HEADER TRANSFERASE 27-OCT-97 2SHK TITLE THE THREE-DIMENSIONAL STRUCTURE OF SHIKIMATE KINASE FROM TITLE 2 ERWINIA CHRYSANTHEMI COMPLEXED WITH ADP COMPND MOL_ID: 1; COMPND 2 MOLECULE: SHIKIMATE KINASE; COMPND 3 CHAIN: A, B; COMPND 4 EC: 2.7.1.71; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ERWINIA CHRYSANTHEMI; SOURCE 3 ORGANISM_TAXID: 556; SOURCE 4 STRAIN: NCPPB 1066; SOURCE 5 CELLULAR_LOCATION: CYTOPLASM; SOURCE 6 GENE: AROL; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 9 EXPRESSION_SYSTEM_STRAIN: BL21; SOURCE 10 EXPRESSION_SYSTEM_VARIANT: (DE3) PLYSS; SOURCE 11 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 12 EXPRESSION_SYSTEM_VECTOR: T7 RNA POLYMERASE BASED; SOURCE 13 EXPRESSION_SYSTEM_PLASMID: PTB361SK; SOURCE 14 EXPRESSION_SYSTEM_GENE: AROL KEYWDS SHIKIMATE KINASE, PHOSPHORYL TRANSFER, ADP, SHIKIMATE KEYWDS 2 PATHWAY, P-LOOP PROTEIN, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR T.KRELL,J.R.COGGINS,A.J.LAPTHORN REVDAT 2 24-FEB-09 2SHK 1 VERSN REVDAT 1 18-NOV-98 2SHK 0 JRNL AUTH T.KRELL,J.E.COYLE,M.J.HORSBURGH,J.R.COGGINS, JRNL AUTH 2 A.J.LAPTHORN JRNL TITL CRYSTALLIZATION AND PRELIMINARY X-RAY JRNL TITL 2 CRYSTALLOGRAPHIC ANALYSIS OF SHIKIMATE KINASE FROM JRNL TITL 3 ERWINIA CHRYSANTHEMI. JRNL REF ACTA CRYSTALLOGR.,SECT.D V. 53 612 1997 JRNL REFN ISSN 0907-4449 JRNL PMID 15299895 JRNL DOI 10.1107/S0907444997004319 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH T.KRELL,J.R.COGGINS,A.J.LAPTHORN REMARK 1 TITL THE THREE-DIMENSIONAL STRUCTURE OF SHIKIMATE KINASE REMARK 1 REF J.MOL.BIOL. V. 278 983 1998 REMARK 1 REFN ISSN 0022-2836 REMARK 2 REMARK 2 RESOLUTION. 2.60 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : SHELX-90 REMARK 3 AUTHORS : G.M.SHELDRICK REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.60 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 20.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.8 REMARK 3 CROSS-VALIDATION METHOD : NULL REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (NO CUTOFF). REMARK 3 R VALUE (WORKING + TEST SET, NO CUTOFF) : NULL REMARK 3 R VALUE (WORKING SET, NO CUTOFF) : 0.184 REMARK 3 FREE R VALUE (NO CUTOFF) : 0.263 REMARK 3 FREE R VALUE TEST SET SIZE (%, NO CUTOFF) : 10.000 REMARK 3 FREE R VALUE TEST SET COUNT (NO CUTOFF) : 1679 REMARK 3 TOTAL NUMBER OF REFLECTIONS (NO CUTOFF) : NULL REMARK 3 REMARK 3 FIT/AGREEMENT OF MODEL FOR DATA WITH F>4SIG(F). REMARK 3 R VALUE (WORKING + TEST SET, F>4SIG(F)) : NULL REMARK 3 R VALUE (WORKING SET, F>4SIG(F)) : NULL REMARK 3 FREE R VALUE (F>4SIG(F)) : NULL REMARK 3 FREE R VALUE TEST SET SIZE (%, F>4SIG(F)) : NULL REMARK 3 FREE R VALUE TEST SET COUNT (F>4SIG(F)) : NULL REMARK 3 TOTAL NUMBER OF REFLECTIONS (F>4SIG(F)) : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2494 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 31 REMARK 3 SOLVENT ATOMS : 153 REMARK 3 REMARK 3 MODEL REFINEMENT. REMARK 3 OCCUPANCY SUM OF NON-HYDROGEN ATOMS : NULL REMARK 3 OCCUPANCY SUM OF HYDROGEN ATOMS : NULL REMARK 3 NUMBER OF DISCRETELY DISORDERED RESIDUES : NULL REMARK 3 NUMBER OF LEAST-SQUARES