HEADER TRANSFERASE 31-MAY-05 1ZUI TITLE STRUCTURAL BASIS FOR SHIKIMATE-BINDING SPECIFICITY OF HELICOBACTER TITLE 2 PYLORI SHIKIMATE KINASE COMPND MOL_ID: 1; COMPND 2 MOLECULE: SHIKIMATE KINASE; COMPND 3 CHAIN: A; COMPND 4 EC: 2.7.1.71; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HELICOBACTER PYLORI; SOURCE 3 ORGANISM_TAXID: 85962; SOURCE 4 STRAIN: 26695; SOURCE 5 GENE: AROK; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: JM109; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PQE30 KEYWDS ALPHA-BETA PROTEIN, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR W.C.CHENG,Y.N.CHANG,W.C.WANG REVDAT 5 13-MAR-24 1ZUI 1 REMARK SEQADV REVDAT 4 11-OCT-17 1ZUI 1 REMARK REVDAT 3 13-JUL-11 1ZUI 1 VERSN REVDAT 2 24-FEB-09 1ZUI 1 VERSN REVDAT 1 31-MAY-06 1ZUI 0 JRNL AUTH W.C.CHENG,Y.N.CHANG,W.C.WANG JRNL TITL STRUCTURAL BASIS FOR SHIKIMATE-BINDING SPECIFICITY OF JRNL TITL 2 HELICOBACTER PYLORI SHIKIMATE KINASE JRNL REF J.BACTERIOL. V. 187 8156 2005 JRNL REFN ISSN 0021-9193 JRNL PMID 16291688 JRNL DOI 10.1128/JB.187.23.8156-8163.2005 REMARK 2 REMARK 2 RESOLUTION. 2.30 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) : 2.30 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 30.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 2.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 3 NUMBER OF REFLECTIONS : 10842 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) : 0.207 REMARK 3 R VALUE (WORKING SET) : 0.203 REMARK 3 FREE R VALUE : 0.280 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.800 REMARK 3 FREE R VALUE TEST SET COUNT : 548 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) : 2.30 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.36 REMARK 3 REFLECTION IN BIN (WORKING SET) : 795 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.3270 REMARK 3 BIN FREE R VALUE SET COUNT : 32 REMARK 3 BIN FREE R VALUE : 0.3240 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1261 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 17 REMARK 3 SOLVENT ATOMS : 66 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 50.35 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -4.82000 REMARK 3 B22 (A**2) : -4.82000 REMARK 3 B33 (A**2) : 7.23000 REMARK 3 B12 (A**2) : -2.41000 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): 0.236 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.231 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.185 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 8.083 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.949 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.902 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 1291 ; 0.042 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 1728 ; 3.250 ; 2.001 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 156 ;10.268 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): NULL ; NULL ; NULL REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 201 ; 0.243 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 