HEADER TRANSFERASE 22-AUG-06 2I4T TITLE CRYSTAL STRUCTURE OF PURINE NUCLEOSIDE PHOSPHORYLASE FROM TRICHOMONAS TITLE 2 VAGINALIS WITH IMM-A COMPND MOL_ID: 1; COMPND 2 MOLECULE: TRICHOMONAS VAGINALIS PURINE NUCLEOSIDE PHOSPHORYLASE; COMPND 3 CHAIN: A, B, C; COMPND 4 EC: 2.4.2.1; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: TRICHOMONAS VAGINALIS; SOURCE 3 ORGANISM_TAXID: 5722; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS PURINE NUCLEOSIDE PHOSPHORYLASE, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR A.RINALDO-MATTHIS,V.L.SCHRAMM,S.C.ALMO REVDAT 6 21-FEB-24 2I4T 1 REMARK REVDAT 5 18-OCT-17 2I4T 1 REMARK REVDAT 4 01-FEB-17 2I4T 1 TITLE REVDAT 3 13-JUL-11 2I4T 1 VERSN REVDAT 2 24-FEB-09 2I4T 1 VERSN REVDAT 1 05-JUN-07 2I4T 0 JRNL AUTH A.RINALDO-MATTHIS,C.WING,M.GHANEM,H.DENG,P.WU,A.GUPTA, JRNL AUTH 2 P.C.TYLER,G.B.EVANS,R.H.FURNEAUX,S.C.ALMO,C.C.WANG, JRNL AUTH 3 V.L.SCHRAMM JRNL TITL INHIBITION AND STRUCTURE OF TRICHOMONAS VAGINALIS PURINE JRNL TITL 2 NUCLEOSIDE PHOSPHORYLASE WITH PICOMOLAR TRANSITION STATE JRNL TITL 3 ANALOGUES. JRNL REF BIOCHEMISTRY V. 46 659 2007 JRNL REFN ISSN 0006-2960 JRNL PMID 17223688 JRNL DOI 10.1021/BI061515R REMARK 2 REMARK 2 RESOLUTION. 2.74 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 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) : 2.74 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 7.99 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.1 REMARK 3 NUMBER OF REFLECTIONS : 35515 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) : 0.170 REMARK 3 R VALUE (WORKING SET) : 0.170 REMARK 3 FREE R VALUE : 0.225 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1781 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) : 2.74 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.80 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2207 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 96.14 REMARK 3 BIN R VALUE (WORKING SET) : 0.2490 REMARK 3 BIN FREE R VALUE SET COUNT : 112 REMARK 3 BIN FREE R VALUE : 0.3120 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 5283 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 82 REMARK 3 SOLVENT ATOMS : 75 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 60.80 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.07000 REMARK 3 B22 (A**2) : -0.07000 REMARK 3 B33 (A**2) : 0.10000 REMARK 3 B12 (A**2) : -0.03000 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): 0.329 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.254 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.178 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 8.781 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.961 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.929 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 5496 ; 0.021 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 7448 ; 2.242 ; 1.974 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 687 ; 7.596 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 226 ;36.870 ;24.336 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 923 ;20.945 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 23 ;23.009 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 853 ; 0.157 