HEADER TRANSFERASE/TRANSFERASE INHIBITOR 10-JUL-13 4LM5
TITLE CRYSTAL STRUCTURE OF PIM1 IN COMPLEX WITH 2-{4-[(3-AMINOPROPYL)
TITLE 2 AMINO]QUINAZOLIN-2-YL}PHENOL (RESULTING FROM DISPLACEMENT OF
TITLE 3 SKF86002)
COMPND MOL_ID: 1;
COMPND 2 MOLECULE: SERINE/THREONINE-PROTEIN KINASE PIM-1;
COMPND 3 CHAIN: A;
COMPND 4 FRAGMENT: UNP RESIDUES 120-404;
COMPND 5 SYNONYM: PROTO-ONCOGENE SERINE/THREONINE-PROTEIN KINASE PIM-1;
COMPND 6 EC: 2.7.11.1;
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: PIM1;
SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI;
SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562;
SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID;
SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PCR2.1-TOPO
KEYWDS CO-CRYSTALLIZATION, SKF86002, FLUORESCENCE, INHIBITOR SCREENING,
KEYWDS 2 KINASE, TRANSFERASE-TRANSFERASE INHIBITOR COMPLEX
EXPDTA X-RAY DIFFRACTION
AUTHOR L.J.PARKER,A.TANAKA,N.HANDA,K.HONDA,Y.TOMABECHI,M.SHIROUZU,S.YOKOYAMA
REVDAT 5 13-NOV-24 4LM5 1 REMARK
REVDAT 4 06-DEC-23 4LM5 1 REMARK
REVDAT 3 08-NOV-23 4LM5 1 REMARK
REVDAT 2 18-DEC-19 4LM5 1 JRNL SEQADV LINK
REVDAT 1 12-FEB-14 4LM5 0
JRNL AUTH L.J.PARKER,S.TARUYA,K.TSUGANEZAWA,N.OGAWA,J.MIKUNI,K.HONDA,
JRNL AUTH 2 Y.TOMABECHI,N.HANDA,M.SHIROUZU,S.YOKOYAMA,A.TANAKA
JRNL TITL KINASE CRYSTAL IDENTIFICATION AND ATP-COMPETITIVE INHIBITOR
JRNL TITL 2 SCREENING USING THE FLUORESCENT LIGAND SKF86002.
JRNL REF ACTA CRYSTALLOGR.,SECT.D V. 70 392 2014
JRNL REFN ESSN 1399-0047
JRNL PMID 24531473
JRNL DOI 10.1107/S1399004713028654
REMARK 2
REMARK 2 RESOLUTION. 2.25 ANGSTROMS.
REMARK 3
REMARK 3 REFINEMENT.
REMARK 3 PROGRAM : PHENIX 1.8.2_1309
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 : ML
REMARK 3
REMARK 3 DATA USED IN REFINEMENT.
REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.25
REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 29.73
REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.360
REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0
REMARK 3 NUMBER OF REFLECTIONS : 20872
REMARK 3
REMARK 3 FIT TO DATA USED IN REFINEMENT.
REMARK 3 R VALUE (WORKING + TEST SET) : 0.158
REMARK 3 R VALUE (WORKING SET) : 0.156
REMARK 3 FREE R VALUE : 0.198
REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.050
REMARK 3 FREE R VALUE TEST SET COUNT : 1053
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 29.7310 - 4.4953 1.00 2530 128 0.1496 0.1601
REMARK 3 2 4.4953 - 3.5700 1.00 2502 130 0.1312 0.1854
REMARK 3 3 3.5700 - 3.1193 1.00 2465 132 0.1642 0.2263
REMARK 3 4 3.1193 - 2.8343 1.00 2476 143 0.1760 0.2190
REMARK 3 5 2.8343 - 2.6313 1.00 2461 120 0.1796 0.2222
REMARK 3 6 2.6313 - 2.4762 1.00 2480 126 0.1668 0.2087
REMARK 3 7 2.4762 - 2.3523 1.00 2460 131 0.1634 0.2160
REMARK 3 8 2.3523 - 2.2499 1.00 2445 143 0.1667 0.2212
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) : 0.200
REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 18.710
REMARK 3
REMARK 3 B VALUES.
