HEADER HYDROLASE 01-DEC-04 1Y4L TITLE CRYSTAL STRUCTURE OF BOTHROPS ASPER MYOTOXIN II COMPLEXED WITH THE TITLE 2 ANTI-TRYPANOSOMAL DRUG SURAMIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: PHOSPHOLIPASE A2 HOMOLOG 2; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: MYOTOXIN II; COMPND 5 EC: 3.1.1.4 SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: BOTHROPS ASPER; SOURCE 3 ORGANISM_COMMON: TERCIOPELO; SOURCE 4 ORGANISM_TAXID: 8722; SOURCE 5 SECRETION: SNAKE VENOM KEYWDS BOTHROPS ASPER MYOTOXIN II, ANTI-TRYPANOSOMAL DRUG SURAMIN, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR M.T.MURAKAMI,E.Z.ARRUDA,P.A.MELO,A.B.MARTINEZ,S.CALIL-ELIAS, AUTHOR 2 M.A.TOMAZ,B.LOMONTE,J.M.GUTIERREZ,R.K.ARNI REVDAT 4 11-OCT-17 1Y4L 1 REMARK REVDAT 3 13-JUL-11 1Y4L 1 VERSN REVDAT 2 24-FEB-09 1Y4L 1 VERSN REVDAT 1 28-JUN-05 1Y4L 0 JRNL AUTH M.T.MURAKAMI,E.Z.ARRUDA,P.A.MELO,A.B.MARTINEZ,S.CALIL-ELIAS, JRNL AUTH 2 M.A.TOMAZ,B.LOMONTE,J.M.GUTIERREZ,R.K.ARNI JRNL TITL INHIBITION OF MYOTOXIC ACTIVITY OF BOTHROPS ASPER MYOTOXIN JRNL TITL 2 II BY THE ANTI-TRYPANOSOMAL DRUG SURAMIN. JRNL REF J.MOL.BIOL. V. 350 416 2005 JRNL REFN ISSN 0022-2836 JRNL PMID 15961104 JRNL DOI 10.1016/J.JMB.2005.04.072 REMARK 2 REMARK 2 RESOLUTION. 1.70 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0005 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) : 1.70 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 30.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.4 REMARK 3 NUMBER OF REFLECTIONS : 28848 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) : 0.207 REMARK 3 R VALUE (WORKING SET) : 0.206 REMARK 3 FREE R VALUE : 0.240 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1537 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) : 1.70 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.74 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2039 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 96.97 REMARK 3 BIN R VALUE (WORKING SET) : 0.3120 REMARK 3 BIN FREE R VALUE SET COUNT : 104 REMARK 3 BIN FREE R VALUE : 0.3410 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1906 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 150 REMARK 3 SOLVENT ATOMS : 170 REMARK 3 REMARK 3 B VALUES. REMARK 3 B VALUE TYPE : LIKELY RESIDUAL REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 25.99 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.97000 REMARK 3 B22 (A**2) : 0.56000 REMARK 3 B33 (A**2) : 0.41000 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 OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.119 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.115 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.072 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 4.203 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.948 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.930 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2094 ; 0.012 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 2794 ; 1.663 ; 2.063 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 230 ; 5.416 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 78 ;34.522 ;24.103 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 382 ;16.772 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 10 ;24.038 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 276 ; 0.158 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1472 ; 0.007 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1390 ; 0.332 ; 0.300 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1427 ; 0.331 ; 0.500 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 361 ; 0.233 ; 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): 42 ; 0.181 ; 0.300 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 30 ; 0.232 ; 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): 1214 ; 1.278 ; 2.000 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1884 ; 2.087 ; 3.