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(-) Description

Title :  CRYSTAL STRUCTURE OF SPHINGOMONAS SP. A1 ALGINATE-BINDING PROTEIN ALGQ1 IN COMPLEX WITH SATURATED TRIMANNURONATE
 
Authors :  Y. Nishitani, Y. Maruyama, T. Itoh, B. Mikami, W. Hashimoto, K. Murata
Date :  05 Dec 11  (Deposition) - 25 Jan 12  (Release) - 27 Nov 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.55
Chains :  Asym./Biol. Unit :  A
Keywords :  Sugar Binding Protein, Alginate (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  Y. Nishitani, Y. Maruyama, T. Itoh, B. Mikami, W. Hashimoto, K. Murata
Recognition Of Heteropolysaccharide Alginate By Periplasmic Solute-Binding Proteins Of A Bacterial Abc Transporter
Biochemistry V. 51 3622 2012
PubMed-ID: 22486720  |  Reference-DOI: 10.1021/BI300194F

(-) Compounds

Molecule 1 - ALGQ1
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET3A
    Expression System Strain: HMS174(DE3)PLYSS
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Fragment: UNP RESIDUES 25-526
    Gene: ALGQ1
    Organism Scientific: SPHINGOMONAS SP.
    Organism Taxid: 90322
    Strain: A1
    Synonym: ALGINATE-BINDING PROTEIN

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 4)

Asymmetric/Biological Unit (2, 4)
No.NameCountTypeFull Name
1BEM3Ligand/IonBETA-D-MANNURONIC ACID
2CA1Ligand/IonCALCIUM ION

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREASP A:171 , ASN A:173 , ASN A:175 , LYS A:177 , ASP A:179 , GLU A:180BINDING SITE FOR RESIDUE CA A 601
2AC2SOFTWAREARG A:186 , TRP A:270 , ALA A:272 , SER A:273 , ASN A:375 , TYR A:379 , GLN A:391 , TYR A:395 , GLU A:396 , TRP A:399 , BEM A:504 , HOH A:539 , HOH A:873BINDING SITE FOR RESIDUE BEM A 503
3AC3SOFTWAREARG A:20 , TYR A:129 , ARG A:137 , ARG A:186 , TRP A:270 , TYR A:379 , BEM A:503 , BEM A:505 , HOH A:520 , HOH A:606 , HOH A:618 , HOH A:825 , HOH A:873BINDING SITE FOR RESIDUE BEM A 504
4AC4SOFTWAREARG A:20 , LYS A:22 , ASP A:74 , ASN A:75 , BEM A:504 , HOH A:659 , HOH A:825BINDING SITE FOR RESIDUE BEM A 505

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1Ile A:311 -Pro A:312

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 3VLU)

(-) 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:490
 aligned with Q9KWT6_SPHSX | Q9KWT6 from UniProtKB/TrEMBL  Length:526

    Alignment length:490
                                    34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224       234       244       254       264       274       284       294       304       314       324       334       344       354       364       374       384       394       404       414       424       434       444       454       464       474       484       494       504       514
         Q9KWT6_SPHSX    25 REATWVTEKPLTLKIHMHFRDKWVWDENWPVAREVARLTNVKLVGVANRAATNSQEQFNLMMASGQLPDIVGGDNLKDKFIRYGMEGAFIPLNKLIDQNAPNLKAFFKTHPEVQRAITAPDGNIYYLPYVPDGLVSRGYFIRQDWLDKLHLKTPQTVDELYTVLKAFKEKDPNGNGKADEIPFINRDPEEVFRLVNFWGARSTGSNTWMDFYVENGKIKHPFAEVAFKDGIKHVAQWYKEGLIDPEIFTRKARSREQTFGNNIGGMTHDWFASTALFNDALSKNIPGFKLVPMAPPINSKGQRWEEDARQIPRPDGWAITATNKNPVETIKLFDFYFGPKGRELSNFGVPGLTYDIKNGKPVYKDTVLKAAQPVNNQMYDIGAQIPIGFWQDYEYERQWTNDVALQGIDMYIKNKYVLPQFTGVNLTVEEREIYDKYWPDVKTYMFEMGQSWVMGTKDPEKTWNDYQQQLKNRGFYQVMIVMQKAYDRQY 514
               SCOP domains d3vlua_ A: automated matches                                                                                                                                                                                                                                                                                                                                                                                                                                                                               SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..........eeeeeeeee...ee....hhhhhhhhhhhheeeee.......hhhhhhhhhhhh.....eeee..hhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhhhhhhh........eeee......eeeeeehhhhhhh......hhhhhhhhhhhhhhh..........eee....hhhhhhhhhhhh............eee..eeehhhhhhhhhhhhhhhhhhhhh.........hhhhhhhhhhhh..eeeeeeehhhhhhhhhhh........eeee......................eeee.....hhhhhhhhhhhh.hhhhhhhhhhh.....eeee..eeeehhhhhh...hhhhhhhhh.......ee.hhhhhhh..hhhhhhhhhhhhhhh...........hhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3vlu A   1 REATWVTEKPLTLKIHMHFRDKWVWDENWPVAREVARLTNVKLVGVANRAATNSQEQFNLMMASGQLPDIVGGDNLKDKFIRYGMEGAFIPLNKLIDQNAPNLKAFFKTHPEVQRAITAPDGNIYYLPYVPDGLVSRGYFIRQDWLDKLHLKTPQTVDELYTVLKAFKEKDPNGNGKADEIPFINRDPEEVFRLVNFWGARSTGSNTWMDFYVENGKIKHPFAEVAFKDGIKHVAQWYKEGLIDPEIFTRKARSREQTFGNNIGGMTHDWFASTALFNDALSKNIPGFKLVPMAPPINSKGQRWEEDARQIPRPDGWAITATNKNPVETIKLFDFYFGPKGRELSNFGVPGLTYDIKNGKPVYKDTVLKAAQPVNNQMYDIGAQIPIGFWQDYEYERQWTNDVALQGIDMYIKNKYVLPQFTGVNLTVEEREIYDKYWPDVKTYMFEMGQSWVMGTKDPEKTWNDYQQQLKNRGFYQVMIVMQKAYDRQY 490
                                    10        20        30        40        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       310       320       330       340       350       360       370       380       390       400       410       420       430       440       450       460       470       480       490
   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  (1, 1)

Asymmetric/Biological Unit
(-)
Class: Alpha and beta proteins (a/b) (23833)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 3VLU)

(-) Gene Ontology  (3, 3)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (Q9KWT6_SPHSX | Q9KWT6)
molecular function
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
    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: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.

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    Ile A:311 - Pro A:312   [ RasMol ]  
 

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  3vlu
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 Related Entries

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

UniProtKB/TrEMBL
        Q9KWT6_SPHSX | Q9KWT6: 1y3n 1y3p 1y3q 3a09 3vlv 3vlw

(-) Related Entries Specified in the PDB File

1y3n 1y3p 1y3q 3a09 3vlv 3vlw