HEADER PLANT PROTEIN 01-NOV-05 2D5F TITLE CRYSTAL STRUCTURE OF RECOMBINANT SOYBEAN PROGLYCININ A3B4 SUBUNIT, ITS TITLE 2 COMPARISON WITH MATURE GLYCININ A3B4 SUBUNIT, RESPONSIBLE FOR HEXAMER TITLE 3 ASSEMBLY COMPND MOL_ID: 1; COMPND 2 MOLECULE: GLYCININ A3B4 SUBUNIT; COMPND 3 CHAIN: A, B SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: GLYCINE MAX; SOURCE 3 ORGANISM_COMMON: SOYBEAN; SOURCE 4 ORGANISM_TAXID: 3847; SOURCE 5 TISSUE: SEED KEYWDS GLYCININ, SOYBEAN, GLOBULIN, 11S,SEED STORAGE PROTEIN, PLANT PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR T.ITOH,M.ADACHI,T.MASUDA,B.MIKAMI,S.UTSUMI REVDAT 4 13-JUL-11 2D5F 1 VERSN REVDAT 3 21-APR-10 2D5F 1 JRNL REVDAT 2 24-FEB-09 2D5F 1 VERSN REVDAT 1 14-NOV-06 2D5F 0 JRNL AUTH M.R.TANDANG-SILVAS,T.FUKUDA,C.FUKUDA,K.PRAK,C.CABANOS, JRNL AUTH 2 A.KIMURA,T.ITOH,B.MIKAMI,S.UTSUMI,N.MARUYAMA JRNL TITL CONSERVATION AND DIVERGENCE ON PLANT SEED 11S GLOBULINS JRNL TITL 2 BASED ON CRYSTAL STRUCTURES. JRNL REF BIOCHIM.BIOPHYS.ACTA 2010 JRNL REFN ISSN 0006-3002 JRNL PMID 20215054 JRNL DOI 10.1016/J.BBAPAP.2010.02.016 REMARK 2 REMARK 2 RESOLUTION. 1.90 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 1.1 REMARK 3 AUTHORS : BRUNGER,ADAMS,CLORE,DELANO,GROS,GROSSE- REMARK 3 : KUNSTLEVE,JIANG,KUSZEWSKI,NILGES,PANNU, REMARK 3 : READ,RICE,SIMONSON,WARREN REMARK 3 REMARK 3 REFINEMENT TARGET : ENGH & HUBER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.90 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 14.79 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : 508524.700 REMARK 3 DATA CUTOFF LOW (ABS(F)) : 0.0000 REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 87.0 REMARK 3 NUMBER OF REFLECTIONS : 61702 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 SET) : 0.182 REMARK 3 FREE R VALUE : 0.225 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 10.200 REMARK 3 FREE R VALUE TEST SET COUNT : 6263 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.003 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 6 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 1.90 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.02 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 67.90 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 7231 REMARK 3 BIN R VALUE (WORKING SET) : 0.2890 REMARK 3 BIN FREE R VALUE : 0.3210 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 9.80 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 789 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.011 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 6045 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 10 REMARK 3 SOLVENT ATOMS : 458 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 13.70 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 31.30 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 4.34000 REMARK 3 B22 (A**2) : 4.34000 REMARK 3 B33 (A**2) : -8.68000 REMARK 3 B12 (A**2) : 3.51000 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) : 