10 20 30 40 50 60 70 80 2C8G - Header ----|----|----|----|----|----|----|----|----|----|----|----|----|----|----|----| Asymmetric UnitHEADER TRANSFERASE 03-DEC-05 2C8G
TITLE STRUCTURE OF THE PN LOOP Q182A MUTANT C3BOT1 EXOENZYME TITLE 2 (FREE STATE, CRYSTAL FORM I)
COMPND MOL_ID: 1; COMPND 2 MOLECULE: MONO-ADP-RIBOSYLTRANSFERASE C3; COMPND 3 CHAIN: A, B, C, D; COMPND 4 SYNONYM: EXOENZYME C3; COMPND 5 EC: 2.4.2.-; COMPND 6 ENGINEERED: YES; COMPND 7 MUTATION: YES
SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: CLOSTRIDIUM BOTULINUM; SOURCE 3 ORGANISM_TAXID: 1491; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 511693; SOURCE 6 EXPRESSION_SYSTEM_STRAIN: BL21
KEYWDS C3 EXOENZYME, ARTT MOTIF, ADP-RIBOSYLTRANSFERASE, BACTERIAL KEYWDS 2 TOXINS, TRANSFERASE, GLYCOSYLTRANSFERASE
EXPDTA X-RAY DIFFRACTION
AUTHOR E.A.STURA,J.MENETREY,G.FLATAU,P.BOQUET,A.MENEZ
REVDAT 2 24-FEB-09 2C8G 1 VERSN REVDAT 1 27-FEB-07 2C8G 0
JRNL AUTH E.A.STURA,J.MENETREY,G.FLATAU,P.BOQUET,A.MENEZ JRNL TITL STRUCTURAL PROPERTIES OF WILD-TYPE AND TWO ARTT JRNL TITL 2 MOTIF MUTANTS CLOSTRIDIUM BOTULINUM C3 EXOENZYME JRNL TITL 3 ISOFORM 1 IN DIFFERENT SUBSTRATE COMPLEXED STATES JRNL TITL 4 AND CRYSTAL FORMS. JRNL REF TO BE PUBLISHED JRNL REFN
REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH J.MENETREY,G.FLATAU,E.A.STURA,J.B.CHARBONNIER, REMARK 1 AUTH 2 F.GAS,J.M.TEULON,M.H.LEDU,P.BOQUET,A.MENEZ REMARK 1 TITL NAD BINDING INDUCES CONFORMATIONAL CHANGES IN RHO REMARK 1 TITL 2 ADP-RIBOSYLATING CLOSTRIDIUM BOTULINUM C3 REMARK 1 TITL 3 EXOENZYME. REMARK 1 REF J.BIOL.CHEM. V. 277 30950 2002 REMARK 1 REFN ISSN 0021-9258 REMARK 1 PMID 12029083 REMARK 1 DOI 10.1074/JBC.M201844200
REMARK 2 REMARK 2 RESOLUTION. 2.0 ANGSTROMS.
REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.1.24 REMARK 3 AUTHORS : MURSHUDOV,VAGIN,DODSON REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 39.84 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 52700 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) : 0.213 REMARK 3 R VALUE (WORKING SET) : 0.212 REMARK 3 FREE R VALUE : 0.247 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 2818 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) : 2.00 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.05 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2623 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.3000 REMARK 3 BIN FREE R VALUE SET COUNT : 135 REMARK 3 BIN FREE R VALUE : 0.3400 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 6434 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 15 REMARK 3 SOLVENT ATOMS : 298 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 34.01 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 1.33000 REMARK 3 B22 (A**2) : 0.73000 REMARK 3 B33 (A**2) : -2.28000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -0.50000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.221 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.180 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.140 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 5.251 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.950 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.935 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 6560 ; 0.009 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 5913 ; 0.008 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 8816 ; 1.110 ; 1.961 REMARK 3 BOND ANGLES OTHERS (DEGREES): 13894 ; 0.751 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 817 ; 5.485 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): NULL ; NULL ; NULL REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 970 ; 0.069 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 7189 ; 0.004 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 1267 ; 0.002 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1154 ; 0.187 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 6249 ; 0.229 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): 3549 ; 0.081 ; 0.200 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 215 ; 0.140 ; 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): 19 ; 0.200 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 32 ; 0.163 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 9 ; 0.209 ; 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): 4070 ; 0.568 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 6536 ; 1.093 ; 2.000 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2490 ; 1.591 ; 3.000 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 2280 ; 2.787 ; 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 : 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: HYDROGENS HAVE BEEN ADDED IN THE REMARK 3 RIDING POSITIONS.
