HEADER ISOMERASE/ISOMERASE INHIBITOR 27-MAR-15 4Z1T TITLE MIF IN COMPLEX WITH 4-[(4-OXO-2-THIOXO-1,3-THIAZOLAN-3-YL) TITLE 2 METHYL]BENZONITRILE COMPND MOL_ID: 1; COMPND 2 MOLECULE: MACROPHAGE MIGRATION INHIBITORY FACTOR; COMPND 3 CHAIN: A, B, C; COMPND 4 SYNONYM: MIF,GLYCOSYLATION-INHIBITING FACTOR,GIF,L-DOPACHROME COMPND 5 ISOMERASE,L-DOPACHROME TAUTOMERASE,PHENYLPYRUVATE TAUTOMERASE; COMPND 6 EC: 5.3.2.1,5.3.3.12; COMPND 7 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: MIF, GLIF, MMIF; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET11B KEYWDS COVALENT INHIBITOR, PROTEIN SURFACE MODIFICATION, ISOMERASE-ISOMERASE KEYWDS 2 INHIBITOR COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR T.Y.CHO REVDAT 5 27-SEP-23 4Z1T 1 REMARK REVDAT 4 11-DEC-19 4Z1T 1 REMARK REVDAT 3 20-SEP-17 4Z1T 1 REMARK REVDAT 2 04-JAN-17 4Z1T 1 JRNL REVDAT 1 28-SEP-16 4Z1T 0 JRNL AUTH A.K.SINGH,G.PANTOURIS,S.BOROSCH,S.ROJANASTHIEN,T.Y.CHO JRNL TITL STRUCTURAL BASIS FOR DECREASED INDUCTION OF CLASS IB JRNL TITL 2 PI3-KINASES EXPRESSION BY MIF INHIBITORS. JRNL REF J. CELL. MOL. MED. V. 21 142 2017 JRNL REFN ISSN 1582-4934 JRNL PMID 27619729 JRNL DOI 10.1111/JCMM.12949 REMARK 2 REMARK 2 RESOLUTION. 1.50 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0073 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.50 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 37.11 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 98.9 REMARK 3 NUMBER OF REFLECTIONS : 62804 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 + TEST SET) : 0.195 REMARK 3 R VALUE (WORKING SET) : 0.193 REMARK 3 FREE R VALUE : 0.225 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 3351 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 1.50 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.54 REMARK 3 REFLECTION IN BIN (WORKING SET) : 4583 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.39 REMARK 3 BIN R VALUE (WORKING SET) : 0.2430 REMARK 3 BIN FREE R VALUE SET COUNT : 277 REMARK 3 BIN FREE R VALUE : 0.2930 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2531 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 28 REMARK 3 SOLVENT ATOMS : 239 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 18.99 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.00000 REMARK 3 B22 (A**2) : -0.01000 REMARK 3 B33 (A**2) : 0.01000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.069 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.073 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.048 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 1.276 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.955 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.944 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2614 ; 0.029 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 2397 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3567 ; 2.552 ; 1.980 REMARK 3 BOND ANGLES OTHERS (DEGREES): 5481 ; 1.085 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 336 ; 6.181 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 100 ;41.977 ;24.700 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 361 ;11.344 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 9 ;20.603 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 407 ; 0.145 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3028 ; 0.012 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 599 ; 0.002 