HEADER TRANSFERASE 23-MAR-05 2BNE TITLE THE STRUCTURE OF E. COLI UMP KINASE IN COMPLEX WITH UMP COMPND MOL_ID: 1; COMPND 2 MOLECULE: URIDYLATE KINASE; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: UMP KINASE, UK, URIDINE MONOPHOSPHATE KINASE; COMPND 5 EC: 2.7.4.4; COMPND 6 ENGINEERED: YES; COMPND 7 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 3 ORGANISM_TAXID: 83333; SOURCE 4 STRAIN: K12; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 8 EXPRESSION_SYSTEM_PLASMID: PET28A KEYWDS TRANSFERASE, NUCLEOSIDE MONOPHOSPHATE KINASE, PYRIMIDINE BIOSYNTHESIS EXPDTA X-RAY DIFFRACTION AUTHOR P.BRIOZZO,C.EVRIN,P.MEYER,L.ASSAIRI,N.JOLY,O.BARZU,A.M.GILLES REVDAT 4 13-DEC-23 2BNE 1 REMARK REVDAT 3 24-FEB-09 2BNE 1 VERSN REVDAT 2 06-JUL-05 2BNE 1 JRNL REVDAT 1 25-APR-05 2BNE 0 JRNL AUTH P.BRIOZZO,C.EVRIN,P.MEYER,L.ASSAIRI,N.JOLY,O.BARZU, JRNL AUTH 2 A.M.GILLES JRNL TITL STRUCTURE OF ESCHERICHIA COLI UMP KINASE DIFFERS FROM THAT JRNL TITL 2 OF OTHER NUCLEOSIDE MONOPHOSPHATE KINASES AND SHEDS NEW JRNL TITL 3 LIGHT ON ENZYME REGULATION. JRNL REF J.BIOL.CHEM. V. 280 25533 2005 JRNL REFN ISSN 0021-9258 JRNL PMID 15857829 JRNL DOI 10.1074/JBC.M501849200 REMARK 2 REMARK 2 RESOLUTION. 2.30 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 : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.30 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 25.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : 10000.000 REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 95.2 REMARK 3 NUMBER OF REFLECTIONS : 18650 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) : 0.207 REMARK 3 FREE R VALUE : 0.254 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 9.400 REMARK 3 FREE R VALUE TEST SET COUNT : 1847 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : NULL REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : NULL REMARK 3 BIN RESOLUTION RANGE HIGH (A) : NULL REMARK 3 BIN RESOLUTION RANGE LOW (A) : NULL REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 REFLECTIONS IN BIN (WORKING SET) : NULL REMARK 3 BIN R VALUE (WORKING SET) : NULL REMARK 3 BIN FREE R VALUE : NULL REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 BIN FREE R VALUE TEST SET COUNT : NULL REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3560 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 84 REMARK 3 SOLVENT ATOMS : 95 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 34.60 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 35.20 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -1.34800 REMARK 3 B22 (A**2) : -1.34800 REMARK 3 B33 (A**2) : 2.69600 REMARK 3 B12 (A**2) : -3.45800 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) : NULL REMARK 3 ESD FROM SIGMAA (A) : NULL REMARK 3 LOW RESOLUTION CUTOFF (A) : NULL REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM C-V SIGMAA (A) : NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.006 REMARK 