HEADER OXIDOREDUCTASE 02-FEB-09 2WA4 TITLE FACTOR INHIBITING HIF-1 ALPHA WITH N,3-DIHYDROXYBENZAMIDE COMPND MOL_ID: 1; COMPND 2 MOLECULE: HYPOXIA-INDUCIBLE FACTOR 1-ALPHA INHIBITOR; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: FACTOR INHIBITING HIF1, HYPOXIA-INDUCIBLE FACTOR ASPARAGINE COMPND 5 HYDROXYLASE, FACTOR INHIBITING HIF-1, FIH-1; COMPND 6 EC: 1.14.11.16; 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 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 8 EXPRESSION_SYSTEM_PLASMID: PET28A KEYWDS HYDROXYLASE, DIOXYGENASE, TRANSCRIPTION, OXIDOREDUCTASE, KEYWDS 2 TRANSCRIPTION ACTIVATOR/INHIBITOR, HYPOXIA EXPDTA X-RAY DIFFRACTION AUTHOR A.CONEJO-GARCIA,B.M.R.LIENARD,I.J.CLIFTON,M.A.MCDONOUGH,C.J.SCHOFIELD REVDAT 6 13-DEC-23 2WA4 1 REMARK LINK REVDAT 5 21-FEB-18 2WA4 1 AUTHOR JRNL REVDAT 4 05-JUL-17 2WA4 1 REMARK REVDAT 3 29-SEP-10 2WA4 1 JRNL REVDAT 2 22-SEP-10 2WA4 1 KEYWDS JRNL REMARK REVDAT 1 21-APR-10 2WA4 0 JRNL AUTH A.CONEJO-GARCIA,M.A.MCDONOUGH,C.LOENARZ,L.A.MCNEILL, JRNL AUTH 2 K.S.HEWITSON,W.GE,B.M.LIENARD,C.J.SCHOFIELD,I.J.CLIFTON JRNL TITL STRUCTURAL BASIS FOR BINDING OF CYCLIC 2-OXOGLUTARATE JRNL TITL 2 ANALOGUES TO FACTOR-INHIBITING HYPOXIA-INDUCIBLE FACTOR. JRNL REF BIOORG. MED. CHEM. LETT. V. 20 6125 2010 JRNL REFN ESSN 1464-3405 JRNL PMID 20822901 JRNL DOI 10.1016/J.BMCL.2010.08.032 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH J.ELKINS,K.S.HEWITSON,L.MCNEILL,J.SEIBEL,I.SCHLEMMINGER, REMARK 1 AUTH 2 C.PUGH,P.RATCLIFFE,C.J.SCHOFIELD REMARK 1 TITL STRUCTURE OF FACTOR-INHIBITING HYPOXIA-INDUCIBLE FACTOR REMARK 1 TITL 2 (HIF) REVEALS MECHANISM OF OXIDATIVE MODIFICATION OF REMARK 1 TITL 3 HIF-1ALPHA REMARK 1 REF J.BIOL.CHEM. V. 278 1802 2003 REMARK 1 REFN ISSN 0021-9258 REMARK 1 PMID 12446723 REMARK 1 DOI 10.1074/JBC.C200644200 REMARK 2 REMARK 2 RESOLUTION. 2.50 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0019 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) : 2.50 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 75.38 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 19768 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) : 0.214 REMARK 3 R VALUE (WORKING SET) : 0.211 REMARK 3 FREE R VALUE : 0.267 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1039 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) : 2.50 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.57 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1455 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.0 REMARK 3 BIN R VALUE (WORKING SET) : 0.4500 REMARK 3 BIN FREE R VALUE SET COUNT : 81 REMARK 3 BIN FREE R VALUE : 0.4970 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2726 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 28 REMARK 3 SOLVENT ATOMS : 54 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 77.00 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 41.51 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.68000 REMARK 3 B22 (A**2) : 0.68000 REMARK 3 B33 (A**2) : -1.35000 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): 0.309 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.256 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.200 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 17.271 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.957 