HEADER AMINOTRANSFERASE 21-JUN-99 1QJ5 TITLE CRYSTAL STRUCTURE OF 7,8-DIAMINOPELARGONIC ACID SYNTHASE 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 AMINOTRANSFERASE, PYRIDOXAL-5'-PHOSPHATE, BIOTIN BIOSYNTHESIS EXPDTA X-RAY DIFFRACTION AUTHOR H.KACK,J.SANDMARK,K.J.GIBSON,Y.LINDQVIST,G.SCHNEIDER REVDAT 8 24-JUL-19 1QJ5 1 REMARK REVDAT 7 10-JUL-19 1QJ5 1 REMARK LINK REVDAT 6 24-OCT-18 1QJ5 1 SOURCE REMARK REVDAT 5 24-FEB-09 1QJ5 1 VERSN REVDAT 4 01-AUG-03 1QJ5 1 HETNAM HETSYN CRYST1 REVDAT 3 23-JAN-02 1QJ5 1 LINK REVDAT 2 08-MAR-01 1QJ5 1 HET HETSYN FORMUL LINK REVDAT 2 2 1 HETATM REVDAT 1 22-JUN-00 1QJ5 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. 1.80 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) : 1.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 20.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 94.4 REMARK 3 NUMBER OF REFLECTIONS : 67496 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) : 0.175 REMARK 3 FREE R VALUE : 0.226 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 : 6608 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 32 REMARK 3 SOLVENT ATOMS : 556 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 17.70 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 21.20 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) : 0.010 ; 0.020 REMARK 3 ANGLE DISTANCE (A) : 0.027 ; 0.040 REMARK 3 INTRAPLANAR 1-4 DISTANCE (A) : 0.031 ; 0.050 REMARK 3 H-BOND OR METAL COORDINATION (A) : NULL ; NULL REMARK 3 REMARK 3 PLANE RESTRAINT (A) : 0.020 ; NULL REMARK 3 CHIRAL-CENTER RESTRAINT (A**3) : NULL ; NULL REMARK 3 REMARK 3 NON-BONDED CONTACT RESTRAINTS. REMARK 3 SINGLE TORSION (A) : 0.175 ; 0.300 REMARK 3 MULTIPLE TORSION (A) : 0.260 ; 0.300 REMARK 3 H-BOND (X...Y) (A) : NULL ; NULL 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) : 3.500 ; 7.000 REMARK 3 STAGGERED (DEGREES) : 16.400; 15.000 REMARK 3 TRANSVERSE (DEGREES) : NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : 1.838 ; 3.000 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 2.407 ; 5.000 REMARK 3 SIDE-CHAIN BOND (A**2) : 4.164 ; 6.000 REMARK 3 SIDE-CHAIN ANGLE (A**2) : 5.294 ; 8.000 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: BREAK IN CHAIN A, RESIDUE ASP 183 IS REMARK 3 MISSING DUE TO DISORDER. ONLY MAIN-CHAIN ATOMS AND THE CB ATOM REMARK 3 IS INCLUDED FOR GLU185 CHAIN B, DUE TO DISORDER. ONLY BACKBONE REMARK 3 OF C-TERMINAL RESIDUE WAS SEEN IN ELECTRON DENSITY REMARK 4 REMARK 4 1QJ5 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_1290002625. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 15-OCT-96 REMARK 200 TEMPERATURE (KELVIN) : 100.0 REMARK 200 PH : 6.70 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : EMBL/DESY, HAMBURG REMARK 200 BEAMLINE : X11 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.8265, 0.9082, 0.9918, 1.007 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 : 149599 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.800 REMARK 200 RESOLUTION RANGE LOW (A) : 20.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 94.4 REMARK 200 DATA REDUNDANCY : 2.200 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.06800 REMARK 200 FOR THE DATA SET : 14.