HEADER OXIDOREDUCTASE 08-FEB-12 4AI8 TITLE FACTOR INHIBITING HIF-1 ALPHA IN COMPLEX WITH DAMINOZIDE COMPND MOL_ID: 1; COMPND 2 MOLECULE: HYPOXIA-INDUCIBLE FACTOR 1-ALPHA INHIBITOR; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: FACTOR INHIBITING HIF-1, FIH-1, HYPOXIA-INDUCIBLE FACTOR COMPND 5 ASPARAGINE HYDROXYLASE; 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 BL21(DE3); SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 8 EXPRESSION_SYSTEM_VECTOR: PET28A KEYWDS OXIDOREDUCTASE, DIOXYGENASE, METAL-BINDING, HELIX-LOOP-HELIX-BETA, KEYWDS 2 DSBH, FACIAL TRIAD, TRANSCRIPTION AND EPIGENETIC REGULATION, ANKYRIN KEYWDS 3 REPEAT DOMAIN, BETA-HYDROXYLATION, TRANSCRIPTION ACTIVATOR/INHIBITOR EXPDTA X-RAY DIFFRACTION AUTHOR O.N.F.KING,R.CHOWDHURY,N.R.ROSE,M.A.MCDONOUGH,I.J.CLIFTON, AUTHOR 2 C.J.SCHOFIELD,A.KAWAMURA REVDAT 6 20-DEC-23 4AI8 1 REMARK LINK REVDAT 5 06-FEB-19 4AI8 1 REMARK REVDAT 4 30-JAN-19 4AI8 1 REMARK REVDAT 3 07-MAR-18 4AI8 1 SOURCE AUTHOR JRNL REVDAT 2 24-JAN-18 4AI8 1 JRNL REVDAT 1 03-OCT-12 4AI8 0 JRNL AUTH N.R.ROSE,E.C.WOON,A.TUMBER,L.J.WALPORT,R.CHOWDHURY,X.S.LI, JRNL AUTH 2 O.N.KING,C.LEJEUNE,S.S.NG,T.KROJER,M.C.CHAN,A.M.RYDZIK, JRNL AUTH 3 R.J.HOPKINSON,K.H.CHE,M.DANIEL,C.STRAIN-DAMERELL,C.GILEADI, JRNL AUTH 4 G.KOCHAN,I.K.LEUNG,J.DUNFORD,K.K.YEOH,P.J.RATCLIFFE, JRNL AUTH 5 N.BURGESS-BROWN,F.VON DELFT,S.MULLER,B.MARSDEN,P.E.BRENNAN, JRNL AUTH 6 M.A.MCDONOUGH,U.OPPERMANN,R.J.KLOSE,C.J.SCHOFIELD,A.KAWAMURA JRNL TITL PLANT GROWTH REGULATOR DAMINOZIDE IS A SELECTIVE INHIBITOR JRNL TITL 2 OF HUMAN KDM2/7 HISTONE DEMETHYLASES. JRNL REF J. MED. CHEM. V. 55 6639 2012 JRNL REFN ISSN 1520-4804 JRNL PMID 22724510 JRNL DOI 10.1021/JM300677J REMARK 2 REMARK 2 RESOLUTION. 2.40 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 1.3 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 : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.40 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 28.37 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : 522161.450 REMARK 3 DATA CUTOFF LOW (ABS(F)) : 0.0000 REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 97.8 REMARK 3 NUMBER OF REFLECTIONS : 21975 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) : 0.231 REMARK 3 FREE R VALUE : 0.248 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.300 REMARK 3 FREE R VALUE TEST SET COUNT : 1180 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.007 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 10 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.40 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.49 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.80 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 2192 REMARK 3 BIN R VALUE (WORKING SET) : 0.3390 REMARK 3 BIN FREE R VALUE : 0.3700 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 4.90 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 107 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.036 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2707 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 55 REMARK 3 SOLVENT ATOMS : 135 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 35.00 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 60.80 