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.921 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2835 ; 0.021 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 1942 ; 0.003 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3845 ; 1.822 ; 1.955 REMARK 3 BOND ANGLES OTHERS (DEGREES): 4699 ; 1.009 ; 3.001 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 328 ; 7.626 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 154 ;37.651 ;24.740 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 457 ;18.135 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 15 ;18.521 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 383 ; 0.099 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3172 ; 0.007 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 579 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 652 ; 0.247 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 1937 ; 0.211 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1369 ; 0.199 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): 1463 ; 0.095 ; 0.200 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 83 ; 0.181 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): 1 ; 0.046 ; 0.200 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): 9 ; 0.262 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 28 ; 0.322 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 6 ; 0.330 ; 0.200 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): 1708 ; 1.061 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 662 ; 0.209 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2676 ; 1.720 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1327 ; 2.579 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1169 ; 3.952 ; 4.500 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 : 6 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 15 A 30 REMARK 3 ORIGIN FOR THE GROUP (A): 4.1630 26.2430 12.2100 REMARK 3 T TENSOR REMARK 3 T11: 0.4962 T22: 0.5207 REMARK 3 T33: 0.4830 T12: -0.0912 REMARK 3 T13: -0.2067 T23: -0.0948 REMARK 3 L TENSOR REMARK 3 L11: 4.1262 L22: 20.6525 REMARK 3 L33: 3.5479 L12: -2.8160 REMARK 3 L13: -1.7995 L23: 8.4222 REMARK 3 S TENSOR REMARK 3 S11: -0.8100 S12: 1.4008 S13: -0.0060 REMARK 3 S21: -1.3645 S22: 0.5233 S23: 0.4017 REMARK 3 S31: -1.0970 S32: 0.1824 S33: 0.2867 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 31 A 79 REMARK 3 ORIGIN FOR THE GROUP (A): 19.6990 25.1870 15.4780 REMARK 3 T TENSOR REMARK 3 T11: 0.2060 T22: -0.2363 REMARK 3 T33: 0.5585 T12: -0.0684 REMARK 3 T13: -0.1465 T23: 0.0170 REMARK 3 L TENSOR REMARK 3 L11: 1.1045 L22: 3.9700 REMARK 3 L33: 3.2418 L12: 0.5737 REMARK 3 L13: -0.0284 L23: 1.1148 REMARK 3 S TENSOR REMARK 3 S11: -0.1660 S12: 0.2233 S13: 0.0065 REMARK 3 S21: -0.6824 S22: 0.0039 S23: 0.2431 REMARK 3 S31: 0.0475 S32: 0.0773 S33: 0.1621 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 80 A 113 REMARK 3 ORIGIN FOR THE GROUP (A): 17.7110 22.5780 40.2700 REMARK 3 T TENSOR REMARK 3 T11: 0.4009 T22: -0.0360 REMARK 3 T33: 0.4167 T12: -0.1361 REMARK 3 T13: 0.0747 T23: 0.0723 REMARK 3 L TENSOR REMARK 3 L11: 3.0527 L22: 4.9640 REMARK 3 L33: 1.1550 L12: 0.9747 REMARK 3 L13: 1.1106 L23: 1.6726 REMARK 3 S TENSOR REMARK 3 S11: 0.0813 S12: -0.5005 S13: 0.0146 REMARK 3 S21: 0.9025 S22: -0.2865 S23: -0.0737 REMARK 3 S31: 0.5336 S32: -0.3232 S33: 