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 1355 ; 1.990 ; 1.774 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1354 ; 1.988 ; 1.774 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1690 ; 2.496 ; 2.667 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 1691 ; 2.496 ; 2.667 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1259 ; 2.891 ; 1.979 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 1244 ; 2.781 ; 1.952 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 1854 ; 3.855 ; 2.847 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 3008 ; 4.763 ;15.719 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 2893 ; 4.691 ;15.301 REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 4Z1T COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 20-APR-15. REMARK 100 THE DEPOSITION ID IS D_1000208416. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 31-OCT-07 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : NULL REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : NSLS REMARK 200 BEAMLINE : X29A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0809 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 66892 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.500 REMARK 200 RESOLUTION RANGE LOW (A) : 54.170 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.9 REMARK 200 DATA REDUNDANCY : 4.600 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.06700 REMARK 200 FOR THE DATA SET : 5.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : NULL REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 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: 1MIF REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 55.16 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.74 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: TRIS, AMMONIUM SULFATE, ISOPROPANOL, REMARK 280 VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 295K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 REMARK 290 4555 X+1/2,-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 34.06000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 44.12000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 34.31000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 44.12000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 34.06000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 34.31000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 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 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: 7490 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 12860 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -90.0 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 400 REMARK 400 COMPOUND REMARK 400 THE POLYPEPTIDE, MACROPHAGE MIGRATION INHIBITORY FACTOR, WITH PRO REMARK 400 AT THE N-TERMINUS WAS INCUBATED WITH 4-[(4-OXO-2-THIOXO-1,3- REMARK 400 THIAZOLAN-3-YL)METHYL]BENZONITRILE TO PRODUCE THE MODIFIED N- REMARK 400 TERMINAL RESIDUE (4N9) REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 ALA B 114 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 ARG A 11 CG CD NE CZ NH1 NH2 REMARK 470 GLN A 24 CG CD OE1 NE2 REMARK 470 GLN A 28 CG CD OE1 NE2 REMARK 470 GLU A 54 CG CD OE1 OE2 REMARK 470 LYS A 66 CG CD CE NZ REMARK 470 LYS A 77 CE NZ REMARK 470 GLU A 85 CD OE1 OE2 REMARK 470 ARG A 88 CD NE CZ NH1 NH2 REMARK 470 4N9 B 1 N1 C3 C4 C5 C6 C7 C8 REMARK 470 4N9 B 1 C10 