10 20 30 40 50 60 70 80 1Y8E - Header ----|----|----|----|----|----|----|----|----|----|----|----|----|----|----|----| Asymmetric UnitHEADER VIRAL PROTEIN 12-DEC-04 1Y8E
TITLE VCP:SURAMIN COMPLEX
COMPND MOL_ID: 1; COMPND 2 MOLECULE: COMPLEMENT CONTROL PROTEIN; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: VCP, SECRETORY PROTEIN 35, PROTEIN C3, 28 KDA COMPND 5 PROTEIN; COMPND 6 ENGINEERED: YES
SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: VACCINIA VIRUS; SOURCE 3 ORGANISM_TAXID: 10245; SOURCE 4 STRAIN: WESTERN RESERVE; SOURCE 5 EXPRESSION_SYSTEM: PICHIA PASTORIS; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 4922
KEYWDS BETA BARREL, VIRAL PROTEIN
EXPDTA X-RAY DIFFRACTION
AUTHOR V.K.GANESH,S.K.MUTHUVEL,S.A.SMITH,G.J.KOTWAL,K.H.MURTHY
REVDAT 2 24-FEB-09 1Y8E 1 VERSN REVDAT 1 23-AUG-05 1Y8E 0
JRNL AUTH V.K.GANESH,S.K.MUTHUVEL,S.A.SMITH,G.J.KOTWAL, JRNL AUTH 2 K.H.MURTHY JRNL TITL STRUCTURAL BASIS FOR ANTAGONISM BY SURAMIN OF JRNL TITL 2 HEPARIN BINDING TO VACCINIA COMPLEMENT PROTEIN. JRNL REF BIOCHEMISTRY V. 44 10757 2005 JRNL REFN ISSN 0006-2960 JRNL PMID 16086578 JRNL DOI 10.1021/BI050401X
REMARK 1
REMARK 2 REMARK 2 RESOLUTION. 2.20 ANGSTROMS.
REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 1.0 REMARK 3 AUTHORS : BRUNGER,ADAMS,CLORE,DELANO,GROS,GROSSE- REMARK 3 : KUNSTLEVE,JIANG,KUSZEWSKI,NILGES, PANNU, REMARK 3 : READ,RICE,SIMONSON,WARREN REMARK 3 REMARK 3 REFINEMENT TARGET : ENGH & HUBER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.20 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 150.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : NULL REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 89.5 REMARK 3 NUMBER OF REFLECTIONS : 62850 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : R-FREE REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING SET) : 0.195 REMARK 3 FREE R VALUE : 0.215 REMARK 3 FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 FREE R VALUE TEST SET COUNT : 6288 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) : 2.17 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.27 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 89.50 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.2490 REMARK 3 BIN FREE R VALUE : 0.2650 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 BIN FREE R VALUE TEST SET COUNT : 516 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.000 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3709 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 172 REMARK 3 SOLVENT ATOMS : 494 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 15.20 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 31.50 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.00000 REMARK 3 B22 (A**2) : 0.00000 REMARK 3 B33 (A**2) : 0.00000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.00 REMARK 3 ESD FROM SIGMAA (A) : 0.00 REMARK 3 LOW RESOLUTION CUTOFF (A) : 0.00 REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : 0.00 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.00 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.017 REMARK 3 BOND ANGLES (DEGREES) : 1.40 REMARK 3 DIHEDRAL ANGLES (DEGREES) : NULL REMARK 3 IMPROPER ANGLES (DEGREES) : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : ISOTROPIC 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 BULK SOLVENT MODELING. REMARK 3 METHOD USED : NULL REMARK 3 KSOL : NULL REMARK 3 BSOL : 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 1Y8E COMPLIES WITH FORMAT V. 3.15, 01-DEC-08
REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 16-DEC-04. REMARK 100 THE RCSB ID CODE IS RCSB031245.
REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 11-APR-02 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.4 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 22-ID REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9791 REMARK 200 MONOCHROMATOR : SI111 REMARK 200 OPTICS : SI111 REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 62850 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.200 REMARK 200 RESOLUTION RANGE LOW (A) : 150.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 4.800 REMARK 200 R MERGE (I) : 0.04000 REMARK 200 R SYM (I) : 0.04000 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 14.5000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.20 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.30 REMARK 200 COMPLETENESS FOR SHELL (%) : 86.5 REMARK 200 DATA REDUNDANCY IN SHELL : 3.20 REMARK 200 R MERGE FOR SHELL (I) : 0.11300 REMARK 200 R SYM FOR SHELL (I) : 0.11300 REMARK 200 <I/SIGMA(I)> FOR SHELL : 8.200 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: BEAST REMARK 200 STARTING MODEL: NATIVE VCP STRUCTURE REMARK 200 REMARK 200 REMARK: NULL
REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 77.10 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 5.41 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG3350, NICL2, BETA OCTYL REMARK 280 GLUCOSIDE, PH 7.4, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE REMARK 280 293K
REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 2 2 2 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,Y,-Z REMARK 290 4555 X,-Y,-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 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL
REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA.
REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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 CYS B 1
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 GLU B 108 CB CG CD OE1 OE2
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 OE2 GLU B 144 OH TYR B 147 1.42 REMARK 500 SG CYS B 2 OD2 ASP B 29 1.60 REMARK 500 OD2 ASP B 29 SG CYS B 51 1.71 REMARK 500 O ILE A 100 CB PRO A 122 1.83 REMARK 500 CB ASP B 29 CB CYS B 51 1.94 REMARK 500 CA TYR B 97 O SER B 126 2.00 REMARK 500 O SER B 16 N GLU B 18 2.09 REMARK 500 SG CYS B 2 CG ASP B 29 2.18 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 O HOH A 582 O HOH A 582 2555 1.42 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 ARG A 7 NE - CZ - NH1 ANGL. DEV. = 3.7 DEGREES REMARK 500 GLU A 18 C - N - CA ANGL. DEV. = 15.3 DEGREES REMARK 500 ARG A 40 NE - CZ - NH1 ANGL. DEV. = 3.3 DEGREES REMARK 500 THR A 57 CA - C - N ANGL. DEV. = -13.2 DEGREES REMARK 500 LEU A 58 C - N - CA ANGL. DEV. = 16.0 DEGREES REMARK 500 LEU A 58 CA - C - N ANGL. DEV. = -14.6 DEGREES REMARK 500 ARG A 65 NE - CZ - NH1 ANGL. DEV. = 