HEADER VIRAL PROTEIN 20-OCT-08 3EYD
TITLE STRUCTURE OF HCV NS3-4A PROTEASE WITH AN INHIBITOR DERIVED FROM A
TITLE 2 BORONIC ACID
COMPND MOL_ID: 1;
COMPND 2 MOLECULE: HCV NS3;
COMPND 3 CHAIN: A, C;
COMPND 4 FRAGMENT: PROTEASE DOMAIN, UNP RESIDUES 1027-1207;
COMPND 5 ENGINEERED: YES;
COMPND 6 MOL_ID: 2;
COMPND 7 MOLECULE: HCV NS4A PEPTIDE;
COMPND 8 CHAIN: B, D;
COMPND 9 FRAGMENT: UNP RESIDUES 1678-1696;
COMPND 10 ENGINEERED: YES;
COMPND 11 MUTATION: YES
SOURCE MOL_ID: 1;
SOURCE 2 ORGANISM_SCIENTIFIC: HEPATITIS C VIRUS SUBTYPE 1A;
SOURCE 3 ORGANISM_TAXID: 31646;
SOURCE 4 STRAIN: H77 STRAIN OF GENOTYPE 1A;
SOURCE 5 GENE: NS3;
SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI;
SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562;
SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3);
SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID;
SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET-3A (NOVAGEN);
SOURCE 11 MOL_ID: 2;
SOURCE 12 SYNTHETIC: YES;
SOURCE 13 OTHER_DETAILS: PEPTIDES WERE SYNTHESIZED USING FMOC SOLID-PHASE
SOURCE 14 CHEMISTRY ON AN ABI 431 SYNTHESIZER (FOSTER CITY, CA). PRELOADED 2-
SOURCE 15 CHLOROTRITYL CHLORIDE RESIN OR WANG RESIN WAS USED FOR THE SOLID
SOURCE 16 PHASE ASSEMBLY OF NS4A ACTIVATOR PEPTIDE. THE SEQUENCE OF THE
SOURCE 17 PEPTIDE WAS LYS-LYS-GLY-SER-VAL-VAL-ILE-VAL-GLY-ARG-ILE-ILE-LEU-SER-
SOURCE 18 GLY-ARG-PRO-ALA-ILE-VAL-PRO-LYS-LYS-OH. TRIFUNCTIONAL RESIDUE
SOURCE 19 SIDECHAIN PROTECTING GROUPS INCLUDED TERT-BUTYL FOR SER, TERT-
SOURCE 20 BUTOXYCARBONYL FOR LYS, AND 2,2,4,6,7-PENTAMETHYLDIHYDROBENZOFURAN-
SOURCE 21 5-SULFONYL FOR ARG. CLEAVAGE AND SIDECHAIN DEPROTECTION WAS
SOURCE 22 ACCOMPLISHED USING 92.5% TRIFLUOROACETIC ACID, WITH 2.5% EACH OF
SOURCE 23 WATER, ETHANEDITHIOL AND TRIISOPROPYLSILANE FOR 2 HOURS. THE PEPTIDE
SOURCE 24 WAS PURIFIED BY REVERSED PHASE HPLC. THE PEPTIDE MOLECULAR WEIGHT
SOURCE 25 WAS CONFIRMED BY ELECTROSPRAY IONIZATION MASS SPECTROMETRY.
KEYWDS HEPATITIS C VIRUS, NS3 PROTEASE DOMAIN, SERINE PROTEASE, BORONIC ACID
KEYWDS 2 INHIBITOR, ENVELOPE PROTEIN, HELICASE, HYDROLASE, NUCLEOTIDE-
KEYWDS 3 BINDING, RNA REPLICATION, TRANSMEMBRANE, VIRAL PROTEIN
EXPDTA X-RAY DIFFRACTION
AUTHOR S.VENKATRAMAN,W.WU,A.J.PRONGAY,V.GIRIJAVALLABHAN,F.G.NJOROGE
REVDAT 5 20-NOV-24 3EYD 1 REMARK
REVDAT 4 03-APR-24 3EYD 1 REMARK
REVDAT 3 27-DEC-23 3EYD 1 REMARK
REVDAT 2 20-OCT-21 3EYD 1 REMARK SEQADV LINK
REVDAT 1 10-FEB-09 3EYD 0
JRNL AUTH S.VENKATRAMAN,W.WU,A.PRONGAY,V.GIRIJAVALLABHAN,
JRNL AUTH 2 F.GEORGE NJOROGE
JRNL TITL POTENT INHIBITORS OF HCV-NS3 PROTEASE DERIVED FROM BORONIC
JRNL TITL 2 ACIDS.
JRNL REF BIOORG.MED.CHEM.LETT. V. 19 180 2009
JRNL REFN ISSN 0960-894X
JRNL PMID 19022670
JRNL DOI 10.1016/J.BMCL.2008.10.124
REMARK 2
REMARK 2 RESOLUTION. 2.30 ANGSTROMS.
REMARK 3
REMARK 3 REFINEMENT.
