HEADER LYASE 14-DEC-00 1HQ6 TITLE STRUCTURE OF PYRUVOYL-DEPENDENT HISTIDINE DECARBOXYLASE AT PH 8 COMPND MOL_ID: 1; COMPND 2 MOLECULE: HISTIDINE DECARBOXYLASE; COMPND 3 CHAIN: A, C; COMPND 4 FRAGMENT: BETA CHAIN (RESIDUES 1-81); COMPND 5 SYNONYM: PI CHAIN; COMPND 6 EC: 4.1.1.22; COMPND 7 ENGINEERED: YES; COMPND 8 MOL_ID: 2; COMPND 9 MOLECULE: HISTIDINE DECARBOXYLASE; COMPND 10 CHAIN: B, D; COMPND 11 FRAGMENT: ALPHA CHAIN (RESIDUES 82-310); COMPND 12 EC: 4.1.1.22; COMPND 13 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: LACTOBACILLUS SP.; SOURCE 3 ORGANISM_TAXID: 1593; SOURCE 4 STRAIN: 30A; SOURCE 5 GENE: HDCA; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 MOL_ID: 2; SOURCE 9 ORGANISM_SCIENTIFIC: LACTOBACILLUS SP.; SOURCE 10 ORGANISM_TAXID: 1593; SOURCE 11 STRAIN: 30A; SOURCE 12 GENE: HDCA; SOURCE 13 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 14 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS HELIX DISORDER, PH REGULATION, LESS ACTIVE FORM, PYRUVOYL, CARBOXY- KEYWDS 2 LYASE, LYASE EXPDTA X-RAY DIFFRACTION AUTHOR E.SCHELP,S.WORLEY,A.F.MONZINGO,S.ERNST,J.D.ROBERTUS REVDAT 7 20-NOV-24 1HQ6 1 REMARK REVDAT 6 15-NOV-23 1HQ6 1 LINK ATOM REVDAT 5 09-AUG-23 1HQ6 1 SEQADV LINK REVDAT 4 13-JUL-11 1HQ6 1 VERSN REVDAT 3 24-FEB-09 1HQ6 1 VERSN REVDAT 2 11-APR-01 1HQ6 1 SHEET REMARK REVDAT 1 21-MAR-01 1HQ6 0 JRNL AUTH E.SCHELP,S.WORLEY,A.F.MONZINGO,S.ERNST,J.D.ROBERTUS JRNL TITL PH-INDUCED STRUCTURAL CHANGES REGULATE HISTIDINE JRNL TITL 2 DECARBOXYLASE ACTIVITY IN LACTOBACILLUS 30A. JRNL REF J.MOL.BIOL. V. 306 727 2001 JRNL REFN ISSN 0022-2836 JRNL PMID 11243783 JRNL DOI 10.1006/JMBI.2000.4430 REMARK 2 REMARK 2 RESOLUTION. 2.70 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : X-PLOR 3.851 REMARK 3 AUTHORS : BRUNGER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.70 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 20.00 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) (%) : 94.9 REMARK 3 NUMBER OF REFLECTIONS : 16971 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) : 0.253 REMARK 3 FREE R VALUE : 0.314 REMARK 3 FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 FREE R VALUE TEST SET COUNT : 1687 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 : 4564 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 36 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 52.80 REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL 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) : 0.012 REMARK 3 BOND ANGLES (DEGREES) : 3.027 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 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 1HQ6 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 19-DEC-00. REMARK 100 THE DEPOSITION ID IS D_1000012509. