HEADER TRANSCRIPTION 17-SEP-07 2RAS TITLE CRYSTAL STRUCTURE OF A PUTATIVE TETR/ACRR FAMILY TRANSCRIPTIONAL TITLE 2 REGULATOR (SARO_0558) FROM NOVOSPHINGOBIUM AROMATICIVORANS DSM AT TITLE 3 1.80 A RESOLUTION COMPND MOL_ID: 1; COMPND 2 MOLECULE: TRANSCRIPTIONAL REGULATOR, TETR FAMILY; COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: NOVOSPHINGOBIUM AROMATICIVORANS; SOURCE 3 ORGANISM_TAXID: 279238; SOURCE 4 STRAIN: DSM 12444; SOURCE 5 GENE: YP_495839.1, SARO_0558; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: HK100; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: SPEEDET KEYWDS BACTERIAL REGULATORY PROTEINS, TETR FAMILY, DNA-BINDING, DNA/RNA- KEYWDS 2 BINDING 3-HELICAL BUNDLE FOLD, HELIX TURN HELIX MOTIF, HTH MOTIF, KEYWDS 3 TRANSCRIPTION REGULATOR, TRANSCRIPTION REGULATION, STRUCTURAL KEYWDS 4 GENOMICS, JOINT CENTER FOR STRUCTURAL GENOMICS, JCSG, PROTEIN KEYWDS 5 STRUCTURE INITIATIVE, PSI-2, TRANSCRIPTION EXPDTA X-RAY DIFFRACTION AUTHOR JOINT CENTER FOR STRUCTURAL GENOMICS (JCSG) REVDAT 7 25-JAN-23 2RAS 1 REMARK SEQADV REVDAT 6 24-JUL-19 2RAS 1 REMARK LINK REVDAT 5 25-OCT-17 2RAS 1 REMARK REVDAT 4 13-JUL-11 2RAS 1 VERSN REVDAT 3 23-MAR-11 2RAS 1 TITLE KEYWDS REVDAT 2 24-FEB-09 2RAS 1 VERSN REVDAT 1 16-OCT-07 2RAS 0 JRNL AUTH JOINT CENTER FOR STRUCTURAL GENOMICS (JCSG) JRNL TITL CRYSTAL STRUCTURE OF PREDICTED TRANSCRIPTIONAL REGULATOR OF JRNL TITL 2 TETR/ACRR FAMILY (YP_495839.1) FROM NOVOSPHINGOBIUM JRNL TITL 3 AROMATICIVORANS DSM 12444 AT 1.80 A RESOLUTION JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.80 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0019 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD WITH PHASES REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 29.71 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.8 REMARK 3 NUMBER OF REFLECTIONS : 47877 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) : 0.178 REMARK 3 R VALUE (WORKING SET) : 0.177 REMARK 3 FREE R VALUE : 0.206 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 2413 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) : 3271 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 96.51 REMARK 3 BIN R VALUE (WORKING SET) : 0.2500 REMARK 3 BIN FREE R VALUE SET COUNT : 161 REMARK 3 BIN FREE R VALUE : 0.3210 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3133 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 58 REMARK 3 SOLVENT ATOMS : 353 REMARK 3 REMARK 3 B VALUES. REMARK 3 B VALUE TYPE : LIKELY RESIDUAL REMARK 3 FROM WILSON PLOT (A**2) : 27.39 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 34.36 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 2.13000 REMARK 3 B22 (A**2) : -0.23000 REMARK 3 B33 (A**2) : -1.89000 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): 0.111 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.107 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.081 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 5.258 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.966 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.950 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3342 ; 0.015 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 2311 ; 0.004 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4517 ; 1.422 ; 1.964 REMARK 3 BOND