PDB Short entry for 3H46 HEADER TRANSFERASE 17-APR-09 3H46 TITLE GLYCEROL KINASE H232E WITH GLYCEROL COMPND MOL_ID: 1; COMPND 2 MOLECULE: GLYCEROL KINASE; COMPND 3 CHAIN: X, O; COMPND 4 SYNONYM: ATP:GLYCEROL 3-PHOSPHOTRANSFERASE, GLYCEROKINASE, GK; COMPND 5 EC: 2.7.1.30; COMPND 6 ENGINEERED: YES; COMPND 7 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ENTEROCOCCUS CASSELIFLAVUS; SOURCE 3 ORGANISM_COMMON: ENTEROCOCCUS FLAVESCENS; SOURCE 4 ORGANISM_TAXID: 37734; SOURCE 5 GENE: GLPK; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: JM109(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: POXO4 KEYWDS GLYCEROL, KINASE, ATP-BINDING, GLYCEROL METABOLISM, NUCLEOTIDE- KEYWDS 2 BINDING, PHOSPHOPROTEIN, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR J.I.YEH,R.D.KETTERING REVDAT 5 01-NOV-23 3H46 1 REMARK REVDAT 4 10-NOV-21 3H46 1 REMARK SEQADV REVDAT 3 01-NOV-17 3H46 1 REMARK REVDAT 2 13-JUL-11 3H46 1 VERSN REVDAT 1 02-JUN-09 3H46 0 JRNL AUTH J.I.YEH,R.KETTERING,R.SAXL,A.BOURAND,E.DARBON,N.JOLY, JRNL AUTH 2 P.BRIOZZO,J.DEUTSCHER JRNL TITL STRUCTURAL CHARACTERIZATIONS OF GLYCEROL KINASE: UNRAVELING JRNL TITL 2 PHOSPHORYLATION-INDUCED LONG-RANGE ACTIVATION JRNL REF BIOCHEMISTRY V. 48 346 2009 JRNL REFN ISSN 0006-2960 JRNL PMID 19102629 JRNL DOI 10.1021/BI8009407 REMARK 2 REMARK 2 RESOLUTION. 1.75 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 : MAXIMUM LIKELIHOOD WITH PHASES REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.75 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 10.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 3.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : NULL REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 72.0 REMARK 3 NUMBER OF REFLECTIONS : 75732 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) : 0.194 REMARK 3 FREE R VALUE : 0.228 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 4004 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 : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 1.75 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.80 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 15.33 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 1155 REMARK 3 BIN R VALUE (WORKING SET) : 0.2280 REMARK 3 BIN FREE R VALUE : 0.2630 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 BIN FREE R VALUE TEST SET COUNT : 54 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 : 7758 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 30 REMARK 3 SOLVENT ATOMS : 193 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 25.63 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) : NULL 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 : NULL 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: NULL REMARK 4 REMARK 4 3H46 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 01-MAY-09. REMARK 100 THE DEPOSITION ID IS D_1000052669. