PDB Short entry for 2C1H HEADER LYASE 14-SEP-05 2C1H TITLE THE X-RAY STRUCTURE OF CHLOROBIUM VIBRIOFORME 5-AMINOLAEVULINIC ACID TITLE 2 DEHYDRATASE COMPLEXED WITH A DIACID INHIBITOR COMPND MOL_ID: 1; COMPND 2 MOLECULE: DELTA-AMINOLEVULINIC ACID DEHYDRATASE; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: 5-AMINOLAEVULINIC ACID DEHYDRATASE, PORPHOBILINOGEN COMPND 5 SYNTHASE, ALAD, ALADH; COMPND 6 EC: 4.2.1.24; COMPND 7 ENGINEERED: YES; COMPND 8 OTHER_DETAILS: SCHIFF BASE LINK BETWEEN LYS 200 AND DSB, SCHIFF BASE COMPND 9 LINK BETWEEN LYS 253 AND DSB SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: CHLOROBIUM VIBRIOFORME; SOURCE 3 ORGANISM_TAXID: 1098; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS LYASE, ALAD, 5-AMINOLAEVULINIC ACID DEHYDRATASE, HEME BIOSYNTHESIS, KEYWDS 2 MAGNESIUM, PORPHYRIN BIOSYNTHESIS EXPDTA X-RAY DIFFRACTION AUTHOR L.COATES,G.BEAVEN,P.T.ERSKINE,S.BEALE,S.P.WOOD,P.M.SHOOLINGIN-JORDAN, AUTHOR 2 J.B.COOPER REVDAT 3 13-DEC-23 2C1H 1 LINK REVDAT 2 24-FEB-09 2C1H 1 VERSN REVDAT 1 02-DEC-05 2C1H 0 JRNL AUTH L.COATES,G.BEAVEN,P.T.ERSKINE,S.BEALE,S.P.WOOD, JRNL AUTH 2 P.M.SHOOLINGIN-JORDAN,J.B.COOPER JRNL TITL STRUCTURE OF CHLOROBIUM VIBRIOFORME 5-AMINOLAEVULINIC ACID JRNL TITL 2 DEHYDRATASE COMPLEXED WITH A DIACID INHIBITOR. JRNL REF ACTA CRYSTALLOGR.,SECT.D V. 61 1594 2005 JRNL REFN ISSN 0907-4449 JRNL PMID 16304458 JRNL DOI 10.1107/S0907444905030350 REMARK 2 REMARK 2 RESOLUTION. 2.60 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0005 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.60 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 89.44 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 90.0 REMARK 3 NUMBER OF REFLECTIONS : 17930 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING + TEST SET) : 0.263 REMARK 3 R VALUE (WORKING SET) : 0.260 REMARK 3 FREE R VALUE : 0.320 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.200 REMARK 3 FREE R VALUE TEST SET COUNT : 980 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.60 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.67 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1344 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.3620 REMARK 3 BIN FREE R VALUE SET COUNT : 72 REMARK 3 BIN FREE R VALUE : 0.3770 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4962 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 30 REMARK 3 SOLVENT ATOMS : 254 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 36.05 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.29000 REMARK 3 B22 (A**2) : -0.29000 REMARK 3 B33 (A**2) : 0.57000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): NULL REMARK 3 ESU BASED ON FREE R VALUE (A): 0.476 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.361 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 17.322 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.926 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.877 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 