HEADER SUGAR BINDING PROTEIN 04-SEP-09 3JQ0 TITLE CRYSTAL STRUCTURE OF SUSD SUPERFAMILY PROTEIN (YP_001299712.1) FROM TITLE 2 BACTEROIDES VULGATUS ATCC 8482 AT 1.13 A RESOLUTION COMPND MOL_ID: 1; COMPND 2 MOLECULE: SUSD SUPERFAMILY PROTEIN; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: PUTATIVE OUTER MEMBRANE PROTEIN, PROBABLY INVOLVED IN COMPND 5 NUTRIENT BINDING; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: BACTEROIDES VULGATUS ATCC 8482; SOURCE 3 ORGANISM_TAXID: 435590; SOURCE 4 STRAIN: ATCC 8482 / DSM 1447 / NCTC 11154; SOURCE 5 GENE: BVU_2431, YP_001299712.1; 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 YP_001299712.1, SUSD SUPERFAMILY PROTEIN, STRUCTURAL GENOMICS, JOINT KEYWDS 2 CENTER FOR STRUCTURAL GENOMICS, JCSG, PROTEIN STRUCTURE INITIATIVE, KEYWDS 3 PSI-2, RAGB, SUSD AND HYPOTHETICAL PROTEINS, UNKNOWN FUNCTION, SUGAR KEYWDS 4 BINDING PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR JOINT CENTER FOR STRUCTURAL GENOMICS (JCSG) REVDAT 4 24-JUL-19 3JQ0 1 REMARK LINK REVDAT 3 01-NOV-17 3JQ0 1 REMARK REVDAT 2 13-JUL-11 3JQ0 1 VERSN REVDAT 1 22-SEP-09 3JQ0 0 JRNL AUTH JOINT CENTER FOR STRUCTURAL GENOMICS (JCSG) JRNL TITL CRYSTAL STRUCTURE OF SUSD SUPERFAMILY PROTEIN JRNL TITL 2 (YP_001299712.1) FROM BACTEROIDES VULGATUS ATCC 8482 AT 1.13 JRNL TITL 3 A RESOLUTION JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.13 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0053 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) : 1.13 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 29.45 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 90.9 REMARK 3 NUMBER OF REFLECTIONS : 187080 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) : 0.118 REMARK 3 R VALUE (WORKING SET) : 0.117 REMARK 3 FREE R VALUE : 0.137 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 9433 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) : 1.13 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.16 REMARK 3 REFLECTION IN BIN (WORKING SET) : 8128 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 57.32 REMARK 3 BIN R VALUE (WORKING SET) : 0.2280 REMARK 3 BIN FREE R VALUE SET COUNT : 454 REMARK 3 BIN FREE R VALUE : 0.2290 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3866 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 48 REMARK 3 SOLVENT ATOMS : 833 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 7.47 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 13.08 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.16000 REMARK 3 B22 (A**2) : 0.16000 REMARK 3 B33 (A**2) : -0.24000 REMARK 3 B12 (A**2) : 0.08000 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): 0.027 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.027 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.016 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 0.753 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.982 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.979 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4249 ; 0.016 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 2936 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5782 ; 1.673 ; 1.954 REMARK 3 BOND ANGLES OTHERS (DEGREES): 7142 ; 1.013 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 543 ; 6.113 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 224 ;34.015 ;24.420 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 736 ;11.578 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 24 ;15.435 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 582 ; 0.112 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4812 ; 0.010 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 922 ; 0.001 ; 0.020 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): 2483 ; 1.553 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1016 ; 0.732 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 4010 ; 2.206 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1766 ; 3.213 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1740 ; 4.421 ; 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): 7185 ; 1.529 ; 3.000 REMARK 3 SPHERICITY; FREE ATOMS (A**2): 861 ; 9.239 ; 3.000 REMARK 3 SPHERICITY; BONDED ATOMS (A**2): 7061 ; 3.897 ; 3.000 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 : BABINET MODEL WITH 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: 1. HYDROGENS HAVE BEEN ADDED IN THE REMARK 3 RIDING POSITIONS. 2. A MET-INHIBITION PROTOCOL WAS USED FOR REMARK 3 SELENOMETHIONINE INCORPORATION DURING PROTEIN EXPRESSION. THE REMARK 3 OCCUPANCY OF THE SE ATOMS IN THE MSE RESIDUES WAS ADJUSTED TO REMARK 3 QUENCH THE DIFFERENCE FOURIER DENSITY. 3. GLYCEROL (GOL), REMARK 3 SULFATE (SO4), CHLORIDE (CL), AND 2-AMINO-2-HYDROXYMETHYL- REMARK 3 PROPANE-1,3-DIOL (TRIS BASE, TRS) MOLECULES FROM THE REMARK 3 CRYSTALLIZATION/CRYOPROTECTION SOLUTION ARE MODELED. 4. REMARK 3 RAMACHANDRAN OUTLIER RESIDUES 66, 69 AND 440 ARE SUPPORTED BY REMARK 3 ELECTRON DENSITY. REMARK 4 REMARK 4 3JQ0 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 10-SEP-09. REMARK 100 THE DEPOSITION ID IS D_1000055013. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 08-MAY-09 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SSRL REMARK 200 BEAMLINE : BL12-2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97936 REMARK 200 MONOCHROMATOR : DOUBLE CRYSTAL MONOCHROMATOR REMARK 200 OPTICS : FLAT MIRROR, VERTICAL AND REMARK 200 HORIZONTAL FOCUSSING MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 325 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA 3.2.5 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 187091 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.130 REMARK 200 RESOLUTION RANGE LOW (A) : 29.450 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 91.5 REMARK 200 DATA REDUNDANCY : 5.000 REMARK 200 R MERGE (I) : 0.11100 REMARK 200 R SYM (I) : 0.11100 REMARK 200 FOR THE DATA SET : 9.3000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.13 