HEADER LIGASE 16-FEB-12 4DQV TITLE CRYSTAL STRUCTURE OF REDUCTASE (R) DOMAIN OF NON-RIBOSOMAL PEPTIDE TITLE 2 SYNTHETASE FROM MYCOBACTERIUM TUBERCULOSIS COMPND MOL_ID: 1; COMPND 2 MOLECULE: PROBABLE PEPTIDE SYNTHETASE NRP (PEPTIDE SYNTHASE); COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: REDUCTASE DOMAIN, UNP RESIDUES 2056-2512; COMPND 5 EC: 6.-.-.-; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MYCOBACTERIUM TUBERCULOSIS; SOURCE 3 ORGANISM_TAXID: 1773; SOURCE 4 STRAIN: H37RV; SOURCE 5 GENE: NRP, RV0101, RV101; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET28C KEYWDS GXXGXXG MOTIF, ROSSMANN FOLD, SHORT CHAIN DEHYDROGENASE/REDUCTASE KEYWDS 2 FAMILY, REDUCTASE, LIPOPEPTIDE, LIGASE EXPDTA X-RAY DIFFRACTION AUTHOR A.S.HAQUE,S.PANJIKAR,R.SANKARANARAYANAN REVDAT 3 16-OCT-24 4DQV 1 REMARK SEQADV LINK REVDAT 2 15-NOV-17 4DQV 1 REMARK REVDAT 1 20-JUN-12 4DQV 0 JRNL AUTH A.CHHABRA,A.S.HAQUE,R.K.PAL,A.GOYAL,R.RAI,S.JOSHI, JRNL AUTH 2 S.PANJIKAR,S.PASHA,R.SANKARANARAYANAN,R.S.GOKHALE JRNL TITL NONPROCESSIVE [2 + 2]E- OFF-LOADING REDUCTASE DOMAINS FROM JRNL TITL 2 MYCOBACTERIAL NONRIBOSOMAL PEPTIDE SYNTHETASES. JRNL REF PROC.NATL.ACAD.SCI.USA V. 109 5681 2012 JRNL REFN ISSN 0027-8424 JRNL PMID 22451903 JRNL DOI 10.1073/PNAS.1118680109 REMARK 2 REMARK 2 RESOLUTION. 2.30 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.30 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 51.15 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.5 REMARK 3 NUMBER OF REFLECTIONS : 21243 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) : 0.232 REMARK 3 R VALUE (WORKING SET) : 0.229 REMARK 3 FREE R VALUE : 0.278 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1127 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) : 2.30 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.36 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1546 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 98.72 REMARK 3 BIN R VALUE (WORKING SET) : 0.2720 REMARK 3 BIN FREE R VALUE SET COUNT : 73 REMARK 3 BIN FREE R VALUE : 0.3220 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3301 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 161 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 43.13 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 2.45000 REMARK 3 B22 (A**2) : 2.45000 REMARK 3 B33 (A**2) : -3.68000 REMARK 3 B12 (A**2) : 1.23000 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): 0.357 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.260 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.182 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 16.404 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.932 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.898 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3291 ; 0.008 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4488 ; 1.111 ; 1.974 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 424 ; 4.842 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 141 ;33.016 ;23.121 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 499 ;15.308 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 29 ;18.249 