HEADER TRANSFERASE/PEPTIDE 07-OCT-05 2C3I
TITLE CRYSTAL STRUCTURE OF HUMAN PIM1 IN COMPLEX WITH IMIDAZOPYRIDAZIN I
COMPND MOL_ID: 1;
COMPND 2 MOLECULE: PIMTIDE;
COMPND 3 CHAIN: A;
COMPND 4 FRAGMENT: PIM1 CONSENSUS PEPTIDE, RESIDUES 1-8;
COMPND 5 ENGINEERED: YES;
COMPND 6 MOL_ID: 2;
COMPND 7 MOLECULE: PROTO-ONCOGENE SERINE THREONINE PROTEIN KINASE PIM1;
COMPND 8 CHAIN: B;
COMPND 9 EC: 2.7.1.37;
COMPND 10 ENGINEERED: YES;
COMPND 11 MUTATION: YES;
COMPND 12 OTHER_DETAILS: ISOFORM MUTATION R250G
SOURCE MOL_ID: 1;
SOURCE 2 SYNTHETIC: YES;
SOURCE 3 ORGANISM_SCIENTIFIC: HOMO SAPIENS;
SOURCE 4 ORGANISM_COMMON: HUMAN;
SOURCE 5 ORGANISM_TAXID: 9606;
SOURCE 6 MOL_ID: 2;
SOURCE 7 ORGANISM_SCIENTIFIC: HOMO SAPIENS;
SOURCE 8 ORGANISM_COMMON: HUMAN;
SOURCE 9 ORGANISM_TAXID: 9606;
SOURCE 10 EXPRESSION_SYSTEM: ESCHERICHIA COLI;
SOURCE 11 EXPRESSION_SYSTEM_TAXID: 511693;
SOURCE 12 EXPRESSION_SYSTEM_STRAIN: BL21;
SOURCE 13 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID;
SOURCE 14 EXPRESSION_SYSTEM_PLASMID: P11-TORONTO
KEYWDS TRANSFERASE-PEPTIDE COMPLEX, COMPLEX TRANSFERASE-PEPTIDE, PIM1,
KEYWDS 2 KINASE, CANCER, LEUKEMIA, ATP-BINDING, NUCLEAR PROTEIN, NUCLEOTIDE-
KEYWDS 3 BINDING, PHOSPHORYLATION, PROTO- ONCOGENE, SERINE/THREONINE-PROTEIN
KEYWDS 4 KINASE, TRANSFERASE
EXPDTA X-RAY DIFFRACTION
AUTHOR P.PHILIPPAKOPOULOS,S.KNAPP,J.DEBRECZENI,A.BULLOCK,F.VON DELFT,
AUTHOR 2 M.SUNDSTROM,C.ARROWSMITH,A.EDWARDS,K.GUO,J.WEIGELT
REVDAT 5 13-DEC-23 2C3I 1 REMARK
REVDAT 4 24-JAN-18 2C3I 1 AUTHOR
REVDAT 3 13-JUL-11 2C3I 1 VERSN
REVDAT 2 24-FEB-09 2C3I 1 VERSN
REVDAT 1 01-NOV-05 2C3I 0
JRNL AUTH V.POGACIC,A.N.BULLOCK,O.FEDOROV,P.FILIPPAKOPOULOS,C.GASSER,
JRNL AUTH 2 A.BIONDI,S.MEYER-MONARD,S.KNAPP,J.SCHWALLER
JRNL TITL STRUCTURAL ANALYSIS IDENTIFIES IMIDAZO[1,2- B]PYRIDAZINES AS
JRNL TITL 2 PIM KINASE INHIBITORS WITH IN VITRO ANTILEUKEMIC ACTIVITY.
JRNL REF CANCER RES. V. 67 6916 2007
JRNL REFN ISSN 0008-5472
JRNL PMID 17638903
JRNL DOI 10.1158/0008-5472.CAN-07-0320
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) : 85.13
REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL
REMARK 3 COMPLETENESS FOR RANGE (%) : 97.1
REMARK 3 NUMBER OF REFLECTIONS : 32279
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) : 0.187
REMARK 3 R VALUE (WORKING SET) : 0.185
REMARK 3 FREE R VALUE : 0.219
REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000
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) : 2132
REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL
REMARK 3 BIN R VALUE (WORKING SET) : 0.3450
REMARK 3 BIN FREE R VALUE SET COUNT : 106
REMARK 3 BIN FREE R VALUE : 0.3470
REMARK 3
REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT.
