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(-) Description

Title :  APO STRUCTURE OF BACTERIAL EFFLUX PUMP.
 
Authors :  H. Sjuts, A. R. Ornik, K. M. Pos
Date :  09 Nov 15  (Deposition) - 06 Apr 16  (Release) - 13 Apr 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.30
Chains :  Asym./Biol. Unit :  A,B,C,D,E,F
Keywords :  Efflux Pump, Transport Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  H. Sjuts, A. V. Vargiu, S. M. Kwasny, S. T. Nguyen, H. S. Kim, X. Ding, A. R. Ornik, P. Ruggerone, T. L. Bowlin, H. Nikaido, K. M. Pos, T. J. Opperman
Molecular Basis For Inhibition Of Acrb Multidrug Efflux Pum By Novel And Powerful Pyranopyridine Derivatives.
Proc. Natl. Acad. Sci. Usa V. 113 3509 2016
PubMed-ID: 26976576  |  Reference-DOI: 10.1073/PNAS.1602472113

(-) Compounds

Molecule 1 - MULTIDRUG EFFLUX PUMP SUBUNIT ACRB,MULTIDRUG EFFLUX PUMP SUBUNIT ACRB
    Chains: A, B, C
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Gene: ACRB, ACRE, B0462, JW0451
    Organism Scientific: ESCHERICHIA COLI (STRAIN K12)
    Organism Taxid: 83333
    Strain: K12
    Synonym: ACRAB-TOLC MULTIDRUG EFFLUX PUMP SUBUNIT ACRB,ACRIDINE RESISTANCE PROTEIN B,ACRAB-TOLC MULTIDRUG EFFLUX PUMP SUBUNIT ACRB, ACRIDINE RESISTANCE PROTEIN B
 
Molecule 2 - DARPIN
    Chains: D, E, F
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Organism Scientific: RIBOSOME DISPLAY VECTOR PRDV
    Organism Taxid: 248461

 Structural Features

(-) Chains, Units

  123456
Asymmetric/Biological Unit : ABCDEF

Summary Information (see also Sequences/Alignments below)

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

(no "Ligand,Modified Residues,Ions" information available for 5EN5)

(-) Sites  (0, 0)

(no "Site" information available for 5EN5)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 5EN5)

(-) Cis Peptide Bonds  (3, 3)

Asymmetric/Biological Unit
No.Residues
1Thr A:222 -Pro A:223
2Thr B:222 -Pro B:223
3Thr C:222 -Pro C:223

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5EN5)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5EN5)

(-) Exons   (0, 0)

(no "Exon" information available for 5EN5)

(-) Sequences/Alignments

Asymmetric/Biological 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:580
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeeee.....hhhhhhh.hhhhhhh......eeeeeeeee...eeeeeeee.....hhhhhhhhhhhhhhhhhh..hhhhhh..eeee....eeeeeeeee......hhhhhhhhhhh.hhhhh....eeeeee....eeeeeee.hhhhhhh...hhhhhhhhhhh................................hhhhh..eeee.....eeehhh.eeeeeee.....eeee..eeeeeeeeee.....hhhhhhhhhhhhhhhhhh....eeee.......eeeeeee......hhhhhhhhhhhhhhhhh.....eeeeeeee..........eeeeeeee..hhh...hhh.hhhhhhhhhhhhhh....eeeee.....eeeeeeee.....hhhhhhhhhhhhhhhhh...............eeeeeeee.hhhhhhh...hhhhhhhhhhhhh.eeeeeeee..eeeeeeeee.hhh...hhhhhh.eee.....eeehhh.eeeeeeee..eeeee..eeeeeeeee......hhhhhhhhhhhhhh....eeeee.hhh. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5en5 A  39 APPAVTISASYPGADAKTVQDTVTQVIEQNMNGIDNLMYMSSNSDSTGTVQITLTFESGTDADIAQVQVQNKLQLAMPLLPQEVQQQGVSVEKSSSSFLMVVGVINTDGTMTQEDISDYVAANMKDAISRTSGVGDVQLFGSQYAMRIWMNPNELNKFQLTPVDVITAIKAQNAQVAAGQLGGTPPVKGQQLNASIIAQTRLTSTEEFGKILLKVNQDGSRVLLRDVAKIELGGENYDIIAEFNGQPASGLGIKLATGANALDTAAAIRAELAKMEPFFPSGLKIVYPYDTQGVFMTMVQLPAGATQERTQKVLNEVTHYYLTKEKNNVESVFAVNGFGFAGRGQNTGIAFVSLKDWADRPGEENKVEAITMRATRAFSQIKDAMVFAFNLTATGFDFELIDQAGLGHEKLTQARNQLLAEAAKHPDMLTSVRPNGLEDTPQFKIDIDQEKAQALGVSINDINTTLGAAWGGSYVNDFIDRGRVKKVYVMSEAKYRMLPDDIGDWYVRAADGQMVPFSAFSSSRWEYGSPRLERYNGLPSMEILGQAAPGKSTGEAMELMEQLASKLPTGVGYDWTGMSY 864
                                    48        58        68        78        88        98       108       118       128       138       148       158       168       178       188       198       208       218       228       238       248       258       268       278       288       298       308       318       328||     577       587       597       607       617       627       637       647       657       667||     684       694       704       714       724       734       744       754       764       774       784       794       804       814       824       834       844       854       864
                                                                                                                                                                                                                                                                                                                            329|                                                                                                668|                                                                                                                                                                                            
                                                                                                                                                                                                                                                                                                                             569                                                                                                 676                                                                                                                                                                                            


