HEADER TRANSCRIPTION REGULATOR 26-FEB-08 3CDH TITLE CRYSTAL STRUCTURE OF THE MARR FAMILY TRANSCRIPTIONAL REGULATOR SPO1453 TITLE 2 FROM SILICIBACTER POMEROYI DSS-3 COMPND MOL_ID: 1; COMPND 2 MOLECULE: TRANSCRIPTIONAL REGULATOR, MARR FAMILY; COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SILICIBACTER POMEROYI DSS-3; SOURCE 3 ORGANISM_TAXID: 246200; SOURCE 4 STRAIN: DSS-3 / DSM 15171; SOURCE 5 ATCC: 700808; SOURCE 6 GENE: SPO1453; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 8 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 9 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 10 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 11 EXPRESSION_SYSTEM_PLASMID: PMCSG7 KEYWDS MARR, HELIX-TURN-HLEIX, TRANSCRIPTIONAL REGULATOR, STRUCTURAL KEYWDS 2 GENOMICS, PSI-2, PROTEIN STRUCTURE INITIATIVE, MIDWEST CENTER FOR KEYWDS 3 STRUCTURAL GENOMICS, MCSG, DNA-BINDING, TRANSCRIPTION REGULATION, KEYWDS 4 TRANSCRIPTION REGULATOR EXPDTA X-RAY DIFFRACTION AUTHOR Y.KIM,L.VOLKART,L.KEIGHER,A.JOACHIMIAK,MIDWEST CENTER FOR STRUCTURAL AUTHOR 2 GENOMICS (MCSG) REVDAT 3 13-JUL-11 3CDH 1 VERSN REVDAT 2 24-FEB-09 3CDH 1 VERSN REVDAT 1 18-MAR-08 3CDH 0 JRNL AUTH Y.KIM,L.VOLKART,L.KEIGHER,A.JOACHIMIAK JRNL TITL CRYSTAL STRUCTURE OF THE MARR FAMILY TRANSCRIPTIONAL JRNL TITL 2 REGULATOR SPO1453 FROM SILICIBACTER POMEROYI. JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 2.69 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0019 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) : 2.69 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 35.37 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.4 REMARK 3 NUMBER OF REFLECTIONS : 17960 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) : 0.202 REMARK 3 R VALUE (WORKING SET) : 0.200 REMARK 3 FREE R VALUE : 0.227 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 915 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) : 2.69 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.76 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1175 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 94.18 REMARK 3 BIN R VALUE (WORKING SET) : 0.3840 REMARK 3 BIN FREE R VALUE SET COUNT : 71 REMARK 3 BIN FREE R VALUE : 0.4090 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2093 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 48 REMARK 3 SOLVENT ATOMS : 113 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 55.32 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 54.70 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.69000 REMARK 3 B22 (A**2) : -0.69000 REMARK 3 B33 (A**2) : 1.03000 REMARK 3 B12 (A**2) : -0.34000 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): 0.330 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.240 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.170 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 16.098 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.944 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.924 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2419 ; 0.014 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3292 ; 1.623 ; 1.977 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 315 ; 5.213 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 117 ;33.829 ;21.026 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 438 ;21.750 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 43 ;20.544 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 377 ; 0.103 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1837 ; 0.005 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1230 ; 0.253 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1719 ; 0.311 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 158 ; 0.180 ; 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): 50 ; 0.260 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 15 ; 0.310 ; 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): 1491 ; 2.268 