HEADER TRANSCRIPTION REGULATOR 30-JUL-12 3VVZ TITLE CRYSTAL STRUCUTURE OF THE RHODAMINE 6G-BOUND FORM OF RAMR TITLE 2 (TRANSCRIPTIONAL REGURATOR OF TETR FAMILY) FROM SALMONELLA TITLE 3 TYPHIMURIUM COMPND MOL_ID: 1; COMPND 2 MOLECULE: PUTATIVE REGULATORY PROTEIN; COMPND 3 CHAIN: A, B, C, D; COMPND 4 SYNONYM: RAMR, TETR-LIKE TRANSCRIPTIONAL REGULATOR; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SALMONELLA TYPHIMURIUM; SOURCE 3 ORGANISM_TAXID: 588858; SOURCE 4 STRAIN: 14028S; SOURCE 5 GENE: STM0580, STM14_0676; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: C41(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET DUET KEYWDS TETR TRANSCRIPTIONAL REGULATOR FAMILY, HTH-MOTIF, TRANSCRIPTIONAL KEYWDS 2 REGULATOR, DNA BINDING, TRANSCRIPTION REGULATOR EXPDTA X-RAY DIFFRACTION AUTHOR K.SAKURAI,E.NIKAIDO,R.NAKASHIMA,S.YAMASAKI,A.YAMAGUCHI,K.NISHINO REVDAT 4 20-MAR-24 3VVZ 1 REMARK SEQADV REVDAT 3 22-NOV-17 3VVZ 1 REMARK REVDAT 2 24-JUL-13 3VVZ 1 JRNL REVDAT 1 03-JUL-13 3VVZ 0 JRNL AUTH S.YAMASAKI,E.NIKAIDO,R.NAKASHIMA,K.SAKURAI,D.FUJIWARA, JRNL AUTH 2 I.FUJII,K.NISHINO JRNL TITL THE CRYSTAL STRUCTURE OF MULTIDRUG-RESISTANCE REGULATOR RAMR JRNL TITL 2 WITH MULTIPLE DRUGS JRNL REF NAT COMMUN V. 4 2078 2013 JRNL REFN ESSN 2041-1723 JRNL PMID 23800819 JRNL DOI 10.1038/NCOMMS3078 REMARK 2 REMARK 2 RESOLUTION. 2.51 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) : 2.51 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 44.28 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 97.6 REMARK 3 NUMBER OF REFLECTIONS : 27289 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) : 0.264 REMARK 3 R VALUE (WORKING SET) : 0.262 REMARK 3 FREE R VALUE : 0.301 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1399 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) : 2.51 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.57 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1777 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 87.87 REMARK 3 BIN R VALUE (WORKING SET) : 0.3180 REMARK 3 BIN FREE R VALUE SET COUNT : 92 REMARK 3 BIN FREE R VALUE : 0.3250 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 5848 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 152 REMARK 3 SOLVENT ATOMS : 38 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 53.44 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 1.75000 REMARK 3 B22 (A**2) : -1.40000 REMARK 3 B33 (A**2) : -0.69000 REMARK 3 B12 (A**2) : -0.80000 REMARK 3 B13 (A**2) : 0.46000 REMARK 3 B23 (A**2) : -0.92000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 1.271 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.375 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.365 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 16.072 