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 <I/SIGMA(I)> 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 <I/SIGMA(I)> FOR SHELL : NULL
REMARK 200
REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH
REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT
REMARK 200 SOFTWARE USED: 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