-242
 
243-294
 
295-346
 
347-393
 
  14A:34-85
B:34-85
A:87-138
B:87-138
A:139-190
B:139-190
A:191-242
B:191-242
A:243-294
B:243-294
A:295-346
B:295-346
A:347-393
B:347-393
Biological Unit 1 (2, 24)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1RCC1_2PS00626 Regulator of chromosome condensation (RCC1) signature 2.UVR8_ARATH20-30
 
177-187
 
229-239
 
281-291
 
333-343
 
  10A:20-30
B:20-30
A:177-187
B:177-187
A:229-239
B:229-239
A:281-291
B:281-291
A:333-343
B:333-343
2RCC1_3PS50012 Regulator of chromosome condensation (RCC1) repeat profile.UVR8_ARATH34-85
 
87-138
 
139-190
 
191-242
 
243-294
 
295-346
 
347-393
 
  14A:34-85
B:34-85
A:87-138
B:87-138
A:139-190
B:139-190
A:191-242
B:191-242
A:243-294
B:243-294
A:295-346
B:295-346
A:347-393
B:347-393
Biological Unit 2 (2, 12)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1RCC1_2PS00626 Regulator of chromosome condensation (RCC1) signature 2.UVR8_ARATH20-30
 
177-187
 
229-239
 
281-291
 
333-343
 
  5A:20-30
-
A:177-187
-
A:229-239
-
A:281-291
-
A:333-343
-
2RCC1_3PS50012 Regulator of chromosome condensation (RCC1) repeat profile.UVR8_ARATH34-85
 
87-138
 
139-190
 
191-242
 
243-294
 
295-346
 
347-393
 
  7A:34-85
-
A:87-138
-
A:139-190
-
A:191-242
-
A:243-294
-
A:295-346
-
A:347-393
-
Biological Unit 3 (2, 12)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1RCC1_2PS00626 Regulator of chromosome condensation (RCC1) signature 2.UVR8_ARATH20-30
 
177-187
 
229-239
 
281-291
 
333-343
 
  5-
B:20-30
-
B:177-187
-
B:229-239
-
B:281-291
-
B:333-343
2RCC1_3PS50012 Regulator of chromosome condensation (RCC1) repeat profile.UVR8_ARATH34-85
 
87-138
 
139-190
 
191-242
 
243-294
 
295-346
 
347-393
 
  7-
B:34-85
-
B:87-138
-
B:139-190
-
B:191-242
-
B:243-294
-
B:295-346
-
B:347-393

(-) Exons   (0, 0)

(no "Exon" information available for 4D9S)

(-) Sequences/Alignments

Asymmetric Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
  Number of residues per labelling interval =   
  UniProt sequence: complete  aligned part    
   Show mapping: SCOP domains CATH domains Pfam domains Secondary structure (by author)
SAPs(SNPs) PROSITE motifs Exons
(details for a mapped element are shown in a popup box when the mouse pointer rests over it)
Chain A from PDB  Type:PROTEIN  Length:383
 aligned with UVR8_ARATH | Q9FN03 from UniProtKB/Swiss-Prot  Length:440