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 525 ; 0.074 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2519 ; 0.004 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL 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): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL 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): 2129 ; 0.606 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3402 ; 1.142 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1162 ; 1.453 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1086 ; 2.352 ; 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 21 A 457 REMARK 3 ORIGIN FOR THE GROUP (A): 44.5552 27.5898 99.4467 REMARK 3 T TENSOR REMARK 3 T11: 0.0878 T22: 0.0718 REMARK 3 T33: 0.0175 T12: -0.0261 REMARK 3 T13: 0.0127 T23: -0.0202 REMARK 3 L TENSOR REMARK 3 L11: 0.2698 L22: 0.7817 REMARK 3 L33: 0.9752 L12: 0.3632 REMARK 3 L13: 0.2086 L23: 0.3815 REMARK 3 S TENSOR REMARK 3 S11: 0.1084 S12: -0.0691 S13: 0.0238 REMARK 3 S21: 0.0319 S22: -0.1168 S23: 0.0328 REMARK 3 S31: 0.0488 S32: -0.0141 S33: 0.0084 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : 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: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 4DQV COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 20-FEB-12. REMARK 100 THE DEPOSITION ID IS D_1000070669. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 21-JUN-09 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7 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 : X12 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9004 REMARK 200 MONOCHROMATOR : DOUBLE CRYSTAL SI(111), REMARK 200 HORIZONTALLY FOCUSSING REMARK 200 OPTICS : VERTICALLY FOCUSSING MIRROR REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 225 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO, HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK, HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 22544 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.300 REMARK 200 RESOLUTION RANGE LOW (A) : 51.150 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 12.10 REMARK 200 R MERGE (I) : 0.09200 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 12.8000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.30 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.38 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.8 REMARK 200 DATA REDUNDANCY IN SHELL : 12.00 REMARK 200 R MERGE FOR SHELL (I) : 0.45400 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: SAD REMARK 200 SOFTWARE USED: SOLVE REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 46.19 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.29 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 2.5M AMMONIUM SULPHATE, 100MM MES, PH REMARK 280 7, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 31 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+1/3 REMARK 290 3555 -X+Y,-X,Z+2/3 REMARK 290 4555 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z+2/3 REMARK 290 6555 -X,-X+Y,-Z+1/3 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 79.66267 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 159.32533 REMARK 290 SMTRY1 4 