HEADER TRANSFERASE 28-NOV-06 2O0R TITLE THE THREE-DIMENSIONAL STRUCTURE OF N-SUCCINYLDIAMINOPIMELATE TITLE 2 AMINOTRANSFERASE FROM MYCOBACTERIUM TUBERCULOSIS COMPND MOL_ID: 1; COMPND 2 MOLECULE: RV0858C (N-SUCCINYLDIAMINOPIMELATE AMINOTRANSFERASE); COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: AMINOTRANSFERASE, CLASS I; COMPND 5 EC: 2.6.1.-; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MYCOBACTERIUM TUBERCULOSIS; SOURCE 3 ORGANISM_TAXID: 83332; SOURCE 4 STRAIN: H37RV; SOURCE 5 GENE: RV0858C; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21STAR(DE3) PRARE; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET22B KEYWDS PLP-BINDING ENZYME, LYSINE BIOSYNTHESIS, AMINOTRANSFERASE, STRUCTURAL KEYWDS 2 GENOMICS, TB STRUCTURAL GENOMICS CONSORTIUM, TBSGC, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR S.WEYAND,G.KEFALA,M.S.WEISS,TB STRUCTURAL GENOMICS CONSORTIUM (TBSGC) REVDAT 7 15-NOV-23 2O0R 1 REMARK REVDAT 6 30-AUG-23 2O0R 1 REMARK SEQADV LINK REVDAT 5 18-OCT-17 2O0R 1 REMARK REVDAT 4 13-JUL-11 2O0R 1 VERSN REVDAT 3 24-FEB-09 2O0R 1 VERSN REVDAT 2 27-MAR-07 2O0R 1 JRNL REVDAT 1 27-FEB-07 2O0R 0 JRNL AUTH S.WEYAND,G.KEFALA,M.S.WEISS JRNL TITL THE THREE-DIMENSIONAL STRUCTURE OF N-SUCCINYLDIAMINOPIMELATE JRNL TITL 2 AMINOTRANSFERASE FROM MYCOBACTERIUM TUBERCULOSIS JRNL REF J.MOL.BIOL. V. 367 825 2007 JRNL REFN ISSN 0022-2836 JRNL PMID 17292400 JRNL DOI 10.1016/J.JMB.2007.01.023 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH S.WEYAND,G.KEFALA,M.S.WEISS REMARK 1 TITL CLONING, EXPRESSION, PURIFICATION, CRYSTALLIZATION AND REMARK 1 TITL 2 PRELIMINARY X-RAY DIFFRACTION ANALYSIS OF DAPC (RV0858C) REMARK 1 TITL 3 FROM MYCOBACTERIUM TUBERCULOSIS REMARK 1 REF ACTA CRYSTALLOGR.,SECT.F V. 62 794 2006 REMARK 1 REFN ESSN 1744-3091 REMARK 1 PMID 16880560 REMARK 1 DOI 10.1107/S1744309106026753 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 : ENGH & HUBER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.00 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 : 51119 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) : 0.164 REMARK 3 FREE R VALUE : 0.213 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 2.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1080 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) : 3652 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.0 REMARK 3 BIN R VALUE (WORKING SET) : 0.1940 REMARK 3 BIN FREE R VALUE SET COUNT : NULL REMARK 3 BIN FREE R VALUE : 0.3000 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 5795 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 15 REMARK 3 SOLVENT ATOMS : 457 REMARK 3 REMARK 3 B VALUES. REMARK 3 B VALUE TYPE : LIKELY RESIDUAL REMARK 3 FROM WILSON PLOT (A**2) : 23.70 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 16.60 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 1.11000 REMARK 3 B22 (A**2) : 0.68000 REMARK 3 B33 (A**2) : -1.79000 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): 0.164 