5092 ; 0.007 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 6870 ; 1.034 ; 1.970 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 636 ; 4.882 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 234 ;39.461 ;24.359 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 874 ;18.524 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 34 ;19.082 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 764 ; 0.068 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3856 ; 0.002 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 3285 ; 0.201 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 3466 ; 0.298 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 427 ; 0.283 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 60 ; 0.181 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 13 ; 0.207 ; 0.200 REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 3229 ; 0.357 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 5106 ; 0.570 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2048 ; 0.723 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1764 ; 1.201 ; 4.500 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : 1 REMARK 3 REMARK 3 NCS GROUP NUMBER : 1 REMARK 3 CHAIN NAMES : A B REMARK 3 NUMBER OF COMPONENTS NCS GROUP : 1 REMARK 3 COMPONENT C SSSEQI TO C SSSEQI CODE REMARK 3 1 A 10 A 328 4 REMARK 3 1 B 10 B 328 4 REMARK 3 GROUP CHAIN COUNT RMS WEIGHT REMARK 3 MEDIUM POSITIONAL 1 A (A): 2481 ; 0.14 ; 0.50 REMARK 3 MEDIUM THERMAL 1 A (A**2): 2481 ; 1.44 ; 2.00 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS. THERE WAS NO ELECTRON DENSITY TO INDICATE THE REMARK 3 POSITIONS OF RESIDUES 1 TO 9 SO THESE RESIDUES HAVE BEEN OMITTED REMARK 3 FROM THE STRUCTURE. REMARK 4 REMARK 4 2C1H COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 14-SEP-05. REMARK 100 THE DEPOSITION ID IS D_1290025550. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 01-OCT-04 REMARK 200 TEMPERATURE (KELVIN) : 30.0 REMARK 200 PH : 7.50 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID14-2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.933 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 24586 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.600 REMARK 200 RESOLUTION RANGE LOW (A) : 89.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 91.6 REMARK 200 DATA REDUNDANCY : 4.000 REMARK 200 R MERGE (I) : 0.12000 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 5.6000 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) : 2.74 REMARK 200 COMPLETENESS FOR SHELL (%) : 94.1 REMARK 200 DATA REDUNDANCY IN SHELL : 4.00 REMARK 200 R MERGE FOR SHELL (I) : 0.49000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 1.600 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: PDB ENTRY 1W1Z REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 44.37 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.23 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PH 7.50 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 