REMARK 3 PROGRAM : X-PLOR 98.1
REMARK 3 AUTHORS : BRUNGER
REMARK 3
REMARK 3 DATA USED IN REFINEMENT.
REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.30
REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 8.00
REMARK 3 DATA CUTOFF (SIGMA(F)) : 1.000
REMARK 3 DATA CUTOFF HIGH (ABS(F)) : NULL
REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL
REMARK 3 COMPLETENESS (WORKING+TEST) (%) : NULL
REMARK 3 NUMBER OF REFLECTIONS : 20909
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 SET) : 0.180
REMARK 3 FREE R VALUE : 0.256
REMARK 3 FREE R VALUE TEST SET SIZE (%) : NULL
REMARK 3 FREE R VALUE TEST SET COUNT : 2089
REMARK 3 ESTIMATED ERROR OF FREE R VALUE : NULL
REMARK 3
REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN.
REMARK 3 TOTAL NUMBER OF BINS USED : NULL
REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.30
REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.40
REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 40.00
REMARK 3 REFLECTIONS IN BIN (WORKING SET) : NULL
REMARK 3 BIN R VALUE (WORKING SET) : 0.2876
REMARK 3 BIN FREE R VALUE : 0.3443
REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : NULL
REMARK 3 BIN FREE R VALUE TEST SET COUNT : 103
REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : NULL
REMARK 3
REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT.
REMARK 3 PROTEIN ATOMS : 2724
REMARK 3 NUCLEIC ACID ATOMS : 0
REMARK 3 HETEROGEN ATOMS : 45
REMARK 3 SOLVENT ATOMS : 257
REMARK 3
REMARK 3 B VALUES.
REMARK 3 FROM WILSON PLOT (A**2) : NULL
REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL
REMARK 3 OVERALL ANISOTROPIC B VALUE.
REMARK 3 B11 (A**2) : NULL
REMARK 3 B22 (A**2) : NULL
REMARK 3 B33 (A**2) : NULL
REMARK 3 B12 (A**2) : NULL
REMARK 3 B13 (A**2) : NULL
REMARK 3 B23 (A**2) : NULL
REMARK 3
REMARK 3 ESTIMATED COORDINATE ERROR.
REMARK 3 ESD FROM LUZZATI PLOT (A) : NULL
REMARK 3 ESD FROM SIGMAA (A) : NULL
REMARK 3 LOW RESOLUTION CUTOFF (A) : NULL
REMARK 3
REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR.
REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : NULL
REMARK 3 ESD FROM C-V SIGMAA (A) : NULL
REMARK 3
REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES.
REMARK 3 BOND LENGTHS (A) : 0.009
REMARK 3 BOND ANGLES (DEGREES) : 2.019
REMARK 3 DIHEDRAL ANGLES (DEGREES) : NULL
REMARK 3 IMPROPER ANGLES (DEGREES) : 1.476
REMARK 3
REMARK 3 ISOTROPIC THERMAL MODEL : ANOISTROPIC
REMARK 3
REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA
REMARK 3 MAIN-CHAIN BOND (A**2) : NULL ; NULL
REMARK 3 MAIN-CHAIN ANGLE (A**2) : NULL ; NULL
REMARK 3 SIDE-CHAIN BOND (A**2) : NULL ; NULL
REMARK 3 SIDE-CHAIN ANGLE (A**2) : NULL ; NULL
REMARK 3
REMARK 3 NCS MODEL : NULL
REMARK 3
REMARK 3 NCS RESTRAINTS. RMS SIGMA/WEIGHT
REMARK 3 GROUP 1 POSITIONAL (A) : NULL ; NULL
REMARK 3 GROUP 1 B-FACTOR (A**2) : NULL ; NULL
REMARK 3
REMARK 3 PARAMETER FILE 1 : NULL
REMARK 3 TOPOLOGY FILE 1 : NULL
REMARK 3
REMARK 3 OTHER REFINEMENT REMARKS: NULL
REMARK 4
REMARK 4 3EYD COMPLIES WITH FORMAT V. 3.30, 13-JUL-11
REMARK 100
REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 12-DEC-08.
REMARK 100 THE DEPOSITION ID IS D_1000049921.
REMARK 200
REMARK 200 EXPERIMENTAL DETAILS
REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION
REMARK 200 DATE OF DATA COLLECTION : 07-APR-04
REMARK 200 TEMPERATURE (KELVIN) : 100
REMARK 200 PH : 5.6
REMARK 200 NUMBER OF CRYSTALS USED : 1
REMARK 200
REMARK 200 SYNCHROTRON (Y/N) : Y
REMARK 200 RADIATION SOURCE : APS
REMARK 200 BEAMLINE : 17-ID
REMARK 200 X-RAY GENERATOR MODEL : NULL
REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M
REMARK 200 WAVELENGTH OR RANGE (A) : 1.000
REMARK 200 MONOCHROMATOR : NULL
REMARK 200 OPTICS : NULL
REMARK 200
REMARK 200 DETECTOR TYPE : CCD
REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 210
REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000
REMARK 200 DATA SCALING SOFTWARE : SCALEPACK
REMARK 200
REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 28576
REMARK 200 RESOLUTION RANGE HIGH (A) : 2.150
REMARK 200 RESOLUTION RANGE LOW (A) : 50.000
REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 1.000
REMARK 200
REMARK 200 OVERALL.
