HEADER OXIDOREDUCTASE 27-JUN-12 4FSH TITLE CRYSTAL STRUCTURE OF SHIKIMATE DEHYDROGENASE (AROE) CLINICAL VARIANT TITLE 2 V2356 FROM HELICOBACTER PYLORI IN COMPLEX WITH SHIKIMATE COMPND MOL_ID: 1; COMPND 2 MOLECULE: SHIKIMATE DEHYDROGENASE; COMPND 3 CHAIN: A, B; COMPND 4 EC: 1.1.1.25; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HELICOBACTER PYLORI; SOURCE 3 ORGANISM_TAXID: 85962; SOURCE 4 STRAIN: HELICOBACTER PYLORI 26695; SOURCE 5 GENE: AROE, HP_1249; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21 DE3; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET28A KEYWDS DEHYDROGENASE, NADP BINDING, OXIDOREDUCTASE EXPDTA X-RAY DIFFRACTION AUTHOR W.C.CHENG,T.J.CHEN,W.C.WANG REVDAT 1 30-JAN-13 4FSH 0 JRNL AUTH W.C.CHENG,T.J.CHEN,W.C.WANG JRNL TITL CRYSTAL STRUCTURE OF SHIKIMATE DEHYDROGENASE (AROE) CLINICAL JRNL TITL 2 VARIANT V2356 FROM HELICOBACTER PYLORI IN COMPLEX WITH JRNL TITL 3 SHIKIMATE JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 2.85 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0109 REMARK 3 AUTHORS : MURSHUDOV,VAGIN,DODSON REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.85 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 30.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.5 REMARK 3 NUMBER OF REFLECTIONS : 19324 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) : 0.217 REMARK 3 R VALUE (WORKING SET) : 0.214 REMARK 3 FREE R VALUE : 0.260 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 971 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) : 2.85 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.92 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1329 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.42 REMARK 3 BIN R VALUE (WORKING SET) : 0.2840 REMARK 3 BIN FREE R VALUE SET COUNT : 54 REMARK 3 BIN FREE R VALUE : 0.4150 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4097 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 12 REMARK 3 SOLVENT ATOMS : 41 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 67.72 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 2.51000 REMARK 3 B22 (A**2) : 3.74000 REMARK 3 B33 (A**2) : -6.25000 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): 0.960 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.359 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.263 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 13.491 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.938 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): 4204 ; 0.017 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5659 ; 1.312 ; 1.987 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 520 ; 7.603 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 172 ;37.211 ;24.419 