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 13-OCT-99 REMARK 200 TEMPERATURE (KELVIN) : 103 REMARK 200 PH : 8.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 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 RU200 REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : DOUBLE FOCUSSING MIRRORS (NI & REMARK 200 PT) + NI FILTER 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 : 17625 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.700 REMARK 200 RESOLUTION RANGE LOW (A) : 30.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.4 REMARK 200 DATA REDUNDANCY : 4.200 REMARK 200 R MERGE (I) : 0.05300 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 13.3000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.70 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.80 REMARK 200 COMPLETENESS FOR SHELL (%) : 98.8 REMARK 200 DATA REDUNDANCY IN SHELL : 4.60 REMARK 200 R MERGE FOR SHELL (I) : 0.21100 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> 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: X-PLOR REMARK 200 STARTING MODEL: PDB ENTRY 1PYA REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 47.61 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.35 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG 400, PEG 4000, TRIS-HCL, SODIUM REMARK 280 ACETATE, N-DODECYL-BETA-N-MALTOSIDE, PH 8.0, VAPOR DIFFUSION, REMARK 280 HANGING DROP, TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: H 3 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z REMARK 290 3555 -X+Y,-X,Z REMARK 290 4555 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z REMARK 290 6555 -X,-X+Y,-Z REMARK 290 7555 X+2/3,Y+1/3,Z+1/3 REMARK 290 8555 -Y+2/3,X-Y+1/3,Z+1/3 REMARK 290 9555 -X+Y+2/3,-X+1/3,Z+1/3 REMARK 290 10555 Y+2/3,X+1/3,-Z+1/3 REMARK 290 11555 X-Y+2/3,-Y+1/3,-Z+1/3 REMARK 290 12555 -X+2/3,-X+Y+1/3,-Z+1/3 REMARK 290 13555 X+1/3,Y+2/3,Z+2/3 REMARK 290 14555 -Y+1/3,X-Y+2/3,Z+2/3 REMARK 290 15555 -X+Y+1/3,-X+2/3,Z+2/3 REMARK 290 16555 Y+1/3,X+2/3,-Z+2/3 REMARK 290 17555 X-Y+1/3,-Y+2/3,-Z+2/3 REMARK 290 18555 -X+1/3,-X+Y+2/3,-Z+2/3 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 0.00000 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 0.00000 REMARK 290 SMTRY1 4 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 4 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 5 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 0.00000 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 0.00000 REMARK 290 SMTRY1 7 1.000000 0.000000 0.000000 58.71550 