HEADER TRANSFERASE 29-JUL-16 5LMB TITLE HUMAN SPLEEN TYROSINE KINASE KINASE DOMAIN IN COMPLEX WITH TITLE 2 AZANAPHTHYRIDINE INHIBITOR COMPND MOL_ID: 1; COMPND 2 MOLECULE: TYROSINE-PROTEIN KINASE SYK; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: UNP RESIDUES 360-635; COMPND 5 SYNONYM: SPLEEN TYROSINE KINASE,P72-SYK; COMPND 6 EC: 2.7.10.2; COMPND 7 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: SYK; SOURCE 6 EXPRESSION_SYSTEM: SPODOPTERA FRUGIPERDA; SOURCE 7 EXPRESSION_SYSTEM_COMMON: FALL ARMYWORM; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 7108; SOURCE 9 EXPRESSION_SYSTEM_CELL_LINE: SF9; SOURCE 10 EXPRESSION_SYSTEM_VECTOR_TYPE: BACULOVIRUS; SOURCE 11 EXPRESSION_SYSTEM_PLASMID: PFASTBAC1-HM KEYWDS INHIBITOR, COMPLEX, KINASE, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR D.O.SOMERS,M.NEU REVDAT 3 03-APR-19 5LMB 1 SOURCE REVDAT 2 21-SEP-16 5LMB 1 JRNL REVDAT 1 14-SEP-16 5LMB 0 JRNL AUTH N.S.GARTON,M.D.BARKER,R.P.DAVIS,C.DOUAULT, JRNL AUTH 2 E.HOOPER-GREENHILL,E.JONES,H.D.LEWIS,J.LIDDLE,D.LUGO, JRNL AUTH 3 S.MCCLEARY,A.G.PRESTON,C.RAMIREZ-MOLINA,M.NEU,T.J.SHIPLEY, JRNL AUTH 4 D.O.SOMERS,R.J.WATSON,D.M.WILSON JRNL TITL OPTIMISATION OF A NOVEL SERIES OF POTENT AND ORALLY JRNL TITL 2 BIOAVAILABLE AZANAPHTHYRIDINE SYK INHIBITORS. JRNL REF BIOORG.MED.CHEM.LETT. V. 26 4606 2016 JRNL REFN ESSN 1464-3405 JRNL PMID 27578246 JRNL DOI 10.1016/J.BMCL.2016.08.070 REMARK 2 REMARK 2 RESOLUTION. 1.95 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0073 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.95 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 20.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 95.2 REMARK 3 NUMBER OF REFLECTIONS : 35896 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) : 0.178 REMARK 3 R VALUE (WORKING SET) : 0.175 REMARK 3 FREE R VALUE : 0.228 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1888 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 1.95 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.00 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2574 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 91.53 REMARK 3 BIN R VALUE (WORKING SET) : 0.3130 REMARK 3 BIN FREE R VALUE SET COUNT : 138 REMARK 3 BIN FREE R VALUE : 0.3520 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4296 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 96 REMARK 3 SOLVENT ATOMS : 394 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 29.39 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 43.67 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.39000 REMARK 3 B22 (A**2) : 0.99000 REMARK 3 B33 (A**2) : -0.41000 REMARK 3 B12 (A**2) : -0.94000 REMARK 3 B13 (A**2) : 0.04000 REMARK 3 B23 (A**2) : 0.26000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.190 