C9 N2 C1 S1 REMARK 470 ARG B 11 CG CD NE CZ NH1 NH2 REMARK 470 LYS B 32 CG CD CE NZ REMARK 470 GLN B 35 CG CD OE1 NE2 REMARK 470 TYR B 36 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 LYS B 66 CG CD CE NZ REMARK 470 LYS B 77 CE NZ REMARK 470 GLU B 85 CG CD OE1 OE2 REMARK 470 ARG B 88 CD NE CZ NH1 NH2 REMARK 470 ARG C 11 NE CZ NH1 NH2 REMARK 470 LYS C 32 CE NZ REMARK 470 GLU C 54 CG CD OE1 OE2 REMARK 470 LYS C 66 CG CD CE NZ REMARK 470 LYS C 77 NZ REMARK 470 ARG C 88 CD NE CZ NH1 NH2 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 NH2 ARG A 73 O HOH A 301 2.03 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 RES CSSEQI ATM2 DEVIATION REMARK 500 ASN A 6 CG ASN A 6 ND2 -0.155 REMARK 500 ASN B 6 CG ASN B 6 ND2 -0.226 REMARK 500 VAL C 5 CB VAL C 5 CG1 -0.130 REMARK 500 ASN C 6 CG ASN C 6 ND2 -0.226 REMARK 500 SER C 60 CB SER C 60 OG -0.138 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 MET A 47 CG - SD - CE ANGL. DEV. = 12.2 DEGREES REMARK 500 ASP A 92 CB - CG - OD1 ANGL. DEV. = 10.3 DEGREES REMARK 500 ASP A 92 CB - CG - OD2 ANGL. DEV. = -8.2 DEGREES REMARK 500 ARG A 93 NE - CZ - NH2 ANGL. DEV. = -4.1 DEGREES REMARK 500 ASP B 92 CB - CG - OD1 ANGL. DEV. = 6.6 DEGREES REMARK 500 TYR B 98 CG - CD1 - CE1 ANGL. DEV. = 5.0 DEGREES REMARK 500 ASP C 16 CB - CG - OD1 ANGL. DEV. = 5.9 DEGREES REMARK 500 ARG C 93 NE - CZ - NH2 ANGL. DEV. = 3.1 DEGREES REMARK 500 REMARK 500 REMARK: NULL 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 A 108 138.82 -170.77 REMARK 500 SER A 111 -155.23 -145.81 REMARK 500 TRP B 108 133.42 -176.25 REMARK 500 TRP C 108 138.94 -171.93 REMARK 500 SER C 111 -155.38 -150.19 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: MAIN CHAIN PLANARITY REMARK 500 REMARK 500 THE FOLLOWING RESIDUES HAVE A PSEUDO PLANARITY REMARK 500 TORSION ANGLE, C(I) - CA(I) - N(I+1) - O(I), GREATER REMARK 500 10.0 DEGREES. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 500 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 500 I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI ANGLE REMARK 500 4N9 A 1 10.67 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 IPA A 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 A 202 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue IPA B 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 B 202 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 B 203 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 C 201 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4Z15 RELATED DB: PDB REMARK 900 THE SAME PROTEIN COMPLEXED WITH 4-[(4-OXO-2-THIOXO-1,3-THIAZOLAN-3- REMARK 900 YL)METHYL]BENZONITRILE REMARK 900 RELATED ID: 4Z1U RELATED DB: PDB DBREF 4Z1T A 1 114 UNP P14174 MIF_HUMAN 2 115 DBREF 4Z1T B 1 114 UNP P14174 MIF_HUMAN 2 115 DBREF 4Z1T C 1 114 UNP P14174 MIF_HUMAN 2 115 SEQRES 1 A 114 4N9 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 4N9 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 4N9 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 HET 4N9 A 1 19 HET 4N9 B 1 7 HET 4N9 C 1 19 HET IPA A 201 4 HET SO4 A 202 5 HET IPA B 201 4 HET SO4 B 202 5 HET SO4 B 203 5 HET SO4 C 201 5 HETNAM 4N9 1-[(4-CYANOBENZYL)CARBAMOTHIOYL]-L-PROLINE HETNAM IPA ISOPROPYL ALCOHOL HETNAM SO4 SULFATE ION HETSYN IPA 2-PROPANOL FORMUL 1 4N9 3(C14 H15 N3 O2 S) FORMUL 4 IPA 2(C3 H8 O) FORMUL 5 SO4 4(O4 S 2-) FORMUL 10 HOH *239(H2 O) HELIX 1 AA1 PRO A 10 VAL A 14 5 5 HELIX 2 AA2 GLY A 