PARAMETERS : NULL REMARK 3 NUMBER OF RESTRAINTS : NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM RESTRAINT TARGET VALUES. REMARK 3 BOND LENGTHS (A) : NULL REMARK 3 ANGLE DISTANCES (A) : NULL REMARK 3 SIMILAR DISTANCES (NO TARGET VALUES) (A) : NULL REMARK 3 DISTANCES FROM RESTRAINT PLANES (A) : NULL REMARK 3 ZERO CHIRAL VOLUMES (A**3) : NULL REMARK 3 NON-ZERO CHIRAL VOLUMES (A**3) : NULL REMARK 3 ANTI-BUMPING DISTANCE RESTRAINTS (A) : NULL REMARK 3 RIGID-BOND ADP COMPONENTS (A**2) : NULL REMARK 3 SIMILAR ADP COMPONENTS (A**2) : NULL REMARK 3 APPROXIMATELY ISOTROPIC ADPS (A**2) : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED: NULL REMARK 3 REMARK 3 STEREOCHEMISTRY TARGET VALUES : NULL REMARK 3 SPECIAL CASE: NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2SHK COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY BNL. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NOV-95 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.1 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SRS REMARK 200 BEAMLINE : PX9.5 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.92 REMARK 200 MONOCHROMATOR : SI(111) REMARK 200 OPTICS : MIRROR REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 17402 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.600 REMARK 200 RESOLUTION RANGE LOW (A) : 28.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.8 REMARK 200 DATA REDUNDANCY : 6.300 REMARK 200 R MERGE (I) : 0.10700 REMARK 200 R SYM (I) : 0.10700 REMARK 200 FOR THE DATA SET : 10.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.60 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.69 REMARK 200 COMPLETENESS FOR SHELL (%) : 97.0 REMARK 200 DATA REDUNDANCY IN SHELL : 5.00 REMARK 200 R MERGE FOR SHELL (I) : 0.65000 REMARK 200 R SYM FOR SHELL (I) : 0.65000 REMARK 200 FOR SHELL : 2.000 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: NULL REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MIRAS REMARK 200 SOFTWARE USED: SHELX-90 REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 66.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.60 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 2.16M NACL, 100MM HEPES BUFFER PH REMARK 280 7.1, 5MM ADP, 5MM SHIKIMATE, 10MM MGCL2 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 41 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+1/4 REMARK 290 4555 Y+1/2,-X+1/2,Z+3/4 REMARK 290 5555 -X+1/2,Y+1/2,-Z+1/4 REMARK 290 6555 X+1/2,-Y+1/2,-Z+3/4 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 46.40000 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 54.25000 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 54.25000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 23.20000 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 54.25000 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 54.25000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 69.60000 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 54.25000 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 54.25000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 