REMARK 3 FROM WILSON PLOT (A**2) : NULL
REMARK 3 MEAN B VALUE (OVERALL, A**2) : 39.94
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 : 0.013 2251
REMARK 3 ANGLE : 1.266 3047
REMARK 3 CHIRALITY : 0.098 321
REMARK 3 PLANARITY : 0.006 392
REMARK 3 DIHEDRAL : 17.147 825
REMARK 3
REMARK 3 TLS DETAILS
REMARK 3 NUMBER OF TLS GROUPS : 7
REMARK 3 TLS GROUP : 1
REMARK 3 SELECTION: CHAIN 'A' AND (RESSEQ 35:49 )
REMARK 3 ORIGIN FOR THE GROUP (A): 41.0366 -7.8329 -3.1164
REMARK 3 T TENSOR
REMARK 3 T11: 0.5517 T22: 0.1814
REMARK 3 T33: 0.3888 T12: 0.0266
REMARK 3 T13: -0.0996 T23: -0.0226
REMARK 3 L TENSOR
REMARK 3 L11: 7.5798 L22: 3.8093
REMARK 3 L33: 3.8163 L12: -2.3934
REMARK 3 L13: -5.1875 L23: 1.9049
REMARK 3 S TENSOR
REMARK 3 S11: 0.1711 S12: 0.3380 S13: -0.6028
REMARK 3 S21: -0.4212 S22: -0.1495 S23: -0.2587
REMARK 3 S31: 0.4537 S32: -0.3910 S33: 0.0369
REMARK 3 TLS GROUP : 2
REMARK 3 SELECTION: CHAIN 'A' AND (RESSEQ 50:96 )
REMARK 3 ORIGIN FOR THE GROUP (A): 36.1101 -1.5506 -8.5726
REMARK 3 T TENSOR
REMARK 3 T11: 0.4589 T22: 0.1908
REMARK 3 T33: 0.2768 T12: -0.0183
REMARK 3 T13: -0.0738 T23: -0.0555
REMARK 3 L TENSOR
REMARK 3 L11: 3.4765 L22: 5.5721
REMARK 3 L33: 5.9480 L12: 1.0238
REMARK 3 L13: 0.1343 L23: -2.8444
REMARK 3 S TENSOR
REMARK 3 S11: -0.1531 S12: 0.1480 S13: -0.2421
REMARK 3 S21: -0.4508 S22: 0.3304 S23: 0.3701
REMARK 3 S31: 0.0333 S32: -0.4576 S33: -0.2230
REMARK 3 TLS GROUP : 3
REMARK 3 SELECTION: CHAIN 'A' AND (RESSEQ 97:140 )
REMARK 3 ORIGIN FOR THE GROUP (A): 43.1814 3.4301 -3.5811
REMARK 3 T TENSOR
REMARK 3 T11: 0.3953 T22: 0.2326
REMARK 3 T33: 0.2811 T12: 0.0645
REMARK 3 T13: -0.0147 T23: 0.0598
REMARK 3 L TENSOR
REMARK 3 L11: 2.8999 L22: 5.6438
REMARK 3 L33: 3.7558 L12: 3.1415
REMARK 3 L13: 1.9855 L23: 3.3733
REMARK 3 S TENSOR
REMARK 3 S11: -0.0755 S12: -0.0400 S13: -0.4274
REMARK 3 S21: -0.2055 S22: 0.2046 S23: -0.2820
REMARK 3 S31: 0.1521 S32: 0.0552 S33: -0.1312
REMARK 3 TLS GROUP : 4
REMARK 3 SELECTION: CHAIN 'A' AND (RESSEQ 141:204 )
REMARK 3 ORIGIN FOR THE GROUP (A): 39.9079 15.2534 -4.3195
REMARK 3 T TENSOR
REMARK 3 T11: 0.3101 T22: 0.1524
REMARK 3 T33: 0.1864 T12: 0.0108
REMARK 3 T13: -0.0063 T23: 0.0293
REMARK 3 L TENSOR
REMARK 3 L11: 3.9546 L22: 1.3365
REMARK 3 L33: 2.8768 L12: -0.5437
REMARK 3 L13: 1.4467 L23: -0.1536
REMARK 3 S TENSOR
REMARK 3 S11: 0.1663 S12: 0.0076 S13: -0.2517
REMARK 3 S21: -0.2098 S22: -0.0309 S23: 0.0806
REMARK 3 S31: 0.2865 S32: -0.0280 S33: -0.1255
REMARK 3 TLS GROUP : 5
REMARK 3 SELECTION: CHAIN 'A' AND (RESSEQ 205:250 )
REMARK 3 ORIGIN FOR THE GROUP (A): 30.6792 21.9333 5.4568
REMARK 3 T TENSOR
