HEADER TRANSFERASE 09-OCT-03 1R59 TITLE ENTEROCOCCUS CASSELIFLAVUS GLYCEROL KINASE COMPND MOL_ID: 1; COMPND 2 MOLECULE: GLYCEROL KINASE; COMPND 3 CHAIN: O, X; COMPND 4 FRAGMENT: GLYCEROL KINASE; COMPND 5 SYNONYM: ATP:GLYCEROL 3-PHOSPHOTRANSFERASE, GLYCEROKINASE, GK; COMPND 6 EC: 2.7.1.30; COMPND 7 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ENTEROCOCCUS CASSELIFLAVUS; SOURCE 3 ORGANISM_TAXID: 37734; SOURCE 4 GENE: GLPK; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: JM109DE3; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: POXO4 KEYWDS TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR J.I.YEH,V.CHARRIER,J.PAULO,L.HOU,E.DARBON,A.CLAIBORNE,W.G.HOL, AUTHOR 2 J.DEUTSCHER REVDAT 3 14-FEB-24 1R59 1 REMARK REVDAT 2 24-FEB-09 1R59 1 VERSN REVDAT 1 12-OCT-04 1R59 0 JRNL AUTH J.I.YEH,V.CHARRIER,J.PAULO,L.HOU,E.DARBON,A.CLAIBORNE, JRNL AUTH 2 W.G.HOL,J.DEUTSCHER JRNL TITL STRUCTURES OF ENTEROCOCCAL GLYCEROL KINASE IN THE ABSENCE JRNL TITL 2 AND PRESENCE OF GLYCEROL: CORRELATION OF CONFORMATION TO JRNL TITL 3 SUBSTRATE BINDING AND A MECHANISM OF ACTIVATION BY JRNL TITL 4 PHOSPHORYLATION JRNL REF BIOCHEMISTRY V. 43 362 2004 JRNL REFN ISSN 0006-2960 JRNL PMID 14717590 JRNL DOI 10.1021/BI034258O REMARK 2 REMARK 2 RESOLUTION. 2.50 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS REMARK 3 AUTHORS : BRUNGER,ADAMS,CLORE,DELANO,GROS,GROSSE- REMARK 3 : KUNSTLEVE,JIANG,KUSZEWSKI,NILGES,PANNU, REMARK 3 : READ,RICE,SIMONSON,WARREN REMARK 3 REMARK 3 REFINEMENT TARGET : ENGH & HUBER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.50 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 6.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 2.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : NULL REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 NUMBER OF REFLECTIONS : 29592 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 SET) : 0.221 REMARK 3 FREE R VALUE : 0.243 REMARK 3 FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 FREE R VALUE TEST SET COUNT : NULL REMARK 3 ESTIMATED ERROR OF FREE R VALUE : NULL REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : NULL REMARK 3 BIN RESOLUTION RANGE HIGH (A) : NULL REMARK 3 BIN RESOLUTION RANGE LOW (A) : NULL REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 REFLECTIONS IN BIN (WORKING SET) : NULL REMARK 3 BIN R VALUE (WORKING SET) : NULL REMARK 3 BIN FREE R VALUE : NULL REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 BIN FREE R VALUE TEST SET COUNT : NULL REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 7430 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 102 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 34.70 