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(-) Description

Title :  CRYSTAL STRUCTURE OF THE POSSUM MILK WHEY LIPOCALIN TRICHOSURIN AT PH 4.6 WITH BOUND 4-ETHYLPHENOL
 
Authors :  R. P. Watson
Date :  14 Sep 07  (Deposition) - 20 Nov 07  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.50
Chains :  Asym. Unit :  A,B,C,D
Biol. Unit 1:  A,B  (1x)
Biol. Unit 2:  C,D  (1x)
Keywords :  Lipocalin, Beta Barrel, Glycoprotein, Milk Protein, Secreted, Transport, Transport Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  R. P. Watson, J. Demmer, E. N. Baker, V. L. Arcus
Three-Dimensional Structure And Ligand Binding Properties Of Trichosurin, A Metatherian Lipocalin From The Milk Whey Of The Common Brushtail Possum Trichosurus Vulpecula
Biochem. J. V. 408 29 2007
PubMed-ID: 17685895  |  Reference-DOI: 10.1042/BJ20070567
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - TRICHOSURIN
    Chains: A, B, C, D
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21(DE3)
    Expression System Plasmid: PET23A
    Expression System Strain: BL21 (DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Mutation: YES
    Organism Common: SILVER-GRAY BRUSHTAIL POSSUM
    Organism Scientific: TRICHOSURUS VULPECULA
    Organism Taxid: 9337

 Structural Features

(-) Chains, Units

  1234
Asymmetric Unit : ABCD
Biological Unit 1 (1x): AB  
Biological Unit 2 (1x):   CD

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 27)

Asymmetric Unit (4, 27)
No.NameCountTypeFull Name
1CL9Ligand/IonCHLORIDE ION
2ETY4Ligand/Ion4-ETHYLPHENOL
3IPA8Ligand/IonISOPROPYL ALCOHOL
4ZN6Ligand/IonZINC ION
Biological Unit 1 (2, 6)
No.NameCountTypeFull Name
1CL-1Ligand/IonCHLORIDE ION
2ETY2Ligand/Ion4-ETHYLPHENOL
3IPA4Ligand/IonISOPROPYL ALCOHOL
4ZN-1Ligand/IonZINC ION
Biological Unit 2 (2, 6)
No.NameCountTypeFull Name
1CL-1Ligand/IonCHLORIDE ION
2ETY2Ligand/Ion4-ETHYLPHENOL
3IPA4Ligand/IonISOPROPYL ALCOHOL
4ZN-1Ligand/IonZINC ION

(-) Sites  (27, 27)