ANGLES OTHERS (DEGREES): 5571 ; 1.427 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 438 ; 3.534 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 166 ;26.800 ;23.072 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 558 ;11.949 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 36 ;15.251 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 498 ; 0.094 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3796 ; 0.006 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 736 ; 0.003 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 716 ; 0.192 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 2378 ; 0.145 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1645 ; 0.162 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): 1640 ; 0.075 ; 0.200 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 280 ; 0.124 ; 0.200 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): 12 ; 0.098 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 66 ; 0.198 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 25 ; 0.121 ; 0.200 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): 2131 ; 1.777 ; 3.000 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 839 ; 0.411 ; 3.000 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3290 ; 2.571 ; 5.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1379 ; 4.459 ; 8.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1209 ; 6.269 ;11.000 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 204 REMARK 3 ORIGIN FOR THE GROUP (A): 14.1440 18.2240 20.7100 REMARK 3 T TENSOR REMARK 3 T11: -0.2051 T22: -0.1563 REMARK 3 T33: -0.1096 T12: -0.0177 REMARK 3 T13: -0.0110 T23: -0.0313 REMARK 3 L TENSOR REMARK 3 L11: 1.2931 L22: 0.9875 REMARK 3 L33: 1.8380 L12: -0.4127 REMARK 3 L13: -1.0422 L23: 0.3523 REMARK 3 S TENSOR REMARK 3 S11: -0.0269 S12: 0.0519 S13: 0.0904 REMARK 3 S21: -0.0767 S22: 0.1236 S23: -0.1979 REMARK 3 S31: 0.0703 S32: 0.0717 S33: -0.0967 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 5 B 208 REMARK 3 ORIGIN FOR THE GROUP (A): -13.3680 29.6120 22.2460 REMARK 3 T TENSOR REMARK 3 T11: -0.1968 T22: -0.1760 REMARK 3 T33: -0.1369 T12: -0.0124 REMARK 3 T13: 0.0008 T23: 0.0074 REMARK 3 L TENSOR REMARK 3 L11: 0.8706 L22: 1.3377 REMARK 3 L33: 2.4724 L12: -0.4458 REMARK 3 L13: 0.4644 L23: 0.1727 REMARK 3 S TENSOR REMARK 3 S11: -0.0276 S12: 0.0119 S13: 0.0059 REMARK 3 S21: -0.1250 S22: 0.0618 S23: 0.1824 REMARK 3 S31: -0.1444 S32: -0.2241 S33: -0.0342 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: REMARK 3 1. HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS. REMARK 3 2. ATOM RECORDS CONTAIN RESIDUAL B FACTORS ONLY. REMARK 3 3. A MET-INHIBITION PROTOCOL WAS USED FOR SELENOMETHIONINE REMARK 3 INCORPORATION DURING PROTEIN EXPRESSION. THE OCCUPANCY REMARK 3 OF THE SE ATOMS IN THE MSE RESIDUES WAS REDUCED TO 0.75 REMARK 3 FOR THE REDUCED SCATTERING POWER DUE TO PARTIAL S-MET REMARK 3 INCORPORATION. REMARK 3 4. RESIDUES 1-4 IN BOTH CHAINS, 205-211 IN CHAIN A, AND 209-211 REMARK 3 IN CHAIN B ARE DISORDERED AND NOT INCLUDED IN THE MODEL. REMARK 3 5. EDO MOLECULES FROM THE CRYO SOLUTION ARE MODELED. REMARK 3 6. THERE ARE UNEXPLAINED DENSITIES NEAR GLU-121 SUGGESTING REMARK 3 A MG ION COORDINATED BY WATERS. REMARK 4 REMARK 4 2RAS COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 21-SEP-07. REMARK 100 THE DEPOSITION ID IS D_1000044635. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 25-JUL-07 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.8 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SSRL REMARK 200 BEAMLINE : BL11-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.91837, 0.97925, 0.97901 REMARK 200 MONOCHROMATOR : SINGLE CRYSTAL SI(111) BENT REMARK 200 (HORIZONTAL FOCUSING) REMARK 200 OPTICS : FLAT MIRROR (VERTICAL FOCUSING) REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 325 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 47914 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.800 REMARK 200 RESOLUTION RANGE LOW (A) : 29.709 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 96.7 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : 0.03400 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 14.0100 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) : 1.86 REMARK 200 COMPLETENESS FOR SHELL (%) : 93.9 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.43200 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.000 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: MAD REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MAD REMARK 200 SOFTWARE USED: SHELX, SHELXD, AUTOSHARP REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 53.38 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.64 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: NANODROP, 0.2M MGCL2, 20.0% PEG 3350, REMARK 280 NO BUFFER PH 5.8, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 277K 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 32.25000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 52.05000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 38.21000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 52.05000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 32.25000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 38.21000 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 PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION REMARK 300 ON BURIED SURFACE AREA. REMARK 300 SIZE EXCLUSION CHROMATOGRAPHY SUPPORTS THE ASSIGNMENT REMARK 300 OF A DIMER AS THE SIGNIFICANT OLIGOMERIZATION STATE. 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: 3260 ANGSTROM**2 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 0 REMARK 465 MSE A 1 REMARK 465 ALA A 2 REMARK 465 SER A 3 REMARK 465 SER A 4 REMARK 465 LEU A 205 REMARK 465 THR A 206 REMARK 465 GLY A 207 REMARK 465 LEU A 208 REMARK 465 ARG A 209 REMARK 465 ALA A 210 REMARK 465 ALA A 211 REMARK 465 GLY B 0 REMARK 465 MSE B 1 REMARK 465 ALA B 2 REMARK 465 SER B 3 REMARK 465 SER B 4 REMARK 465 ARG B 209 REMARK 465 ALA B 210 REMARK 465 ALA B 211 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 GLU A 7 CG CD OE1 OE2 REMARK 470 ARG A 49 CG CD NE CZ NH1 NH2 REMARK 470 GLU A 52 CG CD OE1 OE2 REMARK 470 ASP A 80 CG OD1 OD2 REMARK 470 THR B 6 OG1 CG2 REMARK 470 GLU B 7 CG CD OE1 OE2 REMARK 470 ARG B 14 CG CD NE CZ NH1 NH2 REMARK 470 ASP B 17 OD1 REMARK 470 THR B 32 OG1 CG2 REMARK 470 LEU B 33 CG CD1 CD2 REMARK 470 SER B 34 OG REMARK 470 SER B 43 OG REMARK 470 ASN B 46 CG OD1 ND2 REMARK 470 SER B 48 OG REMARK 470 ARG B 49 CG CD NE CZ NH1 NH2 REMARK 470 GLU