HEADER LIPID BINDING PROTEIN 27-APR-10 3MPX TITLE CRYSTAL STRUCTURE OF THE DH AND PH-1 DOMAINS OF HUMAN FGD5 COMPND MOL_ID: 1; COMPND 2 MOLECULE: FYVE, RHOGEF AND PH DOMAIN-CONTAINING PROTEIN 5; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: UNP RESIDUES 889-1304; COMPND 5 SYNONYM: ZINC FINGER FYVE DOMAIN-CONTAINING PROTEIN 23; 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: FGD5, ZFYVE23; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3)-V2R-PRARE2; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET28-MHL KEYWDS STRUCTURAL GENOMICS CONSORTIUM, DH DOMAIN, PH DOMAIN, SGC, LIPID KEYWDS 2 BINDING PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR Y.SHEN,L.NEDYALKOVA,Y.TONG,W.TEMPEL,L.CROMBET,C.H.ARROWSMITH, AUTHOR 2 A.M.EDWARDS,C.BOUNTRA,J.WEIGELT,A.BOCHKAREV,H.PARK,STRUCTURAL AUTHOR 3 GENOMICS CONSORTIUM (SGC) REVDAT 2 08-NOV-17 3MPX 1 REMARK REVDAT 1 23-JUN-10 3MPX 0 JRNL AUTH Y.SHEN,L.NEDYALKOVA,Y.TONG,W.TEMPEL,L.CROMBET, JRNL AUTH 2 C.H.ARROWSMITH,A.M.EDWARDS,C.BOUNTRA,J.WEIGELT,A.BOCHKAREV, JRNL AUTH 3 H.PARK JRNL TITL CRYSTAL STRUCTURE OF THE DH AND PH-1 DOMAINS OF HUMAN FGD5 JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 2.80 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : BUSTER 2.8.0 REMARK 3 AUTHORS : BRICOGNE,BLANC,BRANDL,FLENSBURG,KELLER, REMARK 3 : PACIOREK,ROVERSI,SHARFF,SMART,VONRHEIN, REMARK 3 : WOMACK,MATTHEWS,TEN EYCK,TRONRUD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 29.71 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : NULL REMARK 3 NUMBER OF REFLECTIONS : 9013 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) : 0.221 REMARK 3 R VALUE (WORKING SET) : 0.218 REMARK 3 FREE R VALUE : 0.289 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.770 REMARK 3 FREE R VALUE TEST SET COUNT : 430 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : NULL REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 5 REMARK 3 BIN RESOLUTION RANGE HIGH (ANGSTROMS) : 2.80 REMARK 3 BIN RESOLUTION RANGE LOW (ANGSTROMS) : 3.13 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 REFLECTIONS IN BIN (WORKING + TEST SET) : 2497 REMARK 3 BIN R VALUE (WORKING + TEST SET) : 0.2350 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 2355 REMARK 3 BIN R VALUE (WORKING SET) : 0.2280 REMARK 3 BIN FREE R VALUE : 0.3540 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 5.69 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 142 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2287 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 11 REMARK 3 SOLVENT ATOMS : 0 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 29.79 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -3.70200 REMARK 3 B22 (A**2) : 7.50500 REMARK 3 B33 (A**2) : -3.80300 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 COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.376 REMARK 3 DPI (BLOW EQ-10) BASED ON R VALUE (A) : NULL REMARK 3 DPI (BLOW EQ-9) BASED ON FREE R VALUE (A) : NULL REMARK 3 DPI (CRUICKSHANK) BASED ON R VALUE (A) : NULL REMARK 3 DPI (CRUICKSHANK) BASED ON FREE R VALUE (A) : NULL REMARK 3 REMARK 3 REFERENCES: BLOW, D. (2002) ACTA CRYST D58, 792-797 REMARK 3 CRUICKSHANK, D.W.J. (1999) ACTA CRYST D55, 583-601 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.894 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.842 REMARK 3 REMARK 3 NUMBER OF GEOMETRIC FUNCTION TERMS DEFINED : 15 REMARK 3 TERM COUNT WEIGHT FUNCTION. REMARK 3 BOND LENGTHS : 2326 ; 2.000 ; HARMONIC REMARK 3 BOND ANGLES : 3157 ; 2.000 ; HARMONIC REMARK 3 TORSION ANGLES : 785 ; 2.000 ; SINUSOIDAL REMARK 3 TRIGONAL CARBON PLANES : 54 ; 2.000 ; HARMONIC REMARK 3 GENERAL PLANES : 348 ; 5.000 ; HARMONIC REMARK 3 ISOTROPIC THERMAL FACTORS : 2326 ; 20.000 ; HARMONIC REMARK 3 BAD NON-BONDED CONTACTS : NULL ; NULL ; NULL REMARK 3 IMPROPER TORSIONS : NULL ; NULL ; NULL REMARK 3 PSEUDOROTATION ANGLES : NULL ; NULL ; NULL REMARK 3 CHIRAL IMPROPER TORSION : 305 ; 5.000 ; SEMIHARMONIC REMARK 3 SUM OF OCCUPANCIES : NULL ; NULL ; NULL REMARK 3 UTILITY DISTANCES : NULL ; NULL ; NULL REMARK 3 UTILITY ANGLES : NULL ; NULL ; NULL REMARK 3 UTILITY TORSION : NULL ; NULL ; NULL REMARK 3 IDEAL-DIST CONTACT TERM : 2621 ; 4.000 ; SEMIHARMONIC REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.010 REMARK 3 BOND ANGLES (DEGREES) : 1.12 REMARK 3 PEPTIDE OMEGA TORSION ANGLES (DEGREES) : 2.72 REMARK 3 OTHER TORSION ANGLES (DEGREES) : 19.90 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: MODEL WAS REFINED AGAINST INFLECTION REMARK 3 WAVELENGTH DATA REMARK 4 REMARK 4 3MPX COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 28-APR-10. REMARK 100 THE DEPOSITION ID IS D_1000058852. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 25-MAR-10 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 : APS REMARK 200 BEAMLINE : 19-ID REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97942, 0.97934 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO, HKL-3000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK, HKL-3000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 9116 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.800 REMARK 200 RESOLUTION RANGE LOW (A) : 30.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 200 DATA REDUNDANCY : 6.900 REMARK 200 R MERGE (I) : 0.14200 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 5.5000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.80 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.85 REMARK 200 COMPLETENESS FOR SHELL (%) : 96.9 REMARK 200 DATA REDUNDANCY IN SHELL : 6.30 REMARK 200 R MERGE FOR SHELL (I) : 0.46900 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: MAD REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MAD REMARK 200 SOFTWARE USED: SHELX, RESOLVE REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 48.60 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.40 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 25% W/V PEG 3350, 0.2M LITHIUM REMARK 280 SULFATE, 0.1M HEPES PH 7.5. 