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(-) Description

Title :  CRYSTAL STRUCTURE OF A PUTATIVE RIBOSE OPERON REPRESSOR FROM BURKHOLDERIA THAILANDENSIS
 
Authors :  J. B. Bonanno, Y. Patskovsky, M. Gilmore, K. T. Bain, S. Hu, R. Romero, S. Wasserman, J. M. Sauder, S. K. Burley, S. C. Almo, New York Sgx Res Center For Structural Genomics (Nysgxrc)
Date :  10 Sep 08  (Deposition) - 30 Sep 08  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.35
Chains :  Asym. Unit :  A,B,C,D,E,F
Biol. Unit 1:  A,B  (1x)
Biol. Unit 2:  C,D  (1x)
Biol. Unit 3:  E,F  (1x)
Keywords :  Structural Genomics, Unknown Function, Dna-Binding, Transcription, Transcription Regulation, Psi-2, Protein Structure Initiative, New York Sgx Research Center For Structural Genomics, Nysgxrc (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  J. B. Bonanno, Y. Patskovsky, M. Gilmore, K. T. Bain, S. Hu, R. Romero, S. Wasserman, J. M. Sauder, S. K. Burley, S. C. Almo
Crystal Structure Of A Putative Ribose Operon Repressor Fro Burkholderia Thailandensis
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - PUTATIVE RIBOSE OPERON REPRESSOR
    Chains: A, B, C, D, E, F
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: MODIFIED PET26
    Expression System Strain: BL21(DE3)
    Expression System Vector Type: PLASMID
    Gene: BTH_I0812
    Organism Scientific: BURKHOLDERIA THAILANDENSIS
    Organism Taxid: 271848
    Strain: E264

 Structural Features

(-) Chains, Units

  123456
Asymmetric Unit : ABCDEF
Biological Unit 1 (1x): AB    
Biological Unit 2 (1x):   CD  
Biological Unit 3 (1x):     EF

Summary Information (see also Sequences/Alignments below)

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

(no "Ligand,Modified Residues,Ions" information available for 3EGC)

(-) Sites  (0, 0)

(no "Site" information available for 3EGC)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3EGC)

(-) Cis Peptide Bonds  (6, 6)

Asymmetric Unit
No.Residues
1Asp A:290 -Pro A:291
2Asp B:290 -Pro B:291
3Asp C:290 -Pro C:291
4Asp D:290 -Pro D:291
5Asp E:290 -Pro E:291
6Asp F:290 -Pro F:291

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3EGC)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3EGC)

(-) Exons   (0, 0)

(no "Exon" information available for 3EGC)

(-) 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:261
 aligned with Q2T0D1_BURTA | Q2T0D1 from UniProtKB/TrEMBL  Length:343

    Alignment length:268
                                    75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       225       235       245       255       265       275       285       295       305       315       325        
         Q2T0D1_BURTA    66 RSNVVGLIVSDIENVFFAEVASGVESEARHKGYSVLLANTAEDIVREREAVGQFFERRVDGLILAPSEGEHDYLRTELPKTFPIVAVNRELRIPGCGAVLSENVRGARTAVEYLIARGHTRIGAIVGSAGLMTSRERLKGFRAAMSAAGLPVRQEWIAAGGVRADNGRDGAIKVLTGADRPTALLTSSHRITEGAMQALNVLGLRYGPDVEIVSFDNLPWMAFLDPPLPVVEQPTRRIGQEAMRMLIHMIEGTGNATEMRLQTRFVTH 333
               SCOP domains d3egca_ A: automated matches                                                                                                                                                                                                                                                 SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeee....hhhhhhhhhhhhhhhhhh..eeeeee...hhhhhhhhhhhhhhh...eeee......hhhhhhh......eeee.........eeeeehhhhhhhhhhhhhhhh....eeee.....hhhhhhhhhhhhhhhhhh....hhh.ee.------.hhhhhhhhhh.-....eeee.hhhhhhhhhhhhhhhh.......eeeee..hhhhhhh.....eee.hhhhhhhhhhhhhhhhhh......eeee..eee.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3egc A  66 RSNVVGLIVSDIENVFFAEVASGVESEARHKGYSVLLANTAEDIVREREAVGQFFERRVDGLILAPSEGEHDYLRTELPKTFPIVAVNRELRIPGCGAVLSENVRGARTAVEYLIARGHTRIGAIVGSAGLMTSRERLKGFRAAMSAAGLPVRQEWIAA------NGRDGAIKVLTG-DRPTALLTSSHRITEGAMQALNVLGLRYGPDVEIVSFDNLPWMAFLDPPLPVVEQPTRRIGQEAMRMLIHMIEGTGNATEMRLQTRFVTH 333
                                    75        85        95       105       115       125       135       145       155       165       175       185       195       205       215        |-     | 235      |245       255       265       275       285       295       305       315       325        
                                                                                                                                                                                        224    231        242 |                                                                                         
                                                                                                                                                                                                            244                                                                                         