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 757 ;23.778 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 12 ;24.916 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 625 ; 0.098 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3109 ; 0.010 ; 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): 2600 ; 1.031 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 4152 ; 2.015 ; 2.000 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1604 ; 2.618 ; 3.000 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1507 ; 4.573 ; 4.500 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 : 1.40 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 U VALUES : REFINED INDIVIDUALLY REMARK 4 REMARK 4 4FSH COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 29-JUN-12. REMARK 100 THE RCSB ID CODE IS RCSB073299. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 05-JUN-12 REMARK 200 TEMPERATURE (KELVIN) : 110 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : NSRRC REMARK 200 BEAMLINE : BL13B1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0000 REMARK 200 MONOCHROMATOR : SI(111) REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 19482 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.850 REMARK 200 RESOLUTION RANGE LOW (A) : 30.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 8.200 REMARK 200 R MERGE (I) : 0.07200 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 15.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.85 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.95 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 8.50 REMARK 200 R MERGE FOR SHELL (I) : 0.46400 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 4.900 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: PDB ENTRY 3PHG REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 62.69 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.30 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 1.5M AMMONIUM SULFATE, 1.0M LITHIUM REMARK 280 SULFATE, 0.1M SODIUM CITRATE, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 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 31.55900 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 88.19400 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 35.93500 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 88.19400 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 31.55900 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 35.93500 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: 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 350 REMARK 350 BIOMOLECULE: 2 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: 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 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 ASN A 186 REMARK 