    Alignment length:383
                                    23        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253       263       273       283       293       303       313       323       333       343       353       363       373       383       393   
           UVR8_ARATH    14 PRKVLIISAGASHSVALLSGDIVCSWGRGEDGQLGHGDAEDRPSPTQLSALDGHQIVSVTCGADHTVAYSQSGMEVYSWGWGDFGRLGHGNSSDLFTPLPIKALHGIRIKQIACGDSHCLAVTMEGEVQSWGRNQNGQLGLGDTEDSLVPQKIQAFEGIRIKMVAAGAEHTAAVTEDGDLYGWGWGRYGNLGLGDRTDRLVPERVTSTGGEKMSMVACGWRHTISVSYSGALYTYGWSKYGQLGHGDLEDHLIPHKLEALSNSFISQISGGWRHTMALTSDGKLYGWGWNKFGQVGVGNNLDQCSPVQVRFPDDQKVVQVSCGWRHTLAVTERNNVFAWGRGTNGQLGIGESVDRNFPKIIEALSVDGASGQHIESSNIDPSS 396
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeee...eeeeee...eeeeee..............eeeeee.hhhh...eeeeee...eeeeee....eeeeee.hhhhh........eeeeee.hhhh...eeeeee...eeeeee....eeeee..............eeeeee.hhhh...eeeeee...eeeeee....eeeee..............eeeeee........eeeeee...eeeeee....eeeee..............eeeeee.hhhh...eeeeee...eeeeee....eeeee..............eeeeeee.hhhhh.eeeeee...eeeeee....eeeee..............eeeeee.hhhh.................. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) ------RCC1_2     ---RCC1_3  PDB: A:34-85 UniProt: 34-85                 -RCC1_3  PDB: A:87-138 UniProt: 87-138               --------------------------------------RCC1_2     -----------------------------------------RCC1_2     -----------------------------------------RCC1_2     -----------------------------------------RCC1_2     ---RCC1_3  PDB: A:347-393 UniProt: 347-393        --- PROSITE (1)
                PROSITE (2) -----------------------------------------------------------------------------------------------------------------------------RCC1_3  PDB: A:139-190 UniProt: 139-190             RCC1_3  PDB: A:191-242 UniProt: 191-242             RCC1_3  PDB: A:243-294 UniProt: 243-294             RCC1_3  PDB: A:295-346 UniProt: 295-346             -------------------------------------------------- PROSITE (2)
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4d9s A  14 PRKVLIISAGASHSVALLSGDIVCSWGRGEDGQLGHGDAEDRPSPTQLSALDGHQIVSVTCGADHTVAYSQSGMEVYSWGWGDFGRLGHGNSSDLFTPLPIKALHGIRIKQIACGDSHCLAVTMEGEVQSWGRNQNGQLGLGDTEDSLVPQKIQAFEGIRIKMVAAGAEHTAAVTEDGDLYGWGWGRYGNLGLGDRTDRLVPERVTSTGGEKMSMVACGWRHTISVSYSGALYTYGWSKYGQLGHGDLEDHLIPHKLEALSNSFISQISGGWRHTMALTSDGKLYGWGWNKFGQVGVGNNLDQCSPVQVRFPDDQKVVQVSCGWRHTLAVTERNNVFAWGRGTNGQLGIGESVDRNFPKIIEALSVDGASGQHIESSNIDPSS 396
                                    23        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253       263       273       283       293       303       313       323       333       343       353       363       373       383       393   

Chain B from PDB  Type:PROTEIN  Length:380
 aligned with UVR8_ARATH | Q9FN03 from UniProtKB/Swiss-Prot  Length:440

    Alignment length:382
                                    23        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253       263       273       283       293       303       313       323       333       343       353       363       373       383       393  
           UVR8_ARATH    14 PRKVLIISAGASHSVALLSGDIVCSWGRGEDGQLGHGDAEDRPSPTQLSALDGHQIVSVTCGADHTVAYSQSGMEVYSWGWGDFGRLGHGNSSDLFTPLPIKALHGIRIKQIACGDSHCLAVTMEGEVQSWGRNQNGQLGLGDTEDSLVPQKIQAFEGIRIKMVAAGAEHTAAVTEDGDLYGWGWGRYGNLGLGDRTDRLVPERVTSTGGEKMSMVACGWRHTISVSYSGALYTYGWSKYGQLGHGDLEDHLIPHKLEALSNSFISQISGGWRHTMALTSDGKLYGWGWNKFGQVGVGNNLDQCSPVQVRFPDDQKVVQVSCGWRHTLAVTERNNVFAWGRGTNGQLGIGESVDRNFPKIIEALSVDGASGQHIESSNIDPS 395
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeee...eeeeee...eeeeee..............eeeeee.hhhh...eeeeee...eeeeee....eeeeee.hhhhh........eeeeee.hhhh...eeeeee...eeeeee....eeeee..............eeeeee.hhhh...eeeeee...eeeeee....eeeee..............eeeeee........eeeeee...eeeeee....eeeee..............eeeeee.hhhh...eeeeee...eeeeee....eeeee..............eeeeeee.hhhhh.eeeeee...eeeeee....eeeee..............eeeeee.hhhh....--........... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) ------RCC1_2     ---RCC1_3  PDB: B:34-85 UniProt: 34-85                 -RCC1_3  PDB: B:87-138 UniProt: 87-138               --------------------------------------RCC1_2     -----------------------------------------RCC1_2     -----------------------------------------RCC1_2     -----------------------------------------RCC1_2     ---RCC1_3  PDB: B:347-393 UniProt: 347-393        -- PROSITE (1)
                PROSITE (2) -----------------------------------------------------------------------------------------------------------------------------RCC1_3  PDB: B:139-190 UniProt: 139-190             RCC1_3  PDB: B:191-242 UniProt: 191-242             RCC1_3  PDB: B:243-294 UniProt: 243-294             RCC1_3  PDB: B:295-346 UniProt: 295-346             ------------------------------------------------- PROSITE (2)
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4d9s B  14 PRKVLIISAGASHSVALLSGDIVCSWGRGEDGQLGHGDAEDRPSPTQLSALDGHQIVSVTCGADHTVAYSQSGMEVYSWGWGDFGRLGHGNSSDLFTPLPIKALHGIRIKQIACGDSHCLAVTMEGEVQSWGRNQNGQLGLGDTEDSLVPQKIQAFEGIRIKMVAAGAEHTAAVTEDGDLYGWGWGRYGNLGLGDRTDRLVPERVTSTGGEKMSMVACGWRHTISVSYSGALYTYGWSKYGQLGHGDLEDHLIPHKLEALSNSFISQISGGWRHTMALTSDGKLYGWGWNKFGQVGVGNNLDQCSPVQVRFPDDQKVVQVSCGWRHTLAVTERNNVFAWGRGTNGQLGIGESVDRNFPKIIEALSVDGA--QHIESSNIDPS 395
                                    23        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253       263       273       283       293       303       313       323       333       343       353       363       373        |- |     393  
                                                                                                                                                                                                                                                                                                                                                                                                          382  |          
                                                                                                                                                                                                                                                                                                                                                                                                             385          

