HEADER LIGASE 21-AUG-19 6KR7 TITLE CRYSTAL STRUCTURE OF METHYLATED HUMAN LEUCYL-TRNA SYNTHETASE, LEU-AMS- TITLE 2 BOUND FORM COMPND MOL_ID: 1; COMPND 2 MOLECULE: LEUCINE--TRNA LIGASE, CYTOPLASMIC; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: LEUCYL-TRNA SYNTHETASE,LEURS; COMPND 5 EC: 6.1.1.4; COMPND 6 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: LARS, KIAA1352; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS LEUCYL-TRNA SYNTHETASE, LEU-AMS-BOUND STRUCTURE, LIGASE EXPDTA X-RAY DIFFRACTION AUTHOR S.KIM,J.SON,S.KIM,K.Y.HWANG REVDAT 3 22-NOV-23 6KR7 1 REMARK REVDAT 2 11-AUG-21 6KR7 1 JRNL REVDAT 1 27-JAN-21 6KR7 0 JRNL AUTH S.KIM,I.YOON,J.SON,J.PARK,K.KIM,J.H.LEE,S.Y.PARK,B.S.KANG, JRNL AUTH 2 J.M.HAN,K.Y.HWANG,S.KIM JRNL TITL LEUCINE-SENSING MECHANISM OF LEUCYL-TRNA SYNTHETASE 1 FOR JRNL TITL 2 MTORC1 ACTIVATION. JRNL REF CELL REP V. 35 09031 2021 JRNL REFN ESSN 2211-1247 JRNL PMID 33910001 JRNL DOI 10.1016/J.CELREP.2021.109031 REMARK 2 REMARK 2 RESOLUTION. 4.00 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.15.2_3472 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) : 4.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 49.88 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.460 REMARK 3 COMPLETENESS FOR RANGE (%) : 95.6 REMARK 3 NUMBER OF REFLECTIONS : 20470 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.237 REMARK 3 R VALUE (WORKING SET) : 0.232 REMARK 3 FREE R VALUE : 0.278 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 9.710 REMARK 3 FREE R VALUE TEST SET COUNT : 1988 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 49.8770 - 9.6192 0.99 1551 167 0.2012 0.2345 REMARK 3 2 9.6192 - 7.6439 0.98 1402 151 0.1826 0.2221 REMARK 3 3 7.6439 - 6.6802 0.97 1389 149 0.2159 0.2589 REMARK 3 4 6.6802 - 6.0706 0.97 1346 144 0.2470 0.2964 REMARK 3 5 6.0706 - 5.6361 0.96 1313 142 0.2374 0.3145 REMARK 3 6 5.6361 - 5.3042 0.97 1321 143 0.2473 0.2933 REMARK 3 7 5.3042 - 5.0388 0.96 1303 140 0.2341 0.2976 REMARK 3 8 5.0388 - 4.8197 0.95 1299 139 0.2487 0.2637 REMARK 3 9 4.8197 - 4.6343 0.93 1270 137 0.2446 0.3245 REMARK 3 10 4.6343 - 4.4745 0.94 1266 136 0.2581 0.2899 REMARK 3 11 4.4745 - 4.3346 0.94 1268 137 0.2785 0.3491 REMARK 3 12 4.3346 - 4.2108 0.94 1265 135 0.2884 0.3270 REMARK 3 13 4.2108 - 4.1000 0.92 1234 133 0.2959 0.3739 REMARK 3 14 4.1000 - 4.0000 0.94 1255 135 0.3076 0.3401 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) : 0.570 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 26.260 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 152.4 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 : NULL NULL REMARK 3 ANGLE : NULL NULL REMARK 3 CHIRALITY : NULL NULL REMARK 3 PLANARITY : NULL NULL REMARK 3 DIHEDRAL : NULL NULL 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 6KR7 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 28-AUG-19. REMARK 100 THE DEPOSITION ID IS D_1300013503. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 09-OCT-16 REMARK 200 TEMPERATURE (KELVIN) : 273 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : PAL/PLS REMARK 200 BEAMLINE : 5C (4A) REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0000 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MAR CCD 130 MM REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 20622 REMARK 200 RESOLUTION RANGE HIGH (A) : 4.000 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 95.3 REMARK 200 DATA REDUNDANCY : 7.100 REMARK 200 R MERGE (I) : 0.10600 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 6.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 4.00 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 4.07 REMARK 200 COMPLETENESS FOR SHELL (%) : 93.9 REMARK 200 DATA REDUNDANCY IN SHELL : 4.00 REMARK 200 R MERGE FOR SHELL (I) : 0.30800 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: PHENIX REMARK 200 STARTING MODEL: 1WZ2 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 76.07 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 4.34 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M HEPES (PH 7.1), 0.42 M AMMONIUM REMARK 280 SULFATE, 24 % PEG3350, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 65 2 2 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 7555 Y,X,-Z+2/3 REMARK 290 8555 X-Y,-Y,-Z REMARK 290 9555 -X,-X+Y,-Z+1/3 REMARK 290 10555 -Y,-X,-Z+1/6 REMARK 290 11555 -X+Y,Y,-Z+1/2 REMARK 290 12555 X,X-Y,-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 291.51067 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 145.75533 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 218.63300 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 72.87767 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 364.38833 REMARK 290 SMTRY1 7 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 7 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 291.51067 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 9 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 9 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 9 0.000000 0.000000 -1.000000 145.75533 REMARK 290 SMTRY1 10 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 10 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 10 0.000000 0.000000 -1.000000 72.87767 REMARK 290 SMTRY1 11 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 11 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 218.63300 REMARK 290 SMTRY1 12 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 12 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 12 0.000000 0.000000 -1.000000 364.38833 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 