REMARK 4 REMARK 4 2C8G COMPLIES WITH FORMAT V. 3.15, 01-DEC-08
REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 05-DEC-05. REMARK 100 THE PDBE ID CODE IS EBI-26676.
REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : 100.0 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : NULL REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID14-3 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.933 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : NULL REMARK 200 DETECTOR MANUFACTURER : NULL REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 55519 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.000 REMARK 200 RESOLUTION RANGE LOW (A) : 39.840 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 88.7 REMARK 200 DATA REDUNDANCY : 4.000 REMARK 200 R MERGE (I) : 0.06000 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 16.1000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : NULL REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: AMORE REMARK 200 STARTING MODEL: PDB ENTRY 1GZF REMARK 200 REMARK 200 REMARK: NULL
REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 50.03 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.48 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 22.5% PEG 3350 W/W, 100 MM REMARK 280 LI2SO4, 100 MM SODIUM CITRATE PH 3.0, 3-10% MPEG 550 V/V
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 52.83550 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 37.47550 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 52.83550 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 37.47550 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL
REMARK 300 REMARK 300 BIOMOLECULE: 1, 2, 3, 4 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 GENERATING THE BIOMOLECULE 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: PQS 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 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PQS REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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 BIOMOLECULE: 3 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PQS REMARK 350 APPLY THE FOLLOWING TO CHAINS: C 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 BIOMOLECULE: 4 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PQS REMARK 350 APPLY THE FOLLOWING TO CHAINS: D 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 400 REMARK 400 COMPOUND REMARK 400 ENGINEERED RESIDUE IN CHAIN A, GLN 182 TO ALA REMARK 400 ENGINEERED RESIDUE IN CHAIN B, GLN 182 TO ALA REMARK 400 ENGINEERED RESIDUE IN CHAIN C, GLN 182 TO ALA REMARK 400 ENGINEERED RESIDUE IN CHAIN D, GLN 182 TO ALA