0.2052 REMARK 3 REMARK 3 TLS GROUP : 4 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 114 A 136 REMARK 3 ORIGIN FOR THE GROUP (A): 9.8770 19.2050 41.4950 REMARK 3 T TENSOR REMARK 3 T11: 0.4117 T22: 0.0661 REMARK 3 T33: 0.5363 T12: -0.2104 REMARK 3 T13: 0.1696 T23: -0.1900 REMARK 3 L TENSOR REMARK 3 L11: 29.0564 L22: 2.1703 REMARK 3 L33: 13.4712 L12: 7.0135 REMARK 3 L13: 11.0267 L23: 4.7672 REMARK 3 S TENSOR REMARK 3 S11: -0.1909 S12: -0.3923 S13: 0.1926 REMARK 3 S21: 0.4469 S22: 0.0899 S23: 1.0699 REMARK 3 S31: 0.5299 S32: 0.1149 S33: 0.1011 REMARK 3 REMARK 3 TLS GROUP : 5 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 137 A 173 REMARK 3 ORIGIN FOR THE GROUP (A): 19.0600 13.0040 27.8530 REMARK 3 T TENSOR REMARK 3 T11: 0.3466 T22: -0.2448 REMARK 3 T33: 0.5510 T12: -0.1205 REMARK 3 T13: -0.1173 T23: 0.0314 REMARK 3 L TENSOR REMARK 3 L11: 3.0993 L22: 4.2356 REMARK 3 L33: 6.3931 L12: -0.3219 REMARK 3 L13: -1.8969 L23: 2.3749 REMARK 3 S TENSOR REMARK 3 S11: 0.0764 S12: -0.3364 S13: -0.0979 REMARK 3 S21: 0.8269 S22: 0.1271 S23: -0.2058 REMARK 3 S31: 0.9206 S32: 0.1179 S33: -0.2034 REMARK 3 REMARK 3 TLS GROUP : 6 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 174 A 349 REMARK 3 ORIGIN FOR THE GROUP (A): 26.3720 34.4040 29.1450 REMARK 3 T TENSOR REMARK 3 T11: 0.1886 T22: -0.0938 REMARK 3 T33: 0.5765 T12: -0.0255 REMARK 3 T13: -0.0732 T23: -0.0001 REMARK 3 L TENSOR REMARK 3 L11: 1.1000 L22: 2.2066 REMARK 3 L33: 1.6623 L12: 1.0808 REMARK 3 L13: 0.9103 L23: 1.7212 REMARK 3 S TENSOR REMARK 3 S11: -0.0006 S12: -0.0827 S13: -0.0562 REMARK 3 S21: -0.0127 S22: 0.0552 S23: 0.0342 REMARK 3 S31: 0.0987 S32: 0.2026 S33: -0.0545 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. ANISOTROPIC U FACTORS CALCULATED FROM TLS MODEL. ATOM REMARK 3 RECORD CONTAINS SUM OF TLS AND RESIDUAL B FACTORS. ANISOU RECORD REMARK 3 CONTAINS SUM OF TLS AND RESIDUAL U FACTORS. REMARK 4 REMARK 4 2WA4 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 02-FEB-09. REMARK 100 THE DEPOSITION ID IS D_1290038077. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 10-NOV-04 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SRS REMARK 200 BEAMLINE : PX10.1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.4880 REMARK 200 MONOCHROMATOR : SI (1 1 1) REMARK 200 OPTICS : RH COATED MIRROR REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 20923 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.490 REMARK 200 RESOLUTION RANGE LOW (A) : 37.770 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.0 REMARK 200 DATA REDUNDANCY : 9.100 REMARK 200 R MERGE (I) : 0.11000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 16.8000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.49 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.62 REMARK 200 COMPLETENESS FOR SHELL (%) : 93.4 REMARK 200 DATA REDUNDANCY IN SHELL : 8.40 REMARK 200 R MERGE FOR SHELL (I) : 0.83000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.800 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: NULL REMARK 200 STARTING MODEL: PDB ENTRY 1H2N REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 66.