HEADER TRANSFERASE/TRANSFERASE INHIBITOR 09-JUL-13 4LL5 TITLE CRYSTAL STRUCTURE OF PIM-1 IN COMPLEX WITH THE FLUORESCENT COMPOUND TITLE 2 SKF86002 COMPND MOL_ID: 1; COMPND 2 MOLECULE: SERINE/THREONINE-PROTEIN KINASE PIM-1; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: PROTEIN KINASE DOMAIN, UNP RESODIES 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 3 08-NOV-23 4LL5 1 REMARK LINK REVDAT 2 18-DEC-19 4LL5 1 JRNL SEQADV REVDAT 1 12-FEB-14 4LL5 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. 2.00 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) : 2.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 42.72 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.360 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.4 REMARK 3 NUMBER OF REFLECTIONS : 29915 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.169 REMARK 3 R VALUE (WORKING SET) : 0.168 REMARK 3 FREE R VALUE : 0.189 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.080 REMARK 3 FREE R VALUE TEST SET COUNT : 1521 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 42.7264 - 4.4469 1.00 2647 146 0.1730 0.1816 REMARK 3 2 4.4469 - 3.5301 1.00 2598 136 0.1418 0.1724 REMARK 3 3 3.5301 - 3.0840 1.00 2588 140 0.1645 0.1793 REMARK 3 4 3.0840 - 2.8021 1.00 2573 156 0.1749 0.1678 REMARK 3 5 2.8021 - 2.6013 1.00 2582 123 0.1767 0.1887 REMARK 3 6 2.6013 - 2.4480 0.99 2586 123 0.1727 0.2319 REMARK 3 7 2.4480 - 2.3254 0.99 2573 142 0.1796 0.1978 REMARK 3 8 2.3254 - 2.2242 0.99 2550 145 0.1736 0.2159 REMARK 3 9 2.2242 - 2.1385 0.99 2559 138 0.1800 0.2151 REMARK 3 10 2.1385 - 2.0647 0.99 2546 144 0.1840 0.2195 REMARK 3 11 2.0647 - 2.0002 0.99 2592 128 0.1906 0.2456 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) : 0.130 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 18.180 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 26.29 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 37.17 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 : 0.003 2295 REMARK 3 ANGLE : 0.702 3109 REMARK 3 CHIRALITY : 0.051 326 REMARK 3 PLANARITY : 0.003 401 REMARK 3 DIHEDRAL : 14.286 846 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 34:61 ) REMARK 3 ORIGIN FOR THE GROUP (A): 64.2575-126.8708 -2.0778 REMARK 3 T TENSOR REMARK 3 T11: 0.2885 T22: 0.3942 REMARK 3 T33: 0.3930 T12: -0.1327 REMARK 3 T13: -0.0086 T23: 0.0459 REMARK 3 L TENSOR REMARK 3 L11: 4.1602 L22: 6.6905 REMARK 3 L33: 8.0024 L12: -0.5588 REMARK 3 L13: -1.2085 L23: 4.8376 REMARK 3 S TENSOR REMARK 3 S11: -0.0789 S12: 0.2419 S13: -0.5707 REMARK 3 S21: -0.0747 S22: 0.1497 S23: 0.2649 REMARK 3 S31: 0.3834 S32: -0.3625 S33: 0.0079 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESSEQ 62:87 ) REMARK 3 ORIGIN FOR THE GROUP (A): 63.2797-113.1452 -5.8656 REMARK 3 T TENSOR REMARK 3 T11: 0.2779 T22: 0.3644 REMARK 3 T33: 0.3678 T12: -0.0107 REMARK 3 T13: -0.0289 T23: 0.1244 REMARK 3 L TENSOR REMARK 3 L11: 4.7836 L22: 4.7332 REMARK 3 L33: 6.0469 L12: -0.0661 REMARK 3 L13: -1.3839 L23: 0.3998 REMARK 3 S TENSOR REMARK 3 S11: -0.0110 S12: 0.5590 S13: 0.7456 REMARK 3 S21: 0.4034 S22: 0.0390 S23: 0.2993 REMARK 3 S31: -0.8888 S32: -0.5818 S33: -0.0273 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESSEQ 88:140 ) REMARK 3 ORIGIN FOR THE GROUP (A): 73.9211-119.7216 -2.3802 REMARK 3 T TENSOR REMARK 3 T11: 0.2325 T22: 0.2387 REMARK 3 T33: 0.2240 T12: -0.0739 REMARK 3 T13: 0.0242 T23: 0.0155 REMARK 3 L TENSOR REMARK 3 L11: 5.3897 L22: 0.7923 REMARK 3 L33: 2.9196 L12: -0.0683 REMARK 3 L13: 2.5496 L23: 0.0379 REMARK 3 S TENSOR REMARK 3 S11: -0.0147 S12: 0.3629 S13: -0.2696 REMARK 3 S21: 0.0198 S22: 0.1228 S23: 0.1835 REMARK 3 S31: 0.1043 S32: -0.0983 S33: -0.1335 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESSEQ 141:204 ) REMARK 3 