0.21 REMARK 3 ESD FROM SIGMAA (A) : 0.26 REMARK 3 LOW RESOLUTION CUTOFF (A) : 5.00 REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : 0.27 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.29 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.006 REMARK 3 BOND ANGLES (DEGREES) : 1.40 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 25.40 REMARK 3 IMPROPER ANGLES (DEGREES) : 0.82 REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : RESTRAINED REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : 3.660 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 4.430 ; 2.000 REMARK 3 SIDE-CHAIN BOND (A**2) : 5.530 ; 2.000 REMARK 3 SIDE-CHAIN ANGLE (A**2) : 7.030 ; 2.500 REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : FLAT MODEL REMARK 3 KSOL : 0.38 REMARK 3 BSOL : 62.49 REMARK 3 REMARK 3 NCS MODEL : NULL REMARK 3 REMARK 3 NCS RESTRAINTS. RMS SIGMA/WEIGHT REMARK 3 GROUP 1 POSITIONAL (A) : NULL ; NULL REMARK 3 GROUP 1 B-FACTOR (A**2) : NULL ; NULL REMARK 3 REMARK 3 PARAMETER FILE 1 : PROTEIN_REP.PARAM REMARK 3 PARAMETER FILE 2 : WATER_REP.PARAM REMARK 3 PARAMETER FILE 3 : ION.PARAM REMARK 3 PARAMETER FILE 4 : CO3_XPLOR_PAR.TXT REMARK 3 PARAMETER FILE 5 : NULL REMARK 3 TOPOLOGY FILE 1 : PROTEIN.TOP REMARK 3 TOPOLOGY FILE 2 : WATER.TOP REMARK 3 TOPOLOGY FILE 3 : ION.TOP REMARK 3 TOPOLOGY FILE 4 : CO3_XPLOR_TOP.TXT REMARK 3 TOPOLOGY FILE 5 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2D5F COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 10-NOV-05. REMARK 100 THE RCSB ID CODE IS RCSB025008. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 08-NOV-04 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 4.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SPRING-8 REMARK 200 BEAMLINE : BL38B1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 4 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 67187 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.900 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 94.7 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.90 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.97 REMARK 200 COMPLETENESS FOR SHELL (%) : 81.0 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: CNS REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 40.95 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.08 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 30% MPD, 0.1M MES, PH 4.0, VAPOR REMARK 280 DIFFUSION, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: H 3 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z REMARK 290 3555 -X+Y,-X,Z REMARK 290 4555 X+2/3,Y+1/3,Z+1/3 REMARK 290 5555 -Y+2/3,X-Y+1/3,Z+1/3 REMARK 290 6555 -X+Y+2/3,-X+1/3,Z+1/3 REMARK 290 7555 X+1/3,Y+2/3,Z+2/3 REMARK 290 8555 -Y+1/3,X-Y+2/3,Z+2/3 REMARK 290 9555 -X+Y+1/3,-X+2/3,Z+2/3 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 0.00000 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 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 