REMARK 200 COMPLETENESS FOR RANGE (%) : 71.6
REMARK 200 DATA REDUNDANCY : 2.800
REMARK 200 R MERGE (I) : 0.07500
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) : 2.15
REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.20
REMARK 200 COMPLETENESS FOR SHELL (%) : 20.6
REMARK 200 DATA REDUNDANCY IN SHELL : NULL
REMARK 200 R MERGE FOR SHELL (I) : 0.28800
REMARK 200 R SYM FOR SHELL (I) : NULL
REMARK 200 <I/SIGMA(I)> FOR SHELL : 2.000
REMARK 200
REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH
REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: FOURIER SYNTHESIS
REMARK 200 SOFTWARE USED: X-PLOR
REMARK 200 STARTING MODEL: HCV NS3(1-181)S139A - NS4A PDB2O8M.ENT
REMARK 200
REMARK 200 REMARK: NULL
REMARK 280
REMARK 280 CRYSTAL
REMARK 280 SOLVENT CONTENT, VS (%): 68.37
REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.89
REMARK 280
REMARK 280 CRYSTALLIZATION CONDITIONS: CRYSTALLIZATION WAS PERFORMED BY THE
REMARK 280 VAPOR DIFFUSION METHOD USING HANGING DROPS (4 L PROTEIN SOLUTION
REMARK 280 MIXED WITH 4 L (0.75 - 1.00) M NACL - 0.1 M MES - 0.1 M NA/K PO4,
REMARK 280 PH 5.6 - 6.2) SUSPENDED OVER 1 ML RESERVOIR SOLUTIONS OF (1.25 -
REMARK 280 1.50) M NACL - 0.1 M MES - 0.1 M NA/K PO4 - 5 MM -
REMARK 280 MERCAPTOETHANOL, PH 5.6-6.2. THE TRAYS WERE SET AT 4OC FOR 5-7
REMARK 280 DAYS TO CONTROL NUCLEATION, FOLLOWED BY INCUBATION FOR 3 WEEKS
REMARK 280 AT 12OC TO MAXIMIZE CRYSTAL GROWTH., VAPOR DIFFUSION, HANGING
REMARK 280 DROP, TEMPERATURE 277, THEN 285K
REMARK 290
REMARK 290 CRYSTALLOGRAPHIC SYMMETRY
REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: H 3 2
REMARK 290
REMARK 290 SYMOP SYMMETRY
REMARK 290 NNNMMM OPERATOR
REMARK 290 1555 X,Y,Z
REMARK 290 2555 -Y,X-Y,Z
REMARK 290 3555 -X+Y,-X,Z
REMARK 290 4555 Y,X,-Z
REMARK 290 5555 X-Y,-Y,-Z
REMARK 290 6555 -X,-X+Y,-Z
REMARK 290 7555 X+2/3,Y+1/3,Z+1/3
REMARK 290 8555 -Y+2/3,X-Y+1/3,Z+1/3
REMARK 290 9555 -X+Y+2/3,-X+1/3,Z+1/3
REMARK 290 10555 Y+2/3,X+1/3,-Z+1/3
REMARK 290 11555 X-Y+2/3,-Y+1/3,-Z+1/3
REMARK 290 12555 -X+2/3,-X+Y+1/3,-Z+1/3
REMARK 290 13555 X+1/3,Y+2/3,Z+2/3
REMARK 290 14555 -Y+1/3,X-Y+2/3,Z+2/3
REMARK 290 15555 -X+Y+1/3,-X+2/3,Z+2/3
REMARK 290 16555 Y+1/3,X+2/3,-Z+2/3
REMARK 290 17555 X-Y+1/3,-Y+2/3,-Z+2/3
REMARK 290 18555 -X+1/3,-X+Y+2/3,-Z+2/3
REMARK 290
REMARK 290 WHERE NNN -> OPERATOR NUMBER
REMARK 290 MMM -> TRANSLATION VECTOR
REMARK 290
REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS
REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM
REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY
REMARK 290 RELATED MOLECULES.
REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000
REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000
REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000
REMARK 290 SMTRY1 2 -0.500000 -0.866025 0.000000 0.00000
REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000
REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 0.00000
REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000
REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000
REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000
REMARK 290 SMTRY1 4 -0.500000 0.866025 0.000000 0.00000
REMARK 290 SMTRY2 4 0.866025 0.500000 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 0.00000
REMARK 290 SMTRY2 5 0.000000 -1.000000 0.000000 0.00000
REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 0.00000
REMARK 290 SMTRY1 6 -0.500000 -0.866025 0.000000 0.00000
REMARK 290 SMTRY2 6 -0.866025 0.500000 0.000000 0.00000
REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 0.00000
REMARK 290 SMTRY1 7 1.000000 0.000000 0.000000 112.24150
REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 64.80266
REMARK 290 SMTRY3 7 0.000000 0.000000 1.000000 25.26200
REMARK 290 SMTRY1 8 -0.500000 -0.866025 0.000000 112.24150
REMARK 290 SMTRY2 8 0.866025 -0.500000 0.000000 64.80266
REMARK 290 SMTRY3 8 0.000000 0.000000 1.000000 25.26200
REMARK 290 SMTRY1 9 -0.500000 0.866025 0.000000 112.24150
REMARK 290 SMTRY2 9 -0.866025 -0.500000 0.000000 64.80266
REMARK 290 SMTRY3 9 0.000000 0.000000 1.000000 25.26200
REMARK 290 SMTRY1 10 -0.500000 0.866025 0.000000 112.24150
REMARK 290 SMTRY2 10 0.866025 0.500000 0.000000 64.80266
REMARK 290 SMTRY3 10 0.000000 0.000000 -1.000000 25.26200
REMARK 290 SMTRY1 11 1.000000 0.000000 0.000000 112.24150
REMARK 290 SMTRY2 11 0.000000 -1.000000 0.000000 64.80266
REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 25.26200
REMARK 290 SMTRY1 12 -0.500000 -0.866025 0.000000 112.24150
REMARK 290 SMTRY2 12 -0.866025 0.500000 0.000000 64.80266
REMARK 290 SMTRY3 12 0.000000 0.000000 -1.000000 25.26200
REMARK 290 SMTRY1 13 1.000000 0.000000 0.000000 0.00000
REMARK 290 SMTRY2 13 0.000000 1.000000 0.000000 129.60532
REMARK 290 SMTRY3 13 0.000000 0.000000 1.000000 50.52400
REMARK 290 SMTRY1 14 -0.500000 -0.866025 0.000000 0.00000
REMARK 290 SMTRY2 14 0.866025 -0.500000 0.000000 129.60532
REMARK 290 SMTRY3 14 0.000000 0.000000 1.000000 50.52400
REMARK 290 SMTRY1 15 -0.500000 0.866025 0.000000 0.00000
REMARK 290 SMTRY2 15 -0.866025 -0.500000 0.000000 129.60532
REMARK 290 SMTRY3 15 0.000000 0.000000 1.000000 50.52400
REMARK 290 SMTRY1 16 -0.500000 0.866025 0.000000 0.00000
REMARK 290 SMTRY2 16 0.866025 0.500000 0.000000 129.60532
REMARK 290 SMTRY3 16 0.000000 0.000000 -1.000000 50.52400
REMARK 290 SMTRY1 17 1.000000 0.000000 0.000000 0.00000
REMARK 290 SMTRY2 17 0.000000 -1.000000 0.000000 129.60532
REMARK 290 SMTRY3 17 0.000000 0.000000 -1.000000 50.52400
REMARK 290 SMTRY1 18 -0.500000 -0.866025 0.000000 0.00000
REMARK 290 SMTRY2 18 -0.866025 0.500000 0.000000 129.60532
REMARK 290 SMTRY3 18 0.000000 0.000000 -1.000000 50.52400
REMARK 290
REMARK 290 REMARK: NULL
REMARK 300
REMARK 300 BIOMOLECULE: 1, 2, 3
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: THE ASYMMETRIC UNIT CONTAINS A DIMER OF THE NS3-NS4A
REMARK 300 COMPLEX. THIS IS ONLY THE PROTEASE DOMAIN OF NS3 AND A PEPTIDE OF
REMARK 300 NS4A. THIS DIMERIC STRUCTURE IS THE RESULT OF THE SOULTION
REMARK 300 STRUCTURE OF THE DOMAIN. THE FULL LENGTH NS3 CONTAINS A 3-DOMAIN
REMARK 300 HELICASE AS WELL AND WOULD NOT HAVE THE SAME DIMERIC INTERFACES.