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.168 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.161 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 11.086 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.967 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.945 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4518 ; 0.006 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 4315 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 6084 ; 1.190 ; 1.984 REMARK 3 BOND ANGLES OTHERS (DEGREES): 9936 ; 0.763 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 529 ; 4.025 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 205 ;34.881 ;24.195 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 813 ;11.823 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 24 ;16.415 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 631 ; 0.078 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 5004 ; 0.004 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 1046 ; 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): 2119 ; 1.269 ; 2.842 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 2118 ; 1.267 ; 2.841 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2647 ; 2.091 ; 4.782 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 : 4 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 364 A 453 REMARK 3 ORIGIN FOR THE GROUP (A): -8.9671 -3.8231 -32.1871 REMARK 3 T TENSOR REMARK 3 T11: 0.2262 T22: 0.3641 REMARK 3 T33: 0.0510 T12: -0.1388 REMARK 3 T13: 0.0057 T23: 0.0181 REMARK 3 L TENSOR REMARK 3 L11: 2.2206 L22: 2.3469 REMARK 3 L33: 5.9086 L12: 0.9584 REMARK 3 L13: -0.6100 L23: -0.4618 REMARK 3 S TENSOR REMARK 3 S11: -0.3720 S12: 0.3442 S13: -0.1963 REMARK 3 S21: -0.5106 S22: 0.1873 S23: 0.0840 REMARK 3 S31: 0.7694 S32: -0.5905 S33: 0.1847 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 454 A 634 REMARK 3 ORIGIN FOR THE GROUP (A): 0.7919 3.2909 -10.5979 REMARK 3 T TENSOR REMARK 3 T11: 0.0146 T22: 0.1427 REMARK 3 T33: 0.0097 T12: -0.0029 REMARK 3 T13: -0.0085 T23: 0.0271 REMARK 3 L TENSOR REMARK 3 L11: 1.9733 L22: 1.7415 REMARK 3 L33: 2.9408 L12: 0.4756 REMARK 3 L13: 0.5065 L23: -0.1464 REMARK 3 S TENSOR REMARK 3 S11: -0.0953 S12: 0.0435 S13: 0.0434 REMARK 3 S21: 0.0913 S22: 0.0359 S23: -0.0573 REMARK 3 S31: -0.1159 S32: -0.0275 S33: 0.0594 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 364 B 453 REMARK 3 ORIGIN FOR THE GROUP (A): 13.3845 25.1149 -70.8235 REMARK 3 T TENSOR REMARK 3 T11: 0.1480 T22: 0.1362 REMARK 3 T33: 0.0430 T12: -0.0130 REMARK 3 T13: 0.0039 T23: 0.0155 REMARK 3 L TENSOR REMARK 3 L11: 2.8544 L22: 3.4737 REMARK 3 L33: 7.1833 L12: 0.5750 REMARK 3 L13: -1.2204 L23: 0.9157 REMARK 3 S TENSOR REMARK 3 S11: -0.0599 S12: -0.1519 S13: 0.0732 REMARK 3 S21: -0.2903 S22: 0.0710 S23: -0.1537 REMARK 3 S31: -0.7425 S32: 0.3029 S33: -0.0111 