HEADER HYDROLASE 27-JUL-23 8K7X TITLE CRYSTAL STRUCTURE OF GH146 BETA-L-ARABINOFURANOSIDASE BLL3HYPBA1 TITLE 2 (AMINO ACIDS 380-1223) IN COMPLEX WITH TRIS COMPND MOL_ID: 1; COMPND 2 MOLECULE: BETA-L-ARABINOFURANOSIDASE; COMPND 3 CHAIN: A; COMPND 4 EC: 3.2.1.185; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: BIFIDOBACTERIUM LONGUM SUBSP. LONGUM JCM 1217; SOURCE 3 ORGANISM_TAXID: 565042; SOURCE 4 GENE: BLLJ_1848; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 8 EXPRESSION_SYSTEM_PLASMID: PET-23D KEYWDS BETA-L-ARABINOFURANOSIDASE, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR L.PAN,S.MARUYAMA,M.MIYAKE,K.FUJITA,S.FUSHINOBU REVDAT 1 21-FEB-24 8K7X 0 JRNL AUTH K.FUJITA,H.TSUNOMACHI,P.LIXIA,S.MARUYAMA,M.MIYAKE, JRNL AUTH 2 A.DAKESHITA,K.KITAHARA,K.TANAKA,Y.ITO,A.ISHIWATA,S.FUSHINOBU JRNL TITL BIFIDOBACTERIAL GH146 BETA-L-ARABINOFURANOSIDASE FOR THE JRNL TITL 2 REMOVAL OF BETA 1,3-L-ARABINOFURANOSIDES ON PLANT GLYCANS. JRNL REF APPL.MICROBIOL.BIOTECHNOL. V. 108 199 2024 JRNL REFN ESSN 1432-0614 JRNL PMID 38324037 JRNL DOI 10.1007/S00253-024-13014-8 REMARK 2 REMARK 2 RESOLUTION. 1.75 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0411 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.75 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 49.76 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 98241 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING + TEST SET) : 0.144 REMARK 3 R VALUE (WORKING SET) : 0.143 REMARK 3 FREE R VALUE : 0.167 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 5288 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 1.75 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.80 REMARK 3 REFLECTION IN BIN (WORKING SET) : 7153 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.0 REMARK 3 BIN R VALUE (WORKING SET) : 0.2270 REMARK 3 BIN FREE R VALUE SET COUNT : 374 REMARK 3 BIN FREE R VALUE : 0.2450 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 5227 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 36 REMARK 3 SOLVENT ATOMS : 942 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 5.03 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 12.15 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.78000 REMARK 3 B22 (A**2) : -0.19000 REMARK 3 B33 (A**2) : 0.97000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.074 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.075 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.052 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 1.705 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.967 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.954 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 5388 ; 0.011 ; 0.011 REMARK 3 BOND LENGTHS OTHERS (A): 4851 ; 0.001 ; 0.016 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 7327 ; 1.640 ; 1.648 REMARK 3 BOND ANGLES OTHERS (DEGREES): 11162 ; 0.582 ; 1.573 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 676 ; 6.316 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 17 ; 9.623 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 831 ;12.140 ;10.