HEADER HYDROLASE 29-MAR-10 3MCW TITLE CRYSTAL STRUCTURE OF AN A PUTATIVE HYDROLASE OF THE ISOCHORISMATASE TITLE 2 FAMILY (CV_1320) FROM CHROMOBACTERIUM VIOLACEUM ATCC 12472 AT 1.06 A TITLE 3 RESOLUTION COMPND MOL_ID: 1; COMPND 2 MOLECULE: PUTATIVE HYDROLASE; COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: CHROMOBACTERIUM VIOLACEUM; SOURCE 3 ORGANISM_COMMON: TBD; SOURCE 4 ORGANISM_TAXID: 243365; SOURCE 5 STRAIN: ATCC 12472; SOURCE 6 GENE: CV_1320; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 9 EXPRESSION_SYSTEM_STRAIN: HK100; SOURCE 10 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 11 EXPRESSION_SYSTEM_PLASMID: SPEEDET KEYWDS ISOCHORISMATASE FAMILY, STRUCTURAL GENOMICS, JOINT CENTER FOR KEYWDS 2 STRUCTURAL GENOMICS, JCSG, PROTEIN STRUCTURE INITIATIVE, PSI-2, KEYWDS 3 HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR JOINT CENTER FOR STRUCTURAL GENOMICS,JOINT CENTER FOR STRUCTURAL AUTHOR 2 GENOMICS (JCSG) REVDAT 4 01-FEB-23 3MCW 1 REMARK SEQADV REVDAT 3 17-JUL-19 3MCW 1 REMARK LINK REVDAT 2 08-NOV-17 3MCW 1 REMARK REVDAT 1 23-JUN-10 3MCW 0 JRNL AUTH JOINT CENTER FOR STRUCTURAL GENOMICS (JCSG) JRNL TITL CRYSTAL STRUCTURE OF AN A PUTATIVE HYDROLASE OF THE JRNL TITL 2 ISOCHORISMATASE FAMILY (CV_1320) FROM CHROMOBACTERIUM JRNL TITL 3 VIOLACEUM ATCC 12472 AT 1.06 A RESOLUTION JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.06 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.6.0059 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) : 1.06 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 35.06 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 175945 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) : 0.132 REMARK 3 R VALUE (WORKING SET) : 0.131 REMARK 3 FREE R VALUE : 0.151 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 8797 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) : 1.06 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.09 REMARK 3 REFLECTION IN BIN (WORKING SET) : 12327 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.85 REMARK 3 BIN R VALUE (WORKING SET) : 0.2380 REMARK 3 BIN FREE R VALUE SET COUNT : 655 REMARK 3 BIN FREE R VALUE : 0.2560 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2894 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 34 REMARK 3 SOLVENT ATOMS : 477 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 6.64 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 12.96 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.98000 REMARK 3 B22 (A**2) : -0.51000 REMARK 3 B33 (A**2) : -0.14000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.73000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.024 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.024 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.017 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 0.763 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.979 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.974 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3249 ; 0.014 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 2219 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4467 ; 