3.3 DEGREES REMARK 500 ARG A 66 NE - CZ - NH1 ANGL. DEV. = 3.4 DEGREES REMARK 500 LEU A 78 CA - CB - CG ANGL. DEV. = 14.9 DEGREES REMARK 500 TYR A 97 CA - CB - CG ANGL. DEV. = 14.3 DEGREES REMARK 500 SER A 114 N - CA - CB ANGL. DEV. = 9.6 DEGREES REMARK 500 CYS A 157 CA - CB - SG ANGL. DEV. = 6.8 DEGREES REMARK 500 LEU A 197 CA - CB - CG ANGL. DEV. = 15.9 DEGREES REMARK 500 TYR A 219 CA - CB - CG ANGL. DEV. = 13.2 DEGREES REMARK 500 ARG B 7 NE - CZ - NH1 ANGL. DEV. = 3.5 DEGREES REMARK 500 ARG B 40 NE - CZ - NH1 ANGL. DEV. = 3.4 DEGREES REMARK 500 ARG B 65 NE - CZ - NH1 ANGL. DEV. = 3.3 DEGREES REMARK 500 ARG B 66 NE - CZ - NH1 ANGL. DEV. = 3.1 DEGREES REMARK 500 LEU B 78 CA - CB - CG ANGL. DEV. = 14.4 DEGREES REMARK 500 TYR B 97 CA - CB - CG ANGL. DEV. = 19.1 DEGREES REMARK 500 VAL B 116 CA - C - N ANGL. DEV. = -13.5 DEGREES REMARK 500 CYS B 171 CA - CB - SG ANGL. DEV. = 7.5 DEGREES REMARK 500 LEU B 197 CA - CB - CG ANGL. DEV. = 15.9 DEGREES REMARK 500 ARG B 203 CD - NE - CZ ANGL. DEV. = 8.6 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 PRO A 8 136.92 -33.14 REMARK 500 ASN A 10 70.52 60.41 REMARK 500 ASN A 15 87.70 -150.91 REMARK 500 VAL A 17 98.59 -25.53 REMARK 500 GLU A 18 92.14 95.49 REMARK 500 ALA A 23 -116.71 -118.83 REMARK 500 TYR A 25 -133.30 -129.17 REMARK 500 ILE A 27 72.14 48.52 REMARK 500 PRO A 37 -72.51 -25.68 REMARK 500 MET A 44 86.42 86.82 REMARK 500 THR A 54 -53.89 157.36 REMARK 500 LEU A 58 78.95 79.47 REMARK 500 PHE A 59 -154.06 34.70 REMARK 500 ASN A 60 124.17 169.01 REMARK 500 ILE A 63 -156.96 -125.87 REMARK 500 ILE A 73 -157.16 -95.51 REMARK 500 ASP A 79 63.79 -115.21 REMARK 500 ASP A 84 -94.51 -95.03 REMARK 500 PHE A 85 84.88 -150.72 REMARK 500 SER A 95 106.87 -37.81 REMARK 500 LYS A 104 134.16 162.40 REMARK 500 SER A 111 -98.74 -161.10 REMARK 500 SER A 114 152.54 154.21 REMARK 500 ASN A 118 -84.73 -89.07 REMARK 500 GLU A 120 -40.31 -144.58 REMARK 500 SER A 126 78.58 98.33 REMARK 500 VAL A 127 94.05 99.59 REMARK 500 PRO A 132 129.87 -39.46 REMARK 500 SER A 136 -71.98 -52.89 REMARK 500 GLU A 144 -145.05 -103.33 REMARK 500 ASP A 145 -126.31 -111.73 REMARK 500 THR A 148 -150.11 44.43 REMARK 500 ASP A 149 -119.52 -98.57 REMARK 500 SER A 159 86.07 -13.58 REMARK 500 ASN A 166 -111.73 -83.99 REMARK 500 SER A 167 58.69 -146.77 REMARK 500 SER A 172 54.59 -142.16 REMARK 500 GLU A 175 139.50 -175.44 REMARK 500 ASP A 178 98.08 168.96 REMARK 500 SER A 199 99.85 -169.90 REMARK 500 SER A 206 -98.43 -111.26 REMARK 500 ASP A 209 -131.33 -106.42 REMARK 500 ASN A 210 6.12 172.29 REMARK 500 SER A 226 133.62 -178.94 REMARK 500 ASN A 233 70.35 -157.34 REMARK 500 GLU A 238 140.11 -39.97 REMARK 500 LEU A 239 113.82 -39.62 REMARK 500 VAL A 243 117.88 -161.11 REMARK 500 PRO B 8 135.19 -30.81 REMARK 500 ASN B 10 72.64 63.08 REMARK 500 VAL B 17 -58.78 28.33 