HEADER TRANSFERASE/TRANSFERASE INHIBITOR 05-MAR-15 4YLK TITLE CRYSTAL STRUCTURE OF DYRK1A IN COMPLEX WITH 10-CHLORO-SUBSTITUTED 11H- TITLE 2 INDOLO[3,2-C]QUINOLONE-6-CARBOXYLIC ACID INHIBITOR 5S COMPND MOL_ID: 1; COMPND 2 MOLECULE: DUAL SPECIFICITY TYROSINE-PHOSPHORYLATION-REGULATED KINASE COMPND 3 1A; COMPND 4 CHAIN: A; COMPND 5 FRAGMENT: UNP RESIDUES 127-485; COMPND 6 SYNONYM: DUAL SPECIFICITY YAK1-RELATED KINASE, HP86, PROTEIN KINASE COMPND 7 MINIBRAIN HOMOLOG, HMNB; COMPND 8 EC: 2.7.12.1; COMPND 9 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: DYRK1A, DYRK, MNB, MNBH; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3)-R3-PRARE2; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PNIC28-BSA4 KEYWDS HALOGEN, INHIBITOR, STRUCTURAL GENOMICS, STRUCTURAL GENOMICS KEYWDS 2 CONSORTIUM, SGC, TRANSFERASE-TRANSFERASE INHIBITOR COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR A.CHAIKUAD,H.FALKE,T.KROJER,F.VON DELFT,C.H.ARROWSMITH,A.M.EDWARDS, AUTHOR 2 C.BOUNTRA,C.KUNICK,S.KNAPP,STRUCTURAL GENOMICS CONSORTIUM (SGC) REVDAT 5 15-NOV-23 4YLK 1 REMARK REVDAT 4 27-SEP-23 4YLK 1 REMARK REVDAT 3 22-NOV-17 4YLK 1 SOURCE JRNL REMARK REVDAT 2 22-APR-15 4YLK 1 JRNL REVDAT 1 25-MAR-15 4YLK 0 JRNL AUTH H.FALKE,A.CHAIKUAD,A.BECKER,N.LOAEC,O.LOZACH,S.ABU JHAISHA, JRNL AUTH 2 W.BECKER,P.G.JONES,L.PREU,K.BAUMANN,S.KNAPP,L.MEIJER, JRNL AUTH 3 C.KUNICK JRNL TITL 10-IODO-11H-INDOLO[3,2-C]QUINOLINE-6-CARBOXYLIC ACIDS ARE JRNL TITL 2 SELECTIVE INHIBITORS OF DYRK1A. JRNL REF J.MED.CHEM. V. 58 3131 2015 JRNL REFN ISSN 0022-2623 JRNL PMID 25730262 JRNL DOI 10.1021/JM501994D REMARK 2 REMARK 2 RESOLUTION. 1.40 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0049 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) : 1.40 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 30.07 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 97.0 REMARK 3 NUMBER OF REFLECTIONS : 74899 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) : 0.156 REMARK 3 R VALUE (WORKING SET) : 0.155 REMARK 3 FREE R VALUE : 0.177 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 3942 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) : 1.40 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.44 REMARK 3 REFLECTION IN BIN (WORKING SET) : 5486 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 97.06 REMARK 3 BIN R VALUE (WORKING SET) : 0.2110 REMARK 3 BIN FREE R VALUE SET COUNT : 300 REMARK 3 BIN FREE R VALUE : 0.2110 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2786 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 101 REMARK 3 SOLVENT ATOMS : 557 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 10.60 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 15.02 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.27000 REMARK 3 B22 (A**2) : 0.24000 REMARK 3 B33 (A**2) : 0.36000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -0.51000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.054 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.056 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.038 