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(-) Description

Title :  CRYSTAL STRUCTURE OF UVRA2 FROM DEINOCOCCUS RADIODURANS
 
Authors :  J. Timmins, E. Gordon, S. Caria, G. Leonard, M. S. Kuo, V. Monchois, S. Mcsweeney
Date :  31 Oct 07  (Deposition) - 16 Dec 08  (Release) - 28 Apr 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  3.00
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A,B  (1x)
Biol. Unit 2:  A  (1x)
Biol. Unit 3:  B  (1x)
Keywords :  Nucleotide-Binding, Zinc-Binding Domain, Sos Response, Metal-Binding, Excision Nuclease, Zinc-Finger, Atp-Binding, Dna-Binding, Dna Excision, Zinc, Cytoplasm, Dna Damage, Dna Repair, Abc Protein, Dna-Binding Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  J. Timmins, E. Gordon, S. Caria, G. Leonard, S. Acajjaoui, M. S. Kuo, V. Monchois, S. Mcsweeney
Structural And Mutational Analyses Of Deinococcus Radiodurans Uvra2 Provide Insight Into Dna Binding And Damage Recognition By Uvras.
Structure V. 17 547 2009
PubMed-ID: 19368888  |  Reference-DOI: 10.1016/J.STR.2009.02.008

(-) Compounds

Molecule 1 - EXCINUCLEASE ABC SUBUNIT A
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PLX02
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Fragment: RESIDUES 81-922
    Mutation: YES
    Organism Scientific: DEINOCOCCUS RADIODURANS
    Organism Taxid: 1299
    Synonym: UVRA2

 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  (4, 17)

Asymmetric Unit (4, 17)
No.NameCountTypeFull Name
1ADP4Ligand/IonADENOSINE-5'-DIPHOSPHATE
2PO41Ligand/IonPHOSPHATE ION
3SO48Ligand/IonSULFATE ION
4ZN4Ligand/IonZINC ION
Biological Unit 1 (3, 13)
No.NameCountTypeFull Name
1ADP4Ligand/IonADENOSINE-5'-DIPHOSPHATE
2PO41Ligand/IonPHOSPHATE ION
3SO48Ligand/IonSULFATE ION
4ZN-1Ligand/IonZINC ION
Biological Unit 2 (2, 5)
No.NameCountTypeFull Name
1ADP2Ligand/IonADENOSINE-5'-DIPHOSPHATE
2PO4-1Ligand/IonPHOSPHATE ION
3SO43Ligand/IonSULFATE ION
4ZN-1Ligand/IonZINC ION
Biological Unit 3 (3, 8)
No.NameCountTypeFull Name
1ADP2Ligand/IonADENOSINE-5'-DIPHOSPHATE
2PO41Ligand/IonPHOSPHATE ION
3SO45Ligand/IonSULFATE ION
4ZN-1Ligand/IonZINC ION

(-) Sites  (17, 17)