Chain B from PDB  Type:PROTEIN  Length:578
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeeee.....hhhhhhh.hhhhhhh......eeeeeeeee...eeeeeeee.....hhhhhhhhhhhhhhhhhh..hhhhhh..eeee......eeeeeee......hhhhhhhhhhh.hhhhh....eeeeee....eeeeeee.hhhhhh....hhhhhhhhhhh................................hhhhh..eeee.....eeehhh.eeeeeee.....eeee..eeeeeeeeee.....hhhhhhhhhhhhhhhhhh....eeee.......eeeeeee......hhhhhhhhhhhhhhhhh.....eeeeeeee..........eeeeeeee..hhh...hhh.hhhhhhhhhhhh......eeeee....eeeeeee.....hhhhhhhhhhhhhhhhh...............eeeeeeee.hhhhhhh...hhhhhhhhhhhhh.eeeeeeee..eeeeeeeee.hhh...hhhhhh.eee.....eeehhh.eeeeeeee..eeeee..eeeeeeee.......hhhhhhhhhhhhhh....eeeee.hhh. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5en5 B  39 APPAVTISASYPGADAKTVQDTVTQVIEQNMNGIDNLMYMSSNSDSTGTVQITLTFESGTDADIAQVQVQNKLQLAMPLLPQEVQQQGVSVEKSSSSFLMVVGVINTDGTMTQEDISDYVAANMKDAISRTSGVGDVQLFGSQYAMRIWMNPNELNKFQLTPVDVITAIKAQNAQVAAGQLGGTPPVKGQQLNASIIAQTRLTSTEEFGKILLKVNQDGSRVLLRDVAKIELGGENYDIIAEFNGQPASGLGIKLATGANALDTAAAIRAELAKMEPFFPSGLKIVYPYDTQGVFMTMVQLPAGATQERTQKVLNEVTHYYLTKEKNNVESVFAVNGFGFAGRGQNTGIAFVSLKDWADRPGEENKVEAITMRATRAFSQIKDAMVFAFNLTGFDFELIDQAGLGHEKLTQARNQLLAEAAKHPDMLTSVRPNGLEDTPQFKIDIDQEKAQALGVSINDINTTLGAAWGGSYVNDFIDRGRVKKVYVMSEAKYRMLPDDIGDWYVRAADGQMVPFSAFSSSRWEYGSPRLERYNGLPSMEILGQAAPGKSTGEAMELMEQLASKLPTGVGYDWTGMSY 864
                                    48        58        68        78        88        98       108       118       128       138       148       158       168       178       188       198       208       218       228       238       248       258       268       278       288       298       308       318       328||     577       587       597       607       617       627       637       647       657       667||     686       696       706       716       726       736       746       756       766       776       786       796       806       816       826       836       846       856        
                                                                                                                                                                                                                                                                                                                            329|                                                                                                668|                                                                                                                                                                                          
                                                                                                                                                                                                                                                                                                                             569                                                                                                 678                                                                                                                                                                                          


Chain C from PDB  Type:PROTEIN  Length:584
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeeee.....hhhhhhh.hhhhhhh......eeeeeeeee...eeeeeeee.....hhhhhhhhhhhhhhhhhh..hhhhhh..eeee......eeeeeee......hhhhhhhhhhh.hhhhh.......eee....eeeeeee.hhhhhh....hhhhhhhhhhh................................hhhhhh.eeee.....eeehhhheeeeeee.....eeee....eeeeee.......hhhhhhhhhhhhhhhh......eeee.......eeeeeee......hhhhhhhhhhhhhhhhh.....eeeeeeee..........eeeeeeee..hhh...hhh.hhhhhhhhhhhhh.....eeeee.........eeeeeeee.....hhhhhhhhhhhhhhhhhh..............eeeeeeee.hhhhhhh...hhhhhhhhhhhhh.eeeeeeee..eeeeeeeee.hhh...hhhhhh.eee.....eeehhh.eeeeeeee..eeeee..eeeeeeeee......hhhhhhhhhhhhhh....eeeee.hhh. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5en5 C  39 APPAVTISASYPGADAKTVQDTVTQVIEQNMNGIDNLMYMSSNSDSTGTVQITLTFESGTDADIAQVQVQNKLQLAMPLLPQEVQQQGVSVEKSSSSFLMVVGVINTDGTMTQEDISDYVAANMKDAISRTSGVGDVQLFGSQYAMRIWMNPNELNKFQLTPVDVITAIKAQNAQVAAGQLGGTPPVKGQQLNASIIAQTRLTSTEEFGKILLKVNQDGSRVLLRDVAKIELGGENYDIIAEFNGQPASGLGIKLATGANALDTAAAIRAELAKMEPFFPSGLKIVYPYDTQGVFMTMVQLPAGATQERTQKVLNEVTHYYLTKEKNNVESVFAVNGFGFAGRGQNTGIAFVSLKDWADRPGEENKVEAITMRATRAFSQIKDAMVFAFNLPAIGTATGFDFELIDQAGLGHEKLTQARNQLLAEAAKHPDMLTSVRPNGLEDTPQFKIDIDQEKAQALGVSINDINTTLGAAWGGSYVNDFIDRGRVKKVYVMSEAKYRMLPDDIGDWYVRAADGQMVPFSAFSSSRWEYGSPRLERYNGLPSMEILGQAAPGKSTGEAMELMEQLASKLPTGVGYDWTGMSY 864
                                    48        58        68        78        88        98       108       118       128       138       148       158       168       178       188       198       208       218       228       238       248       258       268       278       288       298       308       318       328||     577       587       597       607       617       627       637       647       657       667   ||  680       690       700       710       720       730       740       750       760       770       780       790       800       810       820       830       840       850       860    
                                                                                                                                                                                                                                                                                                                            329|                                                                                                   671|                                                                                                                                                                                             
                                                                                                                                                                                                                                                                                                                             569                                                                                                    675                                                                                                                                                                                             