   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
    → Modified Residue (blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
  x → Chemical Group (purple background, 'x', labelled with number + name, e.g. ACE or NH2)
  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (0, 0)

(no "SCOP Domain" information available for 4D9S)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4D9S)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4D9S)

(-) Gene Ontology  (16, 16)

Asymmetric Unit(hide GO term definitions)
Chain A,B   (UVR8_ARATH | Q9FN03)
molecular function
    GO:0003682    chromatin binding    Interacting selectively and non-covalently with chromatin, the network of fibers of DNA, protein, and sometimes RNA, that make up the chromosomes of the eukaryotic nucleus during interphase.
    GO:0005085    guanyl-nucleotide exchange factor activity    Stimulates the exchange of guanyl nucleotides associated with a GTPase. Under normal cellular physiological conditions, the concentration of GTP is higher than that of GDP, favoring the replacement of GDP by GTP in association with the GTPase.
    GO:0009881    photoreceptor activity    The function of absorbing and responding to incidental electromagnetic radiation, particularly visible light. The response may involve a change in conformation.
    GO:0005515    protein binding    Interacting selectively and non-covalently with any protein or protein complex (a complex of two or more proteins that may include other nonprotein molecules).
    GO:0042803    protein homodimerization activity    Interacting selectively and non-covalently with an identical protein to form a homodimer.
biological process
    GO:0009649    entrainment of circadian clock    The synchronization of a circadian rhythm to environmental time cues such as light.
    GO:0043547    positive regulation of GTPase activity    Any process that activates or increases the activity of a GTPase.
    GO:0018298    protein-chromophore linkage    The covalent or noncovalent attachment of a chromophore to a protein.
    GO:0009411    response to UV    Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an ultraviolet radiation (UV light) stimulus. Ultraviolet radiation is electromagnetic radiation with a wavelength in the range of 10 to 380 nanometers.
    GO:0010224    response to UV-B    Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a UV-B radiation stimulus. UV-B radiation (UV-B light) spans the wavelengths 280 to 315 nm.
    GO:0050896    response to stimulus    Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus. The process begins with detection of the stimulus and ends with a change in state or activity or the cell or organism.
    GO:0007165    signal transduction    The cellular process in which a signal is conveyed to trigger a change in the activity or state of a cell. Signal transduction begins with reception of a signal (e.g. a ligand binding to a receptor or receptor activation by a stimulus such as light), or for signal transduction in the absence of ligand, signal-withdrawal or the activity of a constitutively active receptor. Signal transduction ends with regulation of a downstream cellular process, e.g. regulation of transcription or regulation of a metabolic process. Signal transduction covers signaling from receptors located on the surface of the cell and signaling via molecules located within the cell. For signaling between cells, signal transduction is restricted to events at and within the receiving cell.
cellular component
    GO:0000785    chromatin    The ordered and organized complex of DNA, protein, and sometimes RNA, that forms the chromosome.
    GO:0005737    cytoplasm    All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
    GO:0005829    cytosol    The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes.
    GO:0005634    nucleus    A membrane-bounded organelle of eukaryotic cells in which chromosomes are housed and replicated. In most cells, the nucleus contains all of the cell's chromosomes except the organellar chromosomes, and is the site of RNA synthesis and processing. In some species, or in specialized cell types, RNA metabolism or DNA replication may be absent.

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 Related Entries

(-) Entries Sharing at Least One Protein Chain (UniProt ID)

UniProtKB/Swiss-Prot
        UVR8_ARATH | Q9FN034dnu 4dnv 4dnw 4naa 4nbm 4nc4

(-) Related Entries Specified in the PDB File

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