HEADER TRANSFERASE 18-MAR-09 3GO7 TITLE CRYSTAL STRUCTURE OF M. TUBERCULOSIS RIBOKINASE (RV2436) IN COMPLEX TITLE 2 WITH RIBOSE COMPND MOL_ID: 1; COMPND 2 MOLECULE: RIBOKINASE RBSK; COMPND 3 CHAIN: A, B; COMPND 4 EC: 2.7.1.15; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MYCOBACTERIUM TUBERCULOSIS; SOURCE 3 ORGANISM_TAXID: 1773; SOURCE 4 STRAIN: H37RV; SOURCE 5 GENE: RBSK, RV2436; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET28 KEYWDS PHOSPHOFRUCTOKINASE, CARBOHYDRATE KINASE, KINASE, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR E.I.MASTERS,Y.SUN,Y.WANG,W.B.PARKER,R.LI REVDAT 5 21-FEB-24 3GO7 1 HETSYN REVDAT 4 29-JUL-20 3GO7 1 COMPND REMARK SEQADV HETNAM REVDAT 4 2 1 LINK SITE ATOM REVDAT 3 24-JAN-18 3GO7 1 JRNL REVDAT 2 01-NOV-17 3GO7 1 REMARK REVDAT 1 31-MAR-10 3GO7 0 JRNL AUTH E.I.MASTERS,Y.SUN,Y.WANG,W.B.PARKER,R.LI JRNL TITL CRYSTAL STRUCTURE AND BIOCHEMICAL CHARACTERIZATION OF JRNL TITL 2 M.TUBERCULOSIS RIBOKINASE (RV2436) JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 2.50 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) : 2.50 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 42.22 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.2 REMARK 3 NUMBER OF REFLECTIONS : 25905 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) : 0.179 REMARK 3 R VALUE (WORKING SET) : 0.176 REMARK 3 FREE R VALUE : 0.237 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1308 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) : 2.50 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.57 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1705 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 92.57 REMARK 3 BIN R VALUE (WORKING SET) : 0.3140 REMARK 3 BIN FREE R VALUE SET COUNT : 76 REMARK 3 BIN FREE R VALUE : 0.3730 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4010 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 12 REMARK 3 SOLVENT ATOMS : 229 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 45.25 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 1.47000 REMARK 3 B22 (A**2) : -0.18000 REMARK 3 B33 (A**2) : -1.21000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.10000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.337 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.251 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.176 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 8.147 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.959 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.924 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4092 ; 0.013 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5632 ; 1.399 ; 1.961 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 572 ; 6.357 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 148 ;35.787 ;23.649 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 522 ;15.918 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 34 ;20.038 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 694 ; 0.084 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3174 ; 0.005 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1963 ; 0.213 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 2847 ; 0.305 