PDB Short entry for 1Y57 HEADER TRANSFERASE 02-DEC-04 1Y57 TITLE STRUCTURE OF UNPHOSPHORYLATED C-SRC IN COMPLEX WITH AN INHIBITOR COMPND MOL_ID: 1; COMPND 2 MOLECULE: PROTO-ONCOGENE TYROSINE-PROTEIN KINASE SRC; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: SH3 SH2 AND KINASE DOMAINS; COMPND 5 SYNONYM: P60-SRC, C-SRC; COMPND 6 EC: 2.7.1.112; 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: SRC; SOURCE 6 EXPRESSION_SYSTEM: SPODOPTERA FRUGIPERDA; SOURCE 7 EXPRESSION_SYSTEM_COMMON: FALL ARMYWORM; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 7108; SOURCE 9 EXPRESSION_SYSTEM_CELL_LINE: SF9; SOURCE 10 EXPRESSION_SYSTEM_VECTOR_TYPE: BACULOVIRUS; SOURCE 11 EXPRESSION_SYSTEM_VECTOR: PVL1392 KEYWDS KINASE STRUCTURE, SH3, SH2, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR S.W.COWAN-JACOB,G.FENDRICH,P.W.MANLEY,W.JAHNKE,D.FABBRO,J.LIEBETANZ, AUTHOR 2 T.MEYER REVDAT 5 13-MAR-24 1Y57 1 REMARK SEQADV REVDAT 4 15-APR-15 1Y57 1 DBREF REVDAT 3 13-JUL-11 1Y57 1 VERSN REVDAT 2 24-FEB-09 1Y57 1 VERSN REVDAT 1 21-JUN-05 1Y57 0 JRNL AUTH S.W.COWAN-JACOB,G.FENDRICH,P.W.MANLEY,W.JAHNKE,D.FABBRO, JRNL AUTH 2 J.LIEBETANZ,T.MEYER JRNL TITL THE CRYSTAL STRUCTURE OF A C-SRC COMPLEX IN AN ACTIVE JRNL TITL 2 CONFORMATION SUGGESTS POSSIBLE STEPS IN C-SRC ACTIVATION JRNL REF STRUCTURE V. 13 861 2005 JRNL REFN ISSN 0969-2126 JRNL PMID 15939018 JRNL DOI 10.1016/J.STR.2005.03.012 REMARK 2 REMARK 2 RESOLUTION. 1.91 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.1.24 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) : 1.91 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 40.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.5 REMARK 3 NUMBER OF REFLECTIONS : 52747 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) : 0.189 REMARK 3 R VALUE (WORKING SET) : 0.188 REMARK 3 FREE R VALUE : 0.213 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 2813 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) : 1.91 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.96 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3692 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.2290 REMARK 3 BIN FREE R VALUE SET COUNT : 197 REMARK 3 BIN FREE R VALUE : 0.2600 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3600 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 61 REMARK 3 SOLVENT ATOMS : 315 REMARK 3 REMARK 3 B VALUES. REMARK 3 B VALUE TYPE : LIKELY RESIDUAL REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 27.52 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.11000 REMARK 3 B22 (A**2) : -0.11000 REMARK 3 B33 (A**2) : 0.22000 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): 0.120 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.114 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.070 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.357 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.962 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.951 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3746 ; 0.011 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): 3326 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5082 ; 1.253 ; 1.972 REMARK 3 BOND ANGLES OTHERS (DEGREES): 7732 ; 0.793 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 451 ; 6.002 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): NULL ; NULL ; NULL REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 544 ; 0.078 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4127 ; 0.005 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 779 ; 0.002 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 633 ; 0.192 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 3674 ; 0.240 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): 2041 ; 0.079 ; 0.200 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 201 ; 0.146 ; 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): 2 ; 0.066 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 60 ; 0.283 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 23 ; 0.196 ; 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): 2251 ; 1.130 ; 2.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3632 ; 1.962 ; 3.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1495 ; 2.847 ; 4.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1450 ; 4.591 ; 6.000 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): 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 : 4 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 2 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 82 A 147 REMARK 3 RESIDUE RANGE : A 248 A 258 REMARK 3 ORIGIN FOR THE GROUP (A): -16.1540 42.8420 54.5290 REMARK 3 T TENSOR REMARK 3 T11: 0.0607 T22: 0.0460 REMARK 3 T33: 0.0740 T12: -0.0400 REMARK 3 T13: 0.0234 T23: 0.0060 REMARK 3 L TENSOR REMARK 3 L11: 2.2814 L22: 0.6142 REMARK 3 L33: 0.8281 L12: -0.1574 REMARK 3 L13: -0.2228 L23: -0.5087 REMARK 3 S TENSOR REMARK 3 S11: 0.0365 S12: 0.0979 S13: 0.0850 REMARK 3 S21: 0.0299 S22: 0.0229 S23: 0.0151 REMARK 3 S31: -0.1481 S32: 0.0356 S33: -0.0594 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 148 A 247 REMARK 3 ORIGIN FOR THE GROUP (A): -31.4710 61.4380 41.5380 REMARK 3 T TENSOR REMARK 3 T11: 0.0722 T22: 0.0225 REMARK 3 T33: 0.1130 T12: 0.0399 REMARK 3 T13: 0.0523 T23: 0.0346 REMARK 3 L TENSOR REMARK 3 L11: 1.0825 L22: 1.2697 REMARK 3 L33: 1.7283 L12: 0.3025 REMARK 3 L13: -0.2720 L23: -0.6714 REMARK 3 S TENSOR REMARK 3 S11: 0.0008 S12: -0.0023 S13: -0.0297 REMARK 3 S21: 0.1588 S22: 0.1093 S23: 0.2510 REMARK 3 S31: 0.0072 S32: -0.1707 S33: -0.1100 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 259 A 340 REMARK 3 ORIGIN FOR THE GROUP (A): 10.7910 35.5140 49.0570 REMARK 3 T TENSOR REMARK 3 T11: 0.0262 T22: 0.0756 REMARK 3 T33: 0.0709 T12: -0.0385 REMARK 3 T13: 0.0209 T23: -0.0248 REMARK 3 L TENSOR REMARK 3 L11: 0.5129 L22: 1.3716 REMARK 3 L33: 1.1107 L12: -0.0974 REMARK 3 L13: -0.0034 L23: 0.5969 REMARK 3 S TENSOR REMARK 3 S11: -0.0032 S12: 0.0807 S13: -0.0017 REMARK 3 S21: 0.0656 S22: 0.0915 S23: -0.0540 REMARK 3 S31: -0.0363 S32: 0.0911 S33: -0.0883 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 341 A 533 REMARK 3 ORIGIN FOR THE GROUP (A): 10.5240 25.3590 25.4770 REMARK 3 T TENSOR REMARK 3 