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 1.799 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.970 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.961 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3082 ; 0.016 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 2950 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4164 ; 1.775 ; 2.004 REMARK 3 BOND ANGLES OTHERS (DEGREES): 6796 ; 0.775 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 374 ; 6.068 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 145 ;36.991 ;24.000 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 549 ;11.454 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 19 ;23.430 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 433 ; 0.100 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3411 ; 0.010 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 727 ; 0.001 ; 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): 1403 ; 0.545 ; 0.466 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1402 ; 0.544 ; 0.464 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1760 ; 0.923 ; 0.695 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 1761 ; 0.922 ; 0.696 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1678 ; 0.916 ; 0.630 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 1679 ; 0.915 ; 0.631 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 2389 ; 1.398 ; 0.882 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 4280 ; 5.712 ; 6.829 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 4281 ; 5.711 ; 6.829 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 : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 134 A 209 REMARK 3 ORIGIN FOR THE GROUP (A): 25.9274 47.9458 43.3183 REMARK 3 T TENSOR REMARK 3 T11: 0.0366 T22: 0.0281 REMARK 3 T33: 0.0237 T12: 0.0082 REMARK 3 T13: -0.0011 T23: -0.0015 REMARK 3 L TENSOR REMARK 3 L11: 1.6968 L22: 1.3903 REMARK 3 L33: 2.2204 L12: 0.6429 REMARK 3 L13: -0.6712 L23: -0.6127 REMARK 3 S TENSOR REMARK 3 S11: -0.0239 S12: -0.0795 S13: -0.1731 REMARK 3 S21: 0.0672 S22: -0.0044 S23: -0.1002 REMARK 3 S31: 0.1975 S32: 0.1186 S33: 0.0282 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 210 A 220 REMARK 3 ORIGIN FOR THE GROUP (A): 14.5938 68.1700 39.8452 REMARK 3 T TENSOR REMARK 3 T11: 0.2390 T22: 0.2126 REMARK 3 T33: 0.1516 T12: 0.1068 REMARK 3 T13: 0.0077 T23: -0.0255 REMARK 3 L TENSOR REMARK 3 L11: 9.8498 L22: 2.4429 REMARK 3 L33: 4.4199 L12: 3.3137 REMARK 3 L13: 4.2255 L23: 1.0906 REMARK 3 S TENSOR REMARK 3 S11: -0.2890 S12: -1.1203 S13: 0.6418 REMARK 3 S21: 0.4060 S22: -0.1049 S23: 0.3309 REMARK 3 S31: -0.4709 S32: -0.4741 S33: 0.3939 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 221 A 317 REMARK 3 ORIGIN FOR THE GROUP (A): 14.4331 57.1588 32.5263 REMARK 3 T TENSOR REMARK 3 T11: 0.0297 T22: 0.0170 REMARK 3 T33: 0.0203 T12: 0.0007 REMARK 3 T13: 0.0225 T23: -0.0007 REMARK 3 L TENSOR REMARK 3 L11: 0.8104 L22: 0.7750 REMARK 3 L33: 1.0303 L12: -0.2288 REMARK 3 L13: 0.6491 L23: -0.3221 