HEADER TRANSFERASE 28-JUN-12 3VUF TITLE CRYSTAL STRUCTURE OF RICE GRANULE BOUND STARCH SYNTHASE I CATALYTIC TITLE 2 DOMAIN IN COMPLEX WITH ADP COMPND MOL_ID: 1; COMPND 2 MOLECULE: GRANULE-BOUND STARCH SYNTHASE 1, COMPND 3 CHLOROPLASTIC/AMYLOPLASTIC; COMPND 4 CHAIN: A; COMPND 5 FRAGMENT: CATALYTIC DOMAIN, UNP RESIDUES 83-609; COMPND 6 SYNONYM: GBSS-I; COMPND 7 EC: 2.4.1.242; COMPND 8 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ORYZA SATIVA JAPONICA GROUP; SOURCE 3 ORGANISM_COMMON: JAPANESE RICE; SOURCE 4 ORGANISM_TAXID: 39947; SOURCE 5 STRAIN: JAPONICA CULTIVAR-GROUP; SOURCE 6 GENE: WAXY, WX, WX-B, OS06G0133000, LOC_OS06G04200, 134P10.7, SOURCE 7 P0679C08.19; SOURCE 8 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 9 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 10 EXPRESSION_SYSTEM_STRAIN: BL-21(DE3) GOLD; SOURCE 11 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 12 EXPRESSION_SYSTEM_PLASMID: PET45B KEYWDS ROSSMANN FOLD, GLYCOSYLTRANSFERASE, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR M.MOMMA,Z.FUJIMOTO REVDAT 3 08-NOV-23 3VUF 1 REMARK SEQADV REVDAT 2 20-DEC-17 3VUF 1 JRNL REVDAT 1 05-SEP-12 3VUF 0 JRNL AUTH M.MOMMA,Z.FUJIMOTO JRNL TITL INTERDOMAIN DISULFIDE BRIDGE IN THE RICE GRANULE BOUND JRNL TITL 2 STARCH SYNTHASE I CATALYTIC DOMAIN AS ELUCIDATED BY X-RAY JRNL TITL 3 STRUCTURE ANALYSIS JRNL REF BIOSCI.BIOTECHNOL.BIOCHEM. V. 76 1591 2012 JRNL REFN ISSN 0916-8451 JRNL PMID 22878205 JRNL DOI 10.1271/BBB.120305 REMARK 2 REMARK 2 RESOLUTION. 3.00 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0109 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) : 3.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 35.19 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 98.9 REMARK 3 NUMBER OF REFLECTIONS : 12161 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) : 0.224 REMARK 3 R VALUE (WORKING SET) : 0.221 REMARK 3 FREE R VALUE : 0.271 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.900 REMARK 3 FREE R VALUE TEST SET COUNT : 622 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) : 3.00 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 3.08 REMARK 3 REFLECTION IN BIN (WORKING SET) : 844 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 97.72 REMARK 3 BIN R VALUE (WORKING SET) : 0.2950 REMARK 3 BIN FREE R VALUE SET COUNT : 56 REMARK 3 BIN FREE R VALUE : 0.4620 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3812 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 42 REMARK 3 SOLVENT ATOMS : 10 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 93.30 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 69.86 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 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): NULL REMARK 3 ESU BASED ON FREE R VALUE (A): 0.467 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.321 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 17.379 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.931 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.901 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3938 ; 0.016 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5336 ; 1.619 ; 1.975 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 486 ; 6.392 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 173 ;34.078 ;23.988 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 672 ;21.431 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 25 ;19.511 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 578 ; 0.102 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2965 ; 0.007 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL 