HEADER TRANSFERASE 26-FEB-20 6Y6F TITLE CRYSTAL STRUCTURE OF STK17B (DRAK2) IN COMPLEX WITH PKIS43 COMPND MOL_ID: 1; COMPND 2 MOLECULE: SERINE/THREONINE-PROTEIN KINASE 17B; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: DAP KINASE-RELATED APOPTOSIS-INDUCING PROTEIN KINASE 2; COMPND 5 EC: 2.7.11.1; COMPND 6 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: STK17B, DRAK2; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_VARIANT: -R3-PRARE2; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PNIC28-BSA4 KEYWDS KINASE, KINASE INHIBITOR, PKIS, DRAK2, CHEMICAL PROBE, STRUCTURAL KEYWDS 2 GENOMICS, STRUCTURAL GENOMICS CONSORTIUM, SGC, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR A.CHAIKUAD,C.H.ARROWSMITH,A.M.EDWARDS,C.BOUNTRA,D.DREWRY,S.KNAPP, AUTHOR 2 STRUCTURAL GENOMICS CONSORTIUM (SGC) REVDAT 3 24-JAN-24 6Y6F 1 REMARK REVDAT 2 13-JAN-21 6Y6F 1 JRNL REVDAT 1 11-MAR-20 6Y6F 0 JRNL AUTH A.PICADO,A.CHAIKUAD,C.I.WELLS,S.SHRESTHA,W.J.ZUERCHER, JRNL AUTH 2 J.E.PICKETT,F.E.KWARCINSKI,P.SINHA,C.S.DE SILVA,R.ZUTSHI, JRNL AUTH 3 S.LIU,N.KANNAN,S.KNAPP,D.H.DREWRY,T.M.WILLSON JRNL TITL A CHEMICAL PROBE FOR DARK KINASE STK17B DERIVES ITS POTENCY JRNL TITL 2 AND HIGH SELECTIVITY THROUGH A UNIQUE P-LOOP CONFORMATION. JRNL REF J.MED.CHEM. V. 63 14626 2020 JRNL REFN ISSN 0022-2623 JRNL PMID 33215924 JRNL DOI 10.1021/ACS.JMEDCHEM.0C01174 REMARK 2 REMARK 2 RESOLUTION. 1.98 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0158 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.98 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 83.65 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 3 NUMBER OF REFLECTIONS : 27485 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) : 0.184 REMARK 3 R VALUE (WORKING SET) : 0.182 REMARK 3 FREE R VALUE : 0.223 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1464 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) : 1.98 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.03 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2003 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.95 REMARK 3 BIN R VALUE (WORKING SET) : 0.2750 REMARK 3 BIN FREE R VALUE SET COUNT : 109 REMARK 3 BIN FREE R VALUE : 0.3010 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2285 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 38 REMARK 3 SOLVENT ATOMS : 284 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 26.68 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.06000 REMARK 3 B22 (A**2) : -0.06000 REMARK 3 B33 (A**2) : 0.11000 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): 0.145 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.140 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.107 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 7.422 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.953 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.931 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2421 ; 0.016 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 2210 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3286 ; 1.667 ; 1.965 REMARK 3 BOND ANGLES OTHERS (DEGREES): 5156 ; 1.011 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 298 ; 6.518 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 118 ;39.213 ;25.254 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 424 ;13.218 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 10 ;21.243 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 