HEADER ALLOSTERY 27-MAR-98 1TDJ TITLE THREONINE DEAMINASE (BIOSYNTHETIC) FROM E. COLI COMPND MOL_ID: 1; COMPND 2 MOLECULE: BIOSYNTHETIC THREONINE DEAMINASE; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: THREONINE DEHYDRATASE; COMPND 5 EC: 4.2.1.16; COMPND 6 OTHER_DETAILS: SCHIFF BASE LINKAGE BETWEEN LYS 62 AND PLP SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 3 ORGANISM_TAXID: 562; SOURCE 4 CELLULAR_LOCATION: CYTOPLASM KEYWDS ALLOSTERY, COOPERATIVE, TETRAMER, REGULATION, PYRIDOXAL PHOSPHATE, KEYWDS 2 ISOLEUCINE BIOSYNTHESIS EXPDTA X-RAY DIFFRACTION AUTHOR D.T.GALLAGHER,G.L.GILLILAND,G.XIAO,E.EISENSTEIN REVDAT 4 13-JUL-11 1TDJ 1 VERSN REVDAT 3 24-FEB-09 1TDJ 1 VERSN REVDAT 2 18-NOV-98 1TDJ 1 REMARK MODRES KEYWDS REVDAT 1 14-OCT-98 1TDJ 0 JRNL AUTH D.T.GALLAGHER,G.L.GILLILAND,G.XIAO,J.ZONDLO,K.E.FISHER, JRNL AUTH 2 D.CHINCHILLA,E.EISENSTEIN JRNL TITL STRUCTURE AND CONTROL OF PYRIDOXAL PHOSPHATE DEPENDENT JRNL TITL 2 ALLOSTERIC THREONINE DEAMINASE. JRNL REF STRUCTURE V. 6 465 1998 JRNL REFN ISSN 0969-2126 JRNL PMID 9562556 JRNL DOI 10.1016/S0969-2126(98)00048-3 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH D.T.GALLAGHER,E.EISENSTEIN,K.E.FISHER,J.ZONDLO,D.CHINCHILLA, REMARK 1 AUTH 2 H.D.YU,J.DILL,E.WINBORNE,K.DUCOTE,G.XIAO,G.L.GILLILAND REMARK 1 TITL POLYMORPHOUS CRYSTALLIZATION AND DIFFRACTION OF THREONINE REMARK 1 TITL 2 DEAMINASE FROM ESCHERICHIA COLI REMARK 1 REF ACTA CRYSTALLOGR.,SECT.D V. 54 467 1998 REMARK 1 REFN ISSN 0907-4449 REMARK 2 REMARK 2 RESOLUTION. 2.80 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : TNT V. 5-E REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 16.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 86.0 REMARK 3 NUMBER OF REFLECTIONS : 13542 REMARK 3 REMARK 3 USING DATA ABOVE SIGMA CUTOFF. REMARK 3 CROSS-VALIDATION METHOD : FREE R REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM SUBSET REMARK 3 R VALUE (WORKING + TEST SET) : 0.210 REMARK 3 R VALUE (WORKING SET) : 0.200 REMARK 3 FREE R VALUE : 0.340 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 7.500 REMARK 3 FREE R VALUE TEST SET COUNT : 1009 REMARK 3 REMARK 3 USING ALL DATA, NO SIGMA CUTOFF. REMARK 3 R VALUE (WORKING + TEST SET, NO CUTOFF) : 0.2100 REMARK 3 R VALUE (WORKING SET, NO CUTOFF) : 0.2000 REMARK 3 FREE R VALUE (NO CUTOFF) : 0.340 REMARK 3 FREE R VALUE TEST SET SIZE (%, NO CUTOFF) : 7.50 REMARK 3 FREE R VALUE TEST SET COUNT (NO CUTOFF) : 1009 REMARK 3 TOTAL NUMBER OF REFLECTIONS (NO CUTOFF) : 13542 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3800 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 15 REMARK 3 SOLVENT ATOMS : 33 REMARK 3 REMARK 3 WILSON B VALUE (FROM FCALC, A**2) : 28.300 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. RMS WEIGHT COUNT REMARK 3 BOND LENGTHS (A) : 0.020 ; 0.800 ; 3891 REMARK 