REMARK 3 S TENSOR REMARK 3 S11: 0.0041 S12: -0.0754 S13: -0.0277 REMARK 3 S21: 0.0050 S22: 0.0180 S23: 0.0275 REMARK 3 S31: 0.0220 S32: -0.0251 S33: -0.0221 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 318 A 481 REMARK 3 ORIGIN FOR THE GROUP (A): 13.0100 60.7598 11.3203 REMARK 3 T TENSOR REMARK 3 T11: 0.0553 T22: 0.0462 REMARK 3 T33: 0.0026 T12: 0.0099 REMARK 3 T13: -0.0013 T23: 0.0024 REMARK 3 L TENSOR REMARK 3 L11: 1.4686 L22: 1.4115 REMARK 3 L33: 1.3177 L12: -0.1453 REMARK 3 L13: 0.1497 L23: 0.1519 REMARK 3 S TENSOR REMARK 3 S11: 0.0271 S12: 0.2376 S13: -0.0096 REMARK 3 S21: -0.2137 S22: -0.0167 S23: 0.0240 REMARK 3 S31: -0.0007 S32: 0.0355 S33: -0.0103 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 4YLK COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 05-MAR-15. REMARK 100 THE DEPOSITION ID IS D_1000207656. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 13-JUL-12 REMARK 200 TEMPERATURE (KELVIN) : 100.0 REMARK 200 PH : 5.6 REMARK 200 NUMBER OF CRYSTALS USED : NULL REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : DIAMOND REMARK 200 BEAMLINE : I04-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.92000 REMARK 200 MONOCHROMATOR : SI (111) DOUBLE CRYSTAL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 2M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 78842 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.400 REMARK 200 RESOLUTION RANGE LOW (A) : 30.280 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.1 REMARK 200 DATA REDUNDANCY : 4.400 REMARK 200 R MERGE (I) : 0.07700 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 10.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.40 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.48 REMARK 200 COMPLETENESS FOR SHELL (%) : 97.3 REMARK 200 DATA REDUNDANCY IN SHELL : 4.30 REMARK 200 R MERGE FOR SHELL (I) : 0.38600 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 3.500 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 2WO6 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 50.67 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.49 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 2 M AMMONIUM SULFATE, 0.1 M CITRATE, REMARK 280 PH 5.6, 0.2 M POTASSIUM/SODIUM TARTRATE, VAPOR DIFFUSION, REMARK 280 SITTING DROP, TEMPERATURE 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y,-Z REMARK 290 3555 X+1/2,Y+1/2,Z REMARK 290 4555 -X+1/2,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 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 3 1.000000 0.000000 0.000000 49.98500 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 34.93500 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 49.98500 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 34.93500 REMARK 290 SMTRY3 4 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 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 602 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 742 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 748 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 