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1065 ; 1.384 ; 2.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 910 ; 2.183 ; 3.000 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): 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 : 1 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 2 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 1 A 133 REMARK 3 RESIDUE RANGE : B 1 B 133 REMARK 3 ORIGIN FOR THE GROUP (A): 5.1713 3.9203 13.6086 REMARK 3 T TENSOR REMARK 3 T11: -0.0272 T22: 0.0033 REMARK 3 T33: -0.0144 T12: 0.0017 REMARK 3 T13: 0.0415 T23: 0.0421 REMARK 3 L TENSOR REMARK 3 L11: 0.7816 L22: 0.9425 REMARK 3 L33: 0.5926 L12: -0.7520 REMARK 3 L13: 0.6319 L23: -0.4740 REMARK 3 S TENSOR REMARK 3 S11: 0.0157 S12: -0.0314 S13: -0.0506 REMARK 3 S21: -0.0427 S22: 0.0088 S23: 0.0075 REMARK 3 S31: 0.0279 S32: -0.0191 S33: -0.0244 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1Y4L COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 04-JAN-05. REMARK 100 THE DEPOSITION ID IS D_1000031108. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 13-APR-03 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 4.6 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : LNLS REMARK 200 BEAMLINE : D03B-MX1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.427 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MAR REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 30385 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.700 REMARK 200 RESOLUTION RANGE LOW (A) : 30.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.3 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : 0.04900 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.70 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.74 REMARK 200 COMPLETENESS FOR SHELL (%) : 97.4 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.50700 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 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: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 56.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.80 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG 3350, ISOPROPANOL, SODIUM CITRATE, REMARK 280 PH 4.6, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 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 24.59950 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 42.99500 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 32.01850 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 42.99500 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 24.59950 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 32.01850 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 5900 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 11890 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -25.0 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 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 O2 IPA A 504 O HOH A 582 1.46 