HEADER HYDROLASE 25-JUN-09 3I10 TITLE CRYSTAL STRUCTURE OF PUTATIVE GLYCEROPHOSPHORYL DIESTER TITLE 2 PHOSPHODIESTERASE (NP_812074.1) FROM BACTEROIDES THETAIOTAOMICRON TITLE 3 VPI-5482 AT 1.35 A RESOLUTION COMPND MOL_ID: 1; COMPND 2 MOLECULE: PUTATIVE GLYCEROPHOSPHORYL DIESTER PHOSPHODIESTERASE; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: BACTEROIDES THETAIOTAOMICRON VPI-5482; SOURCE 3 ORGANISM_TAXID: 226186; SOURCE 4 GENE: BT_3162, NP_812074.1; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: HK100; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: SPEEDET KEYWDS NP_812074.1, PUTATIVE GLYCEROPHOSPHORYL DIESTER PHOSPHODIESTERASE, KEYWDS 2 STRUCTURAL GENOMICS, JOINT CENTER FOR STRUCTURAL GENOMICS, JCSG, KEYWDS 3 PROTEIN STRUCTURE INITIATIVE, PSI-2, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR JOINT CENTER FOR STRUCTURAL GENOMICS (JCSG) REVDAT 6 01-FEB-23 3I10 1 REMARK SEQADV REVDAT 5 24-JUL-19 3I10 1 REMARK LINK REVDAT 4 01-NOV-17 3I10 1 REMARK REVDAT 3 13-JUL-11 3I10 1 VERSN REVDAT 2 24-NOV-09 3I10 1 TITLE REVDAT 1 21-JUL-09 3I10 0 JRNL AUTH JOINT CENTER FOR STRUCTURAL GENOMICS (JCSG) JRNL TITL CRYSTAL STRUCTURE OF PUTATIVE GLYCEROPHOSPHORYL DIESTER JRNL TITL 2 PHOSPHODIESTERASE (NP_812074.1) FROM BACTEROIDES JRNL TITL 3 THETAIOTAOMICRON VPI-5482 AT 1.35 A RESOLUTION JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.35 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) : 1.35 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 29.05 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 61269 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) : 0.151 REMARK 3 R VALUE (WORKING SET) : 0.150 REMARK 3 FREE R VALUE : 0.172 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 3109 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) : 1.35 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.39 REMARK 3 REFLECTION IN BIN (WORKING SET) : 4253 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.80 REMARK 3 BIN R VALUE (WORKING SET) : 0.2640 REMARK 3 BIN FREE R VALUE SET COUNT : 242 REMARK 3 BIN FREE R VALUE : 0.2620 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2218 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 87 REMARK 3 SOLVENT ATOMS : 356 REMARK 3 REMARK 3 B VALUES. REMARK 3 B VALUE TYPE : LIKELY RESIDUAL REMARK 3 FROM WILSON PLOT (A**2) : 10.64 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 10.69 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.09000 REMARK 3 B22 (A**2) : 0.17000 REMARK 3 B33 (A**2) : -0.08000 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): 0.051 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.053 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.032 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 1.738 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.972 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.962 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2565 ; 0.017 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 1813 ; 0.003 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3488 ; 1.710 ; 1.994 REMARK 3 BOND ANGLES OTHERS (DEGREES): 4516 ; 1.199 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 346 ; 4.476 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 