465 GLU A 187 REMARK 465 LEU A 188 REMARK 465 LEU A 264 REMARK 465 GLU A 265 REMARK 465 HIS A 266 REMARK 465 HIS A 267 REMARK 465 HIS A 268 REMARK 465 HIS A 269 REMARK 465 HIS A 270 REMARK 465 HIS A 271 REMARK 465 LEU B 264 REMARK 465 GLU B 265 REMARK 465 HIS B 266 REMARK 465 HIS B 267 REMARK 465 HIS B 268 REMARK 465 HIS B 269 REMARK 465 HIS B 270 REMARK 465 HIS B 271 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 ND2 ASN A 90 OD2 ASP A 105 2.01 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 TYR A 118 CG TYR A 118 CD2 0.187 REMARK 500 TYR A 118 CG TYR A 118 CD1 0.090 REMARK 500 TYR A 118 CE1 TYR A 118 CZ 0.134 REMARK 500 TYR A 118 CZ TYR A 118 CE2 0.122 REMARK 500 CYS A 135 CB CYS A 135 SG -0.120 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 11 107.40 -177.61 REMARK 500 ILE A 13 -14.95 -151.63 REMARK 500 ALA A 62 148.99 177.10 REMARK 500 CYS A 86 -24.30 -144.40 REMARK 500 ALA A 87 24.86 47.27 REMARK 500 ALA A 106 -85.57 -42.13 REMARK 500 SER A 112 13.51 -56.04 REMARK 500 LEU A 113 110.99 171.69 REMARK 500 LYS A 114 -40.43 126.35 REMARK 500 HIS A 115 115.58 -163.34 REMARK 500 GLN A 116 23.68 -74.59 REMARK 500 PRO A 151 -49.73 -133.11 REMARK 500 LYS A 170 37.49 -61.98 REMARK 500 ILE A 177 -90.15 -144.19 REMARK 500 ASN A 178 124.47 99.62 REMARK 500 ALA A 179 66.39 -154.15 REMARK 500 ALA A 182 -158.18 -83.31 REMARK 500 SER A 183 -3.13 79.74 REMARK 500 TYR A 206 112.37 -177.83 REMARK 500 PHE A 216 -83.70 -23.11 REMARK 500 LEU A 219 -78.37 -46.36 REMARK 500 ALA A 220 -77.73 -9.85 REMARK 500 GLU A 222 -33.18 -32.61 REMARK 500 LEU A 223 33.56 -89.92 REMARK 500 GLN A 228 142.58 173.71 REMARK 500 SER A 246 22.17 -78.84 REMARK 500 ALA A 247 37.11 34.03 REMARK 500 SER A 248 4.39 80.14 REMARK 500 ASN B 11 88.22 84.14 REMARK 500 ILE B 13 -4.88 -148.49 REMARK 500 THR B 65 -167.89 -112.42 REMARK 500 ALA B 87 71.89 28.70 REMARK 500 ASN B 96 58.71 34.97 REMARK 500 LYS B 114 -130.90 48.04 REMARK 500 PRO B 151 105.18 -49.97 REMARK 500 ASN B 185 13.85 -149.59 REMARK 500 GLU B 222 -18.65 -48.91 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 SKM A 500 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3PHG RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE SHIKIMATE 5-DEHYDROGENASE (AROE) REMARK 900 FROM HELICOBACTER PYLORI REMARK 900 RELATED ID: 3PHH RELATED DB: PDB REMARK 900 SHIKIMATE 5-DEHYDROGENASE (AROE) FROM HELICOBACTER PYLORI REMARK 900 IN COMPLEX WITH SHIKIMATE REMARK 900 RELATED ID: 3PHI RELATED DB: PDB REMARK 900 SHIKIMATE 5-DEHYDROGENASE (AROE) FROM HELICOBACTER PYLORI REMARK 900 IN COMPLEX WITH SHIKIMATE AND NADPH REMARK 900 RELATED ID: 3PHJ RELATED DB: PDB REMARK 900 SHIKIMATE 5-DEHYDROGENASE (AROE) FROM HELICOBACTER PYLORI REMARK 900 IN COMPLEX WITH 3-DEHYDROSHIKIMATE DBREF 4FSH A 