HEADER TOXIN 07-NOV-03 1RF2
TITLE CHOLERA TOXIN B-PENTAMER COMPLEXED WITH BIVALENT NITROPHENOL-
TITLE 2 GALACTOSIDE LIGAND BV4
COMPND MOL_ID: 1;
COMPND 2 MOLECULE: CHOLERA TOXIN B PROTEIN (CTB);
COMPND 3 CHAIN: D, E, F, G, H;
COMPND 4 ENGINEERED: YES
SOURCE MOL_ID: 1;
SOURCE 2 ORGANISM_SCIENTIFIC: VIBRIO CHOLERAE;
SOURCE 3 ORGANISM_TAXID: 666;
SOURCE 4 GENE: CTXB;
SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI;
SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562;
SOURCE 7 EXPRESSION_SYSTEM_STRAIN: TOP10;
SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID;
SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PBAD
KEYWDS BIVALENT, CHOLERA, TOXIN, PENTAMER, COMPLEX
EXPDTA X-RAY DIFFRACTION
AUTHOR J.C.PICKENS,D.D.MITCHELL,J.LIU,X.TAN,Z.ZHANG,C.L.VERLINDE,W.G.HOL,
AUTHOR 2 E.FAN
REVDAT 4 30-OCT-24 1RF2 1 REMARK
REVDAT 3 23-AUG-23 1RF2 1 REMARK
REVDAT 2 24-FEB-09 1RF2 1 VERSN
REVDAT 1 26-OCT-04 1RF2 0
JRNL AUTH J.C.PICKENS,D.D.MITCHELL,J.LIU,X.TAN,Z.ZHANG,C.L.VERLINDE,
JRNL AUTH 2 W.G.HOL,E.FAN
JRNL TITL NONSPANNING BIVALENT LIGANDS AS IMPROVED SURFACE RECEPTOR
JRNL TITL 2 BINDING INHIBITORS OF THE CHOLERA TOXIN B PENTAMER.
JRNL REF CHEM.BIOL. V. 11 1205 2004
JRNL REFN ISSN 1074-5521
JRNL PMID 15380181
JRNL DOI 10.1016/J.CHEMBIOL.2004.06.008
REMARK 2
REMARK 2 RESOLUTION. 1.35 ANGSTROMS.
REMARK 3
REMARK 3 REFINEMENT.
REMARK 3 PROGRAM : REFMAC 5.1.24
REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER,
REMARK 3 : NICHOLLS,WINN,LONG,VAGIN
REMARK 3
REMARK 3 REFINEMENT TARGET : ENGH & HUBER
REMARK 3
REMARK 3 DATA USED IN REFINEMENT.
REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.35
REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 49.39
REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000
REMARK 3 COMPLETENESS FOR RANGE (%) : 93.9
REMARK 3 NUMBER OF REFLECTIONS : 104314
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) : 0.134
REMARK 3 R VALUE (WORKING SET) : 0.132
REMARK 3 FREE R VALUE : 0.174
REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000
REMARK 3 FREE R VALUE TEST SET COUNT : 5219
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) : 1.38
REMARK 3 REFLECTION IN BIN (WORKING SET) : 5046
REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 64.75
REMARK 3 BIN R VALUE (WORKING SET) : 0.2360
REMARK 3 BIN FREE R VALUE SET COUNT : 260
REMARK 3 BIN FREE R VALUE : 0.3040
REMARK 3
REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT.
REMARK 3 PROTEIN ATOMS : 4070
REMARK 3 NUCLEIC ACID ATOMS : 0
REMARK 3 HETEROGEN ATOMS : 138
REMARK 3 SOLVENT ATOMS : 498
REMARK 3
REMARK 3 B VALUES.
REMARK 3 FROM WILSON PLOT (A**2) : 13.40
REMARK 3 MEAN B VALUE (OVERALL, A**2) : 10.46
REMARK 3 OVERALL ANISOTROPIC B VALUE.
REMARK 3 B11 (A**2) : 0.04000
REMARK 3 B22 (A**2) : -0.06000
REMARK 3 B33 (A**2) : 0.04000
REMARK 3 B12 (A**2) : 0.00000
REMARK 3 B13 (A**2) : 0.03000
REMARK 3 B23 (A**2) : 0.00000
REMARK 3
REMARK 3 ESTIMATED OVERALL COORDINATE ERROR.
REMARK 3 ESU BASED ON R VALUE (A): 0.053
REMARK 3 ESU BASED ON FREE R VALUE (A): 0.053
REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.037
REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 0.934
REMARK 3
REMARK 3 CORRELATION COEFFICIENTS.
REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.979
REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.971
REMARK 3
REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT
REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4290 ; 0.012 ; 0.022
REMARK 3 BOND LENGTHS OTHERS (A): 3717 ; 0.001 ; 0.020
REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5808 ; 1.417 ; 1.975
REMARK 3 BOND ANGLES OTHERS (DEGREES): 8706 ; 0.862 ; 3.001
REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 510 ; 6.954 ; 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): 677 ; 0.086 ; 0.200
REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4624 ; 0.008 ; 0.020
REMARK 3 GENERAL PLANES OTHERS (A): 760 ; 0.008 ; 0.020
REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 802 ; 0.220 ; 0.300
REMARK 3 NON-BONDED CONTACTS OTHERS (A): 4668 ; 0.298 ; 0.300
REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL
REMARK 3 NON-BONDED TORSION OTHERS (A): 2229 ; 0.086 ; 0.500
REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 610 ; 0.160 ; 0.500
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): 16 ; 0.230 ; 0.300
REMARK 3 SYMMETRY VDW OTHERS (A): 39 ; 0.348 ; 0.300
REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 21 ; 0.265 ; 0.500
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): 2576 ; 2.485 ; 3.000
REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL
REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 4178 ; 3.398 ; 4.000
REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL
REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1714 ; 5.237 ; 6.000
REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL
REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1630 ; 7.194 ; 8.000
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): 4290 ; 2.121 ; 3.000
REMARK 3 SPHERICITY; FREE ATOMS (A**2): 498 ;21.151 ;15.000
REMARK 3 SPHERICITY; BONDED ATOMS (A**2): 4212 ; 6.669 ;15.000
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:
REMARK 3 HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS,
REMARK 3 MAXIMUM LIKELIHOOD
REMARK 4
REMARK 4 1RF2 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11
REMARK 100
REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 12-NOV-03.
REMARK 100 THE DEPOSITION ID IS D_1000020689.
REMARK 200
REMARK 200 EXPERIMENTAL DETAILS
REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION
REMARK 200 DATE OF DATA COLLECTION : 29-JUN-03
REMARK 200 TEMPERATURE (KELVIN) : 100
REMARK 200 PH : 7.5
REMARK 200 NUMBER OF CRYSTALS USED : 1
REMARK 200
REMARK 200 SYNCHROTRON (Y/N) : Y
REMARK 200 RADIATION SOURCE : ALS
REMARK 200 BEAMLINE : 8.2.2
REMARK 200 X-RAY GENERATOR MODEL : NULL
REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M
REMARK 200 WAVELENGTH OR RANGE (A) : 0.9626
REMARK 200 MONOCHROMATOR : DOUBLE-CRYSTAL SI(111)
REMARK 200 OPTICS : NULL
REMARK 200
REMARK 200 DETECTOR TYPE : CCD
REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315
REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO
REMARK 200 DATA SCALING SOFTWARE : SCALEPACK
REMARK 200
REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 104314
REMARK 200 RESOLUTION RANGE HIGH (A) : 1.350
REMARK 200 RESOLUTION RANGE LOW (A) : 50.000
REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000
REMARK 200
REMARK 200 OVERALL.
REMARK 200 COMPLETENESS FOR RANGE (%) : 94.2
REMARK 200 DATA REDUNDANCY : 3.500
REMARK 200 R MERGE (I) : 0.08100
REMARK 200 R SYM (I) : NULL
REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 13.5000
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) : 1.40
REMARK 200 COMPLETENESS FOR SHELL (%) : 69.3
REMARK 200 DATA REDUNDANCY IN SHELL : 2.70
REMARK 200 R MERGE FOR SHELL (I) : 0.59100
REMARK 200 R SYM FOR SHELL (I) : NULL
REMARK 200 <I/SIGMA(I)> FOR SHELL : 1.800
REMARK 200
REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH
REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT
REMARK 200 SOFTWARE USED: XTALVIEW
REMARK 200 STARTING MODEL: PDB ENTRY 3CHB
REMARK 200
REMARK 200 REMARK: NULL
REMARK 280
REMARK 280 CRYSTAL
REMARK 280 SOLVENT CONTENT, VS (%): 44.01
REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.20
REMARK 280
REMARK 280 CRYSTALLIZATION CONDITIONS: 16% PEG 8000, 50 MM NACL, 100 MM TRIS
REMARK 280 -HCL, 20MM MGCL2, AND 2.3MM BV4, PH 7.5, VAPOR DIFFUSION,
REMARK 280 SITTING DROP, TEMPERATURE 298.0K
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 51.11750
REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 33.01400
REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000
REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 51.11750
REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 33.01400
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 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: PENTAMERIC
REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: PENTAMERIC
REMARK 350 SOFTWARE USED: PISA
REMARK 350 TOTAL BURIED SURFACE AREA: 15730 ANGSTROM**2
REMARK 350 SURFACE AREA OF THE COMPLEX: 20230 ANGSTROM**2
REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -85.0 KCAL/MOL
REMARK 350 APPLY THE FOLLOWING TO CHAINS: D, E, F, G, H
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 F1321 LIES ON A SPECIAL POSITION.