REMARK 500 ILE B 27 71.82 53.68 REMARK 500 PRO B 37 -71.90 -25.10 REMARK 500 LYS B 43 101.02 -58.09 REMARK 500 MET B 44 -41.94 -177.36 REMARK 500 THR B 54 -51.12 154.35 REMARK 500 LEU B 58 56.52 171.04 REMARK 500 PHE B 59 153.35 -31.76 REMARK 500 GLN B 61 139.91 -179.11 REMARK 500 ASP B 84 -160.55 -166.55 REMARK 500 PHE B 85 -107.55 -71.30 REMARK 500 SER B 95 101.74 -27.02 REMARK 500 LYS B 104 138.60 -174.67 REMARK 500 GLU B 108 -158.45 -74.34 REMARK 500 LEU B 109 146.81 164.04 REMARK 500 SER B 111 -72.99 -125.93 REMARK 500 VAL B 116 134.63 -30.54 REMARK 500 TRP B 117 151.85 -12.71 REMARK 500 ALA B 121 -6.19 -54.16 REMARK 500 SER B 126 117.47 95.72 REMARK 500 VAL B 127 85.13 59.46 REMARK 500 PRO B 132 116.60 -26.84 REMARK 500 GLU B 144 -59.42 -134.81 REMARK 500 ASP B 149 -134.77 -127.54 REMARK 500 SER B 159 79.06 4.76 REMARK 500 ASN B 166 -172.47 -69.61 REMARK 500 ASP B 178 113.33 -178.13 REMARK 500 SER B 199 105.19 -163.59 REMARK 500 SER B 206 -112.61 -124.45 REMARK 500 ASP B 209 -124.40 -108.06 REMARK 500 ASN B 210 12.31 175.29 REMARK 500 TYR B 217 -130.53 67.86 REMARK 500 SER B 226 129.17 -175.15 REMARK 500 LEU B 239 125.34 -37.88 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, 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 ASN A 210 -20.08 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 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A 505 DISTANCE = 5.53 ANGSTROMS REMARK 525 HOH A 513 DISTANCE = 5.13 ANGSTROMS REMARK 525 HOH B 515 DISTANCE = 6.83 ANGSTROMS REMARK 525 HOH B 539 DISTANCE = 5.52 ANGSTROMS REMARK 525 HOH A 555 DISTANCE = 6.98 ANGSTROMS REMARK 525 HOH B 557 DISTANCE = 7.22 ANGSTROMS REMARK 525 HOH A 559 DISTANCE = 5.48 ANGSTROMS REMARK 525 HOH B 574 DISTANCE = 5.56 ANGSTROMS REMARK 525 HOH A 578 DISTANCE = 7.49 ANGSTROMS REMARK 525 HOH A 626 DISTANCE = 5.61 ANGSTROMS REMARK 525 HOH A 627 DISTANCE = 6.04 ANGSTROMS REMARK 525 HOH B 636 DISTANCE = 6.13 ANGSTROMS REMARK 525 HOH B 644 DISTANCE = 6.72 ANGSTROMS REMARK 525 HOH B 646 DISTANCE = 5.27 ANGSTROMS REMARK 525 HOH A 647 DISTANCE = 5.24 ANGSTROMS REMARK 525 HOH A 677 DISTANCE = 5.63 ANGSTROMS REMARK 525 HOH B 681 DISTANCE = 5.57 ANGSTROMS REMARK 525 HOH B 685 DISTANCE = 5.18 ANGSTROMS REMARK 525 HOH B 691 DISTANCE = 5.22 ANGSTROMS REMARK 525 HOH B 703 DISTANCE = 5.92 ANGSTROMS REMARK 525 HOH A 703 DISTANCE = 5.04 ANGSTROMS REMARK 525 HOH B 707 DISTANCE = 5.26 ANGSTROMS REMARK 525 HOH B 712 DISTANCE = 6.61 ANGSTROMS REMARK 525 HOH A 752 DISTANCE = 5.03 ANGSTROMS REMARK 525 HOH A 759 DISTANCE = 7.33 ANGSTROMS REMARK 525 HOH A 777 DISTANCE = 6.33 ANGSTROMS
REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SVR A 501 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SVR B 502
REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1G44 RELATED DB: PDB REMARK 900 RELATED ID: 1RID RELATED DB: PDB
