HEADER TRANSFERASE 18-JUN-19 6S1H TITLE CRYSTAL STRUCTURE OF DYRK1A WITH SMALL MOLECULE INHIBITOR COMPND MOL_ID: 1; COMPND 2 MOLECULE: DUAL SPECIFICITY TYROSINE-PHOSPHORYLATION-REGULATED KINASE COMPND 3 1A; COMPND 4 CHAIN: A; COMPND 5 SYNONYM: DUAL SPECIFICITY YAK1-RELATED KINASE,HP86,PROTEIN KINASE COMPND 6 MINIBRAIN HOMOLOG,HMNB; COMPND 7 EC: 2.7.12.1; COMPND 8 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 KEYWDS KINASE, CATALYTIC DOMAIN, PHOSPHORYLATED, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR F.J.SORRELL,S.H.HENDERSON,C.REDONDO,N.A.BURGESS-BROWN,F.VON DELFT, AUTHOR 2 C.H.ARROWSMITH,C.BOUNTRA,A.M.EDWARDS,J.M.ELKINS REVDAT 4 13-NOV-24 6S1H 1 REMARK REVDAT 3 24-JAN-24 6S1H 1 REMARK REVDAT 2 21-AUG-19 6S1H 1 REMARK REVDAT 1 26-JUN-19 6S1H 0 JRNL AUTH F.J.SORRELL,S.H.HENDERSON,J.M.ELKINS,S.WARD JRNL TITL KINASE SCAFFOLD REPURPOSING IN THE PUBLIC DOMAIN JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.05 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.05 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 30.11 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.350 REMARK 3 COMPLETENESS FOR RANGE (%) : 91.9 REMARK 3 NUMBER OF REFLECTIONS : 174652 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.141 REMARK 3 R VALUE (WORKING SET) : 0.140 REMARK 3 FREE R VALUE : 0.155 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.130 REMARK 3 FREE R VALUE TEST SET COUNT : 8962 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 30.1258 - 3.2613 0.99 6133 316 0.1513 0.1643 REMARK 3 2 3.2613 - 2.5890 1.00 6049 328 0.1490 0.1522 REMARK 3 3 2.5890 - 2.2619 1.00 6010 324 0.1327 0.1423 REMARK 3 4 2.2619 - 2.0551 1.00 6041 294 0.1241 0.1487 REMARK 3 5 2.0551 - 1.9079 1.00 6047 306 0.1316 0.1387 REMARK 3 6 1.9079 - 1.7954 1.00 5975 337 0.1285 0.1468 REMARK 3 7 1.7954 - 1.7055 1.00 6022 307 0.1315 0.1535 REMARK 3 8 1.7055 - 1.6312 1.00 6018 300 0.1231 0.1304 REMARK 3 9 1.6312 - 1.5685 1.00 6029 314 0.1180 0.1383 REMARK 3 10 1.5685 - 1.5143 1.00 6033 309 0.1209 0.1274 REMARK 3 11 1.5143 - 1.4670 1.00 5964 360 0.1216 0.1480 REMARK 3 12 1.4670 - 1.4251 1.00 5988 320 0.1243 0.1327 REMARK 3 13 1.4251 - 1.3875 1.00 6018 317 0.1250 0.1430 REMARK 3 14 1.3875 - 1.3537 1.00 5949 304 0.1281 0.1478 REMARK 3 15 1.3537 - 1.3229 1.00 6032 329 0.1268 0.1362 REMARK 3 16 1.3229 - 1.2948 1.00 5987 317 0.1295 0.1491 REMARK 3 17 1.2948 - 1.2689 1.00 5982 311 0.1310 0.1531 REMARK 3 18 1.2689 - 1.2449 1.00 5985 323 0.1355 0.1638 REMARK 3 19 1.2449 - 1.2227 1.00 6047 291 0.1375 0.1596 REMARK 3 20 1.2227 - 1.2020 1.00 5954 333 0.1439 0.1609 REMARK 3 21 1.2020 - 1.1826 1.00 5930 372 0.1516 0.1594 REMARK 3 22 1.1826 - 1.1644 0.99 5907 328 0.1574 0.1720 REMARK 3 23 1.1644 - 1.1472 0.98 5806 338 0.1629 0.1795 REMARK 3 24 1.1472 - 1.1311 0.92 5498 335 0.1769 0.1892 REMARK 3 25 1.1311 - 1.1158 0.83 5018 280 0.1962 0.2154 REMARK 3 26 1.1158 - 1.1013 0.75 4453 241 0.2273 0.2236 REMARK 3 27 1.1013 - 1.0875 0.66 3927 221 0.2551 0.2877 REMARK 3 28 1.0875 - 1.0744 0.57 3394 224 0.2904 0.3155 REMARK 3 29 1.0744 - 1.0619 0.50 2973 161 0.3381 0.3449 REMARK 3 30 1.0619 - 1.0500 0.42 2521 122 0.4051 0.4373 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.090 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 15.470 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 19.52 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.006 3093 REMARK 3 ANGLE : 1.031 4208 REMARK 3 CHIRALITY : 0.129 434 REMARK 3 PLANARITY : 0.007 569 REMARK 3 DIHEDRAL : 19.113 1181 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 6S1H COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 18-JUN-19. REMARK 100 THE DEPOSITION ID IS D_1292102989. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 21-SEP-17 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : DIAMOND REMARK 200 BEAMLINE : I03 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9763 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M-F REMARK 200 INTENSITY-INTEGRATION SOFTWARE : NULL REMARK 200 DATA SCALING SOFTWARE : AIMLESS 0.5.32 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 174657 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.050 REMARK 200 RESOLUTION RANGE LOW (A) : 30.110 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 91.9 REMARK 200 DATA REDUNDANCY : 3.000 REMARK 200 R MERGE (I) : 0.05100 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 11.1000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.05 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.08 REMARK 200 COMPLETENESS FOR SHELL (%) : 47.0 REMARK 200 DATA REDUNDANCY IN SHELL : 1.70 REMARK 200 R MERGE FOR SHELL (I) : 0.63400 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 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: PHASER REMARK 200 STARTING MODEL: 4MQ1 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 53.08 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.62 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 1.8M AMMONIUM SULFATE -- 0.1M CITRATE REMARK 280 PH 5.7 -- 0.2M SODIUM/POTASSIUM 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 49.81500 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 34.84000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 49.81500 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 34.84000 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 1000 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 15730 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -26.0 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 633 LIES ON A SPECIAL POSITION. REMARK 375 HOH A1069 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 LYS A 134 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 LYS A 481 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 VAL A 135 N CA CB CG1 CG2 REMARK 470 LYS A 150 CD CE NZ REMARK 470 GLU A 216 CG CD OE1 OE2 REMARK 470 LYS A 218 NZ REMARK 470 LYS A 299 CG CD CE NZ REMARK 470 GLN A 316 CG CD OE1 NE2 REMARK 470 ARG A 317 CZ NH1 NH2 REMARK 470 LYS A 397 CE NZ REMARK 470 LYS A 406 NZ REMARK 470 LYS A 407 CG CD CE NZ REMARK 470 GLU A 414 N CA CB CG CD OE1 OE2 REMARK 470 LYS A 480 CA C O CB CG CD CE REMARK 470 LYS A 480 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 HG SER A 310 O HOH A 602 1.49 REMARK 500 O HOH A 888 O HOH A 974 1.80 REMARK 500 O HOH A 960 O HOH A 1013 1.83 REMARK 500 O HOH A 690 O HOH A 840 1.83 REMARK 500 O HOH A 676 O HOH A 756 1.88 REMARK 500 O HOH A 615 O HOH A 865 1.90 REMARK 500 O HOH A 1130 O HOH A 1132 1.96 REMARK 500 O HOH A 869 O HOH A 933 1.96 REMARK 500 O HOH A 672 O HOH A 836 1.98 REMARK 500 O HOH A 746 O HOH A 748 1.99 REMARK 500 O HOH A 766 O HOH A 962 1.99 REMARK 500 O HOH A 618 O HOH A 865 2.00 REMARK 500 O HOH A 942 O HOH A 950 2.00 REMARK 500 O HOH A 618 O HOH A 1058 2.02 REMARK 500 OD1 ASP A 214 O HOH A 601 2.03 REMARK 500 OG SER A 310 O HOH A 602 2.03 REMARK 500 O HOH A 815 O HOH A 1037 2.05 REMARK 500 NE2 GLN A 320 O HOH A 603 2.06 REMARK 500 OE1 GLU A 208 O HOH A 604 2.07 REMARK 500 O HOH A 657 O HOH A 714 2.10 REMARK 500 OD1 ASN A 251 O HOH A 605 2.10 REMARK 500 O HOH A 692 O HOH A 1019 2.11 REMARK 500 O HOH A 601 O HOH A 933 2.12 REMARK 500 N LYS A 480 O HOH A 606 2.12 REMARK 500 O HOH A 983 O