REMARK 3 PROTEIN ATOMS : 2209
REMARK 3 NUCLEIC ACID ATOMS : 0
REMARK 3 HETEROGEN ATOMS : 23
REMARK 3 SOLVENT ATOMS : 157
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) : 29.70
REMARK 3 OVERALL ANISOTROPIC B VALUE.
REMARK 3 B11 (A**2) : 0.72000
REMARK 3 B22 (A**2) : 0.72000
REMARK 3 B33 (A**2) : -1.09000
REMARK 3 B12 (A**2) : 0.36000
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): 0.119
REMARK 3 ESU BASED ON FREE R VALUE (A): 0.117
REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.101
REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 3.695
REMARK 3
REMARK 3 CORRELATION COEFFICIENTS.
REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.962
REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.943
REMARK 3
REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT
REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2333 ; 0.018 ; 0.021
REMARK 3 BOND LENGTHS OTHERS (A): 2108 ; 0.001 ; 0.020
REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3165 ; 1.599 ; 1.954
REMARK 3 BOND ANGLES OTHERS (DEGREES): 4850 ; 0.895 ; 3.001
REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 275 ; 9.915 ; 5.000
REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 119 ;33.093 ;22.857
REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 383 ;13.219 ;15.000
REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 22 ;15.599 ;15.000
REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 332 ; 0.103 ; 0.200
REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2602 ; 0.007 ; 0.020
REMARK 3 GENERAL PLANES OTHERS (A): 512 ; 0.001 ; 0.020
REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 416 ; 0.207 ; 0.200
REMARK 3 NON-BONDED CONTACTS OTHERS (A): 2150 ; 0.182 ; 0.200
REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1129 ; 0.186 ; 0.200
REMARK 3 NON-BONDED TORSION OTHERS (A): 1366 ; 0.085 ; 0.200
REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 132 ; 0.293 ; 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 ; 0.061 ; 0.200
REMARK 3 SYMMETRY VDW OTHERS (A): 36 ; 0.292 ; 0.200
REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 6 ; 0.320 ; 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): 1433 ; 1.253 ; 1.500
REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL
REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2221 ; 1.952 ; 2.000
REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL
REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1065 ; 2.653 ; 3.000
REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL
REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 941 ; 4.147 ; 4.500
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 : 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 2C3I COMPLIES WITH FORMAT V. 3.30, 13-JUL-11
REMARK 100
REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 07-OCT-05.
REMARK 100 THE DEPOSITION ID IS D_1290025915.
REMARK 200
REMARK 200 EXPERIMENTAL DETAILS
REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION
REMARK 200 DATE OF DATA COLLECTION : 03-SEP-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 : SLS
REMARK 200 BEAMLINE : X10SA
REMARK 200 X-RAY GENERATOR MODEL : NULL
REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M
REMARK 200 WAVELENGTH OR RANGE (A) : 1.0039
REMARK 200 MONOCHROMATOR : SI111
REMARK 200 OPTICS : MIRRORS
REMARK 200
REMARK 200 DETECTOR TYPE : CCD
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 : 34063
REMARK 200 RESOLUTION RANGE HIGH (A) : 1.900
REMARK 200 RESOLUTION RANGE LOW (A) : 36.500
REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000
REMARK 200
REMARK 200 OVERALL.