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.80 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.86 REMARK 200 COMPLETENESS FOR SHELL (%) : 81.3 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.30500 REMARK 200 FOR SHELL : 2.800 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: MAD REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MAD 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): 2.20 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PH 6.70 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 27.77800 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 300 REMARK: BIOLOGICAL_UNIT: DIMERIC 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PQS REMARK 350 TOTAL BURIED SURFACE AREA: 12390 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 33460 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -94.9 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 ASP A 183 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 B 185 CG CD OE1 OE2 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 OG SER A 180 OD2 ASP A 190 1.88 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 O ARG A 351 NE2 GLN A 408 2645 2.07 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 141 NE - CZ - NH1 ANGL. DEV. = 3.9 DEGREES REMARK 500 ARG A 230 NE - CZ - NH2 ANGL. DEV. = 3.1 DEGREES REMARK 500 LYS A 274 CA - CB - CG ANGL. DEV. = 14.6 DEGREES REMARK 500 LYS A 274 CD - CE - NZ ANGL. DEV. = 16.8 DEGREES REMARK 500 LYS A 274 CA - C - O ANGL. DEV. = 33.6 DEGREES REMARK 500 LYS A 274 O - C - N ANGL. DEV. = -26.8 DEGREES REMARK 500 ARG A 290 NE - CZ - NH2 ANGL. DEV. = -4.1 DEGREES REMARK 500 ARG A 351 CA - C - N ANGL. DEV. = 16.0 DEGREES REMARK 500 ARG A 391 NE - CZ - NH2 ANGL. DEV. = -3.9 DEGREES REMARK 500 CYS A 428 CB - CA - C ANGL. DEV. = 8.4 DEGREES REMARK 500 TYR B 144 CB - CG - CD1 ANGL. DEV. = -3.9 DEGREES REMARK 500 ARG B 221 NE - CZ - NH1 ANGL. DEV. = 3.5 DEGREES REMARK 500 ARG B 221 NE - CZ - NH2 ANGL. DEV. = -4.7 DEGREES REMARK 500 ARG B 230 NE - CZ - NH2 ANGL. DEV. = 4.0 DEGREES REMARK 500 LYS B 274 CA - C - O ANGL. DEV. = 33.5 DEGREES REMARK 500 LYS B 274 O - C - N ANGL. DEV. = -27.9 DEGREES REMARK 500 ARG B 290 CD - NE - CZ ANGL. DEV. = 49.2 DEGREES REMARK 500 ARG B 290 NE - CZ - NH1 ANGL. DEV. = -3.0 DEGREES REMARK 500 ARG B 344 CD - NE - CZ ANGL. DEV. = 16.1 DEGREES REMARK 500 ARG B 391 NE - CZ - NH2 ANGL. DEV. = -5.4 DEGREES REMARK 500 CYS B 428 C - N - CA ANGL. DEV. = 15.4 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 53.95 36.78 REMARK 500 TRP A 52 76.88 62.99 REMARK 500 TRP A 53 -38.49 74.45 REMARK 500 MET A 75 125.22 -176.96 REMARK 500 ILE A 213 -44.93 67.71 REMARK 500 LYS A 274 -90.97 38.60 REMARK 500 ASN A 313 117.84 -39.84 REMARK 500 ARG A 351 4.35 -66.41 REMARK 500 ALA A 364 42.39 -96.97 REMARK 500 CYS A 428 -79.39 75.66 REMARK 500 TYR B 17 60.00 38.49 REMARK 500 TRP B 52 78.87 67.09 REMARK 500 TRP B 53 -40.01 68.19 REMARK 500 MET B 75 123.81 -174.38 REMARK 500 ILE B 213 -49.44 67.71 REMARK 500 LYS B 274 -90.65 38.44 REMARK 500 ASN B 313 115.71 -36.46 REMARK 500 ALA B 364 42.09 -92.52 REMARK 500 CYS B 428 -68.30 100.44 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 LYS A 274 -10.56 REMARK 500 LYS B 274 -10.23 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 K A 501 K REMARK 620 N RES CSSEQI ATOM REMARK 620 1 PRO A 100 O REMARK 620 2 VAL A 96 O 147.3 REMARK 620 3 THR A 99 O 67.9 83.2 REMARK 620 4 THR A 99 OG1 103.6 82.6 75.6 REMARK 620 5 LEU A 103 O 95.3 116.8 154.9 91.3 REMARK 620 6 HOH A2104 O 92.6 84.7 112.9 163.7 85.4 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 K B 501 K REMARK 620 N RES CSSEQI ATOM REMARK 620 1 PRO B 100 O REMARK 620 2 VAL B 96 O 144.3 REMARK 620 3 HOH B2109 O 92.6 85.5 