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM SIGMAA (A) : 0.10 REMARK 3 LOW RESOLUTION CUTOFF (A) : NULL REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM C-V SIGMAA (A) : NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : NULL REMARK 3 BOND ANGLES (DEGREES) : NULL REMARK 3 DIHEDRAL ANGLES (DEGREES) : NULL REMARK 3 IMPROPER ANGLES (DEGREES) : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : ISOTROPIC REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : NULL REMARK 3 KSOL : NULL REMARK 3 BSOL : NULL REMARK 3 REMARK 3 NCS MODEL : NULL REMARK 3 REMARK 3 NCS RESTRAINTS. RMS SIGMA/WEIGHT REMARK 3 GROUP 1 POSITIONAL (A) : NULL ; NULL REMARK 3 GROUP 1 B-FACTOR (A**2) : NULL ; NULL REMARK 3 REMARK 3 PARAMETER FILE 1 : NULL REMARK 3 TOPOLOGY FILE 1 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: REMARK 3 RESIDUE (O SER 230 ) AND RESIDUE (O VAL 238 ) ARE LINKED TOGETHER. REMARK 3 RESIDUE (X SER 230 ) AND RESIDUE (X VAL 238 ) ARE LINKED TOGETHE. REMARK 4 REMARK 4 1R59 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 14-OCT-03. REMARK 100 THE DEPOSITION ID IS D_1000020453. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL; NULL REMARK 200 TEMPERATURE (KELVIN) : 100; NULL REMARK 200 PH : 5.9 REMARK 200 NUMBER OF CRYSTALS USED : 3 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y; NULL REMARK 200 RADIATION SOURCE : NSLS; NULL REMARK 200 BEAMLINE : X8C; NULL REMARK 200 X-RAY GENERATOR MODEL : NULL; NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M; M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9788, 0.9791, 0.954, 1.0; NULL REMARK 200 MONOCHROMATOR : GRAPHITE; GRAPHITE REMARK 200 OPTICS : NULL; NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD; NULL REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 4; NULL REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 40746 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.500 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 1.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 95.3 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : 0.07200 REMARK 200 R SYM (I) : 0.04500 REMARK 200 FOR THE DATA SET : 9.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.50 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.61 REMARK 200 COMPLETENESS FOR SHELL (%) : 74.7 REMARK 200 DATA REDUNDANCY IN SHELL : 4.10 REMARK 200 R MERGE FOR SHELL (I) : 0.27000 REMARK 200 R SYM FOR SHELL (I) : 0.27000 REMARK 200 FOR SHELL : 5.400 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH; MAD REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MIR REMARK 200 SOFTWARE USED: SOLVE REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 62.50 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.28 