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(-) Description

Title :  CRYSTAL STRUCTURE OF CARBOHYDRATE TRANSPORTER MSMEG_3599 FROM MYCOBACTERIUM SMEGMATIS STR. MC2 155, TARGET EFI-510970, IN COMPLEX WITH D-THREITOL
 
Authors :  Y. Patskovsky, R. Toro, R. Bhosle, N. Al Obaidi, L. L. Morisco, S. R. Was S. Chamala, J. D. Attonito, A. Scott Glenn, S. Chowdhury, J. Lafleur, B. Hillerich, R. D. Siedel, J. Love, K. L. Whalen, J. A. Gerlt, S. C. Almo Function Initiative (Efi)
Date :  08 Nov 14  (Deposition) - 10 Dec 14  (Release) - 01 Jun 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.60
Chains :  Asym. Unit :  A,B,C,D
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Biol. Unit 3:  C  (1x)
Biol. Unit 4:  D  (1x)
Keywords :  Sugar Transporter, Abc-Type, Enzyme Function Initiative, Efi, Structural Genomics, Transport Protein, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  H. Huang, M. S. Carter, M. W. Vetting, N. Al-Obaidi, Y. Patskovsky, S. C. Almo, J. A. Gerlt
A General Strategy For The Discovery Of Metabolic Pathways: D-Threitol, L-Threitol, And Erythritol Utilization In Mycobacterium Smegmatis.
J. Am. Chem. Soc. V. 137 14570 2015
PubMed-ID: 26560079  |  Reference-DOI: 10.1021/JACS.5B08968

(-) Compounds

Molecule 1 - PERIPLASMIC BINDING PROTEIN/LACI TRANSCRIPTIONAL REGULATOR
    Chains: A, B, C, D
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Fragment: UNP RESIDUES 25-349
    Gene: MSMEG_3599, MSMEI_3516
    Organism Scientific: MYCOBACTERIUM SMEGMATIS
    Organism Taxid: 246196
    Strain: ATCC 700084 / MC(2)155
    Synonym: SUGAR-BINDING TRANSCRIPTIONAL REGULATOR, LACI FAMILY PROTEIN

 Structural Features

(-) Chains, Units

  1234
Asymmetric Unit : ABCD
Biological Unit 1 (1x): A   
Biological Unit 2 (1x):  B  
Biological Unit 3 (1x):   C 
Biological Unit 4 (1x):    D

Summary Information (see also Sequences/Alignments below)

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

Asymmetric Unit (1, 4)
No.NameCountTypeFull Name
13VB4Ligand/IonD-THREITOL
Biological Unit 1 (1, 1)
No.NameCountTypeFull Name
13VB1Ligand/IonD-THREITOL
Biological Unit 2 (1, 1)
No.NameCountTypeFull Name
13VB1Ligand/IonD-THREITOL
Biological Unit 3 (1, 1)
No.NameCountTypeFull Name
13VB1Ligand/IonD-THREITOL
Biological Unit 4 (1, 1)
No.NameCountTypeFull Name
13VB1Ligand/IonD-THREITOL

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWARETYR A:42 , PHE A:47 , ASN A:121 , ARG A:173 , TRP A:197 , ASN A:224 , ASP A:249 , GLN A:269 , HOH A:511 , HOH A:514BINDING SITE FOR RESIDUE 3VB A 401
2AC2SOFTWARETYR B:42 , PHE B:47 , ASN B:121 , ARG B:173 , TRP B:197 , ASN B:224 , ASP B:249 , GLN B:269 , HOH B:501 , HOH B:504BINDING SITE FOR RESIDUE 3VB B 401
3AC3SOFTWARETYR C:42 , PHE C:47 , ASN C:121 , ARG C:173 , TRP C:197 , ASN C:224 , ASP C:249 , GLN C:269 , HOH C:502 , HOH C:509BINDING SITE FOR RESIDUE 3VB C 401
4AC4SOFTWARETYR D:42 , PHE D:47 , ASN D:121 , ARG D:173 , TRP D:197 , ASN D:224 , ASP D:249 , GLN D:269 , HOH D:501 , HOH D:542BINDING SITE FOR RESIDUE 3VB D 401

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4RSM)

(-) 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:315
                                                                                                                                                                                                                                                                                                                                                           
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeeee...hhhhhhhhhhhhhhhhhh.eeeeeee...hhhhhhhhhhhhhhh...eeeee......hhhhhhhhhhh...eee..............eehhhhhhhhhhhhhhhhhh..eeeeeee....hhhhhhhhhhhhhhhhhh..eeeeeeee...hhhhhhhhhhhhhhhhhhhh.eeee.hhhhhhhhhhhhhhh......ee....hhhhhhhhhhh....ee..hhhhhhhhhhhhhhhhhh........ee...ee...hhhhhhhhhh.hhhhhhhhhhhhhhhhhhhh........... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4rsm A  33 DTTRIGVTVYDMSSFITAGKEGMDAYAKDNNIELIWNSANLDVSTQASQVDSMINQGVDAIIVVPVQADSLAPQVASAKAKGIPLVPVNAALDSKDIAGNVQPDDVAAGAQEMQMMADRLGGKGNIVILQGPLGQSGELDRSKGIEQVLAKYPDIKVLAKDTANWKRDEAVNKMKNWISGFGPQIDGVVAQNDDMGLGALQALKESGRTGVPIVGIDGIEDGLNAVKSGDFIGTSLQNGTVELAAGLAVANRLAKGEPVNKEPVYIMPAITKDNVDVAIEHVVTERQQFLDGLTELINKNLETGDIAYEGIPGQK 347
                                    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     