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: 2680 ANGSTROM**2
REMARK 350 SURFACE AREA OF THE COMPLEX: 10090 ANGSTROM**2
REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -51.0 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 350
REMARK 350 BIOMOLECULE: 2
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: 1690 ANGSTROM**2
REMARK 350 SURFACE AREA OF THE COMPLEX: 7780 ANGSTROM**2
REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -47.0 KCAL/MOL
REMARK 350 APPLY THE FOLLOWING TO CHAINS: C, 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 350
REMARK 350 BIOMOLECULE: 3
REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC
REMARK 350 SOFTWARE USED: PISA
REMARK 350 TOTAL BURIED SURFACE AREA: 6670 ANGSTROM**2
REMARK 350 SURFACE AREA OF THE COMPLEX: 15580 ANGSTROM**2
REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -121.0 KCAL/MOL
REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C, 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 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 MET A -10
REMARK 465 ALA A -9
REMARK 465 SER A -8
REMARK 465 MET A -7
REMARK 465 THR A -6
REMARK 465 GLY A -5
REMARK 465 GLY A -4
REMARK 465 GLN A -3
REMARK 465 GLN A -2
REMARK 465 MET A -1
REMARK 465 GLY A 0
REMARK 465 GLY A 182
REMARK 465 SER A 183
REMARK 465 HIS A 184
REMARK 465 HIS A 185
REMARK 465 HIS A 186
REMARK 465 HIS A 187
REMARK 465 HIS A 188
REMARK 465 HIS A 189
REMARK 465 LYS B 19
REMARK 465 MET C -10
REMARK 465 ALA C -9
REMARK 465 SER C -8
REMARK 465 MET C -7
REMARK 465 THR C -6
REMARK 465 GLY C -5
REMARK 465 GLY C -4
REMARK 465 GLN C -3
REMARK 465 GLN C -2
REMARK 465 MET C -1
REMARK 465 GLY C 0
REMARK 465 ALA C 1
REMARK 465 PRO C 2
REMARK 465 ILE C 3
REMARK 465 THR C 4
REMARK 465 ALA C 5
REMARK 465 TYR C 6
REMARK 465 ALA C 7
REMARK 465 GLN C 8
REMARK 465 GLN C 9
REMARK 465 THR C 10
REMARK 465 ARG C 11
REMARK 465 GLY C 12
REMARK 465 LEU C 13
REMARK 465 LEU C 14
REMARK 465 GLY C 15
REMARK 465 CYS C 16
REMARK 465 ILE C 17
REMARK 465 ILE C 18
REMARK 465 THR C 19
REMARK 465 SER C 20
REMARK 465 LEU C 21
REMARK 465 THR C 22
REMARK 465 GLY C 23
REMARK 465 ARG C 24
REMARK 465 ASP C 25
REMARK 465 LYS C 26
REMARK 465 ASN C 27
REMARK 465 GLN C 28
REMARK 465 ARG C 180
REMARK 465 SER C 181
REMARK 465 GLY C 182
REMARK 465 SER C 183
REMARK 465 HIS C 184
REMARK 465 HIS C 185
REMARK 465 HIS C 186
REMARK 465 HIS C 187
REMARK 465 HIS C 188
REMARK 465 HIS C 189
REMARK 465 LYS D 19
REMARK 465 LYS D 20
REMARK 465 ILE D 37
REMARK 465 ILE D 38
REMARK 465 PRO D 39
REMARK 465 LYS D 40
REMARK 465 LYS D 41
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 ZN ZN A 901 O HOH A 197 1.65
REMARK 500 OG SER A 139 O43 BE8 A 401 1.88
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 ARG A 119 -72.06 -109.99
REMARK 500 PRO B 35 128.59 -39.34
REMARK 500
REMARK 500 REMARK: NULL
REMARK 620
REMARK 620 METAL COORDINATION
REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER;
REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE):
REMARK 620
REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL
REMARK 620 ZN A 901 ZN
REMARK 620 N RES CSSEQI ATOM
REMARK 620 1 CYS A 97 SG
REMARK 620 2 CYS A 99 SG 103.8
REMARK 620 3 CYS A 145 SG 101.3 116.2
REMARK 620 N 1 2
REMARK 620
REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL
REMARK 620 ZN C 901 ZN
REMARK 620 N RES CSSEQI ATOM
REMARK 620 1 CYS C 97 SG
REMARK 620 2 CYS C 145 SG 91.1
REMARK 620 3 HOH C 190 O 114.0 122.2
REMARK 620 N 1 2
REMARK 800
REMARK 800 SITE
REMARK 800 SITE_IDENTIFIER: AC1
REMARK 800 EVIDENCE_CODE: SOFTWARE
REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 901
REMARK 800
REMARK 800 SITE_IDENTIFIER: AC2
REMARK 800 EVIDENCE_CODE: SOFTWARE
REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE BE8 A 401
REMARK 800
REMARK 800 SITE_IDENTIFIER: AC3
REMARK 800 EVIDENCE_CODE: SOFTWARE
REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN C 901
DBREF 3EYD A 1 181 UNP Q9ELS8 Q9ELS8_9HEPC 1027 1207
DBREF 3EYD B 21 39 UNP Q9ELS8 Q9ELS8_9HEPC 1678 1696
DBREF 3EYD C 1 181 UNP Q9ELS8 Q9ELS8_9HEPC 1027 1207
DBREF 3EYD D 21 39 UNP Q9ELS8 Q9ELS8_9HEPC 1678 1696
SEQADV 3EYD MET A -10 UNP Q9ELS8 EXPRESSION TAG
SEQADV 3EYD ALA A -9 UNP Q9ELS8 EXPRESSION TAG
SEQADV 3EYD SER A -8 UNP Q9ELS8 EXPRESSION TAG
SEQADV 3EYD MET A -7 UNP Q9ELS8 EXPRESSION TAG
SEQADV 3EYD THR A -6 UNP Q9ELS8 EXPRESSION TAG
SEQADV 3EYD GLY A -5 UNP Q9ELS8 EXPRESSION TAG
SEQADV 3EYD GLY A -4 UNP Q9ELS8 EXPRESSION TAG
SEQADV 3EYD GLN A -3 UNP Q9ELS8 EXPRESSION TAG
SEQADV 3EYD GLN A -2 UNP Q9ELS8 EXPRESSION TAG
SEQADV 3EYD MET A -1 UNP Q9ELS8 EXPRESSION TAG
SEQADV 3EYD GLY A 0 UNP Q9ELS8 EXPRESSION TAG
SEQADV 3EYD ARG A 119 UNP Q9ELS8 GLN 1145 CONFLICT
SEQADV 3EYD GLY A 182 UNP Q9ELS8 EXPRESSION TAG
SEQADV 3EYD SER A 183 UNP Q9ELS8 EXPRESSION TAG
SEQADV 3EYD HIS A 184 UNP Q9ELS8 EXPRESSION TAG
SEQADV 3EYD HIS A 185 UNP Q9ELS8 EXPRESSION TAG
SEQADV 3EYD HIS A 186 UNP Q9ELS8 EXPRESSION TAG
SEQADV 3EYD HIS A 187 UNP Q9ELS8 EXPRESSION TAG
SEQADV 3EYD HIS A 188 UNP Q9ELS8 EXPRESSION TAG
SEQADV 3EYD HIS A 189 UNP Q9ELS8 EXPRESSION TAG
SEQADV 3EYD LYS B 19 UNP Q9ELS8 EXPRESSION TAG
SEQADV 3EYD LYS B 20 UNP Q9ELS8 EXPRESSION TAG
SEQADV 3EYD SER B 22 UNP Q9ELS8 CYS 1679 ENGINEERED MUTATION
SEQADV 3EYD LYS B 40 UNP Q9ELS8 EXPRESSION TAG
SEQADV 3EYD LYS B 41 UNP Q9ELS8 EXPRESSION TAG
SEQADV 3EYD MET C -10 UNP Q9ELS8 EXPRESSION TAG
SEQADV 3EYD ALA C -9 UNP Q9ELS8 EXPRESSION TAG
SEQADV 3EYD SER C -8 UNP Q9ELS8 EXPRESSION TAG
SEQADV 3EYD MET C -7 UNP Q9ELS8 EXPRESSION TAG
SEQADV 3EYD THR C -6 UNP Q9ELS8 EXPRESSION TAG
SEQADV 3EYD GLY C -5 UNP Q9ELS8 EXPRESSION TAG
SEQADV 3EYD GLY C -4 UNP Q9ELS8 EXPRESSION TAG
SEQADV 3EYD GLN C -3 UNP Q9ELS8 EXPRESSION TAG
SEQADV 3EYD GLN C -2 UNP Q9ELS8 EXPRESSION TAG
SEQADV 3EYD MET C -1 UNP Q9ELS8 EXPRESSION TAG
SEQADV 3EYD GLY C 0 UNP Q9ELS8 EXPRESSION TAG
SEQADV 3EYD ARG C 119 UNP Q9ELS8 GLN 1145 CONFLICT
SEQADV 3EYD GLY C 182 UNP Q9ELS8 EXPRESSION TAG
SEQADV 3EYD SER C 183 UNP Q9ELS8 EXPRESSION TAG
SEQADV 3EYD HIS C 184 UNP Q9ELS8 EXPRESSION TAG
