HEADER TRANSFERASE 07-JUL-08 3DP7 TITLE CRYSTAL STRUCTURE OF SAM-DEPENDENT METHYLTRANSFERASE FROM BACTEROIDES TITLE 2 VULGATUS ATCC 8482 COMPND MOL_ID: 1; COMPND 2 MOLECULE: SAM-DEPENDENT METHYLTRANSFERASE; COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: BACTEROIDES VULGATUS; SOURCE 3 ORGANISM_TAXID: 435590; SOURCE 4 STRAIN: ATCC 8482; SOURCE 5 GENE: BVU_1015; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3)CODON+RIL; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: BC-PSGX3(BC) KEYWDS STRUCTURAL GENOMICS, PROTEIN STRUCTURE INITIATIVE, NEW YORK KEYWDS 2 STRUCTURAL GENOMIX RESEARCH, SAM-DEPENDENT METHYLTRANSFERASE KEYWDS 3 =CONSORTIUM, NYSGXRC, METHYLTRANSFERASE, TRANSFERASE, PSI-2, NEW KEYWDS 4 YORK SGX RESEARCH CENTER FOR STRUCTURAL GENOMICS EXPDTA X-RAY DIFFRACTION AUTHOR V.N.MALASHKEVICH,R.TORO,U.RAMAGOPAL,A.J.MEYER,J.M.SAUDER,S.K.BURLEY, AUTHOR 2 S.C.ALMO,NEW YORK SGX RESEARCH CENTER FOR STRUCTURAL GENOMICS AUTHOR 3 (NYSGXRC) REVDAT 8 21-FEB-24 3DP7 1 REMARK REVDAT 7 10-FEB-21 3DP7 1 AUTHOR JRNL REVDAT 6 14-NOV-18 3DP7 1 AUTHOR REVDAT 5 25-OCT-17 3DP7 1 REMARK REVDAT 4 11-APR-12 3DP7 1 REMARK REVDAT 3 13-JUL-11 3DP7 1 VERSN REVDAT 2 24-FEB-09 3DP7 1 VERSN REVDAT 1 29-JUL-08 3DP7 0 JRNL AUTH V.N.MALASHKEVICH,R.TORO,U.RAMAGOPAL,A.J.MEYER,J.M.SAUDER, JRNL AUTH 2 S.K.BURLEY,S.C.ALMO JRNL TITL CRYSTAL STRUCTURE OF SAM-DEPENDENT METHYLTRANSFERASE FROM JRNL TITL 2 BACTEROIDES VULGATUS ATCC 8482 JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 2.33 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) : 2.33 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 19.82 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 65.0 REMARK 3 NUMBER OF REFLECTIONS : 32966 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) : 0.187 REMARK 3 R VALUE (WORKING SET) : 0.183 REMARK 3 FREE R VALUE : 0.253 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1671 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) : 2.33 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.39 REMARK 3 REFLECTION IN BIN (WORKING SET) : 56 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.0 REMARK 3 BIN R VALUE (WORKING SET) : 0.3870 REMARK 3 BIN FREE R VALUE SET COUNT : 3 REMARK 3 BIN FREE R VALUE : 0.2100 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 5604 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 90 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) : 64.53 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.00000 REMARK 3 B22 (A**2) : 0.00000 REMARK 3 B33 (A**2) : 0.00000 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): 0.356 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.257 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.206 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 18.709 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.959 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.917 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 5721 ; 0.011 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 