3 BOND ANGLES (DEGREES) : 2.900 ; 1.700 ; 5238 REMARK 3 TORSION ANGLES (DEGREES) : 21.400; 0.000 ; 2330 REMARK 3 PSEUDOROTATION ANGLES (DEGREES) : NULL ; NULL ; NULL REMARK 3 TRIGONAL CARBON PLANES (A) : 0.018 ; 1.000 ; 94 REMARK 3 GENERAL PLANES (A) : 0.022 ; 3.000 ; 578 REMARK 3 ISOTROPIC THERMAL FACTORS (A**2) : 2.100 ; 22.000; 3875 REMARK 3 NON-BONDED CONTACTS (A) : 0.032 ; 17.000; 135 REMARK 3 REMARK 3 INCORRECT CHIRAL-CENTERS (COUNT) : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : BABINET SCALING REMARK 3 KSOL : 0.56 REMARK 3 BSOL : 150.00 REMARK 3 REMARK 3 RESTRAINT LIBRARIES. REMARK 3 STEREOCHEMISTRY : TNT PROTGEO REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS : TNT BCORREL V1.0 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: REMARK 3 THE 61 ATOMS WITH B=100.0 MUST BE CONSIDERED TO BE REMARK 3 MARGINALLY ORDERED. REMARK 4 REMARK 4 1TDJ COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY BNL. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : SEP-95 REMARK 200 TEMPERATURE (KELVIN) : 293 REMARK 200 PH : 8.0 REMARK 200 NUMBER OF CRYSTALS USED : 2 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 RUH2R REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : GRAPHITE(002) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : AREA DETECTOR REMARK 200 DETECTOR MANUFACTURER : SIEMENS REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XENGEN REMARK 200 DATA SCALING SOFTWARE : XENGEN REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 13860 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.700 REMARK 200 RESOLUTION RANGE LOW (A) : 16.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.500 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 78.0 REMARK 200 DATA REDUNDANCY : 2.000 REMARK 200 R MERGE (I) : 0.05500 REMARK 200 R SYM (I) : 0.08800 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 14.0000 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) : 2.86 REMARK 200 COMPLETENESS FOR SHELL (%) : 30.0 REMARK 200 DATA REDUNDANCY IN SHELL : 1.00 REMARK 200 R MERGE FOR SHELL (I) : 0.19700 REMARK 200 R SYM FOR SHELL (I) : 0.37200 REMARK 200 <I/SIGMA(I)> FOR SHELL : 2.900 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: NULL REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: SIRAS REMARK 200 SOFTWARE USED: PHASES REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: C-DOMAIN IMAGED BY IMR REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 46.