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): NULL ; NULL ; NULL REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 798 ; 0.087 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 6387 ; 0.010 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 1273 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 2696 ; 1.134 ; 1.115 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 2695 ; 1.124 ; 1.115 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3368 ; 1.646 ; 1.998 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 3369 ; 1.648 ; 2.000 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2692 ; 2.874 ; 1.385 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 2693 ; 2.874 ; 1.387 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 3958 ; 4.425 ; 2.393 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 6665 ; 6.048 ;14.910 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 6666 ; 6.050 ;14.920 REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 8K7X COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 31-JUL-23. REMARK 100 THE DEPOSITION ID IS D_1300039717. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 14-MAR-16 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : PHOTON FACTORY REMARK 200 BEAMLINE : AR-NE3A 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 : NUMERICAL LINK TYPE SI(111) REMARK 200 DOUBLE CRYSTAL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 2M-F REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 103620 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.750 REMARK 200 RESOLUTION RANGE LOW (A) : 49.760 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 6.700 REMARK 200 R MERGE (I) : 0.17600 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 8.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.75 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.78 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 6.80 REMARK 200 R MERGE FOR SHELL (I) : 1.01400 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: SAD REMARK 200 SOFTWARE USED: PHENIX REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 54.40 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.70 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 12% PEG 8000, 0.2 M MGCL2, AND 0.1 M REMARK 280 TRIS-HCL (PH 8.5), VAPOR DIFFUSION, HANGING DROP, TEMPERATURE REMARK 280 293.15K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 REMARK 290 4555 X+1/2,-Y+1/2,-Z 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 29.79600 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 76.50500 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 55.78550 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 76.50500 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 29.79600 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 55.78550 