3 BOND ANGLES (DEGREES) : 1.180 REMARK 3 DIHEDRAL ANGLES (DEGREES) : NULL REMARK 3 IMPROPER ANGLES (DEGREES) : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : FLAT MODEL REMARK 3 KSOL : 0.36 REMARK 3 BSOL : 45.81 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 : GOL.PARAM REMARK 3 PARAMETER FILE 3 : WATER_REP.PARAM REMARK 3 PARAMETER FILE 4 : ION.PARAM REMARK 3 PARAMETER FILE 5 : NULL REMARK 3 TOPOLOGY FILE 1 : PROTEIN.TOP REMARK 3 TOPOLOGY FILE 2 : GOL.TOP REMARK 3 TOPOLOGY FILE 3 : WATER.TOP REMARK 3 TOPOLOGY FILE 4 : ION.TOP REMARK 3 TOPOLOGY FILE 5 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2BNE COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 23-MAR-05. REMARK 100 THE DEPOSITION ID IS D_1290023419. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : 100.0 REMARK 200 PH : 8.50 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID14-2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.980 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : NULL REMARK 200 DETECTOR MANUFACTURER : NULL REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 19016 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.300 REMARK 200 RESOLUTION RANGE LOW (A) : 25.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 95.1 REMARK 200 DATA REDUNDANCY : 2.800 REMARK 200 R MERGE (I) : 0.11000 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 11.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.30 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL REMARK 200 COMPLETENESS FOR SHELL (%) : 93.8 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.48000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 2.700 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: AMORE REMARK 200 STARTING MODEL: PDB ENTRY 2BND REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 43.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.17 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PH 8.50 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 70.21700 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 40.53980 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 19.99767 REMARK 290 SMTRY1 5 -0.500000 -0.866025 0.000000 70.21700 REMARK 290 SMTRY2 5 0.866025 -0.500000 0.000000 40.53980 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 19.99767 REMARK 290 SMTRY1 6 -0.500000 0.866025 0.000000 70.21700 REMARK 290 SMTRY2 6 -0.866025 -0.500000 0.000000 40.53980 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 19.99767 REMARK 290 SMTRY1 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 81.07961 REMARK 290 SMTRY3 7 0.000000 0.000000 1.000000 39.99533 REMARK 290 SMTRY1 8 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 8 0.866025 -0.500000 0.000000 81.07961 REMARK 290 SMTRY3 8 0.000000 0.000000 1.000000 39.99533 REMARK 290 SMTRY1 9 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 9 -0.866025 -0.500000 0.000000 81.07961 REMARK 