760 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 SER A 125 REMARK 465 MET A 126 REMARK 465 SER A 127 REMARK 465 SER A 128 REMARK 465 HIS A 129 REMARK 465 LYS A 130 REMARK 465 LYS A 131 REMARK 465 GLU A 132 REMARK 465 ARG A 133 REMARK 465 THR A 408 REMARK 465 LYS A 409 REMARK 465 ASP A 410 REMARK 465 GLY A 411 REMARK 465 LYS A 412 REMARK 465 ARG A 413 REMARK 465 THR A 482 REMARK 465 ALA A 483 REMARK 465 ASP A 484 REMARK 465 GLU A 485 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 LYS A 134 CG CD CE NZ REMARK 470 VAL A 135 CG1 CG2 REMARK 470 LYS A 407 CG CD CE NZ REMARK 470 GLU A 414 CG CD OE1 OE2 REMARK 470 LYS A 481 CG CD CE NZ 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 1047 O HOH A 1112 2.09 REMARK 500 O HOH A 953 O HOH A 1065 2.11 REMARK 500 O HOH A 681 O HOH A 756 2.11 REMARK 500 O HOH A 1048 O HOH A 1081 2.17 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 I IOD A 520 O HOH A 710 4546 2.11 REMARK 500 O HOH A 722 O HOH A 762 2656 2.14 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 317 NE - CZ - NH1 ANGL. DEV. = 3.0 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 ARG A 158 -52.26 -146.51 REMARK 500 ASP A 214 62.04 -151.09 REMARK 500 SER A 242 -157.15 -91.11 REMARK 500 LEU A 281 -65.86 -93.48 REMARK 500 ASP A 287 44.53 -150.55 REMARK 500 ASP A 307 82.10 68.75 REMARK 500 GLN A 316 42.23 -143.07 REMARK 500 GLN A 323 137.80 76.33 REMARK 500 HIS A 444 48.52 -146.74 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 A1076 DISTANCE = 5.82 ANGSTROMS 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 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 A 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 A 503 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 A 504 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 A 505 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 A 506 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 507 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 508 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 509 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 510 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 511 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 512 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 513 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 514 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 515 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 516 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 517 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 518 REMARK 800 REMARK 800 SITE_IDENTIFIER: AE1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue 4E2 A 519 REMARK 800 REMARK 800 SITE_IDENTIFIER: AE2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue IOD A 520 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4YLJ RELATED DB: PDB REMARK 900 RELATED ID: 4YLL RELATED DB: PDB DBREF 4YLK A 127 485 UNP Q13627 DYR1A_HUMAN 127 485 SEQADV 4YLK SER A 125 UNP Q13627 EXPRESSION TAG SEQADV 4YLK MET A 126 UNP Q13627 EXPRESSION