HEADER OXIDOREDUCTASE 22-JUN-05 2A2J TITLE CRYSTAL STRUCTURE OF A PUTATIVE PYRIDOXINE 5'-PHOSPHATE OXIDASE TITLE 2 (RV2607) FROM MYCOBACTERIUM TUBERCULOSIS COMPND MOL_ID: 1; COMPND 2 MOLECULE: PYRIDOXAMINE 5'-PHOSPHATE OXIDASE; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: PNP/PMP OXIDASE, PNPOX; COMPND 5 EC: 1.4.3.5; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MYCOBACTERIUM TUBERCULOSIS; SOURCE 3 ORGANISM_TAXID: 1773; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 5 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 6 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 8 EXPRESSION_SYSTEM_PLASMID: PET28B DERIVATIVE KEYWDS BETA BARREL, STRUCTURAL GENOMICS, MYCOBACTERIUM TUBERCULOSIS KEYWDS 2 STRUCTURAL PROTEOMICS PROJECT, XMTB, OXIDOREDUCTASE EXPDTA X-RAY DIFFRACTION AUTHOR J.-D.PEDELACQ,B.-S.RHO,C.-Y.KIM,G.S.WALDO,T.P.LEKIN,B.W.SEGELKE, AUTHOR 2 B.RUPP,L.-W.HUNG,S.-I.KIM,T.C.TERWILLIGER,MYCOBACTERIUM TUBERCULOSIS AUTHOR 3 STRUCTURAL PROTEOMICS PROJECT (XMTB) REVDAT 6 23-AUG-23 2A2J 1 SEQADV LINK REVDAT 5 13-JUL-11 2A2J 1 VERSN REVDAT 4 24-FEB-09 2A2J 1 VERSN REVDAT 3 28-NOV-06 2A2J 1 KEYWDS SEQADV REVDAT 2 31-JAN-06 2A2J 1 JRNL REVDAT 1 23-AUG-05 2A2J 0 JRNL AUTH J.-D.PEDELACQ,B.-S.RHO,C.-Y.KIM,G.S.WALDO,T.P.LEKIN, JRNL AUTH 2 B.W.SEGELKE,B.RUPP,L.-W.HUNG,S.-I.KIM,T.C.TERWILLIGER JRNL TITL CRYSTAL STRUCTURE OF A PUTATIVE PYRIDOXINE 5'-PHOSPHATE JRNL TITL 2 OXIDASE (RV2607) FROM MYCOBACTERIUM TUBERCULOSIS. JRNL REF PROTEINS V. 62 563 2005 JRNL REFN ISSN 0887-3585 JRNL PMID 16374842 JRNL DOI 10.1002/PROT.20824 REMARK 2 REMARK 2 RESOLUTION. 2.50 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) : 2.50 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 29.48 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 19513 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) : 0.213 REMARK 3 R VALUE (WORKING SET) : 0.209 REMARK 3 FREE R VALUE : 0.260 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 7.300 REMARK 3 FREE R VALUE TEST SET COUNT : 1535 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) : 2.50 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.57 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1404 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.0 REMARK 3 BIN R VALUE (WORKING SET) : 0.3420 REMARK 3 BIN FREE R VALUE SET COUNT : 113 REMARK 3 BIN FREE R VALUE : 0.3200 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3206 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 75 REMARK 3 REMARK 3 B VALUES. REMARK 3 B VALUE TYPE : LIKELY RESIDUAL REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 36.30 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 2.43000 REMARK 3 B22 (A**2) : -2.48000 REMARK 3 B33 (A**2) : 0.05000 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): 0.384 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.274 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.204 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 19.196 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.937 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.899 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3286 ; 0.023 