1.675 ; 1.963 REMARK 3 BOND ANGLES OTHERS (DEGREES): 5459 ; 0.982 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 469 ; 8.338 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 139 ;38.194 ;23.957 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 525 ;12.642 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 24 ;17.156 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 496 ; 0.098 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3772 ; 0.010 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 644 ; 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): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL 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): 18115 ; 6.157 ; 3.000 REMARK 3 SPHERICITY; FREE ATOMS (A**2): 553 ; 9.032 ; 4.000 REMARK 3 SPHERICITY; BONDED ATOMS (A**2): 5366 ; 6.395 ; 4.000 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 : 1.20 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 REDUCED TO REMARK 3 0.75 FOR THE REDUCED SCATTERING POWER DUE TO PARTIAL S-MET REMARK 3 INCORPORATION. 3. ANOMALOUS DIFFERENCE FOURIERS AND PRESENCE OF REMARK 3 AMMONIUM IODIDE (NH4I) IN THE CRYSTALLIZATION SOLUITION SUPPORT REMARK 3 THE MODELING OF IOD IONS. 4. ETHYLENE GLYCOL (EDO) MOLECULES REMARK 3 FROM THE CRYOPROTECTION SOLUTION ARE MODELED. 5. DENSITY AROUND REMARK 3 RESIDUES 62-65 IN CHAIN A IS POOR AND DISORDERED. 6. CISPEPTIDES REMARK 3 120-121 IN BOTH CHAINS ARE WELL SUPPORETED BY DENSITY. REMARK 4 REMARK 4 3MCW COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 06-APR-10. REMARK 100 THE DEPOSITION ID IS D_1000058391. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 03-DEC-09 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.2 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) : 0.91837,0.97939,0.97910 REMARK 200 MONOCHROMATOR : SINGLE CRYSTAL SI(111) BENT REMARK 200 MONOCHROMATOR (HO RIZONTAL 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 : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 175951 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.060 REMARK 200 RESOLUTION RANGE LOW (A) : 35.062 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : 0.07600 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 10.1800 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.06 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.10 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.6 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.59200 REMARK 200 R SYM FOR SHELL (I) : NULL 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 (%): 46.82 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.31 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.2000M NH4I, 20.0000% PEG-3350, NO REMARK 280 BUFFER PH 6.2, VAPOR DIFFUSION,SITTING DROP,NANODROP, REMARK 280 TEMPERATURE 277K, VAPOR DIFFUSION, SITTING DROP REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y,-Z REMARK 290 3555 X+1/2,Y+1/2,Z 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 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 3 1.000000 0.000000 0.000000 46.34850 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 30.42500 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 46.34850 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 30.42500 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/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 DIMER REMARK 300 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: 5040 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 16630 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -1.