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -3.83000 REMARK 3 B22 (A**2) : -3.83000 REMARK 3 B33 (A**2) : 7.67000 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 COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.35 REMARK 3 ESD FROM SIGMAA (A) : 0.39 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) : 0.40 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.47 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.009 REMARK 3 BOND ANGLES (DEGREES) : 1.500 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 25.90 REMARK 3 IMPROPER ANGLES (DEGREES) : 1.240 REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : RESTRAINED REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : 1.400 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 2.410 ; 2.000 REMARK 3 SIDE-CHAIN BOND (A**2) : 1.850 ; 2.000 REMARK 3 SIDE-CHAIN ANGLE (A**2) : 2.890 ; 2.500 REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : FLAT MODEL REMARK 3 KSOL : 0.34 REMARK 3 BSOL : 61.72 REMARK 3 REMARK 3 NCS MODEL : NONE 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 : PROTEIN_REP.PARAM REMARK 3 PARAMETER FILE 2 : WATER_REP.PARAM REMARK 3 PARAMETER FILE 3 : ION.PARAM REMARK 3 PARAMETER FILE 4 : DZA.PAR REMARK 3 PARAMETER FILE 5 : GOL.PAR REMARK 3 PARAMETER FILE 6 : NULL REMARK 3 TOPOLOGY FILE 1 : PROTEIN.TOP REMARK 3 TOPOLOGY FILE 2 : WATER.TOP REMARK 3 TOPOLOGY FILE 3 : ION.TOP REMARK 3 TOPOLOGY FILE 4 : DZA.TOP REMARK 3 TOPOLOGY FILE 5 : GOL.TOP REMARK 3 TOPOLOGY FILE 6 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: BULK SOLVENT MODEL USED REMARK 4 REMARK 4 4AI8 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 08-FEB-12. REMARK 100 THE DEPOSITION ID IS D_1290051234. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 22-NOV-10 REMARK 200 TEMPERATURE (KELVIN) : 100 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 FR-E SUPERBRIGHT REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : CONFOCAL REMARK 200 OPTICS : VARIMAX HF REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : RIGAKU SATURN 944 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 21975 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.400 REMARK 200 RESOLUTION RANGE LOW (A) : 28.370 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.8 REMARK 200 DATA REDUNDANCY : 7.000 REMARK 200 R MERGE (I) : 0.06000 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 23.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.40 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.49 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.8 REMARK 200 DATA REDUNDANCY IN SHELL : 5.80 REMARK 200 R MERGE FOR SHELL (I) : 0.89000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 2.300 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 1H2K REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 63.