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 16-APR-07 REMARK 200 TEMPERATURE (KELVIN) : 93 REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SLS REMARK 200 BEAMLINE : X10SA REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.98 REMARK 200 MONOCHROMATOR : SI(111) REMARK 200 OPTICS : MIRROR REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 225 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 100197 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.750 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.6 REMARK 200 DATA REDUNDANCY : 6.900 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.09600 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 8.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.75 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.86 REMARK 200 COMPLETENESS FOR SHELL (%) : 81.4 REMARK 200 DATA REDUNDANCY IN SHELL : 5.10 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.50900 REMARK 200 <I/SIGMA(I)> FOR SHELL : 2.500 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: PDB ENTRY 1XUP REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 49.90 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.46 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: HEPES, PEG 550 MME, ZNSO4, PH 6.5, REMARK 280 VAPOR DIFFUSION, TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z REMARK 290 3555 -X+1/2,Y+1/2,-Z 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 0.00000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 48.33850 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 99.77400 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 48.33850 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 99.77400 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PQS REMARK 350 APPLY THE FOLLOWING TO CHAINS: X, O 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: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 12640 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 67320 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -97.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: X, O 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 BIOMT1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 0.00000 REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 MET X 1 REMARK 465 ALA X 2 REMARK 465 LYS X 503 REMARK 465 GLU X 504 REMARK 465 GLY X 505 REMARK 465 GLU X 506 REMARK 465 MET O 1 REMARK 465 ALA O 2 REMARK 465 LYS O 503 REMARK 465 GLU O 504 REMARK 465 GLY O 505 REMARK 465 GLU O 506 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 GLU X 3 CG CD OE1 OE2 REMARK 470 GLU O 3 CG CD OE1 OE2 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 ASP X 284 CB ASP X 284 CG 0.135 REMARK 500 ASP X 457 CG ASP X 457 OD2 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 ARG X 189 NE - CZ - NH2 ANGL. DEV. = -4.5 DEGREES REMARK 500 ASP X 284 CB - CG - OD2 ANGL. DEV. = 12.3 DEGREES REMARK 500 ASP X 457 CB - CG - OD1 ANGL. DEV. = -14.3 DEGREES REMARK 500 ASP X 457 CB - CG - OD2 ANGL. DEV. = 12.2 DEGREES REMARK 500 ARG O 322 