290 SMTRY3 9 0.000000 0.000000 1.000000 39.99533 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: PQS 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 140.43400 REMARK 350 BIOMT2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 3 -0.500000 0.866025 0.000000 70.21700 REMARK 350 BIOMT2 3 -0.866025 -0.500000 0.000000 121.61941 REMARK 350 BIOMT3 3 0.000000 0.000000 1.000000 0.00000 REMARK 400 REMARK 400 COMPOUND REMARK 400 ENGINEERED RESIDUE IN CHAIN A, ASP 158 TO ASN REMARK 400 ENGINEERED RESIDUE IN CHAIN B, ASP 158 TO ASN 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 1 REMARK 465 ALA A 2 REMARK 465 THR A 3 REMARK 465 ASN A 4 REMARK 465 ALA A 176 REMARK 465 LYS A 177 REMARK 465 ASP A 178 REMARK 465 MET B 1 REMARK 465 ALA B 2 REMARK 465 GLY B 26 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 THR B 3 OG1 CG2 REMARK 470 ASN B 4 CG OD1 ND2 REMARK 480 REMARK 480 ZERO OCCUPANCY ATOM REMARK 480 THE FOLLOWING RESIDUES HAVE ATOMS MODELED WITH ZERO REMARK 480 OCCUPANCY. THE LOCATION AND PROPERTIES OF THESE ATOMS REMARK 480 MAY NOT BE RELIABLE. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 480 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 480 M RES C SSEQI ATOMS REMARK 480 LYS B 68 CD CE NZ 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 127 NE - CZ - NH1 ANGL. DEV. = -5.1 DEGREES REMARK 500 ARG A 127 NE - CZ - NH2 ANGL. DEV. = 4.2 DEGREES REMARK 500 ARG B 127 NE - CZ - NH1 ANGL. DEV. = 5.0 DEGREES REMARK 500 ARG B 127 NE - CZ - NH2 ANGL. DEV. = -5.4 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 60 -60.01 -127.04 REMARK 500 ASN A 111 138.07 -30.29 REMARK 500 ASP A 174 104.53 -50.64 REMARK 500 ALA A 181 130.55 -36.01 REMARK 500 MET A 200 178.06 45.11 REMARK 500 THR A 240 -145.69 -138.82 REMARK 500 ASN B 4 -27.25 66.92 REMARK 500 THR B 24 161.22 72.06 REMARK 500 LEU B 60 -61.75 -126.76 REMARK 500 ASN B 111 137.43 -28.12 REMARK 500 ALA B 173 154.98 179.69 REMARK 500 ASP B 174 106.55 -45.76 REMARK 500 GLU B 196 39.09 40.00 REMARK 500 VAL B 199 -54.97 -132.85 REMARK 500 LYS B 234 106.85 -42.58 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 U5P A1242 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE U5P B1242 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A1243 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A1244 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A1245 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A1246 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL B1243 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL B1244 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL B1245 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2BND RELATED DB: PDB REMARK 900 THE STRUCTURE OF E. COLI UMP KINASE IN COMPLEX WITH UDP REMARK 900 RELATED ID: 2BNF RELATED DB: PDB REMARK 900 THE STRUCTURE OF E. COLI UMP KINASE IN COMPLEX WITH UTP DBREF 2BNE A 1 1 PDB 2BNE 2BNE 1 1 DBREF 