Chain B from PDB  Type:PROTEIN  Length:261
 aligned with Q2T0D1_BURTA | Q2T0D1 from UniProtKB/TrEMBL  Length:343

    Alignment length:268
                                    75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       225       235       245       255       265       275       285       295       305       315       325        
         Q2T0D1_BURTA    66 RSNVVGLIVSDIENVFFAEVASGVESEARHKGYSVLLANTAEDIVREREAVGQFFERRVDGLILAPSEGEHDYLRTELPKTFPIVAVNRELRIPGCGAVLSENVRGARTAVEYLIARGHTRIGAIVGSAGLMTSRERLKGFRAAMSAAGLPVRQEWIAAGGVRADNGRDGAIKVLTGADRPTALLTSSHRITEGAMQALNVLGLRYGPDVEIVSFDNLPWMAFLDPPLPVVEQPTRRIGQEAMRMLIHMIEGTGNATEMRLQTRFVTH 333
               SCOP domains d3egcb_ B: automated matches                                                                                                                                                                                                                                                 SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeee....hhhhhhhhhhhhhhhhhhh.eeeeee...hhhhhhhhhhhhhhh...eeee.......hhhhhh......eeee.........eeeeehhhhhhhhhhhhhhhh....eeee.....hhhhhhhhhhhhhhhhhhh...hhh.ee.------.hhhhhhhhhh.-....eeee.hhhhhhhhhhhhhhhh.......eeeee..hhhhhhh.....eee.hhhhhhhhhhhhhhhhhh......eeee..eee.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3egc B  66 RSNVVGLIVSDIENVFFAEVASGVESEARHKGYSVLLANTAEDIVREREAVGQFFERRVDGLILAPSEGEHDYLRTELPKTFPIVAVNRELRIPGCGAVLSENVRGARTAVEYLIARGHTRIGAIVGSAGLMTSRERLKGFRAAMSAAGLPVRQEWIAA------NGRDGAIKVLTG-DRPTALLTSSHRITEGAMQALNVLGLRYGPDVEIVSFDNLPWMAFLDPPLPVVEQPTRRIGQEAMRMLIHMIEGTGNATEMRLQTRFVTH 333
                                    75        85        95       105       115       125       135       145       155       165       175       185       195       205       215        |-     | 235      |245       255       265       275       285       295       305       315       325        
                                                                                                                                                                                        224    231        242 |                                                                                         
                                                                                                                                                                                                            244                                                                                         


Chain C from PDB  Type:PROTEIN  Length:261
 aligned with Q2T0D1_BURTA | Q2T0D1 from UniProtKB/TrEMBL  Length:343

    Alignment length:268
                                    75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       225       235       245       255       265       275       285       295       305       315       325        
         Q2T0D1_BURTA    66 RSNVVGLIVSDIENVFFAEVASGVESEARHKGYSVLLANTAEDIVREREAVGQFFERRVDGLILAPSEGEHDYLRTELPKTFPIVAVNRELRIPGCGAVLSENVRGARTAVEYLIARGHTRIGAIVGSAGLMTSRERLKGFRAAMSAAGLPVRQEWIAAGGVRADNGRDGAIKVLTGADRPTALLTSSHRITEGAMQALNVLGLRYGPDVEIVSFDNLPWMAFLDPPLPVVEQPTRRIGQEAMRMLIHMIEGTGNATEMRLQTRFVTH 333
               SCOP domains d3egcc_ C: automated matches                                                                                                                                                                                                                                                 SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeee....hhhhhhhhhhhhhhhhhh..eeeeee...hhhhhhhhhhhhhhh...eeee.......hhhhhh......eeee.........eeeeehhhhhhhhhhhhhhhh....eeee.....hhhhhhhhhhhhhhhhhh....hhh.ee.------.hhhhhhhhhh.-....eeee.hhhhhhhhhhhhhhhh.......eeeee..hhhhhhh.....eee.hhhhhhhhhhhhhhhhhhh.....eeee..eee.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3egc C  66 RSNVVGLIVSDIENVFFAEVASGVESEARHKGYSVLLANTAEDIVREREAVGQFFERRVDGLILAPSEGEHDYLRTELPKTFPIVAVNRELRIPGCGAVLSENVRGARTAVEYLIARGHTRIGAIVGSAGLMTSRERLKGFRAAMSAAGLPVRQEWIAA------NGRDGAIKVLTG-DRPTALLTSSHRITEGAMQALNVLGLRYGPDVEIVSFDNLPWMAFLDPPLPVVEQPTRRIGQEAMRMLIHMIEGTGNATEMRLQTRFVTH 333
                                    75        85        95       105       115       125       135       145       155       165       175       185       195       205       215        |-     | 235      |245       255       265       275       285       295       305       315       325        
                                                                                                                                                                                        224    231        242 |                                                                                         
                                                                                                                                                                                                            244                                                                                         