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2411 ; 3.919 ; 2.000 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 928 ; 3.281 ; 3.000 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 881 ; 5.421 ; 4.500 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 7 A 146 REMARK 3 ORIGIN FOR THE GROUP (A): 47.9023 15.1887 85.3880 REMARK 3 T TENSOR REMARK 3 T11: 0.0351 T22: 0.0311 REMARK 3 T33: 0.0382 T12: 0.0028 REMARK 3 T13: 0.0005 T23: 0.0011 REMARK 3 L TENSOR REMARK 3 L11: 0.0237 L22: 0.0143 REMARK 3 L33: 0.0038 L12: 0.0184 REMARK 3 L13: 0.0095 L23: 0.0073 REMARK 3 S TENSOR REMARK 3 S11: -0.0042 S12: 0.0005 S13: 0.0074 REMARK 3 S21: 0.0011 S22: 0.0017 S23: -0.0085 REMARK 3 S31: -0.0080 S32: 0.0020 S33: 0.0026 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 7 B 146 REMARK 3 ORIGIN FOR THE GROUP (A): 43.1655 15.2026 63.7939 REMARK 3 T TENSOR REMARK 3 T11: 0.0320 T22: 0.0331 REMARK 3 T33: 0.0399 T12: 0.0010 REMARK 3 T13: -0.0011 T23: -0.0003 REMARK 3 L TENSOR REMARK 3 L11: 0.0016 L22: 0.0607 REMARK 3 L33: 0.0063 L12: 0.0097 REMARK 3 L13: 0.0031 L23: 0.0196 REMARK 3 S TENSOR REMARK 3 S11: -0.0128 S12: 0.0026 S13: -0.0034 REMARK 3 S21: -0.0031 S22: 0.0009 S23: 0.0041 REMARK 3 S31: 0.0129 S32: -0.0066 S33: 0.0119 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: NULL REMARK 4 REMARK 4 3CDH COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 29-FEB-08. REMARK 100 THE RCSB ID CODE IS RCSB046641. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 21-NOV-07 REMARK 200 TEMPERATURE (KELVIN) : 100.0 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-BM REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9793 REMARK 200 MONOCHROMATOR : SI(111) CHANNEL REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : APS-1 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 18036 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.690 REMARK 200 RESOLUTION RANGE LOW (A) : 35.370 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.5 REMARK 200 DATA REDUNDANCY : 11.900 REMARK 200 R MERGE (I) : 0.11500 REMARK 200 R SYM (I) : 0.11500 REMARK 200 FOR THE DATA SET : 7.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.69 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.80 REMARK 200 COMPLETENESS FOR SHELL (%) : 94.2 REMARK 200 DATA REDUNDANCY IN SHELL : 12.60 REMARK 200 R MERGE FOR SHELL (I) : 0.83500 REMARK 200 R SYM FOR SHELL (I) : 0.83500 REMARK 200 FOR SHELL : 2.600 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, SHELXD, RESOLVE, COOT REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 72.19 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 4.42 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 2.0M AMMONIUM SULFATE, 0.1M CITRATE PH REMARK 280 5.5, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 289K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 62 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+2/3 REMARK 290 3555 -X+Y,-X,Z+1/3 REMARK 290 4555 -X,-Y,Z REMARK 290 5555 Y,-X+Y,Z+2/3 REMARK 290 6555 X-Y,X,Z+1/3 REMARK 290 7555 Y,X,-Z+2/3 REMARK 290 8555 X-Y,-Y,-Z REMARK 290 9555 -X,-X+Y,-Z+1/3 REMARK 290 10555 -Y,-X,-Z+2/3 REMARK 290 11555 -X+Y,Y,-Z REMARK 290 12555 X,X-Y,-Z+1/3 REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 93.45733 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 46.72867 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 5 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 5 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 93.45733 REMARK 290 SMTRY1 6 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 46.72867 REMARK 290 SMTRY1 7 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 7 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 93.45733 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 9 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 9 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 9 0.000000 0.000000 -1.000000 46.72867 REMARK 290 SMTRY1 10 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 