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.16 REMARK 200 COMPLETENESS FOR SHELL (%) : 58.1 REMARK 200 DATA REDUNDANCY IN SHELL : 3.60 REMARK 200 R MERGE FOR SHELL (I) : 0.58000 REMARK 200 R SYM FOR SHELL (I) : 0.58000 REMARK 200 FOR SHELL : 1.300 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: SAD REMARK 200 SOFTWARE USED: SOLVE REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 47.55 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.34 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 1.60M (NH4)2SO4, 0.1M TRIS PH 8.0, REMARK 280 NANODROP, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 65 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+1/2 REMARK 290 5555 Y,-X+Y,Z+1/6 REMARK 290 6555 X-Y,X,Z+5/6 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+1/6 REMARK 290 11555 -X+Y,Y,-Z+1/2 REMARK 290 12555 X,X-Y,-Z+5/6 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 215.97733 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 107.98867 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 161.98300 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 53.99433 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 269.97167 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 215.97733 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 107.98867 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 53.99433 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 161.98300 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 269.97167 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 300 REMARK: CRYSTAL PACKING ANALYSIS SUGGESTS THE ASSIGNMENT OF A REMARK 300 MONOMER 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: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH A 784 LIES ON A SPECIAL POSITION. 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 GLY A 33 REMARK 465 THR A 34 REMARK 465 ALA A 35 REMARK 465 TYR A 36 REMARK 465 GLY A 165 REMARK 465 GLN A 166 REMARK 465 ASN A 167 REMARK 465 LEU A 168 REMARK 465 ASP A 169 REMARK 465 LEU A 170 REMARK 465 SER A 171 REMARK 465 ASN A 172 REMARK 465 ILE A 173 REMARK 465 THR A 174 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 LYS A 38 CG CD CE NZ REMARK 470 GLU A 164 CG CD OE1 OE2 REMARK 470 LYS A 175 CG CD CE NZ REMARK 470 LYS A 272 CD CE NZ REMARK 470 LYS A 305 CE NZ REMARK 470 LYS A 518 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 OD1 ASP A 105 O HOH A 840 2.15 REMARK 500 OE2 GLU A 411 O HOH A 725 2.16 REMARK 500 OD1 ASN A 243 O HOH A 613 2.19 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 MSE A 377 CB MSE A 377 CG -0.204 REMARK 500 GLU A 432 CG GLU A 432 CD 0.128 REMARK 500 GLU A 432 CD GLU A 432 OE1 0.092 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 A 87 NE - CZ - NH2 ANGL. DEV. = -3.2 DEGREES REMARK 500 PHE A 90 CB - CG - CD1 ANGL. DEV. = 4.9 DEGREES REMARK 500 ARG A 332 NE - CZ - NH1 ANGL. DEV. = -4.2 DEGREES REMARK 500 MSE A 377 CG - SE - CE ANGL. DEV. = 14.0 DEGREES REMARK 500 ARG A 394 NE - CZ - NH1 ANGL. DEV. = 3.8 