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 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 PRO A 2 REMARK 465 GLY B 0 REMARK 465 ALA B 194 REMARK 465 GLY B 195 REMARK 465 ALA B 196 REMARK 465 ALA B 197 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 ARG A 6 CZ NH1 NH2 REMARK 470 GLN A 38 CD OE1 NE2 REMARK 470 GLU A 63 CG CD OE1 OE2 REMARK 470 ASN A 65 CG OD1 ND2 REMARK 470 ARG A 69 CG CD NE CZ NH1 NH2 REMARK 470 ARG A 158 CD NE CZ NH1 NH2 REMARK 470 ARG B 6 CD NE CZ NH1 NH2 REMARK 470 GLU B 63 CD OE1 OE2 REMARK 470 ARG B 158 CD NE CZ NH1 NH2 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 O HOH A 351 O HOH B 310 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 MSE A 168 CG - SE - CE ANGL. DEV. = 25.7 DEGREES REMARK 500 ARG B 108 NE - CZ - NH2 ANGL. DEV. = -3.2 DEGREES REMARK 500 ARG B 159 NE - CZ - NH1 ANGL. DEV. = 7.1 DEGREES REMARK 500 ARG B 159 NE - CZ - NH2 ANGL. DEV. = -3.1 DEGREES REMARK 500 MSE B 168 CG - SE - CE ANGL. DEV. = 19.6 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 LYS A 11 49.78 -140.31 REMARK 500 ASN A 124 -98.93 -112.05 REMARK 500 ASN B 124 -97.57 -110.10 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 GLY B 29 PRO B 30 51.37 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: MAIN CHAIN PLANARITY REMARK 500 REMARK 500 THE FOLLOWING RESIDUES HAVE A PSEUDO PLANARITY REMARK 500 TORSION ANGLE, C(I) - CA(I) - N(I+1) - O(I), GREATER REMARK 500 10.0 DEGREES. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 500 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 500 I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI ANGLE REMARK 500 TRP B 28 -12.26 REMARK 500 TRP B 28 12.87 REMARK 500 GLY B 29 13.34 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 IOD A 198 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IOD A 199 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IOD A 200 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IOD A 202 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IOD A 203 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 204 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 205 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 206 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 207 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IOD B 200 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IOD B 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO B 202 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO B 203 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 402579 RELATED DB: TARGETDB REMARK 999 REMARK 999 SEQUENCE REMARK 999 THIS CONSTRUCT WAS EXPRESSED WITH A PURIFICATION TAG REMARK 999 MGSDKIHHHHHHENLYFQG. THE TAG