REMARK 3 T11: 0.2446 T22: 0.2532
REMARK 3 T33: 0.1918 T12: -0.0252
REMARK 3 T13: 0.0235 T23: 0.0548
REMARK 3 L TENSOR
REMARK 3 L11: 6.8745 L22: 2.0074
REMARK 3 L33: 3.5911 L12: -0.5404
REMARK 3 L13: 2.3432 L23: 1.6805
REMARK 3 S TENSOR
REMARK 3 S11: 0.0636 S12: -0.6560 S13: -0.2306
REMARK 3 S21: 0.0881 S22: -0.0312 S23: 0.2314
REMARK 3 S31: 0.1632 S32: -0.5652 S33: -0.0041
REMARK 3 TLS GROUP : 6
REMARK 3 SELECTION: CHAIN 'A' AND (RESSEQ 251:290 )
REMARK 3 ORIGIN FOR THE GROUP (A): 40.4206 30.2141 3.9444
REMARK 3 T TENSOR
REMARK 3 T11: 0.2728 T22: 0.1216
REMARK 3 T33: 0.2129 T12: 0.0345
REMARK 3 T13: -0.0047 T23: -0.0087
REMARK 3 L TENSOR
REMARK 3 L11: 6.4699 L22: 2.6133
REMARK 3 L33: 7.1210 L12: -0.1295
REMARK 3 L13: 1.0087 L23: -0.0682
REMARK 3 S TENSOR
REMARK 3 S11: -0.1403 S12: -0.1429 S13: 0.4461
REMARK 3 S21: -0.1547 S22: 0.0662 S23: -0.0245
REMARK 3 S31: -0.3563 S32: -0.1440 S33: 0.0483
REMARK 3 TLS GROUP : 7
REMARK 3 SELECTION: CHAIN 'A' AND (RESSEQ 291:305 )
REMARK 3 ORIGIN FOR THE GROUP (A): 58.4889 18.3249 0.2396
REMARK 3 T TENSOR
REMARK 3 T11: 0.2916 T22: 0.5012
REMARK 3 T33: 0.3958 T12: 0.0289
REMARK 3 T13: -0.0185 T23: -0.0607
REMARK 3 L TENSOR
REMARK 3 L11: 5.7810 L22: 7.5670
REMARK 3 L33: 9.8333 L12: -1.2711
REMARK 3 L13: -0.6021 L23: -3.3276
REMARK 3 S TENSOR
REMARK 3 S11: -0.2830 S12: 0.0108 S13: -0.1534
REMARK 3 S21: -0.2726 S22: 0.1804 S23: -1.2471
REMARK 3 S31: 0.6358 S32: 0.9654 S33: 0.1003
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 4LM5 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 DEPOSITION ID IS D_1000080802.
REMARK 200
REMARK 200 EXPERIMENTAL DETAILS
REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION
REMARK 200 DATE OF DATA COLLECTION : 02-OCT-09
REMARK 200 TEMPERATURE (KELVIN) : 100
REMARK 200 PH : 5.5
REMARK 200 NUMBER OF CRYSTALS USED : 1
REMARK 200
REMARK 200 SYNCHROTRON (Y/N) : N
REMARK 200 RADIATION SOURCE : ROTATING ANODE
REMARK 200 BEAMLINE : NULL
REMARK 200 X-RAY GENERATOR MODEL : RIGAKU MICROMAX-007 HF
REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M
REMARK 200 WAVELENGTH OR RANGE (A) : 1.54
REMARK 200 MONOCHROMATOR : NULL
REMARK 200 OPTICS : NULL
REMARK 200
REMARK 200 DETECTOR TYPE : IMAGE PLATE
REMARK 200 DETECTOR MANUFACTURER : RIGAKU RAXIS IV++
REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM
REMARK 200 DATA SCALING SOFTWARE : SCALA 3.3.20
REMARK 200
REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 20902
REMARK 200 RESOLUTION RANGE HIGH (A) : 2.250
REMARK 200 RESOLUTION RANGE LOW (A) : 84.590
REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL
REMARK 200
REMARK 200 OVERALL.
REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0
REMARK 200 DATA REDUNDANCY : 22.50
REMARK 200 R MERGE (I) : NULL
REMARK 200 R SYM (I) : 0.06600
REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 39.8000
REMARK 200
REMARK 200 IN THE HIGHEST RESOLUTION SHELL.
REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.25
REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.37
REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0
REMARK 200 DATA REDUNDANCY IN SHELL : 22.10
REMARK 200 R MERGE FOR SHELL (I) : 0.41200
REMARK 200 R SYM FOR SHELL (I) : 0.41200
REMARK 200 <I/SIGMA(I)> FOR SHELL : 1.800
REMARK 200
REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH
REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT
REMARK 200 SOFTWARE USED: PHASER 2.1.2
REMARK 200 STARTING MODEL: 3UMW
REMARK 200
REMARK 200 REMARK: NULL
REMARK 280
REMARK 280 CRYSTAL
REMARK 280 SOLVENT CONTENT, VS (%): 62.18
REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.25
REMARK 280
REMARK 280 CRYSTALLIZATION CONDITIONS: 100MM CITRATE BUFFER PH 5.5, 200MM
REMARK 280 NACL, 1M NH4HPO4. CO-CRYSTALLISED IN THE PRESENCE OF 2MM
REMARK 280 SKF86002. THEN THESE CRYSTALS WERE SOAKED WITH 2MM INHIBITOR
REMARK 280 DISSOLVED IN DMSO., VAPOR DIFFUSION, HANGING DROP, TEMPERATURE
REMARK 280 293K
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 53.85400
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 26.92700
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 40.39050
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 13.46350
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 67.31750
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 MET A 28
REMARK 465 LYS A 29
REMARK 465 GLU A 30
REMARK 465 LYS A 31
REMARK 465 GLU A 32
REMARK 465 PRO A 33
REMARK 465 LEU A 34
REMARK 465 LEU A 80
REMARK 465 PRO A 81
REMARK 465 ASN A 82
REMARK 465 GLY A 83
REMARK 465 THR A 84
REMARK 465 ARG A 85
REMARK 465 SER A 306
REMARK 465 LEU A 307
REMARK 465 SER A 308
REMARK 465 PRO A 309
REMARK 465 GLY A 310
REMARK 465 PRO A 311
REMARK 465 SER A 312
REMARK 465 LYS A 313
REMARK 465 SER A 314
REMARK 465 GLY A 315
REMARK 465 PRO A 316
REMARK 465 SER A 317
REMARK 465 SER A 318
REMARK 465 GLY A 319
REMARK 465 GLU A 320
REMARK 465 ASN A 321
REMARK 465 LEU A 322
REMARK 465 TYR A 323
REMARK 465 PHE A 324
REMARK 465 GLN A 325
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 GLU A 79 CG CD OE1 OE2
REMARK 470 HIS A 305 CG ND1 CD2 CE1 NE2
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 A 167 43.14 -145.95
REMARK 500 ASP A 186 81.43 65.43