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.151 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.106 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 7.236 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.958 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.933 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 5994 ; 0.017 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 8187 ; 1.671 ; 1.970 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 765 ; NULL ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 255 ; NULL ;22.549 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 877 ; NULL ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 57 ; NULL ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 936 ; NULL ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4623 ; NULL ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 3184 ; NULL ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 4195 ; NULL ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 525 ; NULL ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): 3 ; NULL ; 0.200 REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 36 ; NULL ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 20 ; NULL ; 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): 3844 ; NULL ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 6165 ; NULL ; 2.500 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2218 ; NULL ; 5.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 2020 ; NULL ;10.000 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 : 2 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 1 A 393 REMARK 3 ORIGIN FOR THE GROUP (A): 17.8977 1.7756 45.2520 REMARK 3 T TENSOR REMARK 3 T11: -0.0958 T22: -0.0839 REMARK 3 T33: -0.1004 T12: -0.0256 REMARK 3 T13: -0.0100 T23: 0.0158 REMARK 3 L TENSOR REMARK 3 L11: 1.1158 L22: 0.9498 REMARK 3 L33: 1.0283 L12: 0.0925 REMARK 3 L13: -0.6102 L23: 0.3456 REMARK 3 S TENSOR REMARK 3 S11: 0.0310 S12: 0.0006 S13: 0.1289 REMARK 3 S21: 0.0086 S22: 0.0083 S23: 0.1537 REMARK 3 S31: -0.1665 S32: 0.0409 S33: -0.0392 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 1 B 392 REMARK 3 ORIGIN FOR THE GROUP (A): 30.4429 -10.5560 16.4545 REMARK 3 T TENSOR REMARK 3 T11: -0.1193 T22: -0.0940 REMARK 3 T33: -0.0930 T12: 0.0105 REMARK 3 T13: -0.0095 T23: 0.0060 REMARK 3 L TENSOR REMARK 3 L11: 1.1025 L22: 0.9713 REMARK 3 L33: 1.3831 L12: 0.3087 REMARK 3 L13: -0.2076 L23: 0.4206 REMARK 3 S TENSOR REMARK 3 S11: 0.0005 S12: -0.0029 S13: -0.1852 REMARK 3 S21: -0.0256 S22: 0.0376 S23: -0.1401 REMARK 3 S31: 0.1183 S32: 0.1939 S33: -0.0381 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 : 1.40 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2O0R COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 30-NOV-06. REMARK 100 THE DEPOSITION ID IS D_1000040541. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 19-JUL-05 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.5 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 : X13 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.81 REMARK 200 MONOCHROMATOR : SI 111 REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MAR CCD 165 MM REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 52277 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.000 REMARK 200 RESOLUTION RANGE LOW (A) : 99.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 200 DATA REDUNDANCY : 7.400 REMARK 200 R MERGE (I) : 0.11300 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 18.5000 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) : 2.03 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.64700 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 3.200 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: PDB ENTRY 1DJU REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 42.48 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.14 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 20%(W/V) PEG 3350, 100 MM TRIS-HCL, REMARK 280 200 MM MGCL2, PH 8.5, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE REMARK 280 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 2 2 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -X,Y,-Z+1/2 REMARK 290 4555 X,-Y,-Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 123.73500 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 123.73500 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 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: THE ASYMMETRIC UNIT OF THE CRYSTAL CONTAINS THE BIOLOGICAL REMARK 300 ASSEMBLY (HOMODIMER) 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: 5900 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 25650 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -52.0 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 MET A 0 REMARK 465 ALA A 356 REMARK 465 GLY A 357 REMARK 465 GLN A 358 REMARK 465 ALA A 359 REMARK 465 SER A 360 REMARK 465 GLN A 361 REMARK 465 GLN A 362 REMARK 465 ALA A 363 REMARK 465 ARG A 394 REMARK 465 PRO A 395 REMARK 465 ALA A 396 REMARK 465 THR A 397 REMARK 465 GLY A 398 REMARK 465 VAL A 399 REMARK 465 PRO A 400 REMARK 465 ARG A 401 REMARK 465 GLY A 402 REMARK 465 LEU A 403 REMARK 465 GLU A 404 REMARK 465 HIS A 405 REMARK 465 HIS A 406 REMARK 465 HIS A 407 REMARK 465 HIS A 408 REMARK 465 HIS A 409 REMARK 465 HIS A 410 REMARK 465 MET B 0 REMARK 465 ALA B 356 REMARK 465 GLY B 357 REMARK 465 GLN B 358 REMARK 465 ALA B 359 REMARK 465 SER B 360 REMARK 465 GLN B 361 REMARK 465 GLN B 362 REMARK 465 ALA B 363 REMARK 465 GLU B 393 REMARK 465 ARG B 394 REMARK 465 PRO B 395 REMARK 465 ALA B 396 REMARK 465 THR B 397 REMARK 465 GLY B 398 REMARK 465 VAL B 399 REMARK 465 PRO B 400 REMARK 465 ARG B 401 REMARK 465 GLY B 402 REMARK 465 LEU B 403 REMARK 465 GLU B 404 REMARK 465 HIS B 405 REMARK 465 HIS B 406 REMARK 465 HIS B 407 REMARK 465 HIS B 408 REMARK 465 HIS B 409 REMARK 465 HIS B 410 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 O HOH B 807 O HOH B 871 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 