56.16700 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 32.42803 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 63.80333 REMARK 290 SMTRY1 5 -0.500000 -0.866025 0.000000 56.16700 REMARK 290 SMTRY2 5 0.866025 -0.500000 0.000000 32.42803 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 63.80333 REMARK 290 SMTRY1 6 -0.500000 0.866025 0.000000 56.16700 REMARK 290 SMTRY2 6 -0.866025 -0.500000 0.000000 32.42803 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 63.80333 REMARK 290 SMTRY1 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 64.85607 REMARK 290 SMTRY3 7 0.000000 0.000000 1.000000 127.60667 REMARK 290 SMTRY1 8 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 8 0.866025 -0.500000 0.000000 64.85607 REMARK 290 SMTRY3 8 0.000000 0.000000 1.000000 127.60667 REMARK 290 SMTRY1 9 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 9 -0.866025 -0.500000 0.000000 64.85607 REMARK 290 SMTRY3 9 0.000000 0.000000 1.000000 127.60667 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: HEXAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: HEXAMERIC REMARK 350 SOFTWARE USED: PISA,PQS REMARK 350 TOTAL BURIED SURFACE AREA: 47590 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 65020 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -266.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, 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 350 BIOMT1 2 -0.500000 -0.866025 0.000000 56.16700 REMARK 350 BIOMT2 2 0.866025 -0.500000 0.000000 97.28410 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 3 -0.500000 0.866025 0.000000 -56.16700 REMARK 350 BIOMT2 3 -0.866025 -0.500000 0.000000 97.28410 REMARK 350 BIOMT3 3 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 ILE A 1 REMARK 465 THR A 2 REMARK 465 SER A 3 REMARK 465 SER A 4 REMARK 465 LYS A 5 REMARK 465 PHE A 6 REMARK 465 GLN A 93 REMARK 465 GLN A 94 REMARK 465 GLN A 95 REMARK 465 SER A 96 REMARK 465 SER A 97 REMARK 465 ARG A 98 REMARK 465 ARG A 99 REMARK 465 GLY A 100 REMARK 465 SER A 101 REMARK 465 ARG A 102 REMARK 465 SER A 103 REMARK 465 GLN A 104 REMARK 465 GLN A 105 REMARK 465 GLN A 179 REMARK 465 GLN A 180 REMARK 465 GLN A 181 REMARK 465 GLN A 182 REMARK 465 GLN A 183 REMARK 465 LYS A 184 REMARK 465 SER A 185 REMARK 465 HIS A 186 REMARK 465 GLY A 187 REMARK 465 GLY A 188 REMARK 465 ARG A 189 REMARK 465 LYS A 190 REMARK 465 GLN A 191 REMARK 465 GLY A 192 REMARK 465 GLN A 193 REMARK 465 HIS A 194 REMARK 465 GLN A 195 REMARK 465 GLN A 196 REMARK 465 GLN A 197 REMARK 465 GLU A 198 REMARK 465 GLU A 199 REMARK 465 GLN A 252 REMARK 465 GLU A 253 REMARK 465 GLN A 254 REMARK 465 GLU A 255 REMARK 465 ASP A 256 REMARK 465 GLU A 257 REMARK 465 ASP A 258 REMARK 465 GLU A 259 REMARK 465 ASP A 260 REMARK 465 GLU A 261 REMARK 465 ASP A 262 REMARK 465 GLU A 263 REMARK 465 GLU A 264 REMARK 465 TYR A 265 REMARK 465 GLU A 266 REMARK 465 GLN A 267 REMARK 465 THR A 268 REMARK 465 PRO A 269 REMARK 465 SER A 270 REMARK 465 TYR