112 ;34.468 ;26.250 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 503 ;10.233 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 7 ;18.009 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 398 ; 0.098 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2797 ; 0.008 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 445 ; 0.002 ; 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): 1509 ; 0.809 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 598 ; 0.236 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2492 ; 1.386 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1056 ; 2.287 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 961 ; 3.598 ; 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 : 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 0 A 169 REMARK 3 ORIGIN FOR THE GROUP (A): 3.4030 16.0180 11.1080 REMARK 3 T TENSOR REMARK 3 T11: 0.0233 T22: 0.0184 REMARK 3 T33: 0.0068 T12: -0.0037 REMARK 3 T13: -0.0026 T23: -0.0027 REMARK 3 L TENSOR REMARK 3 L11: 0.3700 L22: 0.3634 REMARK 3 L33: 0.7100 L12: 0.1386 REMARK 3 L13: 0.2192 L23: 0.1772 REMARK 3 S TENSOR REMARK 3 S11: 0.0024 S12: -0.0053 S13: 0.0111 REMARK 3 S21: 0.0107 S22: -0.0123 S23: 0.0321 REMARK 3 S31: 0.0368 S32: -0.0480 S33: 0.0098 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 : A 170 A 301 REMARK 3 ORIGIN FOR THE GROUP (A): 11.1900 32.1640 21.0390 REMARK 3 T TENSOR REMARK 3 T11: 0.0320 T22: 0.0267 REMARK 3 T33: 0.0163 T12: -0.0077 REMARK 3 T13: 0.0012 T23: 0.0013 REMARK 3 L TENSOR REMARK 3 L11: 0.9101 L22: 1.0082 REMARK 3 L33: 0.4214 L12: -0.0711 REMARK 3 L13: -0.1399 L23: 0.1808 REMARK 3 S TENSOR REMARK 3 S11: 0.0310 S12: -0.0092 S13: 0.0735 REMARK 3 S21: 0.0341 S22: -0.0125 S23: 0.0690 REMARK 3 S31: -0.0584 S32: 0.0396 S33: -0.0185 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: 1. HYDROGENS HAVE BEEN ADDED IN THE REMARK 3 RIDING POSITIONS. 2. ATOM RECORD CONTAINS RESIDUAL B FACTORS REMARK 3 ONLY. 3. A MET-INHIBITION PROTOCOL WAS USED FOR SELENOMETHIONINE REMARK 3 INCORPORATION DURING PROTEIN EXPRESSION. THE OCCUPANCY OF THE SE REMARK 3 ATOMS IN THE MSE RESIDUES WAS REDUCED TO 0.75 TO ACCOUNT FOR THE REMARK 3 REDUCED SCATTERING POWER DUE TO PARTIAL S-MET INCORPORATION. 4. REMARK 3 ACETATE (ACT), ETHYLENE GLYCOL (EDO), AND POLYETHYLENE GLYCOL REMARK 3 (PEG) FROM THE CRYSTALLIZATION/CRYOPROTECTANT SOLUTIONS HAVE REMARK 3 BEEN MODELED INTO THE SOLVENT STRUCTURE. 5. TLS GROUPS WERE REMARK 3 ASSIGNED WITH THE AID OF THE TLSMD SERVER. REMARK 4 REMARK 4 3I10 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 26-JUN-09. REMARK 100 THE DEPOSITION ID IS D_1000053828. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 27-MAR-09 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 : 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) : 0.91837,0.97993,0.97920 REMARK 200 MONOCHROMATOR : SINGLE CRYSTAL SI(111) BENT REMARK 200 MONOCHROMATOR (HORIZONTAL REMARK 200 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 : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA 3.2.5 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 61313 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.350 REMARK 200 RESOLUTION RANGE LOW (A) : 29.050 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 3.600 REMARK 200 R MERGE (I) : 0.08500 REMARK 200 R SYM (I) : 0.08500 REMARK 200 FOR THE DATA SET : 9.