HEADER TRANSFERASE 18-JUN-19 6S1B 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 16-OCT-24 6S1B 1 REMARK REVDAT 3 24-JAN-24 6S1B 1 REMARK REVDAT 2 21-AUG-19 6S1B 1 REMARK REVDAT 1 26-JUN-19 6S1B 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. 1.30 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 : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.30 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 25.16 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.9 REMARK 3 NUMBER OF REFLECTIONS : 103305 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.162 REMARK 3 R VALUE (WORKING SET) : 0.161 REMARK 3 FREE R VALUE : 0.179 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.020 REMARK 3 FREE R VALUE TEST SET COUNT : 5187 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 25.1666 - 4.0341 0.98 3316 189 0.1582 0.1921 REMARK 3 2 4.0341 - 3.2040 0.99 3307 168 0.1365 0.1443 REMARK 3 3 3.2040 - 2.7996 0.99 3285 161 0.1503 0.1724 REMARK 3 4 2.7996 - 2.5439 0.99 3307 188 0.1382 0.1513 REMARK 3 5 2.5439 - 2.3617 0.99 3291 170 0.1389 0.1508 REMARK 3 6 2.3617 - 2.2226 0.99 3316 170 0.1311 0.1553 REMARK 3 7 2.2226 - 2.1113 0.99 3293 171 0.1365 0.1412 REMARK 3 8 2.1113 - 2.0195 0.99 3265 190 0.1389 0.1643 REMARK 3 9 2.0195 - 1.9417 1.00 3333 171 0.1465 0.1601 REMARK 3 10 1.9417 - 1.8748 1.00 3250 196 0.1510 0.1808 REMARK 3 11 1.8748 - 1.8162 0.99 3263 161 0.1541 0.1510 REMARK 3 12 1.8162 - 1.7643 1.00 3299 183 0.1548 0.1792 REMARK 3 13 1.7643 - 1.7178 1.00 3294 164 0.1606 0.1631 REMARK 3 14 1.7178 - 1.6759 1.00 3329 161 0.1599 0.1815 REMARK 3 15 1.6759 - 1.6378 1.00 3294 167 0.1631 0.1818 REMARK 3 16 1.6378 - 1.6030 1.00 3315 178 0.1629 0.1847 REMARK 3 17 1.6030 - 1.5709 1.00 3275 187 0.1667 0.1890 REMARK 3 18 1.5709 - 1.5413 1.00 3231 173 0.1792 0.2036 REMARK 3 19 1.5413 - 1.5138 0.99 3301 180 0.1947 0.1978 REMARK 3 20 1.5138 - 1.4881 1.00 3305 168 0.2082 0.2453 REMARK 3 21 1.4881 - 1.4641 1.00 3281 163 0.2208 0.2468 REMARK 3 22 1.4641 - 1.4416 1.00 3301 175 0.2219 0.2123 REMARK 3 23 1.4416 - 1.4204 0.99 3281 180 0.2403 0.2560 REMARK 3 24 1.4204 - 1.4004 0.99 3240 150 0.2487 0.2418 REMARK 3 25 1.4004 - 1.3815 0.99 3286 182 0.2622 0.2933 REMARK 3 26 1.3815 - 1.3635 0.99 3227 175 0.2605 0.2918 REMARK 3 27 1.3635 - 1.3465 0.99 3177 180 0.2716 0.2651 REMARK 3 28 1.3465 - 1.3302 0.95 3206 177 0.2859 0.3144 REMARK 3 29 1.3302 - 1.3148 0.95 3093 154 0.3030 0.3004 REMARK 3 30 1.3148 - 1.3000 0.95 3157 155 0.3057 0.3111 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL 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) : 0.130 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 19.040 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 21.37 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 : 0.012 2908 REMARK 3 ANGLE : 1.145 3946 REMARK 3 CHIRALITY : 0.089 414 REMARK 3 PLANARITY : 0.007 526 REMARK 3 DIHEDRAL : 18.908 1084 