HEADER TRANSFERASE 29-NOV-07 3BHY TITLE CRYSTAL STRUCTURE OF HUMAN DEATH ASSOCIATED PROTEIN KINASE 3 (DAPK3) TITLE 2 IN COMPLEX WITH A BETA-CARBOLINE LIGAND COMPND MOL_ID: 1; COMPND 2 MOLECULE: DEATH-ASSOCIATED PROTEIN KINASE 3; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: PROTEIN KINASE DOMAIN: RESIDUES 9-289; COMPND 5 SYNONYM: DAP KINASE 3, DAP-LIKE KINASE, DLK, ZIP-KINASE; COMPND 6 EC: 2.7.11.1; 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: DAPK3, ZIPK; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3)(R3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PNIC28-BSA4 KEYWDS DEATH ASSOCIATED KINASE, DAPK3, ZIP KINASE, ZIPK, DAP KINASE 3, DAP KEYWDS 2 LIKE KINASE, DLK, STRUCTURAL GENOMICS CONSORTIUM, SGC, APOPTOSIS, KEYWDS 3 ATP-BINDING, CHROMATIN REGULATOR, NUCLEOTIDE-BINDING, NUCLEUS, KEYWDS 4 SERINE/THREONINE-PROTEIN KINASE, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR P.FILIPPAKOPOULOS,P.RELLOS,J.ESWARAN,O.FEDOROV,G.BERRIDGE,F.NIESEN, AUTHOR 2 F.BRACHER,K.HUBER,A.C.W.PIKE,A.ROOS,F.VON DELFT,C.H.ARROWSMITH, AUTHOR 3 A.M.EDWARDS,J.WEIGELT,S.KNAPP,STRUCTURAL GENOMICS CONSORTIUM (SGC) REVDAT 6 30-AUG-23 3BHY 1 REMARK SEQADV REVDAT 5 25-OCT-17 3BHY 1 REMARK REVDAT 4 04-SEP-13 3BHY 1 JRNL REVDAT 3 18-JAN-12 3BHY 1 JRNL VERSN REVDAT 2 24-FEB-09 3BHY 1 VERSN REVDAT 1 25-DEC-07 3BHY 0 JRNL AUTH K.HUBER,L.BRAULT,O.FEDOROV,C.GASSER,P.FILIPPAKOPOULOS, JRNL AUTH 2 A.N.BULLOCK,D.FABBRO,J.TRAPPE,J.SCHWALLER,S.KNAPP,F.BRACHER JRNL TITL 7,8-DICHLORO-1-OXO-BETA-CARBOLINES AS A VERSATILE SCAFFOLD JRNL TITL 2 FOR THE DEVELOPMENT OF POTENT AND SELECTIVE KINASE JRNL TITL 3 INHIBITORS WITH UNUSUAL BINDING MODES. JRNL REF J.MED.CHEM. V. 55 403 2012 JRNL REFN ISSN 0022-2623 JRNL PMID 22136433 JRNL DOI 10.1021/JM201286Z REMARK 2 REMARK 2 RESOLUTION. 1.24 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 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) : 1.24 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 45.36 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.5 REMARK 3 NUMBER OF REFLECTIONS : 68317 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) : 0.146 REMARK 3 R VALUE (WORKING SET) : 0.143 REMARK 3 FREE R VALUE : 0.187 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 3453 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) : 1.24 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.27 REMARK 3 REFLECTION IN BIN (WORKING SET) : 4665 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 98.24 REMARK 3 BIN R VALUE (WORKING SET) : 0.2090 REMARK 3 BIN FREE R VALUE SET COUNT : 259 REMARK 3 BIN FREE R VALUE : 0.2510 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2109 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 26 REMARK 3 SOLVENT ATOMS : 301 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 15.98 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.34000 REMARK 3 B22 (A**2) : -0.42000 REMARK 3 B33 (A**2) : 0.06000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -0.06000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.044 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.046 