NE - CZ - NH2 ANGL. DEV. = -3.4 DEGREES REMARK 500 ASP O 457 CB - CG - OD1 ANGL. DEV. = -7.4 DEGREES REMARK 500 ASP O 457 CB - CG - OD2 ANGL. DEV. = 8.3 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 GLU X 85 -36.34 68.53 REMARK 500 ARG X 229 -81.85 -96.92 REMARK 500 SER X 230 89.58 35.05 REMARK 500 PHE X 233 35.59 -60.60 REMARK 500 TYR X 234 -125.14 42.36 REMARK 500 SER X 236 93.91 78.54 REMARK 500 PRO X 280 172.14 -46.58 REMARK 500 LEU X 282 -73.89 -56.74 REMARK 500 TYR X 293 149.14 -173.72 REMARK 500 ALA X 310 -92.43 -125.92 REMARK 500 ASN X 416 99.63 -69.28 REMARK 500 GLU X 474 23.06 -143.52 REMARK 500 LYS O 4 -108.38 -138.91 REMARK 500 GLU O 85 -39.23 64.88 REMARK 500 ASP O 176 48.74 38.54 REMARK 500 ARG O 229 -80.94 -104.15 REMARK 500 SER O 230 96.95 31.25 REMARK 500 TYR O 231 32.28 -83.23 REMARK 500 PHE O 233 21.58 -61.15 REMARK 500 TYR O 234 -145.11 69.26 REMARK 500 PRO O 280 -115.71 -39.30 REMARK 500 ALA O 310 -88.82 -134.19 REMARK 500 ASN O 341 39.72 74.68 REMARK 500 GLU O 474 13.75 -141.48 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 SO4 X 507 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL X 1001 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO X 3122 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 O 507 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL O 1000 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO O 3123 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3H3N RELATED DB: PDB REMARK 900 RELATED ID: 3H3O RELATED DB: PDB REMARK 900 RELATED ID: 3H45 RELATED DB: PDB DBREF 3H46 X 1 506 UNP O34153 GLPK_ENTCA 1 506 DBREF 3H46 O 1 506 UNP O34153 GLPK_ENTCA 1 506 SEQADV 3H46 GLU X 232 UNP O34153 HIS 232 ENGINEERED MUTATION SEQADV 3H46 GLU O 232 UNP O34153 HIS 232 ENGINEERED MUTATION SEQRES 1 X 506 MET ALA GLU LYS ASN TYR VAL MET ALA ILE ASP GLN GLY SEQRES 2 X 506 THR THR SER SER ARG ALA ILE ILE PHE ASP ARG ASN GLY SEQRES 3 X 506 LYS LYS ILE GLY SER SER GLN LYS GLU PHE PRO GLN TYR SEQRES 4 X 506 PHE PRO LYS SER GLY TRP VAL GLU HIS ASN ALA ASN GLU SEQRES 5 X 506 ILE TRP ASN SER VAL GLN SER VAL ILE ALA GLY ALA PHE SEQRES 6 X 506 ILE GLU SER GLY ILE ARG PRO GLU ALA ILE ALA GLY ILE SEQRES 7 X 506 GLY ILE THR ASN GLN ARG GLU THR THR VAL VAL TRP ASP SEQRES 8 X 506 LYS THR THR GLY GLN PRO ILE ALA ASN ALA ILE VAL TRP SEQRES 9 X 506 GLN SER ARG GLN SER SER PRO ILE ALA ASP GLN LEU LYS SEQRES 10 X 506 VAL ASP GLY HIS THR GLU MET ILE HIS GLU LYS THR GLY SEQRES 11 X 506 LEU VAL ILE ASP ALA TYR PHE SER ALA THR LYS VAL ARG SEQRES 12 X 506 TRP LEU LEU ASP ASN ILE GLU GLY ALA GLN GLU LYS ALA SEQRES 13 X 506 ASP ASN GLY GLU LEU LEU PHE GLY THR ILE ASP SER TRP SEQRES 14 X 506 LEU VAL TRP LYS LEU THR ASP GLY GLN VAL HIS VAL THR SEQRES 15 X 506 ASP TYR SER ASN ALA SER ARG THR MET LEU TYR ASN ILE SEQRES 16 X 506 HIS LYS LEU GLU TRP ASP GLN GLU ILE LEU ASP LEU LEU SEQRES 17 X 506 ASN ILE PRO SER SER MET LEU PRO GLU VAL LYS SER ASN SEQRES 18 X 506 SER GLU VAL TYR GLY HIS THR