1:100 TRYPSIN WAS ALSO ADDED. VAPOR REMARK 280 DIFFUSION, SITTING DROP, TEMPERATURE 291K, VAPOR DIFFUSION, REMARK 280 SITTING DROP 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 19.07000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 63.90000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 35.32250 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 63.90000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 19.07000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 35.32250 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 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 MSE A 871 REMARK 465 HIS A 872 REMARK 465 HIS A 873 REMARK 465 HIS A 874 REMARK 465 HIS A 875 REMARK 465 HIS A 876 REMARK 465 HIS A 877 REMARK 465 SER A 878 REMARK 465 SER A 879 REMARK 465 GLY A 880 REMARK 465 ARG A 881 REMARK 465 GLU A 882 REMARK 465 ASN A 883 REMARK 465 LEU A 884 REMARK 465 TYR A 885 REMARK 465 PHE A 886 REMARK 465 GLN A 887 REMARK 465 GLY A 888 REMARK 465 GLY A 889 REMARK 465 GLY A 933 REMARK 465 ARG A 934 REMARK 465 VAL A 1025 REMARK 465 GLN A 1026 REMARK 465 GLY A 1027 REMARK 465 GLY A 1028 REMARK 465 SER A 1029 REMARK 465 GLN A 1030 REMARK 465 ALA A 1160 REMARK 465 ASN A 1161 REMARK 465 MSE A 1162 REMARK 465 LYS A 1163 REMARK 465 VAL A 1164 REMARK 465 LEU A 1206 REMARK 465 PRO A 1207 REMARK 465 GLU A 1208 REMARK 465 ASP A 1209 REMARK 465 TYR A 1210 REMARK 465 LYS A 1211 REMARK 465 ALA A 1212 REMARK 465 GLN A 1213 REMARK 465 ALA A 1214 REMARK 465 LEU A 1215 REMARK 465 ALA A 1216 REMARK 465 ALA A 1217 REMARK 465 PHE A 1218 REMARK 465 HIS A 1219 REMARK 465 HIS A 1220 REMARK 465 SER A 1221 REMARK 465 VAL A 1222 REMARK 465 GLU A 1223 REMARK 465 ILE A 1224 REMARK 465 ARG A 1225 REMARK 465 GLU A 1226 REMARK 465 ARG A 1227 REMARK 465 LEU A 1228 REMARK 465 GLY A 1229 REMARK 465 VAL A 1230 REMARK 465 SER A 1231 REMARK 465 LEU A 1232 REMARK 465 GLY A 1233 REMARK 465 GLU A 1234 REMARK 465 ARG A 1235 REMARK 465 PRO A 1236 REMARK 465 PRO A 1237 REMARK 465 THR A 1238 REMARK 465 LEU A 1239 REMARK 465 VAL A 1240 REMARK 465 PRO A 1241 REMARK 465 VAL A 1242 REMARK 465 THR A 1243 REMARK 465 HIS A 1244 REMARK 465 VAL A 1245 REMARK 465 MSE A 1246 REMARK 465 MSE A 1247 REMARK 465 CYS A 1248 REMARK 465 MSE A 1249 REMARK 465 ASN A 1250 REMARK 465 CYS A 1251 REMARK 465 GLY A 1252 REMARK 465 CYS A 1253 REMARK 465 ASP A 1254 REMARK 465 PHE A 1255 REMARK 465 SER A 1256 REMARK 465 LEU A 1257 REMARK 465 THR A 1258 REMARK 465 LEU A 1259 REMARK 465 ARG A 1260 REMARK 465 ARG A 1261 REMARK 465 HIS A 1262 REMARK 465 HIS A 1263 REMARK 465 CYS A 1264 REMARK 465 HIS A 1265 REMARK 465 ALA A 1266 REMARK 465 CYS A 1267 REMARK 465 GLY A 1268 REMARK 465 LYS A 1269 REMARK 465 ILE A 1270 REMARK 465 VAL A 1271 REMARK 465 CYS A 1272 REMARK 465 ARG A 1273 REMARK 465 ASN A 1274 REMARK 465 CYS A 1275 REMARK 465 SER A 1276 REMARK 465 ARG A 1277 REMARK 465 ASN A 1278 REMARK 