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(-) Description

Title :  HUMAN CYCLOPHILIN D COMPLEXED WITH INHIBITOR
 
Authors :  R. P. Gibson, E. Shore, N. Kershaw, M. Awais, A. Javed, D. Latawiec, S. Pandalaneni, L. Wen, N. Berry, P. O'Neill, R. Sutton, L. Y. Lian
Date :  02 Jul 15  (Deposition) - 20 Jul 16  (Release) - 20 Jul 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.80
Chains :  Asym./Biol. Unit :  A
Keywords :  Cyclophilin, Isomerase, Complex, Inhibitor (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  R. P. Gibson, E. Shore, N. Kershaw, M. Awais, A. Javed, D. Latawiec, S. Pandalaneni, L. Wen, N. Berry, P. O'Neill, R. Sutton, L. Y. Lian
Human Cyclophilin D Complexed With Inhibitor
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - PEPTIDYL-PROLYL CIS-TRANS ISOMERASE F, MITOCHONDRIAL
    ChainsA
    EC Number5.2.1.8
    EngineeredYES
    Expression SystemESCHERICHIA COLI BL21(DE3)
    Expression System PlasmidPET28B
    Expression System Taxid469008
    GenePPIF, CYP3
    MutationYES
    Organism CommonHUMAN
    Organism ScientificHOMO SAPIENS
    Organism Taxid9606
    SynonymPPIASE F,CYCLOPHILIN D,CYPD,CYCLOPHILIN F,MITOCHONDRIAL CYCLOPHILIN,CYP-M,ROTAMASE F

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (5, 6)

Asymmetric/Biological Unit (5, 6)
No.NameCountTypeFull Name
15021Ligand/IonETHYL N-{[(2-AMINOPYRIDIN-4-YL)METHYL]CARBAMOYL}GLYCINATE
2FMT1Ligand/IonFORMIC ACID
3K2Ligand/IonPOTASSIUM ION
4PG41Ligand/IonTETRAETHYLENE GLYCOL
5PGE1Ligand/IonTRIETHYLENE GLYCOL

(-) Sites  (6, 6)

Asymmetric Unit (6, 6)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREPGE A:205binding site for residue K A 201
2AC2SOFTWARETYR A:7 , ASP A:160 , CYS A:161 , FMT A:203 , HOH A:420binding site for residue K A 202
3AC3SOFTWARECYS A:40 , THR A:41 , LYS A:49 , CYS A:161 , K A:202 , HOH A:309 , HOH A:343binding site for residue FMT A 203
4AC4SOFTWAREPRO A:95 , HIS A:131 , HOH A:382binding site for residue PG4 A 204
5AC5SOFTWAREPRO A:58 , SER A:59 , TRP A:121 , LYS A:148 , K A:201binding site for residue PGE A 205
6AC6SOFTWAREARG A:55 , GLN A:63 , GLY A:72 , THR A:73 , GLY A:74 , ALA A:101 , ASN A:102 , GLN A:111 , PHE A:113 , HIS A:126 , HOH A:318 , HOH A:408binding site for residue 502 A 206

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 5CCQ)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 5CCQ)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5CCQ)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5CCQ)

(-) Exons   (0, 0)

(no "Exon" information available for 5CCQ)

(-) 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    
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SAPs(SNPs) PROSITE motifs Exons
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Chain A from PDB  Type:PROTEIN  Length:164
                                                                                                                                                                                                    
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeeeee..eeeeeeeeee....hhhhhhhhhhhhhh..........eeeee...eeee................................eeee...........eeee...hhhhh....eeeeeeehhhhhhhhhhh..........eeeeeeee.. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5ccq A   2 GNPLVYLDVDANGKPLGRVVLELKADVVPKTAENFRALCTGEKGFGYKGSTFHRVIPSFMCQAGDFTNHNGTGGKSIYGSRFPDENFTLKHVGPGVLSMANAGPNTNGSQFFICTIKTDWLDGKHVVFGHVIEGMDVVKKIESFGSKSGRTSKKIVITDCGQLS 165
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161    

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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  (0, 0)

(no "SCOP Domain" information available for 5CCQ)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5CCQ)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5CCQ)

(-) Gene Ontology  (33, 33)

Asymmetric/Biological Unit(hide GO term definitions)

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 Related Entries

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

UniProtKB/Swiss-Prot
        PPIF_HUMAN | P304052bit 2biu 2z6w 3qyu 3r49 3r4g 3r54 3r56 3r57 3r59 3rcf 3rcg 3rci 3rck 3rcl 3rd9 3rda 3rdb 3rdc 4j58 4j59 4j5a 4j5b 4j5c 4j5d 4j5e 4o8h 4o8i 4xnc 4zsc 4zsd 5a0e 5cbt 5cbu 5cbv 5cbw 5ccn 5ccr 5ccs

(-) Related Entries Specified in the PDB File

(no "Related Entries Specified in the PDB File" available for 5CCQ)