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.68 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 1.5M AMMONIUM SULFATE, 100MM HEPES PH REMARK 280 7.5, 3% PEG400, 1MM FESO4, 28MB/ML PROTEIN, 10MM SUBSTRATE. REMARK 280 CRYSTALS ARE DEEP RED. REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 41 21 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -Y+1/2,X+1/2,Z+1/4 REMARK 290 4555 Y+1/2,-X+1/2,Z+3/4 REMARK 290 5555 -X+1/2,Y+1/2,-Z+1/4 REMARK 290 6555 X+1/2,-Y+1/2,-Z+3/4 REMARK 290 7555 Y,X,-Z REMARK 290 8555 -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 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 75.45500 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 43.55750 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 43.55750 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 37.72750 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 43.55750 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 43.55750 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 113.18250 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 43.55750 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 43.55750 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 37.72750 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 43.55750 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 43.55750 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 113.18250 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 75.45500 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 3450 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 31100 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -50.6 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A 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 BIOMT1 2 0.000000 -1.000000 0.000000 87.11500 REMARK 350 BIOMT2 2 -1.000000 0.000000 0.000000 87.11500 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 75.45500 REMARK 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH A2015 LIES ON A SPECIAL POSITION. 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 MET A 1 REMARK 465 ALA A 2 REMARK 465 ALA A 3 REMARK 465 THR A 4 REMARK 465 ALA A 5 REMARK 465 ALA A 6 REMARK 465 GLU A 7 REMARK 465 ALA A 8 REMARK 465 VAL A 9 REMARK 465 ALA A 10 REMARK 465 SER A 11 REMARK 465 GLY A 12 REMARK 465 SER A 13 REMARK 465 GLY A 14 REMARK 465 LYS A 304 REMARK 465 ARG A 305 REMARK 465 ILE A 306 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 LEU A 101 CG CD1 CD2 REMARK 470 ARG A 156 CG CD NE CZ NH1 NH2 REMARK 470 ILE A 344 N C O REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 OH TYR A 71 OE1 GLU A 225 5545 2.18 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 ASP A 222 CB - CG - OD1 ANGL. DEV. = 8.8 DEGREES REMARK 500 ARG A 238 NE - CZ - NH1 ANGL. DEV. = 3.4 DEGREES REMARK 500 ASP A 248 CB - CG - OD2 ANGL. DEV. = -5.5 DEGREES REMARK 500 ARG A 347 NE - CZ - NH1 ANGL. DEV. = 3.7 DEGREES REMARK 500 ARG A 347 NE - CZ - NH2 ANGL. DEV. = -5.1 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 PRO A 16 145.75 -39.84 REMARK 500 GLN A 47 -32.16 -32.88 REMARK 500 ASP A 66 41.28 -146.63 REMARK 500 ASN A 87 42.58 -76.13 REMARK 500 ARG A 117 -63.63 -105.17 REMARK 500 GLN A 136 -73.80 -62.15 REMARK 500 GLN A 137 39.87 -76.91 REMARK 500 ARG A 138 22.28 -145.92 REMARK 500 ASN A 151 -169.77 -161.39 REMARK 500 THR A 153 6.87 -65.97 REMARK 500 ILE A 210 -53.78 -121.42 REMARK 500 ASP A 237 129.26 -34.53 REMARK 500 ARG A 238 -1.57 84.06 REMARK 500 ASN A 246 70.29 -160.53 REMARK 500 TYR A 276 5.34 