HEADER LIGASE 26-DEC-13 4O7V TITLE SAICAR SYNTHETASE (TYPE-2) IN COMPLEX WITH ADP AND UDP/UMP COMPND MOL_ID: 1; COMPND 2 MOLECULE: PHOSPHORIBOSYLAMINOIMIDAZOLE-SUCCINOCARBOXAMIDE SYNTHASE; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: SAICAR SYNTHETASE; COMPND 5 EC: 6.3.2.6; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: PYROCOCCUS HORIKOSHII; SOURCE 3 ORGANISM_TAXID: 70601; SOURCE 4 STRAIN: OT3; SOURCE 5 GENE: PH0239, PURC; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21-CODONPLUS (DE3)-RIL; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET11A KEYWDS SAICAR SYNTHETASE-LIKE FOLD, LIGASE, ATP BINDING, CAIR BINDING, KEYWDS 2 ASPARTATE BINDING EXPDTA X-RAY DIFFRACTION AUTHOR K.MANJUNATH,J.JEYAKANTHAN,K.SEKAR REVDAT 2 08-NOV-23 4O7V 1 REMARK REVDAT 1 31-DEC-14 4O7V 0 JRNL AUTH K.MANJUNATH,J.JEYAKANTHAN,K.SEKAR JRNL TITL SAICAR SYNTHETASE (TYPE-2) IN COMPLEX WITH ADP AND UDP/UMP JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 2.30 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 : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.30 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 55.10 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.8 REMARK 3 NUMBER OF REFLECTIONS : 12222 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) : 0.196 REMARK 3 R VALUE (WORKING SET) : 0.193 REMARK 3 FREE R VALUE : 0.249 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 629 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) : 2.30 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.36 REMARK 3 REFLECTION IN BIN (WORKING SET) : 823 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 97.74 REMARK 3 BIN R VALUE (WORKING SET) : 0.2100 REMARK 3 BIN FREE R VALUE SET COUNT : 43 REMARK 3 BIN FREE R VALUE : 0.2560 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1822 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 82 REMARK 3 SOLVENT ATOMS : 94 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 27.10 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 22.96 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.18000 REMARK 3 B22 (A**2) : 0.02000 REMARK 3 B33 (A**2) : -0.20000 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): 0.341 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.244 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.163 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 6.611 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.934 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.889 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 1955 ; 0.007 ; 0.020 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 2648 ; 1.391 ; 2.037 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 231 ; 5.354 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 84 ;37.794 ;24.881 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 356 ;15.114 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 8 ;15.967 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 288 ; 0.072 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1421 ; 0.004 ; 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): 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 : MASK 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 USED IF PRESENT IN REMARK 3 THE INPUT U VALUES: REFINED INDIVIDUALLY REMARK 4 REMARK 4 4O7V COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 22-JAN-14. REMARK 100 THE DEPOSITION ID IS D_1000084152. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 24-NOV-12 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 4.6 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 : BRUKER AXS MICROSTAR REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : OSMIC MIRROR REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : MAR SCANNER 345 MM PLATE REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA 3.3.20 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 12230 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.300 REMARK 200 RESOLUTION RANGE LOW (A) : 55.100 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.2 REMARK 200 DATA REDUNDANCY : 6.200 REMARK 200 R MERGE (I) : 0.07300 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 20.4000 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) : 2.42 REMARK 200 COMPLETENESS FOR SHELL (%) : 98.5 REMARK 200 DATA REDUNDANCY IN SHELL : 5.90 REMARK 200 R MERGE FOR SHELL (I) : 0.25900 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 7.100 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER 2.3.0 REMARK 200 STARTING MODEL: PDB ENTRY 3U55 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 49.59 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.44 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.2M AMMONIUM SULPHATE, 0.1M SODIUM REMARK 280 ACETATE TRIHYDRATE, 30% W/V PEG MONOMETHYL ETHER 2000, PH 4.6, REMARK 280 MICROBATCH UNDEROIL, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 2 2 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -X,Y,-Z+1/2 REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z REMARK 290 6555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 7555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 8555 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 0.00000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 39.15000 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 39.15000 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 1.000000 0.000000 0.000000 22.08000 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 77.56000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 22.08000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 77.56000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 39.15000 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 22.08000 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 77.56000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 39.15000 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 22.08000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 77.56000 REMARK 290 SMTRY3 8 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 7000 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 19250 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -56.0 KCAL/MOL 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 350 BIOMT1 2 -1.000000 0.000000 0.000000 44.16000 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 -39.15000 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 421 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 460 LIES ON A SPECIAL POSITION. 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 VAL A 2 REMARK 465 LYS A 3 REMARK 465 LEU A 4 REMARK 465 MET A 5 REMARK 465 GLU A 6 REMARK 465 VAL A 7 REMARK 465 TYR A 8 REMARK 465 GLU A 9 REMARK 465 GLY A 10 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 LYS A 11 CG CD CE NZ REMARK 470 LYS A 14 CG CD CE NZ REMARK 470 ILE A 16 CB CG1 CG2 CD1 REMARK 470 ASP A 20 CG OD1 OD2 REMARK 470 LYS A 102 CE NZ REMARK 470 LYS A 182 CE NZ REMARK 470 GLU A 234 OE1 OE2 REMARK 470 LYS A 235 CB CG CD CE NZ REMARK 470 GLU A 237 CB CG CD OE1 OE2 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 ASP A 20 39.53 -84.64 REMARK 500 ASP A 21 -44.22 -151.69 REMARK 500 LYS A 122 95.99 -68.60 REMARK 500 ALA A 189 -153.57 -129.71 REMARK 500 ASP A 190 -132.28 43.86 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 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ADP A 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE U5P A 303 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ACT A 304 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PO4 A 305 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3U54 RELATED DB: PDB REMARK 900 RELATED ID: 3U55 RELATED DB: PDB REMARK 900 RELATED ID: 4O7L RELATED DB: PDB REMARK 900 RELATED ID: 4O7N RELATED DB: PDB REMARK 900 RELATED