1 263 UNP P56119 AROE_HELPY 1 263 DBREF 4FSH B 1 263 UNP P56119 AROE_HELPY 1 263 SEQADV 4FSH LYS A 32 UNP P56119 GLU 32 CONFLICT SEQADV 4FSH GLY A 34 UNP P56119 ARG 34 CONFLICT SEQADV 4FSH ARG A 40 UNP P56119 HIS 40 CONFLICT SEQADV 4FSH ASN A 52 UNP P56119 SER 52 CONFLICT SEQADV 4FSH ALA A 87 UNP P56119 GLY 87 CONFLICT SEQADV 4FSH SER A 88 UNP P56119 ALA 88 CONFLICT SEQADV 4FSH ILE A 89 UNP P56119 VAL 89 CONFLICT SEQADV 4FSH HIS A 115 UNP P56119 GLN 115 CONFLICT SEQADV 4FSH GLN A 116 UNP P56119 LYS 116 CONFLICT SEQADV 4FSH SER A 126 UNP P56119 ALA 126 CONFLICT SEQADV 4FSH GLY A 136 UNP P56119 GLU 136 CONFLICT SEQADV 4FSH LYS A 143 UNP P56119 GLN 143 CONFLICT SEQADV 4FSH PRO A 151 UNP P56119 SER 151 CONFLICT SEQADV 4FSH ASN A 185 UNP P56119 HIS 185 CONFLICT SEQADV 4FSH ALA A 202 UNP P56119 GLY 202 CONFLICT SEQADV 4FSH ALA A 218 UNP P56119 SER 218 CONFLICT SEQADV 4FSH ILE A 225 UNP P56119 THR 225 CONFLICT SEQADV 4FSH SER A 239 UNP P56119 ALA 239 CONFLICT SEQADV 4FSH LEU A 264 UNP P56119 EXPRESSION TAG SEQADV 4FSH GLU A 265 UNP P56119 EXPRESSION TAG SEQADV 4FSH HIS A 266 UNP P56119 EXPRESSION TAG SEQADV 4FSH HIS A 267 UNP P56119 EXPRESSION TAG SEQADV 4FSH HIS A 268 UNP P56119 EXPRESSION TAG SEQADV 4FSH HIS A 269 UNP P56119 EXPRESSION TAG SEQADV 4FSH HIS A 270 UNP P56119 EXPRESSION TAG SEQADV 4FSH HIS A 271 UNP P56119 EXPRESSION TAG SEQADV 4FSH LYS B 32 UNP P56119 GLU 32 CONFLICT SEQADV 4FSH GLY B 34 UNP P56119 ARG 34 CONFLICT SEQADV 4FSH ARG B 40 UNP P56119 HIS 40 CONFLICT SEQADV 4FSH ASN B 52 UNP P56119 SER 52 CONFLICT SEQADV 4FSH ALA B 87 UNP P56119 GLY 87 CONFLICT SEQADV 4FSH SER B 88 UNP P56119 ALA 88 CONFLICT SEQADV 4FSH ILE B 89 UNP P56119 VAL 89 CONFLICT SEQADV 4FSH HIS B 115 UNP P56119 GLN 115 CONFLICT SEQADV 4FSH GLN B 116 UNP P56119 LYS 116 CONFLICT SEQADV 4FSH SER B 126 UNP P56119 ALA 126 CONFLICT SEQADV 4FSH GLY B 136 UNP P56119 GLU 136 CONFLICT SEQADV 4FSH LYS B 143 UNP P56119 GLN 143 CONFLICT SEQADV 4FSH PRO B 151 UNP P56119 SER 151 CONFLICT SEQADV 4FSH ASN B 185 UNP P56119 HIS 185 CONFLICT SEQADV 4FSH ALA B 202 UNP P56119 GLY 202 CONFLICT SEQADV 4FSH ALA B 218 UNP P56119 SER 218 CONFLICT SEQADV 4FSH ILE B 225 UNP P56119 THR 225 CONFLICT SEQADV 4FSH SER B 239 UNP P56119 ALA 239 CONFLICT SEQADV 4FSH LEU B 264 UNP P56119 EXPRESSION TAG SEQADV 4FSH GLU B 265 UNP P56119 EXPRESSION TAG SEQADV 4FSH HIS B 266 UNP P56119 EXPRESSION TAG SEQADV 4FSH HIS B 267 UNP P56119 EXPRESSION TAG SEQADV 4FSH HIS B 268 UNP P56119 EXPRESSION TAG SEQADV 4FSH HIS B 269 UNP P56119 EXPRESSION TAG SEQADV 4FSH HIS B 270 UNP P56119 EXPRESSION TAG SEQADV 4FSH HIS B 271 UNP P56119 EXPRESSION TAG SEQRES 1 A 271 MET LYS LEU LYS SER PHE GLY VAL PHE GLY ASN PRO ILE SEQRES 2 A 271 LYS HIS SER LYS SER PRO LEU ILE HIS ASN ALA CYS PHE