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.80 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PROTEIN AT 40 MG/ML WAS MIXED WITH, REMARK 280 THEN EQUILIBRATED OVER 11% PEG 4K, 40 MM TRIS 8.0, 60 MM MGCL2, REMARK 280 AT RT. REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: I 2 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z REMARK 290 3555 -X,Y,-Z REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z+1/2 REMARK 290 6555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 7555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 8555 X+1/2,-Y+1/2,-Z+1/2 REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 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 42.55000 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 45.40000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 81.40000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 42.55000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 45.40000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 81.40000 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 42.55000 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 45.40000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 81.40000 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 42.55000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 45.40000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 81.40000 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 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 0.00000 REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 MET A 1 REMARK 465 ALA A 2 REMARK 465 ASP A 3 REMARK 465 SER A 4 REMARK 465 LEU A 481 REMARK 465 GLY A 482 REMARK 465 ASP A 483 REMARK 465 HIS A 484 REMARK 465 GLU A 485 REMARK 465 PRO A 486 REMARK 465 ASP A 487 REMARK 465 PHE A 488 REMARK 465 GLU A 489 REMARK 465 THR A 490 REMARK 465 ARG A 491 REMARK 465 LEU A 492 REMARK 465 ASN A 493 REMARK 465 GLU A 494 REMARK 465 LEU A 495 REMARK 465 GLY A 496 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 OE1 GLU A 442 OG SER A 467 2.19 REMARK 500 REMARK 500 REMARK: NULL 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 GLU A 12 CD GLU A 12 OE2 0.066 REMARK 500 GLU A 15 CD GLU A 15 OE1 0.085 REMARK 500 GLU A 38 CD GLU A 38 OE2 0.067 REMARK 500 GLU A 53 CD GLU A 53 OE1 0.085 REMARK 500 GLU A 76 CD GLU A 76 OE2 0.080 REMARK 500 GLU A 213 CD GLU A 213 OE2 0.067 REMARK 500 GLU A 240 CD GLU A 240 OE1 0.070 REMARK 500 GLU A 250 CD GLU A 250 OE1 0.076 REMARK 500 GLU A 257 CD GLU A 257 OE1 0.078 REMARK 500 GLU A 279 CD GLU A 279 OE1 0.071 REMARK 500 GLU A 329 CD GLU A 329 OE1 -0.072 REMARK 500 GLU A 348 CD GLU A 348 OE2 0.080 REMARK 500 GLU A 390 CD GLU A 390 OE1 0.079 REMARK 500 GLU A 413 CD GLU A 413 OE2 0.083 REMARK 500 GLU A 439 CD GLU A 439 OE2 0.068 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 18 NE - CZ - NH1 ANGL. DEV. = 3.7 DEGREES REMARK 500 TYR A 26 CB - CG - CD1 ANGL. DEV. = -3.6 DEGREES REMARK 500 ASP A 45 CB - CG - OD2 ANGL. DEV. = -7.6 DEGREES REMARK 500 ARG A 52 CA - CB - CG ANGL. DEV. = -13.3 DEGREES REMARK 500 ARG A 52 CD - NE - CZ ANGL. DEV. = -10.1 DEGREES REMARK 500 ARG A 52 NE - CZ - NH1 ANGL. DEV. = -4.0 DEGREES