23.20000 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 54.25000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 54.25000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 69.60000 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 46.40000 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: 1700 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 15430 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -34.0 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 REMARK 350 BIOMOLECULE: 2 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 2850 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 14270 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -40.0 KCAL/MOL 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 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 2 0.000000 -1.000000 0.000000 54.25000 REMARK 350 BIOMT2 2 1.000000 0.000000 0.000000 -54.25000 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 23.20000 REMARK 400 REMARK 400 COMPOUND REMARK 400 REMARK 400 THE GAP IN THE MOLECULAR STRUCTURE CORRESPONDS TO RESIDUES REMARK 400 OF THE LID-DOMAIN. BY ANALOGY TO ADENYLATE KINASES THE LID REMARK 400 DOMAIN CLOSES OVER BOUND ATP. 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 ALA A 113 REMARK 465 SER A 114 REMARK 465 PRO A 115 REMARK 465 GLN A 116 REMARK 465 ALA A 117 REMARK 465 HIS A 118 REMARK 465 GLN A 119 REMARK 465 ARG A 120 REMARK 465 PRO A 121 REMARK 465 THR A 122 REMARK 465 LEU A 123 REMARK 465 THR A 124 REMARK 465 GLY A 125 REMARK 465 ARG A 126 REMARK 465 PRO A 127 REMARK 465 ALA B 113 REMARK 465 SER B 114 REMARK 465 PRO B 115 REMARK 465 GLN B 116 REMARK 465 ALA B 117 REMARK 465 HIS B 118 REMARK 465 GLN B 119 REMARK 465 ARG B 120 REMARK 465 PRO B 121 REMARK 465 THR B 122 REMARK 465 ALA B 173 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 GLN A 112 CG CD OE1 NE2 REMARK 470 GLU A 130 CG CD OE1 OE2 REMARK 470 LEU B 109 CG CD1 CD2 REMARK 470 GLN B 112 CG CD OE1 NE2 REMARK 470 LEU B 123 CG CD1 CD2 REMARK 470 THR B 124 OG1 CG2 REMARK 470 GLU B 130 CG CD OE1 OE2 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 OG1 THR A 2 NE2 GLN B 89 4554 2.11 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 MET B 1 CB MET B 1 CG 0.237 REMARK 500 MET B 1 CB MET B 1 CG -0.306 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 11 NE - CZ - NH1 ANGL. DEV. = 4.1 DEGREES REMARK 500 ARG A 11 NE - CZ - NH2 ANGL. DEV. = -3.4 DEGREES REMARK 500 ARG A 20 NH1 - CZ - NH2 ANGL. DEV. = 9.3 DEGREES REMARK 500 ARG A 20 NE - CZ - NH1 ANGL. DEV. = -4.8 DEGREES REMARK 500 ARG A 20 NE - CZ - NH2 ANGL. DEV. = -4.5 DEGREES REMARK 500 GLU A 21 OE1 - CD - OE2 ANGL. DEV. = -9.3 DEGREES REMARK 500 ASP A 34 CB - CG - OD2 ANGL. DEV. = -6.3 DEGREES REMARK 500 GLN A 38 CG - CD - OE1 ANGL. DEV. = -12.5 DEGREES REMARK 500 ARG A 58 NE - CZ - NH1 ANGL. DEV. = 3.2 DEGREES REMARK 500 ARG A 58 NE - CZ - NH2 ANGL. DEV. = -3.6 DEGREES REMARK 500 ARG A 73 NE - CZ - NH2 ANGL. DEV. = -6.6 DEGREES REMARK 500 ARG A 88 NE - CZ - NH1 ANGL. DEV. = 8.1 DEGREES REMARK 500 ARG A 88 NE - CZ - NH2 