REMARK 200 COMPLETENESS FOR RANGE (%) : 97.2
REMARK 200 DATA REDUNDANCY : 3.500
REMARK 200 R MERGE (I) : 0.08000
REMARK 200 R SYM (I) : NULL
REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 2.3900
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 (%) : 92.0
REMARK 200 DATA REDUNDANCY IN SHELL : 2.60
REMARK 200 R MERGE FOR SHELL (I) : 0.59000
REMARK 200 R SYM FOR SHELL (I) : NULL
REMARK 200 <I/SIGMA(I)> FOR SHELL : 2.390
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 (%): 67.00
REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.70
REMARK 280
REMARK 280 CRYSTALLIZATION CONDITIONS: NULL
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 53.89533
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 26.94767
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 40.42150
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 13.47383
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 67.36917
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: DIMERIC
REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC
REMARK 350 SOFTWARE USED: PISA
REMARK 350 TOTAL BURIED SURFACE AREA: 1790 ANGSTROM**2
REMARK 350 SURFACE AREA OF THE COMPLEX: 12780 ANGSTROM**2
REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -3.7 KCAL/MOL
REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, 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 POSSIBLE ROLE IN SIGNAL TRANSDUCTION IN BLOOD CELLS
REMARK 400 ENGINEERED RESIDUE IN CHAIN B, ARG 250 TO GLY
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 PRO B 33
REMARK 465 LEU B 34
REMARK 465 GLU B 35
REMARK 465 SER B 36
REMARK 465 LEU B 80
REMARK 465 PRO B 81
REMARK 465 ASN B 82
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 ILE B 56 CD1
REMARK 470 ASP B 72 CG OD1 OD2
REMARK 470 GLU B 79 CG CD OE1 OE2
REMARK 470 THR B 84 OG1 CG2
REMARK 470 ARG B 85 CG CD NE CZ NH1 NH2
REMARK 470 ASP B 202 CG OD1 OD2
REMARK 470 ARG B 221 CD NE CZ NH1 NH2
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 2124 O HOH B 2128 1.98
REMARK 500 OE1 GLN B 140 O HOH B 2044 2.06
REMARK 500 NZ LYS A 1 O HOH A 2001 2.08
REMARK 500 O HOH B 2135 O HOH B 2145 2.12
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 B 70 CG GLU B 70 CD 0.094
REMARK 500 GLU B 262 CG GLU B 262 CD 0.107
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 21.18 -163.96
REMARK 500 THR B 84 -151.99 -111.13
REMARK 500 ASP B 167 43.42 -148.79
REMARK 500 ASP B 186 81.96 65.35
REMARK 500
REMARK 500 REMARK: NULL
REMARK 500
REMARK 500 GEOMETRY AND STEREOCHEMISTRY
REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS
REMARK 500
REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH
REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED
REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND
REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES.
REMARK 500 MODEL OMEGA
REMARK 500 PRO B 125 VAL B 126 -133.01
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 IYZ B1306
REMARK 900
REMARK 900 RELATED ENTRIES
REMARK 900 RELATED ID: 1XQZ RELATED DB: PDB
REMARK 900 CRYSTAL STRUCTURE OF HPIM-1 KINASE AT 2.1A 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: 2BZI RELATED DB: PDB
REMARK 900 CRYSTAL STRUCTURE OF THE HUMAN PIM1 IN COMPLEX WITH A RUTHENIUM
REMARK 900 ORGANOMETALLIC LIGAND RU2
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 RESIDUE B 250 GLY ISOFORM
DBREF 2C3I A 1 8 PDB 2C3I 2C3I 1 8
DBREF 2C3I B 1 313 UNP P11309 PIM1_HUMAN 1 313
SEQADV 2C3I GLY B 250 UNP P11309 ARG 250 ENGINEERED MUTATION
SEQRES 1 A 8 LYS ARG ARG ARG HIS PRO SER GLY
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 SER 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
HET IYZ B1306 23
HETNAM IYZ 1-(3-{6-[(CYCLOPROPYLMETHYL)AMINO]IMIDAZO[1,2-
HETNAM 2 IYZ B]PYRIDAZIN-3-YL}PHENYL)ETHANONE
HETSYN IYZ IMIDAZOPYRIDAZIN 1
FORMUL 3 IYZ C18 H18 N4 O
FORMUL 4 HOH *157(H2 O)
HELIX 1 1 MET B 88 SER B 97 1 10
HELIX 2 2 LEU B 129 GLY B 137 1 9
HELIX 3 3 GLN B 140 CYS B 161 1 22
HELIX 4 4 LYS B 169 GLU B 171 5 3
HELIX 5 5 THR B 204 SER B 208 5 5
HELIX 6 6 PRO B 209 HIS B 216 1 8
HELIX 7 7 HIS B 219 GLY B 238 1 20
HELIX 8 8 HIS B 244 GLY B 251 1 8
HELIX 9 9 SER B 260 LEU B 271 1 12
HELIX 10 10 ARG B 274 ARG B 278 5 5
HELIX 11 11 THR B 280 ASN B 286 1 7
HELIX 12 12 HIS B 287 GLN B 291 5 5
HELIX 13 13 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 GLY B 78 0
SHEET 2 BB 2 VAL B 86 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
CISPEP 1 GLU B 124 PRO B 125 0 -6.23
SITE 1 AC1 10 LEU B 44 GLY B 45 PHE B 49 VAL B 52
SITE 2 AC1 10 ALA B 65 LYS B 67 GLU B 121 LEU B 174
SITE 3 AC1 10 ILE B 185 ASP B 186
CRYST1 98.439 98.439 80.843 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 0.010159 0.005865 0.000000 0.00000
SCALE2 0.000000 0.011730 0.000000 0.00000
SCALE3 0.000000 0.000000 0.012370 0.00000