368 ; 0.097 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2755 ; 0.007 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 471 ; 0.002 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 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 : 1 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 17 A 309 REMARK 3 ORIGIN FOR THE GROUP (A): 60.6935 11.7823 -5.6873 REMARK 3 T TENSOR REMARK 3 T11: 0.0117 T22: 0.0316 REMARK 3 T33: 0.0363 T12: -0.0019 REMARK 3 T13: -0.0067 T23: 0.0133 REMARK 3 L TENSOR REMARK 3 L11: 0.2041 L22: 0.5441 REMARK 3 L33: 0.2713 L12: 0.2408 REMARK 3 L13: -0.2057 L23: -0.3487 REMARK 3 S TENSOR REMARK 3 S11: 0.0293 S12: 0.0012 S13: 0.0234 REMARK 3 S21: 0.0088 S22: 0.0045 S23: 0.0081 REMARK 3 S31: -0.0102 S32: 0.0064 S33: -0.0338 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL 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: U VALUES : WITH TLS ADDED HYDROGENS REMARK 3 HAVE BEEN ADDED IN THE RIDING POSITIONS REMARK 4 REMARK 4 6Y6F COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 27-FEB-20. REMARK 100 THE DEPOSITION ID IS D_1292106983. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 26-MAY-17 REMARK 200 TEMPERATURE (KELVIN) : 100.0 REMARK 200 PH : 5.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : BESSY REMARK 200 BEAMLINE : 14.2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.91840 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS3 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : IMOSFLM REMARK 200 DATA SCALING SOFTWARE : AIMLESS 0.5.32 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 28957 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.980 REMARK 200 RESOLUTION RANGE LOW (A) : 83.650 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 200 DATA REDUNDANCY : 6.500 REMARK 200 R MERGE (I) : 0.17400 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 7.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.98 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.09 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 6.70 REMARK 200 R MERGE FOR SHELL (I) : 0.87700 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 2.000 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: 3LM5 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 54.24 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.69 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 16% PEG 3350, 0.1M NACL, 0.1M BIS-TRIS REMARK 280 5.5, PH 5.5, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 277.15K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 41 2 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,X,Z+1/4 REMARK 290 4555 Y,-X,Z+3/4 REMARK 290 5555 -X,Y,-Z REMARK 290 6555 X,-Y,-Z+1/2 REMARK 290 7555 Y,X,-Z+3/4 REMARK 290 8555 -Y,-X,-Z+1/4 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 57.36000 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 28.68000 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 86.04000 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 57.36000 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 86.04000 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 28.68000 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 TOTAL BURIED SURFACE AREA: 820 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 15090 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: 13.0 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 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 