Chain D from PDB  Type:PROTEIN  Length:262
 aligned with Q2T0D1_BURTA | Q2T0D1 from UniProtKB/TrEMBL  Length:343

    Alignment length:268
                                    75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       225       235       245       255       265       275       285       295       305       315       325        
         Q2T0D1_BURTA    66 RSNVVGLIVSDIENVFFAEVASGVESEARHKGYSVLLANTAEDIVREREAVGQFFERRVDGLILAPSEGEHDYLRTELPKTFPIVAVNRELRIPGCGAVLSENVRGARTAVEYLIARGHTRIGAIVGSAGLMTSRERLKGFRAAMSAAGLPVRQEWIAAGGVRADNGRDGAIKVLTGADRPTALLTSSHRITEGAMQALNVLGLRYGPDVEIVSFDNLPWMAFLDPPLPVVEQPTRRIGQEAMRMLIHMIEGTGNATEMRLQTRFVTH 333
               SCOP domains d3egcd_ D: automated matches                                                                                                                                                                                                                                                 SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeee....hhhhhhhhhhhhhhhhhh..eeeeee...hhhhhhhhhhhhhhh...eeee.......hhhhhh......eeee.........eeeeehhhhhhhhhhhhhhhh....eeee.....hhhhhhhhhhhhhhhhhh....hhh.ee.------.hhhhhhhhhh......eeee.hhhhhhhhhhhhhhh........eeeee..hhhhhhh.....eee.hhhhhhhhhhhhhhhhhh......eeee..eee.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3egc D  66 RSNVVGLIVSDIENVFFAEVASGVESEARHKGYSVLLANTAEDIVREREAVGQFFERRVDGLILAPSEGEHDYLRTELPKTFPIVAVNRELRIPGCGAVLSENVRGARTAVEYLIARGHTRIGAIVGSAGLMTSRERLKGFRAAMSAAGLPVRQEWIAA------NGRDGAIKVLTGADRPTALLTSSHRITEGAMQALNVLGLRYGPDVEIVSFDNLPWMAFLDPPLPVVEQPTRRIGQEAMRMLIHMIEGTGNATEMRLQTRFVTH 333
                                    75        85        95       105       115       125       135       145       155       165       175       185       195       205       215        |-     | 235       245       255       265       275       285       295       305       315       325        
                                                                                                                                                                                        224    231                                                                                                      


Chain E from PDB  Type:PROTEIN  Length:261
 aligned with Q2T0D1_BURTA | Q2T0D1 from UniProtKB/TrEMBL  Length:343

