HEADER TRANSFERASE 13-JUL-11 3SWI TITLE E. CLOACAE MURA IN COMPLEX WITH ENOLPYRUVYL-UDP-N-ACETYLGALACTOSAMINE TITLE 2 AND COVALENT ADDUCT OF PEP WITH CYS115 COMPND MOL_ID: 1; COMPND 2 MOLECULE: UDP-N-ACETYLGLUCOSAMINE 1-CARBOXYVINYLTRANSFERASE; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: ENOYLPYRUVATE TRANSFERASE, UDP-N-ACETYLGLUCOSAMINE COMPND 5 ENOLPYRUVYL TRANSFERASE, EPT; COMPND 6 EC: 2.5.1.7; COMPND 7 ENGINEERED: YES; COMPND 8 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ENTEROBACTER CLOACAE; SOURCE 3 ORGANISM_TAXID: 716541; SOURCE 4 STRAIN: ATCC 13047 / DSM 30054 / NBRC 13535 / NCDC 279-56; SOURCE 5 GENE: MURA, MURZ, ECL_04571; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET9D KEYWDS MURA, CLOSE ENZYME STATE, CELL WALL, BIOGENESIS/DEGRADATION, KEYWDS 2 PEPTIDOGLYCAN SYNTHESIS, TRANSFERASE, PEP EXPDTA X-RAY DIFFRACTION AUTHOR J.-Y.ZHU,Y.YANG,E.SCHONBRUNN REVDAT 3 02-MAY-12 3SWI 1 JRNL REVDAT 2 14-MAR-12 3SWI 1 JRNL REVDAT 1 07-MAR-12 3SWI 0 JRNL AUTH J.Y.ZHU,Y.YANG,H.HAN,S.BETZI,S.H.OLESEN,F.MARSILIO, JRNL AUTH 2 E.SCHONBRUNN JRNL TITL FUNCTIONAL CONSEQUENCE OF COVALENT REACTION OF JRNL TITL 2 PHOSPHOENOLPYRUVATE WITH UDP-N-ACETYLGLUCOSAMINE JRNL TITL 3 1-CARBOXYVINYLTRANSFERASE (MURA). JRNL REF J.BIOL.CHEM. V. 287 12657 2012 JRNL REFN ISSN 0021-9258 JRNL PMID 22378791 JRNL DOI 10.1074/JBC.M112.342725 REMARK 2 REMARK 2 RESOLUTION. 2.80 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 1.3 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 : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 19.43 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : 7475233.880 REMARK 3 DATA CUTOFF LOW (ABS(F)) : 0.0000 REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 99.2 REMARK 3 NUMBER OF REFLECTIONS : 10689 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) : 0.188 REMARK 3 FREE R VALUE : 0.263 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.200 REMARK 3 FREE R VALUE TEST SET COUNT : 556 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.011 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) : 2.80 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.98 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.40 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 1686 REMARK 3 BIN R VALUE (WORKING SET) : 0.2810 REMARK 3 BIN FREE R VALUE : 0.4180 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 5.20 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 93 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.043 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3153 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 118 REMARK 3 SOLVENT ATOMS : 113 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 