PDB Short entry for 3DJI HEADER ISOMERASE 23-JUN-08 3DJI TITLE CRYSTAL STRUCTURE OF MACROPHAGE MIGRATION INHIBITORY FACTOR BOUND TO TITLE 2 AN ACETAMINOPHEN DIMER DERIVED FROM NAPQI COMPND MOL_ID: 1; COMPND 2 MOLECULE: MACROPHAGE MIGRATION INHIBITORY FACTOR; COMPND 3 CHAIN: A, B, C, D, E, F; COMPND 4 SYNONYM: MIF, PHENYLPYRUVATE TAUTOMERASE, GLYCOSYLATION-INHIBITING COMPND 5 FACTOR, GIF; COMPND 6 EC: 5.3.2.1; COMPND 7 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_TAXID: 9606; SOURCE 4 GENE: MIF, GLIF, MMIF; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET11B KEYWDS HOMOTRIMER, ACETAMINOPHEN DIMER, CYTOKINE, INFLAMMATORY RESPONSE, KEYWDS 2 ISOMERASE, PHOSPHOPROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR G.V.CRICHLOW,E.LOLIS REVDAT 7 30-AUG-23 3DJI 1 REMARK REVDAT 6 25-OCT-17 3DJI 1 REMARK REVDAT 5 13-AUG-14 3DJI 1 HETATM HETSYN REMARK VERSN REVDAT 4 07-APR-09 3DJI 1 TITLE REVDAT 3 20-JAN-09 3DJI 1 JRNL REVDAT 2 30-DEC-08 3DJI 1 ATOM REMARK LINK REVDAT 1 23-DEC-08 3DJI 0 JRNL AUTH G.V.CRICHLOW,J.B.LUBETSKY,L.LENG,R.BUCALA,E.J.LOLIS JRNL TITL STRUCTURAL AND KINETIC ANALYSES OF MACROPHAGE MIGRATION JRNL TITL 2 INHIBITORY FACTOR ACTIVE SITE INTERACTIONS. JRNL REF BIOCHEMISTRY V. 48 132 2009 JRNL REFN ISSN 0006-2960 JRNL PMID 19090677 JRNL DOI 10.1021/BI8014423 REMARK 2 REMARK 2 RESOLUTION. 1.95 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS REMARK 3 AUTHORS : BRUNGER,ADAMS,CLORE,DELANO,GROS,GROSSE- REMARK 3 : KUNSTLEVE,JIANG,KUSZEWSKI,NILGES,PANNU, REMARK 3 : READ,RICE,SIMONSON,WARREN REMARK 3 REMARK 3 REFINEMENT TARGET : ENGH & HUBER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.95 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 77.68 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : NULL REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 99.7 REMARK 3 NUMBER OF REFLECTIONS : 47722 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING SET) : 0.209 REMARK 3 FREE R VALUE : 0.247 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 2417 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : NULL REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : NULL REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 1.95 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.02 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.90 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.3020 REMARK 3 BIN FREE R VALUE : 0.3340 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 BIN FREE R VALUE TEST SET COUNT : 243 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.021 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 5185 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 37 REMARK 3 SOLVENT ATOMS : 349 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 32.06 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 3.66400 REMARK 3 B22 (A**2) : 0.74200 REMARK 3 B33 (A**2) : -4.40600 