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.35 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.39 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 3.10 REMARK 200 R MERGE FOR SHELL (I) : 0.59000 REMARK 200 R SYM FOR SHELL (I) : 0.59000 REMARK 200 FOR SHELL : 1.900 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 (%): 43.53 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.18 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.2000M NAOAC, 30.0000% PEG-8000, 0.1M REMARK 280 CACODYLATE PH 6.5, NANODROP, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 2 2 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -X,Y,-Z+1/2 REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z REMARK 290 6555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 7555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 8555 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 0.00000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 66.40000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 66.40000 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 1.000000 0.000000 0.000000 27.11150 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 38.48900 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 27.11150 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 38.48900 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 66.40000 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 27.11150 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 38.48900 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 66.40000 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 27.11150 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 38.48900 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: 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 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 68 CE NZ REMARK 470 LYS A 201 CG CD CE NZ REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 NZ LYS A 116 O HOH A 516 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 ASP A 265 CB - CG - OD1 ANGL. DEV. = 5.5 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 MSE A 87 130.74 -174.40 REMARK 500 MSE A 87 131.94 -175.15 REMARK 500 PHE A 183 33.52 -140.73 REMARK 500 ALA A 254 50.35 -149.65 REMARK 500 SER A 269 -75.30 -108.98 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 ACT A 1 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ACT A 2 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 3 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 4 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 5 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 6 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 7 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 8 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 9 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 10 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 11 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 12 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 13 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 14 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 