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG400, POTASSIUM PHOSPHATE, 1,10 REMARK 280 -PHENANTHROLINE, PH 5.9, 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 33.91450 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 100.56000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 53.55500 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 100.56000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 33.91450 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 53.55500 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 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: DIMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: O, X 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 ALA O 2 REMARK 465 GLU O 3 REMARK 465 LYS O 4 REMARK 465 TYR O 231 REMARK 465 HIS O 232 REMARK 465 PHE O 233 REMARK 465 TYR O 234 REMARK 465 GLY O 235 REMARK 465 SER O 236 REMARK 465 GLU O 237 REMARK 465 ALA O 492 REMARK 465 ALA O 493 REMARK 465 THR O 494 REMARK 465 GLN O 495 REMARK 465 THR O 496 REMARK 465 PHE O 497 REMARK 465 LYS O 498 REMARK 465 PHE O 499 REMARK 465 LYS O 500 REMARK 465 ALA O 501 REMARK 465 LYS O 502 REMARK 465 LYS O 503 REMARK 465 GLU O 504 REMARK 465 GLY O 505 REMARK 465 GLU O 506 REMARK 465 ALA X 2 REMARK 465 GLU X 3 REMARK 465 LYS X 4 REMARK 465 TYR X 231 REMARK 465 HIS X 232 REMARK 465 PHE X 233 REMARK 465 TYR X 234 REMARK 465 GLY X 235 REMARK 465 SER X 236 REMARK 465 GLU X 237 REMARK 465 ALA X 492 REMARK 465 ALA X 493 REMARK 465 THR X 494 REMARK 465 GLN X 495 REMARK 465 THR X 496 REMARK 465 PHE X 497 REMARK 465 LYS X 498 REMARK 465 PHE X 499 REMARK 465 LYS X 500 REMARK 465 ALA X 501 REMARK 465 LYS X 502 REMARK 465 LYS X 503 REMARK 465 GLU X 504 REMARK 465 GLY X 505 REMARK 465 GLU X 506 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 ALA X 74 O ILE X 75 1.72 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 ARG O 229 C SER O 230 N 0.158 REMARK 500 SER O 230 N SER O 230 CA 0.165 REMARK 500 SER O 230 CA SER O 230 C 0.226 REMARK 500 SER O 230 C VAL O 238 N 0.235 REMARK 500 VAL O 238 N VAL O 238 CA 0.266 REMARK 500 GLY X 69 CA GLY X 69 C 0.102 REMARK 500 ILE X 70 N ILE X 70 CA 0.138 REMARK 500 PRO X 72 N PRO X 72 CA 0.124 REMARK 500 GLU X 154 C LYS X 155 N 0.298 REMARK 500 THR X 228 C ARG X 229 N -0.224 REMARK 500 SER X 230 CA SER X 230 C 0.181 REMARK 500 SER X 230 C VAL X 238 N 0.196 REMARK 500 VAL X 238 N VAL X 238 CA 0.218 REMARK 500 VAL X 238 CA VAL X 238 C 0.230 REMARK 500 VAL X 238 C PRO X 239 N 0.216 REMARK 500 PRO X 239 N PRO X 239 CA 0.134 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 PRO O 37 C - N - CD ANGL. DEV. = -14.3 DEGREES REMARK 500 PRO O 37 CA - N - CD