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 ALA A 41 REMARK 465 TYR A 42 REMARK 465 SER A 43 REMARK 465 LYS A 251 REMARK 465 ALA B 41 REMARK 465 TYR B 42 REMARK 465 SER B 43 REMARK 465 ASN B 44 REMARK 465 ALA B 247 REMARK 465 ILE B 248 REMARK 465 ASN B 249 REMARK 465 PRO B 250 REMARK 465 LYS B 251 REMARK 465 ALA C 41 REMARK 465 TYR C 42 REMARK 465 SER C 43 REMARK 465 ALA D 41 REMARK 465 TYR D 42 REMARK 465 SER D 43 REMARK 465 ASN D 249 REMARK 465 PRO D 250 REMARK 465 LYS D 251
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 ASN A 44 CG OD1 ND2 REMARK 470 LYS C 251 O REMARK 470 ASN D 44 CG OD1 ND2 REMARK 470 ALA D 247 O REMARK 470 ILE D 248 CA C O CB CG1 CG2 CD1
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 ARG A 229 CD ARG A 229 NE 0.122 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 130 CB - CG - OD2 ANGL. DEV. = 5.7 DEGREES REMARK 500 ARG A 229 NE - CZ - NH1 ANGL. DEV. = -3.5 DEGREES REMARK 500 ASP B 166 CB - CG - OD2 ANGL. DEV. = 5.7 DEGREES REMARK 500 ASP C 227 CB - CG - OD2 ANGL. DEV. = 7.8 DEGREES REMARK 500 ASP C 233 CB - CG - OD2 ANGL. DEV. = 5.6 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 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 SER A 82 29.58 -140.42 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CHIRAL CENTERS REMARK 500 REMARK 500 UNEXPECTED CONFIGURATION OF THE FOLLOWING CHIRAL REMARK 500 CENTER(S) USING IMPROPER CA--C--CB--N CHIRALITY REMARK 500 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,A1,6X,F5.1,6X,A1,10X,A1,3X,A16) REMARK 500 REMARK 500 M RES CSSEQI IMPROPER EXPECTED FOUND DETAILS REMARK 500 PHE A 183 24.0 L L OUTSIDE RANGE REMARK 500 REMARK 500 REMARK: NULL
REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE):
REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B1247 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 C1252 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 D1248
REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1G24 RELATED DB: PDB REMARK 900 THE CRYSTAL STRUCTURE OF EXOENZYME C3 FROM REMARK 900 CLOSTRIDIUMBOTULINUM REMARK 900 RELATED ID: 1GZE RELATED DB: PDB REMARK 900 STRUCTURE OF THE CLOSTRIDIUM BOTULINUM C3 REMARK 900 EXOENZYME (L177C MUTANT) REMARK 900 RELATED ID: 1UZI RELATED DB: PDB REMARK 900 C3 EXOENZYME FROM CLOSTRIDIUM BOTULINUM, REMARK 900 TETRAGONAL FORM REMARK 900 RELATED ID: 1GZF RELATED DB: PDB REMARK 900 STRUCTURE