REMARK 500 ASP A 115 CB - CG - OD1 ANGL. DEV. = -6.1 DEGREES REMARK 500 ASP A 119 CB - CG - OD1 ANGL. DEV. = -7.2 DEGREES REMARK 500 ASP A 119 CB - CG - OD2 ANGL. DEV. = 5.7 DEGREES REMARK 500 ASP A 136 CB - CG - OD1 ANGL. DEV. = 5.6 DEGREES REMARK 500 ASP A 136 CB - CG - OD2 ANGL. DEV. = -5.7 DEGREES REMARK 500 SER A 146 CB - CA - C ANGL. DEV. = -11.9 DEGREES REMARK 500 ASP A 158 CB - CG - OD1 ANGL. DEV. = 7.9 DEGREES REMARK 500 ASP A 158 CB - CG - OD2 ANGL. DEV. = -7.5 DEGREES REMARK 500 ASP A 216 CB - CG - OD1 ANGL. DEV. = 6.1 DEGREES REMARK 500 ASP A 216 CB - CG - OD2 ANGL. DEV. = -6.2 DEGREES REMARK 500 ARG A 234 NE - CZ - NH1 ANGL. DEV. = 3.5 DEGREES REMARK 500 ASP A 249 CB - CG - OD1 ANGL. DEV. = 5.6 DEGREES REMARK 500 ASP A 249 CB - CG - OD2 ANGL. DEV. = -7.3 DEGREES REMARK 500 THR A 251 CB - CA - C ANGL. DEV. = 16.5 DEGREES REMARK 500 ARG A 253 NE - CZ - NH1 ANGL. DEV. = 4.9 DEGREES REMARK 500 LEU A 254 CB - CA - C ANGL. DEV. = 13.4 DEGREES REMARK 500 LEU A 254 N - CA - CB ANGL. DEV. = 14.2 DEGREES REMARK 500 ASP A 260 CB - CG - OD2 ANGL. DEV. = -6.3 DEGREES REMARK 500 CYS A 271 N - CA - CB ANGL. DEV. = 9.2 DEGREES REMARK 500 ASP A 276 CB - CG - OD2 ANGL. DEV. = -6.8 DEGREES REMARK 500 ASP A 280 N - CA - CB ANGL. DEV. = 13.6 DEGREES REMARK 500 ASP A 280 CB - CG - OD1 ANGL. DEV. = -7.2 DEGREES REMARK 500 ARG A 337 NE - CZ - NH2 ANGL. DEV. = 4.0 DEGREES REMARK 500 GLU A 347 N - CA - CB ANGL. DEV. = 11.2 DEGREES REMARK 500 ASP A 373 CB - CG - OD1 ANGL. DEV. = -7.1 DEGREES REMARK 500 ASP A 373 CB - CG - OD2 ANGL. DEV. = 6.4 DEGREES REMARK 500 VAL A 407 CA - CB - CG1 ANGL. DEV. = 9.1 DEGREES REMARK 500 ASP A 408 CB - CG - OD2 ANGL. DEV. = -8.3 DEGREES REMARK 500 ASP A 412 CB - CG - OD1 ANGL. DEV. = 5.8 DEGREES REMARK 500 ASP A 412 CB - CG - OD2 ANGL. DEV. = -6.5 DEGREES REMARK 500 LYS A 416 N - CA - CB ANGL. DEV. = 11.5 DEGREES REMARK 500 ARG A 426 NE - CZ - NH2 ANGL. DEV. = -4.1 DEGREES REMARK 500 PRO A 444 C - N - CD ANGL. DEV. = -12.7 DEGREES REMARK 500 SER A 467 N - CA - C ANGL. DEV. = 16.3 DEGREES REMARK 500 ASP A 471 CB - CG - OD1 ANGL. DEV. = 6.8 DEGREES REMARK 500 ASP A 471 CB - CG - OD2 ANGL. DEV. = -6.6 DEGREES REMARK 500 ARG A 474 NE - CZ - NH2 ANGL. DEV. = 3.2 DEGREES REMARK 500 ASP A 498 CB - CG - OD1 ANGL. DEV. = -5.9 DEGREES REMARK 500 ASP A 501 CB - CG - OD1 ANGL. DEV. = 6.3 DEGREES REMARK 500 ASP A 501 CB - CG - OD2 ANGL. DEV. = -7.0 DEGREES REMARK 500 ARG A 509 NE - CZ - NH1 ANGL. DEV. = 3.7 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 PRO A 6 65.57 -35.30 REMARK 500 LEU A 7 -23.41 -167.29 REMARK 500 SER A 8 26.92 -39.58 REMARK 500 PRO A 11 146.12 -34.46 REMARK 500 PRO A 24 39.07 -79.11 REMARK 500 ARG A 43 -70.77 -69.50 REMARK 500 ASP A 45 72.90 -119.64 REMARK 500 ARG A 52 55.22 -58.70 REMARK 500 HIS A 59 13.26 47.72 REMARK 500 LYS A 62 -32.69 -31.98 REMARK 500 LYS A 78 48.07 -147.16 REMARK 500 ALA A 79 -31.76 -135.68 REMARK 500 VAL A 82 -173.84 151.06 REMARK 500 ALA A 87 -149.07 -174.20 REMARK 500 PRO A 110 170.41 -48.56 REMARK 500 THR A 113 -76.31 -76.92 REMARK 500 ALA A 114 109.91 157.20 REMARK 500 ASP A 115 -56.94 -23.18 REMARK 500 ALA A 133 -45.46 179.12 REMARK 500 ASP A 136 -34.48 -37.16 REMARK 500 GLU A 144 -77.18 -58.15 REMARK 500 LEU A 145 -35.95 -32.38 REMARK 500 SER A 146 -88.30 -54.00 REMARK 500 GLN A 147 -57.76 -21.95 REMARK 500 PHE A 157 -50.80 -148.58 REMARK 500 ASP A 158 81.36 -58.07 REMARK 500 HIS A 159 124.94 -173.67 REMARK 500 ASP A 177 95.92 -167.42 REMARK 500 LEU A 199 -79.52 -52.86 REMARK 500 LEU A 203 -76.07 -63.56 REMARK 500 LEU A 220 -71.01 -67.65 REMARK 500 HIS A 228 113.39 -160.79 REMARK 500 LEU A 237 49.32 -149.60 REMARK 500 PHE A 238 -64.49 -103.94 REMARK 500 ILE A 247 178.60 -45.53 REMARK 500 ASP A 249 -134.39 -136.84 REMARK 500 PHE A 252 -77.99 -102.72 REMARK 500 GLN A 256 21.29 -70.02 REMARK 500 SER A 267 -37.51 -35.24 REMARK 500 PRO A 287 -63.06 -23.71 REMARK 500 ALA A 317 15.10 -147.08 REMARK 500 GLN A 336 33.24 94.95 REMARK 500 GLU A 347 179.26 164.98 REMARK 500 GLU A 348 -42.86 -172.61 REMARK 500 LEU A 353 -74.41 -41.14 REMARK 500 GLN A 357 -30.75 -31.63 REMARK 500 PHE A 367 79.63 -160.78 REMARK 500 LYS A 375 -36.95 -34.56 REMARK 500 SER A 386 -61.81 -127.67 REMARK 500 GLU A 394 -87.09 -75.00 REMARK 500 REMARK 500 THIS ENTRY HAS 67 RAMACHANDRAN OUTLIERS. 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 SER A 467 16.69 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CHIRAL CENTERS REMARK 500 REMARK 500 UNEXPECTED CONFIGURATION OF THE FOLLOWING CHIRAL REMARK 500 CENTER(S) USING IMPROPER CA--C--CB--N CHIRALITY REMARK 500 FOR AMINO ACIDS AND C1'--O4'--N1(N9)--C2' FOR REMARK 500 NUCLEIC ACIDS OR EQUIVALENT ANGLE REMARK 500 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,A1,6X,F5.1,6X,A1,10X,A1,3X,A16) REMARK 500 REMARK 500 M RES CSSEQI IMPROPER EXPECTED FOUND DETAILS REMARK 500 SER A 8 18.8 L L OUTSIDE RANGE REMARK 500 VAL A 25 20.3 L L OUTSIDE RANGE REMARK 500 ASP A 45 21.2 L L OUTSIDE RANGE REMARK 500 LYS A 51 24.5 L L OUTSIDE RANGE REMARK 500 ARG A 52 20.5 L L OUTSIDE RANGE REMARK 500 LYS A 62 24.5 L L OUTSIDE RANGE REMARK 500 GLN A 148 24.8 L L OUTSIDE RANGE REMARK 500 PHE A 157 23.1 L L OUTSIDE RANGE REMARK 500 VAL A 187 24.8 L L OUTSIDE RANGE REMARK 500 GLU A 213 14.4 L L OUTSIDE RANGE REMARK 500 ASP A 216 23.7 L L OUTSIDE RANGE REMARK 500 ALA A 218 21.6 L L OUTSIDE RANGE REMARK 500 THR A 251 0.3 L L EXPECTING SP3 REMARK 500 LEU A 254 6.7 L L EXPECTING SP3 REMARK 500 CYS A 255 24.6 L L OUTSIDE RANGE REMARK 500 CYS A 271 22.7 L L OUTSIDE RANGE REMARK 500 ASP A 280 13.1 L L OUTSIDE RANGE REMARK 500 GLU A 308 24.6 L L OUTSIDE RANGE REMARK 500 GLU A 347 