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(-) Description

Title :  MACROPHAGE MIGRATION INHIBITORY FACTOR FROM ANCYLOSTOMA CEYLANICUM
 
Authors :  Y. Cho, E. Lolis
Date :  05 Feb 07  (Deposition) - 12 Jun 07  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.60
Chains :  Asym. Unit :  A,B,C,D
Biol. Unit 1:  A  (3x)
Biol. Unit 2:  B,C,D  (1x)
Biol. Unit 3:  A,B,C,D  (3x)
Biol. Unit 4:  A,B,C,D  (6x)
Keywords :  Macrophage Migration Inhibitory Factor, Cytokine, Nematode, Hookworm (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  Y. Cho, B. F. Jones, J. J. Vermeire, L. Leng, L. Difedele, L. M. Harrison H. Xiong, Y. K. Kwong, Y. Chen, R. Bucala, E. Lolis, M. Cappello
Structural And Functional Characterization Of A Secreted Hookworm Macrophage Migration Inhibitory Factor (Mif) That Interacts With The Human Mif Receptor Cd74.
J. Biol. Chem. V. 282 23447 2007
PubMed-ID: 17567581  |  Reference-DOI: 10.1074/JBC.M702950200

(-) Compounds

Molecule 1 - ACEMIF
    Chains: A, B, C, D
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET11B
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Organism Scientific: ANCYLOSTOMA CEYLANICUM
    Organism Taxid: 53326

 Structural Features

(-) Chains, Units

  1234
Asymmetric Unit : ABCD
Biological Unit 1 (3x): A   
Biological Unit 2 (1x):  BCD
Biological Unit 3 (3x): ABCD
Biological Unit 4 (6x): ABCD

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 4)

Asymmetric Unit (1, 4)
No.NameCountTypeFull Name
1SO44Ligand/IonSULFATE ION
Biological Unit 1 (1, 6)
No.NameCountTypeFull Name
1SO46Ligand/IonSULFATE ION
Biological Unit 2 (1, 2)
No.NameCountTypeFull Name
1SO42Ligand/IonSULFATE ION
Biological Unit 3 (1, 12)
No.NameCountTypeFull Name
1SO412Ligand/IonSULFATE ION
Biological Unit 4 (1, 24)
No.NameCountTypeFull Name
1SO424Ligand/IonSULFATE ION

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREASN A:54 , LYS A:93 , HOH A:416 , ARG C:53 , HOH C:356 , HOH C:506BINDING SITE FOR RESIDUE SO4 A 202
2AC2SOFTWAREPRO A:33 , ARG A:34 , HOH A:395 , HOH A:489BINDING SITE FOR RESIDUE SO4 A 203
3AC3SOFTWARESER B:68 , HOH B:375 , HOH B:436BINDING SITE FOR RESIDUE SO4 B 204
4AC4SOFTWAREHOH A:367 , HOH A:373 , HOH A:562 , HOH C:363 , HOH C:486 , HOH D:372BINDING SITE FOR RESIDUE SO4 D 201

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2OS5)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 2OS5)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2OS5)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2OS5)

(-) Exons   (0, 0)

(no "Exon" information available for 2OS5)

(-) Sequences/Alignments

Asymmetric 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:118
 aligned with A4GRE3_9BILA | A4GRE3 from UniProtKB/TrEMBL  Length:119

    Alignment length:118
                                    11        21        31        41        51        61        71        81        91       101       111        
         A4GRE3_9BILA     2 PMVRVATNLPDKDVPANFEERLTDLLAESMNKPRNRIAIEVLAGQRITHGASRNPVAVIKVESIGALSADDNIRHTQKITQFCQDTLKLPKDKVIITYFDLQPIHVGFNGTTVAAATM 119
               SCOP domains d2os5a_ A: automated matches                                                                                           SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeee..hhhhh..hhhhhhhhhhhhhhh.hhhhheeeee..............eeeeeee....hhhhhhhhhhhhhhhhhhhhh.hhh.eeeeeee.hhhh.ee..eehhhhh. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------- Transcript
                 2os5 A   1 PMVRVATNLPDKDVPANFEERLTDLLAESMNKPRNRIAIEVLAGQRITHGASRNPVAVIKVESIGALSADDNIRHTQKITQFCQDTLKLPKDKVIITYFDLQPIHVGFNGTTVAAATM 118
                                    10        20        30        40        50        60        70        80        90       100       110        


Chain B from PDB  Type:PROTEIN  Length:118
 aligned with A4GRE3_9BILA | A4GRE3 from UniProtKB/TrEMBL  Length:119