    Alignment length:268
                                    75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       225       235       245       255       265       275       285       295       305       315       325        
         Q2T0D1_BURTA    66 RSNVVGLIVSDIENVFFAEVASGVESEARHKGYSVLLANTAEDIVREREAVGQFFERRVDGLILAPSEGEHDYLRTELPKTFPIVAVNRELRIPGCGAVLSENVRGARTAVEYLIARGHTRIGAIVGSAGLMTSRERLKGFRAAMSAAGLPVRQEWIAAGGVRADNGRDGAIKVLTGADRPTALLTSSHRITEGAMQALNVLGLRYGPDVEIVSFDNLPWMAFLDPPLPVVEQPTRRIGQEAMRMLIHMIEGTGNATEMRLQTRFVTH 333
               SCOP domains d3egce_ E: automated matches                                                                                                                                                                                                                                                 SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeee....hhhhhhhhhhhhhhhhhh..eeeeee...hhhhhhhhhhhhhhh...eeee.......hhhhhhh.....eeee.........eeeeehhhhhhhhhhhhhhhh....eeee.....hhhhhhhhhhhhhhhhhhh...hhh.ee.------.hhhhhhhhhh.-....eeee.hhhhhhhhhhhhhhhh.......eeeee..hhhhhhh.....eee.hhhhhhhhhhhhhhhhhh......eeee..eee.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3egc E  66 RSNVVGLIVSDIENVFFAEVASGVESEARHKGYSVLLANTAEDIVREREAVGQFFERRVDGLILAPSEGEHDYLRTELPKTFPIVAVNRELRIPGCGAVLSENVRGARTAVEYLIARGHTRIGAIVGSAGLMTSRERLKGFRAAMSAAGLPVRQEWIAA------NGRDGAIKVLTG-DRPTALLTSSHRITEGAMQALNVLGLRYGPDVEIVSFDNLPWMAFLDPPLPVVEQPTRRIGQEAMRMLIHMIEGTGNATEMRLQTRFVTH 333
                                    75        85        95       105       115       125       135       145       155       165       175       185       195       205       215        |-     | 235      |245       255       265       275       285       295       305       315       325        
                                                                                                                                                                                        224    231        242 |                                                                                         
                                                                                                                                                                                                            244                                                                                         


Chain F from PDB  Type:PROTEIN  Length:262
 aligned with Q2T0D1_BURTA | Q2T0D1 from UniProtKB/TrEMBL  Length:343

    Alignment length:268
                                    75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       225       235       245       255       265       275       285       295       305       315       325        
         Q2T0D1_BURTA    66 RSNVVGLIVSDIENVFFAEVASGVESEARHKGYSVLLANTAEDIVREREAVGQFFERRVDGLILAPSEGEHDYLRTELPKTFPIVAVNRELRIPGCGAVLSENVRGARTAVEYLIARGHTRIGAIVGSAGLMTSRERLKGFRAAMSAAGLPVRQEWIAAGGVRADNGRDGAIKVLTGADRPTALLTSSHRITEGAMQALNVLGLRYGPDVEIVSFDNLPWMAFLDPPLPVVEQPTRRIGQEAMRMLIHMIEGTGNATEMRLQTRFVTH 333
               SCOP domains d3egcf_ F: automated matches                                                                                                                                                                                                                                                 SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeee....hhhhhhhhhhhhhhhhhh..eeeeee...hhhhhhhhhhhhhhh...eeee......hhhhhhh......eeee.........eeeeehhhhhhhhhhhhhhhh....eeee.....hhhhhhhhhhhhhhhhhh....hhh.ee.------.hhhhhhhhhh......eeee.hhhhhhhhhhhhhhh........eeeee..hhhhhhh.....eee.hhhhhhhhhhhhhhhhhhh.....eeee..eee.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3egc F  66 RSNVVGLIVSDIENVFFAEVASGVESEARHKGYSVLLANTAEDIVREREAVGQFFERRVDGLILAPSEGEHDYLRTELPKTFPIVAVNRELRIPGCGAVLSENVRGARTAVEYLIARGHTRIGAIVGSAGLMTSRERLKGFRAAMSAAGLPVRQEWIAA------NGRDGAIKVLTGADRPTALLTSSHRITEGAMQALNVLGLRYGPDVEIVSFDNLPWMAFLDPPLPVVEQPTRRIGQEAMRMLIHMIEGTGNATEMRLQTRFVTH 333
                                    75        85        95       105       115       125       135       145       155       165       175       185       195       205       215        |-     | 235       245       255       265       275       285       295       305       315       325        
                                                                                                                                                                                        224    231
   Legend:   → Mismatch (orange background)
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  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  (1, 6)

Asymmetric Unit
(-)
Class: Alpha and beta proteins (a/b) (23833)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3EGC)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 3EGC)

(-) Gene Ontology  (4, 4)

Asymmetric Unit(hide GO term definitions)
Chain A,B,C,D,E,F   (Q2T0D1_BURTA | Q2T0D1)
molecular function
    GO:0003677    DNA binding    Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
    GO:0003700    transcription factor activity, sequence-specific DNA binding    Interacting selectively and non-covalently with a specific DNA sequence in order to modulate transcription. The transcription factor may or may not also interact selectively with a protein or macromolecular complex.
biological process
    GO:0006355    regulation of transcription, DNA-templated    Any process that modulates the frequency, rate or extent of cellular DNA-templated transcription.
    GO:0006351    transcription, DNA-templated    The cellular synthesis of RNA on a template of DNA.

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