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.10 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M HEPES PH7.5, 1.6 M AMMONIUM REMARK 280 SULFATE, 6% PEG400, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE REMARK 280 293K 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 72.74050 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 43.37850 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 43.37850 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 36.37025 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 43.37850 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 43.37850 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 109.11075 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 43.37850 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 43.37850 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 36.37025 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 43.37850 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 43.37850 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 109.11075 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 72.74050 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 6740 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 29780 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -246.3 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 86.75700 REMARK 350 BIOMT2 2 -1.000000 0.000000 0.000000 86.75700 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 72.74050 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 A2024 LIES ON A SPECIAL POSITION. REMARK 375 HOH A2025 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 GLY A -2 REMARK 465 SER A -1 REMARK 465 HIS A 0 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 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 15 CG CD OE1 OE2 REMARK 470 GLU A 83 CG CD OE1 OE2 REMARK 470 LEU A 101 CG CD1 CD2 REMARK 470 ASN A 113 CG OD1 ND2 REMARK 470 LYS A 115 CG CD CE NZ REMARK 470 ARG A 117 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 131 CG CD CE NZ REMARK 470 GLN A 133 CG CD OE1 NE2 REMARK 470 GLN A 136 CG CD OE1 NE2 REMARK 470 GLN A 137 CG CD OE1 NE2 REMARK 470 ARG A 138 CG CD NE CZ NH1 NH2 REMARK 470 GLU A 141 CG CD OE1 OE2 REMARK 470 GLU A 142 CG CD OE1 OE2 REMARK 470 ASP A 152 CG OD1 OD2 REMARK 470 ARG A 156 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 176 CG CD CE NZ REMARK 470 GLN A 181 CG CD OE1 NE2 REMARK 470 LYS A 298 CG CD CE NZ REMARK 470 GLU A 307 CG CD OE1 OE2 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 OE1 GLN A 173 NH1 ARG A 177 2.13 REMARK 500 O GLY A 86 O HOH A 2040 2.16 REMARK 500 OE1 GLU A 53 NH1 ARG A 177 2.16 REMARK 500 REMARK 500 REMARK: NULL 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 CD1 ILE A 344 CD1 ILE A 344 8665 2.02 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 ASN A 113 49.46 -75.70 REMARK 500 ASP A 152 64.90 -66.44 REMARK 500 SER A 184 -172.17 -173.49 REMARK 500 ARG A 238 -7.03 87.71 REMARK 500 TYR A 276 -6.62 78.07 REMARK 500 ASN A 286 12.65 55.33 REMARK 500 REMARK 500 REMARK: NULL 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 ZN A1359 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 199 NE2 REMARK 620 2 ASP A 201 OD2 113.4 REMARK 620 3 HIS A 279 NE2 91.7 85.5 REMARK 620 4 DZA A1358 O01 87.2 157.8 102.5 REMARK 620 5 DZA A1358 N04 150.6 91.7 105.9 66.3 REMARK 620 6 HOH A2073 O 73.3 95.2 163.9 82.8 90.1 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 SO4 A 1350 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 1351 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 1352 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 1353 