927 ; 0.015 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 704 ; 0.299 ; 0.200 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): 79 ; 0.213 ; 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): 17 ; 0.254 ; 0.200 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): 777 ; 1.626 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1245 ; 3.018 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 514 ; 5.479 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 483 ; 8.113 ; 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 : BABINET MODEL WITH 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: NULL REMARK 4 REMARK 4 1ZUI COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 03-JUN-05. REMARK 100 THE DEPOSITION ID IS D_1000033133. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 22-NOV-04 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : 2 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : RIGAKU RU300 REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : RIGAKU RAXIS IV REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 11417 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.300 REMARK 200 RESOLUTION RANGE LOW (A) : 84.510 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 1.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : 0.09300 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.30 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.38 REMARK 200 COMPLETENESS FOR SHELL (%) : 97.9 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.45100 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 (%): 65.20 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.60 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: LITHIUM SULFATE, SODIUM CACODYLATE, PH REMARK 280 6.5, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 61 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+1/3 REMARK 290 3555 -X+Y,-X,Z+2/3 REMARK 290 4555 -X,-Y,Z+1/2 REMARK 290 5555 Y,-X+Y,Z+5/6 REMARK 290 6555 X-Y,X,Z+1/6 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 15.63633 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 31.27267 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 23.45450 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 39.09083 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 7.81817 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 HIS 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 MET A 1 REMARK 465 LYS A 111 REMARK 465 GLU A 112 REMARK 465 ALA A 162 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 CE LYS A 71 O HOH A 2067 1.95 REMARK 500 O HOH A 2005 O HOH A 2040 2.02 REMARK 500 OD2 ASP A 100 OG1 THR A 103 2.15 REMARK 500 CE LYS A 71 O HOH A 2063 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 20 CG GLU A 20 CD 0.141 REMARK 500 GLU A 38 CD GLU A 38 OE1 0.114 REMARK 500 GLU A 38 CD GLU A 38 OE2 0.092 REMARK 500 GLU A 49 CD GLU A 49 OE1 0.070 REMARK 500 PHE A 59 CZ PHE A 59 CE2 0.127 REMARK 500 VAL A 75 CB VAL A 75 CG2 0.126 REMARK 500 GLU A 137 