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 3 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 135 THROUGH 213 ) REMARK 3 ORIGIN FOR THE GROUP (A): 25.4820 -56.5412 43.7406 REMARK 3 T TENSOR REMARK 3 T11: 0.1017 T22: 0.1041 REMARK 3 T33: 0.0964 T12: 0.0040 REMARK 3 T13: 0.0016 T23: -0.0018 REMARK 3 L TENSOR REMARK 3 L11: 0.9143 L22: 0.8592 REMARK 3 L33: 1.4500 L12: 0.2764 REMARK 3 L13: -0.3181 L23: -0.3653 REMARK 3 S TENSOR REMARK 3 S11: -0.0332 S12: -0.0234 S13: -0.0447 REMARK 3 S21: 0.0470 S22: 0.0183 S23: -0.0245 REMARK 3 S31: 0.0652 S32: -0.0131 S33: -0.0126 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 214 THROUGH 320 ) REMARK 3 ORIGIN FOR THE GROUP (A): 15.0723 -47.9124 32.9028 REMARK 3 T TENSOR REMARK 3 T11: 0.1003 T22: 0.0868 REMARK 3 T33: 0.1048 T12: 0.0035 REMARK 3 T13: 0.0081 T23: -0.0012 REMARK 3 L TENSOR REMARK 3 L11: 0.6524 L22: 0.4477 REMARK 3 L33: 0.7527 L12: -0.1446 REMARK 3 L13: 0.3509 L23: -0.2549 REMARK 3 S TENSOR REMARK 3 S11: 0.0208 S12: -0.0524 S13: 0.0076 REMARK 3 S21: 0.0020 S22: 0.0161 S23: 0.0224 REMARK 3 S31: 0.0229 S32: -0.0408 S33: -0.0241 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 322 THROUGH 481 ) REMARK 3 ORIGIN FOR THE GROUP (A): 12.1657 -44.9983 11.6554 REMARK 3 T TENSOR REMARK 3 T11: 0.1043 T22: 0.1060 REMARK 3 T33: 0.0829 T12: 0.0074 REMARK 3 T13: -0.0058 T23: 0.0065 REMARK 3 L TENSOR REMARK 3 L11: 1.0191 L22: 0.8376 REMARK 3 L33: 0.9993 L12: -0.1541 REMARK 3 L13: 0.2193 L23: 0.0521 REMARK 3 S TENSOR REMARK 3 S11: 0.0401 S12: 0.1605 S13: 0.0046 REMARK 3 S21: -0.1292 S22: -0.0024 S23: 0.0345 REMARK 3 S31: -0.0211 S32: -0.0040 S33: -0.0300 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 6S1B COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 19-JUN-19. REMARK 100 THE DEPOSITION ID IS D_1292102984. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 13-MAY-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 : I04-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9282 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 : XDS REMARK 200 DATA SCALING SOFTWARE : AIMLESS 0.5.31 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 103325 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.300 REMARK 200 RESOLUTION RANGE LOW (A) : 30.600 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.9 REMARK 200 DATA REDUNDANCY : 2.700 REMARK 200 R MERGE (I) : 0.05000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 10.1000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.30 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.33 REMARK 200 COMPLETENESS FOR SHELL (%) : 95.0 REMARK 200 DATA REDUNDANCY IN SHELL : 2.00 REMARK 200 R MERGE FOR SHELL (I) : 0.69900 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 (%): 55.15 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.74 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 2.2M AMMONIUM SULFATE -- 0.1M CITRATE REMARK 280 