PDB Short entry for 2BZI HEADER TRANSFERASE 18-AUG-05 2BZI TITLE CRYSTAL STRUCTURE OF THE HUMAN PIM1 IN COMPLEX WITH A RUTHENIUM TITLE 2 ORGANOMETALLIC LIGAND RU2 COMPND MOL_ID: 1; COMPND 2 MOLECULE: PROTO-ONCOGENE SERINE THREONINE PROTEIN KINASE PIM1; COMPND 3 CHAIN: B; COMPND 4 EC: 2.7.1.37; COMPND 5 ENGINEERED: YES; COMPND 6 MUTATION: YES; COMPND 7 OTHER_DETAILS: ISOFORM MUTATION R250G SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 511693; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: P11-TORONTO KEYWDS PIM1, KINASE, CANCER, LEUKEMIA, NUCLEAR PROTEIN, NUCLEOTIDE-BINDING, KEYWDS 2 TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR J.E.DEBRECZENI,A.BULLOCK,S.KNAPP,F.VON DELFT,M.SUNDSTROM, AUTHOR 2 C.ARROWSMITH,J.WEIGELT,A.EDWARDS REVDAT 6 13-DEC-23 2BZI 1 REMARK REVDAT 5 08-MAY-19 2BZI 1 REMARK LINK REVDAT 4 24-JAN-18 2BZI 1 AUTHOR JRNL REVDAT 3 13-JUL-11 2BZI 1 VERSN REVDAT 2 24-FEB-09 2BZI 1 VERSN REVDAT 1 08-DEC-05 2BZI 0 JRNL AUTH J.E.DEBRECZENI,A.BULLOCK,S.KNAPP,F.VON DELFT,M.SUNDSTROM, JRNL AUTH 2 C.ARROWSMITH,J.WEIGELT,A.EDWARDS JRNL TITL CRYSTAL STRUCTURE OF THE HUMAN PIM1 IN COMPLEX WITH JRNL TITL 2 RUTHENIUM ORGANOMETALLIC LIGANDS JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.90 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0005 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) : 1.90 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 40.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 95.1 REMARK 3 NUMBER OF REFLECTIONS : 31653 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) : 0.218 REMARK 3 R VALUE (WORKING SET) : 0.216 REMARK 3 FREE R VALUE : 0.265 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1709 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) : 1.90 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.95 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1799 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.6260 REMARK 3 BIN FREE R VALUE SET COUNT : 114 REMARK 3 BIN FREE R VALUE : 0.6940 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2214 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 31 REMARK 3 SOLVENT ATOMS : 268 REMARK 3 REMARK 3 B VALUES. REMARK 3 B VALUE TYPE : LIKELY RESIDUAL REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 22.54 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.42000 REMARK 3 B22 (A**2) : 0.42000 REMARK 3 B33 (A**2) : -0.63000 REMARK 3 B12 (A**2) : 0.21000 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): 0.146 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.148 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.132 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 9.881 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.944 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.920 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2363 ; 0.009 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): 2111 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3251 ; 1.106 ; 1.979 REMARK 3 BOND ANGLES OTHERS (DEGREES): 4888 ; 0.770 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 282 ; 5.489 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 122 ;35.331 ;23.115 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 388 ;13.005 ;15.039 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 22 ;15.212 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 337 ; 0.070 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2625 ; 0.004 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 517 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 439 ; 0.196 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 2227 ; 0.172 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1127 ; 0.178 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): 1307 ; 0.081 ; 0.200 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 194 ; 0.161 ; 0.200 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): 9 ; 0.272 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 50 ; 0.264 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 18 ; 0.175 ; 0.200 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): 1405 ; 1.270 ; 3.000 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2233 ; 2.132 ; 5.