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(-) Description

Title :  CRYSTAL STRUCTURES AND BIOCHEMICAL CHARACTERIZATION OF THE BACTERIAL SOLUTE RECEPTOR ACBH REVEAL AN UNPRECEDENTED EXCLUSIVE SUBSTRATE PREFERENCE FOR B-D-GALACTOPYRANOSE
 
Authors :  A. Vahedi-Faridi, H. Bulut, A. Licht
Date :  30 Aug 10  (Deposition) - 29 Dec 10  (Release) - 26 Mar 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.04
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Keywords :  Class 2 Sbp Fold, Abc Transporter Extracellular Solute Binding Protein, D-Galactose Binding, Sugar Binding Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  A. Licht, H. Bulut, F. Scheffel, O. Daumke, U. F. Wehmeier, W. Saenger, E. Schneider, A. Vahedi-Faridi
Crystal Structures Of The Bacterial Solute Receptor Acbh Displaying An Exclusive Substrate Preference For Beta-D-Galactopyranose
J. Mol. Biol. V. 406 92 2011
PubMed-ID: 21168419  |  Reference-DOI: 10.1016/J.JMB.2010.11.048

(-) Compounds

Molecule 1 - ABC TRANSPORTER BINDING PROTEIN ACBH
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PAL56, PET15B
    Expression System Strain: ROSETTA2
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Fragment: RESIDUE IN UNP 39-433
    Gene: ACBH
    Mutation: YES
    Organism Scientific: ACTINOPLANES
    Organism Taxid: 134676
    Strain: SE50/110

 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, 23)

Asymmetric Unit (2, 23)
No.NameCountTypeFull Name
1GOL4Ligand/IonGLYCEROL
2SO419Ligand/IonSULFATE ION
Biological Unit 1 (2, 12)
No.NameCountTypeFull Name
1GOL1Ligand/IonGLYCEROL
2SO411Ligand/IonSULFATE ION
Biological Unit 2 (2, 11)
No.NameCountTypeFull Name
1GOL3Ligand/IonGLYCEROL
2SO48Ligand/IonSULFATE ION

(-) Sites  (23, 23)

Asymmetric Unit (23, 23)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREASN A:264 , HOH A:583 , HOH A:738BINDING SITE FOR RESIDUE SO4 A 405
02AC2SOFTWAREASN A:57 , ASN A:61 , ASP A:269 , LYS A:345 , HOH A:631BINDING SITE FOR RESIDUE SO4 A 406
03AC3SOFTWAREARG A:159 , HOH A:463BINDING SITE FOR RESIDUE SO4 A 407
04AC4SOFTWAREARG A:232 , HOH A:711 , HOH A:818 , HOH A:912 , THR B:384BINDING SITE FOR RESIDUE SO4 A 408
05AC5SOFTWARESER A:261 , ALA A:262 , HOH A:590 , HOH A:824BINDING SITE FOR RESIDUE SO4 A 409
06AC6SOFTWARESER A:44 , TYR A:310 , HOH A:691 , HOH A:827BINDING SITE FOR RESIDUE SO4 A 410
07AC7SOFTWARELYS A:111 , LYS A:115 , TYR A:121BINDING SITE FOR RESIDUE SO4 A 411
08AC8SOFTWARELYS A:227 , GLY A:228 , HOH A:468 , HOH A:497 , HOH A:514 , HOH A:814 , HOH A:857 , LYS B:227 , GLY B:228BINDING SITE FOR RESIDUE SO4 A 412
09AC9SOFTWARETRP A:177 , TRP A:234 , GLN A:235 , HOH A:783BINDING SITE FOR RESIDUE SO4 A 413
10BC1SOFTWAREASP A:27 , GLU A:28 , HOH A:566BINDING SITE FOR RESIDUE SO4 A 414
11BC2SOFTWARELYS A:31 , HOH A:499 , HOH A:525BINDING SITE FOR RESIDUE SO4 A 415
12BC3SOFTWAREASN A:340 , ASP A:341 , HOH A:546 , HOH A:708 , HOH A:765 , HOH A:815BINDING SITE FOR RESIDUE GOL A 416
13BC4SOFTWAREASN B:57 , ASN B:61 , ASP B:269 , LYS B:345 , HOH B:826 , HOH B:925BINDING SITE FOR RESIDUE SO4 B 405
14BC5SOFTWAREARG B:159BINDING SITE FOR RESIDUE SO4 B 406
15BC6SOFTWARETHR A:384 , ARG B:232 , HOH B:816 , HOH B:858BINDING SITE FOR RESIDUE SO4 B 407
16BC7SOFTWARELYS B:31 , HOH B:451 , HOH B:483BINDING SITE FOR RESIDUE SO4 B 408
17BC8SOFTWARELYS B:111 , LYS B:115 , TYR B:121 , HOH B:627BINDING SITE FOR RESIDUE SO4 B 409
18BC9SOFTWARETRP B:177 , TRP B:234 , GLN B:235 , HOH B:573 , HOH B:870BINDING SITE FOR RESIDUE SO4 B 410
19CC1SOFTWARETYR B:193 , ASP B:194 , TYR B:280 , TYR B:284 , HOH B:517 , HOH B:684BINDING SITE FOR RESIDUE SO4 B 411
20CC2SOFTWARESER B:261 , ALA B:262 , HOH B:508BINDING SITE FOR RESIDUE SO4 B 412
21CC3SOFTWAREASN B:340 , ASP B:341 , HOH B:542BINDING SITE FOR RESIDUE GOL B 413
22CC4SOFTWAREGLU B:28 , HOH B:487 , HOH B:650BINDING SITE FOR RESIDUE GOL B 414
23CC5SOFTWARETYR B:129 , GLN B:255 , PHE B:359 , ASP B:361 , HOH B:877BINDING SITE FOR RESIDUE GOL B 415

