PDB Short entry for 2Y88 HEADER ISOMERASE 03-FEB-11 2Y88 TITLE CRYSTAL STRUCTURE OF MYCOBACTERIUM TUBERCULOSIS PHOSPHORIBOSYL TITLE 2 ISOMERASE (VARIANT D11N) WITH BOUND PRFAR COMPND MOL_ID: 1; COMPND 2 MOLECULE: PHOSPHORIBOSYL ISOMERASE A; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: N-(5'-PHOSPHORIBOSYL)ANTHRANILATE ISOMERASE, 1-(5- COMPND 5 PHOSPHORIBOSYL)-5-[(5-PHOSPHORIBOSYLAMINO) METHYLIDENEAMINO] COMPND 6 IMIDAZOLE-4-CARBOXAMIDE ISOMERASE, PHOSPHORIBOSYLFORMIMINO-5- COMPND 7 AMINOIMIDAZOLE CARBOXAMIDE RIBOTIDE ISOMERASE, PRAI; COMPND 8 EC: 5.3.1.24 , 5.3.1.16; COMPND 9 ENGINEERED: YES; COMPND 10 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MYCOBACTERIUM TUBERCULOSIS; SOURCE 3 ORGANISM_TAXID: 83332; SOURCE 4 STRAIN: H37RV; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 511693; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PETM11 KEYWDS AROMATIC AMINO ACID BIOSYNTHESIS, ISOMERASE, TIM-BARREL, HISTIDINE KEYWDS 2 BIOSYNTHESIS, TRYPTOPHAN BIOSYNTHESIS EXPDTA X-RAY DIFFRACTION AUTHOR J.KUPER,A.V.DUE,A.GEERLOF,M.WILMANNS REVDAT 4 20-DEC-23 2Y88 1 REMARK SHEET REVDAT 3 17-JUL-19 2Y88 1 REMARK REVDAT 2 16-MAR-11 2Y88 1 JRNL HETATM ANISOU REVDAT 1 02-MAR-11 2Y88 0 JRNL AUTH A.V.DUE,J.KUPER,A.GEERLOF,J.P.KRIES,M.WILMANNS JRNL TITL BISUBSTRATE SPECIFICITY IN HISTIDINE/TRYPTOPHAN BIOSYNTHESIS JRNL TITL 2 ISOMERASE FROM MYCOBACTERIUM TUBERCULOSIS BY ACTIVE SITE JRNL TITL 3 METAMORPHOSIS. JRNL REF PROC.NATL.ACAD.SCI.USA V. 108 3554 2011 JRNL REFN ISSN 0027-8424 JRNL PMID 21321225 JRNL DOI 10.1073/PNAS.1015996108 REMARK 2 REMARK 2 RESOLUTION. 1.33 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0019 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) : 1.33 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 56.98 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 3 NUMBER OF REFLECTIONS : 58387 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) : 0.140 REMARK 3 R VALUE (WORKING SET) : 0.138 REMARK 3 FREE R VALUE : 0.184 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 3082 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 1.33 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.37 REMARK 3 REFLECTION IN BIN (WORKING SET) : 4096 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 95.80 REMARK 3 BIN R VALUE (WORKING SET) : 0.2460 REMARK 3 BIN FREE R VALUE SET COUNT : 215 REMARK 3 BIN FREE R VALUE : 0.3270 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1804 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 37 REMARK 3 SOLVENT ATOMS : 394 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 16.90 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 14.11 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.10900 REMARK 3 B22 (A**2) : 0.10900 REMARK 3 B33 (A**2) : -0.21800 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): 0.046 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.050 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.037 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.056 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.980 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.969 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 1968 ; 0.025 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): 1278 ; 0.003 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 2700 ; 2.206 ; 1.983 REMARK 3 BOND ANGLES OTHERS (DEGREES): 3087 ; 1.183 ; 3.004 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 265 ; 6.240 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 87 ;40.422 ;23.908 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 305 ;11.950 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 19 ;19.898 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 314 ; 0.161 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2309 ; 0.011 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 395 ; 0.002 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 424 ; 0.242 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 1604 ; 0.236 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1036 ; 0.191 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): 1189 ; 0.116 ; 0.200 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 325 ; 0.197 ; 0.200 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): 12 ; 0.187 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 36 ; 0.344 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 37 ; 0.195 ; 0.200 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): 1546 ; 4.750 ; 5.000 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2023 ; 5.129 ; 6.