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 4 0.866025 0.500000 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 0.00000 REMARK 290 SMTRY2 5 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 159.32533 REMARK 290 SMTRY1 6 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 79.66267 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: PISA 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 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 MSE A -20 REMARK 465 GLY A -19 REMARK 465 SER A -18 REMARK 465 SER A -17 REMARK 465 HIS 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 SER A -10 REMARK 465 SER A -9 REMARK 465 GLY A -8 REMARK 465 LEU A -7 REMARK 465 VAL A -6 REMARK 465 PRO A -5 REMARK 465 ARG A -4 REMARK 465 GLY A -3 REMARK 465 SER A -2 REMARK 465 HIS A -1 REMARK 465 MSE A 0 REMARK 465 GLY A 1 REMARK 465 ARG A 2 REMARK 465 ASP A 3 REMARK 465 ALA A 4 REMARK 465 ARG A 5 REMARK 465 PRO A 6 REMARK 465 THR A 7 REMARK 465 SER A 8 REMARK 465 ASP A 9 REMARK 465 PRO A 10 REMARK 465 ARG A 11 REMARK 465 LEU A 12 REMARK 465 VAL A 13 REMARK 465 SER A 14 REMARK 465 VAL A 15 REMARK 465 HIS A 16 REMARK 465 GLY A 17 REMARK 465 ASP A 18 REMARK 465 ASN A 19 REMARK 465 PRO A 20 REMARK 465 GLY A 326 REMARK 465 ALA A 396 REMARK 465 SER A 397 REMARK 465 PRO A 404 REMARK 465 LEU A 405 REMARK 465 LYS A 406 REMARK 465 PRO A 407 REMARK 465 THR A 408 REMARK 465 ARG A 409 REMARK 480 REMARK 480 ZERO OCCUPANCY ATOM REMARK 480 THE FOLLOWING RESIDUES HAVE ATOMS MODELED WITH ZERO REMARK 480 OCCUPANCY. THE LOCATION AND PROPERTIES OF THESE ATOMS REMARK 480 MAY NOT BE RELIABLE. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 480 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 480 M RES C SSEQI ATOMS REMARK 480 ARG A 87 CG CD NE CZ NH1 NH2 REMARK 480 GLU A 89 CG CD OE1 OE2 REMARK 480 ARG A 95 CG CD NE CZ NH1 NH2 REMARK 480 ARG A 96 CG CD NE CZ NH1 NH2 REMARK 480 LYS A 100 CG CD CE NZ REMARK 480 LYS A 114 CG CD CE NZ REMARK 480 TRP A 224 CG CD1 CD2 NE1 CE2 CE3 CZ2 REMARK 480 TRP A 224 CZ3 CH2 REMARK 480 GLU A 369 CG CD OE1 OE2 REMARK 480 GLN A 372 CG CD OE1 NE2 REMARK 480 ARG A 384 CG CD NE CZ NH1 NH2 REMARK 480 ASN A 398 CG OD1 ND2 REMARK 480 GLN A 400 CG CD OE1 NE2 REMARK 480 ARG A 401 CG CD NE CZ NH1 NH2 REMARK 480 GLN A 403 CG CD OE1 NE2 REMARK 480 LEU A 454 CG CD1 CD2 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 ARG A 95 CB ARG A 95 CG -0.225 REMARK 500 TRP A 224 CB TRP A 224 CG -0.432 REMARK 500 GLU A 369 CB GLU A 369 CG -0.212 REMARK 500 GLN A 403 CB GLN A 403 CG -0.165 REMARK 500 LEU A 454 CB LEU A 454 CG -0.182 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 TRP A 224 CA - CB - CG ANGL. DEV. = 22.1 DEGREES REMARK 500 GLN A 372 CB - CG - CD ANGL. DEV. = -17.8 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 PHE A 33 -31.25 -135.25 REMARK 500 PRO A 50 1.19 -69.60 REMARK 500 ASP A 103 58.00 -110.39 REMARK 500 SER A 192 -162.01 -122.69 REMARK 500 MSE A 393 3.37 -57.33 REMARK 500 ARG A 401 -157.23 -64.27 REMARK 500 ASN A 433 73.33 -119.60 REMARK 500 REMARK 500 REMARK: NULL DBREF 4DQV A 1 457 UNP Q10896 Q10896_MYCTU 2056 2512 SEQADV 4DQV MSE A -20 UNP Q10896 EXPRESSION TAG SEQADV 4DQV GLY A -19 UNP