7.80 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 35.40 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.00000 REMARK 3 B22 (A**2) : 0.00000 REMARK 3 B33 (A**2) : 0.00000 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) : 0.30 REMARK 3 ESD FROM SIGMAA (A) : 0.36 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) : 0.46 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.55 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.010 REMARK 3 BOND ANGLES (DEGREES) : 1.70 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 23.90 REMARK 3 IMPROPER ANGLES (DEGREES) : 11.65 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) : 1.080 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 1.800 ; 2.000 REMARK 3 SIDE-CHAIN BOND (A**2) : 1.810 ; 2.000 REMARK 3 SIDE-CHAIN ANGLE (A**2) : 2.750 ; 2.500 REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : FLAT MODEL REMARK 3 KSOL : 0.38 REMARK 3 BSOL : 45.53 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 : NULL REMARK 3 TOPOLOGY FILE 1 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: BULK SOLVENT MODEL USED REMARK 4 REMARK 4 3SWI COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 02-AUG-11. REMARK 100 THE RCSB ID CODE IS RCSB066739. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 23-MAY-10 REMARK 200 TEMPERATURE (KELVIN) : 93 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : RIGAKU MICROMAX-007 HF REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.54178 REMARK 200 MONOCHROMATOR : MIRRORS REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : RIGAKU SATURN 944+ REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XDS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 10689 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.800 REMARK 200 RESOLUTION RANGE LOW (A) : 20.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.8 REMARK 200 DATA REDUNDANCY : 3.800 REMARK 200 R MERGE (I) : 0.12000 REMARK 200 R SYM (I) : 6.60000 REMARK 200 FOR THE DATA SET : 18.5000 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) : 2.90 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.3 REMARK 200 DATA REDUNDANCY IN SHELL : 3.80 REMARK 200 R MERGE FOR SHELL (I) : 0.42000 REMARK 200 R SYM FOR SHELL (I) : 26.70000 REMARK 200 FOR SHELL : 3.800 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: CNS 1.3 REMARK 200 STARTING MODEL: PDB ENTRY 3SU9 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 48.79 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.40 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 20 MG/ML MURA, 5 MM UDP-N- REMARK 280 ACETYLGALACTOSAMINE, 2.5 MM PEP, 75 MM HEPES, 25 MM MAGNESIUM REMARK 280 CHLORIDE, 15% PEG 550 MME, PH 