ARG SER TYR GLU PHE TYR SEQRES 19 X 506 GLY SER GLU VAL PRO ILE ALA GLY MET ALA GLY ASP GLN SEQRES 20 X 506 GLN ALA ALA LEU PHE GLY GLN MET ALA PHE GLU LYS GLY SEQRES 21 X 506 MET ILE LYS ASN THR TYR GLY THR GLY ALA PHE ILE VAL SEQRES 22 X 506 MET ASN THR GLY GLU GLU PRO GLN LEU SER ASP ASN ASP SEQRES 23 X 506 LEU LEU THR THR ILE GLY TYR GLY ILE ASN GLY LYS VAL SEQRES 24 X 506 TYR TYR ALA LEU GLU GLY SER ILE PHE VAL ALA GLY SER SEQRES 25 X 506 ALA ILE GLN TRP LEU ARG ASP GLY LEU ARG MET ILE GLU SEQRES 26 X 506 THR SER PRO GLN SER GLU GLU LEU ALA ALA LYS ALA LYS SEQRES 27 X 506 GLY ASP ASN GLU VAL TYR VAL VAL PRO ALA PHE THR GLY SEQRES 28 X 506 LEU GLY ALA PRO TYR TRP ASP SER GLU ALA ARG GLY ALA SEQRES 29 X 506 VAL PHE GLY LEU THR ARG GLY THR THR LYS GLU ASP PHE SEQRES 30 X 506 VAL ARG ALA THR LEU GLN ALA VAL ALA TYR GLN SER LYS SEQRES 31 X 506 ASP VAL ILE ASP THR MET LYS LYS ASP SER GLY ILE ASP SEQRES 32 X 506 ILE PRO LEU LEU LYS VAL ASP GLY GLY ALA ALA LYS ASN SEQRES 33 X 506 ASP LEU LEU MET GLN PHE GLN ALA ASP ILE LEU ASP ILE SEQRES 34 X 506 ASP VAL GLN ARG ALA ALA ASN LEU GLU THR THR ALA LEU SEQRES 35 X 506 GLY ALA ALA TYR LEU ALA GLY LEU ALA VAL GLY PHE TRP SEQRES 36 X 506 LYS ASP LEU ASP GLU LEU LYS SER MET ALA GLU GLU GLY SEQRES 37 X 506 GLN MET PHE THR PRO GLU MET PRO ALA GLU GLU ARG ASP SEQRES 38 X 506 ASN LEU TYR GLU GLY TRP LYS GLN ALA VAL ALA ALA THR SEQRES 39 X 506 GLN THR PHE LYS PHE LYS ALA LYS LYS GLU GLY GLU SEQRES 1 O 506 MET ALA GLU LYS ASN TYR VAL MET ALA ILE ASP GLN GLY SEQRES 2 O 506 THR THR SER SER ARG ALA ILE ILE PHE ASP ARG ASN GLY SEQRES 3 O 506 LYS LYS ILE GLY SER SER GLN LYS GLU PHE PRO GLN TYR SEQRES 4 O 506 PHE PRO LYS SER GLY TRP VAL GLU HIS ASN ALA ASN GLU SEQRES 5 O 506 ILE TRP ASN SER VAL GLN SER VAL ILE ALA GLY ALA PHE SEQRES 6 O 506 ILE GLU SER GLY ILE ARG PRO GLU ALA ILE ALA GLY ILE SEQRES 7 O 506 GLY ILE THR ASN GLN ARG GLU THR THR VAL VAL TRP ASP SEQRES 8 O 506 LYS THR THR GLY GLN PRO ILE ALA ASN ALA ILE VAL TRP SEQRES 9 O 506 GLN SER ARG GLN SER SER PRO ILE ALA ASP GLN LEU LYS SEQRES 10 O 506 VAL ASP GLY HIS THR GLU MET ILE HIS GLU LYS THR GLY SEQRES 11 O 506 LEU VAL ILE ASP ALA TYR PHE SER ALA THR LYS VAL ARG SEQRES 12 O 506 TRP LEU LEU ASP ASN ILE GLU GLY ALA GLN GLU LYS ALA SEQRES 13 O 506 ASP ASN GLY GLU LEU LEU PHE GLY THR ILE ASP SER TRP SEQRES 14 O 506 LEU VAL TRP LYS LEU THR ASP GLY GLN VAL HIS VAL THR SEQRES 15 O 506 ASP TYR SER ASN ALA SER ARG THR MET LEU TYR ASN ILE SEQRES 16 O 506 HIS LYS LEU GLU TRP ASP GLN GLU ILE LEU ASP LEU LEU SEQRES 17 O 506 ASN ILE PRO SER SER MET LEU PRO GLU VAL LYS SER ASN SEQRES 18 O 506 SER GLU VAL TYR GLY HIS THR ARG SER TYR GLU PHE TYR SEQRES 19 O 506 GLY SER GLU VAL PRO ILE ALA GLY MET ALA GLY ASP GLN SEQRES 20 O 506 GLN ALA ALA LEU PHE GLY GLN MET ALA PHE GLU LYS GLY SEQRES 21 O 506 MET ILE LYS ASN THR TYR GLY THR GLY ALA PHE ILE VAL SEQRES 22 O 506 MET ASN THR GLY GLU GLU PRO GLN LEU SER ASP ASN ASP SEQRES 23 O 506 LEU LEU THR THR ILE