465 LYS A 1279 REMARK 465 TYR A 1280 REMARK 465 PRO A 1281 REMARK 465 LEU A 1282 REMARK 465 LYS A 1283 REMARK 465 TYR A 1284 REMARK 465 LEU A 1285 REMARK 465 LYS A 1286 REMARK 465 ASP A 1287 REMARK 465 ARG A 1288 REMARK 465 MSE A 1289 REMARK 465 ALA A 1290 REMARK 465 LYS A 1291 REMARK 465 VAL A 1292 REMARK 465 CYS A 1293 REMARK 465 ASP A 1294 REMARK 465 GLY A 1295 REMARK 465 CYS A 1296 REMARK 465 PHE A 1297 REMARK 465 GLY A 1298 REMARK 465 GLU A 1299 REMARK 465 LEU A 1300 REMARK 465 LYS A 1301 REMARK 465 LYS A 1302 REMARK 465 ARG A 1303 REMARK 465 GLY A 1304 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 ASP A 935 CG OD1 OD2 REMARK 470 GLU A 961 CG CD OE1 OE2 REMARK 470 GLU A 962 CG CD OE1 OE2 REMARK 470 GLU A 964 CG CD OE1 OE2 REMARK 470 GLU A 965 CG CD OE1 OE2 REMARK 470 GLU A 971 CG CD OE1 OE2 REMARK 470 SER A 972 OG REMARK 470 GLN A 973 CD OE1 NE2 REMARK 470 LYS A 975 CG CD CE NZ REMARK 470 ARG A 999 CD NE CZ NH1 NH2 REMARK 470 GLU A1006 CG CD OE1 OE2 REMARK 470 GLU A1020 CG CD OE1 OE2 REMARK 470 THR A1031 OG1 CG2 REMARK 470 LYS A1033 CG CD CE NZ REMARK 470 SER A1061 OG REMARK 470 ARG A1080 CG CD NE CZ NH1 NH2 REMARK 470 GLU A1086 CG CD OE1 OE2 REMARK 470 GLU A1089 CG CD OE1 OE2 REMARK 470 GLU A1098 CG CD OE1 OE2 REMARK 470 ARG A1102 NE CZ NH1 NH2 REMARK 470 GLN A1104 CG CD OE1 NE2 REMARK 470 ASP A1106 CG OD1 OD2 REMARK 470 GLN A1109 CG CD OE1 NE2 REMARK 470 GLU A1113 CG CD OE1 OE2 REMARK 470 LYS A1116 CE NZ REMARK 470 LYS A1122 CG CD CE NZ REMARK 470 THR A1124 OG1 CG2 REMARK 470 LYS A1126 CG CD CE NZ REMARK 470 ASN A1127 CG OD1 ND2 REMARK 470 ARG A1128 CG CD NE CZ NH1 NH2 REMARK 470 ARG A1129 CD NE CZ NH1 NH2 REMARK 470 LYS A1147 CG CD CE NZ REMARK 470 VAL A1159 CG1 CG2 REMARK 470 SER A1165 OG REMARK 470 LYS A1171 CG CD CE NZ REMARK 470 LYS A1177 CG CD CE NZ REMARK 470 GLU A1179 CG CD OE1 OE2 REMARK 470 SER A1181 OG REMARK 470 GLU A1182 CG CD OE1 OE2 REMARK 470 SER A1183 OG REMARK 470 SER A1191 OG REMARK 470 CYS A1192 SG REMARK 470 GLU A1194 OE1 OE2 REMARK 470 GLU A1197 CG CD OE1 OE2 REMARK 470 SER A1203 OG REMARK 470 ARG A1204 CG CD NE CZ NH1 NH2 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 MSE A 1085 UNK UNX A 8 2.06 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 PHE A 918 -67.90 -109.88 REMARK 500 ASN A 969 41.26 -107.55 REMARK 500 SER A 972 -50.27 -124.35 REMARK 500 GLN A 974 62.26 -112.61 REMARK 500 VAL A 976 -35.00 -134.11 REMARK 500 ARG A 983 53.29 -111.35 REMARK 500 HIS A1010 26.97 -148.48 REMARK 500 PRO A1059 -2.16 -59.13 REMARK 500 LEU A1108 99.23 -63.75 REMARK 500 ASP A1138 -71.88 -80.88 REMARK 500 ARG A1166 78.14 -117.19 REMARK 500 REMARK 500 REMARK: NULL REMARK 999 REMARK 999 SEQUENCE REMARK 999 THE PROTEIN USED FOR CRYSTALLIZATION CONTAINED AMINO-ACIDS AS GIVEN REMARK 999 IN DBREF. THIS PROTEIN LIKELY DEGRADED IN THE PRESENCE TRYPSIN TO A REMARK 999 TRUNCATED SPECIES DURING THE CRYSTALLIZATION EXPERIMENT. THEREFORE, REMARK 999 CALCULATED VM AND VS VALUES ARE BASED ON AN