2 144.52 -174.27 REMARK 500 LEU A 204 78.95 -110.42 REMARK 500 ASP A 207 -126.07 62.62 REMARK 500 TYR A 263 -80.98 69.01 REMARK 500 THR A 315 -179.27 68.88 REMARK 500 PRO A 354 0.78 -52.85 REMARK 500 ASP B 141 102.02 -160.43 REMARK 500 HIS B 208 9.02 57.51 REMARK 500 TYR B 263 -76.49 63.55 REMARK 500 THR B 315 -178.94 63.33 REMARK 500 VAL B 365 -33.18 102.10 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 ARG B 23 ILE B 24 144.16 REMARK 500 ASP B 141 GLY B 142 -68.69 REMARK 500 ASP B 364 VAL B 365 -144.85 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 NA B 603 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ALA B 191 O REMARK 620 2 HOH B 929 O 69.2 REMARK 620 3 HOH B 930 O 154.2 87.4 REMARK 620 4 HOH B 931 O 93.6 89.7 97.1 REMARK 620 5 HOH B 932 O 99.3 166.5 105.1 83.8 REMARK 620 N 1 2 3 4 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 601 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL B 602 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA B 603 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 701 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL B 702 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: RV0858C RELATED DB: TARGETDB DBREF 2O0R A 2 397 UNP O53870 O53870_MYCTU 2 397 DBREF 2O0R B 2 397 UNP O53870 O53870_MYCTU 2 397 SEQADV 2O0R MET A 0 UNP O53870 INITIATING METHIONINE SEQADV 2O0R ALA A 1 UNP O53870 CLONING ARTIFACT SEQADV 2O0R LLP A 232 UNP O53870 LYS 232 MODIFIED RESIDUE SEQADV 2O0R GLY A 398 UNP O53870 CLONING ARTIFACT SEQADV 2O0R VAL A 399 UNP O53870 CLONING ARTIFACT SEQADV 2O0R PRO A 400 UNP O53870 CLONING ARTIFACT SEQADV 2O0R ARG A 401 UNP O53870 CLONING ARTIFACT SEQADV 2O0R GLY A 402 UNP O53870 CLONING ARTIFACT SEQADV 2O0R LEU A 403 UNP O53870 CLONING ARTIFACT SEQADV 2O0R GLU A 404 UNP O53870 CLONING ARTIFACT SEQADV 2O0R HIS A 405 UNP O53870 EXPRESSION TAG SEQADV 2O0R HIS A 406 UNP O53870 EXPRESSION TAG SEQADV 2O0R HIS A 407 UNP O53870 EXPRESSION TAG SEQADV 2O0R HIS A 408 UNP O53870 EXPRESSION TAG SEQADV 2O0R HIS A 409 UNP O53870 EXPRESSION TAG SEQADV 2O0R HIS A 410 UNP O53870 EXPRESSION TAG SEQADV 2O0R MET B 0 UNP O53870 INITIATING METHIONINE SEQADV 2O0R ALA B 1 UNP O53870 CLONING ARTIFACT SEQADV 2O0R LLP B 232 UNP O53870 LYS 232 MODIFIED RESIDUE SEQADV 2O0R GLY B 398 UNP O53870 CLONING ARTIFACT SEQADV 2O0R VAL B 399 UNP O53870 CLONING ARTIFACT SEQADV 2O0R PRO B 400 UNP O53870 CLONING ARTIFACT SEQADV 2O0R ARG B 401 UNP O53870 CLONING ARTIFACT SEQADV 2O0R GLY B 402 UNP O53870 CLONING ARTIFACT SEQADV 2O0R LEU B 403 UNP O53870 CLONING ARTIFACT SEQADV 2O0R GLU B 404 UNP O53870 CLONING ARTIFACT SEQADV 2O0R HIS B 405 UNP O53870 EXPRESSION TAG SEQADV 2O0R HIS B 406 UNP O53870 EXPRESSION TAG SEQADV 2O0R HIS B 407 UNP O53870 EXPRESSION TAG SEQADV 2O0R HIS B 408 UNP O53870 EXPRESSION TAG SEQADV 2O0R HIS B 409 UNP O53870 EXPRESSION TAG SEQADV 2O0R HIS B 410 UNP O53870 EXPRESSION TAG SEQRES 1 A 411 MET ALA THR VAL SER ARG LEU ARG PRO TYR ALA THR THR SEQRES 2 A 411 