HEADER TRANSFERASE 20-AUG-20 7A4R TITLE STRUCTURE OF DYRK1A IN COMPLEX WITH COMPOUND 1 COMPND MOL_ID: 1; COMPND 2 MOLECULE: DUAL SPECIFICITY TYROSINE-PHOSPHORYLATION-REGULATED KINASE COMPND 3 1A; COMPND 4 CHAIN: A, B; 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; SOURCE 8 EXPRESSION_SYSTEM_CELL_LINE: PLYSS KEYWDS SERINE/THREONINE-PROTEIN KINASE, PHOSPHOPROTEIN, KINASE, SBDD, FBLD, KEYWDS 2 SMALL MOLECULE INHIBITOR, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR P.DOKURNO,A.E.SURGENOR,R.E.HUBBARD REVDAT 3 31-JAN-24 7A4R 1 REMARK REVDAT 2 21-JUL-21 7A4R 1 JRNL REVDAT 1 30-JUN-21 7A4R 0 JRNL AUTH D.LEE WALMSLEY,J.B.MURRAY,P.DOKURNO,A.J.MASSEY,K.BENWELL, JRNL AUTH 2 A.FIUMANA,N.FOLOPPE,S.RAY,J.SMITH,A.E.SURGENOR,T.EDMONDS, JRNL AUTH 3 D.DEMARLES,M.BURBRIDGE,F.CRUZALEGUI,A.KOTSCHY,R.E.HUBBARD JRNL TITL FRAGMENT-DERIVED SELECTIVE INHIBITORS OF DUAL-SPECIFICITY JRNL TITL 2 KINASES DYRK1A AND DYRK1B. JRNL REF J.MED.CHEM. V. 64 8971 2021 JRNL REFN ISSN 0022-2623 JRNL PMID 34143631 JRNL DOI 10.1021/ACS.JMEDCHEM.1C00024 REMARK 2 REMARK 2 RESOLUTION. 1.80 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0258 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) : 1.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 25.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 3 NUMBER OF REFLECTIONS : 67863 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) : 0.164 REMARK 3 R VALUE (WORKING SET) : 0.162 REMARK 3 FREE R VALUE : 0.194 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 3626 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 10 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 1.80 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.90 REMARK 3 REFLECTION IN BIN (WORKING SET) : 9522 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 97.40 REMARK 3 BIN R VALUE (WORKING SET) : 0.2380 REMARK 3 BIN FREE R VALUE SET COUNT : 529 REMARK 3 BIN FREE R VALUE : 0.2570 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 5442 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 30 REMARK 3 SOLVENT ATOMS : 636 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 20.05 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 1.13000 REMARK 3 B22 (A**2) : -0.40000 REMARK 3 B33 (A**2) : -0.73000 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): 0.112 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.107 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.074 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.447 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.963 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.949 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 5618 ; 0.011 ; 0.013 REMARK 3 BOND LENGTHS OTHERS (A): 5294 ; 0.001 ; 0.017 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 7588 ; 1.706 ; 1.643 REMARK 3 BOND ANGLES OTHERS (DEGREES): 12271 ; 1.433 ; 1.577 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 672 ; 6.237 