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4462 ; 2.007 ; 1.937 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 400 ; 6.009 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 164 ;35.709 ;23.171 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 506 ;19.291 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 34 ;21.513 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 464 ; 0.120 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2580 ; 0.007 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1383 ; 0.295 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 2183 ; 0.317 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 132 ; 0.195 ; 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): 20 ; 0.275 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 3 ; 0.429 ; 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): 2091 ; 0.971 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3224 ; 1.671 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1440 ; 2.584 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1238 ; 4.058 ; 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 : 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 24 A 226 REMARK 3 ORIGIN FOR THE GROUP (A): 0.7304 3.6733 -36.6464 REMARK 3 T TENSOR REMARK 3 T11: -0.0803 T22: -0.0740 REMARK 3 T33: -0.0782 T12: -0.0379 REMARK 3 T13: 0.0083 T23: -0.0211 REMARK 3 L TENSOR REMARK 3 L11: 1.1587 L22: 3.8484 REMARK 3 L33: 2.3710 L12: -0.5797 REMARK 3 L13: -0.4361 L23: -0.8420 REMARK 3 S TENSOR REMARK 3 S11: -0.0702 S12: 0.0762 S13: -0.2140 REMARK 3 S21: -0.2199 S22: -0.0643 S23: 0.1708 REMARK 3 S31: 0.4371 S32: 0.0248 S33: 0.1345 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 24 B 226 REMARK 3 ORIGIN FOR THE GROUP (A): 11.5737 19.0628 -30.0976 REMARK 3 T TENSOR REMARK 3 T11: -0.0970 T22: -0.0412 REMARK 3 T33: -0.1097 T12: -0.0321 REMARK 3 T13: -0.0166 T23: -0.0104 REMARK 3 L TENSOR REMARK 3 L11: 1.2885 L22: 2.6172 REMARK 3 L33: 1.5433 L12: -0.0669 REMARK 3 L13: -0.3228 L23: -0.4526 REMARK 3 S TENSOR REMARK 3 S11: -0.0466 S12: -0.0581 S13: 0.0885 REMARK 3 S21: 0.2167 S22: 0.0328 S23: -0.1669 REMARK 3 S31: -0.1190 S32: 0.1857 S33: 0.0138 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: NULL REMARK 4 REMARK 4 2A2J COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 11-JUL-05. REMARK 100 THE DEPOSITION ID IS D_1000033410. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 05-AUG-03 REMARK 200 TEMPERATURE (KELVIN) : 273 REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ALS REMARK 200 BEAMLINE : 5.0.1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0 REMARK 200 MONOCHROMATOR : SINGLE CRYSTAL, CYLINDRICALLY REMARK 200 BENT, SI(220) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 4 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : CCP4 (SCALA) REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 21094 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.500 REMARK 200 RESOLUTION RANGE LOW (A) : 29.480 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.50 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.64 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL 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 