WAS REMOVED WITH TEV PROTEASE LEAVING REMARK 999 ONLY A GLYCINE (0) FOLLOWED BY THE TARGET SEQUENCE. DBREF 3MCW A 1 197 UNP Q7NYF4 Q7NYF4_CHRVO 1 197 DBREF 3MCW B 1 197 UNP Q7NYF4 Q7NYF4_CHRVO 1 197 SEQADV 3MCW GLY A 0 UNP Q7NYF4 EXPRESSION TAG SEQADV 3MCW GLY B 0 UNP Q7NYF4 EXPRESSION TAG SEQRES 1 A 198 GLY MSE PRO ALA PRO LEU ARG PHE SER SER ASP LYS PRO SEQRES 2 A 198 LEU LEU LEU LEU ILE ASP MSE GLN GLN ALA VAL ASP ASP SEQRES 3 A 198 PRO SER TRP GLY PRO ARG ASN HIS PRO GLN ALA GLU GLN SEQRES 4 A 198 ALA CYS ALA GLY LEU LEU GLN ALA TRP ARG ALA ARG GLY SEQRES 5 A 198 LEU PRO LEU ILE HIS ILE ARG HIS ASP SER VAL GLU PRO SEQRES 6 A 198 ASN SER THR TYR ARG PRO GLY GLN PRO GLY HIS ALA PHE SEQRES 7 A 198 LYS PRO GLU VAL GLU PRO ARG PRO GLY GLU THR VAL ILE SEQRES 8 A 198 ALA LYS GLN THR ASN SER ALA PHE ILE GLY THR GLY LEU SEQRES 9 A 198 GLU ALA LEU LEU ARG ALA ASN GLY TRP LEU GLU LEU VAL SEQRES 10 A 198 VAL ALA GLY VAL SER THR SER ASN SER VAL GLU ALA THR SEQRES 11 A 198 VAL ARG MSE ALA GLY ASN LEU GLY PHE ALA VAL CYS LEU SEQRES 12 A 198 ALA GLU ASP GLY CYS PHE THR PHE ASP LYS THR ASP TRP SEQRES 13 A 198 HIS GLY ARG ARG ARG SER ALA ASP GLU VAL HIS ALA MSE SEQRES 14 A 198 SER LEU ALA ASN LEU ASP GLY GLU TYR CYS ARG VAL CYS SEQRES 15 A 198 GLY SER ALA ASP ILE LEU ALA ALA LEU GLY ASN ILE ALA SEQRES 16 A 198 GLY ALA ALA SEQRES 1 B 198 GLY MSE PRO ALA PRO LEU ARG PHE SER SER ASP LYS PRO SEQRES 2 B 198 LEU LEU LEU LEU ILE ASP MSE GLN GLN ALA VAL ASP ASP SEQRES 3 B 198 PRO SER TRP GLY PRO ARG ASN HIS PRO GLN ALA GLU GLN SEQRES 4 B 198 ALA CYS ALA GLY LEU LEU GLN ALA TRP ARG ALA ARG GLY SEQRES 5 B 198 LEU PRO LEU ILE HIS ILE ARG HIS ASP SER VAL GLU PRO SEQRES 6 B 198 ASN SER THR TYR ARG PRO GLY GLN PRO GLY HIS ALA PHE SEQRES 7 B 198 LYS PRO GLU VAL GLU PRO ARG PRO GLY GLU THR VAL ILE SEQRES 8 B 198 ALA LYS GLN THR ASN SER ALA PHE ILE GLY THR GLY LEU SEQRES 9 B 198 GLU ALA LEU LEU ARG ALA ASN GLY TRP LEU GLU LEU VAL SEQRES 10 B 198 VAL ALA GLY VAL SER THR SER ASN SER VAL GLU ALA THR SEQRES 11 B 198 VAL ARG MSE ALA GLY ASN LEU GLY PHE ALA VAL CYS LEU SEQRES 12 B 198 ALA GLU ASP GLY CYS PHE THR PHE ASP LYS THR ASP TRP SEQRES 13 B 198 HIS GLY ARG ARG ARG SER ALA ASP GLU VAL HIS ALA MSE SEQRES 14 B 198 SER LEU ALA ASN LEU ASP GLY GLU TYR CYS ARG VAL CYS SEQRES 15 B 198 GLY SER ALA ASP ILE LEU ALA ALA LEU GLY ASN ILE ALA SEQRES 16 B 198 GLY ALA ALA MODRES 3MCW MSE A 19 MET SELENOMETHIONINE MODRES 3MCW MSE A 132 MET SELENOMETHIONINE MODRES 3MCW MSE A 168 MET SELENOMETHIONINE MODRES 3MCW MSE B 1 MET SELENOMETHIONINE MODRES 3MCW MSE B 19 MET SELENOMETHIONINE MODRES 3MCW MSE B 132 MET SELENOMETHIONINE MODRES 3MCW MSE B 168 MET SELENOMETHIONINE HET MSE A 19 18 HET MSE A 132 13 HET MSE A 168 18 HET MSE B 1 8 HET MSE B 19 13 HET MSE B 132 13 HET MSE B 168 18 HET IOD A 198 1 HET IOD A 199 1 HET IOD A 200 1 HET IOD A 201 1 HET IOD A 202 1 HET IOD A 203 1 HET EDO A 204 4 HET EDO A 205 4 HET EDO A 206 4 HET EDO A 207 8 HET IOD B 198 1 HET IOD B 199 1 HET IOD B 200 1 HET IOD B 201 1 HET EDO B 202 8 HET EDO B 203 4 HETNAM MSE SELENOMETHIONINE HETNAM IOD IODIDE ION HETNAM EDO 1,2-ETHANEDIOL HETSYN EDO ETHYLENE GLYCOL