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 GLU A 66 -59.81 -132.83 REMARK 500 ALA A 69 -141.25 -88.20 REMARK 500 TYR A 202 36.33 -89.08 REMARK 500 GLU A 284 -61.77 -130.19 REMARK 500 PRO A 440 40.71 -107.57 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 TRS A 1 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 2 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 3 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 4 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 5 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 6 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 7 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 8 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 9 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 396554 RELATED DB: TARGETDB REMARK 999 REMARK 999 SEQUENCE REMARK 999 SEQUENCE THIS CONSTRUCT (RESIDUES 33-524) WAS EXPRESSED WITH A REMARK 999 PURIFICATION TAG MGSDKIHHHHHHENLYFQG. THE TAG WAS REMOVED WITH TEV REMARK 999 PROTEASE LEAVING ONLY A GLYCINE (0) FOLLOWED BY THE TARGET SEQUENCE. DBREF 3JQ0 A 33 524 UNP A6L326 A6L326_BACV8 33 524 SEQADV 3JQ0 GLY A 0 UNP A6L326 LEADER SEQUENCE SEQRES 1 A 493 GLY GLY THR ALA TYR TRP LYS ASN PRO ASP GLN PHE THR SEQRES 2 A 493 ALA PHE ASN THR GLY LEU HIS ALA LEU LEU ARG GLU LYS SEQRES 3 A 493 SER TYR ASN PHE PHE LEU LEU GLY GLU PRO ARG ALA ASP SEQRES 4 A 493 ILE TYR GLY ASP ASN PRO ILE GLY GLY GLU ALA SER GLN SEQRES 5 A 493 GLY MSE GLU ARG LEU PRO PHE ASN THR ILE ASN LYS GLU SEQRES 6 A 493 ASN VAL GLY ILE SER ASN TYR GLY ASP MSE TYR LYS ILE SEQRES 7 A 493 ILE ASN GLN ILE ASN GLN MSE ILE ALA LYS THR THR GLU SEQRES 8 A 493 THR THR ILE LEU THR GLU ALA THR GLN ASN TYR TYR LEU SEQRES 9 A 493 GLY GLU ALA TYR GLY MSE ARG ALA TYR LEU TYR PHE HIS SEQRES 10 A 493 LEU LEU ARG SER TRP GLY ASP VAL VAL LEU TYR LEU ASP SEQRES 11 A 493 TYR THR GLU GLY GLN ASN LEU ASP LEU SER ASN ILE THR SEQRES 12 A 493 LYS GLY VAL SER PRO ALA THR GLU VAL MSE GLU GLN ILE SEQRES 13 A 493 LYS LYS ASP ILE GLN ALA SER GLU ASN ALA PHE GLY SER SEQRES 14 A 493 ASP TYR SER PHE LYS LEU GLY ARG HIS PHE TRP SER ALA SEQRES 15 A 493 ALA ALA THR GLN MSE LEU LYS GLY GLU ALA TYR LEU TRP SEQRES 16 A 493 SER GLY ARG GLN MSE ASN GLY GLY ASN SER ASP TYR THR SEQRES 17 A 493 ILE ALA LYS ASN ALA PHE GLU ASN VAL LYS LYS ALA ASP SEQRES 18 A 493 VAL GLY LEU VAL THR SER SER PHE LYS ASP ILE PHE SER SEQRES 19 A 493 PHE GLU ASN LYS LYS ASN LYS GLU MSE ILE PHE THR ILE SEQRES 20 A 493 HIS ASN GLY LYS ASP GLU TYR GLU MSE TRP GLY GLY TYR SEQRES 21 A 493 TYR ARG MSE ARG LEU ILE PRO ALA GLN ASP LYS MSE VAL SEQRES 22 A 493 LYS ILE TYR CYS ASP GLU ASN GLY ASN SER PHE VAL GLY SEQRES 23 A 493 THR PRO ASP ALA GLN LEU ASN GLY LEU THR GLN LEU GLN SEQRES 24 A 493 VAL ARG ARG GLU PHE TYR PHE LYS GLY PHE ARG ASN ASN SEQRES 25 A 493 ASP THR ARG TRP THR THR SER LEU LYS ALA VAL TYR LYS SEQRES 26 A 493 LYS ASP ALA GLN GLY VAL VAL SER TYR PHE GLY PRO ILE SEQRES 27 A 493 THR TYR LYS PHE GLN GLY THR MSE LEU GLU GLY GLY