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 766 ; 6.054 ; 6.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 675 ; 7.261 ; 7.500 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 : BABINET MODEL PLUS MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.40 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS. REMARK 4 REMARK 4 2Y88 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 03-FEB-11. REMARK 100 THE DEPOSITION ID IS D_1290047246. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 10-FEB-06 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : EMBL/DESY, HAMBURG REMARK 200 BEAMLINE : X13 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.801 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 61458 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.330 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 (%) : 99.1 REMARK 200 DATA REDUNDANCY : 8.400 REMARK 200 R MERGE (I) : 0.04000 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 0.5800 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.33 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.40 REMARK 200 COMPLETENESS FOR SHELL (%) : 95.8 REMARK 200 DATA REDUNDANCY IN SHELL : 7.40 REMARK 200 R MERGE FOR SHELL (I) : 0.58000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 3.400 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: PDB ENTRY 2Y85 REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 52.01 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.56 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1M HEPES PH7.5, 1.4M TRI-SODIUM REMARK 280 CITRATE REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 43 21 2 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 -Y+1/2,X+1/2,Z+3/4 REMARK 290 4555 Y+1/2,-X+1/2,Z+1/4 REMARK 290 5555 -X+1/2,Y+1/2,-Z+3/4 REMARK 290 6555 X+1/2,-Y+1/2,-Z+1/4 REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-Z+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 65.61000 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 31.63500 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 31.63500 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 98.41500 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 31.63500 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 31.63500 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 32.80500 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 31.63500 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 31.63500 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 98.41500 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 31.63500 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 31.63500 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 32.80500 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 65.61000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 400 REMARK 400 COMPOUND REMARK 400 ENGINEERED RESIDUE IN CHAIN A, ASP 10 TO ASN 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 O HOH A 2384 O HOH A 2386 2.00 REMARK 500 O HOH A 2024 O HOH A 2085 2.06 REMARK 500 O HOH A 2207 O HOH A 2210 2.14 REMARK 500 CD2 LEU A 186 O HOH A 2281 2.18 REMARK 500 OE2 GLU A 146 O HOH A 2249 2.18 REMARK 500 O HOH A 2059 O HOH A 2060 2.19 REMARK 500 REMARK 500 REMARK: NULL 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 GLU A 47 CD GLU A 47 OE2 -0.067 REMARK 500 VAL A 117 CB VAL A 117 CG2 -0.174 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 ARG A 116 NE - CZ - NH1 ANGL. DEV. = 4.2 DEGREES REMARK 500 ARG A 116 NE - CZ - NH1 ANGL. DEV. = 5.2 DEGREES REMARK 500 ARG A 116 NE - CZ - NH2 ANGL. DEV. = -8.8 DEGREES REMARK 500 ARG A 192 NE - CZ - NH1 ANGL. DEV. = 3.1 