ANGL. DEV. = -5.5 DEGREES REMARK 500 ARG A 92 NH1 - CZ - NH2 ANGL. DEV. = -6.9 DEGREES REMARK 500 ARG A 92 NE - CZ - NH2 ANGL. DEV. = 5.7 DEGREES REMARK 500 ARG A 137 NE - CZ - NH2 ANGL. DEV. = -3.8 DEGREES REMARK 500 GLU A 138 OE1 - CD - OE2 ANGL. DEV. = -7.7 DEGREES REMARK 500 ARG A 139 NH1 - CZ - NH2 ANGL. DEV. = 8.0 DEGREES REMARK 500 ARG A 139 NE - CZ - NH2 ANGL. DEV. = -9.1 DEGREES REMARK 500 ASP A 145 CB - CG - OD1 ANGL. DEV. = 6.9 DEGREES REMARK 500 TYR A 149 CB - CG - CD2 ANGL. DEV. = 3.8 DEGREES REMARK 500 TYR A 149 CB - CG - CD1 ANGL. DEV. = -4.7 DEGREES REMARK 500 GLU A 163 OE1 - CD - OE2 ANGL. DEV. = 10.2 DEGREES REMARK 500 MET B 1 CA - CB - CG ANGL. DEV. = 35.0 DEGREES REMARK 500 MET B 7 CG - SD - CE ANGL. DEV. = 10.1 DEGREES REMARK 500 GLU B 21 OE1 - CD - OE2 ANGL. DEV. = -7.7 DEGREES REMARK 500 ARG B 58 NE - CZ - NH2 ANGL. DEV. = -3.5 DEGREES REMARK 500 ARG B 59 NE - CZ - NH1 ANGL. DEV. = 9.1 DEGREES REMARK 500 ARG B 59 NE - CZ - NH2 ANGL. DEV. = -6.8 DEGREES REMARK 500 ARG B 60 CD - NE - CZ ANGL. DEV. = 12.3 DEGREES REMARK 500 ARG B 60 NE - CZ - NH1 ANGL. DEV. = 3.9 DEGREES REMARK 500 ARG B 73 NE - CZ - NH1 ANGL. DEV. = 4.1 DEGREES REMARK 500 GLN B 89 CA - CB - CG ANGL. DEV. = 13.7 DEGREES REMARK 500 ARG B 92 CG - CD - NE ANGL. DEV. = 17.3 DEGREES REMARK 500 ARG B 126 NE - CZ - NH2 ANGL. DEV. = 3.6 DEGREES REMARK 500 ASP B 145 CB - CG - OD1 ANGL. DEV. = 6.9 DEGREES REMARK 500 ARG B 169 NE - CZ - NH1 ANGL. DEV. = 4.3 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 LEU B 111 -26.63 -146.64 REMARK 500 ARG B 126 -158.35 50.39 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 902 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A 946 O REMARK 620 2 GLN A 144 O 85.8 REMARK 620 3 ALA A 147 O 115.0 100.9 REMARK 620 4 HOH A 904 O 156.8 84.5 87.6 REMARK 620 5 HOH B 913 O 91.3 166.0 92.8 93.0 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 903 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLY A 95 O REMARK 620 2 ARG A 92 O 74.8 REMARK 620 3 ALA A 93 O 109.6 71.8 REMARK 620 4 GLY B 95 O 125.8 91.4 115.1 REMARK 620 5 ARG B 92 O 95.2 170.0 112.0 95.0 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B 901 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH B 924 O REMARK 620 2 ALA B 147 O 81.8 REMARK 620 3 GLN B 144 O 85.8 94.6 REMARK 620 4 HOH B 967 O 149.4 127.9 84.7 REMARK 620 5 HOH A 912 O 83.0 96.9 162.6 98.2 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B 904 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ADP B 905 O2B REMARK 620 2 HOH B 958 O 109.5 REMARK 620 3 THR B 16 OG1 81.0 167.9 REMARK 620 N 1 2 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: POP REMARK 800 EVIDENCE_CODE: UNKNOWN REMARK 800 SITE_DESCRIPTION: A WALKER TYPE-A MOTIF FORMS THE P-LOOP WHICH REMARK 800 IS THE BINDING SITE FOR THE PHOSPHATES OF ATP. REMARK 800 SITE_IDENTIFIER: SAS REMARK 800 EVIDENCE_CODE: UNKNOWN REMARK 800 SITE_DESCRIPTION: THE ELECTRON DENSITY FOR SHIKIMATE WAS REMARK 800 AMBIGUOUS PREVENTING ITS INCLUSION IN THE MODEL. THE LISTED REMARK 800 RESIDUES ARE GROUPED AROUND