TOTAL BURIED SURFACE AREA: 130 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 45200 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -3.0 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 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 -11 REMARK 465 ARG A -10 REMARK 465 GLY A -9 REMARK 465 SER A -8 REMARK 465 HIS A -7 REMARK 465 HIS A -6 REMARK 465 HIS A -5 REMARK 465 HIS A -4 REMARK 465 HIS A -3 REMARK 465 HIS A -2 REMARK 465 GLY A -1 REMARK 465 SER A 0 REMARK 465 MET A 1 REMARK 465 ALA A 2 REMARK 465 GLU A 3 REMARK 465 ARG A 4 REMARK 465 LYS A 5 REMARK 465 GLY A 6 REMARK 465 ASP A 119 REMARK 465 GLU A 120 REMARK 465 GLU A 121 REMARK 465 GLU A 122 REMARK 465 GLU A 123 REMARK 465 GLU A 124 REMARK 465 GLU A 125 REMARK 465 GLU A 126 REMARK 465 THR A 127 REMARK 465 SER A 128 REMARK 465 VAL A 129 REMARK 465 LYS A 130 REMARK 465 THR A 131 REMARK 465 GLU A 132 REMARK 465 ASP A 133 REMARK 465 ILE A 134 REMARK 465 ILE A 135 REMARK 465 ILE A 136 REMARK 465 LYS A 137 REMARK 465 ASP A 138 REMARK 465 LYS A 139 REMARK 465 ALA A 140 REMARK 465 LYS A 141 REMARK 465 GLY A 142 REMARK 465 LYS A 143 REMARK 465 LYS A 144 REMARK 465 SER A 145 REMARK 465 LYS A 146 REMARK 465 ALA A 147 REMARK 465 ALA A 148 REMARK 465 ALA A 149 REMARK 465 LYS A 150 REMARK 465 ALA A 151 REMARK 465 GLY A 152 REMARK 465 SER A 153 REMARK 465 SER A 154 REMARK 465 LYS A 155 REMARK 465 MET A 917 REMARK 465 MET A 918 REMARK 465 PRO A 919 REMARK 465 ALA A 920 REMARK 465 LYS A 921 REMARK 465 GLY A 922 REMARK 465 LYS A 923 REMARK 465 LYS A 924 REMARK 465 THR A 925 REMARK 465 ASP A 926 REMARK 465 LYS A 927 REMARK 465 GLN A 928 REMARK 465 PRO A 929 REMARK 465 LEU A 930 REMARK 465 GLN A 931 REMARK 465 LYS A 932 REMARK 465 ARG A 1062 REMARK 465 ILE A 1063 REMARK 465 GLU A 1064 REMARK 465 PRO A 1065 REMARK 465 GLY A 1066 REMARK 465 VAL A 1067 REMARK 465 SER A 1068 REMARK 465 VAL A 1069 REMARK 465 SER A 1070 REMARK 465 LEU A 1071 REMARK 465 VAL A 1072 REMARK 465 ASN A 1073 REMARK 465 PRO A 1074 REMARK 465 GLN A 1075 REMARK 465 PRO A 1076 REMARK 465 SER A 1077 REMARK 465 ASN A 1078 REMARK 465 GLY A 1079 REMARK 465 HIS A 1080 REMARK 465 PHE A 1081 REMARK 465 SER A 1082 REMARK 465 THR A 1083 REMARK 465 LYS A 1084 REMARK 465 ILE A 1085 REMARK 465 GLU A 1086 REMARK 465 ILE A 1087 REMARK 465 ARG A 1088 REMARK 465 GLN A 1089 REMARK 465 GLY A 1090 REMARK 465 ASP A 1091 REMARK 465 ASN A 1092 REMARK 465 CYS A 1093 REMARK 465 ASP A 1094 REMARK 465 SER A 1095 REMARK 465 ILE A 1096 REMARK 465 ILE A 1097 REMARK 465 ARG A 1098 REMARK 465 ARG A 1099 REMARK 465 LEU A 1100 REMARK 465 MET A 1101 REMARK 465 LYS A 1102 REMARK 465 MET A 1103 REMARK 465 ASN A 1104 REMARK 465 ARG A 1105 REMARK 465 GLY A 1106 REMARK 465 ILE A 1107 REMARK 465 LYS A 1108 REMARK 465 ASP A 1109 REMARK 