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 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 ASP A 1052 REMARK 465 SER A 1053 REMARK 465 GLU A 1054 REMARK 465 THR A 1055 REMARK 465 TYR A 1056 REMARK 465 GLN A 1057 REMARK 465 ASN A 1058 REMARK 465 ASN A 1059 REMARK 465 ILE A 1060 REMARK 465 PHE A 1061 REMARK 465 LYS A 1062 REMARK 465 LYS A 1063 REMARK 465 LYS A 1064 REMARK 465 THR A 1065 REMARK 465 ASP A 1066 REMARK 465 ALA A 1067 REMARK 465 ALA A 1068 REMARK 465 THR A 1069 REMARK 465 GLN A 1070 REMARK 465 SER A 1071 REMARK 465 ILE A 1072 REMARK 465 ILE A 1073 REMARK 465 ILE A 1074 REMARK 465 ASP A 1075 REMARK 465 ALA A 1076 REMARK 465 VAL A 1077 REMARK 465 ASP A 1078 REMARK 465 ALA A 1079 REMARK 465 PHE A 1080 REMARK 465 ASP A 1081 REMARK 465 ASN A 1082 REMARK 465 GLU A 1083 REMARK 465 PHE A 1084 REMARK 465 GLN A 1085 REMARK 465 GLN A 1086 REMARK 465 GLU A 1087 REMARK 465 LEU A 1088 REMARK 465 ALA A 1089 REMARK 465 HIS A 1090 REMARK 465 ASN A 1091 REMARK 465 ALA A 1092 REMARK 465 ALA A 1093 REMARK 465 LYS A 1094 REMARK 465 SER A 1095 REMARK 465 ASP A 1096 REMARK 465 ASP A 1097 REMARK 465 SER A 1098 REMARK 465 ASN A 1099 REMARK 465 ALA A 1100 REMARK 465 GLY A 1101 REMARK 465 THR A 1102 REMARK 465 TYR A 1103 REMARK 465 GLU A 1104 REMARK 465 ASP A 1105 REMARK 465 LYS A 1106 REMARK 465 GLN A 1107 REMARK 465 TYR A 1108 REMARK 465 ARG A 1109 REMARK 465 ASP A 1110 REMARK 465 ALA A 1111 REMARK 465 LYS A 1112 REMARK 465 ALA A 1113 REMARK 465 ASP A 1114 REMARK 465 GLY A 1115 REMARK 465 TRP A 1116 REMARK 465 PHE A 1117 REMARK 465 SER A 1118 REMARK 465 TYR A 1119 REMARK 465 ASP A 1120 REMARK 465 LEU A 1121 REMARK 465 LYS A 1122 REMARK 465 VAL A 1123 REMARK 465 ASN A 1124 REMARK 465 THR A 1125 REMARK 465 GLU A 1126 REMARK 465 ALA A 1127 REMARK 465 ASP A 1128 REMARK 465 ALA A 1129 REMARK 465 LYS A 1130 REMARK 465 ASN A 1131 REMARK 465 TYR A 1132 REMARK 465 LEU A 1133 REMARK 465 SER A 1134 REMARK 465 VAL A 1135 REMARK 465 GLN A 1136 REMARK 465 TYR A 1137 REMARK 465 GLN A 1138 REMARK 465 SER A 1139 REMARK 465 ALA A 1140 REMARK 465 ASP A 1141 REMARK 465 ALA A 1142 REMARK 465 GLY A 1143 REMARK 465 ARG A 1144 REMARK 465 THR A 1145 REMARK 465 PHE A 1146 REMARK 465 SER A 1147 REMARK 465 MET A 1148 REMARK 465 ILE A 1149 REMARK 465 VAL A 1150 REMARK 465 ASP A 1151 REMARK 465 PRO A 1152 REMARK 465 THR A 1153 REMARK 465 PRO A 1154 REMARK 465 VAL A 1155 REMARK 465 ALA A 1156 REMARK 465 ASP A 1157 REMARK 465 ASN A 1158 REMARK 465 SER A 1159 REMARK 465 LYS A 1160 REMARK 465 GLY A 1161 REMARK 465 GLU A 1162 REMARK 465 VAL A 1163 REMARK 465 SER A 1164 REMARK 465 ALA A 1165 REMARK 465 ASN A 1166 REMARK 465 ALA A 1167 REMARK 465 LYS A 1168 REMARK 465 THR A 1169 REMARK 465 TYR A 1170 REMARK 465 THR A 1171 REMARK 465 VAL A 1172 REMARK 465 THR A 1173 REMARK 465 ILE A 1174 REMARK 465 GLU A 1175 REMARK 465 ASN A 1176 REMARK 465 LYS A 1177 REMARK 465 GLY A 1178 REMARK 465 LEU A 1179 REMARK 465 LYS A 1180 REMARK 465 ALA A 1181 REMARK 465 PHE A 1182 REMARK 