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.902 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.859 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 6112 ; 0.019 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 8252 ; 1.627 ; 1.977 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 732 ; 5.510 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 288 ;38.399 ;22.917 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 1060 ;17.548 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 60 ;19.368 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 892 ; 0.100 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4604 ; 0.007 ; 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): 3656 ; 0.974 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 5816 ; 1.784 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2456 ; 2.383 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 2436 ; 3.846 ; 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 : 1.40 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: REFINED INDIVIDUALLY REMARK 4 REMARK 4 3VVZ COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 09-AUG-12. REMARK 100 THE DEPOSITION ID IS D_1000095568. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 27-NOV-10 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SPRING-8 REMARK 200 BEAMLINE : BL44XU REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9000 REMARK 200 MONOCHROMATOR : SI REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : RAYONIX MX225HE REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO, HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK, HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 27364 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.500 REMARK 200 RESOLUTION RANGE LOW (A) : 100.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.5 REMARK 200 DATA REDUNDANCY : 3.800 REMARK 200 R MERGE (I) : 0.06700 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 14.7000 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) : 2.54 REMARK 200 COMPLETENESS FOR SHELL (%) : 98.4 REMARK 200 DATA REDUNDANCY IN SHELL : 3.80 REMARK 200 R MERGE FOR SHELL (I) : 0.37000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> 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: MOLREP REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 48.45 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.39 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1M MES, 20MM NAPI, 0.2M AMMONIUM REMARK 280 SULFATE, 75MM NACL, 2MM DTT, 20% PEG 6000, PH 6.5, VAPOR REMARK 280 DIFFUSION, HANGING DROP, TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,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 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 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: 4980 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 17850 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -53.0 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 350 REMARK 350 BIOMOLECULE: 2 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: 5110 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 17440 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -53.