20.7 L L OUTSIDE RANGE REMARK 500 SER A 351 20.0 L L OUTSIDE RANGE REMARK 500 LEU A 358 21.7 L L OUTSIDE RANGE REMARK 500 VAL A 364 20.1 L L OUTSIDE RANGE REMARK 500 ASP A 373 21.2 L L OUTSIDE RANGE REMARK 500 LEU A 385 11.0 L L OUTSIDE RANGE REMARK 500 SER A 410 24.5 L L OUTSIDE RANGE REMARK 500 ASP A 412 21.5 L L OUTSIDE RANGE REMARK 500 MET A 414 23.2 L L OUTSIDE RANGE REMARK 500 LYS A 416 14.4 L L OUTSIDE RANGE REMARK 500 SER A 467 19.0 L L OUTSIDE RANGE REMARK 500 THR A 470 24.3 L L OUTSIDE RANGE REMARK 500 TYR A 497 23.2 L L OUTSIDE RANGE REMARK 500 THR A 503 23.8 L L OUTSIDE RANGE REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PLP A 962 DBREF 1TDJ A 1 514 UNP P04968 THD1_ECOLI 1 514 SEQRES 1 A 514 MET ALA ASP SER GLN PRO LEU SER GLY ALA PRO GLU GLY SEQRES 2 A 514 ALA GLU TYR LEU ARG ALA VAL LEU ARG ALA PRO VAL TYR SEQRES 3 A 514 GLU ALA ALA GLN VAL THR PRO LEU GLN LYS MET GLU LYS SEQRES 4 A 514 LEU SER SER ARG LEU ASP ASN VAL ILE LEU VAL LYS ARG SEQRES 5 A 514 GLU ASP ARG GLN PRO VAL HIS SER PHE LYS LEU ARG GLY SEQRES 6 A 514 ALA TYR ALA MET MET ALA GLY LEU THR GLU GLU GLN LYS SEQRES 7 A 514 ALA HIS GLY VAL ILE THR ALA SER ALA GLY ASN HIS ALA SEQRES 8 A 514 GLN GLY VAL ALA PHE SER SER ALA ARG LEU GLY VAL LYS SEQRES 9 A 514 ALA LEU ILE VAL MET PRO THR ALA THR ALA ASP ILE LYS SEQRES 10 A 514 VAL ASP ALA VAL ARG GLY PHE GLY GLY GLU VAL LEU LEU SEQRES 11 A 514 HIS GLY ALA ASN PHE ASP GLU ALA LYS ALA LYS ALA ILE SEQRES 12 A 514 GLU LEU SER GLN GLN GLN GLY PHE THR TRP VAL PRO PRO SEQRES 13 A 514 PHE ASP HIS PRO MET VAL ILE ALA GLY GLN GLY THR LEU SEQRES 14 A 514 ALA LEU GLU LEU LEU GLN GLN ASP ALA HIS LEU ASP ARG SEQRES 15 A 514 VAL PHE VAL PRO VAL GLY GLY GLY GLY LEU ALA ALA GLY SEQRES 16 A 514 VAL ALA VAL LEU ILE LYS GLN LEU MET PRO GLN ILE LYS SEQRES 17 A 514 VAL ILE ALA VAL GLU ALA GLU ASP SER ALA CYS LEU LYS SEQRES 18 A 514 ALA ALA LEU ASP ALA GLY HIS PRO VAL ASP LEU PRO ARG SEQRES 19 A 514 VAL GLY LEU PHE ALA GLU GLY VAL ALA VAL LYS ARG ILE SEQRES 20 A 514 GLY ASP GLU THR PHE ARG LEU CYS GLN GLU TYR LEU ASP SEQRES 21 A 514 ASP ILE ILE THR VAL ASP SER ASP ALA ILE CYS ALA ALA SEQRES 22 A 514 MET LYS ASP LEU PHE GLU ASP VAL ARG ALA VAL ALA GLU SEQRES 23 A 514 PRO SER GLY ALA LEU ALA LEU ALA GLY MET LYS LYS TYR SEQRES 24 A 514 ILE ALA LEU HIS ASN ILE ARG GLY GLU ARG LEU ALA HIS SEQRES 25 A 514 ILE LEU SER GLY ALA ASN VAL ASN PHE HIS GLY LEU ARG SEQRES 26 A 514 TYR VAL SER GLU ARG CYS GLU LEU GLY GLU GLN ARG GLU SEQRES 27 A 514 ALA LEU LEU ALA VAL THR ILE PRO GLU GLU LYS GLY SER SEQRES 28 A 514 PHE LEU LYS PHE CYS GLN LEU LEU GLY GLY ARG SER VAL SEQRES 29 A 514 THR GLU PHE ASN TYR ARG PHE ALA ASP ALA LYS ASN ALA SEQRES 30 A 514 CYS ILE PHE VAL GLY VAL ARG LEU SER ARG GLY LEU GLU SEQRES 31 A 514 GLU ARG LYS GLU ILE LEU GLN MET LEU ASN ASP GLY GLY SEQRES 32 A 