REMARK 3 REMARK 3 TLS GROUP : 4 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 454 B 630 REMARK 3 ORIGIN FOR THE GROUP (A): 3.3090 10.4689 -53.4183 REMARK 3 T TENSOR REMARK 3 T11: 0.1378 T22: 0.1845 REMARK 3 T33: 0.0568 T12: -0.0358 REMARK 3 T13: 0.0218 T23: 0.0399 REMARK 3 L TENSOR REMARK 3 L11: 2.7349 L22: 2.0909 REMARK 3 L33: 7.5516 L12: 1.3048 REMARK 3 L13: -2.1095 L23: -1.6822 REMARK 3 S TENSOR REMARK 3 S11: -0.3716 S12: -0.0408 S13: -0.1245 REMARK 3 S21: -0.1758 S22: -0.0366 S23: -0.0992 REMARK 3 S31: 0.8436 S32: -0.3118 S33: 0.4082 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL 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: U VALUES : WITH TLS ADDED HYDROGENS REMARK 3 HAVE BEEN ADDED IN THE RIDING POSITIONS REMARK 4 REMARK 4 5LMB COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 30-JUL-16. REMARK 100 THE DEPOSITION ID IS D_1200000939. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 06-MAR-09 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.8 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) : 1.0724 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 : NULL REMARK 200 DATA SCALING SOFTWARE : SCALA 3.3.1 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 37810 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.950 REMARK 200 RESOLUTION RANGE LOW (A) : 42.835 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 95.3 REMARK 200 DATA REDUNDANCY : 1.900 REMARK 200 R MERGE (I) : 0.05500 REMARK 200 R SYM (I) : 0.05500 REMARK 200 FOR THE DATA SET : 8.5000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.95 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.06 REMARK 200 COMPLETENESS FOR SHELL (%) : 92.8 REMARK 200 DATA REDUNDANCY IN SHELL : 1.90 REMARK 200 R MERGE FOR SHELL (I) : 0.40000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.800 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: FOURIER SYNTHESIS REMARK 200 SOFTWARE USED: NULL REMARK 200 STARTING MODEL: IN-HOUSE COORDINATES REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 43.66 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.18 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG1500, HEPES, TACSIMATE, GLYCEROL, REMARK 280 PH 6.8, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,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 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 GLY A 359 REMARK 465 PRO A 360 REMARK 465 LYS A 361 REMARK 465 GLU A 362 REMARK 465 VAL A 363 REMARK 465 LYS A 405 REMARK 465 ASN A 406 REMARK 465 GLU A 407 REMARK 465 ALA A 408 REMARK 465 ASN A 409 REMARK 465 ASP A 410 REMARK 465 ASN A 635 REMARK 465 GLY B 359 REMARK 465 PRO B 360 REMARK 465 LYS B 361 REMARK 465 GLU B 362 REMARK 465 VAL B 363 REMARK 465 GLN B 529 REMARK 465 THR B 530 REMARK 465 HIS B 531 REMARK 465 GLY B 532 REMARK 465 