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.031 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 1.561 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.977 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.968 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2198 ; 0.016 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 1498 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 2976 ; 1.703 ; 1.979 REMARK 3 BOND ANGLES OTHERS (DEGREES): 3646 ; 1.996 ; 3.001 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 266 ; 5.657 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 99 ;31.863 ;23.939 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 395 ;12.942 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 15 ;19.334 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 340 ; 0.128 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2396 ; 0.007 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 437 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 444 ; 0.249 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 1566 ; 0.192 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1088 ; 0.184 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): 1220 ; 0.095 ; 0.200 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 181 ; 0.157 ; 0.200 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): 19 ; 0.135 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 58 ; 0.219 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 32 ; 0.173 ; 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): 1386 ; 5.528 ; 3.000 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 541 ; 3.402 ; 3.000 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2164 ; 6.382 ; 5.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 949 ; 8.964 ; 8.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 812 ;10.898 ;11.000 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): 4101 ; 4.887 ; 3.000 REMARK 3 SPHERICITY; FREE ATOMS (A**2): 304 ;19.814 ; 3.000 REMARK 3 SPHERICITY; BONDED ATOMS (A**2): 3654 ; 8.856 ; 3.000 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 3BHY COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 30-NOV-07. REMARK 100 THE DEPOSITION ID IS D_1000045543. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 19-NOV-07 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SLS REMARK 200 BEAMLINE : X10SA REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97926 REMARK 200 MONOCHROMATOR : SI(111) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 225 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO, HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 68318 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.240 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.5 REMARK 200 DATA REDUNDANCY : 3.700 REMARK 200 R MERGE (I) : 0.07900 REMARK 200 R SYM (I) : 0.07900 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 14.