HEADER ISOMERASE 16-MAR-06 2GDG TITLE CRYSTAL STRUCTURE OF COVALENTLY MODIFIED MACROPHAGE INHIBITORY FACTOR COMPND MOL_ID: 1; COMPND 2 MOLECULE: MACROPHAGE MIGRATION INHIBITORY FACTOR; COMPND 3 CHAIN: A, B, C; COMPND 4 SYNONYM: MIF, PHENYLPYRUVATE TAUTOMERASE, GLYCOSYLATION-INHIBITING COMPND 5 FACTOR, GIF, DELAYED EARLY RESPONSE PROTEIN 6, DER6; COMPND 6 EC: 5.3.2.1; COMPND 7 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 3 ORGANISM_COMMON: HOUSE MOUSE; SOURCE 4 ORGANISM_TAXID: 10090; SOURCE 5 GENE: MIF; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21-GOLD(DE3)PLYSS; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET11B KEYWDS PRO-1 PUCKER, ISOMERASE EXPDTA X-RAY DIFFRACTION AUTHOR P.A.GOLUBKOV,M.L.HACKERT REVDAT 4 30-AUG-23 2GDG 1 REMARK REVDAT 3 24-FEB-09 2GDG 1 VERSN REVDAT 2 25-JUL-06 2GDG 1 JRNL REVDAT 1 04-JUL-06 2GDG 0 JRNL AUTH P.A.GOLUBKOV,W.H.JOHNSON JR.,R.M.CZERWINSKI,M.D.PERSON, JRNL AUTH 2 S.C.WANG,C.P.WHITMAN,M.L.HACKERT JRNL TITL INACTIVATION OF THE PHENYLPYRUVATE TAUTOMERASE ACTIVITY OF JRNL TITL 2 MACROPHAGE MIGRATION INHIBITORY FACTOR BY JRNL TITL 3 2-OXO-4-PHENYL-3-BUTYNOATE. JRNL REF BIOORG.CHEM. V. 34 183 2006 JRNL REFN ISSN 0045-2068 JRNL PMID 16780921 JRNL DOI 10.1016/J.BIOORG.2006.05.001 REMARK 2 REMARK 2 RESOLUTION. 1.45 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0005 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) : 1.45 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 50.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 97.4 REMARK 3 NUMBER OF REFLECTIONS : 73005 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) : 0.149 REMARK 3 R VALUE (WORKING SET) : 0.147 REMARK 3 FREE R VALUE : 0.183 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 3872 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) : 1.45 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.49 REMARK 3 REFLECTION IN BIN (WORKING SET) : 5323 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 96.77 REMARK 3 BIN R VALUE (WORKING SET) : 0.2170 REMARK 3 BIN FREE R VALUE SET COUNT : 278 REMARK 3 BIN FREE R VALUE : 0.2970 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2607 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 465 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 22.15 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.30000 REMARK 3 B22 (A**2) : 0.30000 REMARK 3 B33 (A**2) : -0.44000 REMARK 3 B12 (A**2) : 0.15000 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): 0.057 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.056 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.035 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.017 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.974 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.963 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): NULL ; NULL ; NULL REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): NULL ; NULL ; NULL REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): NULL ; NULL ; NULL REMARK 3 GENERAL PLANES REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL 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): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL 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 : BABINET MODEL WITH 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. AMBIGUOUS INHIBITOR DENSITY; INHIBITOR COORDINATES REMARK 3 NOT INCLUDED. REMARK 4 REMARK 4 2GDG COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 22-MAR-06. REMARK 100 THE DEPOSITION ID IS D_1000036983. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 23-AUG-02 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 14-BM-D REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97935 REMARK 200 MONOCHROMATOR : BENT CYLINDRICAL SI-MIRROR (RH REMARK 200 COATING); SI(111) DOUBLE-CRYSTAL REMARK 200 MONOCHROMATOR REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 4 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : ADSC REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 76879 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.450 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.5 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.45 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.50 REMARK 200 COMPLETENESS FOR SHELL (%) : 98.3 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: AMORE REMARK 200 STARTING MODEL: PDB ENTRY 1MFF REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 59.72 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.05 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 30% PEG 8000, 0.05M SODIUM PHOSPHATE REMARK 280 BUFFER, PH 7.0, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 298.0K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 63 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z REMARK 290 3555 -X+Y,-X,Z REMARK 290 4555 -X,-Y,Z+1/2 REMARK 290 5555 Y,-X+Y,Z+1/2 REMARK 290 6555 X-Y,X,Z+1/2 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 43.83700 REMARK 290 SMTRY1 5 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 5 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 43.83700 REMARK 290 SMTRY1 6 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 43.83700 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 300 REMARK: THE BIOLOGICAL ASSEMBLY IS A TRIMER OF THE 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: 6520 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 13220 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -37.0 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 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 O HOH B 242 O HOH B 251 2.18 REMARK 500 O HOH C 167 O HOH C 168 2.19 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 MET A 2 CA MET A 2 CB -0.143 REMARK 500 MET A 2 CB MET A 2 CG -0.282 REMARK 500 MET A 2 CG MET A 2 SD 0.269 REMARK 500 VAL A 9 CB VAL A 9 CG2 0.144 REMARK 500 ARG A 11 CD ARG A 11 NE 0.121 REMARK 500 ARG A 11 CZ ARG A 11 NH1 0.132 REMARK 500 ALA A 12 CA ALA