Q10896 EXPRESSION TAG SEQADV 4DQV SER A -18 UNP Q10896 EXPRESSION TAG SEQADV 4DQV SER A -17 UNP Q10896 EXPRESSION TAG SEQADV 4DQV HIS A -16 UNP Q10896 EXPRESSION TAG SEQADV 4DQV HIS A -15 UNP Q10896 EXPRESSION TAG SEQADV 4DQV HIS A -14 UNP Q10896 EXPRESSION TAG SEQADV 4DQV HIS A -13 UNP Q10896 EXPRESSION TAG SEQADV 4DQV HIS A -12 UNP Q10896 EXPRESSION TAG SEQADV 4DQV HIS A -11 UNP Q10896 EXPRESSION TAG SEQADV 4DQV SER A -10 UNP Q10896 EXPRESSION TAG SEQADV 4DQV SER A -9 UNP Q10896 EXPRESSION TAG SEQADV 4DQV GLY A -8 UNP Q10896 EXPRESSION TAG SEQADV 4DQV LEU A -7 UNP Q10896 EXPRESSION TAG SEQADV 4DQV VAL A -6 UNP Q10896 EXPRESSION TAG SEQADV 4DQV PRO A -5 UNP Q10896 EXPRESSION TAG SEQADV 4DQV ARG A -4 UNP Q10896 EXPRESSION TAG SEQADV 4DQV GLY A -3 UNP Q10896 EXPRESSION TAG SEQADV 4DQV SER A -2 UNP Q10896 EXPRESSION TAG SEQADV 4DQV HIS A -1 UNP Q10896 EXPRESSION TAG SEQADV 4DQV MSE A 0 UNP Q10896 EXPRESSION TAG SEQRES 1 A 478 MSE GLY SER SER HIS HIS HIS HIS HIS HIS SER SER GLY SEQRES 2 A 478 LEU VAL PRO ARG GLY SER HIS MSE GLY ARG ASP ALA ARG SEQRES 3 A 478 PRO THR SER ASP PRO ARG LEU VAL SER VAL HIS GLY ASP SEQRES 4 A 478 ASN PRO THR GLU VAL HIS ALA SER ASP LEU THR LEU ASP SEQRES 5 A 478 ARG PHE ILE ASP ALA ASP THR LEU ALA THR ALA VAL ASN SEQRES 6 A 478 LEU PRO GLY PRO SER PRO GLU LEU ARG THR VAL LEU LEU SEQRES 7 A 478 THR GLY ALA THR GLY PHE LEU GLY ARG TYR LEU VAL LEU SEQRES 8 A 478 GLU LEU LEU ARG ARG LEU ASP VAL ASP GLY ARG LEU ILE SEQRES 9 A 478 CYS LEU VAL ARG ALA GLU SER ASP GLU ASP ALA ARG ARG SEQRES 10 A 478 ARG LEU GLU LYS THR PHE ASP SER GLY ASP PRO GLU LEU SEQRES 11 A 478 LEU ARG HIS PHE LYS GLU LEU ALA ALA ASP ARG LEU GLU SEQRES 12 A 478 VAL VAL ALA GLY ASP LYS SER GLU PRO ASP LEU GLY LEU SEQRES 13 A 478 ASP GLN PRO MSE TRP ARG ARG LEU ALA GLU THR VAL ASP SEQRES 14 A 478 LEU ILE VAL ASP SER ALA ALA MSE VAL ASN ALA PHE PRO SEQRES 15 A 478 TYR HIS GLU LEU PHE GLY PRO ASN VAL ALA GLY THR ALA SEQRES 16 A 478 GLU LEU ILE ARG ILE ALA LEU THR THR LYS LEU LYS PRO SEQRES 17 A 478 PHE THR TYR VAL SER THR ALA ASP VAL GLY ALA ALA ILE SEQRES 18 A 478 GLU PRO SER ALA PHE THR GLU ASP ALA ASP ILE ARG VAL SEQRES 19 A 478 ILE SER PRO THR ARG THR VAL ASP GLY GLY TRP ALA GLY SEQRES 20 A 478 GLY TYR GLY THR SER LYS TRP ALA GLY GLU VAL LEU LEU SEQRES 21 A 478 ARG GLU ALA ASN ASP LEU CYS ALA LEU PRO VAL ALA VAL SEQRES 22 A 478 PHE ARG CYS GLY MSE ILE LEU ALA ASP THR SER TYR ALA SEQRES 23 A 478 GLY GLN LEU ASN MSE SER ASP TRP VAL THR ARG MSE VAL SEQRES 24 A 478 LEU SER LEU MSE ALA THR GLY ILE ALA PRO ARG SER PHE SEQRES 25 A 478 TYR GLU PRO ASP SER GLU GLY ASN ARG GLN ARG ALA HIS SEQRES 26 A 478 PHE ASP GLY LEU PRO VAL THR PHE VAL ALA GLU ALA ILE SEQRES 27 A 478 ALA VAL LEU GLY ALA ARG VAL ALA GLY SER SER LEU ALA SEQRES 28 A 478 GLY PHE ALA THR TYR HIS VAL MSE ASN PRO HIS ASP ASP SEQRES 29 A 478 GLY ILE GLY LEU ASP GLU TYR VAL ASP TRP LEU ILE GLU SEQRES 30 A 478 ALA GLY TYR PRO ILE ARG ARG ILE ASP ASP PHE ALA GLU SEQRES 31 A 478 TRP LEU GLN ARG PHE GLU ALA SER LEU GLY ALA LEU PRO SEQRES 32 A 478 ASP ARG GLN ARG ARG HIS SER VAL LEU PRO MSE LEU LEU SEQRES 33 A 478 ALA SER ASN SER GLN ARG LEU GLN PRO LEU LYS PRO THR SEQRES 34 A 478 ARG