HEADER TRANSCRIPTION 12-NOV-08 3F8M TITLE CRYSTAL STRUCTURE OF PHNF FROM MYCOBACTERIUM SMEGMATIS COMPND MOL_ID: 1; COMPND 2 MOLECULE: GNTR-FAMILY PROTEIN TRANSCRIPTIONAL REGULATOR; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: UNP RESIDUES 7-250; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MYCOBACTERIUM SMEGMATIS; SOURCE 3 ORGANISM_TAXID: 246196; SOURCE 4 STRAIN: MC2155; SOURCE 5 GENE: MSMEG_0650; 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: PDEST566 KEYWDS PHNF, GNTR, HUTC, TRANSCRIPTION, REGULATOR, WINGED HELIX-TURN-HELIX, KEYWDS 2 UTRA, DNA-BINDING, TRANSCRIPTION REGULATION EXPDTA X-RAY DIFFRACTION AUTHOR J.N.BUSBY,S.GEBHARD,G.M.COOK,S.J.LOTT,E.N.BAKER,V.A.MONEY REVDAT 3 01-NOV-23 3F8M 1 REMARK SEQADV REVDAT 2 13-JUL-11 3F8M 1 VERSN REVDAT 1 17-NOV-09 3F8M 0 JRNL AUTH J.N.BUSBY,S.GEBHARD,G.M.COOK,S.J.LOTT,E.N.BAKER,V.A.MONEY JRNL TITL CRYSTAL STRUCTURE OF PHNF, A GNTR-FAMILY TRANSCRIPTION JRNL TITL 2 REGULATOR IN MYCOBACTERIUM SMEGMATIS JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.80 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) : 1.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 23.24 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 52806 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) : 0.215 REMARK 3 R VALUE (WORKING SET) : 0.213 REMARK 3 FREE R VALUE : 0.248 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 2823 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) : 1.80 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.85 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3923 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.0 REMARK 3 BIN R VALUE (WORKING SET) : 0.3770 REMARK 3 BIN FREE R VALUE SET COUNT : 200 REMARK 3 BIN FREE R VALUE : 0.3710 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3495 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 18 REMARK 3 SOLVENT ATOMS : 405 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 28.35 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 28.82 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.82000 REMARK 3 B22 (A**2) : -0.01000 REMARK 3 B33 (A**2) : -0.95000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -0.17000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.129 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.125 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.092 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.968 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.947 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.928 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3642 ; 0.015 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4949 ; 1.550 ; 1.979 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 477 ; 6.457 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 175 ;33.698 ;22.057 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 621 ;14.197 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 55 ;17.266 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 576 ; 0.105 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2785 ; 0.006 ; 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): 2293 ; 0.923 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3690 ; 1.591 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1349 ; 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): 1247 ; 4.123 ; 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 : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : 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 3F8M COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 14-NOV-08. REMARK 100 THE DEPOSITION ID IS D_1000050283. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 19-SEP-08 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : RIGAKU MICROMAX-007 HF REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.54179 REMARK 200 MONOCHROMATOR : NI FILTER REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : MAR SCANNER 345 MM PLATE REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA 3.3.3 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 55650 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.800 REMARK 200 RESOLUTION RANGE LOW (A) : 23.240 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 4.500 REMARK 200 R MERGE (I) : 0.08500 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 3.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.80 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.90 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 4.40 REMARK 200 R MERGE FOR SHELL (I) : 0.46600 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.600 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: PDB ENTRY 3F8L REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 56.10 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.80 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1M SODIUM CACODYLATE, PH8.0, 0.8M REMARK 280 SODIUM ACETATE, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 291K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,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 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 38.47700 REMARK 290 SMTRY3 2 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 3800 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 21930 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -19.4 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 GLY A -3 REMARK 465 SER A -2 REMARK 465 GLY A -1 REMARK 465 ALA A 0 REMARK 465 VAL A 1 REMARK 465 THR A 2 REMARK 465 ALA A 3 REMARK 465 GLY A 4 REMARK 465 ALA A 5 REMARK 465 ALA A 6 REMARK 465 PRO A 7 REMARK 465 ARG A 8 REMARK 465 ILE A 9 REMARK 465 SER A 240 REMARK 465 ALA A 241 REMARK 465 ILE A 242 REMARK 465 VAL A 243 REMARK 465 SER A 244 REMARK 465 GLY B -3 REMARK 465 SER B -2 REMARK 465 GLY B -1 REMARK 465 ALA B 0 REMARK 465 VAL B 1 REMARK 465 THR B 2 REMARK 465 ALA B 3 REMARK 465 GLY B 4 REMARK 465 ALA B 5 REMARK 465 ALA B 6 REMARK 465 PRO B 7 REMARK 465 ARG B 8 REMARK 465 ILE B 9 REMARK 465 LEU B 10 REMARK 465 LYS B 11 REMARK 465 HIS B 12 REMARK 465 GLN B 13 REMARK 465 ASN B 239 REMARK 465 SER B 240 REMARK 465 ALA B 241 REMARK 465 ILE B 242 REMARK 465 VAL B 243 REMARK 465 SER B 244 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 LEU A 10 CG CD1 CD2 REMARK 470 LYS A 11 CD CE NZ REMARK 470 ARG A 67 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 90 CD CE