SER SEQRES 28 A 493 THR ARG SER PHE LEU ASP ASP PHE PRO ILE TYR ARG TYR SEQRES 29 A 493 ALA ASP CYS LEU LEU GLN LEU ALA MSE ALA LYS VAL LEU SEQRES 30 A 493 LEU GLY GLU ASP PRO THR GLU GLU ILE ASN ALA VAL ARG SEQRES 31 A 493 GLU ARG ALA TYR GLY SER LYS TYR PHE ASN GLU HIS LYS SEQRES 32 A 493 ALA GLU ILE ALA TYR PRO ASN ASP ASN ASP PRO GLU PHE SEQRES 33 A 493 TYR THR ASP ASN LYS TRP MSE LYS PRO ASP ASN ALA GLY SEQRES 34 A 493 ALA LEU GLU ALA ILE LEU LYS GLU ARG LEU ARG GLU PHE SEQRES 35 A 493 MSE PHE GLU GLY LYS ARG TRP TYR ASP ILE ARG LEU LEU SEQRES 36 A 493 GLY TRP ASP TYR VAL HIS GLN TYR SER SER ALA GLU GLN SEQRES 37 A 493 SER ARG LEU LEU TRP PRO ILE ASP ALA GLY THR LEU THR SEQRES 38 A 493 ASN ASN SER ALA LEU LYS GLN THR PRO GLY TYR GLU MODRES 3JQ0 MSE A 85 MET SELENOMETHIONINE MODRES 3JQ0 MSE A 106 MET SELENOMETHIONINE MODRES 3JQ0 MSE A 116 MET SELENOMETHIONINE MODRES 3JQ0 MSE A 141 MET SELENOMETHIONINE MODRES 3JQ0 MSE A 184 MET SELENOMETHIONINE MODRES 3JQ0 MSE A 218 MET SELENOMETHIONINE MODRES 3JQ0 MSE A 231 MET SELENOMETHIONINE MODRES 3JQ0 MSE A 274 MET SELENOMETHIONINE MODRES 3JQ0 MSE A 287 MET SELENOMETHIONINE MODRES 3JQ0 MSE A 294 MET SELENOMETHIONINE MODRES 3JQ0 MSE A 303 MET SELENOMETHIONINE MODRES 3JQ0 MSE A 377 MET SELENOMETHIONINE MODRES 3JQ0 MSE A 404 MET SELENOMETHIONINE MODRES 3JQ0 MSE A 454 MET SELENOMETHIONINE MODRES 3JQ0 MSE A 474 MET SELENOMETHIONINE HET MSE A 85 8 HET MSE A 106 8 HET MSE A 116 8 HET MSE A 141 13 HET MSE A 184 8 HET MSE A 218 8 HET MSE A 231 13 HET MSE A 274 8 HET MSE A 287 13 HET MSE A 294 8 HET MSE A 303 8 HET MSE A 377 8 HET MSE A 404 18 HET MSE A 454 8 HET MSE A 474 8 HET TRS A 1 8 HET GOL A 2 12 HET GOL A 3 6 HET GOL A 4 6 HET GOL A 5 6 HET SO4 A 6 5 HET SO4 A 7 10 HET SO4 A 8 5 HET CL A 9 1 HETNAM MSE SELENOMETHIONINE HETNAM TRS 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL HETNAM GOL GLYCEROL HETNAM SO4 SULFATE ION HETNAM CL CHLORIDE ION HETSYN TRS TRIS BUFFER HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 1 MSE 15(C5 H11 N O2 SE) FORMUL 2 TRS C4 H12 N O3 1+ FORMUL 3 GOL 4(C3 H8 O3) FORMUL 7 SO4 3(O4 S 2-) FORMUL 10 CL CL 1- FORMUL 11 HOH *833(H2 O) HELIX 1 1 ASN A 39 LYS A 57 1 19 HELIX 2 2 LYS A 57 GLU A 66 1 10 HELIX 3 3 GLY A 84 LEU A 88 5 5 HELIX 4 4 SER A 101 GLY A 104 5 4 HELIX 5 5 ASP A 105 THR A 123 1 19 HELIX 6 6 THR A 127 GLY A 154 1 28 HELIX 7 7 PRO A 179 GLY A 199 1 21 HELIX 8 8 SER A 212 MSE A 231 1 20 HELIX 9 9 GLY A 234 LYS A 249 1 16 HELIX 10 10 SER A 259 SER A 265 1 7 HELIX 11 11 PHE A 266 LYS A 269 5 4 HELIX 12 12 GLU A 286 TYR A 291 5 6 HELIX 13 13 TYR A 292 ILE A 297 1 6 HELIX 14 14 ALA A 299 ILE A 306 1 8 HELIX 15 15 THR A 318 LEU A 323 5 6 HELIX 16 16 ARG A 333 LYS A 338 5 6 HELIX 17 17 THR A 345 SER A 350 1 6 HELIX 18 18 TYR A 395 LEU A 409 1 15 HELIX 19 19 PRO A 413 GLY A 426 1 14 HELIX 20 20 GLY A 426 HIS A 433 1 8 HELIX 21 21 HIS A 433 ALA A 438 1 6 HELIX 22 22 ASP A 444 THR A 449 1 6 HELIX 23 23 PRO A 456 ALA A 459 5 4 HELIX 24 24 GLY A 460 PHE A 473 1 14 