7.5, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 291K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: I 2 3 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 X+1/2,Y+1/2,Z+1/2 REMARK 290 14555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 15555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 16555 X+1/2,-Y+1/2,-Z+1/2 REMARK 290 17555 Z+1/2,X+1/2,Y+1/2 REMARK 290 18555 Z+1/2,-X+1/2,-Y+1/2 REMARK 290 19555 -Z+1/2,-X+1/2,Y+1/2 REMARK 290 20555 -Z+1/2,X+1/2,-Y+1/2 REMARK 290 21555 Y+1/2,Z+1/2,X+1/2 REMARK 290 22555 -Y+1/2,Z+1/2,-X+1/2 REMARK 290 23555 Y+1/2,-Z+1/2,-X+1/2 REMARK 290 24555 -Y+1/2,-Z+1/2,X+1/2 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 1.000000 0.000000 0.000000 68.70000 REMARK 290 SMTRY2 13 0.000000 1.000000 0.000000 68.70000 REMARK 290 SMTRY3 13 0.000000 0.000000 1.000000 68.70000 REMARK 290 SMTRY1 14 -1.000000 0.000000 0.000000 68.70000 REMARK 290 SMTRY2 14 0.000000 -1.000000 0.000000 68.70000 REMARK 290 SMTRY3 14 0.000000 0.000000 1.000000 68.70000 REMARK 290 SMTRY1 15 -1.000000 0.000000 0.000000 68.70000 REMARK 290 SMTRY2 15 0.000000 1.000000 0.000000 68.70000 REMARK 290 SMTRY3 15 0.000000 0.000000 -1.000000 68.70000 REMARK 290 SMTRY1 16 1.000000 0.000000 0.000000 68.70000 REMARK 290 SMTRY2 16 0.000000 -1.000000 0.000000 68.70000 REMARK 290 SMTRY3 16 0.000000 0.000000 -1.000000 68.70000 REMARK 290 SMTRY1 17 0.000000 0.000000 1.000000 68.70000 REMARK 290 SMTRY2 17 1.000000 0.000000 0.000000 68.70000 REMARK 290 SMTRY3 17 0.000000 1.000000 0.000000 68.70000 REMARK 290 SMTRY1 18 0.000000 0.000000 1.000000 68.70000 REMARK 290 SMTRY2 18 -1.000000 0.000000 0.000000 68.70000 REMARK 290 SMTRY3 18 0.000000 -1.000000 0.000000 68.70000 REMARK 290 SMTRY1 19 0.000000 0.000000 -1.000000 68.70000 REMARK 290 SMTRY2 19 -1.000000 0.000000 0.000000 68.70000 REMARK 290 SMTRY3 19 0.000000 1.000000 0.000000 68.70000 REMARK 290 SMTRY1 20 0.000000 0.000000 -1.000000 68.70000 REMARK 290 SMTRY2 20 1.000000 0.000000 0.000000 68.70000 REMARK 290 SMTRY3 20 0.000000 -1.000000 0.000000 68.70000 REMARK 290 SMTRY1 21 0.000000 1.000000 0.000000 68.70000 REMARK 290 SMTRY2 21 0.000000 0.000000 1.000000 68.70000 REMARK 290 SMTRY3 21 1.000000 0.000000 0.000000 68.70000 REMARK 290 SMTRY1 22 0.000000 -1.000000 0.000000 68.70000 REMARK 290 SMTRY2 22 0.000000 0.000000 1.000000 68.70000 REMARK 290 SMTRY3 22 -1.000000 0.000000 0.000000 68.70000 REMARK 290 SMTRY1 23 0.000000 1.000000 0.000000 68.70000 REMARK 290 SMTRY2 23 0.000000 0.000000 -1.000000 68.70000 REMARK 290 SMTRY3 23 -1.000000 0.000000 0.000000 68.70000 REMARK 290 SMTRY1 24 0.000000 -1.000000 0.000000 68.70000 REMARK 290 SMTRY2 24 0.000000 0.000000 -1.000000 68.70000 REMARK 290 SMTRY3 24 1.000000 0.000000 0.000000 68.70000 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 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 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH A 474 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 477 LIES ON A SPECIAL POSITION. 