DBREF 1Y8E A 1 244 UNP P68638 VCP_VACCV 20 263 DBREF 1Y8E B 1 244 UNP P68638 VCP_VACCV 20 263
SEQRES 1 A 244 CYS CYS THR ILE PRO SER ARG PRO ILE ASN MET LYS PHE SEQRES 2 A 244 LYS ASN SER VAL GLU THR ASP ALA ASN ALA ASN TYR ASN SEQRES 3 A 244 ILE GLY ASP THR ILE GLU TYR LEU CYS LEU PRO GLY TYR SEQRES 4 A 244 ARG LYS GLN LYS MET GLY PRO ILE TYR ALA LYS CYS THR SEQRES 5 A 244 GLY THR GLY TRP THR LEU PHE ASN GLN CYS ILE LYS ARG SEQRES 6 A 244 ARG CYS PRO SER PRO ARG ASP ILE ASP ASN GLY GLN LEU SEQRES 7 A 244 ASP ILE GLY GLY VAL ASP PHE GLY SER SER ILE THR TYR SEQRES 8 A 244 SER CYS ASN SER GLY TYR HIS LEU ILE GLY GLU SER LYS SEQRES 9 A 244 SER TYR CYS GLU LEU GLY SER THR GLY SER MET VAL TRP SEQRES 10 A 244 ASN PRO GLU ALA PRO ILE CYS GLU SER VAL LYS CYS GLN SEQRES 11 A 244 SER PRO PRO SER ILE SER ASN GLY ARG HIS ASN GLY TYR SEQRES 12 A 244 GLU ASP PHE TYR THR ASP GLY SER VAL VAL THR TYR SER SEQRES 13 A 244 CYS ASN SER GLY TYR SER LEU ILE GLY ASN SER GLY VAL SEQRES 14 A 244 LEU CYS SER GLY GLY GLU TRP SER ASP PRO PRO THR CYS SEQRES 15 A 244 GLN ILE VAL LYS CYS PRO HIS PRO THR ILE SER ASN GLY SEQRES 16 A 244 TYR LEU SER SER GLY PHE LYS ARG SER TYR SER TYR ASN SEQRES 17 A 244 ASP ASN VAL ASP PHE LYS CYS LYS TYR GLY TYR LYS LEU SEQRES 18 A 244 SER GLY SER SER SER SER THR CYS SER PRO GLY ASN THR SEQRES 19 A 244 TRP LYS PRO GLU LEU PRO LYS CYS VAL ARG SEQRES 1 B 244 CYS CYS THR ILE PRO SER ARG PRO ILE ASN MET LYS PHE SEQRES 2 B 244 LYS ASN SER VAL GLU THR ASP ALA ASN ALA ASN TYR ASN SEQRES 3 B 244 ILE GLY ASP THR ILE GLU TYR LEU CYS LEU PRO GLY TYR SEQRES 4 B 244 ARG LYS GLN LYS MET GLY PRO ILE TYR ALA LYS CYS THR SEQRES 5 B 244 GLY THR GLY TRP THR LEU PHE ASN GLN CYS ILE LYS ARG SEQRES 6 B 244 ARG CYS PRO SER PRO ARG ASP ILE ASP ASN GLY GLN LEU SEQRES 7 B 244 ASP ILE GLY GLY VAL ASP PHE GLY SER SER ILE THR TYR SEQRES 8 B 244 SER CYS ASN SER GLY TYR HIS LEU ILE GLY GLU SER LYS SEQRES 9 B 244 SER TYR CYS GLU LEU GLY SER THR GLY SER MET VAL TRP SEQRES 10 B 244 ASN PRO GLU ALA PRO ILE CYS GLU SER VAL LYS CYS GLN SEQRES 11 B 244 SER PRO PRO SER ILE SER ASN GLY ARG HIS ASN GLY TYR SEQRES 12 B 244 GLU ASP PHE TYR THR ASP GLY SER VAL VAL THR TYR SER SEQRES 13 B 244 CYS ASN SER GLY TYR SER LEU ILE GLY ASN SER GLY VAL SEQRES 14 B 244 LEU CYS SER GLY GLY GLU TRP SER ASP PRO PRO THR CYS SEQRES 15 B 244 GLN ILE VAL LYS CYS PRO HIS PRO THR ILE SER ASN GLY SEQRES 16 B 244 TYR LEU SER SER GLY PHE LYS ARG SER TYR SER TYR ASN SEQRES 17 B 244 ASP ASN VAL ASP PHE LYS CYS LYS TYR GLY TYR LYS LEU SEQRES 18 B 244 SER GLY SER SER SER SER THR CYS SER PRO GLY ASN THR SEQRES 19 B 244 TRP LYS PRO GLU LEU PRO LYS CYS VAL ARG
HET SVR A 501 86 HET SVR B 502 86
HETNAM SVR 8,8'-[CARBONYLBIS[IMINO-3,1-PHENYLENECARBONYLIMINO(4- HETNAM 2 SVR METHYL-3,1-PHENYLENE)CARBONYLIMINO]]BIS-1,3,5- HETNAM 3 SVR NAPHTHALENETRISULFONIC ACID