514 TYR SER VAL VAL ASP LEU SER ASP ASP GLU MET ALA LYS SEQRES 33 A 514 LEU HIS VAL ARG TYR MET VAL GLY GLY ARG PRO SER HIS SEQRES 34 A 514 PRO LEU GLN GLU ARG LEU TYR SER PHE GLU PHE PRO GLU SEQRES 35 A 514 SER PRO GLY ALA LEU LEU ARG PHE LEU ASN THR LEU GLY SEQRES 36 A 514 THR TYR TRP ASN ILE SER LEU PHE HIS TYR ARG SER HIS SEQRES 37 A 514 GLY THR ASP TYR GLY ARG VAL LEU ALA ALA PHE GLU LEU SEQRES 38 A 514 GLY ASP HIS GLU PRO ASP PHE GLU THR ARG LEU ASN GLU SEQRES 39 A 514 LEU GLY TYR ASP CYS HIS ASP GLU THR ASN ASN PRO ALA SEQRES 40 A 514 PHE ARG PHE PHE LEU ALA GLY HET PLP A 962 15 HETNAM PLP PYRIDOXAL-5'-PHOSPHATE HETSYN PLP VITAMIN B6 PHOSPHATE FORMUL 2 PLP C8 H10 N O6 P FORMUL 3 HOH *33(H2 O) HELIX 1 1 GLY A 13 ARG A 22 1 10 HELIX 2 2 VAL A 25 GLU A 27 5 3 HELIX 3 3 GLU A 38 ARG A 43 1 6 HELIX 4 4 GLU A 53 ARG A 55 5 3 HELIX 5 5 LEU A 63 ALA A 71 1 9 HELIX 6 6 ALA A 91 ARG A 100 1 10 HELIX 7 7 ASP A 115 PHE A 124 1 10 HELIX 8 8 PHE A 135 GLN A 149 1 15 HELIX 9 9 PRO A 160 GLN A 176 1 17 HELIX 10 10 GLY A 191 LEU A 203 1 13 HELIX 11 11 CYS A 219 ALA A 226 1 8 HELIX 12 12 GLU A 250 CYS A 255 1 6 HELIX 13 13 SER A 267 ASP A 280 1 14 HELIX 14 14 PRO A 287 LEU A 302 1 16 HELIX 15 15 PHE A 321 LEU A 333 5 13 HELIX 16 16 LEU A 353 LEU A 359 1 7 HELIX 17 17 GLY A 388 ASN A 400 5 13 HELIX 18 18 GLU A 413 LEU A 417 1 5 HELIX 19 19 VAL A 419 TYR A 421 5 3 HELIX 20 20 ALA A 446 LEU A 454 1 9 HELIX 21 21 PRO A 506 PHE A 511 1 6 SHEET 1 A 6 LEU A 34 LYS A 36 0 SHEET 2 A 6 VAL A 47 LYS A 51 -1 N VAL A 50 O GLN A 35 SHEET 3 A 6 ARG A 309 ILE A 313 1 N LEU A 310 O VAL A 47 SHEET 4 A 6 ARG A 182 PRO A 186 1 N ARG A 182 O ALA A 311 SHEET 5 A 6 LYS A 208 ALA A 214 1 N LYS A 208 O VAL A 183 SHEET 6 A 6 ASP A 261 VAL A 265 1 N ASP A 261 O ALA A 211 SHEET 1 B 3 ILE A 83 SER A 86 0 SHEET 2 B 3 ALA A 105 VAL A 108 1 N LEU A 106 O ILE A 83 SHEET 3 B 3 GLU A 127 LEU A 129 1 N GLU A 127 O ILE A 107 SHEET 1 C 4 SER A 405 VAL A 407 0 SHEET 2 C 4 GLU A 338 THR A 344 -1 N ALA A 342 O VAL A 406 SHEET 3 C 4 CYS A 378 ARG A 384 -1 N VAL A 383 O ALA A 339 SHEET 4 C 4 SER A 363 ASN A 368 -1 N ASN A 368 O PHE A 380 SHEET 1 D 4 ASP A 498 ASP A 501 0 SHEET 2 D 4 ARG A 434 GLU A 439 -1 N GLU A 439 O ASP A 498 SHEET 3 D 4 VAL A 475 PHE A 479 -1 N PHE A 479 O ARG A 434 SHEET 4 D 4 LEU A 462 HIS A 464 -1 N HIS A 464 O LEU A 476 LINK C4A PLP A 962 NZ LYS A 62 1555 1555 1.37 SITE 1 AC1 15 PHE A 61 LYS A 62 ASN A 89 GLY A 188 SITE 2 AC1 15 GLY A 189 GLY A 190 GLY A 191 LEU A 192 SITE 3 AC1 15 GLY A 241 VAL A 242 GLU A 286 SER A 288 SITE 4 AC1 15 SER A 315 GLY A 316 HOH A 614 CRYST1 85.100 90.800 162.800 90.00 90.00 90.00 I 2 2 2 8 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.011751 0.000000 0.000000 0.00000 SCALE2 0.000000 0.011013 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006143 0.00000