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(-) Description

Title :  CRYSTAL STRUCTURE OF HUMAN CERAMIDE-1-PHOSPHATE TRANSFER PROTEIN (CPTP) IN COMPLEX WITH 12:0 PHOSPHATIDIC ACID (12:0 PA)
 
Authors :  D. K. Simanshu, R. E. Brown, D. J. Patel
Date :  23 Apr 13  (Deposition) - 17 Jul 13  (Release) - 11 Sep 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.90
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Keywords :  Lipid Transfer Protein, Gltp-Fold, Cptp, C1P, Ceramide-1-Phosphate, Protein-Lipid Complex, Eicosanoid, Lipid Transport (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  D. K. Simanshu, R. K. Kamlekar, D. S. Wijesinghe, X. Zou, X. Zhai, S. K. Mishra, J. G. Molotkovsky, L. Malinina, E. H. Hinchcliffe, C. E. Chalfant, R. E. Brown, D. J. Patel
Non-Vesicular Trafficking By A Ceramide-1-Phosphate Transfe Protein Regulates Eicosanoids.
Nature V. 500 463 2013
PubMed-ID: 23863933  |  Reference-DOI: 10.1038/NATURE12332

(-) Compounds

Molecule 1 - GLYCOLIPID TRANSFER PROTEIN DOMAIN-CONTAINING PROTEIN 1
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET-SUMO
    Expression System Strain: BL21(DE3) STAR
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Gene: GLTPD1
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606

 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, 4)

Asymmetric Unit (2, 4)
No.NameCountTypeFull Name
1EDO2Ligand/Ion1,2-ETHANEDIOL
2PX22Ligand/Ion1,2-DILAUROYL-SN-GLYCERO-3-PHOSPHATE
Biological Unit 1 (1, 1)
No.NameCountTypeFull Name
1EDO-1Ligand/Ion1,2-ETHANEDIOL
2PX21Ligand/Ion1,2-DILAUROYL-SN-GLYCERO-3-PHOSPHATE
Biological Unit 2 (2, 3)
No.NameCountTypeFull Name
1EDO2Ligand/Ion1,2-ETHANEDIOL
2PX21Ligand/Ion1,2-DILAUROYL-SN-GLYCERO-3-PHOSPHATE

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREILE A:53 , ASP A:56 , LYS A:60 , ARG A:106 , ARG A:110 , PHE A:121 , HIS A:150 , HOH A:422 , HOH A:442 , HOH A:471 , HOH A:488 , PHE B:52 , LYS B:55 , PX2 B:301BINDING SITE FOR RESIDUE PX2 A 301
2AC2SOFTWAREPHE A:52 , LYS A:55 , PX2 A:301 , HOH A:500 , ILE B:53 , ASP B:56 , LYS B:60 , ARG B:106 , ARG B:110 , PHE B:121 , HIS B:150 , EDO B:302 , HOH B:419 , HOH B:437 , HOH B:442BINDING SITE FOR RESIDUE PX2 B 301
3AC3SOFTWAREASP B:56 , VAL B:57 , ARG B:110 , PX2 B:301 , HOH B:437BINDING SITE FOR RESIDUE EDO B 302
4AC4SOFTWAREASP A:140 , HOH A:479 , ALA B:147 , ALA B:148 , HIS B:150 , TRP B:152 , ARG B:155 , HOH B:414BINDING SITE FOR RESIDUE EDO B 303

(-) SS Bonds  (1, 1)

Asymmetric Unit
No.Residues
1B:138 -B:163

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4KBS)

(-) 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    
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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:208
                                                                                                                                                                                                                                                
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhh.............hhhhhhhhhhhhhhhhhhhhhhhhh......hhhhhhhhhhh.hhhhhhhhhhhhhhhhh....hhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4kbs A   7 GFNLKVVLVSFKQCLDEKEEVLLDPYIASWKGLVRFLNSLGTIFSFISKDVVSKLRIMERLRGGPQSEHYRSLQAMVAHELSNRLVDLERRSHHPESGCRTVLRLHRALHWLQLFLEGLRTSPEDARTSALCADSYNASLAAYHPWVVRRAVTVAFCTLPTREVFLEAMNVGPPEQAVQMLGEALPFIQRVYNVSQKLYAEHSLLDLP 214
                                    16        26        36        46        56        66        76        86        96       106       116       126       136       146       156       166       176       186       196       206        


Chain B from PDB  Type:PROTEIN  Length:208
                                                                                                                                                                                                                                                
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhh.............hhhhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhh.hhhhhhhhhhhhhhhh.....hhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4kbs B   7 GFNLKVVLVSFKQCLDEKEEVLLDPYIASWKGLVRFLNSLGTIFSFISKDVVSKLRIMERLRGGPQSEHYRSLQAMVAHELSNRLVDLERRSHHPESGCRTVLRLHRALHWLQLFLEGLRTSPEDARTSALCADSYNASLAAYHPWVVRRAVTVAFCTLPTREVFLEAMNVGPPEQAVQMLGEALPFIQRVYNVSQKLYAEHSLLDLP 214
                                    16        26        36        46        56        66        76        86        96       106       116       126       136       146       156       166       176       186       196       206
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  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 4KBS)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (21, 21)

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 Related Entries

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

UniProtKB/Swiss-Prot
        CPTP_HUMAN | Q5TA50: 4k80 4k84 4k85 4k8n 4kf6

(-) Related Entries Specified in the PDB File

4k80 4k84 4k85 4k8n 4kbr 4kf6