HEADER TRANSFERASE/TRANSFERASE INHIBITOR 22-MAR-22 7XC1 TITLE CRYSTAL STRUCTURE OF ERK2 WITH AN ALLOSTERIC INHIBITOR 3 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 BL21; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 511693 KEYWDS PROTEIN KINASE MAPK INHIBITOR, TRANSFERASE, TRANSFERASE-TRANSFERASE KEYWDS 2 INHIBITOR COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR M.YOSHIDA,T.KINOSHITA REVDAT 2 29-NOV-23 7XC1 1 REMARK REVDAT 1 22-MAR-23 7XC1 0 JRNL AUTH M.YOSHIDA,T.KINOSHITA JRNL TITL STRUCTURAL BASIS FOR ERK2 ALLOSTERIC INHIBITORS. JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 2.09 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.19.2_4158 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 : GEOSTD + MONOMER LIBRARY + CDL V1.2 REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.09 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 41.33 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.330 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 3 NUMBER OF REFLECTIONS : 57463 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.232 REMARK 3 R VALUE (WORKING SET) : 0.230 REMARK 3 FREE R VALUE : 0.271 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 2873 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 41.3300 - 5.7600 1.00 2892 152 0.1986 0.2242 REMARK 3 2 5.7600 - 4.5700 1.00 2710 143 0.1985 0.2426 REMARK 3 3 4.5700 - 4.0000 1.00 2675 140 0.1887 0.2233 REMARK 3 4 4.0000 - 3.6300 1.00 2639 139 0.1952 0.2746 REMARK 3 5 3.6300 - 3.3700 1.00 2642 138 0.2288 0.2670 REMARK 3 6 3.3700 - 3.1700 1.00 2590 137 0.2396 0.2672 REMARK 3 7 3.1700 - 3.0100 1.00 2619 138 0.2408 0.2960 REMARK 3 8 3.0100 - 2.8800 1.00 2614 137 0.2518 0.3101 REMARK 3 9 2.8800 - 2.7700 1.00 2565 135 0.2786 0.3241 REMARK 3 10 2.7700 - 2.6800 1.00 2580 134 0.2682 0.3095 REMARK 3 11 2.6800 - 2.5900 1.00 2564 135 0.2741 0.3000 REMARK 3 12 2.5900 - 2.5200 1.00 2604 137 0.2735 0.3487 REMARK 3 13 2.5200 - 2.4500 1.00 2568 135 0.2690 0.3362 REMARK 3 14 2.4500 - 2.3900 1.00 2575 136 0.2720 0.3181 REMARK 3 15 2.3900 - 2.3400 1.00 2554 135 0.2933 0.3211 REMARK 3 16 2.3400 - 2.2900 1.00 2547 132 0.3134 0.3608 REMARK 3 17 2.2900 - 2.2400 1.00 2546 133 0.3276 0.3732 REMARK 3 18 2.2400 - 2.2000 1.00 2563 135 0.3492 0.3300 REMARK 3 19 2.2000 - 2.1600 1.00 2540 135 0.3771 0.4041 REMARK 3 20 2.1600 - 2.1200 0.99 2506 133 0.3946 0.4174 REMARK 3 21 2.1200 - 2.0900 0.97 2497 134 0.4050 0.4314 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) : 0.361 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 32.605 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 51.70 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 66.72 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 : 0.010 5972 REMARK 3 ANGLE : 1.009 8099 REMARK 3 CHIRALITY : 0.053 874 REMARK 3 PLANARITY : 0.011 1025 REMARK 3 DIHEDRAL : 16.516 2248 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL 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 7XC1 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 26-MAR-22. REMARK 100 THE DEPOSITION ID IS D_1300028490. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 16-JUL-21 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SPRING-8 REMARK 200 BEAMLINE : BL44XU REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9 REMARK 200 MONOCHROMATOR : MIRRORS REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS EIGER X 16M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XDS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 57640 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.090 REMARK 200 RESOLUTION RANGE LOW (A) : 41.330 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 13.40 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 16.8000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.09 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.16 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.6 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: 4QP1 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 55.69 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.78 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 10% PEG3350 0.1M HEPES PH 7.5 0.25M L REMARK 280 -PROLINE GLYCEROL, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE REMARK 280 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 137.53700 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 41.32650 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 41.32650 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 68.76850 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 41.32650 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 41.32650 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 206.30550 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 41.32650 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 41.32650 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 68.76850 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 41.32650 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 41.32650 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 206.30550 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 137.53700 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 TOTAL BURIED SURFACE AREA: 160 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 16840 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -12.0 KCAL/MOL 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 TOTAL BURIED SURFACE AREA: 0 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 16530 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: 0.0 KCAL/MOL 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 GLY A -7 REMARK 465 ASP A -6 REMARK 465 LEU A -5 REMARK 465 GLY A -4 REMARK 465 SER A -3 REMARK 465 ASP A -2 REMARK 465 GLU A -1 REMARK 465 LEU 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 B -7 REMARK 465 ASP B -6 REMARK 465 LEU B -5 REMARK 465 GLY B -4 REMARK 465 SER B -3 REMARK 465 ASP B -2 REMARK 465 GLU B -1 REMARK 465 LEU 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 TYR B 358 REMARK 465 ARG B 359 REMARK 465 SER B 360 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 LEU A 252 NH2 ARG A 261 2.05 REMARK 500 O HOH A 570 O HOH A 576 2.14 REMARK 500 O HOH B 504 O HOH B 550 2.17 REMARK 500 O ASP B 177 N ASP B 179 2.18 REMARK 500 OD1 ASN A 238 OH TYR A 263 2.19 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES 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,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) 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 ATM2 ATM3 REMARK 500 LEU A 252 O - C - N ANGL. DEV. = -11.0 DEGREES 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 PRO A 11 -153.92 -73.95 REMARK 500 GLU A 12 159.10 101.03 REMARK 500 MET A 13 -126.19 -149.34 REMARK 500 VAL A 14 122.41 108.34 REMARK 500 ASP A 20 33.18 -64.43 REMARK 500 SER A 29 110.04 -169.97 REMARK 500 ALA A 35 -90.70 -44.13 REMARK 500 HIS A 80 135.66 -170.47 REMARK 500 THR A 110 -168.41 -164.41 REMARK 500 ARG A 148 -2.02 73.00 REMARK 500 ASP A 149 41.09 -141.07 REMARK 500 ASP A 167 78.42 58.01 REMARK 500 PHE A 168 30.18 -93.40 REMARK 500 PRO A 176 -7.69 -53.76 REMARK 500 HIS A 178 102.83 -38.21 REMARK 500 HIS A 180 -28.27 -160.41 REMARK 500 ALA A 189 135.42 74.74 REMARK 500 LYS A 203 76.36 -101.13 REMARK 500 LEU A 252 8.18 -66.17 REMARK 500 CYS A 254 44.78 -79.41 REMARK 500 ARG A 261 -55.35 -28.60 REMARK 500 ASN A 262 -71.31 -48.55 REMARK 500 TYR A 263 -18.35 -49.29 REMARK 500 HIS A 269 102.34 -42.71 REMARK 500 LEU A 294 50.52 -92.64 REMARK 500 ASP A 318 84.69 -156.86 REMARK 500 PRO A 328 140.46 -39.12 REMARK 500 MET B 13 -35.07 103.77 REMARK 500 VAL B 14 -147.22 38.08 REMARK 500 VAL B 18 152.22 -49.35 REMARK 500 ASP B 20 56.49 -65.58 REMARK 500 SER B 29 -12.54 -147.28 REMARK 500 TYR B 30 139.44 62.86 REMARK 500 TYR B 36 15.94 -148.31 REMARK 500 ALA B 42 -123.66 -107.78 REMARK 500 TYR B 43 103.63 -179.69 REMARK 500 LYS B 48 40.35 35.05 REMARK 500 GLN B 62 107.30 -56.75 REMARK 500 THR B 63 -58.89 141.97 REMARK 500 ASP B 88 123.58 177.01 REMARK 500 ARG B 91 -153.69 -122.37 REMARK 500 MET B 98 94.83 -68.84 REMARK 500 THR B 110 -167.51 -168.61 REMARK 500 THR B 118 -79.87 -102.27 REMARK 500 ASP B 149 41.20 -151.65 REMARK 500 ASP B 167 81.89 56.25 REMARK 500 ASP B 175 71.53 -172.80 REMARK 500 ASP B 177 -124.51 -70.82 REMARK 500 HIS B 178 62.00 -47.04 REMARK 500 HIS B 180 -119.11 -105.92 REMARK 500 REMARK 500 THIS ENTRY HAS 66 