Asymmetric Unit (17, 17)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREHIS A:24 , ASN A:25 , VAL A:44 , SER A:45 , GLY A:46 , SER A:47 , GLY A:48 , LYS A:49 , SER A:50 , SER A:51 , ARG A:101 , GLN A:726 , GLU A:730BINDING SITE FOR RESIDUE ADP A1843
02AC2SOFTWARETYR A:370 , ARG A:375 , ASN A:511 , ASN A:512 , GLY A:533 , SER A:534 , GLY A:535 , LYS A:536 , SER A:537 , THR A:538BINDING SITE FOR RESIDUE ADP A1844
03AC3SOFTWARECYS A:151 , CYS A:154 , CYS A:287 , CYS A:290BINDING SITE FOR RESIDUE ZN A1845
04AC4SOFTWARECYS A:641 , CYS A:644 , CYS A:667BINDING SITE FOR RESIDUE ZN A1846
05AC5SOFTWAREHIS B:24 , ASN B:25 , VAL B:44 , SER B:45 , GLY B:46 , SER B:47 , GLY B:48 , LYS B:49 , SER B:50 , SER B:51 , ARG B:101 , GLN B:726 , GLU B:730 , HOH B:2061 , HOH B:2062BINDING SITE FOR RESIDUE ADP B1843
06AC6SOFTWARETYR B:370 , ARG B:375 , ASN B:511 , ASN B:512 , SER B:532 , GLY B:533 , SER B:534 , GLY B:535 , LYS B:536 , SER B:537 , THR B:538 , ASP B:568 , HIS B:569 , GLY B:810BINDING SITE FOR RESIDUE ADP B1844
07AC7SOFTWARECYS B:151 , CYS B:154 , CYS B:287 , CYS B:290BINDING SITE FOR RESIDUE ZN B1845
08AC8SOFTWARECYS B:641 , CYS B:644 , CYS B:664 , CYS B:667BINDING SITE FOR RESIDUE ZN B1846
09AC9SOFTWARELEU A:76 , ARG B:121 , HOH B:2064BINDING SITE FOR RESIDUE SO4 B1847
10BC1SOFTWARESER A:112 , SER A:117 , ARG A:121 , SER A:143 , ASN A:145 , HOH A:2037BINDING SITE FOR RESIDUE SO4 A1847
11BC2SOFTWAREMET A:247BINDING SITE FOR RESIDUE SO4 A1849
12BC3SOFTWAREGLY A:595 , ARG A:596 , THR A:597 , SER A:600BINDING SITE FOR RESIDUE SO4 A1848
13BC4SOFTWARETYR B:130 , ILE B:136 , ARG B:342BINDING SITE FOR RESIDUE SO4 B1848
14BC5SOFTWARELEU B:364 , LEU B:366 , GLY B:367 , LEU B:368 , GLY B:369 , TYR B:370BINDING SITE FOR RESIDUE SO4 B1849
15BC6SOFTWARELYS B:32 , TRP B:449 , LYS B:474 , HIS B:475BINDING SITE FOR RESIDUE SO4 B1850
16BC7SOFTWAREGLY B:595 , ARG B:596 , THR B:597 , ARG B:599 , SER B:600 , HOH B:2065BINDING SITE FOR RESIDUE SO4 B1851
17BC8SOFTWARESER B:50 , PHE B:54 , ARG B:101 , ASP B:406BINDING SITE FOR RESIDUE PO4 B1852

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2VF8)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 2VF8)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2VF8)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2VF8)

(-) Exons   (0, 0)

(no "Exon" information available for 2VF8)

(-) 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:806
 aligned with Q9RYW8_DEIRA | Q9RYW8 from UniProtKB/TrEMBL  Length:922