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -5.91700 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.24 REMARK 3 ESD FROM SIGMAA (A) : 0.21 REMARK 3 LOW RESOLUTION CUTOFF (A) : 5.00 REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : 0.29 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.24 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.010 REMARK 3 BOND ANGLES (DEGREES) : 1.457 REMARK 3 DIHEDRAL ANGLES (DEGREES) : NULL REMARK 3 IMPROPER ANGLES (DEGREES) : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : ISOTROPIC REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : 1.674 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 2.210 ; 2.000 REMARK 3 SIDE-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : NULL REMARK 3 KSOL : NULL REMARK 3 BSOL : 51.81 REMARK 3 REMARK 3 NCS MODEL : NULL REMARK 3 REMARK 3 NCS RESTRAINTS. RMS SIGMA/WEIGHT REMARK 3 GROUP 1 POSITIONAL (A) : NULL ; NULL REMARK 3 GROUP 1 B-FACTOR (A**2) : NULL ; NULL REMARK 3 REMARK 3 PARAMETER FILE 1 : CNS_TOPPAR:PROTEIN_REP.PARAM REMARK 3 PARAMETER FILE 2 : CNS_TOPPAR:DNA-RNA_REP.PARAM REMARK 3 PARAMETER FILE 3 : CNS_TOPPAR:WATER_REP.PARAM REMARK 3 PARAMETER FILE 4 : CNS_TOPPAR:ION.PARAM REMARK 3 PARAMETER FILE 5 : DIMER.PAR REMARK 3 PARAMETER FILE 6 : NULL REMARK 3 TOPOLOGY FILE 1 : CNS_TOPPAR:PROTEIN.TOP REMARK 3 TOPOLOGY FILE 2 : CNS_TOPPAR:DNA-RNA.TOP REMARK 3 TOPOLOGY FILE 3 : CNS_TOPPAR:WATER.TOP REMARK 3 TOPOLOGY FILE 4 : CNS_TOPPAR:ION.TOP REMARK 3 TOPOLOGY FILE 5 : DIMER.TOP REMARK 3 TOPOLOGY FILE 6 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 3DJI COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 25-JUN-08. REMARK 100 THE DEPOSITION ID IS D_1000048115. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 02-MAY-08 REMARK 200 TEMPERATURE (KELVIN) : 94 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : RIGAKU REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : GRAPHITE REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : RIGAKU RAXIS IV REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO, HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK, HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 47844 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.950 REMARK 200 RESOLUTION RANGE LOW (A) : 90.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 200 DATA REDUNDANCY : 3.600 REMARK 200 R MERGE (I) : 0.07000 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 15.5000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.95 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.02 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 3.60 REMARK 200 R MERGE FOR SHELL (I) : 0.44300 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: PDB ENTRY 3DJH REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 44.91 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.23 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 2 M AMMONIUM