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4064 ; 0.007 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 2927 ; 0.297 ; 0.300 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 3793 ; 0.345 ; 0.500 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 511 ; 0.224 ; 0.500 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): 68 ; 0.240 ; 0.300 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 16 ; 0.256 ; 0.500 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): 3515 ; 1.513 ; 2.000 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 5524 ; 2.500 ; 3.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2229 ; 1.487 ; 2.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1924 ; 2.243 ; 3.000 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 : 2 REMARK 3 REMARK 3 NCS GROUP NUMBER : 1 REMARK 3 CHAIN NAMES : A B REMARK 3 NUMBER OF COMPONENTS NCS GROUP : 1 REMARK 3 COMPONENT C SSSEQI TO C SSSEQI CODE REMARK 3 1 A 1 A 235 4 REMARK 3 1 B 1 B 235 4 REMARK 3 GROUP CHAIN COUNT RMS WEIGHT REMARK 3 MEDIUM POSITIONAL 1 A (A): 1759 ; 0.71 ; 0.50 REMARK 3 MEDIUM THERMAL 1 A (A**2): 1759 ; 2.48 ; 2.00 REMARK 3 REMARK 3 NCS GROUP NUMBER : 2 REMARK 3 CHAIN NAMES : A C REMARK 3 NUMBER OF COMPONENTS NCS GROUP : 1 REMARK 3 COMPONENT C SSSEQI TO C SSSEQI CODE REMARK 3 1 A 1 A 235 4 REMARK 3 1 C 1 C 235 4 REMARK 3 GROUP CHAIN COUNT RMS WEIGHT REMARK 3 MEDIUM POSITIONAL 2 A (A): 1730 ; 0.35 ; 0.50 REMARK 3 MEDIUM THERMAL 2 A (A**2): 1730 ; 4.41 ; 2.00 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 ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 2I4T COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 24-AUG-06. REMARK 100 THE DEPOSITION ID IS D_1000039137. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 16-MAR-06 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 : NSLS REMARK 200 BEAMLINE : X29A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97930 REMARK 200 MONOCHROMATOR : SI(III) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO, HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 37032 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.740 REMARK 200 RESOLUTION RANGE LOW (A) : 30.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.3 REMARK 200 DATA REDUNDANCY : 6.200 REMARK 200 R MERGE (I) : 0.09000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 9.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.74 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.85 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.9 REMARK 200 DATA REDUNDANCY IN SHELL : 6.20 REMARK 200 R MERGE FOR SHELL (I) : 0.53400 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: MOLREP REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 73.34 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 4.61 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.2 M LITHIUM CITRATE, 30% PEG 3350, REMARK 280 PH 8.5, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 298K, PH 8.50 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 62 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+2/3 REMARK 290 3555 -X+Y,-X,Z+1/3 REMARK 290 4555 -X,-Y,Z REMARK 290 5555 Y,-X+Y,Z+2/3 REMARK 290 6555 X-Y,X,Z+1/3 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 