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.24 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.28 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 3.60 REMARK 200 R MERGE FOR SHELL (I) : 0.70700 REMARK 200 R SYM FOR SHELL (I) : 0.70700 REMARK 200 <I/SIGMA(I)> FOR SHELL : 2.040 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 1YRP REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 35.46 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.91 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1M SPG (SUCROSE-PHOSPHATE-GLUTAMATE REMARK 280 BUFFER) PH 6.0, 30% PEG 1000, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y+1/2,-Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 45.34000 REMARK 290 SMTRY3 2 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: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA 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 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 SER A 7 REMARK 465 ALA A 170 REMARK 465 GLY A 171 REMARK 465 ASN A 172 REMARK 465 GLU A 173 REMARK 465 PHE A 174 REMARK 465 LYS A 175 REMARK 465 ASN A 176 REMARK 465 ILE A 177 REMARK 465 ARG A 284 REMARK 465 GLY A 285 REMARK 465 GLU A 286 REMARK 465 ASP A 287 REMARK 465 SER A 288 REMARK 465 GLY A 289 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 MET A 8 CG SD CE REMARK 470 GLU A 10 CD OE1 OE2 REMARK 470 GLU A 17 CG CD OE1 OE2 REMARK 470 LYS A 45 NZ REMARK 470 ARG A 53 CD NE CZ NH1 NH2 REMARK 470 ARG A 54 CG CD NE CZ NH1 NH2 REMARK 470 GLU A 59 CG CD OE1 OE2 REMARK 470 GLU A 62 CD OE1 OE2 REMARK 470 ARG A 72 CG CD NE CZ NH1 NH2 REMARK 470 ILE A 82 CD1 REMARK 470 GLU A 107 CD OE1 OE2 REMARK 470 LYS A 150 NZ REMARK 470 LYS A 167 CD CE NZ REMARK 470 GLU A 169 CG CD OE1 OE2 REMARK 470 PHE A 178 CG CD1 CD2 CE1 CE2 CZ REMARK 470 LYS A 222 CD CE NZ REMARK 470 LYS A 276 NZ REMARK 470 ILE A 278 CG1 CG2 CD1 REMARK 470 ARG A 279 CG CD NE CZ NH1 NH2 REMARK 470 ARG A 281 CG CD NE CZ NH1 NH2 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 GLU A 18 CD GLU A 18 OE2 -0.067 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 LYS A 121 CD - CE - NZ ANGL. DEV. = -21.3 DEGREES REMARK 500 ASP A 139 CB - CG - OD1 ANGL. DEV. = 5.5 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 ASN A 85 -162.08 -124.48 REMARK 500 GLU A 109 -58.09 72.33 REMARK 500 ASP A 139 44.12 -145.55 REMARK 500 ASN A 151 40.07 -97.75 REMARK 500 ASP A 161 76.51 62.51 REMARK 500 REMARK 500 REMARK: NULL REMARK 600 REMARK 600 HETEROGEN REMARK 600 AUTHORS STATE THAT ACCORDING TO ELECTRON DENSITY MAPS, REMARK 600 ONE OF TWO CHLORINE ATOMS OF THE LIGAND 7CP (NAMELY CL1F) REMARK 600 SEEMS TO BE CLEAVED. AUTHORS REFINED ITS OCCUPANCY AS 50% REMARK 600 AND STILL WERE ABLE TO IDENTIFY AN EXTRA DENSITY PRESENT REMARK 600 BETWEEN THE TWO CHLORINES (NAMELY CL1F AND CL1E). THIS REMARK 600 EXTRA DENSITY HAS BEEN MODELED AS A CHLORIDE ION (NAMELY CL). REMARK 600 AUTHORS CAN NOT EXPLAIN WHY THE CARBON-CHLORINE BOND WAS REMARK 600 BROKEN, HOWEVER THEY DO SUSPECT THAT THE PHOTOLYTIC CLEAVAGE REMARK 600 IS THE ANSWER. REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 1 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE 7CP A 600 DBREF 3BHY A 9 289 UNP O43293 DAPK3_HUMAN 9 289 SEQADV 3BHY SER A 7 UNP O43293 EXPRESSION TAG SEQADV 3BHY MET A 8 UNP O43293 