THE DENSITY AND ARE MOST LIKELY TO REMARK 800 BE PART OF THE SHIKIMATE-BINDING SITE. ALL RESIDUES ARE REMARK 800 CONSERVED IN A SEQUENCE ALIGNMENT OF SHIKIMATE KINASES. REMARK 800 SITE_IDENTIFIER: PIP REMARK 800 EVIDENCE_CODE: UNKNOWN REMARK 800 SITE_DESCRIPTION: A WALKER TYPE-A MOTIF FORMS THE P-LOOP WHICH REMARK 800 IS THE BINDING SITE FOR THE PHOSPHATES OF ATP. REMARK 800 SITE_IDENTIFIER: SBS REMARK 800 EVIDENCE_CODE: UNKNOWN REMARK 800 SITE_DESCRIPTION: THE ELECTRON DENSITY FOR SHIKIMATE WAS REMARK 800 AMBIGUOUS PREVENTING ITS INCLUSION IN THE MODEL. THE LISTED REMARK 800 RESIDUES ARE GROUPED AROUND THE DENSITY AND ARE MOST LIKELY TO REMARK 800 BE PART OF THE SHIKIMATE-BINDING SITE. ALL RESIDUES ARE REMARK 800 CONSERVED IN A SEQUENCE ALIGNMENT OF SHIKIMATE KINASES. REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG B 901 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 902 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 903 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG B 904 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ADP B 905 DBREF 2SHK A 1 173 UNP P10880 AROL_ERWCH 1 173 DBREF 2SHK B 1 173 UNP P10880 AROL_ERWCH 1 173 SEQRES 1 A 173 MET THR GLU PRO ILE PHE MET VAL GLY ALA ARG GLY CYS SEQRES 2 A 173 GLY LYS THR THR VAL GLY ARG GLU LEU ALA ARG ALA LEU SEQRES 3 A 173 GLY TYR GLU PHE VAL ASP THR ASP ILE PHE MET GLN HIS SEQRES 4 A 173 THR SER GLY MET THR VAL ALA ASP VAL VAL ALA ALA GLU SEQRES 5 A 173 GLY TRP PRO GLY PHE ARG ARG ARG GLU SER GLU ALA LEU SEQRES 6 A 173 GLN ALA VAL ALA THR PRO ASN ARG VAL VAL ALA THR GLY SEQRES 7 A 173 GLY GLY MET VAL LEU LEU GLU GLN ASN ARG GLN PHE MET SEQRES 8 A 173 ARG ALA HIS GLY THR VAL VAL TYR LEU PHE ALA PRO ALA SEQRES 9 A 173 GLU GLU LEU ALA LEU ARG LEU GLN ALA SER PRO GLN ALA SEQRES 10 A 173 HIS GLN ARG PRO THR LEU THR GLY ARG PRO ILE ALA GLU SEQRES 11 A 173 GLU MET GLU ALA VAL LEU ARG GLU ARG GLU ALA LEU TYR SEQRES 12 A 173 GLN ASP VAL ALA HIS TYR VAL VAL ASP ALA THR GLN PRO SEQRES 13 A 173 PRO ALA ALA ILE VAL CYS GLU LEU MET GLN THR MET ARG SEQRES 14 A 173 LEU PRO ALA ALA SEQRES 1 B 173 MET THR GLU PRO ILE PHE MET VAL GLY ALA ARG GLY CYS SEQRES 2 B 173 GLY LYS THR THR VAL GLY ARG GLU LEU ALA ARG ALA LEU SEQRES 3 B 173 GLY TYR GLU PHE VAL ASP THR ASP ILE PHE MET GLN HIS SEQRES 4 B 173 THR SER GLY MET THR VAL ALA ASP VAL VAL ALA ALA GLU SEQRES 5 B 173 GLY TRP PRO GLY PHE ARG ARG ARG GLU SER GLU ALA LEU SEQRES 6 B 173 GLN ALA VAL ALA THR PRO ASN ARG VAL VAL ALA THR GLY SEQRES 7 B 173 GLY GLY MET VAL LEU LEU GLU GLN ASN ARG GLN PHE MET SEQRES 8 B 173 ARG ALA HIS GLY THR VAL VAL TYR LEU PHE ALA PRO ALA SEQRES 9 B 173 GLU GLU LEU ALA LEU ARG LEU GLN ALA SER PRO GLN ALA SEQRES 10 B 173 HIS GLN ARG PRO THR LEU THR GLY ARG PRO ILE ALA GLU SEQRES 11 B 173 GLU MET GLU ALA VAL LEU ARG GLU ARG GLU ALA LEU TYR SEQRES 12 B 173 GLN ASP VAL ALA HIS TYR VAL VAL ASP ALA THR GLN PRO SEQRES 13 B 173 PRO ALA ALA ILE VAL CYS GLU LEU MET GLN THR MET ARG SEQRES 14 B 173 LEU PRO ALA ALA HET MG B 901 1 HET MG A 902 1 HET MG A 903 1 HET MG B 904 1 HET ADP B 905 27 HETNAM