HEADER TRANSFERASE 12-OCT-16 5TME TITLE CRYSTAL STRUCTURE OF OS79 FROM O. SATIVA IN COMPLEX WITH UDP. COMPND MOL_ID: 1; COMPND 2 MOLECULE: GLYCOSYLTRANSFERASE, OS79; COMPND 3 CHAIN: A; COMPND 4 EC: 2.4.1.-; COMPND 5 ENGINEERED: YES; COMPND 6 OTHER_DETAILS: THE INITIAL GLYCINE IS LEFT OVER FROM TEV CLEAVAGE SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ORYZA SATIVA SUBSP. JAPONICA; SOURCE 3 ORGANISM_COMMON: RICE; SOURCE 4 ORGANISM_TAXID: 39947; SOURCE 5 GENE: OS04G0206600, OS04G0206600, OSJNBA0052O21.15, OSNPB_040206600; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008 KEYWDS MYCOTOXIN, UDP-GLUCOSYLTRANSFERASE, TRICHOTHECENE, DETOXIFICATION, KEYWDS 2 TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR K.M.WETTERHORN,S.A.NEWMISTER,R.K.CANIZA,M.BUSMAN,S.P.MCCORMICK, AUTHOR 2 F.BERTHILLER,G.ADAM,I.RAYMENT REVDAT 6 16-MAR-22 5TME 1 REMARK REVDAT 5 08-JAN-20 5TME 1 REMARK REVDAT 4 04-DEC-19 5TME 1 REMARK REVDAT 3 20-SEP-17 5TME 1 REMARK REVDAT 2 21-DEC-16 5TME 1 JRNL REVDAT 1 02-NOV-16 5TME 0 JRNL AUTH K.M.WETTERHORN,S.A.NEWMISTER,R.K.CANIZA,M.BUSMAN, JRNL AUTH 2 S.P.MCCORMICK,F.BERTHILLER,G.ADAM,I.RAYMENT JRNL TITL CRYSTAL STRUCTURE OF OS79 (OS04G0206600) FROM ORYZA SATIVA: JRNL TITL 2 A UDP-GLUCOSYLTRANSFERASE INVOLVED IN THE DETOXIFICATION OF JRNL TITL 3 DEOXYNIVALENOL. JRNL REF BIOCHEMISTRY V. 55 6175 2016 JRNL REFN ISSN 1520-4995 JRNL PMID 27715009 JRNL DOI 10.1021/ACS.BIOCHEM.6B00709 REMARK 2 REMARK 2 RESOLUTION. 1.78 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.7.0029 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.78 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 49.17 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 3 NUMBER OF REFLECTIONS : 44791 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) : 0.188 REMARK 3 R VALUE (WORKING SET) : 0.186 REMARK 3 FREE R VALUE : 0.228 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 2381 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) : 1.78 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.83 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3240 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 98.52 REMARK 3 BIN R VALUE (WORKING SET) : 0.2130 REMARK 3 BIN FREE R VALUE SET COUNT : 164 REMARK 3 BIN FREE R VALUE : 0.2550 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3368 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 25 REMARK 3 SOLVENT ATOMS : 199 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 27.14 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.28000 REMARK 3 B22 (A**2) : -0.52000 REMARK 3 B33 (A**2) : 0.80000 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): 0.117 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.118 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.068 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.088 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.952 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.934 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3537 ; 0.021 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 3386 