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 266 ; 0.160 ; 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): 56 ; 0.166 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 13 ; 0.230 ; 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): 2899 ; 0.816 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 4564 ; 1.457 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1275 ; 1.954 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1068 ; 3.320 ; 4.500 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 : 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 3GO7 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 31-MAR-09. REMARK 100 THE DEPOSITION ID IS D_1000052106. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 09-OCT-08 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 22-BM REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.00 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : ROSENBAUM-ROCK MONOCHROMATOR REMARK 200 HIGH-RESOLUTION DOUBLE-CRYSTAL REMARK 200 SI (111) SAGITTAL FOCUSING. REMARK 200 ROSENBAUM-ROCK VERTICAL FOCUSING REMARK 200 MIRROR. REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 225 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO, HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK, HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 26190 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.500 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.1 REMARK 200 DATA REDUNDANCY : 3.600 REMARK 200 R MERGE (I) : 0.06300 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 19.9590 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.50 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.54 REMARK 200 COMPLETENESS FOR SHELL (%) : 89.6 REMARK 200 DATA REDUNDANCY IN SHELL : 2.20 REMARK 200 R MERGE FOR SHELL (I) : 0.43800 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: NULL REMARK 200 SOFTWARE USED: REFINEMENT WITH COORDINATES FROM PREVIOUSLY SOLVED REMARK 200 MTB RIBOKINASE STRUCTURE REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 60.03 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.08 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.2 M SODIUM/POTASSIUM PHOSPHATE, 0.1 REMARK 280 M BIS-TRIS PROPANE, 16% PEG 3350, PH 6.5, VAPOR DIFFUSION, REMARK 280 TEMPERATURE 295K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1 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+1/2,Y+1/2,Z REMARK 290 4555 -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 0.00000 REMARK 290 SMTRY1 3 1.000000 0.000000 0.000000 39.51250 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 59.60350 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 39.51250 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 59.60350 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 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: 3080 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 21760 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -23.0 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 APPLY THE FOLLOWING TO CHAINS: B REMARK 350 BIOMT1 2 -1.000000 0.000000 0.000000 0.00000 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: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 