CD GLU A 137 OE2 0.094 REMARK 500 VAL A 157 CB VAL A 157 CG1 0.143 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 GLU A 20 OE1 - CD - OE2 ANGL. DEV. = -8.7 DEGREES REMARK 500 ASP A 31 CB - CG - OD2 ANGL. DEV. = 5.4 DEGREES REMARK 500 MET A 34 CG - SD - CE ANGL. DEV. = 27.4 DEGREES REMARK 500 ARG A 39 NE - CZ - NH1 ANGL. DEV. = -7.3 DEGREES REMARK 500 ARG A 39 NE - CZ - NH2 ANGL. DEV. = 7.1 DEGREES REMARK 500 ARG A 57 NE - CZ - NH1 ANGL. DEV. = 5.4 DEGREES REMARK 500 ARG A 57 NE - CZ - NH2 ANGL. DEV. = -5.9 DEGREES REMARK 500 LYS A 71 CD - CE - NZ ANGL. DEV. = -27.5 DEGREES REMARK 500 THR A 78 N - CA - CB ANGL. DEV. = -15.5 DEGREES REMARK 500 ASP A 100 CB - CG - OD2 ANGL. DEV. = 5.7 DEGREES REMARK 500 LEU A 104 CB - CG - CD2 ANGL. DEV. = -16.6 DEGREES REMARK 500 ARG A 132 NE - CZ - NH1 ANGL. DEV. = -5.3 DEGREES REMARK 500 ASP A 145 CB - CG - OD2 ANGL. DEV. = 6.9 DEGREES REMARK 500 LEU A 154 CB - CG - CD2 ANGL. DEV. = 11.5 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 HIS A 3 152.37 -47.86 REMARK 500 LYS A 26 67.73 26.60 REMARK 500 ARG A 116 131.61 -10.06 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 GLN A 2 HIS A 3 142.36 REMARK 500 LEU A 108 ASN A 109 146.69 REMARK 500 LYS A 115 ARG A 116 149.13 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 A 1001 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SKM A 2001 DBREF 1ZUI A 1 162 UNP P56073 AROK_HELPY 1 162 SEQADV 1ZUI HIS A -5 UNP P56073 EXPRESSION TAG SEQADV 1ZUI HIS A -4 UNP P56073 EXPRESSION TAG SEQADV 1ZUI HIS A -3 UNP P56073 EXPRESSION TAG SEQADV 1ZUI HIS A -2 UNP P56073 EXPRESSION TAG SEQADV 1ZUI HIS A -1 UNP P56073 EXPRESSION TAG SEQADV 1ZUI HIS A 0 UNP P56073 EXPRESSION TAG SEQRES 1 A 168 HIS HIS HIS HIS HIS HIS MET GLN HIS LEU VAL LEU ILE SEQRES 2 A 168 GLY PHE MET GLY SER GLY LYS SER SER LEU ALA GLN GLU SEQRES 3 A 168 LEU GLY LEU ALA LEU LYS LEU GLU VAL LEU ASP THR ASP SEQRES 4 A 168 MET ILE ILE SER GLU ARG VAL GLY LEU SER VAL ARG GLU SEQRES 5 A 168 ILE PHE GLU GLU LEU GLY GLU ASP ASN PHE ARG MET PHE SEQRES 6 A 168 GLU LYS ASN LEU ILE ASP GLU LEU LYS THR LEU LYS THR SEQRES 7 A 168 PRO HIS VAL ILE SER THR GLY GLY GLY ILE VAL MET HIS SEQRES 8 A 168 GLU ASN LEU LYS GLY LEU GLY THR THR PHE TYR LEU LYS SEQRES 9 A 168 MET ASP PHE GLU THR LEU ILE LYS ARG LEU ASN GLN LYS SEQRES 10 A 168 GLU ARG GLU LYS ARG PRO LEU LEU ASN ASN LEU THR GLN SEQRES 11 A 168 ALA LYS GLU LEU PHE GLU LYS ARG GLN ALA LEU TYR GLU SEQRES 12 A 168 LYS ASN ALA SER PHE ILE ILE ASP ALA ARG GLY GLY LEU SEQRES 13 A 168 ASN ASN SER LEU LYS GLN VAL LEU GLN PHE ILE ALA HET PO4 A1001 5 HET SKM A2001 12 HETNAM PO4 PHOSPHATE ION HETNAM SKM (3R,4S,5R)-3,4,5-TRIHYDROXYCYCLOHEX-1-ENE-1-CARBOXYLIC HETNAM 2 SKM ACID HETSYN SKM SHIKIMATE FORMUL 2 PO4 O4 P 3- FORMUL 3 SKM C7 H10 O5 FORMUL 4 HOH *66(H2 O) HELIX 1 1 GLY A 13 LYS A 26 1 14 HELIX 2 2 THR A 32 GLY A 41 1 10 HELIX 3 3 SER A 43 GLY A 52 1 10 HELIX 4 4 GLY A 52 LYS A 68 1 17 HELIX 5 5 GLY A 81 LYS A 89 5 9 HELIX 6 6 ASP A 100 LEU A 108 1 9 HELIX 7 7 