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(-) Description

Title :  4-(2-ISOTHIOCYANATOETHYL)PHENOL INHIBITOR COMPLEXED WITH MACROPHAGE MIGRATION INHIBITORY FACTOR
 
Authors :  E. S. Spencer, E. J. Dale, A. L. Gommans, C. T. Vo, M. T. Rutledge, Y. Nakat A. B. Gamble, R. A. J. Smith, S. M. Wilbanks, M. B. Hampton, J. D. A. Tynda
Date :  12 Feb 14  (Deposition) - 12 Mar 14  (Release) - 01 Apr 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.62
Chains :  Asym./Biol. Unit :  A,B,C
Keywords :  Cytokine, Tautomerase, Isomerase, Benzyl Isothiocyante, 4-(2- Isothiocyanatoethyl)Phenol, Isomerase-Isomerase Inhibitor Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  E. S. Spencer, E. J. Dale, A. L. Gommans, M. T. Rutledge, C. T. Vo, Y. Nakatani, A. B. Gamble, R. A. Smith, S. M. Wilbanks, M. B. Hampton, J. D. Tyndall
Multiple Binding Modes Of Isothiocyanates That Inhibit Macrophage Migration Inhibitory Factor
Eur. J. Med. Chem. V. 93 501 2015
PubMed-ID: 25743213  |  Reference-DOI: 10.1016/J.EJMECH.2015.02.012

(-) 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 Strain: BL21(DE3)
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: GLIF, MIF, 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, 18)

Asymmetric/Biological Unit (4, 18)
No.NameCountTypeFull Name
14MT3Ligand/IonN-[2-(4-HYDROXYPHENYL)ETHYL]THIOFORMAMIDE
2CL2Ligand/IonCHLORIDE ION
3IPA1Ligand/IonISOPROPYL ALCOHOL
4SO412Ligand/IonSULFATE ION

(-) Sites  (18, 18)

Asymmetric Unit (18, 18)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREPRO A:2 , MET A:3 , TYR A:37 , HIS A:63 , ILE A:65 , MET A:102 , VAL A:107 , SO4 A:204 , TYR C:96 , ASN C:98BINDING SITE FOR RESIDUE 4MT A 201
02AC2SOFTWAREPRO A:16 , ASP A:17 , SO4 A:208 , HOH A:312 , HOH A:376 , SER C:54BINDING SITE FOR RESIDUE SO4 A 202
03AC3SOFTWAREHIS A:63 , TYR A:100 , HIS B:63 , TYR B:100 , HIS C:63 , TYR C:100BINDING SITE FOR RESIDUE SO4 A 203
04AC4SOFTWARETYR A:37 , 4MT A:201 , HOH A:366BINDING SITE FOR RESIDUE SO4 A 204
05AC5SOFTWAREARG A:74 , HOH A:308 , PRO C:16 , ASP C:17BINDING SITE FOR RESIDUE SO4 A 205
06AC6SOFTWAREGLY A:69 , GLY A:70 , ALA A:71 , GLN A:72 , HOH A:325BINDING SITE FOR RESIDUE SO4 A 206
07AC7SOFTWAREALA A:71 , ARG A:74 , HOH A:348BINDING SITE FOR RESIDUE SO4 A 207
08AC8SOFTWAREPRO A:16 , SO4 A:202 , HOH A:319 , SER C:53 , SER C:54 , GLU C:55 , HOH C:315BINDING SITE FOR RESIDUE SO4 A 208
09AC9SOFTWARELYS A:67BINDING SITE FOR RESIDUE CL A 209
10BC1SOFTWARETYR A:96 , ASN A:98 , PRO B:2 , TYR B:37 , HIS B:63 , MET B:102 , VAL B:107BINDING SITE FOR RESIDUE 4MT B 201
11BC2SOFTWAREGLY B:69 , GLY B:70 , ALA B:71 , GLN B:72 , HOH B:338BINDING SITE FOR RESIDUE SO4 B 202
12BC3SOFTWARELYS B:67BINDING SITE FOR RESIDUE CL B 203
13BC4SOFTWARETYR B:96 , ASN B:98 , PRO C:2 , MET C:3 , LYS C:33 , TYR C:37 , HIS C:63 , ILE C:65 , MET C:102 , VAL C:107BINDING SITE FOR RESIDUE 4MT C 201
14BC5SOFTWARELYS A:78 , ASP C:17 , GLY C:18 , PHE C:19 , LEU C:20 , SER C:21 , HOH C:365BINDING SITE FOR RESIDUE SO4 C 202
15BC6SOFTWAREARG B:74 , ALA C:71 , ARG C:74 , HOH C:338BINDING SITE FOR RESIDUE SO4 C 203
16BC7SOFTWAREGLY C:66 , LYS C:67 , HOH C:359BINDING SITE FOR RESIDUE SO4 C 204
17BC8SOFTWAREGLY C:69 , GLY C:70 , ALA C:71 , GLN C:72BINDING SITE FOR RESIDUE SO4 C 205
18BC9SOFTWAREASN A:110 , HOH A:393 , LYS C:33 , ASP C:93BINDING SITE FOR RESIDUE IPA C 206

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4OSF)

(-) 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:114
                                                                                                                                                  
               SCOP domains d4osfa_ A: Microphage migration inhibition factor (MIF)                                                            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
                 4osf A   2 PMFIVNTNVPRASVPDGFLSELTQQLAQATGKPPQYIAVHVVPDQLMAFGGSSEPCALCSLHSIGKIGGAQNRSYSKLLCGLLAERLRISPDRVYINYYDMNAANVGWNNSTFA 115
                                    11        21        31        41        51        61        71        81        91       101       111    


Chain B from PDB  Type:PROTEIN  Length:114
                                                                                                                                                  
               SCOP domains d4osfb_ B: Microphage migration inhibition factor (MIF)                                                            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
                 4osf B   2 PMFIVNTNVPRASVPDGFLSELTQQLAQATGKPPQYIAVHVVPDQLMAFGGSSEPCALCSLHSIGKIGGAQNRSYSKLLCGLLAERLRISPDRVYINYYDMNAANVGWNNSTFA 115
                                    11        21        31        41        51        61        71        81        91       101       111    


Chain C from PDB  Type:PROTEIN  Length:114
                                                                                                                                                  
               SCOP domains d4osfc_ C: Microphage migration inhibition factor (MIF)                                                            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
                 4osf C   2 PMFIVNTNVPRASVPDGFLSELTQQLAQATGKPPQYIAVHVVPDQLMAFGGSSEPCALCSLHSIGKIGGAQNRSYSKLLCGLLAERLRISPDRVYINYYDMNAANVGWNNSTFA 115
                                    11        21        31        41        51        61        71        81        91       101       111
   Legend:   → Mismatch (orange background)
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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  (1, 3)

Asymmetric/Biological Unit
(-)
Class: Alpha and beta proteins (a+b) (23004)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (54, 54)

Asymmetric/Biological Unit(hide GO term definitions)

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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 4oyq 4p01 4p0h 4pkk 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

3wnr MULTIPLE BINDING MODES OF BENZYL ISOTHIOCYANATE INHIBITOR COMPLEXED WITH MACROPHAGE MIGRATION INHIBITORY FACTOR
3wns ALLYL ISOTHIOCYANATE INHIBITOR COMPLEXED WITH MACROPHAGE MIGRATION INHIBITORY FACTOR
3wnt MULTIPLE BINDING MODES OF BENZYL ISOTHIOCYANATE INHIBITOR COMPLEXED WITH MACROPHAGE MIGRATION INHIBITORY FACTOR