HOH A 1117 2.12 REMARK 500 OH TYR A 243 O HOH A 607 2.14 REMARK 500 O HOH A 934 O HOH A 1066 2.14 REMARK 500 O HOH A 915 O HOH A 996 2.15 REMARK 500 O HOH A 989 O HOH A 1010 2.16 REMARK 500 O HOH A 1002 O HOH A 1038 2.16 REMARK 500 O1P PTR A 321 O HOH A 608 2.16 REMARK 500 O HOH A 677 O HOH A 951 2.17 REMARK 500 OD1 ASN A 253 O HOH A 609 2.19 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 948 O HOH A 1018 2656 1.78 REMARK 500 O HOH A 711 O HOH A 794 2555 2.19 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 LEU A 245 CB - CG - CD2 ANGL. DEV. = 15.2 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 -51.38 -148.55 REMARK 500 ARG A 158 -51.38 -145.06 REMARK 500 ASP A 162 -62.21 -94.41 REMARK 500 LYS A 212 -3.64 -56.13 REMARK 500 ASP A 214 59.27 -152.45 REMARK 500 ASP A 214 59.27 -150.01 REMARK 500 SER A 242 -159.67 -97.82 REMARK 500 SER A 242 -145.69 -97.82 REMARK 500 LEU A 281 -68.67 -96.93 REMARK 500 LEU A 281 -63.82 -100.86 REMARK 500 CYS A 286 -2.50 75.70 REMARK 500 ASP A 287 44.87 -147.06 REMARK 500 ASP A 307 83.33 73.43 REMARK 500 GLN A 323 139.23 78.83 REMARK 500 GLN A 323 138.95 78.83 REMARK 500 HIS A 444 48.90 -146.07 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 A1130 DISTANCE = 5.83 ANGSTROMS REMARK 525 HOH A1131 DISTANCE = 5.84 ANGSTROMS REMARK 525 HOH A1132 DISTANCE = 5.85 ANGSTROMS REMARK 525 HOH A1133 DISTANCE = 5.92 ANGSTROMS REMARK 525 HOH A1134 DISTANCE = 6.17 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 KQZ A 504 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 505 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO 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 DBREF 6S1H A 127 485 UNP Q13627 DYR1A_HUMAN 127 485 SEQADV 6S1H SER A 125 UNP Q13627 EXPRESSION TAG SEQADV 6S1H 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 6S1H PTR A 321 TYR MODIFIED RESIDUE HET PTR A 321 46 HET SO4 A 501 5 HET SO4 A 502 5 HET SO4 A 503 5 HET KQZ A 504 31 HET EDO A 505 10 HET EDO A 506 10 HET EDO A 507 10 HETNAM PTR O-PHOSPHOTYROSINE HETNAM SO4 SULFATE ION HETNAM KQZ ~{N},~{N}-DIMETHYL-4-(1~{H}-PYRROLO[2,3-B]PYRIDIN-3- HETNAM 2 KQZ YL)PYRIMIDIN-2-AMINE HETNAM EDO 1,2-ETHANEDIOL HETSYN PTR PHOSPHONOTYROSINE HETSYN EDO ETHYLENE GLYCOL FORMUL 1 PTR C9 H12 N O6 P FORMUL 2 SO4 3(O4 S 2-) FORMUL 5 KQZ C13 H13 N5 FORMUL 6 EDO 3(C2 H6 O2) FORMUL 9 HOH *534(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 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 LYS A 175 N SER A 163 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 PHE A 238 -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 AGLN A 320 N APTR A 321 1555 1555 1.33 LINK C BGLN A 320 N BPTR A 321 1555 1555 1.33 LINK C APTR A 321 N ILE A 322 1555 1555 1.33 LINK C BPTR A 321 N ILE A 322 1555 1555 1.34 SITE 1 AC1 7 SER A 169 LYS A 193 LYS A 194 HOH A 689 SITE 2 AC1 7 HOH A 778 HOH A 842 HOH A 916 SITE 1 AC2 7 ASN A 232 ARG A 325 ARG A 328 GLU A 366 SITE 2 AC2 7 HOH A 631 HOH A 906 HOH A 928 SITE 1 AC3 4 LYS A 264 ARG A 300 SER A 301 HOH A 851 SITE 1 AC4 8 PHE A 170 ALA A 186 LYS A 188 PHE A 238 SITE 2 AC4 8 GLU A 239 LEU A 241 LEU A 294 EDO A 506 SITE 1 AC5 6 ASN A 198 GLN A 199 ILE A 202 TYR A 319 SITE 2 AC5 6 HOH A 633 HOH A 655 SITE 1 AC6 7 GLY A 166 ASN A 244 KQZ A 504 HOH A 622 SITE 2 AC6 7 HOH A 648 HOH A 751 HOH A 781 SITE 1 AC7 7 TYR A 243 ASN A 251 LEU A 274 HOH A 625 SITE 2 AC7 7 HOH A 755 HOH A 821 HOH A 853 CRYST1 99.630 69.680 67.690 90.00 117.80 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 0.010037 0.000000 0.005292 0.00000 SCALE2 0.000000 0.014351 0.000000 0.00000 SCALE3 0.000000 0.000000 0.016701 0.00000