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(-) Description

Title :  CRYSTAL STRUCTURE OF PAAM MUTANT OF HUMAN MIF
 
Authors :  C. Fan, E. Lolis, D. Rajesekaran
Date :  26 Aug 12  (Deposition) - 25 Sep 13  (Release) - 25 Sep 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.25
Chains :  Asym./Biol. Unit :  A,B,C
Keywords :  Alpha/Beta Mixture, Cytokine And Enzyme, Cytokine, Isomerase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  C. Fan, E. Lolis, D. Rajesekaran
Crystallographic And Biological Chacerterization Of N- And C-Terminus Of Mif
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 Plasmid: PET11B(+)
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Gene: GLIF, HUMAN, MIF, MMIF
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Strain: HUMAN
    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  (3, 17)

Asymmetric/Biological Unit (3, 17)
No.NameCountTypeFull Name
1CL12Ligand/IonCHLORIDE ION
2NA1Ligand/IonSODIUM ION
3SO44Ligand/IonSULFATE ION

(-) Sites  (17, 17)

Asymmetric Unit (17, 17)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREASN A:10 , SER A:55 , HOH A:374 , HOH A:378 , HOH A:411BINDING SITE FOR RESIDUE CL A 201
02AC2SOFTWAREPRO A:93 , HOH A:415 , ASN B:112 , HOH B:393BINDING SITE FOR RESIDUE CL A 202
03AC3SOFTWAREASN A:104 , ASN A:107 , HOH A:470 , HOH C:304BINDING SITE FOR RESIDUE CL A 203
04AC4SOFTWAREASN A:111 , HOH A:358 , PRO B:1 , HOH B:457BINDING SITE FOR RESIDUE CL A 204
05AC5SOFTWAREGLN A:37 , HOH B:426 , ARG C:95 , HOH C:325 , HOH C:361BINDING SITE FOR RESIDUE CL A 205
06AC6SOFTWAREGLY A:70 , GLY A:71 , ALA A:72 , GLN A:73 , HOH A:419 , HOH A:429BINDING SITE FOR RESIDUE SO4 A 206
07AC7SOFTWAREGLN A:47 , HOH A:472 , GLN B:47 , HOH B:320 , GLN C:47 , HOH C:339BINDING SITE FOR RESIDUE SO4 A 207
08AC8SOFTWAREARG A:95 , GLN B:37 , HOH B:427BINDING SITE FOR RESIDUE CL A 208
09AC9SOFTWARELYS A:34 , LYS A:68 , HOH A:438BINDING SITE FOR RESIDUE CL A 209
10BC1SOFTWAREHOH A:307 , ASN B:104 , ASN B:107BINDING SITE FOR RESIDUE CL B 201
11BC2SOFTWAREARG B:88BINDING SITE FOR RESIDUE CL B 202
12BC3SOFTWAREPRO A:17 , ASP A:18 , HOH A:401 , ARG B:75 , HOH B:310 , HOH B:379 , HOH B:388 , HOH B:417 , HOH B:425BINDING SITE FOR RESIDUE SO4 B 203
13BC4SOFTWAREGLY B:70 , GLY B:71 , ALA B:72 , GLN B:73 , HOH B:438BINDING SITE FOR RESIDUE SO4 B 204
14BC5SOFTWAREGLY C:70 , GLY C:71 , ALA C:72 , GLN C:73BINDING SITE FOR RESIDUE CL C 201
15BC6SOFTWAREPRO C:35 , PRO C:36 , GLN C:37BINDING SITE FOR RESIDUE CL C 202
16BC7SOFTWARETHR A:25 , ILE A:39 , ALA C:50 , PHE C:51 , GLY C:52 , GLY C:53BINDING SITE FOR RESIDUE NA C 203
17BC8SOFTWAREHOH B:312 , ASN C:104 , ASN C:107BINDING SITE FOR RESIDUE CL C 204

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4GRN)

(-) 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:116
                                                                                                                                                    
               SCOP domains -------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeeee..hhhhh..hhhhhhhhhhhhhhh.hhh.eeeeee...eeee.......eeeeeee....hhhhhhhhhhhhhhhhhhhhh.hhh.eeeeeee.hhh.eee..ee.. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------- Transcript
                 4grn A   1 PAAMFIVNTNVPRASVPDGFLSELTQQLAQATGKPPQYIAVHVVPDQLMAFGGSSEPCALCSLHSIGKIGGAQNRSYSKLLCGLLAERLRISPDRVYINYYDMNAANVGWNNSTFA 116
                                    10        20        30        40        50        60        70        80        90       100       110      


Chain B from PDB  Type:PROTEIN  Length:116
                                                                                                                                                    
               SCOP domains -------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeeee..hhhhh..hhhhhhhhhhhhhhh.hhh.eeeeee...eeee.......eeeeeee....hhhhhhhhhhhhhhhhhhhhh.hhh.eeeeeee.hhh.eee..ee.. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------- Transcript
                 4grn B   1 PAAMFIVNTNVPRASVPDGFLSELTQQLAQATGKPPQYIAVHVVPDQLMAFGGSSEPCALCSLHSIGKIGGAQNRSYSKLLCGLLAERLRISPDRVYINYYDMNAANVGWNNSTFA 116
                                    10        20        30        40        50        60        70        80        90       100       110      


Chain C from PDB  Type:PROTEIN  Length:116
                                                                                                                                                    
               SCOP domains -------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeeee..hhhhh..hhhhhhhhhhhhhhh.hhh.eeeeee...eeee.......eeeeeee....hhhhhhhhhhhhhhhhhhhhh.hhh.eeeeeee.hhh.eee..ee.. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------- Transcript
                 4grn C   1 PAAMFIVNTNVPRASVPDGFLSELTQQLAQATGKPPQYIAVHVVPDQLMAFGGSSEPCALCSLHSIGKIGGAQNRSYSKLLCGLLAERLRISPDRVYINYYDMNAANVGWNNSTFA 116
                                    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 4GRN)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (54, 54)

Asymmetric/Biological Unit(hide GO term definitions)

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  Cis Peptide Bonds
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  MIF_HUMAN | P14174
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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 4gro 4grp 4grq 4grr 4gru 4gum 4k9g 4osf 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

4gro 4grp 4grq 4grr 4gru