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(-) Description

Title :  CRYSTAL STRUCTURE OF SPF BOUND TO 2,3-OXIDOSQUALENE
 
Authors :  M. Christen, M. J. Marcaida, C. Lamprakis, M. Cascella, A. Stocker
Date :  27 Jan 14  (Deposition) - 15 Apr 15  (Release) - 24 Jun 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.60
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Keywords :  Cholesterol Synthesis, Squalene, 2, 3-Oxidosqualene, Sec14-Like, Cral- Trio Domain, Hydrophobic Ligand Transporter, Transport Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  M. Christen, M. J. Marcaida, C. Lamprakis, W. Aeschimann, J. Vaithilingam, P. Schneider, M. Hilbert, G. Schneider, M. Cascella A. Stocker
Structural Insights On Cholesterol Endosynthesis: Binding O Squalene And 2, 3-Oxidosqualene To Supernatant Protein Factor.
J. Struct. Biol. V. 190 261 2015
PubMed-ID: 25987292  |  Reference-DOI: 10.1016/J.JSB.2015.05.001

(-) Compounds

Molecule 1 - SEC14-LIKE PROTEIN 2
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET28A
    Expression System Strain: LEMO21 (DE3)
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Fragment: UNP RESIDUES 1-275
    Gene: C22ORF6, KIAA1186, KIAA1658, SEC14L2
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: ALPHA-TOCOPHEROL-ASSOCIATED PROTEIN, TAP, HTAP, SQUALENE TRANSFER PROTEIN, SUPERNATANT PROTEIN FACTOR, SPF

 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  (3, 18)

Asymmetric Unit (3, 18)
No.NameCountTypeFull Name
12TX2Ligand/Ion(3S)-2,2-DIMETHYL-3-[(3E,7E,11E,15E)-3,7,12,16,20-PENTAMETHYLHENICOSA-3,7,11,15,19-PENTAEN-1-YL]OXIRANE
2CL9Ligand/IonCHLORIDE ION
3SO47Ligand/IonSULFATE ION
Biological Unit 1 (2, 4)
No.NameCountTypeFull Name
12TX1Ligand/Ion(3S)-2,2-DIMETHYL-3-[(3E,7E,11E,15E)-3,7,12,16,20-PENTAMETHYLHENICOSA-3,7,11,15,19-PENTAEN-1-YL]OXIRANE
2CL-1Ligand/IonCHLORIDE ION
3SO43Ligand/IonSULFATE ION
Biological Unit 2 (2, 5)
No.NameCountTypeFull Name
12TX1Ligand/Ion(3S)-2,2-DIMETHYL-3-[(3E,7E,11E,15E)-3,7,12,16,20-PENTAMETHYLHENICOSA-3,7,11,15,19-PENTAEN-1-YL]OXIRANE
2CL-1Ligand/IonCHLORIDE ION
3SO44Ligand/IonSULFATE ION

(-) Sites  (18, 18)