465 TYR A 1183 REMARK 465 TRP A 1184 REMARK 465 ASP A 1185 REMARK 465 VAL A 1186 REMARK 465 GLN A 1187 REMARK 465 GLN A 1188 REMARK 465 LEU A 1189 REMARK 465 PRO A 1190 REMARK 465 ALA A 1191 REMARK 465 ASP A 1192 REMARK 465 LEU A 1193 REMARK 465 ILE A 1194 REMARK 465 ALA A 1195 REMARK 465 GLU A 1196 REMARK 465 ALA A 1197 REMARK 465 LYS A 1198 REMARK 465 ASP A 1199 REMARK 465 GLY A 1200 REMARK 465 LYS A 1201 REMARK 465 VAL A 1202 REMARK 465 ARG A 1203 REMARK 465 VAL A 1204 REMARK 465 LEU A 1205 REMARK 465 PHE A 1206 REMARK 465 LYS A 1207 REMARK 465 SER A 1208 REMARK 465 THR A 1209 REMARK 465 GLY A 1210 REMARK 465 GLY A 1211 REMARK 465 LEU A 1212 REMARK 465 VAL A 1213 REMARK 465 GLY A 1214 REMARK 465 GLY A 1215 REMARK 465 VAL A 1216 REMARK 465 TYR A 1217 REMARK 465 GLY A 1218 REMARK 465 VAL A 1219 REMARK 465 ARG A 1220 REMARK 465 MET A 1221 REMARK 465 GLN A 1222 REMARK 465 ASN A 1223 REMARK 465 ALA A 1224 REMARK 465 ALA A 1225 REMARK 465 ALA A 1226 REMARK 465 LEU A 1227 REMARK 465 GLU A 1228 REMARK 465 HIS A 1229 REMARK 465 HIS A 1230 REMARK 465 HIS A 1231 REMARK 465 HIS A 1232 REMARK 465 HIS A 1233 REMARK 465 HIS A 1234 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS 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,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) 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 RES CSSEQI ATM2 DEVIATION REMARK 500 GLU A 660 CD GLU A 660 OE2 0.131 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 SER A 691 156.72 88.04 REMARK 500 HIS A 697 -147.25 -125.10 REMARK 500 GLU A 701 51.82 -95.60 REMARK 500 ARG A 717 -141.67 -130.83 REMARK 500 SER A 720 30.14 -86.55 REMARK 500 TYR A 771 -87.19 -91.85 REMARK 500 GLU A 825 -126.94 57.65 REMARK 500 ASN A 852 17.80 -144.14 REMARK 500 LEU A 895 55.61 -92.30 REMARK 500 ASN A 929 101.36 -160.95 REMARK 500 LEU A 946 -66.92 -101.32 REMARK 500 SER A 956 -166.57 -122.08 REMARK 500 TYR A1038 -15.72 -156.09 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 A1012 0.14 SIDE CHAIN 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 ZN A1301 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 723 OE2 REMARK 620 2 CYS A 725 SG 109.6 REMARK 620 3 CYS A 804 SG 97.8 108.4 REMARK 620 4 CYS A 805 SG 115.2 104.2 121.5 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA A1303 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 948 OD2 REMARK 620 2 HOH A1865 O 81.2 REMARK 620 3 HOH A1954 O 90.5 71.9 REMARK 620 4 HOH A2083 O 93.5 100.1 170.4 REMARK 620 5 HOH A2084 O 105.0 162.3 91.2 96.1 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA A1304 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A1429 O REMARK 620 2 HOH A1457 O 93.1 REMARK 620 3 HOH A1642 O 91.7 86.9 REMARK 620 4 HOH A1753 O 177.3 88.7 86.5 REMARK 620 5 HOH A2277 O 75.2 166.8 87.3 102.8 REMARK 620 6 HOH A2323 O 90.9 85.8 172.3 91.2 100.4 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A1309 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A1449 O REMARK 