SEQRES 3 A 271 LEU THR PHE GLN LYS LYS LEU GLY PHE LEU GLY HIS TYR SEQRES 4 A 271 ARG PRO ILE LEU LEU PRO LEU GLU SER HIS ILE LYS ASN SEQRES 5 A 271 GLU PHE LEU HIS LEU GLY LEU SER GLY ALA ASN VAL THR SEQRES 6 A 271 LEU PRO PHE LYS GLU ARG ALA PHE GLN VAL CYS ASP LYS SEQRES 7 A 271 ILE LYS GLY ILE ALA LEU GLU CYS ALA SER ILE ASN THR SEQRES 8 A 271 LEU VAL LEU GLU ASN ASP GLU LEU VAL GLY TYR ASN THR SEQRES 9 A 271 ASP ALA LEU GLY PHE TYR LEU SER LEU LYS HIS GLN ASN SEQRES 10 A 271 TYR GLN ASN ALA LEU ILE LEU GLY SER GLY GLY SER ALA SEQRES 11 A 271 LYS ALA LEU ALA CYS GLY LEU LYS LYS GLN GLY LEU LYS SEQRES 12 A 271 VAL SER VAL LEU ASN ARG SER PRO ARG GLY LEU ASP PHE SEQRES 13 A 271 PHE GLN ARG LEU GLY CYS ASP CYS PHE MET GLU PRO PRO SEQRES 14 A 271 LYS SER ALA PHE ASP LEU ILE ILE ASN ALA THR SER ALA SEQRES 15 A 271 SER LEU ASN ASN GLU LEU PRO LEU ASN LYS GLU VAL LEU SEQRES 16 A 271 LYS GLY TYR PHE LYS GLU ALA LYS LEU ALA TYR ASP LEU SEQRES 17 A 271 ALA TYR GLY PHE LEU THR PRO PHE LEU ALA LEU ALA LYS SEQRES 18 A 271 GLU LEU LYS ILE PRO PHE GLN ASP GLY LYS ASP MET LEU SEQRES 19 A 271 ILE TYR GLN ALA SER LEU SER PHE GLU LYS PHE SER ALA SEQRES 20 A 271 SER GLN ILE PRO TYR SER LYS ALA PHE GLU VAL MET ARG SEQRES 21 A 271 SER VAL PHE LEU GLU HIS HIS HIS HIS HIS HIS SEQRES 1 B 271 MET LYS LEU LYS SER PHE GLY VAL PHE GLY ASN PRO ILE SEQRES 2 B 271 LYS HIS SER LYS SER PRO LEU ILE HIS ASN ALA CYS PHE SEQRES 3 B 271 LEU THR PHE GLN LYS LYS LEU GLY PHE LEU GLY HIS TYR SEQRES 4 B 271 ARG PRO ILE LEU LEU PRO LEU GLU SER HIS ILE LYS ASN SEQRES 5 B 271 GLU PHE LEU HIS LEU GLY LEU SER GLY ALA ASN VAL THR SEQRES 6 B 271 LEU PRO PHE LYS GLU ARG ALA PHE GLN VAL CYS ASP LYS SEQRES 7 B 271 ILE LYS GLY ILE ALA LEU GLU CYS ALA SER ILE ASN THR SEQRES 8 B 271 LEU VAL LEU GLU ASN ASP GLU LEU VAL GLY TYR ASN THR SEQRES 9 B 271 ASP ALA LEU GLY PHE TYR LEU SER LEU LYS HIS GLN ASN SEQRES 10 B 271 TYR GLN ASN ALA LEU ILE LEU GLY SER GLY GLY SER ALA SEQRES 11 B 271 LYS ALA LEU ALA CYS GLY LEU LYS LYS GLN GLY LEU LYS SEQRES 12 B 271 VAL SER VAL LEU ASN ARG SER PRO ARG GLY LEU ASP PHE SEQRES 13 B 271 PHE GLN ARG LEU GLY CYS ASP CYS PHE MET GLU PRO PRO SEQRES 14 B 271 LYS SER ALA PHE ASP LEU ILE ILE ASN ALA THR SER ALA SEQRES 15 B 271 SER LEU ASN ASN GLU LEU PRO LEU ASN LYS GLU VAL LEU SEQRES 16 B 271 LYS GLY TYR PHE LYS GLU ALA LYS LEU ALA TYR ASP LEU SEQRES 17 B 271 ALA TYR GLY PHE LEU THR PRO PHE LEU ALA LEU ALA LYS SEQRES 18 B 271 GLU LEU LYS ILE PRO PHE GLN ASP GLY LYS ASP MET LEU SEQRES 19 B 271 ILE TYR GLN ALA SER LEU SER PHE GLU LYS PHE SER ALA SEQRES 20 B 271 SER GLN ILE PRO TYR SER LYS ALA PHE GLU VAL MET ARG SEQRES 21 B 271 SER VAL PHE LEU GLU HIS HIS HIS HIS HIS HIS HET SKM A 500 12 HETNAM SKM (3R,4S,5R)-3,4,5-TRIHYDROXYCYCLOHEX-1-ENE-1-CARBOXYLIC