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 F 1211 O HOH F 1320 2.13
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 D 59 CB - CG - OD2 ANGL. DEV. = 5.9 DEGREES
REMARK 500 ARG H 73 NE - CZ - NH1 ANGL. DEV. = 3.0 DEGREES
REMARK 500
REMARK 500 REMARK: NULL
REMARK 610
REMARK 610 MISSING HETEROATOM
REMARK 610 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER;
REMARK 610 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER;
REMARK 610 I=INSERTION CODE):
REMARK 610 M RES C SSEQI
REMARK 610 BV4 D 104
REMARK 610 BV4 E 105
REMARK 610 BV4 F 106
REMARK 610 BV4 G 107
REMARK 610 BV4 H 108
REMARK 800
REMARK 800 SITE
REMARK 800 SITE_IDENTIFIER: AC1
REMARK 800 EVIDENCE_CODE: SOFTWARE
REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE BV4 D 104
REMARK 800
REMARK 800 SITE_IDENTIFIER: AC2
REMARK 800 EVIDENCE_CODE: SOFTWARE
REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE BV4 E 105
REMARK 800
REMARK 800 SITE_IDENTIFIER: AC3
REMARK 800 EVIDENCE_CODE: SOFTWARE
REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE BV4 F 106
REMARK 800
REMARK 800 SITE_IDENTIFIER: AC4
REMARK 800 EVIDENCE_CODE: SOFTWARE
REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE BV4 G 107
REMARK 800
REMARK 800 SITE_IDENTIFIER: AC5
REMARK 800 EVIDENCE_CODE: SOFTWARE
REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE BV4 H 108
REMARK 800
REMARK 800 SITE_IDENTIFIER: AC6
REMARK 800 EVIDENCE_CODE: SOFTWARE
REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE TRS H 109
REMARK 800
REMARK 800 SITE_IDENTIFIER: AC7
REMARK 800 EVIDENCE_CODE: SOFTWARE
REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PGE H 110
REMARK 900
REMARK 900 RELATED ENTRIES
REMARK 900 RELATED ID: 1RCV RELATED DB: PDB
REMARK 900 CHOLERA TOXIN B-PENTAMER COMPLEXED WITH BIVALENT NITROPHENOL-
REMARK 900 GALACTOSIDE LIGAND BV1
REMARK 900 RELATED ID: 1RD9 RELATED DB: PDB
REMARK 900 CHOLERA TOXIN B-PENTAMER COMPLEXED WITH BIVALENT NITROPHENOL-
REMARK 900 GALACTOSIDE LIGAND BV2
REMARK 900 RELATED ID: 1RDP RELATED DB: PDB
REMARK 900 CHOLERA TOXIN B-PENTAMER COMPLEXED WITH BIVALENT NITROPHENOL-
REMARK 900 GALACTOSIDE LIGAND BV3
DBREF 1RF2 D 1 103 UNP P01556 CHTB_VIBCH 22 124
DBREF 1RF2 E 1 103 UNP P01556 CHTB_VIBCH 22 124
DBREF 1RF2 F 1 103 UNP P01556 CHTB_VIBCH 22 124
DBREF 1RF2 G 1 103 UNP P01556 CHTB_VIBCH 22 124
DBREF 1RF2 H 1 103 UNP P01556 CHTB_VIBCH 22 124
SEQRES 1 D 103 THR PRO GLN ASN ILE THR ASP LEU CYS ALA GLU TYR HIS