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 OD1 ASN A 350 O HOH A 518 2.02 REMARK 500 O ARG A 227 O HOH A 439 2.05 REMARK 500 NZ LYS A 131 O HOH A 467 2.14 REMARK 500 O HOH A 509 O HOH A 534 2.16 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 LYS A 88 2.26 -60.08 REMARK 500 MET A 90 91.43 -164.24 REMARK 500 ASN A 184 39.76 70.81 REMARK 500 ASP A 257 40.35 -78.72 REMARK 500 ASP A 278 33.89 -141.21 REMARK 500 HIS A 285 39.97 39.81 REMARK 500 GLU A 329 -9.21 -46.92 REMARK 500 SER A 349 -129.93 53.44 REMARK 500 THR A 368 -7.09 -150.44 REMARK 500 LEU A 370 -5.74 -56.80 REMARK 500 ARG A 371 -45.83 -137.01 REMARK 500 ILE A 392 -2.15 -56.69 REMARK 500 ALA A 408 0.89 -62.94 REMARK 500 ASN A 412 69.52 -104.47 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CHIRAL CENTERS REMARK 500 REMARK 500 UNEXPECTED CONFIGURATION OF THE FOLLOWING CHIRAL REMARK 500 CENTER(S) USING IMPROPER CA--C--CB--N CHIRALITY REMARK 500 FOR AMINO ACIDS AND C1'--O4'--N1(N9)--C2' FOR REMARK 500 NUCLEIC ACIDS OR EQUIVALENT ANGLE REMARK 500 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,A1,6X,F5.1,6X,A1,10X,A1,3X,A16) REMARK 500 REMARK 500 M RES CSSEQI IMPROPER EXPECTED FOUND DETAILS REMARK 500 ASP A 2 22.3 L L OUTSIDE RANGE REMARK 500 LYS A 3 24.2 L L OUTSIDE RANGE REMARK 500 GLN A 7 23.5 L L OUTSIDE RANGE REMARK 500 ASN A 23 21.9 L L OUTSIDE RANGE REMARK 500 ARG A 66 24.1 L L OUTSIDE RANGE REMARK 500 ASP A 73 24.5 L L OUTSIDE RANGE REMARK 500 ASN A 76 23.4 L L OUTSIDE RANGE REMARK 500 SER A 81 24.1 L L OUTSIDE RANGE REMARK 500 LEU A 97 22.9 L L OUTSIDE RANGE REMARK 500 LEU A 100 24.0 L L OUTSIDE RANGE REMARK 500 LYS A 137 23.3 L L OUTSIDE RANGE REMARK 500 TYR A 142 23.9 L L OUTSIDE RANGE REMARK 500 LYS A 144 24.7 L L OUTSIDE RANGE REMARK 500 SER A 162 24.5 L L OUTSIDE RANGE REMARK 500 ASP A 257 23.5 L L OUTSIDE RANGE REMARK 500 ASP A 260 18.4 L L OUTSIDE RANGE REMARK 500 GLU A 329 21.4 L L OUTSIDE RANGE REMARK 500 ASN A 330 24.4 L L OUTSIDE RANGE REMARK 500 PHE A 332 24.6 L L OUTSIDE RANGE REMARK 500 SER A 373 24.1 L L OUTSIDE RANGE REMARK 500 LYS A 417 23.1 L L OUTSIDE RANGE REMARK 500 GLU A 419 24.3 L L OUTSIDE RANGE 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 A 482 DISTANCE = 6.25 ANGSTROMS REMARK 525 HOH A 487 DISTANCE = 7.12 ANGSTROMS REMARK 525 HOH A 505 DISTANCE = 5.76 ANGSTROMS REMARK 525 HOH A 515 DISTANCE = 5.73 ANGSTROMS REMARK 525 HOH A 526 DISTANCE = 6.37 