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 33.89941 REMARK 290 SMTRY3 7 0.000000 0.000000 1.000000 80.53333 REMARK 290 SMTRY1 8 -0.500000 -0.866025 0.000000 58.71550 REMARK 290 SMTRY2 8 0.866025 -0.500000 0.000000 33.89941 REMARK 290 SMTRY3 8 0.000000 0.000000 1.000000 80.53333 REMARK 290 SMTRY1 9 -0.500000 0.866025 0.000000 58.71550 REMARK 290 SMTRY2 9 -0.866025 -0.500000 0.000000 33.89941 REMARK 290 SMTRY3 9 0.000000 0.000000 1.000000 80.53333 REMARK 290 SMTRY1 10 -0.500000 0.866025 0.000000 58.71550 REMARK 290 SMTRY2 10 0.866025 0.500000 0.000000 33.89941 REMARK 290 SMTRY3 10 0.000000 0.000000 -1.000000 80.53333 REMARK 290 SMTRY1 11 1.000000 0.000000 0.000000 58.71550 REMARK 290 SMTRY2 11 0.000000 -1.000000 0.000000 33.89941 REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 80.53333 REMARK 290 SMTRY1 12 -0.500000 -0.866025 0.000000 58.71550 REMARK 290 SMTRY2 12 -0.866025 0.500000 0.000000 33.89941 REMARK 290 SMTRY3 12 0.000000 0.000000 -1.000000 80.53333 REMARK 290 SMTRY1 13 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 13 0.000000 1.000000 0.000000 67.79882 REMARK 290 SMTRY3 13 0.000000 0.000000 1.000000 161.06667 REMARK 290 SMTRY1 14 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 14 0.866025 -0.500000 0.000000 67.79882 REMARK 290 SMTRY3 14 0.000000 0.000000 1.000000 161.06667 REMARK 290 SMTRY1 15 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 15 -0.866025 -0.500000 0.000000 67.79882 REMARK 290 SMTRY3 15 0.000000 0.000000 1.000000 161.06667 REMARK 290 SMTRY1 16 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 16 0.866025 0.500000 0.000000 67.79882 REMARK 290 SMTRY3 16 0.000000 0.000000 -1.000000 161.06667 REMARK 290 SMTRY1 17 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 17 0.000000 -1.000000 0.000000 67.79882 REMARK 290 SMTRY3 17 0.000000 0.000000 -1.000000 161.06667 REMARK 290 SMTRY1 18 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 18 -0.866025 0.500000 0.000000 67.79882 REMARK 290 SMTRY3 18 0.000000 0.000000 -1.000000 161.06667 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 300 REMARK: THE ENZYME IS A TRIMER OF *AB* SUBUNITS. TWO TRIMERS, REMARK 300 RELATED BY A TWO-FOLD ROTATION, CAN FORM A HEXAMER. EACH *AB* REMARK 300 SUBUNIT CONTAINS TWO CHAINS RESULTING FROM AN AUTOCATALYTIC REMARK 300 CLEAVAGE REACTION. THE BETA CHAIN IS RESIDUES 1 THROUGH 81, WHILE REMARK 300 THE ALPHA CHAIN IS RESIDUES 82 THROUGH 310. RESIDUE PVL 82 IS AN N- REMARK 300 TERMINAL PYRUVOYL GROUP USED AS A COFACTOR. EACH COMPLETE *AB* REMARK 300 SUBUNIT CONSISTS OF A BETA CHAIN AND A PVL COFACTOR LINKED TO THE N REMARK 300 TERMINUS OF AN ALPHA CHAIN. 