VAL PHE ALA GLU MET SER ALA LEU ALA THR ARG ILE GLY SEQRES 3 A 411 ALA VAL ASN LEU GLY GLN GLY PHE PRO ASP GLU ASP GLY SEQRES 4 A 411 PRO PRO LYS MET LEU GLN ALA ALA GLN ASP ALA ILE ALA SEQRES 5 A 411 GLY GLY VAL ASN GLN TYR PRO PRO GLY PRO GLY SER ALA SEQRES 6 A 411 PRO LEU ARG ARG ALA ILE ALA ALA GLN ARG ARG ARG HIS SEQRES 7 A 411 PHE GLY VAL ASP TYR ASP PRO GLU THR GLU VAL LEU VAL SEQRES 8 A 411 THR VAL GLY ALA THR GLU ALA ILE ALA ALA ALA VAL LEU SEQRES 9 A 411 GLY LEU VAL GLU PRO GLY SER GLU VAL LEU LEU ILE GLU SEQRES 10 A 411 PRO PHE TYR ASP SER TYR SER PRO VAL VAL ALA MET ALA SEQRES 11 A 411 GLY ALA HIS ARG VAL THR VAL PRO LEU VAL PRO ASP GLY SEQRES 12 A 411 ARG GLY PHE ALA LEU ASP ALA ASP ALA LEU ARG ARG ALA SEQRES 13 A 411 VAL THR PRO ARG THR ARG ALA LEU ILE ILE ASN SER PRO SEQRES 14 A 411 HIS ASN PRO THR GLY ALA VAL LEU SER ALA THR GLU LEU SEQRES 15 A 411 ALA ALA ILE ALA GLU ILE ALA VAL ALA ALA ASN LEU VAL SEQRES 16 A 411 VAL ILE THR ASP GLU VAL TYR GLU HIS LEU VAL PHE ASP SEQRES 17 A 411 HIS ALA ARG HIS LEU PRO LEU ALA GLY PHE ASP GLY MET SEQRES 18 A 411 ALA GLU ARG THR ILE THR ILE SER SER ALA ALA LLP MET SEQRES 19 A 411 PHE ASN CYS THR GLY TRP LYS ILE GLY TRP ALA CYS GLY SEQRES 20 A 411 PRO ALA GLU LEU ILE ALA GLY VAL ARG ALA ALA LYS GLN SEQRES 21 A 411 TYR LEU SER TYR VAL GLY GLY ALA PRO PHE GLN PRO ALA SEQRES 22 A 411 VAL ALA LEU ALA LEU ASP THR GLU ASP ALA TRP VAL ALA SEQRES 23 A 411 ALA LEU ARG ASN SER LEU ARG ALA ARG ARG ASP ARG LEU SEQRES 24 A 411 ALA ALA GLY LEU THR GLU ILE GLY PHE ALA VAL HIS ASP SEQRES 25 A 411 SER TYR GLY THR TYR PHE LEU CYS ALA ASP PRO ARG PRO SEQRES 26 A 411 LEU GLY TYR ASP ASP SER THR GLU PHE CYS ALA ALA LEU SEQRES 27 A 411 PRO GLU LYS VAL GLY VAL ALA ALA ILE PRO MET SER ALA SEQRES 28 A 411 PHE CYS ASP PRO ALA ALA GLY GLN ALA SER GLN GLN ALA SEQRES 29 A 411 ASP VAL TRP ASN HIS LEU VAL ARG PHE THR PHE CYS LYS SEQRES 30 A 411 ARG ASP ASP THR LEU ASP GLU ALA ILE ARG ARG LEU SER SEQRES 31 A 411 VAL LEU ALA GLU ARG PRO ALA THR GLY VAL PRO ARG GLY SEQRES 32 A 411 LEU GLU HIS HIS HIS HIS HIS HIS SEQRES 1 B 411 MET ALA THR VAL SER ARG LEU ARG PRO TYR ALA THR THR SEQRES 2 B 411 VAL PHE ALA GLU MET SER ALA LEU ALA THR ARG ILE GLY SEQRES 3 B 411 ALA VAL ASN LEU GLY GLN GLY PHE PRO ASP GLU ASP GLY SEQRES 4 B 411 PRO PRO LYS MET LEU GLN ALA ALA GLN ASP ALA ILE ALA SEQRES 5 B 411 GLY GLY VAL ASN GLN TYR PRO PRO GLY PRO GLY SER ALA SEQRES 6 B 411 PRO LEU ARG ARG ALA ILE ALA ALA GLN ARG ARG ARG HIS SEQRES 7 B 411 PHE GLY VAL ASP TYR ASP PRO GLU THR GLU VAL LEU VAL SEQRES 8 B 411 THR VAL GLY ALA THR GLU ALA ILE ALA ALA ALA VAL LEU SEQRES 9 B 411 GLY LEU VAL GLU PRO GLY SER GLU VAL LEU LEU ILE GLU SEQRES 10 B 411 PRO PHE TYR ASP SER TYR SER PRO VAL VAL ALA MET ALA SEQRES 11 B 411 GLY ALA HIS ARG VAL THR VAL PRO LEU VAL PRO ASP GLY SEQRES 12 B 411 ARG GLY PHE ALA LEU ASP ALA ASP ALA LEU ARG ARG ALA SEQRES 13 B 411 VAL THR PRO ARG THR ARG ALA LEU ILE ILE ASN SER PRO SEQRES 14 B 411 HIS ASN PRO THR GLY ALA VAL LEU SER