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 ARG B 172 0.11 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL DBREF 7XC1 A 1 360 UNP P28482 MK01_HUMAN 1 360 DBREF 7XC1 B 1 360 UNP P28482 MK01_HUMAN 1 360 SEQADV 7XC1 GLY A -7 UNP P28482 EXPRESSION TAG SEQADV 7XC1 ASP A -6 UNP P28482 EXPRESSION TAG SEQADV 7XC1 LEU A -5 UNP P28482 EXPRESSION TAG SEQADV 7XC1 GLY A -4 UNP P28482 EXPRESSION TAG SEQADV 7XC1 SER A -3 UNP P28482 EXPRESSION TAG SEQADV 7XC1 ASP A -2 UNP P28482 EXPRESSION TAG SEQADV 7XC1 GLU A -1 UNP P28482 EXPRESSION TAG SEQADV 7XC1 LEU A 0 UNP P28482 EXPRESSION TAG SEQADV 7XC1 GLY B -7 UNP P28482 EXPRESSION TAG SEQADV 7XC1 ASP B -6 UNP P28482 EXPRESSION TAG SEQADV 7XC1 LEU B -5 UNP P28482 EXPRESSION TAG SEQADV 7XC1 GLY B -4 UNP P28482 EXPRESSION TAG SEQADV 7XC1 SER B -3 UNP P28482 EXPRESSION TAG SEQADV 7XC1 ASP B -2 UNP P28482 EXPRESSION TAG SEQADV 7XC1 GLU B -1 UNP P28482 EXPRESSION TAG SEQADV 7XC1 LEU B 0 UNP P28482 EXPRESSION TAG SEQRES 1 A 368 GLY ASP LEU GLY SER ASP GLU LEU MET ALA ALA ALA ALA SEQRES 2 A 368 ALA ALA GLY ALA GLY PRO GLU MET VAL ARG GLY GLN VAL SEQRES 3 A 368 PHE ASP VAL GLY PRO ARG TYR THR ASN LEU SER TYR ILE SEQRES 4 A 368 GLY GLU GLY ALA TYR GLY MET VAL CYS SER ALA TYR ASP SEQRES 5 A 368 ASN VAL ASN LYS VAL ARG VAL ALA ILE LYS LYS ILE SER SEQRES 6 A 368 PRO PHE GLU HIS GLN THR TYR CYS GLN ARG THR LEU ARG SEQRES 7 A 368 GLU ILE LYS ILE LEU LEU ARG PHE ARG HIS GLU ASN ILE SEQRES 8 A 368 ILE GLY ILE ASN ASP ILE ILE ARG ALA PRO THR ILE GLU SEQRES 9 A 368 GLN MET LYS ASP VAL TYR ILE VAL GLN ASP LEU MET GLU SEQRES 10 A 368 THR ASP LEU TYR LYS LEU LEU LYS THR GLN HIS LEU SER SEQRES 11 A 368 ASN ASP NEP ILE CYS TYR PHE LEU TYR GLN ILE LEU ARG SEQRES 12 A 368 GLY LEU LYS TYR ILE HIS SER ALA ASN VAL LEU HIS ARG SEQRES 13 A 368 ASP LEU LYS PRO SER ASN LEU LEU LEU ASN THR THR CYS SEQRES 14 A 368 ASP LEU LYS ILE CYS ASP PHE GLY LEU ALA ARG VAL ALA SEQRES 15 A 368 ASP PRO ASP HIS ASP HIS THR GLY PHE LEU THR GLU TYR SEQRES 16 A 368 VAL ALA THR ARG TRP TYR ARG ALA PRO GLU ILE MET LEU SEQRES 17 A 368 ASN SER LYS GLY TYR THR LYS SER ILE ASP ILE TRP SER SEQRES 18 A 368 VAL GLY CYS ILE LEU ALA GLU MET LEU SER ASN ARG PRO SEQRES 19 A 368 ILE PHE PRO GLY LYS HIS TYR LEU ASP GLN LEU ASN HIS SEQRES 20 A 368 ILE LEU GLY ILE LEU GLY SER PRO SER GLN GLU ASP LEU SEQRES 21 A 368 ASN CYS ILE ILE ASN LEU LYS ALA ARG ASN TYR LEU LEU SEQRES 22 A 368 SER LEU PRO HIS LYS ASN LYS VAL PRO TRP ASN ARG LEU SEQRES 23 A 368 PHE PRO ASN ALA ASP SER LYS ALA LEU ASP LEU LEU ASP SEQRES 24 A 368 LYS MET LEU THR PHE ASN PRO HIS LYS ARG ILE GLU VAL SEQRES 25 A 368 GLU GLN ALA LEU ALA HIS PRO TYR LEU GLU GLN TYR TYR SEQRES 26 A 368 ASP PRO SER ASP GLU PRO ILE ALA GLU ALA PRO PHE LYS SEQRES 27 A 368 PHE ASP MET GLU LEU ASP ASP LEU PRO LYS GLU LYS LEU SEQRES 28 A 368 LYS GLU LEU ILE PHE GLU