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: C, D 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 0 REMARK 465 VAL A 1 REMARK 465 ALA A 2 REMARK 465 ARG A 3 REMARK 465 PRO A 4 REMARK 465 LYS A 5 REMARK 465 SER A 6 REMARK 465 GLU A 7 REMARK 465 GLU A 192 REMARK 465 GLN A 193 REMARK 465 MET B 0 REMARK 465 VAL B 1 REMARK 465 ALA B 2 REMARK 465 ARG B 3 REMARK 465 PRO B 4 REMARK 465 LYS B 5 REMARK 465 SER B 6 REMARK 465 GLU B 7 REMARK 465 GLU B 192 REMARK 465 GLN B 193 REMARK 465 MET C 0 REMARK 465 VAL C 1 REMARK 465 ALA C 2 REMARK 465 ARG C 3 REMARK 465 PRO C 4 REMARK 465 LYS C 5 REMARK 465 SER C 6 REMARK 465 GLU C 7 REMARK 465 GLU C 192 REMARK 465 GLN C 193 REMARK 465 MET D 0 REMARK 465 VAL D 1 REMARK 465 ALA D 2 REMARK 465 ARG D 3 REMARK 465 PRO D 4 REMARK 465 LYS D 5 REMARK 465 SER D 6 REMARK 465 GLU D 7 REMARK 465 GLU D 192 REMARK 465 GLN D 193 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 145 CG2 THR C 79 1454 2.00 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 LYS A 10 CD LYS A 10 CE 0.153 REMARK 500 ALA A 178 CA ALA A 178 CB 0.138 REMARK 500 ARG B 35 CZ ARG B 35 NH1 0.092 REMARK 500 ARG B 35 CZ ARG B 35 NH2 -0.104 REMARK 500 GLU B 41 CD GLU B 41 OE2 0.072 REMARK 500 ALA B 49 C ALA B 49 O -0.134 REMARK 500 GLU B 113 CD GLU B 113 OE2 0.224 REMARK 500 GLU B 118 CD GLU B 118 OE2 0.104 REMARK 500 ARG B 190 CZ ARG B 190 NH1 0.100 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 35 NE - CZ - NH2 ANGL. DEV. = -4.2 DEGREES REMARK 500 ARG B 107 NE - CZ - NH1 ANGL. DEV. = 3.0 DEGREES REMARK 500 ARG B 190 NE - CZ - NH2 ANGL. DEV. = -4.0 DEGREES REMARK 500 ARG C 76 NE - CZ - NH2 ANGL. DEV. = 5.3 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 SER A 77 -16.28 -47.89 REMARK 500 GLU A 113 -0.67 59.65 REMARK 500 PHE A 127 69.96 -111.39 REMARK 500 LYS B 9 -23.46 -175.83 REMARK 500 THR B 30 -18.54 -49.01 REMARK 500 SER B 77 -34.35 -174.59 REMARK 500 SER B 112 -16.31 -141.84 REMARK 500 GLU B 113 -17.82 70.67 REMARK 500 LYS B 114 26.27 -69.69 REMARK 500 MET B 126 2.34 -50.57 REMARK 500 PHE B 127 77.85 -163.47 REMARK 500 ALA B 173 -38.24 -34.48 REMARK 500 GLU C 41 -33.50 -35.89 REMARK 500 GLU C 113 -12.01 71.10 REMARK 500 SER D 24 15.90 -145.15 REMARK 500 ILE D 26 -6.26 -55.93 REMARK 500 GLU D 73 -35.41 -134.66 REMARK 500 SER D 77 25.60 -66.68 REMARK 500 PHE D 127 71.00 -153.49 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 