HEADER TRANSFERASE/TRANSFERASE INHIBITOR 22-JUN-14 4QP6 TITLE CRYSTAL STRUCTURE OF ERK2 IN COMPLEX WITH 5H-PYRROLO[2,3-B]PYRAZINE COMPND MOL_ID: 1; COMPND 2 MOLECULE: MITOGEN-ACTIVATED PROTEIN KINASE 1; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: MAP KINASE 1, MAPK 1, ERT1, EXTRACELLULAR SIGNAL-REGULATED COMPND 5 KINASE 2, ERK-2, MAP KINASE ISOFORM P42, P42-MAPK, MITOGEN-ACTIVATED COMPND 6 PROTEIN KINASE 2, MAP KINASE 2, MAPK 2; COMPND 7 EC: 2.7.11.24; COMPND 8 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: MAPK1, ERK2, PRKM1, PRKM2; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS KINASE, TRANSFERASE-TRANSFERASE INHIBITOR COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR J.YIN,W.WANG REVDAT 2 16-DEC-15 4QP6 1 JRNL REVDAT 1 23-SEP-15 4QP6 0 JRNL AUTH D.J.BURDICK,S.WANG,C.HEISE,B.PAN,J.DRUMMOND,J.YIN,L.GOESER, JRNL AUTH 2 S.MAGNUSON,J.BLANEY,J.MOFFAT,W.WANG,H.CHEN JRNL TITL FRAGMENT-BASED DISCOVERY OF POTENT ERK2 PYRROLOPYRAZINE JRNL TITL 2 INHIBITORS. JRNL REF BIOORG.MED.CHEM.LETT. V. 25 4728 2015 JRNL REFN ISSN 0960-894X JRNL PMID 26338362 JRNL DOI 10.1016/J.BMCL.2015.08.048 REMARK 2 REMARK 2 RESOLUTION. 3.10 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE: 1.8.2_1309) REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE- REMARK 3 : KUNSTLEVE,LI-WEI HUNG,ROBERT IMMORMINO, REMARK 3 : TOM IOERGER,AIRLIE MCCOY,ERIK MCKEE,NIGEL REMARK 3 : MORIARTY,REETAL PAI,RANDY READ,JANE REMARK 3 : RICHARDSON,DAVID RICHARDSON,TOD ROMO,JIM REMARK 3 : SACCHETTINI,NICHOLAS SAUTER,JACOB SMITH, REMARK 3 : LAURENT STORONI,TOM TERWILLIGER,PETER REMARK 3 : ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 3.10 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 49.27 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.440 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : NULL REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.215 REMARK 3 R VALUE (WORKING SET) : 0.213 REMARK 3 FREE R VALUE : 0.251 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1649 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 49.2793 - 7.0908 1.00 2625 113 0.1956 0.2223 REMARK 3 2 7.0908 - 5.6308 1.00 2660 99 0.2264 0.3014 REMARK 3 3 5.6308 - 4.9197 1.00 2626 132 0.2053 0.2063 REMARK 3 4 4.9197 - 4.4702 1.00 2595 150 0.1786 0.2529 REMARK 3 5 4.4702 - 4.1500 1.00 2576 169 0.1783 0.2217 REMARK 3 6 4.1500 - 3.9054 1.00 2602 134 0.1950 0.2275 REMARK 3 7 3.9054 - 3.7099 1.00 2609 159 0.1939 0.2247 REMARK 3 8 3.7099 - 3.5485 1.00 2610 137 0.2172 0.2917 REMARK 3 9 3.5485 - 3.4119 1.00 2587 155 0.2451 0.2505 REMARK 3 10 3.4119 - 3.2942 1.00 2611 133 0.2625 0.3174 REMARK 3 11 3.2942 - 3.1912 1.00 2621 137 0.2801 0.2895 REMARK 3 12 3.1912 - 3.1000 1.00 2637 131 0.3011 0.3600 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) : 0.340 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 24.090 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL 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 5693 REMARK 3 ANGLE : 0.847 7711 REMARK 3 CHIRALITY : 0.064 842 REMARK 3 PLANARITY : 0.003 990 REMARK 3 DIHEDRAL : 13.949 2149 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 4 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: (CHAIN A AND (RESID 12:108 OR RESID 335:360 ) ) REMARK 3 ORIGIN FOR THE GROUP (A): -21.5075 -28.7997 -18.4463 REMARK 3 T TENSOR REMARK 3 T11: 0.3402 T22: 0.4192 REMARK 3 T33: 0.3803 T12: 0.2008 REMARK 3 T13: 0.0697 T23: 0.1358 REMARK 3 L TENSOR REMARK 3 L11: 1.9300 L22: 1.3874 REMARK 3 L33: 0.6845 L12: -0.3574 REMARK 3 L13: 0.0302 L23: 0.2258 REMARK 3 S TENSOR REMARK 3 S11: -0.3235 S12: -0.5365 S13: -0.3186 REMARK 3 S21: 0.3704 S22: 0.4520 S23: 0.3011 REMARK 3 S31: 0.0533 S32: -0.0421 S33: 0.0846 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: (CHAIN A AND RESID 109:334 ) REMARK 3 ORIGIN FOR THE GROUP (A): 4.9421 -31.6286 -27.9225 REMARK 3 T TENSOR REMARK 3 T11: 0.1588 T22: 0.1840 REMARK 3 T33: 0.2145 T12: 0.0019 REMARK 3 T13: 0.0170 T23: -0.0117 REMARK 3 L TENSOR REMARK 3 L11: 2.4371 L22: 1.5197 REMARK 3 L33: 1.6894 L12: -0.2568 REMARK 3 L13: 0.5664 L23: -0.8438 REMARK 3 S TENSOR REMARK 3 S11: -0.1614 S12: -0.1076 S13: -0.0149 REMARK 3 S21: -0.0535 S22: 0.0413 S23: -0.1549 REMARK 3 S31: -0.0210 S32: 0.1435 S33: -0.0161 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: (CHAIN B AND (RESID 12:108 OR RESID 335:357 ) ) REMARK 3 ORIGIN FOR THE GROUP (A): 3.9209 -61.7970 -53.3162 REMARK 3 T TENSOR REMARK 3 T11: 0.3637 T22: 0.3058 REMARK 3 T33: 0.2915 T12: 0.1289 REMARK 3 T13: -0.0915 T23: 0.0251 REMARK 3 L TENSOR REMARK 3 L11: 1.0723 L22: 0.7368 REMARK 3 L33: 0.6317 L12: -0.5273 REMARK 3 L13: 0.3706 L23: -0.5281 REMARK 3 S TENSOR REMARK 3 S11: -0.0495 S12: -0.1118 S13: -0.2279 REMARK 3 S21: 0.2426 S22: 0.0055 S23: -0.3483 REMARK 3 S31: 0.3650 S32: 0.3506 S33: -0.0062 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: (CHAIN B AND RESID 109:334 ) REMARK 3 ORIGIN FOR THE GROUP (A): -12.3941 -42.0217 -62.8109 REMARK 3 T TENSOR REMARK 3 T11: 0.2670 T22: 0.2493 REMARK 3 T33: 0.2566 T12: -0.0013 REMARK 3 T13: -0.0152 T23: -0.0057 REMARK 3 L TENSOR REMARK 3 L11: 0.6255 L22: 1.3437 REMARK 3 L33: 2.9206 L12: -0.0703 REMARK 3 L13: 0.8663 L23: 0.9177 REMARK 3 S TENSOR REMARK 3 S11: -0.1641 S12: -0.0148 S13: 0.0377 REMARK 3 S21: -0.0341 S22: 0.0472 S23: 0.0989 REMARK 3 S31: -0.3274 S32: -0.2112 S33: -0.0468 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 4QP6 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 25-JUN-14. REMARK 100 THE RCSB ID CODE IS RCSB086337. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 25-OCT-08 REMARK 200 TEMPERATURE (KELVIN) : 93 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ALS REMARK 200 BEAMLINE : 5.0.2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.00000 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 18239 REMARK 200 RESOLUTION RANGE HIGH (A) : 3.100 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 3.10 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.11 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL 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: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 55.35 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.75 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 10% PEG3350, 0.2 M PROLINE, AND 0.1 M REMARK 280 HEPES PH7.5, IN A 24-WELL LINBRO PLATES INCUBATED AT 4C, VAPOR REMARK 280 DIFFUSION, HANGING DROP, TEMPERATURE 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 41 21 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -Y+1/2,X+1/2,Z+1/4 REMARK 290 4555 Y+1/2,-X+1/2,Z+3/4 REMARK 290 5555 -X+1/2,Y+1/2,-Z+1/4 REMARK 290 6555 X+1/2,-Y+1/2,-Z+3/4 REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-Z+1/2 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 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 137.92500 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 41.26650 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 41.26650 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 68.96250 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 41.26650 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 41.26650 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 206.88750 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 41.26650 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 41.26650 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 68.96250 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 41.26650 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 41.26650 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 206.88750 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 137.92500 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 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 350 REMARK 350 BIOMOLECULE: 2 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 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 -8 REMARK 465 GLY A -7 REMARK 465 SER A -6 REMARK 465 HIS A -5 REMARK 465 HIS A -4 REMARK 465 HIS A -3 REMARK 465 HIS A -2 REMARK 465 HIS A -1 REMARK 465 HIS A 0 REMARK 465 MET A 1 REMARK 465 ALA A 2 REMARK 465 ALA A 3 REMARK 465 ALA A 4 REMARK 465 ALA A 5 REMARK 465 ALA A 6 REMARK 465 ALA A 7 REMARK 465 GLY A 8 REMARK 465 ALA A 9 REMARK 465 GLY A 10 REMARK 465 PRO A 11 REMARK 465 THR A 181 REMARK 465 GLY A 182 REMARK 465 PHE A 183 REMARK 465 LEU A 184 REMARK 465 THR A 185 REMARK 465 GLU A 186 REMARK 465 SER A 202 REMARK 465 LYS A 203 REMARK 465 GLY A 204 REMARK 465 MET B -8 REMARK 465 GLY B -7 REMARK 465 SER B -6 REMARK 465 HIS B -5 REMARK 465 HIS B -4 REMARK 465 HIS B -3 REMARK 465 HIS B -2 REMARK 465 HIS B -1 REMARK 465 HIS B 0 