2BNE A 2 241 UNP P29464 PYRH_ECOLI 1 240 DBREF 2BNE B 1 1 PDB 2BNE 2BNE 1 1 DBREF 2BNE B 2 241 UNP P29464 PYRH_ECOLI 1 240 SEQADV 2BNE ASN A 159 UNP P29464 ASP 158 ENGINEERED MUTATION SEQADV 2BNE ASN B 159 UNP P29464 ASP 158 ENGINEERED MUTATION SEQRES 1 A 241 MET ALA THR ASN ALA LYS PRO VAL TYR LYS ARG ILE LEU SEQRES 2 A 241 LEU LYS LEU SER GLY GLU ALA LEU GLN GLY THR GLU GLY SEQRES 3 A 241 PHE GLY ILE ASP ALA SER ILE LEU ASP ARG MET ALA GLN SEQRES 4 A 241 GLU ILE LYS GLU LEU VAL GLU LEU GLY ILE GLN VAL GLY SEQRES 5 A 241 VAL VAL ILE GLY GLY GLY ASN LEU PHE ARG GLY ALA GLY SEQRES 6 A 241 LEU ALA LYS ALA GLY MET ASN ARG VAL VAL GLY ASP HIS SEQRES 7 A 241 MET GLY MET LEU ALA THR VAL MET ASN GLY LEU ALA MET SEQRES 8 A 241 ARG ASP ALA LEU HIS ARG ALA TYR VAL ASN ALA ARG LEU SEQRES 9 A 241 MET SER ALA ILE PRO LEU ASN GLY VAL CYS ASP SER TYR SEQRES 10 A 241 SER TRP ALA GLU ALA ILE SER LEU LEU ARG ASN ASN ARG SEQRES 11 A 241 VAL VAL ILE LEU SER ALA GLY THR GLY ASN PRO PHE PHE SEQRES 12 A 241 THR THR ASP SER ALA ALA CYS LEU ARG GLY ILE GLU ILE SEQRES 13 A 241 GLU ALA ASN VAL VAL LEU LYS ALA THR LYS VAL ASP GLY SEQRES 14 A 241 VAL PHE THR ALA ASP PRO ALA LYS ASP PRO THR ALA THR SEQRES 15 A 241 MET TYR GLU GLN LEU THR TYR SER GLU VAL LEU GLU LYS SEQRES 16 A 241 GLU LEU LYS VAL MET ASP LEU ALA ALA PHE THR LEU ALA SEQRES 17 A 241 ARG ASP HIS LYS LEU PRO ILE ARG VAL PHE ASN MET ASN SEQRES 18 A 241 LYS PRO GLY ALA LEU ARG ARG VAL VAL MET GLY GLU LYS SEQRES 19 A 241 GLU GLY THR LEU ILE THR GLU SEQRES 1 B 241 MET ALA THR ASN ALA LYS PRO VAL TYR LYS ARG ILE LEU SEQRES 2 B 241 LEU LYS LEU SER GLY GLU ALA LEU GLN GLY THR GLU GLY SEQRES 3 B 241 PHE GLY ILE ASP ALA SER ILE LEU ASP ARG MET ALA GLN SEQRES 4 B 241 GLU ILE LYS GLU LEU VAL GLU LEU GLY ILE GLN VAL GLY SEQRES 5 B 241 VAL VAL ILE GLY GLY GLY ASN LEU PHE ARG GLY ALA GLY SEQRES 6 B 241 LEU ALA LYS ALA GLY MET ASN ARG VAL VAL GLY ASP HIS SEQRES 7 B 241 MET GLY MET LEU ALA THR VAL MET ASN GLY LEU ALA MET SEQRES 8 B 241 ARG ASP ALA LEU HIS ARG ALA TYR VAL ASN ALA ARG LEU SEQRES 9 B 241 MET SER ALA ILE PRO LEU ASN GLY VAL CYS ASP SER TYR SEQRES 10 B 241 SER TRP ALA GLU ALA ILE SER LEU LEU ARG ASN ASN ARG SEQRES 11 B 241 VAL VAL ILE LEU SER ALA GLY THR GLY ASN PRO PHE PHE SEQRES 12 B 241 THR THR ASP SER ALA ALA CYS LEU ARG GLY ILE GLU ILE SEQRES 13 B 241 GLU ALA ASN VAL VAL LEU LYS ALA THR LYS VAL ASP GLY SEQRES 14 B 241 VAL PHE THR ALA ASP PRO ALA LYS ASP PRO THR ALA THR SEQRES 15 B 241 MET TYR GLU GLN LEU THR TYR SER GLU VAL LEU GLU LYS SEQRES 16 B 241 GLU LEU LYS VAL MET ASP LEU ALA ALA PHE THR LEU ALA SEQRES 17 B 241 ARG ASP HIS LYS LEU PRO ILE ARG VAL PHE ASN MET ASN SEQRES 18 B 241 LYS PRO GLY ALA LEU ARG ARG VAL VAL MET GLY GLU LYS SEQRES 19 B 241 GLU GLY THR LEU ILE THR GLU HET U5P A1242 21 HET GOL A1243 6 HET GOL A1244 6 HET GOL A1245 6 HET GOL A1246 6 HET U5P B1242 21 HET GOL B1243 6 HET GOL B1244 6 HET GOL B1245 6 HETNAM