465 LEU A 1110 REMARK 465 SER A 1111 REMARK 465 LYS A 1112 REMARK 465 VAL A 1113 REMARK 465 LYS A 1114 REMARK 465 LEU A 1115 REMARK 465 MET A 1116 REMARK 465 ARG A 1117 REMARK 465 PHE A 1118 REMARK 465 ASP A 1119 REMARK 465 ASP A 1120 REMARK 465 PRO A 1121 REMARK 465 LEU A 1122 REMARK 465 LEU A 1123 REMARK 465 GLY A 1124 REMARK 465 PRO A 1125 REMARK 465 ARG A 1126 REMARK 465 ARG A 1127 REMARK 465 VAL A 1128 REMARK 465 PRO A 1129 REMARK 465 VAL A 1130 REMARK 465 LEU A 1131 REMARK 465 GLY A 1132 REMARK 465 LYS A 1133 REMARK 465 GLU A 1134 REMARK 465 TYR A 1135 REMARK 465 THR A 1136 REMARK 465 GLU A 1137 REMARK 465 LYS A 1138 REMARK 465 THR A 1139 REMARK 465 PRO A 1140 REMARK 465 ILE A 1141 REMARK 465 SER A 1142 REMARK 465 GLU A 1143 REMARK 465 HIS A 1144 REMARK 465 ALA A 1145 REMARK 465 VAL A 1146 REMARK 465 PHE A 1147 REMARK 465 ASN A 1148 REMARK 465 VAL A 1149 REMARK 465 ASP A 1150 REMARK 465 LEU A 1151 REMARK 465 MET A 1152 REMARK 465 SER A 1153 REMARK 465 LYS A 1154 REMARK 465 LYS A 1155 REMARK 465 ILE A 1156 REMARK 465 HIS A 1157 REMARK 465 LEU A 1158 REMARK 465 THR A 1159 REMARK 465 GLU A 1160 REMARK 465 ASN A 1161 REMARK 465 GLY A 1162 REMARK 465 ILE A 1163 REMARK 465 ARG A 1164 REMARK 465 VAL A 1165 REMARK 465 ASP A 1166 REMARK 465 ILE A 1167 REMARK 465 GLY A 1168 REMARK 465 ASP A 1169 REMARK 465 THR A 1170 REMARK 465 ILE A 1171 REMARK 465 ILE A 1172 REMARK 465 TYR A 1173 REMARK 465 LEU A 1174 REMARK 465 VAL A 1175 REMARK 465 HIS A 1176 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 NZ LYS A 312 O HOH A 1501 2.01 REMARK 500 OD2 ASP A 102 OH TYR A 577 2.11 REMARK 500 O SER A 453 N ASP A 456 2.18 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 GLU A 257 0.58 -65.44 REMARK 500 LEU A 366 -6.04 72.56 REMARK 500 VAL A 392 77.22 -112.10 REMARK 500 LYS A 415 -8.60 -57.58 REMARK 500 TYR A 416 21.99 -143.56 REMARK 500 VAL A 423 -52.90 -127.10 REMARK 500 TRP A 693 76.82 -117.98 REMARK 500 SER A 735 75.19 57.23 REMARK 500 ALA A 736 -40.88 -28.37 REMARK 500 CYS A 863 74.22 -119.26 REMARK 500 ALA A1041 -2.39 65.61 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 LEU A 1401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue LSS A 1402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PO4 A 1403 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 6KIE RELATED DB: PDB DBREF 6KR7 A 1 1176 UNP Q9P2J5 SYLC_HUMAN 1 1176 SEQADV 6KR7 MET A -11 UNP Q9P2J5 INITIATING METHIONINE SEQADV 6KR7 ARG A -10 UNP Q9P2J5 EXPRESSION TAG SEQADV 6KR7 GLY A -9 UNP Q9P2J5 EXPRESSION TAG SEQADV 6KR7 SER A -8 UNP Q9P2J5 EXPRESSION TAG SEQADV 6KR7 HIS A -7 UNP Q9P2J5 EXPRESSION TAG SEQADV 6KR7 HIS A -6 UNP Q9P2J5 EXPRESSION TAG SEQADV 6KR7 HIS A -5 UNP Q9P2J5 EXPRESSION TAG SEQADV 6KR7 HIS A -4 UNP Q9P2J5 EXPRESSION TAG SEQADV 6KR7 HIS A -3 UNP