ORIGIN FOR THE GROUP (A): 82.7924-112.5288 -1.4905 REMARK 3 T TENSOR REMARK 3 T11: 0.1714 T22: 0.1919 REMARK 3 T33: 0.1488 T12: -0.0577 REMARK 3 T13: 0.0265 T23: 0.0099 REMARK 3 L TENSOR REMARK 3 L11: 2.1674 L22: 2.9012 REMARK 3 L33: 2.4358 L12: -0.8591 REMARK 3 L13: 0.6160 L23: -0.9778 REMARK 3 S TENSOR REMARK 3 S11: -0.0727 S12: 0.1166 S13: 0.0000 REMARK 3 S21: -0.0910 S22: 0.1930 S23: 0.1496 REMARK 3 S31: 0.0360 S32: -0.2113 S33: -0.1345 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'A' AND (RESSEQ 205:250 ) REMARK 3 ORIGIN FOR THE GROUP (A): 84.2332-101.1770 8.2445 REMARK 3 T TENSOR REMARK 3 T11: 0.2048 T22: 0.1835 REMARK 3 T33: 0.1896 T12: -0.0107 REMARK 3 T13: 0.0546 T23: -0.0051 REMARK 3 L TENSOR REMARK 3 L11: 2.8390 L22: 4.2395 REMARK 3 L33: 4.3314 L12: -1.6584 REMARK 3 L13: 2.1747 L23: -1.5889 REMARK 3 S TENSOR REMARK 3 S11: -0.1602 S12: -0.1250 S13: 0.1167 REMARK 3 S21: 0.3279 S22: 0.1586 S23: 0.1659 REMARK 3 S31: -0.3927 S32: -0.2179 S33: -0.0083 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'A' AND (RESSEQ 251:290 ) REMARK 3 ORIGIN FOR THE GROUP (A): 96.1784-105.3925 6.7936 REMARK 3 T TENSOR REMARK 3 T11: 0.1429 T22: 0.1549 REMARK 3 T33: 0.1740 T12: -0.0658 REMARK 3 T13: 0.0094 T23: -0.0101 REMARK 3 L TENSOR REMARK 3 L11: 2.6795 L22: 4.0871 REMARK 3 L33: 5.8195 L12: -1.0287 REMARK 3 L13: 0.7761 L23: -0.0845 REMARK 3 S TENSOR REMARK 3 S11: -0.0307 S12: 0.1405 S13: 0.1606 REMARK 3 S21: 0.0890 S22: 0.0467 S23: -0.2852 REMARK 3 S31: -0.2563 S32: 0.2132 S33: -0.0068 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: CHAIN 'A' AND (RESSEQ 291:305 ) REMARK 3 ORIGIN FOR THE GROUP (A): 94.7434-127.3338 2.8118 REMARK 3 T TENSOR REMARK 3 T11: 0.3782 T22: 0.2182 REMARK 3 T33: 0.3911 T12: 0.0764 REMARK 3 T13: -0.0280 T23: -0.0628 REMARK 3 L TENSOR REMARK 3 L11: 6.9846 L22: 2.0315 REMARK 3 L33: 7.6441 L12: 2.7536 REMARK 3 L13: -1.4242 L23: -2.5624 REMARK 3 S TENSOR REMARK 3 S11: -0.0260 S12: 0.5183 S13: -0.9428 REMARK 3 S21: 0.0441 S22: 0.2764 S23: -0.6565 REMARK 3 S31: 0.8372 S32: 0.0868 S33: -0.1175 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 4LL5 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 01-AUG-13. REMARK 100 THE DEPOSITION ID IS D_1000080766. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 16-SEP-12 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : AUSTRALIAN SYNCHROTRON REMARK 200 BEAMLINE : MX2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.95 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 : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA 3.3.20 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 29928 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.000 REMARK 200 RESOLUTION RANGE LOW (A) : 85.433 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.4 REMARK 200 DATA REDUNDANCY : 11.20 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.11500 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 15.6000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.00 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.11 REMARK 200 COMPLETENESS FOR SHELL (%) : 98.9 REMARK 200 DATA REDUNDANCY IN SHELL : 11.30 REMARK 200 R MERGE FOR SHELL (I) : 0.40000 REMARK 200 R SYM FOR SHELL (I) : 0.40000 REMARK 200 <I/SIGMA(I)> FOR SHELL : 1.900 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER 2.5.1 REMARK 200 STARTING MODEL: 3UIX REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 62.70 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.30 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 100MM CITRATE BUFFER PH 5.5, 200MM REMARK 280 NACL, 1M NH4HPO4, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 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 53.51333 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 