HEADER TRANSFERASE 21-JUN-99 1QJ3 TITLE CRYSTAL STRUCTURE OF 7,8-DIAMINOPELARGONIC ACID SYNTHASE IN COMPLEX TITLE 2 WITH 7-KETO-8-AMINOPELARGONIC ACID COMPND MOL_ID: 1; COMPND 2 MOLECULE: 7,8-DIAMINOPELARGONIC ACID SYNTHASE; COMPND 3 CHAIN: A, B; COMPND 4 EC: 2.6.1.62; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI BL21(DE3); SOURCE 3 ORGANISM_TAXID: 469008; SOURCE 4 CELLULAR_LOCATION: CYTOPLASM; SOURCE 5 GENE: BIOA; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_CELLULAR_LOCATION: CYTOPLASM; SOURCE 10 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 11 EXPRESSION_SYSTEM_PLASMID: PET24; SOURCE 12 EXPRESSION_SYSTEM_GENE: BIOA KEYWDS TRANSFERASE, AMINOTRANSFERASE, PYRIDOXAL-5'-PHOSPHATE, BIOTIN KEYWDS 2 BIOSYNTHESIS EXPDTA X-RAY DIFFRACTION AUTHOR H.KAECK,J.SANDMARK,K.J.GIBSON,Y.LINDQVIST,G.SCHNEIDER REVDAT 7 08-MAY-19 1QJ3 1 REMARK LINK REVDAT 6 24-OCT-18 1QJ3 1 SOURCE REVDAT 5 12-JUL-17 1QJ3 1 REVDAT 4 16-JUN-09 1QJ3 1 REMARK REVDAT 3 24-FEB-09 1QJ3 1 VERSN REVDAT 2 23-JAN-02 1QJ3 1 LINK REVDAT 1 22-JUN-00 1QJ3 0 JRNL AUTH H.KACK,J.SANDMARK,K.J.GIBSON,G.SCHNEIDER,Y.LINDQVIST JRNL TITL CRYSTAL STRUCTURE OF DIAMINOPELARGONIC ACID SYNTHASE; JRNL TITL 2 EVOLUTIONARY RELATIONSHIPS BETWEEN PYRIDOXAL-5'-PHOSPHATE JRNL TITL 3 DEPENDENT ENZYMES JRNL REF J.MOL.BIOL. V. 291 857 1999 JRNL REFN ISSN 0022-2836 JRNL PMID 10452893 JRNL DOI 10.1006/JMBI.1999.2997 REMARK 2 REMARK 2 RESOLUTION. 2.70 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN 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)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 21479 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) : NULL REMARK 3 R VALUE (WORKING SET) : 0.225 REMARK 3 FREE R VALUE : 0.279 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 6398 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 58 REMARK 3 SOLVENT ATOMS : 94 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 42.60 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 51.80 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 OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): NULL REMARK 3 ESU BASED ON FREE R VALUE (A): NULL REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): NULL REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 DISTANCE RESTRAINTS. RMS SIGMA REMARK 3 BOND LENGTH (A) : 0.009 ; 0.020 REMARK 3 ANGLE DISTANCE (A) : 0.033 ; 0.040 REMARK 3 INTRAPLANAR 1-4 DISTANCE (A) : 0.030 ; 0.050 REMARK 3 H-BOND OR METAL COORDINATION (A) : NULL ; NULL REMARK 3 REMARK 