HEADER PLP-BINDING PROTEIN 21-SEP-04 1W8G TITLE CRYSTAL STRUCTURE OF E. COLI K-12 YGGS COMPND MOL_ID: 1; COMPND 2 MOLECULE: HYPOTHETICAL UPF0001 PROTEIN YGGS; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: YGGS; COMPND 5 ENGINEERED: YES; COMPND 6 OTHER_DETAILS: PLP-BINDING DOMAIN, COMPLEX WITH PLP SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 3 ORGANISM_TAXID: 83333; SOURCE 4 STRAIN: K-12; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 511693; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21; SOURCE 8 EXPRESSION_SYSTEM_VECTOR: PDEST17 KEYWDS STRUCTURAL GENOMICS, HYPOTHETICAL PROTEIN, PUTATIVE ENZYME WITH PLP- KEYWDS 2 BINDING DOMAIN, PLP-BINDING PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR G.SULZENBACHER,A.GRUEZ,S.SPINELLI,V.ROIG-ZAMBONI,F.PAGOT,C.BIGNON, AUTHOR 2 R.VINCENTELLI,C.CAMBILLAU REVDAT 4 13-DEC-23 1W8G 1 SHEET LINK REVDAT 3 13-JUL-11 1W8G 1 VERSN REVDAT 2 24-FEB-09 1W8G 1 VERSN REVDAT 1 05-JUL-06 1W8G 0 JRNL AUTH G.SULZENBACHER,A.GRUEZ,S.SPINELLI,V.ROIG-ZAMBONI,F.PAGOT, JRNL AUTH 2 C.BIGNON,R.VINCENTELLI,C.CAMBILLAU JRNL TITL CRYSTAL STRUCTURE OF E. COLI K-12 YGGS JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 2.00 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) : 2.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 39.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 21064 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) : 0.163 REMARK 3 R VALUE (WORKING SET) : 0.161 REMARK 3 FREE R VALUE : 0.195 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.500 REMARK 3 FREE R VALUE TEST SET COUNT : 1222 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) : 2.00 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.05 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1504 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.1720 REMARK 3 BIN FREE R VALUE SET COUNT : 71 REMARK 3 BIN FREE R VALUE : 0.1960 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1740 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 28 REMARK 3 SOLVENT ATOMS : 274 REMARK 3 REMARK 3 B VALUES. REMARK 3 B VALUE TYPE : LIKELY RESIDUAL REMARK 3 FROM WILSON PLOT (A**2) : 25.32 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 21.57 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.28000 REMARK 3 B22 (A**2) : 0.28000 REMARK 3 B33 (A**2) : -0.56000 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): 0.134 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.125 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.080 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 5.364 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.962 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.948 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 1861 ; 0.008 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 1754 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 2525 ; 1.119 ; 1.975 REMARK 3 BOND ANGLES OTHERS (DEGREES): 4061 ; 0.774 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 233 ; 5.261 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 89 ;35.179 ;23.034 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 329 ;14.153 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 22 ;18.107 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 286 ; 0.062 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2067 ; 0.003 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 376 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 344 ; 0.208 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 1716 ; 0.186 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 894 ; 0.166 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): 1077 ; 0.082 ; 0.200 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 208 ; 0.173 ; 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): 7 ; 0.187 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 56 ; 0.236 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 25 ; 0.197 ; 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): 1498 ; 0.819 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1846 ; 0.876 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 796 ; 1.557 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 675 ; 2.337 ; 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 : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 1 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 3 A 228 REMARK 3 ORIGIN FOR THE GROUP (A): 82.0717 6.7642 8.0175 REMARK 3 T TENSOR REMARK 3 