B 55 CG CD OE1 OE2 REMARK 470 GLU B 59 CD OE1 OE2 REMARK 470 TYR B 64 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 LYS B 108 CG CD CE NZ REMARK 470 LEU B 205 CG CD1 CD2 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 A 54 NE - CZ - NH1 ANGL. DEV. = 3.6 DEGREES REMARK 500 ARG A 54 NE - CZ - NH2 ANGL. DEV. = -3.2 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 ASP A 105 106.28 -166.29 REMARK 500 CYS A 167 -59.93 -141.65 REMARK 500 CYS A 167 -54.06 -144.86 REMARK 500 CYS B 167 -52.66 -142.43 REMARK 500 CYS B 167 -44.89 -146.59 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 CL A 212 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 213 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO B 212 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO B 213 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO B 214 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 214 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 215 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO B 215 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO B 216 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 216 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 217 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 218 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO B 217 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 219 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO B 218 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO B 219 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 376219 RELATED DB: TARGETDB REMARK 999 REMARK 999 SEQUENCE REMARK 999 THE CONSTRUCT WAS EXPRESSED WITH A PURIFICATION TAG REMARK 999 MGSDKIHHHHHHENLYFQG. THE TAG WAS REMOVED WITH TEV PROTEASE REMARK 999 LEAVING ONLY A GLYCINE (0) FOLLOWED BY THE TARGET SEQUENCE. DBREF 2RAS A 1 211 UNP Q2GAW8 Q2GAW8_NOVAD 1 211 DBREF 2RAS B 1 211 UNP Q2GAW8 Q2GAW8_NOVAD 1 211 SEQADV 2RAS GLY A 0 UNP Q2GAW8 EXPRESSION TAG SEQADV 2RAS GLY B 0 UNP Q2GAW8 EXPRESSION TAG SEQRES 1 A 212 GLY MSE ALA SER SER GLY THR GLU HIS ASP ALA MSE ARG SEQRES 2 A 212 ALA ARG LEU VAL ASP VAL ALA GLN ALA ILE VAL GLU GLU SEQRES 3 A 212 ARG GLY GLY ALA GLY LEU THR LEU SER GLU LEU ALA ALA SEQRES 4 A 212 ARG ALA GLY ILE SER GLN ALA ASN LEU SER ARG TYR PHE SEQRES 5 A 212 GLU THR ARG GLU ASP LEU MSE GLU ALA ILE ALA ASP TYR SEQRES 6 A 212 TRP PHE HIS PRO MSE VAL GLU ILE MSE GLU ASP VAL LEU SEQRES 7 A 212 ALA SER ASP LEU PRO PRO ARG ARG LYS MSE TYR GLU PHE SEQRES 8 A 212 PHE ALA ARG ARG PHE VAL VAL MSE ARG ARG LYS TRP GLU SEQRES 9 A 212 ALA ASP PRO VAL LYS LEU GLN THR TYR ILE GLU VAL GLY SEQRES 10 A 212 ASN ASP TYR PHE GLU GLN VAL ARG SER TYR ILE ASP LEU SEQRES 11 A 212 ALA ASP HIS TYR LEU GLY GLU ILE ILE GLY GLU ALA MSE SEQRES 12 A 212 SER ASP GLY ALA PHE SER GLY LEU GLU VAL ASP GLU THR SEQRES 13 A 212 ILE SER LEU VAL ASN GLN MSE CYS ALA PRO TYR CYS ALA SEQRES 14 A 212 LEU ASN THR MSE THR THR PHE MSE GLU ARG LEU SER GLU SEQRES 15 A 212 ASP LYS LEU ALA ARG ILE VAL ASP ALA VAL PHE ASP GLY SEQRES 16 A 212 LEU SER ALA GLN ASP ARG GLY ALA ARG SER LEU THR GLY SEQRES 17 A 212 LEU ARG ALA ALA SEQRES 1 B 212 GLY MSE ALA SER SER GLY THR GLU HIS ASP ALA MSE ARG SEQRES 2 B 212 ALA ARG LEU VAL ASP VAL ALA GLN ALA ILE VAL GLU GLU SEQRES 3 B 212 ARG GLY GLY