OF THE CLOSTRIDIUM BOTULINUM C3 EXOENZYME REMARK 900 (WILD-TYPE) IN COMPLEX WITH NAD REMARK 900 RELATED ID: 2A78 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE C3BOT-RALA COMPLEX REMARK 900 REVEALS A NOVELTYPE OF ACTION OF A REMARK 900 BACTERIAL EXOENZYME REMARK 900 RELATED ID: 2A9K RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE C3BOT-NAD-RALA REMARK 900 COMPLEX REVEALS ANOVEL TYPE OF ACTION OF A REMARK 900 BACTERIAL EXOENZYME REMARK 900 RELATED ID: 2BOV RELATED DB: PDB REMARK 900 MOLECULAR RECOGNITION OF AN ADP-RIBOSYLATING REMARK 900 CLOSTRIDIUM BOTULINUM C3 EXOENZYME BY RALA REMARK 900 GTPASE REMARK 900 RELATED ID: 2C8A RELATED DB: PDB REMARK 900 STRUCTURE OF THE WILD-TYPE C3BOT1 EXOENZYME REMARK 900 (NICOTINAMIDE-BOUND STATE, CRYSTAL FORM I) REMARK 900 RELATED ID: 2C8B RELATED DB: PDB REMARK 900 STRUCTURE OF THE ARTT MOTIF Q212A MUTANT REMARK 900 C3BOT1 EXOENZYME (FREE STATE, CRYSTAL FORM II) REMARK 900 RELATED ID: 2C8C RELATED DB: PDB REMARK 900 STRUCTURE OF THE ARTT MOTIF Q212A MUTANT REMARK 900 C3BOT1 EXOENZYME (NAD-BOUND STATE, CRYSTAL FORM I) REMARK 900 RELATED ID: 2C8D RELATED DB: PDB REMARK 900 STRUCTURE OF THE ARTT MOTIF Q212A MUTANT REMARK 900 C3BOT1 EXOENZYME (FREE STATE, CRYSTAL FORM I) REMARK 900 RELATED ID: 2C8E RELATED DB: PDB REMARK 900 STRUCTURE OF THE ARTT MOTIF E214N MUTANT REMARK 900 C3BOT1 EXOENZYME (FREE STATE, CRYSTAL FORM III) REMARK 900 RELATED ID: 2C8F RELATED DB: PDB REMARK 900 STRUCTURE OF THE ARTT MOTIF E214N MUTANT REMARK 900 C3BOT1 EXOENZYME (NAD-BOUND STATE, CRYSTAL FORM III) REMARK 900 RELATED ID: 2C89 RELATED DB: PDB REMARK 900 STRUCTURE OF THE PN LOOP Q182A MUTANT REMARK 900 C3BOT1 EXOENZYME (FREE STATE, CRYSTAL FORM I) REMARK 900 RELATED ID: 2C8H RELATED DB: PDB REMARK 900 STRUCTURE OF THE PN LOOP Q182A MUTANT REMARK 900 C3BOT1 EXOENZYME (NAD-BOUND STATE, CRYSTAL FORM I)
DBREF 2C8G A 41 251 UNP P15879 ARC3_CBDP 41 251 DBREF 2C8G B 41 251 UNP P15879 ARC3_CBDP 41 251 DBREF 2C8G C 41 251 UNP P15879 ARC3_CBDP 41 251 DBREF 2C8G D 41 251 UNP P15879 ARC3_CBDP 41 251
SEQADV 2C8G ALA A 182 UNP P15879 GLN 182 ENGINEERED MUTATION SEQADV 2C8G ALA B 182 UNP P15879 GLN 182 ENGINEERED MUTATION SEQADV 2C8G ALA C 182 UNP P15879 GLN 182 ENGINEERED MUTATION SEQADV 2C8G ALA D 182 UNP P15879 GLN 182 ENGINEERED MUTATION
