HEADER LYASE, ISOMERASE 21-MAR-11 3R6D TITLE CRYSTAL STRUCTURE OF NAD-DEPENDENT EPIMERASE/DEHYDRATASE FROM TITLE 2 VEILLONELLA PARVULA DSM 2008 WITH CZ-METHYLATED LYSINE COMPND MOL_ID: 1; COMPND 2 MOLECULE: NAD-DEPENDENT EPIMERASE/DEHYDRATASE; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: VEILLONELLA PARVULA DSM 2008; SOURCE 3 ORGANISM_TAXID: 479436; SOURCE 4 STRAIN: ATCC 10790 / DSM 2008 / JCM 12972 / TE3; SOURCE 5 GENE: VPAR_0111; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3)MAGIC; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PMCSG7 KEYWDS STRUCTURAL GENOMICS, PSI-BIOLOGY, MIDWEST CENTER FOR STRUCTURAL KEYWDS 2 GENOMICS, MCSG, NAD-DEPENDENT EPIMERASE/DEHYDRATASE, VEILLONELLA KEYWDS 3 PARVULA, REDUCTIVE METHYLATION, LYASE, ISOMERASE EXPDTA X-RAY DIFFRACTION AUTHOR C.CHANG,C.HATZOS-SKINTGES,S.CLANCY,A.JOACHIMIAK,MIDWEST CENTER FOR AUTHOR 2 STRUCTURAL GENOMICS (MCSG) REVDAT 1 20-APR-11 3R6D 0 JRNL AUTH C.CHANG,C.HATZOS-SKINTGES,S.CLANCY,A.JOACHIMIAK JRNL TITL CRYSTAL STRUCTURE OF NAD-DEPENDENT EPIMERASE/DEHYDRATASE JRNL TITL 2 FROM VEILLONELLA PARVULA DSM 2008 WITH CZ-METHYLATED LYSINE JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.25 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0109 REMARK 3 AUTHORS : MURSHUDOV,VAGIN,DODSON REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD WITH PHASES REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.25 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 45.76 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 3 NUMBER OF REFLECTIONS : 60848 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) : 0.150 REMARK 3 R VALUE (WORKING SET) : 0.148 REMARK 3 FREE R VALUE : 0.179 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 3087 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) : 1.25 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.28 REMARK 3 REFLECTION IN BIN (WORKING SET) : 4043 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 96.27 REMARK 3 BIN R VALUE (WORKING SET) : 0.2940 REMARK 3 BIN FREE R VALUE SET COUNT : 246 REMARK 3 BIN FREE R VALUE : 0.3180 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1745 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 401 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 18.04 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.14000 REMARK 3 B22 (A**2) : -0.12000 REMARK 3 B33 (A**2) : -0.02000 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): 0.047 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.045 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.027 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 1.383 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.975 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.968 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 1941 ; 0.015 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 2650 ; 1.560 ; 1.983 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 252 ; 6.174 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 87 ;34.012 ;24.138 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 298 ;11.755 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 13 ;22.692 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 293 ; 0.098 