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 1354 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 1355 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 1356 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 1357 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE DZA A 1358 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 1359 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2WA4 RELATED DB: PDB REMARK 900 FACTOR INHIBITING HIF-1 ALPHA WITH N,3- DIHYDROXYBENZAMIDE REMARK 900 RELATED ID: 2Y0I RELATED DB: PDB REMARK 900 FACTOR INHIBITING HIF-1 ALPHA IN COMPLEX WITH TANKYRASE-2 (TNKS2) REMARK 900 FRAGMENT PEPTIDE (21-MER) 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: 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: 2YDE RELATED DB: PDB REMARK 900 FACTOR INHIBITING HIF-1 ALPHA IN COMPLEX WITH S-2- HYDROXYGLUTARATE 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: 1MZE RELATED DB: PDB REMARK 900 HUMAN FACTOR INHIBITING HIF (FIH1) REMARK 900 RELATED ID: 1MZF RELATED DB: PDB REMARK 900 HUMAN FACTOR INHIBITING HIF (FIH1) IN COMPLEX WITH 2- OXOGLUTARATE REMARK 900 RELATED ID: 2YC0 RELATED DB: PDB REMARK 900 FACTOR INHIBITING HIF-1 ALPHA IN COMPLEX WITH R-2- HYDROXYGLUTARATE REMARK 900 RELATED ID: 1YCI RELATED DB: PDB REMARK 900 FACTOR INHIBITING HIF-1 ALPHA IN COMPLEX WITH N-( CARBOXYCARBONYL)- REMARK 900 D-PHENYLALANINE 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: 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: 2XUM RELATED DB: PDB REMARK 900 FACTOR INHIBITING HIF (FIH) Q239H MUTANT IN COMPLEX WITH ZN(II), REMARK 900 NOG AND ASP-SUBSTRATE PEPTIDE (20-MER) 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 4AI8 A 1 349 UNP Q9NWT6 HIF1N_HUMAN 1 349 SEQADV 4AI8 GLY A -2 UNP Q9NWT6 EXPRESSION TAG SEQADV 4AI8 SER A -1 UNP Q9NWT6 EXPRESSION TAG SEQADV 4AI8 HIS A 0 UNP Q9NWT6 EXPRESSION TAG SEQRES 1 A 352 GLY SER HIS MET ALA ALA THR ALA ALA GLU ALA VAL ALA SEQRES 2 A 352 SER GLY SER GLY GLU PRO ARG GLU GLU ALA GLY ALA LEU SEQRES 3 A 352 GLY PRO ALA TRP ASP GLU SER GLN LEU ARG SER TYR SER SEQRES 4 A 352 PHE PRO THR ARG PRO ILE PRO ARG LEU SER GLN SER ASP SEQRES 5 A 352 PRO ARG ALA GLU GLU LEU ILE GLU ASN GLU GLU PRO VAL SEQRES 6 A 352 VAL LEU THR ASP THR ASN LEU VAL TYR PRO ALA LEU LYS SEQRES 7 A 352 TRP ASP LEU GLU TYR LEU GLN GLU ASN ILE GLY ASN GLY SEQRES 8 A 352 ASP PHE SER VAL TYR SER ALA SER THR HIS LYS PHE LEU SEQRES 9 A 352 TYR TYR ASP GLU LYS LYS MET ALA ASN PHE GLN ASN PHE SEQRES 10 A 352 LYS PRO ARG SER ASN ARG GLU GLU MET LYS PHE HIS GLU SEQRES 11 A 352 PHE VAL GLU LYS LEU GLN ASP ILE GLN GLN ARG GLY GLY SEQRES 12 A 352 GLU GLU ARG LEU TYR LEU GLN GLN THR LEU ASN ASP THR SEQRES 13 A 352 VAL GLY ARG LYS ILE VAL MET ASP PHE LEU GLY PHE ASN SEQRES 14 A 352 TRP ASN TRP ILE ASN LYS GLN GLN GLY LYS ARG GLY TRP SEQRES 15 A 352 GLY GLN LEU THR SER ASN LEU LEU LEU ILE GLY MET GLU SEQRES 16 A 352 GLY ASN VAL THR PRO ALA HIS TYR ASP GLU GLN GLN ASN SEQRES 17 A 352 PHE PHE ALA GLN ILE LYS GLY TYR LYS ARG CYS ILE LEU SEQRES 18 A 352 PHE PRO PRO ASP GLN PHE GLU CYS LEU TYR PRO TYR PRO SEQRES 19 A 352 VAL HIS HIS PRO CYS ASP ARG GLN SER GLN VAL ASP PHE SEQRES 20 A 352 ASP ASN PRO ASP TYR GLU ARG PHE PRO ASN PHE GLN ASN SEQRES 21 A 352 VAL VAL GLY TYR