SEQADV 3EYD HIS C 185 UNP Q9ELS8 EXPRESSION TAG
SEQADV 3EYD HIS C 186 UNP Q9ELS8 EXPRESSION TAG
SEQADV 3EYD HIS C 187 UNP Q9ELS8 EXPRESSION TAG
SEQADV 3EYD HIS C 188 UNP Q9ELS8 EXPRESSION TAG
SEQADV 3EYD HIS C 189 UNP Q9ELS8 EXPRESSION TAG
SEQADV 3EYD LYS D 19 UNP Q9ELS8 EXPRESSION TAG
SEQADV 3EYD LYS D 20 UNP Q9ELS8 EXPRESSION TAG
SEQADV 3EYD SER D 22 UNP Q9ELS8 CYS 1679 ENGINEERED MUTATION
SEQADV 3EYD LYS D 40 UNP Q9ELS8 EXPRESSION TAG
SEQADV 3EYD LYS D 41 UNP Q9ELS8 EXPRESSION TAG
SEQRES 1 A 200 MET ALA SER MET THR GLY GLY GLN GLN MET GLY ALA PRO
SEQRES 2 A 200 ILE THR ALA TYR ALA GLN GLN THR ARG GLY LEU LEU GLY
SEQRES 3 A 200 CYS ILE ILE THR SER LEU THR GLY ARG ASP LYS ASN GLN
SEQRES 4 A 200 VAL GLU GLY GLU VAL GLN ILE VAL SER THR ALA THR GLN
SEQRES 5 A 200 THR PHE LEU ALA THR CYS ILE ASN GLY VAL CYS TRP THR
SEQRES 6 A 200 VAL TYR HIS GLY ALA GLY THR ARG THR ILE ALA SER PRO
SEQRES 7 A 200 LYS GLY PRO VAL ILE GLN MET TYR THR ASN VAL ASP GLN
SEQRES 8 A 200 ASP LEU VAL GLY TRP PRO ALA PRO GLN GLY SER ARG SER
SEQRES 9 A 200 LEU THR PRO CYS THR CYS GLY SER SER ASP LEU TYR LEU
SEQRES 10 A 200 VAL THR ARG HIS ALA ASP VAL ILE PRO VAL ARG ARG ARG
SEQRES 11 A 200 GLY ASP SER ARG GLY SER LEU LEU SER PRO ARG PRO ILE
SEQRES 12 A 200 SER TYR LEU LYS GLY SER SER GLY GLY PRO LEU LEU CYS
SEQRES 13 A 200 PRO ALA GLY HIS ALA VAL GLY LEU PHE ARG ALA ALA VAL
SEQRES 14 A 200 CYS THR ARG GLY VAL ALA LYS ALA VAL ASP PHE ILE PRO
SEQRES 15 A 200 VAL GLU ASN LEU GLU THR THR MET ARG SER GLY SER HIS
SEQRES 16 A 200 HIS HIS HIS HIS HIS
SEQRES 1 B 23 LYS LYS GLY SER VAL VAL ILE VAL GLY ARG ILE VAL LEU
SEQRES 2 B 23 SER GLY LYS PRO ALA ILE ILE PRO LYS LYS
SEQRES 1 C 200 MET ALA SER MET THR GLY GLY GLN GLN MET GLY ALA PRO
SEQRES 2 C 200 ILE THR ALA TYR ALA GLN GLN THR ARG GLY LEU LEU GLY
SEQRES 3 C 200 CYS ILE ILE THR SER LEU THR GLY ARG ASP LYS ASN GLN
SEQRES 4 C 200 VAL GLU GLY GLU VAL GLN ILE VAL SER THR ALA THR GLN
SEQRES 5 C 200 THR PHE LEU ALA THR CYS ILE ASN GLY VAL CYS TRP THR
SEQRES 6 C 200 VAL TYR HIS GLY ALA GLY THR ARG THR ILE ALA SER PRO
SEQRES 7 C 200 LYS GLY PRO VAL ILE GLN MET TYR THR ASN VAL ASP GLN
SEQRES 8 C 200 ASP LEU VAL GLY TRP PRO ALA PRO GLN GLY SER ARG SER
SEQRES 9 C 200 LEU THR PRO CYS THR CYS GLY SER SER ASP LEU TYR LEU
SEQRES 10 C 200 VAL THR ARG HIS ALA ASP VAL ILE PRO VAL ARG ARG ARG
SEQRES 11 C 200 GLY ASP SER ARG GLY SER LEU LEU SER PRO ARG PRO ILE
SEQRES 12 C 200 SER TYR LEU LYS GLY SER SER GLY GLY PRO LEU LEU CYS
SEQRES 13 C 200 PRO ALA GLY HIS ALA VAL GLY LEU PHE ARG ALA ALA VAL
SEQRES 14 C 200 CYS THR ARG GLY VAL ALA LYS ALA VAL ASP PHE ILE PRO
SEQRES 15 C 200 VAL GLU ASN LEU GLU THR THR MET ARG SER GLY SER HIS
SEQRES 16 C 200 HIS HIS HIS HIS HIS
SEQRES 1 D 23 LYS LYS GLY SER VAL VAL ILE VAL GLY ARG ILE VAL LEU
SEQRES 2 D 23 SER GLY LYS PRO ALA ILE ILE PRO LYS LYS
HET ZN A 901 1
HET BE8 A 401 43
HET ZN C 901 1
HETNAM ZN ZINC ION
HETNAM BE8 [(1R)-2-CYCLOBUTYL-1-({[(1R,2S,5S)-3-(N-{[(1S)-2,2-
HETNAM 2 BE8 DIMETHYL-1-{[METHYL(METHYLSULFONYL)