68.40800 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 34.20400 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 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 5 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 68.40800 REMARK 290 SMTRY1 6 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 34.20400 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2, 3 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 300 REMARK: THE BIOLOGICAL ASSEMBLY IS A HEXAMER GENERATED FROM THE REMARK 300 TRIMER IN THE ASYMMETRIC UNIT BY THE OPERATIONS: -X-1, -Y, Z. 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, C 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 -155.76500 REMARK 350 BIOMT2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 0.00000 REMARK 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 5220 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 17650 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -41.0 KCAL/MOL 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 REMARK 350 BIOMOLECULE: 3 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 5210 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 17320 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -45.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: C 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 -155.76500 REMARK 350 BIOMT2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 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 GLU A 211 REMARK 465 THR A 212 REMARK 465 THR A 213 REMARK 465 ALA A 214 REMARK 465 GLU A 215 REMARK 465 GLU A 216 REMARK 465 HIS B 236 REMARK 465 ARG C 101 REMARK 465 HIS C 209 REMARK 465 GLU C 210 REMARK 465 GLU C 211 REMARK 465 THR C 212 REMARK 465 THR C 213 REMARK 465 ALA C 214 REMARK 465 GLU C 215 REMARK 465 GLU C 216 REMARK 465 ARG C 217 REMARK 465 GLN C 218 REMARK 465 HIS C 236 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 ILE C 103 C VAL C 104 N -0.159 REMARK 500 CYS C 200 CB CYS C 200 SG -0.116 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 PRO A 36 C - N - CA ANGL. DEV. = 15.0 DEGREES REMARK 500 PRO A 36 C - N - CD ANGL. DEV. = -14.2 DEGREES REMARK 500 ARG B 117 NE - CZ - NH1 ANGL. DEV. = -3.9 DEGREES REMARK 500 ASP C 102 CB - CG - OD1 ANGL. DEV. = -5.7 DEGREES REMARK 500 ILE C 103 O - C - N ANGL. DEV. = -12.1 DEGREES REMARK 500 VAL C 104 O - C - N ANGL. DEV. = -13.1 DEGREES REMARK 500 CYS C 200 N - CA - CB ANGL. DEV. = -12.9 DEGREES REMARK 500 CYS C 200 CA - CB - SG ANGL. DEV. = 8.8 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 SER A 78 -65.67 -104.22 REMARK 500 ILE A 94 -62.18 -121.48 REMARK 500 GLU A 179 -154.41 -134.65 REMARK 500 MET A 180 26.02 -140.44 REMARK 500 GLU A 181 -36.27 -146.11 REMARK 500 ASP A 204 154.56 175.61 REMARK 500 HIS A 208 121.52 -175.42 REMARK 500 HIS A 209 126.39 -21.34 REMARK 500 GLN A 218 -63.15 -17.94 REMARK 500 ALA B 7 -173.76 -59.50 REMARK 500 VAL B 9 124.62 -28.23 REMARK 500 ALA B 13 -173.66 -62.73 REMARK 500 TYR B 32 -13.51 -151.09 REMARK 500 ARG B 43 14.56 54.53 REMARK 500 LYS B 53 49.20 27.52 REMARK 500 LYS B 81 28.05 49.26 REMARK 500 ARG B 101 -12.53 72.22 REMARK 500 PHE B 120 43.05 -147.88 REMARK 500 ASN B 145 35.49 