3 PLANE RESTRAINT (A) : 0.017 ; NULL REMARK 3 CHIRAL-CENTER RESTRAINT (A**3) : 0.113 ; 0.150 REMARK 3 REMARK 3 NON-BONDED CONTACT RESTRAINTS. REMARK 3 SINGLE TORSION (A) : 0.188 ; 0.300 REMARK 3 MULTIPLE TORSION (A) : 0.262 ; 0.300 REMARK 3 H-BOND (X...Y) (A) : 0.180 ; 0.300 REMARK 3 H-BOND (X-H...Y) (A) : NULL ; NULL REMARK 3 REMARK 3 CONFORMATIONAL TORSION ANGLE RESTRAINTS. REMARK 3 SPECIFIED (DEGREES) : 15.000; NULL REMARK 3 PLANAR (DEGREES) : 2.900 ; 7.000 REMARK 3 STAGGERED (DEGREES) : 18.700; 15.000 REMARK 3 TRANSVERSE (DEGREES) : 30.400; 20.000 REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : 1.977 ; 3.000 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 3.254 ; 5.000 REMARK 3 SIDE-CHAIN BOND (A**2) : 6.406 ; 6.000 REMARK 3 SIDE-CHAIN ANGLE (A**2) : 8.130 ; 8.000 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: DUE TO DISORDERED MAINCHAIN THE REMARK 3 FOLLOWING RESIDUES WERE REMOVED FROM THE MODEL OF CHAIN A: SER REMARK 3 160, MET 161, HIS 162, SER 163, LEU 164, TRP 165, LYS 166, GLY REMARK 3 167, TYR 168, ASP 183, GLY 300, ALA 301, GLN 429 DUE TO REMARK 3 DISORDERED MAINCHAIN THE FOLLOWING RESIDUES WERE REMOVED FROM REMARK 3 THE MODEL OF CHAIN B: SER 160, MET 161, HIS 162, SER 163, LEU REMARK 3 164, TRP 165, LYS 166, GLY 167, TYR 168, ASP 183, GLY 184, GLY REMARK 3 300, ALA 301, GLN 429 REMARK 4 REMARK 4 1QJ3 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 21-JUN-99. REMARK 100 THE DEPOSITION ID IS D_1290002626. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 15-OCT-98 REMARK 200 TEMPERATURE (KELVIN) : 100.0 REMARK 200 PH : 7.50 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 FR-D REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 21479 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.700 REMARK 200 RESOLUTION RANGE LOW (A) : 20.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 5.800 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.10400 REMARK 200 FOR THE DATA SET : 17.6000 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) : 2.82 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.7 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.32600 REMARK 200 FOR SHELL : 5.400 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: OTHER REMARK 200 SOFTWARE USED: CCP4 REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 30.