TAG SEQRES 1 A 361 SER MET SER SER HIS LYS LYS GLU ARG LYS VAL TYR ASN SEQRES 2 A 361 ASP GLY TYR ASP ASP ASP ASN TYR ASP TYR ILE VAL LYS SEQRES 3 A 361 ASN GLY GLU LYS TRP MET ASP ARG TYR GLU ILE ASP SER SEQRES 4 A 361 LEU ILE GLY LYS GLY SER PHE GLY GLN VAL VAL LYS ALA SEQRES 5 A 361 TYR ASP ARG VAL GLU GLN GLU TRP VAL ALA ILE LYS ILE SEQRES 6 A 361 ILE LYS ASN LYS LYS ALA PHE LEU ASN GLN ALA GLN ILE SEQRES 7 A 361 GLU VAL ARG LEU LEU GLU LEU MET ASN LYS HIS ASP THR SEQRES 8 A 361 GLU MET LYS TYR TYR ILE VAL HIS LEU LYS ARG HIS PHE SEQRES 9 A 361 MET PHE ARG ASN HIS LEU CYS LEU VAL PHE GLU MET LEU SEQRES 10 A 361 SER TYR ASN LEU TYR ASP LEU LEU ARG ASN THR ASN PHE SEQRES 11 A 361 ARG GLY VAL SER LEU ASN LEU THR ARG LYS PHE ALA GLN SEQRES 12 A 361 GLN MET CYS THR ALA LEU LEU PHE LEU ALA THR PRO GLU SEQRES 13 A 361 LEU SER ILE ILE HIS CYS ASP LEU LYS PRO GLU ASN ILE SEQRES 14 A 361 LEU LEU CYS ASN PRO LYS ARG SER ALA ILE LYS ILE VAL SEQRES 15 A 361 ASP PHE GLY SER SER CYS GLN LEU GLY GLN ARG ILE TYR SEQRES 16 A 361 GLN PTR ILE GLN SER ARG PHE TYR ARG SER PRO GLU VAL SEQRES 17 A 361 LEU LEU GLY MET PRO TYR ASP LEU ALA ILE ASP MET TRP SEQRES 18 A 361 SER LEU GLY CYS ILE LEU VAL GLU MET HIS THR GLY GLU SEQRES 19 A 361 PRO LEU PHE SER GLY ALA ASN GLU VAL ASP GLN MET ASN SEQRES 20 A 361 LYS ILE VAL GLU VAL LEU GLY ILE PRO PRO ALA HIS ILE SEQRES 21 A 361 LEU ASP GLN ALA PRO LYS ALA ARG LYS PHE PHE GLU LYS SEQRES 22 A 361 LEU PRO ASP GLY THR TRP ASN LEU LYS LYS THR LYS ASP SEQRES 23 A 361 GLY LYS ARG GLU TYR LYS PRO PRO GLY THR ARG LYS LEU SEQRES 24 A 361 HIS ASN ILE LEU GLY VAL GLU THR GLY GLY PRO GLY GLY SEQRES 25 A 361 ARG ARG ALA GLY GLU SER GLY HIS THR VAL ALA ASP TYR SEQRES 26 A 361 LEU LYS PHE LYS ASP LEU ILE LEU ARG MET LEU ASP TYR SEQRES 27 A 361 ASP PRO LYS THR ARG ILE GLN PRO TYR TYR ALA LEU GLN SEQRES 28 A 361 HIS SER PHE PHE LYS LYS THR ALA ASP GLU MODRES 4YLK PTR A 321 TYR MODIFIED RESIDUE HET PTR A 321 16 HET SO4 A 501 5 HET SO4 A 502 5 HET SO4 A 503 5 HET SO4 A 504 5 HET SO4 A 505 5 HET SO4 A 506 5 HET EDO A 507 4 HET EDO A 508 4 HET EDO A 509 4 HET EDO A 510 4 HET EDO A 511 4 HET EDO A 512 8 HET EDO A 513 4 HET EDO A 514 8 HET EDO A 515 8 HET EDO A 516 4 HET EDO A 517 4 HET EDO A 518 4 HET 4E2 A 519 43 HET IOD A 520 2 HETNAM PTR O-PHOSPHOTYROSINE HETNAM SO4 SULFATE ION HETNAM EDO 1,2-ETHANEDIOL HETNAM 4E2 10-CHLORO-2-IODO-11H-INDOLO[3,2-C]QUINOLINE-6- HETNAM 2 4E2 CARBOXYLIC ACID HETNAM IOD IODIDE ION HETSYN PTR PHOSPHONOTYROSINE HETSYN EDO ETHYLENE GLYCOL FORMUL 1 PTR C9 H12 N O6 P FORMUL 2 SO4 6(O4 S 2-) FORMUL 8 EDO 12(C2 H6 O2) FORMUL 20 4E2 C16 H8 CL I N2 O2 FORMUL 21 IOD I 1- FORMUL 22 HOH *557(H2 O) HELIX 1 AA1 TYR A 136 TYR A 140 5 5 HELIX 2 AA2 LYS A 193 HIS A 213 1 21 HELIX 3 AA3 ASN A 244 THR A 252 1 9 HELIX 4 AA4 SER A 258 ALA A 277 1 20 HELIX 5 AA5 LYS A 289 GLU A 291 5 3 HELIX 6 AA6 GLY A 315 ARG A 317 5 3 HELIX 7 AA7 SER A 324 ARG A 328 5 5 HELIX 8 AA8 SER A 329 LEU A 334 1 6 HELIX 9 AA9 LEU A 340 GLY A 357 1 18 HELIX 10 AB1 ASN A 365 GLY A 378 1 14 HELIX 11 