SEQRES 2 D 103 ASN THR GLN ILE HIS THR LEU ASN ASP LYS ILE PHE SER
SEQRES 3 D 103 TYR THR GLU SER LEU ALA GLY LYS ARG GLU MET ALA ILE
SEQRES 4 D 103 ILE THR PHE LYS ASN GLY ALA THR PHE GLN VAL GLU VAL
SEQRES 5 D 103 PRO GLY SER GLN HIS ILE ASP SER GLN LYS LYS ALA ILE
SEQRES 6 D 103 GLU ARG MET LYS ASP THR LEU ARG ILE ALA TYR LEU THR
SEQRES 7 D 103 GLU ALA LYS VAL GLU LYS LEU CYS VAL TRP ASN ASN LYS
SEQRES 8 D 103 THR PRO HIS ALA ILE ALA ALA ILE SER MET ALA ASN
SEQRES 1 E 103 THR PRO GLN ASN ILE THR ASP LEU CYS ALA GLU TYR HIS
SEQRES 2 E 103 ASN THR GLN ILE HIS THR LEU ASN ASP LYS ILE PHE SER
SEQRES 3 E 103 TYR THR GLU SER LEU ALA GLY LYS ARG GLU MET ALA ILE
SEQRES 4 E 103 ILE THR PHE LYS ASN GLY ALA THR PHE GLN VAL GLU VAL
SEQRES 5 E 103 PRO GLY SER GLN HIS ILE ASP SER GLN LYS LYS ALA ILE
SEQRES 6 E 103 GLU ARG MET LYS ASP THR LEU ARG ILE ALA TYR LEU THR
SEQRES 7 E 103 GLU ALA LYS VAL GLU LYS LEU CYS VAL TRP ASN ASN LYS
SEQRES 8 E 103 THR PRO HIS ALA ILE ALA ALA ILE SER MET ALA ASN
SEQRES 1 F 103 THR PRO GLN ASN ILE THR ASP LEU CYS ALA GLU TYR HIS
SEQRES 2 F 103 ASN THR GLN ILE HIS THR LEU ASN ASP LYS ILE PHE SER
SEQRES 3 F 103 TYR THR GLU SER LEU ALA GLY LYS ARG GLU MET ALA ILE
SEQRES 4 F 103 ILE THR PHE LYS ASN GLY ALA THR PHE GLN VAL GLU VAL
SEQRES 5 F 103 PRO GLY SER GLN HIS ILE ASP SER GLN LYS LYS ALA ILE
SEQRES 6 F 103 GLU ARG MET LYS ASP THR LEU ARG ILE ALA TYR LEU THR
SEQRES 7 F 103 GLU ALA LYS VAL GLU LYS LEU CYS VAL TRP ASN ASN LYS
SEQRES 8 F 103 THR PRO HIS ALA ILE ALA ALA ILE SER MET ALA ASN
SEQRES 1 G 103 THR PRO GLN ASN ILE THR ASP LEU CYS ALA GLU TYR HIS
SEQRES 2 G 103 ASN THR GLN ILE HIS THR LEU ASN ASP LYS ILE PHE SER
SEQRES 3 G 103 TYR THR GLU SER LEU ALA GLY LYS ARG GLU MET ALA ILE
SEQRES 4 G 103 ILE THR PHE LYS ASN GLY ALA THR PHE GLN VAL GLU VAL
SEQRES 5 G 103 PRO GLY SER GLN HIS ILE ASP SER GLN LYS LYS ALA ILE
SEQRES 6 G 103 GLU ARG MET LYS ASP THR LEU ARG ILE ALA TYR LEU THR
SEQRES 7 G 103 GLU ALA LYS VAL GLU LYS LEU CYS VAL TRP ASN ASN LYS
SEQRES 8 G 103 THR PRO HIS ALA ILE ALA ALA ILE SER MET ALA ASN
SEQRES 1 H 103 THR PRO GLN ASN ILE THR ASP LEU CYS ALA GLU TYR HIS
SEQRES 2 H 103 ASN THR GLN ILE HIS THR LEU ASN ASP LYS ILE PHE SER
SEQRES 3 H 103 TYR THR GLU SER LEU ALA GLY LYS ARG GLU MET ALA ILE
SEQRES 4 H 103 ILE THR PHE LYS ASN GLY ALA THR PHE GLN VAL GLU VAL
SEQRES 5 H 103 PRO GLY SER GLN HIS ILE ASP SER GLN LYS LYS ALA ILE
SEQRES 6 H 103 GLU ARG MET LYS ASP THR LEU ARG ILE ALA TYR LEU THR