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.06 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 25% PEG-4000, 20% MPD, 100MM HEPES REMARK 280 PH7.5, 5MM KAPA (7-KETO-8-AMINOPELARGONIC ACID), 20 DEGREES C, REMARK 280 MICROSEEDING., PH 7.50, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,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 27.97000 REMARK 290 SMTRY3 2 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 11060 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 26810 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -99.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 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 SER A 160 REMARK 465 MET A 161 REMARK 465 HIS A 162 REMARK 465 SER A 163 REMARK 465 LEU A 164 REMARK 465 TRP A 165 REMARK 465 LYS A 166 REMARK 465 GLY A 167 REMARK 465 TYR A 168 REMARK 465 ASP A 183 REMARK 465 GLU A 300 REMARK 465 ALA A 301 REMARK 465 GLN A 429 REMARK 465 SER B 160 REMARK 465 MET B 161 REMARK 465 HIS B 162 REMARK 465 SER B 163 REMARK 465 LEU B 164 REMARK 465 TRP B 165 REMARK 465 LYS B 166 REMARK 465 GLY B 167 REMARK 465 TYR B 168 REMARK 465 ASP B 183 REMARK 465 GLY B 184 REMARK 465 GLU B 300 REMARK 465 ALA B 301 REMARK 465 GLN B 429 REMARK 480 REMARK 480 ZERO OCCUPANCY ATOM REMARK 480 THE FOLLOWING RESIDUES HAVE ATOMS MODELED WITH ZERO REMARK 480 OCCUPANCY. THE LOCATION AND PROPERTIES OF THESE ATOMS REMARK 480 MAY NOT BE RELIABLE. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 480 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 480 M RES C SSEQI ATOMS REMARK 480 GLU B 185 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 HIS A 85 CE1 HIS A 85 NE2 -0.085 REMARK 500 HIS A 145 CE1 HIS A 145 NE2 -0.070 REMARK 500 HIS B 85 CE1 HIS B 85 NE2 -0.083 REMARK 500 HIS B 145 CE1 HIS B 145 NE2 -0.073 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 ARG A 11 NH1 - CZ - NH2 ANGL. DEV. = -8.3 DEGREES REMARK 500 ARG A 11 NE - CZ - NH1 ANGL. DEV. = -6.9 DEGREES REMARK 500 ARG A 11 NE - CZ - NH2 ANGL. DEV. = 15.2 DEGREES REMARK 500 LEU A 24 CA - CB - CG ANGL. DEV. = 19.2 DEGREES REMARK 500 HIS A 85 ND1 - CG - CD2 ANGL. DEV. = -14.7 DEGREES REMARK 500 HIS A 85 CG - ND1 - CE1 ANGL. DEV. = 12.4 DEGREES REMARK 500 ARG A 93 CD - NE - CZ ANGL. DEV. = 9.9 DEGREES REMARK 500 HIS A 145 CB - CG - CD2 ANGL. DEV. = 10.4 DEGREES REMARK 500 HIS A 145 ND1 - CG - CD2 ANGL. DEV. = -13.6 DEGREES REMARK 500 HIS A 145 CG - ND1 - CE1 ANGL. DEV. = 12.4 DEGREES REMARK 500 PHE A 149 CB - CG - CD1 ANGL. DEV. = -6.0 DEGREES REMARK 500 ARG A 181 CD - NE - CZ ANGL. DEV. = 8.7 DEGREES REMARK 500 HIS A 201 ND1 - CG - CD2 ANGL. DEV. = -9.2 DEGREES REMARK 500 ARG A 290 CD - NE - CZ ANGL. DEV. = 9.7 DEGREES REMARK 500 ARG A 290 NE - CZ - NH2 ANGL. DEV. = -3.2 DEGREES REMARK 500 ASP A 331 CB - CG - OD1 ANGL. DEV. = 5.5 DEGREES REMARK 500 GLN A 346 OE1 - CD - NE2 ANGL. DEV. = -19.7 DEGREES REMARK 500 GLN A 346 CG - CD - OE1 ANGL. DEV. = 19.7 DEGREES REMARK 500 GLU A 354 CA - CB - CG ANGL. DEV. = 13.8 DEGREES REMARK 500 ARG B 11 NE - CZ - NH1 ANGL. DEV. = -7.7 DEGREES REMARK 500 ARG B 11 NE - CZ - NH2 ANGL. DEV. = 14.2 DEGREES REMARK 500 LEU B 24 CA - CB - CG ANGL. DEV. = 19.1 DEGREES REMARK 500 HIS B 85 ND1 - CG - CD2 ANGL. DEV. = -14.6 DEGREES REMARK 500 HIS B 85 CG - ND1 - CE1 ANGL. DEV. = 11.2 DEGREES REMARK 500 HIS B 85 CG - CD2 - NE2 ANGL. DEV. = 11.5 DEGREES REMARK 500 ARG B 93 CD - NE - CZ ANGL. DEV. = 8.4 DEGREES REMARK 500 HIS B 145 ND1 - CG - CD2 ANGL. DEV. = -14.7 DEGREES REMARK 500 HIS B 145 CG - ND1 - CE1 ANGL. DEV. = 10.7 DEGREES REMARK 500 HIS B 145 CG - CD2 - NE2 ANGL. DEV. = 12.1 DEGREES REMARK 500 PHE B 149 CB - CG - CD2 ANGL. DEV. = 4.5 DEGREES REMARK 500 PHE B 149 CB - CG - CD1 ANGL. DEV. = -6.0 DEGREES REMARK 500 HIS B 201 CG - ND1 - CE1 ANGL. DEV. = 7.4 DEGREES REMARK 500 GLU B 226 OE1 - CD - OE2 ANGL. DEV. = -8.2 DEGREES REMARK 500 ARG B 290 NE - CZ - NH2 ANGL. DEV. = -4.4 DEGREES REMARK 500 ASP B 331 CB - CG - OD1 ANGL. DEV. = 5.8 DEGREES REMARK 500 GLN B 346 OE1 - CD - NE2 ANGL. DEV. = -21.4 DEGREES REMARK 500 GLN B 346 CG - CD - OE1 ANGL. DEV. = 18.0 DEGREES REMARK 500 GLU B 354 CA - CB - CG ANGL. DEV. = 14.5 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 TYR A 17 52.93 39.94 REMARK 500 TRP A 53 10.43 59.06 REMARK 500 MET A 75 124.47 172.10 REMARK 500 THR A 139 -169.95 -126.30 REMARK 500 ASP A 158 -67.87 -95.22 REMARK 500 ILE A 213 -58.53 60.52 REMARK 500 LYS A 274 -84.70 29.65 REMARK 500 MET A 305 61.86 -68.37 REMARK 500 ASN A 313 117.55 -27.54 REMARK 500 ALA A 364 40.86 -100.61 REMARK 500 PRO A 392 -179.33 -64.66 REMARK 500 PHE A 393 119.06 176.11 REMARK 500 TRP B 53 12.89 56.79 REMARK 500 MET B 75 125.18 170.85 REMARK 500 THR B 139 -168.23 -124.85 REMARK 500 SER B 180 101.88 -35.09 REMARK 500 ARG B 202 -44.78 -29.69 REMARK 500 ILE B 213 -56.07 59.81 REMARK 500 LYS B 274 -82.25 24.47 REMARK 500 ASN B 313 117.25 -27.67 REMARK 500 ALA B 364 41.17 -100.11 REMARK 500 PHE B 393 122.35 178.05 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 TRP A 52 -10.62 REMARK 500 REMARK 500 REMARK: NULL REMARK 600 REMARK 600 HETEROGEN REMARK 600 REMARK 600 PYRIDOXAL-5'-PHOSPHATE IS BOUND TO LYS 274 IN BOTH CHAINS 