MG MAGNESIUM ION HETNAM ADP ADENOSINE-5'-DIPHOSPHATE FORMUL 3 MG 4(MG 2+) FORMUL 7 ADP C10 H15 N5 O10 P2 FORMUL 8 HOH *153(H2 O) HELIX 1 1 LYS A 15 LEU A 26 1 12 HELIX 2 2 THR A 33 SER A 41 1 9 HELIX 3 3 VAL A 45 VAL A 68 1 24 HELIX 4 4 GLU A 85 HIS A 94 1 10 HELIX 5 5 ALA A 104 LEU A 109 1 6 HELIX 6 6 ALA A 129 VAL A 146 1 18 HELIX 7 7 PRO A 157 THR A 167 1 11 HELIX 8 8 LYS B 15 LEU B 26 1 12 HELIX 9 9 THR B 33 SER B 41 1 9 HELIX 10 10 VAL B 45 VAL B 68 1 24 HELIX 11 11 GLY B 79 LEU B 83 5 5 HELIX 12 12 GLU B 85 ARG B 92 1 8 HELIX 13 13 ALA B 104 LEU B 109 1 6 HELIX 14 14 ILE B 128 VAL B 146 1 19 HELIX 15 15 PRO B 157 MET B 168 1 12 SHEET 1 A 5 GLU A 29 ASP A 32 0 SHEET 2 A 5 ARG A 73 ALA A 76 1 N VAL A 74 O GLU A 29 SHEET 3 A 5 PRO A 4 VAL A 8 1 N ILE A 5 O VAL A 75 SHEET 4 A 5 GLY A 95 PHE A 101 1 N THR A 96 O PRO A 4 SHEET 5 A 5 TYR A 149 ASP A 152 1 N TYR A 149 O TYR A 99 SHEET 1 B 5 GLU B 29 ASP B 32 0 SHEET 2 B 5 ARG B 73 ALA B 76 1 N VAL B 74 O GLU B 29 SHEET 3 B 5 PRO B 4 VAL B 8 1 N ILE B 5 O VAL B 75 SHEET 4 B 5 GLY B 95 PHE B 101 1 N THR B 96 O PRO B 4 SHEET 5 B 5 TYR B 149 ASP B 152 1 N TYR B 149 O TYR B 99 SSBOND 1 CYS A 162 CYS B 162 1555 1555 2.01 LINK MG MG A 902 O HOH A 946 1555 1555 2.36 LINK MG MG A 902 O GLN A 144 1555 1555 2.31 LINK MG MG A 902 O ALA A 147 1555 1555 2.28 LINK MG MG A 902 O HOH A 904 1555 1555 2.27 LINK MG MG A 903 O GLY A 95 1555 1555 2.50 LINK MG MG A 903 O ARG A 92 1555 1555 2.36 LINK MG MG A 903 O ALA A 93 1555 1555 2.62 LINK MG MG B 901 O HOH B 924 1555 1555 2.50 LINK MG MG B 901 O ALA B 147 1555 1555 2.40 LINK MG MG B 901 O GLN B 144 1555 1555 2.44 LINK MG MG B 901 O HOH B 967 1555 1555 2.19 LINK MG MG B 904 O2B ADP B 905 1555 1555 2.43 LINK MG MG B 904 O HOH B 958 1555 1555 2.91 LINK MG MG B 904 OG1 THR B 16 1555 1555 2.60 LINK MG MG A 902 O HOH B 913 1555 4554 2.29 LINK MG MG A 903 O GLY B 95 1555 4554 2.47 LINK MG MG A 903 O ARG B 92 1555 4554 2.22 LINK MG MG B 901 O HOH A 912 1555 3545 2.50 CISPEP 1 LEU B 170 PRO B 171 0 8.61 SITE 1 POP 4 GLY A 9 GLY A 14 LYS A 15 THR A 16 SITE 1 SAS 4 ASP A 34 GLU A 61 ARG A 58 ARG A 139 SITE 1 PIP 4 GLY B 9 GLY B 14 LYS B 15 THR B 16 SITE 1 SBS 4 ASP B 34 GLU B 61 ARG B 58 ARG B 139 SITE 1 AC1 5 HOH A 912 GLN B 144 ALA B 147 HOH B 924 SITE 2 AC1 5 HOH B 967 SITE 1 AC2 5 GLN A 144 ALA A 147 HOH A 904 HOH A 946 SITE 2 AC2 5 HOH B 913 SITE 1 AC3 6 ARG A 92 ALA A 93 GLY A 95 ARG B 92 SITE 2 AC3 6 HIS B 94 GLY B 95 SITE 1 AC4 4 THR B 16 ASP B 32 ADP B 905 HOH B 958 SITE 1 AC5 15 ALA B 10 GLY B 12 CYS B 13 GLY B 14 SITE 2 AC5 15 LYS B 15 THR B 16 THR B 17 ARG B 110 SITE 3 AC5 15 ALA B 153 GLN B 155 PRO B 156 PRO B 157 SITE 4 AC5 15 ILE B 160 MG B 904 HOH B 915 CRYST1 108.500 108.500 92.800 90.00 90.00 90.00 P 41 21 2 16 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 0.009217 0.000000 0.000000 0.00000 SCALE2 0.000000 0.009217 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010776 0.00000 MTRIX1 1 -0.503610 -0.858480 0.096889 80.86990 1 MTRIX2 1 -0.863822 0.502148 -0.040719 48.18270 1 MTRIX3 1 -0.013696 -0.104202 -0.994462 30.61940 1