A 12 C -0.166 REMARK 500 ALA A 12 C ALA A 12 O 0.122 REMARK 500 SER A 13 CB SER A 13 OG 0.138 REMARK 500 PRO A 15 N PRO A 15 CA 0.118 REMARK 500 PRO A 15 CD PRO A 15 N 0.117 REMARK 500 PRO A 15 CA PRO A 15 C -0.138 REMARK 500 GLU A 16 CA GLU A 16 CB 0.260 REMARK 500 GLU A 16 CG GLU A 16 CD 0.316 REMARK 500 GLU A 16 CD GLU A 16 OE1 0.232 REMARK 500 GLU A 16 CD GLU A 16 OE2 -0.082 REMARK 500 GLY A 17 N GLY A 17 CA 0.292 REMARK 500 PHE A 18 CB PHE A 18 CG 0.133 REMARK 500 PHE A 18 CD1 PHE A 18 CE1 0.134 REMARK 500 SER A 20 CA SER A 20 CB 0.134 REMARK 500 SER A 20 CA SER A 20 C -0.168 REMARK 500 GLU A 21 CG GLU A 21 CD 0.278 REMARK 500 GLN A 24 CG GLN A 24 CD 0.310 REMARK 500 GLN A 24 CD GLN A 24 OE1 0.214 REMARK 500 GLN A 25 CD GLN A 25 NE2 0.288 REMARK 500 ALA A 27 N ALA A 27 CA 0.150 REMARK 500 GLN A 28 CG GLN A 28 CD -0.139 REMARK 500 GLN A 28 CD GLN A 28 OE1 0.548 REMARK 500 GLN A 28 CD GLN A 28 NE2 0.515 REMARK 500 GLY A 31 N GLY A 31 CA 0.125 REMARK 500 ALA A 34 CA ALA A 34 CB 0.127 REMARK 500 GLN A 35 CA GLN A 35 CB 0.172 REMARK 500 GLN A 35 CG GLN A 35 CD 0.271 REMARK 500 GLN A 35 CD GLN A 35 OE1 0.256 REMARK 500 TYR A 36 CG TYR A 36 CD2 -0.082 REMARK 500 PHE A 49 CD1 PHE A 49 CE1 0.134 REMARK 500 GLY A 69 N GLY A 69 CA -0.093 REMARK 500 ARG A 73 CG ARG A 73 CD 0.234 REMARK 500 ARG A 73 CD ARG A 73 NE -0.145 REMARK 500 ARG A 73 NE ARG A 73 CZ 0.237 REMARK 500 ARG A 73 CZ ARG A 73 NH1 0.236 REMARK 500 ARG A 73 CZ ARG A 73 NH2 0.132 REMARK 500 LYS A 77 CE LYS A 77 NZ 0.230 REMARK 500 ARG A 86 NE ARG A 86 CZ -0.127 REMARK 500 ARG A 86 CZ ARG A 86 NH1 0.199 REMARK 500 TYR A 99 CD1 TYR A 99 CE1 0.100 REMARK 500 TYR A 99 CZ TYR A 99 OH 0.109 REMARK 500 TYR A 99 CZ TYR A 99 CE2 -0.086 REMARK 500 SER A 111 CA SER A 111 CB 0.117 REMARK 500 PHE A 113 CG PHE A 113 CD1 0.156 REMARK 500 REMARK 500 THIS ENTRY HAS 191 BOND DEVIATIONS. 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 2 CG - SD - CE ANGL. DEV. = -12.5 DEGREES REMARK 500 VAL A 9 CA - CB - CG2 ANGL. DEV. = -9.2 DEGREES REMARK 500 PRO A 10 N - CA - CB ANGL. DEV. = -8.2 DEGREES REMARK 500 ARG A 11 CD - NE - CZ ANGL. DEV. = -9.5 DEGREES REMARK 500 ARG A 11 NE - CZ - NH1 ANGL. DEV. = -5.8 DEGREES REMARK 500 ALA A 12 O - C - N ANGL. DEV. = -12.6 DEGREES REMARK 500 PRO A 15 CA - C - O ANGL. DEV. = 16.0 DEGREES REMARK 500 PRO A 15 O - C - N ANGL. DEV. = -21.7 DEGREES REMARK 500 GLU A 16 N - CA - CB ANGL. DEV. = -16.0 DEGREES REMARK 500 GLU A 16 CA - CB - CG ANGL. DEV. = -15.5 DEGREES REMARK 500 GLU A 16 OE1 - CD - OE2 ANGL. DEV. = 25.0 DEGREES REMARK 500 GLU A 16 CG - CD - OE1 ANGL. DEV. = -26.4 DEGREES REMARK 500 GLU A 16 CA - C - N ANGL. DEV. = -17.0 DEGREES REMARK 500 GLU A 16 O - C - N ANGL. DEV. = 11.3 DEGREES REMARK 500 GLY A 17 C - N - CA ANGL. DEV. = -21.7 DEGREES REMARK 500 PHE A 18 CB - CG - CD2 ANGL. DEV. = -7.2 DEGREES REMARK 500 PHE A 18 CD1 - CG - CD2 ANGL. DEV. = 8.8 DEGREES REMARK 500 GLU A 21 OE1 - CD - OE2 ANGL. DEV. = 21.9 DEGREES REMARK 500 GLU A 21 CG - CD - OE2 