ANGL. DEV. = -15.5 DEGREES REMARK 500 PRO O 41 C - N - CD ANGL. DEV. = -26.1 DEGREES REMARK 500 PRO O 41 CA - N - CD ANGL. DEV. = -21.5 DEGREES REMARK 500 PRO O 72 CA - N - CD ANGL. DEV. = -8.9 DEGREES REMARK 500 PRO O 97 C - N - CD ANGL. DEV. = -14.7 DEGREES REMARK 500 PRO O 97 CA - N - CD ANGL. DEV. = -24.3 DEGREES REMARK 500 PRO O 111 CA - N - CD ANGL. DEV. = -24.8 DEGREES REMARK 500 PRO O 211 C - N - CD ANGL. DEV. = -14.8 DEGREES REMARK 500 PRO O 211 CA - N - CD ANGL. DEV. = -26.0 DEGREES REMARK 500 PRO O 216 C - N - CD ANGL. DEV. = -18.3 DEGREES REMARK 500 PRO O 216 CA - N - CD ANGL. DEV. = -13.8 DEGREES REMARK 500 ARG O 229 CB - CA - C ANGL. DEV. = 14.7 DEGREES REMARK 500 SER O 230 C - N - CA ANGL. DEV. = 28.3 DEGREES REMARK 500 VAL O 238 C - N - CA ANGL. DEV. = 22.1 DEGREES REMARK 500 VAL O 238 CA - C - N ANGL. DEV. = 18.9 DEGREES REMARK 500 PRO O 239 CA - N - CD ANGL. DEV. = -30.7 DEGREES REMARK 500 PRO O 239 CB - CA - C ANGL. DEV. = -14.5 DEGREES REMARK 500 PRO O 280 C - N - CD ANGL. DEV. = -15.1 DEGREES REMARK 500 PRO O 280 CA - N - CD ANGL. DEV. = -19.4 DEGREES REMARK 500 SER O 306 N - CA - C ANGL. DEV. = 16.9 DEGREES REMARK 500 ILE O 307 N - CA - C ANGL. DEV. = 25.0 DEGREES REMARK 500 ILE O 307 CA - C - N ANGL. DEV. = -21.6 DEGREES REMARK 500 ILE O 307 O - C - N ANGL. DEV. = 10.5 DEGREES REMARK 500 PHE O 308 C - N - CA ANGL. DEV. = 22.1 DEGREES REMARK 500 PRO O 328 CA - N - CD ANGL. DEV. = -29.5 DEGREES REMARK 500 PRO O 328 N - CD - CG ANGL. DEV. = 9.8 DEGREES REMARK 500 PRO O 347 CA - N - CD ANGL. DEV. = -19.1 DEGREES REMARK 500 PRO O 355 CA - N - CD ANGL. DEV. = -27.7 DEGREES REMARK 500 TRP O 357 CA - C - N ANGL. DEV. = -13.8 DEGREES REMARK 500 PRO O 405 C - N - CD ANGL. DEV. = -19.9 DEGREES REMARK 500 PRO O 405 CA - N - CD ANGL. DEV. = -15.8 DEGREES REMARK 500 PRO O 473 CA - N - CD ANGL. DEV. = -19.1 DEGREES REMARK 500 PRO O 476 C - N - CD ANGL. DEV. = -17.2 DEGREES REMARK 500 PRO O 476 CA - N - CD ANGL. DEV. = -21.0 DEGREES REMARK 500 ALA X 9 C - N - CA ANGL. DEV. = -17.1 DEGREES REMARK 500 ILE X 10 C - N - CA ANGL. DEV. = 15.5 DEGREES REMARK 500 ASN X 25 CA - CB - CG ANGL. DEV. = -13.5 DEGREES REMARK 500 ASN X 25 N - CA - C ANGL. DEV. = 25.2 DEGREES REMARK 500 ASN X 25 CA - C - N ANGL. DEV. = -19.9 DEGREES REMARK 500 ASN X 25 O - C - N ANGL. DEV. = 10.4 DEGREES REMARK 500 GLY X 26 C - N - CA ANGL. DEV. = 14.5 DEGREES REMARK 500 SER X 32 N - CA - C ANGL. DEV. = 21.7 DEGREES REMARK 500 SER X 32 CA - C - N ANGL. DEV. = -15.6 DEGREES REMARK 500 GLN X 33 C - N - CA ANGL. DEV. = 16.5 DEGREES REMARK 500 GLN X 33 N - CA - C ANGL. DEV. = 18.4 DEGREES REMARK 500 PRO X 37 C - N - CD ANGL. DEV. = -16.5 DEGREES REMARK 500 PRO X 37 CA - N - CD ANGL. DEV. = -15.2 DEGREES REMARK 500 PRO X 41 C - N - CD ANGL. DEV. = -24.1 DEGREES REMARK 500 PRO X 41 CA - N - CD ANGL. DEV. = -12.9 DEGREES REMARK 500 REMARK 500 THIS ENTRY HAS 92 ANGLE DEVIATIONS. 