1G79 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 53.90 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.69 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: TRIS/MALEATE, PEG 10000, N,N REMARK 280 -DIMETHYLDODECYLAMINE N-OXIDE, PH 6.5, VAPOR DIFFUSION, SITTING REMARK 280 DROP, TEMPERATURE 295K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 REMARK 290 4555 X+1/2,-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 34.80450 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 46.49600 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 45.55400 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 46.49600 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 34.80450 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 45.55400 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 BIOLOGICAL UNIT CONSISTS OF CHAIN A AND B. 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: 4950 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 18340 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -17.0 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 -19 REMARK 465 GLY A -18 REMARK 465 SER A -17 REMARK 465 SER A -16 REMARK 465 HIS A -15 REMARK 465 HIS A -14 REMARK 465 HIS A -13 REMARK 465 HIS A -12 REMARK 465 HIS A -11 REMARK 465 HIS A -10 REMARK 465 SER A -9 REMARK 465 SER A -8 REMARK 465 GLY A -7 REMARK 465 LEU A -6 REMARK 465 VAL A -5 REMARK 465 PRO A -4 REMARK 465 ARG A -3 REMARK 465 GLY A -2 REMARK 465 SER A -1 REMARK 465 HIS A 0 REMARK 465 MET A 1 REMARK 465 ASP A 2 REMARK 465 ASP A 3 REMARK 465 ASP A 4 REMARK 465 ALA A 5 REMARK 465 GLN A 6 REMARK 465 MET A 7 REMARK 465 VAL A 8 REMARK 465 ALA A 9 REMARK 465 ILE A 10 REMARK 465 ASP A 11 REMARK 465 LYS A 12 REMARK 465 ASP A 13 REMARK 465 GLN A 14 REMARK 465 LEU A 15 REMARK 465 ALA A 16 REMARK 465 ARG A 17 REMARK 465 MET A 18 REMARK 465 ARG A 19 REMARK 465 GLY A 20 REMARK 465 GLU A 21 REMARK 465 TYR A 22 REMARK 465 GLY A 23 REMARK 465 MET B -19 REMARK 465 GLY B -18 REMARK 465 SER B -17 REMARK 465 SER B -16 REMARK 465 HIS B -15 REMARK 465 HIS B -14 REMARK 465 HIS B -13 REMARK 465 HIS B -12 REMARK 465 HIS B -11 REMARK 465 HIS B -10 REMARK 465 SER B -9 REMARK 465 SER B -8 REMARK 465 GLY B -7 REMARK 465 LEU B -6 REMARK 465 VAL B -5 REMARK 465 PRO B -4 REMARK 465 ARG B -3 REMARK 465 GLY B -2 REMARK 465 SER B -1 REMARK 465 HIS B 0 REMARK 465 MET B 1 REMARK 465 ASP B 2 REMARK 465 ASP B 3 REMARK 465 ASP B 4 REMARK 465 ALA B 5 REMARK 465 GLN B 6 REMARK 465 MET B 7 REMARK 465 VAL B 8 REMARK 465 ALA B 9 REMARK 465 ILE B 10 REMARK 465 ASP B 11 REMARK 465 LYS B 12 REMARK 465 ASP B 13 REMARK 465 GLN B 14 REMARK 465 LEU B 15 REMARK 465 ALA B 16 REMARK 465 ARG B 17 REMARK 465 MET B 18 REMARK 465 ARG B 19 REMARK 465 GLY B 20 REMARK 465 GLU B 21 REMARK 465 TYR B 22 REMARK 465 GLY B 23 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 ARG A 218 CG CD NE CZ NH1 NH2 REMARK 470 ARG B 218 CG CD NE CZ NH1 NH2 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 CE MET A 208 CB ALA B 152 1.82 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 OD2 ASP A 31 NH2 ARG B 54 4454 2.16 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 