PH 5.3 -- 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 50.65500 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 35.20500 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 50.65500 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 35.20500 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 1110 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 16490 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -58.0 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 650 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 LEU A 398 REMARK 465 PRO A 399 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 GLU A 414 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 CG1 CG2 REMARK 470 LYS A 150 CD CE NZ REMARK 470 LYS A 154 CD CE NZ REMARK 470 LYS A 167 CD CE NZ REMARK 470 GLU A 216 CG CD OE1 OE2 REMARK 470 LYS A 218 CD CE NZ REMARK 470 LYS A 299 CG CD CE NZ REMARK 470 GLN A 316 CG CD OE1 NE2 REMARK 470 GLU A 358 CD OE1 OE2 REMARK 470 ARG A 392 CZ NH1 NH2 REMARK 470 ASN A 404 CG OD1 ND2 REMARK 470 LYS A 406 NZ REMARK 470 LYS A 407 CG CD CE NZ REMARK 470 LYS A 480 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 HG SER A 310 O HOH A 601 1.32 REMARK 500 O HOH A 952 O HOH A 1001 1.34 REMARK 500 HZ2 LYS A 416 O HOH A 605 1.42 REMARK 500 H GLN A 316 O HOH A 611 1.54 REMARK 500 OD1 ASN A 297 H LYS A 299 1.57 REMARK 500 O HOH A 734 O HOH A 919 1.82 REMARK 500 OG SER A 310 O HOH A 601 1.84 REMARK 500 O HOH A 970 O HOH A 1008 1.84 REMARK 500 O HOH A 919 O HOH A 1054 1.84 REMARK 500 O4 SO4 A 503 O HOH A 602 1.87 REMARK 500 OD1 ASP A 448 O HOH A 603 1.88 REMARK 500 O HOH A 957 O HOH A 998 1.91 REMARK 500 O HOH A 612 O HOH A 870 1.95 REMARK 500 O HOH A 834 O HOH A 907 1.95 REMARK 500 N ASP A 400 O HOH A 604 1.96 REMARK 500 O HOH A 915 O HOH A 1013 1.98 REMARK 500 O HOH A 1066 O HOH A 1088 1.99 REMARK 500 O HOH A 1086 O HOH A 1087 2.00 REMARK 500 O HOH A 665 O HOH A 853 2.00 REMARK 500 O HOH A 953 O HOH A 1080 2.02 REMARK 500 O HOH A 953 O HOH A 1015 2.02 REMARK 500 O HOH A 930 O HOH A 982 2.04 REMARK 500 O HOH A 963 O HOH A 987 2.04 REMARK 500 O HOH A 713 O HOH A 992 2.04 REMARK 500 O HOH A 812 O HOH A 932 2.05 REMARK 500 O HOH A 1069 O HOH A 1077 2.06 REMARK 500 O HOH A 891 O HOH A 1076 2.06 REMARK 500 O HOH A 1015 O HOH A 1080 2.10 REMARK 500 O HOH A 728 O HOH A 997 2.11 REMARK 500 O HOH A 706 O HOH A 953 2.12 REMARK 500 NZ LYS A 416 O HOH A 605 2.13 REMARK 500 O HOH A 916 O HOH A 967 2.15 REMARK 500 O HOH A 862 O HOH A 1058 2.16 REMARK 500 OD1 ASP A 157 O HOH A 606 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 O HOH A 944 O HOH A 944 2555 1.49 REMARK 500 O HOH A 952 O HOH A 952 2656 1.82 REMARK 500 O HOH A 751 O HOH A 930 4556 1.95 REMARK 500 O HOH A 907 O HOH A 1020 2656 1.97 REMARK 500 O HOH A 620 O HOH A 657 2656 1.99 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 MET A 240 CG - SD - CE ANGL. DEV. = -13.8 