NZ REMARK 470 ARG A 199 NE CZ NH1 NH2 REMARK 470 LYS A 238 CG CD CE NZ REMARK 470 ASN A 239 CG OD1 ND2 REMARK 470 ARG B 16 CG CD NE CZ NH1 NH2 REMARK 470 ARG B 36 CZ NH1 NH2 REMARK 470 ARG B 67 CG CD NE CZ NH1 NH2 REMARK 470 GLU B 87 CG CD OE1 OE2 REMARK 470 LYS B 90 CG CD CE NZ REMARK 470 LYS B 238 CG CD CE NZ 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 OG1 THR A 183 O HOH A 405 2.07 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 NH1 ARG A 137 O HOH B 252 2656 1.14 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 ARG B 221 NE - CZ - NH1 ANGL. DEV. = 3.5 DEGREES REMARK 500 ARG B 221 NE - CZ - NH2 ANGL. DEV. = -3.6 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 VAL B 101 -63.56 -97.56 REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 245 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 246 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL B 245 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3F8L RELATED DB: PDB REMARK 900 C-TERMINAL DOMAIN OF PHNF WITH SULFATE BOUND DBREF 3F8M A 1 244 UNP A0QQ72 A0QQ72_MYCS2 7 250 DBREF 3F8M B 1 244 UNP A0QQ72 A0QQ72_MYCS2 7 250 SEQADV 3F8M GLY A -3 UNP A0QQ72 EXPRESSION TAG SEQADV 3F8M SER A -2 UNP A0QQ72 EXPRESSION TAG SEQADV 3F8M GLY A -1 UNP A0QQ72 EXPRESSION TAG SEQADV 3F8M ALA A 0 UNP A0QQ72 EXPRESSION TAG SEQADV 3F8M GLY B -3 UNP A0QQ72 EXPRESSION TAG SEQADV 3F8M SER B -2 UNP A0QQ72 EXPRESSION TAG SEQADV 3F8M GLY B -1 UNP A0QQ72 EXPRESSION TAG SEQADV 3F8M ALA B 0 UNP A0QQ72 EXPRESSION TAG SEQRES 1 A 248 GLY SER GLY ALA VAL THR ALA GLY ALA ALA PRO ARG ILE SEQRES 2 A 248 LEU LYS HIS GLN VAL VAL ARG ALA GLU LEU ASP ARG MET SEQRES 3 A 248 LEU ASP GLY MET ARG ILE GLY ASP PRO PHE PRO ALA GLU SEQRES 4 A 248 ARG GLU ILE ALA GLU GLN PHE GLU VAL ALA ARG GLU THR SEQRES 5 A 248 VAL ARG GLN ALA LEU ARG GLU LEU LEU ILE ASP GLY ARG SEQRES 6 A 248 VAL GLU ARG ARG GLY ARG THR THR VAL VAL ALA ARG PRO SEQRES 7 A 248 LYS ILE ARG GLN PRO LEU GLY MET GLY SER TYR THR GLU SEQRES 8 A 248 ALA ALA LYS ALA GLN GLY LEU SER ALA GLY ARG ILE LEU SEQRES 9 A 248 VAL ALA TRP SER ASP LEU THR ALA ASP GLU VAL LEU ALA SEQRES 10 A 248 GLY VAL LEU GLY VAL ASP VAL GLY ALA PRO VAL LEU GLN SEQRES 11 A 248 LEU GLU ARG VAL LEU THR THR ASP GLY VAL ARG VAL GLY SEQRES 12 A 248 LEU GLU THR THR LYS LEU PRO ALA GLN ARG TYR PRO GLY SEQRES 13 A 248 LEU ARG GLU THR PHE ASP HIS GLU ALA SER LEU TYR ALA SEQRES 14 A 248 GLU ILE ARG SER ARG GLY ILE ALA PHE THR ARG THR VAL SEQRES 15 A 248 ASP THR ILE ASP THR ALA LEU PRO ASP ALA ARG GLU ALA SEQRES 16 A 248 ALA LEU LEU GLY ALA ASP ALA ARG THR PRO MET PHE LEU SEQRES 17 A 248 LEU ASN ARG VAL SER TYR ASP GLN ASP ASP VAL ALA ILE SEQRES 18 A 248 GLU GLN ARG ARG SER LEU TYR ARG GLY ASP ARG MET THR SEQRES 19 A 248 PHE THR ALA VAL MET HIS ALA LYS ASN SER ALA ILE VAL SEQRES 20 A 248 SER SEQRES 1 B 248 GLY SER GLY ALA VAL THR ALA GLY ALA ALA PRO ARG ILE SEQRES 2 B 248 LEU LYS HIS GLN VAL VAL ARG ALA GLU LEU ASP ARG MET SEQRES 3 B 248 LEU ASP GLY MET ARG ILE GLY ASP PRO PHE PRO ALA GLU SEQRES 4 B 248 ARG GLU ILE ALA GLU GLN PHE GLU VAL ALA ARG GLU THR SEQRES 5 B 248 VAL ARG GLN ALA LEU ARG GLU LEU LEU ILE ASP GLY ARG SEQRES 6 B 248 VAL GLU ARG ARG GLY ARG THR THR VAL VAL