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 ALA O 19 85.91 -158.77 REMARK 500 ASP O 23 -157.24 -85.06 REMARK 500 ASN O 25 93.49 71.26 REMARK 500 SER O 43 -49.57 -1.88 REMARK 500 ASN O 51 37.58 -69.38 REMARK 500 GLU O 52 45.10 -174.53 REMARK 500 TRP O 54 -71.71 -87.13 REMARK 500 ASN O 55 -40.03 -28.34 REMARK 500 SER O 56 27.71 -67.76 REMARK 500 VAL O 57 -49.69 -132.50 REMARK 500 SER O 68 -35.40 -133.47 REMARK 500 PRO O 72 -14.21 -39.30 REMARK 500 GLU O 85 -15.47 65.09 REMARK 500 LYS O 92 -38.65 83.64 REMARK 500 THR O 94 -127.60 -153.86 REMARK 500 ALA O 99 -96.82 -161.53 REMARK 500 ASN O 100 166.08 171.54 REMARK 500 TRP O 104 7.33 -63.37 REMARK 500 LEU O 131 -154.55 -96.79 REMARK 500 TRP O 144 32.53 -76.29 REMARK 500 LEU O 145 -58.33 -120.85 REMARK 500 ALA O 152 -31.87 85.09 REMARK 500 GLU O 160 -70.10 -92.57 REMARK 500 THR O 165 -164.96 -72.11 REMARK 500 LEU O 174 18.33 -65.46 REMARK 500 ASP O 176 51.86 -69.92 REMARK 500 GLN O 178 -85.87 -87.67 REMARK 500 MET O 214 -93.60 -87.93 REMARK 500 LEU O 215 130.70 -21.18 REMARK 500 LYS O 219 -165.30 -109.19 REMARK 500 ARG O 229 38.89 -80.88 REMARK 500 SER O 230 -91.02 -116.02 REMARK 500 VAL O 238 -132.11 -175.61 REMARK 500 ALA O 244 173.97 174.62 REMARK 500 ALA O 256 -86.96 -88.55 REMARK 500 PHE O 257 109.95 6.40 REMARK 500 GLU O 258 152.34 148.86 REMARK 500 TYR O 266 63.68 -107.92 REMARK 500 ASN O 296 -67.27 -94.55 REMARK 500 SER O 306 -85.15 -137.20 REMARK 500 PHE O 308 -65.83 -10.75 REMARK 500 ALA O 310 -56.75 -153.17 REMARK 500 GLU O 325 -39.24 67.15 REMARK 500 LYS O 338 -27.55 67.05 REMARK 500 PRO O 347 43.33 -63.41 REMARK 500 ALA O 348 45.10 -91.66 REMARK 500 ALA O 354 -147.40 66.89 REMARK 500 TRP O 357 121.52 -9.69 REMARK 500 ASP O 358 -149.60 -122.79 REMARK 500 SER O 359 -12.51 -149.64 REMARK 500 REMARK 500 THIS ENTRY HAS 153 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 TYR X 266 0.07 SIDE CHAIN REMARK 500 TYR X 446 0.07 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: MAIN CHAIN PLANARITY REMARK 500 REMARK 500 THE FOLLOWING RESIDUES HAVE A PSEUDO PLANARITY REMARK 500 TORSION ANGLE, C(I) - CA(I) - N(I+1) - O(I), GREATER REMARK 500 10.0 DEGREES. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 500 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 500 I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI ANGLE REMARK 500 GLU X 154 -17.06 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1R5F RELATED DB: PDB REMARK 900 ENTEROCOCCUS CASSELIFLAVUS GLYCEROL KINASE COMPLEXED WITH GLYCEROL DBREF 1R59 O 2 506 UNP O34153 GLPK_ENTCA 1 505 DBREF 1R59 X 2 506 UNP O34153 GLPK_ENTCA 1 505 SEQRES 1 O 505 ALA GLU LYS ASN TYR VAL MET ALA ILE ASP GLN GLY THR SEQRES 2 O 505 THR SER SER ARG ALA ILE ILE PHE ASP ARG ASN GLY LYS SEQRES 3 O 505 LYS ILE GLY SER SER GLN LYS GLU PHE PRO GLN TYR PHE SEQRES 4 O 505 PRO LYS SER GLY TRP VAL GLU HIS ASN ALA ASN GLU ILE SEQRES 5 O 505 TRP ASN SER VAL GLN SER VAL ILE ALA GLY ALA PHE ILE SEQRES 6 O 505 GLU SER GLY ILE ARG PRO GLU ALA ILE ALA GLY ILE GLY SEQRES 7 O 505 ILE THR ASN GLN ARG GLU THR THR VAL VAL TRP ASP LYS SEQRES 8 O 505 THR THR GLY GLN PRO ILE ALA ASN ALA ILE VAL TRP GLN SEQRES 9 O 505 SER ARG GLN SER SER PRO ILE ALA ASP GLN LEU LYS VAL SEQRES 10 O 505 ASP GLY HIS THR GLU MET ILE HIS GLU LYS THR GLY LEU SEQRES 11 O 505 VAL ILE ASP ALA TYR PHE SER ALA THR LYS VAL ARG TRP SEQRES 12 O 505 LEU LEU ASP ASN ILE GLU GLY ALA GLN GLU LYS ALA ASP SEQRES 13 O 505 ASN GLY GLU LEU LEU PHE GLY THR ILE ASP SER TRP LEU SEQRES 14 O 505 VAL TRP LYS LEU THR ASP GLY GLN VAL HIS VAL THR ASP SEQRES 15 O 505 TYR SER ASN ALA SER ARG THR MET LEU TYR ASN ILE HIS SEQRES 16 O 505 LYS LEU GLU TRP ASP GLN GLU ILE LEU ASP LEU LEU ASN SEQRES 17 O 505 ILE PRO SER SER MET LEU PRO GLU VAL LYS SER ASN SER SEQRES 18 O 505 GLU VAL TYR GLY HIS THR ARG SER TYR HIS PHE TYR GLY SEQRES 19 O 505 SER GLU VAL PRO ILE ALA GLY MET ALA GLY ASP GLN GLN SEQRES 20 O 505 ALA ALA LEU PHE GLY GLN MET ALA PHE GLU LYS GLY MET SEQRES 21 O 505 ILE LYS ASN THR TYR GLY THR GLY ALA PHE ILE VAL MET SEQRES 22 O 505 ASN THR GLY GLU GLU PRO GLN LEU SER ASP ASN ASP LEU SEQRES 23 O 505 LEU THR THR ILE GLY TYR GLY ILE ASN GLY LYS VAL TYR SEQRES 24 O 505 TYR ALA LEU GLU GLY SER ILE PHE VAL ALA GLY SER ALA SEQRES 25 O 505 ILE GLN TRP LEU ARG ASP GLY LEU ARG MET ILE GLU THR SEQRES 26 O 505 SER PRO GLN SER GLU GLU LEU ALA ALA LYS ALA LYS GLY SEQRES 27 O 505 ASP ASN GLU VAL TYR VAL VAL PRO ALA PHE THR GLY LEU SEQRES 28 O 505 GLY ALA PRO TYR TRP ASP SER GLU ALA ARG GLY ALA VAL SEQRES 29 O 505 PHE GLY LEU THR ARG GLY THR THR LYS GLU ASP PHE VAL SEQRES 30 O 505 ARG ALA THR LEU GLN ALA VAL ALA TYR GLN SER LYS ASP SEQRES 31 O 505 VAL ILE ASP THR MET LYS LYS ASP SER GLY ILE ASP ILE SEQRES 32 O 505 PRO LEU LEU LYS VAL ASP GLY GLY ALA ALA LYS ASN ASP SEQRES 33 O 505 LEU LEU MET GLN PHE GLN ALA ASP ILE LEU ASP ILE ASP SEQRES 34 O 505 VAL GLN ARG ALA ALA ASN LEU GLU THR THR ALA LEU GLY SEQRES 35 O 505 ALA ALA TYR LEU ALA GLY LEU ALA VAL GLY PHE TRP LYS SEQRES 36 O 505 ASP LEU ASP GLU LEU LYS SER MET ALA GLU GLU GLY GLN SEQRES 37 O 505 MET PHE THR PRO GLU MET PRO ALA GLU GLU ARG ASP ASN SEQRES 38 O 505 LEU TYR GLU GLY TRP LYS GLN ALA VAL ALA ALA THR GLN SEQRES 