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 296 ;32.596 ;21.824 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 1013 ;13.579 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 38 ;22.879 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 698 ; 0.090 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 6160 ; 0.010 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 1208 ; 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): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL 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 U VALUES : REFINED INDIVIDUALLY REMARK 4 REMARK 4 7A4R COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 20-AUG-20. REMARK 100 THE DEPOSITION ID IS D_1292110844. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 05-NOV-09 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID23-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.973 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 82213 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.700 REMARK 200 RESOLUTION RANGE LOW (A) : 30.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 96.7 REMARK 200 DATA REDUNDANCY : 5.500 REMARK 200 R MERGE (I) : 0.10100 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 15.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.70 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.76 REMARK 200 COMPLETENESS FOR SHELL (%) : 75.6 REMARK 200 DATA REDUNDANCY IN SHELL : 2.70 REMARK 200 R MERGE FOR SHELL (I) : 0.58500 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.400 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: 2VX3 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 46.52 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.30 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1M MES BUFFER AT PH 6.5, 12% REMARK 280 PEG3350, 0.2M MGCL2, VAPOR DIFFUSION, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 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 29.30950 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 76.18050 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 42.74200 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 76.18050 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 29.30950 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 42.74200 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 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 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: B 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 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 MET A 127 REMARK 465 GLY A 128 REMARK 465 SER A 129 REMARK 465 SER A 130 REMARK 465 HIS A 131 REMARK 465 HIS A 132 REMARK 465 HIS A 133 REMARK 465 HIS A 134 REMARK 465 HIS A 135 REMARK 465 HIS A 136 REMARK 465 SER A 137 REMARK 465 SER A 138 REMARK 465 GLY A 139 REMARK 465 LEU A 140 REMARK 465 GLY A 411 REMARK 465 LYS A 412 REMARK 465 ARG A 413 REMARK 465 ALA A 481 REMARK 