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(-) Description

Title :  CRYSTAL STRUCTURE OF MACROPHAGE MIGRATION INHIBITORY FACTOR IN COMPLEX WITH FURAN-2-YLMETHYL)IMINO METHANETHIOL
 
Authors :  G. Pantouris, E. Lolis
Date :  14 May 14  (Deposition) - 04 May 16  (Release) - 04 May 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.78
Chains :  Asym./Biol. Unit :  A,B,C
Keywords :  Inhibitor, Complex, Isomerase, Active Site, Isomerase-Isomerase Inhibitor Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  G. Pantouris, E. Lolis
Crystal Structure Of Macrophage Migration Inhibitory Factor With A Covalent Inhibitor
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - MACROPHAGE MIGRATION INHIBITORY FACTOR
    Chains: A, B, C
    EC Number: 5.3.2.1, 5.3.3.12
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Gene: MIF, GLIF, MMIF
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: MIF, GLYCOSYLATION-INHIBITING FACTOR, GIF, L-DOPACHROME ISOMERASE, L-DOPACHROME TAUTOMERASE, PHENYLPYRUVATE TAUTOMERASE

 Structural Features

(-) Chains, Units

  123
Asymmetric/Biological Unit : ABC

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 14)

Asymmetric/Biological Unit (4, 14)
No.NameCountTypeFull Name
131E3Ligand/Ion(Z)-[(FURAN-2-YLMETHYL)IMINO]METHANETHIOL
2GOL4Ligand/IonGLYCEROL
3IPA4Ligand/IonISOPROPYL ALCOHOL
4SO43Ligand/IonSULFATE ION

(-) Sites  (14, 14)

Asymmetric Unit (14, 14)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREPRO A:1 , MET A:2 , HIS A:62 , SER A:63 , ILE A:64 , VAL A:106 , ASN C:97binding site for residue 31E A 201
02AC2SOFTWAREASN A:109 , ASN A:110 , GOL A:203 , HOH A:301 , HOH A:307 , HOH A:398 , ILE B:64 , IPA B:206binding site for residue GOL A 202
03AC3SOFTWAREASN A:109 , ASN A:110 , GOL A:202 , HOH A:397 , LYS B:32 , IPA B:206 , PRO C:91 , ASP C:92 , HOH C:301binding site for residue GOL A 203
04AC4SOFTWAREGLY A:65 , LYS A:66 , GLN A:71 , HOH A:414binding site for residue GOL A 204
05AC5SOFTWAREGLY A:68 , GLY A:69 , ALA A:70 , GLN A:71 , HOH A:376 , HOH A:426binding site for residue SO4 A 205
06AC6SOFTWAREASP A:16 , GLY A:17 , PHE A:18 , LEU A:19 , SER A:20 , HOH A:420 , HOH A:424 , LYS B:77binding site for residue SO4 A 206
07AC7SOFTWAREASN A:97 , PRO B:1 , MET B:2 , HIS B:62 , SER B:63 , ILE B:64 , VAL B:106 , IPA B:206binding site for residue 31E B 201
08AC8SOFTWAREGLY B:65 , LYS B:66 , GLN B:71 , HOH B:309 , HOH B:369 , HOH B:418 , HOH B:428binding site for residue GOL B 202
09AC9SOFTWAREGLY B:68 , GLY B:69 , ALA B:70 , GLN B:71 , HOH B:399 , HOH B:418binding site for residue SO4 B 203
10AD1SOFTWARESER A:53 , PRO B:15 , ASP B:16 , HOH B:318binding site for residue IPA B 204
11AD2SOFTWAREHOH A:303 , ALA B:70 , ARG B:73 , HOH B:353binding site for residue IPA B 205
12AD3SOFTWAREGOL A:202 , GOL A:203 , TYR B:36 , 31E B:201binding site for residue IPA B 206
13AD4SOFTWAREASN B:97 , PRO C:1 , MET C:2 , HIS C:62 , SER C:63 , ILE C:64 , VAL C:106binding site for residue 31E C 201
14AD5SOFTWAREGLY C:68 , GLY C:69 , ALA C:70 , GLN C:71 , HOH C:380binding site for residue IPA C 202

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4PKK)

(-) 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    
   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:113
                                                                                                                                                 
               SCOP domains ----------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeee..hhhhh..hhhhhhhhhhhhhhh.hhhh.eeeee...eeee.......eeeeeee....hhhhhhhhhhhhhhhhhhhhh.hhh.eeeeeee.hhh.eee..ee. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------- Transcript
                 4pkk A   1 PMFIVNTNVPRASVPDGFLSELTQQLAQATGKPPQYIAVHVVPDQLMAFGGSSEPCALCSLHSIGKIGGAQNRSYSKLLCGLLAERLRISPDRVYINYYDMNAANVGWNNSTF 113
                                    10        20        30        40        50        60        70        80        90       100       110   


Chain B from PDB  Type:PROTEIN  Length:114
                                                                                                                                                  
               SCOP domains ------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .eeeeee..hhhhh..hhhhhhhhhhhhhhh.hhhh.eeeee...eeee.......eeeeeee....hhhhhhhhhhhhhhhhhhhhh.hhh.eeeeeee.hhh.eee..ee.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------ Transcript
                 4pkk B   1 PMFIVNTNVPRASVPDGFLSELTQQLAQATGKPPQYIAVHVVPDQLMAFGGSSEPCALCSLHSIGKIGGAQNRSYSKLLCGLLAERLRISPDRVYINYYDMNAANVGWNNSTFA 114
                                    10        20        30        40        50        60        70        80        90       100       110    


Chain C from PDB  Type:PROTEIN  Length:114
                                                                                                                                                  
               SCOP domains ------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .eeeeee..hhhhh..hhhhhhhhhhhhhhh.hhhh.eeeee...eeee.......eeeeeee....hhhhhhhhhhhhhhhhhhhhh.hhh.eeeeeee.hhh.eee..ee.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------ Transcript
                 4pkk C   1 PMFIVNTNVPRASVPDGFLSELTQQLAQATGKPPQYIAVHVVPDQLMAFGGSSEPCALCSLHSIGKIGGAQNRSYSKLLCGLLAERLRISPDRVYINYYDMNAANVGWNNSTFA 114
                                    10        20        30        40        50        60        70        80        90       100       110
   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 4PKK)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (54, 54)

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
        MIF_HUMAN | P14174: 1ca7 1cgq 1gcz 1gd0 1gif 1ljt 1mif 1p1g 2ooh 2oow 2ooz 3b9s 3ce4 3djh 3dji 3hof 3ijg 3ijj 3jsf 3jsg 3jtu 3l5p 3l5r 3l5s 3l5t 3l5u 3l5v 3smb 3smc 3u18 3wnr 3wns 3wnt 4etg 4eui 4evg 4f2k 4grn 4gro 4grp 4grq 4grr 4gru 4gum 4k9g 4osf 4oyq 4p01 4p0h 4pkz 4plu 4trf 4tru 4wr8 4wrb 4xx7 4xx8 4z15 4z1t 4z1u 5b4o 5bs9 5bsc 5bsi 5bsj 5cg4 5eiz 5hvs 5hvt 5hvv 5j7p 5j7q

(-) Related Entries Specified in the PDB File

4pkj 4pkp 4pkz