HETNAM 3 BE8 AMINO]METHYL}PROPYL]CARBAMOYL}-3-METHYL-L-VALYL)-6,6-
HETNAM 4 BE8 DIMETHYL-3-AZABICYCLO[3.1.0]HEX-2-YL]CARBONYL}AMINO)
HETNAM 5 BE8 ETHYL]BORONIC ACID
FORMUL 5 ZN 2(ZN 2+)
FORMUL 6 BE8 C29 H54 B N5 O7 S
FORMUL 8 HOH *257(H2 O)
HELIX 1 1 GLY A 12 GLY A 23 1 12
HELIX 2 2 TYR A 56 GLY A 60 1 5
HELIX 3 3 ILE A 132 LYS A 136 1 5
HELIX 4 4 VAL A 172 ARG A 180 1 9
HELIX 5 5 TYR C 56 GLY C 60 1 5
HELIX 6 6 ILE C 132 LYS C 136 1 5
HELIX 7 7 VAL C 172 MET C 179 1 8
SHEET 1 A 7 TYR A 6 GLN A 9 0
SHEET 2 A 7 VAL B 24 VAL B 30 -1 O VAL B 30 N TYR A 6
SHEET 3 A 7 VAL A 33 SER A 37 -1 N ILE A 35 O GLY B 27
SHEET 4 A 7 THR A 42 ILE A 48 -1 O PHE A 43 N VAL A 36
SHEET 5 A 7 VAL A 51 VAL A 55 -1 O TRP A 53 N THR A 46
SHEET 6 A 7 LEU A 82 PRO A 86 -1 O TRP A 85 N CYS A 52
SHEET 7 A 7 TYR A 75 ASN A 77 -1 N ASN A 77 O LEU A 82
SHEET 1 B 2 ILE A 64 SER A 66 0
SHEET 2 B 2 GLY A 69 VAL A 71 -1 O VAL A 71 N ILE A 64
SHEET 1 C 7 ASP A 103 VAL A 107 0
SHEET 2 C 7 VAL A 113 ARG A 118 -1 O VAL A 116 N LEU A 104
SHEET 3 C 7 ARG A 123 PRO A 131 -1 O SER A 125 N ARG A 117
SHEET 4 C 7 VAL A 163 PRO A 171 -1 O ALA A 164 N ARG A 130
SHEET 5 C 7 ALA A 150 THR A 160 -1 N ALA A 156 O ASP A 168
SHEET 6 C 7 PRO A 142 LEU A 144 -1 N LEU A 143 O VAL A 151
SHEET 7 C 7 ASP A 103 VAL A 107 -1 N TYR A 105 O LEU A 144
SHEET 1 D 3 ALA B 36 ILE B 37 0
SHEET 2 D 3 SER D 22 VAL D 30 -1 O VAL D 30 N ALA B 36
SHEET 3 D 3 THR C 63 ILE C 64 1 N THR C 63 O VAL D 23
SHEET 1 E 7 ALA B 36 ILE B 37 0
SHEET 2 E 7 SER D 22 VAL D 30 -1 O VAL D 30 N ALA B 36
SHEET 3 E 7 VAL C 33 SER C 37 -1 N ILE C 35 O VAL D 26
SHEET 4 E 7 THR C 42 ILE C 48 -1 O ALA C 45 N GLN C 34
SHEET 5 E 7 VAL C 51 VAL C 55 -1 O TRP C 53 N THR C 46
SHEET 6 E 7 LEU C 82 PRO C 86 -1 O TRP C 85 N CYS C 52
SHEET 7 E 7 TYR C 75 ASN C 77 -1 N ASN C 77 O LEU C 82
SHEET 1 F 7 ASP C 103 VAL C 107 0
SHEET 2 F 7 VAL C 113 GLY C 120 -1 O VAL C 116 N LEU C 104
SHEET 3 F 7 ARG C 123 PRO C 131 -1 O ARG C 123 N ARG C 119
SHEET 4 F 7 VAL C 163 PRO C 171 -1 O ALA C 164 N ARG C 130
SHEET 5 F 7 ALA C 150 THR C 160 -1 N VAL C 158 O ALA C 166
SHEET 6 F 7 PRO C 142 LEU C 144 -1 N LEU C 143 O VAL C 151
SHEET 7 F 7 ASP C 103 VAL C 107 -1 N TYR C 105 O LEU C 144
LINK OG SER A 139 B36 BE8 A 401 1555 1555 1.45
LINK SG CYS A 97 ZN ZN A 901 1555 1555 2.13
LINK SG CYS A 99 ZN ZN A 901 1555 1555 2.18
LINK SG CYS A 145 ZN ZN A 901 1555 1555 2.45
LINK SG CYS C 97 ZN ZN C 901 1555 1555 2.29
LINK SG CYS C 145 ZN ZN C 901 1555 1555 2.16
LINK O HOH C 190 ZN ZN C 901 1555 1555 2.35
SITE 1 AC1 4 CYS A 97 CYS A 99 CYS A 145 HOH A 197
SITE 1 AC2 13 HIS A 57 ARG A 123 ILE A 132 GLY A 137
SITE 2 AC2 13 SER A 138 SER A 139 PHE A 154 ARG A 155
SITE 3 AC2 13 ALA A 156 ALA A 157 VAL A 158 CYS A 159
SITE 4 AC2 13 HOH A 238
SITE 1 AC3 4 CYS C 97 CYS C 99 CYS C 145 HOH C 190
CRYST1 224.483 224.483 75.786 90.00 90.00 120.00 H 3 2 36
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 0.004455 0.002572 0.000000 0.00000
SCALE2 0.000000 0.005144 0.000000 0.00000
SCALE3 0.000000 0.000000 0.013195 0.00000