Chain D from PDB  Type:PROTEIN  Length:161
                                                                                                                                                                                                 
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .......hhhhhhhhhhhh..hhhhhhhhh..............hhhhhhh...hhhhhhhhh..............hhhhhhh...hhhhhhhhhh.............hhhhhhh...hhhhhhhhh..............hhhhhhhh..hhhhhhh. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5en5 D   6 HHHHHGSDLGKKLLEAARAGRDDEVRILMANGADVNAADVVGWTPLHLAAYWGHLEIVEVLLKNGADVNAYDTLGSTPLHLAAHFGHLEIVEVLLKNGADVNAKDDNGITPLHLAANRGHLEIVEVLLKYGADVNAQDKFGKTAFDISINNGNEDLAEILQ 166
                                    15        25        35        45        55        65        75        85        95       105       115       125       135       145       155       165 


Chain E from PDB  Type:PROTEIN  Length:156
                                                                                                                                                                                            
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ..hhhhhhhhhhh...hhhhhhhhh..............hhhhhhh...hhhhhhhhh..............hhhhhhh...hhhhhhhhh..............hhhhhhh...hhhhhhhhh..............hhhhhhhh..hhhhhh.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 5en5 E  11 GSDLGKKLLEAARAGRDDEVRILMANGADVNAADVVGWTPLHLAAYWGHLEIVEVLLKNGADVNAYDTLGSTPLHLAAHFGHLEIVEVLLKNGADVNAKDDNGITPLHLAANRGHLEIVEVLLKYGADVNAQDKFGKTAFDISINNGNEDLAEILQ 166
                                    20        30        40        50        60        70        80        90       100       110       120       130       140       150       160      


Chain F from PDB  Type:PROTEIN  Length:162
                                                                                                                                                                                                  
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ........hhhhhhhhhhhh..hhhhhhhhh..............hhhhhhhh..hhhhhhhhh..............hhhhhhhh..hhhhhhhhh..............hhhhhhhh..hhhhhhhhh..............hhhhhhhh..hhhhhh.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 5en5 F   5 HHHHHHGSDLGKKLLEAARAGRDDEVRILMANGADVNAADVVGWTPLHLAAYWGHLEIVEVLLKNGADVNAYDTLGSTPLHLAAHFGHLEIVEVLLKNGADVNAKDDNGITPLHLAANRGHLEIVEVLLKYGADVNAQDKFGKTAFDISINNGNEDLAEILQ 166
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164
   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 5EN5)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5EN5)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5EN5)

(-) Gene Ontology  (13, 13)

Asymmetric/Biological Unit(hide GO term definitions)

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  Cis Peptide Bonds
    Thr A:222 - Pro A:223   [ RasMol ]  
    Thr B:222 - Pro B:223   [ RasMol ]  
    Thr C:222 - Pro C:223   [ RasMol ]  
 

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 Related Entries

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

UniProtKB/Swiss-Prot
        ACRB_ECOLI | P31224: 1iwg 1oy6 1oy8 1oy9 1oyd 1oye 1t9t 1t9u 1t9v 1t9w 1t9x 1t9y 2dhh 2dr6 2drd 2gif 2hqc 2hqd 2hqf 2hqg 2hrt 2i6w 2j8s 2rdd 2w1b 3aoa 3aob 3aoc 3aod 3d9b 3noc 3nog 3w9h 4c48 4cdi 4dx5 4dx6 4dx7 4k7q 4u8v 4u8y 4u95 4u96 4zit 4ziv 4ziw 4zjl 4zjo 4zjq 4zlj 4zll 4zln 5eno 5enp 5enq 5enr 5ens 5ent 5jmn 5nc5 5ng5 5o66 5v5s

(-) Related Entries Specified in the PDB File

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