ANGSTROMS REMARK 525 HOH A 531 DISTANCE = 5.75 ANGSTROMS REMARK 525 HOH A 539 DISTANCE = 5.56 ANGSTROMS REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 425 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 QPA A 115 O13 REMARK 620 2 QPA A 115 O9 98.8 REMARK 620 3 UD2 A 426 O1A 145.7 104.7 REMARK 620 4 HOH A 537 O 81.1 84.0 76.8 REMARK 620 5 HOH A 500 O 87.5 144.8 87.5 131.3 REMARK 620 6 HOH A 472 O 77.1 144.7 69.2 60.7 70.5 REMARK 620 N 1 2 3 4 5 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MOE A 420 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MOE A 421 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PG0 A 422 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PG0 A 423 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PG0 A 424 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 425 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE UD2 A 426 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE UPN A 427 REMARK 999 REMARK 999 SEQUENCE REMARK 999 IAS67 FORMS AN ISOPEPTIDIC BOND AND IS A RESULT OF REMARK 999 POSTTRANSLATIONAL MODIFICATION OF ASN67 DBREF 3SWI A 1 419 UNP P33038 MURA_ENTCC 1 419 SEQADV 3SWI IAS A 67 UNP P33038 ASN 67 SEE REMARK 999 SEQRES 1 A 419 MET ASP LYS PHE ARG VAL GLN GLY PRO THR ARG LEU GLN SEQRES 2 A 419 GLY GLU VAL THR ILE SER GLY ALA LYS ASN ALA ALA LEU SEQRES 3 A 419 PRO ILE LEU PHE ALA ALA LEU LEU ALA GLU GLU PRO VAL SEQRES 4 A 419 GLU ILE GLN ASN VAL PRO LYS LEU LYS ASP ILE ASP THR SEQRES 5 A 419 THR MET LYS LEU LEU THR GLN LEU GLY THR LYS VAL GLU SEQRES 6 A 419 ARG IAS GLY SER VAL TRP ILE ASP ALA SER ASN VAL ASN SEQRES 7 A 419 ASN PHE SER ALA PRO TYR ASP LEU VAL LYS THR MET ARG SEQRES 8 A 419 ALA SER ILE TRP ALA LEU GLY PRO LEU VAL ALA ARG PHE SEQRES 9 A 419 GLY GLN GLY GLN VAL SER LEU PRO GLY GLY QPA ALA ILE SEQRES 10 A 419 GLY ALA ARG PRO VAL ASP LEU HIS ILE PHE GLY LEU GLU SEQRES 11 A 419 LYS LEU GLY ALA GLU ILE LYS LEU GLU GLU GLY TYR VAL SEQRES 12 A 419 LYS ALA SER VAL ASN GLY ARG LEU LYS GLY ALA HIS ILE SEQRES 13 A 419 VAL MET ASP LYS VAL SER VAL GLY ALA THR VAL THR ILE SEQRES 14 A 419 MET SER ALA ALA THR LEU ALA GLU GLY THR THR ILE ILE SEQRES 15 A 419 GLU ASN ALA ALA ARG GLU PRO GLU ILE VAL ASP THR ALA SEQRES 16 A 419 ASN PHE LEU VAL ALA LEU GLY ALA LYS ILE SER GLY GLN SEQRES 17 A 419 GLY THR ASP ARG ILE THR ILE GLU GLY VAL GLU ARG LEU SEQRES 18 A 419 GLY GLY GLY VAL TYR ARG VAL LEU PRO ASP ARG ILE GLU SEQRES 19 A 419 THR GLY THR PHE LEU VAL ALA ALA ALA ILE SER GLY GLY SEQRES 20 A 419 LYS ILE VAL CYS ARG ASN ALA GLN PRO ASP THR LEU ASP SEQRES 21 A 419 ALA VAL LEU ALA LYS LEU ARG GLU ALA GLY ALA ASP ILE SEQRES 22 A 419 GLU THR GLY GLU ASP TRP ILE SER LEU ASP MET HIS GLY SEQRES 