CME A 29 C GLY A 30 N 0.140 REMARK 500 GLY A 30 C ASP A 31 N -0.149 REMARK 500 TYR A 138 CG TYR A 138 CD1 0.095 REMARK 500 ARG A 174 C ARG A 175 N -0.148 REMARK 500 GLU A 205 C ASN A 206 N 0.171 REMARK 500 GLY B 28 C CME B 29 N -0.160 REMARK 500 CME B 29 C GLY B 30 N 0.203 REMARK 500 TYR B 107 CD1 TYR B 107 CE1 0.109 REMARK 500 TYR B 107 CE2 TYR B 107 CD2 0.145 REMARK 500 GLU B 205 CB GLU B 205 CG 0.123 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 GLY A 30 O - C - N ANGL. DEV. = -12.7 DEGREES REMARK 500 ASP A 31 C - N - CA ANGL. DEV. = 17.3 DEGREES REMARK 500 ASP A 31 O - C - N ANGL. DEV. = 12.8 DEGREES REMARK 500 MET A 141 CG - SD - CE ANGL. DEV. = 9.8 DEGREES REMARK 500 ARG A 142 NE - CZ - NH2 ANGL. DEV. = 3.6 DEGREES REMARK 500 ARG A 144 NE - CZ - NH2 ANGL. DEV. = 3.2 DEGREES REMARK 500 ARG A 144 O - C - N ANGL. DEV. = -11.7 DEGREES REMARK 500 ARG A 157 NE - CZ - NH2 ANGL. DEV. = 3.9 DEGREES REMARK 500 ARG A 175 NE - CZ - NH2 ANGL. DEV. = 3.7 DEGREES REMARK 500 ARG A 207 NE - CZ - NH2 ANGL. DEV. = 3.6 DEGREES REMARK 500 MET A 208 CG - SD - CE ANGL. DEV. = 9.9 DEGREES REMARK 500 ARG B 54 NE - CZ - NH1 ANGL. DEV. = 4.5 DEGREES REMARK 500 ARG B 54 NE - CZ - NH2 ANGL. DEV. = -7.2 DEGREES REMARK 500 ARG B 144 NE - CZ - NH2 ANGL. DEV. = 3.8 DEGREES REMARK 500 GLN B 154 O - C - N ANGL. DEV. = 11.7 DEGREES REMARK 500 ARG B 157 NE - CZ - NH2 ANGL. DEV. = 3.6 DEGREES REMARK 500 MET B 208 CG - SD - CE ANGL. DEV. = 10.0 DEGREES REMARK 500 ARG B 211 NE - CZ - NH2 ANGL. DEV. = 3.5 DEGREES REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 TRP A 114 58.92 -91.22 REMARK 500 GLN A 155 127.43 -6.40 REMARK 500 SER A 156 56.77 18.84 REMARK 500 GLU B 25 -65.01 -17.86 REMARK 500 GLN B 155 -65.21 -12.41 REMARK 500 SER B 156 -74.23 -98.84 REMARK 500 ARG B 157 111.51 4.11 REMARK 500 MET B 208 58.86 -92.07 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 GLU B 25 LYS B 26 -148.43 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 CME A 29 -15.41 REMARK 500 GLY B 28 -13.96 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: RV2607 RELATED DB: TARGETDB DBREF 2A2J A 1 224 UNP P65682 PDXH_MYCTU 1 224 DBREF 2A2J B 1 224 UNP P65682 PDXH_MYCTU 1 224 SEQADV 2A2J MET A -19 UNP P65682 CLONING ARTIFACT SEQADV 2A2J GLY A -18 UNP P65682 CLONING ARTIFACT SEQADV 2A2J SER A -17 UNP P65682 CLONING ARTIFACT SEQADV 2A2J SER A -16 UNP P65682 CLONING ARTIFACT SEQADV 2A2J HIS A -15 UNP P65682 EXPRESSION TAG SEQADV 2A2J HIS A -14 UNP P65682 EXPRESSION TAG SEQADV 2A2J HIS A -13 UNP P65682 EXPRESSION TAG SEQADV 2A2J HIS A -12 UNP P65682 EXPRESSION TAG SEQADV 2A2J HIS A -11 UNP P65682 EXPRESSION TAG SEQADV 2A2J HIS A -10 UNP P65682 EXPRESSION TAG SEQADV 2A2J SER A -9 UNP P65682 CLONING ARTIFACT SEQADV 2A2J SER A -8 UNP P65682 CLONING ARTIFACT SEQADV 2A2J GLY A -7 UNP P65682 CLONING ARTIFACT SEQADV 2A2J LEU A -6 UNP P65682 CLONING ARTIFACT SEQADV 2A2J VAL A -5 UNP P65682 CLONING ARTIFACT SEQADV 2A2J PRO A -4 UNP P65682 CLONING ARTIFACT SEQADV 2A2J ARG A -3 UNP P65682 CLONING ARTIFACT SEQADV 2A2J GLY A -2 UNP P65682 CLONING ARTIFACT SEQADV 2A2J SER A -1 UNP P65682 CLONING ARTIFACT SEQADV 2A2J HIS A 0 UNP P65682 CLONING ARTIFACT SEQADV 2A2J CME