GLU THR VAL VAL GLY PRO GLY ASP VAL SEQRES 22 A 352 LEU TYR ILE PRO MET TYR TRP TRP HIS HIS ILE GLU SER SEQRES 23 A 352 LEU LEU ASN GLY GLY ILE THR ILE THR VAL ASN PHE TRP SEQRES 24 A 352 TYR LYS GLY ALA PRO THR PRO LYS ARG ILE GLU TYR PRO SEQRES 25 A 352 LEU LYS ALA HIS GLN LYS VAL ALA ILE MET ARG ASN ILE SEQRES 26 A 352 GLU LYS MET LEU GLY GLU ALA LEU GLY ASN PRO GLN GLU SEQRES 27 A 352 VAL GLY PRO LEU LEU ASN THR MET ILE LYS GLY ARG TYR SEQRES 28 A 352 ASN HET SO4 A1350 5 HET SO4 A1351 5 HET SO4 A1352 5 HET SO4 A1353 5 HET SO4 A1354 5 HET GOL A1355 6 HET GOL A1356 6 HET GOL A1357 6 HET DZA A1358 11 HET ZN A1359 1 HETNAM SO4 SULFATE ION HETNAM GOL GLYCEROL HETNAM DZA DAMINOZIDE HETNAM ZN ZINC ION HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 2 SO4 5(O4 S 2-) FORMUL 7 GOL 3(C3 H8 O3) FORMUL 10 DZA C6 H12 N2 O3 FORMUL 11 ZN ZN 2+ FORMUL 12 HOH *135(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 TRP A 76 5 7 HELIX 4 4 ASP A 77 GLY A 86 1 10 HELIX 5 5 ASP A 104 PHE A 111 5 8 HELIX 6 6 PHE A 125 GLY A 139 1 15 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 GLU A 335 LYS A 345 1 11 SHEET 1 AA 2 GLU A 18 GLU A 19 0 SHEET 2 AA 2 GLY A 24 PRO A 25 -1 O GLY A 24 N GLU A 19 SHEET 1 AB 5 THR A 39 PRO A 41 0 SHEET 2 AB 5 GLY A 260 VAL A 265 1 O GLY A 260 N ARG A 40 SHEET 3 AB 5 LYS A 214 PHE A 219 -1 O LYS A 214 N VAL A 265 SHEET 4 AB 5 TRP A 278 SER A 283 -1 O TRP A 278 N PHE A 219 SHEET 5 AB 5 VAL A 195 HIS A 199 -1 O THR A 196 N ILE A 281 SHEET 1 AC 9 ARG A 44 LEU A 45 0 SHEET 2 AC 9 VAL A 62 LEU A 64 1 O VAL A 63 N LEU A 45 SHEET 3 AC 9 VAL A 270 ILE A 273 -1 O VAL A 270 N LEU A 64 SHEET 4 AC 9 GLN A 204 LYS A 211 -1 O ASN A 205 N ILE A 273 SHEET 5 AC 9 THR A 290 TYR A 297 -1 O ILE A 291 N ILE A 210 SHEET 6 AC 9 LEU A 182 GLY A 190 -1 N THR A 183 O TRP A 296 SHEET 7 AC 9 ARG A 143 THR A 149 -1 O LEU A 146 N ILE A 189 SHEET 8 AC 9 ASP A 89 ALA A 95 -1 O SER A 91 N GLN A 147 SHEET 9 AC 9 ARG A 120 LYS A 124 -1 O GLU A 121 N VAL A 92 LINK NE2 HIS A 199 ZN ZN A1359 1555 1555 2.40 LINK OD2 ASP A 201 ZN ZN A1359 1555 1555 2.18 LINK NE2 HIS A 279 ZN ZN A1359 1555 1555 2.07 LINK O01 DZA A1358 ZN ZN A1359 1555 1555 2.25 LINK N04 DZA A1358 ZN ZN A1359 1555 1555 2.29 LINK ZN ZN A1359 O HOH A2073 1555 1555 2.14 CISPEP 1 TYR A 308 PRO A 309 0 0.83 SITE 1 AC1 4 LYS A 311 ALA A 312 HOH A2088 HOH A2119 SITE 1 AC2 4 PHE A 224 GLU A 225 LYS A 315 HOH A2129 SITE 1 AC3 5 LYS A 107 ARG A 320 LYS A 324 HOH A2124 SITE 2 AC3 5 HOH A2135 SITE 1 AC4 5 ARG A 143 GLU A 192 GLY A 193 LEU A 285 SITE 2 AC4 5 ASN A 286 SITE 1 AC5 3 GLY A 140 GLU A 141 GLU A 142 SITE 1 AC6 5 TYR A 102 GLN A 147 THR A 196 HOH A2073 SITE 2 AC6 5 HOH A2076 SITE 1 AC7 6 LYS A 99 TYR A 230 SER A 240 GLN A 241 SITE 2 AC7 6 ASP A 243 HOH A2101 SITE 1 AC8 3 TYR A 71 LYS A 75 ASN A 257 SITE 1 AC9 12 TYR A 145 THR A 196 HIS A 199 ASP A 201 SITE 2 AC9 12 ASN A 205 PHE A 207 LYS A 214 HIS A 279 SITE 3 AC9 12 ILE A 281 ASN A 294 ZN A1359 HOH A2073 SITE 1 BC1 5 HIS A 199 ASP A 201 HIS A 279 DZA A1358 SITE 2 BC1 5 HOH A2073 CRYST1 86.757 86.757 145.481 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 0.011526 0.000000 0.000000 0.00000 SCALE2 0.000000 0.011526 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006874 0.00000