Asymmetric Unit (27, 27)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREHIS A:27 , HIS A:29 , CL A:901 , CL A:902BINDING SITE FOR RESIDUE ZN A 803
02AC2SOFTWAREHIS A:27 , HIS A:29 , ZN A:803 , CL A:902BINDING SITE FOR RESIDUE CL A 901
03AC3SOFTWAREHIS A:29 , ARG A:131 , ZN A:803 , CL A:901BINDING SITE FOR RESIDUE CL A 902
04AC4SOFTWAREHIS B:27 , HIS B:29 , CL B:903 , CL B:904BINDING SITE FOR RESIDUE ZN B 801
05AC5SOFTWAREASP B:37 , SER B:39 , CL B:909 , GLU C:42 , HOH C:907BINDING SITE FOR RESIDUE ZN B 802
06AC6SOFTWAREHIS B:27 , HIS B:29 , ARG B:131 , ZN B:801 , CL B:904BINDING SITE FOR RESIDUE CL B 903
07AC7SOFTWAREHIS B:27 , HIS B:29 , ZN B:801 , CL B:903BINDING SITE FOR RESIDUE CL B 904
08AC8SOFTWAREASP B:37 , LYS B:121 , ZN B:802 , ARG C:38 , SER C:39 , GLU C:42BINDING SITE FOR RESIDUE CL B 909
09AC9SOFTWAREHIS C:27 , HIS C:29 , CL C:905 , CL C:906BINDING SITE FOR RESIDUE ZN C 804
10BC1SOFTWAREHIS C:29 , ARG C:131 , ZN C:804 , CL C:906BINDING SITE FOR RESIDUE CL C 905
11BC2SOFTWAREHIS C:27 , HIS C:29 , ZN C:804 , CL C:905BINDING SITE FOR RESIDUE CL C 906
12BC3SOFTWAREHIS D:27 , HIS D:29 , CL D:907 , CL D:908BINDING SITE FOR RESIDUE ZN D 806
13BC4SOFTWAREGLU A:42 , HOH A:957 , ASP D:37 , SER D:39 , HOH D:922BINDING SITE FOR RESIDUE ZN D 805
14BC5SOFTWAREHIS D:27 , HIS D:29 , ZN D:806 , CL D:908BINDING SITE FOR RESIDUE CL D 907
15BC6SOFTWAREHIS D:29 , ZN D:806 , CL D:907BINDING SITE FOR RESIDUE CL D 908
16BC7SOFTWARELEU A:61 , GLY A:63 , LEU A:78 , THR A:79 , ALA A:80 , PHE A:112 , PHE A:114 , PHE A:129BINDING SITE FOR RESIDUE ETY A 604
17BC8SOFTWARELEU B:61 , GLY B:63 , LEU B:78 , THR B:79 , ALA B:80 , PHE B:112 , PHE B:114 , PHE B:129BINDING SITE FOR RESIDUE ETY B 601
18BC9SOFTWARELEU C:61 , GLY C:63 , LEU C:78 , THR C:79 , ALA C:80 , PHE C:112 , PHE C:114 , PHE C:129BINDING SITE FOR RESIDUE ETY C 603
19CC1SOFTWARELEU D:61 , GLY D:63 , LEU D:78 , THR D:79 , ALA D:80 , PHE D:112 , PHE D:114 , PHE D:129 , HOH D:951BINDING SITE FOR RESIDUE ETY D 602
20CC2SOFTWAREPHE A:47 , ASN A:49 , PHE A:65 , LEU A:78 , PHE A:114 , HOH A:904BINDING SITE FOR RESIDUE IPA A 705
21CC3SOFTWARELYS A:111 , ILE A:113 , PHE A:147 , ARG A:150 , HOH A:931BINDING SITE FOR RESIDUE IPA A 708
22CC4SOFTWARELYS B:111 , ILE B:113 , ALA B:126 , ARG B:150BINDING SITE FOR RESIDUE IPA B 702
23CC5SOFTWAREPHE B:47 , ASN B:49 , PHE B:65 , LEU B:78 , TYR B:93 , PHE B:114 , HOH B:917BINDING SITE FOR RESIDUE IPA B 706
24CC6SOFTWAREASN C:49 , PHE C:65 , PHE C:114 , HOH C:908BINDING SITE FOR RESIDUE IPA C 703
25CC7SOFTWARELYS C:111 , ILE C:113 , ALA C:126 , ARG C:150 , HOH C:939BINDING SITE FOR RESIDUE IPA C 707
26CC8SOFTWARELYS D:111 , ILE D:113 , PHE D:147 , ARG D:150 , HOH D:939BINDING SITE FOR RESIDUE IPA D 701
27CC9SOFTWAREASN D:49 , PHE D:65 , PHE D:114 , HOH D:916BINDING SITE FOR RESIDUE IPA D 704

(-) SS Bonds  (4, 4)

Asymmetric Unit
No.Residues
1A:73 -A:166
2B:73 -B:166
3C:73 -C:166
4D:73 -D:166

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 2RA6)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2RA6)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2RA6)

(-) Exons   (0, 0)

(no "Exon" information available for 2RA6)

(-) 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:141
 aligned with TRIC_TRIVU | Q29147 from UniProtKB/Swiss-Prot  Length:180