A 29 UNP P65682 CYS 29 MODIFIED RESIDUE SEQADV 2A2J GLY A 225 UNP P65682 CLONING ARTIFACT SEQADV 2A2J SER A 226 UNP P65682 CLONING ARTIFACT SEQADV 2A2J MET B -19 UNP P65682 CLONING ARTIFACT SEQADV 2A2J GLY B -18 UNP P65682 CLONING ARTIFACT SEQADV 2A2J SER B -17 UNP P65682 CLONING ARTIFACT SEQADV 2A2J SER B -16 UNP P65682 CLONING ARTIFACT SEQADV 2A2J HIS B -15 UNP P65682 EXPRESSION TAG SEQADV 2A2J HIS B -14 UNP P65682 EXPRESSION TAG SEQADV 2A2J HIS B -13 UNP P65682 EXPRESSION TAG SEQADV 2A2J HIS B -12 UNP P65682 EXPRESSION TAG SEQADV 2A2J HIS B -11 UNP P65682 EXPRESSION TAG SEQADV 2A2J HIS B -10 UNP P65682 EXPRESSION TAG SEQADV 2A2J SER B -9 UNP P65682 CLONING ARTIFACT SEQADV 2A2J SER B -8 UNP P65682 CLONING ARTIFACT SEQADV 2A2J GLY B -7 UNP P65682 CLONING ARTIFACT SEQADV 2A2J LEU B -6 UNP P65682 CLONING ARTIFACT SEQADV 2A2J VAL B -5 UNP P65682 CLONING ARTIFACT SEQADV 2A2J PRO B -4 UNP P65682 CLONING ARTIFACT SEQADV 2A2J ARG B -3 UNP P65682 CLONING ARTIFACT SEQADV 2A2J GLY B -2 UNP P65682 CLONING ARTIFACT SEQADV 2A2J SER B -1 UNP P65682 CLONING ARTIFACT SEQADV 2A2J HIS B 0 UNP P65682 CLONING ARTIFACT SEQADV 2A2J CME B 29 UNP P65682 CYS 29 MODIFIED RESIDUE SEQADV 2A2J GLY B 225 UNP P65682 CLONING ARTIFACT SEQADV 2A2J SER B 226 UNP P65682 CLONING ARTIFACT SEQRES 1 A 246 MET GLY SER SER HIS HIS HIS HIS HIS HIS SER SER GLY SEQRES 2 A 246 LEU VAL PRO ARG GLY SER HIS MET ASP ASP ASP ALA GLN SEQRES 3 A 246 MET VAL ALA ILE ASP LYS ASP GLN LEU ALA ARG MET ARG SEQRES 4 A 246 GLY GLU TYR GLY PRO GLU LYS ASP GLY CME GLY ASP LEU SEQRES 5 A 246 ASP PHE ASP TRP LEU ASP ASP GLY TRP LEU THR LEU LEU SEQRES 6 A 246 ARG ARG TRP LEU ASN ASP ALA GLN ARG ALA GLY VAL SER SEQRES 7 A 246 GLU PRO ASN ALA MET VAL LEU ALA THR VAL ALA ASP GLY SEQRES 8 A 246 LYS PRO VAL THR ARG SER VAL LEU CYS LYS ILE LEU ASP SEQRES 9 A 246 GLU SER GLY VAL ALA PHE PHE THR SER TYR THR SER ALA SEQRES 10 A 246 LYS GLY GLU GLN LEU ALA VAL THR PRO TYR ALA SER ALA SEQRES 11 A 246 THR PHE PRO TRP TYR GLN LEU GLY ARG GLN ALA HIS VAL SEQRES 12 A 246 GLN GLY PRO VAL SER LYS VAL SER THR GLU GLU ILE PHE SEQRES 13 A 246 THR TYR TRP SER MET ARG PRO ARG GLY ALA GLN LEU GLY SEQRES 14 A 246 ALA TRP ALA SER GLN GLN SER ARG PRO VAL GLY SER ARG SEQRES 15 A 246 ALA GLN LEU ASP ASN GLN LEU ALA GLU VAL THR ARG ARG SEQRES 16 A 246 PHE ALA ASP GLN ASP GLN ILE PRO VAL PRO PRO GLY TRP SEQRES 17 A 246 GLY GLY TYR ARG ILE ALA PRO GLU ILE VAL GLU PHE TRP SEQRES 18 A 246 GLN GLY ARG GLU ASN ARG MET HIS ASN ARG ILE ARG VAL SEQRES 19 A 246 ALA ASN GLY ARG LEU GLU ARG LEU GLN PRO GLY SER SEQRES 1 B 246 MET GLY SER SER HIS HIS HIS HIS HIS HIS SER SER GLY SEQRES 2 B 246 LEU VAL PRO ARG GLY SER HIS MET ASP ASP ASP ALA GLN SEQRES 3 B 246 MET VAL ALA ILE ASP LYS ASP GLN LEU ALA ARG MET ARG SEQRES 4 B 246 GLY GLU TYR GLY PRO GLU LYS ASP GLY CME GLY ASP LEU SEQRES 5 B 246 ASP PHE ASP TRP LEU ASP ASP GLY TRP LEU THR LEU LEU SEQRES 6 B 246 ARG ARG TRP LEU ASN ASP ALA GLN ARG ALA GLY VAL SER SEQRES 7 B 246 GLU PRO ASN ALA MET VAL LEU ALA THR VAL ALA ASP GLY SEQRES 8 B 246 LYS PRO VAL THR ARG SER VAL LEU CYS LYS ILE LEU ASP SEQRES 9 B 246 GLU SER GLY VAL ALA PHE PHE THR SER TYR THR SER ALA SEQRES 10 B 246 LYS