SULFATE, 3% ISOPROPANOL, REMARK 280 0.1 M TRIS(HYDROXYMETHYL)AMINOMETHANE, MIXED WITH PROTEIN- REMARK 280 INHIBITOR COMPLEX IN A 1:1 RATIO, PH 7.5, VAPOR DIFFUSION, REMARK 280 HANGING DROP, TEMPERATURE 295K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y+1/2,-Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 30.44950 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 300 REMARK: THE BIOLOGICAL UNIT IS POSSIBLY A TRIMER. THERE ARE TWO REMARK 300 TRIMERS PER ASYMMETRIC UNIT. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: TRIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 6590 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 13090 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -35.7 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: TRIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 6750 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 13190 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -33.3 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: D, E, F REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 GLU A 54 CD OE1 OE2 REMARK 470 LYS A 66 CE NZ REMARK 470 GLN B 28 CG CD OE1 NE2 REMARK 470 GLN E 24 CD OE1 NE2 REMARK 470 LYS E 77 NZ REMARK 470 GLN F 24 CG CD OE1 NE2 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 TRP C 108 142.13 -176.92 REMARK 500 ASN C 110 17.64 59.69 REMARK 500 SER C 111 -149.00 -155.24 REMARK 500 TRP D 108 138.88 -171.99 REMARK 500 SER D 111 -154.09 -146.65 REMARK 500 THR D 112 -155.44 -131.37 REMARK 500 PRO F 55 132.76 -38.61 REMARK 500 LYS F 66 32.45 73.57 REMARK 500 TRP F 108 142.66 -171.53 REMARK 500 SER F 111 -156.89 -143.89 REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 601 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 602 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 603 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE 3E1 B 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL B 202 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL B 203 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL B 204 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL C 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL C 202 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL C 203 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL D 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL D 202 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL D 203 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL F 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL F 202 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL F 203 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1MIF RELATED DB: PDB REMARK 900 MACROPHAGE MIGRATION INHIBITORY FACTOR (MIF) AT 2.6 A RESOLUTION REMARK 900 RELATED ID: 1GD0 RELATED DB: PDB REMARK 900 MACROPHAGE MIGRATION INHIBITORY FACTOR (MIF) AT 1.5 A RESOLUTION REMARK 900 RELATED ID: 3CE4 RELATED DB: PDB REMARK 900 MACROPHAGE MIGRATION INHIBITORY FACTOR (MIF) BOUND TO REMARK 900 PHENYLMETHYLSULFONE, AT 1.55 A RESOLUTION REMARK 900 RELATED ID: 3DJH RELATED DB: PDB REMARK 900 MACROPHAGE MIGRATION INHIBITORY FACTOR (MIF) AT 1.25 A RESOLUTION DBREF 3DJI A 1 114 UNP P14174 MIF_HUMAN 2 115 DBREF 3DJI B 1 114 UNP P14174 MIF_HUMAN 2 115 DBREF 3DJI C 1 114 UNP P14174 MIF_HUMAN 2 115 DBREF 3DJI D 1 114 UNP P14174 MIF_HUMAN 2 115 DBREF 3DJI E 1 114 UNP P14174 MIF_HUMAN 2 115 DBREF 3DJI F 1 114 UNP P14174 MIF_HUMAN 2 115 SEQRES 1 A 114 PRO MET PHE ILE VAL ASN THR ASN VAL PRO ARG ALA SER SEQRES 2 A 114 VAL PRO ASP GLY PHE LEU SER GLU LEU THR GLN GLN LEU SEQRES 3 A 114 ALA GLN ALA THR GLY LYS PRO PRO GLN TYR ILE ALA VAL SEQRES 4 A 114 HIS VAL VAL PRO ASP GLN LEU MET ALA PHE GLY GLY SER SEQRES 5 A 114 SER GLU PRO CYS ALA LEU CYS SER LEU HIS SER ILE GLY SEQRES 6 A 114 LYS ILE GLY GLY ALA GLN ASN ARG SER TYR SER LYS LEU SEQRES 7 A 114 LEU CYS GLY LEU LEU ALA GLU ARG LEU ARG ILE SER PRO SEQRES 8 A 114 ASP ARG VAL TYR ILE ASN TYR TYR ASP MET ASN ALA ALA SEQRES 9 A 114 ASN VAL GLY TRP ASN ASN SER THR PHE ALA SEQRES 1 B 114 PRO MET PHE ILE VAL ASN THR ASN VAL PRO ARG ALA SER SEQRES 2 B 114 VAL PRO ASP GLY PHE LEU SER GLU LEU THR GLN GLN LEU SEQRES 3 B 114 ALA GLN ALA THR GLY LYS PRO PRO GLN TYR ILE ALA VAL SEQRES 4 B 114 HIS VAL VAL PRO ASP GLN LEU MET ALA PHE GLY GLY SER SEQRES 5 B 114 SER GLU PRO CYS ALA LEU CYS SER LEU HIS SER ILE GLY SEQRES 6 B 114 LYS ILE GLY GLY ALA GLN ASN ARG SER TYR SER LYS LEU SEQRES 7 B 114 LEU CYS GLY LEU LEU ALA GLU ARG LEU ARG ILE SER PRO SEQRES 8 B 114 ASP ARG VAL TYR ILE ASN TYR TYR ASP MET ASN ALA ALA SEQRES 9 B 114 ASN VAL GLY TRP ASN ASN SER THR PHE ALA SEQRES 1 C 114 PRO MET PHE ILE VAL ASN THR ASN VAL PRO ARG ALA SER SEQRES 2 C 114 VAL PRO ASP GLY PHE LEU SER GLU LEU THR GLN GLN LEU SEQRES 3 C 114 ALA GLN ALA THR GLY LYS PRO PRO GLN TYR ILE ALA VAL SEQRES 4 C 114 HIS VAL VAL PRO ASP GLN LEU MET ALA PHE GLY GLY SER SEQRES 5 C 114 SER GLU PRO CYS ALA LEU CYS SER LEU HIS SER ILE GLY SEQRES 6 C 114 LYS ILE GLY GLY ALA GLN ASN ARG SER TYR SER LYS LEU SEQRES 7 C 114 LEU CYS GLY LEU LEU ALA GLU ARG LEU ARG ILE SER PRO SEQRES 8 C 114 ASP ARG VAL TYR ILE ASN TYR TYR ASP MET ASN ALA ALA SEQRES 9 C 114 ASN VAL GLY TRP ASN ASN SER THR PHE ALA SEQRES 1 D 114 PRO MET PHE ILE VAL ASN THR ASN VAL PRO ARG ALA SER SEQRES 2 D 114 VAL PRO ASP GLY PHE LEU SER GLU LEU THR GLN GLN LEU SEQRES 3 D 114 ALA GLN ALA THR GLY LYS PRO PRO GLN TYR ILE ALA VAL SEQRES 4 D 114 HIS VAL VAL PRO ASP GLN LEU MET ALA PHE GLY GLY SER SEQRES 5 D 114 SER GLU PRO CYS ALA LEU CYS SER LEU HIS SER ILE GLY SEQRES 6 D 114 LYS ILE GLY GLY ALA GLN ASN ARG SER TYR SER LYS LEU SEQRES 7 D 114 LEU CYS GLY LEU LEU ALA GLU ARG LEU ARG ILE SER PRO SEQRES 8 D 114 ASP ARG VAL TYR ILE ASN TYR TYR ASP MET ASN ALA ALA SEQRES 9 D 114 ASN VAL GLY TRP ASN ASN SER THR PHE ALA SEQRES 1 E 114 PRO MET PHE ILE