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(-) Description

Title :  INWARD-FACING CONFORMATION OF ABC HEME IMPORTER BHUUV IN COMPLEX WITH PERIPLASMIC HEME BINDING PROTEIN BHUT FROM BURKHOLDERIA CENOCEPACIA
 
Authors :  Y. Naoe, N. Nakamura, A. Doi, Y. Shiro, H. Sugimoto
Date :  25 Apr 16  (Deposition) - 23 Nov 16  (Release) - 23 Nov 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  3.21
Chains :  Asym./Biol. Unit :  A,B,C,D,T
Keywords :  Metal-Binding, Metal Binding Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  Y. Naoe, N. Nakamura, A. Doi, M. Sawabe, H. Nakamura, Y. Shiro, H. Sugimoto
Crystal Structure Of Bacterial Haem Importer Complex In The Inward-Facing Conformation
Nat Commun V. 7 13411 2016
PubMed-ID: 27830695  |  Reference-DOI: 10.1038/NCOMMS13411

(-) Compounds

Molecule 1 - PUTATIVE HEMIN ABC TRANSPORT SYSTEM, MEMBRANE PROTEIN
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET-19B
    Expression System Strain: C41(DE3)
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: HMUU, BCAM2629
    Organism Scientific: BURKHOLDERIA CENOCEPACIA J2315
    Organism Taxid: 216591
    Strain: J2315
    Synonym: HEME IMPORTER TRANSMEMBRANE SUBUNIT BHUU
 
Molecule 2 - HEMIN IMPORT ATP-BINDING PROTEIN HMUV
    Chains: C, D
    EC Number: 3.6.3.-
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET-19B
    Expression System Strain: C41(DE3)
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: HMUV, BCAM2630
    Organism Scientific: BURKHOLDERIA CENOCEPACIA J2315
    Organism Taxid: 216591
    Strain: J2315
    Synonym: HEME IMPORTER ATP-BINDING SUBUNIT BHUV
 
Molecule 3 - PUTATIVE HEMIN TRANSPORT SYSTEM, SUBSTRATE-BINDING PROTEIN
    Chains: T
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PGEX6P-1
    Expression System Strain: ROSETTA2(DE3)
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: HMUT, BCAM2628
    Organism Scientific: BURKHOLDERIA CENOCEPACIA J2315
    Organism Taxid: 216591
    Strain: J2315
    Synonym: PERIPLASMIC HEME-BINDING PROTEIN BHUT

 Structural Features

(-) Chains, Units

  12345
Asymmetric/Biological Unit : ABCDT

Summary Information (see also Sequences/Alignments below)

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

(no "Ligand,Modified Residues,Ions" information available for 5B58)

(-) Sites  (0, 0)

(no "Site" information available for 5B58)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 5B58)

(-) Cis Peptide Bonds  (15, 15)

Asymmetric/Biological Unit
No.Residues
1Leu A:22 -Gly A:23
2Gly A:23 -Thr A:24
3Ser A:142 -Ala A:143
4Arg A:168 -Gly A:169
5Ala A:331 -Pro A:332
6Gly A:358 -Ala A:359
7Gly B:23 -Thr B:24
8Val B:50 -Gly B:51
9Arg B:168 -Gly B:169
10Ala B:331 -Pro B:332
11Arg C:12 -His C:13
12Ser C:119 -His C:120
13Trp D:164 -Pro D:165
14Tyr T:75 -Pro T:76
15Gly T:111 -Pro T:112

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5B58)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5B58)

(-) Exons   (0, 0)

(no "Exon" information available for 5B58)