GLY GLU GLN LEU ALA VAL THR PRO TYR ALA SER ALA SEQRES 11 B 246 THR PHE PRO TRP TYR GLN LEU GLY ARG GLN ALA HIS VAL SEQRES 12 B 246 GLN GLY PRO VAL SER LYS VAL SER THR GLU GLU ILE PHE SEQRES 13 B 246 THR TYR TRP SER MET ARG PRO ARG GLY ALA GLN LEU GLY SEQRES 14 B 246 ALA TRP ALA SER GLN GLN SER ARG PRO VAL GLY SER ARG SEQRES 15 B 246 ALA GLN LEU ASP ASN GLN LEU ALA GLU VAL THR ARG ARG SEQRES 16 B 246 PHE ALA ASP GLN ASP GLN ILE PRO VAL PRO PRO GLY TRP SEQRES 17 B 246 GLY GLY TYR ARG ILE ALA PRO GLU ILE VAL GLU PHE TRP SEQRES 18 B 246 GLN GLY ARG GLU ASN ARG MET HIS ASN ARG ILE ARG VAL SEQRES 19 B 246 ALA ASN GLY ARG LEU GLU ARG LEU GLN PRO GLY SER MODRES 2A2J CME A 29 CYS S,S-(2-HYDROXYETHYL)THIOCYSTEINE MODRES 2A2J CME B 29 CYS S,S-(2-HYDROXYETHYL)THIOCYSTEINE HET CME A 29 10 HET CME B 29 10 HETNAM CME S,S-(2-HYDROXYETHYL)THIOCYSTEINE FORMUL 1 CME 2(C5 H11 N O3 S2) FORMUL 3 HOH *75(H2 O) HELIX 1 1 ASP A 33 ASP A 38 5 6 HELIX 2 2 ASP A 39 ALA A 55 1 17 HELIX 3 3 SER A 96 THR A 105 1 10 HELIX 4 4 TYR A 115 LEU A 117 5 3 HELIX 5 5 SER A 131 ARG A 142 1 12 HELIX 6 6 PRO A 143 SER A 153 1 11 HELIX 7 7 ARG A 162 ALA A 177 1 16 HELIX 8 8 PRO B 24 GLY B 28 5 5 HELIX 9 9 ASP B 33 ASP B 38 5 6 HELIX 10 10 GLY B 40 ALA B 55 1 16 HELIX 11 11 SER B 96 THR B 105 1 10 HELIX 12 12 TYR B 115 LEU B 117 5 3 HELIX 13 13 SER B 131 ARG B 142 1 12 HELIX 14 14 PRO B 143 SER B 153 1 11 HELIX 15 15 ARG B 162 PHE B 176 1 15 SHEET 1 A10 ARG A 218 ARG A 221 0 SHEET 2 A10 ASN A 210 ALA A 215 -1 N ARG A 213 O GLU A 220 SHEET 3 A10 ILE A 197 GLN A 202 -1 N GLN A 202 O ASN A 210 SHEET 4 A10 ARG A 119 LYS A 129 -1 N GLN A 124 O ILE A 197 SHEET 5 A10 TRP A 188 ILE A 193 -1 O ARG A 192 N SER A 128 SHEET 6 A10 GLY A 87 SER A 93 -1 N PHE A 90 O TYR A 191 SHEET 7 A10 LYS A 72 ASP A 84 -1 N LYS A 81 O ALA A 89 SHEET 8 A10 ALA A 62 ALA A 69 -1 N ALA A 69 O LYS A 72 SHEET 9 A10 TYR A 107 TRP A 114 -1 O SER A 109 N ALA A 66 SHEET 10 A10 ARG A 119 LYS A 129 -1 O VAL A 123 N ALA A 110 SHEET 1 B 7 LYS B 72 LEU B 79 0 SHEET 2 B 7 ALA B 62 ALA B 69 -1 N LEU B 65 O ARG B 76 SHEET 3 B 7 TYR B 107 TRP B 114 -1 O SER B 109 N ALA B 66 SHEET 4 B 7 ARG B 119 LYS B 129 -1 O ALA B 121 N PHE B 112 SHEET 5 B 7 TRP B 188 ILE B 193 -1 O ARG B 192 N SER B 128 SHEET 6 B 7 GLY B 87 SER B 93 -1 N VAL B 88 O ILE B 193 SHEET 7 B 7 ILE B 82 ASP B 84 -1 N ILE B 82 O ALA B 89 SHEET 1 C 7 LYS B 72 LEU B 79 0 SHEET 2 C 7 ALA B 62 ALA B 69 -1 N LEU B 65 O ARG B 76 SHEET 3 C 7 TYR B 107 TRP B 114 -1 O SER B 109 N ALA B 66 SHEET 4 C 7 ARG B 119 LYS B 129 -1 O ALA B 121 N PHE B 112 SHEET 5 C 7 ILE B 197 GLN B 202 -1 O TRP B 201 N GLN B 120 SHEET 6 C 7 ASN B 210 ALA B 215 -1 O VAL B 214 N VAL B 198 SHEET 7 C 7 ARG B 218 ARG B 221 -1 O GLU B 220 N ARG B 213 LINK C GLY A 28 N CME A 29 1555 1555 1.32 LINK C CME A 29 N GLY A 30 1555 1555 1.48 LINK O GLY B 28 N CME B 29 1555 1555 2.03 LINK C GLY B 28 N CME B 29 1555 1555 1.18 LINK C CME B 29 N GLY B 30 1555 1555 1.54 CRYST1 69.609 91.108 92.992 90.00 90.00 90.00 P 21 21 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 0.014366 0.000000 0.000000 0.00000 SCALE2 0.000000 0.010976 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010754 0.00000