SEQRES 1 A 211 ALA TYR SER ASN THR TYR GLN GLU PHE THR ASN ILE ASP SEQRES 2 A 211 GLN ALA LYS ALA TRP GLY ASN ALA GLN TYR LYS LYS TYR SEQRES 3 A 211 GLY LEU SER LYS SER GLU LYS GLU ALA ILE VAL SER TYR SEQRES 4 A 211 THR LYS SER ALA SER GLU ILE ASN GLY LYS LEU ARG GLN SEQRES 5 A 211 ASN LYS GLY VAL ILE ASN GLY PHE PRO SER ASN LEU ILE SEQRES 6 A 211 LYS GLN VAL GLU LEU LEU ASP LYS SER PHE ASN LYS MET SEQRES 7 A 211 LYS THR PRO GLU ASN ILE MET LEU PHE ARG GLY ASP ASP SEQRES 8 A 211 PRO ALA TYR LEU GLY THR GLU PHE GLN ASN THR LEU LEU SEQRES 9 A 211 ASN SER ASN GLY THR ILE ASN LYS THR ALA PHE GLU LYS SEQRES 10 A 211 ALA LYS ALA LYS PHE LEU ASN LYS ASP ARG LEU GLU TYR SEQRES 11 A 211 GLY TYR ILE SER THR SER LEU MET ASN VAL SER ALA PHE SEQRES 12 A 211 ALA GLY ARG PRO ILE ILE THR LYS PHE LYS VAL ALA LYS SEQRES 13 A 211 GLY SER LYS ALA GLY TYR ILE ASP PRO ILE SER ALA PHE SEQRES 14 A 211 ALA GLY GLN LEU GLU MET LEU LEU PRO ARG HIS SER THR SEQRES 15 A 211 TYR HIS ILE ASP ASP MET ARG LEU SER SER ASP GLY LYS SEQRES 16 A 211 GLN ILE ILE ILE THR ALA THR MET MET GLY THR ALA ILE SEQRES 17 A 211 ASN PRO LYS SEQRES 1 B 211 ALA TYR SER ASN THR TYR GLN GLU PHE THR ASN ILE ASP SEQRES 2 B 211 GLN ALA LYS ALA TRP GLY ASN ALA GLN TYR LYS LYS TYR SEQRES 3 B 211 GLY LEU SER LYS SER GLU LYS GLU ALA ILE VAL SER TYR SEQRES 4 B 211 THR LYS SER ALA SER GLU ILE ASN GLY LYS LEU ARG GLN SEQRES 5 B 211 ASN LYS GLY VAL ILE ASN GLY PHE PRO SER ASN LEU ILE SEQRES 6 B 211 LYS GLN VAL GLU LEU LEU ASP LYS SER PHE ASN LYS MET SEQRES 7 B 211 LYS THR PRO GLU ASN ILE MET LEU PHE ARG GLY ASP ASP SEQRES 8 B 211 PRO ALA TYR LEU GLY THR GLU PHE GLN ASN THR LEU LEU SEQRES 9 B 211 ASN SER ASN GLY THR ILE ASN LYS THR ALA PHE GLU LYS SEQRES 10 B 211 ALA LYS ALA LYS PHE LEU ASN LYS ASP ARG LEU GLU TYR SEQRES 11 B 211 GLY TYR ILE SER THR SER LEU MET ASN VAL SER ALA PHE SEQRES 12 B 211 ALA GLY ARG PRO ILE ILE THR LYS PHE LYS VAL ALA LYS SEQRES 13 B 211 GLY SER LYS ALA GLY TYR ILE ASP PRO ILE SER ALA PHE SEQRES 14 B 211 ALA GLY GLN LEU GLU MET LEU LEU PRO ARG HIS SER THR SEQRES 15 B 211 TYR HIS ILE ASP ASP MET ARG LEU SER SER ASP GLY LYS SEQRES 16 B 211 GLN ILE ILE ILE THR ALA THR MET MET GLY THR ALA ILE SEQRES 17 B 211 ASN PRO LYS SEQRES 1 C 211 ALA TYR SER ASN THR TYR GLN GLU PHE THR ASN ILE ASP SEQRES 2 C 211 GLN ALA LYS ALA TRP GLY ASN ALA GLN TYR LYS LYS TYR SEQRES 3 C 211 GLY LEU SER LYS SER GLU LYS GLU ALA ILE VAL SER TYR SEQRES 4 C 211 THR LYS SER ALA SER GLU ILE ASN GLY LYS LEU ARG GLN SEQRES 5 C 211 ASN LYS GLY VAL ILE ASN GLY PHE PRO SER ASN LEU ILE SEQRES 6 C 211 LYS GLN VAL GLU LEU LEU ASP LYS SER PHE ASN LYS MET SEQRES 7 C 211 LYS THR PRO GLU ASN ILE MET LEU PHE ARG GLY ASP ASP SEQRES 8 C 211 PRO ALA TYR LEU GLY THR GLU PHE GLN ASN THR LEU