8350 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 41340 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -55.0 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 BIOMT1 2 -1.000000 0.000000 0.000000 0.00000 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 MET A -5 REMARK 465 HIS A -4 REMARK 465 HIS A -3 REMARK 465 HIS A -2 REMARK 465 HIS A -1 REMARK 465 HIS A 0 REMARK 465 HIS A 1 REMARK 465 ALA A 2 REMARK 465 ASN A 3 REMARK 465 ALA A 4 REMARK 465 SER A 5 REMARK 465 GLU A 6 REMARK 465 THR A 7 REMARK 465 ASN A 8 REMARK 465 VAL A 9 REMARK 465 GLY A 10 REMARK 465 PRO A 11 REMARK 465 MET A 12 REMARK 465 ARG A 300 REMARK 465 HIS A 301 REMARK 465 ASN A 302 REMARK 465 GLY A 303 REMARK 465 SER A 304 REMARK 465 MET B -5 REMARK 465 HIS B -4 REMARK 465 HIS B -3 REMARK 465 HIS B -2 REMARK 465 HIS B -1 REMARK 465 HIS B 0 REMARK 465 HIS B 1 REMARK 465 ALA B 2 REMARK 465 ASN B 3 REMARK 465 ALA B 4 REMARK 465 SER B 5 REMARK 465 GLU B 6 REMARK 465 THR B 7 REMARK 465 ASN B 8 REMARK 465 VAL B 9 REMARK 465 GLY B 10 REMARK 465 PRO B 11 REMARK 465 MET B 12 REMARK 465 ARG B 300 REMARK 465 HIS B 301 REMARK 465 ASN B 302 REMARK 465 GLY B 303 REMARK 465 SER B 304 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 75 43.21 -91.93 REMARK 500 ALA A 90 19.73 80.20 REMARK 500 PRO A 100 150.33 -48.75 REMARK 500 LEU A 211 48.92 -141.81 REMARK 500 VAL A 282 -69.68 -103.67 REMARK 500 ALA A 298 3.52 -68.88 REMARK 500 ALA B 114 19.35 51.83 REMARK 500 ALA B 173 174.34 -55.55 REMARK 500 ALA B 298 -12.52 -47.47 REMARK 500 REMARK 500 REMARK: NULL 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 306 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 236 O REMARK 620 2 ALA A 238 O 97.6 REMARK 620 3 ALA A 276 O 79.7 123.2 REMARK 620 4 VAL A 279 O 86.3 159.3 77.5 REMARK 620 5 GLY A 281 O 152.5 79.5 125.0 87.6 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B 305 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP B 236 O REMARK 620 2 ALA B 238 O 90.1 REMARK 620 3 ALA B 276 O 82.6 119.7 REMARK 620 4 VAL B 279 O 85.8 155.3 83.9 REMARK 620 5 GLY B 281 O 142.1 75.5 135.0 93.0 REMARK 620 N 1 2 3 4 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3GO6 RELATED DB: PDB REMARK 900 THE SAME PROTEIN WITH RIBOSE AND ATP. REMARK 900 RELATED ID: 1RKD RELATED DB: PDB REMARK 900 RIBOKINASE STRUCTURE FROM E.COLI. REMARK 900 RELATED ID: 2FV7 RELATED DB: PDB REMARK 900 RIBOKINASE STRUCTURE FROM HUMAN. DBREF 3GO7 A 2 304 UNP P71913 P71913_MYCTU 2 304 DBREF 3GO7 B 2 304 UNP P71913 P71913_MYCTU 2 304 SEQADV 3GO7 MET A -5 UNP P71913 EXPRESSION TAG SEQADV 3GO7 HIS A -4 UNP P71913 EXPRESSION TAG SEQADV 3GO7 HIS A -3 UNP P71913 EXPRESSION TAG SEQADV 3GO7 HIS A -2 UNP P71913 EXPRESSION TAG SEQADV 3GO7 HIS A -1 UNP P71913 EXPRESSION TAG SEQADV 3GO7 HIS A 0 UNP P71913 EXPRESSION TAG SEQADV 3GO7 HIS A 1 UNP P71913 EXPRESSION TAG SEQADV 3GO7 MET B -5 UNP P71913 EXPRESSION TAG SEQADV 3GO7 HIS B -4 UNP P71913 EXPRESSION TAG SEQADV 3GO7 HIS B -3 UNP P71913 EXPRESSION TAG SEQADV 3GO7 HIS B -2 UNP P71913 EXPRESSION TAG SEQADV 3GO7 HIS B -1 UNP P71913 EXPRESSION TAG SEQADV 3GO7 HIS B 0 UNP P71913 EXPRESSION TAG SEQADV 3GO7 HIS B 1 UNP P71913 EXPRESSION TAG SEQRES 1 A 310 MET HIS HIS HIS HIS HIS HIS