ESTIMATE. THE AUTHORS REMARK 999 ASSUMED RESIDUES 890 TO 1205 TO BE PRESENT. DBREF 3MPX A 889 1304 UNP Q6ZNL6 FGD5_HUMAN 889 1304 SEQADV 3MPX MSE A 871 UNP Q6ZNL6 EXPRESSION TAG SEQADV 3MPX HIS A 872 UNP Q6ZNL6 EXPRESSION TAG SEQADV 3MPX HIS A 873 UNP Q6ZNL6 EXPRESSION TAG SEQADV 3MPX HIS A 874 UNP Q6ZNL6 EXPRESSION TAG SEQADV 3MPX HIS A 875 UNP Q6ZNL6 EXPRESSION TAG SEQADV 3MPX HIS A 876 UNP Q6ZNL6 EXPRESSION TAG SEQADV 3MPX HIS A 877 UNP Q6ZNL6 EXPRESSION TAG SEQADV 3MPX SER A 878 UNP Q6ZNL6 EXPRESSION TAG SEQADV 3MPX SER A 879 UNP Q6ZNL6 EXPRESSION TAG SEQADV 3MPX GLY A 880 UNP Q6ZNL6 EXPRESSION TAG SEQADV 3MPX ARG A 881 UNP Q6ZNL6 EXPRESSION TAG SEQADV 3MPX GLU A 882 UNP Q6ZNL6 EXPRESSION TAG SEQADV 3MPX ASN A 883 UNP Q6ZNL6 EXPRESSION TAG SEQADV 3MPX LEU A 884 UNP Q6ZNL6 EXPRESSION TAG SEQADV 3MPX TYR A 885 UNP Q6ZNL6 EXPRESSION TAG SEQADV 3MPX PHE A 886 UNP Q6ZNL6 EXPRESSION TAG SEQADV 3MPX GLN A 887 UNP Q6ZNL6 EXPRESSION TAG SEQADV 3MPX GLY A 888 UNP Q6ZNL6 EXPRESSION TAG SEQRES 1 A 434 MSE HIS HIS HIS HIS HIS HIS SER SER GLY ARG GLU ASN SEQRES 2 A 434 LEU TYR PHE GLN GLY GLY GLN SER ARG ALA LEU VAL ILE SEQRES 3 A 434 ALA GLN GLU LEU LEU SER SER GLU LYS ALA TYR VAL GLU SEQRES 4 A 434 MSE LEU GLN HIS LEU ASN LEU ASP PHE HIS GLY ALA VAL SEQRES 5 A 434 MSE ARG ALA LEU ASP ASP MSE ASP HIS GLU GLY ARG ASP SEQRES 6 A 434 THR LEU ALA ARG GLU GLU LEU ARG GLN GLY LEU SER GLU SEQRES 7 A 434 LEU PRO ALA ILE HIS ASP LEU HIS GLN GLY ILE LEU GLU SEQRES 8 A 434 GLU LEU GLU GLU ARG LEU SER ASN TRP GLU SER GLN GLN SEQRES 9 A 434 LYS VAL ALA ASP VAL PHE LEU ALA ARG GLU GLN GLY PHE SEQRES 10 A 434 ASP HIS HIS ALA THR HIS ILE LEU GLN PHE ASP ARG TYR SEQRES 11 A 434 LEU GLY LEU LEU SER GLU ASN CYS LEU HIS SER PRO ARG SEQRES 12 A 434 LEU ALA ALA ALA VAL ARG GLU PHE GLU GLN SER VAL GLN SEQRES 13 A 434 GLY GLY SER GLN THR ALA LYS HIS ARG LEU LEU ARG VAL SEQRES 14 A 434 VAL GLN ARG LEU PHE GLN TYR GLN VAL LEU LEU THR ASP SEQRES 15 A 434 TYR LEU ASN ASN LEU CYS PRO ASP SER ALA GLU TYR ASP SEQRES 16 A 434 ASN THR GLN GLY ALA LEU SER LEU ILE SER LYS VAL THR SEQRES 17 A 434 ASP ARG ALA ASN ASP SER MSE GLU GLN GLY GLU ASN LEU SEQRES 18 A 434 GLN LYS LEU VAL HIS ILE GLU HIS SER VAL ARG GLY GLN SEQRES 19 A 434 GLY ASP LEU LEU GLN PRO GLY ARG GLU PHE LEU LYS GLU SEQRES 20 A 434 GLY THR LEU MSE LYS VAL THR GLY LYS ASN ARG ARG PRO SEQRES 21 A 434 ARG HIS LEU PHE LEU MSE ASN ASP VAL LEU LEU TYR THR SEQRES 22 A 434 TYR PRO GLN LYS ASP GLY LYS TYR ARG LEU LYS ASN THR SEQRES 23 A 434 LEU ALA VAL ALA ASN MSE LYS VAL SER ARG PRO VAL MSE SEQRES 24 A 434 GLU LYS VAL PRO TYR ALA LEU LYS ILE GLU THR SER GLU SEQRES 25 A 434 SER CYS LEU MSE LEU SER ALA SER SER CYS ALA GLU ARG SEQRES 26 A 434 ASP GLU TRP TYR GLY CYS LEU SER ARG ALA LEU PRO GLU SEQRES 27 A 434 ASP TYR LYS ALA GLN ALA LEU ALA ALA PHE HIS HIS SER SEQRES 28 A 434 VAL GLU ILE ARG GLU ARG LEU GLY VAL SER LEU GLY GLU SEQRES 29 A 434 ARG PRO PRO THR LEU VAL PRO VAL THR HIS VAL MSE MSE SEQRES 30 A 