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4827 ; 2.093 ; 1.988 REMARK 3 BOND ANGLES OTHERS (DEGREES): 7806 ; 0.969 ; 3.001 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 452 ; 6.411 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 152 ;35.619 ;22.697 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 582 ;13.756 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 35 ;18.863 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 536 ; 0.125 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3977 ; 0.011 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 788 ; 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): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL 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 : NULL 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 5TME COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 13-OCT-16. REMARK 100 THE DEPOSITION ID IS D_1000224458. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 05-AUG-12 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.6 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 19-BM REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : .979 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 210R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : NULL REMARK 200 DATA SCALING SOFTWARE : HKL-3000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 47323 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.780 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 (%) : 99.9 REMARK 200 DATA REDUNDANCY : 7.900 REMARK 200 R MERGE (I) : 0.05300 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 47.3000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : NULL REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL REMARK 200 COMPLETENESS FOR SHELL (%) : NULL 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: HKL-3000 REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 47.95 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.36 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 50 MM HEPES PH 7.6, 10 MM GLYCINE, 13% REMARK 280 MEPEG 5000, 4% ETHYLENE GLYCOL, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 277K 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 29.53350 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 49.12450 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 41.65300 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 49.12450 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 29.53350 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 41.65300 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 GLY A 0 REMARK 465 MET A 1 REMARK 465 GLY A 2 REMARK 465 SER A 3 REMARK 465 MET A 4 REMARK 465 SER A 5 REMARK 465 THR A 6 REMARK 465 PRO A 7 REMARK 465 ALA A 8 REMARK 465 ALA A 9 REMARK 465 SER A 10 REMARK 465 ALA A 11 REMARK 465 ASN A 12 REMARK 465 GLY A 13 REMARK 465 GLY A 14 REMARK 465 ALA A 24 REMARK 465 GLN A 25 REMARK 465 GLY A 26 REMARK 465 HIS A 27 REMARK 465 LEU A 255 REMARK 465 ARG A 256 REMARK 465 SER A 257 REMARK 465 ASN A 258 REMARK 465 THR A 259 REMARK 465 ALA A 260 REMARK 465 TYR A 261 