ARG A 116 ASN A 120 5 5 HELIX 8 8 ASN A 121 ALA A 140 1 20 HELIX 9 9 GLY A 149 PHE A 160 1 12 SHEET 1 A 5 GLU A 28 ASP A 31 0 SHEET 2 A 5 HIS A 74 SER A 77 1 O VAL A 75 N LEU A 30 SHEET 3 A 5 HIS A 3 ILE A 7 1 N LEU A 4 O ILE A 76 SHEET 4 A 5 GLY A 92 LYS A 98 1 O LEU A 97 N ILE A 7 SHEET 5 A 5 PHE A 142 ASP A 145 1 O ILE A 144 N TYR A 96 SITE 1 AC1 5 GLY A 11 GLY A 13 LYS A 14 SER A 15 SITE 2 AC1 5 HOH A2014 SITE 1 AC2 14 MET A 10 ASP A 33 VAL A 44 PHE A 48 SITE 2 AC2 14 ARG A 57 GLY A 79 GLY A 80 GLY A 81 SITE 3 AC2 14 GLU A 114 ARG A 116 ARG A 132 HOH A2003 SITE 4 AC2 14 HOH A2004 HOH A2012 CRYST1 97.286 97.286 46.909 90.00 90.00 120.00 P 61 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 0.010279 0.005935 0.000000 0.00000 SCALE2 0.000000 0.011869 0.000000 0.00000 SCALE3 0.000000 0.000000 0.021318 0.00000 TER 1262 ILE A 161 HETATM 1263 P PO4 A1001 37.078 13.191 7.853 1.00 44.95 P HETATM 1264 O1 PO4 A1001 37.956 12.007 8.126 1.00 46.47 O HETATM 1265 O2 PO4 A1001 35.596 12.995 7.978 1.00 50.13 O HETATM 1266 O3 PO4 A1001 37.410 13.761 6.493 1.00 42.46 O HETATM 1267 O4 PO4 A1001 37.402 14.074 8.997 1.00 51.83 O HETATM 1268 O12 SKM A2001 39.311 5.589 2.286 1.00 40.04 O HETATM 1269 C8 SKM A2001 39.823 5.456 3.709 1.00 40.05 C HETATM 1270 C6 SKM A2001 40.854 4.468 3.230 1.00 42.15 C HETATM 1271 O7 SKM A2001 41.636 4.378 4.453 1.00 40.11 O HETATM 1272 C5 SKM A2001 41.994 4.861 2.392 1.00 37.51 C HETATM 1273 C4 SKM A2001 42.336 6.356 2.495 1.00 41.64 C HETATM 1274 C1 SKM A2001 43.192 6.993 1.364 1.00 47.00 C HETATM 1275 O2 SKM A2001 43.659 6.263 0.351 1.00 37.71 O HETATM 1276 O3 SKM A2001 43.485 8.231 1.644 1.00 48.65 O HETATM 1277 C10 SKM A2001 41.396 7.388 3.193 1.00 39.10 C HETATM 1278 C9 SKM A2001 40.205 6.940 4.013 1.00 39.60 C HETATM 1279 O11 SKM A2001 39.118 7.921 3.897 1.00 36.94 O HETATM 1280 O HOH A2002 48.108 -0.194 2.886 1.00 34.63 O HETATM 1281 O HOH A2003 39.607 6.654 -0.510 1.00 37.11 O HETATM 1282 O HOH A2004 43.653 10.508 2.828 1.00 44.48 O HETATM 1283 O HOH A2005 33.135 25.835 14.444 1.00 47.90 O HETATM 1284 O HOH A2006 33.883 8.304 3.110 1.00 47.65 O HETATM 1285 O HOH A2007 26.725 23.284 12.991 1.00 39.58 O HETATM 1286 O HOH A2008 47.140 9.054 -4.779 1.00 38.55 O HETATM 1287 O HOH A2009 18.719 14.007 -0.681 1.00 37.33 O HETATM 1288 O HOH A2010 38.255 12.722 -1.184 1.00 40.27 O HETATM 1289 O HOH A2011 26.376 6.485 4.230 1.00 33.61 O HETATM 1290 O HOH A2012 38.701 10.608 4.969 1.00 52.30 O HETATM 1291 O HOH A2013 35.742 5.838 0.096 1.00 35.41 O HETATM 1292 O HOH A2014 34.691 14.723 10.048 1.00 48.99 O HETATM 1293 O HOH A2015 46.493 -4.149 -3.912 1.00 43.33 O HETATM 1294 O HOH A2016 36.222 8.026 6.213 1.00 42.12 O HETATM 1295 O HOH A2017 19.999 8.633 1.390 1.00 45.14 O HETATM 1296 O HOH A2018 51.429 20.902 5.546 1.00 49.65 O HETATM 1297 O HOH A2019 42.201 17.860 2.725 1.00 38.74 O HETATM 1298 O HOH A2020 52.237 21.583 7.768 1.00 51.63 O HETATM 1299 O HOH A2021 43.185 -12.787 3.049 1.00 45.23 O HETATM 1300 O HOH A2022 34.155 27.454 