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 NA A1431 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 PRO A 100 O REMARK 620 2 VAL A 96 O 152.1 REMARK 620 3 THR A 99 OG1 101.0 76.3 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA B1431 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 LEU B 103 O REMARK 620 2 THR B 99 OG1 90.7 REMARK 620 3 VAL B 96 O 118.7 82.6 REMARK 620 N 1 2 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA A 1431 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA B 1431 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PLP A 1429 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PLP B 1429 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE KAP A 1430 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE KAP B 1430 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1QI5 RELATED DB: PDB REMARK 999 REMARK 999 SEQUENCE REMARK 999 FROM THE ELECTRON DENSITY TRP14 IS REINTERPRETED AS LEUCINE DBREF 1QJ3 A 1 429 UNP P12995 BIOA_ECOLI 1 429 DBREF 1QJ3 B 1 429 UNP P12995 BIOA_ECOLI 1 429 SEQADV 1QJ3 LEU A 14 UNP P12995 TRP 14 CONFLICT SEQADV 1QJ3 LEU B 14 UNP P12995 TRP 14 CONFLICT SEQRES 1 A 429 MET THR THR ASP ASP LEU ALA PHE ASP GLN ARG HIS ILE SEQRES 2 A 429 LEU HIS PRO TYR THR SER MET THR SER PRO LEU PRO VAL SEQRES 3 A 429 TYR PRO VAL VAL SER ALA GLU GLY CYS GLU LEU ILE LEU SEQRES 4 A 429 SER ASP GLY ARG ARG LEU VAL ASP GLY MET SER SER TRP SEQRES 5 A 429 TRP ALA ALA ILE HIS GLY TYR ASN HIS PRO GLN LEU ASN SEQRES 6 A 429 ALA ALA MET LYS SER GLN ILE ASP ALA MET SER HIS VAL SEQRES 7 A 429 MET PHE GLY GLY ILE THR HIS ALA PRO ALA ILE GLU LEU SEQRES 8 A 429 CYS ARG LYS LEU VAL ALA MET THR PRO GLN PRO LEU GLU SEQRES 9 A 429 CYS VAL PHE LEU ALA ASP SER GLY SER VAL ALA VAL GLU SEQRES 10 A 429 VAL ALA MET LYS MET ALA LEU GLN TYR TRP GLN ALA LYS SEQRES 11 A 429 GLY GLU ALA ARG GLN ARG PHE LEU THR PHE ARG ASN GLY SEQRES 12 A 429 TYR HIS GLY ASP THR PHE GLY ALA MET SER VAL CYS ASP SEQRES 13 A 429 PRO ASP ASN SER MET HIS SER LEU TRP LYS GLY TYR LEU SEQRES 14 A 429 PRO GLU ASN LEU PHE ALA PRO ALA PRO GLN SER ARG MET SEQRES 15 A 429 ASP GLY GLU TRP ASP GLU ARG ASP MET VAL GLY PHE ALA SEQRES 16 A 429 ARG LEU MET ALA ALA HIS ARG HIS GLU ILE ALA ALA VAL SEQRES 17 A 429 ILE ILE GLU PRO ILE VAL GLN GLY ALA GLY GLY MET ARG SEQRES 18 A 429 MET TYR HIS PRO GLU TRP LEU LYS ARG ILE ARG LYS ILE SEQRES 19 A 429 CYS ASP ARG GLU GLY ILE LEU LEU ILE ALA ASP GLU ILE SEQRES 20 A 429 ALA THR GLY PHE GLY ARG THR GLY LYS LEU PHE ALA CYS SEQRES 21 A 