23 A 419 LYS ARG PRO LYS ALA VAL THR VAL ARG THR ALA PRO HIS SEQRES 24 A 419 PRO ALA PHE PRO THR ASP MET GLN ALA GLN PHE THR LEU SEQRES 25 A 419 LEU ASN LEU VAL ALA GLU GLY THR GLY VAL ILE THR GLU SEQRES 26 A 419 THR ILE PHE GLU ASN ARG PHE MET HIS VAL PRO GLU LEU SEQRES 27 A 419 ILE ARG MET GLY ALA HIS ALA GLU ILE GLU SER ASN THR SEQRES 28 A 419 VAL ILE CYS HIS GLY VAL GLU LYS LEU SER GLY ALA GLN SEQRES 29 A 419 VAL MET ALA THR ASP LEU ARG ALA SER ALA SER LEU VAL SEQRES 30 A 419 LEU ALA GLY CYS ILE ALA GLU GLY THR THR VAL VAL ASP SEQRES 31 A 419 ARG ILE TYR HIS ILE ASP ARG GLY TYR GLU ARG ILE GLU SEQRES 32 A 419 ASP LYS LEU ARG ALA LEU GLY ALA ASN ILE GLU ARG VAL SEQRES 33 A 419 LYS GLY GLU MODRES 3SWI QPA A 115 CYS HET IAS A 67 8 HET QPA A 115 16 HET MOE A 420 5 HET MOE A 421 5 HET PG0 A 422 8 HET PG0 A 423 8 HET PG0 A 424 8 HET MG A 425 1 HET UD2 A 426 39 HET UPN A 427 44 HETNAM IAS BETA-L-ASPARTIC ACID HETNAM QPA S-[(1S)-1-CARBOXY-1-(PHOSPHONOOXY)ETHYL]-L-CYSTEINE HETNAM MOE METHOXY-ETHOXYL HETNAM PG0 2-(2-METHOXYETHOXY)ETHANOL HETNAM MG MAGNESIUM ION HETNAM UD2 URIDINE-DIPHOSPHATE-N-ACETYLGALACTOSAMINE HETNAM UPN 2-{[(2R,3R,4R,5R,6R)-3-(ACETYLAMINO)-2-{[(S)-{[(R)- HETNAM 2 UPN {[(2R,3S,4R,5R)-5-(2,4-DIOXO-3,4-DIHYDROPYRIMIDIN- HETNAM 3 UPN 1(2H)-YL)-3,4-DIHYDROXYTETRAHYDROFURAN-2- HETNAM 4 UPN YL]METHOXY}(HYDROXY)PHOSPHORYL]OXY}(HYDROXY) HETNAM 5 UPN PHOSPHORYL]OXY}-5-HYDROXY-6-(HYDROXYMETHYL)TETRAHYDRO- HETNAM 6 UPN 2H-PYRAN-4-YL]OXY}PROP-2-ENOIC ACID HETSYN IAS L-ASPARTIC ACID HETSYN PG0 PEG 6000 HETSYN UD2 (2R,3R,4R,5R,6R)-3-(ACETYLAMINO)-4,5-DIHYDROXY-6- HETSYN 2 UD2 (HYDROXYMETHYL)TETRAHYDRO-2H-PYRAN-2-YL [(2R,3S,4R, HETSYN 3 UD2 5R)-5-(2,4-DIOXO-3,4-DIHYDROPYRIMIDIN-1(2H)-YL)-3,4- HETSYN 4 UD2 DIHYDROXYTETRAHYDROFURAN-2-YL]METHYL DIHYDROGEN HETSYN 5 UD2 DIPHOSPHATE FORMUL 1 IAS C4 H7 N O4 FORMUL 1 QPA C6 H12 N O8 P S FORMUL 2 MOE 2(C3 H7 O2 1-) FORMUL 4 PG0 3(C5 H12 O3) FORMUL 7 MG MG 2+ FORMUL 8 UD2 C17 H27 N3 O17 P2 FORMUL 9 UPN C20 H29 N3 O19 P2 FORMUL 10 HOH *113(H2 O) HELIX 1 1 ALA A 21 LEU A 33 1 13 HELIX 2 2 LEU A 47 LEU A 60 1 14 HELIX 3 3 PRO A 83 LYS A 88 1 6 HELIX 4 4 THR A 89 TRP A 95 5 7 HELIX 5 5 ALA A 96 GLY A 105 1 10 HELIX 6 6 VAL A 122 LYS A 131 1 10 HELIX 7 7 SER A 162 THR A 174 1 13 HELIX 8 8 GLU A 188 LEU A 201 1 14 HELIX 9 9 ASP A 231 ILE A 244 1 14 HELIX 10 10 LEU A 259 GLY A 270 1 12 HELIX 11 11 PRO A 303 VAL A 316 1 14 HELIX 12 12 MET A 333 MET A 341 1 9 HELIX 13 13 SER A 373 ALA A 383 1 11 HELIX 14 14 HIS A 394 TYR A 399 1 6 HELIX 15 15 ARG A 401 ALA A 408 1 8 SHEET 1 A 4 GLN A 364 MET A 366 0 SHEET 2 A 4 GLY A 385 ASP A 390 1 O ASP A 390 N VAL A 365 SHEET 3 A 4 LYS A 3 GLY A 8 -1 N VAL A 6 O THR A 387 SHEET 4 A 4 