A 271 REMARK 465 PRO A 272 REMARK 465 PRO A 273 REMARK 465 ARG A 274 REMARK 465 ARG A 275 REMARK 465 PRO A 276 REMARK 465 SER A 277 REMARK 465 HIS A 278 REMARK 465 GLY A 279 REMARK 465 LYS A 280 REMARK 465 HIS A 281 REMARK 465 GLU A 282 REMARK 465 ASP A 283 REMARK 465 ASP A 284 REMARK 465 GLU A 285 REMARK 465 ASP A 286 REMARK 465 GLU A 287 REMARK 465 ASP A 288 REMARK 465 GLU A 289 REMARK 465 GLU A 290 REMARK 465 GLU A 291 REMARK 465 ASP A 292 REMARK 465 GLN A 293 REMARK 465 PRO A 294 REMARK 465 ARG A 295 REMARK 465 PRO A 296 REMARK 465 ASP A 297 REMARK 465 HIS A 298 REMARK 465 PRO A 299 REMARK 465 PRO A 300 REMARK 465 GLN A 301 REMARK 465 ARG A 302 REMARK 465 PRO A 303 REMARK 465 SER A 304 REMARK 465 ARG A 305 REMARK 465 PRO A 306 REMARK 465 GLU A 307 REMARK 465 GLN A 308 REMARK 465 GLN A 309 REMARK 465 GLU A 310 REMARK 465 PRO A 311 REMARK 465 ARG A 312 REMARK 465 GLY A 313 REMARK 465 ARG A 314 REMARK 465 GLY A 315 REMARK 465 CYS A 316 REMARK 465 GLN A 317 REMARK 465 THR A 318 REMARK 465 ARG A 319 REMARK 465 ASN A 320 REMARK 465 ILE B 1 REMARK 465 THR B 2 REMARK 465 SER B 3 REMARK 465 SER B 4 REMARK 465 LYS B 5 REMARK 465 PHE B 6 REMARK 465 GLN B 94 REMARK 465 GLN B 95 REMARK 465 SER B 96 REMARK 465 SER B 97 REMARK 465 ARG B 98 REMARK 465 ARG B 99 REMARK 465 GLY B 100 REMARK 465 SER B 101 REMARK 465 ARG B 102 REMARK 465 SER B 103 REMARK 465 GLN B 104 REMARK 465 GLN B 105 REMARK 465 GLN B 179 REMARK 465 GLN B 180 REMARK 465 GLN B 181 REMARK 465 GLN B 182 REMARK 465 GLN B 183 REMARK 465 LYS B 184 REMARK 465 SER B 185 REMARK 465 HIS B 186 REMARK 465 GLY B 187 REMARK 465 GLY B 188 REMARK 465 ARG B 189 REMARK 465 LYS B 190 REMARK 465 GLN B 191 REMARK 465 GLY B 192 REMARK 465 GLN B 193 REMARK 465 HIS B 194 REMARK 465 GLN B 195 REMARK 465 GLN B 196 REMARK 465 GLN B 197 REMARK 465 GLU B 198 REMARK 465 GLU B 199 REMARK 465 GLN B 252 REMARK 465 GLU B 253 REMARK 465 GLN B 254 REMARK 465 GLU B 255 REMARK 465 ASP B 256 REMARK 465 GLU B 257 REMARK 465 ASP B 258 REMARK 465 GLU B 259 REMARK 465 ASP B 260 REMARK 465 GLU B 261 REMARK 465 ASP B 262 REMARK 465 GLU B 263 REMARK 465 GLU B 264 REMARK 465 TYR B 265 REMARK 465 GLU B 266 REMARK 465 GLN B 267 REMARK 465 THR B 268 REMARK 465 PRO B 269 REMARK 465 SER B 270 REMARK 465 TYR B 271 REMARK 465 PRO B 272 REMARK 465 PRO B 273 REMARK 465 ARG B 274 REMARK 465 ARG B 275 REMARK 465 PRO B 276 REMARK 465 SER B 277 REMARK 465 HIS B 278 REMARK 465 GLY B 279 REMARK 465 LYS B 280 REMARK 465 HIS B 281 REMARK 465 GLU B 282 REMARK 465 ASP B 283 REMARK 465 ASP B 284 REMARK 465 GLU B 285 REMARK 465 ASP B 286 REMARK 465 GLU B 287 REMARK 465 ASP B 288 REMARK 465 GLU B 289 REMARK 465 GLU B 290 REMARK 465 GLU B 291 REMARK 465 ASP B 292 REMARK 465 GLN B 293 REMARK 465 PRO B 294 REMARK 465 ARG B 295 REMARK 465 PRO B 296 REMARK 465 ASP B 297 REMARK 465 HIS B 298 REMARK 465 PRO B 299 REMARK 465 PRO B 300 REMARK 465 GLN B 301 REMARK 465 ARG B 302 REMARK 465 PRO B 303 REMARK 465 SER B 304 REMARK 465 ARG