12.386 1.00 60.79 O HETATM 1301 O HOH A2023 38.129 5.636 10.950 1.00 49.68 O HETATM 1302 O HOH A2024 47.637 -4.553 -1.504 1.00 44.60 O HETATM 1303 O HOH A2025 31.130 -0.730 -5.117 1.00 52.43 O HETATM 1304 O HOH A2026 39.275 4.469 -11.868 1.00 51.38 O HETATM 1305 O HOH A2027 37.763 27.885 -5.732 1.00 47.30 O HETATM 1306 O HOH A2028 17.069 18.934 7.568 1.00 53.54 O HETATM 1307 O HOH A2029 57.622 8.092 9.962 1.00 59.28 O HETATM 1308 O HOH A2030 40.514 3.023 -10.611 1.00 47.96 O HETATM 1309 O HOH A2031 44.621 19.323 1.973 1.00 38.81 O HETATM 1310 O HOH A2032 46.848 5.000 -2.507 1.00 41.10 O HETATM 1311 O HOH A2033 42.264 10.672 16.769 1.00 65.06 O HETATM 1312 O HOH A2034 53.068 7.131 1.104 1.00 50.96 O HETATM 1313 O HOH A2035 34.405 19.808 9.188 1.00 39.19 O HETATM 1314 O HOH A2036 13.972 18.799 6.888 1.00 52.57 O HETATM 1315 O HOH A2037 21.406 14.592 -8.753 1.00 55.24 O HETATM 1316 O HOH A2038 25.908 0.822 3.077 1.00 53.72 O HETATM 1317 O HOH A2039 35.573 1.655 8.439 1.00 46.69 O HETATM 1318 O HOH A2040 34.769 24.690 14.768 1.00 63.35 O HETATM 1319 O HOH A2041 43.340 -6.149 -3.495 1.00 53.57 O HETATM 1320 O HOH A2042 53.162 19.132 4.361 1.00 71.74 O HETATM 1321 O HOH A2043 35.244 16.067 12.164 1.00 54.82 O HETATM 1322 O HOH A2044 54.592 8.887 -5.813 1.00 54.84 O HETATM 1323 O HOH A2045 50.353 21.744 3.452 1.00 59.69 O HETATM 1324 O HOH A2046 33.219 25.361 -10.671 1.00 49.13 O HETATM 1325 O HOH A2047 29.185 12.613 10.717 1.00 48.96 O HETATM 1326 O HOH A2048 43.969 2.068 12.125 1.00 58.13 O HETATM 1327 O HOH A2049 51.435 24.051 8.486 1.00 60.00 O HETATM 1328 O HOH A2050 45.993 19.988 -10.485 1.00 58.45 O HETATM 1329 O HOH A2051 28.742 0.680 -10.545 1.00 50.54 O HETATM 1330 O HOH A2052 20.880 11.496 5.788 1.00 46.83 O HETATM 1331 O HOH A2053 34.910 10.463 4.906 1.00 56.57 O HETATM 1332 O HOH A2054 39.286 9.810 10.958 1.00 46.71 O HETATM 1333 O HOH A2055 28.822 -8.619 5.683 1.00 63.22 O HETATM 1334 O HOH A2056 38.220 31.482 4.267 1.00 58.55 O HETATM 1335 O HOH A2057 47.111 8.450 -7.468 1.00 50.98 O HETATM 1336 O HOH A2058 31.007 7.071 -14.647 1.00 55.02 O HETATM 1337 O HOH A2059 36.343 18.516 -16.670 1.00 63.72 O HETATM 1338 O HOH A2060 28.211 17.131 11.607 1.00 60.85 O HETATM 1339 O HOH A2061 23.344 0.440 0.403 1.00 30.10 O HETATM 1340 O HOH A2062 17.804 16.237 7.035 1.00 49.84 O HETATM 1341 O HOH A2063 17.270 8.407 -3.548 1.00 64.56 O HETATM 1342 O HOH A2064 25.941 20.647 16.531 1.00 51.67 O HETATM 1343 O HOH A2065 31.291 -3.394 -7.058 1.00 66.00 O HETATM 1344 O HOH A2066 27.154 4.701 6.312 1.00 56.83 O HETATM 1345 O HOH A2067 17.405 6.446 -5.805 1.00 70.06 O CONECT 1263 1264 1265 1266 1267 CONECT 1264 1263 CONECT 1265 1263 CONECT 1266 1263 CONECT 1267 1263 CONECT 1268 1269 CONECT 1269 1268 1270 1278 CONECT 1270 1269 1271 1272 CONECT 1271 1270 CONECT 1272 1270 1273 CONECT 1273 1272 1274 1277 CONECT 1274 1273 1275 1276 CONECT 1275 1274 CONECT 1276 1274 CONECT 1277 1273 1278 CONECT 1278 1269 1277 1279 CONECT 1279 1278 MASTER 372 0 2 9 5 0 6 6 1344 1 17 13 END