10 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 10 0.000000 0.000000 -1.000000 93.45733 REMARK 290 SMTRY1 11 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 11 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 12 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 12 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 12 0.000000 0.000000 -1.000000 46.72867 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: 4800 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 14000 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -48.3 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 11520 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 26080 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -100.7 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 BIOMT1 2 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 140.18600 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 SER A -2 REMARK 465 ASN A -1 REMARK 465 ALA A 0 REMARK 465 MSE A 1 REMARK 465 ASN A 2 REMARK 465 ASP A 3 REMARK 465 THR A 4 REMARK 465 PRO A 5 REMARK 465 ASP A 6 REMARK 465 ASP A 89 REMARK 465 ALA A 90 REMARK 465 LYS A 91 REMARK 465 ASP A 92 REMARK 465 LYS A 93 REMARK 465 ARG A 94 REMARK 465 ARG A 147 REMARK 465 PRO A 148 REMARK 465 ARG A 149 REMARK 465 GLU A 150 REMARK 465 SER A 151 REMARK 465 ARG A 152 REMARK 465 SER B -2 REMARK 465 ASN B -1 REMARK 465 ALA B 0 REMARK 465 MSE B 1 REMARK 465 ASN B 2 REMARK 465 ASP B 3 REMARK 465 THR B 4 REMARK 465 PRO B 5 REMARK 465 ASP B 6 REMARK 465 LYS B 91 REMARK 465 ASP B 92 REMARK 465 LYS B 93 REMARK 465 ARG B 94 REMARK 465 ARG B 147 REMARK 465 PRO B 148 REMARK 465 ARG B 149 REMARK 465 GLU B 150 REMARK 465 SER B 151 REMARK 465 ARG B 152 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 C3 GOL B 208 O HOH B 270 1.97 REMARK 500 CB ASN B 52 O HOH B 240 2.16 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 OE2 GLU B 42 O HOH A 235 8556 2.08 REMARK 500 NH2 ARG A 116 OE1 GLU A 119 12556 2.17 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 81 NE - CZ - NH2 ANGL. DEV. = -3.3 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 GLN A 28 -74.34 -48.37 REMARK 500 GLN A 36 0.58 -65.84 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 SO4 A 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 202 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 203 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 204 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B 205 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 206 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 207 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL B 208 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL B 209 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: APC88689 RELATED DB: TARGETDB DBREF 3CDH A 1 152 UNP Q5LTG1 Q5LTG1_SILPO 1 152 DBREF 3CDH B 1 152 UNP Q5LTG1 Q5LTG1_SILPO 1 152 SEQADV 3CDH SER A -2 UNP Q5LTG1 EXPRESSION TAG SEQADV 3CDH ASN A -1 UNP Q5LTG1 EXPRESSION TAG SEQADV 3CDH ALA A 0 UNP Q5LTG1 EXPRESSION TAG SEQADV 3CDH SER B -2 UNP Q5LTG1 EXPRESSION TAG SEQADV 3CDH ASN B -1 UNP Q5LTG1 EXPRESSION TAG SEQADV 3CDH ALA B 0 UNP Q5LTG1 EXPRESSION TAG SEQRES 1 A 155 SER ASN ALA MSE ASN ASP THR PRO ASP ASP THR PHE VAL SEQRES 2 A 155 SER GLY TYR LEU LEU TYR LEU LEU ALA ALA SER SER GLU SEQRES 3 A 155 GLU ALA SER ALA GLN PHE HIS ASP HIS ILE ARG ALA GLN SEQRES 4 A 155 GLY LEU ARG VAL PRO GLU TRP ARG VAL LEU ALA CYS LEU SEQRES 5 A 155 VAL ASP ASN ASP ALA MSE MSE ILE THR ARG LEU ALA LYS SEQRES 6 A 155 LEU SER LEU MSE GLU GLN SER ARG MSE THR ARG ILE VAL SEQRES 7 A 155 ASP GLN MSE ASP ALA ARG GLY LEU VAL THR ARG VAL ALA SEQRES 8 A 155 ASP ALA LYS ASP LYS ARG ARG VAL ARG VAL ARG LEU THR SEQRES 9 A 155 ASP ASP GLY ARG ALA LEU ALA GLU SER LEU VAL ALA SER SEQRES 10 A 155 ALA ARG ALA HIS GLU THR ARG LEU LEU SER ALA LEU ALA SEQRES 11 A 155 ASP THR ASP ALA ALA ARG ILE LYS GLY VAL LEU ARG THR SEQRES 12 A 155 LEU LEU ASP VAL LEU ASP ARG PRO ARG