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3OOA)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 3OOA)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3OOA)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3OOA)

(-) Exons   (0, 0)

(no "Exon" information available for 3OOA)

(-) 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:395
 aligned with Q27GR2_ACTS5 | Q27GR2 from UniProtKB/TrEMBL  Length:433

    Alignment length:395
                                    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       338       348       358       368       378       388       398       408       418       428     
         Q27GR2_ACTS5    39 TSVSDGNGPITFGSNYSDEAPKAAFASLMQQATTSTTVPVTVNTTDHNTFQNNISNYLQGTPDSLATWFAGYRLQFFAAQGLLTPIDDVWDKIGGTFNDAAKSLSKGLDGHYYLVPLYNYPWVVFYNKSVFQSKGYEVPASWEAFIALARKMQSDGLVPLAFADKDGWPALGTFDILNLRINGYDYHIKLMKHEVPWTDPGVTKVFDQWRELAAYQQKGANGRTWQDAAKALENKQAGMMFQGSNQVAANYSAKNLPDLDFFVFPAINPQYGTDYMDAPTDGFILPKKGKNAAAAKKVLQYIGTAEAEAAFLKTDHWDVGLANGLIAPTYNDIQKKSVAEIGKCKSVSQFMDRDTVPDMANAMIKLIQQFIDQPTPETIATVQKSAEDQAKTIFR 433
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhh...eeeee...hhhhhhhhhhhhhhhhhhhh..eeeee.hhhhhhhhhhhhhhh....eeeee.hhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhh........eeeeee..eeeeeehhhhhhhh.....hhhhhhhhhhhhhhh..eeee........hhhhhhhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhh..eeeeeeehhhhhhhh...hhh.eeee............eee...eeee......hhhhhhhhhhhhhhhhhhhhhhhhh...ee..........hhhhhhhhhhhhh..eee.hhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3ooa A  10 MSVSDGNGPITFGSNYSDEAPKAAFASLMQQATTSTTVPVTVNTTDHNTFQNNISNYLQGTPDSLATWFAGYRLQFFAAQGLLTPIDDVWDKIGGTFNDAAKSLSKGLDGHYYLVPLYNYPWVVFYNKSVFQSKGYEVPASWEAFIALARKMQSDGLVPLAFADKDGWPALGTFDILNLRINGYDYHIKLMKHEVPWTDPGVTKVFDQWRELAAYQQKGANGRTWQDAAKALENKQAGMMFQGSNQVAANYSAKNLPDLDFFVFPAINPQYGTDYMDAPTDGFILPKKGKNAAAAKKVLQYIGTAEAEAAFLKTDHWDVGLANGLIAPTYNDIQKKSVAEIGKCKSVSQFMDADTVPDMANAMIKLIQQFIDQPTPETIATVQKSAEDQAKTIFR 404
                                    19        29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259       269       279       289       299       309       319       329       339       349       359       369       379       389       399     


Chain B from PDB  Type:PROTEIN  Length:395
 aligned with Q27GR2_ACTS5 | Q27GR2 from UniProtKB/TrEMBL  Length:433