SEQRES 7 H 103 GLU ALA LYS VAL GLU LYS LEU CYS VAL TRP ASN ASN LYS
SEQRES 8 H 103 THR PRO HIS ALA ILE ALA ALA ILE SER MET ALA ASN
HET BV4 D 104 24
HET BV4 E 105 24
HET BV4 F 106 24
HET BV4 G 107 24
HET BV4 H 108 24
HET TRS H 109 8
HET PGE H 110 10
HETNAM BV4 1,3-BIS-([3-[3-[3-(4-{3-[3-NITRO-5-
HETNAM 2 BV4 (GALACTOPYRANOSYLOXY)-BENZOYLAMINO]-PROPYL}-PIPERAZIN-
HETNAM 3 BV4 1-YL)-PROPYLAMINO-3,4-DIOXO-CYCLOBUTENYL]-AMINO-
HETNAM 4 BV4 PROPOXY-ETHOXY-ETHOXY]-PROPYL-]AMINO-CARBONYLOXY)-2-
HETNAM 5 BV4 AMINO-PROPANE
HETNAM TRS 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL
HETNAM PGE TRIETHYLENE GLYCOL
HETSYN BV4 BV4
HETSYN TRS TRIS BUFFER
FORMUL 6 BV4 5(C79 H123 N15 O32)
FORMUL 11 TRS C4 H12 N O3 1+
FORMUL 12 PGE C6 H14 O4
FORMUL 13 HOH *498(H2 O)
HELIX 1 1 ASN D 4 ALA D 10 1 7
HELIX 2 2 ILE D 58 GLU D 79 1 22
HELIX 3 3 ASN E 4 ALA E 10 1 7
HELIX 4 4 SER E 60 GLU E 79 1 20
HELIX 5 5 ASN F 4 GLU F 11 1 8
HELIX 6 6 SER F 60 GLU F 79 1 20
HELIX 7 7 ASN G 4 ALA G 10 1 7
HELIX 8 8 SER G 60 GLU G 79 1 20
HELIX 9 9 ASN H 4 ALA H 10 1 7
HELIX 10 10 SER H 60 GLU H 79 1 20
SHEET 1 A39 THR D 15 LYS D 23 0
SHEET 2 A39 LYS D 81 TRP D 88 -1 O VAL D 87 N GLN D 16
SHEET 3 A39 HIS D 94 ALA D 102 -1 O ALA D 97 N CYS D 86
SHEET 4 A39 SER E 26 SER E 30 -1 O TYR E 27 N MET D 101
SHEET 5 A39 ALA E 38 THR E 41 -1 O ILE E 39 N THR E 28
SHEET 6 A39 THR E 47 VAL E 50 -1 O PHE E 48 N ILE E 40
SHEET 7 A39 HIS E 94 ALA E 102 1 O ILE E 96 N GLN E 49
SHEET 8 A39 VAL E 82 TRP E 88 -1 N CYS E 86 O ALA E 97
SHEET 9 A39 THR E 15 ASP E 22 -1 N HIS E 18 O LEU E 85
SHEET 10 A39 VAL E 82 TRP E 88 -1 O LEU E 85 N HIS E 18
SHEET 11 A39 HIS E 94 ALA E 102 -1 O ALA E 97 N CYS E 86
SHEET 12 A39 SER F 26 SER F 30 -1 O GLU F 29 N ILE E 99
SHEET 13 A39 ALA F 38 THR F 41 -1 O ILE F 39 N THR F 28
SHEET 14 A39 THR F 47 VAL F 50 -1 O PHE F 48 N ILE F 40
SHEET 15 A39 HIS F 94 ALA F 102 1 O ILE F 96 N GLN F 49
SHEET 16 A39 VAL F 82 TRP F 88 -1 N CYS F 86 O ALA F 97
SHEET 17 A39 THR F 15 ASP F 22 -1 N ASP F 22 O VAL F 82
SHEET 18 A39 VAL F 82 TRP F 88 -1 O VAL F 82 N ASP F 22
SHEET 19 A39 HIS F 94 ALA F 102 -1 O ALA F 97 N CYS F 86
SHEET 20 A39 SER G 26 SER G 30 -1 O TYR G 27 N MET F 101
SHEET 21 A39 MET G 37 THR G 41 -1 O ILE G 39 N THR G 28
SHEET 22 A39 THR G 47 VAL G 50 -1 O PHE G 48 N ILE G 40
SHEET 23 A39 HIS G 94 ALA G 102 1 O ILE G 96 N GLN G 49
SHEET 24 A39 VAL G 82 TRP G 88 -1 N CYS G 86 O ALA G 97