17 GLY A 31 1 15 HELIX 3 AA3 PRO A 33 TYR A 36 5 4 HELIX 4 AA4 GLY A 68 ARG A 88 1 21 HELIX 5 AA5 SER A 90 ASP A 92 5 3 HELIX 6 AA6 ASN A 102 ALA A 104 5 3 HELIX 7 AA7 PRO B 10 VAL B 14 5 5 HELIX 8 AA8 GLY B 17 GLY B 31 1 15 HELIX 9 AA9 PRO B 33 TYR B 36 5 4 HELIX 10 AB1 GLY B 68 ARG B 88 1 21 HELIX 11 AB2 SER B 90 ASP B 92 5 3 HELIX 12 AB3 ASN B 102 ALA B 104 5 3 HELIX 13 AB4 PRO C 10 VAL C 14 5 5 HELIX 14 AB5 GLY C 17 GLY C 31 1 15 HELIX 15 AB6 PRO C 33 TYR C 36 5 4 HELIX 16 AB7 GLY C 68 ARG C 88 1 21 HELIX 17 AB8 SER C 90 ASP C 92 5 3 HELIX 18 AB9 ASN C 102 ALA C 104 5 3 SHEET 1 AA1 7 SER B 111 THR B 112 0 SHEET 2 AA1 7 VAL B 106 TRP B 108 -1 N TRP B 108 O SER B 111 SHEET 3 AA1 7 VAL A 94 ASP A 100 -1 N ILE A 96 O GLY B 107 SHEET 4 AA1 7 ALA A 57 SER A 63 1 N CYS A 59 O TYR A 95 SHEET 5 AA1 7 MET A 2 THR A 7 -1 N ASN A 6 O LEU A 58 SHEET 6 AA1 7 ALA A 38 VAL A 42 1 O VAL A 42 N VAL A 5 SHEET 7 AA1 7 LEU C 46 PHE C 49 -1 O ALA C 48 N VAL A 39 SHEET 1 AA2 7 LEU A 46 PHE A 49 0 SHEET 2 AA2 7 ALA B 38 VAL B 42 -1 O VAL B 39 N ALA A 48 SHEET 3 AA2 7 MET B 2 THR B 7 1 N VAL B 5 O VAL B 42 SHEET 4 AA2 7 ALA B 57 SER B 63 -1 O SER B 60 N ILE B 4 SHEET 5 AA2 7 VAL B 94 ASP B 100 1 O ASN B 97 N LEU B 61 SHEET 6 AA2 7 VAL C 106 TRP C 108 -1 O GLY C 107 N ILE B 96 SHEET 7 AA2 7 SER C 111 THR C 112 -1 O SER C 111 N TRP C 108 SHEET 1 AA3 7 SER A 111 THR A 112 0 SHEET 2 AA3 7 VAL A 106 TRP A 108 -1 N TRP A 108 O SER A 111 SHEET 3 AA3 7 VAL C 94 ASP C 100 -1 O ILE C 96 N GLY A 107 SHEET 4 AA3 7 ALA C 57 SER C 63 1 N CYS C 59 O TYR C 95 SHEET 5 AA3 7 MET C 2 THR C 7 -1 N MET C 2 O HIS C 62 SHEET 6 AA3 7 ALA C 38 VAL C 42 1 O VAL C 42 N VAL C 5 SHEET 7 AA3 7 LEU B 46 PHE B 49 -1 N LEU B 46 O VAL C 41 LINK C 4N9 A 1 N MET A 2 1555 1555 1.33 LINK C 4N9 B 1 N MET B 2 1555 1555 1.36 LINK C 4N9 C 1 N MET C 2 1555 1555 1.30 SITE 1 AC1 5 GLN A 35 TRP A 108 GLY B 50 HOH C 326 SITE 2 AC1 5 HOH C 330 SITE 1 AC2 4 GLY A 68 GLY A 69 ALA A 70 GLN A 71 SITE 1 AC3 2 ARG B 86 LYS C 66 SITE 1 AC4 4 GLY B 68 GLY B 69 ALA B 70 GLN B 71 SITE 1 AC5 5 TYR A 99 HIS B 62 TYR B 99 HIS C 62 SITE 2 AC5 5 TYR C 99 SITE 1 AC6 4 GLY C 68 GLY C 69 ALA C 70 GLN C 71 CRYST1 68.120 68.620 88.240 90.00 90.00 90.00 P 21 21 21 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 0.014680 0.000000 0.000000 0.00000 SCALE2 0.000000 0.014573 0.000000 0.00000 SCALE3 0.000000 0.000000 0.011333 0.00000 HETATM 1 C 4N9 A 1 -22.621 5.230 18.143 1.00 19.42 C HETATM 2 N1 4N9 A 1 -31.492 12.225 17.995 1.00 29.65 N HETATM 3 N 4N9 A 1 -24.370 6.954 18.577 1.00 19.10 N HETATM 4 C3 4N9 A 1 -27.650 7.046 20.030 1.00 21.10 C HETATM 5 C4 4N9 A 1 -28.414 8.222 19.572 1.00 21.17 C HETATM 6 C5 4N9 A 1 -27.897 9.143 18.623 1.00 17.74 C HETATM 7 C6 4N9 A 1 -28.763 10.162 18.247 1.00 19.56 C HETATM 8 C7 4N9 A 1 -30.055 10.327 18.787 1.00 22.05 C HETATM 9 C8 4N9 A 1 -30.505 9.452 19.717 1.00 22.81 C HETATM 10 C10 4N9 A 1 -30.799 11.322 18.371 1.00 25.12 C HETATM 11 C9 4N9 A 1 -29.659 8.417 20.137 1.00 18.46 C HETATM 12 N2 4N9 A 1 -26.246 7.060 19.752 1.00 19.94 N HETATM 13 C1 4N9 A 1 -25.592 6.590 18.640 1.00 18.42 C HETATM 14 S1 4N9 A 1 -26.328 5.686 17.405 1.00 19.97 S HETATM 15 CA 4N9 A 1 -23.332 6.394 17.630 1.00 20.02 C HETATM 16 CB 4N9 A 1 -22.197 7.339 17.549 1.00 21.54 C HETATM 17 CG 4N9 A 1 -22.661 8.615 18.229 1.00 21.46 C HETATM 18 CD 4N9 A 1 -23.715 8.117 19.148 1.00 17.64 C HETATM 19 O 4N9 A 1 -22.498 4.959 19.366 1.00 19.13 O