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: DODECAMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C, D 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 -0.500000 -0.866025 0.000000 117.43100 REMARK 350 BIOMT2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 3 -0.500000 0.866025 0.000000 58.71550 REMARK 350 BIOMT2 3 -0.866025 -0.500000 0.000000 101.69823 REMARK 350 BIOMT3 3 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 ASP A 49 REMARK 465 LYS A 50 REMARK 465 SER A 51 REMARK 465 ASP A 52 REMARK 465 ASP A 53 REMARK 465 ASP A 54 REMARK 465 VAL A 55 REMARK 465 LEU A 56 REMARK 465 ASP A 57 REMARK 465 GLY A 58 REMARK 465 ILE A 59 REMARK 465 VAL A 60 REMARK 465 SER A 61 REMARK 465 TYR A 62 REMARK 465 ASP A 63 REMARK 465 ASP C 49 REMARK 465 LYS C 50 REMARK 465 SER C 51 REMARK 465 ASP C 52 REMARK 465 ASP C 53 REMARK 465 ASP C 54 REMARK 465 VAL C 55 REMARK 465 LEU C 56 REMARK 465 ASP C 57 REMARK 465 GLY C 58 REMARK 465 ILE C 59 REMARK 465 VAL C 60 REMARK 465 SER C 61 REMARK 465 TYR C 62 REMARK 465 ASP C 63 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 HIS B 142 NE2 HIS B 142 CD2 -0.072 REMARK 500 HIS D 142 NE2 HIS D 142 CD2 -0.070 REMARK 500 HIS D 233 NE2 HIS D 233 CD2 -0.067 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 TRP A 23 CD1 - CG - CD2 ANGL. DEV. = 6.7 DEGREES REMARK 500 TRP A 23 CG - CD1 - NE1 ANGL. DEV. = -6.1 DEGREES REMARK 500 TRP A 23 CE2 - CD2 - CG ANGL. DEV. = -6.1 DEGREES REMARK 500 TRP A 23 CG - CD2 - CE3 ANGL. DEV. = 5.5 DEGREES REMARK 500 ARG A 48 CA - CB - CG ANGL. DEV. = 14.3 DEGREES REMARK 500 TRP B 113 CD1 - CG - CD2 ANGL. DEV. = 6.1 DEGREES REMARK 500 TRP B 113 CE2 - CD2 - CG ANGL. DEV. = -5.5 DEGREES REMARK 500 TRP B 177 CD1 - CG - CD2 ANGL. DEV. = 6.6 DEGREES REMARK 500 TRP B 177 CE2 - CD2 - CG ANGL. DEV. = -6.0 DEGREES REMARK 500 TRP B 202 CD1 - CG - CD2 ANGL. DEV. = 6.6 DEGREES REMARK 500 TRP B 202 CE2 - CD2 - CG ANGL. DEV. = -6.0 DEGREES REMARK 500 TYR B 213 CB - CG - CD2 ANGL. DEV. = -3.9 DEGREES REMARK 500 TRP B 240 CD1 - CG - CD2 ANGL. DEV. = 5.7 DEGREES REMARK 500 TRP B 240 CE2 - CD2 - CG ANGL. DEV. = -5.9 DEGREES REMARK 500 TRP B 293 CD1 - CG - CD2 ANGL. DEV. = 5.2 DEGREES REMARK 500 TRP B 293 CE2 - CD2 - CG ANGL. DEV. = -5.2 DEGREES REMARK 500 TYR B 299 CB - CG - CD2 ANGL. DEV. = -4.5 DEGREES REMARK 500 TRP C 23 CD1 - CG - CD2 ANGL. DEV. = 6.8 DEGREES REMARK 500 TRP C 23 CE2 - CD2 - CG ANGL. DEV. = -6.1 DEGREES REMARK 500 TRP C 23 CG - CD2 - CE3 ANGL. DEV. = 5.6 DEGREES REMARK 500 ARG C 48 CA - CB - CG ANGL. DEV. = 14.2 DEGREES REMARK 500 ARG C 48 NE - CZ - NH2 ANGL. DEV. = 3.8 DEGREES REMARK 500 ARG C 64 NE - CZ - NH1 ANGL. DEV. = -3.0 DEGREES REMARK 