429 GLU HIS ALA GLU ILE ALA PRO ASP ILE LEU CYS LEU GLY SEQRES 22 A 429 LYS ALA LEU THR GLY GLY THR MET THR LEU SER ALA THR SEQRES 23 A 429 LEU THR THR ARG GLU VAL ALA GLU THR ILE SER ASN GLY SEQRES 24 A 429 GLU ALA GLY CYS PHE MET HIS GLY PRO THR PHE MET GLY SEQRES 25 A 429 ASN PRO LEU ALA CYS ALA ALA ALA ASN ALA SER LEU ALA SEQRES 26 A 429 ILE LEU GLU SER GLY ASP TRP GLN GLN GLN VAL ALA ASP SEQRES 27 A 429 ILE GLU VAL GLN LEU ARG GLU GLN LEU ALA PRO ALA ARG SEQRES 28 A 429 ASP ALA GLU MET VAL ALA ASP VAL ARG VAL LEU GLY ALA SEQRES 29 A 429 ILE GLY VAL VAL GLU THR THR HIS PRO VAL ASN MET ALA SEQRES 30 A 429 ALA LEU GLN LYS PHE PHE VAL GLU GLN GLY VAL TRP ILE SEQRES 31 A 429 ARG PRO PHE GLY LYS LEU ILE TYR LEU MET PRO PRO TYR SEQRES 32 A 429 ILE ILE LEU PRO GLN GLN LEU GLN ARG LEU THR ALA ALA SEQRES 33 A 429 VAL ASN ARG ALA VAL GLN ASP GLU THR PHE PHE CYS GLN SEQRES 1 B 429 MET THR THR ASP ASP LEU ALA PHE ASP GLN ARG HIS ILE SEQRES 2 B 429 LEU HIS PRO TYR THR SER MET THR SER PRO LEU PRO VAL SEQRES 3 B 429 TYR PRO VAL VAL SER ALA GLU GLY CYS GLU LEU ILE LEU SEQRES 4 B 429 SER ASP GLY ARG ARG LEU VAL ASP GLY MET SER SER TRP SEQRES 5 B 429 TRP ALA ALA ILE HIS GLY TYR ASN HIS PRO GLN LEU ASN SEQRES 6 B 429 ALA ALA MET LYS SER GLN ILE ASP ALA MET SER HIS VAL SEQRES 7 B 429 MET PHE GLY GLY ILE THR HIS ALA PRO ALA ILE GLU LEU SEQRES 8 B 429 CYS ARG LYS LEU VAL ALA MET THR PRO GLN PRO LEU GLU SEQRES 9 B 429 CYS VAL PHE LEU ALA ASP SER GLY SER VAL ALA VAL GLU SEQRES 10 B 429 VAL ALA MET LYS MET ALA LEU GLN TYR TRP GLN ALA LYS SEQRES 11 B 429 GLY GLU ALA ARG GLN ARG PHE LEU THR PHE ARG ASN GLY SEQRES 12 B 429 TYR HIS GLY ASP THR PHE GLY ALA MET SER VAL CYS ASP SEQRES 13 B 429 PRO ASP ASN SER MET HIS SER LEU TRP LYS GLY TYR LEU SEQRES 14 B 429 PRO GLU ASN LEU PHE ALA PRO ALA PRO GLN SER ARG MET SEQRES 15 B 429 ASP GLY GLU TRP ASP GLU ARG ASP MET VAL GLY PHE ALA SEQRES 16 B 429 ARG LEU MET ALA ALA HIS ARG HIS GLU ILE ALA ALA VAL SEQRES 17 B 429 ILE ILE GLU PRO ILE VAL GLN GLY ALA GLY GLY MET ARG SEQRES 18 B 429 MET TYR HIS PRO GLU TRP LEU LYS ARG ILE ARG LYS ILE SEQRES 19 B 429 CYS ASP ARG GLU GLY ILE LEU LEU ILE ALA ASP GLU ILE SEQRES 20 B 429 ALA THR GLY PHE GLY ARG THR GLY LYS LEU PHE ALA CYS SEQRES 21 B 429 GLU HIS ALA GLU ILE ALA PRO ASP ILE LEU CYS LEU GLY SEQRES 22 B 429 LYS ALA LEU THR GLY GLY THR MET THR LEU SER ALA THR SEQRES 23 B 429 LEU THR THR ARG GLU VAL ALA GLU THR ILE SER ASN GLY SEQRES 24 B 429 GLU ALA GLY CYS PHE MET HIS GLY PRO THR PHE MET GLY SEQRES 25 