HELIX 25 25 LYS A 478 GLY A 487 1 10 HELIX 26 26 GLY A 487 SER A 495 1 9 HELIX 27 27 GLU A 498 LEU A 502 5 5 HELIX 28 28 ASP A 507 ASN A 514 1 8 SHEET 1 A 2 TYR A 72 ASP A 74 0 SHEET 2 A 2 GLN A 330 VAL A 331 -1 O GLN A 330 N ASP A 74 SHEET 1 B 2 MSE A 274 ILE A 278 0 SHEET 2 B 2 PHE A 390 ARG A 394 -1 O PHE A 390 N ILE A 278 SHEET 1 C 2 LEU A 351 LYS A 357 0 SHEET 2 C 2 VAL A 363 THR A 370 -1 O GLY A 367 N VAL A 354 LINK C GLY A 84 N MSE A 85 1555 1555 1.34 LINK C MSE A 85 N GLU A 86 1555 1555 1.33 LINK C ASP A 105 N MSE A 106 1555 1555 1.33 LINK C MSE A 106 N TYR A 107 1555 1555 1.33 LINK C GLN A 115 N MSE A 116 1555 1555 1.34 LINK C MSE A 116 N ILE A 117 1555 1555 1.34 LINK C GLY A 140 N MSE A 141 1555 1555 1.35 LINK C MSE A 141 N ARG A 142 1555 1555 1.33 LINK C VAL A 183 N MSE A 184 1555 1555 1.33 LINK C MSE A 184 N GLU A 185 1555 1555 1.33 LINK C GLN A 217 N MSE A 218 1555 1555 1.35 LINK C MSE A 218 N LEU A 219 1555 1555 1.32 LINK C GLN A 230 N MSE A 231 1555 1555 1.33 LINK C MSE A 231 N ASN A 232 1555 1555 1.33 LINK C GLU A 273 N MSE A 274 1555 1555 1.32 LINK C MSE A 274 N ILE A 275 1555 1555 1.33 LINK C GLU A 286 N MSE A 287 1555 1555 1.33 LINK C MSE A 287 N TRP A 288 1555 1555 1.34 LINK C ARG A 293 N MSE A 294 1555 1555 1.34 LINK C MSE A 294 N ARG A 295 1555 1555 1.33 LINK C LYS A 302 N MSE A 303 1555 1555 1.33 LINK C MSE A 303 N VAL A 304 1555 1555 1.33 LINK C THR A 376 N MSE A 377 1555 1555 1.33 LINK C MSE A 377 N LEU A 378 1555 1555 1.32 LINK C ALA A 403 N MSE A 404 1555 1555 1.33 LINK C MSE A 404 N ALA A 405 1555 1555 1.34 LINK C TRP A 453 N MSE A 454 1555 1555 1.33 LINK C MSE A 454 N LYS A 455 1555 1555 1.32 LINK C PHE A 473 N MSE A 474 1555 1555 1.34 LINK C MSE A 474 N PHE A 475 1555 1555 1.35 CISPEP 1 TYR A 439 PRO A 440 0 9.69 SITE 1 AC1 9 PHE A 204 ARG A 208 ASP A 252 LYS A 270 SITE 2 AC1 9 HOH A 562 HOH A 606 HOH A 851 HOH A 957 SITE 3 AC1 9 HOH A1333 SITE 1 AC2 7 ASN A 94 LYS A 95 ARG A 501 HOH A 673 SITE 2 AC2 7 HOH A 731 HOH A 912 HOH A1220 SITE 1 AC3 11 HIS A 51 ALA A 52 ARG A 55 HIS A 209 SITE 2 AC3 11 PHE A 210 THR A 277 ILE A 278 HIS A 279 SITE 3 AC3 11 HOH A 604 HOH A 821 HOH A1117 SITE 1 AC4 7 SER A 364 TYR A 365 HOH A 713 HOH A 800 SITE 2 AC4 7 HOH A 810 HOH A1123 HOH A1173 SITE 1 AC5 6 TYR A 336 TRP A 347 HOH A 598 HOH A 686 SITE 2 AC5 6 HOH A 778 HOH A1023 SITE 1 AC6 10 GLN A 230 GLY A 487 TRP A 488 HOH A 720 SITE 2 AC6 10 HOH A 837 HOH A 845 HOH A 949 HOH A1003 SITE 3 AC6 10 HOH A1070 HOH A1216 SITE 1 AC7 9 GLY A 381 SER A 382 THR A 383 HOH A 718 SITE 2 AC7 9 HOH A 724 HOH A 735 HOH A 741 HOH A 746 SITE 3 AC7 9 HOH A 754 SITE 1 AC8 6 ARG A 341 ASN A 342 HOH A 529 HOH A 809 SITE 2 AC8 6 HOH A 868 HOH A1140 SITE 1 AC9 3 ARG A 341 ASN A 342 HOH A 868 CRYST1 75.804 75.804 323.966 90.00 90.00 120.00 P 65 2 2 12 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 0.013192 0.007616 0.000000 0.00000 SCALE2 0.000000 0.015233 0.000000 0.00000 SCALE3 0.000000 0.000000 0.003087 0.00000 MASTER 444 0 24 28 6 0 21 6 0 0 0 38 END