    Alignment length:833
                                    99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259       269       279       289       299       309       319       329       339       349       359       369       379       389       399       409       419       429       439       449       459       469       479       489       499       509       519       529       539       549       559       569       579       589       599       609       619       629       639       649       659       669       679       689       699       709       719       729       739       749       759       769       779       789       799       809       819       829       839       849       859       869       879       889       899       909       919   
         Q9RYW8_DEIRA    90 FPDGGFVQVRGARQHNLKDISVKVPRDALVVFTGVSGSGKSSLAFGTLYAEAQRRYLESVSPYARRLFNQAGVPDVDAIDGLPPAVALQQARGTPTARSSVGSVTTLSNLLRMLYSRAGDYPPGQGIVYAEGFSPNTPEGACPECHGLGRVYTVTEDSMVPDPSLTIRERAVAAWPQAWGGQNQRDILVTLGIDVDVPWRELPEETRHWILFTDEQPVVPVYPGLTPAETQRALKKKMEPSYMGTFSSARRHVLHTFANTESASMKKRVQGYMISEECPLCHGKRLRQEALNVTFAGLDITELSRLPLARVSELLRPYAEEREPGHAERVKNRPEQAIALQRMAADLVKRLDVLLHLGLGYLGLDRSTPTLSPGELQRLRLATQLYSNLFGVVYVLDEPSAGLHPADTEALLSALENLKRGGNSLFVVEHDLDVIRRADWLVDVGPEAGEKGGEILYSGPPEGLKHVPESQTGQYLFADRHTEPHTPREPAGWLELNGVTRNNLDNLDVRFPLGVMTSVTGVSGSGKSTLVSQALVDALAAHFGQPVNPDPEDDEDPADHTAGSARLGGDLAQITRLVRVDQKPIGRTPRSNMATYTGLFDQVRKLFAATPLAKKRGYNAGRFSFNVKGGRCEHCQGEGWVMVELLFLPSVYAPCPVCHGTRYNAETLEVEYRGKNIADVLALTVDEAHDFFADESAIFRALDTLREVGLGYLRLGQPATELSGGEAQRIKLATELQRSGRGGTVYVLDEPTTGLHPADVERLQRQLVKLVDAGNTVIAVEHKMQVVAASDWVLDIGPGAGEDGGRLVAQGTPAEVAQAAGSVTAPYLRAALR 922
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....eeeeeee.......eeeeee...eeeeee....hhhhhhh.hhhhhhhhhhhhhhh.........--...eeeee....eee............hhhhhhhhhhhhhhhhhhh..........hhhhh................eeee.hhhhhh......hhhh.......hhhhhhhhhhhhhh.......hhhh...hhhhhhhh....eeee....hhhhhhhhhhh.....eeee..hhhhhhhhhhhhh.hhhhhhhhhh..eeee.........hhhhhh......hhhhhhh.hhhhhhhhhhhhhh.....hhhhh..hhhhhhhhhhhhhhhhhhhhhhhhh..........hhhhhhhhhhhhhhhhhhhhh....eeeee.........hhhhhhhhhhhhhh...eeeee..hhhhhhhh.eeeee...hhhhh..eeeeehhhhhhhh..hhhhhhhhh.---..........eeeeeeeee..eeeeeeeee...eeeeee....hhhhhhhhhhhhhhhhhh..-----------------.......hhhhh.eeee............hhhhhhhhhhhhhhhhhhhhhhhhh...........................-----...........................hhhhhhh.hhhhhhhhh..hhhhhhhhhhhhh................hhhhhhhhhhhhhhhh....eeee........hhhhhhhhhhhhhhhhhh...eeee..hhhhhhh..eeeee...hhhhh..eeeeehhhhhh......hhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2vf8 A  10 FPDGGFVQVRGARQHNLKDISVKVPRDALVVFTGVSGSGKSSLAFGTLYAEAQRRYLESVSPYARRLFNQ--VPDVDAIDGLPPAVALQQARGTPTARSSVGSVTTLSNLLRMLYSRAGDYPPGQGIVYAEGFSPNTPEGACPECHGLGRVYTVTEDSMVPDPSLTIRERAVAAWPQAWGGQNQRDILVTLGIDVDVPWRELPEETRHWILFTDEQPVVPVYPGLTPAETQRALKKKMEPSYMGTFSSARRHVLHTFANTESASMKKRVQGYMISEECPLCHGKRLRQEALNVTFAGLDITELSRLPLARVSELLRPYAEEREPGHAERVKNRPEQAIALQRMAADLVKRLDVLLHLGLGYLGLDRSTPTLSPGELQRLRLATQLYSNLFGVVYVLDEPSAGLHPADTEALLSALENLKRGGNSLFVVEHDLDVIRRADWLVDVGPEAGEKGGEILYSGPPEGLKHVPESQTGQYLFAD---EPHTPREPAGWLELNGVTRNNLDNLDVRFPLGVMTSVTGVSGSGKSTLVSQALVDALAAHFGQ-----------------GSARLGGDLAQITRLVRVDQKPIGRTPRSNMATYTGLFDQVRKLFAATPLAKKRGYNAGRFSFNVKGGRCEHCQGEGWVMV-----PSVYAPCPVCHGTRYNAETLEVEYRGKNIADVLALTVDEAHDFFADESAIFRALDTLREVGLGYLRLGQPATELSGGEAQRIKLATELRRSGRGGTVYVLDEPTTGLHPADVERLQRQLVKLVDAGNTVIAVEHKMQVVAASDWVLDIGPGAGEDGGRLVAQGTPAEVAQAAGSVTAPYLRAALR 842
                                    19        29        39        49        59        69        79  |     89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259       269       279       289       299       309       319       329       339       349       359       369       379       389       399       409       419       429       439       449       459       469       479        |-  |    499       509       519       529       539       549    |    -         -  |    579       589       599       609       619       629       639       649  |    659       669       679       689       699       709       719       729       739       749       759       769       779       789       799       809       819       829       839   
                                                                                                79 82                                                                                                                                                                                                                                                                                                                                                                                                                   488 492                                                           554               572                                                                             652   658                                                                                                                                                                                        


Chain B from PDB  Type:PROTEIN  Length:835
 aligned with Q9RYW8_DEIRA | Q9RYW8 from UniProtKB/TrEMBL  Length:922

