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(-) Description

Title :  CRYSTAL STRUCTURE ANALYSIS OF MACROPHAGE MIGRATION INHIBITORY FACTOR IN COMPLEX WITH N-[(4-CYANOPHENYL)METHYL]METHANETHIOAMIDE
 
Authors :  G. Pantouris, E. Lolis
Date :  19 Feb 14  (Deposition) - 19 Mar 14  (Release) - 30 Sep 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.07
Chains :  Asym./Biol. Unit :  A,B,C
Keywords :  Trimer, Complex, Covalent Modification, Active Site, Isomerase- Isomerase Inhibitor Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  G. Pantouris, M. A. Syed, C. Fan, D. Rajasekaran, T. Y. Cho, E. M. Rosenberg, R. Bucala, V. Bhandari, E. J. Lolis
An Analysis Of Mif Structural Features That Control Functional Activation Of Cd74.
Chem. Biol. V. 22 1197 2015
PubMed-ID: 26364929  |  Reference-DOI: 10.1016/J.CHEMBIOL.2015.08.006

(-) 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 Cell Line: BL21(DE3)
    Expression System Taxid: 469008
    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, 8)

Asymmetric/Biological Unit (4, 8)
No.NameCountTypeFull Name
11ZW2Ligand/IonN-[(4-CYANOPHENYL)METHYL]METHANETHIOAMIDE
2CL3Ligand/IonCHLORIDE ION
3GOL1Ligand/IonGLYCEROL
4IPA2Ligand/IonISOPROPYL ALCOHOL

(-) Sites  (7, 7)

Asymmetric Unit (7, 7)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREPRO A:1 , TYR A:36 , ILE A:64 , PHE A:113 , GLU C:21 , GLN C:24 , TYR C:95binding site for residue 1ZW A 201
2AC2SOFTWAREGLY A:68 , GLY A:69 , ALA A:70 , GLN A:71binding site for residue IPA A 202
3AC3SOFTWARELEU A:19 , THR B:112 , ALA B:114 , HOH B:303 , HOH B:304 , HOH B:306 , GLY C:51 , SER C:53 , HOH C:308binding site for residue GOL B 202
4AC4SOFTWARELYS B:32 , SER B:63 , ILE B:64 , 1ZW B:201binding site for residue CL B 203
5AC5SOFTWAREALA B:48 , PHE B:49 , GLY B:50 , GLY B:51 , THR C:23 , ILE C:37binding site for residue CL B 204
6AC6SOFTWAREGLY C:68 , GLY C:69 , ALA C:70 , GLN C:71binding site for residue IPA C 201
7AC7SOFTWARETHR A:23 , ILE A:37 , ALA C:48 , PHE C:49 , GLY C:50 , GLY C:51binding site for residue CL C 202

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4P01)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4P01)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4P01)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4P01)

(-) Exons   (0, 0)

(no "Exon" information available for 4P01)

(-) 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 d4p01a_ 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.......eeeeeeee...hhhhhhhhhhhhhhhhhhhhh.hhh.eeeeeeeehhh.eee..ee.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------ Transcript
                 4p01 A   1 PMFIVNTNVPRASVPDGFLSELTQQLAQATGKPPQYIAVHVVPDQLMAFGGSSEPCALCSLHSIGKIGGAQNRSYSKLLCGLLAERLRISPDRVYINYYDMNAANVGWNNSTFA 114
                                    10        20        30        40        50        60        70        80        90       100       110    


Chain B from PDB  Type:PROTEIN  Length:114
                                                                                                                                                  
               SCOP domains d4p01b_ 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.......eeeeeeee...hhhhhhhhhhhhhhhhhhhhh.hhh.eeeeeeeehhh.eee..ee.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------ Transcript
                 4p01 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 d4p01c_ 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
                 4p01 C   1 PMFIVNTNVPRASVPDGFLSELTQQLAQATGKPPQYIAVHVVPDQLMAFGGSSEPCALCSLHSIGKIGGAQNRSYSKLLCGLLAERLRISPDRVYINYYDMNAANVGWNNSTFA 114
                                    10        20        30        40        50        60        70        80        90       100       110
   Legend:   → Mismatch (orange background)
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    → 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  (1, 3)

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

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4P01)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4P01)

(-) Gene Ontology  (54, 54)

Asymmetric/Biological Unit(hide GO term definitions)

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  Cis Peptide Bonds
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  4p01
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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 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

4p0h