ALA ASN ALA SER GLU THR SEQRES 2 A 310 ASN VAL GLY PRO MET ALA PRO ARG VAL CYS VAL VAL GLY SEQRES 3 A 310 SER VAL ASN MET ASP LEU THR PHE VAL VAL ASP ALA LEU SEQRES 4 A 310 PRO ARG PRO GLY GLU THR VAL LEU ALA ALA SER LEU THR SEQRES 5 A 310 ARG THR PRO GLY GLY LYS GLY ALA ASN GLN ALA VAL ALA SEQRES 6 A 310 ALA ALA ARG ALA GLY ALA GLN VAL GLN PHE SER GLY ALA SEQRES 7 A 310 PHE GLY ASP ASP PRO ALA ALA ALA GLN LEU ARG ALA HIS SEQRES 8 A 310 LEU ARG ALA ASN ALA VAL GLY LEU ASP ARG THR VAL THR SEQRES 9 A 310 VAL PRO GLY PRO SER GLY THR ALA ILE ILE VAL VAL ASP SEQRES 10 A 310 ALA SER ALA GLU ASN THR VAL LEU VAL ALA PRO GLY ALA SEQRES 11 A 310 ASN ALA HIS LEU THR PRO VAL PRO SER ALA VAL ALA ASN SEQRES 12 A 310 CYS ASP VAL LEU LEU THR GLN LEU GLU ILE PRO VAL ALA SEQRES 13 A 310 THR ALA LEU ALA ALA ALA ARG ALA ALA GLN SER ALA ASP SEQRES 14 A 310 ALA VAL VAL MET VAL ASN ALA SER PRO ALA GLY GLN ASP SEQRES 15 A 310 ARG SER SER LEU GLN ASP LEU ALA ALA ILE ALA ASP VAL SEQRES 16 A 310 VAL ILE ALA ASN GLU HIS GLU ALA ASN ASP TRP PRO SER SEQRES 17 A 310 PRO PRO THR HIS PHE VAL ILE THR LEU GLY VAL ARG GLY SEQRES 18 A 310 ALA ARG TYR VAL GLY ALA ASP GLY VAL PHE GLU VAL PRO SEQRES 19 A 310 ALA PRO THR VAL THR PRO VAL ASP THR ALA GLY ALA GLY SEQRES 20 A 310 ASP VAL PHE ALA GLY VAL LEU ALA ALA ASN TRP PRO ARG SEQRES 21 A 310 ASN PRO GLY SER PRO ALA GLU ARG LEU ARG ALA LEU ARG SEQRES 22 A 310 ARG ALA CYS ALA ALA GLY ALA LEU ALA THR LEU VAL SER SEQRES 23 A 310 GLY VAL GLY ASP CYS ALA PRO ALA ALA ALA ALA ILE ASP SEQRES 24 A 310 ALA ALA LEU ARG ALA ASN ARG HIS ASN GLY SER SEQRES 1 B 310 MET HIS HIS HIS HIS HIS HIS ALA ASN ALA SER GLU THR SEQRES 2 B 310 ASN VAL GLY PRO MET ALA PRO ARG VAL CYS VAL VAL GLY SEQRES 3 B 310 SER VAL ASN MET ASP LEU THR PHE VAL VAL ASP ALA LEU SEQRES 4 B 310 PRO ARG PRO GLY GLU THR VAL LEU ALA ALA SER LEU THR SEQRES 5 B 310 ARG THR PRO GLY GLY LYS GLY ALA ASN GLN ALA VAL ALA SEQRES 6 B 310 ALA ALA ARG ALA GLY ALA GLN VAL GLN PHE SER GLY ALA SEQRES 7 B 310 PHE GLY ASP ASP PRO ALA ALA ALA GLN LEU ARG ALA HIS SEQRES 8 B 310 LEU ARG ALA ASN ALA VAL GLY LEU ASP ARG THR VAL THR SEQRES 9 B 310 VAL PRO GLY PRO SER GLY THR ALA ILE ILE VAL VAL ASP SEQRES 10 B 310 ALA SER ALA GLU ASN THR VAL LEU VAL ALA PRO GLY ALA SEQRES 11 B 310 ASN ALA HIS LEU THR PRO VAL PRO SER ALA VAL ALA ASN SEQRES 12 B 310 CYS ASP VAL LEU LEU THR GLN LEU GLU ILE PRO VAL ALA SEQRES 13 B 310 THR ALA LEU ALA ALA ALA ARG ALA ALA GLN SER ALA ASP SEQRES 14 B 310 ALA VAL VAL MET VAL ASN ALA SER PRO ALA GLY GLN ASP SEQRES 15 B 310 ARG SER SER LEU GLN ASP LEU ALA ALA ILE ALA ASP VAL SEQRES 16 B 310 VAL ILE ALA ASN GLU HIS GLU ALA ASN ASP TRP PRO SER SEQRES 17 B 310 PRO PRO THR HIS PHE VAL ILE THR LEU GLY VAL ARG GLY SEQRES 18 B 310 ALA ARG TYR VAL GLY ALA ASP GLY VAL PHE GLU VAL PRO SEQRES 19 B 310 ALA PRO THR VAL THR PRO VAL ASP THR ALA GLY ALA GLY SEQRES 20 B 310 ASP VAL PHE ALA GLY VAL LEU ALA ALA ASN TRP PRO ARG SEQRES 21 B 310 ASN PRO GLY SER PRO ALA GLU ARG LEU ARG ALA LEU ARG SEQRES 22 B 310 ARG ALA CYS ALA ALA GLY ALA LEU ALA THR LEU VAL SER SEQRES 23 B 310 GLY VAL GLY ASP CYS ALA PRO ALA ALA ALA ALA ILE ASP SEQRES 24 B 310 ALA ALA LEU ARG ALA ASN ARG HIS ASN GLY SER HET RIB A 305 10 HET MG A 306 1 