4 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 -Y+1/2,X+1/2,Z REMARK 290 4555 Y+1/2,-X+1/2,Z REMARK 290 5555 -X+1/2,Y+1/2,-Z REMARK 290 6555 X+1/2,-Y+1/2,-Z REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-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 0.000000 -1.000000 0.000000 63.24000 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 63.24000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 63.24000 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 63.24000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 63.24000 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 63.24000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 63.24000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 63.24000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 0.00000 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 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: OCTAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: OCTAMERIC REMARK 350 SOFTWARE USED: PQS 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 BIOMT1 2 0.000000 1.000000 0.000000 63.24000 REMARK 350 BIOMT2 2 -1.000000 0.000000 0.000000 63.24000 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 3 0.000000 -1.000000 0.000000 63.24000 REMARK 350 BIOMT2 3 1.000000 0.000000 0.000000 -63.24000 REMARK 350 BIOMT3 3 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 4 -1.000000 0.000000 0.000000 126.48000 REMARK 350 BIOMT2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 350 BIOMT3 4 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 A 1 REMARK 465 SER A 2 REMARK 465 GLN A 3 REMARK 465 LEU A 4 REMARK 465 ASP A 5 REMARK 465 LEU A 6 REMARK 465 LEU A 7 REMARK 465 ASN A 8 REMARK 465 ILE A 9 REMARK 465 MET B 1 REMARK 465 SER B 2 REMARK 465 GLN B 3 REMARK 465 LEU B 4 REMARK 465 ASP B 5 REMARK 465 LEU B 6 REMARK 465 LEU B 7 REMARK 465 ASN B 8 REMARK 465 ILE B 9 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 ARG A 328 O REMARK 470 ARG B 328 O 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 LYS A 139 -93.73 -111.88 REMARK 500 ASP A 140 42.61 -99.57 REMARK 500 ASN A 145 -72.37 -92.82 REMARK 500 HIS A 214 8.55 52.78 REMARK 500 PRO A 217 112.66 -27.58 REMARK 500 GLN A 218 9.63 -64.42 REMARK 500 PHE A 219 -121.13 52.54 REMARK 500 PRO A 229 -7.95 -53.15 REMARK 500 PRO A 254 -167.21 -70.00 REMARK 500 LYS B 139 -90.93 -121.53 REMARK 500 ASP B 140 47.72 -104.92 REMARK 500 ASN B 145 -70.18 -91.38 REMARK 500 THR B 187 30.31 -99.09 REMARK 500 HIS B 214 10.40 55.77 REMARK 500 PRO B 217 101.79 -19.71 REMARK 500 GLN B 218 -3.29 -58.30 REMARK 500 PHE B 219 -132.87 66.26 REMARK 500 TYR B 225 -35.21 -136.63 REMARK 500 PRO B 229 -9.98 -51.16 REMARK 500 PRO B 254 -169.79 -68.24 REMARK 500 ALA B 257 21.11 -76.03 REMARK 500 TYR B 258 21.85 -140.14 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 A1329 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 238 OE1 REMARK 620 2 HOH A2070 O 150.6 REMARK 620 3 HOH A2071 O 112.7 87.1 