    Alignment length:835
                                    97       107       117       127       137       147       157       167       177       187       197       207       217       227       237       247       257       267       277       287       297       307       317       327       337       347       357       367       377       387       397       407       417       427       437       447       457       467       477       487       497       507       517       527       537       547       557       567       577       587       597       607       617       627       637       647       657       667       677       687       697       707       717       727       737       747       757       767       777       787       797       807       817       827       837       847       857       867       877       887       897       907       917     
         Q9RYW8_DEIRA    88 PDFPDGGFVQVRGARQHNLKDISVKVPRDALVVFTGVSGSGKSSLAFGTLYAEAQRRYLESVSPYARRLFNQAGVPDVDAIDGLPPAVALQQARGTPTARSSVGSVTTLSNLLRMLYSRAGDYPPGQGIVYAEGFSPNTPEGACPECHGLGRVYTVTEDSMVPDPSLTIRERAVAAWPQAWGGQNQRDILVTLGIDVDVPWRELPEETRHWILFTDEQPVVPVYPGLTPAETQRALKKKMEPSYMGTFSSARRHVLHTFANTESASMKKRVQGYMISEECPLCHGKRLRQEALNVTFAGLDITELSRLPLARVSELLRPYAEEREPGHAERVKNRPEQAIALQRMAADLVKRLDVLLHLGLGYLGLDRSTPTLSPGELQRLRLATQLYSNLFGVVYVLDEPSAGLHPADTEALLSALENLKRGGNSLFVVEHDLDVIRRADWLVDVGPEAGEKGGEILYSGPPEGLKHVPESQTGQYLFADRHTEPHTPREPAGWLELNGVTRNNLDNLDVRFPLGVMTSVTGVSGSGKSTLVSQALVDALAAHFGQPVNPDPEDDEDPADHTAGSARLGGDLAQITRLVRVDQKPIGRTPRSNMATYTGLFDQVRKLFAATPLAKKRGYNAGRFSFNVKGGRCEHCQGEGWVMVELLFLPSVYAPCPVCHGTRYNAETLEVEYRGKNIADVLALTVDEAHDFFADESAIFRALDTLREVGLGYLRLGQPATELSGGEAQRIKLATELQRSGRGGTVYVLDEPTTGLHPADVERLQRQLVKLVDAGNTVIAVEHKMQVVAASDWVLDIGPGAGEDGGRLVAQGTPAEVAQAAGSVTAPYLRAALR 922
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
           Pfam domains (1) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ABC_tran-2vf8B01 B:567-762                                                                                                                                                                          -------------------------------------------------------------------------------- Pfam domains (1)
           Pfam domains (2) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ABC_tran-2vf8B02 B:567-762                                                                                                                                                                          -------------------------------------------------------------------------------- Pfam domains (2)
         Sec.struct. author .......eeeeeee..........eee...eeeee.....hhhhhhh.hhhhhhhhhhhhhhh.hhhhhh.......eeeee....eee............hhhhhhhhhhhhhhhhhhh..........hhhhh................eeee.hhhhhh................hhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhh....eeee....hhhhhhhhhhh.....eeee..hhhhhhhhhhhhh.hhhhhhhhhh..eeee.........hhhhhhh.....hhhhhhhhhhhhhhhhhhhhhh.....hhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhh..........hhhhhhhhhhhhhhhhhhhh.....eeeee......hhhhhhhhhhhhhhhhh...eeeee..hhhhhh...eeeee...hhhh...eeeeehhhhhhhh..hhhhhhhhh..............eeeeeeeee..eeeeeeeee...eeeeee....hhhhhhhhhhhhhhhh........................eeee.hhhh..eeee...........hhhhhhhhhhhhhhhhh.hhhhhhh.......................eee.........eee.........hhhhhh......hhhhhhh.hhhhhhhhh..hhhhhhhhhhhhhh.........hhhhh...hhhhhhhhhhhh.......eeee.......hhhhhhhhhhhhhhhhh...eeeee..hhhhhhhh.eeeee...hhhhh....eeehhhhhh......hhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2vf8 B   8 PDFPDGGFVQVRGARQHNLKDISVKVPRDALVVFTGVSGSGKSSLAFGTLYAEAQRRYLESVSPYARRLFNQAGVPDVDAIDGLPPAVALQQARGTPTARSSVGSVTTLSNLLRMLYSRAGDYPPGQGIVYAEGFSPNTPEGACPECHGLGRVYTVTEDSMVPDPSLTIRERAVAAWPQAWGGQNQRDILVTLGIDVDVPWRELPEETRHWILFTDEQPVVPVYPGLTPAETQRALKKKMEPSYMGTFSSARRHVLHTFANTESASMKKRVQGYMISEECPLCHGKRLRQEALNVTFAGLDITELSRLPLARVSELLRPYAEEREPGHAERVKNRPEQAIALQRMAADLVKRLDVLLHLGLGYLGLDRSTPTLSPGELQRLRLATQLYSNLFGVVYVLDEPSAGLHPADTEALLSALENLKRGGNSLFVVEHDLDVIRRADWLVDVGPEAGEKGGEILYSGPPEGLKHVPESQTGQYLFADRHTEPHTPREPAGWLELNGVTRNNLDNLDVRFPLGVMTSVTGVSGSGKSTLVSQALVDALAAHFGQPVNPDPEDDEDPADHTAGSARLGGDLAQITRLVRVDQKPIGRTPRSNMATYTGLFDQVRKLFAATPLAKKRGYNAGRFSFNVKGGRCEHCQGEGWVMVELLFLPSVYAPCPVCHGTRYNAETLEVEYRGKNIADVLALTVDEAHDFFADESAIFRALDTLREVGLGYLRLGQPATELSGGEAQRIKLATELRRSGRGGTVYVLDEPTTGLHPADVERLQRQLVKLVDAGNTVIAVEHKMQVVAASDWVLDIGPGAGEDGGRLVAQGTPAEVAQAAGSVTAPYLRAALR 842
                                    17        27        37        47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207       217       227       237       247       257       267       277       287       297       307       317       327       337       347       357       367       377       387       397       407       417       427       437       447       457       467       477       487       497       507       517       527       537       547       557       567       577       587       597       607       617       627       637       647       657       667       677       687       697       707       717       727       737       747       757       767       777       787       797       807       817       827       837
   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 2VF8)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 2VF8)