39 O 505 THR PHE LYS PHE LYS ALA LYS LYS GLU GLY GLU SEQRES 1 X 505 ALA GLU LYS ASN TYR VAL MET ALA ILE ASP GLN GLY THR SEQRES 2 X 505 THR SER SER ARG ALA ILE ILE PHE ASP ARG ASN GLY LYS SEQRES 3 X 505 LYS ILE GLY SER SER GLN LYS GLU PHE PRO GLN TYR PHE SEQRES 4 X 505 PRO LYS SER GLY TRP VAL GLU HIS ASN ALA ASN GLU ILE SEQRES 5 X 505 TRP ASN SER VAL GLN SER VAL ILE ALA GLY ALA PHE ILE SEQRES 6 X 505 GLU SER GLY ILE ARG PRO GLU ALA ILE ALA GLY ILE GLY SEQRES 7 X 505 ILE THR ASN GLN ARG GLU THR THR VAL VAL TRP ASP LYS SEQRES 8 X 505 THR THR GLY GLN PRO ILE ALA ASN ALA ILE VAL TRP GLN SEQRES 9 X 505 SER ARG GLN SER SER PRO ILE ALA ASP GLN LEU LYS VAL SEQRES 10 X 505 ASP GLY HIS THR GLU MET ILE HIS GLU LYS THR GLY LEU SEQRES 11 X 505 VAL ILE ASP ALA TYR PHE SER ALA THR LYS VAL ARG TRP SEQRES 12 X 505 LEU LEU ASP ASN ILE GLU GLY ALA GLN GLU LYS ALA ASP SEQRES 13 X 505 ASN GLY GLU LEU LEU PHE GLY THR ILE ASP SER TRP LEU SEQRES 14 X 505 VAL TRP LYS LEU THR ASP GLY GLN VAL HIS VAL THR ASP SEQRES 15 X 505 TYR SER ASN ALA SER ARG THR MET LEU TYR ASN ILE HIS SEQRES 16 X 505 LYS LEU GLU TRP ASP GLN GLU ILE LEU ASP LEU LEU ASN SEQRES 17 X 505 ILE PRO SER SER MET LEU PRO GLU VAL LYS SER ASN SER SEQRES 18 X 505 GLU VAL TYR GLY HIS THR ARG SER TYR HIS PHE TYR GLY SEQRES 19 X 505 SER GLU VAL PRO ILE ALA GLY MET ALA GLY ASP GLN GLN SEQRES 20 X 505 ALA ALA LEU PHE GLY GLN MET ALA PHE GLU LYS GLY MET SEQRES 21 X 505 ILE LYS ASN THR TYR GLY THR GLY ALA PHE ILE VAL MET SEQRES 22 X 505 ASN THR GLY GLU GLU PRO GLN LEU SER ASP ASN ASP LEU SEQRES 23 X 505 LEU THR THR ILE GLY TYR GLY ILE ASN GLY LYS VAL TYR SEQRES 24 X 505 TYR ALA LEU GLU GLY SER ILE PHE VAL ALA GLY SER ALA SEQRES 25 X 505 ILE GLN TRP LEU ARG ASP GLY LEU ARG MET ILE GLU THR SEQRES 26 X 505 SER PRO GLN SER GLU GLU LEU ALA ALA LYS ALA LYS GLY SEQRES 27 X 505 ASP ASN GLU VAL TYR VAL VAL PRO ALA PHE THR GLY LEU SEQRES 28 X 505 GLY ALA PRO TYR TRP ASP SER GLU ALA ARG GLY ALA VAL SEQRES 29 X 505 PHE GLY LEU THR ARG GLY THR THR LYS GLU ASP PHE VAL SEQRES 30 X 505 ARG ALA THR LEU GLN ALA VAL ALA TYR GLN SER LYS ASP SEQRES 31 X 505 VAL ILE ASP THR MET LYS LYS ASP SER GLY ILE ASP ILE SEQRES 32 X 505 PRO LEU LEU LYS VAL ASP GLY GLY ALA ALA LYS ASN ASP SEQRES 33 X 505 LEU LEU MET GLN PHE GLN ALA ASP ILE LEU ASP ILE ASP SEQRES 34 X 505 VAL GLN ARG ALA ALA ASN LEU GLU THR THR ALA LEU GLY SEQRES 35 X 505 ALA ALA TYR LEU ALA GLY LEU ALA VAL GLY PHE TRP LYS SEQRES 36 X 505 ASP LEU ASP GLU LEU LYS SER MET ALA GLU GLU GLY GLN SEQRES 37 X 505 MET PHE THR PRO GLU MET PRO ALA GLU GLU ARG ASP ASN SEQRES 38 X 505 LEU TYR GLU GLY TRP LYS GLN ALA VAL ALA ALA THR GLN SEQRES 39 X 505 THR PHE LYS PHE LYS ALA LYS LYS GLU GLY GLU FORMUL 