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1232 ; 3.233 ; 8.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 989 ; 5.081 ;11.000 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 : 2 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 : B 33 B 305 REMARK 3 ORIGIN FOR THE GROUP (A): -39.4920 -12.8004 -0.8124 REMARK 3 T TENSOR REMARK 3 T11: -0.1139 T22: -0.1167 REMARK 3 T33: -0.1353 T12: 0.0218 REMARK 3 T13: 0.0081 T23: -0.0373 REMARK 3 L TENSOR REMARK 3 L11: 1.0215 L22: 1.9644 REMARK 3 L33: 1.4017 L12: 0.0587 REMARK 3 L13: -0.1749 L23: -0.2257 REMARK 3 S TENSOR REMARK 3 S11: 0.0368 S12: -0.0675 S13: 0.0824 REMARK 3 S21: -0.0923 S22: 0.0303 S23: 0.0430 REMARK 3 S31: -0.1250 S32: 0.0651 S33: -0.0670 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 : B 1306 B 1306 REMARK 3 ORIGIN FOR THE GROUP (A): -41.3451 -2.2359 1.3106 REMARK 3 T TENSOR REMARK 3 T11: 0.0347 T22: -0.0569 REMARK 3 T33: 0.0308 T12: 0.0368 REMARK 3 T13: 0.0314 T23: 0.0398 REMARK 3 L TENSOR REMARK 3 L11: 10.1852 L22: 41.3152 REMARK 3 L33: 5.5102 L12: 12.4891 REMARK 3 L13: -3.1991 L23: 6.9007 REMARK 3 S TENSOR REMARK 3 S11: -0.2468 S12: -0.1320 S13: 1.3856 REMARK 3 S21: 0.9646 S22: 0.0540 S23: -0.8054 REMARK 3 S31: -0.4033 S32: -0.1706 S33: 0.1928 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : BABINET MODEL WITH 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. REMARK 4 REMARK 4 2BZI COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 18-AUG-05. REMARK 100 THE DEPOSITION ID IS D_1290025358. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 04-MAR-05 REMARK 200 TEMPERATURE (KELVIN) : 100.0 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : BESSY REMARK 200 BEAMLINE : 14.2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.981 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 34129 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.900 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 (%) : 97.1 REMARK 200 DATA REDUNDANCY : 5.100 REMARK 200 R MERGE (I) : 0.04000 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 15.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.90 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.00 REMARK 200 COMPLETENESS FOR SHELL (%) : 97.0 REMARK 200 DATA REDUNDANCY IN SHELL : 2.90 REMARK 200 R MERGE FOR SHELL (I) : 0.24000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 3.400 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: PDB ENTRY 1XWS REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 60.65 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.15 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M SUCCINATE PHOSPHATE GLYCINE REMARK 280 BUFFER PH 6, 30% PEG1K, 0.5% DMSO, SITTING DROP, VAPOR DIFFUSION, REMARK 280 SITTING DROP REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 65 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+2/3 REMARK 290 3555 -X+Y,-X,Z+1/3 REMARK 290 4555 -X,-Y,Z+1/2 REMARK 290 5555 Y,-X+Y,Z+1/6 REMARK 290 6555 X-Y,X,Z+5/6 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 53.92733 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 26.96367 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 40.44550 REMARK 290 SMTRY1 5 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 5 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 13.48183 REMARK 290 SMTRY1 6 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 67.40917 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: 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 400 REMARK 400 COMPOUND REMARK 400 ENGINEERED RESIDUE IN CHAIN B, ARG 250 TO GLY REMARK 400 REMARK 400 MAY PLAY A ROLE IN SIGNAL TRANSDUCTION IN BLOOD CELLS. 