620 2 HOH A1452 O 90.7 REMARK 620 3 HOH A1646 O 85.3 89.5 REMARK 620 4 HOH A2195 O 89.4 89.0 174.5 REMARK 620 5 HOH A2225 O 175.7 92.8 92.3 93.1 REMARK 620 6 HOH A2292 O 95.6 173.6 89.7 92.4 80.8 REMARK 620 N 1 2 3 4 5 DBREF 8K7X A 379 1234 PDB 8K7X 8K7X 379 1234 SEQRES 1 A 856 MET GLU ASN VAL THR VAL ALA ASP GLU TYR LEU GLN ASN SEQRES 2 A 856 ALA GLY LYS LYS GLU VAL GLU TYR LEU LEU SER PHE GLU SEQRES 3 A 856 PRO ASP ARG LEU LEU VAL GLU PHE ARG ALA GLN ALA GLY SEQRES 4 A 856 LEU ASP THR LYS GLY ALA LYS ASN TYR GLY GLY TRP GLU SEQRES 5 A 856 ASN GLY PRO ASP GLU SER ARG ASN PRO ASP GLY SER SER SEQRES 6 A 856 LYS PRO GLY ARG PHE THR GLY HIS PHE VAL GLY HIS TRP SEQRES 7 A 856 ILE SER ALA ALA SER GLN ALA GLN ARG SER THR PHE ALA SEQRES 8 A 856 THR ALA ASP GLN LYS ALA GLN LEU SER ALA ASN LEU THR SEQRES 9 A 856 ALA VAL VAL LYS GLY ILE ARG GLU ALA GLN GLU ALA TYR SEQRES 10 A 856 ALA LYS LYS ASP THR ALA ASN ALA GLY PHE PHE PRO ALA SEQRES 11 A 856 PHE SER ALA SER VAL VAL PRO ASN GLY GLY GLY GLY LEU SEQRES 12 A 856 ILE VAL PRO PHE TYR ASN LEU HIS LYS VAL GLU ALA GLY SEQRES 13 A 856 MET VAL GLN ALA TYR ASP TYR SER THR ASP ALA GLU THR SEQRES 14 A 856 ARG GLU THR ALA LYS ALA ALA ALA VAL ASP PHE ALA LYS SEQRES 15 A 856 TRP VAL VAL ASN TRP LYS SER ALA HIS ALA SER THR ASP SEQRES 16 A 856 MET LEU ARG THR GLU TYR GLY GLY MET ASN ASP ALA LEU SEQRES 17 A 856 TYR GLN VAL ALA GLU ILE ALA ASP ALA SER ASP LYS GLN SEQRES 18 A 856 THR VAL LEU THR ALA ALA HIS LEU PHE ASP GLU THR ALA SEQRES 19 A 856 LEU PHE GLN LYS LEU ALA ASN GLY GLN ASP PRO LEU ASN SEQRES 20 A 856 GLY LEU HIS ALA ASN THR THR ILE PRO LYS LEU THR GLY SEQRES 21 A 856 ALA MET GLN ARG TYR VAL ALA TYR THR GLU ASP GLU ASP SEQRES 22 A 856 LEU TYR ASN SER LEU SER ALA ASP GLU ARG GLY LYS LEU SEQRES 23 A 856 THR SER LEU TYR LEU LYS ALA ALA GLN ASN PHE PHE ASP SEQRES 24 A 856 ILE VAL VAL LYS ASP HIS THR TYR VAL ASN GLY GLY ASN SEQRES 25 A 856 SER GLN SER GLU HIS PHE HIS VAL ALA GLY GLU LEU TRP SEQRES 26 A 856 LYS ASP ALA THR GLN ASN GLY ASP GLN ASN GLY GLY TYR SEQRES 27 A 856 ARG ASN PHE SER THR VAL GLU THR CYS ASN GLU TYR ASN SEQRES 28 A 856 MET LEU LYS LEU ALA ARG ILE LEU PHE GLN VAL THR LYS SEQRES 29 A 856 ASP SER LYS TYR SER GLU TYR TYR GLU HIS THR PHE ILE SEQRES 30 A 856 ASN ALA ILE VAL ALA SER GLN ASN PRO GLU THR GLY MET SEQRES 31 A 856 THR THR TYR PHE GLN PRO MET LYS ALA GLY TYR PRO LYS SEQRES 32 A 856 VAL PHE GLY ILE THR GLY THR ASP TYR ASP ALA ASP TRP SEQRES 33 A 856 PHE GLY GLY ALA ILE GLY GLU TYR TRP CYS CYS GLN GLY SEQRES 34 A 856 THR GLY ILE GLU ASN PHE ALA LYS LEU ASN ASP SER PHE SEQRES 35 A 856 TYR PHE THR ASP GLU ASN ASN VAL TYR VAL ASN MET PHE SEQRES 36 A 856 TRP SER SER THR TYR THR ASP THR ARG HIS ASN LEU THR SEQRES 37 A 856 ILE THR GLN THR ALA ASN VAL PRO LYS THR GLU ASP VAL SEQRES 38 A 856 THR PHE GLU VAL SER GLY THR GLY SER ALA ASN LEU LYS SEQRES 39 A 856 LEU ARG VAL PRO ASP TRP ALA ILE THR ASN GLY VAL LYS SEQRES 40 A 856 LEU VAL VAL ASP GLY THR GLU GLN ALA LEU THR LYS