    Alignment length:141
                                    49        59        69        79        89        99       109       119       129       139       149       159       169       179 
           TRIC_TRIVU    40 RHWHTVVLASSDRSLIEEEGPFRNFIQNITVESGNLNGFFLTRKNGQCIPLYLTAFKTEEARQFKLNYYGTNDVYYGSSKPNEYAKFIFYNYHDGKVNVVANLFGRTPNLSNEIKKRFEEDFMNRGFRRENILDISEVDHC 180
               SCOP domains d2ra6a_ A: automated matches                                                                                                                  SCOP domains
               CATH domains 2ra6A00 A:26-166  [code=2.40.128.20, no name defined]                                                                                         CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeeee.hhhhh........eeeeeeee..eeeeeeeeee..eeeeeeeeeee.....eeeee...eeeeeee......eeeeeeeeee..eeeeeeeeee.....hhhhhhhhhhhhhh...hhh.eee.hhh... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2ra6 A  26 RHWHTVVLASSDRSLIEEEGPFRNFIQNITVESGNLNGFFLTRKNGQCIPLYLTAFKTEEARQFKLNYYGTNDVYYESSKPNEYAKFIFYNYHDGKVNVVANLFGRTPNLSNEIKKRFEEDFMNRGFRRENILDISEVDHC 166
                                    35        45        55        65        75        85        95       105       115       125       135       145       155       165 


Chain B from PDB  Type:PROTEIN  Length:142
 aligned with TRIC_TRIVU | Q29147 from UniProtKB/Swiss-Prot  Length:180

    Alignment length:142
                                    48        58        68        78        88        98       108       118       128       138       148       158       168       178  
           TRIC_TRIVU    39 SRHWHTVVLASSDRSLIEEEGPFRNFIQNITVESGNLNGFFLTRKNGQCIPLYLTAFKTEEARQFKLNYYGTNDVYYGSSKPNEYAKFIFYNYHDGKVNVVANLFGRTPNLSNEIKKRFEEDFMNRGFRRENILDISEVDHC 180
               SCOP domains d2ra6b_ B: automated matches                                                                                                                   SCOP domains
               CATH domains 2ra6B00 B:25-166  [code=2.40.128.20, no name defined]                                                                                          CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eeeeeee.hhhhh........eeeeeeee..eeeeeeeeee..eeeeeeeeeee.....eeeee...eeeeeee......eeeeeeeeee..eeeeeeeeee.....hhhhhhhhhhhhhh...hhh.eee.hhh... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2ra6 B  25 SRHWHTVVLASSDRSLIEEEGPFRNFIQNITVESGNLNGFFLTRKNGQCIPLYLTAFKTEEARQFKLNYYGTNDVYYESSKPNEYAKFIFYNYHDGKVNVVANLFGRTPNLSNEIKKRFEEDFMNRGFRRENILDISEVDHC 166
                                    34        44        54        64        74        84        94       104       114       124       134       144       154       164  


Chain C from PDB  Type:PROTEIN  Length:143
 aligned with TRIC_TRIVU | Q29147 from UniProtKB/Swiss-Prot  Length:180

    Alignment length:143
                                    47        57        67        77        87        97       107       117       127       137       147       157       167       177   
           TRIC_TRIVU    38 LSRHWHTVVLASSDRSLIEEEGPFRNFIQNITVESGNLNGFFLTRKNGQCIPLYLTAFKTEEARQFKLNYYGTNDVYYGSSKPNEYAKFIFYNYHDGKVNVVANLFGRTPNLSNEIKKRFEEDFMNRGFRRENILDISEVDHC 180
               SCOP domains d2ra6c_ C: automated matches                                                                                                                    SCOP domains
               CATH domains 2ra6C00 C:24-166  [code=2.40.128.20, no name defined]                                                                                           CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..ee.eeeeeee.hhhhh........eeeeeeee..eeeeeeeeee..eeeeeeeeeee.....eeeee...eeeeeee......eeeeeeeeee..eeeeeeeeee.....hhhhhhhhhhhhhh...hhh.eee.hhh... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2ra6 C  24 LSRHWHTVVLASSDRSLIEEEGPFRNFIQNITVESGNLNGFFLTRKNGQCIPLYLTAFKTEEARQFKLNYYGTNDVYYESSKPNEYAKFIFYNYHDGKVNVVANLFGRTPNLSNEIKKRFEEDFMNRGFRRENILDISEVDHC 166
                                    33        43        53        63        73        83        93       103       113       123       133       143       153       163   