A 596 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 3 REMARK 465 HIS A 4 REMARK 465 HIS A 5 REMARK 465 HIS A 6 REMARK 465 HIS A 7 REMARK 465 HIS A 8 REMARK 465 HIS A 9 REMARK 465 SER A 10 REMARK 465 SER A 11 REMARK 465 GLY A 12 REMARK 465 VAL A 13 REMARK 465 ASP A 14 REMARK 465 LEU A 15 REMARK 465 GLY A 16 REMARK 465 GLY A 187 REMARK 465 HIS A 188 REMARK 465 ALA A 189 REMARK 465 CYS A 190 REMARK 465 GLU A 191 REMARK 465 LEU A 192 REMARK 465 ARG A 193 REMARK 465 GLU A 194 REMARK 465 ILE A 195 REMARK 465 SER A 310 REMARK 465 SER A 311 REMARK 465 GLN A 312 REMARK 465 THR A 313 REMARK 465 GLN A 314 REMARK 465 ASP A 315 REMARK 465 HIS A 316 REMARK 465 SER A 317 REMARK 465 VAL A 318 REMARK 465 ARG A 319 REMARK 465 SER A 320 REMARK 465 SER A 321 REMARK 465 GLU A 322 REMARK 465 ASP A 323 REMARK 465 LYS A 324 REMARK 465 THR A 325 REMARK 465 SER A 326 REMARK 465 LYS A 327 REMARK 465 SER A 328 REMARK 465 SER A 329 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 THR A 17 OG1 CG2 REMARK 470 MET A 129 CG SD CE 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 A 503 O HOH A 507 2.03 REMARK 500 OE2 GLU A 80 O2 EDO A 402 2.10 REMARK 500 OE1 GLN A 23 O HOH A 501 2.15 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 O HOH A 501 O HOH A 501 5655 2.12 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 ARG A 67 NE - CZ - NH1 ANGL. DEV. = 3.3 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 ASP A 158 39.48 -146.98 REMARK 500 ASP A 179 83.88 65.40 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 LEU A 126 ALA A 127 147.97 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A 784 DISTANCE = 6.56 ANGSTROMS REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue OD2 A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 403 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 404 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 405 DBREF 6Y6F A 25 329 UNP O94768 ST17B_HUMAN 25 329 SEQADV 6Y6F MET A 3 UNP O94768 INITIATING METHIONINE SEQADV 6Y6F HIS A 4 UNP O94768 EXPRESSION TAG SEQADV 6Y6F HIS A 5 UNP O94768 EXPRESSION TAG SEQADV 6Y6F HIS A 6 UNP O94768 EXPRESSION TAG SEQADV 6Y6F HIS A 7 UNP O94768 EXPRESSION TAG SEQADV 6Y6F HIS A 8 UNP O94768 EXPRESSION TAG SEQADV 6Y6F HIS A 9 UNP O94768 EXPRESSION TAG SEQADV 6Y6F SER A 10 UNP O94768 EXPRESSION TAG SEQADV 6Y6F SER A 11 UNP O94768 EXPRESSION TAG SEQADV 6Y6F GLY A 12 UNP O94768 EXPRESSION TAG SEQADV 6Y6F VAL A 13 UNP O94768 EXPRESSION TAG SEQADV 6Y6F ASP A 14 UNP O94768 EXPRESSION TAG SEQADV 6Y6F LEU A 15 UNP O94768 EXPRESSION TAG SEQADV 6Y6F GLY A 16 UNP O94768 EXPRESSION TAG SEQADV 6Y6F THR A 17 UNP O94768 EXPRESSION TAG SEQADV 6Y6F GLU A 18 UNP O94768 EXPRESSION TAG SEQADV 6Y6F ASN A 19 UNP O94768 EXPRESSION TAG SEQADV 6Y6F LEU A 20 UNP O94768 EXPRESSION TAG SEQADV 6Y6F TYR A 21 UNP O94768 EXPRESSION TAG SEQADV 6Y6F PHE A 22 UNP O94768 EXPRESSION TAG SEQADV 6Y6F GLN A 23 UNP O94768 EXPRESSION TAG SEQADV 6Y6F SER A 24 UNP O94768 EXPRESSION TAG SEQRES 1 A 327 MET HIS HIS HIS HIS HIS HIS SER SER GLY VAL ASP LEU SEQRES 2 A 327 GLY THR GLU ASN LEU TYR PHE GLN SER MET GLU ASN PHE SEQRES 3 A 327 ASN ASN PHE TYR ILE LEU THR SER LYS GLU LEU GLY ARG SEQRES 4 A 327 GLY LYS PHE ALA VAL VAL ARG GLN CYS ILE SER LYS SER SEQRES 5 A 327 THR GLY GLN GLU TYR ALA ALA LYS PHE LEU LYS LYS ARG SEQRES 6 A 327 ARG ARG GLY GLN ASP CYS ARG ALA GLU ILE LEU HIS GLU SEQRES 7 A 327 ILE ALA VAL LEU GLU LEU ALA LYS SER CYS PRO ARG VAL SEQRES 8 A 327 