VAL ASN THR ASN VAL PRO ARG ALA SER SEQRES 2 E 114 VAL PRO ASP GLY PHE LEU SER GLU LEU THR GLN GLN LEU SEQRES 3 E 114 ALA GLN ALA THR GLY LYS PRO PRO GLN TYR ILE ALA VAL SEQRES 4 E 114 HIS VAL VAL PRO ASP GLN LEU MET ALA PHE GLY GLY SER SEQRES 5 E 114 SER GLU PRO CYS ALA LEU CYS SER LEU HIS SER ILE GLY SEQRES 6 E 114 LYS ILE GLY GLY ALA GLN ASN ARG SER TYR SER LYS LEU SEQRES 7 E 114 LEU CYS GLY LEU LEU ALA GLU ARG LEU ARG ILE SER PRO SEQRES 8 E 114 ASP ARG VAL TYR ILE ASN TYR TYR ASP MET ASN ALA ALA SEQRES 9 E 114 ASN VAL GLY TRP ASN ASN SER THR PHE ALA SEQRES 1 F 114 PRO MET PHE ILE VAL ASN THR ASN VAL PRO ARG ALA SER SEQRES 2 F 114 VAL PRO ASP GLY PHE LEU SER GLU LEU THR GLN GLN LEU SEQRES 3 F 114 ALA GLN ALA THR GLY LYS PRO PRO GLN TYR ILE ALA VAL SEQRES 4 F 114 HIS VAL VAL PRO ASP GLN LEU MET ALA PHE GLY GLY SER SEQRES 5 F 114 SER GLU PRO CYS ALA LEU CYS SER LEU HIS SER ILE GLY SEQRES 6 F 114 LYS ILE GLY GLY ALA GLN ASN ARG SER TYR SER LYS LEU SEQRES 7 F 114 LEU CYS GLY LEU LEU ALA GLU ARG LEU ARG ILE SER PRO SEQRES 8 F 114 ASP ARG VAL TYR ILE ASN TYR TYR ASP MET ASN ALA ALA SEQRES 9 F 114 ASN VAL GLY TRP ASN ASN SER THR PHE ALA HET CL A 601 1 HET CL A 602 1 HET CL A 603 1 HET 3E1 B 201 22 HET CL B 202 1 HET CL B 203 1 HET CL B 204 1 HET CL C 201 1 HET CL C 202 1 HET CL C 203 1 HET CL D 201 1 HET CL D 202 1 HET CL D 203 1 HET CL F 201 1 HET CL F 202 1 HET CL F 203 1 HETNAM CL CHLORIDE ION HETNAM 3E1 N,N'-(6,6'-DIHYDROXYBIPHENYL-3,3'-DIYL)DIACETAMIDE HETSYN 3E1 ACETAMINOPHEN DIMER FORMUL 7 CL 15(CL 1-) FORMUL 10 3E1 C16 H16 N2 O4 FORMUL 23 HOH *349(H2 O) HELIX 1 1 PRO A 10 VAL A 14 5 5 HELIX 2 2 GLY A 17 GLY A 31 1 15 HELIX 3 3 PRO A 33 TYR A 36 5 4 HELIX 4 4 GLY A 68 ARG A 88 1 21 HELIX 5 5 SER A 90 ASP A 92 5 3 HELIX 6 6 ASN A 102 ALA A 104 5 3 HELIX 7 7 PRO B 10 VAL B 14 5 5 HELIX 8 8 GLY B 17 GLY B 31 1 15 HELIX 9 9 PRO B 33 TYR B 36 5 4 HELIX 10 10 GLY B 68 ARG B 88 1 21 HELIX 11 11 SER B 90 ASP B 92 5 3 HELIX 12 12 ASN B 102 ALA B 104 5 3 HELIX 13 13 PRO C 10 VAL C 14 5 5 HELIX 14 14 GLY C 17 GLY C 31 1 15 HELIX 15 15 PRO C 33 TYR C 36 5 4 HELIX 16 16 GLY C 68 ARG C 88 1 21 HELIX 17 17 SER C 90 ASP C 92 5 3 HELIX 18 18 ASN C 102 ALA C 104 5 3 HELIX 19 19 PRO D 10 VAL D 14 5 5 HELIX 20 20 GLY D 17 GLY D 31 1 15 HELIX 21 21 PRO D 33 TYR D 36 5 4 HELIX 22 22 GLY D 68 ARG D 88 1 21 HELIX 23 23 SER D 90 ASP D 92 5 3 HELIX 24 24 ASN D 102 ALA D 104 5 3 HELIX 25 25 PRO E 10 VAL E 14 5 5 HELIX 26 26 GLY E 17 GLY E 31 1 15 HELIX 27 27 PRO E 33 TYR E 36 5 4 HELIX 28 28 GLY E 68 ARG E 88 1 21 HELIX 29 29 SER E 90 ASP E 92 5 3 HELIX 30 30 ASN E 102 ALA E 104 5 3 HELIX 31 31 PRO F 10 VAL F 14 5 5 HELIX 32 32 GLY F 17 GLY F 31 1 15 HELIX 33 33 PRO F 33 TYR F 36 5 4 HELIX 34 34 GLY F 68 ARG F 88 1 21 HELIX 35 35 SER F 90 ASP F 92 5 3 HELIX 36 36 ASN F 102 ALA F 104 5 3 SHEET 1 A 7 SER B 111 THR B 112 0 SHEET 2 A 7 VAL B 106 TRP B 108 -1 N TRP B 108 O SER B 111 SHEET 3 