7726 ; 1.511 ; 1.948 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 699 ; 7.584 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 285 ;35.488 ;24.421 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 1009 ;21.307 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 34 ;21.541 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 841 ; 0.104 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4348 ; 0.005 ; 0.020 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): 3463 ; 0.845 ; 3.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 5554 ; 4.692 ;50.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2258 ;11.292 ;50.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 2172 ; 0.694 ; 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 5 A 355 REMARK 3 ORIGIN FOR THE GROUP (A): 49.1218 16.3454 49.7723 REMARK 3 T TENSOR REMARK 3 T11: -0.0575 T22: -0.1475 REMARK 3 T33: -0.0486 T12: 0.0317 REMARK 3 T13: 0.0242 T23: 0.0439 REMARK 3 L TENSOR REMARK 3 L11: 0.9161 L22: 1.4480 REMARK 3 L33: 2.5412 L12: 0.6048 REMARK 3 L13: 0.1332 L23: -0.9120 REMARK 3 S TENSOR REMARK 3 S11: 0.2628 S12: -0.2369 S13: -0.0075 REMARK 3 S21: 0.3025 S22: -0.0763 S23: 0.2313 REMARK 3 S31: -0.1041 S32: 0.0231 S33: -0.1866 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 6 B 355 REMARK 3 ORIGIN FOR THE GROUP (A): 40.6013 32.0994 16.8488 REMARK 3 T TENSOR REMARK 3 T11: -0.0917 T22: -0.1735 REMARK 3 T33: -0.0133 T12: 0.0205 REMARK 3 T13: -0.0413 T23: 0.0651 REMARK 3 L TENSOR REMARK 3 L11: 0.8568 L22: 0.7491 REMARK 3 L33: 1.8052 L12: -0.1626 REMARK 3 L13: 0.2080 L23: -0.8947 REMARK 3 S TENSOR REMARK 3 S11: 0.0586 S12: 0.1677 S13: -0.0614 REMARK 3 S21: -0.0243 S22: 0.1961 S23: 0.2607 REMARK 3 S31: 0.0198 S32: -0.1056 S33: -0.2547 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 REMARK 4 REMARK 4 3DP7 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 18-JUL-08. REMARK 100 THE DEPOSITION ID IS D_1000048317. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 30-JUN-08 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 24-ID-C REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : NULL REMARK 200 WAVELENGTH OR RANGE (A) : 0.979 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO, HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 65572 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.330 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 65.1 REMARK 200 DATA REDUNDANCY : 4.200 REMARK 200 R MERGE (I) : 0.12100 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 10.