REMARK 620 4 HOH A2072 O 80.4 78.3 88.9 REMARK 620 5 HOH A2096 O 74.7 125.0 99.9 155.1 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B1329 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU B 238 OE1 REMARK 620 2 HOH B2070 O 68.1 REMARK 620 3 HOH B2071 O 87.5 75.9 REMARK 620 4 HOH B2091 O 65.3 131.7 89.9 REMARK 620 5 HOH B2095 O 141.3 85.9 114.2 140.6 REMARK 620 N 1 2 3 4 REMARK 700 REMARK 700 SHEET REMARK 700 DETERMINATION METHOD: DSSP REMARK 700 THE SHEETS PRESENTED AS "AA" IN EACH CHAIN ON SHEET RECORDS REMARK 700 BELOW IS ACTUALLY AN 11-STRANDED BARREL THIS IS REPRESENTED BY REMARK 700 A 12-STRANDED SHEET IN WHICH THE FIRST AND LAST STRANDS REMARK 700 ARE IDENTICAL. REMARK 700 THE SHEETS PRESENTED AS "BA" IN EACH CHAIN ON SHEET RECORDS REMARK 700 BELOW IS ACTUALLY AN 11-STRANDED BARREL THIS IS REPRESENTED BY REMARK 700 A 12-STRANDED SHEET IN WHICH THE FIRST AND LAST STRANDS REMARK 700 ARE IDENTICAL. REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A1329 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG B1329 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE DSB A1330 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE DSB B1330 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1W1Z RELATED DB: PDB REMARK 900 STRUCTURE OF THE PLANT LIKE 5- AMINOLAEVULINIC ACID DEHYDRATASE REMARK 900 FROM CHLOROBIUM VIBRIOFORME DBREF 2C1H A 1 328 UNP Q59334 HEM2_CHLVI 1 328 DBREF 2C1H B 1 328 UNP Q59334 HEM2_CHLVI 1 328 SEQRES 1 A 328 MET SER GLN LEU ASP LEU LEU ASN ILE VAL HIS ARG PRO SEQRES 2 A 328 ARG ARG LEU ARG ARG THR ALA ALA LEU ARG ASN LEU VAL SEQRES 3 A 328 GLN GLU ASN THR LEU THR VAL ASN ASP LEU VAL PHE PRO SEQRES 4 A 328 LEU PHE VAL MET PRO GLY THR ASN ALA VAL GLU GLU VAL SEQRES 5 A 328 SER SER MET PRO GLY SER PHE ARG PHE THR ILE ASP ARG SEQRES 6 A 328 ALA VAL GLU GLU CYS LYS GLU LEU TYR ASP LEU GLY ILE SEQRES 7 A 328 GLN GLY ILE ASP LEU PHE GLY ILE PRO GLU GLN LYS THR SEQRES 8 A 328 GLU ASP GLY SER GLU ALA TYR ASN ASP ASN GLY ILE LEU SEQRES 9 A 328 GLN GLN ALA ILE ARG ALA ILE LYS LYS ALA VAL PRO GLU SEQRES 10 A 328 LEU CYS ILE MET THR ASP VAL ALA LEU ASP PRO PHE THR SEQRES 11 A 328 PRO PHE GLY HIS ASP GLY LEU VAL LYS ASP GLY ILE ILE SEQRES 12 A 328 LEU ASN ASP GLU THR VAL GLU VAL LEU GLN LYS MET ALA SEQRES 13 A 328 VAL SER HIS ALA GLU ALA GLY ALA ASP PHE VAL SER PRO SEQRES 14 A 328 SER ASP MET MET ASP GLY ARG ILE GLY ALA ILE ARG GLU SEQRES 15 A 328 ALA LEU ASP GLU THR ASP HIS SER ASP VAL GLY ILE LEU SEQRES 16 A 328 SER TYR ALA ALA LYS TYR ALA SER SER PHE TYR GLY PRO SEQRES 17 A 328 PHE ARG ASP ALA LEU HIS SER ALA PRO GLN PHE GLY ASP SEQRES 18 A 328 LYS SER THR TYR GLN MET ASN PRO ALA ASN THR GLU GLU SEQRES 19 A 328 ALA MET LYS GLU VAL GLU LEU ASP ILE VAL GLU GLY ALA SEQRES 20 A 328 ASP ILE VAL MET VAL LYS PRO GLY LEU ALA TYR LEU ASP SEQRES 21 A 328 ILE VAL TRP ARG THR LYS GLU ARG PHE ASP VAL PRO VAL SEQRES 22 A 328 ALA ILE TYR HIS VAL SER GLY GLU TYR ALA MET VAL LYS SEQRES 23 A 328 ALA ALA ALA ALA LYS GLY TRP