ASP SEQRES 41 A 856 GLU ASN GLY TRP VAL THR VAL ALA ILE LYS ASP GLY ALA SEQRES 42 A 856 LYS ILE THR TYR THR LEU PRO ALA LYS LEU GLN ALA ILE SEQRES 43 A 856 ASP ALA ALA ASP ASN LYS ASP TRP VAL ALA PHE GLN TYR SEQRES 44 A 856 GLY PRO VAL VAL LEU ALA GLY ALA LEU THR ASP THR ASN SEQRES 45 A 856 TYR LYS THR ASN TYR SER TYR GLY GLY VAL LYS VAL ARG SEQRES 46 A 856 VAL ALA ASN TYR ASP SER GLU ALA ASN ALA LYS ALA ALA SEQRES 47 A 856 VAL ILE PRO THR SER GLY SER VAL THR ASP TRP LEU LYS SEQRES 48 A 856 GLY ILE LYS GLU ASP ALA SER GLU GLY SER ASN LEU VAL SEQRES 49 A 856 ARG THR ASP ASP PRO ASN THR GLY ASN ARG GLU THR LEU SEQRES 50 A 856 SER PHE LYS PHE ALA ASN VAL ASP GLY ASP ALA ALA ASP SEQRES 51 A 856 LEU THR LEU GLN PRO TYR TYR SER THR TYR LYS THR THR SEQRES 52 A 856 TYR ALA ILE TYR TRP ASP MET ALA GLU VAL ASP SER GLU SEQRES 53 A 856 THR TYR GLN ASN ASN ILE PHE LYS LYS LYS THR ASP ALA SEQRES 54 A 856 ALA THR GLN SER ILE ILE ILE ASP ALA VAL ASP ALA PHE SEQRES 55 A 856 ASP ASN GLU PHE GLN GLN GLU LEU ALA HIS ASN ALA ALA SEQRES 56 A 856 LYS SER ASP ASP SER ASN ALA GLY THR TYR GLU ASP LYS SEQRES 57 A 856 GLN TYR ARG ASP ALA LYS ALA ASP GLY TRP PHE SER TYR SEQRES 58 A 856 ASP LEU LYS VAL ASN THR GLU ALA ASP ALA LYS ASN TYR SEQRES 59 A 856 LEU SER VAL GLN TYR GLN SER ALA ASP ALA GLY ARG THR SEQRES 60 A 856 PHE SER MET ILE VAL ASP PRO THR PRO VAL ALA ASP ASN SEQRES 61 A 856 SER LYS GLY GLU VAL SER ALA ASN ALA LYS THR TYR THR SEQRES 62 A 856 VAL THR ILE GLU ASN LYS GLY LEU LYS ALA PHE TYR TRP SEQRES 63 A 856 ASP VAL GLN GLN LEU PRO ALA ASP LEU ILE ALA GLU ALA SEQRES 64 A 856 LYS ASP GLY LYS VAL ARG VAL LEU PHE LYS SER THR GLY SEQRES 65 A 856 GLY LEU VAL GLY GLY VAL TYR GLY VAL ARG MET GLN ASN SEQRES 66 A 856 ALA ALA ALA LEU GLU HIS HIS HIS HIS HIS HIS HET ZN A1301 1 HET TRS A1302 8 HET NA A1303 1 HET NA A1304 1 HET GOL A1305 6 HET GOL A1306 6 HET GOL A1307 6 HET GOL A1308 6 HET MG A1309 1 HETNAM ZN ZINC ION HETNAM TRS 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL HETNAM NA SODIUM ION HETNAM GOL GLYCEROL HETNAM MG MAGNESIUM ION HETSYN TRS TRIS BUFFER HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 2 ZN ZN 2+ FORMUL 3 TRS C4 H12 N O3 1+ FORMUL 4 NA 2(NA 1+) FORMUL 6 GOL 4(C3 H8 O3) FORMUL 10 MG MG 2+ FORMUL 11 HOH *942(H2 O) HELIX 1 AA1 ASP A 386 SER A 402 1 17 HELIX 2 AA2 GLU A 404 GLY A 417 1 14 HELIX 3 AA3 GLY A 427 ASN A 431 5 5 HELIX 4 AA4 GLY A 450 SER A 466 1 17 HELIX 5 AA5 THR A 470 ASP A 499 1 30 HELIX 6 AA6 THR A 500 ALA A 503 5 4 HELIX 7 AA7 SER A 510 VAL A 514 5 5 HELIX 8 AA8 VAL A 523 SER A 542 1 20 HELIX 9 AA9 ASP A 544 HIS A 569 1 26 HELIX 10 AB1 GLY A 581 ALA A 593 1 13 HELIX 11 AB2 ASP A 594 SER A 596 5 3 HELIX 12 AB3 ASP A 597 PHE A 608 1 12 HELIX 13 AB4 GLU A 610 ASN A 619 1 10 HELIX 14 AB5 HIS A 628 ASP A 649 1 22 HELIX 15 AB6 ASP A 649 SER A 655 1 7 HELIX 16 AB7 SER A 657 LEU A 667 1 11 HELIX 17 AB8 LEU A 667 HIS A 683 1 17 HELIX 18 AB9 GLU A 701 GLN A 708 1 8 HELIX 19 AC1 ARG A 717 THR A 721 5 5 HELIX 