ALA THR GLU LEU SEQRES 15 B 411 ALA ALA ILE ALA GLU ILE ALA VAL ALA ALA ASN LEU VAL SEQRES 16 B 411 VAL ILE THR ASP GLU VAL TYR GLU HIS LEU VAL PHE ASP SEQRES 17 B 411 HIS ALA ARG HIS LEU PRO LEU ALA GLY PHE ASP GLY MET SEQRES 18 B 411 ALA GLU ARG THR ILE THR ILE SER SER ALA ALA LLP MET SEQRES 19 B 411 PHE ASN CYS THR GLY TRP LYS ILE GLY TRP ALA CYS GLY SEQRES 20 B 411 PRO ALA GLU LEU ILE ALA GLY VAL ARG ALA ALA LYS GLN SEQRES 21 B 411 TYR LEU SER TYR VAL GLY GLY ALA PRO PHE GLN PRO ALA SEQRES 22 B 411 VAL ALA LEU ALA LEU ASP THR GLU ASP ALA TRP VAL ALA SEQRES 23 B 411 ALA LEU ARG ASN SER LEU ARG ALA ARG ARG ASP ARG LEU SEQRES 24 B 411 ALA ALA GLY LEU THR GLU ILE GLY PHE ALA VAL HIS ASP SEQRES 25 B 411 SER TYR GLY THR TYR PHE LEU CYS ALA ASP PRO ARG PRO SEQRES 26 B 411 LEU GLY TYR ASP ASP SER THR GLU PHE CYS ALA ALA LEU SEQRES 27 B 411 PRO GLU LYS VAL GLY VAL ALA ALA ILE PRO MET SER ALA SEQRES 28 B 411 PHE CYS ASP PRO ALA ALA GLY GLN ALA SER GLN GLN ALA SEQRES 29 B 411 ASP VAL TRP ASN HIS LEU VAL ARG PHE THR PHE CYS LYS SEQRES 30 B 411 ARG ASP ASP THR LEU ASP GLU ALA ILE ARG ARG LEU SER SEQRES 31 B 411 VAL LEU ALA GLU ARG PRO ALA THR GLY VAL PRO ARG GLY SEQRES 32 B 411 LEU GLU HIS HIS HIS HIS HIS HIS MODRES 2O0R LLP A 232 LYS MODRES 2O0R LLP B 232 LYS HET LLP A 232 24 HET LLP B 232 24 HET CL A 601 1 HET GOL A 701 6 HET CL B 602 1 HET NA B 603 1 HET GOL B 702 6 HETNAM LLP (2S)-2-AMINO-6-[[3-HYDROXY-2-METHYL-5- HETNAM 2 LLP (PHOSPHONOOXYMETHYL)PYRIDIN-4- HETNAM 3 LLP YL]METHYLIDENEAMINO]HEXANOIC ACID HETNAM CL CHLORIDE ION HETNAM GOL GLYCEROL HETNAM NA SODIUM ION HETSYN LLP N'-PYRIDOXYL-LYSINE-5'-MONOPHOSPHATE HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 1 LLP 2(C14 H22 N3 O7 P) FORMUL 3 CL 2(CL 1-) FORMUL 4 GOL 2(C3 H8 O3) FORMUL 6 NA NA 1+ FORMUL 8 HOH *457(H2 O) HELIX 1 1 VAL A 3 ALA A 10 5 8 HELIX 2 2 THR A 12 ARG A 23 1 12 HELIX 3 3 PRO A 39 GLY A 52 1 14 HELIX 4 4 SER A 63 GLY A 79 1 17 HELIX 5 5 GLY A 93 VAL A 106 1 14 HELIX 6 6 SER A 121 ALA A 129 1 9 HELIX 7 7 ASP A 148 VAL A 156 1 9 HELIX 8 8 SER A 177 ALA A 191 1 15 HELIX 9 9 PRO A 213 PHE A 217 5 5 HELIX 10 10 MET A 220 GLU A 222 5 3 HELIX 11 11 ALA A 230 PHE A 234 1 5 HELIX 12 12 PRO A 247 SER A 262 1 16 HELIX 13 13 PRO A 268 GLU A 280 1 13 HELIX 14 14 GLU A 280 GLY A 306 1 27 HELIX 15 15 PRO A 322 GLY A 326 5 5 HELIX 16 16 ASP A 329 GLY A 342 1 14 HELIX 17 17 SER A 349 CYS A 352 5 4 HELIX 18 18 VAL A 365 HIS A 368 5 4 HELIX 19 19 ARG A 377 SER A 389 1 13 HELIX 20 20 VAL A 390 GLU A 393 5 4 HELIX 21 21 VAL B 3 ALA B 10 5 8 HELIX 22 22 THR B 12 ARG B 23 1 12 HELIX 23 23 PRO B 39 GLY B 52 1 14 HELIX 24 24 SER B 63 GLY B 79 1 17 HELIX 25 25 GLY B 93 VAL B 106 1 14 HELIX 26 26 SER B 121 ALA B 129 1 9 HELIX 27 27 ASP B 148 VAL B 156 1 9 HELIX 28 28 SER B 177 ASN B 192 1 16 HELIX 29 29 PRO B 213 PHE B 217 5 5 HELIX 30 30 MET B 220 GLU B 222 5 3 HELIX 31 31 ALA B 230 PHE B 234 1 5 HELIX 32 32 CYS B 236 TRP B 239 5 4 HELIX 33 33 PRO B 247 GLN B 259 1 13 HELIX 34 34 PRO B 268 