HETNAM 2 SKM ACID HETSYN SKM SHIKIMATE FORMUL 3 SKM C7 H10 O5 FORMUL 4 HOH *41(H2 O) HELIX 1 1 LYS A 17 PHE A 29 1 13 HELIX 2 2 PHE A 29 GLY A 34 1 6 HELIX 3 3 HIS A 49 LEU A 57 1 9 HELIX 4 4 PHE A 68 CYS A 76 1 9 HELIX 5 5 GLY A 81 CYS A 86 5 6 HELIX 6 6 THR A 104 SER A 112 1 9 HELIX 7 7 GLY A 127 GLN A 140 1 14 HELIX 8 8 LEU A 154 LEU A 160 1 7 HELIX 9 9 ASN A 191 LYS A 200 1 10 HELIX 10 10 THR A 214 LEU A 223 1 10 HELIX 11 11 GLY A 230 SER A 246 1 17 HELIX 12 12 PRO A 251 SER A 261 1 11 HELIX 13 13 LYS B 17 PHE B 29 1 13 HELIX 14 14 PHE B 29 GLY B 34 1 6 HELIX 15 15 HIS B 49 LEU B 57 1 9 HELIX 16 16 PHE B 68 VAL B 75 1 8 HELIX 17 17 ILE B 82 ALA B 87 1 6 HELIX 18 18 THR B 104 SER B 112 1 9 HELIX 19 19 GLY B 128 GLN B 140 1 13 HELIX 20 20 LEU B 154 GLY B 161 1 8 HELIX 21 21 SER B 181 ASN B 186 5 6 HELIX 22 22 ASN B 191 GLU B 201 1 11 HELIX 23 23 THR B 214 LEU B 223 1 10 HELIX 24 24 GLY B 230 SER B 246 1 17 HELIX 25 25 PRO B 251 PHE B 263 1 13 SHEET 1 A 6 LEU A 36 LEU A 43 0 SHEET 2 A 6 LEU A 3 GLY A 10 1 N LYS A 4 O LEU A 36 SHEET 3 A 6 GLY A 61 VAL A 64 1 O ASN A 63 N PHE A 9 SHEET 4 A 6 THR A 91 GLU A 95 -1 O LEU A 92 N ALA A 62 SHEET 5 A 6 GLU A 98 TYR A 102 -1 O GLU A 98 N GLU A 95 SHEET 6 A 6 LYS A 78 ILE A 79 1 N LYS A 78 O GLY A 101 SHEET 1 B 4 ASP A 163 PHE A 165 0 SHEET 2 B 4 LYS A 143 LEU A 147 1 N VAL A 146 O ASP A 163 SHEET 3 B 4 ASN A 120 LEU A 124 1 N ALA A 121 O SER A 145 SHEET 4 B 4 LEU A 175 ILE A 176 1 O LEU A 175 N LEU A 122 SHEET 1 C 6 LEU B 36 ILE B 42 0 SHEET 2 C 6 LEU B 3 PHE B 9 1 N PHE B 6 O HIS B 38 SHEET 3 C 6 GLY B 61 VAL B 64 1 O ASN B 63 N PHE B 9 SHEET 4 C 6 THR B 91 GLU B 95 -1 O LEU B 92 N ALA B 62 SHEET 5 C 6 GLU B 98 TYR B 102 -1 O GLU B 98 N GLU B 95 SHEET 6 C 6 LYS B 78 ILE B 79 1 N LYS B 78 O GLY B 101 SHEET 1 D 6 ASP B 163 PHE B 165 0 SHEET 2 D 6 LYS B 143 LEU B 147 1 N VAL B 146 O ASP B 163 SHEET 3 D 6 ASN B 120 LEU B 124 1 N ILE B 123 O SER B 145 SHEET 4 D 6 LEU B 175 ASN B 178 1 O LEU B 175 N LEU B 122 SHEET 5 D 6 LEU B 204 ASP B 207 1 O TYR B 206 N ASN B 178 SHEET 6 D 6 PHE B 227 GLN B 228 1 O GLN B 228 N ASP B 207 CISPEP 1 ASN A 11 PRO A 12 0 -2.14 CISPEP 2 LEU A 66 PRO A 67 0 5.56 CISPEP 3 LEU A 113 LYS A 114 0 11.72 CISPEP 4 LEU A 184 ASN A 185 0 7.43 CISPEP 5 ASN B 11 PRO B 12 0 -15.28 CISPEP 6 LEU B 66 PRO B 67 0 4.13 CISPEP 7 GLY B 127 GLY B 128 0 -24.50 SITE 1 AC1 10 SER A 16 SER A 18 ASN A 63 VAL A 64 SITE 2 AC1 10 THR A 65 LYS A 69 ASN A 90 ASP A 105 SITE 3 AC1 10 TYR A 210 GLN A 237 CRYST1 63.118 71.870 176.388 90.00 90.00 90.00 P 21 21 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 0.015843 0.000000 0.000000 0.00000 SCALE2 0.000000 0.013914 0.000000 0.00000 SCALE3 0.000000 0.000000 0.005669 0.00000 MASTER 372 0 1 25 22 0 3 6 0 0 0 42 END