465 MET B 127 REMARK 465 GLY B 128 REMARK 465 SER B 129 REMARK 465 SER B 130 REMARK 465 HIS B 131 REMARK 465 HIS B 132 REMARK 465 HIS B 133 REMARK 465 HIS B 134 REMARK 465 HIS B 135 REMARK 465 HIS B 136 REMARK 465 SER B 137 REMARK 465 SER B 138 REMARK 465 GLY B 139 REMARK 465 LEU B 140 REMARK 465 VAL B 141 REMARK 465 THR B 408 REMARK 465 LYS B 409 REMARK 465 ASP B 410 REMARK 465 GLY B 411 REMARK 465 LYS B 412 REMARK 465 ARG B 413 REMARK 465 ALA B 481 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 B 216 CG CD OE1 OE2 REMARK 470 MET B 217 CG SD CE REMARK 470 LYS B 218 CG CD CE NZ REMARK 470 LYS B 299 CG CD CE NZ REMARK 470 LYS B 407 CG CD CE NZ REMARK 470 GLU B 414 CG CD OE1 OE2 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 B 791 O HOH B 837 1.53 REMARK 500 O HOH A 861 O HOH A 896 1.65 REMARK 500 O HOH A 870 O HOH A 896 1.69 REMARK 500 O HOH A 603 O HOH A 881 1.84 REMARK 500 OD1 ASP A 410 O HOH A 601 1.87 REMARK 500 O HOH B 721 O HOH B 826 1.93 REMARK 500 O HOH A 806 O HOH A 848 1.94 REMARK 500 O3P PTR B 321 O HOH B 601 1.96 REMARK 500 O HOH A 917 O HOH A 933 2.00 REMARK 500 O HOH A 892 O HOH A 902 2.02 REMARK 500 O HOH A 665 O HOH A 904 2.02 REMARK 500 O HOH A 829 O HOH B 841 2.02 REMARK 500 O LYS B 406 O HOH B 602 2.03 REMARK 500 OD1 ASN B 192 O HOH B 603 2.03 REMARK 500 O HOH A 673 O HOH A 856 2.04 REMARK 500 O HOH B 804 O HOH B 837 2.07 REMARK 500 O GLN B 320 O HOH B 604 2.08 REMARK 500 O HOH A 948 O HOH B 802 2.11 REMARK 500 O HOH B 609 O HOH B 672 2.11 REMARK 500 O HOH B 815 O HOH B 820 2.13 REMARK 500 O HOH A 775 O HOH A 868 2.15 REMARK 500 O HOH A 701 O HOH A 934 2.18 REMARK 500 O HOH B 616 O HOH B 624 2.19 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS 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,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) 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 RES CSSEQI ATM2 DEVIATION REMARK 500 GLU A 366 CD GLU A 366 OE2 0.073 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 325 NE - CZ - NH1 ANGL. DEV. = 3.5 DEGREES REMARK 500 ARG A 325 NE - CZ - NH2 ANGL. DEV. = -3.6 DEGREES REMARK 500 ARG A 458 NE - CZ - NH2 ANGL. DEV. = -3.8 DEGREES REMARK 500 ARG B 205 NE - CZ - NH2 ANGL. DEV. = -3.3 DEGREES REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 ARG A 158 -54.91 -136.68 REMARK 500 SER A 242 -152.94 -102.08 REMARK 500 LEU A 281 -67.01 -98.80 REMARK 500 ASP A 287 40.98 -149.84 REMARK 500 ASP A 307 83.02 70.73 REMARK 500 GLN A 323 147.14 76.72 REMARK 500 ARG B 158 -53.24 -138.30 REMARK 500 ASP B 214 52.97 -146.08 REMARK 500 SER B 242 -158.80 -85.73 REMARK 500 LEU B 281 -68.67 -92.83 REMARK 500 ASP B 287 46.43 -148.75 REMARK 500 ASP B 307 79.44 69.18 REMARK 500 GLN B 323 145.80 79.54 REMARK 500 SER B 362 70.19 -105.72 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 7A4O RELATED DB: PDB DBREF 7A4R A 148 479 UNP Q13627 DYR1A_HUMAN 148 479 DBREF 7A4R B 148 479 UNP Q13627 DYR1A_HUMAN 148 479 SEQADV 