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 B 1 REMARK 465 LEU B 2 REMARK 465 LEU B 3 REMARK 465 SER B 4 REMARK 465 LYS B 5 REMARK 465 ILE B 6 REMARK 465 ASN B 7 REMARK 465 SER B 8 REMARK 465 LEU B 9 REMARK 465 ALA B 10 REMARK 465 HIS B 11 REMARK 465 LEU B 12 REMARK 465 ARG B 13 REMARK 465 ALA B 14 REMARK 465 ALA B 15 REMARK 465 PRO B 16 REMARK 465 CYS B 17 REMARK 465 ASN B 18 REMARK 465 ASP B 19 REMARK 465 LEU B 20 REMARK 465 HIS B 21 REMARK 465 ALA B 22 REMARK 465 THR B 23 REMARK 465 LYS B 24 REMARK 465 LEU B 25 REMARK 465 ALA B 26 REMARK 465 PRO B 27 REMARK 465 GLY B 28 REMARK 465 LYS B 29 REMARK 465 GLU B 30 REMARK 465 LYS B 31 REMARK 465 GLU B 32 REMARK 465 SER B 306 REMARK 465 LEU B 307 REMARK 465 SER B 308 REMARK 465 PRO B 309 REMARK 465 GLY B 310 REMARK 465 PRO B 311 REMARK 465 SER B 312 REMARK 465 LYS B 313 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 LEU B 80 CG CD1 CD2 REMARK 470 GLU B 243 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 GLY B 250 O HOH B 2211 2.16 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 ASP B 60 15.46 -154.85 REMARK 500 ASP B 167 45.63 -146.87 REMARK 500 ASP B 186 86.11 66.36 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 B2023 DISTANCE = 6.98 ANGSTROMS REMARK 525 HOH B2041 DISTANCE = 6.47 ANGSTROMS REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE DW2 B1306 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1XQZ RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF HPIM-1 KINASE AT 2. 1 A RESOLUTION REMARK 900 RELATED ID: 1XR1 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF HPIM-1 KINASE IN COMPLEX WITH AMP-PNPAT 2.1 A REMARK 900 RESOLUTION REMARK 900 RELATED ID: 1XWS RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE HUMAN PIM1 KINASE DOMAIN REMARK 900 RELATED ID: 1YHS RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF PIM-1 BOUND TO STAUROSPORINE REMARK 900 RELATED ID: 1YI3 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF PIM-1 BOUND TO LY294002 REMARK 900 RELATED ID: 1YI4 RELATED DB: PDB REMARK 900 STRUCTURE OF PIM-1 BOUND TO ADENOSINE REMARK 900 RELATED ID: 1YWV RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURES OF PROTO-ONCOGENE KINASE PIM1: A TARGETOF REMARK 900 ABERRANT SOMATIC HYPERMUTATIONS IN DIFFUSE LARGE CELLLYMPHOMA REMARK 900 RELATED ID: 1YXS RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF KINASE PIM1 WITH P123M MUTATION REMARK 900 RELATED ID: 1YXT RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF KINASE PIM1 IN COMPLEX WITH AMPPNP REMARK 900 RELATED ID: 1YXU RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF KINASE PIM1 IN COMPLEX WITH AMP REMARK 900 RELATED ID: 1YXV RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF KINASE PIM1 IN COMPLEX WITH 3,4-DIHYDROXY-1- REMARK 900 METHYLQUINOLIN-2(1H )-ONE REMARK 900 RELATED ID: 1YXX RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF KINASE PIM1 IN COMPLEX WITH (3E)-3-[(4- REMARK 900 HYDROXYPHENYL)IMINO]-1H- INDOL-2(3H)-ONE REMARK 900 RELATED ID: 2BIK RELATED DB: PDB REMARK 900 HUMAN PIM1 PHOSPHORYLATED ON SER261 REMARK 900 RELATED ID: 2BIL RELATED DB: PDB REMARK 900 THE HUMAN PROTEIN KINASE PIM1 IN COMPLEX WITH ITS CONSENSUS PEPTIDE REMARK 900 PIMTIDE REMARK 900 RELATED ID: 2BZH RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE HUMAN PIM1 IN COMPLEX WITH A RUTHENIUM REMARK 900 ORGANOMETALLIC LIGAND RU1 REMARK 900 RELATED ID: 2BZJ RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE HUMAN PIM1 IN COMPLEX WITH A RUTHENIUM REMARK 900 ORGANOMETALLIC LIGAND RU3 REMARK 900 RELATED ID: 2BZK RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE HUMAN PIM1 IN COMPLEX WITH AMPPNP AND REMARK 900 PIMTIDE REMARK 999 REMARK 999 SEQUENCE REMARK 999 ISOFORM MUTATION R250G DBREF 2BZI B 1 313 UNP P11309 PIM1_HUMAN 1 313 SEQADV 2BZI GLY B 250 UNP P11309 ARG 250 ENGINEERED MUTATION SEQRES 1 B 313 MET LEU LEU SER LYS ILE ASN SER LEU ALA HIS LEU ARG SEQRES 2 B 313 ALA ALA PRO CYS ASN ASP LEU HIS ALA THR LYS LEU ALA SEQRES 3 B 313 PRO GLY LYS GLU LYS GLU PRO LEU GLU SER GLN TYR GLN SEQRES 4 B 313 VAL GLY PRO LEU LEU GLY SER GLY GLY PHE GLY SER VAL SEQRES 5 B 313 TYR SER GLY ILE ARG VAL SER ASP ASN LEU PRO VAL ALA SEQRES 6 B 313 ILE LYS HIS VAL GLU LYS ASP ARG ILE SER ASP TRP GLY SEQRES 7 B 313 GLU LEU PRO ASN GLY THR ARG VAL PRO MET GLU VAL VAL SEQRES 8 B 313 LEU LEU LYS LYS VAL SER SER GLY PHE SER GLY VAL ILE SEQRES 9 B 313 ARG LEU LEU ASP TRP PHE GLU ARG PRO ASP SER PHE VAL SEQRES 10 B 313 LEU ILE LEU GLU ARG PRO GLU PRO VAL GLN ASP LEU PHE SEQRES 11 B 313 ASP PHE ILE THR GLU ARG GLY ALA LEU GLN GLU GLU LEU SEQRES 12 B 313 ALA ARG SER PHE PHE TRP GLN VAL LEU GLU ALA VAL ARG SEQRES 13 B 313 HIS CYS HIS ASN CYS GLY VAL LEU HIS ARG ASP ILE LYS SEQRES 14 B 313 ASP GLU ASN ILE LEU ILE ASP LEU ASN ARG GLY GLU LEU SEQRES 15 B 313 LYS LEU ILE ASP PHE GLY SER GLY ALA LEU LEU LYS ASP SEQRES 16 B 313 THR VAL TYR THR ASP PHE ASP GLY THR ARG VAL TYR SER SEQRES 17 B 313 PRO PRO GLU TRP ILE ARG TYR HIS ARG TYR HIS GLY ARG SEQRES 18 B 313 SER ALA ALA VAL TRP SER LEU GLY ILE LEU LEU TYR ASP SEQRES 19 B 313 MET VAL CYS GLY ASP ILE PRO PHE GLU HIS ASP GLU GLU SEQRES 20 B 313 ILE ILE GLY GLY GLN VAL PHE PHE ARG GLN ARG VAL SER SEQRES 21 B 313 SEP GLU CYS GLN HIS LEU ILE ARG TRP CYS LEU ALA LEU SEQRES 22 B 313 ARG PRO SER ASP ARG PRO THR PHE GLU GLU ILE GLN ASN SEQRES 23 B 313 HIS PRO TRP MET GLN ASP VAL LEU LEU PRO GLN GLU THR SEQRES 24 B 313 ALA GLU ILE HIS LEU HIS SER LEU SER PRO GLY PRO SER SEQRES 25 B 313 LYS MODRES 2BZI SEP B 261 SER PHOSPHOSERINE HET SEP B 261 10 HET DW2 B1306 31 HETNAM SEP PHOSPHOSERINE HETNAM DW2 RU-PYRIDOCARBAZOLE-2 HETSYN SEP PHOSPHONOSERINE FORMUL 1 SEP C3 H8 N O6 P FORMUL 2 DW2 C23 H13 N3 O4 RU FORMUL 3 HOH *268(H2 O) HELIX 1 1 PRO B 33 GLN B 37 1 5 HELIX 2 2 MET B 88 SER B 97 1 10 HELIX 3 3 LEU B 129 GLY B 137 1 9 HELIX 4 4 GLN B 140 CYS B 161 1 22 HELIX 5 5 LYS B 169 GLU B 171 5 3 HELIX 6 6 THR B 204 SER B 208 5 5 HELIX 7 7 PRO B 209 HIS B 216 1 8 HELIX 8 8 HIS B 219 GLY B 238 1 20 HELIX 9 9 HIS B 244 GLY B 251 1 8 HELIX 10 10 SER B 260 LEU B 271 1 12 HELIX 11 11 ARG B 274 ARG B 278 5 5 HELIX 12 12 THR B 280 ASN B 286 1 7 HELIX 13 13 HIS B 287 GLN B 291 5 5 HELIX 14 14 LEU B 295 LEU B 304 1 10 SHEET 1 BA 5 TYR B 38 GLY B 47 0 SHEET 2 BA 5 GLY B 50 ARG B 57 -1 O GLY B 50 N GLY B 47 SHEET 3 BA 5 PRO B 63 GLU B 70 -1 O VAL B 64 N GLY B 55 SHEET 4 BA 5 SER B 115 GLU B 121 -1 O PHE B 116 N VAL B 69 SHEET 5 BA 5 LEU B 106 GLU B 111 -1 N LEU B 107 O ILE B 119 SHEET 1 BB 2 TRP B 77 GLU B 79 0 SHEET 2 BB 2 ARG B 85 PRO B 87 -1 O VAL B 86 N GLY B 78 SHEET 1 BC 3 VAL B 126 ASP B 128 0 SHEET 2 BC 3 ILE B 173 ASP B 176 -1 O ILE B 175 N GLN B 127 SHEET 3 BC 3 GLU B 181 LEU B 184 -1 O GLU B 181 N ASP B 176 SHEET 1 BD 2 VAL B 163 LEU B 164 0 SHEET 2 BD 2 ALA B 191 LEU B 192 -1 O ALA B 191 N LEU B 164 LINK C SER B 260 N SEP B 261 1555 1555 1.33 LINK C SEP B 261 N GLU B 262 1555 1555 1.33 CISPEP 1 GLU B 124 PRO B 125 0 -1.57 SITE 1 AC1 18 LEU B 44 GLY B 45 PHE B 49 VAL B 52 SITE 2 AC1 18 ALA B 65 LYS B 67 GLU B 89 ILE B 104 SITE 3 AC1 18 LEU B 120 GLU B 121 ARG B 122 ASP B 128 SITE 4 AC1 18 GLU B 171 LEU B 174 ILE B 185 ASP B 186 SITE 5 AC1 18 HOH B2049 HOH B2268 CRYST1 98.241 98.241 80.891 90.00 90.00 120.00 P 65 6 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 0.010179 0.005877 0.000000 0.00000 SCALE2 0.000000 0.011754 0.000000 0.00000 SCALE3 0.000000 0.000000 0.012362 0.00000