500 TRP D 113 CD1 - CG - CD2 ANGL. DEV. = 6.0 DEGREES REMARK 500 TRP D 113 CE2 - CD2 - CG ANGL. DEV. = -5.7 DEGREES REMARK 500 ARG D 161 NE - CZ - NH2 ANGL. DEV. = 4.6 DEGREES REMARK 500 TRP D 177 CD1 - CG - CD2 ANGL. DEV. = 6.5 DEGREES REMARK 500 TRP D 177 CE2 - CD2 - CG ANGL. DEV. = -5.5 DEGREES REMARK 500 TRP D 202 CD1 - CG - CD2 ANGL. DEV. = 6.6 DEGREES REMARK 500 TRP D 202 CE2 - CD2 - CG ANGL. DEV. = -6.0 DEGREES REMARK 500 TYR D 213 CB - CG - CD2 ANGL. DEV. = -3.7 DEGREES REMARK 500 TRP D 240 CD1 - CG - CD2 ANGL. DEV. = 5.5 DEGREES REMARK 500 TRP D 240 CE2 - CD2 - CG ANGL. DEV. = -5.7 DEGREES REMARK 500 TRP D 293 CE2 - CD2 - CG ANGL. DEV. = -4.8 DEGREES REMARK 500 TYR D 299 CB - CG - CD2 ANGL. DEV. = -3.9 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 GLN A 22 -51.03 66.44 REMARK 500 ASN A 69 -117.55 52.83 REMARK 500 TYR B 93 -56.02 -124.98 REMARK 500 TRP B 113 -45.21 -14.40 REMARK 500 ARG B 141 -113.01 -112.67 REMARK 500 HIS B 142 57.34 -93.42 REMARK 500 ASN B 164 -1.36 54.54 REMARK 500 ASP B 165 161.67 -49.95 REMARK 500 LYS B 169 152.50 -49.80 REMARK 500 PRO B 188 4.82 -69.86 REMARK 500 GLU B 227 -76.25 -74.54 REMARK 500 SER B 269 -21.89 -161.32 REMARK 500 SER B 301 98.26 -56.00 REMARK 500 ALA B 304 -127.07 44.71 REMARK 500 ASN B 306 46.14 38.57 REMARK 500 GLN C 22 -51.73 67.43 REMARK 500 ASN C 69 -117.64 52.81 REMARK 500 TYR D 93 -55.83 -123.31 REMARK 500 TRP D 113 -44.60 -15.51 REMARK 500 ARG D 141 -113.84 -111.68 REMARK 500 HIS D 142 57.54 -92.68 REMARK 500 ASN D 164 0.34 54.45 REMARK 500 LYS D 169 151.26 -49.27 REMARK 500 PRO D 170 -8.99 -57.27 REMARK 500 GLU D 227 -75.22 -75.50 REMARK 500 SER D 269 -20.86 -160.98 REMARK 500 SER D 301 98.48 -55.97 REMARK 500 ALA D 304 -126.13 42.99 REMARK 500 ASN D 306 45.49 38.62 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1PYA RELATED DB: PDB REMARK 900 STRUCTURE OF PYRUVOYL-DEPENDENT HISTIDINE DECARBOXYLASE AT PH 4.8 DBREF 1HQ6 A 1 81 UNP P00862 DCHS_LACS3 1 81 DBREF 1HQ6 C 1 81 UNP P00862 DCHS_LACS3 1 81 DBREF 1HQ6 B 82 310 UNP P00862 DCHS_LACS3 82 310 DBREF 1HQ6 D 82 310 UNP P00862 DCHS_LACS3 82 310 SEQADV 1HQ6 PYR B 82 UNP P00862 SER 82 MODIFIED RESIDUE SEQADV 1HQ6 PYR D 82 UNP P00862 SER 82 MODIFIED RESIDUE SEQRES 1 A 81 SER GLU LEU ASP ALA LYS LEU ASN LYS LEU GLY VAL ASP SEQRES 2 A 81 ARG ILE ALA ILE SER PRO TYR LYS GLN TRP THR ARG GLY SEQRES 3 A 81 TYR MET GLU PRO GLY ASN ILE GLY ASN GLY TYR VAL THR SEQRES 4 A 81 GLY LEU LYS VAL ASP ALA GLY VAL ARG ASP LYS SER ASP SEQRES 5 A 81 ASP ASP VAL LEU ASP GLY ILE VAL SER TYR ASP ARG ALA SEQRES 6 A 81 GLU THR LYS ASN ALA TYR ILE GLY GLN ILE ASN MET THR SEQRES 7 A 81 THR ALA SER SEQRES 1 B 