ILE ASN LEU HIS GLU VAL TYR GLU ASN THR SER GLU ILE SEQRES 9 A 327 ILE LEU ILE LEU GLU TYR ALA ALA GLY GLY GLU ILE PHE SEQRES 10 A 327 SER LEU CYS LEU PRO GLU LEU ALA GLU MET VAL SER GLU SEQRES 11 A 327 ASN ASP VAL ILE ARG LEU ILE LYS GLN ILE LEU GLU GLY SEQRES 12 A 327 VAL TYR TYR LEU HIS GLN ASN ASN ILE VAL HIS LEU ASP SEQRES 13 A 327 LEU LYS PRO GLN ASN ILE LEU LEU SER SER ILE TYR PRO SEQRES 14 A 327 LEU GLY ASP ILE LYS ILE VAL ASP PHE GLY MET SER ARG SEQRES 15 A 327 LYS ILE GLY HIS ALA CYS GLU LEU ARG GLU ILE MET GLY SEQRES 16 A 327 THR PRO GLU TYR LEU ALA PRO GLU ILE LEU ASN TYR ASP SEQRES 17 A 327 PRO ILE THR THR ALA THR ASP MET TRP ASN ILE GLY ILE SEQRES 18 A 327 ILE ALA TYR MET LEU LEU THR HIS THR SER PRO PHE VAL SEQRES 19 A 327 GLY GLU ASP ASN GLN GLU THR TYR LEU ASN ILE SER GLN SEQRES 20 A 327 VAL ASN VAL ASP TYR SER GLU GLU THR PHE SER SER VAL SEQRES 21 A 327 SER GLN LEU ALA THR ASP PHE ILE GLN SER LEU LEU VAL SEQRES 22 A 327 LYS ASN PRO GLU LYS ARG PRO THR ALA GLU ILE CYS LEU SEQRES 23 A 327 SER HIS SER TRP LEU GLN GLN TRP ASP PHE GLU ASN LEU SEQRES 24 A 327 PHE HIS PRO GLU GLU THR SER SER SER SER GLN THR GLN SEQRES 25 A 327 ASP HIS SER VAL ARG SER SER GLU ASP LYS THR SER LYS SEQRES 26 A 327 SER SER HET OD2 A 401 22 HET EDO A 402 4 HET EDO A 403 4 HET EDO A 404 8 HET EDO A 405 4 HETNAM OD2 2-[6-(4-METHYLSULFANYLPHENYL)THIENO[3,2-D]PYRIMIDIN-4- HETNAM 2 OD2 YL]SULFANYLETHANOIC ACID HETNAM EDO 1,2-ETHANEDIOL HETSYN EDO ETHYLENE GLYCOL FORMUL 2 OD2 C15 H12 N2 O2 S3 FORMUL 3 EDO 4(C2 H6 O2) FORMUL 7 HOH *284(H2 O) HELIX 1 AA1 MET A 25 PHE A 31 1 7 HELIX 2 AA2 CYS A 73 ALA A 87 1 15 HELIX 3 AA3 LYS A 88 CYS A 90 5 3 HELIX 4 AA4 PHE A 119 LEU A 123 5 5 HELIX 5 AA5 SER A 131 ASN A 152 1 22 HELIX 6 AA6 LYS A 160 GLN A 162 5 3 HELIX 7 AA7 THR A 198 LEU A 202 5 5 HELIX 8 AA8 ALA A 203 ASN A 208 1 6 HELIX 9 AA9 THR A 214 HIS A 231 1 18 HELIX 10 AB1 ASP A 239 GLN A 249 1 11 HELIX 11 AB2 SER A 263 LEU A 274 1 12 HELIX 12 AB3 ASN A 277 ARG A 281 5 5 HELIX 13 AB4 THR A 283 SER A 289 1 7 HELIX 14 AB5 HIS A 290 GLN A 294 5 5 SHEET 1 AA1 6 GLN A 23 SER A 24 0 SHEET 2 AA1 6 LEU A 96 GLU A 101 1 O GLU A 101 N GLN A 23 SHEET 3 AA1 6 GLU A 105 GLU A 111 -1 O ILE A 109 N HIS A 97 SHEET 4 AA1 6 GLU A 58 LYS A 65 -1 N ALA A 60 O LEU A 110 SHEET 5 AA1 6 ALA A 45 SER A 52 -1 N ARG A 48 O ALA A 61 SHEET 6 AA1 6 TYR A 32 LEU A 34 -1 N ILE A 33 O ILE A 51 SHEET 1 AA2 2 ARG A 67 ARG A 68 0 SHEET 2 AA2 2 GLN A 71 ASP A 72 -1 O GLN A 71 N ARG A 68 SHEET 1 AA3 3 GLY A 116 GLU A 117 0 SHEET 2 AA3 3 ILE A 164 LEU A 166 -1 O LEU A 166 N GLY A 116 SHEET 3 AA3 3 ILE A 175 ILE A 177 -1 O LYS A 176 N LEU A 165 SHEET 1 AA4 2 ILE A 154 VAL A 155 0 SHEET 2 AA4 2 ARG A 184 LYS A 185 -1 O ARG A 184 N VAL A 155 CISPEP 1 TYR A 170 PRO A 171 0 -9.30 SITE 1 AC1 12 LEU A 39 ARG A 41 ALA A 60 LYS A 62 SITE 2 AC1 12 GLU A 111 TYR A 112 ALA A 113 GLY A 116 SITE 3 AC1 12 LEU A 165 ASP A 179 EDO A 402 HOH A 516 SITE 1 AC2 5 GLU A 80 VAL A 178 ASP A 179 PHE A 180 SITE 2 AC2 5 OD2 A 401 SITE 1 AC3 5 TYR A 32 SER A 52 SER A 54 HIS A 97 SITE 2 AC3 5 HOH A 611 SITE 1 AC4 5 ARG A 41 GLY A 42 LYS A 160 HOH A 506 SITE 2 AC4 5 HOH A 527 SITE 1 AC5 5 PRO A 234 ASN A 246 ASN A 251 HOH A 557 SITE 2 AC5 5 HOH A 621 CRYST1 83.650 83.650 114.720 90.00 90.00 90.00 P 41 2 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 0.011955 0.000000 0.000000 0.00000 SCALE2 0.000000 0.011955 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008717 0.00000