RHQ A 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE RHQ B 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE RHQ C 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 C 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE RHQ D 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 D 302 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3VVX RELATED DB: PDB REMARK 900 RELATED ID: 3VVY RELATED DB: PDB REMARK 900 RELATED ID: 3VW0 RELATED DB: PDB REMARK 900 RELATED ID: 3VW1 RELATED DB: PDB REMARK 900 RELATED ID: 3VW2 RELATED DB: PDB DBREF 3VVZ A 2 193 UNP D0ZP76 D0ZP76_SALT1 2 193 DBREF 3VVZ B 2 193 UNP D0ZP76 D0ZP76_SALT1 2 193 DBREF 3VVZ C 2 193 UNP D0ZP76 D0ZP76_SALT1 2 193 DBREF 3VVZ D 2 193 UNP D0ZP76 D0ZP76_SALT1 2 193 SEQADV 3VVZ MET A 0 UNP D0ZP76 EXPRESSION TAG SEQADV 3VVZ VAL A 1 UNP D0ZP76 EXPRESSION TAG SEQADV 3VVZ MET B 0 UNP D0ZP76 EXPRESSION TAG SEQADV 3VVZ VAL B 1 UNP D0ZP76 EXPRESSION TAG SEQADV 3VVZ MET C 0 UNP D0ZP76 EXPRESSION TAG SEQADV 3VVZ VAL C 1 UNP D0ZP76 EXPRESSION TAG SEQADV 3VVZ MET D 0 UNP D0ZP76 EXPRESSION TAG SEQADV 3VVZ VAL D 1 UNP D0ZP76 EXPRESSION TAG SEQRES 1 A 194 MET VAL ALA ARG PRO LYS SER GLU ASP LYS LYS GLN ALA SEQRES 2 A 194 LEU LEU GLU ALA ALA THR GLN ALA ILE ALA GLN SER GLY SEQRES 3 A 194 ILE ALA ALA SER THR ALA VAL ILE ALA ARG ASN ALA GLY SEQRES 4 A 194 VAL ALA GLU GLY THR LEU PHE ARG TYR PHE ALA THR LYS SEQRES 5 A 194 ASP GLU LEU ILE ASN THR LEU TYR LEU HIS LEU LYS GLN SEQRES 6 A 194 ASP LEU CYS GLN SER MET ILE MET GLU LEU ASP ARG SER SEQRES 7 A 194 ILE THR ASP ALA LYS MET MET THR ARG PHE ILE TRP ASN SEQRES 8 A 194 SER TYR ILE SER TRP GLY LEU ASN HIS PRO ALA ARG HIS SEQRES 9 A 194 ARG ALA ILE ARG GLN LEU ALA VAL SER GLU LYS LEU THR SEQRES 10 A 194 LYS GLU THR GLU GLN ARG ALA ASP ASP MET PHE PRO GLU SEQRES 11 A 194 LEU ARG ASP LEU CYS HIS ARG SER VAL LEU MET VAL PHE SEQRES 12 A 194 MET SER ASP GLU TYR ARG ALA PHE GLY ASP GLY LEU PHE SEQRES 13 A 194 LEU ALA LEU ALA GLU THR THR MET ASP PHE ALA ALA ARG SEQRES 14 A 194 ASP PRO ALA ARG ALA GLY GLU TYR ILE ALA LEU GLY PHE SEQRES 15 A 194 GLU ALA MET TRP ARG ALA LEU THR ARG GLU GLU GLN SEQRES 1 B 194 MET VAL ALA ARG PRO LYS SER GLU ASP LYS LYS GLN ALA SEQRES 2 B 194 LEU LEU GLU ALA ALA THR GLN ALA ILE ALA GLN SER GLY SEQRES 3 B 194 ILE ALA ALA SER THR ALA VAL ILE ALA ARG ASN ALA GLY SEQRES 4 B 194 VAL ALA GLU GLY THR LEU PHE ARG TYR PHE ALA THR LYS SEQRES 5 B 194 ASP GLU LEU ILE ASN THR LEU TYR LEU HIS LEU LYS GLN SEQRES 6 B 194 ASP LEU CYS GLN SER MET ILE MET GLU LEU ASP ARG SER SEQRES 7 B 194 ILE THR ASP ALA LYS MET MET THR ARG PHE ILE TRP ASN SEQRES 8 B 194 SER TYR ILE SER TRP GLY LEU ASN HIS PRO ALA ARG HIS SEQRES 9 B 194 ARG ALA ILE ARG GLN LEU ALA VAL SER GLU LYS LEU THR SEQRES 10 B 194 LYS GLU THR GLU GLN ARG