Chain D from PDB  Type:PROTEIN  Length:143
 aligned with TRIC_TRIVU | Q29147 from UniProtKB/Swiss-Prot  Length:180

    Alignment length:143
                                    47        57        67        77        87        97       107       117       127       137       147       157       167       177   
           TRIC_TRIVU    38 LSRHWHTVVLASSDRSLIEEEGPFRNFIQNITVESGNLNGFFLTRKNGQCIPLYLTAFKTEEARQFKLNYYGTNDVYYGSSKPNEYAKFIFYNYHDGKVNVVANLFGRTPNLSNEIKKRFEEDFMNRGFRRENILDISEVDHC 180
               SCOP domains d2ra6d_ D: automated matches                                                                                                                    SCOP domains
               CATH domains 2ra6D00 D:24-166  [code=2.40.128.20, no name defined]                                                                                           CATH domains
           Pfam domains (1) -Lipocalin-2ra6D01 D:25-164                                                                                                                  -- Pfam domains (1)
           Pfam domains (2) -Lipocalin-2ra6D02 D:25-164                                                                                                                  -- Pfam domains (2)
           Pfam domains (3) -Lipocalin-2ra6D03 D:25-164                                                                                                                  -- Pfam domains (3)
           Pfam domains (4) -Lipocalin-2ra6D04 D:25-164                                                                                                                  -- Pfam domains (4)
         Sec.struct. author ..ee.eeeeeee.hhhhh........eeeeeeee..eeeeeeeeee..eeeeeeeeeee.....eeeee...eeeeeee......eeeeeeeeee..eeeeeeeeee.....hhhhhhhhhhhhhh...hhh.eee.hhh... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2ra6 D  24 LSRHWHTVVLASSDRSLIEEEGPFRNFIQNITVESGNLNGFFLTRKNGQCIPLYLTAFKTEEARQFKLNYYGTNDVYYESSKPNEYAKFIFYNYHDGKVNVVANLFGRTPNLSNEIKKRFEEDFMNRGFRRENILDISEVDHC 166
                                    33        43        53        63        73        83        93       103       113       123       133       143       153       163
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
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  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, 4)

Asymmetric Unit
(-)
Class: All beta proteins (24004)

(-) CATH Domains  (1, 4)

Asymmetric Unit
(-)
Class: Mainly Beta (13760)

(-) Pfam Domains  (1, 4)

Asymmetric Unit
(-)
Clan: Calycin (163)

(-) Gene Ontology  (4, 4)

Asymmetric Unit(hide GO term definitions)
Chain A,B,C,D   (TRIC_TRIVU | Q29147)
molecular function
    GO:0005550    pheromone binding    Interacting selectively and non-covalently with a pheromone, a substance, or characteristic mixture of substances, that is secreted and released by an organism and detected by a second organism of the same or a closely related species, in which it causes a specific reaction, such as a definite behavioral reaction or a developmental process.
    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.
cellular component
    GO:0005576    extracellular region    The space external to the outermost structure of a cell. For cells without external protective or external encapsulating structures this refers to space outside of the plasma membrane. This term covers the host cell environment outside an intracellular parasite.

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  2ra6
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  TRIC_TRIVU | Q29147
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 Related Entries

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

UniProtKB/Swiss-Prot
        TRIC_TRIVU | Q29147: 2r73 2r74

(-) Related Entries Specified in the PDB File

2r73 CRYSTAL STRUCTURE OF THE POSSUM MILK WHEY LIPOCALIN TRICHOSURIN AT PH 8.2
2r74 CRYSTAL STRUCTURE OF THE POSSUM MILK WHEY LIPOCALIN TRICHOSURIN AT PH 4.6