    Alignment length:395
                                    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       338       348       358       368       378       388       398       408       418       428     
         Q27GR2_ACTS5    39 TSVSDGNGPITFGSNYSDEAPKAAFASLMQQATTSTTVPVTVNTTDHNTFQNNISNYLQGTPDSLATWFAGYRLQFFAAQGLLTPIDDVWDKIGGTFNDAAKSLSKGLDGHYYLVPLYNYPWVVFYNKSVFQSKGYEVPASWEAFIALARKMQSDGLVPLAFADKDGWPALGTFDILNLRINGYDYHIKLMKHEVPWTDPGVTKVFDQWRELAAYQQKGANGRTWQDAAKALENKQAGMMFQGSNQVAANYSAKNLPDLDFFVFPAINPQYGTDYMDAPTDGFILPKKGKNAAAAKKVLQYIGTAEAEAAFLKTDHWDVGLANGLIAPTYNDIQKKSVAEIGKCKSVSQFMDRDTVPDMANAMIKLIQQFIDQPTPETIATVQKSAEDQAKTIFR 433
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
           Pfam domains (1) -------------SBP_bac_1-3ooaB01 B:23-318                                                                                                                                                                                                                                                                              -------------------------------------------------------------------------------------- Pfam domains (1)
           Pfam domains (2) -------------SBP_bac_1-3ooaB02 B:23-318                                                                                                                                                                                                                                                                              -------------------------------------------------------------------------------------- Pfam domains (2)
         Sec.struct. author .hhhhh...eeeee...hhhhhhhhhhhhhhhhhhhh..eeeee.hhhhhhhhhhhhhhh....eeeee.hhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhh.......eeeeee..eeeeeehhhhhhhh.....hhhhhhhhhhhhhhh..eeee........hhhhhhhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhh..eeeeeeehhhhhhhh...hhh.eeee............eee...eeee......hhhhhhhhhhhhhhhhhhhhhhhhh...ee..........hhhhhhhhhhhhh..eee.hhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3ooa B  10 MSVSDGNGPITFGSNYSDEAPKAAFASLMQQATTSTTVPVTVNTTDHNTFQNNISNYLQGTPDSLATWFAGYRLQFFAAQGLLTPIDDVWDKIGGTFNDAAKSLSKGLDGHYYLVPLYNYPWVVFYNKSVFQSKGYEVPASWEAFIALARKMQSDGLVPLAFADKDGWPALGTFDILNLRINGYDYHIKLMKHEVPWTDPGVTKVFDQWRELAAYQQKGANGRTWQDAAKALENKQAGMMFQGSNQVAANYSAKNLPDLDFFVFPAINPQYGTDYMDAPTDGFILPKKGKNAAAAKKVLQYIGTAEAEAAFLKTDHWDVGLANGLIAPTYNDIQKKSVAEIGKCKSVSQFMDADTVPDMANAMIKLIQQFIDQPTPETIATVQKSAEDQAKTIFR 404
                                    19        29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259       269       279       289       299       309       319       329       339       349       359       369       379       389       399
   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 3OOA)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3OOA)

(-) Pfam Domains  (1, 2)

Asymmetric Unit
(-)
Clan: PBP (391)

(-) Gene Ontology  (6, 6)

Asymmetric Unit(hide GO term definitions)
Chain A,B   (Q27GR2_ACTS5 | Q27GR2)
molecular function
    GO:0016787    hydrolase activity    Catalysis of the hydrolysis of various bonds, e.g. C-O, C-N, C-C, phosphoric anhydride bonds, etc. Hydrolase is the systematic name for any enzyme of EC class 3.
    GO:0016798    hydrolase activity, acting on glycosyl bonds    Catalysis of the hydrolysis of any glycosyl bond.
    GO:0005215    transporter activity    Enables the directed movement of substances (such as macromolecules, small molecules, ions) into, out of or within a cell, or between cells.
biological process
    GO:0008152    metabolic process    The chemical reactions and pathways, including anabolism and catabolism, by which living organisms transform chemical substances. Metabolic processes typically transform small molecules, but also include macromolecular processes such as DNA repair and replication, and protein synthesis and degradation.
    GO:0006810    transport    The directed movement of substances (such as macromolecules, small molecules, ions) or cellular components (such as complexes and organelles) into, out of or within a cell, or between cells, or within a multicellular organism by means of some agent such as a transporter, pore or motor protein.
    GO:0045493    xylan catabolic process    The chemical reactions and pathways resulting in the breakdown of xylan, a polymer containing a beta-1,4-linked D-xylose backbone.

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 Related Entries

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

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        Q27GR2_ACTS5 | Q27GR2: 3oo6 3oo7 3oo8 3oo9

(-) Related Entries Specified in the PDB File

3oo6 3oo7 3oo8 3oo9