PDB Short entry for 3WF6 HEADER TRANSFERASE/TRANSFERASE INHIBITOR 17-JUL-13 3WF6 TITLE CRYSTAL STRUCTURE OF S6K1 KINASE DOMAIN IN COMPLEX WITH A TITLE 2 PYRAZOLOPYRIMIDINE DERIVATIVE 4-[4-(1H-INDOL-3-YL)-3,6- TITLE 3 DIHYDROPYRIDIN-1(2H)-YL]-1H-PYRAZOLO[3,4-D]PYRIMIDINE COMPND MOL_ID: 1; COMPND 2 MOLECULE: RIBOSOMAL PROTEIN S6 KINASE BETA-1; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: UNP RESIDUES 78-399; COMPND 5 SYNONYM: S6K-BETA-1, S6K1, 70 KDA RIBOSOMAL PROTEIN S6 KINASE 1, COMPND 6 RIBOSOMAL PROTEIN S6 KINASE I, SERINE/THREONINE-PROTEIN KINASE 14A, COMPND 7 P70 RIBOSOMAL S6 KINASE ALPHA; COMPND 8 EC: 2.7.11.1; COMPND 9 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: RPS6KB1; SOURCE 6 EXPRESSION_SYSTEM: SPODOPTERA FRUGIPERDA; SOURCE 7 EXPRESSION_SYSTEM_COMMON: FALL ARMYWORM; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 7108; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: BACULOVIRUS KEYWDS SERINE/THREONINE PROTEIN KINASE DOMAIN, TRANSFERASE, PHOSPHORYLATION, KEYWDS 2 ATP-BINDING, ZINC-BINDING, TRANSFERASE-TRANSFERASE INHIBITOR COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR H.NIWA,M.SHIROUZU,S.YOKOYAMA REVDAT 3 29-OCT-14 3WF6 1 JRNL REVDAT 2 13-AUG-14 3WF6 1 JRNL REVDAT 1 06-AUG-14 3WF6 0 JRNL AUTH H.NIWA,J.MIKUNI,S.SASAKI,Y.TOMABECHI,K.HONDA,M.IKEDA, JRNL AUTH 2 N.OHSAWA,M.WAKIYAMA,N.HANDA,M.SHIROUZU,T.HONMA,A.TANAKA, JRNL AUTH 3 S.YOKOYAMA JRNL TITL CRYSTAL STRUCTURES OF THE S6K1 KINASE DOMAIN IN COMPLEXES JRNL TITL 2 WITH INHIBITORS JRNL REF J.STRUCT.FUNCT.GENOM. V. 15 153 2014 JRNL REFN ISSN 1345-711X JRNL PMID 25078151 JRNL DOI 10.1007/S10969-014-9188-8 REMARK 2 REMARK 2 RESOLUTION. 2.03 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE: 1.9_1690) REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE- REMARK 3 : KUNSTLEVE,LI-WEI HUNG,ROBERT IMMORMINO, REMARK 3 : TOM IOERGER,AIRLIE MCCOY,ERIK MCKEE,NIGEL REMARK 3 : MORIARTY,REETAL PAI,RANDY READ,JANE REMARK 3 : RICHARDSON,DAVID RICHARDSON,TOD ROMO,JIM REMARK 3 : SACCHETTINI,NICHOLAS SAUTER,JACOB SMITH, REMARK 3 : LAURENT STORONI,TOM TERWILLIGER,PETER REMARK 3 : ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.03 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 34.54 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.260 REMARK 3 COMPLETENESS FOR RANGE (%) : 94.9 REMARK 3 NUMBER OF REFLECTIONS : 22335 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.198 REMARK 3 R VALUE (WORKING SET) : 0.195 REMARK 3 FREE R VALUE : 0.265 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.050 REMARK 3 FREE R VALUE TEST SET COUNT : 2070 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 34.5415 - 5.0041 0.99 2736 119 0.1637 0.2528 REMARK 3 2 5.0041 - 3.9738 1.00 2751 136 0.1419 0.1738 REMARK 3 3 3.9738 - 3.4720 0.98 2665 134 0.1651 0.2489 REMARK 3 4 3.4720 - 3.1548 1.00 2734 124 0.1905 0.2265 REMARK 3 5 3.1548 - 2.9288 1.00 2789 139 0.2176 0.3079 REMARK 