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.33 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.41 REMARK 200 COMPLETENESS FOR SHELL (%) : 1.8 REMARK 200 DATA REDUNDANCY IN SHELL : 1.10 REMARK 200 R MERGE FOR SHELL (I) : 0.62600 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: PHENIX REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 66.37 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.66 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 1.0 M SODIUM CITRATE, 0.1 M TRIS PH REMARK 280 7.0, 0.2 M NACL, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 294K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 64 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 -X,-Y,Z REMARK 290 5555 Y,-X+Y,Z+1/3 REMARK 290 6555 X-Y,X,Z+2/3 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 40.91567 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 81.83133 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 5 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 5 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 40.91567 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 81.83133 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 7750 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 28320 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -56.0 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 1 REMARK 465 SER A 2 REMARK 465 LEU A 3 REMARK 465 ARG A 4 REMARK 465 GLU A 356 REMARK 465 GLY A 357 REMARK 465 HIS A 358 REMARK 465 HIS A 359 REMARK 465 HIS A 360 REMARK 465 HIS A 361 REMARK 465 HIS A 362 REMARK 465 HIS A 363 REMARK 465 MET B 1 REMARK 465 SER B 2 REMARK 465 LEU B 3 REMARK 465 ARG B 4 REMARK 465 TYR B 5 REMARK 465 GLU B 356 REMARK 465 GLY B 357 REMARK 465 HIS B 358 REMARK 465 HIS B 359 REMARK 465 HIS B 360 REMARK 465 HIS B 361 REMARK 465 HIS B 362 REMARK 465 HIS B 363 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 ASP A 242 CD PRO A 244 1.07 REMARK 500 O ASP A 242 N PRO A 244 1.17 REMARK 500 C ASP A 242 CD PRO A 244 1.54 REMARK 500 OE1 GLU A 337 NH1 ARG A 353 1.61 REMARK 500 NH1 ARG B 33 CE1 HIS B 110 1.66 REMARK 500 NH1 ARG B 33 NE2 HIS B 110 1.74 REMARK 500 O LEU A 239 CG2 VAL A 243 1.79 REMARK 500 O ASP A 259 OG SER A 317 1.82 REMARK 500 ND2 ASN B 314 OG SER B 317 1.83 REMARK 500 NH1 ARG B 33 ND1 HIS B 110 1.89 REMARK 500 OD1 ASP A 259 OE2 GLU A 287 1.97 REMARK 500 OE1 GLU A 337 CZ ARG A 353 1.97 REMARK 500 O ASP A 160 OG SER A 164 2.01 REMARK 500 NH1 ARG B 33 CD2 HIS B 110 2.05 REMARK 500 O THR B 52 CG1 ILE B 56 2.06 REMARK 500 C ASP A 242 N PRO A 244 2.12 REMARK 500 NH1 ARG B 33 CG HIS B 110 2.13 REMARK 500 O LEU A 325 CD1 ILE A 329 2.18 REMARK 500 O LEU B 238 NH2 ARG B 272 2.19 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 LEU B 81 CA - CB - CG ANGL. DEV. = 16.9 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 THR A 6 -86.38 -11.16 REMARK 500 LYS A 7 67.37 32.82 REMARK 500 GLU A 8 58.75 176.74 REMARK 500 GLN A 9 109.15 68.68 REMARK 500 ALA A 12 -179.40 -43.96 REMARK 500 ALA A 13 22.95 -68.43 REMARK 500 THR A 63 156.85 -45.00 REMARK 500 GLU A 84 -102.24 53.61 REMARK 500 SER A 146 5.21 -58.01 REMARK 500 SER A 164 -62.88 -122.38 REMARK 500 ASP A 165 -166.25 -31.81 REMARK 500 GLN A 166 -121.26 147.09 REMARK 500 SER A 167 -97.93 -144.45 REMARK 500 PHE A 168 38.91 171.11 REMARK 500 HIS A 179 77.44 29.42 REMARK 500 TYR A 200 -62.38 -91.34 REMARK 500 GLU A 203 16.72 -144.96 REMARK 500 ASP A 210 