REMARK 500 ASP A 202 24.87 -145.68
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 Q17 A 401
REMARK 800
REMARK 800 SITE_IDENTIFIER: AC2
REMARK 800 EVIDENCE_CODE: SOFTWARE
REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 402
REMARK 800
REMARK 800 SITE_IDENTIFIER: AC3
REMARK 800 EVIDENCE_CODE: SOFTWARE
REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 403
REMARK 800
REMARK 800 SITE_IDENTIFIER: AC4
REMARK 800 EVIDENCE_CODE: SOFTWARE
REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 404
REMARK 900
REMARK 900 RELATED ENTRIES
REMARK 900 RELATED ID: 4LL5 RELATED DB: PDB
REMARK 900 CRYSTAL STRUCTURE OF PIM1 IN COMPLEX WITH FLUORESCENT COMPOUND
REMARK 900 SKF86002
REMARK 900 RELATED ID: 4LMU RELATED DB: PDB
REMARK 900 RELATED ID: 4LUD RELATED DB: PDB
REMARK 900 RELATED ID: 4LUE RELATED DB: PDB
DBREF 4LM5 A 29 313 UNP P11309 PIM1_HUMAN 120 404
SEQADV 4LM5 MET A 28 UNP P11309 EXPRESSION TAG
SEQADV 4LM5 SER A 314 UNP P11309 EXPRESSION TAG
SEQADV 4LM5 GLY A 315 UNP P11309 EXPRESSION TAG
SEQADV 4LM5 PRO A 316 UNP P11309 EXPRESSION TAG
SEQADV 4LM5 SER A 317 UNP P11309 EXPRESSION TAG
SEQADV 4LM5 SER A 318 UNP P11309 EXPRESSION TAG
SEQADV 4LM5 GLY A 319 UNP P11309 EXPRESSION TAG
SEQADV 4LM5 GLU A 320 UNP P11309 EXPRESSION TAG
SEQADV 4LM5 ASN A 321 UNP P11309 EXPRESSION TAG
SEQADV 4LM5 LEU A 322 UNP P11309 EXPRESSION TAG
SEQADV 4LM5 TYR A 323 UNP P11309 EXPRESSION TAG
SEQADV 4LM5 PHE A 324 UNP P11309 EXPRESSION TAG
SEQADV 4LM5 GLN A 325 UNP P11309 EXPRESSION TAG
SEQRES 1 A 298 MET LYS GLU LYS GLU PRO LEU GLU SER GLN TYR GLN VAL
SEQRES 2 A 298 GLY PRO LEU LEU GLY SER GLY GLY PHE GLY SER VAL TYR
SEQRES 3 A 298 SER GLY ILE ARG VAL SER ASP ASN LEU PRO VAL ALA ILE
SEQRES 4 A 298 LYS HIS VAL GLU LYS ASP ARG ILE SER ASP TRP GLY GLU
SEQRES 5 A 298 LEU PRO ASN GLY THR ARG VAL PRO MET GLU VAL VAL LEU
SEQRES 6 A 298 LEU LYS LYS VAL SER SER GLY PHE SER GLY VAL ILE ARG
SEQRES 7 A 298 LEU LEU ASP TRP PHE GLU ARG PRO ASP SER PHE VAL LEU
SEQRES 8 A 298 ILE LEU GLU ARG PRO GLU PRO VAL GLN ASP LEU PHE ASP
SEQRES 9 A 298 PHE ILE THR GLU ARG GLY ALA LEU GLN GLU GLU LEU ALA
SEQRES 10 A 298 ARG SER PHE PHE TRP GLN VAL LEU GLU ALA VAL ARG HIS
SEQRES 11 A 298 CYS HIS ASN CSO GLY VAL LEU HIS ARG ASP ILE LYS ASP
SEQRES 12 A 298 GLU ASN ILE LEU ILE ASP LEU ASN ARG GLY GLU LEU LYS
SEQRES 13 A 298 LEU ILE ASP PHE GLY SER GLY ALA LEU LEU LYS ASP THR
SEQRES 14 A 298 VAL TYR THR ASP PHE ASP GLY THR ARG VAL TYR SER PRO
SEQRES 15 A 298 PRO GLU TRP ILE ARG TYR HIS ARG TYR HIS GLY ARG SER
SEQRES 16 A 298 ALA ALA VAL TRP SER LEU GLY ILE LEU LEU TYR ASP MET