83.87 REMARK 500 LEU A 284 153.90 -48.70 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 TYR A 308 PRO A 309 -32.60 REMARK 500 PRO A 309 LEU A 310 -140.26 REMARK 500 REMARK 500 REMARK: NULL REMARK 600 REMARK 600 HETEROGEN REMARK 600 REMARK 600 N,3-DIHYDROXYBENZAMIDE (069): PUBCHEM CID 24701909 REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 FE2 A 350 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 199 NE2 REMARK 620 2 HIS A 279 NE2 87.2 REMARK 620 3 069 A 400 O 85.4 113.3 REMARK 620 4 069 A 400 O2 160.1 85.5 80.5 REMARK 620 5 069 A 401 O2 99.9 74.7 170.8 96.0 REMARK 620 6 069 A 401 O 78.7 157.6 83.1 113.2 90.6 REMARK 620 N 1 2 3 4 5 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE FE2 A 350 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE 069 A 400 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE 069 A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 402 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1MZE RELATED DB: PDB REMARK 900 HUMAN FACTOR INHIBITING HIF (FIH1) REMARK 900 RELATED ID: 2W0X RELATED DB: PDB REMARK 900 FACTOR INHIBITING HIF-1 ALPHA WITH PYRIDINE 2,4 DICARBOXYLIC ACID REMARK 900 RELATED ID: 2CGN RELATED DB: PDB REMARK 900 FACTOR INHIBITING HIF-1 ALPHA WITH SUCCINATE REMARK 900 RELATED ID: 1MZF RELATED DB: PDB REMARK 900 HUMAN FACTOR INHIBITING HIF (FIH1) IN COMPLEX WITH 2-OXOGLUTARATE REMARK 900 RELATED ID: 1H2N RELATED DB: PDB REMARK 900 FACTOR INHIBITING HIF-1 ALPHA IN COMPLEX WITH HIF-1 ALPHA FRAGMENT REMARK 900 PEPTIDE REMARK 900 RELATED ID: 1YCI RELATED DB: PDB REMARK 900 FACTOR INHIBITING HIF-1 ALPHA IN COMPLEX WITH N-(CARBOXYCARBONYL)-D- REMARK 900 PHENYLALANINE REMARK 900 RELATED ID: 2WA3 RELATED DB: PDB REMARK 900 FACTOR INHIBITING HIF-1 ALPHA WITH 2-(3- HYDROXYPHENYL)-2-OXOACETIC REMARK 900 ACID REMARK 900 RELATED ID: 2CGO RELATED DB: PDB REMARK 900 FACTOR INHIBITING HIF-1 ALPHA WITH FUMARATE REMARK 900 RELATED ID: 1H2K RELATED DB: PDB REMARK 900 FACTOR INHIBITING HIF-1 ALPHA IN COMPLEX WITH HIF-1 ALPHA FRAGMENT REMARK 900 PEPTIDE REMARK 900 RELATED ID: 1IZ3 RELATED DB: PDB REMARK 900 DIMERIC STRUCTURE OF FIH (FACTOR INHIBITING HIF) REMARK 900 RELATED ID: 1H2M RELATED DB: PDB REMARK 900 FACTOR INHIBITING HIF-1 ALPHA IN COMPLEX WITH HIF-1 ALPHA FRAGMENT REMARK 900 PEPTIDE REMARK 900 RELATED ID: 1H2L RELATED DB: PDB REMARK 900 FACTOR INHIBITING HIF-1 ALPHA IN COMPLEX WITH HIF-1 ALPHA FRAGMENT REMARK 900 PEPTIDE DBREF 2WA4 A 1 349 UNP Q9NWT6 HIF1N_HUMAN 1 349 SEQRES 1 A 349 MET ALA ALA THR ALA ALA GLU ALA VAL ALA SER GLY SER SEQRES 2 A 349 GLY GLU PRO ARG GLU GLU ALA GLY ALA LEU GLY PRO ALA SEQRES 3 A 349 TRP ASP GLU SER GLN LEU ARG SER TYR SER PHE PRO THR SEQRES 4 A 349 ARG PRO ILE PRO ARG LEU SER GLN SER ASP PRO ARG ALA SEQRES 5 A 349 GLU GLU LEU ILE GLU ASN GLU GLU PRO VAL VAL LEU THR SEQRES 6 A 349 ASP THR ASN LEU VAL TYR PRO ALA LEU LYS TRP ASP LEU SEQRES 7 A 349 GLU TYR LEU GLN GLU ASN ILE GLY ASN GLY ASP PHE SER SEQRES 8 A 349 VAL TYR SER ALA SER THR HIS LYS PHE LEU TYR TYR ASP SEQRES 9 A 349 GLU LYS LYS MET ALA ASN PHE GLN ASN PHE LYS PRO ARG SEQRES 10 A 349 SER ASN ARG GLU GLU MET LYS PHE HIS GLU PHE VAL GLU SEQRES 11 A 349 LYS LEU GLN ASP ILE GLN GLN ARG GLY GLY GLU GLU ARG SEQRES 12 A 349 LEU TYR LEU GLN GLN THR LEU ASN ASP THR VAL GLY ARG SEQRES 13 A 349 LYS ILE VAL MET ASP PHE LEU