Q9P2J5 EXPRESSION TAG SEQADV 6KR7 HIS A -2 UNP Q9P2J5 EXPRESSION TAG SEQADV 6KR7 GLY A -1 UNP Q9P2J5 EXPRESSION TAG SEQADV 6KR7 SER A 0 UNP Q9P2J5 EXPRESSION TAG SEQRES 1 A 1188 MET ARG GLY SER HIS HIS HIS HIS HIS HIS GLY SER MET SEQRES 2 A 1188 ALA GLU ARG LYS GLY THR ALA LYS VAL ASP PHE LEU LYS SEQRES 3 A 1188 LYS ILE GLU LYS GLU ILE GLN GLN LYS TRP ASP THR GLU SEQRES 4 A 1188 ARG VAL PHE GLU VAL ASN ALA SER ASN LEU GLU LYS GLN SEQRES 5 A 1188 THR SER LYS GLY LYS TYR PHE VAL THR PHE PRO TYR PRO SEQRES 6 A 1188 TYR MET ASN GLY ARG LEU HIS LEU GLY HIS THR PHE SER SEQRES 7 A 1188 LEU SER LYS CYS GLU PHE ALA VAL GLY TYR GLN ARG LEU SEQRES 8 A 1188 LYS GLY LYS CYS CYS LEU PHE PRO PHE GLY LEU HIS CYS SEQRES 9 A 1188 THR GLY MET PRO ILE LYS ALA CYS ALA ASP LYS LEU LYS SEQRES 10 A 1188 ARG GLU ILE GLU LEU TYR GLY CYS PRO PRO ASP PHE PRO SEQRES 11 A 1188 ASP GLU GLU GLU GLU GLU GLU GLU THR SER VAL LYS THR SEQRES 12 A 1188 GLU ASP ILE ILE ILE LYS ASP LYS ALA LYS GLY LYS LYS SEQRES 13 A 1188 SER LYS ALA ALA ALA LYS ALA GLY SER SER LYS TYR GLN SEQRES 14 A 1188 TRP GLY ILE MET LYS SER LEU GLY LEU SER ASP GLU GLU SEQRES 15 A 1188 ILE VAL LYS PHE SER GLU ALA GLU HIS TRP LEU ASP TYR SEQRES 16 A 1188 PHE PRO PRO LEU ALA ILE GLN ASP LEU LYS ARG MET GLY SEQRES 17 A 1188 LEU LYS VAL ASP TRP ARG ARG SER PHE ILE THR THR ASP SEQRES 18 A 1188 VAL ASN PRO TYR TYR ASP SER PHE VAL ARG TRP GLN PHE SEQRES 19 A 1188 LEU THR LEU ARG GLU ARG ASN LYS ILE LYS PHE GLY LYS SEQRES 20 A 1188 ARG TYR THR ILE TYR SER PRO LYS ASP GLY GLN PRO CYS SEQRES 21 A 1188 MET ASP HIS ASP ARG GLN THR GLY GLU GLY VAL GLY PRO SEQRES 22 A 1188 GLN GLU TYR THR LEU LEU LYS LEU LYS VAL LEU GLU PRO SEQRES 23 A 1188 TYR PRO SER LYS LEU SER GLY LEU LYS GLY LYS ASN ILE SEQRES 24 A 1188 PHE LEU VAL ALA ALA THR LEU ARG PRO GLU THR MET PHE SEQRES 25 A 1188 GLY GLN THR ASN CYS TRP VAL ARG PRO ASP MET LYS TYR SEQRES 26 A 1188 ILE GLY PHE GLU THR VAL ASN GLY ASP ILE PHE ILE CYS SEQRES 27 A 1188 THR GLN LYS ALA ALA ARG ASN MET SER TYR GLN GLY PHE SEQRES 28 A 1188 THR LYS ASP ASN GLY VAL VAL PRO VAL VAL LYS GLU LEU SEQRES 29 A 1188 MET GLY GLU GLU ILE LEU GLY ALA SER LEU SER ALA PRO SEQRES 30 A 1188 LEU THR SER TYR LYS VAL ILE TYR VAL LEU PRO MET LEU SEQRES 31 A 1188 THR ILE LYS GLU ASP LYS GLY THR GLY VAL VAL THR SER SEQRES 32 A 1188 VAL PRO SER ASP SER PRO ASP ASP ILE ALA ALA LEU ARG SEQRES 33 A 1188 ASP LEU LYS LYS LYS GLN ALA LEU ARG ALA LYS TYR GLY SEQRES 34 A 1188 ILE ARG ASP ASP MET VAL LEU PRO PHE GLU PRO VAL PRO SEQRES 35 A 1188 VAL ILE GLU ILE PRO GLY PHE GLY ASN LEU SER ALA VAL SEQRES 36 A 1188 THR ILE CYS ASP GLU LEU LYS ILE GLN SER GLN ASN ASP SEQRES 37 A 1188 ARG GLU LYS LEU ALA GLU ALA LYS GLU LYS ILE TYR LEU SEQRES 38 A 1188 LYS GLY PHE TYR GLU GLY ILE MET LEU VAL ASP GLY PHE SEQRES 39 A 