FORMUL 1 MSE 7(C5 H11 N O2 SE) FORMUL 3 IOD 10(I 1-) FORMUL 9 EDO 6(C2 H6 O2) FORMUL 19 HOH *477(H2 O) HELIX 1 1 GLN A 20 GLY A 29 5 10 HELIX 2 2 GLN A 35 GLY A 51 1 17 HELIX 3 3 GLN A 72 ALA A 76 5 5 HELIX 4 4 LYS A 78 GLU A 82 5 5 HELIX 5 5 GLY A 102 GLY A 111 1 10 HELIX 6 6 ASN A 124 LEU A 136 1 13 HELIX 7 7 SER A 161 ASP A 174 1 14 HELIX 8 8 GLY A 182 GLY A 191 1 10 HELIX 9 9 ASN A 192 ALA A 197 5 6 HELIX 10 10 GLN B 20 GLY B 29 5 10 HELIX 11 11 GLN B 35 GLY B 51 1 17 HELIX 12 12 GLN B 72 ALA B 76 5 5 HELIX 13 13 LYS B 78 GLU B 82 5 5 HELIX 14 14 GLY B 102 ASN B 110 1 9 HELIX 15 15 ASN B 124 GLY B 137 1 14 HELIX 16 16 SER B 161 ASP B 174 1 14 HELIX 17 17 GLY B 182 GLY B 191 1 10 SHEET 1 A 6 THR A 88 LYS A 92 0 SHEET 2 A 6 LEU A 54 HIS A 59 1 N HIS A 56 O ILE A 90 SHEET 3 A 6 LEU A 13 ILE A 17 1 N LEU A 16 O ILE A 57 SHEET 4 A 6 GLU A 114 VAL A 120 1 O VAL A 116 N LEU A 15 SHEET 5 A 6 ALA A 139 PHE A 148 1 O CYS A 141 N LEU A 115 SHEET 6 A 6 ARG A 179 CYS A 181 1 O CYS A 181 N LEU A 142 SHEET 1 B 2 LYS A 152 THR A 153 0 SHEET 2 B 2 ARG A 159 ARG A 160 -1 O ARG A 160 N LYS A 152 SHEET 1 C 6 THR B 88 LYS B 92 0 SHEET 2 C 6 LEU B 54 HIS B 59 1 N HIS B 56 O ILE B 90 SHEET 3 C 6 LEU B 13 ILE B 17 1 N LEU B 16 O ILE B 57 SHEET 4 C 6 GLU B 114 VAL B 120 1 O VAL B 116 N LEU B 15 SHEET 5 C 6 ALA B 139 PHE B 148 1 O CYS B 141 N LEU B 115 SHEET 6 C 6 ARG B 179 CYS B 181 1 O CYS B 181 N LEU B 142 SHEET 1 D 2 LYS B 152 THR B 153 0 SHEET 2 D 2 ARG B 159 ARG B 160 -1 O ARG B 160 N LYS B 152 LINK C ASP A 18 N MSE A 19 1555 1555 1.32 LINK C MSE A 19 N GLN A 20 1555 1555 1.32 LINK C ARG A 131 N MSE A 132 1555 1555 1.33 LINK C MSE A 132 N ALA A 133 1555 1555 1.33 LINK C ALA A 167 N MSE A 168 1555 1555 1.33 LINK C MSE A 168 N SER A 169 1555 1555 1.33 LINK C MSE B 1 N PRO B 2 1555 1555 1.36 LINK C ASP B 18 N MSE B 19 1555 1555 1.31 LINK C MSE B 19 N GLN B 20 1555 1555 1.33 LINK C ARG B 131 N MSE B 132 1555 1555 1.33 LINK C MSE B 132 N ALA B 133 1555 1555 1.34 LINK C ALA B 167 N MSE B 168 1555 1555 1.33 LINK C MSE B 168 N SER B 169 1555 1555 1.34 CISPEP 1 VAL A 120 SER A 121 0 -8.30 CISPEP 2 VAL A 120 SER A 121 0 -10.38 CISPEP 3 VAL B 120 SER B 121 0 -9.01 SITE 1 AC1 3 GLN A 45 ARG A 84 HOH A 330 SITE 1 AC2 1 HOH A 317 SITE 1 AC3 2 THR A 153 HOH A 481 SITE 1 AC4 3 PHE A 77 ARG A 159 HOH A 343 SITE 1 AC5 1 MSE B 1 SITE 1 AC6 7 TRP A 28 TYR A 68 SER A 121 ASN A 124 SITE 2 AC6 7 PHE A 150 HOH A 219 HOH A 252 SITE 1 AC7 9 ARG A 58 ASP A 151 ARG A 159 SER A 161 SITE 2 AC7 9 HOH A 316 HOH A 322 HOH A 348 HOH A 370 SITE 3 AC7 9 HOH A 462 SITE 1 AC8 3 ARG A 50 HOH A 413 HOH A 415 SITE 1 AC9 6 PRO A 53 LEU A 54 ILE A 55 THR A 88 SITE 2 AC9 6 TRP A 112 MSE B 1 SITE 1 BC1 2 GLN B 45 ARG B 84 SITE 1 BC2 2 GLY B 86 THR B 153 SITE 1 BC3 6 PRO B 53 LEU B 54 ILE B 55 THR B 88 SITE 2 BC3 6 TRP B 112 HOH B 419 SITE 1 BC4 6 SER B 8 GLY B 111 LEU B 113 GLU B 114 SITE 2 BC4 6 HOH B 408 HOH B 423 CRYST1 92.697 60.850 71.960 90.00 102.97 90.00 C 1 2 1 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 0.010788 0.000000 0.002485 0.00000 SCALE2 0.000000 0.016434 0.000000 0.00000 SCALE3 0.000000 0.000000 0.014261 0.00000