SEQRES 17 A 298 VAL CYS GLY ASP ILE PRO PHE GLU HIS ASP GLU GLU ILE
SEQRES 18 A 298 ILE ARG GLY GLN VAL PHE PHE ARG GLN ARG VAL SER SER
SEQRES 19 A 298 GLU CYS GLN HIS LEU ILE ARG TRP CYS LEU ALA LEU ARG
SEQRES 20 A 298 PRO SER ASP ARG PRO THR PHE GLU GLU ILE GLN ASN HIS
SEQRES 21 A 298 PRO TRP MET GLN ASP VAL LEU LEU PRO GLN GLU THR ALA
SEQRES 22 A 298 GLU ILE HIS LEU HIS SER LEU SER PRO GLY PRO SER LYS
SEQRES 23 A 298 SER GLY PRO SER SER GLY GLU ASN LEU TYR PHE GLN
MODRES 4LM5 CSO A 161 CYS S-HYDROXYCYSTEINE
HET CSO A 161 7
HET Q17 A 401 22
HET GOL A 402 6
HET GOL A 403 6
HET GOL A 404 6
HETNAM CSO S-HYDROXYCYSTEINE
HETNAM Q17 2-{4-[(3-AMINOPROPYL)AMINO]QUINAZOLIN-2-YL}PHENOL
HETNAM GOL GLYCEROL
HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL
FORMUL 1 CSO C3 H7 N O3 S
FORMUL 2 Q17 C17 H18 N4 O
FORMUL 3 GOL 3(C3 H8 O3)
FORMUL 6 HOH *111(H2 O)
HELIX 1 1 ASP A 72 ILE A 74 5 3
HELIX 2 2 PRO A 87 SER A 97 1 11
HELIX 3 3 LEU A 129 GLY A 137 1 9
HELIX 4 4 GLN A 140 CSO A 161 1 22
HELIX 5 5 LYS A 169 GLU A 171 5 3
HELIX 6 6 THR A 204 SER A 208 5 5
HELIX 7 7 PRO A 209 HIS A 216 1 8
HELIX 8 8 HIS A 219 GLY A 238 1 20
HELIX 9 9 HIS A 244 GLY A 251 1 8
HELIX 10 10 SER A 260 LEU A 271 1 12
HELIX 11 11 ARG A 274 ARG A 278 5 5
HELIX 12 12 THR A 280 ASN A 286 1 7
HELIX 13 13 HIS A 287 GLN A 291 5 5
HELIX 14 14 LEU A 295 LEU A 304 1 10
SHEET 1 A 5 TYR A 38 GLY A 47 0
SHEET 2 A 5 GLY A 50 ARG A 57 -1 O VAL A 52 N LEU A 44
SHEET 3 A 5 PRO A 63 GLU A 70 -1 O ILE A 66 N TYR A 53
SHEET 4 A 5 SER A 115 GLU A 121 -1 O LEU A 120 N ALA A 65
SHEET 5 A 5 LEU A 106 GLU A 111 -1 N ASP A 108 O ILE A 119
SHEET 1 B 3 VAL A 126 ASP A 128 0
SHEET 2 B 3 ILE A 173 ASP A 176 -1 O ILE A 175 N GLN A 127
SHEET 3 B 3 GLU A 181 LEU A 184 -1 O LYS A 183 N LEU A 174
SHEET 1 C 2 VAL A 163 LEU A 164 0
SHEET 2 C 2 ALA A 191 LEU A 192 -1 O ALA A 191 N LEU A 164
LINK C ASN A 160 N CSO A 161 1555 1555 1.33
LINK C CSO A 161 N GLY A 162 1555 1555 1.33
CISPEP 1 GLU A 124 PRO A 125 0 -0.47
SITE 1 AC1 13 PHE A 49 VAL A 52 ALA A 65 LYS A 67
SITE 2 AC1 13 LEU A 120 GLU A 121 ASP A 128 GLU A 171
SITE 3 AC1 13 LEU A 174 ILE A 185 ASP A 186 GOL A 404
SITE 4 AC1 13 HOH A 592
SITE 1 AC2 7 PHE A 130 ILE A 133 ASP A 170 ASP A 234
SITE 2 AC2 7 GLY A 238 ASP A 239 HOH A 599
SITE 1 AC3 5 ARG A 156 ARG A 258 SER A 261 HOH A 512
SITE 2 AC3 5 HOH A 547
SITE 1 AC4 4 GLN A 127 ASP A 128 ASP A 131 Q17 A 401
CRYST1 97.677 97.677 80.781 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 0.010238 0.005911 0.000000 0.00000
SCALE2 0.000000 0.011822 0.000000 0.00000
SCALE3 0.000000 0.000000 0.012379 0.00000