1188 LYS GLY GLN LYS VAL GLN ASP VAL LYS LYS THR ILE GLN SEQRES 40 A 1188 LYS LYS MET ILE ASP ALA GLY ASP ALA LEU ILE TYR MET SEQRES 41 A 1188 GLU PRO GLU LYS GLN VAL MET SER ARG SER SER ASP GLU SEQRES 42 A 1188 CYS VAL VAL ALA LEU CYS ASP GLN TRP TYR LEU ASP TYR SEQRES 43 A 1188 GLY GLU GLU ASN TRP LYS LYS GLN THR SER GLN CYS LEU SEQRES 44 A 1188 LYS ASN LEU GLU THR PHE CYS GLU GLU THR ARG ARG ASN SEQRES 45 A 1188 PHE GLU ALA THR LEU GLY TRP LEU GLN GLU HIS ALA CYS SEQRES 46 A 1188 SER ARG THR TYR GLY LEU GLY THR HIS LEU PRO TRP ASP SEQRES 47 A 1188 GLU GLN TRP LEU ILE GLU SER LEU SER ASP SER THR ILE SEQRES 48 A 1188 TYR MET ALA PHE TYR THR VAL ALA HIS LEU LEU GLN GLY SEQRES 49 A 1188 GLY ASN LEU HIS GLY GLN ALA GLU SER PRO LEU GLY ILE SEQRES 50 A 1188 ARG PRO GLN GLN MET THR LYS GLU VAL TRP ASP TYR VAL SEQRES 51 A 1188 PHE PHE LYS GLU ALA PRO PHE PRO LYS THR GLN ILE ALA SEQRES 52 A 1188 LYS GLU LYS LEU ASP GLN LEU LYS GLN GLU PHE GLU PHE SEQRES 53 A 1188 TRP TYR PRO VAL ASP LEU ARG VAL SER GLY LYS ASP LEU SEQRES 54 A 1188 VAL PRO ASN HIS LEU SER TYR TYR LEU TYR ASN HIS VAL SEQRES 55 A 1188 ALA MET TRP PRO GLU GLN SER ASP LYS TRP PRO THR ALA SEQRES 56 A 1188 VAL ARG ALA ASN GLY HIS LEU LEU LEU ASN SER GLU LYS SEQRES 57 A 1188 MET SER LYS SER THR GLY ASN PHE LEU THR LEU THR GLN SEQRES 58 A 1188 ALA ILE ASP LYS PHE SER ALA ASP GLY MET ARG LEU ALA SEQRES 59 A 1188 LEU ALA ASP ALA GLY ASP THR VAL GLU ASP ALA ASN PHE SEQRES 60 A 1188 VAL GLU ALA MET ALA ASP ALA GLY ILE LEU ARG LEU TYR SEQRES 61 A 1188 THR TRP VAL GLU TRP VAL LYS GLU MET VAL ALA ASN TRP SEQRES 62 A 1188 ASP SER LEU ARG SER GLY PRO ALA SER THR PHE ASN ASP SEQRES 63 A 1188 ARG VAL PHE ALA SER GLU LEU ASN ALA GLY ILE ILE LYS SEQRES 64 A 1188 THR ASP GLN ASN TYR GLU LYS MET MET PHE LYS GLU ALA SEQRES 65 A 1188 LEU LYS THR GLY PHE PHE GLU PHE GLN ALA ALA LYS ASP SEQRES 66 A 1188 LYS TYR ARG GLU LEU ALA VAL GLU GLY MET HIS ARG GLU SEQRES 67 A 1188 LEU VAL PHE ARG PHE ILE GLU VAL GLN THR LEU LEU LEU SEQRES 68 A 1188 ALA PRO PHE CYS PRO HIS LEU CYS GLU HIS ILE TRP THR SEQRES 69 A 1188 LEU LEU GLY LYS PRO ASP SER ILE MET ASN ALA SER TRP SEQRES 70 A 1188 PRO VAL ALA GLY PRO VAL ASN GLU VAL LEU ILE HIS SER SEQRES 71 A 1188 SER GLN TYR LEU MET GLU VAL THR HIS ASP LEU ARG LEU SEQRES 72 A 1188 ARG LEU LYS ASN TYR MET MET PRO ALA LYS GLY LYS LYS SEQRES 73 A 1188 THR ASP LYS GLN PRO LEU GLN LYS PRO SER HIS CYS THR SEQRES 74 A 1188 ILE TYR VAL ALA LYS ASN TYR PRO PRO TRP GLN HIS THR SEQRES 75 A 1188 THR LEU SER VAL LEU ARG LYS HIS PHE GLU ALA ASN ASN SEQRES 76 A 1188 GLY LYS LEU PRO ASP ASN LYS VAL ILE ALA SER GLU LEU SEQRES 77 A 1188 GLY SER MET PRO GLU LEU LYS LYS TYR MET LYS LYS VAL SEQRES 78 A 1188 MET PRO PHE VAL ALA MET ILE LYS GLU ASN LEU GLU LYS SEQRES 79 A 1188 MET GLY PRO ARG ILE