REMARK 465 GLY A 262 REMARK 465 PHE A 263 REMARK 465 ASN A 264 REMARK 465 LEU A 265 REMARK 465 PHE A 266 REMARK 465 ASN A 466 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 SER A 142 CB SER A 142 OG 0.120 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES 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,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) 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 ATM2 ATM3 REMARK 500 ARG A 37 NE - CZ - NH1 ANGL. DEV. = 4.1 DEGREES REMARK 500 ARG A 115 NE - CZ - NH2 ANGL. DEV. = 3.1 DEGREES REMARK 500 ASP A 213 CB - CG - OD1 ANGL. DEV. = 6.0 DEGREES REMARK 500 ARG A 331 NE - CZ - NH1 ANGL. DEV. = 4.5 DEGREES REMARK 500 ARG A 331 NE - CZ - NH2 ANGL. DEV. = -4.5 DEGREES REMARK 500 CYS A 344 CA - CB - SG ANGL. DEV. = 7.7 DEGREES REMARK 500 PHE A 358 CB - CG - CD1 ANGL. DEV. = 4.4 DEGREES REMARK 500 ASP A 406 CB - CG - OD1 ANGL. DEV. = 6.3 DEGREES 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 LEU A 123 68.87 -105.28 REMARK 500 ALA A 192 56.69 -142.02 REMARK 500 GLU A 194 -27.04 90.91 REMARK 500 TRP A 383 -165.41 -160.75 REMARK 500 ALA A 384 -121.47 59.92 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 GLU A 194 LEU A 195 144.69 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 UDP A 501 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5TMD RELATED DB: PDB REMARK 900 RELATED ID: 5TMB RELATED DB: PDB DBREF 5TME A 1 466 UNP Q7XT97 Q7XT97_ORYSJ 1 466 SEQADV 5TME GLY A 0 UNP Q7XT97 EXPRESSION TAG SEQRES 1 A 467 GLY MET GLY SER MET SER THR PRO ALA ALA SER ALA ASN SEQRES 2 A 467 GLY GLY GLN VAL LEU LEU LEU PRO PHE PRO ALA ALA GLN SEQRES 3 A 467 GLY HIS THR ASN PRO MET LEU GLN PHE GLY ARG ARG LEU SEQRES 4 A 467 ALA TYR HIS GLY LEU ARG PRO THR LEU VAL THR THR ARG SEQRES 5 A 467 TYR VAL LEU SER THR THR PRO PRO PRO GLY ASP PRO PHE SEQRES 6 A 467 ARG VAL ALA ALA ILE SER ASP GLY PHE ASP ASP ALA SER SEQRES 7 A 467 GLY MET ALA ALA LEU PRO ASP PRO GLY GLU TYR LEU ARG SEQRES 8 A 467 THR LEU GLU ALA HIS GLY ALA ARG THR LEU ALA GLU LEU SEQRES 9 A 467 LEU LEU SER GLU ALA ARG ALA GLY ARG PRO ALA ARG VAL SEQRES 10 A 467 LEU VAL TYR ASP PRO HIS LEU PRO TRP ALA ARG ARG VAL SEQRES 11 A 467 ALA ARG ALA ALA GLY VAL ALA THR ALA ALA PHE LEU SER SEQRES 12 A 467 GLN PRO CYS ALA VAL ASP LEU ILE TYR GLY GLU VAL CYS SEQRES 13 A 467 ALA ARG ARG LEU ALA LEU PRO VAL THR PRO THR ASP ALA SEQRES 14 A 467 ARG GLY LEU TYR ALA ARG GLY VAL LEU GLY VAL GLU LEU SEQRES 15 A 467 GLY PRO ASP ASP VAL PRO PRO PHE VAL ALA ALA PRO GLU SEQRES 16 A 467 LEU THR PRO ALA PHE CYS GLU GLN SER ILE GLU GLN PHE SEQRES 17 A 467 ALA GLY LEU GLU ASP ASP ASP ASP VAL LEU VAL ASN SER SEQRES 18 A 467 PHE SER ASP LEU GLU PRO LYS GLU ALA ALA TYR MET GLU SEQRES 19 A 467 SER THR TRP ARG ALA LYS THR ILE GLY PRO SER LEU PRO SEQRES 20 A 467 SER PHE TYR LEU ASP ASP GLY ARG LEU ARG SER ASN THR SEQRES 21 A 467 ALA TYR GLY PHE ASN LEU PHE ARG SER THR VAL PRO CYS SEQRES 22 A 467 MET GLU TRP LEU ASP LYS GLN PRO PRO ARG SER VAL VAL SEQRES 23 A 467 LEU VAL SER TYR GLY THR VAL SER THR PHE ASP VAL ALA SEQRES 24 A 467 LYS LEU GLU GLU LEU GLY ASN GLY LEU