REMARK 500 C2 IPA A 504 O HOH A 582 1.88 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 581 O HOH B 566 3545 1.98 REMARK 500 REMARK 500 REMARK: NULL 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 CYS A 61 C ASN A 67 N 0.159 REMARK 500 CYS A 84 C GLY A 86 N 0.264 REMARK 500 CYS A 125 C LYS A 128 N 0.241 REMARK 500 LYS B 53 C LYS B 57 N 0.239 REMARK 500 CYS B 61 C ASN B 67 N 0.152 REMARK 500 CYS B 84 C GLY B 86 N 0.261 REMARK 500 LYS B 128 N LYS B 128 CA 0.128 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 THR A 13 N - CA - CB ANGL. DEV. = -12.0 DEGREES REMARK 500 LYS A 53 O - C - N ANGL. DEV. = -11.1 DEGREES REMARK 500 LYS B 53 CA - C - N ANGL. DEV. = 18.5 DEGREES REMARK 500 LYS B 53 O - C - N ANGL. DEV. = -20.3 DEGREES REMARK 500 LYS B 57 C - N - CA ANGL. DEV. = 23.5 DEGREES REMARK 500 ARG B 107 NE - CZ - NH1 ANGL. DEV. = 6.0 DEGREES REMARK 500 ARG B 107 NE - CZ - NH2 ANGL. DEV. = -6.8 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 ALA A 24 85.45 -156.51 REMARK 500 LEU A 32 -149.48 61.31 REMARK 500 ASP A 39 -169.29 -161.99 REMARK 500 ASN A 88 174.22 42.09 REMARK 500 TYR A 119 34.35 71.36 REMARK 500 ASP B 39 -176.34 -170.34 REMARK 500 PRO B 123 -8.54 -59.48 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: MAIN CHAIN PLANARITY REMARK 500 REMARK 500 THE FOLLOWING RESIDUES HAVE A PSEUDO PLANARITY REMARK 500 TORSION ANGLE, C(I) - CA(I) - N(I+1) - O(I), GREATER REMARK 500 10.0 DEGREES. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 500 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 500 I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI ANGLE REMARK 500 LYS A 53 13.82 REMARK 500 CYS A 61 12.42 REMARK 500 SER B 20 10.65 REMARK 500 CYS B 61 14.28 REMARK 500 CYS B 84 13.56 REMARK 500 REMARK 500 REMARK: NULL REMARK 600 REMARK 600 HETEROGEN REMARK 600 LIGAND P33 IS A FRAGMENT OF POLYETHYLENEGLYCOL 3350. REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SVR B 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE P33 A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE P33 B 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IPA B 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IPA B 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IPA A 503 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IPA A 504 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IPA B 505 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1CLP RELATED DB: PDB DBREF 1Y4L A 1 133 UNP P24605 PA22_BOTAS 1 121 DBREF 1Y4L B 1 133 UNP P24605 PA22_BOTAS 1 121 SEQRES 1 A 121 SER LEU PHE GLU LEU GLY LYS MET ILE LEU GLN GLU THR SEQRES 2 A 121 GLY LYS ASN PRO ALA LYS SER TYR GLY ALA TYR GLY CYS SEQRES 3 A 121 ASN CYS GLY VAL LEU GLY ARG GLY LYS PRO LYS ASP ALA SEQRES 4 A 121 THR ASP ARG CYS CYS TYR VAL HIS LYS CYS CYS TYR LYS SEQRES 5 A 121 LYS LEU THR GLY CYS ASN PRO LYS LYS ASP ARG TYR SER SEQRES 6 A 121 TYR SER TRP LYS ASP LYS THR ILE VAL CYS GLY GLU ASN SEQRES 7 A 121 ASN SER CYS LEU LYS GLU LEU CYS GLU CYS ASP LYS ALA SEQRES 8 A 121 VAL ALA ILE CYS LEU ARG GLU ASN LEU ASN THR TYR ASN SEQRES 9 A 121 LYS LYS TYR ARG TYR TYR LEU LYS PRO LEU CYS LYS LYS SEQRES 10 A 121 ALA ASP ALA CYS SEQRES 1 B 121 SER LEU PHE GLU LEU GLY LYS MET ILE LEU GLN GLU THR SEQRES 2 B 121 GLY LYS ASN PRO ALA LYS SER TYR GLY ALA TYR GLY CYS SEQRES 3 B 121 ASN CYS GLY VAL LEU GLY ARG GLY LYS PRO LYS ASP ALA SEQRES 4 B 121 THR ASP ARG CYS CYS TYR VAL HIS LYS CYS CYS