REMARK 465 MET B 1 REMARK 465 ALA B 2 REMARK 465 ALA B 3 REMARK 465 ALA B 4 REMARK 465 ALA B 5 REMARK 465 ALA B 6 REMARK 465 ALA B 7 REMARK 465 GLY B 8 REMARK 465 ALA B 9 REMARK 465 GLY B 10 REMARK 465 PRO B 11 REMARK 465 THR B 181 REMARK 465 GLY B 182 REMARK 465 PHE B 183 REMARK 465 SER B 248 REMARK 465 GLN B 249 REMARK 465 GLU B 250 REMARK 465 ASP B 251 REMARK 465 LEU B 252 REMARK 465 ASN B 253 REMARK 465 CYS B 254 REMARK 465 ILE B 255 REMARK 465 TYR B 358 REMARK 465 ARG B 359 REMARK 465 SER B 360 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 HIS A 180 CG ND1 CD2 CE1 NE2 REMARK 470 HIS B 180 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 GLU A 33 -135.65 -123.96 REMARK 500 ARG A 148 -12.41 70.49 REMARK 500 ASP A 167 85.87 61.24 REMARK 500 ASP A 177 50.81 -105.25 REMARK 500 HIS A 178 107.09 -170.30 REMARK 500 ASP A 179 82.67 60.25 REMARK 500 ASN A 257 -48.04 -177.03 REMARK 500 LEU A 258 118.80 64.88 REMARK 500 LYS A 259 68.50 60.23 REMARK 500 ASN A 262 28.23 103.99 REMARK 500 TYR A 263 -11.48 -141.72 REMARK 500 LEU A 265 88.18 78.56 REMARK 500 LEU A 294 51.58 -106.35 REMARK 500 LEU A 335 155.67 85.81 REMARK 500 ASP A 336 171.43 -52.46 REMARK 500 ASP A 337 8.29 83.46 REMARK 500 MET B 13 -130.79 -153.10 REMARK 500 ARG B 15 179.57 -52.79 REMARK 500 VAL B 18 -7.80 70.44 REMARK 500 PHE B 19 -100.64 -99.97 REMARK 500 LEU B 28 -175.64 176.93 REMARK 500 GLU B 33 86.50 56.10 REMARK 500 ALA B 35 86.87 -57.28 REMARK 500 TYR B 36 88.69 56.82 REMARK 500 ASP B 149 39.61 -159.89 REMARK 500 ASP B 167 85.85 58.97 REMARK 500 ASP B 175 83.00 -157.01 REMARK 500 THR B 185 -157.25 -151.17 REMARK 500 GLU B 186 -154.13 56.95 REMARK 500 SER B 223 5.53 -153.48 REMARK 500 ALA B 260 -149.85 -104.39 REMARK 500 TYR B 263 -28.22 -153.53 REMARK 500 LEU B 264 39.69 -79.34 REMARK 500 LEU B 267 113.82 -171.34 REMARK 500 PRO B 268 -111.35 -101.83 REMARK 500 LEU B 294 52.40 -93.87 REMARK 500 TYR B 317 108.64 -58.98 REMARK 500 PHE B 331 85.70 55.42 REMARK 500 GLU B 334 91.28 -55.78 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 LEU A 264 LEU A 265 -139.74 REMARK 500 MET B 13 VAL B 14 -144.12 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CHIRAL CENTERS REMARK 500 REMARK 500 UNEXPECTED CONFIGURATION OF THE FOLLOWING CHIRAL REMARK 500 CENTER(S) USING IMPROPER CA--C--CB--N CHIRALITY REMARK 500 FOR AMINO ACIDS AND C1'--O4'--N1(N9)--C2' FOR REMARK 500 NUCLEIC ACIDS OR EQUIVALENT ANGLE REMARK 500 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,A3,1X,A1,I4,A1,6X,F5.1,6X,A1,10X,A1,3X,A16) REMARK 500 REMARK 500 M RES CSSEQI IMPROPER EXPECTED FOUND DETAILS REMARK 500 VAL B 18 23.2 L L OUTSIDE RANGE 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 36N A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IMD A 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE 36N B 401 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4QP1 RELATED