GLU THR ALA ARG PHE GLN PRO SEQRES 29 A 368 GLY TYR ARG SER SEQRES 1 B 368 GLY ASP LEU GLY SER ASP GLU LEU MET ALA ALA ALA ALA SEQRES 2 B 368 ALA ALA GLY ALA GLY PRO GLU MET VAL ARG GLY GLN VAL SEQRES 3 B 368 PHE ASP VAL GLY PRO ARG TYR THR ASN LEU SER TYR ILE SEQRES 4 B 368 GLY GLU GLY ALA TYR GLY MET VAL CYS SER ALA TYR ASP SEQRES 5 B 368 ASN VAL ASN LYS VAL ARG VAL ALA ILE LYS LYS ILE SER SEQRES 6 B 368 PRO PHE GLU HIS GLN THR TYR CYS GLN ARG THR LEU ARG SEQRES 7 B 368 GLU ILE LYS ILE LEU LEU ARG PHE ARG HIS GLU ASN ILE SEQRES 8 B 368 ILE GLY ILE ASN ASP ILE ILE ARG ALA PRO THR ILE GLU SEQRES 9 B 368 GLN MET LYS ASP VAL TYR ILE VAL GLN ASP LEU MET GLU SEQRES 10 B 368 THR ASP LEU TYR LYS LEU LEU LYS THR GLN HIS LEU SER SEQRES 11 B 368 ASN ASP NEP ILE CYS TYR PHE LEU TYR GLN ILE LEU ARG SEQRES 12 B 368 GLY LEU LYS TYR ILE HIS SER ALA ASN VAL LEU HIS ARG SEQRES 13 B 368 ASP LEU LYS PRO SER ASN LEU LEU LEU ASN THR THR CYS SEQRES 14 B 368 ASP LEU LYS ILE CYS ASP PHE GLY LEU ALA ARG VAL ALA SEQRES 15 B 368 ASP PRO ASP HIS ASP HIS THR GLY PHE LEU THR GLU TYR SEQRES 16 B 368 VAL ALA THR ARG TRP TYR ARG ALA PRO GLU ILE MET LEU SEQRES 17 B 368 ASN SER LYS GLY TYR THR LYS SER ILE ASP ILE TRP SER SEQRES 18 B 368 VAL GLY CYS ILE LEU ALA GLU MET LEU SER ASN ARG PRO SEQRES 19 B 368 ILE PHE PRO GLY LYS HIS TYR LEU ASP GLN LEU ASN HIS SEQRES 20 B 368 ILE LEU GLY ILE LEU GLY SER PRO SER GLN GLU ASP LEU SEQRES 21 B 368 ASN CYS ILE ILE ASN LEU LYS ALA ARG ASN TYR LEU LEU SEQRES 22 B 368 SER LEU PRO HIS LYS ASN LYS VAL PRO TRP ASN ARG LEU SEQRES 23 B 368 PHE PRO ASN ALA ASP SER LYS ALA LEU ASP LEU LEU ASP SEQRES 24 B 368 LYS MET LEU THR PHE ASN PRO HIS LYS ARG ILE GLU VAL SEQRES 25 B 368 GLU GLN ALA LEU ALA HIS PRO TYR LEU GLU GLN TYR TYR SEQRES 26 B 368 ASP PRO SER ASP GLU PRO ILE ALA GLU ALA PRO PHE LYS SEQRES 27 B 368 PHE ASP MET GLU LEU ASP ASP LEU PRO LYS GLU LYS LEU SEQRES 28 B 368 LYS GLU LEU ILE PHE GLU GLU THR ALA ARG PHE GLN PRO SEQRES 29 B 368 GLY TYR ARG SER MODRES 7XC1 NEP A 125 HIS MODIFIED RESIDUE MODRES 7XC1 NEP B 125 HIS MODIFIED RESIDUE HET NEP A 125 14 HET NEP B 125 14 HET 5ID A 401 33 HET EPE A 402 32 HET GOL A 403 14 HET GOL A 404 14 HET B8Z A 405 46 HET SO4 A 406 5 HET EPE B 401 32 HET 5ID B 402 33 HET GOL B 403 14 HET GOL B 404 14 HETNAM NEP N1-PHOSPHONOHISTIDINE HETNAM 5ID (2R,3R,4S,5R)-2-(4-AMINO-5-IODO-7H-PYRROLO[2,3- HETNAM 2 5ID D]PYRIMIDIN-7-YL)-5-(HYDROXYMETHYL)TETRAHYDROFURAN-3, HETNAM 3 5ID 4-DIOL HETNAM EPE 4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID HETNAM GOL GLYCEROL HETNAM B8Z ~{N}-(5,6-DIMETHOXY-1,3-BENZOTHIAZOL-2-YL)-2-[(4- HETNAM 2 B8Z FLUORANYLPHENOXY)METHYL]-1,3-THIAZOLE-4-CARBOXAMIDE HETNAM SO4 SULFATE ION HETSYN 5ID 5-IODOTUBERCIDIN HETSYN EPE HEPES HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 1 NEP 2(C6 H10 N3 O5 P) FORMUL 