REMARK 620 4 THR B 99 O 66.7 80.4 109.5 REMARK 620 5 LEU B 103 O 99.3 116.2 88.2 157.2 REMARK 620 6 THR B 99 OG1 102.5 80.2 164.5 74.0 92.8 REMARK 620 N 1 2 3 4 5 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE K A 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE K B 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PLP A 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PLP B 502 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1QI3 RELATED DB: PDB REMARK 999 REMARK 999 SEQUENCE REMARK 999 TRP14 IS OBSERVED AS A LEU RESIDUE. DBREF 1QJ5 A 1 429 UNP P12995 BIOA_ECOLI 1 429 DBREF 1QJ5 B 1 429 UNP P12995 BIOA_ECOLI 1 429 SEQADV 1QJ5 LEU A 14 UNP P12995 TRP 14 CONFLICT SEQADV 1QJ5 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 K A 501 1 HET PLP A 502 15 HET K B 501 1 HET PLP B 502 15 HETNAM K POTASSIUM ION HETNAM PLP PYRIDOXAL-5'-PHOSPHATE HETSYN PLP VITAMIN B6 PHOSPHATE FORMUL 3 K 2(K 1+) FORMUL 4 PLP 2(C8 H10 N O6 P) FORMUL 7 HOH *556(H2 O) HELIX 1 1 THR A 3 HIS A 12 1 10 HELIX 2 2 PRO A 62 ALA A 74 1 13 HELIX 3 3 ALA A 86 MET A 98 1 13 HELIX 4 4 GLY A 112 ALA A 129 1 18 HELIX 5 5 PHE A 149 VAL A 154 1 6 HELIX 6 6 HIS A 162 TRP A 165 5 4 HELIX 7 7 GLU A 188 HIS A 201 5 14 HELIX 8 8 PRO A 225 GLU A 238 5 14 HELIX 9 9 ALA A 259 ALA A 263 5 5 HELIX 10 10 ARG A 290 SER A 297 1 8 HELIX 11 11 PRO A 314 SER A 329 1 16 HELIX 12 12 ASP A 331 ASP A 352 1 22 HELIX 13 13 MET A 376 GLN A 386 1 11 HELIX 14 14 PRO A 407 VAL A 421 1 15 HELIX 15 15 GLU A 424 PHE A 426 5 3 HELIX 16 16 THR B 3 HIS B 12 1 10 HELIX 17 17 PRO B 62 ALA B 74 1 13 HELIX 18 18 ALA B 86 MET B 98 1 13 HELIX 19 19 GLY B 112 LYS B 130 1 19 HELIX 20 20 PHE B 149 VAL B 154 1 6 HELIX 21 21 HIS B 162 TRP B 165 5 4 HELIX 22 22 GLU B 188 GLU B 204 5 17 HELIX 23 23 PRO B 225 GLU B 238 5 14 HELIX 24 24 ALA B 259 HIS B 262 5 4 HELIX 25 25 ARG B 290 ASN B 298 1 9 HELIX 26 26 PRO B 314 SER B 329 1 16 HELIX 27 27 ASP B 331 ASP B 352 1 22 HELIX 28 28 MET B 376 GLN B 386 1 11 HELIX 29 29 PRO B 407 ALA B 420 1 14 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 A 502 1555 1555 1.28 LINK K K A 501 O PRO A 100 1555 1555 2.66 LINK K K A 501 O VAL A 96 1555 1555 2.48 LINK K K A 501 O THR A 99 1555 1555 2.76 LINK K K A 501 OG1 THR A 99 1555 1555 2.63 LINK K K A 501 O LEU A 103 1555 1555 2.51 LINK K K A 501 O HOH A2104 1555 1555 2.54 LINK NZ LYS B 274 C4A PLP B 502 1555 1555 1.27 LINK K K B 501 O PRO B 100 1555 1555 2.63 LINK K K B 501 O VAL B 96 1555 1555 2.52 LINK K K B 501 O HOH B2109 1555 1555 2.52 LINK K K B 501 O THR B 99 1555 1555 2.68 LINK K K B 501 O LEU B 103 1555 1555 2.48 LINK K K B 501 OG1 THR B 99 1555 1555 2.65 SITE 1 AC1 5 VAL A 96 THR A 99 PRO A 100 LEU A 103 SITE 2 AC1 5 HOH A2104 SITE 1 AC2 5 VAL B 96 THR B 99 PRO B 100 LEU B 103 SITE 2 AC2 5 HOH B2109 SITE 1 AC3 15 GLY A 112 SER A 113 TYR A 144 HIS A 145 SITE 2 AC3 15 GLU A 211 ASP A 245 ILE A 247 ALA A 248 SITE 3 AC3 15 LYS A 274 HOH A2165 HOH A2193 HOH A2277 SITE 4 AC3 15 THR B 309 HOH B2115 HOH B2116 SITE 1 AC4 15 PRO A 308 THR A 309 HOH A2110 GLY B 112 SITE 2 AC4 15 SER B 113 TYR B 144 HIS B 145 GLU B 211 SITE 3 AC4 15 ASP B 245 ILE B 247 ALA B 248 LYS B 274 SITE 4 AC4 15 HOH B2119 HOH B2131 HOH B2197 CRYST1 58.338 55.556 120.884 90.00 96.97 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 0.017141 0.000000 0.002095 0.00000 SCALE2 0.000000 0.018000 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008334 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