B 305 REMARK 465 PRO B 306 REMARK 465 GLU B 307 REMARK 465 GLN B 308 REMARK 465 GLN B 309 REMARK 465 GLU B 310 REMARK 465 PRO B 311 REMARK 465 ARG B 312 REMARK 465 GLY B 313 REMARK 465 ARG B 314 REMARK 465 GLY B 315 REMARK 465 CYS B 316 REMARK 465 GLN B 317 REMARK 465 THR B 318 REMARK 465 ARG B 319 REMARK 465 ASN B 320 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 64 23.81 -71.12 REMARK 500 LEU A 156 -98.14 -87.35 REMARK 500 GLN A 158 7.58 -63.55 REMARK 500 LYS A 235 -166.86 73.39 REMARK 500 SER A 248 141.89 -178.68 REMARK 500 GLU A 323 -74.27 -56.67 REMARK 500 GLU A 324 -31.47 -30.82 REMARK 500 ASN A 325 -108.41 -114.78 REMARK 500 PRO A 382 118.10 -39.57 REMARK 500 ASN A 427 -13.58 74.57 REMARK 500 PRO B 64 30.14 -78.60 REMARK 500 LEU B 156 -98.30 -89.37 REMARK 500 LYS B 235 -174.01 76.79 REMARK 500 SER B 248 138.86 -172.39 REMARK 500 ASN B 325 -101.36 -120.02 REMARK 500 MET B 329 120.12 -39.14 REMARK 500 ASP B 413 94.43 -161.43 REMARK 500 ASN B 427 -10.85 69.52 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A1054 DISTANCE = 5.16 ANGSTROMS REMARK 525 HOH A1367 DISTANCE = 5.55 ANGSTROMS REMARK 525 HOH B1301 DISTANCE = 6.49 ANGSTROMS REMARK 525 HOH B1314 DISTANCE = 5.52 ANGSTROMS REMARK 525 HOH B1445 DISTANCE = 7.11 ANGSTROMS REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CO3 A 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CO3 B 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG B 601 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 602 DBREF 2D5F A 1 493 UNP Q7GC77 Q7GC77_SOYBN 25 517 DBREF 2D5F B 1 493 UNP Q7GC77 Q7GC77_SOYBN 25 517 SEQRES 1 A 493 ILE THR SER SER LYS PHE ASN GLU CYS GLN LEU ASN ASN SEQRES 2 A 493 LEU ASN ALA LEU GLU PRO ASP HIS ARG VAL GLU SER GLU SEQRES 3 A 493 GLY GLY LEU ILE GLU THR TRP ASN SER GLN HIS PRO GLU SEQRES 4 A 493 LEU GLN CYS ALA GLY VAL THR VAL SER LYS ARG THR LEU SEQRES 5 A 493 ASN ARG ASN GLY LEU HIS LEU PRO SER TYR SER PRO TYR SEQRES 6 A 493 PRO GLN MET ILE ILE VAL VAL GLN GLY LYS GLY ALA ILE SEQRES 7 A 493 GLY PHE ALA PHE PRO GLY CYS PRO GLU THR PHE GLU LYS SEQRES 8 A 493 PRO GLN GLN GLN SER SER ARG ARG GLY SER ARG SER GLN SEQRES 9 A 493 GLN GLN LEU GLN ASP SER HIS GLN LYS ILE ARG HIS PHE SEQRES 10 A 493 ASN GLU GLY ASP VAL LEU VAL ILE PRO PRO GLY VAL PRO SEQRES 11 A 493 TYR TRP THR TYR ASN THR GLY ASP GLU PRO VAL VAL ALA SEQRES 12 A 493 ILE SER LEU LEU ASP THR SER ASN PHE ASN ASN GLN LEU SEQRES 13 A 493 ASP GLN ASN PRO ARG VAL PHE TYR LEU ALA GLY ASN PRO SEQRES 14 A 493 ASP ILE GLU HIS PRO GLU THR MET GLN GLN GLN GLN GLN SEQRES 15 A 493 GLN LYS SER HIS GLY GLY ARG LYS GLN GLY GLN HIS GLN SEQRES 16 A 493 GLN GLN GLU GLU GLU GLY GLY SER VAL LEU SER GLY PHE SEQRES 17 A 493 SER LYS HIS PHE LEU ALA GLN SER PHE ASN THR ASN GLU SEQRES 18 A 493 ASP THR ALA GLU LYS LEU ARG SER PRO ASP ASP GLU ARG SEQRES 19 A 493 LYS GLN ILE VAL THR VAL GLU GLY GLY LEU SER VAL ILE SEQRES 20 A 493 SER PRO LYS TRP GLN GLU GLN GLU ASP GLU ASP GLU ASP SEQRES 21 A 493 GLU ASP GLU GLU TYR GLU GLN THR PRO SER TYR PRO PRO SEQRES 22 A 493 ARG ARG PRO SER HIS GLY LYS HIS GLU ASP ASP GLU ASP SEQRES 23 A 493 GLU ASP GLU GLU GLU ASP GLN PRO ARG PRO ASP HIS PRO SEQRES 24 A 493 PRO GLN ARG PRO SER ARG PRO GLU GLN GLN GLU PRO ARG SEQRES 25 A 493 GLY ARG GLY CYS GLN THR ARG ASN GLY VAL GLU GLU ASN SEQRES 26 A 493 ILE CYS THR MET LYS LEU HIS GLU ASN ILE ALA ARG PRO SEQRES 27 A 493 SER ARG ALA ASP PHE TYR ASN PRO LYS ALA GLY ARG ILE SEQRES 28 A 493 SER THR LEU ASN SER LEU THR LEU PRO ALA LEU ARG GLN SEQRES 29 A 493 PHE GLY LEU SER ALA GLN TYR VAL VAL LEU TYR ARG ASN SEQRES 30 A 493 GLY ILE TYR SER PRO HIS TRP ASN LEU ASN ALA ASN SER SEQRES 31 A 493 VAL ILE TYR VAL THR ARG GLY LYS GLY ARG VAL ARG VAL SEQRES 32 A 493 VAL ASN CSD GLN GLY ASN ALA VAL PHE ASP GLY GLU LEU SEQRES 33 A 493 ARG ARG GLY GLN LEU LEU VAL VAL PRO GLN ASN PHE VAL SEQRES 34 A 493 VAL ALA GLU GLN GLY GLY GLU GLN GLY LEU GLU TYR VAL SEQRES 35 A 493 VAL PHE LYS THR HIS HIS ASN ALA VAL SER SER TYR ILE SEQRES 36 A 493 LYS ASP VAL PHE ARG ALA ILE PRO SER GLU VAL LEU SER SEQRES 37 A 493 ASN SER TYR ASN LEU GLY GLN SER GLN VAL ARG GLN LEU SEQRES 38 A 493 LYS TYR GLN GLY ASN SER GLY PRO LEU VAL ASN PRO SEQRES 1 B 493 ILE THR SER SER LYS PHE ASN GLU CYS GLN LEU ASN ASN SEQRES 2 B 493 LEU ASN ALA LEU GLU PRO ASP HIS ARG VAL GLU SER GLU SEQRES 3 B 493 GLY GLY LEU ILE GLU THR TRP ASN SER GLN HIS PRO GLU SEQRES 4 B 493 LEU GLN CYS ALA GLY VAL THR VAL SER LYS ARG THR LEU SEQRES 5 B 493 ASN ARG ASN GLY LEU HIS LEU PRO SER TYR SER PRO TYR SEQRES 6 B 493 PRO GLN MET ILE ILE VAL VAL GLN GLY LYS GLY ALA ILE SEQRES 7 B 493 GLY PHE ALA PHE PRO GLY CYS PRO GLU THR PHE GLU LYS SEQRES 8 B 493 PRO GLN GLN GLN SER SER ARG ARG GLY SER ARG SER GLN SEQRES 9 B 493 GLN GLN LEU GLN ASP SER HIS GLN LYS ILE ARG HIS PHE SEQRES 10 B 493 ASN GLU GLY ASP VAL LEU VAL ILE PRO PRO GLY VAL PRO SEQRES 11 B 493 TYR TRP THR TYR ASN THR GLY ASP GLU PRO VAL VAL ALA SEQRES 12 B 493 ILE SER LEU LEU ASP THR SER ASN PHE ASN ASN GLN LEU SEQRES 13 B 493 ASP GLN ASN PRO ARG VAL PHE TYR LEU ALA GLY ASN PRO SEQRES 14 B 493 ASP ILE GLU HIS PRO GLU THR MET GLN GLN GLN GLN GLN SEQRES 15 B 493 GLN LYS SER HIS GLY GLY ARG LYS GLN GLY GLN HIS GLN SEQRES 16 B 493 GLN GLN GLU GLU GLU GLY GLY SER VAL LEU SER GLY PHE SEQRES 17 B 493 SER LYS HIS PHE LEU ALA GLN SER PHE ASN THR ASN GLU SEQRES 18 B 493 ASP THR ALA GLU LYS LEU ARG SER PRO ASP ASP GLU ARG SEQRES 19 B 493 LYS GLN ILE VAL THR VAL GLU GLY GLY LEU SER VAL ILE SEQRES 20 B 493 SER PRO LYS TRP GLN GLU GLN GLU ASP GLU ASP GLU ASP SEQRES 21 B 493 GLU ASP GLU GLU TYR GLU GLN THR PRO SER TYR PRO PRO SEQRES 22 B 493 ARG ARG PRO SER HIS GLY LYS HIS GLU ASP ASP GLU ASP SEQRES 23 B 493 GLU ASP GLU GLU GLU ASP GLN PRO ARG PRO ASP HIS PRO SEQRES 24 B 493 PRO GLN ARG PRO SER ARG PRO GLU GLN GLN GLU PRO ARG SEQRES 25 B 493 GLY ARG GLY CYS GLN THR ARG ASN GLY VAL GLU GLU ASN SEQRES 26 B 493 ILE CYS THR MET LYS LEU HIS GLU ASN ILE ALA ARG PRO SEQRES 