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(-) Description

Title :  CRYSTAL STRUCTURE OF UVB-RESISTANCE PROTEIN UVR8
 
Authors :  D. Wu, Q. Hu, Z. Yan, W. Chen, C. Yan, J. Wang, Y. Shi
Date :  09 Feb 12  (Deposition) - 07 Mar 12  (Release) - 17 Jul 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.77
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A,B  (1x)
Biol. Unit 2:  A  (1x)
Biol. Unit 3:  B  (1x)
Keywords :  Wd40 Repeats, Uv-B Perception, Cop1, Gene Regulation (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  D. Wu, Q. Hu, Z. Yan, W. Chen, C. Yan, X. Huang, J. Zhang, P. Yang, H. Deng, J. Wang, X. Deng, Y. Shi
Structural Basis Of Ultraviolet-B Perception By Uvr8.
Nature V. 484 214 2012
PubMed-ID: 22388820  |  Reference-DOI: 10.1038/NATURE10931

(-) Compounds

Molecule 1 - AT5G63860/MGI19_6
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Fragment: UNP RESIDUES 12-385
    Gene: UVR8, AT5G63860, AT5G63860
    Organism Common: MOUSE-EAR CRESS
    Organism Scientific: ARABIDOPSIS THALIANA
    Organism Taxid: 3702
    Synonym: PROTEIN UV-B RESISTANCE 8, UVB-RESISTANCE PROTEIN UVR8

 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 4DNW)

(-) Sites  (0, 0)

(no "Site" information available for 4DNW)

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4DNW)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) 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:347-381
B:347-385
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:347-381
B:347-385
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:347-381
-
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:347-385

(-) Exons   (0, 0)

(no "Exon" information available for 4DNW)

(-) 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:369
 aligned with UVR8_ARATH | Q9FN03 from UniProtKB/Swiss-Prot  Length:440

    Alignment length:369
                                    22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352       362       372         
           UVR8_ARATH    13 PPRKVLIISAGASHSVALLSGDIVCSWGRGEDGQLGHGDAEDRPSPTQLSALDGHQIVSVTCGADHTVAYSQSGMEVYSWGWGDFGRLGHGNSSDLFTPLPIKALHGIRIKQIACGDSHCLAVTMEGEVQSWGRNQNGQLGLGDTEDSLVPQKIQAFEGIRIKMVAAGAEHTAAVTEDGDLYGWGWGRYGNLGLGDRTDRLVPERVTSTGGEKMSMVACGWRHTISVSYSGALYTYGWSKYGQLGHGDLEDHLIPHKLEALSNSFISQISGGWRHTMALTSDGKLYGWGWNKFGQVGVGNNLDQCSPVQVRFPDDQKVVQVSCGWRHTLAVTERNNVFAWGRGTNGQLGIGESVDRNFPKIIEALSVDG 381
               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..............eeeeee..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:347-381              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
                 4dnw A  13 PPRKVLIISAGASHSVALLSGDIVCSWGRGEDGQLGHGDAEDRPSPTQLSALDGHQIVSVTCGADHTVAYSQSGMEVYSWGWGDFGRLGHGNSSDLFTPLPIKALHGIRIKQIACGDSHCLAVTMEGEVQSWGRNQNGQLGLGDTEDSLVPQKIQAFEGIRIKMVAAGAEHTAAVTEDGDLYGWGWGRYGNLGLGDRTDRLVPERVTSTGGEKMSMVACGWRHTISVSYSGALYTYGWSKYGQLGHGDLEDHLIPHKLEALSNSFISQISGGWRHTMALTSDGKLYGWGWNKFGQVGVGNNLDQCSPVQVRFPDDQKVVQVSCGWRHTLAVTERNNVFAWGRGTNGQLGIGESVDRNFPKIIEALSVDG 381
                                    22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352       362       372         


Chain B from PDB  Type:PROTEIN  Length:374
 aligned with UVR8_ARATH | Q9FN03 from UniProtKB/Swiss-Prot  Length:440

    Alignment length:374
                                    21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351       361       371       381    
           UVR8_ARATH    12 APPRKVLIISAGASHSVALLSGDIVCSWGRGEDGQLGHGDAEDRPSPTQLSALDGHQIVSVTCGADHTVAYSQSGMEVYSWGWGDFGRLGHGNSSDLFTPLPIKALHGIRIKQIACGDSHCLAVTMEGEVQSWGRNQNGQLGLGDTEDSLVPQKIQAFEGIRIKMVAAGAEHTAAVTEDGDLYGWGWGRYGNLGLGDRTDRLVPERVTSTGGEKMSMVACGWRHTISVSYSGALYTYGWSKYGQLGHGDLEDHLIPHKLEALSNSFISQISGGWRHTMALTSDGKLYGWGWNKFGQVGVGNNLDQCSPVQVRFPDDQKVVQVSCGWRHTLAVTERNNVFAWGRGTNGQLGIGESVDRNFPKIIEALSVDGASGQ 385
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....eeeeee...eeeeee...eeeeee..............eeeeee.hhhh.....eeee...eeeeee....eeeeee.hhhhh........eeeeee.hhhh...eeeeee...eeeeee....eeeee..............eeeeee.hhhh...eeeeee...eeeeee....eeeee..............eeeeeee.......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:347-385 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
                 4dnw B  12 APPRKVLIISAGASHSVALLSGDIVCSWGRGEDGQLGHGDAEDRPSPTQLSALDGHQIVSVTCGADHTVAYSQSGMEVYSWGWGDFGRLGHGNSSDLFTPLPIKALHGIRIKQIACGDSHCLAVTMEGEVQSWGRNQNGQLGLGDTEDSLVPQKIQAFEGIRIKMVAAGAEHTAAVTEDGDLYGWGWGRYGNLGLGDRTDRLVPERVTSTGGEKMSMVACGWRHTISVSYSGALYTYGWSKYGQLGHGDLEDHLIPHKLEALSNSFISQISGGWRHTMALTSDGKLYGWGWNKFGQVGVGNNLDQCSPVQVRFPDDQKVVQVSCGWRHTLAVTERNNVFAWGRGTNGQLGIGESVDRNFPKIIEALSVDGASGQ 385
                                    21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351       361       371       381
   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 4DNW)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) 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

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UniProtKB/Swiss-Prot
        UVR8_ARATH | Q9FN03: 4d9s 4dnu 4dnv 4naa 4nbm 4nc4

(-) Related Entries Specified in the PDB File

4dnu 4dnv