SHEET 25 A39 THR G 15 ASP G 22 -1 N HIS G 18 O LEU G 85
SHEET 26 A39 VAL G 82 TRP G 88 -1 O LEU G 85 N HIS G 18
SHEET 27 A39 HIS G 94 ALA G 102 -1 O ALA G 97 N CYS G 86
SHEET 28 A39 SER H 26 SER H 30 -1 O TYR H 27 N MET G 101
SHEET 29 A39 MET H 37 THR H 41 -1 O ILE H 39 N THR H 28
SHEET 30 A39 THR H 47 VAL H 50 -1 O PHE H 48 N ILE H 40
SHEET 31 A39 HIS H 94 ALA H 102 1 O ILE H 96 N GLN H 49
SHEET 32 A39 VAL H 82 TRP H 88 -1 N CYS H 86 O ALA H 97
SHEET 33 A39 THR H 15 ASP H 22 -1 N HIS H 18 O LEU H 85
SHEET 34 A39 VAL H 82 TRP H 88 -1 O LEU H 85 N HIS H 18
SHEET 35 A39 HIS H 94 ALA H 102 -1 O ALA H 97 N CYS H 86
SHEET 36 A39 SER D 26 SER D 30 -1 N TYR D 27 O MET H 101
SHEET 37 A39 ALA D 38 THR D 41 -1 O ILE D 39 N THR D 28
SHEET 38 A39 THR D 47 VAL D 50 -1 O PHE D 48 N ILE D 40
SHEET 39 A39 HIS D 94 ALA D 102 1 O ILE D 96 N GLN D 49
SSBOND 1 CYS D 9 CYS D 86 1555 1555 2.04
SSBOND 2 CYS E 9 CYS E 86 1555 1555 2.03
SSBOND 3 CYS F 9 CYS F 86 1555 1555 2.06
SSBOND 4 CYS G 9 CYS G 86 1555 1555 2.06
SSBOND 5 CYS H 9 CYS H 86 1555 1555 2.07
CISPEP 1 THR D 92 PRO D 93 0 -9.10
CISPEP 2 THR E 92 PRO E 93 0 -7.63
CISPEP 3 THR F 92 PRO F 93 0 -8.80
CISPEP 4 THR G 92 PRO G 93 0 -11.14
CISPEP 5 THR H 92 PRO H 93 0 -10.53
SITE 1 AC1 12 TYR D 12 GLU D 51 GLN D 56 HIS D 57
SITE 2 AC1 12 GLN D 61 TRP D 88 ASN D 90 LYS D 91
SITE 3 AC1 12 HOH D1133 HOH D1352 HOH D1481 GLY E 33
SITE 1 AC2 10 TYR E 12 GLU E 51 GLN E 56 GLN E 61
SITE 2 AC2 10 TRP E 88 ASN E 90 LYS E 91 HOH E1262
SITE 3 AC2 10 HOH E1480 GLY F 33
SITE 1 AC3 11 TYR F 12 GLU F 51 GLN F 56 HIS F 57
SITE 2 AC3 11 GLN F 61 TRP F 88 ASN F 90 LYS F 91
SITE 3 AC3 11 HOH F1049 HOH F1152 GLY G 33
SITE 1 AC4 12 TYR G 12 GLU G 51 GLN G 56 HIS G 57
SITE 2 AC4 12 GLN G 61 TRP G 88 ASN G 90 LYS G 91
SITE 3 AC4 12 HOH G1018 HOH G1137 HOH G1261 GLY H 33
SITE 1 AC5 13 GLY D 33 TYR H 12 GLU H 51 GLN H 56
SITE 2 AC5 13 HIS H 57 GLN H 61 TRP H 88 ASN H 90
SITE 3 AC5 13 LYS H 91 HOH H1048 HOH H1150 HOH H1346
SITE 4 AC5 13 HOH H1479
SITE 1 AC6 10 ARG D 35 ASN F 14 ASN F 89 ASN F 90
SITE 2 AC6 10 THR H 1 PRO H 2 ASP H 7 GLU H 11
SITE 3 AC6 10 HOH H1075 HOH H1496
SITE 1 AC7 8 LYS D 91 THR D 92 ASN F 89 ASN F 90
SITE 2 AC7 8 LYS F 91 THR F 92 THR H 1 HOH H1472
CRYST1 102.235 66.028 78.642 90.00 105.80 90.00 C 1 2 1 20
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 0.009781 0.000000 0.002768 0.00000
SCALE2 0.000000 0.015145 0.000000 0.00000
SCALE3 0.000000 0.000000 0.013215 0.00000