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(-) Description

Title :  CRYSTAL STRUCTURE OF SPF BOUND TO SQUALENE
 
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 :  1.75
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  (4, 12)

Asymmetric Unit (4, 12)
No.NameCountTypeFull Name
1CL2Ligand/IonCHLORIDE ION
2IPA2Ligand/IonISOPROPYL ALCOHOL
3SO46Ligand/IonSULFATE ION
4SQL2Ligand/Ion(6E,10E,14E,18E)-2,6,10,15,19,23-HEXAMETHYLTETRACOSA-2,6,10,14,18,22-HEXAENE
Biological Unit 1 (3, 5)
No.NameCountTypeFull Name
1CL-1Ligand/IonCHLORIDE ION
2IPA1Ligand/IonISOPROPYL ALCOHOL
3SO43Ligand/IonSULFATE ION
4SQL1Ligand/Ion(6E,10E,14E,18E)-2,6,10,15,19,23-HEXAMETHYLTETRACOSA-2,6,10,14,18,22-HEXAENE
Biological Unit 2 (3, 5)
No.NameCountTypeFull Name
1CL-1Ligand/IonCHLORIDE ION
2IPA1Ligand/IonISOPROPYL ALCOHOL
3SO43Ligand/IonSULFATE ION
4SQL1Ligand/Ion(6E,10E,14E,18E)-2,6,10,15,19,23-HEXAMETHYLTETRACOSA-2,6,10,14,18,22-HEXAENE

(-) Sites  (12, 12)

Asymmetric Unit (12, 12)
No.NameEvidenceResiduesDescription
01AC1SOFTWARESER A:116 , LYS A:117 , GLN A:118 , HOH A:497 , HOH A:514 , HOH A:530 , HOH A:531 , HOH A:590 , HOH A:656 , HOH A:777BINDING SITE FOR RESIDUE SO4 A 301
02AC2SOFTWAREPRO A:195 , LYS A:196 , HOH A:430BINDING SITE FOR RESIDUE SO4 A 302
03AC3SOFTWAREARG A:188 , HIS A:231 , HOH A:810BINDING SITE FOR RESIDUE SO4 A 303
04AC4SOFTWARELYS A:165BINDING SITE FOR RESIDUE CL A 304
05AC5SOFTWARELEU A:106 , LEU A:111 , LEU A:112 , LEU A:121 , LYS A:124 , TYR A:153 , CYS A:155 , HIS A:162 , LEU A:163 , ALA A:167 , VAL A:168 , ALA A:170 , TYR A:171 , PHE A:198 , ALA A:201 , TYR A:202 , THR A:213BINDING SITE FOR RESIDUE SQL A 305
06AC6SOFTWARETRP A:99 , ASP A:101 , LYS A:124 , GLU A:127BINDING SITE FOR RESIDUE IPA A 306
07AC7SOFTWARESER B:116 , LYS B:117 , GLN B:118 , HOH B:479 , HOH B:499 , HOH B:504 , HOH B:529 , HOH B:612 , HOH B:628 , HOH B:782BINDING SITE FOR RESIDUE SO4 B 301
08AC8SOFTWARELYS A:206 , LYS B:165 , HOH B:758BINDING SITE FOR RESIDUE SO4 B 302
09AC9SOFTWAREARG B:188 , HIS B:231 , HOH B:788BINDING SITE FOR RESIDUE SO4 B 303
10BC1SOFTWARELYS B:255BINDING SITE FOR RESIDUE CL B 304
11BC2SOFTWAREALA B:108 , LEU B:111 , LYS B:124 , TYR B:153 , HIS B:162 , ALA B:167 , ALA B:170 , TYR B:171 , LEU B:175 , PHE B:198 , ALA B:201 , TYR B:202 , ILE B:205 , THR B:213BINDING SITE FOR RESIDUE SQL B 305
12BC3SOFTWAREASP B:101 , LYS B:124 , GLU B:127BINDING SITE FOR RESIDUE IPA B 306

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4OMK)

(-) 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
                 4omk 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
                 4omk 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)
  - → 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 4OMK)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (14, 14)

Asymmetric Unit(hide GO term definitions)

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 Related Entries

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        S14L2_HUMAN | O76054: 1o6u 1olm 4omj

(-) Related Entries Specified in the PDB File

1o6u THE CRYSTAL STRUCTURE OF HUMAN SUPERNATANT PROTEIN FACTOR
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