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): 2423 ; 1.061 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3895 ; 1.837 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1515 ; 1.954 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1441 ; 3.404 ; 4.500 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL 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 : 1.40 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 3VUF COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 03-JUL-12. REMARK 100 THE DEPOSITION ID IS D_1000095512. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 12-DEC-09 REMARK 200 TEMPERATURE (KELVIN) : 95 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : PHOTON FACTORY REMARK 200 BEAMLINE : BL-5A 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 : SI 111 REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 12909 REMARK 200 RESOLUTION RANGE HIGH (A) : 3.000 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 (%) : 99.8 REMARK 200 DATA REDUNDANCY : 14.00 REMARK 200 R MERGE (I) : 0.06700 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 24.5000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 3.00 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.11 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.9 REMARK 200 DATA REDUNDANCY IN SHELL : 12.70 REMARK 200 R MERGE FOR SHELL (I) : 0.66900 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 4.400 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: 3VUE REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 51.43 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.53 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 1.5M LITHIUM SULFATE, 0.1M HEPES, PH REMARK 280 7.5, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 4 3 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z REMARK 290 3555 -X,Y,-Z REMARK 290 4555 X,-Y,-Z REMARK 290 5555 Z,X,Y REMARK 290 6555 Z,-X,-Y REMARK 290 7555 -Z,-X,Y REMARK 290 8555 -Z,X,-Y REMARK 290 9555 Y,Z,X REMARK 290 10555 -Y,Z,-X REMARK 290 11555 Y,-Z,-X REMARK 290 12555 -Y,-Z,X REMARK 290 13555 Y,X,-Z REMARK 290 14555 -Y,-X,-Z REMARK 290 15555 Y,-X,Z REMARK 290 16555 -Y,X,Z REMARK 290 17555 X,Z,-Y REMARK 290 18555 -X,Z,Y REMARK 290 19555 -X,-Z,-Y REMARK 290 20555 X,-Z,Y REMARK 290 21555 Z,Y,-X REMARK 290 22555 Z,-Y,X REMARK 290 23555 -Z,Y,X REMARK 290 24555 -Z,-Y,-X REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 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 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY2 5 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY1 6 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY2 6 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY1 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY2 7 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY1 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY2 8 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY1 9 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 9 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY3 9 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY1 10 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 10 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY3 10 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY1 11 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 11 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY3 11 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY1 12 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 12 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY3 12 