434 CYS MSE ASN CYS GLY CYS ASP PHE SER LEU THR LEU ARG SEQRES 31 A 434 ARG HIS HIS CYS HIS ALA CYS GLY LYS ILE VAL CYS ARG SEQRES 32 A 434 ASN CYS SER ARG ASN LYS TYR PRO LEU LYS TYR LEU LYS SEQRES 33 A 434 ASP ARG MSE ALA LYS VAL CYS ASP GLY CYS PHE GLY GLU SEQRES 34 A 434 LEU LYS LYS ARG GLY MODRES 3MPX MSE A 910 MET SELENOMETHIONINE MODRES 3MPX MSE A 923 MET SELENOMETHIONINE MODRES 3MPX MSE A 929 MET SELENOMETHIONINE MODRES 3MPX MSE A 1085 MET SELENOMETHIONINE MODRES 3MPX MSE A 1121 MET SELENOMETHIONINE MODRES 3MPX MSE A 1136 MET SELENOMETHIONINE MODRES 3MPX MSE A 1169 MET SELENOMETHIONINE MODRES 3MPX MSE A 1186 MET SELENOMETHIONINE HET MSE A 910 8 HET MSE A 923 8 HET MSE A 929 8 HET MSE A1085 8 HET MSE A1121 8 HET MSE A1136 8 HET MSE A1169 8 HET MSE A1186 8 HET UNX A 1 1 HET UNX A 2 1 HET UNX A 3 1 HET UNX A 4 1 HET UNX A 5 1 HET UNX A 6 1 HET UNX A 7 1 HET UNX A 8 1 HET UNX A 9 1 HET UNX A 10 1 HET UNX A 11 1 HETNAM MSE SELENOMETHIONINE HETNAM UNX UNKNOWN ATOM OR ION FORMUL 1 MSE 8(C5 H11 N O2 SE) FORMUL 2 UNX 11(X) HELIX 1 1 GLN A 890 PHE A 918 1 29 HELIX 2 2 PHE A 918 ASP A 930 1 13 HELIX 3 3 ASP A 935 ASN A 969 1 35 HELIX 4 4 ALA A 977 ALA A 982 1 6 HELIX 5 5 GLY A 986 LEU A 1009 1 24 HELIX 6 6 SER A 1011 GLN A 1023 1 13 HELIX 7 7 THR A 1031 ASN A 1055 1 25 HELIX 8 8 SER A 1061 MSE A 1085 1 25 HELIX 9 9 GLN A 1087 SER A 1100 1 14 HELIX 10 10 SER A 1191 ALA A 1205 1 15 SHEET 1 A 5 VAL A1101 ARG A1102 0 SHEET 2 A 5 TYR A1151 ALA A1158 1 O TYR A1151 N ARG A1102 SHEET 3 A 5 VAL A1139 PRO A1145 -1 N TYR A1142 O LYS A1154 SHEET 4 A 5 ASN A1127 MSE A1136 -1 N PHE A1134 O LEU A1141 SHEET 5 A 5 PHE A1114 LYS A1116 -1 N LYS A1116 O LEU A1135 SHEET 1 B 7 VAL A1101 ARG A1102 0 SHEET 2 B 7 TYR A1151 ALA A1158 1 O TYR A1151 N ARG A1102 SHEET 3 B 7 VAL A1139 PRO A1145 -1 N TYR A1142 O LYS A1154 SHEET 4 B 7 ASN A1127 MSE A1136 -1 N PHE A1134 O LEU A1141 SHEET 5 B 7 THR A1119 THR A1124 -1 N LYS A1122 O ARG A1129 SHEET 6 B 7 CYS A1184 SER A1188 -1 O SER A1188 N MSE A1121 SHEET 7 B 7 ALA A1175 GLU A1179 -1 N LEU A1176 O LEU A1187 LINK C GLU A 909 N MSE A 910 1555 1555 1.34 LINK C MSE A 910 N LEU A 911 1555 1555 1.35 LINK C VAL A 922 N MSE A 923 1555 1555 1.36 LINK C MSE A 923 N ARG A 924 1555 1555 1.36 LINK C ASP A 928 N MSE A 929 1555 1555 1.34 LINK C MSE A 929 N ASP A 930 1555 1555 1.34 LINK C SER A1084 N MSE A1085 1555 1555 1.35 LINK C MSE A1085 N GLU A1086 1555 1555 1.34 LINK C LEU A1120 N MSE A1121 1555 1555 1.34 LINK C MSE A1121 N LYS A1122 1555 1555 1.34 LINK C LEU A1135 N MSE A1136 1555 1555 1.34 LINK C MSE A1136 N ASN A1137 1555 1555 1.35 LINK C VAL A1168 N MSE A1169 1555 1555 1.33 LINK C MSE A1169 N GLU A1170 1555 1555 1.34 LINK C LEU A1185 N MSE A1186 1555 1555 1.35 LINK C MSE A1186 N LEU A1187 1555 1555 1.32 CRYST1 38.140 70.645 127.800 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 0.026219 0.000000 0.000000 0.00000 SCALE2 0.000000 0.014155 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007825 0.00000