(-) Pfam Domains  (1, 2)

Asymmetric Unit
(-)
Clan: P-loop_NTPase (1112)

(-) Gene Ontology  (13, 13)

Asymmetric Unit(hide GO term definitions)
Chain A,B   (Q9RYW8_DEIRA | Q9RYW8)
molecular function
    GO:0005524    ATP binding    Interacting selectively and non-covalently with ATP, adenosine 5'-triphosphate, a universally important coenzyme and enzyme regulator.
    GO:0016887    ATPase activity    Catalysis of the reaction: ATP + H2O = ADP + phosphate + 2 H+. May or may not be coupled to another reaction.
    GO:0003677    DNA binding    Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
    GO:0009381    excinuclease ABC activity    Catalysis of the hydrolysis of ester linkages within deoxyribonucleic acid at sites flanking regions of damaged DNA to which the Uvr ABC excinuclease complexes bind.
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
    GO:0004518    nuclease activity    Catalysis of the hydrolysis of ester linkages within nucleic acids.
    GO:0000166    nucleotide binding    Interacting selectively and non-covalently with a nucleotide, any compound consisting of a nucleoside that is esterified with (ortho)phosphate or an oligophosphate at any hydroxyl group on the ribose or deoxyribose.
biological process
    GO:0006281    DNA repair    The process of restoring DNA after damage. Genomes are subject to damage by chemical and physical agents in the environment (e.g. UV and ionizing radiations, chemical mutagens, fungal and bacterial toxins, etc.) and by free radicals or alkylating agents endogenously generated in metabolism. DNA is also damaged because of errors during its replication. A variety of different DNA repair pathways have been reported that include direct reversal, base excision repair, nucleotide excision repair, photoreactivation, bypass, double-strand break repair pathway, and mismatch repair pathway.
    GO:0006974    cellular response to DNA damage stimulus    Any process that results in a change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus indicating damage to its DNA from environmental insults or errors during metabolism.
    GO:0090305    nucleic acid phosphodiester bond hydrolysis    The nucleic acid metabolic process in which the phosphodiester bonds between nucleotides are cleaved by hydrolysis.
    GO:0006289    nucleotide-excision repair    A DNA repair process in which a small region of the strand surrounding the damage is removed from the DNA helix as an oligonucleotide. The small gap left in the DNA helix is filled in by the sequential action of DNA polymerase and DNA ligase. Nucleotide excision repair recognizes a wide range of substrates, including damage caused by UV irradiation (pyrimidine dimers and 6-4 photoproducts) and chemicals (intrastrand cross-links and bulky adducts).
cellular component
    GO:0005737    cytoplasm    All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
    GO:0009380    excinuclease repair complex    Any of the protein complexes formed by the UvrABC excinuclease system, which carries out nucleotide excision repair. Three different complexes are formed by the 3 proteins as they proceed through the excision repair process. First a complex consisting of two A subunits and two B subunits bind DNA and unwind it around the damaged site. Then, the A subunits disassociate leaving behind a stable complex between B subunits and DNA. Now, subunit C binds to this B+DNA complex and causes subunit B to nick the DNA on one side of the complex while subunit C nicks the DNA on the other side of the complex. DNA polymerase I and DNA ligase can then repair the resulting gap.

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        Q9RYW8_DEIRA | Q9RYW8: 2vf7

(-) Related Entries Specified in the PDB File

2vf7 CRYSTAL STRUCTURE OF UVRA2 FROM DEINOCOCCUS RADIODURANS