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY1 13 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 13 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 13 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 14 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 14 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 14 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 15 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 15 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 15 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 16 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 16 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 16 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 17 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 17 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY3 17 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY1 18 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 18 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY3 18 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY1 19 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 19 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY3 19 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY1 20 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 20 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY3 20 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY1 21 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY2 21 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 21 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY1 22 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY2 22 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 22 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY1 23 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY2 23 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 23 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY1 24 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY2 24 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 24 -1.000000 0.000000 0.000000 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 MET A 74 REMARK 465 ALA A 75 REMARK 465 HIS A 76 REMARK 465 HIS A 77 REMARK 465 HIS A 78 REMARK 465 HIS A 79 REMARK 465 HIS A 80 REMARK 465 VAL A 174 REMARK 465 TRP A 175 REMARK 465 GLY A 176 REMARK 465 LYS A 177 REMARK 465 THR A 178 REMARK 465 GLY A 179 REMARK 465 GLU A 180 REMARK 465 LYS A 181 REMARK 465 ILE A 182 REMARK 465 TYR A 183 REMARK 465 GLY A 184 REMARK 465 PRO A 185 REMARK 465 ASP A 186 REMARK 465 THR A 187 REMARK 465 GLY A 188 REMARK 465 VAL A 189 REMARK 465 ASP A 190 REMARK 465 TYR A 191 REMARK 465 ALA A 587 REMARK 465 GLY A 588 REMARK 465 SER A 589 REMARK 465 ALA A 590 REMARK 465 PRO A 591 REMARK 465 GLY A 592 REMARK 465 ILE A 593 REMARK 465 GLU A 594 REMARK 465 GLY A 595 REMARK 465 ASP A 596 REMARK 465 GLU A 597 REMARK 465 ILE A 598 REMARK 465 ALA A 599 REMARK 465 PRO A 600 REMARK 465 LEU A 601 REMARK 465 ALA A 602 REMARK 465 LYS A 603 REMARK 465 GLU A 604 REMARK 465 ASN A 605 REMARK 465 VAL A 606 REMARK 465 ALA A 607 REMARK 465 ALA A 608 REMARK 465 PRO A 609 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 HIS A 82 48.36 -143.23 REMARK 500 TRP A 95 -73.07 -52.18 REMARK 500 THR A 98 -68.03 -140.25 REMARK 500 ALA A 114 -9.06 -52.64 REMARK 500 ASP A 131 37.83 -78.93 REMARK 500 SER A 136 -37.43 68.47 REMARK 500 ALA A 144 -100.67 49.54 REMARK 500 ASP A 145 -61.34 -106.27 REMARK 500 ARG A 158 35.30 34.44 REMARK 500 HIS A 167 143.89 176.42 REMARK 500 PHE A 170 33.82 -73.15 REMARK 500 ASP A 193 50.95 -65.67 REMARK 500 ARG A 210 -69.48 -94.35 REMARK 500 ILE A 211 21.53 -70.77 REMARK 500 PRO A 218 -16.40 -48.38 REMARK 500 GLU A 226 27.81 -141.71 REMARK 500 ASP A 234 -178.28 54.48 REMARK 500 TYR A 243 -31.77 -39.70 REMARK 500 ASN A 251 63.75 -119.38 REMARK 500 TYR A 254 -63.19 69.93 REMARK 500 ARG A 255 -78.37 49.98 REMARK 500 GLU A 279 11.76 -59.74 REMARK 500 ASN A 281 41.16 34.89 REMARK 500 ASP A 297 -44.15 68.78 REMARK 500 PRO A 299 -0.77 -49.43 REMARK 500 GLU A 301 138.07 -37.59 REMARK 500 SER A 322 125.91 -179.11 REMARK 500 ILE A 330 -31.92 -33.53 REMARK 500 SER A 331 -77.84 -76.91 REMARK 500 ILE A 333 -1.97 -47.59 REMARK 500 ALA A 334 22.74 -48.24 REMARK 500 CYS A 337 -92.41 92.24 REMARK 500 ASN A 341 -38.12 58.35 REMARK 500 ILE A 342 -51.84 48.35 REMARK 500 ARG A 344 80.66 -56.02 REMARK 500 ASP A 373 -161.45 -120.17 REMARK 500 ASP A 397 117.20 -160.84 REMARK 500 LYS A 439 -178.95 -62.77 REMARK 500 PHE A 463 49.73 -95.52 REMARK 500 CYS A 487 -72.30 -113.38 REMARK 500 SER A 505 47.01 -73.90 REMARK 500 ASP A 528 80.15 -68.20 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 ADP A 701 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 702 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 703 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 704 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3VUE RELATED DB: PDB REMARK 900 SAME PROTEIN IN A LIGAND FREE FORM DBREF 3VUF A 83 609 UNP Q0DEV5 SSG1_ORYSJ 83 609 SEQADV 3VUF MET A 74 UNP Q0DEV5 EXPRESSION TAG SEQADV 3VUF ALA A 75 UNP Q0DEV5 EXPRESSION TAG SEQADV 3VUF HIS A 76 UNP Q0DEV5 EXPRESSION TAG SEQADV 3VUF HIS A 77 UNP Q0DEV5 EXPRESSION TAG SEQADV 3VUF HIS A 78 UNP Q0DEV5 EXPRESSION TAG SEQADV 3VUF HIS A 79 UNP Q0DEV5 EXPRESSION TAG SEQADV 3VUF HIS A 80 UNP Q0DEV5 EXPRESSION TAG SEQADV 3VUF HIS A 81 UNP Q0DEV5 EXPRESSION TAG SEQADV 3VUF HIS A 82 UNP Q0DEV5 EXPRESSION TAG SEQRES 1 A 536 MET ALA HIS HIS HIS HIS HIS HIS HIS MET ASN VAL VAL SEQRES 2 A 536 PHE VAL GLY ALA GLU MET ALA PRO TRP SER LYS THR GLY SEQRES 3 A 536 GLY LEU GLY ASP VAL LEU GLY GLY LEU PRO PRO ALA MET SEQRES 4 A 536 ALA ALA ASN GLY HIS ARG VAL MET VAL ILE SER PRO ARG SEQRES 5 A 536 TYR ASP GLN TYR LYS ASP ALA TRP ASP THR SER VAL VAL SEQRES 6 A 536 ALA GLU ILE LYS VAL ALA ASP ARG TYR GLU ARG VAL ARG SEQRES 7 A 536 PHE PHE HIS CYS TYR LYS ARG GLY VAL ASP ARG VAL PHE SEQRES 8 A 536 ILE ASP HIS PRO SER PHE LEU GLU LYS VAL TRP GLY LYS SEQRES 9 A 536 THR GLY GLU LYS ILE TYR GLY PRO ASP THR GLY VAL ASP SEQRES 10 A 536 TYR LYS ASP ASN GLN MET ARG PHE SER LEU LEU CYS GLN SEQRES 11 A 536 ALA ALA LEU GLU ALA PRO ARG ILE LEU ASN LEU ASN ASN SEQRES 12 A 536 ASN PRO TYR PHE LYS GLY THR TYR GLY GLU ASP VAL VAL SEQRES 13 A 536 PHE VAL CYS ASN ASP TRP HIS THR GLY PRO LEU ALA SER SEQRES 14 A 536 TYR LEU LYS ASN ASN TYR GLN PRO ASN GLY ILE TYR ARG SEQRES 15 A 536 ASN ALA LYS VAL ALA PHE CYS ILE HIS ASN ILE SER TYR SEQRES 16 A 536 GLN GLY ARG PHE ALA PHE GLU ASP TYR PRO GLU LEU ASN SEQRES 17 A 536 LEU SER GLU ARG PHE ARG SER SER PHE ASP PHE ILE ASP SEQRES 18 A 536 GLY TYR ASP THR PRO VAL GLU GLY ARG LYS ILE ASN TRP SEQRES 19 A 536 MET LYS ALA GLY ILE LEU GLU ALA ASP ARG VAL LEU THR SEQRES 20 A 536 VAL SER PRO TYR TYR ALA GLU GLU LEU ILE SER GLY ILE SEQRES 21 A 536 ALA ARG GLY CYS GLU LEU ASP ASN ILE MET ARG LEU THR SEQRES 22 A 536 GLY ILE THR GLY ILE VAL ASN GLY MET ASP VAL SER GLU SEQRES 23 A 536 TRP ASP PRO SER LYS ASP LYS TYR ILE THR ALA LYS TYR SEQRES 24 A 536 ASP ALA THR THR ALA ILE GLU ALA LYS ALA LEU ASN LYS SEQRES 25 A 536 GLU ALA LEU GLN ALA GLU ALA GLY LEU PRO VAL ASP ARG SEQRES 26 A 536 LYS ILE PRO LEU ILE ALA