(-) 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:331
                                                                                                                                                                                                                                                                                                                                                                           
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ......hhhhhhhhhhhhhhhhhhhhhh......hhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhh..........hhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5b58 A  22 LGTSRRFAPFVLAALAILMGAMSVVALCVGAYRIPLAEAWAALSGDPAAQQARAVLLDIRAPRVVLALLVGGGFGATGAAMQALFRNPLADPGLVGVSSGAALGATTLIVLGASAAALPVAAFAGGLAVAALVYRLAASRGRLALPLLLLAGIAINALVGAAIGLLTFVADDAQLRSLTFWSLGSLGGAQWPTLAAVAPCVALGGVLLVRERDALNALQLGETEALHLGVPVQRLKRRVLVAVALAVGALVSCAGIIGFIGLVAPHCVRLACGPDQRIVLPGAALLGALLTLAADLAARTVAAPADIPLGVLTALLGAPFFLALLWKNRGA 359
                                    31        41        51        61        71        81        91       101       111       121       131 ||    148       158       168       178       188       198       208       218       228       238       248       258       268       278       288       298       308       318       328       338       348       358 
                                                                                                                                         133|                                                                                                                                                                                                                          
                                                                                                                                          141                                                                                                                                                                                                                          


Chain B from PDB  Type:PROTEIN  Length:331
                                                                                                                                                                                                                                                                                                                                                                           
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ......hhhhhhhhhhhhhhhhhhhhhh......hhhhhhhhhh.......hhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhh........hhhhhhhhhhhhhhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5b58 B  22 LGTSRRFAPFVLAALAILMGAMSVVALCVGAYRIPLAEAWAALSGDPAAQQARAVLLDIRAPRVVLALLVGGGFGATGAAMQALFRNPLADPGLVGVSSGAALGATTLIVLGASAAALPVAAFAGGLAVAALVYRLAASRGRLALPLLLLAGIAINALVGAAIGLLTFVADDAQLRSLTFWSLGSLGGAQWPTLAAVAPCVALGGVLLVRERDALNALQLGETEALHLGVPVQRLKRRVLVAVALAVGALVSCAGIIGFIGLVAPHCVRLACGPDQRIVLPGAALLGALLTLAADLAARTVAAPADIPLGVLTALLGAPFFLALLWKNRGA 359
                                    31        41        51        61        71        81        91       101       111       121       131 ||    148       158       168       178       188       198       208       218       228       238       248       258       268       278       288       298       308       318       328       338       348       358 
                                                                                                                                         133|                                                                                                                                                                                                                          
                                                                                                                                          141                                                                                                                                                                                                                          


Chain C from PDB  Type:PROTEIN  Length:258
                                                                                                                                                                                                                                                                                                  
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .eeeeeeeee....eeeeeeeeee....eeeee.....hhhhhhhhhhhhhhhh...eeeeeeee..ee....hhhhhh..eeeee.........hhhhhhhhhhh.......hhhhhhhhhhhhhh.hhhhh..hhhhhhhhhhhhhhhhhhhhhhh.....eeeee......hhhhhhhhhhhhhhhhhhh..eeeee..hhhhhhhhh.eeeeee..eeeeeehhhhhhhhhhhhhhhh..eeee.....eeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 5b58 C   1 MLTAHHLDVARRHGTILRDLSLSIEPGRVTALLGRNGAGKSTLLKTFAGELTGSVGVRVTGDVTLNGEPLARIDAPRLACLRAVLPQAAQPAFPFSVDEIVLLGRYPHARATSHRDRDIAWRALERAGADALVGRDVTTLSGGELARVQFARVLAQLWPDHPRYLLLDEPTAALDLAHQHRLLDTVRAVAREWQLGVLAIVHDPNLAARHADAIAMLADGTIVAHGAPRDVMTPAHIAQCYGFAVKMVETGPPVMVPA 273
                                    10        20        30        40        50    ||  63        73        83        93       103       113|      126       136       146       156       166||     182       192       202       212       222       232       242       252       262||      
                                                                                 55|                                                   113|                                               167|                                                                                      263|      
                                                                                  59                                                    117                                                174                                                                                       267      