B 429 ASN PRO LEU ALA CYS ALA ALA ALA ASN ALA SER LEU ALA SEQRES 26 B 429 ILE LEU GLU SER GLY ASP TRP GLN GLN GLN VAL ALA ASP SEQRES 27 B 429 ILE GLU VAL GLN LEU ARG GLU GLN LEU ALA PRO ALA ARG SEQRES 28 B 429 ASP ALA GLU MET VAL ALA ASP VAL ARG VAL LEU GLY ALA SEQRES 29 B 429 ILE GLY VAL VAL GLU THR THR HIS PRO VAL ASN MET ALA SEQRES 30 B 429 ALA LEU GLN LYS PHE PHE VAL GLU GLN GLY VAL TRP ILE SEQRES 31 B 429 ARG PRO PHE GLY LYS LEU ILE TYR LEU MET PRO PRO TYR SEQRES 32 B 429 ILE ILE LEU PRO GLN GLN LEU GLN ARG LEU THR ALA ALA SEQRES 33 B 429 VAL ASN ARG ALA VAL GLN ASP GLU THR PHE PHE CYS GLN HET PLP A1429 15 HET KAP A1430 13 HET NA A1431 1 HET PLP B1429 15 HET KAP B1430 13 HET NA B1431 1 HETNAM PLP PYRIDOXAL-5'-PHOSPHATE HETNAM KAP 7-KETO-8-AMINOPELARGONIC ACID HETNAM NA SODIUM ION HETSYN PLP VITAMIN B6 PHOSPHATE FORMUL 3 PLP 2(C8 H10 N O6 P) FORMUL 4 KAP 2(C9 H17 N O3) FORMUL 5 NA 2(NA 1+) FORMUL 9 HOH *94(H2 O) HELIX 1 1 THR A 2 ILE A 13 1 12 HELIX 2 2 MET A 49 ALA A 54 1 6 HELIX 3 3 HIS A 61 MET A 75 1 15 HELIX 4 4 HIS A 85 THR A 99 1 15 HELIX 5 5 SER A 111 LYS A 130 1 20 HELIX 6 6 THR A 148 CYS A 155 1 8 HELIX 7 7 ASP A 187 ASP A 190 5 4 HELIX 8 8 MET A 191 ARG A 202 1 12 HELIX 9 9 PRO A 225 GLY A 239 1 15 HELIX 10 10 PHE A 258 GLU A 264 5 7 HELIX 11 11 GLY A 273 GLY A 278 5 6 HELIX 12 12 ARG A 290 GLY A 299 1 10 HELIX 13 13 ASN A 313 SER A 329 1 17 HELIX 14 14 ASP A 331 ALA A 348 1 18 HELIX 15 15 PRO A 349 ALA A 353 5 5 HELIX 16 16 ASN A 375 GLN A 386 1 12 HELIX 17 17 LEU A 406 VAL A 421 1 16 HELIX 18 18 ASP A 423 PHE A 426 5 4 HELIX 19 19 THR B 2 ILE B 13 1 12 HELIX 20 20 MET B 49 ALA B 54 1 6 HELIX 21 21 HIS B 61 MET B 75 1 15 HELIX 22 22 HIS B 85 THR B 99 1 15 HELIX 23 23 SER B 111 LYS B 130 1 20 HELIX 24 24 THR B 148 CYS B 155 1 8 HELIX 25 25 ASP B 190 ARG B 202 1 13 HELIX 26 26 PRO B 225 GLY B 239 1 15 HELIX 27 27 PHE B 258 GLU B 264 5 7 HELIX 28 28 GLY B 273 GLY B 278 5 6 HELIX 29 29 ARG B 290 GLY B 299 1 10 HELIX 30 30 ASN B 313 SER B 329 1 17 HELIX 31 31 ASP B 331 ALA B 348 1 18 HELIX 32 32 PRO B 349 ALA B 353 5 5 HELIX 33 33 ASN B 375 GLN B 386 1 12 HELIX 34 34 LEU B 406 VAL B 421 1 16 HELIX 35 35 ASP B 423 PHE B 426 5 4 SHEET 1 A 3 ARG A 44 VAL A 46 0 SHEET 2 A 3 GLU A 36 LEU A 39 -1 N LEU A 37 O LEU A 45 SHEET 3 A 3 VAL A 29 GLU A 33 -1 N GLU A 33 O GLU A 36 SHEET 1 B 7 LEU A 173 ALA A 175 0 SHEET 2 B 7 ARG A 136 PHE A 140 1 N THR A 139 O LEU A 173 SHEET 3 B 7 ILE A 205 ILE A 210 1 N ALA A 206 O ARG A 136 SHEET 4 B 7 LEU A 241 ASP A 245 1 N LEU