ALA ARG PRO SEQRES 7 B 248 LYS ILE ARG GLN PRO LEU GLY MET GLY SER TYR THR GLU SEQRES 8 B 248 ALA ALA LYS ALA GLN GLY LEU SER ALA GLY ARG ILE LEU SEQRES 9 B 248 VAL ALA TRP SER ASP LEU THR ALA ASP GLU VAL LEU ALA SEQRES 10 B 248 GLY VAL LEU GLY VAL ASP VAL GLY ALA PRO VAL LEU GLN SEQRES 11 B 248 LEU GLU ARG VAL LEU THR THR ASP GLY VAL ARG VAL GLY SEQRES 12 B 248 LEU GLU THR THR LYS LEU PRO ALA GLN ARG TYR PRO GLY SEQRES 13 B 248 LEU ARG GLU THR PHE ASP HIS GLU ALA SER LEU TYR ALA SEQRES 14 B 248 GLU ILE ARG SER ARG GLY ILE ALA PHE THR ARG THR VAL SEQRES 15 B 248 ASP THR ILE ASP THR ALA LEU PRO ASP ALA ARG GLU ALA SEQRES 16 B 248 ALA LEU LEU GLY ALA ASP ALA ARG THR PRO MET PHE LEU SEQRES 17 B 248 LEU ASN ARG VAL SER TYR ASP GLN ASP ASP VAL ALA ILE SEQRES 18 B 248 GLU GLN ARG ARG SER LEU TYR ARG GLY ASP ARG MET THR SEQRES 19 B 248 PHE THR ALA VAL MET HIS ALA LYS ASN SER ALA ILE VAL SEQRES 20 B 248 SER HET GOL A 245 6 HET GOL A 246 6 HET GOL B 245 6 HETNAM GOL GLYCEROL HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 3 GOL 3(C3 H8 O3) FORMUL 6 HOH *405(H2 O) HELIX 1 1 LEU A 10 MET A 26 1 17 HELIX 2 2 ALA A 34 PHE A 42 1 9 HELIX 3 3 ALA A 45 ASP A 59 1 15 HELIX 4 4 SER A 84 ALA A 91 1 8 HELIX 5 5 ASP A 109 GLY A 117 1 9 HELIX 6 6 GLN A 148 TYR A 150 5 3 HELIX 7 7 GLY A 152 PHE A 157 1 6 HELIX 8 8 SER A 162 ARG A 170 1 9 HELIX 9 9 ASP A 187 GLY A 195 1 9 HELIX 10 10 VAL B 14 MET B 26 1 13 HELIX 11 11 ALA B 34 PHE B 42 1 9 HELIX 12 12 ALA B 45 ASP B 59 1 15 HELIX 13 13 SER B 84 ALA B 91 1 8 HELIX 14 14 ASP B 109 GLY B 117 1 9 HELIX 15 15 GLN B 148 TYR B 150 5 3 HELIX 16 16 GLY B 152 PHE B 157 1 6 HELIX 17 17 SER B 162 ARG B 170 1 9 HELIX 18 18 ASP B 187 LEU B 194 1 8 SHEET 1 A 2 VAL A 62 ARG A 65 0 SHEET 2 A 2 THR A 68 VAL A 71 -1 O VAL A 70 N GLU A 63 SHEET 1 B 8 ILE A 76 PRO A 79 0 SHEET 2 B 8 MET A 229 HIS A 236 1 O THR A 230 N ILE A 76 SHEET 3 B 8 ARG B 176 ALA B 184 -1 O ILE B 181 N PHE A 231 SHEET 4 B 8 MET B 202 TYR B 210 -1 O LEU B 204 N ASP B 182 SHEET 5 B 8 ALA B 216 ARG B 225 -1 O ILE B 217 N SER B 209 SHEET 6 B 8 VAL B 136 PRO B 146 -1 N THR B 142 O ARG B 221 SHEET 7 B 8 PRO B 123 THR B 133 -1 N LEU B 131 O VAL B 138 SHEET 8 B 8 ALA B 96 THR B 107 -1 N LEU B 106 O VAL B 124 SHEET 1 C 8 ALA A 96 THR A 107 0 SHEET 2 C 8 PRO A 123 THR A 133 -1 O GLN A 126 N SER A 104 SHEET 3 C 8 VAL A 136 PRO A 146 -1 O THR A 143 N LEU A 127 SHEET 4 C 8 ALA A 216 ARG A 225 -1 O ARG A 221 N THR A 142 SHEET 5 C 8 MET A 202 TYR A 210 -1 N SER A 209 O ILE A 217 SHEET 6 C 8 ARG A 176 ALA A 184 -1 N ARG A 176 O TYR A 210 SHEET 7 C 8 MET B 229 HIS B 236 -1 O PHE B 231 N ILE A 181 SHEET 8 C 8 ILE B 76 PRO B 79 1 N ILE B 76 O THR B 230 SHEET 1 D 2 VAL B 62 ARG B 65 0 SHEET 2 D 2 THR B 68 VAL B 71 -1 O VAL B 70 N GLU B 63 SITE 1 AC1 2 ARG A 65 THR A 68 SITE 1 AC2 4 VAL A 111 VAL A 115 HOH A 291 HOH A 324 SITE 1 AC3 9 VAL B 115 ASN B 206 ARG B 207 VAL B 208 SITE 2 AC3 9 GLN B 219 HOH B 256 HOH B 289 HOH B 378 SITE 3 AC3 9 HOH B 385 CRYST1 64.501 76.954 66.897 90.00 113.48 90.00 P 1 21 1 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 0.015504 0.000000 0.006735 0.00000 SCALE2 0.000000 0.012995 0.000000 0.00000 SCALE3 0.000000 0.000000 0.016298 0.00000