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(-) Description

Title :  CRYSTAL STRUCTURE OF LUXP IN COMPLEX WITH L-XYLULOFURANOSE-1,2-BORATE
 
Authors :  M. A. Mcdonough, S. Sattin, P. M. Gardner, C. Liu, B. G. Davis
Date :  16 Mar 15  (Deposition) - 23 Mar 16  (Release) - 23 Mar 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.57
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Keywords :  Protein-Ligand Complex, Quorum Sensing, Protein Binding, Signaling Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  S. Sattin
Discovery Of Glycomimetic Agonists From A Protocell Metabolism, Proto-Natural Product Libraries
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - AUTOINDUCER 2-BINDING PERIPLASMIC PROTEIN LUXP
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21(DE3)
    Expression System Plasmid: PGEX4T1
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Fragment: UNP RESIDUES 21-365
    Gene: LUXP
    Organism Scientific: VIBRIO HARVEYI
    Organism Taxid: 669

 Structural Features

(-) Chains, Units

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

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 2)

Asymmetric Unit (1, 2)
No.NameCountTypeFull Name
1A2B2Ligand/IonL-XYLULOFURANOSE-1,2-BORATE
Biological Unit 1 (1, 1)
No.NameCountTypeFull Name
1A2B1Ligand/IonL-XYLULOFURANOSE-1,2-BORATE
Biological Unit 2 (1, 1)
No.NameCountTypeFull Name
1A2B1Ligand/IonL-XYLULOFURANOSE-1,2-BORATE

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLN A:77 , SER A:79 , TYR A:81 , TRP A:82 , ASN A:159 , ARG A:215 , SER A:265 , THR A:266 , TRP A:289 , ARG A:310binding site for residue A2B A 401
2AC2SOFTWAREGLN B:77 , SER B:79 , TYR B:81 , TRP B:82 , ASN B:159 , ARG B:215 , SER B:265 , THR B:266 , TRP B:289 , ARG B:310 , HOH B:570binding site for residue A2B B 401

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (1, 1)

Asymmetric Unit
No.Residues
1Pro A:109 -Asn A:110

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4YRZ)

(-) 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:339
                                                                                                                                                                                                                                                                                                                                                                                   
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....hhhhhhhhhhhhhhhhhhhhhhhhh............eeeeeeee.....hhhhhhhhhhhhhhhhh...eeeeeeee....hhhhhhhhhhhhhhh...eeee......hhhhhhhhhhhh..eeeee.....hhhhhh....eeee.hhhhhhhhhhhhhhhhh....eeeee....hhhhhhhhhhhhhhhhhhhh.eeeeee....hhhhhhhhhhhhhhhh....eeee.hhhhhhhhhhhhhhhh....ee.....hhhhhhhhhhh...eeeee.hhhhhhhhhhhhhhhhh......eee..eeeee...hhhhhhhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4yrz A  26 NGYWGYQEFLDEFPEQRNLTNALSEAVRAQPVPLSKPTQRPIKISVVYPGQQVSDYWVRNIASFEKRLYKLNINYQLNQVFTRPNADIKQQSLSLMEALKSKSDYLIFTLDTTRHRKFVEHVLDSTNTKLILQNITTPVREWDKHQPFLYVGFDHAEGSRELATEFGKFFPKHTYYSVLYFSEGYISDVRGDTFIHQVNRDNNFELQSAYYTKATKQSGYDAAKASLAKHPDVDFIYACSTDVALGAVDALAELGREDIMINGWGGGSAELDAIQKGDLDITVMRMNDDTGIAMAEAIKWDLEDKPVPTVYSGDFEIVTKADSPERIEALKKRAFRYSD 364
                                    35        45        55        65        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       335       345       355         


Chain B from PDB  Type:PROTEIN  Length:340
                                                                                                                                                                                                                                                                                                                                                                                    
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....hhhhhhhhhhhhhhhhhhhhhhhhh............eeeeeeee.....hhhhhhhhhhhhhhhhh...eeeeeeee....hhhhhhhhhhhhhhhh..eeee......hhhhhhhhhh....eeeee.....hhhhh.....eeee.hhhhhhhhhhhhhhhhh....eeeee....hhhhhhhhhhhhhhhhhhhh.eeeeee....hhhhhhhhhhhhhhhh....eeee.hhhhhhhhhhhhhhh.....ee.....hhhhhhhhhhh...eeeee..hhhhhhhhhhhhhhhh......eee..eeeee...hhhhhhhhhhhhh..... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4yrz B  26 NGYWGYQEFLDEFPEQRNLTNALSEAVRAQPVPLSKPTQRPIKISVVYPGQQVSDYWVRNIASFEKRLYKLNINYQLNQVFTRPNADIKQQSLSLMEALKSKSDYLIFTLDTTRHRKFVEHVLDSTNTKLILQNITTPVREWDKHQPFLYVGFDHAEGSRELATEFGKFFPKHTYYSVLYFSEGYISDVRGDTFIHQVNRDNNFELQSAYYTKATKQSGYDAAKASLAKHPDVDFIYACSTDVALGAVDALAELGREDIMINGWGGGSAELDAIQKGDLDITVMRMNDDTGIAMAEAIKWDLEDKPVPTVYSGDFEIVTKADSPERIEALKKRAFRYSDN 365
                                    35        45        55        65        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       335       345       355       365
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  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 4YRZ)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (2, 2)

Asymmetric Unit(hide GO term definitions)

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  4yrz
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  LUXP_VIBHA | P54300
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 Related Entries

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

UniProtKB/Swiss-Prot
        LUXP_VIBHA | P54300: 1jx6 1zhh 2hj9 4yp9 4yr7

(-) Related Entries Specified in the PDB File

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