LEU ASP LEU GLN LEU GLU PHE ASP SEQRES 80 A 1188 GLU LYS ALA VAL LEU MET GLU ASN ILE VAL TYR LEU THR SEQRES 81 A 1188 ASN SER LEU GLU LEU GLU HIS ILE GLU VAL LYS PHE ALA SEQRES 82 A 1188 SER GLU ALA GLU ASP LYS ILE ARG GLU ASP CYS CYS PRO SEQRES 83 A 1188 GLY LYS PRO LEU ASN VAL PHE ARG ILE GLU PRO GLY VAL SEQRES 84 A 1188 SER VAL SER LEU VAL ASN PRO GLN PRO SER ASN GLY HIS SEQRES 85 A 1188 PHE SER THR LYS ILE GLU ILE ARG GLN GLY ASP ASN CYS SEQRES 86 A 1188 ASP SER ILE ILE ARG ARG LEU MET LYS MET ASN ARG GLY SEQRES 87 A 1188 ILE LYS ASP LEU SER LYS VAL LYS LEU MET ARG PHE ASP SEQRES 88 A 1188 ASP PRO LEU LEU GLY PRO ARG ARG VAL PRO VAL LEU GLY SEQRES 89 A 1188 LYS GLU TYR THR GLU LYS THR PRO ILE SER GLU HIS ALA SEQRES 90 A 1188 VAL PHE ASN VAL ASP LEU MET SER LYS LYS ILE HIS LEU SEQRES 91 A 1188 THR GLU ASN GLY ILE ARG VAL ASP ILE GLY ASP THR ILE SEQRES 92 A 1188 ILE TYR LEU VAL HIS HET LEU A1401 9 HET LSS A1402 31 HET PO4 A1403 5 HETNAM LEU LEUCINE HETNAM LSS 5'-O-(L-LEUCYLSULFAMOYL)ADENOSINE HETNAM PO4 PHOSPHATE ION HETSYN LSS 5-O-N-LEUCYL-SULFAMOYLADENOSINE FORMUL 2 LEU C6 H13 N O2 FORMUL 3 LSS C16 H25 N7 O7 S FORMUL 4 PO4 O4 P 3- FORMUL 5 HOH *2(H2 O) HELIX 1 AA1 THR A 7 ARG A 28 1 22 HELIX 2 AA2 ASN A 33 GLU A 38 1 6 HELIX 3 AA3 HIS A 60 ARG A 78 1 19 HELIX 4 AA4 MET A 95 LEU A 110 1 16 HELIX 5 AA5 GLN A 157 GLY A 165 1 9 HELIX 6 AA6 SER A 167 SER A 175 5 9 HELIX 7 AA7 GLU A 176 GLY A 196 1 21 HELIX 8 AA8 ASP A 200 SER A 204 5 5 HELIX 9 AA9 ASN A 211 ARG A 228 1 18 HELIX 10 AB1 MET A 249 ARG A 253 5 5 HELIX 11 AB2 PRO A 276 LYS A 283 5 8 HELIX 12 AB3 ARG A 295 GLN A 302 5 8 HELIX 13 AB4 THR A 327 GLN A 337 1 11 HELIX 14 AB5 GLU A 355 LEU A 358 5 4 HELIX 15 AB6 SER A 396 LYS A 409 1 14 HELIX 16 AB7 LYS A 409 LYS A 415 1 7 HELIX 17 AB8 ARG A 419 VAL A 423 5 5 HELIX 18 AB9 LEU A 440 LEU A 449 1 10 HELIX 19 AC1 ASP A 456 ILE A 467 1 12 HELIX 20 AC2 LYS A 486 ASP A 489 5 4 HELIX 21 AC3 VAL A 490 ALA A 501 1 12 HELIX 22 AC4 GLU A 536 LEU A 550 1 15 HELIX 23 AC5 CYS A 554 LEU A 568 1 15 HELIX 24 AC6 TYR A 600 GLN A 611 1 12 HELIX 25 AC7 ARG A 626 MET A 630 5 5 HELIX 26 AC8 THR A 631 PHE A 640 1 10 HELIX 27 AC9 ALA A 651 TYR A 666 1 16 HELIX 28 AD1 ASP A 676 VAL A 678 5 3 HELIX 29 AD2 ASN A 680 TRP A 693 1 14 HELIX 30 AD3 GLN A 696 TRP A 700 5 5 HELIX 31 AD4 THR A 726 SER A 735 1 10 HELIX 32 AD5 ALA A 736 GLY A 747 1 12 HELIX 33 AD6 VAL A 756 ASN A 780 1 25 HELIX 34 AD7 TRP A 781 LEU A 784 5 4 HELIX 35 AD8 THR A 791 LYS A 814 1 24 HELIX 36 AD9 MET A 816 PHE A 825 1 10 HELIX 37 AE1 PHE A 825 ALA A 839 1 15 HELIX 38 AE2 HIS A 844 ALA A 860 1 17 HELIX 39 AE3 CYS A 863 LEU A 874 1 12 HELIX 40 AE4 SER A 879 ALA A 883 5 5 HELIX 41 AE5 ASN A 892 LEU A 913 1 22 HELIX 42 AE6 PRO A 945 ASN A 962 1 18 HELIX 43 AE7 ASP A 968 GLY A 977 1 10 HELIX 44 