Chain B from PDB  Type:PROTEIN  Length:315
                                                                                                                                                                                                                                                                                                                                                           
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeeee...hhhhhhhhhhhhhhhhhh.eeeeeee...hhhhhhhhhhhhhhh...eeeee......hhhhhhhhhhh...eee..............eehhhhhhhhhhhhhhhhhh..eeeeeee....hhhhhhhhhhhhhhhhhh..eeeeeeee...hhhhhhhhhhhhhhhhhhhh.eeee.hhhhhhhhhhhhhhh......ee....hhhhhhhhhhh....ee..hhhhhhhhhhhhhhhhhh........ee...ee...hhhhhhhhhh.hhhhhhhhhhhhhhhhhhhh........... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4rsm B  33 DTTRIGVTVYDMSSFITAGKEGMDAYAKDNNIELIWNSANLDVSTQASQVDSMINQGVDAIIVVPVQADSLAPQVASAKAKGIPLVPVNAALDSKDIAGNVQPDDVAAGAQEMQMMADRLGGKGNIVILQGPLGQSGELDRSKGIEQVLAKYPDIKVLAKDTANWKRDEAVNKMKNWISGFGPQIDGVVAQNDDMGLGALQALKESGRTGVPIVGIDGIEDGLNAVKSGDFIGTSLQNGTVELAAGLAVANRLAKGEPVNKEPVYIMPAITKDNVDVAIEHVVTERQQFLDGLTELINKNLETGDIAYEGIPGQK 347
                                    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     


Chain C from PDB  Type:PROTEIN  Length:314
                                                                                                                                                                                                                                                                                                                                                          
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeeee...hhhhhhhhhhhhhhhhhh.eeeeeee...hhhhhhhhhhhhhhhh..eeeee......hhhhhhhhhhh...eee..............eehhhhhhhhhhhhhhhhhh..eeeeeee....hhhhhhhhhhhhhhhh....eeeeeeee...hhhhhhhhhhhhhhhhhhhh.eeee.hhhhhhhhhhhhhhh......ee....hhhhhhhhhhh....ee..hhhhhhhhhhhhhhhhhh........ee...ee...hhhhhhhhhh.hhhhhhhhhhhhhhhhhhhh.......... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4rsm C  33 DTTRIGVTVYDMSSFITAGKEGMDAYAKDNNIELIWNSANLDVSTQASQVDSMINQGVDAIIVVPVQADSLAPQVASAKAKGIPLVPVNAALDSKDIAGNVQPDDVAAGAQEMQMMADRLGGKGNIVILQGPLGQSGELDRSKGIEQVLAKYPDIKVLAKDTANWKRDEAVNKMKNWISGFGPQIDGVVAQNDDMGLGALQALKESGRTGVPIVGIDGIEDGLNAVKSGDFIGTSLQNGTVELAAGLAVANRLAKGEPVNKEPVYIMPAITKDNVDVAIEHVVTERQQFLDGLTELINKNLETGDIAYEGIPGQ 346
                                    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    


Chain D from PDB  Type:PROTEIN  Length:313
                                                                                                                                                                                                                                                                                                                                                         
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeee...hhhhhhhhhhhhhhhhhh.eeeeeee...hhhhhhhhhhhhhhh...eeeee......hhhhhhhhhhh...eee..............eehhhhhhhhhhhhhhhhh...eeeeeee....hhhhhhhhhhhhhhhh....eeeeeeee...hhhhhhhhhhhhhhhhhhhh.eeee.hhhhhhhhhhhhhhh......ee....hhhhhhhhhh.....ee..hhhhhhhhhhhhhhhhhhh.......ee...ee...hhhhhhhhhh.hhhhhhhhhhhhhhhhhhhh.......... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4rsm D  34 TTRIGVTVYDMSSFITAGKEGMDAYAKDNNIELIWNSANLDVSTQASQVDSMINQGVDAIIVVPVQADSLAPQVASAKAKGIPLVPVNAALDSKDIAGNVQPDDVAAGAQEMQMMADRLGGKGNIVILQGPLGQSGELDRSKGIEQVLAKYPDIKVLAKDTANWKRDEAVNKMKNWISGFGPQIDGVVAQNDDMGLGALQALKESGRTGVPIVGIDGIEDGLNAVKSGDFIGTSLQNGTVELAAGLAVANRLAKGEPVNKEPVYIMPAITKDNVDVAIEHVVTERQQFLDGLTELINKNLETGDIAYEGIPGQ 346
                                    43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253       263       273       283       293       303       313       323       333       343
   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  (0, 0)

(no "SCOP Domain" information available for 4RSM)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (7, 7)

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