27 B 493 SER ARG ALA ASP PHE TYR ASN PRO LYS ALA GLY ARG ILE SEQRES 28 B 493 SER THR LEU ASN SER LEU THR LEU PRO ALA LEU ARG GLN SEQRES 29 B 493 PHE GLY LEU SER ALA GLN TYR VAL VAL LEU TYR ARG ASN SEQRES 30 B 493 GLY ILE TYR SER PRO HIS TRP ASN LEU ASN ALA ASN SER SEQRES 31 B 493 VAL ILE TYR VAL THR ARG GLY LYS GLY ARG VAL ARG VAL SEQRES 32 B 493 VAL ASN CSD GLN GLY ASN ALA VAL PHE ASP GLY GLU LEU SEQRES 33 B 493 ARG ARG GLY GLN LEU LEU VAL VAL PRO GLN ASN PHE VAL SEQRES 34 B 493 VAL ALA GLU GLN GLY GLY GLU GLN GLY LEU GLU TYR VAL SEQRES 35 B 493 VAL PHE LYS THR HIS HIS ASN ALA VAL SER SER TYR ILE SEQRES 36 B 493 LYS ASP VAL PHE ARG ALA ILE PRO SER GLU VAL LEU SER SEQRES 37 B 493 ASN SER TYR ASN LEU GLY GLN SER GLN VAL ARG GLN LEU SEQRES 38 B 493 LYS TYR GLN GLY ASN SER GLY PRO LEU VAL ASN PRO MODRES 2D5F CSD A 406 CYS 3-SULFINOALANINE MODRES 2D5F CSD B 406 CYS 3-SULFINOALANINE HET CSD A 406 8 HET CSD B 406 8 HET CO3 A 501 4 HET MG A 602 1 HET CO3 B 502 4 HET MG B 601 1 HETNAM CSD 3-SULFINOALANINE HETNAM CO3 CARBONATE ION HETNAM MG MAGNESIUM ION HETSYN CSD S-CYSTEINESULFINIC ACID; S-SULFINOCYSTEINE FORMUL 1 CSD 2(C3 H7 N O4 S) FORMUL 3 CO3 2(C O3 2-) FORMUL 4 MG 2(MG 2+) FORMUL 7 HOH *458(H2 O) HELIX 1 1 HIS A 37 GLY A 44 1 8 HELIX 2 2 HIS A 173 MET A 177 5 5 HELIX 3 3 SER A 203 PHE A 208 5 6 HELIX 4 4 SER A 209 PHE A 217 1 9 HELIX 5 5 ASN A 220 LEU A 227 1 8 HELIX 6 6 ASN A 325 MET A 329 5 5 HELIX 7 7 ARG A 337 ALA A 341 5 5 HELIX 8 8 ALA A 361 GLY A 366 1 6 HELIX 9 9 ILE A 455 ILE A 462 1 8 HELIX 10 10 PRO A 463 ASN A 472 1 10 HELIX 11 11 GLY A 474 GLN A 484 1 11 HELIX 12 12 HIS B 37 GLY B 44 1 8 HELIX 13 13 HIS B 173 GLN B 178 5 6 HELIX 14 14 VAL B 204 PHE B 208 5 5 HELIX 15 15 SER B 209 PHE B 217 1 9 HELIX 16 16 ASN B 220 LEU B 227 1 8 HELIX 17 17 ASN B 325 MET B 329 5 5 HELIX 18 18 ARG B 337 ALA B 341 5 5 HELIX 19 19 ALA B 361 GLY B 366 1 6 HELIX 20 20 ILE B 455 ILE B 462 1 8 HELIX 21 21 PRO B 463 ASN B 472 1 10 HELIX 22 22 GLY B 474 GLN B 484 1 11 SHEET 1 A 7 HIS A 21 GLU A 24 0 SHEET 2 A 7 GLY A 28 THR A 32 -1 O ILE A 30 N VAL A 23 SHEET 3 A 7 THR A 46 LEU A 52 -1 O LYS A 49 N GLU A 31 SHEET 4 A 7 VAL A 141 LEU A 147 -1 O SER A 145 N SER A 48 SHEET 5 A 7 GLN A 67 GLN A 73 -1 N MET A 68 O LEU A 146 SHEET 6 A 7 ASP A 121 ILE A 125 -1 O LEU A 123 N ILE A 69 SHEET 7 A 7 HIS A 332 ASN A 334 -1 O GLU A 333 N VAL A 122 SHEET 1 B 5 ILE A 114 ASN A 118 0 SHEET 2 B 5 LYS A 75 PHE A 80 -1 N ILE A 78 O ARG A 115 SHEET 3 B 5 TYR A 131 ASN A 135 -1 O TRP A 132 N GLY A 79 SHEET 4 B 5 GLY A 56 TYR A 62 -1 N HIS A 58 O THR A 133 SHEET 5 B 5 PHE A 163 TYR A 164 -1 O PHE A 163 N TYR A 62 SHEET 1 C 5 ILE A 114 ASN A 118 0 SHEET 2 C 5 LYS A 75 PHE A 80 -1 N ILE A 78 O ARG A 115 SHEET 3 C 5 TYR A 131 ASN A 135 -1 O TRP A 132 N GLY A 79 SHEET 4 C 5 GLY A 56 TYR A 62 -1 N HIS A 58 O THR A 133 SHEET 5 C 5 ILE A 237 THR A 239 -1 O VAL A 238 N LEU A 57 SHEET 1 D 2 PHE A 89 LYS A 91 0 SHEET 2 D 2 ASP A 109 HIS A 111 -1 O ASP A 109 