GLY CYS SER ALA PRO THR ASP ARG PHE ARG ALA ALA SEQRES 35 A 478 VAL ARG ALA ALA LYS VAL GLY SER ASP LYS ASP ASN PRO SEQRES 36 A 478 ASP ILE PRO HIS VAL SER ALA PRO THR ILE ILE ASN TYR SEQRES 37 A 478 VAL THR ASN LEU GLN LEU LEU GLY LEU LEU MODRES 4DQV MSE A 139 MET SELENOMETHIONINE MODRES 4DQV MSE A 156 MET SELENOMETHIONINE MODRES 4DQV MSE A 257 MET SELENOMETHIONINE MODRES 4DQV MSE A 270 MET SELENOMETHIONINE MODRES 4DQV MSE A 277 MET SELENOMETHIONINE MODRES 4DQV MSE A 282 MET SELENOMETHIONINE MODRES 4DQV MSE A 338 MET SELENOMETHIONINE MODRES 4DQV MSE A 393 MET SELENOMETHIONINE HET MSE A 139 8 HET MSE A 156 8 HET MSE A 257 8 HET MSE A 270 8 HET MSE A 277 8 HET MSE A 282 8 HET MSE A 338 8 HET MSE A 393 8 HETNAM MSE SELENOMETHIONINE FORMUL 1 MSE 8(C5 H11 N O2 SE) FORMUL 2 HOH *161(H2 O) HELIX 1 1 SER A 26 LEU A 28 5 3 HELIX 2 2 THR A 29 PHE A 33 5 5 HELIX 3 3 ASP A 35 ASN A 44 1 10 HELIX 4 4 GLY A 62 LEU A 76 1 15 HELIX 5 5 SER A 90 LYS A 100 1 11 HELIX 6 6 THR A 101 ASP A 103 5 3 HELIX 7 7 ASP A 106 ALA A 118 1 13 HELIX 8 8 GLU A 130 LEU A 135 5 6 HELIX 9 9 ASP A 136 VAL A 147 1 12 HELIX 10 10 PHE A 166 LEU A 181 1 16 HELIX 11 11 ASP A 195 ALA A 198 5 4 HELIX 12 12 ASP A 210 SER A 215 1 6 HELIX 13 13 GLY A 227 ALA A 247 1 21 HELIX 14 14 ASP A 272 GLY A 285 1 14 HELIX 15 15 VAL A 310 ARG A 323 1 14 HELIX 16 16 GLY A 346 ALA A 357 1 12 HELIX 17 17 ASP A 366 ALA A 380 1 15 HELIX 18 18 PRO A 382 HIS A 388 1 7 HELIX 19 19 THR A 415 ALA A 425 1 11 HELIX 20 20 SER A 440 LEU A 454 1 15 SHEET 1 A 2 GLU A 22 HIS A 24 0 SHEET 2 A 2 THR A 217 THR A 219 -1 O ARG A 218 N VAL A 23 SHEET 1 B 7 LEU A 121 ALA A 125 0 SHEET 2 B 7 ARG A 81 VAL A 86 1 N VAL A 86 O VAL A 124 SHEET 3 B 7 THR A 54 THR A 58 1 N VAL A 55 O ILE A 83 SHEET 4 B 7 LEU A 149 ASP A 152 1 O VAL A 151 N LEU A 56 SHEET 5 B 7 PHE A 188 THR A 193 1 O THR A 189 N ILE A 150 SHEET 6 B 7 VAL A 250 CYS A 255 1 O PHE A 253 N SER A 192 SHEET 7 B 7 PHE A 332 VAL A 337 1 O ALA A 333 N VAL A 252 SHEET 1 C 2 GLU A 164 LEU A 165 0 SHEET 2 C 2 ALA A 225 GLY A 226 -1 O GLY A 226 N GLU A 164 SHEET 1 D 2 MSE A 257 LEU A 259 0 SHEET 2 D 2 GLY A 307 PRO A 309 1 O LEU A 308 N LEU A 259 SHEET 1 E 2 ILE A 286 PRO A 288 0 SHEET 2 E 2 ARG A 362 ILE A 364 1 O ARG A 362 N ALA A 287 LINK C PRO A 138 N MSE A 139 1555 1555 1.33 LINK C MSE A 139 N TRP A 140 1555 1555 1.33 LINK C ALA A 155 N MSE A 156 1555 1555 1.33 LINK C MSE A 156 N VAL A 157 1555 1555 1.34 LINK C GLY A 256 N MSE A 257 1555 1555 1.33 LINK C MSE A 257 N ILE A 258 1555 1555 1.34 LINK C ASN A 269 N MSE A 270 1555 1555 1.33 LINK C MSE A 270 N SER A 271 1555 1555 1.33 LINK C ARG A 276 N MSE A 277 1555 1555 1.33 LINK C MSE A 277 N VAL A 278 1555 1555 1.33 LINK C LEU A 281 N MSE A 282 1555 1555 1.33 LINK C MSE A 282 N ALA A 283 1555 1555 1.33 LINK C VAL A 337 N MSE A 338 1555 1555 1.33 LINK C MSE A 338 N ASN A 339 1555 1555 1.33 LINK C PRO A 392 N MSE A 393 1555 1555 1.34 LINK C MSE A 393 N LEU A 394 1555 1555 1.34 CRYST1 59.058 59.058 238.988 90.00 90.00 120.00 P 31 2 1 6 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 0.016933 0.009776 0.000000 0.00000 SCALE2 0.000000 0.019552 0.000000 0.00000 SCALE3 0.000000 0.000000 0.004184 0.00000