ALA ASP ASP MET PHE PRO GLU SEQRES 11 B 194 LEU ARG ASP LEU CYS HIS ARG SER VAL LEU MET VAL PHE SEQRES 12 B 194 MET SER ASP GLU TYR ARG ALA PHE GLY ASP GLY LEU PHE SEQRES 13 B 194 LEU ALA LEU ALA GLU THR THR MET ASP PHE ALA ALA ARG SEQRES 14 B 194 ASP PRO ALA ARG ALA GLY GLU TYR ILE ALA LEU GLY PHE SEQRES 15 B 194 GLU ALA MET TRP ARG ALA LEU THR ARG GLU GLU GLN SEQRES 1 C 194 MET VAL ALA ARG PRO LYS SER GLU ASP LYS LYS GLN ALA SEQRES 2 C 194 LEU LEU GLU ALA ALA THR GLN ALA ILE ALA GLN SER GLY SEQRES 3 C 194 ILE ALA ALA SER THR ALA VAL ILE ALA ARG ASN ALA GLY SEQRES 4 C 194 VAL ALA GLU GLY THR LEU PHE ARG TYR PHE ALA THR LYS SEQRES 5 C 194 ASP GLU LEU ILE ASN THR LEU TYR LEU HIS LEU LYS GLN SEQRES 6 C 194 ASP LEU CYS GLN SER MET ILE MET GLU LEU ASP ARG SER SEQRES 7 C 194 ILE THR ASP ALA LYS MET MET THR ARG PHE ILE TRP ASN SEQRES 8 C 194 SER TYR ILE SER TRP GLY LEU ASN HIS PRO ALA ARG HIS SEQRES 9 C 194 ARG ALA ILE ARG GLN LEU ALA VAL SER GLU LYS LEU THR SEQRES 10 C 194 LYS GLU THR GLU GLN ARG ALA ASP ASP MET PHE PRO GLU SEQRES 11 C 194 LEU ARG ASP LEU CYS HIS ARG SER VAL LEU MET VAL PHE SEQRES 12 C 194 MET SER ASP GLU TYR ARG ALA PHE GLY ASP GLY LEU PHE SEQRES 13 C 194 LEU ALA LEU ALA GLU THR THR MET ASP PHE ALA ALA ARG SEQRES 14 C 194 ASP PRO ALA ARG ALA GLY GLU TYR ILE ALA LEU GLY PHE SEQRES 15 C 194 GLU ALA MET TRP ARG ALA LEU THR ARG GLU GLU GLN SEQRES 1 D 194 MET VAL ALA ARG PRO LYS SER GLU ASP LYS LYS GLN ALA SEQRES 2 D 194 LEU LEU GLU ALA ALA THR GLN ALA ILE ALA GLN SER GLY SEQRES 3 D 194 ILE ALA ALA SER THR ALA VAL ILE ALA ARG ASN ALA GLY SEQRES 4 D 194 VAL ALA GLU GLY THR LEU PHE ARG TYR PHE ALA THR LYS SEQRES 5 D 194 ASP GLU LEU ILE ASN THR LEU TYR LEU HIS LEU LYS GLN SEQRES 6 D 194 ASP LEU CYS GLN SER MET ILE MET GLU LEU ASP ARG SER SEQRES 7 D 194 ILE THR ASP ALA LYS MET MET THR ARG PHE ILE TRP ASN SEQRES 8 D 194 SER TYR ILE SER TRP GLY LEU ASN HIS PRO ALA ARG HIS SEQRES 9 D 194 ARG ALA ILE ARG GLN LEU ALA VAL SER GLU LYS LEU THR SEQRES 10 D 194 LYS GLU THR GLU GLN ARG ALA ASP ASP MET PHE PRO GLU SEQRES 11 D 194 LEU ARG ASP LEU CYS HIS ARG SER VAL LEU MET VAL PHE SEQRES 12 D 194 MET SER ASP GLU TYR ARG ALA PHE GLY ASP GLY LEU PHE SEQRES 13 D 194 LEU ALA LEU ALA GLU THR THR MET ASP PHE ALA ALA ARG SEQRES 14 D 194 ASP PRO ALA ARG ALA GLY GLU TYR ILE ALA LEU GLY PHE SEQRES 15 D 194 GLU ALA MET TRP ARG ALA LEU THR ARG GLU GLU GLN HET RHQ A 301 33 HET SO4 A 302 5 HET RHQ B 301 33 HET SO4 B 302 5 HET RHQ C 301 33 HET SO4 C 302 5 HET RHQ D 301 33 HET SO4 D 302 5 HETNAM RHQ RHODAMINE 6G HETNAM SO4 SULFATE ION FORMUL 5 RHQ 4(C28 H31 N2 O3 1+) FORMUL 6 SO4 4(O4 S 2-) FORMUL 13 HOH *38(H2 O) HELIX 1 1 ASP A 8 GLY A 25 1 18 HELIX 2 2 ILE A 26 ALA A 28 5 3 HELIX 3 3 SER A 29 ALA A 37 1 9 HELIX 4 4 ALA A 40 PHE A 48 1 9 HELIX 5 5 THR A 50 