170.91 172.24 REMARK 500 ASP A 240 -43.74 -27.12 REMARK 500 ARG A 241 -168.59 -51.28 REMARK 500 ASP A 242 -51.35 -20.39 REMARK 500 VAL A 243 19.89 -3.95 REMARK 500 PRO A 246 175.21 -39.40 REMARK 500 GLN A 256 21.50 41.76 REMARK 500 LEU A 258 -5.30 85.92 REMARK 500 SER A 262 169.49 -48.76 REMARK 500 ALA A 274 11.85 -68.97 REMARK 500 LYS A 279 9.20 -65.24 REMARK 500 ALA A 313 4.04 100.38 REMARK 500 ASN A 314 -122.95 -52.31 REMARK 500 ASN A 316 -151.85 176.32 REMARK 500 SER A 317 157.19 176.44 REMARK 500 GLU A 338 134.05 138.28 REMARK 500 GLN A 340 135.09 -20.92 REMARK 500 LEU A 345 42.75 -59.92 REMARK 500 GLU B 8 144.42 -179.71 REMARK 500 ALA B 12 -167.07 -59.21 REMARK 500 ALA B 13 31.76 -74.24 REMARK 500 GLN B 42 -80.41 -40.82 REMARK 500 LYS B 47 96.41 -59.76 REMARK 500 ARG B 64 -55.00 100.26 REMARK 500 GLU B 84 -98.37 53.38 REMARK 500 LYS B 133 -8.21 -57.76 REMARK 500 SER B 146 -0.64 -58.18 REMARK 500 SER B 167 -67.11 -99.87 REMARK 500 PHE B 168 -33.90 85.54 REMARK 500 LEU B 238 -20.66 -39.24 REMARK 500 ASP B 240 81.75 -27.81 REMARK 500 ARG B 241 1.70 -52.45 REMARK 500 LEU B 258 -31.67 103.24 REMARK 500 REMARK 500 THIS ENTRY HAS 53 RAMACHANDRAN OUTLIERS. 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 SER A 167 PHE A 168 93.51 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: NYSGXRC-11126E RELATED DB: TARGETDB DBREF 3DP7 A 4 355 UNP A6KZ44 A6KZ44_BACV8 5 356 DBREF 3DP7 B 4 355 UNP A6KZ44 A6KZ44_BACV8 5 356 SEQADV 3DP7 MET A 1 UNP A6KZ44 EXPRESSION TAG SEQADV 3DP7 SER A 2 UNP A6KZ44 EXPRESSION TAG SEQADV 3DP7 LEU A 3 UNP A6KZ44 EXPRESSION TAG SEQADV 3DP7 GLU A 356 UNP A6KZ44 EXPRESSION TAG SEQADV 3DP7 GLY A 357 UNP A6KZ44 EXPRESSION TAG SEQADV 3DP7 HIS A 358 UNP A6KZ44 EXPRESSION TAG SEQADV 3DP7 HIS A 359 UNP A6KZ44 EXPRESSION TAG SEQADV 3DP7 HIS A 360 UNP A6KZ44 EXPRESSION TAG SEQADV 3DP7 HIS A 361 UNP A6KZ44 EXPRESSION TAG SEQADV 3DP7 HIS A 362 UNP A6KZ44 EXPRESSION TAG SEQADV 3DP7 HIS A 363 UNP A6KZ44 EXPRESSION TAG SEQADV 3DP7 MET B 1 UNP A6KZ44 EXPRESSION TAG SEQADV 3DP7 SER B 2 UNP A6KZ44 EXPRESSION TAG SEQADV 3DP7 LEU B 3 UNP A6KZ44 EXPRESSION TAG SEQADV 3DP7 GLU B 356 UNP A6KZ44 EXPRESSION TAG SEQADV 3DP7 GLY B 357 UNP A6KZ44 EXPRESSION TAG SEQADV 3DP7 HIS B 358 UNP A6KZ44 EXPRESSION TAG SEQADV 3DP7 HIS B 359 UNP A6KZ44 EXPRESSION TAG SEQADV 3DP7 HIS B 360 UNP A6KZ44 EXPRESSION TAG SEQADV 3DP7 HIS B 361 UNP A6KZ44 EXPRESSION TAG SEQADV 3DP7 HIS B 362 UNP A6KZ44 EXPRESSION TAG SEQADV 3DP7 HIS B 363 UNP A6KZ44 EXPRESSION TAG SEQRES 1 A 363 MET SER LEU ARG TYR THR LYS GLU GLN CYS THR ALA ALA SEQRES 2 A 363 GLU ALA GLN ARG LEU ALA GLN GLU ILE ALA PHE GLY PRO SEQRES 3 A 363 VAL VAL PHE GLN VAL SER ARG LEU MET LEU LYS PHE GLY SEQRES 4 A 363 ILE PHE GLN LEU LEU SER GLY LYS ARG GLU GLY TYR THR SEQRES 5 A 363 LEU GLN GLU ILE SER GLY ARG THR GLY LEU THR ARG TYR SEQRES 6 A 363 ALA ALA GLN VAL LEU LEU GLU ALA SER LEU THR ILE GLY SEQRES 7 A 363 THR ILE LEU LEU GLU GLU ASP ARG TYR VAL LEU ALA LYS SEQRES 8 A 363 ALA GLY TRP PHE LEU LEU