DB: PDB REMARK 900 RELATED ID: 4QP2 RELATED DB: PDB REMARK 900 RELATED ID: 4QP3 RELATED DB: PDB REMARK 900 RELATED ID: 4QP4 RELATED DB: PDB REMARK 900 RELATED ID: 4QP7 RELATED DB: PDB REMARK 900 RELATED ID: 4QP8 RELATED DB: PDB REMARK 900 RELATED ID: 4QP9 RELATED DB: PDB REMARK 900 RELATED ID: 4QPA RELATED DB: PDB DBREF 4QP6 A 1 360 UNP P28482 MK01_HUMAN 1 360 DBREF 4QP6 B 1 360 UNP P28482 MK01_HUMAN 1 360 SEQADV 4QP6 MET A -8 UNP P28482 EXPRESSION TAG SEQADV 4QP6 GLY A -7 UNP P28482 EXPRESSION TAG SEQADV 4QP6 SER A -6 UNP P28482 EXPRESSION TAG SEQADV 4QP6 HIS A -5 UNP P28482 EXPRESSION TAG SEQADV 4QP6 HIS A -4 UNP P28482 EXPRESSION TAG SEQADV 4QP6 HIS A -3 UNP P28482 EXPRESSION TAG SEQADV 4QP6 HIS A -2 UNP P28482 EXPRESSION TAG SEQADV 4QP6 HIS A -1 UNP P28482 EXPRESSION TAG SEQADV 4QP6 HIS A 0 UNP P28482 EXPRESSION TAG SEQADV 4QP6 MET B -8 UNP P28482 EXPRESSION TAG SEQADV 4QP6 GLY B -7 UNP P28482 EXPRESSION TAG SEQADV 4QP6 SER B -6 UNP P28482 EXPRESSION TAG SEQADV 4QP6 HIS B -5 UNP P28482 EXPRESSION TAG SEQADV 4QP6 HIS B -4 UNP P28482 EXPRESSION TAG SEQADV 4QP6 HIS B -3 UNP P28482 EXPRESSION TAG SEQADV 4QP6 HIS B -2 UNP P28482 EXPRESSION TAG SEQADV 4QP6 HIS B -1 UNP P28482 EXPRESSION TAG SEQADV 4QP6 HIS B 0 UNP P28482 EXPRESSION TAG SEQRES 1 A 369 MET GLY SER HIS HIS HIS HIS HIS HIS MET ALA ALA ALA SEQRES 2 A 369 ALA ALA ALA GLY ALA GLY PRO GLU MET VAL ARG GLY GLN SEQRES 3 A 369 VAL PHE ASP VAL GLY PRO ARG TYR THR ASN LEU SER TYR SEQRES 4 A 369 ILE GLY GLU GLY ALA TYR GLY MET VAL CYS SER ALA TYR SEQRES 5 A 369 ASP ASN VAL ASN LYS VAL ARG VAL ALA ILE LYS LYS ILE SEQRES 6 A 369 SER PRO PHE GLU HIS GLN THR TYR CYS GLN ARG THR LEU SEQRES 7 A 369 ARG GLU ILE LYS ILE LEU LEU ARG PHE ARG HIS GLU ASN SEQRES 8 A 369 ILE ILE GLY ILE ASN ASP ILE ILE ARG ALA PRO THR ILE SEQRES 9 A 369 GLU GLN MET LYS ASP VAL TYR ILE VAL GLN ASP LEU MET SEQRES 10 A 369 GLU THR ASP LEU TYR LYS LEU LEU LYS THR GLN HIS LEU SEQRES 11 A 369 SER ASN ASP NEP ILE CYS TYR PHE LEU TYR GLN ILE LEU SEQRES 12 A 369 ARG GLY LEU LYS TYR ILE HIS SER ALA ASN VAL LEU HIS SEQRES 13 A 369 ARG ASP LEU LYS PRO SER ASN LEU LEU LEU ASN THR THR SEQRES 14 A 369 CYS ASP LEU LYS ILE CYS ASP PHE GLY LEU ALA ARG VAL SEQRES 15 A 369 ALA ASP PRO ASP HIS ASP HIS THR GLY PHE LEU THR GLU SEQRES 16 A 369 TYR VAL ALA THR ARG TRP TYR ARG ALA PRO GLU ILE MET SEQRES 17 A 369 LEU ASN SER LYS GLY TYR THR LYS SER ILE ASP ILE TRP SEQRES 18 A 369 SER VAL GLY CYS ILE LEU ALA GLU MET LEU SER ASN ARG SEQRES 19 A 369 PRO ILE PHE PRO GLY LYS HIS TYR LEU ASP GLN LEU ASN SEQRES 20 A 369 HIS ILE LEU GLY ILE LEU GLY SER PRO SER GLN GLU ASP SEQRES 21 A 369 LEU ASN CYS ILE ILE ASN LEU LYS ALA ARG ASN TYR LEU SEQRES 22 A 369 LEU SER LEU PRO HIS LYS ASN LYS VAL PRO TRP ASN ARG SEQRES 23 A 369 LEU PHE PRO ASN ALA ASP SER LYS ALA LEU ASP LEU LEU SEQRES 24 A 369 ASP LYS MET LEU THR PHE ASN PRO HIS LYS ARG ILE GLU