20 AC2 THR A 724 LYS A 742 1 19 HELIX 21 AC3 ASP A 743 ALA A 757 1 15 HELIX 22 AC4 ILE A 758 GLN A 762 5 5 HELIX 23 AC5 ASP A 791 GLY A 796 1 6 HELIX 24 AC6 TRP A 803 LYS A 815 1 13 HELIX 25 AC7 ILE A 880 VAL A 884 5 5 HELIX 26 AC8 ASP A 968 LYS A 974 1 7 HELIX 27 AC9 SER A 983 GLY A 990 1 8 HELIX 28 AD1 ASN A 1011 LEU A 1015 5 5 HELIX 29 AD2 GLY A 1024 LEU A 1029 5 6 HELIX 30 AD3 TYR A 1035 THR A 1037 5 3 SHEET 1 AA1 7 GLU A 380 VAL A 384 0 SHEET 2 AA1 7 SER A 836 ASP A 840 -1 O THR A 839 N ASN A 381 SHEET 3 AA1 7 LEU A 845 THR A 850 -1 O ILE A 847 N TYR A 838 SHEET 4 AA1 7 ASP A 858 GLY A 865 -1 O SER A 864 N THR A 846 SHEET 5 AA1 7 LYS A 912 THR A 916 -1 O TYR A 915 N VAL A 859 SHEET 6 AA1 7 LYS A 885 VAL A 888 -1 N LYS A 885 O THR A 916 SHEET 7 AA1 7 THR A 891 GLN A 893 -1 O THR A 891 N VAL A 888 SHEET 1 AA2 4 TYR A 821 ASP A 824 0 SHEET 2 AA2 4 ASN A 827 VAL A 830 -1 O TYR A 829 N PHE A 822 SHEET 3 AA2 4 SER A 868 ARG A 874 1 O LYS A 872 N VAL A 828 SHEET 4 AA2 4 TRP A 902 LYS A 908 -1 O VAL A 903 N LEU A 873 SHEET 1 AA3 4 LEU A 921 ALA A 926 0 SHEET 2 AA3 4 ASN A 929 TYR A 937 -1 O ALA A 934 N ILE A 924 SHEET 3 AA3 4 VAL A 940 ASP A 948 -1 O LEU A 942 N PHE A 935 SHEET 4 AA3 4 LEU A1031 PRO A1033 -1 O GLN A1032 N ALA A 943 SHEET 1 AA4 5 ALA A 976 VAL A 977 0 SHEET 2 AA4 5 TYR A1045 MET A1048 1 O ASP A1047 N VAL A 977 SHEET 3 AA4 5 ASN A 929 TYR A 937 -1 N VAL A 933 O TRP A1046 SHEET 4 AA4 5 VAL A 940 ASP A 948 -1 O LEU A 942 N PHE A 935 SHEET 5 AA4 5 THR A1040 ALA A1043 -1 O ALA A1043 N GLY A 944 SHEET 1 AA5 2 TYR A 955 GLY A 958 0 SHEET 2 AA5 2 VAL A 962 ALA A 965 -1 O VAL A 964 N SER A 956 SHEET 1 AA6 2 LEU A1001 ARG A1003 0 SHEET 2 AA6 2 PHE A1017 PHE A1019 -1 O LYS A1018 N VAL A1002 LINK OE2 GLU A 723 ZN ZN A1301 1555 1555 2.01 LINK SG CYS A 725 ZN ZN A1301 1555 1555 2.34 LINK SG CYS A 804 ZN ZN A1301 1555 1555 2.38 LINK SG CYS A 805 ZN ZN A1301 1555 1555 2.34 LINK OD2 ASP A 948 NA NA A1303 1555 1555 2.18 LINK NA NA A1303 O HOH A1865 1555 1555 2.19 LINK NA NA A1303 O HOH A1954 1555 1455 2.12 LINK NA NA A1303 O HOH A2083 1555 1555 2.22 LINK NA NA A1303 O HOH A2084 1555 1455 2.22 LINK NA NA A1304 O HOH A1429 1555 1555 2.39 LINK NA NA A1304 O HOH A1457 1555 1555 2.16 LINK NA NA A1304 O HOH A1642 1555 1555 2.53 LINK NA NA A1304 O HOH A1753 1555 1555 2.00 LINK NA NA A1304 O HOH A2277 1555 4555 2.26 LINK NA NA A1304 O HOH A2323 1555 1555 2.30 LINK MG MG A1309 O HOH A1449 1555 1555 2.12 LINK MG MG A1309 O HOH A1452 1555 1555 2.21 LINK MG MG A1309 O HOH A1646 1555 1555 2.32 LINK MG MG A1309 O HOH A2195 1555 1555 1.99 LINK MG MG A1309 O HOH A2225 1555 1555 2.02 LINK MG MG A1309 O HOH A2292 1555 1555 2.03 CISPEP 1 VAL A 514 PRO A 515 0 -0.19 CISPEP 2 VAL A 853 PRO A 854 0 -3.03 CRYST1 59.592 111.571 153.010 90.00 90.00 90.00 P 21 21 21 4 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 0.016781 0.000000 0.000000 0.00000 SCALE2 0.000000 0.008963 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006536 0.00000