7A4R MET A 127 UNP Q13627 INITIATING METHIONINE SEQADV 7A4R GLY A 128 UNP Q13627 EXPRESSION TAG SEQADV 7A4R SER A 129 UNP Q13627 EXPRESSION TAG SEQADV 7A4R SER A 130 UNP Q13627 EXPRESSION TAG SEQADV 7A4R HIS A 131 UNP Q13627 EXPRESSION TAG SEQADV 7A4R HIS A 132 UNP Q13627 EXPRESSION TAG SEQADV 7A4R HIS A 133 UNP Q13627 EXPRESSION TAG SEQADV 7A4R HIS A 134 UNP Q13627 EXPRESSION TAG SEQADV 7A4R HIS A 135 UNP Q13627 EXPRESSION TAG SEQADV 7A4R HIS A 136 UNP Q13627 EXPRESSION TAG SEQADV 7A4R SER A 137 UNP Q13627 EXPRESSION TAG SEQADV 7A4R SER A 138 UNP Q13627 EXPRESSION TAG SEQADV 7A4R GLY A 139 UNP Q13627 EXPRESSION TAG SEQADV 7A4R LEU A 140 UNP Q13627 EXPRESSION TAG SEQADV 7A4R VAL A 141 UNP Q13627 EXPRESSION TAG SEQADV 7A4R PRO A 142 UNP Q13627 EXPRESSION TAG SEQADV 7A4R ARG A 143 UNP Q13627 EXPRESSION TAG SEQADV 7A4R GLY A 144 UNP Q13627 EXPRESSION TAG SEQADV 7A4R SEP A 145 UNP Q13627 EXPRESSION TAG SEQADV 7A4R HIS A 146 UNP Q13627 EXPRESSION TAG SEQADV 7A4R MET A 147 UNP Q13627 EXPRESSION TAG SEQADV 7A4R ALA A 480 UNP Q13627 EXPRESSION TAG SEQADV 7A4R ALA A 481 UNP Q13627 EXPRESSION TAG SEQADV 7A4R MET B 127 UNP Q13627 INITIATING METHIONINE SEQADV 7A4R GLY B 128 UNP Q13627 EXPRESSION TAG SEQADV 7A4R SER B 129 UNP Q13627 EXPRESSION TAG SEQADV 7A4R SER B 130 UNP Q13627 EXPRESSION TAG SEQADV 7A4R HIS B 131 UNP Q13627 EXPRESSION TAG SEQADV 7A4R HIS B 132 UNP Q13627 EXPRESSION TAG SEQADV 7A4R HIS B 133 UNP Q13627 EXPRESSION TAG SEQADV 7A4R HIS B 134 UNP Q13627 EXPRESSION TAG SEQADV 7A4R HIS B 135 UNP Q13627 EXPRESSION TAG SEQADV 7A4R HIS B 136 UNP Q13627 EXPRESSION TAG SEQADV 7A4R SER B 137 UNP Q13627 EXPRESSION TAG SEQADV 7A4R SER B 138 UNP Q13627 EXPRESSION TAG SEQADV 7A4R GLY B 139 UNP Q13627 EXPRESSION TAG SEQADV 7A4R LEU B 140 UNP Q13627 EXPRESSION TAG SEQADV 7A4R VAL B 141 UNP Q13627 EXPRESSION TAG SEQADV 7A4R PRO B 142 UNP Q13627 EXPRESSION TAG SEQADV 7A4R ARG B 143 UNP Q13627 EXPRESSION TAG SEQADV 7A4R GLY B 144 UNP Q13627 EXPRESSION TAG SEQADV 7A4R SEP B 145 UNP Q13627 EXPRESSION TAG SEQADV 7A4R HIS B 146 UNP Q13627 EXPRESSION TAG SEQADV 7A4R MET B 147 UNP Q13627 EXPRESSION TAG SEQADV 7A4R ALA B 480 UNP Q13627 EXPRESSION TAG SEQADV 7A4R ALA B 481 UNP Q13627 EXPRESSION TAG SEQRES 1 A 355 MET GLY SER SER HIS HIS HIS HIS HIS HIS SER SER GLY SEQRES 2 A 355 LEU VAL PRO ARG GLY SEP HIS MET ILE VAL LYS ASN GLY SEQRES 3 A 355 GLU LYS TRP MET ASP ARG TYR GLU ILE ASP SER LEU ILE SEQRES 4 A 355 GLY LYS GLY SER PHE GLY GLN VAL VAL LYS ALA TYR ASP SEQRES 5 A 355 ARG VAL GLU GLN GLU TRP VAL ALA ILE LYS ILE ILE LYS SEQRES 6 A 355 ASN LYS LYS ALA PHE LEU ASN GLN ALA GLN ILE GLU VAL SEQRES 7 A 355 ARG LEU LEU GLU LEU MET ASN LYS HIS ASP THR GLU MET SEQRES 8 A 355 LYS TYR TYR ILE VAL HIS LEU LYS ARG HIS PHE MET PHE SEQRES 9 A 355 ARG ASN HIS LEU CYS LEU VAL PHE GLU MET LEU SER TYR SEQRES 10 A 355 ASN LEU TYR ASP LEU LEU ARG ASN THR ASN PHE ARG GLY SEQRES 11 A 355 VAL SER LEU ASN LEU THR ARG LYS PHE ALA GLN