GLY TYR GLY ILE ASN GLY LYS VAL SEQRES 24 O 506 TYR TYR ALA LEU GLU GLY SER ILE PHE VAL ALA GLY SER SEQRES 25 O 506 ALA ILE GLN TRP LEU ARG ASP GLY LEU ARG MET ILE GLU SEQRES 26 O 506 THR SER PRO GLN SER GLU GLU LEU ALA ALA LYS ALA LYS SEQRES 27 O 506 GLY ASP ASN GLU VAL TYR VAL VAL PRO ALA PHE THR GLY SEQRES 28 O 506 LEU GLY ALA PRO TYR TRP ASP SER GLU ALA ARG GLY ALA SEQRES 29 O 506 VAL PHE GLY LEU THR ARG GLY THR THR LYS GLU ASP PHE SEQRES 30 O 506 VAL ARG ALA THR LEU GLN ALA VAL ALA TYR GLN SER LYS SEQRES 31 O 506 ASP VAL ILE ASP THR MET LYS LYS ASP SER GLY ILE ASP SEQRES 32 O 506 ILE PRO LEU LEU LYS VAL ASP GLY GLY ALA ALA LYS ASN SEQRES 33 O 506 ASP LEU LEU MET GLN PHE GLN ALA ASP ILE LEU ASP ILE SEQRES 34 O 506 ASP VAL GLN ARG ALA ALA ASN LEU GLU THR THR ALA LEU SEQRES 35 O 506 GLY ALA ALA TYR LEU ALA GLY LEU ALA VAL GLY PHE TRP SEQRES 36 O 506 LYS ASP LEU ASP GLU LEU LYS SER MET ALA GLU GLU GLY SEQRES 37 O 506 GLN MET PHE THR PRO GLU MET PRO ALA GLU GLU ARG ASP SEQRES 38 O 506 ASN LEU TYR GLU GLY TRP LYS GLN ALA VAL ALA ALA THR SEQRES 39 O 506 GLN THR PHE LYS PHE LYS ALA LYS LYS GLU GLY GLU HET SO4 X 507 5 HET GOL X1001 6 HET EDO X3122 4 HET SO4 O 507 5 HET GOL O1000 6 HET EDO O3123 4 HETNAM SO4 SULFATE ION HETNAM GOL GLYCEROL HETNAM EDO 1,2-ETHANEDIOL HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL HETSYN EDO ETHYLENE GLYCOL FORMUL 3 SO4 2(O4 S 2-) FORMUL 4 GOL 2(C3 H8 O3) FORMUL 5 EDO 2(C2 H6 O2) FORMUL 9 HOH *193(H2 O) HELIX 1 1 ASN X 49 GLY X 69 1 21 HELIX 2 2 ARG X 71 GLU X 73 5 3 HELIX 3 3 SER X 109 ASP X 119 1 11 HELIX 4 4 HIS X 121 GLY X 130 1 10 HELIX 5 5 PHE X 137 ILE X 149 1 13 HELIX 6 6 GLY X 151 ASN X 158 1 8 HELIX 7 7 ILE X 166 THR X 175 1 10 HELIX 8 8 TYR X 184 ARG X 189 1 6 HELIX 9 9 ASP X 201 LEU X 208 1 8 HELIX 10 10 PRO X 211 LEU X 215 5 5 HELIX 11 11 ASP X 246 GLN X 254 1 9 HELIX 12 12 ALA X 310 GLY X 320 1 11 HELIX 13 13 PRO X 328 LYS X 336 1 9 HELIX 14 14 THR X 373 GLY X 401 1 29 HELIX 15 15 GLY X 411 LYS X 415 5 5 HELIX 16 16 ASN X 416 ASP X 428 1 13 HELIX 17 17 GLU X 438 VAL X 452 1 15 HELIX 18 18 ASP X 457 SER X 463 1 7 HELIX 19 19 PRO X 476 PHE X 497 1 22 HELIX 20 20 ASN O 49 GLY O 69 1 21 HELIX 21 21 ARG O 71 GLU O 73 5 3 HELIX 22 22 SER O 109 ASP O 119 1 11 HELIX 23 23 HIS O 121 GLY O 130 1 10 HELIX 24 24 PHE O 137 ILE O 149 1 13 HELIX 25 25 GLY O 151 ASN O 158 1 8 HELIX 26 26 ILE O 166 THR O 175 1 10 HELIX 27 27 TYR O 184 ARG O 189 1 6 HELIX 28 28 ASP O 201 LEU O 208 1 8 HELIX 29 29 PRO O 211 LEU O 215 5 5 HELIX 30 30 ASP O 246 GLN O 254 1 9 HELIX 31 31 ALA O 310 GLY O 320 1 11 HELIX 32 32 PRO O 328 LYS O 336 1 9 HELIX 33 33 THR O 373 GLY O 401 1 29 HELIX 34 34 GLY O 411 LYS O 415 5 5 HELIX 35 35 ASN O 416 ASP O 428 1 13 HELIX 36 36 GLU O 438 VAL O 452 1 15 HELIX 37 37 ASP O 457 SER O 463 1 7 HELIX 38 38 PRO O 476 PHE O 497 1 22 SHEET 1 A 6 LYS X 28 GLU X 35 0 SHEET 2 A 6 SER X 16 ASP X 23 -1 N ILE X 21 O ILE X 29 SHEET 3 A 6 TYR X 6 GLN X 12 -1 N ASP X 11 O ARG X 18 