N LYS A 91 SHEET 1 E 6 PHE A 343 ASN A 345 0 SHEET 2 E 6 GLY A 349 LEU A 354 -1 N GLY A 349 O ASN A 345 SHEET 3 E 6 SER A 368 LEU A 374 -1 O ALA A 369 N LEU A 354 SHEET 4 E 6 VAL A 429 LYS A 445 -1 O LEU A 439 N LEU A 374 SHEET 5 E 6 SER A 390 VAL A 404 -1 N VAL A 404 O VAL A 429 SHEET 6 E 6 LEU A 421 VAL A 424 -1 O LEU A 422 N ILE A 392 SHEET 1 F 5 ALA A 410 ARG A 417 0 SHEET 2 F 5 SER A 390 VAL A 404 -1 N VAL A 401 O GLY A 414 SHEET 3 F 5 VAL A 429 LYS A 445 -1 O VAL A 429 N VAL A 404 SHEET 4 F 5 ILE A 379 ASN A 385 -1 N HIS A 383 O VAL A 430 SHEET 5 F 5 SER A 452 TYR A 454 -1 O SER A 453 N TRP A 384 SHEET 1 G 7 HIS B 21 GLU B 24 0 SHEET 2 G 7 GLY B 28 THR B 32 -1 O THR B 32 N HIS B 21 SHEET 3 G 7 THR B 46 LEU B 52 -1 O LYS B 49 N GLU B 31 SHEET 4 G 7 VAL B 141 LEU B 147 -1 O SER B 145 N SER B 48 SHEET 5 G 7 GLN B 67 GLN B 73 -1 N MET B 68 O LEU B 146 SHEET 6 G 7 ASP B 121 ILE B 125 -1 O LEU B 123 N ILE B 69 SHEET 7 G 7 HIS B 332 ASN B 334 -1 O GLU B 333 N VAL B 122 SHEET 1 H 5 ILE B 114 ASN B 118 0 SHEET 2 H 5 LYS B 75 PHE B 80 -1 N ILE B 78 O ARG B 115 SHEET 3 H 5 TYR B 131 ASN B 135 -1 O TRP B 132 N GLY B 79 SHEET 4 H 5 GLY B 56 TYR B 62 -1 N HIS B 58 O THR B 133 SHEET 5 H 5 PHE B 163 TYR B 164 -1 O PHE B 163 N TYR B 62 SHEET 1 I 5 ILE B 114 ASN B 118 0 SHEET 2 I 5 LYS B 75 PHE B 80 -1 N ILE B 78 O ARG B 115 SHEET 3 I 5 TYR B 131 ASN B 135 -1 O TRP B 132 N GLY B 79 SHEET 4 I 5 GLY B 56 TYR B 62 -1 N HIS B 58 O THR B 133 SHEET 5 I 5 ILE B 237 THR B 239 -1 O VAL B 238 N LEU B 57 SHEET 1 J 2 PHE B 89 LYS B 91 0 SHEET 2 J 2 ASP B 109 HIS B 111 -1 O ASP B 109 N LYS B 91 SHEET 1 K 6 PHE B 343 ASN B 345 0 SHEET 2 K 6 GLY B 349 LEU B 354 -1 N GLY B 349 O ASN B 345 SHEET 3 K 6 SER B 368 LEU B 374 -1 O ALA B 369 N LEU B 354 SHEET 4 K 6 VAL B 429 LYS B 445 -1 O LEU B 439 N LEU B 374 SHEET 5 K 6 SER B 390 VAL B 404 -1 N VAL B 404 O VAL B 429 SHEET 6 K 6 LEU B 421 VAL B 424 -1 O LEU B 422 N ILE B 392 SHEET 1 L 5 ALA B 410 ARG B 417 0 SHEET 2 L 5 SER B 390 VAL B 404 -1 N VAL B 401 O GLY B 414 SHEET 3 L 5 VAL B 429 LYS B 445 -1 O VAL B 429 N VAL B 404 SHEET 4 L 5 ILE B 379 ASN B 385 -1 N HIS B 383 O VAL B 430 SHEET 5 L 5 SER B 452 TYR B 454 -1 O SER B 453 N TRP B 384 SSBOND 1 CYS A 9 CYS A 42 1555 1555 2.03 SSBOND 2 CYS A 85 CYS A 327 1555 1555 2.03 SSBOND 3 CYS B 9 CYS B 42 1555 1555 2.04 SSBOND 4 CYS B 85 CYS B 327 1555 1555 2.03 LINK C ASN A 405 N CSD A 406 1555 1555 1.33 LINK C CSD A 406 N GLN A 407 1555 1555 1.33 LINK C ASN B 405 N CSD B 406 1555 1555 1.34 LINK C CSD B 406 N GLN B 407 1555 1555 1.33 SITE 1 AC1 4 ARG A 50 HIS A 58 TYR A 131 THR A 133 SITE 1 AC2 4 ARG B 50 HIS B 58 TYR B 131 THR B 133 SITE 1 AC3 3 HIS B 383 GLU B 432 TYR B 441 SITE 1 AC4 4 HIS A 383 GLU A 432 TYR A 441 HOH A1275 CRYST1 112.334 112.334 191.410 90.00 90.00 120.00 H 3 18 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 0.008902 0.005140 0.000000 0.00000 SCALE2 0.000000 0.010279 0.000000 0.00000 SCALE3 0.000000 0.000000 0.005224 0.00000