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(-) Description

Title :  CRYSTAL STRUCTURES OF THE LSRR PROTEINS COMPLEXED WITH PHOSPHO-AI-2 AND ITS TWO DIFFERENT ANALOGS REVEAL DISTINCT MECHANISMS FOR LIGAND RECOGNITION
 
Authors :  K. S. Ryu, J. H. Ha, Y. Eo
Date :  11 Jun 13  (Deposition) - 06 Nov 13  (Release) - 06 Nov 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.60
Chains :  Asym. Unit :  A,B,C,D
Biol. Unit 1:  A,B,C,D  (1x)
Biol. Unit 2:  A,B,C,D  (2x)
Keywords :  Dna Transcriptional Regulator, Phospho-Ai-2 Binding, Dna Binding, Transcription Regulator, Sorc/Deor Family, Helix-Turn-Helix Domain (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  J. H. Ha, Y. Eo, A. Grishaev, M. Guo, J. A. Smith, H. O. Sintim, E. H. Kim, H. K. Cheong, W. E. Bentley, K. S. Ryu
Crystal Structures Of The Lsrr Proteins Complexed With Phospho-Ai-2 And Two Signal-Interrupting Analogues Reveal Distinct Mechanisms For Ligand Recognition.
J. Am. Chem. Soc. V. 135 15526 2013
PubMed-ID: 24047255  |  Reference-DOI: 10.1021/JA407068V

(-) Compounds

Molecule 1 - TRANSCRIPTIONAL REGULATOR LSRR
    Chains: A, B, C, D
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PGEX-4T-1
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: LSRR, YDEW, B1512, JW1505
    Organism Scientific: ESCHERICHIA COLI
    Organism Taxid: 83333
    Strain: K-12

 Structural Features

(-) Chains, Units

  1234
Asymmetric Unit : ABCD
Biological Unit 1 (1x): ABCD
Biological Unit 2 (2x): ABCD

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 4)

Asymmetric Unit (1, 4)
No.NameCountTypeFull Name
1HSX4Ligand/Ion5-O-PHOSPHONO-ALPHA-D-RIBOFURANOSE
Biological Unit 1 (1, 4)
No.NameCountTypeFull Name
1HSX4Ligand/Ion5-O-PHOSPHONO-ALPHA-D-RIBOFURANOSE
Biological Unit 2 (1, 8)
No.NameCountTypeFull Name
1HSX8Ligand/Ion5-O-PHOSPHONO-ALPHA-D-RIBOFURANOSE

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREPHE A:124 , GLY A:125 , GLU A:126 , ALA A:127 , GLY A:209 , THR A:220 , ILE A:221 , ASP A:243 , LEU A:245 , LYS A:288 , HOH A:601 , HOH A:604BINDING SITE FOR RESIDUE HSX A 501
2AC2SOFTWAREPHE B:124 , GLY B:125 , GLU B:126 , ALA B:127 , GLY B:209 , ILE B:210 , THR B:220 , ILE B:221 , ASP B:243 , LEU B:245 , LYS B:288 , HOH B:501 , HOH B:502 , HOH B:508BINDING SITE FOR RESIDUE HSX B 401
3AC3SOFTWAREPHE C:124 , GLY C:125 , GLU C:126 , ALA C:127 , GLY C:209 , THR C:220 , ILE C:221 , ASP C:243 , LEU C:245 , GLY C:246 , LYS C:288 , HOH C:501 , HOH C:547 , HOH C:555BINDING SITE FOR RESIDUE HSX C 401
4AC4SOFTWAREPHE D:124 , GLY D:125 , GLU D:126 , ALA D:127 , GLY D:209 , ILE D:210 , GLY D:211 , THR D:220 , ILE D:221 , ASP D:243 , ILE D:244 , LEU D:245 , GLY D:246 , LYS D:288 , HOH D:535BINDING SITE FOR RESIDUE HSX D 401

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4L5J)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4L5J)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4L5J)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4L5J)

(-) Exons   (0, 0)

(no "Exon" information available for 4L5J)

(-) 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:308
                                                                                                                                                                                                                                                                                                                                                    
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....hhhhhhhhhhhhhhh.....hhhhhhhh.hhhhhhhhhhhhhhhh.eeeee.hhhhhhhhhhhhhhhhh...eeeee......hhhhhhhhhhhhhhhh......eeee..hhhhhhhhhhhhhhhhhh..eeee...hhhhhhhhhh.......ee.........hhhhhhhhh.hhhhhhhhhhhhh..eeee..ee.hhhhhhhhhhh...hhhhhhhhhhh.eeeee..eeee........hhhhhhh...hhhhhh...eeeee..hhhhhhhhhhhhhh....eeeeehhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4l5j A  10 EQGMCEEEQVARIAWFYYHDGLTQSEISDRLGLTRLKVSRLLEKGHQSGIIRVQINSRFEGCLEYETQLRRQFSLQHVRVIPGLADADVGGRLGIGAAHMLMSLLQPQQMLAIGFGEATMNTLQRLSGFISSQQIRLVTLSGGVGSYMTGIGQLNAACSVNIIPAPLRASSADIARTLKNENCVKDVLLAAQAADVAIVGIGAVSQQDDATIIRSGYISQGEQLMIGRKGAVGDILGYFFDAKGDVVTNIKIHNELIGLPLSALKTIPVRVGVAGGENKAEAIAAAMKGGYINALVTDQDTAAAILRS 317
                                    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        