ASN ASP LYS MET ALA ARG VAL SEQRES 9 A 363 ASN MET GLU PHE ASN HIS ASP VAL ASN TYR GLN GLY LEU SEQRES 10 A 363 PHE HIS LEU GLU GLU ALA LEU LEU ASN GLY ARG PRO GLU SEQRES 11 A 363 GLY LEU LYS VAL PHE GLY GLU TRP PRO THR ILE TYR GLU SEQRES 12 A 363 GLY LEU SER GLN LEU PRO GLU GLN VAL GLN LYS SER TRP SEQRES 13 A 363 PHE GLY PHE ASP HIS PHE TYR SER ASP GLN SER PHE GLY SEQRES 14 A 363 LYS ALA LEU GLU ILE VAL PHE SER HIS HIS PRO LYS ARG SEQRES 15 A 363 LEU LEU ASP ILE GLY GLY ASN THR GLY LYS TRP ALA THR SEQRES 16 A 363 GLN CYS VAL GLN TYR ASN LYS GLU VAL GLU VAL THR ILE SEQRES 17 A 363 VAL ASP LEU PRO GLN GLN LEU GLU MET MET ARG LYS GLN SEQRES 18 A 363 THR ALA GLY LEU SER GLY SER GLU ARG ILE HIS GLY HIS SEQRES 19 A 363 GLY ALA ASN LEU LEU ASP ARG ASP VAL PRO PHE PRO THR SEQRES 20 A 363 GLY PHE ASP ALA VAL TRP MET SER GLN PHE LEU ASP CYS SEQRES 21 A 363 PHE SER GLU GLU GLU VAL ILE SER ILE LEU THR ARG VAL SEQRES 22 A 363 ALA GLN SER ILE GLY LYS ASP SER LYS VAL TYR ILE MET SEQRES 23 A 363 GLU THR LEU TRP ASP ARG GLN ARG TYR GLU THR ALA SER SEQRES 24 A 363 TYR CYS LEU THR GLN ILE SER LEU TYR PHE THR ALA MET SEQRES 25 A 363 ALA ASN GLY ASN SER LYS MET PHE HIS SER ASP ASP LEU SEQRES 26 A 363 ILE ARG CYS ILE GLU ASN ALA GLY LEU GLU VAL GLU GLU SEQRES 27 A 363 ILE GLN ASP ASN ILE GLY LEU GLY HIS SER ILE LEU GLN SEQRES 28 A 363 CYS ARG LEU LYS GLU GLY HIS HIS HIS HIS HIS HIS SEQRES 1 B 363 MET SER LEU ARG TYR THR LYS GLU GLN CYS THR ALA ALA SEQRES 2 B 363 GLU ALA GLN ARG LEU ALA GLN GLU ILE ALA PHE GLY PRO SEQRES 3 B 363 VAL VAL PHE GLN VAL SER ARG LEU MET LEU LYS PHE GLY SEQRES 4 B 363 ILE PHE GLN LEU LEU SER GLY LYS ARG GLU GLY TYR THR SEQRES 5 B 363 LEU GLN GLU ILE SER GLY ARG THR GLY LEU THR ARG TYR SEQRES 6 B 363 ALA ALA GLN VAL LEU LEU GLU ALA SER LEU THR ILE GLY SEQRES 7 B 363 THR ILE LEU LEU GLU GLU ASP ARG TYR VAL LEU ALA LYS SEQRES 8 B 363 ALA GLY TRP PHE LEU LEU ASN ASP LYS MET ALA ARG VAL SEQRES 9 B 363 ASN MET GLU PHE ASN HIS ASP VAL ASN TYR GLN GLY LEU SEQRES 10 B 363 PHE HIS LEU GLU GLU ALA LEU LEU ASN GLY ARG PRO GLU SEQRES 11 B 363 GLY LEU LYS VAL PHE GLY GLU TRP PRO THR ILE TYR GLU SEQRES 12 B 363 GLY LEU SER GLN LEU PRO GLU GLN VAL GLN LYS SER TRP SEQRES 13 B 363 PHE GLY PHE ASP HIS PHE TYR SER ASP GLN SER PHE GLY SEQRES 14 B 363 LYS ALA LEU GLU ILE VAL PHE SER HIS HIS PRO LYS ARG SEQRES 15 B 363 LEU LEU ASP ILE GLY GLY ASN THR GLY LYS TRP ALA THR SEQRES 16 B 363 GLN CYS VAL GLN TYR ASN LYS GLU VAL GLU VAL THR ILE SEQRES 17 B 363 VAL ASP LEU PRO GLN GLN LEU GLU MET MET ARG LYS GLN SEQRES 18 B 363 THR ALA GLY LEU SER GLY SER GLU ARG ILE HIS GLY HIS SEQRES 19 B 363 GLY ALA ASN LEU LEU ASP ARG ASP VAL PRO PHE PRO THR SEQRES 20 B 363 GLY PHE ASP ALA VAL TRP MET SER GLN PHE LEU ASP CYS SEQRES 21 B 363 PHE SER GLU GLU GLU VAL ILE SER ILE LEU THR ARG VAL SEQRES 22 B 363 ALA GLN SER ILE GLY LYS ASP SER LYS VAL TYR ILE MET SEQRES 23 B 363 GLU THR LEU TRP ASP ARG GLN ARG TYR GLU THR ALA SER SEQRES 24 B 363 TYR CYS LEU THR GLN ILE SER LEU TYR PHE THR