ALA GLY LEU THR LEU SER GLU LEU ALA ALA SEQRES 4 B 212 ARG ALA GLY ILE SER GLN ALA ASN LEU SER ARG TYR PHE SEQRES 5 B 212 GLU THR ARG GLU ASP LEU MSE GLU ALA ILE ALA ASP TYR SEQRES 6 B 212 TRP PHE HIS PRO MSE VAL GLU ILE MSE GLU ASP VAL LEU SEQRES 7 B 212 ALA SER ASP LEU PRO PRO ARG ARG LYS MSE TYR GLU PHE SEQRES 8 B 212 PHE ALA ARG ARG PHE VAL VAL MSE ARG ARG LYS TRP GLU SEQRES 9 B 212 ALA ASP PRO VAL LYS LEU GLN THR TYR ILE GLU VAL GLY SEQRES 10 B 212 ASN ASP TYR PHE GLU GLN VAL ARG SER TYR ILE ASP LEU SEQRES 11 B 212 ALA ASP HIS TYR LEU GLY GLU ILE ILE GLY GLU ALA MSE SEQRES 12 B 212 SER ASP GLY ALA PHE SER GLY LEU GLU VAL ASP GLU THR SEQRES 13 B 212 ILE SER LEU VAL ASN GLN MSE CYS ALA PRO TYR CYS ALA SEQRES 14 B 212 LEU ASN THR MSE THR THR PHE MSE GLU ARG LEU SER GLU SEQRES 15 B 212 ASP LYS LEU ALA ARG ILE VAL ASP ALA VAL PHE ASP GLY SEQRES 16 B 212 LEU SER ALA GLN ASP ARG GLY ALA ARG SER LEU THR GLY SEQRES 17 B 212 LEU ARG ALA ALA MODRES 2RAS MSE A 11 MET SELENOMETHIONINE MODRES 2RAS MSE A 58 MET SELENOMETHIONINE MODRES 2RAS MSE A 69 MET SELENOMETHIONINE MODRES 2RAS MSE A 73 MET SELENOMETHIONINE MODRES 2RAS MSE A 87 MET SELENOMETHIONINE MODRES 2RAS MSE A 98 MET SELENOMETHIONINE MODRES 2RAS MSE A 142 MET SELENOMETHIONINE MODRES 2RAS MSE A 162 MET SELENOMETHIONINE MODRES 2RAS MSE A 172 MET SELENOMETHIONINE MODRES 2RAS MSE A 176 MET SELENOMETHIONINE MODRES 2RAS MSE B 11 MET SELENOMETHIONINE MODRES 2RAS MSE B 58 MET SELENOMETHIONINE MODRES 2RAS MSE B 69 MET SELENOMETHIONINE MODRES 2RAS MSE B 73 MET SELENOMETHIONINE MODRES 2RAS MSE B 87 MET SELENOMETHIONINE MODRES 2RAS MSE B 98 MET SELENOMETHIONINE MODRES 2RAS MSE B 142 MET SELENOMETHIONINE MODRES 2RAS MSE B 162 MET SELENOMETHIONINE MODRES 2RAS MSE B 172 MET SELENOMETHIONINE MODRES 2RAS MSE B 176 MET SELENOMETHIONINE HET MSE A 11 8 HET MSE A 58 8 HET MSE A 69 8 HET MSE A 73 8 HET MSE A 87 8 HET MSE A 98 8 HET MSE A 142 8 HET MSE A 162 8 HET MSE A 172 8 HET MSE A 176 8 HET MSE B 11 8 HET MSE B 58 8 HET MSE B 69 8 HET MSE B 73 8 HET MSE B 87 8 HET MSE B 98 8 HET MSE B 142 8 HET MSE B 162 8 HET MSE B 172 8 HET MSE B 176 8 HET CL A 212 1 HET CL A 213 1 HET EDO A 214 4 HET EDO A 215 4 HET EDO A 216 4 HET EDO A 217 4 HET EDO A 218 4 HET EDO A 219 4 HET EDO B 212 4 HET EDO B 213 4 HET EDO B 214 4 HET EDO B 215 4 HET EDO B 216 4 HET EDO B 217 4 HET EDO B 218 4 HET EDO B 219 4 HETNAM MSE SELENOMETHIONINE HETNAM CL CHLORIDE ION HETNAM EDO 1,2-ETHANEDIOL HETSYN EDO ETHYLENE GLYCOL FORMUL 1 MSE 20(C5 H11 N O2 SE) FORMUL 3 CL 2(CL 1-) FORMUL 5 EDO 14(C2 H6 O2) FORMUL 19 HOH *353(H2 O) HELIX 1 1 GLY A 5 GLY A 27 1 23 HELIX 2 2 THR A 32 GLY A 41 1 10 HELIX 3 3 SER A 43 SER A 48 1 6 HELIX 4 4 THR A 53 TRP A 65 1 13 HELIX 5 5 PHE A 66 SER A 79 1 14 HELIX 6 6 PRO A 82 ASP A 105 1 24 HELIX 7 7 ASP A 105 TYR A 119 1 15 HELIX 8 8 TYR A 119 ASP A 144 1 26 HELIX 9 9 GLU A 151 CYS A 163 1 13 HELIX 10 10 ALA A 164 CYS A 167 5 4 HELIX 11 11 ALA A 168 MSE A 176 1 9 HELIX 12 12 GLU A 177 LEU A 179 5 3 HELIX 13 13 SER A 180 LEU A 195 1 16 HELIX 14 14 GLY B 5 GLY B 27 1 23 HELIX 15 15 GLY B 28 LEU B 31 5 4 HELIX 16 16 THR B 32 GLY B 41 1 10 HELIX 17 17 SER B 43 ARG B 49 1 7 HELIX 18 18 THR B 53 TRP B 65 1 13 HELIX 19 19 PHE B 66 SER B 79 1 14 HELIX 20 20 PRO B 82 ASP B 105 1 24 HELIX 21 21 ASP B 105 TYR B 