LEU SEQRES 9 C 211 ASN SER ASN GLY THR ILE ASN LYS THR ALA PHE GLU LYS SEQRES 10 C 211 ALA LYS ALA LYS PHE LEU ASN LYS ASP ARG LEU GLU TYR SEQRES 11 C 211 GLY TYR ILE SER THR SER LEU MET ASN VAL SER ALA PHE SEQRES 12 C 211 ALA GLY ARG PRO ILE ILE THR LYS PHE LYS VAL ALA LYS SEQRES 13 C 211 GLY SER LYS ALA GLY TYR ILE ASP PRO ILE SER ALA PHE SEQRES 14 C 211 ALA GLY GLN LEU GLU MET LEU LEU PRO ARG HIS SER THR SEQRES 15 C 211 TYR HIS ILE ASP ASP MET ARG LEU SER SER ASP GLY LYS SEQRES 16 C 211 GLN ILE ILE ILE THR ALA THR MET MET GLY THR ALA ILE SEQRES 17 C 211 ASN PRO LYS SEQRES 1 D 211 ALA TYR SER ASN THR TYR GLN GLU PHE THR ASN ILE ASP SEQRES 2 D 211 GLN ALA LYS ALA TRP GLY ASN ALA GLN TYR LYS LYS TYR SEQRES 3 D 211 GLY LEU SER LYS SER GLU LYS GLU ALA ILE VAL SER TYR SEQRES 4 D 211 THR LYS SER ALA SER GLU ILE ASN GLY LYS LEU ARG GLN SEQRES 5 D 211 ASN LYS GLY VAL ILE ASN GLY PHE PRO SER ASN LEU ILE SEQRES 6 D 211 LYS GLN VAL GLU LEU LEU ASP LYS SER PHE ASN LYS MET SEQRES 7 D 211 LYS THR PRO GLU ASN ILE MET LEU PHE ARG GLY ASP ASP SEQRES 8 D 211 PRO ALA TYR LEU GLY THR GLU PHE GLN ASN THR LEU LEU SEQRES 9 D 211 ASN SER ASN GLY THR ILE ASN LYS THR ALA PHE GLU LYS SEQRES 10 D 211 ALA LYS ALA LYS PHE LEU ASN LYS ASP ARG LEU GLU TYR SEQRES 11 D 211 GLY TYR ILE SER THR SER LEU MET ASN VAL SER ALA PHE SEQRES 12 D 211 ALA GLY ARG PRO ILE ILE THR LYS PHE LYS VAL ALA LYS SEQRES 13 D 211 GLY SER LYS ALA GLY TYR ILE ASP PRO ILE SER ALA PHE SEQRES 14 D 211 ALA GLY GLN LEU GLU MET LEU LEU PRO ARG HIS SER THR SEQRES 15 D 211 TYR HIS ILE ASP ASP MET ARG LEU SER SER ASP GLY LYS SEQRES 16 D 211 GLN ILE ILE ILE THR ALA THR MET MET GLY THR ALA ILE SEQRES 17 D 211 ASN PRO LYS
HET SO4 B1247 5 HET SO4 C1252 5 HET SO4 D1248 5
HETNAM SO4 SULFATE ION
FORMUL 5 SO4 3(O4 S 2-) FORMUL 8 HOH *298(H2 O1)
HELIX 1 1 ASN A 51 TYR A 66 1 16 HELIX 2 2 SER A 69 ASN A 93 1 25 HELIX 3 3 PRO A 101 PHE A 115 1 15 HELIX 4 4 ASP A 131 GLY A 136 5 6 HELIX 5 5 GLY A 136 GLN A 140 5 5 HELIX 6 6 ASN A 151 LEU A 163 1 13 HELIX 7 7 VAL A 180 ALA A 184 5 5 HELIX 8 8 ASP A 204 SER A 207 5 4 HELIX 9 9 ASN B 51 GLY B 67 1 17 HELIX 10 10 SER B 69 SER B 82 1 14 HELIX 11 11 SER B 82 ASN B 93 1 12 HELIX 12 12 PRO B 101 PHE B 115 1 15 HELIX 13 13 ASP B 131 LEU B 135 5 5 HELIX 14 14 GLY B 136 ASN B 141 1 6 HELIX 15 15 ASN B 151 LEU B 163 1 13 HELIX 16 16 VAL B 180 ALA B 184 5 5 HELIX 17 17 ASN C 51 LYS C 64 1 14 HELIX 18 18 SER C 69 SER C 82 1 14 HELIX 19 19 SER C 82 ASN C 93 1 12 HELIX 20 20 PRO C 101 PHE C 115 1 15 HELIX 21 21 ASN