SEQRES 25 A 369 VAL GLU GLN ALA LEU ALA HIS PRO TYR LEU GLU GLN TYR SEQRES 26 A 369 TYR ASP PRO SER ASP GLU PRO ILE ALA GLU ALA PRO PHE SEQRES 27 A 369 LYS PHE ASP MET GLU LEU ASP ASP LEU PRO LYS GLU LYS SEQRES 28 A 369 LEU LYS GLU LEU ILE PHE GLU GLU THR ALA ARG PHE GLN SEQRES 29 A 369 PRO GLY TYR ARG SER SEQRES 1 B 369 MET GLY SER HIS HIS HIS HIS HIS HIS MET ALA ALA ALA SEQRES 2 B 369 ALA ALA ALA GLY ALA GLY PRO GLU MET VAL ARG GLY GLN SEQRES 3 B 369 VAL PHE ASP VAL GLY PRO ARG TYR THR ASN LEU SER TYR SEQRES 4 B 369 ILE GLY GLU GLY ALA TYR GLY MET VAL CYS SER ALA TYR SEQRES 5 B 369 ASP ASN VAL ASN LYS VAL ARG VAL ALA ILE LYS LYS ILE SEQRES 6 B 369 SER PRO PHE GLU HIS GLN THR TYR CYS GLN ARG THR LEU SEQRES 7 B 369 ARG GLU ILE LYS ILE LEU LEU ARG PHE ARG HIS GLU ASN SEQRES 8 B 369 ILE ILE GLY ILE ASN ASP ILE ILE ARG ALA PRO THR ILE SEQRES 9 B 369 GLU GLN MET LYS ASP VAL TYR ILE VAL GLN ASP LEU MET SEQRES 10 B 369 GLU THR ASP LEU TYR LYS LEU LEU LYS THR GLN HIS LEU SEQRES 11 B 369 SER ASN ASP NEP ILE CYS TYR PHE LEU TYR GLN ILE LEU SEQRES 12 B 369 ARG GLY LEU LYS TYR ILE HIS SER ALA ASN VAL LEU HIS SEQRES 13 B 369 ARG ASP LEU LYS PRO SER ASN LEU LEU LEU ASN THR THR SEQRES 14 B 369 CYS ASP LEU LYS ILE CYS ASP PHE GLY LEU ALA ARG VAL SEQRES 15 B 369 ALA ASP PRO ASP HIS ASP HIS THR GLY PHE LEU THR GLU SEQRES 16 B 369 TYR VAL ALA THR ARG TRP TYR ARG ALA PRO GLU ILE MET SEQRES 17 B 369 LEU ASN SER LYS GLY TYR THR LYS SER ILE ASP ILE TRP SEQRES 18 B 369 SER VAL GLY CYS ILE LEU ALA GLU MET LEU SER ASN ARG SEQRES 19 B 369 PRO ILE PHE PRO GLY LYS HIS TYR LEU ASP GLN LEU ASN SEQRES 20 B 369 HIS ILE LEU GLY ILE LEU GLY SER PRO SER GLN GLU ASP SEQRES 21 B 369 LEU ASN CYS ILE ILE ASN LEU LYS ALA ARG ASN TYR LEU SEQRES 22 B 369 LEU SER LEU PRO HIS LYS ASN LYS VAL PRO TRP ASN ARG SEQRES 23 B 369 LEU PHE PRO ASN ALA ASP SER LYS ALA LEU ASP LEU LEU SEQRES 24 B 369 ASP LYS MET LEU THR PHE ASN PRO HIS LYS ARG ILE GLU SEQRES 25 B 369 VAL GLU GLN ALA LEU ALA HIS PRO TYR LEU GLU GLN TYR SEQRES 26 B 369 TYR ASP PRO SER ASP GLU PRO ILE ALA GLU ALA PRO PHE SEQRES 27 B 369 LYS PHE ASP MET GLU LEU ASP ASP LEU PRO LYS GLU LYS SEQRES 28 B 369 LEU LYS GLU LEU ILE PHE GLU GLU THR ALA ARG PHE GLN SEQRES 29 B 369 PRO GLY TYR ARG SER MODRES 4QP6 NEP A 125 HIS N1-PHOSPHONOHISTIDINE MODRES 4QP6 NEP B 125 HIS N1-PHOSPHONOHISTIDINE HET NEP A 125 14 HET NEP B 125 14 HET 36N A 401 9 HET IMD A 402 5 HET 36N B 401 9 HETNAM NEP N1-PHOSPHONOHISTIDINE HETNAM 36N 5H-PYRROLO[2,3-B]PYRAZINE HETNAM IMD IMIDAZOLE FORMUL 1 NEP 2(C6 H10 N3 O5 P) FORMUL 3 36N 2(C6 H5 N3) FORMUL 4 IMD C3 H5 N2 1+ HELIX 1 1 HIS A 61 LEU A 76 1 16 HELIX 2 2 LEU A 112 LYS A 117 1 6 HELIX 3 3 SER A 122 ALA A 143 1 22 HELIX 4 4 LYS A 151 SER A 153 5 3 HELIX 5 5 THR A 190 ARG A 194 5 5 HELIX 6 6 ALA A 195 ASN A 201 1 7 HELIX 7 7 LYS A 207 ASN A 224 1 18 HELIX 8 8 HIS A 232 GLY A 245 1 14 HELIX 9 9 SER A 248 