T11: 0.0351 T22: 0.0740 REMARK 3 T33: 0.0632 T12: 0.0362 REMARK 3 T13: -0.0235 T23: -0.0219 REMARK 3 L TENSOR REMARK 3 L11: 1.3044 L22: 0.3812 REMARK 3 L33: 0.6151 L12: -0.4177 REMARK 3 L13: -0.0282 L23: -0.0076 REMARK 3 S TENSOR REMARK 3 S11: 0.0366 S12: 0.1292 S13: -0.0188 REMARK 3 S21: -0.0255 S22: -0.0530 S23: -0.0104 REMARK 3 S31: -0.0233 S32: -0.1098 S33: 0.0164 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 : 1.40 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 1Y57 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 08-DEC-04. REMARK 100 THE DEPOSITION ID IS D_1000031130. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 29-AUG-02 REMARK 200 TEMPERATURE (KELVIN) : 94 REMARK 200 PH : 8.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SLS REMARK 200 BEAMLINE : X06SA REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.00799 REMARK 200 MONOCHROMATOR : CRYSTAL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 55642 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.900 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.90 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.97 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.6 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 64.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.40 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: AMMONIUM SULFATE, TRIS, GLYCEROL, PH REMARK 280 8.0, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 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 61.86550 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 53.10600 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 53.10600 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 30.93275 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 53.10600 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 53.10600 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 92.79825 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 53.10600 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 53.10600 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 30.93275 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 53.10600 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 53.10600 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 92.79825 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 61.86550 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 300 REMARK: MONOMER IN SOLUTION 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 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 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 115 CD OE1 OE2 REMARK 470 LYS A 206 CD CE NZ REMARK 470 ARG A 217 CD NE CZ NH1 NH2 REMARK 470 ARG A 469 CG CD NE CZ NH1 NH2 REMARK 470 GLU A 470 CG CD OE1 OE2 REMARK 470 ASP A 473 CG OD1 OD2 REMARK 470 GLU A 476 CD OE1 OE2 REMARK 470 GLU A 489 CD OE1 OE2 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 672 O HOH A 838 3555 2.03 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 141 CB - CG - OD2 ANGL. DEV. = 6.1 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 THR A 84 -6.56 84.84 REMARK 500 GLU A 