ANGL. DEV. = -13.5 DEGREES REMARK 500 GLN A 24 CG - CD - OE1 ANGL. DEV. = -14.6 DEGREES REMARK 500 GLN A 25 CG - CD - OE1 ANGL. DEV. = 25.1 DEGREES REMARK 500 GLN A 25 CG - CD - NE2 ANGL. DEV. = -15.0 DEGREES REMARK 500 GLN A 28 N - CA - CB ANGL. DEV. = -11.0 DEGREES REMARK 500 GLN A 28 OE1 - CD - NE2 ANGL. DEV. = -22.2 DEGREES REMARK 500 PRO A 33 CA - N - CD ANGL. DEV. = 9.0 DEGREES REMARK 500 GLN A 35 N - CA - CB ANGL. DEV. = -11.6 DEGREES REMARK 500 GLN A 35 OE1 - CD - NE2 ANGL. DEV. = -15.6 DEGREES REMARK 500 GLN A 35 CG - CD - OE1 ANGL. DEV. = -18.0 DEGREES REMARK 500 GLN A 35 CG - CD - NE2 ANGL. DEV. = 30.6 DEGREES REMARK 500 TYR A 36 CD1 - CG - CD2 ANGL. DEV. = 7.2 DEGREES REMARK 500 TYR A 36 CB - CG - CD1 ANGL. DEV. = -5.4 DEGREES REMARK 500 TYR A 36 CG - CD1 - CE1 ANGL. DEV. = -7.4 DEGREES REMARK 500 ASP A 54 CB - CG - OD1 ANGL. DEV. = 9.0 DEGREES REMARK 500 ASP A 54 CB - CG - OD2 ANGL. DEV. = -6.9 DEGREES REMARK 500 ALA A 70 N - CA - CB ANGL. DEV. = -9.3 DEGREES REMARK 500 ALA A 70 O - C - N ANGL. DEV. = 9.9 DEGREES REMARK 500 ARG A 73 CD - NE - CZ ANGL. DEV. = -19.6 DEGREES REMARK 500 ARG A 73 NH1 - CZ - NH2 ANGL. DEV. = -11.8 DEGREES REMARK 500 TYR A 75 CB - CG - CD1 ANGL. DEV. = -6.0 DEGREES REMARK 500 TYR A 75 CG - CD1 - CE1 ANGL. DEV. = -8.1 DEGREES REMARK 500 ARG A 86 NH1 - CZ - NH2 ANGL. DEV. = -7.9 DEGREES REMARK 500 ARG A 86 NE - CZ - NH2 ANGL. DEV. = 4.3 DEGREES REMARK 500 HIS A 88 CB - CG - CD2 ANGL. DEV. = -10.2 DEGREES REMARK 500 HIS A 88 ND1 - CE1 - NE2 ANGL. DEV. = -9.2 DEGREES REMARK 500 HIS A 88 CE1 - NE2 - CD2 ANGL. DEV. = 9.6 DEGREES REMARK 500 HIS A 88 CG - CD2 - NE2 ANGL. DEV. = -12.2 DEGREES REMARK 500 ASP A 92 CB - CG - OD1 ANGL. DEV. = 9.0 DEGREES REMARK 500 ASP A 92 CB - CG - OD2 ANGL. DEV. = -6.0 DEGREES REMARK 500 ARG A 93 NH1 - CZ - NH2 ANGL. DEV. = -7.2 DEGREES REMARK 500 ARG A 93 NE - CZ - NH2 ANGL. DEV. = 5.1 DEGREES REMARK 500 REMARK 500 THIS ENTRY HAS 211 ANGLE DEVIATIONS. 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 SER B 111 -152.52 -144.41 REMARK 500 PRO C 33 153.14 -43.86 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 GLN A 28 0.08 SIDE CHAIN REMARK 500 ARG A 73 0.15 SIDE CHAIN REMARK 500 ARG B 11 0.22 SIDE CHAIN REMARK 500 GLN B 25 0.09 SIDE CHAIN REMARK 500 GLN B 28 0.14 SIDE CHAIN REMARK 500 ASP B 54 0.17 SIDE CHAIN REMARK 500 ARG B 86 0.07 SIDE CHAIN REMARK 500 GLU C 16 0.31 SIDE CHAIN REMARK 500 PHE C 18 0.07 SIDE CHAIN REMARK 500 GLN C 24 0.07 SIDE CHAIN REMARK 500 GLN C 28 0.13 SIDE CHAIN REMARK 500 GLN C 35 0.07 SIDE CHAIN REMARK 500 TYR C 36 0.18 SIDE CHAIN REMARK 500 ASN C 53 0.09 SIDE CHAIN 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 GLY A 17 14.79 REMARK 500 ARG B 86 10.18 REMARK 500 PRO C 33 -15.42 REMARK 500 ALA C 34 -15.33 REMARK 500 GLN C 35 14.83 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1MIF RELATED DB: PDB REMARK 900 HUMAN MIF STRUCTURE REMARK 900 RELATED ID: 1MFF RELATED DB: PDB REMARK 900 MIF Y95F MUTANT REMARK 900 RELATED ID: 1MFI RELATED