GLU B 280 1 13 HELIX 35 35 GLU B 280 GLY B 306 1 27 HELIX 36 36 PRO B 322 GLY B 326 5 5 HELIX 37 37 ASP B 329 GLY B 342 1 14 HELIX 38 38 SER B 349 CYS B 352 5 4 HELIX 39 39 VAL B 365 HIS B 368 5 4 HELIX 40 40 ARG B 377 SER B 389 1 13 HELIX 41 41 VAL B 390 ALA B 392 5 3 SHEET 1 A 2 VAL A 27 ASN A 28 0 SHEET 2 A 2 VAL A 343 ALA A 344 1 O ALA A 344 N VAL A 27 SHEET 1 B 7 VAL A 88 VAL A 92 0 SHEET 2 B 7 ILE A 241 CYS A 245 -1 O GLY A 242 N THR A 91 SHEET 3 B 7 THR A 224 SER A 229 -1 N THR A 226 O CYS A 245 SHEET 4 B 7 VAL A 194 ASP A 198 1 N THR A 197 O ILE A 225 SHEET 5 B 7 THR A 160 ASN A 166 1 N ILE A 165 O ASP A 198 SHEET 6 B 7 GLU A 111 GLU A 116 1 N GLU A 111 O ARG A 161 SHEET 7 B 7 HIS A 132 PRO A 137 1 O VAL A 136 N LEU A 114 SHEET 1 C 2 VAL A 139 ASP A 141 0 SHEET 2 C 2 GLY A 144 ALA A 146 -1 O ALA A 146 N VAL A 139 SHEET 1 D 4 ALA A 308 VAL A 309 0 SHEET 2 D 4 PHE A 317 ASP A 321 -1 O ASP A 321 N ALA A 308 SHEET 3 D 4 VAL A 370 THR A 373 -1 O PHE A 372 N LEU A 318 SHEET 4 D 4 ILE A 346 PRO A 347 -1 N ILE A 346 O ARG A 371 SHEET 1 E 2 VAL B 27 ASN B 28 0 SHEET 2 E 2 VAL B 343 ALA B 344 1 O ALA B 344 N VAL B 27 SHEET 1 F 7 VAL B 88 VAL B 92 0 SHEET 2 F 7 ILE B 241 CYS B 245 -1 O ALA B 244 N LEU B 89 SHEET 3 F 7 THR B 224 SER B 229 -1 N THR B 226 O CYS B 245 SHEET 4 F 7 VAL B 194 ASP B 198 1 N VAL B 195 O ILE B 225 SHEET 5 F 7 THR B 160 ASN B 166 1 N ILE B 165 O ASP B 198 SHEET 6 F 7 GLU B 111 GLU B 116 1 N GLU B 111 O ARG B 161 SHEET 7 F 7 HIS B 132 PRO B 137 1 O VAL B 134 N LEU B 114 SHEET 1 G 2 VAL B 139 ASP B 141 0 SHEET 2 G 2 GLY B 144 ALA B 146 -1 O GLY B 144 N ASP B 141 SHEET 1 H 4 ALA B 308 VAL B 309 0 SHEET 2 H 4 PHE B 317 ASP B 321 -1 O ASP B 321 N ALA B 308 SHEET 3 H 4 VAL B 370 THR B 373 -1 O PHE B 372 N LEU B 318 SHEET 4 H 4 ILE B 346 PRO B 347 -1 N ILE B 346 O ARG B 371 LINK C ALA A 231 N LLP A 232 1555 1555 1.32 LINK C LLP A 232 N MET A 233 1555 1555 1.33 LINK C ALA B 231 N LLP B 232 1555 1555 1.33 LINK C LLP B 232 N MET B 233 1555 1555 1.32 LINK O ALA B 191 NA NA B 603 1555 1555 2.65 LINK NA NA B 603 O HOH B 929 1555 1555 2.52 LINK NA NA B 603 O HOH B 930 1555 1555 2.37 LINK NA NA B 603 O HOH B 931 1555 1555 2.13 LINK NA NA B 603 O HOH B 932 1555 1555 2.27 CISPEP 1 GLU A 116 PRO A 117 0 -2.10 CISPEP 2 SER A 167 PRO A 168 0 -4.49 CISPEP 3 ASN A 170 PRO A 171 0 14.71 CISPEP 4 GLU B 116 PRO B 117 0 -2.16 CISPEP 5 SER B 167 PRO B 168 0 -7.04 CISPEP 6 ASN B 170 PRO B 171 0 14.05 SITE 1 AC1 3 ARG A 76 THR A 179 HOH A 788 SITE 1 AC2 3 ALA B 178 THR B 179 HOH B 711 SITE 1 AC3 5 ALA B 191 HOH B 929 HOH B 930 HOH B 931 SITE 2 AC3 5 HOH B 932 SITE 1 AC4 5 THR A 12 PHE A 14 ASP A 120 TYR B 263 SITE 2 AC4 5 HOH B 745 SITE 1 AC5 7 TYR A 260 TYR A 263 HOH A 714 THR B 12 SITE 2 AC5 7 PHE B 14 TYR B 119 ASP B 120 CRYST1 54.340 56.130 247.470 90.00 90.00 90.00 P 2 2 21 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 0.018403 0.000000 0.000000 0.00000 SCALE2 0.000000 0.017816 0.000000 0.00000 SCALE3 0.000000 0.000000 0.004041 0.00000