A 241 O VAL A 208 SHEET 5 B 7 ILE A 269 LEU A 272 1 N ILE A 269 O ALA A 244 SHEET 6 B 7 SER A 284 THR A 289 -1 N LEU A 287 O LEU A 270 SHEET 7 B 7 LEU A 103 ALA A 109 -1 N ALA A 109 O SER A 284 SHEET 1 C 3 LEU A 396 LEU A 399 0 SHEET 2 C 3 ILE A 365 THR A 370 -1 N VAL A 368 O ILE A 397 SHEET 3 C 3 VAL A 356 LEU A 362 -1 N LEU A 362 O ILE A 365 SHEET 1 D 3 ARG B 44 VAL B 46 0 SHEET 2 D 3 GLU B 36 LEU B 39 -1 N LEU B 37 O LEU B 45 SHEET 3 D 3 VAL B 29 GLU B 33 -1 N GLU B 33 O GLU B 36 SHEET 1 E 7 LEU B 173 ALA B 175 0 SHEET 2 E 7 ARG B 136 PHE B 140 1 N THR B 139 O LEU B 173 SHEET 3 E 7 ILE B 205 ILE B 210 1 N ALA B 206 O ARG B 136 SHEET 4 E 7 LEU B 241 ASP B 245 1 N LEU B 241 O VAL B 208 SHEET 5 E 7 ILE B 269 LEU B 272 1 N ILE B 269 O ALA B 244 SHEET 6 E 7 SER B 284 THR B 289 -1 N LEU B 287 O LEU B 270 SHEET 7 E 7 LEU B 103 ALA B 109 -1 N ALA B 109 O SER B 284 SHEET 1 F 3 LEU B 396 LEU B 399 0 SHEET 2 F 3 ILE B 365 THR B 370 -1 N VAL B 368 O ILE B 397 SHEET 3 F 3 VAL B 356 LEU B 362 -1 N LEU B 362 O ILE B 365 LINK NZ LYS A 274 C4A PLP A1429 1555 1555 1.27 LINK NA NA A1431 O PRO A 100 1555 1555 2.40 LINK NA NA A1431 O VAL A 96 1555 1555 2.45 LINK NA NA A1431 OG1 THR A 99 1555 1555 2.46 LINK NZ LYS B 274 C4A PLP B1429 1555 1555 1.28 LINK NA NA B1431 O LEU B 103 1555 1555 2.56 LINK NA NA B1431 OG1 THR B 99 1555 1555 2.32 LINK NA NA B1431 O VAL B 96 1555 1555 2.27 SITE 1 AC1 4 VAL A 96 THR A 99 PRO A 100 LEU A 103 SITE 1 AC2 4 VAL B 96 THR B 99 PRO B 100 LEU B 103 SITE 1 AC3 13 TRP A 53 GLY A 112 SER A 113 TYR A 144 SITE 2 AC3 13 HIS A 145 GLY A 146 ASP A 245 ILE A 247 SITE 3 AC3 13 ALA A 248 LYS A 274 KAP A1430 HOH A2055 SITE 4 AC3 13 THR B 309 SITE 1 AC4 13 PRO A 308 THR A 309 TRP B 53 GLY B 112 SITE 2 AC4 13 SER B 113 TYR B 144 HIS B 145 GLY B 146 SITE 3 AC4 13 ASP B 245 ILE B 247 ALA B 248 LYS B 274 SITE 4 AC4 13 KAP B1430 SITE 1 AC5 10 TYR A 17 TRP A 52 TYR A 144 LYS A 274 SITE 2 AC5 10 ARG A 391 PHE A 393 PLP A1429 HOH A2052 SITE 3 AC5 10 GLY B 307 THR B 309 SITE 1 AC6 9 GLY A 307 TYR B 17 TRP B 52 TYR B 144 SITE 2 AC6 9 LYS B 274 ARG B 391 PHE B 393 PLP B1429 SITE 3 AC6 9 HOH B2036 CRYST1 57.970 55.940 120.840 90.00 95.69 90.00 P 1 21 1 4 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 0.017250 0.000000 0.001719 0.00000 SCALE2 0.000000 0.017876 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008316 0.00000 MTRIX1 1 -0.999950 0.010190 0.000700 -48.67630 1 MTRIX2 1 0.010190 0.990510 0.137060 -11.99800 1 MTRIX3 1 0.000700 0.137060 -0.990560 177.85899 1