GLN MET SEQRES 12 A 355 CYS THR ALA LEU LEU PHE LEU ALA THR PRO GLU LEU SER SEQRES 13 A 355 ILE ILE HIS CYS ASP LEU LYS PRO GLU ASN ILE LEU LEU SEQRES 14 A 355 CYS ASN PRO LYS ARG SER ALA ILE LYS ILE VAL ASP PHE SEQRES 15 A 355 GLY SER SER CYS GLN LEU GLY GLN ARG ILE TYR GLN PTR SEQRES 16 A 355 ILE GLN SER ARG PHE TYR ARG SER PRO GLU VAL LEU LEU SEQRES 17 A 355 GLY MET PRO TYR ASP LEU ALA ILE ASP MET TRP SER LEU SEQRES 18 A 355 GLY CYS ILE LEU VAL GLU MET HIS THR GLY GLU PRO LEU SEQRES 19 A 355 PHE SER GLY ALA ASN GLU VAL ASP GLN MET ASN LYS ILE SEQRES 20 A 355 VAL GLU VAL LEU GLY ILE PRO PRO ALA HIS ILE LEU ASP SEQRES 21 A 355 GLN ALA PRO LYS ALA ARG LYS PHE PHE GLU LYS LEU PRO SEQRES 22 A 355 ASP GLY THR TRP ASN LEU LYS LYS THR LYS ASP GLY LYS SEQRES 23 A 355 ARG GLU TYR LYS PRO PRO GLY THR ARG LYS LEU HIS ASN SEQRES 24 A 355 ILE LEU GLY VAL GLU THR GLY GLY PRO GLY GLY ARG ARG SEQRES 25 A 355 ALA GLY GLU SER GLY HIS THR VAL ALA ASP TYR LEU LYS SEQRES 26 A 355 PHE LYS ASP LEU ILE LEU ARG MET LEU ASP TYR ASP PRO SEQRES 27 A 355 LYS THR ARG ILE GLN PRO TYR TYR ALA LEU GLN HIS SER SEQRES 28 A 355 PHE PHE ALA ALA SEQRES 1 B 355 MET GLY SER SER HIS HIS HIS HIS HIS HIS SER SER GLY SEQRES 2 B 355 LEU VAL PRO ARG GLY SEP HIS MET ILE VAL LYS ASN GLY SEQRES 3 B 355 GLU LYS TRP MET ASP ARG TYR GLU ILE ASP SER LEU ILE SEQRES 4 B 355 GLY LYS GLY SER PHE GLY GLN VAL VAL LYS ALA TYR ASP SEQRES 5 B 355 ARG VAL GLU GLN GLU TRP VAL ALA ILE LYS ILE ILE LYS SEQRES 6 B 355 ASN LYS LYS ALA PHE LEU ASN GLN ALA GLN ILE GLU VAL SEQRES 7 B 355 ARG LEU LEU GLU LEU MET ASN LYS HIS ASP THR GLU MET SEQRES 8 B 355 LYS TYR TYR ILE VAL HIS LEU LYS ARG HIS PHE MET PHE SEQRES 9 B 355 ARG ASN HIS LEU CYS LEU VAL PHE GLU MET LEU SER TYR SEQRES 10 B 355 ASN LEU TYR ASP LEU LEU ARG ASN THR ASN PHE ARG GLY SEQRES 11 B 355 VAL SER LEU ASN LEU THR ARG LYS PHE ALA GLN GLN MET SEQRES 12 B 355 CYS THR ALA LEU LEU PHE LEU ALA THR PRO GLU LEU SER SEQRES 13 B 355 ILE ILE HIS CYS ASP LEU LYS PRO GLU ASN ILE LEU LEU SEQRES 14 B 355 CYS ASN PRO LYS ARG SER ALA ILE LYS ILE VAL ASP PHE SEQRES 15 B 355 GLY SER SER CYS GLN LEU GLY GLN ARG ILE TYR GLN PTR SEQRES 16 B 355 ILE GLN SER ARG PHE TYR ARG SER PRO GLU VAL LEU LEU SEQRES 17 B 355 GLY MET PRO TYR ASP LEU ALA ILE ASP MET TRP SER LEU SEQRES 18 B 355 GLY CYS ILE LEU VAL GLU MET HIS THR GLY GLU PRO LEU SEQRES 19 B 355 PHE SER GLY ALA ASN GLU VAL ASP GLN MET ASN LYS ILE SEQRES 20 B 355 VAL GLU VAL LEU GLY ILE PRO PRO ALA HIS ILE LEU ASP SEQRES 21 B 355 GLN ALA PRO LYS ALA ARG LYS PHE PHE GLU LYS LEU PRO SEQRES 22 B 355 ASP GLY THR TRP ASN LEU LYS LYS THR LYS ASP GLY LYS SEQRES 23 B 355 ARG GLU TYR LYS PRO PRO GLY THR ARG LYS LEU HIS ASN SEQRES 24 B 355 ILE LEU GLY VAL GLU THR GLY GLY PRO GLY GLY ARG ARG SEQRES 25 B 355 ALA GLY GLU SER GLY HIS THR VAL ALA ASP TYR LEU LYS SEQRES 26 B 355 PHE LYS ASP LEU ILE LEU ARG MET LEU ASP TYR ASP PRO SEQRES 27 B 355 LYS THR ARG ILE GLN PRO TYR TYR ALA LEU