EXPRESSION TAG SEQRES 1 A 283 SER MET VAL GLU ASP HIS TYR GLU MET GLY GLU GLU LEU SEQRES 2 A 283 GLY SER GLY GLN PHE ALA ILE VAL ARG LYS CYS ARG GLN SEQRES 3 A 283 LYS GLY THR GLY LYS GLU TYR ALA ALA LYS PHE ILE LYS SEQRES 4 A 283 LYS ARG ARG LEU SER SER SER ARG ARG GLY VAL SER ARG SEQRES 5 A 283 GLU GLU ILE GLU ARG GLU VAL ASN ILE LEU ARG GLU ILE SEQRES 6 A 283 ARG HIS PRO ASN ILE ILE THR LEU HIS ASP ILE PHE GLU SEQRES 7 A 283 ASN LYS THR ASP VAL VAL LEU ILE LEU GLU LEU VAL SER SEQRES 8 A 283 GLY GLY GLU LEU PHE ASP PHE LEU ALA GLU LYS GLU SER SEQRES 9 A 283 LEU THR GLU ASP GLU ALA THR GLN PHE LEU LYS GLN ILE SEQRES 10 A 283 LEU ASP GLY VAL HIS TYR LEU HIS SER LYS ARG ILE ALA SEQRES 11 A 283 HIS PHE ASP LEU LYS PRO GLU ASN ILE MET LEU LEU ASP SEQRES 12 A 283 LYS ASN VAL PRO ASN PRO ARG ILE LYS LEU ILE ASP PHE SEQRES 13 A 283 GLY ILE ALA HIS LYS ILE GLU ALA GLY ASN GLU PHE LYS SEQRES 14 A 283 ASN ILE PHE GLY THR PRO GLU PHE VAL ALA PRO GLU ILE SEQRES 15 A 283 VAL ASN TYR GLU PRO LEU GLY LEU GLU ALA ASP MET TRP SEQRES 16 A 283 SER ILE GLY VAL ILE THR TYR ILE LEU LEU SER GLY ALA SEQRES 17 A 283 SER PRO PHE LEU GLY GLU THR LYS GLN GLU THR LEU THR SEQRES 18 A 283 ASN ILE SER ALA VAL ASN TYR ASP PHE ASP GLU GLU TYR SEQRES 19 A 283 PHE SER ASN THR SER GLU LEU ALA LYS ASP PHE ILE ARG SEQRES 20 A 283 ARG LEU LEU VAL LYS ASP PRO LYS ARG ARG MET THR ILE SEQRES 21 A 283 ALA GLN SER LEU GLU HIS SER TRP ILE LYS ALA ILE ARG SEQRES 22 A 283 ARG ARG ASN VAL ARG GLY GLU ASP SER GLY HET CL A 1 1 HET 7CP A 600 25 HETNAM CL CHLORIDE ION HETNAM 7CP (4R)-7,8-DICHLORO-1',9-DIMETHYL-1-OXO-1,2,4,9- HETNAM 2 7CP TETRAHYDROSPIRO[BETA-CARBOLINE-3,4'-PIPERIDINE]-4- HETNAM 3 7CP CARBONITRILE FORMUL 2 CL CL 1- FORMUL 3 7CP C18 H18 CL2 N4 O FORMUL 4 HOH *301(H2 O) HELIX 1 1 MET A 8 HIS A 12 1 5 HELIX 2 2 SER A 57 ILE A 71 1 15 HELIX 3 3 GLU A 100 GLU A 109 1 10 HELIX 4 4 THR A 112 LYS A 133 1 22 HELIX 5 5 LYS A 141 GLU A 143 5 3 HELIX 6 6 THR A 180 VAL A 184 5 5 HELIX 7 7 ALA A 185 ASN A 190 1 6 HELIX 8 8 LEU A 196 GLY A 213 1 18 HELIX 9 9 THR A 221 ALA A 231 1 11 HELIX 10 10 ASP A 237 SER A 242 1 6 HELIX 11 11 SER A 245 ARG A 254 1 10 HELIX 12 12 ASP A 259 ARG A 263 5 5 HELIX 13 13 THR A 265 HIS A 272 1 8 HELIX 14 14 HIS A 272 ARG A 281 1 10 SHEET 1 A 5 TYR A 13 SER A 21 0 SHEET 2 A 5 ALA A 25 GLN A 32 -1 O LYS A 29 N GLY A 16 SHEET 3 A 5 GLU A 38 LYS A 45 -1 O ALA A 41 N ARG A 28 SHEET 4 A 5 ASP A 88 GLU A 94 -1 O LEU A 93 N ALA A 40 SHEET 5 A 5 LEU A 79 GLU A 84 -1 N PHE A 83 O VAL A 90 SHEET 1 B 2 ILE A 135 ALA A 136 0 SHEET 2 B 2 HIS A 166 LYS A 167 -1 O HIS A 166 N ALA A 136 SHEET 1 C 2 ILE A 145 LEU A 147 0 SHEET 2 C 2 ILE A 157 LEU A 159 -1 O LYS A 158 N MET A 146 SITE 1 AC1 4 ALA A 40 GLU A 94 VAL A 96 7CP A 600 SITE 1 AC2 11 CL A 1 GLY A 20 VAL A 27 ILE A 77 SITE 2 AC2 11 GLU A 94 VAL A 96 GLU A 143 ASN A 144 SITE 3 AC2 11 MET A 146 ILE A 160 ASP A 161 CRYST1 33.549 90.680 41.464 90.00 100.45 90.00 P 1 21 1 2 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 0.029807 0.000000 0.005500 0.00000 SCALE2 0.000000 0.011028 0.000000 0.00000 SCALE3 0.000000 0.000000 0.024524 0.00000