    Alignment length:118
                                    11        21        31        41        51        61        71        81        91       101       111        
         A4GRE3_9BILA     2 PMVRVATNLPDKDVPANFEERLTDLLAESMNKPRNRIAIEVLAGQRITHGASRNPVAVIKVESIGALSADDNIRHTQKITQFCQDTLKLPKDKVIITYFDLQPIHVGFNGTTVAAATM 119
               SCOP domains d2os5b_ B: automated matches                                                                                           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.hhhh. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------- Transcript
                 2os5 B   1 PMVRVATNLPDKDVPANFEERLTDLLAESMNKPRNRIAIEVLAGQRITHGASRNPVAVIKVESIGALSADDNIRHTQKITQFCQDTLKLPKDKVIITYFDLQPIHVGFNGTTVAAATM 118
                                    10        20        30        40        50        60        70        80        90       100       110        


Chain C from PDB  Type:PROTEIN  Length:118
 aligned with A4GRE3_9BILA | A4GRE3 from UniProtKB/TrEMBL  Length:119

    Alignment length:118
                                    11        21        31        41        51        61        71        81        91       101       111        
         A4GRE3_9BILA     2 PMVRVATNLPDKDVPANFEERLTDLLAESMNKPRNRIAIEVLAGQRITHGASRNPVAVIKVESIGALSADDNIRHTQKITQFCQDTLKLPKDKVIITYFDLQPIHVGFNGTTVAAATM 119
               SCOP domains d2os5c_ C: automated matches                                                                                           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.hhhh. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------- Transcript
                 2os5 C   1 PMVRVATNLPDKDVPANFEERLTDLLAESMNKPRNRIAIEVLAGQRITHGASRNPVAVIKVESIGALSADDNIRHTQKITQFCQDTLKLPKDKVIITYFDLQPIHVGFNGTTVAAATM 118
                                    10        20        30        40        50        60        70        80        90       100       110        


Chain D from PDB  Type:PROTEIN  Length:118
 aligned with A4GRE3_9BILA | A4GRE3 from UniProtKB/TrEMBL  Length:119

    Alignment length:118
                                    11        21        31        41        51        61        71        81        91       101       111        
         A4GRE3_9BILA     2 PMVRVATNLPDKDVPANFEERLTDLLAESMNKPRNRIAIEVLAGQRITHGASRNPVAVIKVESIGALSADDNIRHTQKITQFCQDTLKLPKDKVIITYFDLQPIHVGFNGTTVAAATM 119
               SCOP domains d2os5d_ D: automated matches                                                                                           SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------- CATH domains
           Pfam domains (1) MIF-2os5D01 D:1-114                                                                                               ---- Pfam domains (1)
           Pfam domains (2) MIF-2os5D02 D:1-114                                                                                               ---- Pfam domains (2)
           Pfam domains (3) MIF-2os5D03 D:1-114                                                                                               ---- Pfam domains (3)
           Pfam domains (4) MIF-2os5D04 D:1-114                                                                                               ---- Pfam domains (4)
         Sec.struct. author .eeeeee..hhhhh..hhhhhhhhhhhhhhh.hhhh.eeeee...eeee.......eeeeeee....hhhhhhhhhhhhhhhhhhhhh.hhh.eeeeeee.hhh.eee..eehhhhh. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------- Transcript
                 2os5 D   1 PMVRVATNLPDKDVPANFEERLTDLLAESMNKPRNRIAIEVLAGQRITHGASRNPVAVIKVESIGALSADDNIRHTQKITQFCQDTLKLPKDKVIITYFDLQPIHVGFNGTTVAAATM 118
                                    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  (1, 4)

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

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 2OS5)

(-) Pfam Domains  (1, 4)

Asymmetric Unit
(-)
Clan: MIF (36)
(-)
Family: MIF (22)
(-)
Ancylostoma ceylanicum (1)
1aMIF-2os5D01D:1-114
1bMIF-2os5D02D:1-114
1cMIF-2os5D03D:1-114
1dMIF-2os5D04D:1-114

(-) Gene Ontology  (2, 2)

Asymmetric Unit(hide GO term definitions)
Chain A,B,C,D   (A4GRE3_9BILA | A4GRE3)
molecular function
    GO:0005126    cytokine receptor binding    Interacting selectively and non-covalently with a cytokine receptor.
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.

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        A4GRE3_9BILA | A4GRE3: 3rf4 3rf5

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