GLN HIS SER SEQRES 28 B 355 PHE PHE ALA ALA MODRES 7A4R PTR A 321 TYR MODIFIED RESIDUE MODRES 7A4R PTR B 321 TYR MODIFIED RESIDUE HET SEP A 145 10 HET PTR A 321 16 HET SEP B 145 10 HET PTR B 321 16 HET QY8 A 501 11 HET DMS A 502 4 HET QY8 B 501 11 HET DMS B 502 4 HETNAM SEP PHOSPHOSERINE HETNAM PTR O-PHOSPHOTYROSINE HETNAM QY8 2-AMINO-3H,4H,7H-PYRROLO[2,3-D]PYRIMIDIN-4-ONE HETNAM DMS DIMETHYL SULFOXIDE HETSYN SEP PHOSPHONOSERINE HETSYN PTR PHOSPHONOTYROSINE HETSYN QY8 2-AZANYL-3,7-DIHYDROPYRROLO[2,3-D]PYRIMIDIN-4-ONE FORMUL 1 SEP 2(C3 H8 N O6 P) FORMUL 1 PTR 2(C9 H12 N O6 P) FORMUL 3 QY8 2(C6 H6 N4 O) FORMUL 4 DMS 2(C2 H6 O S) FORMUL 7 HOH *636(H2 O) HELIX 1 AA1 LYS A 193 LYS A 212 1 20 HELIX 2 AA2 THR A 215 ILE A 221 5 7 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 LYS A 393 5 4 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 LEU A 474 1 6 HELIX 16 AB7 GLN A 475 ALA A 480 5 6 HELIX 17 AB8 LYS B 193 HIS B 213 1 21 HELIX 18 AB9 ASN B 244 THR B 252 1 9 HELIX 19 AC1 SER B 258 ALA B 277 1 20 HELIX 20 AC2 LYS B 289 GLU B 291 5 3 HELIX 21 AC3 SER B 324 ARG B 328 5 5 HELIX 22 AC4 SER B 329 LEU B 334 1 6 HELIX 23 AC5 LEU B 340 GLY B 357 1 18 HELIX 24 AC6 ASN B 365 GLY B 378 1 14 HELIX 25 AC7 PRO B 381 ASP B 386 1 6 HELIX 26 AC8 LYS B 390 PHE B 394 1 5 HELIX 27 AC9 LYS B 422 LEU B 427 1 6 HELIX 28 AD1 GLY B 433 ARG B 437 5 5 HELIX 29 AD2 THR B 445 LEU B 460 1 16 HELIX 30 AD3 GLN B 469 GLN B 475 1 7 HELIX 31 AD4 HIS B 476 ALA B 480 5 5 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 GLY A 166 SHEET 4 AA1 6 GLU A 183 ILE A 190 -1 O ILE A 189 N GLN A 172 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 LYS A 225 O VAL A 237 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 SHEET 1 AA5 6 LYS B 154 TRP B 155 0 SHEET 2 AA5 6 TYR B 159 GLY B 168 -1 O TYR B 159 N TRP B 155 SHEET 3 AA5 6 GLY B 171 ASP B 178 -1 O VAL B 173 N ILE B 165 SHEET 4 AA5 6 GLU B 183 ILE B 190 -1 O ILE B 189 N GLN B 172 SHEET 5 AA5 6 HIS B 233 GLU B 239 -1 O PHE B 238 N ALA B 186 SHEET 6 AA5 6 LEU B 224 PHE B 230 -1 N PHE B 228 O CYS B 235 SHEET 1 AA6 2 ILE B 283 ILE B 284 0 SHEET 2 AA6 2 CYS B 312 GLN B 313 -1 O CYS B 312 N ILE B 284 SHEET 1 AA7 2 ILE B 293 LEU B 295 0 SHEET 2 AA7 2 ILE B 303 ILE B 305 -1 O LYS B 304 N LEU B 294 SHEET 1 AA8 2 PHE B 395 LYS B 397 0 SHEET 2 AA8 2 TRP B 403 LEU B 405 -1 O ASN B 404 N GLU B 396 LINK C GLY A 144 N SEP A 145 1555 1555 1.33 LINK C SEP A 145 N HIS A 146 1555 1555 1.34 LINK C GLN A 320 N PTR A 321 1555 1555 1.35 LINK C PTR A 321 N ILE A 322 1555 1555 1.34 LINK C GLY B 144 N SEP B 145 1555 1555 1.33 LINK C SEP B 145 N HIS B 146 1555 1555 1.35 LINK C GLN B 320 N PTR B 321 1555 1555 1.33 LINK C PTR B 321 N ILE B 322 1555 1555 1.33 CRYST1 58.619 85.484 152.361 90.00 90.00 90.00 P 21 21 21 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 0.017059 0.000000 0.000000 0.00000 SCALE2 0.000000 0.011698 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006563 0.00000