ILE ASP GLU ASP ARG VAL SEQRES 24 A 328 MET MET GLU SER LEU LEU CYS MET LYS ARG ALA GLY ALA SEQRES 25 A 328 ASP ILE ILE PHE THR TYR TYR ALA LYS GLU ALA ALA LYS SEQRES 26 A 328 LYS LEU ARG SEQRES 1 B 328 MET SER GLN LEU ASP LEU LEU ASN ILE VAL HIS ARG PRO SEQRES 2 B 328 ARG ARG LEU ARG ARG THR ALA ALA LEU ARG ASN LEU VAL SEQRES 3 B 328 GLN GLU ASN THR LEU THR VAL ASN ASP LEU VAL PHE PRO SEQRES 4 B 328 LEU PHE VAL MET PRO GLY THR ASN ALA VAL GLU GLU VAL SEQRES 5 B 328 SER SER MET PRO GLY SER PHE ARG PHE THR ILE ASP ARG SEQRES 6 B 328 ALA VAL GLU GLU CYS LYS GLU LEU TYR ASP LEU GLY ILE SEQRES 7 B 328 GLN GLY ILE ASP LEU PHE GLY ILE PRO GLU GLN LYS THR SEQRES 8 B 328 GLU ASP GLY SER GLU ALA TYR ASN ASP ASN GLY ILE LEU SEQRES 9 B 328 GLN GLN ALA ILE ARG ALA ILE LYS LYS ALA VAL PRO GLU SEQRES 10 B 328 LEU CYS ILE MET THR ASP VAL ALA LEU ASP PRO PHE THR SEQRES 11 B 328 PRO PHE GLY HIS ASP GLY LEU VAL LYS ASP GLY ILE ILE SEQRES 12 B 328 LEU ASN ASP GLU THR VAL GLU VAL LEU GLN LYS MET ALA SEQRES 13 B 328 VAL SER HIS ALA GLU ALA GLY ALA ASP PHE VAL SER PRO SEQRES 14 B 328 SER ASP MET MET ASP GLY ARG ILE GLY ALA ILE ARG GLU SEQRES 15 B 328 ALA LEU ASP GLU THR ASP HIS SER ASP VAL GLY ILE LEU SEQRES 16 B 328 SER TYR ALA ALA LYS TYR ALA SER SER PHE TYR GLY PRO SEQRES 17 B 328 PHE ARG ASP ALA LEU HIS SER ALA PRO GLN PHE GLY ASP SEQRES 18 B 328 LYS SER THR TYR GLN MET ASN PRO ALA ASN THR GLU GLU SEQRES 19 B 328 ALA MET LYS GLU VAL GLU LEU ASP ILE VAL GLU GLY ALA SEQRES 20 B 328 ASP ILE VAL MET VAL LYS PRO GLY LEU ALA TYR LEU ASP SEQRES 21 B 328 ILE VAL TRP ARG THR LYS GLU ARG PHE ASP VAL PRO VAL SEQRES 22 B 328 ALA ILE TYR HIS VAL SER GLY GLU TYR ALA MET VAL LYS SEQRES 23 B 328 ALA ALA ALA ALA LYS GLY TRP ILE ASP GLU ASP ARG VAL SEQRES 24 B 328 MET MET GLU SER LEU LEU CYS MET LYS ARG ALA GLY ALA SEQRES 25 B 328 ASP ILE ILE PHE THR TYR TYR ALA LYS GLU ALA ALA LYS SEQRES 26 B 328 LYS LEU ARG HET MG A1329 1 HET DSB A1330 14 HET MG B1329 1 HET DSB B1330 14 HETNAM MG MAGNESIUM ION HETNAM DSB 4,7-DIOXOSEBACIC ACID FORMUL 3 MG 2(MG 2+) FORMUL 4 DSB 2(C10 H14 O6) FORMUL 7 HOH *254(H2 O) HELIX 1 1 ARG A 12 ARG A 17 5 6 HELIX 2 2 THR A 19 GLN A 27 1 9 HELIX 3 3 THR A 32 ASN A 34 5 3 HELIX 4 4 THR A 62 LEU A 76 1 15 HELIX 5 5 GLY A 94 ASN A 99 5 6 HELIX 6 6 GLY A 102 VAL A 115 1 14 HELIX 7 7 LEU A 126 THR A 130 5 5 HELIX 8 8 ASN A 145 GLY A 163 1 19 HELIX 9 9 GLY A 175 THR A 187 1 13 HELIX 10 10 TYR A 206 LEU A 213 1 8 HELIX 11 11 THR A 232 GLY A 246 1 15 HELIX 12 12 GLY A 255 ALA A 257 5 3 HELIX 13 13 TYR A 258 ASP A 270 1 13 HELIX 14 14 VAL A 278 LYS A 291 1 14 HELIX 15 15 ASP A 295 GLY A 311 1 17 HELIX 16 16 TYR A 319 LEU A 327 1 9 HELIX 17 17 ARG B 12 ARG B 18 5 7 HELIX 18 18 THR B 19 GLN B 27 1 9 HELIX 19 19 THR B 32 ASN B 34 5 3 HELIX 20 20 THR B 62 LEU B 76 1 15 HELIX 21 21 GLY B 94 ASN B 99 5 6 HELIX 22 22 GLY B 102 VAL B 115 1 14 HELIX 23 23 ASN B 145 GLY B 163 1 19 HELIX 24 24 GLY B 175 THR B 187 1 13 HELIX 25 25 TYR B 206 LEU B 213 1 8 HELIX 26 26 THR B 