Asymmetric Unit (18, 18)
No.NameEvidenceResiduesDescription
01AC1SOFTWARESER A:116 , LYS A:117 , GLN A:118 , HOH A:511 , HOH A:628 , HOH A:896BINDING SITE FOR RESIDUE SO4 A 301
02AC2SOFTWAREPRO A:195 , LYS A:196 , HOH A:415 , HOH A:667 , HOH A:738 , HOH A:886 , HOH A:917BINDING SITE FOR RESIDUE SO4 A 302
03AC3SOFTWAREASN A:251 , LYS A:253 , LYS A:255 , HOH A:455 , HOH A:810 , HOH A:927BINDING SITE FOR RESIDUE SO4 A 303
04AC4SOFTWAREARG A:188 , HOH A:835 , HOH A:874BINDING SITE FOR RESIDUE CL A 304
05AC5SOFTWARELYS A:165 , LYS B:206 , ARG B:214BINDING SITE FOR RESIDUE CL A 305
06AC6SOFTWAREARG A:214 , LYS B:165BINDING SITE FOR RESIDUE CL A 306
07AC7SOFTWAREARG A:266 , HOH A:740BINDING SITE FOR RESIDUE CL A 307
08AC8SOFTWAREASN A:203 , HOH A:683 , TRP B:164 , LYS B:165BINDING SITE FOR RESIDUE CL A 308
09AC9SOFTWAREGLU A:78 , TYR A:268 , HOH A:888BINDING SITE FOR RESIDUE CL A 309
10BC1SOFTWAREALA A:108 , LEU A:121 , TYR A:153 , CYS A:155 , HIS A:162 , ALA A:167 , ALA A:170 , TYR A:171 , LEU A:175 , LEU A:189 , PHE A:198 , TYR A:202 , ILE A:205BINDING SITE FOR RESIDUE 2TX A 310
11BC2SOFTWARESER B:116 , LYS B:117 , GLN B:118 , HOH B:509 , HOH B:609 , HOH B:911BINDING SITE FOR RESIDUE SO4 B 301
12BC3SOFTWAREPRO B:195 , LYS B:196 , HOH B:411 , HOH B:735 , HOH B:874BINDING SITE FOR RESIDUE SO4 B 302
13BC4SOFTWAREARG B:188 , HIS B:231 , HOH B:809 , HOH B:813BINDING SITE FOR RESIDUE SO4 B 303
14BC5SOFTWAREASN B:251 , LYS B:253 , LYS B:255 , HOH B:492 , HOH B:807BINDING SITE FOR RESIDUE SO4 B 304
15BC6SOFTWAREARG B:266 , HOH B:759BINDING SITE FOR RESIDUE CL B 305
16BC7SOFTWAREPRO B:105 , GLY B:262 , ASP B:263 , HOH B:691BINDING SITE FOR RESIDUE CL B 306
17BC8SOFTWAREGLY B:221 , ALA B:222 , HOH B:616BINDING SITE FOR RESIDUE CL B 307
18BC9SOFTWARELEU B:106 , LEU B:111 , LYS B:124 , TYR B:153 , CYS B:155 , HIS B:162 , ALA B:167 , LEU B:175 , LEU B:189 , PHE B:198 , TYR B:202 , ILE B:205 , HOH B:689BINDING SITE FOR RESIDUE 2TX B 308

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4OMJ)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4OMJ)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4OMJ)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4OMJ)

(-) Exons   (0, 0)

(no "Exon" information available for 4OMJ)

(-) 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:274
                                                                                                                                                                                                                                                                                                                  
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ........hhhhhhhhhhhhhhhh.hhhhh...hhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhh..eeeee.....eeeeee....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.....eeeeee....hhhhhhhhhhhhhhhhhhhhhhhh...eeeeeee....hhhhhhhhhhhhhhhhhhhheee...hhhhhhhhhhhhhhhhhhhh......................hhhhh..... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4omj A   1 MSGRVGDLSPRQKEALAKFRENVQDVLPALPNPDDYFLLRWLRARSFDLQKSEAMLRKHVEFRKQKDIDNIISWQPPEVIQQYLSGGMCGYDLDGCPVWYDIIGPLDAKGLLFSASKQDLLRTKMRECELLLQECAHQTTKLGRKVETITIIYDCEGLGLKHLWKPAVEAYGEFLCMFEENYPETLKRLFVVKAPKLFPVAYNLIKPFLSEDTRKKIMVLGANWKEVLLKHISPDQVPVEYGGTMTDPDGNPKCKSKINYGGDIPRKYYVRDQV 274
                                    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    


Chain B from PDB  Type:PROTEIN  Length:274
                                                                                                                                                                                                                                                                                                                  
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ........hhhhhhhhhhhhhhhh.hhhhh...hhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhh..eeeee.....eeeeee....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.....eeeeee....hhhhhhhhhhhhhhhhhhhhhhhh...eeeeeee....hhhhhhhhhhhhhhhhhhhheee...hhhhhhhhhhhhhhhhhhhh......................hhhhh..... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4omj B   1 MSGRVGDLSPRQKEALAKFRENVQDVLPALPNPDDYFLLRWLRARSFDLQKSEAMLRKHVEFRKQKDIDNIISWQPPEVIQQYLSGGMCGYDLDGCPVWYDIIGPLDAKGLLFSASKQDLLRTKMRECELLLQECAHQTTKLGRKVETITIIYDCEGLGLKHLWKPAVEAYGEFLCMFEENYPETLKRLFVVKAPKLFPVAYNLIKPFLSEDTRKKIMVLGANWKEVLLKHISPDQVPVEYGGTMTDPDGNPKCKSKINYGGDIPRKYYVRDQV 274
                                    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
   Legend:   → Mismatch (orange background)
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    → 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 4OMJ)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4OMJ)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4OMJ)

(-) Gene Ontology  (14, 14)

Asymmetric Unit(hide GO term definitions)

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 Related Entries

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

UniProtKB/Swiss-Prot
        S14L2_HUMAN | O76054: 1o6u 1olm 4omk

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