26.75667 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 40.13500 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 13.37833 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 66.89167 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 80 REMARK 465 PRO A 81 REMARK 465 ASN A 82 REMARK 465 GLY A 83 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 ARG A 73 CG CD NE CZ NH1 NH2 REMARK 470 GLU A 79 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 GLU A 35 O HOH A 657 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 ASP A 60 15.42 -142.52 REMARK 500 ASP A 167 44.96 -150.31 REMARK 500 ASP A 186 85.24 64.64 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 CA A 406 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 170 OD1 REMARK 620 2 TYR A 207 OH 82.2 REMARK 620 3 HOH A 668 O 91.6 106.5 REMARK 620 4 HOH A 669 O 99.0 165.0 88.5 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 SK8 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 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 405 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA A 406 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4LM5 RELATED DB: PDB 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 4LL5 A 29 313 UNP P11309 PIM1_HUMAN 120 404 SEQADV 4LL5 MET A 28 UNP P11309 EXPRESSION TAG SEQADV 4LL5 SER A 314 UNP P11309 EXPRESSION TAG SEQADV 4LL5 GLY A 315 UNP P11309 EXPRESSION TAG SEQADV 4LL5 PRO A 316 UNP P11309 EXPRESSION TAG SEQADV 4LL5 SER A 317 UNP P11309 EXPRESSION TAG SEQADV 4LL5 SER A 318 UNP P11309 EXPRESSION TAG SEQADV 4LL5 GLY A 319 UNP P11309 EXPRESSION TAG SEQADV 4LL5 GLU A 320 UNP P11309 EXPRESSION TAG SEQADV 4LL5 ASN A 321 UNP P11309 EXPRESSION TAG SEQADV 4LL5 LEU A 322 UNP P11309 EXPRESSION TAG SEQADV 4LL5 TYR A 323 UNP P11309 EXPRESSION TAG SEQADV 4LL5 PHE A 324 UNP P11309 EXPRESSION TAG SEQADV 4LL5 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 CYS 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 HET SK8 A 401 21 HET GOL A 402 6 HET GOL A 403 6 HET GOL A 404 6 HET GOL A 405 6 HET CA A 406 1 HETNAM SK8 6-(4-FLUOROPHENYL)-5-(PYRIDIN-4-YL)-2,3- HETNAM 2 SK8 DIHYDROIMIDAZO[2,1-B][1,3]THIAZOLE HETNAM GOL GLYCEROL HETNAM CA CALCIUM ION HETSYN SK8 SKF-86002 HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 2 SK8 C16 H12 F N3 S FORMUL 3 GOL 4(C3 H8 O3) FORMUL 7 CA CA 2+ FORMUL 8 HOH *173(H2 O) HELIX 1 1 ASP A 72 ILE A 74 5 3 HELIX 2 2 MET A 88 SER A 97 1 10 HELIX 3 3 LEU A 129 GLY A 137 1 9 HELIX 4 4 GLN A 140 CYS 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 2 TRP A 77 GLY A 78 0 SHEET 2 B 2 VAL A 86 PRO A 87 -1 O VAL A 86 N GLY A 78 SHEET 1 C 3 VAL A 126 ASP A 128 0 SHEET 2 C 3 ILE A 173 ASP A 176 -1 O ILE A 175 N GLN A 127 SHEET 3 C 3 GLU A 181 LEU A 184 -1 O GLU A 181 N ASP A 176 SHEET 1 D 2 VAL A 163 LEU A 164 0 SHEET 2 D 2 ALA A 191 LEU A 192 -1 O ALA A 191 N LEU A 164 LINK OD1 ASP A 170 CA CA A 406 1555 1555 2.64 LINK OH TYR A 207 CA CA A 406 1555 1555 2.89 LINK CA CA A 406 O HOH A 668 1555 1555 2.48 LINK CA CA A 406 O HOH A 669 1555 1555 2.70 CISPEP 1 GLU A 124 PRO A 125 0 0.10 SITE 1 AC1 7 PHE A 49 ALA A 65 GLU A 121 ARG A 122 SITE 2 AC1 7 PRO A 123 LEU A 174 ASP A 186 SITE 1 AC2 8 PHE A 130 ILE A 133 ASP A 170 ASP A 234 SITE 2 AC2 8 GLY A 238 ASP A 239 CA A 406 HOH A 669 SITE 1 AC3 4 HIS A 265 HIS A 287 PRO A 288 HOH A 644 SITE 1 AC4 3 ASP A 108 TRP A 109 PHE A 110 SITE 1 AC5 4 ASP A 167 LYS A 169 ASP A 202 HOH A 673 SITE 1 AC6 6 ASP A 170 TYR A 207 ILE A 240 GOL A 402 SITE 2 AC6 6 HOH A 668 HOH A 669 CRYST1 98.650 98.650 80.270 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 0.010137 0.005853 0.000000 0.00000 SCALE2 0.000000 0.011705 0.000000 0.00000 SCALE3 0.000000 0.000000 0.012458 0.00000