229 PYR PHE THR GLY VAL GLN GLY ARG VAL ILE GLY TYR ASP SEQRES 2 B 229 ILE LEU ARG SER PRO GLU VAL ASP LYS ALA LYS PRO LEU SEQRES 3 B 229 PHE THR GLU THR GLN TRP ASP GLY SER GLU LEU PRO ILE SEQRES 4 B 229 TYR ASP ALA LYS PRO LEU GLN ASP ALA LEU VAL GLU TYR SEQRES 5 B 229 PHE GLY THR GLU GLN ASP ARG ARG HIS TYR PRO ALA PRO SEQRES 6 B 229 GLY SER PHE ILE VAL CYS ALA ASN LYS GLY VAL THR ALA SEQRES 7 B 229 GLU ARG PRO LYS ASN ASP ALA ASP MET LYS PRO GLY GLN SEQRES 8 B 229 GLY TYR GLY VAL TRP SER ALA ILE ALA ILE SER PHE ALA SEQRES 9 B 229 LYS ASP PRO THR LYS ASP SER SER MET PHE VAL GLU ASP SEQRES 10 B 229 ALA GLY VAL TRP GLU THR PRO ASN GLU ASP GLU LEU LEU SEQRES 11 B 229 GLU TYR LEU GLU GLY ARG ARG LYS ALA MET ALA LYS SER SEQRES 12 B 229 ILE ALA GLU CYS GLY GLN ASP ALA HIS ALA SER PHE GLU SEQRES 13 B 229 SER SER TRP ILE GLY PHE ALA TYR THR MET MET GLU PRO SEQRES 14 B 229 GLY GLN ILE GLY ASN ALA ILE THR VAL ALA PRO TYR VAL SEQRES 15 B 229 SER LEU PRO ILE ASP SER ILE PRO GLY GLY SER ILE LEU SEQRES 16 B 229 THR PRO ASP LYS ASP MET GLU ILE MET GLU ASN LEU THR SEQRES 17 B 229 MET PRO GLU TRP LEU GLU LYS MET GLY TYR LYS SER LEU SEQRES 18 B 229 SER ALA ASN ASN ALA LEU LYS TYR SEQRES 1 C 81 SER GLU LEU ASP ALA LYS LEU ASN LYS LEU GLY VAL ASP SEQRES 2 C 81 ARG ILE ALA ILE SER PRO TYR LYS GLN TRP THR ARG GLY SEQRES 3 C 81 TYR MET GLU PRO GLY ASN ILE GLY ASN GLY TYR VAL THR SEQRES 4 C 81 GLY LEU LYS VAL ASP ALA GLY VAL ARG ASP LYS SER ASP SEQRES 5 C 81 ASP ASP VAL LEU ASP GLY ILE VAL SER TYR ASP ARG ALA SEQRES 6 C 81 GLU THR LYS ASN ALA TYR ILE GLY GLN ILE ASN MET THR SEQRES 7 C 81 THR ALA SER SEQRES 1 D 229 PYR PHE THR GLY VAL GLN GLY ARG VAL ILE GLY TYR ASP SEQRES 2 D 229 ILE LEU ARG SER PRO GLU VAL ASP LYS ALA LYS PRO LEU SEQRES 3 D 229 PHE THR GLU THR GLN TRP ASP GLY SER GLU LEU PRO ILE SEQRES 4 D 229 TYR ASP ALA LYS PRO LEU GLN ASP ALA LEU VAL GLU TYR SEQRES 5 D 229 PHE GLY THR GLU GLN ASP ARG ARG HIS TYR PRO ALA PRO SEQRES 6 D 229 GLY SER PHE ILE VAL CYS ALA ASN LYS GLY VAL THR ALA SEQRES 7 D 229 GLU ARG PRO LYS ASN ASP ALA ASP MET LYS PRO GLY GLN SEQRES 8 D 229 GLY TYR GLY VAL TRP SER ALA ILE ALA ILE SER PHE ALA SEQRES 9 D 229 LYS ASP PRO THR LYS ASP SER SER MET PHE VAL GLU ASP SEQRES 10 D 229 ALA GLY VAL TRP GLU THR PRO ASN GLU ASP GLU LEU LEU SEQRES 11 D 229 GLU TYR LEU GLU GLY ARG ARG LYS ALA MET ALA LYS SER SEQRES 12 D 229 ILE ALA GLU CYS GLY GLN ASP ALA HIS ALA SER PHE GLU SEQRES 13 D 229 SER SER TRP ILE GLY PHE ALA TYR THR MET MET GLU PRO SEQRES 14 D 229 GLY GLN ILE GLY ASN ALA ILE THR VAL ALA PRO TYR VAL SEQRES 15 D 229 SER LEU PRO ILE ASP SER ILE PRO GLY GLY SER ILE LEU SEQRES 16 D 229 THR PRO ASP LYS