TYR LYS SEQRES 5 B 121 LYS LEU THR GLY CYS ASN PRO LYS LYS ASP ARG TYR SER SEQRES 6 B 121 TYR SER TRP LYS ASP LYS THR ILE VAL CYS GLY GLU ASN SEQRES 7 B 121 ASN SER CYS LEU LYS GLU LEU CYS GLU CYS ASP LYS ALA SEQRES 8 B 121 VAL ALA ILE CYS LEU ARG GLU ASN LEU ASN THR TYR ASN SEQRES 9 B 121 LYS LYS TYR ARG TYR TYR LEU LYS PRO LEU CYS LYS LYS SEQRES 10 B 121 ALA ASP ALA CYS HET P33 A 401 22 HET IPA A 503 4 HET IPA A 504 4 HET SVR B 301 86 HET P33 B 402 22 HET IPA B 501 4 HET IPA B 502 4 HET IPA B 505 4 HETNAM P33 3,6,9,12,15,18-HEXAOXAICOSANE-1,20-DIOL HETNAM IPA ISOPROPYL ALCOHOL 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 P33 HEPTAETHYLENE GLYCOL, PEG330 HETSYN IPA 2-PROPANOL HETSYN SVR SURAMIN FORMUL 3 P33 2(C14 H30 O8) FORMUL 4 IPA 5(C3 H8 O) FORMUL 6 SVR C51 H40 N6 O23 S6 FORMUL 11 HOH *170(H2 O) HELIX 1 1 SER A 1 GLY A 14 1 14 HELIX 2 2 ASN A 16 GLY A 23 1 7 HELIX 3 3 ASP A 39 LYS A 53 1 15 HELIX 4 4 ASN A 89 ASN A 109 1 21 HELIX 5 5 LEU A 110 TYR A 113 5 4 HELIX 6 6 ASN A 114 ARG A 118 5 5 HELIX 7 7 LEU A 121 CYS A 125 5 5 HELIX 8 8 SER B 1 GLY B 14 1 14 HELIX 9 9 ASN B 16 GLY B 23 1 7 HELIX 10 10 ASP B 39 LEU B 58 1 17 HELIX 11 11 ASN B 89 ASN B 109 1 21 HELIX 12 12 LEU B 110 TYR B 113 5 4 HELIX 13 13 ASN B 114 ARG B 118 5 5 HELIX 14 14 LEU B 121 CYS B 125 5 5 SHEET 1 A 2 ALA A 24 TYR A 25 0 SHEET 2 A 2 CYS A 29 GLY A 30 -1 O CYS A 29 N TYR A 25 SHEET 1 B 2 TYR A 75 LYS A 78 0 SHEET 2 B 2 THR A 81 CYS A 84 -1 O VAL A 83 N SER A 76 SHEET 1 C 2 ALA B 24 TYR B 25 0 SHEET 2 C 2 CYS B 29 GLY B 30 -1 O CYS B 29 N TYR B 25 SHEET 1 D 2 TYR B 75 LYS B 78 0 SHEET 2 D 2 THR B 81 CYS B 84 -1 O THR B 81 N LYS B 78 SSBOND 1 CYS A 27 CYS A 125 1555 1555 2.03 SSBOND 2 CYS A 29 CYS A 45 1555 1555 2.03 SSBOND 3 CYS A 44 CYS A 105 1555 1555 2.04 SSBOND 4 CYS A 50 CYS A 133 1555 1555 2.04 SSBOND 5 CYS A 51 CYS A 98 1555 1555 2.04 SSBOND 6 CYS A 61 CYS A 91 1555 1555 2.05 SSBOND 7 CYS A 84 CYS A 96 1555 1555 2.02 SSBOND 8 CYS B 27 CYS B 125 1555 1555 1.99 SSBOND 9 CYS B 29 CYS B 45 1555 1555 2.03 SSBOND 10 CYS B 44 CYS B 105 1555 1555 2.02 SSBOND 11 CYS B 50 CYS B 133 1555 1555 2.05 SSBOND 12 CYS B 51 CYS B 98 1555 1555 2.00 SSBOND 13 CYS B 61 CYS B 91 1555 1555 2.03 SSBOND 14 CYS B 84 CYS B 96 1555 1555 2.02 SITE 1 AC1 27 LEU A 2 GLY A 30 VAL A 31 LEU A 32 SITE 2 AC1 27 GLY A 33 ARG A 34 LYS A 49 TYR A 52 SITE 3 AC1 27 LYS A 53 PRO A 68 LYS A 69 LYS A 70 SITE 4 AC1 27 P33 A 401 HOH A 525 LEU B 2 LEU B 5 SITE 5 AC1 27 GLY B 30 VAL B 31 ARG B 34 HIS B 48 SITE 6 AC1 27 LYS B 49 TYR B 52 LYS B 53 LYS B 69 SITE 7 AC1 27 LYS B 70 LYS B 93 P33 B 402 SITE 1 AC2 13 LEU A 2 GLY A 6 LYS A 7 LEU A 10 SITE 2 AC2 13 PRO A 17 TYR A 22 ASN A 28 CYS A 29 SITE 3 AC2 13 GLY A 30 CYS A 45 HIS A 48 LYS A 49 SITE 4 AC2 13 SVR B 301 SITE 1 AC3 13 LEU B 2 GLY B 6 LYS B 7 LEU B 10 SITE 2 AC3 13 PRO B 17 TYR B 22 ASN B 28 CYS B 29 SITE 3 AC3 13 GLY B 30 CYS B 45 HIS B 48 LYS B 49 SITE 4 AC3 13 SVR B 301 SITE 1 AC4 5 HOH A 550 LEU B 58 THR B 59 SER B 90 SITE 2 AC4 5 GLU B 94 SITE 1 AC5 4 ASN B 16 LYS B 19 SER B 20 IPA B 505 SITE 1 AC6 3 LYS A 19 LYS A 115 ARG A 118 SITE 1 AC7 4 ASN A 16 LYS A 19 HOH A 582 HOH A 602 SITE 1 AC8 4 LYS B 19 LYS B 115 ARG B 118 IPA B 502 CRYST1 49.199 64.037 85.990 90.00 90.00 90.00 P 21 21 21 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 0.020326 0.000000 0.000000 0.00000 SCALE2 0.000000 0.015616 0.000000 0.00000 SCALE3 0.000000 0.000000 0.011629 0.00000