Chain D from PDB  Type:PROTEIN  Length:253
                                                                                                                                                                                                                                                                                             
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeeee.....eeeeeeee....eeeeee....hhhhhhhhhhh.........eeeeeee..ee....hhhhhhhheeee..........hhhhhhhhhhh.....hhhhhhhhhhhhhh.hhhhh..hhhhhhhhhhhhhhhhhhhhhh.....eeee.......hhhhhhhhhhhhhhhhhhh..eeeee..hhhhhhhhh.eeeeee..eeeeeehhhhhhhhhhhhhhhh..eeee.....eeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5b58 D   1 MLTAHHLDVAHGTILRDLSLSIEPGRVTALLGRNGAGKSTLLKTFAGELTGSVGVRVTGDVTLNGEPLARIDAPRLACLRAVLPQAAQPAFPFSVDEIVLLGRYPHARSHRDRDIAWRALERAGADALVGRDVTTLSGGELARVQFARVLAQLWPDPRYLLLDEPTAALDLAHQHRLLDTVRAVAREWQLGVLAIVHDPNLAARHADAIAMLADGTIVAHGAPRDVMTPAHIAQCYGFAVKMVETGPPVMVPA 273
                                    10|       22        32        42        52  ||    65        75        85        95       105       120       130       140       150       160     ||177       187       197       207       217       227       237       247       257     ||270   
                                    10|                                        55|                                                   113|                                            166|                                                                                      263|      
                                     13                                         59                                                    119                                             174                                                                                       267      


Chain T from PDB  Type:PROTEIN  Length:265
                                                                                                                                                                                                                                                                                                         
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeehhhhhhhhhhhhh.......eee.......hhhhhhh.........hhhhhhhh...eeee.....hhhhhhhhhh...eeee.....hhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhh........eeeeeeeee..eeeee...hhhhhhhhhh..ee.......eee.hhhhhhhhh..eeeeehhhhhhhhhhhhhhh......hhhhhhh.eeeehhhhhhh...hhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5b58 T  41 RVIVIGGALAETAFALGGAETPRYRLVGADTTCTYPDAAKRLPKVGYQRALSAEGLLSLRPDLVLASAEAGPPTAIAQVKGAGVTVTTFDERHDVESVRAKITGVAQALDVRDAGAALLQRFDRDWQAARDAVAARVPGGAQPPRVLFVLNHTGTQALVAGQRTAADAMIRYAGARNAMQGFDHYKPLTTEALAAAAPDVVLISDEGLAAVGGHAALLATPGFGATPAGRARRVVSLDALFLLGFGPRLPLAVTTLHRRLSDALA 305
                                    50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300
   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 5B58)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5B58)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5B58)

(-) Gene Ontology  (12, 15)

Asymmetric/Biological Unit(hide GO term definitions)

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Asymmetric/Biological Unit
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  Sites
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  Cis Peptide Bonds
    Ala A:331 - Pro A:332   [ RasMol ]  
    Ala B:331 - Pro B:332   [ RasMol ]  
    Arg A:168 - Gly A:169   [ RasMol ]  
    Arg B:168 - Gly B:169   [ RasMol ]  
    Arg C:12 - His C:13   [ RasMol ]  
    Gly A:23 - Thr A:24   [ RasMol ]  
    Gly A:358 - Ala A:359   [ RasMol ]  
    Gly B:23 - Thr B:24   [ RasMol ]  
    Gly T:111 - Pro T:112   [ RasMol ]  
    Leu A:22 - Gly A:23   [ RasMol ]  
    Ser A:142 - Ala A:143   [ RasMol ]  
    Ser C:119 - His C:120   [ RasMol ]  
    Trp D:164 - Pro D:165   [ RasMol ]  
    Tyr T:75 - Pro T:76   [ RasMol ]  
    Val B:50 - Gly B:51   [ RasMol ]  
 

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  5b58
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 Related Entries

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

UniProtKB/Swiss-Prot
        B4EKB3_BURCJ | B4EKB3: 5giz 5gj0 5gj1
UniProtKB/TrEMBL
        B4EKB4_BURCJ | B4EKB4: 5b57
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(-) Related Entries Specified in the PDB File

5b57 5B57 CONTAINS BHUUV