HEADER TRANSFERASE 03-MAR-06 2DFN TITLE STRUCTURE OF SHIKIMATE KINASE FROM MYCOBACTERIUM TUBERCULOSIS TITLE 2 COMPLEXED WITH ADP AND SHIKIMATE AT 1.9 ANGSTRONS OF RESOLUTION COMPND MOL_ID: 1; COMPND 2 MOLECULE: SHIKIMATE KINASE; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: SK; COMPND 5 EC: 2.7.1.71; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MYCOBACTERIUM TUBERCULOSIS; SOURCE 3 ORGANISM_TAXID: 1773; SOURCE 4 GENE: AROK; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS ALPHA/BETA, SHIKIMATE PATHWAY, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR M.V.DIAS,L.M.FAIM,I.B.VASCONCELOS,J.S.DE OLIVEIRA,L.A.BASSO, AUTHOR 2 D.S.SANTOS,W.F.DE AZEVEDO REVDAT 4 25-OCT-23 2DFN 1 REMARK REVDAT 3 24-FEB-09 2DFN 1 VERSN REVDAT 2 16-JAN-07 2DFN 1 JRNL AUTHOR TITLE REVDAT 1 03-SEP-06 2DFN 0 JRNL AUTH M.V.DIAS,L.M.FAIM,I.B.VASCONCELOS,J.S.DE OLIVEIRA,L.A.BASSO, JRNL AUTH 2 D.S.SANTOS,W.F.DE AZEVEDO JRNL TITL EFFECTS OF THE MAGNESIUM AND CHLORIDE IONS AND SHIKIMATE ON JRNL TITL 2 THE STRUCTURE OF SHIKIMATE KINASE FROM MYCOBACTERIUM JRNL TITL 3 TUBERCULOSIS JRNL REF ACTA CRYSTALLOGR.,SECT.F V. 63 1 2007 JRNL REFN ESSN 1744-3091 JRNL PMID 17183161 JRNL DOI 10.1107/S1744309106046823 REMARK 2 REMARK 2 RESOLUTION. 1.93 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0005 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) : 1.93 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 35.16 REMARK 3 DATA CUTOFF (SIGMA(F)) : 2.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 96.7 REMARK 3 NUMBER OF REFLECTIONS : 15130 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) : 0.202 REMARK 3 R VALUE (WORKING SET) : 0.202 REMARK 3 FREE R VALUE : 0.267 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 804 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) : 1.93 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.98 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1029 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 90.61 REMARK 3 BIN R VALUE (WORKING SET) : 0.3730 REMARK 3 BIN FREE R VALUE SET COUNT : 61 REMARK 3 BIN FREE R VALUE : 0.5490 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1226 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 40 REMARK 3 SOLVENT ATOMS : 192 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 32.72 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.01000 REMARK 3 B22 (A**2) : 0.01000 REMARK 3 B33 (A**2) : -0.01000 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): 0.159 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.165 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.116 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 3.963 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.951 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.914 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 1281 ; 0.015 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 1736 ; 2.010 ; 2.020 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 164 ; 8.385 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 51 ;31.012 ;20.196 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 210 ;19.884 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 21 ;19.472 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 202 ; 0.187 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 950 ; 0.009 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 828 ; 0.361 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 852 ; 0.319 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 170 ; 0.423 ; 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): 39 ; 0.350 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 36 ; 0.555 ; 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): 834 ; 3.937 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1290 ; 4.917 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 489 ; 7.390 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 446 ; 9.333 ; 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 2DFN COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 09-MAR-06. REMARK 100 THE DEPOSITION ID IS D_1000025362. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 07-JUN-05 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : LNLS REMARK 200 BEAMLINE : D03B-MX1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.427 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : RIGAKU REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : CCP4 (SCALA) REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 16017 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.930 REMARK 200 RESOLUTION RANGE LOW (A) : 35.160 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.0 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 4.8000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.93 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.03 REMARK 200 COMPLETENESS FOR SHELL (%) : 21.6 REMARK 200 DATA REDUNDANCY IN SHELL : 4.60 REMARK 200 R MERGE FOR SHELL (I) : NULL 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: AMORE REMARK 200 STARTING MODEL: PDB ENTRY 1WE2 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 56.76 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.84 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1M TRIS-HCL, 17% PEG 1500, 0.5-0.7M REMARK 280 LICL, PH 8.0, VAPOR DIFFUSION, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 32 2 1 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 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z+1/3 REMARK 290 6555 -X,-X+Y,-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 61.07333 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 30.53667 REMARK 290 SMTRY1 4 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 4 0.866025 0.500000 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 0.00000 REMARK 290 SMTRY2 5 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 30.53667 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 61.07333 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 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 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 GLN A 167 REMARK 465 VAL A 168 REMARK 465 PRO A 169 REMARK 465 SER A 170 REMARK 465 PRO A 171 REMARK 465 SER A 172 REMARK 465 GLU A 173 REMARK 465 ALA A 174 REMARK 465 ALA A 175 REMARK 465 THR A 176 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 A 115 CB OG1 CG2 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 198 O HOH A 363 1.12 REMARK 500 O HOH A 254 O HOH A 343 1.23 REMARK 500 CG2 ILE A 18 O HOH A 371 1.34 REMARK 500 NZ LYS A 15 O HOH A 348 1.38 REMARK 500 CD1 TYR A 140 O HOH A 336 1.44 REMARK 500 CD1 ILE A 18 O HOH A 360 1.62 REMARK 500 CG1 ILE A 45 O HOH A 347 1.67 REMARK 500 CB PRO A 3 O HOH A 338 1.77 REMARK 500 O HOH A 249 O HOH A 313 1.77 REMARK 500 O GLY A 12 O HOH A 349 1.77 REMARK 500 NH1 ARG A 110 O HOH A 349 1.80 REMARK 500 O HOH A 211 O HOH A 365 1.81 REMARK 500 CG LYS A 24 O HOH A 334 1.82 REMARK 500 NH1 ARG A 66 O HOH A 399 1.87 REMARK 500 O HOH A 213 O HOH A 315 1.88 REMARK 500 OG1 THR A 150 O HOH A 373 1.89 REMARK 500 OE1 GLU A 101 O HOH A 194 1.90 REMARK 500 CD2 LEU A 7 O HOH A 372 1.91 REMARK 500 O HOH A 195 O HOH A 314 1.93 REMARK 500 O HOH A 210 O HOH A 330 1.94 REMARK 500 O GLY A 9 O HOH A 348 1.96 REMARK 500 O VAL A 116 O HOH A 275 1.97 REMARK 500 CD GLU A 101 O HOH A 194 2.01 REMARK 500 O HOH A 245 O HOH A 331 2.01 REMARK 500 NZ LYS A 135 O HOH A 365 2.02 REMARK 500 OD2 ASP A 71 O HOH A 305 2.03 REMARK 500 CG2 ILE A 48 O HOH A 362 2.04 REMARK 500 NE ARG A 136 O HOH A 235 2.04 REMARK 500 O HOH A 322 O HOH A 332 2.06 REMARK 500 O HOH A 235 O HOH A 356 2.07 REMARK 500 NH1 ARG A 66 O HOH A 300 2.09 REMARK 500 CG2 THR A 96 O HOH A 313 2.10 REMARK 500 CE LYS A 15 O HOH A 348 2.10 REMARK 500 NH1 ARG A 110 O HOH A 373 2.12 REMARK 500 CZ ARG A 136 O HOH A 235 2.16 REMARK 