3 HOH *102(H2 O) HELIX 1 1 ASN O 49 ILE O 53 5 5 HELIX 2 2 ILE O 61 ILE O 66 1 6 HELIX 3 3 SER O 110 GLY O 120 1 11 HELIX 4 4 HIS O 121 HIS O 126 1 6 HELIX 5 5 PHE O 137 VAL O 142 1 6 HELIX 6 6 VAL O 142 ASP O 147 1 6 HELIX 7 7 THR O 165 LYS O 173 1 9 HELIX 8 8 ASP O 183 SER O 188 1 6 HELIX 9 9 ASP O 201 ASP O 206 1 6 HELIX 10 10 ALA O 249 GLN O 254 1 6 HELIX 11 11 GLY O 311 LEU O 317 1 7 HELIX 12 12 THR O 326 GLU O 331 5 6 HELIX 13 13 THR O 373 GLY O 401 1 29 HELIX 14 14 ASN O 416 ASP O 428 1 13 HELIX 15 15 ALA O 441 GLY O 453 1 13 HELIX 16 16 LEU O 461 ALA O 465 5 5 HELIX 17 17 GLU O 479 GLU O 485 1 7 HELIX 18 18 ALA X 50 PHE X 65 1 16 HELIX 19 19 ASP X 114 GLY X 120 1 7 HELIX 20 20 HIS X 121 HIS X 126 1 6 HELIX 21 21 SER X 138 ILE X 149 1 12 HELIX 22 22 ILE X 166 LYS X 173 1 8 HELIX 23 23 ASN X 186 THR X 190 5 5 HELIX 24 24 ASP X 201 LEU X 208 1 8 HELIX 25 25 ASP X 376 THR X 381 1 6 HELIX 26 26 TYR X 387 ASP X 394 1 8 HELIX 27 27 GLY X 411 LYS X 415 5 5 HELIX 28 28 LEU X 418 PHE X 422 5 5 HELIX 29 29 TYR X 446 LEU X 450 5 5 HELIX 30 30 ASP X 481 GLY X 486 1 6 HELIX 31 31 TRP X 487 ALA X 490 5 4 SHEET 1 A 4 ILE O 21 PHE O 22 0 SHEET 2 A 4 TYR O 6 ILE O 10 -1 N VAL O 7 O PHE O 22 SHEET 3 A 4 ILE O 75 ILE O 80 1 O ALA O 76 N TYR O 6 SHEET 4 A 4 ILE O 240 MET O 243 1 O GLY O 242 N ILE O 80 SHEET 1 B 2 VAL O 181 THR O 182 0 SHEET 2 B 2 GLU O 217 VAL O 218 1 O GLU O 217 N THR O 182 SHEET 1 C 5 ALA O 270 PHE O 271 0 SHEET 2 C 5 THR O 265 TYR O 266 -1 N THR O 265 O PHE O 271 SHEET 3 C 5 LEU O 406 GLY O 411 1 O ASP O 410 N TYR O 266 SHEET 4 C 5 ASP O 430 ALA O 434 1 O GLN O 432 N VAL O 409 SHEET 5 C 5 GLU O 467 PHE O 471 -1 O PHE O 471 N VAL O 431 SHEET 1 D 3 VAL O 273 ASN O 275 0 SHEET 2 D 3 TYR O 301 GLU O 304 -1 O LEU O 303 N MET O 274 SHEET 3 D 3 LEU O 288 ILE O 291 -1 N THR O 290 O ALA O 302 SHEET 1 E 2 TYR O 344 VAL O 346 0 SHEET 2 E 2 ALA O 364 PHE O 366 -1 O PHE O 366 N TYR O 344 SHEET 1 F 2 GLU X 47 HIS X 48 0 SHEET 2 F 2 ALA X 101 ILE X 102 -1 O ALA X 101 N HIS X 48 SHEET 1 G 2 TRP X 90 ASP X 91 0 SHEET 2 G 2 LEU X 161 LEU X 162 -1 O LEU X 162 N TRP X 90 SHEET 1 H 2 VAL X 181 THR X 182 0 SHEET 2 H 2 GLU X 217 VAL X 218 1 O GLU X 217 N THR X 182 SHEET 1 I 4 MET X 261 ILE X 262 0 SHEET 2 I 4 VAL X 273 ASN X 275 -1 O ASN X 275 N MET X 261 SHEET 3 I 4 ALA X 302 GLU X 304 -1 N LEU X 303 O MET X 274 SHEET 4 I 4 LEU X 288 THR X 290 -1 N THR X 290 O ALA X 302 SHEET 1 J 2 ASN X 264 THR X 265 0 SHEET 2 J 2 VAL X 409 ASP X 410 1 O ASP X 410 N ASN X 264 CRYST1 67.829 107.110 201.120 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 0.014743 0.000000 0.000000 0.00000 SCALE2 0.000000 0.009336 0.000000 0.00000 SCALE3 0.000000 0.000000 0.004972 0.00000