ASP MET GLU ILE MET GLU ASN LEU THR SEQRES 17 D 229 MET PRO GLU TRP LEU GLU LYS MET GLY TYR LYS SER LEU SEQRES 18 D 229 SER ALA ASN ASN ALA LEU LYS TYR HET PYR B 82 5 HET PYR D 82 5 HETNAM PYR PYRUVIC ACID FORMUL 2 PYR 2(C3 H4 O3) FORMUL 5 HOH *36(H2 O) HELIX 1 1 SER A 1 LYS A 9 1 9 HELIX 2 2 ARG A 64 LYS A 68 5 5 HELIX 3 3 SER B 98 ALA B 104 1 7 HELIX 4 4 ALA B 123 PHE B 134 1 12 HELIX 5 5 ASN B 206 GLY B 229 1 24 HELIX 6 6 GLN B 230 HIS B 233 5 4 HELIX 7 7 THR B 277 LEU B 288 1 12 HELIX 8 8 THR B 289 GLY B 298 1 10 HELIX 9 9 SER C 1 LYS C 9 1 9 HELIX 10 10 ARG C 64 LYS C 68 5 5 HELIX 11 11 SER D 98 ALA D 104 1 7 HELIX 12 12 ALA D 123 PHE D 134 1 12 HELIX 13 13 ASN D 206 GLN D 230 1 25 HELIX 14 14 ASP D 231 HIS D 233 5 3 HELIX 15 15 THR D 277 LEU D 288 1 12 HELIX 16 16 THR D 289 GLY D 298 1 10 SHEET 1 A 2 ALA A 16 SER A 18 0 SHEET 2 A 2 ASN A 32 GLY A 34 -1 N ILE A 33 O ILE A 17 SHEET 1 B 5 GLN A 74 ALA A 80 0 SHEET 2 B 5 GLY B 147 ARG B 161 1 N GLY B 147 O GLN A 74 SHEET 3 B 5 GLY B 251 LEU B 265 -1 N GLY B 251 O ARG B 161 SHEET 4 B 5 TYR A 37 ARG A 48 1 N VAL A 38 O VAL B 263 SHEET 5 B 5 ARG B 89 ILE B 91 1 O ARG B 89 N THR A 39 SHEET 1 C 6 PYR B 82 THR B 84 0 SHEET 2 C 6 SER B 193 TRP B 202 -1 N PHE B 195 O3 PYR B 82 SHEET 3 C 6 TYR B 174 PHE B 184 1 N TYR B 174 O TRP B 202 SHEET 4 C 6 SER B 238 MET B 248 -1 O SER B 238 N PHE B 184 SHEET 5 C 6 GLY B 115 ALA B 123 -1 O PRO B 119 N SER B 239 SHEET 6 C 6 THR B 109 GLN B 112 1 N GLU B 110 O LEU B 118 SHEET 1 D 2 PHE B 134 THR B 136 0 SHEET 2 D 2 ASP B 139 ARG B 141 -1 N ASP B 139 O THR B 136 SHEET 1 E 2 ALA C 16 SER C 18 0 SHEET 2 E 2 ASN C 32 GLY C 34 -1 N ILE C 33 O ILE C 17 SHEET 1 F 5 GLN C 74 ALA C 80 0 SHEET 2 F 5 GLY B 147 ARG B 161 1 N GLY B 147 O GLN C 74 SHEET 3 F 5 GLY B 251 LEU B 265 -1 N GLY B 251 O ARG B 161 SHEET 4 F 5 TYR C 37 ARG C 48 1 N VAL C 38 O VAL B 263 SHEET 5 F 5 ARG B 89 ILE B 91 1 O ARG B 89 N THR C 39 SHEET 1 G 6 PYR B 82 THR B 84 0 SHEET 2 G 6 SER B 193 TRP B 202 -1 N PHE B 195 O3 PYR B 82 SHEET 3 G 6 TYR B 174 PHE B 184 1 N TYR B 174 O TRP B 202 SHEET 4 G 6 SER B 238 MET B 248 -1 O SER B 238 N PHE B 184 SHEET 5 G 6 GLY B 115 ALA B 123 -1 O PRO B 119 N SER B 239 SHEET 6 G 6 THR B 109 GLN B 112 1 N GLU B 110 O LEU B 118 SHEET 1 H 2 PHE B 134 THR B 136 0 SHEET 2 H 2 ASP B 139 ARG B 141 -1 N ASP B 139 O THR B 136 LINK C PYR B 82 N PHE B 83 1555 1555 1.35 LINK C PYR D 82 N PHE D 83 1555 1555 1.33 CRYST1 117.431 117.431 241.600 90.00 90.00 120.00 H 3 2 36 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 0.008516 0.004917 0.000000 0.00000 SCALE2 0.000000 0.009833 0.000000 0.00000 SCALE3 0.000000 0.000000 0.004139 0.00000