232 GLY B 246 1 15 HELIX 27 27 GLY B 255 ALA B 257 5 3 HELIX 28 28 TYR B 258 GLU B 267 1 10 HELIX 29 29 VAL B 278 LYS B 291 1 14 HELIX 30 30 ASP B 295 ALA B 310 1 16 HELIX 31 31 TYR B 319 LEU B 327 1 9 SHEET 1 AA12 LEU A 36 VAL A 42 0 SHEET 2 AA12 ILE A 314 THR A 317 1 O ILE A 315 N VAL A 37 SHEET 3 AA12 VAL A 273 HIS A 277 1 O ILE A 275 N PHE A 316 SHEET 4 AA12 ILE A 249 LYS A 253 1 O VAL A 250 N ALA A 274 SHEET 5 AA12 GLY A 193 LYS A 200 1 O ILE A 194 N ILE A 249 SHEET 6 AA12 PHE A 166 SER A 168 1 O VAL A 167 N LEU A 195 SHEET 7 AA12 CYS A 119 ASP A 123 1 O ILE A 120 N PHE A 166 SHEET 8 AA12 GLY A 80 GLY A 85 1 O ILE A 81 N MET A 121 SHEET 9 AA12 LEU A 36 VAL A 42 1 O LEU A 36 N GLY A 80 SHEET 10 AA12 ILE A 314 THR A 317 1 O ILE A 315 N VAL A 37 SHEET 11 AA12 VAL A 273 HIS A 277 1 O ILE A 275 N PHE A 316 SHEET 12 AA12 LEU A 36 VAL A 42 0 SHEET 1 BA12 LEU B 36 VAL B 42 0 SHEET 2 BA12 ILE B 314 THR B 317 1 O ILE B 315 N VAL B 37 SHEET 3 BA12 VAL B 273 HIS B 277 1 O ILE B 275 N PHE B 316 SHEET 4 BA12 ILE B 249 LYS B 253 1 O VAL B 250 N ALA B 274 SHEET 5 BA12 GLY B 193 LYS B 200 1 O ILE B 194 N ILE B 249 SHEET 6 BA12 PHE B 166 PRO B 169 1 O VAL B 167 N LEU B 195 SHEET 7 BA12 CYS B 119 VAL B 124 1 O ILE B 120 N PHE B 166 SHEET 8 BA12 GLY B 80 GLY B 85 1 O ILE B 81 N MET B 121 SHEET 9 BA12 LEU B 36 VAL B 42 1 O LEU B 36 N GLY B 80 SHEET 10 BA12 ILE B 314 THR B 317 1 O ILE B 315 N VAL B 37 SHEET 11 BA12 VAL B 273 HIS B 277 1 O ILE B 275 N PHE B 316 SHEET 12 BA12 LEU B 36 VAL B 42 0 LINK NZ LYS A 200 C8 DSB A1330 1555 1555 2.02 LINK NZ LYS A 200 C7 DSB A1330 1555 1555 1.26 LINK NZ LYS A 253 C4 DSB A1330 1555 1555 1.26 LINK NZ LYS B 200 C7 DSB B1330 1555 1555 1.27 LINK NZ LYS B 253 C4 DSB B1330 1555 1555 1.27 LINK OE1 GLU A 238 MG MG A1329 1555 1555 2.23 LINK MG MG A1329 O HOH A2070 1555 1555 1.88 LINK MG MG A1329 O HOH A2071 1555 1555 2.05 LINK MG MG A1329 O HOH A2072 1555 1555 2.53 LINK MG MG A1329 O HOH A2096 1555 1555 1.95 LINK OE1 GLU B 238 MG MG B1329 1555 1555 2.39 LINK MG MG B1329 O HOH B2070 1555 1555 2.59 LINK MG MG B1329 O HOH B2071 1555 1555 2.30 LINK MG MG B1329 O HOH B2091 1555 1555 1.93 LINK MG MG B1329 O HOH B2095 1555 1555 1.79 CISPEP 1 LYS A 253 PRO A 254 0 -3.66 CISPEP 2 LYS B 253 PRO B 254 0 -3.12 SITE 1 AC1 6 ARG A 176 GLU A 238 HOH A2070 HOH A2071 SITE 2 AC1 6 HOH A2072 HOH A2096 SITE 1 AC2 7 ARG B 176 GLU B 238 ASP B 242 HOH B2070 SITE 2 AC2 7 HOH B2071 HOH B2091 HOH B2095 SITE 1 AC3 11 SER A 170 LYS A 200 TYR A 206 PHE A 209 SITE 2 AC3 11 ARG A 210 LYS A 222 LYS A 253 TYR A 276 SITE 3 AC3 11 VAL A 278 SER A 279 TYR A 318 SITE 1 AC4 13 SER B 170 LYS B 200 TYR B 206 PHE B 209 SITE 2 AC4 13 ARG B 210 LYS B 222 LYS B 253 TYR B 276 SITE 3 AC4 13 VAL B 278 SER B 279 TYR B 318 HOH B2125 SITE 4 AC4 13 HOH B2126 CRYST1 126.480 126.480 81.850 90.00 90.00 90.00 P 4 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 0.007906 0.000000 0.000000 0.00000 SCALE2 0.000000 0.007906 0.000000 0.00000 SCALE3 0.000000 0.000000 0.012217 0.00000