15 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 16 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 17 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 18 REMARK 800 REMARK 800 SITE_IDENTIFIER: CC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 19 REMARK 800 REMARK 800 SITE_IDENTIFIER: CC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 20 REMARK 800 REMARK 800 SITE_IDENTIFIER: CC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PEG A 21 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 396197 RELATED DB: TARGETDB REMARK 999 REMARK 999 SEQUENCE REMARK 999 SEQUENCE THIS CONSTRUCT (RESIDUES 25-301) 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 3I10 A 25 301 UNP Q8A2Z3 Q8A2Z3_BACTN 25 301 SEQADV 3I10 GLY A 0 UNP Q8A2Z3 EXPRESSION TAG SEQRES 1 A 278 GLY HIS VAL GLU THR ILE LYS ASN THR PHE LEU ASN PRO SEQRES 2 A 278 LYS SER ASN LYS VAL LEU VAL VAL ALA HIS ARG GLY ASN SEQRES 3 A 278 TRP ARG SER ALA PRO GLU ASN SER THR ALA ALA ILE ASP SEQRES 4 A 278 SER ALA ILE ALA MSE LYS VAL ASP ILE VAL GLU ILE ASP SEQRES 5 A 278 ILE GLN LYS THR LYS ASP GLY GLN LEU ILE LEU MSE HIS SEQRES 6 A 278 ASP ASN THR LEU ASP ARG THR THR THR GLY LYS GLY GLU SEQRES 7 A 278 ILE LYS ASN TRP THR LEU ALA ASP ILE LYS LYS LEU LYS SEQRES 8 A 278 LEU LYS ASP LYS ASP GLY LYS VAL THR ASN TYR VAL VAL SEQRES 9 A 278 PRO THR LEU GLU GLU ALA LEU LEU THR ALA LYS GLY LYS SEQRES 10 A 278 ILE MSE VAL ASN LEU ASP LYS ALA TYR ASP ILE PHE ASP SEQRES 11 A 278 ASP VAL TYR ALA ILE LEU GLU LYS THR GLU THR GLN ASN SEQRES 12 A 278 GLN VAL ILE MSE LYS GLY GLY GLN PRO ILE GLU THR VAL SEQRES 13 A 278 LYS ARG GLU PHE GLY SER TYR LEU ASP LYS VAL LEU TYR SEQRES 14 A 278 MSE PRO VAL ILE ASP LEU GLY ASN LYS GLU ALA GLU LYS SEQRES 15 A 278 ILE ILE THR ASP TYR LEU LYS GLU LEU ARG PRO ALA ALA SEQRES 16 A 278 PHE GLU ILE ILE TYR SER ASP PRO LYS ASN PRO LEU PRO SEQRES 17 A 278 PRO LYS ILE LYS GLN LEU LEU PHE LYS LYS SER LEU ILE SEQRES 18 A 278 TRP TYR ASN THR LEU TRP GLY SER LEU ALA GLY ASN HIS SEQRES 19 A 278 ASP ASP ASN LEU ALA LEU THR ASP PRO GLU LYS SER TYR SEQRES 20 A 278 GLY TYR LEU ILE GLU GLN LEU GLY ALA ARG ILE LEU GLN SEQRES 21 A 278 THR ASP GLN PRO ALA TYR LEU LEU ASP TYR LEU ARG LYS SEQRES 22 A 278 LYS GLY TRP HIS ASN MODRES 3I10 MSE A 67 MET SELENOMETHIONINE MODRES 3I10 MSE A 87 MET SELENOMETHIONINE MODRES 3I10 MSE A 142 MET SELENOMETHIONINE MODRES 3I10 MSE A 170 MET SELENOMETHIONINE MODRES 3I10 MSE A 193 MET SELENOMETHIONINE HET MSE A 67 18 HET MSE A 87 13 HET MSE A 142 8 HET MSE A 170 8 HET MSE A 193 8 HET ACT A 1 4 HET ACT A 2 4 HET EDO A 3 4 HET EDO A 4 4 HET EDO A 5 4 HET EDO A 6 4 HET EDO A 7 4 HET EDO A 8 4 HET EDO A 9 4 HET EDO A 10 4 HET EDO A 11 4 HET EDO A 12 4 HET EDO A 13 4 HET EDO A 14 4 HET EDO A 15 4 HET EDO A 16 4 HET EDO A 17 4 HET EDO A 18 4 HET EDO A 19 4 HET EDO A 20 4 HET PEG A 21 7 HETNAM MSE SELENOMETHIONINE HETNAM ACT ACETATE ION HETNAM EDO 1,2-ETHANEDIOL HETNAM PEG DI(HYDROXYETHYL)ETHER HETSYN EDO ETHYLENE GLYCOL FORMUL 1 MSE 5(C5 H11 N O2 SE) FORMUL 2 ACT 2(C2 H3 O2 1-) FORMUL 4 EDO 18(C2 H6 O2) FORMUL 22 PEG C4 H10 O3 FORMUL 23 HOH *356(H2 O) HELIX 1 1 GLY A 0 LEU A 34 1 11 HELIX 2 2 SER A 57 MSE A 67 1 11 HELIX 3 3 GLU A 101 TRP A 105 5 5 HELIX 4 4 THR A 106 LYS A 111 1 6 HELIX 5 5 