3 5ID 2(C11 H13 I N4 O4) FORMUL 4 EPE 2(C8 H18 N2 O4 S) FORMUL 5 GOL 4(C3 H8 O3) FORMUL 7 B8Z C20 H16 F N3 O4 S2 FORMUL 8 SO4 O4 S 2- FORMUL 13 HOH *178(H2 O) HELIX 1 AA1 HIS A 61 PHE A 78 1 18 HELIX 2 AA2 LEU A 112 GLN A 119 1 8 HELIX 3 AA3 SER A 122 ALA A 143 1 22 HELIX 4 AA4 LYS A 151 SER A 153 5 3 HELIX 5 AA5 THR A 190 ARG A 194 5 5 HELIX 6 AA6 ALA A 195 SER A 202 1 8 HELIX 7 AA7 LYS A 207 ASN A 224 1 18 HELIX 8 AA8 HIS A 232 GLY A 245 1 14 HELIX 9 AA9 ALA A 260 SER A 266 1 7 HELIX 10 AB1 PRO A 274 PHE A 279 1 6 HELIX 11 AB2 ASP A 283 LEU A 294 1 12 HELIX 12 AB3 ASN A 297 ARG A 301 5 5 HELIX 13 AB4 GLU A 303 ALA A 309 1 7 HELIX 14 AB5 HIS A 310 GLU A 314 5 5 HELIX 15 AB6 ASP A 318 GLU A 322 5 5 HELIX 16 AB7 PRO A 339 THR A 351 1 13 HELIX 17 AB8 ALA A 352 GLN A 355 5 4 HELIX 18 AB9 ASP B 44 LYS B 48 5 5 HELIX 19 AC1 THR B 63 PHE B 78 1 16 HELIX 20 AC2 LEU B 112 GLN B 119 1 8 HELIX 21 AC3 SER B 122 ALA B 143 1 22 HELIX 22 AC4 LYS B 151 SER B 153 5 3 HELIX 23 AC5 THR B 190 ARG B 194 5 5 HELIX 24 AC6 LYS B 207 ASN B 224 1 18 HELIX 25 AC7 HIS B 232 LEU B 244 1 13 HELIX 26 AC8 GLU B 250 CYS B 254 5 5 HELIX 27 AC9 ASN B 257 SER B 266 1 10 HELIX 28 AD1 PRO B 274 PHE B 279 1 6 HELIX 29 AD2 ASP B 283 LEU B 294 1 12 HELIX 30 AD3 ASN B 297 ARG B 301 5 5 HELIX 31 AD4 GLU B 303 ALA B 309 1 7 HELIX 32 AD5 HIS B 310 GLU B 314 5 5 HELIX 33 AD6 ASP B 318 GLU B 322 5 5 HELIX 34 AD7 PRO B 339 THR B 351 1 13 HELIX 35 AD8 ALA B 352 GLN B 355 5 4 SHEET 1 AA1 5 TYR A 25 GLU A 33 0 SHEET 2 AA1 5 MET A 38 ASP A 44 -1 O TYR A 43 N THR A 26 SHEET 3 AA1 5 VAL A 49 ILE A 56 -1 O VAL A 49 N ASP A 44 SHEET 4 AA1 5 VAL A 101 ASP A 106 -1 O VAL A 101 N ILE A 56 SHEET 5 AA1 5 ASP A 88 ILE A 90 -1 N ASP A 88 O VAL A 104 SHEET 1 AA2 3 THR A 110 ASP A 111 0 SHEET 2 AA2 3 LEU A 155 THR A 159 -1 O LEU A 157 N THR A 110 SHEET 3 AA2 3 ASP A 162 ILE A 165 -1 O LYS A 164 N LEU A 156 SHEET 1 AA3 2 VAL A 145 LEU A 146 0 SHEET 2 AA3 2 ARG A 172 VAL A 173 -1 O ARG A 172 N LEU A 146 SHEET 1 AA4 4 GLY B 37 SER B 41 0 SHEET 2 AA4 4 ALA B 52 ILE B 56 -1 O LYS B 55 N MET B 38 SHEET 3 AA4 4 VAL B 101 GLN B 105 -1 O ILE B 103 N LYS B 54 SHEET 4 AA4 4 ASP B 88 ILE B 90 -1 N ASP B 88 O VAL B 104 SHEET 1 AA5 3 THR B 110 ASP B 111 0 SHEET 2 AA5 3 LEU B 155 THR B 159 -1 O LEU B 157 N THR B 110 SHEET 3 AA5 3 ASP B 162 ILE B 165 -1 O LYS B 164 N LEU B 156 SHEET 1 AA6 2 VAL B 145 LEU B 146 0 SHEET 2 AA6 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 1.32 LINK C NEP A 125 N ILE A 126 1555 1555 1.33 LINK C ASP B 124 N NEP B 125 1555 1555 1.32 LINK C NEP B 125 N ILE B 126 1555 1555 1.33 CISPEP 1 GLY A 22 PRO A 23 0 9.97 CRYST1 82.653 82.653 275.074 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 0.012099 0.000000 0.000000 0.00000 SCALE2 0.000000 0.012099 0.000000 0.00000 SCALE3 0.000000 0.000000 0.003635 0.00000