ALA MET SEQRES 25 B 363 ALA ASN GLY ASN SER LYS MET PHE HIS SER ASP ASP LEU SEQRES 26 B 363 ILE ARG CYS ILE GLU ASN ALA GLY LEU GLU VAL GLU GLU SEQRES 27 B 363 ILE GLN ASP ASN ILE GLY LEU GLY HIS SER ILE LEU GLN SEQRES 28 B 363 CYS ARG LEU LYS GLU GLY HIS HIS HIS HIS HIS HIS FORMUL 3 HOH *90(H2 O) HELIX 1 1 GLU A 14 PHE A 38 1 25 HELIX 2 2 GLY A 39 GLY A 46 1 8 HELIX 3 3 THR A 52 GLY A 61 1 10 HELIX 4 4 THR A 63 GLY A 78 1 16 HELIX 5 5 ALA A 90 ASP A 99 1 10 HELIX 6 6 ASP A 99 VAL A 112 1 14 HELIX 7 7 ASN A 113 PHE A 118 1 6 HELIX 8 8 HIS A 119 GLY A 127 1 9 HELIX 9 9 PRO A 129 PHE A 135 5 7 HELIX 10 10 THR A 140 LEU A 145 1 6 HELIX 11 11 SER A 146 LEU A 148 5 3 HELIX 12 12 PRO A 149 TYR A 163 1 15 HELIX 13 13 PHE A 168 PHE A 176 1 9 HELIX 14 14 SER A 177 HIS A 179 5 3 HELIX 15 15 GLY A 191 ASN A 201 1 11 HELIX 16 16 LEU A 211 ALA A 223 1 13 HELIX 17 17 GLY A 227 GLU A 229 5 3 HELIX 18 18 SER A 262 ILE A 277 1 16 HELIX 19 19 TYR A 295 MET A 312 1 18 HELIX 20 20 HIS A 321 ASN A 331 1 11 HELIX 21 21 GLU B 14 PHE B 24 1 11 HELIX 22 22 PHE B 24 PHE B 38 1 15 HELIX 23 23 GLY B 39 LYS B 47 1 9 HELIX 24 24 LEU B 53 GLY B 61 1 9 HELIX 25 25 ARG B 64 GLY B 78 1 15 HELIX 26 26 ALA B 90 ASP B 99 1 10 HELIX 27 27 ASP B 99 VAL B 112 1 14 HELIX 28 28 ASN B 113 PHE B 118 1 6 HELIX 29 29 HIS B 119 GLY B 127 1 9 HELIX 30 30 PRO B 129 PHE B 135 5 7 HELIX 31 31 GLY B 144 LEU B 148 5 5 HELIX 32 32 PRO B 149 TYR B 163 1 15 HELIX 33 33 PHE B 168 SER B 177 1 10 HELIX 34 34 GLY B 191 ASN B 201 1 11 HELIX 35 35 LEU B 211 THR B 222 1 12 HELIX 36 36 GLY B 227 GLU B 229 5 3 HELIX 37 37 SER B 262 GLN B 275 1 14 HELIX 38 38 LEU B 289 GLN B 293 5 5 HELIX 39 39 TYR B 295 MET B 312 1 18 HELIX 40 40 HIS B 321 ALA B 332 1 12 SHEET 1 A 2 ILE A 80 GLU A 83 0 SHEET 2 A 2 ARG A 86 LEU A 89 -1 O ARG A 86 N GLU A 83 SHEET 1 B 7 ILE A 231 GLY A 235 0 SHEET 2 B 7 GLU A 205 ASP A 210 1 N VAL A 206 O HIS A 232 SHEET 3 B 7 ARG A 182 ILE A 186 1 N LEU A 183 O THR A 207 SHEET 4 B 7 ALA A 251 SER A 255 1 O TRP A 253 N LEU A 184 SHEET 5 B 7 LYS A 282 GLU A 287 1 O TYR A 284 N VAL A 252 SHEET 6 B 7 SER A 348 LEU A 354 -1 O CYS A 352 N VAL A 283 SHEET 7 B 7 LEU A 334 VAL A 336 -1 N GLU A 335 O ARG A 353 SHEET 1 C 3 TYR B 51 THR B 52 0 SHEET 2 C 3 ARG B 86 LEU B 89 -1 O TYR B 87 N TYR B 51 SHEET 3 C 3 ILE B 80 GLU B 83 -1 N LEU B 81 O VAL B 88 SHEET 1 D 7 ILE B 231 GLY B 235 0 SHEET 2 D 7 GLU B 205 ASP B 210 1 N ILE B 208 O HIS B 232 SHEET 3 D 7 ARG B 182 ILE B 186 1 N ASP B 185 O THR B 207 SHEET 4 D 7 ALA B 251 SER B 255 1 O TRP B 253 N LEU B 184 SHEET 5 D 7 LYS B 282 GLU B 287 1 O TYR B 284 N VAL B 252 SHEET 6 D 7 HIS B 347 LEU B 354 -1 O LEU B 350 N ILE B 285 SHEET 7 D 7 LEU B 334 ILE B 343 -1 N ILE B 343 O HIS B 347 CISPEP 1 ASN A 316 SER A 317 0 -15.65 CRYST1 130.804 130.804 122.747 90.00 90.00 120.00 P 64 12 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 0.007645 0.004414 0.000000 0.00000 SCALE2 0.000000 0.008828 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008147 0.00000