115 -149.65 -178.94 REMARK 500 THR A 301 -114.70 -104.10 REMARK 500 ASP A 386 37.08 -147.49 REMARK 500 ASP A 404 73.44 51.20 REMARK 500 ASP A 413 43.50 -82.93 REMARK 500 REMARK 500 REMARK: NULL 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 535 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 536 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 537 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 538 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 539 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MPZ A 600 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2SRC RELATED DB: PDB REMARK 900 RELATED ID: 1FMK RELATED DB: PDB REMARK 900 RELATED ID: 1KSW RELATED DB: PDB REMARK 900 RELATED ID: 2PTK RELATED DB: PDB DBREF 1Y57 A 83 533 UNP P12931 SRC_HUMAN 86 536 SEQADV 1Y57 MET A 82 UNP P12931 INITIATING METHIONINE SEQRES 1 A 452 MET VAL THR THR PHE VAL ALA LEU TYR ASP TYR GLU SER SEQRES 2 A 452 ARG THR GLU THR ASP LEU SER PHE LYS LYS GLY GLU ARG SEQRES 3 A 452 LEU GLN ILE VAL ASN ASN THR GLU GLY ASP TRP TRP LEU SEQRES 4 A 452 ALA HIS SER LEU SER THR GLY GLN THR GLY TYR ILE PRO SEQRES 5 A 452 SER ASN TYR VAL ALA PRO SER ASP SER ILE GLN ALA GLU SEQRES 6 A 452 GLU TRP TYR PHE GLY LYS ILE THR ARG ARG GLU SER GLU SEQRES 7 A 452 ARG LEU LEU LEU ASN ALA GLU ASN PRO ARG GLY THR PHE SEQRES 8 A 452 LEU VAL ARG GLU SER GLU THR THR LYS GLY ALA TYR CYS SEQRES 9 A 452 LEU SER VAL SER ASP PHE ASP ASN ALA LYS GLY LEU ASN SEQRES 10 A 452 VAL LYS HIS TYR LYS ILE ARG LYS LEU ASP SER GLY GLY SEQRES 11 A 452 PHE TYR ILE THR SER ARG THR GLN PHE ASN SER LEU GLN SEQRES 12 A 452 GLN LEU VAL ALA TYR TYR SER LYS HIS ALA ASP GLY LEU SEQRES 13 A 452 CYS HIS ARG LEU THR THR VAL CYS PRO THR SER LYS PRO SEQRES 14 A 452 GLN THR GLN GLY LEU ALA LYS ASP ALA TRP GLU ILE PRO SEQRES 15 A 452 ARG GLU SER LEU ARG LEU GLU VAL LYS LEU GLY GLN GLY SEQRES 16 A 452 CYS PHE GLY GLU VAL TRP MET GLY THR TRP ASN GLY THR SEQRES 17 A 452 THR ARG VAL ALA ILE LYS THR LEU LYS PRO GLY THR MET SEQRES 18 A 452 SER PRO GLU ALA PHE LEU GLN GLU ALA GLN VAL MET LYS SEQRES 19 A 452 LYS LEU ARG HIS GLU LYS LEU VAL GLN LEU TYR ALA VAL SEQRES 20 A 452 VAL SER GLU GLU PRO ILE TYR ILE VAL THR GLU TYR MET SEQRES 21 A 452 SER LYS GLY SER LEU LEU ASP PHE LEU LYS GLY GLU THR SEQRES 22 A 452 GLY LYS TYR LEU ARG LEU PRO GLN LEU VAL ASP MET ALA SEQRES 23 A 452 ALA GLN ILE ALA SER GLY MET ALA TYR VAL GLU ARG MET SEQRES 24 A 452 ASN TYR VAL HIS ARG ASP LEU ARG ALA ALA ASN ILE LEU SEQRES 25 A 452 VAL GLY GLU ASN LEU VAL CYS LYS VAL ALA ASP PHE GLY SEQRES 26 A 452 LEU ALA ARG LEU ILE GLU ASP ASN GLU TYR THR ALA ARG SEQRES 27 A 452 GLN GLY ALA LYS PHE PRO ILE LYS TRP THR ALA PRO GLU SEQRES 28 A 452 ALA ALA LEU TYR GLY ARG PHE THR ILE LYS SER ASP VAL SEQRES 29 A 452 TRP SER PHE GLY ILE LEU LEU THR GLU LEU THR THR LYS SEQRES 30 A 452 GLY ARG VAL PRO TYR PRO GLY MET VAL ASN ARG GLU VAL SEQRES 31 A 452 LEU ASP GLN VAL GLU ARG GLY TYR ARG MET PRO CYS PRO SEQRES 32 A 452 PRO GLU CYS PRO GLU SER LEU HIS ASP LEU MET CYS GLN SEQRES 33 A 452 CYS TRP ARG LYS GLU PRO GLU GLU ARG PRO THR PHE GLU SEQRES 34 A 452 TYR