ID: 4O7R RELATED DB: PDB REMARK 900 RELATED ID: 4O7S RELATED DB: PDB REMARK 900 RELATED ID: 4O7T RELATED DB: PDB REMARK 900 RELATED ID: 4O7W RELATED DB: PDB REMARK 900 RELATED ID: 4O7Y RELATED DB: PDB REMARK 900 RELATED ID: 4O7Z RELATED DB: PDB REMARK 900 RELATED ID: 4O81 RELATED DB: PDB REMARK 900 RELATED ID: 4O82 RELATED DB: PDB REMARK 900 RELATED ID: 4O83 RELATED DB: PDB REMARK 900 RELATED ID: 4O84 RELATED DB: PDB REMARK 900 RELATED ID: 4O86 RELATED DB: PDB DBREF 4O7V A 1 238 UNP O57978 PUR7_PYRHO 1 238 SEQRES 1 A 238 MET VAL LYS LEU MET GLU VAL TYR GLU GLY LYS ALA LYS SEQRES 2 A 238 LYS MET ILE PRO ILE ASP ASP ASP LYS LEU ILE MET GLU SEQRES 3 A 238 PHE LYS ASP ASP ALA THR ALA PHE ASP GLY THR LYS LYS SEQRES 4 A 238 ALA ARG PHE LYS GLY LYS GLY TRP LEU ASN ALA GLN LEU SEQRES 5 A 238 SER VAL ILE PHE PHE LYS LEU LEU GLU GLU HIS GLY ILE SEQRES 6 A 238 LYS THR HIS PHE ILE GLY VAL ALA GLY GLY ASN ARG LEU SEQRES 7 A 238 ILE VAL GLU LYS LEU ASP MET TYR PRO LEU GLU VAL VAL SEQRES 8 A 238 VAL ARG ASN VAL VAL ALA GLY SER LEU LYS LYS ARG LEU SEQRES 9 A 238 PRO LEU PRO GLU GLY TYR GLU LEU PRO GLU PRO ILE VAL SEQRES 10 A 238 GLU LEU TYR TYR LYS ASN ASP GLU LEU HIS ASP PRO MET SEQRES 11 A 238 ILE ASN TYR TYR HIS ALA LYS VAL LEU GLY ILE SER LEU SEQRES 12 A 238 ASP GLU ILE LYS LYS ILE GLU GLU ILE ALA LEU LYS VAL SEQRES 13 A 238 ASN GLU ILE LEU LYS ASP TYR LEU ALA LYS LYS GLY ILE SEQRES 14 A 238 ILE LEU VAL ASP PHE LYS LEU GLU PHE GLY LYS ASP LYS SEQRES 15 A 238 ASN GLY ASP ILE VAL LEU ALA ASP GLU ILE SER PRO ASP SEQRES 16 A 238 THR CYS ARG PHE TRP ASP ALA LYS THR LYS ARG SER LEU SEQRES 17 A 238 ASP LYS ASP VAL PHE ARG PHE ASP LYS GLY ASP LEU ILE SEQRES 18 A 238 GLU ALA TYR LYS GLU ILE TYR GLU ARG ILE THR GLY GLU SEQRES 19 A 238 LYS PRO GLU PHE HET UDP A 301 25 HET ADP A 302 27 HET U5P A 303 21 HET ACT A 304 4 HET PO4 A 305 5 HETNAM UDP URIDINE-5'-DIPHOSPHATE HETNAM ADP ADENOSINE-5'-DIPHOSPHATE HETNAM U5P URIDINE-5'-MONOPHOSPHATE HETNAM ACT ACETATE ION HETNAM PO4 PHOSPHATE ION FORMUL 2 UDP C9 H14 N2 O12 P2 FORMUL 3 ADP C10 H15 N5 O10 P2 FORMUL 4 U5P C9 H13 N2 O9 P FORMUL 5 ACT C2 H3 O2 1- FORMUL 6 PO4 O4 P 3- FORMUL 7 HOH *94(H2 O) HELIX 1 1 GLY A 44 HIS A 63 1 20 HELIX 2 2 ALA A 97 ARG A 103 5 7 HELIX 3 3 ASN A 132 LEU A 139 1 8 HELIX 4 4 SER A 142 LYS A 166 1 25 HELIX 5 5 LYS A 210 PHE A 215 1 6 HELIX 6 6 ASP A 219 GLY A 233 1 15 SHEET 1 A 4 LYS A 13 PRO A 17 0 SHEET 2 A 4 LYS A 22 PHE A 27 -1 O GLU A 26 N LYS A 14 SHEET 3 A 4 ARG A 77 GLU A 81 -1 O LEU A 78 N MET A 25 SHEET 4 A 4 PHE A 69 VAL A 72 -1 N GLY A 71 O ILE A 79 SHEET 1 B 2 ASP A 30 ALA A 33 0 SHEET 2 B 2 LYS A 38 ARG A 41 -1 O ALA A 40 N ALA A 31 SHEET 1 C 3 ASP A 84 MET A 85 0 SHEET 2 C 3 PHE A 178 LYS A 180 -1 O LYS A 180 N ASP A 84 SHEET 3 C 3 ILE A 186 LEU A 188 -1 O VAL A 187 N GLY A 179 SHEET 1 D 5 MET A 130 ILE A 131 0 SHEET 2 D 5 GLU A 111 TYR A 121 -1 N LEU A 119 O ILE A 131 SHEET 3 D 5 LEU A 88 VAL A 95 -1 N VAL A 91 O GLU A 118 SHEET 4 D 5 ILE A 169 LEU A 176 -1 O LEU A 176 N VAL A 90 SHEET 5 D 5 CYS A 197 ASP A 201 -1 O TRP A 200 N ILE A 170 SITE 1 AC1 15 GLU A 89 ARG A 93 GLY A 98 SER A 99 SITE 2 AC1 15 ASP A 173 LYS A 175 ASP A 195 THR A 196 SITE 3 AC1 15 CYS A 197 ARG A 198 ARG A 214 PO4 A 305 SITE 4 AC1 15 HOH A 443 HOH A 449 HOH A 481 SITE 1 AC2 11 LYS A 13 MET A 15 HIS A 68 GLU A 81 SITE 2 AC2 11 LEU A 83 MET A 85 LYS A 122 LYS A 175 SITE 3 AC2 11 GLU A 177 ALA A 189 ASP A 190 SITE 1 AC3 12 GLU A 89 ARG A 93 GLY A 98 SER A 99 SITE 2 AC3 12 ASP A 173 LYS A 175 ASP A 195 THR A 196 SITE 3 AC3 12 CYS A 197 ARG A 198 ARG A 214 HOH A 443 SITE 1 AC4 2 ARG A 103 MET A 130 SITE 1 AC5 7 THR A 32 ALA A 33 PHE A 34 LYS A 210 SITE 2 AC5 7 ARG A 214 UDP A 301 HOH A 449 CRYST1 44.160 155.120 78.300 90.00 90.00 90.00 C 2 2 21 8 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 0.022645 0.000000 0.000000 0.00000 SCALE2 0.000000 0.006447 0.000000 0.00000 SCALE3 0.000000 0.000000 0.012771 0.00000