LYS B 533 REMARK 465 TYR B 631 REMARK 465 ASP B 632 REMARK 465 VAL B 633 REMARK 465 VAL B 634 REMARK 465 ASN B 635 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 OH TYR A 526 O HOH A 801 2.08 REMARK 500 O HOH B 865 O HOH B 904 2.19 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 393 -85.38 52.43 REMARK 500 ALA A 441 -133.95 -138.07 REMARK 500 ASP A 494 40.49 -151.90 REMARK 500 ASP A 512 69.39 62.28 REMARK 500 TRP A 609 39.38 -92.71 REMARK 500 LYS B 375 106.59 -55.10 REMARK 500 MET B 392 -168.92 -73.29 REMARK 500 ALA B 441 -143.09 -114.01 REMARK 500 ASP B 494 41.14 -156.30 REMARK 500 ASP B 512 72.21 62.98 REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue 6ZF A 701 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 702 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 703 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 704 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 706 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue 6ZF B 701 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL B 702 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL B 703 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5LMA RELATED DB: PDB DBREF 5LMB A 360 635 UNP P43405 KSYK_HUMAN 360 635 DBREF 5LMB B 360 635 UNP P43405 KSYK_HUMAN 360 635 SEQADV 5LMB GLY A 359 UNP P43405 EXPRESSION TAG SEQADV 5LMB GLY B 359 UNP P43405 EXPRESSION TAG SEQRES 1 A 277 GLY PRO LYS GLU VAL TYR LEU ASP ARG LYS LEU LEU THR SEQRES 2 A 277 LEU GLU ASP LYS GLU LEU GLY SER GLY ASN PHE GLY THR SEQRES 3 A 277 VAL LYS LYS GLY TYR TYR GLN MET LYS LYS VAL VAL LYS SEQRES 4 A 277 THR VAL ALA VAL LYS ILE LEU LYS ASN GLU ALA ASN ASP SEQRES 5 A 277 PRO ALA LEU LYS ASP GLU LEU LEU ALA GLU ALA ASN VAL SEQRES 6 A 277 MET GLN GLN LEU ASP ASN PRO TYR ILE VAL ARG MET ILE SEQRES 7 A 277 GLY ILE CYS GLU ALA GLU SER TRP MET LEU VAL MET GLU SEQRES 8 A 277 MET ALA GLU LEU GLY PRO LEU ASN LYS TYR LEU GLN GLN SEQRES 9 A 277 ASN ARG HIS VAL LYS ASP LYS ASN ILE ILE GLU LEU VAL SEQRES 10 A 277 HIS GLN VAL SER MET GLY MET LYS TYR LEU GLU GLU SER SEQRES 11 A 277 ASN PHE VAL HIS ARG ASP LEU ALA ALA ARG ASN VAL LEU SEQRES 12 A 277 LEU VAL THR GLN HIS TYR ALA LYS ILE SER ASP PHE GLY SEQRES 13 A 277 LEU SER LYS ALA LEU ARG ALA ASP GLU ASN PTR TYR LYS SEQRES 14 A 277 ALA GLN THR HIS GLY LYS TRP PRO VAL LYS TRP TYR ALA SEQRES 15 A 277 PRO GLU CYS ILE ASN TYR TYR LYS PHE SER SER LYS SER SEQRES 16 A 277 ASP VAL TRP SER PHE GLY VAL LEU MET TRP GLU ALA PHE SEQRES 17 A 277 SER TYR GLY GLN LYS PRO TYR ARG GLY MET LYS GLY SER SEQRES 18 A 277 GLU VAL THR ALA MET LEU GLU LYS GLY GLU ARG MET GLY SEQRES 19 A 277 CYS PRO ALA GLY CYS PRO ARG GLU MET TYR ASP LEU MET SEQRES 20 A 277 ASN LEU CYS TRP THR TYR ASP VAL GLU ASN ARG PRO GLY SEQRES 21 A 277 PHE ALA ALA VAL GLU LEU ARG LEU ARG ASN TYR TYR TYR SEQRES 22 