CYS A 254 1 7 HELIX 10 10 PRO A 274 PHE A 279 1 6 HELIX 11 11 ASP A 283 LEU A 294 1 12 HELIX 12 12 GLU A 303 ALA A 309 1 7 HELIX 13 13 HIS A 310 GLU A 314 5 5 HELIX 14 14 ASP A 318 GLU A 322 5 5 HELIX 15 15 PRO A 339 THR A 351 1 13 HELIX 16 16 ALA A 352 GLN A 355 5 4 HELIX 17 17 HIS B 61 PHE B 78 1 18 HELIX 18 18 LEU B 112 LYS B 117 1 6 HELIX 19 19 SER B 122 ALA B 143 1 22 HELIX 20 20 LYS B 151 SER B 153 5 3 HELIX 21 21 THR B 190 ARG B 194 5 5 HELIX 22 22 ALA B 195 LEU B 200 1 6 HELIX 23 23 LYS B 207 LEU B 222 1 16 HELIX 24 24 HIS B 232 GLY B 245 1 14 HELIX 25 25 PRO B 274 PHE B 279 1 6 HELIX 26 26 ASP B 283 LEU B 294 1 12 HELIX 27 27 GLU B 303 ALA B 309 1 7 HELIX 28 28 HIS B 310 GLU B 314 5 5 HELIX 29 29 ASP B 318 GLU B 322 5 5 HELIX 30 30 PRO B 339 THR B 351 1 13 HELIX 31 31 ALA B 352 GLN B 355 5 4 SHEET 1 A 5 TYR A 25 TYR A 30 0 SHEET 2 A 5 VAL A 39 ASP A 44 -1 O TYR A 43 N THR A 26 SHEET 3 A 5 VAL A 49 ILE A 56 -1 O ILE A 53 N CYS A 40 SHEET 4 A 5 VAL A 101 ASP A 106 -1 O VAL A 101 N ILE A 56 SHEET 5 A 5 ASP A 88 ILE A 90 -1 N ASP A 88 O VAL A 104 SHEET 1 B 3 THR A 110 ASP A 111 0 SHEET 2 B 3 LEU A 155 LEU A 157 -1 O LEU A 157 N THR A 110 SHEET 3 B 3 LEU A 163 ILE A 165 -1 O LYS A 164 N LEU A 156 SHEET 1 C 2 VAL A 145 LEU A 146 0 SHEET 2 C 2 ARG A 172 VAL A 173 -1 O ARG A 172 N LEU A 146 SHEET 1 D 4 VAL B 39 TYR B 43 0 SHEET 2 D 4 ARG B 50 ILE B 56 -1 O VAL B 51 N ALA B 42 SHEET 3 D 4 VAL B 101 ASP B 106 -1 O ILE B 103 N LYS B 54 SHEET 4 D 4 ASP B 88 ILE B 90 -1 N ASP B 88 O VAL B 104 SHEET 1 E 3 THR B 110 ASP B 111 0 SHEET 2 E 3 LEU B 155 THR B 159 -1 O LEU B 157 N THR B 110 SHEET 3 E 3 ASP B 162 ILE B 165 -1 O LYS B 164 N LEU B 156 SHEET 1 F 2 VAL B 145 LEU B 146 0 SHEET 2 F 2 ARG B 172 VAL B 173 -1 O ARG B 172 N LEU B 146 LINK C ASP A 124 N NEP A 125 1555 1555 1.33 LINK C NEP A 125 N ILE A 126 1555 1555 1.33 LINK C ASP B 124 N NEP B 125 1555 1555 1.33 LINK C NEP B 125 N ILE B 126 1555 1555 1.33 CISPEP 1 GLY A 22 PRO A 23 0 0.35 CISPEP 2 ALA A 35 TYR A 36 0 -3.86 CISPEP 3 HIS A 178 ASP A 179 0 -2.77 CISPEP 4 ASP A 179 HIS A 180 0 1.63 CISPEP 5 LYS A 259 ALA A 260 0 -2.54 CISPEP 6 ALA A 260 ARG A 261 0 -0.28 CISPEP 7 LEU A 265 SER A 266 0 4.84 CISPEP 8 GLY B 16 GLN B 17 0 10.59 CISPEP 9 PRO B 23 ARG B 24 0 12.28 CISPEP 10 ASN B 27 LEU B 28 0 -16.59 CISPEP 11 GLU B 33 GLY B 34 0 2.66 CISPEP 12 ARG B 261 ASN B 262 0 -7.91 CISPEP 13 LEU B 267 PRO B 268 0 -3.48 SITE 1 AC1 6 ALA A 52 GLN A 105 ASP A 106 MET A 108 SITE 2 AC1 6 LEU A 156 IMD A 402 SITE 1 AC2 6 MET A 108 GLU A 109 THR A 110 ASP A 111 SITE 2 AC2 6 LYS A 114 36N A 401 SITE 1 AC3 5 ALA B 52 GLN B 105 ASP B 106 MET B 108 SITE 2 AC3 5 LEU B 156 CRYST1 82.533 82.533 275.850 90.00 90.00 90.00 P 41 21 2 16 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 0.012116 0.000000 0.000000 0.00000 SCALE2 0.000000 0.012116 0.000000 0.00000 SCALE3 0.000000 0.000000 0.003625 0.00000