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1505 ; 0.009 ; 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): 1200 ; 1.521 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1968 ; 2.303 ; 2.000 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 741 ; 3.144 ; 3.000 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 682 ; 4.557 ; 4.500 REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): 1941 ; 1.581 ; 3.000 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 : 3 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 -2 A 72 REMARK 3 ORIGIN FOR THE GROUP (A): 50.3344 52.1975 20.1478 REMARK 3 T TENSOR REMARK 3 T11: 0.0102 T22: 0.0073 REMARK 3 T33: 0.0125 T12: 0.0009 REMARK 3 T13: -0.0025 T23: 0.0003 REMARK 3 L TENSOR REMARK 3 L11: 0.0754 L22: 0.1038 REMARK 3 L33: 0.0295 L12: 0.0271 REMARK 3 L13: -0.0142 L23: 0.0469 REMARK 3 S TENSOR REMARK 3 S11: 0.0001 S12: -0.0002 S13: -0.0022 REMARK 3 S21: 0.0123 S22: 0.0029 S23: -0.0106 REMARK 3 S31: 0.0015 S32: 0.0016 S33: -0.0030 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 : A 73 A 152 REMARK 3 ORIGIN FOR THE GROUP (A): 38.2591 54.2825 4.0435 REMARK 3 T TENSOR REMARK 3 T11: 0.0068 T22: 0.0080 REMARK 3 T33: 0.0120 T12: -0.0022 REMARK 3 T13: -0.0004 T23: 0.0010 REMARK 3 L TENSOR REMARK 3 L11: 0.2150 L22: 0.0834 REMARK 3 L33: 0.0572 L12: -0.0911 REMARK 3 L13: 0.0639 L23: -0.0173 REMARK 3 S TENSOR REMARK 3 S11: -0.0059 S12: 0.0246 S13: 0.0117 REMARK 3 S21: -0.0027 S22: 0.0018 S23: -0.0132 REMARK 3 S31: -0.0063 S32: 0.0048 S33: 0.0041 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 153 A 217 REMARK 3 ORIGIN FOR THE GROUP (A): 28.3985 50.6181 15.5516 REMARK 3 T TENSOR REMARK 3 T11: 0.0069 T22: 0.0097 REMARK 3 T33: 0.0115 T12: 0.0004 REMARK 3 T13: 0.0021 T23: 0.0008 REMARK 3 L TENSOR REMARK 3 L11: 0.1528 L22: 0.1886 REMARK 3 L33: 0.0143 L12: -0.1310 REMARK 3 L13: 0.0349 L23: -0.0230 REMARK 3 S TENSOR REMARK 3 S11: -0.0133 S12: -0.0121 S13: -0.0127 REMARK 3 S21: 0.0185 S22: 0.0114 S23: 0.0170 REMARK 3 S31: -0.0019 S32: -0.0091 S33: 0.0019 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 U VALUES : WITH TLS ADDED REMARK 4 REMARK 4 3R6D COMPLIES WITH FORMAT V. 3.20, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 28-MAR-11. REMARK 100 THE RCSB ID CODE IS RCSB064545. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 05-NOV-10 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 19-ID REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97926 REMARK 200 MONOCHROMATOR : SI(111) DOUBLE CRYSTAL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-3000 REMARK 200 DATA SCALING SOFTWARE : HKL-3000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 60921 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.250 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 200 DATA REDUNDANCY : 6.800 REMARK 200 R MERGE (I) : 0.08200 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 37.8000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.25 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.27 REMARK 200 COMPLETENESS FOR SHELL (%) : 95.8 REMARK 200 DATA REDUNDANCY IN SHELL : 4.40 REMARK 200 R MERGE FOR SHELL (I) : 0.66000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.680 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: SAD REMARK 200 SOFTWARE USED: HKL-3000, MLPHARE, DM, SHELXDE, RESOLVE, ARP/WARP, REMARK 200 COOT REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 43.44 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.17 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M AMMONIUM CETATE, 0.1 M BIS-TRIS REMARK 280 PH 5.5, 17% PEG 10,000, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 289K 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 25.72300 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 34.80600 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 30.36050 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 34.80600 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 25.72300 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 30.36050 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 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 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 A 348 O HOH A 529 1.82 REMARK 500 CD1 ILE A 45 O HOH A 389 1.94 REMARK 500 OD2 ASP A 27 O HOH A 390 2.03 REMARK 500 OD2 ASP A 162 O HOH A 396 2.08 REMARK 500 OE1 GLN A 66 O HOH A 306 2.10 REMARK 500 CA SER A -2 O HOH A 391 2.12 REMARK 500 O HOH A 394 O HOH A 487 2.13 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 O HOH A 393 O HOH A 596 3745 2.18 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 MSE A 85 CG - SE - CE ANGL. DEV. = -18.1 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 ASN A -1 64.87 64.99 REMARK 500 MSE A 79 71.66 -118.73 REMARK 500 THR A 152 -169.15 -79.74 REMARK 500 ASP A 157 108.07 -165.58 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A 328 DISTANCE = 5.11 ANGSTROMS REMARK 525 HOH A 358 DISTANCE = 5.12 ANGSTROMS REMARK 525 HOH A 363 DISTANCE = 5.36 ANGSTROMS REMARK 525 HOH A 613 DISTANCE = 5.13 ANGSTROMS REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: APC100850 RELATED DB: TARGETDB DBREF 3R6D A 2 218 UNP D1BQI7 D1BQI7_VEIPT 2 218 SEQADV 3R6D SER A -2 UNP D1BQI7 EXPRESSION TAG SEQADV 3R6D ASN A -1 UNP D1BQI7 EXPRESSION TAG SEQADV 3R6D ALA A 0 UNP D1BQI7 EXPRESSION TAG SEQADV 3R6D MSE A 1 UNP D1BQI7 EXPRESSION TAG SEQRES 1 A 221 SER ASN ALA MSE TYR MLZ TYR ILE THR ILE LEU GLY ALA SEQRES 2 A 221 ALA GLY GLN ILE ALA GLN MLZ LEU THR ALA THR LEU LEU SEQRES 3 A 221 THR TYR THR ASP MSE HIS ILE THR LEU TYR GLY ARG GLN SEQRES 4 A 221 LEU LYS THR ARG ILE PRO PRO GLU ILE ILE ASP HIS GLU SEQRES 5 A 221 ARG VAL THR VAL ILE GLU GLY SER PHE GLN ASN PRO GLY SEQRES 6 A 221 MLZ LEU GLU GLN ALA VAL THR ASN ALA GLU VAL VAL PHE SEQRES 7 A 221 VAL GLY ALA MSE GLU SER GLY SER ASP MSE ALA SER ILE SEQRES 8 A 221 VAL LYS ALA LEU SER ARG MLZ ASN ILE ARG ARG VAL ILE SEQRES 9 A 221 GLY VAL SER MSE ALA GLY LEU SER GLY GLU PHE PRO VAL SEQRES 10 A 221 ALA LEU GLU LYS TRP THR PHE ASP ASN LEU PRO ILE SER SEQRES 11 A 221 TYR VAL GLN GLY GLU ARG GLN ALA ARG ASN VAL LEU ARG SEQRES 12 A 221 GLU SER ASN LEU ASN TYR THR ILE LEU ARG LEU THR TRP SEQRES 13 A 221 LEU TYR ASN ASP PRO GLU MLZ THR ASP TYR GLU LEU ILE SEQRES 14 A 221 PRO GLU GLY ALA GLN PHE ASN ASP ALA GLN VAL SER ARG SEQRES 15 A 221 GLU ALA VAL VAL LYS ALA ILE PHE ASP ILE LEU HIS ALA SEQRES 16 A 221 ALA ASP GLU THR PRO PHE HIS ARG THR SER ILE GLY VAL SEQRES 17 A 221 GLY GLU PRO GLY THR HIS