HET MG B 305 1 HETNAM RIB ALPHA-D-RIBOFURANOSE HETNAM MG MAGNESIUM ION HETSYN RIB ALPHA-D-RIBOSE; D-RIBOSE; RIBOSE FORMUL 3 RIB C5 H10 O5 FORMUL 4 MG 2(MG 2+) FORMUL 6 HOH *229(H2 O) HELIX 1 1 GLY A 51 ALA A 63 1 13 HELIX 2 2 ASP A 76 ASN A 89 1 14 HELIX 3 3 PRO A 122 LEU A 128 5 7 HELIX 4 4 VAL A 131 ALA A 136 5 6 HELIX 5 5 PRO A 148 ALA A 162 1 15 HELIX 6 6 ASP A 176 ALA A 187 1 12 HELIX 7 7 GLU A 194 TRP A 200 1 7 HELIX 8 8 GLY A 239 ALA A 250 1 12 HELIX 9 9 SER A 258 THR A 277 1 20 HELIX 10 10 ALA A 288 ALA A 298 1 11 HELIX 11 11 GLY B 51 ALA B 63 1 13 HELIX 12 12 ASP B 76 ASN B 89 1 14 HELIX 13 13 PRO B 122 LEU B 128 5 7 HELIX 14 14 VAL B 131 ALA B 136 1 6 HELIX 15 15 PRO B 148 ALA B 162 1 15 HELIX 16 16 ASP B 176 SER B 179 5 4 HELIX 17 17 LEU B 180 ALA B 187 1 8 HELIX 18 18 GLU B 194 ASP B 199 1 6 HELIX 19 19 GLY B 239 ALA B 250 1 12 HELIX 20 20 SER B 258 ALA B 276 1 19 HELIX 21 21 THR B 277 VAL B 279 5 3 HELIX 22 22 ALA B 288 ALA B 298 1 11 SHEET 1 A 8 GLN A 66 SER A 70 0 SHEET 2 A 8 ARG A 15 VAL A 19 1 N VAL A 18 O SER A 70 SHEET 3 A 8 VAL A 140 THR A 143 1 O VAL A 140 N CYS A 17 SHEET 4 A 8 VAL A 165 ASN A 169 1 O VAL A 165 N LEU A 141 SHEET 5 A 8 VAL A 189 ASN A 193 1 O ILE A 191 N VAL A 168 SHEET 6 A 8 HIS A 206 THR A 210 1 O VAL A 208 N VAL A 190 SHEET 7 A 8 GLY A 215 GLY A 220 -1 O ARG A 217 N ILE A 209 SHEET 8 A 8 GLY A 223 PRO A 228 -1 O GLY A 223 N GLY A 220 SHEET 1 B 4 SER A 44 GLY A 50 0 SHEET 2 B 4 ASN A 23 VAL A 29 -1 N ASP A 25 O THR A 48 SHEET 3 B 4 GLY A 104 VAL A 110 1 O ILE A 108 N PHE A 28 SHEET 4 B 4 ASN A 116 ALA A 121 -1 O ALA A 121 N THR A 105 SHEET 1 C 2 ALA A 72 GLY A 74 0 SHEET 2 C 2 VAL A 97 VAL A 99 1 O VAL A 99 N PHE A 73 SHEET 1 D 8 GLN B 66 SER B 70 0 SHEET 2 D 8 ARG B 15 VAL B 19 1 N VAL B 18 O SER B 70 SHEET 3 D 8 VAL B 140 THR B 143 1 O LEU B 142 N CYS B 17 SHEET 4 D 8 VAL B 165 ASN B 169 1 O VAL B 165 N LEU B 141 SHEET 5 D 8 VAL B 189 ASN B 193 1 O VAL B 189 N VAL B 168 SHEET 6 D 8 HIS B 206 THR B 210 1 O VAL B 208 N VAL B 190 SHEET 7 D 8 GLY B 215 GLY B 220 -1 O ARG B 217 N ILE B 209 SHEET 8 D 8 GLY B 223 PRO B 228 -1 O VAL B 227 N ALA B 216 SHEET 1 E 4 SER B 44 GLY B 50 0 SHEET 2 E 4 ASN B 23 VAL B 29 -1 N ASN B 23 O GLY B 50 SHEET 3 E 4 GLY B 104 VAL B 110 1 O ALA B 106 N LEU B 26 SHEET 4 E 4 ASN B 116 ALA B 121 -1 O LEU B 119 N ILE B 107 SHEET 1 F 2 ALA B 72 PHE B 73 0 SHEET 2 F 2 VAL B 97 THR B 98 1 O VAL B 97 N PHE B 73 LINK O ASP A 236 MG MG A 306 1555 1555 2.79 LINK O ALA A 238 MG MG A 306 1555 1555 2.67 LINK O ALA A 276 MG MG A 306 1555 1555 2.86 LINK O VAL A 279 MG MG A 306 1555 1555 2.74 LINK O GLY A 281 MG MG A 306 1555 1555 2.76 LINK O ASP B 236 MG MG B 305 1555 1555 2.76 LINK O ALA B 238 MG MG B 305 1555 1555 2.79 LINK O ALA B 276 MG MG B 305 1555 1555 2.52 LINK O VAL B 279 MG MG B 305 1555 1555 2.63 LINK O GLY B 281 MG MG B 305 1555 1555 2.88 CISPEP 1 SER A 171 PRO A 172 0 -7.68 CISPEP 2 ASN A 255 PRO A 256 0 3.52 CISPEP 3 SER B 171 PRO B 172 0 0.09 CISPEP 4 ASN B 255 PRO B 256 0 2.74 CRYST1 79.025 119.207 89.768 90.00 115.00 90.00 C 1 2 1 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 0.012654 0.000000 0.005901 0.00000 SCALE2 0.000000 0.008389 0.000000 0.00000 SCALE3 0.000000 0.000000 0.012291 0.00000