119 1 15 HELIX 22 22 TYR B 119 GLY B 145 1 27 HELIX 23 23 GLU B 151 CYS B 163 1 13 HELIX 24 24 ALA B 164 CYS B 167 5 4 HELIX 25 25 ALA B 168 MSE B 176 1 9 HELIX 26 26 GLU B 177 LEU B 179 5 3 HELIX 27 27 SER B 180 LEU B 195 1 16 LINK C ALA A 10 N MSE A 11 1555 1555 1.34 LINK C MSE A 11 N ARG A 12 1555 1555 1.34 LINK C LEU A 57 N MSE A 58 1555 1555 1.33 LINK C MSE A 58 N GLU A 59 1555 1555 1.34 LINK C PRO A 68 N MSE A 69 1555 1555 1.34 LINK C MSE A 69 N VAL A 70 1555 1555 1.34 LINK C ILE A 72 N MSE A 73 1555 1555 1.33 LINK C MSE A 73 N GLU A 74 1555 1555 1.33 LINK C LYS A 86 N MSE A 87 1555 1555 1.34 LINK C MSE A 87 N TYR A 88 1555 1555 1.33 LINK C VAL A 97 N MSE A 98 1555 1555 1.33 LINK C MSE A 98 N ARG A 99 1555 1555 1.34 LINK C ALA A 141 N MSE A 142 1555 1555 1.34 LINK C MSE A 142 N SER A 143 1555 1555 1.33 LINK C GLN A 161 N MSE A 162 1555 1555 1.33 LINK C MSE A 162 N CYS A 163 1555 1555 1.34 LINK C THR A 171 N MSE A 172 1555 1555 1.33 LINK C MSE A 172 N THR A 173 1555 1555 1.33 LINK C PHE A 175 N MSE A 176 1555 1555 1.34 LINK C MSE A 176 N GLU A 177 1555 1555 1.33 LINK C ALA B 10 N MSE B 11 1555 1555 1.34 LINK C MSE B 11 N ARG B 12 1555 1555 1.34 LINK C LEU B 57 N MSE B 58 1555 1555 1.34 LINK C MSE B 58 N GLU B 59 1555 1555 1.33 LINK C PRO B 68 N MSE B 69 1555 1555 1.34 LINK C MSE B 69 N VAL B 70 1555 1555 1.34 LINK C ILE B 72 N MSE B 73 1555 1555 1.34 LINK C MSE B 73 N GLU B 74 1555 1555 1.33 LINK C LYS B 86 N MSE B 87 1555 1555 1.33 LINK C MSE B 87 N TYR B 88 1555 1555 1.34 LINK C VAL B 97 N MSE B 98 1555 1555 1.32 LINK C MSE B 98 N ARG B 99 1555 1555 1.33 LINK C ALA B 141 N MSE B 142 1555 1555 1.34 LINK C MSE B 142 N SER B 143 1555 1555 1.33 LINK C GLN B 161 N MSE B 162 1555 1555 1.33 LINK C MSE B 162 N CYS B 163 1555 1555 1.33 LINK C THR B 171 N MSE B 172 1555 1555 1.33 LINK C MSE B 172 N THR B 173 1555 1555 1.34 LINK C PHE B 175 N MSE B 176 1555 1555 1.34 LINK C MSE B 176 N GLU B 177 1555 1555 1.33 SITE 1 AC1 4 ARG A 178 SER B 157 GLN B 161 HOH B 348 SITE 1 AC2 4 SER A 157 GLN A 161 HOH A 376 ARG B 178 SITE 1 AC3 6 ASP A 153 GLU A 154 SER A 157 LYS B 183 SITE 2 AC3 6 HOH B 225 HOH B 241 SITE 1 AC4 5 GLU A 154 LYS B 183 ARG B 186 HOH B 237 SITE 2 AC4 5 HOH B 243 SITE 1 AC5 4 LYS A 183 ARG A 186 LEU B 150 GLU B 154 SITE 1 AC6 5 LEU A 77 LYS A 86 GLU A 136 GLU A 140 SITE 2 AC6 5 HOH A 231 SITE 1 AC7 6 HOH A 267 HOH A 350 VAL B 70 SER B 125 SITE 2 AC7 6 LEU B 129 HOH B 319 SITE 1 AC8 7 ARG A 124 HOH A 240 GLY B 135 GLU B 136 SITE 2 AC8 7 VAL B 152 HOH B 258 HOH B 286 SITE 1 AC9 6 VAL A 152 HOH A 333 GLU B 121 EDO B 218 SITE 2 AC9 6 HOH B 240 HOH B 294 SITE 1 BC1 6 ARG A 94 ALA A 130 CYS A 167 HOH A 358 SITE 2 BC1 6 HOH A 394 HOH A 404 SITE 1 BC2 5 LYS A 183 HOH A 406 ASP B 153 GLU B 154 SITE 2 BC2 5 SER B 157 SITE 1 BC3 4 ASP A 193 SER A 196 ARG A 200 HOH A 304 SITE 1 BC4 3 ASP B 193 ARG B 200 HOH B 298 SITE 1 BC5 2 GLY A 201 SER A 204 SITE 1 BC6 6 MSE A 142 SER A 143 HOH A 222 PHE B 120 SITE 2 BC6 6 EDO B 216 HOH B 294 SITE 1 BC7 6 SER A 125 LEU A 129 HOH A 301 HIS B 132 SITE 2 BC7 6 GLU B 136 HOH B 381 CRYST1 64.500 76.420 104.100 90.00 90.00 90.00 P 21 21 21 8 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 0.000000 0.00000 SCALE2 0.000000 0.013086 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009606 0.00000