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 ARG A 166 147.20 -170.76 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 A2007 DISTANCE = 6.48 ANGSTROMS REMARK 525 HOH A2034 DISTANCE = 6.02 ANGSTROMS REMARK 700 REMARK 700 SHEET REMARK 700 THE SHEET STRUCTURE OF THIS MOLECULE IS BIFURCATED. IN REMARK 700 ORDER TO REPRESENT THIS FEATURE IN THE SHEET RECORDS BELOW, REMARK 700 TWO SHEETS ARE DEFINED. REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE 2ER A 1246 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2Y85 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF MYCOBACTERIUM TUBERCULOSIS PHOSPHORIBOSYL REMARK 900 ISOMERASE WITH BOUND RCDRP REMARK 900 RELATED ID: 2Y89 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF MYCOBACTERIUM TUBERCULOSIS PHOSPHORIBOSYL REMARK 900 ISOMERASE A (VARIANT D11N) DBREF 2Y88 A 2 245 UNP P60578 HIS4_MYCTU 1 244 SEQADV 2Y88 ASN A 11 UNP P60578 ASP 10 ENGINEERED MUTATION SEQRES 1 A 244 MET PRO LEU ILE LEU LEU PRO ALA VAL ASN VAL VAL GLU SEQRES 2 A 244 GLY ARG ALA VAL ARG LEU VAL GLN GLY LYS ALA GLY SER SEQRES 3 A 244 GLN THR GLU TYR GLY SER ALA VAL ASP ALA ALA LEU GLY SEQRES 4 A 244 TRP GLN ARG ASP GLY ALA GLU TRP ILE HIS LEU VAL ASP SEQRES 5 A 244 LEU ASP ALA ALA PHE GLY ARG GLY SER ASN HIS GLU LEU SEQRES 6 A 244 LEU ALA GLU VAL VAL GLY LYS LEU ASP VAL GLN VAL GLU SEQRES 7 A 244 LEU SER GLY GLY ILE ARG ASP ASP GLU SER LEU ALA ALA SEQRES 8 A 244 ALA LEU ALA THR GLY CYS ALA ARG VAL ASN VAL GLY THR SEQRES 9 A 244 ALA ALA LEU GLU ASN PRO GLN TRP CYS ALA ARG VAL ILE SEQRES 10 A 244 GLY GLU HIS GLY ASP GLN VAL ALA VAL GLY LEU ASP VAL SEQRES 11 A 244 GLN ILE ILE ASP GLY GLU HIS ARG LEU ARG GLY ARG GLY SEQRES 12 A 244 TRP GLU THR ASP GLY GLY ASP LEU TRP ASP VAL LEU GLU SEQRES 13 A 244 ARG LEU ASP SER GLU GLY CYS SER ARG PHE VAL VAL THR SEQRES 14 A 244 ASP ILE THR LYS ASP GLY THR LEU GLY GLY PRO ASN LEU SEQRES 15 A 244 ASP LEU LEU ALA GLY VAL ALA ASP ARG THR ASP ALA PRO SEQRES 16 A 244 VAL ILE ALA SER GLY GLY VAL SER SER LEU ASP ASP LEU SEQRES 17 A 244 ARG ALA ILE ALA THR LEU THR HIS ARG GLY VAL GLU GLY SEQRES 18 A 244 ALA ILE VAL GLY LYS ALA LEU TYR ALA ARG ARG PHE THR SEQRES 19 A 244 LEU PRO GLN ALA LEU ALA ALA VAL ARG ASP HET 2ER A1246 42 HETNAM 2ER [(2R,3S,4R,5R)-5-[4-AMINOCARBONYL-5-[[(Z)-[(3R,4R)-3,4- HETNAM 2 2ER DIHYDROXY-2-OXO-5-PHOSPHONOOXY- HETNAM 3 2ER PENTYL]IMINOMETHYL]AMINO]IMIDAZOL-1-YL]-3,4-DIHYDROXY- HETNAM 4 2ER OXOLAN-2-YL]METHYL DIHYDROGEN PHOSPHATE FORMUL 2 2ER C15 H25 N5 O15 P2 FORMUL 3 HOH *394(H2 O) HELIX 1 1 ALA A 34 ASP A 44 1 11 HELIX 2 2 LEU A 54 PHE A 58 1 5 HELIX 3 3 ASN A 63 LEU A 74 1 12 HELIX 4 4 ASP A 86 THR A 96 1 11 HELIX 5 5 GLY A 104 ASN A 110 1 7 HELIX 6 6 ASN A 110 GLY A 122 1 13 HELIX 7 7 LEU A 152 GLU A 162 1 11 HELIX 8 8 ASN A 182 ASP A 191 1 10 HELIX 9 9 SER A 205 THR A 214 1 10 HELIX 10 10 LEU A 215 ARG A 218 5 4 HELIX 11 11 GLY A 226 ALA A 231 1 6 HELIX 12 12 THR A 235 VAL A 243 1 9 SHEET 1 AA 7 LYS A 24 SER A 33 0 SHEET 2 AA 7 ARG A 16 VAL A 21 -1 O ALA A 17 N TYR A 31 SHEET 3 AA 7 ILE A 5 VAL A 13 -1 O ASN A 11 N VAL A 18 SHEET 4 AA 7 VAL A 220 VAL A 225 1 O GLU A 221 N ILE A 5 SHEET 5 AA 7 VAL A 197 SER A 200 1 O VAL A 197 N GLU A 221 SHEET 6 AA 7 PHE A 167 ASP A 171 1 O PHE A 167 N ILE A 198 SHEET 7 AA 7 VAL A 125 ILE A 134 1 O VAL A 127 N VAL A 168 SHEET 1 AB 2 LYS A 24 SER A 33 0 SHEET 2 AB 2 VAL A 125 ILE A 134 1 O ALA A 126 N VAL A 103 SITE 1 AC1 38 ALA A 9 ASN A 11 ARG A 19 GLY A 23 SITE 2 AC1 38 HIS A 50 VAL A 52 LEU A 54 ALA A 57 SITE 3 AC1 38 PHE A 58 SER A 81 GLY A 82 GLY A 83 SITE 4 AC1 38 ARG A 85 GLY A 104 THR A 105 ASP A 130 SITE 5 AC1 38 GLY A 144 TRP A 145 ASP A 175 GLY A 176 SITE 6 AC1 38 SER A 200 GLY A 201 GLY A 202 ILE A 224 SITE 7 AC1 38 GLY A 226 LYS A 227 HOH A2282 HOH A2384 SITE 8 AC1 38 HOH A2385 HOH A2386 HOH A2387 HOH A2388 SITE 9 AC1 38 HOH A2389 HOH A2390 HOH A2391 HOH A2392 SITE 10 AC1 38 HOH A2393 HOH A2394 CRYST1 63.270 63.270 131.220 90.00 90.00 90.00 P 43 21 2 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 0.015805 0.000000 0.000000 0.00000 SCALE2 0.000000 0.015805 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007621 0.00000