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 -52.16 -147.78 REMARK 500 ARG A 158 -52.16 -144.80 REMARK 500 ASP A 162 -64.67 -97.02 REMARK 500 ASP A 214 62.30 -151.29 REMARK 500 SER A 242 -157.99 -96.45 REMARK 500 SER A 242 -149.66 -96.45 REMARK 500 LEU A 281 -65.96 -96.55 REMARK 500 LEU A 281 -69.19 -101.05 REMARK 500 CYS A 286 -1.48 75.32 REMARK 500 ASP A 287 42.27 -147.60 REMARK 500 ASP A 307 83.95 74.75 REMARK 500 GLN A 323 137.58 81.09 REMARK 500 GLN A 323 141.83 81.09 REMARK 500 SER A 362 67.88 -100.50 REMARK 500 HIS A 444 49.24 -150.08 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 A1088 DISTANCE = 6.37 ANGSTROMS REMARK 525 HOH A1089 DISTANCE = 6.43 ANGSTROMS REMARK 525 HOH A1090 DISTANCE = 6.63 ANGSTROMS REMARK 525 HOH A1091 DISTANCE = 7.03 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 KRQ 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 DBREF 6S1B A 127 485 UNP Q13627 DYR1A_HUMAN 127 485 SEQADV 6S1B SER A 125 UNP Q13627 EXPRESSION TAG SEQADV 6S1B 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 6S1B PTR A 321 TYR MODIFIED RESIDUE HET PTR A 321 23 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 KRQ A 507 27 HET EDO A 508 10 HETNAM PTR O-PHOSPHOTYROSINE HETNAM SO4 SULFATE ION HETNAM KRQ ~{N}-METHYL-4-PYRAZOLO[1,5-B]PYRIDAZIN-3-YL-PYRIMIDIN- HETNAM 2 KRQ 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 6(O4 S 2-) FORMUL 8 KRQ C11 H10 N6 FORMUL 9 EDO C2 H6 O2 FORMUL 10 HOH *491(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 SER A 324 ARG A 328 5 5 HELIX 7 AA7 SER A 329 LEU A 334 1 6 HELIX 8 AA8 LEU A 340 GLY A 357 1 18 HELIX 9 AA9 ASN A 365 GLY A 378 1 14 HELIX 10 AB1 PRO A 381 ASP A 386 1 6 HELIX 11 AB2 LYS A 390 PHE A 394 1 5 HELIX 12 AB3 LYS A 422 LEU A 427 1 6 HELIX 13 AB4 GLY A 433 ARG A 437 5 5 HELIX 14 AB5 THR A 445 LEU A 460 1 16 HELIX 15 AB6 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 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 GLU A 396 0 SHEET 2 AA4 2 ASN A 404 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 1.34 SITE 1 AC1 7 SER A 169 LYS A 193 LYS A 194 HOH A 664 SITE 2 AC1 7 HOH A 723 HOH A 819 HOH A 833 SITE 1 AC2 9 ASN A 144 GLY A 168 SER A 169 LYS A 191 SITE 2 AC2 9 LYS A 193 LYS A 481 HOH A 620 HOH A 645 SITE 3 AC2 9 HOH A 762 SITE 1 AC3 6 ARG A 325 ARG A 328 GLU A 366 HOH A 602 SITE 2 AC3 6 HOH A 695 HOH A 887 SITE 1 AC4 4 LYS A 264 ARG A 300 SER A 301 HOH A 836 SITE 1 AC5 2 ARG A 226 HOH A 629 SITE 1 AC6 5 ASN A 365 GLU A 366 VAL A 367 LYS A 393 SITE 2 AC6 5 HOH A 768 SITE 1 AC7 7 PHE A 170 ALA A 186 LYS A 188 PHE A 238 SITE 2 AC7 7 GLU A 239 LEU A 241 HOH A 697 SITE 1 AC8 7 THR A 466 ARG A 467 ILE A 468 GLN A 469 SITE 2 AC8 7 TYR A 472 HOH A 609 HOH A 864 CRYST1 101.310 70.410 68.700 90.00 118.04 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 0.009871 0.000000 0.005257 0.00000 SCALE2 0.000000 0.014203 0.000000 0.00000 SCALE3 0.000000 0.000000 0.016492 0.00000