A 7 VAL A 94 ASP A 100 -1 N ILE A 96 O GLY B 107 SHEET 4 A 7 ALA A 57 SER A 63 1 N CYS A 59 O TYR A 95 SHEET 5 A 7 MET A 2 THR A 7 -1 N MET A 2 O HIS A 62 SHEET 6 A 7 ALA A 38 VAL A 42 1 O VAL A 42 N VAL A 5 SHEET 7 A 7 LEU C 46 PHE C 49 -1 O ALA C 48 N VAL A 39 SHEET 1 B 7 LEU A 46 PHE A 49 0 SHEET 2 B 7 ALA B 38 VAL B 42 -1 O VAL B 39 N ALA A 48 SHEET 3 B 7 MET B 2 THR B 7 1 N VAL B 5 O VAL B 42 SHEET 4 B 7 ALA B 57 SER B 63 -1 O HIS B 62 N MET B 2 SHEET 5 B 7 VAL B 94 ASP B 100 1 O TYR B 95 N CYS B 59 SHEET 6 B 7 VAL C 106 TRP C 108 -1 O GLY C 107 N ILE B 96 SHEET 7 B 7 SER C 111 THR C 112 -1 O SER C 111 N TRP C 108 SHEET 1 C 7 SER A 111 THR A 112 0 SHEET 2 C 7 VAL A 106 TRP A 108 -1 N TRP A 108 O SER A 111 SHEET 3 C 7 VAL C 94 ASP C 100 -1 O ILE C 96 N GLY A 107 SHEET 4 C 7 ALA C 57 SER C 63 1 N CYS C 59 O TYR C 95 SHEET 5 C 7 MET C 2 THR C 7 -1 N MET C 2 O HIS C 62 SHEET 6 C 7 ALA C 38 VAL C 42 1 O VAL C 42 N VAL C 5 SHEET 7 C 7 LEU B 46 PHE B 49 -1 N ALA B 48 O VAL C 39 SHEET 1 D 7 SER E 111 THR E 112 0 SHEET 2 D 7 VAL E 106 TRP E 108 -1 N TRP E 108 O SER E 111 SHEET 3 D 7 VAL D 94 ASP D 100 -1 N ILE D 96 O GLY E 107 SHEET 4 D 7 ALA D 57 SER D 63 1 N CYS D 59 O TYR D 95 SHEET 5 D 7 MET D 2 THR D 7 -1 N MET D 2 O HIS D 62 SHEET 6 D 7 ALA D 38 VAL D 42 1 O VAL D 42 N VAL D 5 SHEET 7 D 7 LEU F 46 PHE F 49 -1 O LEU F 46 N VAL D 41 SHEET 1 E 7 LEU D 46 PHE D 49 0 SHEET 2 E 7 ALA E 38 VAL E 42 -1 O VAL E 39 N ALA D 48 SHEET 3 E 7 MET E 2 THR E 7 1 N VAL E 5 O VAL E 42 SHEET 4 E 7 ALA E 57 SER E 63 -1 O LEU E 58 N ASN E 6 SHEET 5 E 7 VAL E 94 ASP E 100 1 O TYR E 99 N LEU E 61 SHEET 6 E 7 VAL F 106 TRP F 108 -1 O GLY F 107 N ILE E 96 SHEET 7 E 7 SER F 111 THR F 112 -1 O SER F 111 N TRP F 108 SHEET 1 F 6 VAL D 106 TRP D 108 0 SHEET 2 F 6 VAL F 94 ASP F 100 -1 O ILE F 96 N GLY D 107 SHEET 3 F 6 ALA F 57 SER F 63 1 N LEU F 61 O TYR F 99 SHEET 4 F 6 MET F 2 THR F 7 -1 N MET F 2 O HIS F 62 SHEET 5 F 6 ALA F 38 VAL F 42 1 O VAL F 42 N VAL F 5 SHEET 6 F 6 LEU E 46 PHE E 49 -1 N ALA E 48 O VAL F 39 SITE 1 AC1 4 GLY A 68 GLY A 69 ALA A 70 GLN A 71 SITE 1 AC2 3 ASN A 102 ASN A 105 HOH C 312 SITE 1 AC3 1 ARG A 11 SITE 1 AC4 5 TYR A 95 LYS B 32 TYR B 36 HOH B 334 SITE 2 AC4 5 HOH B 351 SITE 1 AC5 4 GLY B 68 GLY B 69 ALA B 70 GLN B 71 SITE 1 AC6 3 GLY B 17 PHE B 18 LEU B 19 SITE 1 AC7 2 ASN B 102 ASN B 105 SITE 1 AC8 3 GLY C 68 ALA C 70 GLN C 71 SITE 1 AC9 2 ASN C 102 ASN C 105 SITE 1 BC1 3 HOH B 305 GLN C 35 HOH C 314 SITE 1 BC2 3 GLY D 68 ALA D 70 GLN D 71 SITE 1 BC3 4 GLY D 17 PHE D 18 LEU D 19 HOH D 313 SITE 1 BC4 3 ASN D 102 ASN D 105 HOH F 321 SITE 1 BC5 3 GLY F 68 ALA F 70 GLN F 71 SITE 1 BC6 2 PRO F 34 GLN F 35 SITE 1 BC7 2 ASN F 102 ASN F 105 CRYST1 69.974 60.899 77.806 90.00 93.28 90.00 P 1 21 1 12 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.014291 0.000000 0.000819 0.00000 SCALE2 0.000000 0.016421 0.000000 0.00000 SCALE3 0.000000 0.000000 0.012874 0.00000