ASN A 412 VAL A 416 -1 O VAL A 416 N LYS A 3 SHEET 1 B 4 GLN A 13 THR A 17 0 SHEET 2 B 4 LYS A 248 ARG A 252 1 O ARG A 252 N VAL A 16 SHEET 3 B 4 TRP A 279 ASP A 283 -1 O LEU A 282 N ILE A 249 SHEET 4 B 4 ASP A 272 THR A 275 -1 N GLU A 274 O SER A 281 SHEET 1 C 4 LYS A 63 ARG A 66 0 SHEET 2 C 4 VAL A 70 ASP A 73 -1 O ASP A 73 N LYS A 63 SHEET 3 C 4 VAL A 39 GLN A 42 -1 N ILE A 41 O VAL A 70 SHEET 4 C 4 GLY A 224 ARG A 227 1 O GLY A 224 N GLU A 40 SHEET 1 D 4 SER A 81 ALA A 82 0 SHEET 2 D 4 GLN A 106 SER A 110 1 O GLN A 108 N ALA A 82 SHEET 3 D 4 TYR A 142 SER A 146 -1 O ALA A 145 N GLY A 107 SHEET 4 D 4 GLU A 135 GLU A 139 -1 N LYS A 137 O LYS A 144 SHEET 1 E 4 HIS A 155 VAL A 157 0 SHEET 2 E 4 THR A 179 GLU A 183 1 O GLU A 183 N ILE A 156 SHEET 3 E 4 ARG A 212 GLU A 216 -1 O ILE A 215 N THR A 180 SHEET 4 E 4 LYS A 204 SER A 206 -1 N SER A 206 O THR A 214 SHEET 1 F 4 THR A 293 ARG A 295 0 SHEET 2 F 4 THR A 320 THR A 324 1 O VAL A 322 N VAL A 294 SHEET 3 F 4 THR A 351 HIS A 355 -1 O CYS A 354 N GLY A 321 SHEET 4 F 4 HIS A 344 GLU A 348 -1 N GLU A 348 O THR A 351 LINK C ARG A 66 N IAS A 67 1555 1555 1.33 LINK CG IAS A 67 N GLY A 68 1555 1555 1.32 LINK C GLY A 114 N QPA A 115 1555 1555 1.33 LINK C QPA A 115 N ALA A 116 1555 1555 1.33 LINK O13 QPA A 115 MG MG A 425 1555 1555 1.78 LINK O9 QPA A 115 MG MG A 425 1555 1555 2.14 LINK MG MG A 425 O1A UD2 A 426 1555 1555 2.30 LINK MG MG A 425 O HOH A 537 1555 1555 2.35 LINK MG MG A 425 O HOH A 500 1555 1555 2.49 LINK MG MG A 425 O HOH A 472 1555 1555 2.60 CISPEP 1 GLY A 8 PRO A 9 0 0.15 CISPEP 2 HIS A 299 PRO A 300 0 21.31 SITE 1 AC1 4 PRO A 121 HIS A 125 GLY A 164 UPN A 427 SITE 1 AC2 2 LYS A 248 VAL A 250 SITE 1 AC3 6 SER A 81 GLN A 108 GLU A 140 TYR A 142 SITE 2 AC3 6 LYS A 144 HOH A 529 SITE 1 AC4 5 LYS A 55 GLN A 59 LEU A 86 ILE A 244 SITE 2 AC4 5 GLY A 286 SITE 1 AC5 5 VAL A 192 ASP A 193 ASN A 196 LEU A 229 SITE 2 AC5 5 GLN A 255 SITE 1 AC6 5 QPA A 115 UD2 A 426 HOH A 472 HOH A 500 SITE 2 AC6 5 HOH A 537 SITE 1 AC7 14 LYS A 88 THR A 89 GLY A 114 QPA A 115 SITE 2 AC7 14 GLU A 337 MET A 366 THR A 368 ARG A 391 SITE 3 AC7 14 TYR A 393 HIS A 394 MG A 425 HOH A 469 SITE 4 AC7 14 HOH A 472 HOH A 537 SITE 1 AC8 18 LYS A 22 ASN A 23 TRP A 95 ALA A 119 SITE 2 AC8 18 ARG A 120 PRO A 121 VAL A 122 ASP A 123 SITE 3 AC8 18 LEU A 124 LYS A 160 SER A 162 VAL A 163 SITE 4 AC8 18 GLY A 164 ASP A 305 ILE A 327 MOE A 420 SITE 5 AC8 18 HOH A 441 HOH A 442 CRYST1 137.400 137.400 137.400 90.00 90.00 90.00 I 2 3 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 0.007278 0.000000 0.000000 0.00000 SCALE2 0.000000 0.007278 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007278 0.00000 MASTER 453 0 10 15 24 0 19 6 0 0 0 33 END