U5P URIDINE-5'-MONOPHOSPHATE HETNAM GOL GLYCEROL HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 3 U5P 2(C9 H13 N2 O9 P) FORMUL 4 GOL 7(C3 H8 O3) FORMUL 12 HOH *95(H2 O) HELIX 1 1 GLY A 18 GLN A 22 5 5 HELIX 2 2 ASP A 30 LEU A 47 1 18 HELIX 3 3 ARG A 62 ALA A 69 1 8 HELIX 4 4 ASN A 72 ALA A 98 1 27 HELIX 5 5 SER A 118 ASN A 128 1 11 HELIX 6 6 THR A 144 ILE A 156 1 13 HELIX 7 7 TYR A 189 LYS A 195 1 7 HELIX 8 8 ASP A 201 HIS A 211 1 11 HELIX 9 9 GLY A 224 MET A 231 1 8 HELIX 10 10 GLY B 18 GLY B 23 1 6 HELIX 11 11 ASP B 30 LEU B 47 1 18 HELIX 12 12 ARG B 62 ALA B 69 1 8 HELIX 13 13 ASN B 72 ALA B 98 1 27 HELIX 14 14 SER B 118 ASN B 128 1 11 HELIX 15 15 THR B 144 ILE B 156 1 13 HELIX 16 16 SER B 190 LYS B 195 1 6 HELIX 17 17 ASP B 201 HIS B 211 1 11 HELIX 18 18 GLY B 224 GLY B 232 1 9 SHEET 1 AA 9 ASP A 115 SER A 116 0 SHEET 2 AA 9 ALA A 102 SER A 106 1 O LEU A 104 N ASP A 115 SHEET 3 AA 9 VAL A 131 SER A 135 1 O VAL A 131 N ARG A 103 SHEET 4 AA 9 GLN A 50 ILE A 55 1 O VAL A 51 N VAL A 132 SHEET 5 AA 9 ARG A 11 LEU A 16 1 O ILE A 12 N GLY A 52 SHEET 6 AA 9 VAL A 160 THR A 165 1 O VAL A 160 N LEU A 13 SHEET 7 AA 9 ILE A 215 ASN A 219 1 O ARG A 216 N LYS A 163 SHEET 8 AA 9 THR A 237 THR A 240 -1 O THR A 237 N VAL A 217 SHEET 9 AA 9 GLN A 186 THR A 188 1 O LEU A 187 N THR A 240 SHEET 1 BA 9 ASP B 115 SER B 116 0 SHEET 2 BA 9 ALA B 102 SER B 106 1 O LEU B 104 N ASP B 115 SHEET 3 BA 9 VAL B 131 SER B 135 1 O VAL B 131 N ARG B 103 SHEET 4 BA 9 GLN B 50 ILE B 55 1 O VAL B 51 N VAL B 132 SHEET 5 BA 9 ARG B 11 LEU B 16 1 O ILE B 12 N GLY B 52 SHEET 6 BA 9 VAL B 160 THR B 165 1 O VAL B 160 N LEU B 13 SHEET 7 BA 9 ILE B 215 ASN B 219 1 O ARG B 216 N LYS B 163 SHEET 8 BA 9 THR B 237 THR B 240 -1 O THR B 237 N VAL B 217 SHEET 9 BA 9 GLN B 186 THR B 188 1 O LEU B 187 N THR B 240 SITE 1 AC1 16 GLY A 56 GLY A 57 GLY A 58 ARG A 62 SITE 2 AC1 16 GLY A 63 ASP A 77 GLY A 80 MET A 81 SITE 3 AC1 16 THR A 138 ASN A 140 PRO A 141 PHE A 143 SITE 4 AC1 16 THR A 144 THR A 145 HOH A2015 HOH A2042 SITE 1 AC2 16 GLY B 56 GLY B 57 GLY B 58 ARG B 62 SITE 2 AC2 16 GLY B 63 ASP B 77 GLY B 80 MET B 81 SITE 3 AC2 16 THR B 84 THR B 138 ASN B 140 PRO B 141 SITE 4 AC2 16 PHE B 143 THR B 144 THR B 145 HOH B2023 SITE 1 AC3 7 GLN A 39 LYS A 42 GOL A1244 HOH A2043 SITE 2 AC3 7 GLN B 39 GLU B 46 GOL B1244 SITE 1 AC4 5 GLN A 39 GLU A 46 GOL A1243 GLN B 39 SITE 2 AC4 5 LYS B 42 SITE 1 AC5 6 VAL A 192 LEU A 193 GLU A 196 LEU A 197 SITE 2 AC5 6 VAL A 199 MET A 200 SITE 1 AC6 4 TYR A 99 VAL A 100 ASN A 101 ARG A 127 SITE 1 AC7 2 HIS A 211 ARG B 73 SITE 1 AC8 5 LYS A 195 GOL A1243 GLN B 39 GLU B 43 SITE 2 AC8 5 ARG B 227 SITE 1 AC9 6 LYS B 10 GLN B 50 ARG B 127 ASN B 129 SITE 2 AC9 6 HOH B2004 HOH B2052 CRYST1 140.434 140.434 59.993 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 0.007121 0.004111 0.000000 0.00000 SCALE2 0.000000 0.008222 0.000000 0.00000 SCALE3 0.000000 0.000000 0.016669 0.00000