3 6 2.9288 - 2.7562 1.00 2662 177 0.2143 0.2916 REMARK 3 7 2.7562 - 2.6182 1.00 2760 137 0.2281 0.2708 REMARK 3 8 2.6182 - 2.5043 1.00 2705 165 0.2552 0.3406 REMARK 3 9 2.5043 - 2.4079 1.00 2732 145 0.2378 0.2950 REMARK 3 10 2.4079 - 2.3248 1.00 2702 147 0.2490 0.3020 REMARK 3 11 2.3248 - 2.2522 0.70 1884 134 0.3913 0.5375 REMARK 3 12 2.2522 - 2.1878 0.62 1683 104 0.5057 0.6109 REMARK 3 13 2.1878 - 2.1302 1.00 2749 132 0.2891 0.2361 REMARK 3 14 2.1302 - 2.0782 0.99 2671 157 0.2877 0.3474 REMARK 3 15 2.0782 - 2.0310 0.99 2726 120 0.3162 0.2917 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) : 0.250 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 27.820 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 63.94 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 : 0.008 2301 REMARK 3 ANGLE : 1.058 3102 REMARK 3 CHIRALITY : 0.043 328 REMARK 3 PLANARITY : 0.005 394 REMARK 3 DIHEDRAL : 16.049 873 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 3 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN A AND (RESSEQ 85:140 ) REMARK 3 ORIGIN FOR THE GROUP (A): 5.2405 -3.0968 16.1771 REMARK 3 T TENSOR REMARK 3 T11: 0.6756 T22: 0.3902 REMARK 3 T33: 0.4315 T12: 0.0232 REMARK 3 T13: 0.0902 T23: 0.0184 REMARK 3 L TENSOR REMARK 3 L11: 3.0610 L22: 5.9688 REMARK 3 L33: 7.9584 L12: 0.7645 REMARK 3 L13: 0.5098 L23: -1.0130 REMARK 3 S TENSOR REMARK 3 S11: 0.1668 S12: 0.2774 S13: 0.9455 REMARK 3 S21: -0.6205 S22: 0.0365 S23: 0.0574 REMARK 3 S31: -1.0893 S32: -0.1605 S33: -0.1844 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN A AND (RESSEQ 141:249 ) REMARK 3 ORIGIN FOR THE GROUP (A): 8.8428 -17.7105 7.2707 REMARK 3 T TENSOR REMARK 3 T11: 0.4264 T22: 0.3152 REMARK 3 T33: 0.3491 T12: -0.0655 REMARK 3 T13: 0.0547 T23: -0.0474 REMARK 3 L TENSOR REMARK 3 L11: 3.7767 L22: 5.3840 REMARK 3 L33: 5.8280 L12: -2.7387 REMARK 3 L13: -1.3189 L23: 2.4237 REMARK 3 S TENSOR REMARK 3 S11: 0.0885 S12: 0.2629 S13: 0.0993 REMARK 3 S21: -0.2267 S22: -0.2107 S23: 0.0861 REMARK 3 S31: -0.4477 S32: -0.1445 S33: 0.1389 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN A AND (RESSEQ 250:374 ) REMARK 3 ORIGIN FOR THE GROUP (A): 16.5308 -30.0070 0.6305 REMARK 3 T TENSOR REMARK 3 T11: 0.4109 T22: 0.2491 REMARK 3 T33: 0.3447 T12: -0.0417 REMARK 3 T13: 0.0132 T23: -0.0635 REMARK 3 L TENSOR REMARK 3 L11: 3.2759 L22: 3.4709 REMARK 3 L33: 7.9779 L12: -1.9285 REMARK 3 L13: -2.3997 L23: 2.1612 REMARK 3 S TENSOR REMARK 3 S11: -0.0974 S12: 0.1107 S13: -0.2401 REMARK 3 S21: 0.2222 S22: -0.0747 S23: 0.1564 REMARK 3 S31: 0.3298 S32: 0.1652 S33: 0.1245 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 3WF6 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 30-JUL-13. REMARK 100 THE RCSB ID CODE IS RCSB096258. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 15-APR-11 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SPRING-8 REMARK 200 BEAMLINE : BL26B2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.000 REMARK 200 MONOCHROMATOR : SI DOUBLE CRYSTAL MONOCHROMATOR REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : RAYONIX MX225HE REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 22671 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.031 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 96.5 REMARK 200 DATA REDUNDANCY : 13.700 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.05000 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 43.1000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.03 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.07 REMARK 200 COMPLETENESS FOR SHELL (%) : 98.9 REMARK 200 DATA REDUNDANCY IN SHELL : 14.60 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 2.300 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: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 47.11 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.33 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1M TRIS-HCL, 2.9-3.3M SODIUM REMARK 280 FORMATE, PH 8.5, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 41 21 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -Y+1/2,X+1/2,Z+1/4 REMARK 290 4555 Y+1/2,-X+1/2,Z+3/4 REMARK 290 5555 -X+1/2,Y+1/2,-Z+1/4 REMARK 290 6555 X+1/2,-Y+1/2,-Z+3/4 REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-Z+1/2 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 72.49150 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 34.53650 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 34.53650 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 36.24575 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 34.53650 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 34.53650 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 108.73725 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 34.53650 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 34.53650 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 36.24575 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 34.53650 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 34.53650 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 108.73725 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 72.49150 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 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 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 GLY A 71 REMARK 465 SER A 72 REMARK 465 PHE A 73 REMARK 465 THR A 74 REMARK 465 SER A 75 REMARK 465 SER A 76 REMARK 465 GLY A 77 REMARK 465 SER A 78 REMARK 465 VAL A 79 REMARK 465 ASN A 80 REMARK 465 ARG A 81 REMARK 465 GLY A 82 REMARK 465 PRO A 83 REMARK 465 GLU A 84 REMARK 465 ALA A 128 REMARK 465 MET A 129 REMARK 465 ILE A 130 REMARK 465 VAL A 131 REMARK 465 ARG A 132 REMARK 465 ASN A 133 REMARK 465 ALA A 134 REMARK 465 LYS A 135 REMARK 465 ASP A 136 REMARK 465 THR A 137 REMARK 465 ALA A 138 REMARK 465 HIS A 139 REMARK 