LEU GLN ALA PHE LEU GLU ASP TYR PHE THR SER THR SEQRES 35 A 452 GLU PRO GLN TYR GLN PRO GLY GLU ASN LEU HET SO4 A 535 5 HET SO4 A 536 5 HET SO4 A 537 5 HET SO4 A 538 5 HET SO4 A 539 5 HET MPZ A 600 36 HETNAM SO4 SULFATE ION HETNAM MPZ 4-[(4-METHYLPIPERAZIN-1-YL)METHYL]-N-{3-[(4-PYRIDIN-3- HETNAM 2 MPZ YLPYRIMIDIN-2-YL)AMINO]PHENYL}BENZAMIDE HETSYN MPZ 4-[(4-METHYL-1-PIPERAZINYL)METHYL]-N-[3-[[4-(3- HETSYN 2 MPZ PYRIDINYL)-2-PYRIMIDINYL]AMINO]PHENYL]-BENZAMIDE FORMUL 2 SO4 5(O4 S 2-) FORMUL 7 MPZ C28 H29 N7 O FORMUL 8 HOH *315(H2 O) HELIX 1 1 SER A 142 GLU A 146 5 5 HELIX 2 2 THR A 154 LEU A 163 1 10 HELIX 3 3 SER A 222 HIS A 233 1 12 HELIX 4 4 PRO A 263 GLU A 265 5 3 HELIX 5 5 SER A 303 LEU A 317 1 15 HELIX 6 6 LEU A 346 GLY A 352 1 7 HELIX 7 7 GLY A 352 LEU A 358 1 7 HELIX 8 8 ARG A 359 MET A 380 1 22 HELIX 9 9 ARG A 388 ALA A 390 5 3 HELIX 10 10 GLU A 396 LEU A 398 5 3 HELIX 11 11 PRO A 425 THR A 429 5 5 HELIX 12 12 ALA A 430 GLY A 437 1 8 HELIX 13 13 THR A 440 THR A 457 1 18 HELIX 14 14 VAL A 467 ARG A 469 5 3 HELIX 15 15 GLU A 470 ARG A 477 1 8 HELIX 16 16 PRO A 488 TRP A 499 1 12 HELIX 17 17 GLU A 502 ARG A 506 5 5 HELIX 18 18 THR A 508 ASP A 518 1 11 HELIX 19 19 ASP A 518 THR A 523 1 6 SHEET 1 A 5 THR A 129 PRO A 133 0 SHEET 2 A 5 TRP A 118 SER A 123 -1 N ALA A 121 O GLY A 130 SHEET 3 A 5 ARG A 107 GLN A 109 -1 N GLN A 109 O HIS A 122 SHEET 4 A 5 THR A 85 ALA A 88 -1 N PHE A 86 O LEU A 108 SHEET 5 A 5 VAL A 137 PRO A 139 -1 O ALA A 138 N VAL A 87 SHEET 1 B 6 TYR A 149 GLY A 151 0 SHEET 2 B 6 PHE A 172 GLU A 176 1 O VAL A 174 N PHE A 150 SHEET 3 B 6 TYR A 184 ASP A 192 -1 O SER A 187 N LEU A 173 SHEET 4 B 6 GLY A 196 LYS A 206 -1 O ASN A 198 N ASP A 190 SHEET 5 B 6 PHE A 212 TYR A 213 -1 O TYR A 213 N ARG A 205 SHEET 6 B 6 GLN A 219 PHE A 220 -1 O PHE A 220 N PHE A 212 SHEET 1 C 5 LEU A 267 GLY A 276 0 SHEET 2 C 5 GLY A 279 TRP A 286 -1 O MET A 283 N VAL A 271 SHEET 3 C 5 THR A 290 LEU A 297 -1 O ILE A 294 N TRP A 282 SHEET 4 C 5 TYR A 335 GLU A 339 -1 O ILE A 336 N LYS A 295 SHEET 5 C 5 LEU A 325 VAL A 329 -1 N TYR A 326 O VAL A 337 SHEET 1 D 3 GLY A 344 SER A 345 0 SHEET 2 D 3 ILE A 392 VAL A 394 -1 O VAL A 394 N GLY A 344 SHEET 3 D 3 CYS A 400 VAL A 402 -1 O LYS A 401 N LEU A 393 SHEET 1 E 2 TYR A 382 VAL A 383 0 SHEET 2 E 2 ARG A 409 LEU A 410 -1 O ARG A 409 N VAL A 383 CISPEP 1 GLU A 332 PRO A 333 0 -2.68 CISPEP 2 PHE A 424 PRO A 425 0 0.46 SITE 1 AC1 6 ARG A 155 ARG A 175 SER A 177 GLU A 178 SITE 2 AC1 6 THR A 179 HOH A 910 SITE 1 AC2 3 ARG A 155 ARG A 156 LYS A 356 SITE 1 AC3 8 TYR A 340 MET A 341 SER A 342 GLY A 395 SITE 2 AC3 8 GLU A 396 HOH A 635 HOH A 755 HOH A 815 SITE 1 AC4 2 LYS A 203 ARG A 205 SITE 1 AC5 5 ARG A 388 ALA A 390 ASN A 391 MPZ A 600 SITE 2 AC5 5 HOH A 666 SITE 1 AC6 12 LEU A 273 GLN A 275 VAL A 281 ALA A 293 SITE 2 AC6 12 GLU A 339 TYR A 340 MET A 341 GLY A 344 SITE 3 AC6 12 LEU A 393 SO4 A 539 HOH A 732 HOH A 742 CRYST1 106.212 106.212 123.731 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 0.009415 0.000000 0.000000 0.00000 SCALE2 0.000000 0.009415 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008082 0.00000