THR A 129 LYS A 138 1 10 HELIX 6 6 ALA A 148 ASP A 150 5 3 HELIX 7 7 ILE A 151 GLU A 163 1 13 HELIX 8 8 THR A 164 ASN A 166 5 3 HELIX 9 9 PRO A 175 GLY A 184 1 10 HELIX 10 10 SER A 185 LEU A 187 5 3 HELIX 11 11 GLU A 202 LEU A 214 1 13 HELIX 12 12 LEU A 230 PHE A 239 1 10 HELIX 13 13 TRP A 250 ALA A 254 5 5 HELIX 14 14 ASP A 258 ASP A 265 1 8 HELIX 15 15 ASP A 265 GLN A 276 1 12 HELIX 16 16 GLN A 286 LYS A 297 1 12 SHEET 1 A10 LEU A 84 LEU A 86 0 SHEET 2 A10 ILE A 71 LYS A 78 -1 N GLN A 77 O ILE A 85 SHEET 3 A10 MSE A 142 ASP A 146 1 O ASN A 144 N VAL A 72 SHEET 4 A10 VAL A 168 GLY A 172 1 O ILE A 169 N VAL A 143 SHEET 5 A10 LEU A 191 ASP A 197 1 O LEU A 191 N MSE A 170 SHEET 6 A10 ALA A 218 ILE A 222 1 O GLU A 220 N PRO A 194 SHEET 7 A10 LEU A 243 ASN A 247 1 O TRP A 245 N PHE A 219 SHEET 8 A10 ALA A 279 THR A 284 1 O ARG A 280 N ILE A 244 SHEET 9 A10 LEU A 42 HIS A 46 1 N VAL A 44 O LEU A 282 SHEET 10 A10 ILE A 71 LYS A 78 1 O ILE A 71 N ALA A 45 LINK C ALA A 66 N MSE A 67 1555 1555 1.33 LINK C MSE A 67 N LYS A 68 1555 1555 1.32 LINK C LEU A 86 N MSE A 87 1555 1555 1.31 LINK C MSE A 87 N HIS A 88 1555 1555 1.33 LINK C ILE A 141 N MSE A 142 1555 1555 1.34 LINK C MSE A 142 N VAL A 143 1555 1555 1.32 LINK C ILE A 169 N MSE A 170 1555 1555 1.33 LINK C MSE A 170 N LYS A 171 1555 1555 1.33 LINK C TYR A 192 N MSE A 193 1555 1555 1.33 LINK C MSE A 193 N PRO A 194 1555 1555 1.33 SITE 1 AC1 7 ARG A 51 SER A 52 ALA A 53 ASP A 117 SITE 2 AC1 7 LYS A 118 HOH A 402 HOH A 524 SITE 1 AC2 3 THR A 123 ASN A 124 TYR A 125 SITE 1 AC3 4 EDO A 5 THR A 58 HOH A 382 HOH A 421 SITE 1 AC4 6 LYS A 161 LEU A 198 PRO A 229 HOH A 318 SITE 2 AC4 6 HOH A 438 HOH A 574 SITE 1 AC5 5 EDO A 3 GLU A 132 THR A 136 ASP A 225 SITE 2 AC5 5 HOH A 479 SITE 1 AC6 7 LEU A 42 ASP A 70 HIS A 300 ASN A 301 SITE 2 AC6 7 HOH A 341 HOH A 455 HOH A 494 SITE 1 AC7 6 EDO A 16 TYR A 289 ASP A 292 TYR A 293 SITE 2 AC7 6 LYS A 296 HOH A 583 SITE 1 AC8 4 GLY A 173 VAL A 195 ASP A 197 HOH A 572 SITE 1 AC9 5 ASN A 39 ARG A 280 TRP A 299 HOH A 303 SITE 2 AC9 5 HOH A 613 SITE 1 BC1 7 EDO A 11 ARG A 47 GLU A 55 LYS A 80 SITE 2 BC1 7 ARG A 94 HOH A 468 HOH A 490 SITE 1 BC2 8 EDO A 10 HOH A 22 PRO A 54 GLU A 55 SITE 2 BC2 8 THR A 95 LYS A 116 ASP A 117 LYS A 118 SITE 1 BC3 3 GLY A 255 HIS A 257 HOH A 495 SITE 1 BC4 5 PRO A 36 LYS A 37 LEU A 191 HOH A 503 SITE 2 BC4 5 HOH A 592 SITE 1 BC5 9 PRO A 36 LYS A 37 SER A 38 PHE A 239 SITE 2 BC5 9 LYS A 240 ARG A 280 HOH A 358 HOH A 440 SITE 3 BC5 9 HOH A 533 SITE 1 BC6 9 LYS A 99 GLY A 100 TRP A 105 ASN A 260 SITE 2 BC6 9 LEU A 263 THR A 264 HOH A 385 HOH A 493 SITE 3 BC6 9 HOH A 612 SITE 1 BC7 3 EDO A 7 LYS A 205 TYR A 289 SITE 1 BC8 6 ASP A 197 ILE A 222 SER A 224 SER A 252 SITE 2 BC8 6 HOH A 373 HOH A 513 SITE 1 BC9 5 LYS A 30 ASN A 166 LEU A 191 HOH A 372 SITE 2 BC9 5 HOH A 410 SITE 1 CC1 5 GLN A 77 LYS A 78 LYS A 103 HOH A 474 SITE 2 CC1 5 HOH A 593 SITE 1 CC2 3 ASN A 90 THR A 91 HOH A 492 SITE 1 CC3 7 LYS A 171 GLU A 220 ASN A 247 HOH A 353 SITE 2 CC3 7 HOH A 406 HOH A 508 HOH A 555 CRYST1 54.223 76.978 132.800 90.00 90.00 90.00 C 2 2 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 0.018442 0.000000 0.000000 0.00000 SCALE2 0.000000 0.012991 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007530 0.00000