GLY PHE ASN TRP ASN TRP SEQRES 14 A 349 ILE ASN LYS GLN GLN GLY LYS ARG GLY TRP GLY GLN LEU SEQRES 15 A 349 THR SER ASN LEU LEU LEU ILE GLY MET GLU GLY ASN VAL SEQRES 16 A 349 THR PRO ALA HIS TYR ASP GLU GLN GLN ASN PHE PHE ALA SEQRES 17 A 349 GLN ILE LYS GLY TYR LYS ARG CYS ILE LEU PHE PRO PRO SEQRES 18 A 349 ASP GLN PHE GLU CYS LEU TYR PRO TYR PRO VAL HIS HIS SEQRES 19 A 349 PRO CYS ASP ARG GLN SER GLN VAL ASP PHE ASP ASN PRO SEQRES 20 A 349 ASP TYR GLU ARG PHE PRO ASN PHE GLN ASN VAL VAL GLY SEQRES 21 A 349 TYR GLU THR VAL VAL GLY PRO GLY ASP VAL LEU TYR ILE SEQRES 22 A 349 PRO MET TYR TRP TRP HIS HIS ILE GLU SER LEU LEU ASN SEQRES 23 A 349 GLY GLY ILE THR ILE THR VAL ASN PHE TRP TYR LYS GLY SEQRES 24 A 349 ALA PRO THR PRO LYS ARG ILE GLU TYR PRO LEU LYS ALA SEQRES 25 A 349 HIS GLN LYS VAL ALA ILE MET ARG ASN ILE GLU LYS MET SEQRES 26 A 349 LEU GLY GLU ALA LEU GLY ASN PRO GLN GLU VAL GLY PRO SEQRES 27 A 349 LEU LEU ASN THR MET ILE LYS GLY ARG TYR ASN HET FE2 A 350 1 HET 069 A 400 11 HET 069 A 401 11 HET SO4 A 402 5 HETNAM FE2 FE (II) ION HETNAM 069 N,3-DIHYDROXYBENZAMIDE HETNAM SO4 SULFATE ION FORMUL 2 FE2 FE 2+ FORMUL 3 069 2(C7 H7 N O3) FORMUL 5 SO4 O4 S 2- FORMUL 6 HOH *54(H2 O) HELIX 1 1 ASP A 28 LEU A 32 5 5 HELIX 2 2 ASP A 49 ASN A 58 1 10 HELIX 3 3 VAL A 70 LEU A 74 5 5 HELIX 4 4 ASP A 77 ILE A 85 1 9 HELIX 5 5 ASP A 104 MET A 108 5 5 HELIX 6 6 LYS A 124 GLN A 137 1 14 HELIX 7 7 GLY A 155 GLY A 164 1 10 HELIX 8 8 ASN A 166 GLY A 178 1 13 HELIX 9 9 PRO A 220 ASP A 222 5 3 HELIX 10 10 GLN A 223 TYR A 228 1 6 HELIX 11 11 PHE A 252 VAL A 258 5 7 HELIX 12 12 LYS A 311 GLY A 331 1 21 HELIX 13 13 ASN A 332 GLN A 334 5 3 HELIX 14 14 GLU A 335 MET A 343 1 9 SHEET 1 AA 5 THR A 39 PRO A 41 0 SHEET 2 AA 5 GLY A 260 VAL A 265 1 O GLY A 260 N ARG A 40 SHEET 3 AA 5 LYS A 214 PHE A 219 -1 O LYS A 214 N VAL A 265 SHEET 4 AA 5 TRP A 278 SER A 283 -1 O TRP A 278 N PHE A 219 SHEET 5 AA 5 VAL A 195 HIS A 199 -1 O THR A 196 N ILE A 281 SHEET 1 AB 9 ARG A 44 LEU A 45 0 SHEET 2 AB 9 VAL A 62 LEU A 64 1 O VAL A 63 N LEU A 45 SHEET 3 AB 9 VAL A 270 ILE A 273 -1 O VAL A 270 N LEU A 64 SHEET 4 AB 9 GLN A 204 LYS A 211 -1 O ASN A 205 N ILE A 273 SHEET 5 AB 9 THR A 290 TYR A 297 -1 O ILE A 291 N ILE A 210 SHEET 6 AB 9 LEU A 182 GLY A 190 -1 N THR A 183 O TRP A 296 SHEET 7 AB 9 ARG A 143 GLN A 148 -1 O LEU A 146 N ILE A 189 SHEET 8 AB 9 PHE A 90 ALA A 95 -1 O SER A 91 N GLN A 147 SHEET 9 AB 9 ASN A 119 MET A 123 -1 O ASN A 119 N SER A 94 LINK NE2 HIS A 199 FE FE2 A 350 1555 1555 2.23 LINK NE2 HIS A 279 FE FE2 A 350 1555 1555 2.34 LINK FE FE2 A 350 O 069 A 400 1555 1555 2.22 LINK FE FE2 A 350 O2 069 A 400 1555 1555 2.08 LINK FE FE2 A 350 O2 069 A 401 1555 1555 2.10 LINK FE FE2 A 350 O 069 A 401 1555 1555 2.00 SITE 1 AC1 4 HIS A 199 HIS A 279 069 A 400 069 A 401 SITE 1 AC2 11 TYR A 145 THR A 196 HIS A 199 ASN A 205 SITE 2 AC2 11 PHE A 207 LYS A 214 HIS A 279 ILE A 281 SITE 3 AC2 11 ASN A 294 FE2 A 350 069 A 401 SITE 1 AC3 6 HIS A 199 ASP A 201 HIS A 279 FE2 A 350 SITE 2 AC3 6 069 A 400 HOH A2054 SITE 1 AC4 4 LYS A 107 GLU A 202 ARG A 320 LYS A 324 CRYST1 87.115 87.115 150.910 90.00 90.00 90.00 P 41 21 2 8 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 0.011479 0.000000 0.000000 0.00000 SCALE2 0.000000 0.011479 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006626 0.00000