98.11 REMARK 500 GLU B 179 -157.45 -139.33 REMARK 500 HIS B 208 43.13 -158.25 REMARK 500 GLU B 210 138.63 88.14 REMARK 500 GLU B 211 -155.25 -164.96 REMARK 500 THR B 212 158.38 178.82 REMARK 500 ASN B 223 -69.88 124.54 REMARK 500 PRO C 3 -29.18 -24.54 REMARK 500 ALA C 7 168.92 -48.60 REMARK 500 VAL C 9 101.81 -50.36 REMARK 500 ILE C 28 32.62 -95.59 REMARK 500 GLU C 30 -25.04 112.99 REMARK 500 THR C 31 4.93 -167.37 REMARK 500 TYR C 32 -33.68 -161.47 REMARK 500 ASN C 35 41.39 78.61 REMARK 500 PRO C 36 87.52 -41.31 REMARK 500 ASN C 40 114.27 -160.94 REMARK 500 ARG C 43 13.52 54.40 REMARK 500 LYS C 53 47.50 38.99 REMARK 500 PHE C 120 31.85 -142.53 REMARK 500 ASP C 132 -74.55 -33.35 REMARK 500 GLU C 179 -152.47 -144.32 REMARK 500 MET C 180 20.42 -141.45 REMARK 500 ALA C 194 -159.47 -110.36 REMARK 500 ILE C 199 136.36 169.82 REMARK 500 CYS C 200 88.10 154.18 REMARK 500 ASP C 204 148.69 144.93 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 PO4 C 238 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PO4 A 239 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PO4 B 240 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PO4 C 241 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PO4 A 242 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE UA2 B 241 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE UA2 C 242 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE UA2 A 243 REMARK 999 REMARK 999 SEQUENCE REMARK 999 CURRENTLY, THERE IS NO AMINOACID SEQUENCE DATABASE REMARK 999 REFERENCE AVAILABLE FOR THE PROTEIN DBREF 2I4T A 1 235 UNP A2E7Y6 A2E7Y6_TRIVA 2 236 DBREF 2I4T B 1 235 UNP A2E7Y6 A2E7Y6_TRIVA 2 236 DBREF 2I4T C 1 235 UNP A2E7Y6 A2E7Y6_TRIVA 2 236 SEQRES 1 A 236 ALA THR PRO HIS ASN SER ALA GLN VAL GLY ASP PHE ALA SEQRES 2 A 236 GLU THR VAL LEU MET CYS GLY ASP PRO LEU ARG ALA LYS SEQRES 3 A 236 LEU ILE ALA GLU THR TYR LEU GLU ASN PRO LYS LEU VAL SEQRES 4 A 236 ASN ASN VAL ARG GLY ILE GLN GLY TYR THR GLY THR TYR SEQRES 5 A 236 LYS GLY LYS PRO ILE SER VAL MET GLY HIS GLY MET GLY SEQRES 6 A 236 LEU PRO SER ILE CYS ILE TYR ALA GLU GLU LEU TYR SER SEQRES 7 A 236 THR TYR LYS VAL LYS THR ILE ILE ARG VAL GLY THR CYS SEQRES 8 A 236 GLY ALA ILE ASP MET ASP ILE HIS THR ARG ASP ILE VAL SEQRES 9 A 236 ILE PHE THR SER ALA GLY THR ASN SER LYS ILE ASN ARG SEQRES 10 A 236 ILE ARG PHE MET ASP HIS ASP TYR PRO ALA THR ALA SER SEQRES 11 A 236 PHE ASP VAL VAL CYS ALA LEU VAL ASP ALA ALA LYS GLU SEQRES 12 A 236 LEU ASN ILE PRO ALA LYS VAL GLY LYS GLY PHE SER THR SEQRES 13 A 236 ASP LEU PHE TYR ASN PRO GLN THR GLU LEU ALA GLN LEU SEQRES 14 A 236 MET ASN LYS PHE HIS PHE LEU ALA VAL GLU MET GLU SER SEQRES 15 A 236 ALA GLY LEU PHE PRO ILE ALA ASP LEU TYR GLY ALA ARG SEQRES 16 A 236 ALA GLY CYS ILE CYS THR VAL SER ASP HIS ILE LEU HIS SEQRES 17 A 236 HIS GLU GLU THR THR ALA GLU GLU ARG GLN ASN SER PHE SEQRES 18 A 236 GLN ASN MET MET LYS ILE ALA LEU GLU ALA ALA ILE LYS SEQRES 19 A 236 LEU HIS SEQRES 1 B 236 ALA THR PRO HIS ASN SER ALA GLN VAL GLY ASP PHE ALA SEQRES 2 B 236 GLU THR VAL LEU MET CYS GLY ASP PRO LEU ARG ALA LYS SEQRES 3 B 236 LEU ILE ALA GLU THR TYR LEU GLU ASN PRO LYS LEU VAL SEQRES 4 B 236 ASN ASN VAL ARG GLY ILE GLN GLY TYR THR GLY THR TYR SEQRES 5 B 236 