PHE ILE GLY ARG LEU GLU GLU SEQRES 27 A 536 GLN LYS GLY PRO ASP VAL MET ALA ALA ALA ILE PRO GLU SEQRES 28 A 536 LEU MET GLN GLU ASP VAL GLN ILE VAL LEU LEU GLY THR SEQRES 29 A 536 GLY LYS LYS LYS PHE GLU LYS LEU LEU LYS SER MET GLU SEQRES 30 A 536 GLU LYS TYR PRO GLY LYS VAL ARG ALA VAL VAL LYS PHE SEQRES 31 A 536 ASN ALA PRO LEU ALA HIS LEU ILE MET ALA GLY ALA ASP SEQRES 32 A 536 VAL LEU ALA VAL PRO SER ARG PHE GLU PRO CYS GLY LEU SEQRES 33 A 536 ILE GLN LEU GLN GLY MET ARG TYR GLY THR PRO CYS ALA SEQRES 34 A 536 CYS ALA SER THR GLY GLY LEU VAL ASP THR VAL ILE GLU SEQRES 35 A 536 GLY LYS THR GLY PHE HIS MET GLY ARG LEU SER VAL ASP SEQRES 36 A 536 CYS LYS VAL VAL GLU PRO SER ASP VAL LYS LYS VAL ALA SEQRES 37 A 536 ALA THR LEU LYS ARG ALA ILE LYS VAL VAL GLY THR PRO SEQRES 38 A 536 ALA TYR GLU GLU MET VAL ARG ASN CYS MET ASN GLN ASP SEQRES 39 A 536 LEU SER TRP LYS GLY PRO ALA LYS ASN TRP GLU ASN VAL SEQRES 40 A 536 LEU LEU GLY LEU GLY VAL ALA GLY SER ALA PRO GLY ILE SEQRES 41 A 536 GLU GLY ASP GLU ILE ALA PRO LEU ALA LYS GLU ASN VAL SEQRES 42 A 536 ALA ALA PRO HET ADP A 701 27 HET SO4 A 702 5 HET SO4 A 703 5 HET SO4 A 704 5 HETNAM ADP ADENOSINE-5'-DIPHOSPHATE HETNAM SO4 SULFATE ION FORMUL 2 ADP C10 H15 N5 O10 P2 FORMUL 3 SO4 3(O4 S 2-) FORMUL 6 HOH *10(H2 O) HELIX 1 1 GLY A 100 ALA A 114 1 15 HELIX 2 2 HIS A 167 LEU A 171 5 5 HELIX 3 3 ASP A 193 ALA A 208 1 16 HELIX 4 4 TRP A 235 THR A 237 5 3 HELIX 5 5 GLY A 238 TYR A 248 1 11 HELIX 6 6 GLN A 249 GLY A 252 5 4 HELIX 7 7 ALA A 273 ASN A 281 5 9 HELIX 8 8 SER A 283 PHE A 290 1 8 HELIX 9 9 TRP A 307 ALA A 315 1 9 HELIX 10 10 SER A 322 GLY A 332 1 11 HELIX 11 11 THR A 376 ALA A 392 1 17 HELIX 12 12 GLU A 410 LYS A 413 5 4 HELIX 13 13 GLY A 414 MET A 426 1 13 HELIX 14 14 LYS A 440 TYR A 453 1 14 HELIX 15 15 ASN A 464 ALA A 475 1 12 HELIX 16 16 LEU A 489 TYR A 497 1 9 HELIX 17 17 GLY A 507 VAL A 513 1 7 HELIX 18 18 GLU A 533 VAL A 551 1 19 HELIX 19 19 THR A 553 ASN A 565 1 13 HELIX 20 20 TRP A 570 LEU A 584 1 15 SHEET 1 A 9 TRP A 133 LYS A 142 0 SHEET 2 A 9 TYR A 147 LYS A 157 -1 O GLU A 148 N ILE A 141 SHEET 3 A 9 VAL A 160 ASP A 166 -1 O VAL A 160 N LYS A 157 SHEET 4 A 9 ARG A 118 PRO A 124 1 N VAL A 119 O ASP A 161 SHEET 5 A 9 ASN A 84 VAL A 88 1 N VAL A 85 O ARG A 118 SHEET 6 A 9 VAL A 228 ASN A 233 1 O VAL A 229 N VAL A 86 SHEET 7 A 9 LYS A 258 ILE A 263 1 O CYS A 262 N CYS A 232 SHEET 8 A 9 ARG A 317 THR A 320 1 O LEU A 319 N ILE A 263 SHEET 9 A 9 THR A 349 GLY A 350 1 O THR A 349 N THR A 320 SHEET 1 B 3 ARG A 271 PHE A 272 0 SHEET 2 B 3 GLY A 302 ASN A 306 -1 O ILE A 305 N PHE A 272 SHEET 3 B 3 ASP A 291 ASP A 294 -1 N PHE A 292 O LYS A 304 SHEET 1 C 6 VAL A 457 VAL A 460 0 SHEET 2 C 6 GLN A 431 LEU A 435 1 N LEU A 434 O VAL A 460 SHEET 3 C 6 LEU A 402 ILE A 406 1 N ILE A 403 O GLN A 431 SHEET 4 C 6 VAL A 477 VAL A 480 1 O ALA A 479 N ALA A 404 SHEET 5 C 6 CYS A 501 CYS A 503 1 O ALA A 502 N LEU A 478 SHEET 6 C 6 GLY A 519 HIS A 521 1 O PHE A 520 N CYS A 501 SSBOND 1 CYS A 337 CYS A 529 1555 1555 2.04 CISPEP 1 ALA A 93 PRO A 94 0 0.57 SITE 1 AC1 10 GLY A 99 GLY A 100 ASN A 265 ARG A 408 SITE 2 AC1 10 LYS A 413 LYS A 462 PHE A 463 LEU A 489 SITE 3 AC1 10 ILE A 490 GLN A 493 SITE 1 AC2 4 TYR A 268 GLN A 269 GLY A 270 ARG A 271 SITE 1 AC3 5 LYS A 447 ARG A 458 ALA A 459 VAL A 460 SITE 2 AC3 5 VAL A 461 SITE 1 AC4 4 ARG A 125 GLN A 128 ARG A 151 PHE A 153 CRYST1 153.368 153.368 153.368 90.00 90.00 90.00 P 4 3 2 24 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 0.006520 0.000000 0.000000 0.00000 SCALE2 0.000000 0.006520 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006520 0.00000