465 SER A 375 REMARK 465 GLU A 376 REMARK 465 GLU A 377 REMARK 465 ASP A 378 REMARK 465 VAL A 379 REMARK 465 SER A 380 REMARK 465 GLN A 381 REMARK 465 PHE A 382 REMARK 465 ASP A 383 REMARK 465 SER A 384 REMARK 465 LYS A 385 REMARK 465 PHE A 386 REMARK 465 THR A 387 REMARK 465 ARG A 388 REMARK 465 GLN A 389 REMARK 465 THR A 390 REMARK 465 PRO A 391 REMARK 465 VAL A 392 REMARK 465 ASP A 393 REMARK 465 SER A 394 REMARK 465 PRO A 395 REMARK 465 ASP A 396 REMARK 465 ASP A 397 REMARK 465 SER A 398 REMARK 465 THR A 399 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 LYS A 85 CG CD CE NZ REMARK 470 LYS A 127 CG CD CE NZ REMARK 470 THR A 140 OG1 CG2 REMARK 470 THR A 248 CB OG1 CG2 REMARK 470 VAL A 249 CB CG1 CG2 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 O HOH A 543 O HOH A 550 1.91 REMARK 500 O HOH A 521 O HOH A 522 2.06 REMARK 500 OG1 THR A 250 O3P TPO A 252 2.14 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 LYS A 151 98.87 -169.47 REMARK 500 ARG A 217 -43.57 71.46 REMARK 500 CYS A 240 127.18 -170.15 REMARK 500 THR A 248 18.13 -149.86 REMARK 500 VAL A 249 -66.67 -138.63 REMARK 500 ASN A 271 -155.06 -145.17 REMARK 500 ASN A 331 94.02 -64.87 REMARK 500 ASP A 342 -123.92 40.55 REMARK 500 REMARK 500 REMARK: NULL REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 401 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 251 ND1 REMARK 620 2 HIS A 245 ND1 115.8 REMARK 620 3 CYS A 254 SG 104.8 115.7 REMARK 620 4 CYS A 240 SG 102.5 97.6 120.2 REMARK 620 N 1 2 3 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE FZ9 A 402 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3WE4 RELATED DB: PDB REMARK 900 RELATED ID: 3WF5 RELATED DB: PDB REMARK 900 RELATED ID: 3WF7 RELATED DB: PDB REMARK 900 RELATED ID: 3WF8 RELATED DB: PDB REMARK 900 RELATED ID: 3WF9 RELATED DB: PDB DBREF 3WF6 A 78 399 UNP P23443 KS6B1_HUMAN 78 399 SEQADV 3WF6 GLY A 71 UNP P23443 EXPRESSION TAG SEQADV 3WF6 SER A 72 UNP P23443 EXPRESSION TAG SEQADV 3WF6 PHE A 73 UNP P23443 EXPRESSION TAG SEQADV 3WF6 THR A 74 UNP P23443 EXPRESSION TAG SEQADV 3WF6 SER A 75 UNP P23443 EXPRESSION TAG SEQADV 3WF6 SER A 76 UNP P23443 EXPRESSION TAG SEQADV 3WF6 GLY A 77 UNP P23443 EXPRESSION TAG SEQRES 1 A 329 GLY SER PHE THR SER SER GLY SER VAL ASN ARG GLY PRO SEQRES 2 A 329 GLU LYS ILE ARG PRO GLU CYS PHE GLU LEU LEU ARG VAL SEQRES 3 A 329 LEU GLY LYS GLY GLY TYR GLY LYS VAL PHE GLN VAL ARG SEQRES 4 A 329 LYS VAL THR GLY ALA ASN THR GLY LYS ILE PHE ALA MET SEQRES 5 A 329 LYS VAL LEU LYS LYS ALA MET ILE VAL ARG ASN ALA LYS SEQRES 6 A 329 ASP THR ALA HIS THR LYS ALA GLU ARG ASN ILE LEU GLU SEQRES 7 A 329 GLU VAL LYS HIS PRO PHE ILE VAL ASP LEU ILE TYR ALA SEQRES 8 A 329 PHE GLN THR GLY GLY LYS LEU TYR LEU ILE LEU GLU TYR SEQRES 9 A 329 LEU SER GLY GLY GLU LEU PHE MET GLN LEU GLU ARG GLU SEQRES 10 A 329 GLY ILE PHE MET GLU ASP THR ALA CYS PHE TYR LEU ALA SEQRES 11 A 329 GLU ILE SER MET ALA LEU GLY HIS LEU