T11: -.0308 T22: -.0408 REMARK 3 T33: -.0327 T12: -.0103 REMARK 3 T13: .0168 T23: -.0065 REMARK 3 L TENSOR REMARK 3 L11: .9542 L22: .7441 REMARK 3 L33: 1.0584 L12: .1585 REMARK 3 L13: .1848 L23: -.2411 REMARK 3 S TENSOR REMARK 3 S11: .0023 S12: -.0251 S13: .0009 REMARK 3 S21: .0340 S22: .0085 S23: .0134 REMARK 3 S31: .0077 S32: -.0104 S33: -.0108 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : BABINET MODEL WITH 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. THE TOTAL B VALUES (TLS COMPONENT + RESIDUAL) ARE REMARK 3 GIVEN FOR EACH ATOM REMARK 4 REMARK 4 1W8G COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 21-SEP-04. REMARK 100 THE DEPOSITION ID IS D_1290021106. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 08-OCT-03 REMARK 200 TEMPERATURE (KELVIN) : 100.0 REMARK 200 PH : 6.00 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID14-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.934 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 : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 22295 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.000 REMARK 200 RESOLUTION RANGE LOW (A) : 39.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 9.000 REMARK 200 R MERGE (I) : 0.05000 REMARK 200 R SYM (I) : 0.05000 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 34.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.00 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.05 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 9.10 REMARK 200 R MERGE FOR SHELL (I) : 0.34000 REMARK 200 R SYM FOR SHELL (I) : 0.34000 REMARK 200 <I/SIGMA(I)> FOR SHELL : 5.900 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: AMORE REMARK 200 STARTING MODEL: PDB ENTRY 1B54 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 60.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.10 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 20% PEG 4000, 16% ISOPROPANOL, 0.1 M REMARK 280 NA-CITRATE BUFFER PH 6, 5% SODIUM DEXTRANE SULPHATE, PH 6.00 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: I 41 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 3555 -Y,X+1/2,Z+1/4 REMARK 290 4555 Y+1/2,-X,Z+3/4 REMARK 290 5555 -X+1/2,Y,-Z+3/4 REMARK 290 6555 X,-Y+1/2,-Z+1/4 REMARK 290 7555 Y+1/2,X+1/2,-Z+1/2 REMARK 290 8555 -Y,-X,-Z REMARK 290 9555 X+1/2,Y+1/2,Z+1/2 REMARK 290 10555 -X,-Y,Z REMARK 290 11555 -Y+1/2,X,Z+3/4 REMARK 290 12555 Y,-X+1/2,Z+1/4 REMARK 290 13555 -X,Y+1/2,-Z+1/4 REMARK 290 14555 X+1/2,-Y,-Z+3/4 REMARK 290 15555 Y,X,-Z REMARK 290 16555 -Y+1/2,-X+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 62.00850 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 62.00850 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 41.86450 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 62.00850 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 20.93225 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 62.00850 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 62.79675 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 62.00850 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 62.79675 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 62.00850 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 20.93225 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 62.00850 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 62.00850 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 41.86450 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 SMTRY1 9 1.000000 0.000000 0.000000 62.00850 REMARK 290 SMTRY2 9 0.000000 1.000000 0.000000 62.00850 REMARK 290 SMTRY3 9 0.000000 0.000000 1.000000 41.86450 REMARK 290 SMTRY1 10 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 10 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 10 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 11 0.000000 -1.000000 0.000000 62.00850 REMARK 290 SMTRY2 11 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 11 0.000000 0.000000 1.000000 62.79675 REMARK 290 SMTRY1 12 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 12 -1.000000 0.000000 0.000000 62.00850 REMARK 290 SMTRY3 12 0.000000 0.000000 1.000000 20.93225 REMARK 290 SMTRY1 13 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 13 0.000000 1.000000 0.000000 62.00850 REMARK 290 SMTRY3 13 0.000000 0.000000 -1.000000 20.93225 REMARK 290 SMTRY1 14 1.000000 0.000000 0.000000 62.00850 REMARK 290 SMTRY2 14 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 14 0.000000 0.000000 -1.000000 