LYS GLY LYS PRO ILE SER VAL MET GLY HIS GLY MET GLY SEQRES 6 B 236 LEU PRO SER ILE CYS ILE TYR ALA GLU GLU LEU TYR SER SEQRES 7 B 236 THR TYR LYS VAL LYS THR ILE ILE ARG VAL GLY THR CYS SEQRES 8 B 236 GLY ALA ILE ASP MET ASP ILE HIS THR ARG ASP ILE VAL SEQRES 9 B 236 ILE PHE THR SER ALA GLY THR ASN SER LYS ILE ASN ARG SEQRES 10 B 236 ILE ARG PHE MET ASP HIS ASP TYR PRO ALA THR ALA SER SEQRES 11 B 236 PHE ASP VAL VAL CYS ALA LEU VAL ASP ALA ALA LYS GLU SEQRES 12 B 236 LEU ASN ILE PRO ALA LYS VAL GLY LYS GLY PHE SER THR SEQRES 13 B 236 ASP LEU PHE TYR ASN PRO GLN THR GLU LEU ALA GLN LEU SEQRES 14 B 236 MET ASN LYS PHE HIS PHE LEU ALA VAL GLU MET GLU SER SEQRES 15 B 236 ALA GLY LEU PHE PRO ILE ALA ASP LEU TYR GLY ALA ARG SEQRES 16 B 236 ALA GLY CYS ILE CYS THR VAL SER ASP HIS ILE LEU HIS SEQRES 17 B 236 HIS GLU GLU THR THR ALA GLU GLU ARG GLN ASN SER PHE SEQRES 18 B 236 GLN ASN MET MET LYS ILE ALA LEU GLU ALA ALA ILE LYS SEQRES 19 B 236 LEU HIS SEQRES 1 C 236 ALA THR PRO HIS ASN SER ALA GLN VAL GLY ASP PHE ALA SEQRES 2 C 236 GLU THR VAL LEU MET CYS GLY ASP PRO LEU ARG ALA LYS SEQRES 3 C 236 LEU ILE ALA GLU THR TYR LEU GLU ASN PRO LYS LEU VAL SEQRES 4 C 236 ASN ASN VAL ARG GLY ILE GLN GLY TYR THR GLY THR TYR SEQRES 5 C 236 LYS GLY LYS PRO ILE SER VAL MET GLY HIS GLY MET GLY SEQRES 6 C 236 LEU PRO SER ILE CYS ILE TYR ALA GLU GLU LEU TYR SER SEQRES 7 C 236 THR TYR LYS VAL LYS THR ILE ILE ARG VAL GLY THR CYS SEQRES 8 C 236 GLY ALA ILE ASP MET ASP ILE HIS THR ARG ASP ILE VAL SEQRES 9 C 236 ILE PHE THR SER ALA GLY THR ASN SER LYS ILE ASN ARG SEQRES 10 C 236 ILE ARG PHE MET ASP HIS ASP TYR PRO ALA THR ALA SER SEQRES 11 C 236 PHE ASP VAL VAL CYS ALA LEU VAL ASP ALA ALA LYS GLU SEQRES 12 C 236 LEU ASN ILE PRO ALA LYS VAL GLY LYS GLY PHE SER THR SEQRES 13 C 236 ASP LEU PHE TYR ASN PRO GLN THR GLU LEU ALA GLN LEU SEQRES 14 C 236 MET ASN LYS PHE HIS PHE LEU ALA VAL GLU MET GLU SER SEQRES 15 C 236 ALA GLY LEU PHE PRO ILE ALA ASP LEU TYR GLY ALA ARG SEQRES 16 C 236 ALA GLY CYS ILE CYS THR VAL SER ASP HIS ILE LEU HIS SEQRES 17 C 236 HIS GLU GLU THR THR ALA GLU GLU ARG GLN ASN SER PHE SEQRES 18 C 236 GLN ASN MET MET LYS ILE ALA LEU GLU ALA ALA ILE LYS SEQRES 19 C 236 LEU HIS HET PO4 A 239 5 HET PO4 A 242 5 HET UA2 A 243 19 HET PO4 B 240 5 HET UA2 B 241 19 HET PO4 C 238 5 HET PO4 C 241 5 HET UA2 C 242 19 HETNAM PO4 PHOSPHATE ION HETNAM UA2 3,4-PYRROLIDINEDIOL,2-(4-AMINO-5H-PYRROLO[3,2- HETNAM 2 UA2 D]PYRIMIDIN-7-YL)-5-(HYDROXYMETHYL)-2S,3S,4R,5R FORMUL 4 PO4 5(O4 P 3-) FORMUL 6 UA2 3(C11 H15 N5 O3) FORMUL 12 HOH *75(H2 O) HELIX 1 1 ASP A 21 LEU A 33 1 13 HELIX 2 2 ASN A 41 ILE A 45 5 5 HELIX 3 3 GLY A 65 THR A 79 1 15 HELIX 4 4 LYS A 114 PHE A 120 1 7 HELIX 5 5 SER A 130 LEU A 144 1 15 HELIX 6 6 GLU A 165 PHE A 173 1 9 HELIX 7 7 GLU A 181 TYR A 192 1 12 HELIX 8 9 ASP B 21 LEU B 33 1 13 HELIX 9 10 ASN B 41 ILE B 45 5 5 HELIX 10 11 GLY B 65 THR B 79 1 15 HELIX 11 12 LYS B 114 ARG B 119 1 6 HELIX 12 13 SER B 130 LEU B 144 1 15 HELIX 13 14 GLU B 165 PHE B 173 1 9 HELIX 14 15 GLU B 181 TYR B 192 1 12 HELIX 15 16 THR B 213 SER B 220 1 8 HELIX 16 17 ASN B 223 LEU B 235 1 13 HELIX 17 18 ASP C 21 ILE C 28 1 8 HELIX 18 19 ASN C 41 ILE C 45 5 5 HELIX 19 20 GLY C 65 THR C 79 1 15 HELIX 20 21 