A 277 ASP VAL VAL ASN SEQRES 1 B 277 GLY PRO LYS GLU VAL TYR LEU ASP ARG LYS LEU LEU THR SEQRES 2 B 277 LEU GLU ASP LYS GLU LEU GLY SER GLY ASN PHE GLY THR SEQRES 3 B 277 VAL LYS LYS GLY TYR TYR GLN MET LYS LYS VAL VAL LYS SEQRES 4 B 277 THR VAL ALA VAL LYS ILE LEU LYS ASN GLU ALA ASN ASP SEQRES 5 B 277 PRO ALA LEU LYS ASP GLU LEU LEU ALA GLU ALA ASN VAL SEQRES 6 B 277 MET GLN GLN LEU ASP ASN PRO TYR ILE VAL ARG MET ILE SEQRES 7 B 277 GLY ILE CYS GLU ALA GLU SER TRP MET LEU VAL MET GLU SEQRES 8 B 277 MET ALA GLU LEU GLY PRO LEU ASN LYS TYR LEU GLN GLN SEQRES 9 B 277 ASN ARG HIS VAL LYS ASP LYS ASN ILE ILE GLU LEU VAL SEQRES 10 B 277 HIS GLN VAL SER MET GLY MET LYS TYR LEU GLU GLU SER SEQRES 11 B 277 ASN PHE VAL HIS ARG ASP LEU ALA ALA ARG ASN VAL LEU SEQRES 12 B 277 LEU VAL THR GLN HIS TYR ALA LYS ILE SER ASP PHE GLY SEQRES 13 B 277 LEU SER LYS ALA LEU ARG ALA ASP GLU ASN PTR TYR LYS SEQRES 14 B 277 ALA GLN THR HIS GLY LYS TRP PRO VAL LYS TRP TYR ALA SEQRES 15 B 277 PRO GLU CYS ILE ASN TYR TYR LYS PHE SER SER LYS SER SEQRES 16 B 277 ASP VAL TRP SER PHE GLY VAL LEU MET TRP GLU ALA PHE SEQRES 17 B 277 SER TYR GLY GLN LYS PRO TYR ARG GLY MET LYS GLY SER SEQRES 18 B 277 GLU VAL THR ALA MET LEU GLU LYS GLY GLU ARG MET GLY SEQRES 19 B 277 CYS PRO ALA GLY CYS PRO ARG GLU MET TYR ASP LEU MET SEQRES 20 B 277 ASN LEU CYS TRP THR TYR ASP VAL GLU ASN ARG PRO GLY SEQRES 21 B 277 PHE ALA ALA VAL GLU LEU ARG LEU ARG ASN TYR TYR TYR SEQRES 22 B 277 ASP VAL VAL ASN MODRES 5LMB PTR A 525 TYR MODIFIED RESIDUE MODRES 5LMB PTR B 525 TYR MODIFIED RESIDUE HET PTR A 525 16 HET PTR B 525 16 HET 6ZF A 701 27 HET GOL A 702 6 HET GOL A 703 6 HET GOL A 704 6 HET GOL A 705 6 HET GOL A 706 6 HET 6ZF B 701 27 HET GOL B 702 6 HET GOL B 703 6 HETNAM PTR O-PHOSPHOTYROSINE HETNAM 6ZF 7-[6-(DIMETHYLAMINO)PYRIDIN-3-YL]-~{N}-[[(3~{S})- HETNAM 2 6ZF PIPERIDIN-3-YL]METHYL]PYRIDO[3,4-B]PYRAZIN-5-AMINE HETNAM GOL GLYCEROL HETSYN PTR PHOSPHONOTYROSINE HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 1 PTR 2(C9 H12 N O6 P) FORMUL 3 6ZF 2(C20 H25 N7) FORMUL 4 GOL 7(C3 H8 O3) FORMUL 12 HOH *394(H2 O) HELIX 1 AA1 ASP A 366 LYS A 368 5 3 HELIX 2 AA2 ALA A 412 LEU A 427 1 16 HELIX 3 AA3 LEU A 456 ASN A 463 1 8 HELIX 4 AA4 LYS A 467 SER A 488 1 22 HELIX 5 AA5 ALA A 496 ARG A 498 5 3 HELIX 6 AA6 PRO A 535 TYR A 539 5 5 HELIX 7 AA7 ALA A 540 TYR A 547 1 8 HELIX 8 AA8 SER A 551 SER A 567 1 17 HELIX 9 AA9 LYS A 577 LYS A 587 1 11 HELIX 10 AB1 PRO A 598 TRP A 609 1 12 HELIX 11 AB2 GLY A 618 VAL A 634 1 17 HELIX 12 AB3 ASP B 366 LYS B 368 5 3 HELIX 13 AB4 PRO B 411 LEU B 427 1 17 HELIX 14 AB5 LEU B 456 GLN B 462 1 7 HELIX 15 AB6 LYS B 467 SER B 488 1 22 HELIX 16 AB7 ALA B 496 ARG B 498 5 3 HELIX 17 AB8 PRO B 535 TYR B 539 5 5 HELIX 18 AB9 ALA B 540 TYR B 547 1 8 HELIX 19 AC1 SER B 551 SER B 567 1 17 HELIX 20 AC2 