500 CD2 HIS A 72 O HOH A 333 2.16 REMARK 500 O HOH A 215 O HOH A 316 2.16 REMARK 500 OE2 GLU A 54 O HOH A 353 2.17 REMARK 500 NH2 ARG A 136 O HOH A 235 2.17 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 O HOH A 229 O HOH A 234 3445 1.28 REMARK 500 O HOH A 190 O HOH A 337 6445 1.36 REMARK 500 O HOH A 239 O HOH A 241 5555 1.63 REMARK 500 O HOH A 240 O HOH A 240 5555 1.66 REMARK 500 O HOH A 244 O HOH A 251 2454 1.67 REMARK 500 NZ LYS A 24 O HOH A 233 5555 1.70 REMARK 500 O HOH A 232 O HOH A 304 5555 1.73 REMARK 500 O HOH A 186 O HOH A 192 6445 1.93 REMARK 500 CE LYS A 24 O HOH A 232 5555 2.11 REMARK 500 O HOH A 240 O HOH A 242 5555 2.12 REMARK 500 O HOH A 239 O HOH A 239 5555 2.17 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 ASN A 114 101.36 -53.36 REMARK 500 THR A 115 22.39 -64.33 REMARK 500 VAL A 116 -86.53 95.03 REMARK 500 ARG A 117 82.13 21.71 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 GLY A 113 ASN A 114 -146.43 REMARK 500 ASN A 114 THR A 115 -148.25 REMARK 500 THR A 115 VAL A 116 -140.45 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 CL A 1180 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ADP A 177 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SKM A 500 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2DFT RELATED DB: PDB DBREF 2DFN A 1 176 UNP P0A4Z2 AROK_MYCTU 1 176 SEQRES 1 A 176 MET ALA PRO LYS ALA VAL LEU VAL GLY LEU PRO GLY SER SEQRES 2 A 176 GLY LYS SER THR ILE GLY ARG ARG LEU ALA LYS ALA LEU SEQRES 3 A 176 GLY VAL GLY LEU LEU ASP THR ASP VAL ALA ILE GLU GLN SEQRES 4 A 176 ARG THR GLY ARG SER ILE ALA ASP ILE PHE ALA THR ASP SEQRES 5 A 176 GLY GLU GLN GLU PHE ARG ARG ILE GLU GLU ASP VAL VAL SEQRES 6 A 176 ARG ALA ALA LEU ALA ASP HIS ASP GLY VAL LEU SER LEU SEQRES 7 A 176 GLY GLY GLY ALA VAL THR SER PRO GLY VAL ARG ALA ALA SEQRES 8 A 176 LEU ALA GLY HIS THR VAL VAL TYR LEU GLU ILE SER ALA SEQRES 9 A 176 ALA GLU GLY VAL ARG ARG THR GLY GLY ASN THR VAL ARG SEQRES 10 A 176 PRO LEU LEU ALA GLY PRO ASP ARG ALA GLU LYS TYR ARG SEQRES 11 A 176 ALA LEU MET ALA LYS ARG ALA PRO LEU TYR ARG ARG VAL SEQRES 12 A 176 ALA THR MET ARG VAL ASP THR ASN ARG ARG ASN PRO GLY SEQRES 13 A 176 ALA VAL VAL ARG HIS ILE LEU SER ARG LEU GLN VAL PRO SEQRES 14 A 176 SER PRO SER GLU ALA ALA THR HET CL A1180 1 HET ADP A 177 27 HET SKM A 500 12 HETNAM CL CHLORIDE ION HETNAM ADP ADENOSINE-5'-DIPHOSPHATE HETNAM SKM (3R,4S,5R)-3,4,5-TRIHYDROXYCYCLOHEX-1-ENE-1-CARBOXYLIC HETNAM 2 SKM ACID HETSYN SKM SHIKIMATE FORMUL 2 CL CL 1- FORMUL 3 ADP C10 H15 N5 O10 P2 FORMUL 4 SKM C7 H10 O5 FORMUL 5 HOH *192(H2 O) HELIX 1 1 GLY A 14 GLY A 27 1 14 HELIX 2 2 THR A 33 GLY A 42 1 10 HELIX 3 3 SER A 44 ASP A 52 1 9 HELIX 4 4 GLY A 53 HIS A 72 1 20 HELIX 5 5 GLY A 81 THR A 84 5 4 HELIX 6 6 SER A 85 ALA A 93 1 9 HELIX 7 7 SER A 103 THR A 111 1 9 HELIX 8 8 ASP A 124 ALA A 144 1 21 HELIX 9 9 ASN A 154 SER A 164 1 11 SHEET 1 A 5 LEU A 30 ASP A 32 0 SHEET 2 A 5 VAL A 75 SER A 77 1 O VAL A 75 N LEU A 31 SHEET 3 A 5 ALA A 5 GLY A 9 1 N LEU A 7 O LEU A 76 SHEET 4 A 5 VAL A 97 GLU A 101 1 O VAL A 98 N VAL A 6 SHEET 5 A 5 MET A 146 ASP A 149 1 O MET A 146 N TYR A 99 SITE 1 AC1 5 PRO A 11 LYS A 15 GLY A 80 ADP A 177 SITE 2 AC1 5 SKM A 500 SITE 1 AC2 19 LEU A 10 GLY A 12 SER A 13 GLY A 14 SITE 2 AC2 19 LYS A 15 SER A 16 THR A 17 ARG A 110 SITE 3 AC2 19 ARG A 117 ARG A 153 ASN A 154 PRO A 155 SITE 4 AC2 19 HOH A 180 HOH A 183 HOH A 205 HOH A 206 SITE 5 AC2 19 HOH A 239 HOH A 241 CL A1180 SITE 1 AC3 17 ASP A 34 ILE A 45 PHE A 57 ARG A 58 SITE 2 AC3 17 GLY A 79 GLY A 80 GLY A 81 PRO A 118 SITE 3 AC3 17 LEU A 119 ARG A 136 HOH A 181 HOH A 182 SITE 4 AC3 17 HOH A 184 HOH A 215 HOH A 235 HOH A 356 SITE 5 AC3 17 CL A1180 CRYST1 63.296 63.296 91.610 90.00 90.00 120.00 P 32 2 1 6 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 0.015799 0.009121 0.000000 0.00000 SCALE2 0.000000 0.018243 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010916 0.00000