LYS C 114 ARG C 119 1 6 HELIX 21 22 SER C 130 LEU C 144 1 15 HELIX 22 23 GLU C 165 PHE C 173 1 9 HELIX 23 24 GLU C 181 TYR C 192 1 12 HELIX 24 25 ASN C 219 LEU C 235 1 17 SHEET 1 A10 GLU A 34 ASN A 40 0 SHEET 2 A10 GLY A 47 TYR A 52 -1 O GLY A 47 N ASN A 40 SHEET 3 A10 LYS A 55 GLY A 61 -1 O LYS A 55 N TYR A 52 SHEET 4 A10 THR A 15 CYS A 19 1 N LEU A 17 O SER A 58 SHEET 5 A10 THR A 84 ALA A 93 1 O VAL A 88 N MET A 18 SHEET 6 A10 ARG A 195 HIS A 205 1 O ASP A 204 N ALA A 93 SHEET 7 A10 ILE A 103 THR A 111 -1 N VAL A 104 O CYS A 200 SHEET 8 A10 ALA A 148 SER A 155 1 O GLY A 153 N SER A 108 SHEET 9 A10 ALA A 177 GLU A 179 1 O GLU A 179 N PHE A 154 SHEET 10 A10 THR A 84 ALA A 93 -1 N GLY A 92 O VAL A 178 SHEET 1 B10 GLU B 34 ASN B 40 0 SHEET 2 B10 GLY B 47 TYR B 52 -1 O GLY B 47 N ASN B 40 SHEET 3 B10 LYS B 55 GLY B 61 -1 O LYS B 55 N TYR B 52 SHEET 4 B10 THR B 15 CYS B 19 1 N LEU B 17 O SER B 58 SHEET 5 B10 THR B 84 ALA B 93 1 O VAL B 88 N MET B 18 SHEET 6 B10 ARG B 195 HIS B 205 1 O SER B 203 N CYS B 91 SHEET 7 B10 ILE B 103 THR B 111 -1 N VAL B 104 O CYS B 200 SHEET 8 B10 LYS B 149 SER B 155 1 O LYS B 149 N ILE B 105 SHEET 9 B10 ALA B 177 GLU B 179 1 O GLU B 179 N PHE B 154 SHEET 10 B10 THR B 84 ALA B 93 -1 N GLY B 92 O VAL B 178 SHEET 1 C 6 LYS C 37 ASN C 40 0 SHEET 2 C 6 GLY C 47 THR C 49 -1 O GLY C 47 N ASN C 40 SHEET 3 C 6 ILE C 57 VAL C 59 -1 O VAL C 59 N TYR C 48 SHEET 4 C 6 THR C 15 MET C 18 1 N LEU C 17 O SER C 58 SHEET 5 C 6 THR C 84 ARG C 87 1 O THR C 84 N VAL C 16 SHEET 6 C 6 ARG C 195 CYS C 198 1 O GLY C 197 N ARG C 87 SHEET 1 D 5 GLY C 92 ALA C 93 0 SHEET 2 D 5 ALA C 177 GLU C 179 -1 O VAL C 178 N GLY C 92 SHEET 3 D 5 LYS C 149 SER C 155 1 N PHE C 154 O GLU C 179 SHEET 4 D 5 ILE C 103 THR C 111 1 N GLY C 110 O GLY C 153 SHEET 5 D 5 CYS C 200 THR C 201 -1 O CYS C 200 N VAL C 104 CISPEP 1 CYS B 91 GLY B 92 0 0.17 CISPEP 2 HIS B 209 GLU B 210 0 0.01 CISPEP 3 ALA C 29 GLU C 30 0 2.64 CISPEP 4 ILE C 199 CYS C 200 0 0.26 SITE 1 AC1 8 CYS C 19 GLY C 20 ASP C 21 ARG C 43 SITE 2 AC1 8 ARG C 87 GLY C 89 THR C 90 UA2 C 242 SITE 1 AC2 7 GLY A 20 ARG A 24 ARG A 87 GLY A 89 SITE 2 AC2 7 THR A 90 UA2 A 243 ARG B 43 SITE 1 AC3 7 ARG A 43 CYS B 19 GLY B 20 ARG B 24 SITE 2 AC3 7 ARG B 87 THR B 90 UA2 B 241 SITE 1 AC4 6 THR A 107 GLY A 151 THR C 128 SER C 130 SITE 2 AC4 6 PHE C 131 ASP C 190 SITE 1 AC5 5 PRO A 22 ARG A 43 ILE A 45 GLY A 63 SITE 2 AC5 5 ARG B 43 SITE 1 AC6 16 HIS A 4 ARG A 43 MET B 64 ARG B 87 SITE 2 AC6 16 THR B 90 CYS B 91 GLY B 92 PHE B 159 SITE 3 AC6 16 VAL B 178 GLU B 179 MET B 180 GLU B 181 SITE 4 AC6 16 SER B 203 ASP B 204 PO4 B 240 HOH B 263 SITE 1 AC7 14 HIS C 4 ARG C 43 ARG C 87 THR C 90 SITE 2 AC7 14 CYS C 91 PHE C 159 VAL C 178 GLU C 179 SITE 3 AC7 14 MET C 180 GLU C 181 ASP C 204 ILE C 206 SITE 4 AC7 14 PO4 C 238 HOH C 256 SITE 1 AC8 14 MET A 64 ARG A 87 THR A 90 CYS A 91 SITE 2 AC8 14 GLY A 92 PHE A 159 VAL A 178 GLU A 179 SITE 3 AC8 14 MET A 180 GLU A 181 ASP A 204 PO4 A 239 SITE 4 AC8 14 HIS B 4 ARG B 43 CRYST1 155.765 155.765 102.612 90.00 90.00 120.00 P 62 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 0.006420 0.003707 0.000000 0.00000 SCALE2 0.000000 0.007413 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009745 0.00000