Chain B from PDB  Type:PROTEIN  Length:308
                                                                                                                                                                                                                                                                                                                                                    
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....hhhhhhhhhhhhhhh..............hhhhhhhhhhhhhhhh.eeeee......hhhhhhhhhhhhh..eeeee......hhhhhhhhhhhhhhhhhh....eeee..hhhhhhhhhhhhhhhhhh..eeee...hhhhhhhhhhh......ee.........hhhhhhhhhhhhhhhhhhhhhhh..eeee..ee.hhhhhhhhhhh...hhhhhhhhhhh...eee..eee..........hhhhh....hhhhhh...eeeee.....hhhhhhhhhhh....eeeeehhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4l5j B  10 EQGMCEEEQVARIAWFYYHDGLTQSEISDRLGLTRLKVSRLLEKGHQSGIIRVQINSRFEGCLEYETQLRRQFSLQHVRVIPGLADADVGGRLGIGAAHMLMSLLQPQQMLAIGFGEATMNTLQRLSGFISSQQIRLVTLSGGVGSYMTGIGQLNAACSVNIIPAPLRASSADIARTLKNENCVKDVLLAAQAADVAIVGIGAVSQQDDATIIRSGYISQGEQLMIGRKGAVGDILGYFFDAKGDVVTNIKIHNELIGLPLSALKTIPVRVGVAGGENKAEAIAAAMKGGYINALVTDQDTAAAILRS 317
                                    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        


Chain C from PDB  Type:PROTEIN  Length:308
                                                                                                                                                                                                                                                                                                                                                    
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....hhhhhhhhhhhhhhh.....hhhhhhh..hhhhhhhhhhhhhhhh.eeeee..hhhhhhhhhhhhhhhh...eeeee......hhhhhhhhhhhhhhhh......eeee..hhhhhhhhhhhhhhhhhh..eeee...hhhhhhhhhh.......ee.........hhhhhhhhh.hhhhhhhhhhhhh..eeee..ee.hhhhhhhhhhh...hhhhhhhhhhh.eeeee..eeee........hhhhhhh...hhhhhh...eeeee..hhhhhhhhhhhhhh....eeeeehhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4l5j C  10 EQGMCEEEQVARIAWFYYHDGLTQSEISDRLGLTRLKVSRLLEKGHQSGIIRVQINSRFEGCLEYETQLRRQFSLQHVRVIPGLADADVGGRLGIGAAHMLMSLLQPQQMLAIGFGEATMNTLQRLSGFISSQQIRLVTLSGGVGSYMTGIGQLNAACSVNIIPAPLRASSADIARTLKNENCVKDVLLAAQAADVAIVGIGAVSQQDDATIIRSGYISQGEQLMIGRKGAVGDILGYFFDAKGDVVTNIKIHNELIGLPLSALKTIPVRVGVAGGENKAEAIAAAMKGGYINALVTDQDTAAAILRS 317
                                    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        


Chain D from PDB  Type:PROTEIN  Length:308
                                                                                                                                                                                                                                                                                                                                                    
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....hhhhhhhhhhhhhhhh....hhhhhhh..hhhhhhhhhhhhhhhh.eeeee......hhhhhhhhhhhhh..eeeee......hhhhhhhhhhhhhhhhhh....eeee..hhhhhhhhhhhhhhhhhh..eeee...hhhhhhhhhhh......ee.........hhhhhhhhh.hhhhhhhhhhhhh..eeee..ee.hhhhhhhhhhh...hhhhhhhhhhh...eee..eee..........hhhhh....hhhhhh...eeeee.....hhhhhhhhhhh....eeeeehhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4l5j D  10 EQGMCEEEQVARIAWFYYHDGLTQSEISDRLGLTRLKVSRLLEKGHQSGIIRVQINSRFEGCLEYETQLRRQFSLQHVRVIPGLADADVGGRLGIGAAHMLMSLLQPQQMLAIGFGEATMNTLQRLSGFISSQQIRLVTLSGGVGSYMTGIGQLNAACSVNIIPAPLRASSADIARTLKNENCVKDVLLAAQAADVAIVGIGAVSQQDDATIIRSGYISQGEQLMIGRKGAVGDILGYFFDAKGDVVTNIKIHNELIGLPLSALKTIPVRVGVAGGENKAEAIAAAMKGGYINALVTDQDTAAAILRS 317
                                    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
   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 4L5J)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4L5J)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4L5J)

(-) Gene Ontology  (10, 10)

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 Related Entries

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

UniProtKB/Swiss-Prot
        LSRR_ECOLI | P76141: 4go1 4l4y 4l4z 4l50 4l51 4l5i

(-) Related Entries Specified in the PDB File

4l4y 4l4z 4l50 4l51 4l5i