DB: PDB REMARK 900 MIF COMPLEXED WITH (E)-2-FLUORO-P-HYDROXYCINNAMATE REMARK 900 RELATED ID: 1CA7 RELATED DB: PDB REMARK 900 MIF WITH HYDROXPHENYLPYRUVATE REMARK 900 RELATED ID: 1P1G RELATED DB: PDB REMARK 900 MIF P1G MUTANT REMARK 900 RELATED ID: 1CGQ RELATED DB: PDB REMARK 900 MIF WITH ALANINE INSERTED BETWEEN PRO-1 AND MET-2 REMARK 900 RELATED ID: 1GCZ RELATED DB: PDB REMARK 900 MIF COMPLEXED WITH INHIBITOR DBREF 2GDG A 1 114 UNP P34884 MIF_MOUSE 1 114 DBREF 2GDG B 1 114 UNP P34884 MIF_MOUSE 1 114 DBREF 2GDG C 1 114 UNP P34884 MIF_MOUSE 1 114 SEQRES 1 A 114 PRO MET PHE ILE VAL ASN THR ASN VAL PRO ARG ALA SER SEQRES 2 A 114 VAL PRO GLU GLY PHE LEU SER GLU LEU THR GLN GLN LEU SEQRES 3 A 114 ALA GLN ALA THR GLY LYS PRO ALA GLN TYR ILE ALA VAL SEQRES 4 A 114 HIS VAL VAL PRO ASP GLN LEU MET THR PHE SER GLY THR SEQRES 5 A 114 ASN ASP PRO CYS ALA LEU CYS SER LEU HIS SER ILE GLY SEQRES 6 A 114 LYS ILE GLY GLY ALA GLN ASN ARG ASN TYR SER LYS LEU SEQRES 7 A 114 LEU CYS GLY LEU LEU SER ASP ARG LEU HIS 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 GLY 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 GLU GLY PHE LEU SER GLU LEU THR GLN GLN LEU SEQRES 3 B 114 ALA GLN ALA THR GLY LYS PRO ALA GLN TYR ILE ALA VAL SEQRES 4 B 114 HIS VAL VAL PRO ASP GLN LEU MET THR PHE SER GLY THR SEQRES 5 B 114 ASN ASP PRO CYS ALA LEU CYS SER LEU HIS SER ILE GLY SEQRES 6 B 114 LYS ILE GLY GLY ALA GLN ASN ARG ASN TYR SER LYS LEU SEQRES 7 B 114 LEU CYS GLY LEU LEU SER ASP ARG LEU HIS 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 GLY 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 GLU GLY PHE LEU SER GLU LEU THR GLN GLN LEU SEQRES 3 C 114 ALA GLN ALA THR GLY LYS PRO ALA GLN TYR ILE ALA VAL SEQRES 4 C 114 HIS VAL VAL PRO ASP GLN LEU MET THR PHE SER GLY THR SEQRES 5 C 114 ASN ASP PRO CYS ALA LEU CYS SER LEU HIS SER ILE GLY SEQRES 6 C 114 LYS ILE GLY GLY ALA GLN ASN ARG ASN TYR SER LYS LEU SEQRES 7 C 114 LEU CYS GLY LEU LEU SER ASP ARG LEU HIS 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 GLY SER THR PHE ALA FORMUL 4 HOH *465(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 HIS 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 HIS 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 HIS 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 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 ASN A 97 SHEET 5 A 7 MET A 2 THR A 7 -1 N ASN A 6 O LEU A 58 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 LEU C 46 N VAL A 41 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 41 N LEU A 46 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 LEU B 58 N ASN B 6 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 ASN C 6 O LEU C 58 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 LEU B 46 O VAL C 41 CRYST1 94.705 94.705 87.674 90.00 90.00 120.00 P 63 18 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 0.010559 0.006096 0.000000 0.00000 SCALE2 0.000000 0.012193 0.000000 0.00000 SCALE3 0.000000 0.000000 0.011406 0.00000