LEU A 74 1 25 HELIX 6 6 ASP A 80 HIS A 99 1 20 HELIX 7 7 HIS A 99 VAL A 111 1 13 HELIX 8 8 THR A 116 ASP A 125 1 10 HELIX 9 9 PHE A 127 VAL A 138 1 12 HELIX 10 10 LEU A 139 MET A 143 5 5 HELIX 11 11 TYR A 147 ASP A 169 1 23 HELIX 12 12 ARG A 172 THR A 189 1 18 HELIX 13 13 LYS B 9 GLU B 15 1 7 HELIX 14 14 ALA B 17 GLY B 25 1 9 HELIX 15 15 SER B 29 GLY B 38 1 10 HELIX 16 16 ALA B 40 PHE B 45 1 6 HELIX 17 17 THR B 50 MET B 72 1 23 HELIX 18 18 ASP B 80 HIS B 99 1 20 HELIX 19 19 HIS B 99 VAL B 111 1 13 HELIX 20 20 THR B 116 MET B 126 1 11 HELIX 21 21 PHE B 127 VAL B 138 1 12 HELIX 22 22 LEU B 139 SER B 144 5 6 HELIX 23 23 TYR B 147 ASP B 169 1 23 HELIX 24 24 ARG B 172 THR B 189 1 18 HELIX 25 25 LYS C 9 GLY C 25 1 17 HELIX 26 26 SER C 29 GLY C 38 1 10 HELIX 27 27 ALA C 40 PHE C 45 1 6 HELIX 28 28 THR C 50 GLU C 73 1 24 HELIX 29 29 ASP C 80 HIS C 99 1 20 HELIX 30 30 HIS C 99 VAL C 111 1 13 HELIX 31 31 THR C 116 ASP C 125 1 10 HELIX 32 32 PHE C 127 VAL C 138 1 12 HELIX 33 33 LEU C 139 MET C 143 5 5 HELIX 34 34 TYR C 147 ASP C 169 1 23 HELIX 35 35 ARG C 172 THR C 189 1 18 HELIX 36 36 LYS D 9 GLY D 25 1 17 HELIX 37 37 ILE D 26 ALA D 28 5 3 HELIX 38 38 SER D 29 GLY D 38 1 10 HELIX 39 39 ALA D 40 PHE D 48 1 9 HELIX 40 40 THR D 50 MET D 72 1 23 HELIX 41 41 ASP D 80 HIS D 99 1 20 HELIX 42 42 HIS D 99 VAL D 111 1 13 HELIX 43 43 THR D 116 MET D 126 1 11 HELIX 44 44 PHE D 127 VAL D 138 1 12 HELIX 45 45 LEU D 139 SER D 144 5 6 HELIX 46 46 TYR D 147 ASP D 169 1 23 HELIX 47 47 ARG D 172 THR D 189 1 18 SITE 1 AC1 14 LEU A 66 THR A 85 ILE A 88 TRP A 89 SITE 2 AC1 14 ILE A 106 ASP A 124 CYS A 134 HIS A 135 SITE 3 AC1 14 PHE A 142 MET A 143 ARG A 148 GLY A 151 SITE 4 AC1 14 ASP A 152 PHE A 155 SITE 1 AC2 5 GLN A 19 HIS A 99 PRO A 100 ALA A 101 SITE 2 AC2 5 ARG A 102 SITE 1 AC3 15 LEU B 66 THR B 85 ILE B 88 TRP B 89 SITE 2 AC3 15 ILE B 106 ASP B 124 LEU B 130 ARG B 131 SITE 3 AC3 15 CYS B 134 HIS B 135 PHE B 142 ARG B 148 SITE 4 AC3 15 GLY B 151 ASP B 152 PHE B 155 SITE 1 AC4 5 GLN B 19 HIS B 99 PRO B 100 ALA B 101 SITE 2 AC4 5 ARG B 102 SITE 1 AC5 13 THR C 85 ILE C 88 TRP C 89 ASP C 124 SITE 2 AC5 13 LEU C 130 CYS C 134 HIS C 135 PHE C 142 SITE 3 AC5 13 MET C 143 ARG C 148 GLY C 151 ASP C 152 SITE 4 AC5 13 PHE C 155 SITE 1 AC6 5 GLN C 19 HIS C 99 PRO C 100 ALA C 101 SITE 2 AC6 5 ARG C 102 SITE 1 AC7 13 LYS D 63 THR D 85 TRP D 89 ILE D 106 SITE 2 AC7 13 ASP D 124 LEU D 130 CYS D 134 HIS D 135 SITE 3 AC7 13 PHE D 142 ARG D 148 GLY D 151 ASP D 152 SITE 4 AC7 13 PHE D 155 SITE 1 AC8 5 GLN D 19 HIS D 99 PRO D 100 ALA D 101 SITE 2 AC8 5 ARG D 102 CRYST1 43.717 54.329 92.296 104.54 97.32 90.00 P 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 0.022874 0.000000 0.003037 0.00000 SCALE2 0.000000 0.018406 0.004816 0.00000 SCALE3 0.000000 0.000000 0.011291 0.00000