62.79675 REMARK 290 SMTRY1 15 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 15 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 15 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 16 0.000000 -1.000000 0.000000 62.00850 REMARK 290 SMTRY2 16 -1.000000 0.000000 0.000000 62.00850 REMARK 290 SMTRY3 16 0.000000 0.000000 -1.000000 41.86450 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: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PQS 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 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH A2029 LIES ON A SPECIAL POSITION. REMARK 375 HOH A2067 LIES ON A SPECIAL POSITION. REMARK 375 HOH A2068 LIES ON A SPECIAL POSITION. REMARK 375 HOH A2083 LIES ON A SPECIAL POSITION. REMARK 375 HOH A2137 LIES ON A SPECIAL POSITION. 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 ASN A 2 REMARK 465 ARG A 229 REMARK 465 ASP A 230 REMARK 465 TYR A 231 REMARK 465 SER A 232 REMARK 465 LYS A 233 REMARK 465 LYS A 234 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 O1P PLP A 1229 O HOH A 2270 2.12 REMARK 500 OE1 GLN A 53 O HOH A 2088 2.13 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 THR A 37 -0.79 69.91 REMARK 500 SER A 132 13.68 -151.21 REMARK 500 MET A 204 -165.96 -126.88 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A2042 DISTANCE = 6.41 ANGSTROMS REMARK 650 REMARK 650 HELIX REMARK 650 DETERMINATION METHOD: AUTHOR PROVIDED. 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 8-STRANDED BARREL THIS IS REPRESENTED BY REMARK 700 A 9-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 PLP A1229 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ICT A1230 DBREF 1W8G A 1 234 UNP P52054 YGGS_ECOLI 1 234 SEQRES 1 A 234 MET ASN ASP ILE ALA HIS ASN LEU ALA GLN VAL ARG ASP SEQRES 2 A 234 LYS ILE SER ALA ALA ALA THR ARG CYS GLY ARG SER PRO SEQRES 3 A 234 GLU GLU ILE THR LEU LEU ALA VAL SER LYS THR LYS PRO SEQRES 4 A 234 ALA SER ALA ILE ALA GLU ALA ILE ASP ALA GLY GLN ARG SEQRES 5 A 234 GLN PHE GLY GLU ASN TYR VAL GLN GLU GLY VAL ASP LYS SEQRES 6 A 234 ILE ARG HIS PHE GLN GLU LEU GLY VAL THR GLY LEU GLU SEQRES 7 A 234 TRP HIS PHE ILE GLY PRO LEU GLN SER ASN LYS SER ARG SEQRES 8 A 234 LEU VAL ALA GLU HIS PHE ASP TRP CYS HIS THR ILE ASP SEQRES 9 A 234 ARG LEU ARG ILE ALA THR ARG LEU ASN ASP GLN ARG PRO SEQRES 10 A 234 ALA GLU LEU PRO PRO LEU ASN VAL LEU ILE GLN ILE ASN SEQRES 11 A 234 ILE SER ASP GLU ASN SER LYS SER GLY ILE GLN LEU ALA SEQRES 12 A 234 GLU LEU ASP GLU LEU ALA ALA ALA VAL ALA GLU LEU PRO SEQRES 13 A 234 ARG LEU ARG LEU ARG GLY LEU MET ALA ILE PRO ALA PRO SEQRES 14 A 234 GLU SER GLU TYR VAL ARG GLN PHE GLU VAL ALA ARG GLN SEQRES 15 A 234 MET ALA VAL ALA PHE ALA GLY LEU LYS THR ARG TYR PRO SEQRES 16 A 234 HIS ILE ASP THR LEU SER LEU GLY MET SER ASP ASP MET SEQRES 17 A 234 GLU ALA ALA ILE ALA ALA GLY SER THR MET VAL ARG ILE SEQRES 18 A 234 GLY THR ALA ILE PHE GLY ALA ARG ASP TYR SER LYS LYS HET PLP A1229 15 HET ICT A1230 13 HETNAM PLP PYRIDOXAL-5'-PHOSPHATE HETNAM ICT ISOCITRIC ACID HETSYN PLP VITAMIN B6 PHOSPHATE FORMUL 2 PLP C8 H10 N O6 P FORMUL 3 ICT C6 H8 O7 FORMUL 4 HOH *274(H2 O) HELIX 1 1 ASP A 3 CYS A 22 1 20 HELIX 2 2 PRO A 26 ILE A 29 5 4 HELIX 3 3 PRO A 39 ALA A 49 1 11 HELIX 4 4 VAL A 59 LEU A 72 1 14 HELIX 5 5 SER A 87 HIS A 96 5 10 HELIX 6 6 ARG A 107 ARG A 116 1 10 HELIX 7 7 LEU A 142 GLU A 154 5 13 HELIX 8 8 TYR A 173 ARG A 193 1 21 HELIX 9 9 MET A 204 ASP A 206 5 3 HELIX 10 10 MET A 208 ALA A 214 1 7 HELIX 11 11 THR A 223 PHE A 226 1 4 SHEET 1 AA 9 THR A 30 VAL A 34 0 SHEET 2 AA 9 MET A 218 ILE A 221 1 O VAL A 219 N LEU A 32 SHEET 3 AA 9 LEU A 158 ALA A 165 1 O ARG A 161 N THR A 199 SHEET 4 AA 9 LEU A 123 ILE A 129 1 O LEU A 123 N ARG A 159 SHEET 5 AA 9 TRP A 99 ILE A 103 1 O CYS A 100 N LEU A 126 SHEET 6 AA 9 GLU A 78 PHE A 81 1 O PHE A 81 N HIS A 101 SHEET 7 AA 9 GLN A 53 GLU A 56 1 O PHE A 54 N HIS A 80 SHEET 8 AA 9 THR A 30 VAL A 34 1 O ALA A 33 N GLY A 55 SHEET 9 AA 9 THR A 30 VAL A 34 1 O LEU A 31 N ALA A 33 LINK NZ LYS A 36 C4A PLP A1229 1555 1555 1.31 SITE 1 AC1 11 LYS A 36 ASN A 57 ILE A 82 MET A 204 SITE 2 AC1 11 ARG A 220 GLY A 222 THR A 223 HOH A2253 SITE 3 AC1 11 HOH A2270 HOH A2271 HOH A2272 SITE 1 AC2 5 GLN A 86 SER A 87 ARG A 105 ARG A 107 SITE 2 AC2 5 HOH A2274 CRYST1 124.017 124.017 83.729 90.00 90.00 90.00 I 41 2 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 0.008063 0.000000 0.000000 0.00000 SCALE2 0.000000 0.008063 0.000000 0.00000 SCALE3 0.000000 0.000000 0.011943 0.00000