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(-) Description

Title :  CRYSTAL STRUCTURE OF E. COLI LACTOSE PERMEASE G46W/G262W BOUND TO P-NITROPHENYL ALPHA-D-GALACTOPYRANOSIDE (ALPHA-NPG)
 
Authors :  H. Kumar, J. S. Finer-Moore, H. R. Kaback, R. M. Stroud
Date :  22 May 15  (Deposition) - 29 Jul 15  (Release) - 12 Aug 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  3.31
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Keywords :  Membrane Protein, Transporter, Alpha-Helical, Major Facilitator Superfamily (Mfs), Transport Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  H. Kumar, J. S. Finer-Moore, H. R. Kaback, R. M. Stroud
Structure Of Lacy With An Alpha-Substituted Galactoside: Connecting The Binding Site To The Protonation Site.
Proc. Natl. Acad. Sci. Usa V. 112 9004 2015
PubMed-ID: 26157133  |  Reference-DOI: 10.1073/PNAS.1509854112

(-) Compounds

Molecule 1 - LACTOSE PERMEASE
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PT7-5
    Expression System Strain: C41
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: LACY, B0343, JW0334
    Mutation: YES
    Organism Scientific: ESCHERICHIA COLI (STRAIN K12)
    Organism Taxid: 83333
    Strain: K12
    Synonym: LACTOSE-PROTON SYMPORT

 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  (2, 4)

Asymmetric Unit (2, 4)
No.NameCountTypeFull Name
19PG2Ligand/Ion4-NITROPHENYL ALPHA-D-GALACTOPYRANOSIDE
2BNG2Ligand/IonB-NONYLGLUCOSIDE
Biological Unit 1 (2, 2)
No.NameCountTypeFull Name
19PG1Ligand/Ion4-NITROPHENYL ALPHA-D-GALACTOPYRANOSIDE
2BNG1Ligand/IonB-NONYLGLUCOSIDE
Biological Unit 2 (2, 2)
No.NameCountTypeFull Name
19PG1Ligand/Ion4-NITROPHENYL ALPHA-D-GALACTOPYRANOSIDE
2BNG1Ligand/IonB-NONYLGLUCOSIDE

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREMET A:23 , ARG A:144 , CYS A:148 , TRP A:151 , GLU A:269 , ASN A:272 , HIS A:322binding site for residue 9PG A 501
2AC2SOFTWAREPHE A:93 , PRO A:97 , ASN A:165 , GLN A:167 , TRP A:171binding site for residue BNG A 502
3AC3SOFTWAREPHE B:27 , PHE B:118 , ARG B:144 , GLY B:147 , CYS B:148 , TRP B:151 , GLU B:269 , ASN B:272 , HIS B:322binding site for residue 9PG B 501
4AC4SOFTWARETRP A:78 , ASN B:165 , GLN B:167 , TRP B:171binding site for residue BNG B 502

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4ZYR)

(-) 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:387
                                                                                                                                                                                                                                                                                                                                                                                                                                   
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhhhhhhh.hhhhhhhh.......hhhhhhhhhh.....hhhhhhhhhhhh...hhhhhhhhhhh.hhhhhhhhhhhhhhhhh....hhhhhhhhhhhh..hhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhh.....hhhhhh....hhhhhhhhhhhhhhhhhhhhhh.hhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh............ Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4zyr A   6 NTNFWMFGLFFFFYFFIMGAYFPFFPIWLHDINHISKSDTWIIFAAISLFSLLFQPLFGLLSDKLGLRKYLLWIITGMLVMFAPFFIFIFGPLLQYNILVGSIVGGIYLGFCFNAGAPAVEAFIEKVSRRSNFEFGRARMFGCVGWALCASIVGIMFTINNQFVFWLGSGCALILAVLLFFAKTDAFSLKLALELFRQPKLWFLSLYVIGVSCTYDVFDQQFANFFTSFFATGEQGTRVFWYVTTMGELLNASIMFFAPLIINRIGGKNALLLAGTIMSVRIIGSSFATSALEVVILKTLHMFEVPFLLVGCFKYITSQFEVRFSATIYLVCFCFFKQLAMIFMSVLAGNMYESIGFQGAYLVLGLVALGFTLISVFTLSGPGPLSL 408
                                    15        25        35        45        55        65        75        85        95       105       115       125       135       145       155       165       175       185    || 211       221       231       241       251       261       271       281       291       301       311       321       331       341       351       361       371       381       391       401       
                                                                                                                                                                                                                  190|                                                                                                                                                                                                         
                                                                                                                                                                                                                   207                                                                                                                                                                                                         


Chain B from PDB  Type:PROTEIN  Length:385
                                                                                                                                                                                                                                                                                                                                                                                                                                 
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhh...hhhhhhhh.......hhhhhhhhhh.hhhhhhhhhhhhhhhh...hhhhhhhhhhh.hhhhhhhhhhhhhhhh..hhhhhh.hhhhhhhh..hhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhh...hhhhhh....hhhhhhhhhhhhhhhhhhhhhh.hhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhh........ Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4zyr B   6 NTNFWMFGLFFFFYFFIMGAYFPFFPIWLHDINHISKSDTWIIFAAISLFSLLFQPLFGLLSDKLGLRKYLLWIITGMLVMFAPFFIFIFGPLLQYNILVGSIVGGIYLGFCFNAGAPAVEAFIEKVSRRSNFEFGRARMFGCVGWALCASIVGIMFTINNQFVFWLGSGCALILAVLLFFAKAFSLKLALELFRQPKLWFLSLYVIGVSCTYDVFDQQFANFFTSFFATGEQGTRVFWYVTTMGELLNASIMFFAPLIINRIGGKNALLLAGTIMSVRIIGSSFATSALEVVILKTLHMFEVPFLLVGCFKYITSQFEVRFSATIYLVCFCFFKQLAMIFMSVLAGNMYESIGFQGAYLVLGLVALGFTLISVFTLSGPGPLSL 408
                                    15        25        35        45        55        65        75        85        95       105       115       125       135       145       155       165       175       185  ||   213       223       233       243       253       263       273       283       293       303       313       323       333       343       353       363       373       383       393       403     
                                                                                                                                                                                                                188|                                                                                                                                                                                                         
                                                                                                                                                                                                                 207
   Legend:   → Mismatch (orange background)
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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 4ZYR)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (14, 14)

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  4zyr
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  LACY_ECOLI | P02920
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 Related Entries

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

UniProtKB/Swiss-Prot
        LACY_ECOLI | P02920: 1m2u 1pv6 1pv7 2cfp 2cfq 2v8n 2y5y 5gxb

(-) Related Entries Specified in the PDB File

1pv7 LACY C154G
2v8n WILD-TYPE LACY, INWARD-OPEN CONFORMATION
2y5y LACY IN COMPLEX WITH AN AFFINITY INACTIVATOR
4oaa