TYR ASP MLZ PRO SER PHE HIS MODRES 3R6D MSE A 1 MET SELENOMETHIONINE MODRES 3R6D MLZ A 3 LYS N-METHYL-LYSINE MODRES 3R6D MLZ A 17 LYS N-METHYL-LYSINE MODRES 3R6D MSE A 28 MET SELENOMETHIONINE MODRES 3R6D MLZ A 63 LYS N-METHYL-LYSINE MODRES 3R6D MSE A 79 MET SELENOMETHIONINE MODRES 3R6D MSE A 85 MET SELENOMETHIONINE MODRES 3R6D MLZ A 95 LYS N-METHYL-LYSINE MODRES 3R6D MSE A 105 MET SELENOMETHIONINE MODRES 3R6D MLZ A 160 LYS N-METHYL-LYSINE MODRES 3R6D MLZ A 214 LYS N-METHYL-LYSINE HET MSE A 1 8 HET MLZ A 3 30 HET MLZ A 17 20 HET MSE A 28 8 HET MLZ A 63 20 HET MSE A 79 8 HET MSE A 85 8 HET MLZ A 95 10 HET MSE A 105 8 HET MLZ A 160 10 HET MLZ A 214 20 HETNAM MSE SELENOMETHIONINE HETNAM MLZ N-METHYL-LYSINE FORMUL 1 MSE 5(C5 H11 N O2 SE) FORMUL 1 MLZ 6(C7 H16 N2 O2) FORMUL 2 HOH *401(H2 O) HELIX 1 1 GLY A 12 THR A 26 1 15 HELIX 2 2 GLN A 36 ILE A 41 1 6 HELIX 3 3 PRO A 42 ASP A 47 1 6 HELIX 4 4 ASN A 60 THR A 69 1 10 HELIX 5 5 SER A 81 MLZ A 95 1 15 HELIX 6 6 PRO A 113 ASN A 123 1 11 HELIX 7 7 PRO A 125 SER A 142 1 18 HELIX 8 8 ARG A 179 HIS A 191 1 13 HELIX 9 9 GLU A 195 HIS A 199 5 5 SHEET 1 A 8 VAL A 51 GLU A 55 0 SHEET 2 A 8 HIS A 29 GLY A 34 1 N LEU A 32 O THR A 52 SHEET 3 A 8 TYR A 4 LEU A 8 1 N ILE A 7 O THR A 31 SHEET 4 A 8 VAL A 73 VAL A 76 1 O PHE A 75 N LEU A 8 SHEET 5 A 8 ARG A 99 MSE A 105 1 O ILE A 101 N VAL A 76 SHEET 6 A 8 ASN A 145 LEU A 151 1 O LEU A 149 N SER A 104 SHEET 7 A 8 THR A 201 GLY A 206 1 O ILE A 203 N ILE A 148 SHEET 8 A 8 GLU A 164 ILE A 166 -1 N ILE A 166 O GLY A 204 SHEET 1 B 2 TRP A 153 TYR A 155 0 SHEET 2 B 2 GLN A 176 SER A 178 1 O VAL A 177 N TRP A 153 LINK C ALA A 0 N MSE A 1 1555 1555 1.32 LINK C MSE A 1 N TYR A 2 1555 1555 1.34 LINK C TYR A 2 N AMLZ A 3 1555 1555 1.33 LINK C TYR A 2 N BMLZ A 3 1555 1555 1.33 LINK C TYR A 2 N CMLZ A 3 1555 1555 1.33 LINK C AMLZ A 3 N TYR A 4 1555 1555 1.34 LINK C BMLZ A 3 N TYR A 4 1555 1555 1.34 LINK C CMLZ A 3 N TYR A 4 1555 1555 1.34 LINK C GLN A 16 N AMLZ A 17 1555 1555 1.34 LINK C GLN A 16 N BMLZ A 17 1555 1555 1.34 LINK C AMLZ A 17 N LEU A 18 1555 1555 1.33 LINK C BMLZ A 17 N LEU A 18 1555 1555 1.33 LINK C AASP A 27 N MSE A 28 1555 1555 1.34 LINK C BASP A 27 N MSE A 28 1555 1555 1.33 LINK C MSE A 28 N HIS A 29 1555 1555 1.32 LINK C GLY A 62 N AMLZ A 63 1555 1555 1.33 LINK C GLY A 62 N BMLZ A 63 1555 1555 1.33 LINK C AMLZ A 63 N LEU A 64 1555 1555 1.33 LINK C BMLZ A 63 N LEU A 64 1555 1555 1.33 LINK C ALA A 78 N MSE A 79 1555 1555 1.33 LINK C MSE A 79 N GLU A 80 1555 1555 1.33 LINK C ASP A 84 N MSE A 85 1555 1555 1.33 LINK C MSE A 85 N ALA A 86 1555 1555 1.34 LINK C ARG A 94 N MLZ A 95 1555 1555 1.33 LINK C MLZ A 95 N ASN A 96 1555 1555 1.34 LINK C SER A 104 N MSE A 105 1555 1555 1.32 LINK C MSE A 105 N ALA A 106 1555 1555 1.32 LINK C GLU A 159 N MLZ A 160 1555 1555 1.33 LINK C MLZ A 160 N THR A 161 1555 1555 1.33 LINK C ASP A 213 N AMLZ A 214 1555 1555 1.34 LINK C ASP A 213 N BMLZ A 214 1555 1555 1.34 LINK C AMLZ A 214 N PRO A 215 1555 1555 1.34 LINK C BMLZ A 214 N PRO A 215 1555 1555 1.35 CRYST1 51.446 60.721 69.612 90.00 90.00 90.00 P 21 21 21 4 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 0.019438 0.000000 0.000000 0.00000 SCALE2 0.000000 0.016469 0.000000 0.00000 SCALE3 0.000000 0.000000 0.014365 0.00000