LYS B 577 LYS B 587 1 11 HELIX 21 AC3 PRO B 598 TRP B 609 1 12 HELIX 22 AC4 GLY B 618 TYR B 630 1 13 SHEET 1 AA1 5 LEU A 370 SER A 379 0 SHEET 2 AA1 5 THR A 384 MET A 392 -1 O TYR A 389 N THR A 371 SHEET 3 AA1 5 VAL A 395 ILE A 403 -1 O ILE A 403 N THR A 384 SHEET 4 AA1 5 TRP A 444 GLU A 449 -1 O MET A 448 N ALA A 400 SHEET 5 AA1 5 MET A 435 GLU A 440 -1 N ILE A 436 O VAL A 447 SHEET 1 AA2 4 LEU A 370 SER A 379 0 SHEET 2 AA2 4 THR A 384 MET A 392 -1 O TYR A 389 N THR A 371 SHEET 3 AA2 4 VAL A 395 ILE A 403 -1 O ILE A 403 N THR A 384 SHEET 4 AA2 4 GLU B 589 MET B 591 -1 O ARG B 590 N VAL A 396 SHEET 1 AA3 3 GLY A 454 PRO A 455 0 SHEET 2 AA3 3 VAL A 500 THR A 504 -1 O LEU A 502 N GLY A 454 SHEET 3 AA3 3 TYR A 507 ILE A 510 -1 O LYS A 509 N LEU A 501 SHEET 1 AA4 2 PHE A 490 VAL A 491 0 SHEET 2 AA4 2 LYS A 517 ALA A 518 -1 O LYS A 517 N VAL A 491 SHEET 1 AA5 2 PTR A 525 LYS A 527 0 SHEET 2 AA5 2 LYS A 548 SER A 550 -1 O PHE A 549 N TYR A 526 SHEET 1 AA6 5 LEU B 370 GLY B 380 0 SHEET 2 AA6 5 GLY B 383 GLN B 391 -1 O LYS B 387 N GLU B 373 SHEET 3 AA6 5 VAL B 396 LEU B 404 -1 O ILE B 403 N THR B 384 SHEET 4 AA6 5 TRP B 444 GLU B 449 -1 O MET B 448 N ALA B 400 SHEET 5 AA6 5 MET B 435 GLU B 440 -1 N ILE B 436 O VAL B 447 SHEET 1 AA7 3 GLY B 454 PRO B 455 0 SHEET 2 AA7 3 VAL B 500 THR B 504 -1 O LEU B 502 N GLY B 454 SHEET 3 AA7 3 TYR B 507 ILE B 510 -1 O LYS B 509 N LEU B 501 SHEET 1 AA8 2 PHE B 490 VAL B 491 0 SHEET 2 AA8 2 LYS B 517 ALA B 518 -1 O LYS B 517 N VAL B 491 SHEET 1 AA9 2 PTR B 525 LYS B 527 0 SHEET 2 AA9 2 LYS B 548 SER B 550 -1 O PHE B 549 N TYR B 526 LINK C ASN A 524 N PTR A 525 1555 1555 1.33 LINK C PTR A 525 N TYR A 526 1555 1555 1.33 LINK C ASN B 524 N PTR B 525 1555 1555 1.33 LINK C PTR B 525 N TYR B 526 1555 1555 1.33 SITE 1 AC1 15 LEU A 377 VAL A 385 ALA A 400 GLU A 449 SITE 2 AC1 15 MET A 450 ALA A 451 GLU A 452 GLY A 454 SITE 3 AC1 15 PRO A 455 ARG A 498 ASN A 499 LEU A 501 SITE 4 AC1 15 ASP A 512 HOH A 845 HOH A 889 SITE 1 AC2 6 LEU A 377 LYS A 387 MET A 450 GLU A 452 SITE 2 AC2 6 THR B 610 ASN B 615 SITE 1 AC3 9 LEU A 585 GLU A 586 TYR A 611 HOH A 811 SITE 2 AC3 9 HOH A 932 HOH A 958 VAL B 503 THR B 504 SITE 3 AC3 9 HOH B 825 SITE 1 AC4 4 TYR A 431 TYR A 507 HOH A 847 HOH A 931 SITE 1 AC5 1 ARG A 498 SITE 1 AC6 15 LEU B 377 VAL B 385 ALA B 400 GLU B 449 SITE 2 AC6 15 MET B 450 ALA B 451 GLU B 452 GLY B 454 SITE 3 AC6 15 PRO B 455 ARG B 498 ASN B 499 LEU B 501 SITE 4 AC6 15 ASP B 512 HOH B 807 HOH B 857 SITE 1 AC7 7 LEU A 453 VAL A 503 HOH A 843 LEU B 585 SITE 2 AC7 7 GLU B 586 TYR B 611 HOH B 913 SITE 1 AC8 2 TYR B 431 HOH B 835 CRYST1 39.849 41.780 86.991 99.81 90.41 100.03 P 1 2 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 0.025095 0.004440 0.000969 0.00000 SCALE2 0.000000 0.024306 0.004303 0.00000 SCALE3 0.000000 0.000000 0.011674 0.00000