GLU SER ARG SEQRES 1 B 155 SER ASN ALA MSE ASN ASP THR PRO ASP ASP THR PHE VAL SEQRES 2 B 155 SER GLY TYR LEU LEU TYR LEU LEU ALA ALA SER SER GLU SEQRES 3 B 155 GLU ALA SER ALA GLN PHE HIS ASP HIS ILE ARG ALA GLN SEQRES 4 B 155 GLY LEU ARG VAL PRO GLU TRP ARG VAL LEU ALA CYS LEU SEQRES 5 B 155 VAL ASP ASN ASP ALA MSE MSE ILE THR ARG LEU ALA LYS SEQRES 6 B 155 LEU SER LEU MSE GLU GLN SER ARG MSE THR ARG ILE VAL SEQRES 7 B 155 ASP GLN MSE ASP ALA ARG GLY LEU VAL THR ARG VAL ALA SEQRES 8 B 155 ASP ALA LYS ASP LYS ARG ARG VAL ARG VAL ARG LEU THR SEQRES 9 B 155 ASP ASP GLY ARG ALA LEU ALA GLU SER LEU VAL ALA SER SEQRES 10 B 155 ALA ARG ALA HIS GLU THR ARG LEU LEU SER ALA LEU ALA SEQRES 11 B 155 ASP THR ASP ALA ALA ARG ILE LYS GLY VAL LEU ARG THR SEQRES 12 B 155 LEU LEU ASP VAL LEU ASP ARG PRO ARG GLU SER ARG MODRES 3CDH MSE A 55 MET SELENOMETHIONINE MODRES 3CDH MSE A 56 MET SELENOMETHIONINE MODRES 3CDH MSE A 66 MET SELENOMETHIONINE MODRES 3CDH MSE A 71 MET SELENOMETHIONINE MODRES 3CDH MSE A 78 MET SELENOMETHIONINE MODRES 3CDH MSE B 55 MET SELENOMETHIONINE MODRES 3CDH MSE B 56 MET SELENOMETHIONINE MODRES 3CDH MSE B 66 MET SELENOMETHIONINE MODRES 3CDH MSE B 71 MET SELENOMETHIONINE MODRES 3CDH MSE B 78 MET SELENOMETHIONINE HET MSE A 55 8 HET MSE A 56 8 HET MSE A 66 8 HET MSE A 71 8 HET MSE A 78 8 HET MSE B 55 8 HET MSE B 56 8 HET MSE B 66 8 HET MSE B 71 8 HET MSE B 78 8 HET SO4 A 201 5 HET SO4 A 202 5 HET SO4 A 203 5 HET SO4 A 204 5 HET SO4 B 205 5 HET SO4 A 206 5 HET GOL A 207 6 HET GOL B 208 6 HET GOL B 209 6 HETNAM MSE SELENOMETHIONINE HETNAM SO4 SULFATE ION HETNAM GOL GLYCEROL HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 1 MSE 10(C5 H11 N O2 SE) FORMUL 3 SO4 6(O4 S 2-) FORMUL 9 GOL 3(C3 H8 O3) FORMUL 12 HOH *113(H2 O) HELIX 1 1 THR A 8 TYR A 13 1 6 HELIX 2 2 TYR A 13 GLN A 36 1 24 HELIX 3 3 ARG A 39 VAL A 50 1 12 HELIX 4 4 MSE A 56 SER A 64 1 9 HELIX 5 5 GLU A 67 ARG A 81 1 15 HELIX 6 6 THR A 101 LEU A 126 1 26 HELIX 7 7 THR A 129 ALA A 132 5 4 HELIX 8 8 ARG A 133 LEU A 145 1 13 HELIX 9 9 THR B 8 TYR B 13 1 6 HELIX 10 10 TYR B 13 GLN B 36 1 24 HELIX 11 11 ARG B 39 VAL B 50 1 12 HELIX 12 12 ILE B 57 LEU B 65 1 9 HELIX 13 13 GLU B 67 ARG B 81 1 15 HELIX 14 14 THR B 101 ALA B 127 1 27 HELIX 15 15 THR B 129 ALA B 132 5 4 HELIX 16 16 ARG B 133 LEU B 145 1 13 SHEET 1 A 2 VAL A 84 ARG A 86 0 SHEET 2 A 2 VAL A 98 LEU A 100 -1 O ARG A 99 N THR A 85 SHEET 1 B 3 MSE B 55 MSE B 56 0 SHEET 2 B 3 ARG B 97 LEU B 100 -1 O VAL B 98 N MSE B 55 SHEET 3 B 3 VAL B 84 ARG B 86 -1 N THR B 85 O ARG B 99 LINK C ALA A 54 N MSE A 55 1555 1555 1.32 LINK C MSE A 55 N MSE A 56 1555 1555 1.33 LINK C MSE A 56 N ILE A 57 1555 1555 1.34 LINK C LEU A 65 N MSE A 66 1555 1555 1.33 LINK C MSE A 66 N GLU A 67 1555 1555 1.31 LINK C AARG A 70 N MSE A 71 1555 1555 1.34 LINK C BARG A 70 N MSE A 71 1555 1555 1.34 LINK C MSE A 71 N ATHR A 72 1555 1555 1.33 LINK C MSE A 71 N BTHR A 72 1555 1555 1.34 LINK C GLN A 77 N MSE A 78 1555 1555 1.33 LINK C MSE A 78 N ASP A 79 1555 1555 1.33 LINK C ALA B 54 N MSE B 55 1555 1555 1.33 LINK C MSE B 55 N MSE B 56 1555 1555 1.33 LINK C MSE B 56 N ILE B 57 1555 1555 1.32 LINK C LEU B 65 N MSE B 66 1555 1555 1.33 LINK C MSE B 66 N GLU B 67 1555 1555 1.32 LINK C ARG B 70 N MSE B 71 1555 1555 1.33 LINK C MSE B 71 N THR B 72 1555 1555 1.31 LINK C GLN B 77 N MSE B 78 1555 1555 1.33 LINK C MSE B 78 N ASP B 79 1555 1555 1.32 SITE 1 AC1 2 ARG A 39 ARG B 73 SITE 1 AC2 3 ARG A 73 GLN A 77 GLN B 77 SITE 1 AC3 3 ARG A 86 ALA A 88 ARG A 99 SITE 1 AC4 3 ARG A 99 THR A 101 ASP A 102 SITE 1 AC5 3 ALA B 54 ARG B 59 ARG B 97 SITE 1 AC6 2 ARG A 59 ARG A 97 SITE 1 AC7 3 ARG A 44 LEU A 63 TYR B 16 SITE 1 AC8 3 TYR A 16 ARG B 44 LEU B 63 SITE 1 AC9 3 ARG B 86 ALA B 88 ARG B 99 CRYST1 124.140 124.140 140.186 90.00 90.00 120.00 P 62 2 2 24 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 0.008055 0.004651 0.000000 0.00000 SCALE2 0.000000 0.009302 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007133 0.00000