AB2 PRO A 381 ASP A 386 1 6 HELIX 12 AB3 LYS A 390 PHE A 394 1 5 HELIX 13 AB4 LYS A 422 LEU A 427 1 6 HELIX 14 AB5 GLY A 433 ARG A 437 5 5 HELIX 15 AB6 THR A 445 LEU A 460 1 16 HELIX 16 AB7 GLN A 469 HIS A 476 1 8 HELIX 17 AB8 SER A 477 LYS A 480 5 4 SHEET 1 AA1 6 LYS A 154 TRP A 155 0 SHEET 2 AA1 6 TYR A 159 GLY A 168 -1 O TYR A 159 N TRP A 155 SHEET 3 AA1 6 GLY A 171 ASP A 178 -1 O VAL A 173 N ILE A 165 SHEET 4 AA1 6 GLU A 183 ILE A 190 -1 O GLU A 183 N ASP A 178 SHEET 5 AA1 6 HIS A 233 GLU A 239 -1 O PHE A 238 N ALA A 186 SHEET 6 AA1 6 LEU A 224 PHE A 230 -1 N PHE A 228 O CYS A 235 SHEET 1 AA2 2 ILE A 283 ILE A 284 0 SHEET 2 AA2 2 CYS A 312 GLN A 313 -1 O CYS A 312 N ILE A 284 SHEET 1 AA3 2 ILE A 293 LEU A 295 0 SHEET 2 AA3 2 ILE A 303 ILE A 305 -1 O LYS A 304 N LEU A 294 SHEET 1 AA4 2 PHE A 395 LYS A 397 0 SHEET 2 AA4 2 TRP A 403 LEU A 405 -1 O ASN A 404 N GLU A 396 LINK C GLN A 320 N PTR A 321 1555 1555 1.34 LINK C PTR A 321 N ILE A 322 1555 1555 1.33 SITE 1 AC1 9 ARG A 325 ARG A 328 GLU A 366 SO4 A 505 SITE 2 AC1 9 HOH A 603 HOH A 624 HOH A 669 HOH A 680 SITE 3 AC1 9 HOH A1083 SITE 1 AC2 8 SER A 169 LYS A 193 LYS A 194 HOH A 648 SITE 2 AC2 8 HOH A 683 HOH A 692 HOH A 713 HOH A 906 SITE 1 AC3 6 LYS A 264 ARG A 300 SER A 301 HOH A1015 SITE 2 AC3 6 HOH A1122 HOH A1124 SITE 1 AC4 8 ASN A 144 TYR A 145 SER A 169 LYS A 191 SITE 2 AC4 8 LYS A 193 HOH A 650 HOH A 682 HOH A 697 SITE 1 AC5 8 ASN A 365 GLU A 366 VAL A 367 LYS A 393 SITE 2 AC5 8 SO4 A 501 HOH A 669 HOH A 721 HOH A1025 SITE 1 AC6 5 LYS A 218 TYR A 219 ARG A 250 HOH A 640 SITE 2 AC6 5 HOH A 684 SITE 1 AC7 5 PRO A 279 GLU A 280 GLN A 313 GLY A 315 SITE 2 AC7 5 HOH A1038 SITE 1 AC8 4 ARG A 226 EDO A 509 HOH A 901 HOH A1115 SITE 1 AC9 6 GLU A 183 HIS A 223 LYS A 225 ARG A 226 SITE 2 AC9 6 EDO A 508 HOH A1040 SITE 1 AD1 6 LYS A 175 TYR A 472 EDO A 515 HOH A 605 SITE 2 AD1 6 HOH A 610 HOH A 638 SITE 1 AD2 6 LEU A 241 CYS A 296 ASN A 297 PRO A 298 SITE 2 AD2 6 HOH A 605 HOH A 630 SITE 1 AD3 5 SER A 258 ASN A 260 HOH A 928 HOH A1017 SITE 2 AD3 5 HOH A1054 SITE 1 AD4 6 ASN A 198 GLN A 199 ILE A 202 TYR A 319 SITE 2 AD4 6 HOH A 602 HOH A 632 SITE 1 AD5 7 PRO A 337 TYR A 338 ASP A 339 PRO A 464 SITE 2 AD5 7 LYS A 465 HOH A 783 HOH A1067 SITE 1 AD6 10 LYS A 465 THR A 466 ARG A 467 ILE A 468 SITE 2 AD6 10 GLN A 469 TYR A 472 EDO A 510 HOH A 604 SITE 3 AD6 10 HOH A 610 HOH A 638 SITE 1 AD7 4 PRO A 381 ALA A 382 HIS A 383 HOH A1023 SITE 1 AD8 2 TYR A 140 ARG A 231 SITE 1 AD9 5 ASP A 454 LEU A 457 ARG A 458 HOH A 883 SITE 2 AD9 5 HOH A 965 SITE 1 AE1 14 GLY A 166 LYS A 167 PHE A 170 ALA A 186 SITE 2 AE1 14 LYS A 188 PHE A 238 GLU A 239 LEU A 241 SITE 3 AE1 14 LEU A 294 ASP A 307 IOD A 520 HOH A 701 SITE 4 AE1 14 HOH A 808 HOH A 820 SITE 1 AE2 6 GLY A 166 LYS A 167 GLN A 475 4E2 A 519 SITE 2 AE2 6 HOH A 710 HOH A 775 CRYST1 99.970 69.870 67.860 90.00 117.69 90.00 C 1 2 1 4 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 0.010003 0.000000 0.005249 0.00000 SCALE2 0.000000 0.014312 0.000000 0.00000 SCALE3 0.000000 0.000000 0.016642 0.00000