HETSYN SVR SURAMIN
FORMUL 3 SVR 2(C51 H40 N6 O23 S6) FORMUL 5 HOH *494(H2 O)
SHEET 1 A 3 THR A 30 ILE A 31 0 SHEET 2 A 3 ALA A 49 THR A 52 -1 O ALA A 49 N ILE A 31 SHEET 3 A 3 GLY A 55 THR A 57 -1 O THR A 57 N LYS A 50 SHEET 1 B 2 ARG A 40 LYS A 41 0 SHEET 2 B 2 CYS A 62 ILE A 63 -1 O ILE A 63 N ARG A 40 SHEET 1 C 2 HIS A 98 LEU A 99 0 SHEET 2 C 2 CYS A 124 GLU A 125 -1 O GLU A 125 N HIS A 98 SHEET 1 D 2 ARG A 139 HIS A 140 0 SHEET 2 D 2 TYR A 155 SER A 156 -1 O SER A 156 N ARG A 139 SHEET 1 E 2 SER A 162 ILE A 164 0 SHEET 2 E 2 THR A 181 GLN A 183 -1 O GLN A 183 N SER A 162 SHEET 1 F 2 LEU A 221 SER A 222 0 SHEET 2 F 2 LYS A 241 CYS A 242 -1 O LYS A 241 N SER A 222 SHEET 1 G 2 THR A 228 SER A 230 0 SHEET 2 G 2 THR A 234 LYS A 236 -1 O LYS A 236 N THR A 228 SHEET 1 H 2 THR B 30 ILE B 31 0 SHEET 2 H 2 ALA B 49 LYS B 50 -1 O ALA B 49 N ILE B 31 SHEET 1 I 2 ARG B 40 LYS B 41 0 SHEET 2 I 2 CYS B 62 ILE B 63 -1 O ILE B 63 N ARG B 40 SHEET 1 J 2 HIS B 98 ILE B 100 0 SHEET 2 J 2 ILE B 123 GLU B 125 -1 O GLU B 125 N HIS B 98 SHEET 1 K 2 SER B 162 LEU B 163 0 SHEET 2 K 2 CYS B 182 GLN B 183 -1 O GLN B 183 N SER B 162 SHEET 1 L 2 LEU B 221 SER B 222 0 SHEET 2 L 2 LYS B 241 CYS B 242 -1 O LYS B 241 N SER B 222 SHEET 1 M 2 THR B 228 SER B 230 0 SHEET 2 M 2 THR B 234 LYS B 236 -1 O LYS B 236 N THR B 228
SSBOND 1 CYS A 2 CYS A 51 1555 1555 2.03 SSBOND 2 CYS A 35 CYS A 62 1555 1555 2.02 SSBOND 3 CYS A 67 CYS A 107 1555 1555 2.02 SSBOND 4 CYS A 93 CYS A 124 1555 1555 2.03 SSBOND 5 CYS A 129 CYS A 171 1555 1555 2.03 SSBOND 6 CYS A 157 CYS A 182 1555 1555 2.02 SSBOND 7 CYS A 187 CYS A 229 1555 1555 2.03 SSBOND 8 CYS A 215 CYS A 242 1555 1555 2.03 SSBOND 9 CYS B 2 CYS B 51 1555 1555 2.03 SSBOND 10 CYS B 35 CYS B 62 1555 1555 2.03 SSBOND 11 CYS B 67 CYS B 107 1555 1555 2.03 SSBOND 12 CYS B 93 CYS B 124 1555 1555 2.03 SSBOND 13 CYS B 129 CYS B 171 1555 1555 2.03 SSBOND 14 CYS B 157 CYS B 182 1555 1555 2.02 SSBOND 15 CYS B 187 CYS B 229 1555 1555 2.03 SSBOND 16 CYS B 215 CYS B 242 1555 1555 2.03
CISPEP 1 LYS A 236 PRO A 237 0 1.94 CISPEP 2 LYS B 236 PRO B 237 0 1.55
SITE 1 AC1 20 LYS A 214 TYR A 217 LYS A 220 LEU A 221 SITE 2 AC1 20 SER A 222 LYS A 241 VAL A 243 ARG A 244 SITE 3 AC1 20 HOH A 529 HOH A 548 HOH A 557 HOH A 572 SITE 4 AC1 20 HOH A 604 HOH A 613 HOH A 635 HOH A 639 SITE 5 AC1 20 HOH A 669 HOH A 699 HOH A 726 HOH A 731 SITE 1 AC2 13 LYS B 214 TYR B 219 LYS B 220 LEU B 221 SITE 2 AC2 13 SER B 222 LYS B 241 VAL B 243 ARG B 244 SITE 3 AC2 13 HOH B 535 HOH B 543 HOH B 608 HOH B 648 SITE 4 AC2 13 HOH B 719
CRYST1 65.100 125.100 149.400 90.00 90.00 90.00 P 2 2 2 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 0.015361 0.000000 0.000000 0.00000
SCALE2 0.000000 0.007994 0.000000 0.00000
SCALE3 0.000000 0.000000 0.006693 0.00000