HIS GLN LYS GLY SEQRES 12 A 329 ILE ILE TYR ARG ASP LEU LYS PRO GLU ASN ILE MET LEU SEQRES 13 A 329 ASN HIS GLN GLY HIS VAL LYS LEU THR ASP PHE GLY LEU SEQRES 14 A 329 CYS LYS GLU SER ILE HIS ASP GLY THR VAL THR HIS TPO SEQRES 15 A 329 PHE CYS GLY THR ILE GLU TYR MET ALA PRO GLU ILE LEU SEQRES 16 A 329 MET ARG SER GLY HIS ASN ARG ALA VAL ASP TRP TRP SER SEQRES 17 A 329 LEU GLY ALA LEU MET TYR ASP MET LEU THR GLY ALA PRO SEQRES 18 A 329 PRO PHE THR GLY GLU ASN ARG LYS LYS THR ILE ASP LYS SEQRES 19 A 329 ILE LEU LYS CYS LYS LEU ASN LEU PRO PRO TYR LEU THR SEQRES 20 A 329 GLN GLU ALA ARG ASP LEU LEU LYS LYS LEU LEU LYS ARG SEQRES 21 A 329 ASN ALA ALA SER ARG LEU GLY ALA GLY PRO GLY ASP ALA SEQRES 22 A 329 GLY GLU VAL GLN ALA HIS PRO PHE PHE ARG HIS ILE ASN SEQRES 23 A 329 TRP GLU GLU LEU LEU ALA ARG LYS VAL GLU PRO PRO PHE SEQRES 24 A 329 LYS PRO LEU LEU GLN SER GLU GLU ASP VAL SER GLN PHE SEQRES 25 A 329 ASP SER LYS PHE THR ARG GLN THR PRO VAL ASP SER PRO SEQRES 26 A 329 ASP ASP SER THR MODRES 3WF6 TPO A 252 THR PHOSPHOTHREONINE HET TPO A 252 11 HET ZN A 401 1 HET FZ9 A 402 24 HETNAM TPO PHOSPHOTHREONINE HETNAM ZN ZINC ION HETNAM FZ9 4-[4-(1H-INDOL-3-YL)-3,6-DIHYDROPYRIDIN-1(2H)-YL]-1H- HETNAM 2 FZ9 PYRAZOLO[3,4-D]PYRIMIDINE HETSYN TPO PHOSPHONOTHREONINE FORMUL 1 TPO C4 H10 N O6 P FORMUL 2 ZN ZN 2+ FORMUL 3 FZ9 C18 H16 N6 FORMUL 4 HOH *59(H2 O) HELIX 1 1 ARG A 87 GLU A 89 5 3 HELIX 2 2 LYS A 141 VAL A 150 1 10 HELIX 3 3 GLU A 179 GLY A 188 1 10 HELIX 4 4 MET A 191 LYS A 212 1 22 HELIX 5 5 LYS A 220 GLU A 222 5 3 HELIX 6 6 ALA A 261 ARG A 267 1 7 HELIX 7 7 ARG A 272 GLY A 289 1 18 HELIX 8 8 ASN A 297 CYS A 308 1 12 HELIX 9 9 THR A 317 LEU A 328 1 12 HELIX 10 10 ASN A 331 ARG A 335 5 5 HELIX 11 11 ASP A 342 ALA A 348 1 7 HELIX 12 12 HIS A 349 ARG A 353 5 5 HELIX 13 13 ASN A 356 ALA A 362 1 7 HELIX 14 14 LYS A 370 GLN A 374 5 5 SHEET 1 A 5 PHE A 91 LYS A 99 0 SHEET 2 A 5 GLY A 103 LYS A 110 -1 O VAL A 105 N GLY A 98 SHEET 3 A 5 ILE A 119 LYS A 126 -1 O MET A 122 N PHE A 106 SHEET 4 A 5 LYS A 167 GLU A 173 -1 O LEU A 170 N LYS A 123 SHEET 5 A 5 LEU A 158 THR A 164 -1 N PHE A 162 O TYR A 169 SHEET 1 B 2 ILE A 224 LEU A 226 0 SHEET 2 B 2 VAL A 232 LEU A 234 -1 O LYS A 233 N MET A 225 LINK C HIS A 251 N TPO A 252 1555 1555 1.33 LINK C TPO A 252 N PHE A 253 1555 1555 1.33 LINK ND1 HIS A 251 ZN ZN A 401 1555 1555 1.97 LINK ND1 HIS A 245 ZN ZN A 401 1555 1555 2.21 LINK SG CYS A 254 ZN ZN A 401 1555 1555 2.33 LINK SG CYS A 240 ZN ZN A 401 1555 1555 2.43 SITE 1 AC1 4 CYS A 240 HIS A 245 HIS A 251 CYS A 254 SITE 1 AC2 10 GLY A 98 LYS A 99 GLY A 100 VAL A 105 SITE 2 AC2 10 ALA A 121 VAL A 156 GLU A 173 LEU A 175 SITE 3 AC2 10 MET A 225 HOH A 534 CRYST1 69.073 69.073 144.983 90.00 90.00 90.00 P 41 21 2 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 0.014477 0.000000 0.000000 0.00000 SCALE2 0.000000 0.014477 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006897 0.00000