SHEET 4 A 6 ILE X 75 ASN X 82 1 O ALA X 76 N TYR X 6 SHEET 5 A 6 PRO X 239 GLY X 245 1 O ALA X 241 N ILE X 78 SHEET 6 A 6 SER X 222 HIS X 227 -1 N GLY X 226 O ILE X 240 SHEET 1 B 2 GLU X 47 HIS X 48 0 SHEET 2 B 2 ALA X 101 ILE X 102 -1 O ALA X 101 N HIS X 48 SHEET 1 C 2 THR X 87 ASP X 91 0 SHEET 2 C 2 LEU X 161 THR X 165 -1 O LEU X 162 N TRP X 90 SHEET 1 D 2 VAL X 181 ASP X 183 0 SHEET 2 D 2 GLU X 217 LYS X 219 1 O LYS X 219 N THR X 182 SHEET 1 E 2 TYR X 193 ASN X 194 0 SHEET 2 E 2 GLU X 199 TRP X 200 -1 O GLU X 199 N ASN X 194 SHEET 1 F 7 LEU X 288 ILE X 295 0 SHEET 2 F 7 LYS X 298 ILE X 307 -1 O GLU X 304 N LEU X 288 SHEET 3 F 7 ALA X 270 GLY X 277 -1 N ALA X 270 O ILE X 307 SHEET 4 F 7 ILE X 262 TYR X 266 -1 N LYS X 263 O VAL X 273 SHEET 5 F 7 LEU X 406 ASP X 410 1 O ASP X 410 N TYR X 266 SHEET 6 F 7 ASP X 430 ARG X 433 1 O GLN X 432 N VAL X 409 SHEET 7 F 7 MET X 470 PHE X 471 -1 O PHE X 471 N VAL X 431 SHEET 1 G 2 TYR X 344 VAL X 346 0 SHEET 2 G 2 ALA X 364 PHE X 366 -1 O ALA X 364 N VAL X 346 SHEET 1 H 6 LYS O 28 GLU O 35 0 SHEET 2 H 6 SER O 16 ASP O 23 -1 N ILE O 21 O ILE O 29 SHEET 3 H 6 TYR O 6 GLN O 12 -1 N ALA O 9 O ILE O 20 SHEET 4 H 6 ILE O 75 ASN O 82 1 O ALA O 76 N TYR O 6 SHEET 5 H 6 PRO O 239 GLY O 245 1 O GLY O 242 N ILE O 80 SHEET 6 H 6 SER O 222 HIS O 227 -1 N GLY O 226 O ILE O 240 SHEET 1 I 2 GLU O 47 HIS O 48 0 SHEET 2 I 2 ALA O 101 ILE O 102 -1 O ALA O 101 N HIS O 48 SHEET 1 J 2 THR O 87 ASP O 91 0 SHEET 2 J 2 LEU O 161 THR O 165 -1 O LEU O 162 N TRP O 90 SHEET 1 K 2 VAL O 181 ASP O 183 0 SHEET 2 K 2 GLU O 217 LYS O 219 1 O LYS O 219 N THR O 182 SHEET 1 L 2 TYR O 193 ASN O 194 0 SHEET 2 L 2 GLU O 199 TRP O 200 -1 O GLU O 199 N ASN O 194 SHEET 1 M 7 LEU O 288 ILE O 295 0 SHEET 2 M 7 LYS O 298 ILE O 307 -1 O TYR O 300 N TYR O 293 SHEET 3 M 7 ALA O 270 GLY O 277 -1 N GLY O 277 O TYR O 301 SHEET 4 M 7 ILE O 262 TYR O 266 -1 N LYS O 263 O VAL O 273 SHEET 5 M 7 LEU O 406 ASP O 410 1 O ASP O 410 N TYR O 266 SHEET 6 M 7 ASP O 430 ARG O 433 1 O GLN O 432 N LEU O 407 SHEET 7 M 7 MET O 470 PHE O 471 -1 O PHE O 471 N VAL O 431 SHEET 1 N 2 TYR O 344 VAL O 346 0 SHEET 2 N 2 ALA O 364 PHE O 366 -1 O ALA O 364 N VAL O 346 CISPEP 1 GLY X 235 SER X 236 0 -16.72 CISPEP 2 ALA X 354 PRO X 355 0 -6.41 CISPEP 3 ALA O 354 PRO O 355 0 -4.92 SITE 1 AC1 5 THR X 14 THR X 15 GLY X 267 THR X 268 SITE 2 AC1 5 GOL X1001 SITE 1 AC2 9 ARG X 84 GLU X 85 TRP X 104 TYR X 136 SITE 2 AC2 9 ASP X 246 GLN X 247 PHE X 271 SO4 X 507 SITE 3 AC2 9 HOH X 569 SITE 1 AC3 3 EDO O3123 SER X 32 SER X 59 SITE 1 AC4 5 THR O 14 THR O 15 GLY O 267 THR O 268 SITE 2 AC4 5 HOH O 564 SITE 1 AC5 8 ARG O 84 GLU O 85 TRP O 104 TYR O 136 SITE 2 AC5 8 ASP O 246 GLN O 247 PHE O 271 HOH O 564 SITE 1 AC6 3 SER O 32 SER O 59 EDO X3122 CRYST1 96.677 199.548 56.813 90.00 90.00 90.00 P 21 21 2 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 0.010344 0.000000 0.000000 0.00000 SCALE2 0.000000 0.005011 0.000000 0.00000 SCALE3 0.000000 0.000000 0.017602 0.00000