CYS ASN SER GLY SEQRES 25 A 467 LYS PRO PHE LEU TRP VAL VAL ARG SER ASN GLU GLU HIS SEQRES 26 A 467 LYS LEU SER VAL GLN LEU ARG LYS LYS CYS GLU LYS ARG SEQRES 27 A 467 GLY LEU ILE VAL PRO PHE CYS PRO GLN LEU GLU VAL LEU SEQRES 28 A 467 ALA HIS LYS ALA THR GLY CYS PHE LEU SER HIS CYS GLY SEQRES 29 A 467 TRP ASN SER THR LEU GLU ALA ILE VAL ASN GLY VAL PRO SEQRES 30 A 467 LEU VAL ALA MET PRO HIS TRP ALA ASP GLN PRO THR ILE SEQRES 31 A 467 SER LYS TYR VAL GLU SER LEU TRP GLY MET GLY VAL ARG SEQRES 32 A 467 VAL GLN LEU ASP LYS SER GLY ILE LEU GLN ARG GLU GLU SEQRES 33 A 467 VAL GLU ARG CYS ILE ARG GLU VAL MET ASP GLY ASP ARG SEQRES 34 A 467 LYS GLU ASP TYR ARG ARG ASN ALA THR ARG LEU MET LYS SEQRES 35 A 467 LYS ALA LYS GLU SER MET GLN GLU GLY GLY SER SER ASP SEQRES 36 A 467 LYS ASN ILE ALA GLU PHE ALA ALA LYS TYR SER ASN HET UDP A 501 25 HETNAM UDP URIDINE-5'-DIPHOSPHATE FORMUL 2 UDP C9 H14 N2 O12 P2 FORMUL 3 HOH *199(H2 O) HELIX 1 AA1 ASN A 29 HIS A 41 1 13 HELIX 2 AA2 ARG A 51 THR A 56 1 6 HELIX 3 AA3 SER A 77 LEU A 82 1 6 HELIX 4 AA4 ASP A 84 ALA A 110 1 27 HELIX 5 AA5 LEU A 123 ALA A 133 1 11 HELIX 6 AA6 PRO A 144 ALA A 156 1 13 HELIX 7 AA7 THR A 164 ARG A 174 1 11 HELIX 8 AA8 PRO A 187 ALA A 192 1 6 HELIX 9 AA9 THR A 196 GLN A 206 1 11 HELIX 10 AB1 PHE A 207 ALA A 208 5 2 HELIX 11 AB2 GLY A 209 ASP A 213 5 5 HELIX 12 AB3 GLU A 225 ARG A 237 1 13 HELIX 13 AB4 PRO A 246 ASP A 251 5 6 HELIX 14 AB5 VAL A 270 LYS A 278 1 9 HELIX 15 AB6 ASP A 296 SER A 310 1 15 HELIX 16 AB7 GLU A 322 LEU A 326 5 5 HELIX 17 AB8 SER A 327 LYS A 333 1 7 HELIX 18 AB9 PRO A 345 HIS A 352 1 8 HELIX 19 AC1 GLY A 363 GLY A 374 1 12 HELIX 20 AC2 ASP A 385 LEU A 396 1 12 HELIX 21 AC3 GLN A 412 GLY A 426 1 15 HELIX 22 AC4 ARG A 428 GLN A 448 1 21 HELIX 23 AC5 GLY A 451 TYR A 464 1 14 SHEET 1 AA1 7 ARG A 65 ILE A 69 0 SHEET 2 AA1 7 PRO A 45 THR A 50 1 N LEU A 47 O ARG A 65 SHEET 3 AA1 7 VAL A 16 LEU A 19 1 N LEU A 18 O VAL A 48 SHEET 4 AA1 7 VAL A 116 TYR A 119 1 O VAL A 118 N LEU A 17 SHEET 5 AA1 7 ALA A 136 LEU A 141 1 O ALA A 136 N LEU A 117 SHEET 6 AA1 7 ASP A 215 VAL A 218 1 O LEU A 217 N LEU A 141 SHEET 7 AA1 7 ALA A 238 THR A 240 1 O LYS A 239 N VAL A 216 SHEET 1 AA2 6 GLY A 338 VAL A 341 0 SHEET 2 AA2 6 PHE A 314 VAL A 317 1 N TRP A 316 O LEU A 339 SHEET 3 AA2 6 VAL A 284 SER A 288 1 N VAL A 287 O VAL A 317 SHEET 4 AA2 6 THR A 355 SER A 360 1 O LEU A 359 N LEU A 286 SHEET 5 AA2 6 LEU A 377 ALA A 379 1 O VAL A 378 N PHE A 358 SHEET 6 AA2 6 GLY A 400 ARG A 402 1 O VAL A 401 N ALA A 379 SSBOND 1 CYS A 272 CYS A 344 1555 1555 2.05 SSBOND 2 CYS A 308 CYS A 334 1555 1555 2.09 CISPEP 1 ASP A 62 PRO A 63 0 9.08 CISPEP 2 LEU A 161 PRO A 162 0 -2.85 CISPEP 3 GLY A 242 PRO A 243 0 0.71 SITE 1 AC1 14 THR A 291 VAL A 317 PHE A 343 CYS A 344 SITE 2 AC1 14 GLN A 346 HIS A 361 GLY A 363 TRP A 364 SITE 3 AC1 14 ASN A 365 SER A 366 GLU A 369 HOH A 629 SITE 4 AC1 14 HOH A 636 HOH A 734 CRYST1 59.067 83.306 98.249 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 0.016930 0.000000 0.000000 0.00000 SCALE2 0.000000 0.012004 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010178 0.00000