C 116 MET C 118 5 3 HELIX 22 22 ASP C 131 GLY C 136 5 6 HELIX 23 23 GLY C 136 GLN C 140 5 5 HELIX 24 24 ASN C 151 LEU C 163 1 13 HELIX 25 25 VAL C 180 GLY C 185 1 6 HELIX 26 26 ASN D 51 LYS D 64 1 14 HELIX 27 27 SER D 69 ASN D 93 1 25 HELIX 28 28 PRO D 101 PHE D 115 1 15 HELIX 29 29 ASN D 116 MET D 118 5 3 HELIX 30 30 ASP D 131 LEU D 135 5 5 HELIX 31 31 GLY D 136 ASN D 141 1 6 HELIX 32 32 ASN D 151 LEU D 163 1 13 HELIX 33 33 VAL D 180 ALA D 184 5 5
SHEET 1 AA 5 ILE A 124 ASP A 130 0 SHEET 2 AA 5 ILE A 188 VAL A 194 -1 O ILE A 188 N ASP A 130 SHEET 3 AA 5 ILE A 237 THR A 246 1 O ILE A 237 N ILE A 189 SHEET 4 AA 5 SER A 221 LEU A 230 -1 O THR A 222 N MET A 244 SHEET 5 AA 5 ASP A 166 GLU A 169 -1 O ARG A 167 N TYR A 223 SHEET 1 AB 3 ILE A 173 SER A 176 0 SHEET 2 AB 3 GLU A 214 LEU A 217 -1 O MET A 215 N THR A 175 SHEET 3 AB 3 GLY A 201 TYR A 202 -1 O GLY A 201 N LEU A 216 SHEET 1 BA 5 ILE B 124 ASP B 130 0 SHEET 2 BA 5 ILE B 188 VAL B 194 -1 O ILE B 188 N ASP B 130 SHEET 3 BA 5 ILE B 237 GLY B 245 1 O ILE B 237 N ILE B 189 SHEET 4 BA 5 SER B 221 LEU B 230 -1 O THR B 222 N MET B 244 SHEET 5 BA 5 ASP B 166 GLU B 169 -1 O ARG B 167 N TYR B 223 SHEET 1 BB 3 ILE B 173 SER B 176 0 SHEET 2 BB 3 GLU B 214 LEU B 217 -1 O MET B 215 N THR B 175 SHEET 3 BB 3 GLY B 201 TYR B 202 -1 O GLY B 201 N LEU B 216 SHEET 1 CA 5 ILE C 124 ASP C 130 0 SHEET 2 CA 5 ILE C 188 VAL C 194 -1 O ILE C 188 N ASP C 130 SHEET 3 CA 5 ILE C 237 THR C 246 1 O ILE C 237 N ILE C 189 SHEET 4 CA 5 SER C 221 LEU C 230 -1 O THR C 222 N MET C 244 SHEET 5 CA 5 ASP C 166 GLU C 169 -1 O ARG C 167 N TYR C 223 SHEET 1 CB 3 ILE C 173 SER C 176 0 SHEET 2 CB 3 GLU C 214 LEU C 217 -1 O MET C 215 N THR C 175 SHEET 3 CB 3 GLY C 201 TYR C 202 -1 O GLY C 201 N LEU C 216 SHEET 1 DA 5 ILE D 124 ASP D 130 0 SHEET 2 DA 5 ILE D 188 VAL D 194 -1 O ILE D 188 N ASP D 130 SHEET 3 DA 5 ILE D 237 GLY D 245 1 O ILE D 237 N ILE D 189 SHEET 4 DA 5 SER D 221 LEU D 230 -1 O THR D 222 N MET D 244 SHEET 5 DA 5 ASP D 166 GLU D 169 -1 O ARG D 167 N TYR D 223 SHEET 1 DB 3 ILE D 173 SER D 176 0 SHEET 2 DB 3 GLU D 214 LEU D 217 -1 O MET D 215 N THR D 175 SHEET 3 DB 3 GLY D 201 TYR D 202 -1 O GLY D 201 N LEU D 216
SITE 1 AC1 3 ARG B 128 SER B 174 HOH B2055 SITE 1 AC2 3 ARG C 128 ARG C 186 HOH C2088 SITE 1 AC3 2 ARG D 128 ARG D 186
CRYST1 105.671 74.951 121.199 90.00 102.46 90.00 C 1 2 1 16
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 0.009463 0.000000 0.002091 0.00000
SCALE2 0.000000 0.013342 0.000000 0.00000
SCALE3 0.000000 0.000000 0.008450 0.00000