AE8 MET A 979 LYS A 984 5 6 HELIX 45 AE9 TYR A 985 MET A 1003 1 19 HELIX 46 AF1 GLY A 1004 ASP A 1009 5 6 HELIX 47 AF2 ASP A 1015 GLU A 1022 1 8 HELIX 48 AF3 ASN A 1023 LEU A 1031 1 9 HELIX 49 AF4 GLU A 1045 CYS A 1052 1 8 SHEET 1 AA1 5 CYS A 83 LEU A 85 0 SHEET 2 AA1 5 LYS A 45 THR A 49 1 N VAL A 48 O LEU A 85 SHEET 3 AA1 5 LEU A 670 GLY A 674 1 O LEU A 670 N PHE A 47 SHEET 4 AA1 5 ALA A 703 ASN A 707 1 O ARG A 705 N ARG A 671 SHEET 5 AA1 5 GLU A 551 THR A 552 1 N GLU A 551 O VAL A 704 SHEET 1 AA2 4 GLN A 246 PRO A 247 0 SHEET 2 AA2 4 ILE A 231 SER A 241 -1 N SER A 241 O GLN A 246 SHEET 3 AA2 4 VAL A 523 LEU A 532 -1 O TYR A 531 N LYS A 232 SHEET 4 AA2 4 HIS A 571 ALA A 572 -1 O HIS A 571 N LEU A 532 SHEET 1 AA3 9 VAL A 348 MET A 353 0 SHEET 2 AA3 9 LYS A 312 GLU A 317 -1 N GLY A 315 O LYS A 350 SHEET 3 AA3 9 ILE A 323 CYS A 326 -1 O CYS A 326 N ILE A 314 SHEET 4 AA3 9 ILE A 287 THR A 293 1 N PHE A 288 O ILE A 323 SHEET 5 AA3 9 PRO A 261 VAL A 271 -1 N LEU A 269 O LEU A 289 SHEET 6 AA3 9 SER A 361 SER A 363 -1 O SER A 363 N LYS A 270 SHEET 7 AA3 9 ILE A 372 PRO A 376 -1 O ILE A 372 N LEU A 362 SHEET 8 AA3 9 ASN A 304 VAL A 307 1 N CYS A 305 O LEU A 375 SHEET 9 AA3 9 VAL A 388 THR A 390 -1 O VAL A 389 N TRP A 306 SHEET 1 AA4 6 VAL A 348 MET A 353 0 SHEET 2 AA4 6 LYS A 312 GLU A 317 -1 N GLY A 315 O LYS A 350 SHEET 3 AA4 6 ILE A 323 CYS A 326 -1 O CYS A 326 N ILE A 314 SHEET 4 AA4 6 ILE A 287 THR A 293 1 N PHE A 288 O ILE A 323 SHEET 5 AA4 6 PRO A 261 VAL A 271 -1 N LEU A 269 O LEU A 289 SHEET 6 AA4 6 ALA A 504 PRO A 510 -1 O LEU A 505 N LEU A 266 SHEET 1 AA5 2 ILE A 432 GLU A 433 0 SHEET 2 AA5 2 ILE A 476 MET A 477 -1 O ILE A 476 N GLU A 433 SHEET 1 AA6 2 SER A 574 ARG A 575 0 SHEET 2 AA6 2 LEU A 590 ILE A 591 -1 O LEU A 590 N ARG A 575 SHEET 1 AA7 3 GLU A 715 LYS A 716 0 SHEET 2 AA7 3 LEU A 710 LEU A 712 -1 N LEU A 712 O GLU A 715 SHEET 3 AA7 3 ALA A 753 PHE A 755 1 O PHE A 755 N LEU A 711 SHEET 1 AA8 3 HIS A1035 LYS A1039 0 SHEET 2 AA8 3 HIS A 935 TYR A 939 1 N ILE A 938 O LYS A1039 SHEET 3 AA8 3 LEU A1058 VAL A1060 -1 O LEU A1058 N TYR A 939 CISPEP 1 CYS A 113 PRO A 114 0 3.77 CISPEP 2 PHE A 117 PRO A 118 0 -2.52 CISPEP 3 GLU A 273 PRO A 274 0 5.64 CISPEP 4 TYR A 666 PRO A 667 0 1.58 SITE 1 AC1 4 LEU A 294 VAL A 389 THR A 390 SER A 396 SITE 1 AC2 18 PRO A 51 TYR A 52 PRO A 53 TYR A 54 SITE 2 AC2 18 HIS A 60 GLY A 62 HIS A 63 SER A 66 SITE 3 AC2 18 HIS A 91 HIS A 251 SER A 597 SER A 673 SITE 4 AC2 18 GLY A 674 ASP A 676 LEU A 677 HIS A 681 SITE 5 AC2 18 HIS A 709 LEU A 710 SITE 1 AC3 2 ASN A 56 ARG A 517 CRYST1 136.818 136.818 437.266 90.00 90.00 120.00 P 65 2 2 12 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 0.007309 0.004220 0.000000 0.00000 SCALE2 0.000000 0.008440 0.000000 0.00000 SCALE3 0.000000 0.000000 0.002287 0.00000