HEADER TOXIN 11-AUG-03 1Q5T TITLE GLN48 PLA2 SEPARATED FROM VIPOXIN FROM THE VENOM OF VIPERA AMMODYTES TITLE 2 MERIDIONALIS. COMPND MOL_ID: 1; COMPND 2 MOLECULE: PHOSPHOLIPASE A2 INHIBITOR; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: VIPOXIN TOXIC COMPONENT, VIPOXIN A CHAIN, INH SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: VIPERA AMMODYTES MERIDIONALIS; SOURCE 3 ORGANISM_TAXID: 73841; SOURCE 4 STRAIN: MERIDIONALIS; SOURCE 5 SECRETION: VENOM KEYWDS TOXIN EXPDTA X-RAY DIFFRACTION AUTHOR D.N.GEORGIEVA,M.PERBANDT,W.RYPNIEWSKI,K.HRISTOV,N.GENOV,C.BETZEL REVDAT 3 09-OCT-24 1Q5T 1 REMARK REVDAT 2 24-FEB-09 1Q5T 1 VERSN REVDAT 1 04-MAY-04 1Q5T 0 JRNL AUTH D.N.GEORGIEVA,M.PERBANDT,W.RYPNIEWSKI,K.HRISTOV,N.GENOV, JRNL AUTH 2 C.BETZEL JRNL TITL THE X-RAY STRUCTURE OF A SNAKE VENOM GLN48 PHOSPHOLIPASE A2 JRNL TITL 2 AT 1.9A RESOLUTION REVEALS ANION-BINDING SITES. JRNL REF BIOCHEM.BIOPHYS.RES.COMMUN. V. 316 33 2004 JRNL REFN ISSN 0006-291X JRNL PMID 15003507 JRNL DOI 10.1016/J.BBRC.2004.01.174 REMARK 2 REMARK 2 RESOLUTION. 1.90 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 : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.90 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 10.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 17790 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) : 0.189 REMARK 3 R VALUE (WORKING SET) : 0.185 REMARK 3 FREE R VALUE : 0.254 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 956 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) : 1.90 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.95 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1230 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.3910 REMARK 3 BIN FREE R VALUE SET COUNT : 64 REMARK 3 BIN FREE R VALUE : 0.3850 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1894 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 20 REMARK 3 SOLVENT ATOMS : 336 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 24.60 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.74000 REMARK 3 B22 (A**2) : -0.74000 REMARK 3 B33 (A**2) : 1.48000 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): 0.181 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.174 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.116 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 3.980 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.952 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.918 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 1962 ; 0.021 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 2662 ; 2.090 ; 1.948 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 242 ; 6.254 ; 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): 267 ; 0.145 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1547 ; 0.010 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1102 ; 0.232 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 247 ; 0.193 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 57 ; 0.253 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 34 ; 0.244 ; 0.200 REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 1200 ; 1.145 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1903 ; 1.962 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 762 ; 3.315 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 759 ; 5.017 ; 4.500 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 : 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: NULL REMARK 4 REMARK 4 1Q5T COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 13-AUG-03. REMARK 100 THE DEPOSITION ID IS D_1000019952. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : NULL REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : NULL REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : NULL REMARK 200 RADIATION SOURCE : NULL REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : NULL REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : NULL REMARK 200 DETECTOR MANUFACTURER : NULL REMARK 200 INTENSITY-INTEGRATION SOFTWARE : NULL REMARK 200 DATA SCALING SOFTWARE : NULL REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 20703 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.900 REMARK 200 RESOLUTION RANGE LOW (A) : 20.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : NULL REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : NULL 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) : NULL REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 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: NULL REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 44.43 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.21 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: NULL REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 41 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -Y,X,Z+1/4 REMARK 290 4555 Y,-X,Z+3/4 REMARK 290 5555 -X,Y,-Z REMARK 290 6555 X,-Y,-Z+1/2 REMARK 290 7555 Y,X,-Z+3/4 REMARK 290 8555 -Y,-X,-Z+1/4 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 69.55950 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 34.77975 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 104.33925 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 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 69.55950 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 104.33925 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 34.77975 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 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: 3800 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 11080 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -81.0 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 8800 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 20950 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -171.0 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 BIOMT1 2 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 0.000000 -1.000000 0.000000 58.94800 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 69.55950 REMARK 350 REMARK 350 BIOMOLECULE: 3 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 8830 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 20930 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -159.0 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 BIOMT1 2 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 69.55950 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 B 542 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 A 471 O HOH A 507 1.92 REMARK 500 N VAL B 59 O HOH B 547 2.00 REMARK 500 CB ASN A 79 O HOH A 535 2.02 REMARK 500 CD1 LEU B 56 O HOH B 548 2.05 REMARK 500 O HOH A 480 O HOH A 509 2.14 REMARK 500 CG2 THR B 70 O HOH B 505 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 B 502 O HOH B 560 7645 0.34 REMARK 500 CD GLU A 128 O HOH B 566 3655 0.71 REMARK 500 OE2 GLU A 128 O HOH B 566 3655 0.74 REMARK 500 CG GLU A 128 O HOH B 566 3655 1.77 REMARK 500 OE1 GLU A 128 O HOH B 566 3655 1.92 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 ASN A 55 CA ASN A 55 CB -0.210 REMARK 500 VAL A 59 C CYS A 61 N 0.209 REMARK 500 ARG B 36 CD ARG B 36 NE -0.389 REMARK 500 ARG B 36 NE ARG B 36 CZ -0.127 REMARK 500 ARG B 54 C ASN B 55 N -0.198 REMARK 500 ASN B 55 CA ASN B 55 CB -0.526 REMARK 500 LEU B 56 CA LEU B 56 CB -0.209 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 ASP A 42 CB - CG - OD2 ANGL. DEV. = 5.9 DEGREES REMARK 500 ASN A 55 C - N - CA ANGL. DEV. = -15.1 DEGREES REMARK 500 VAL A 59 CB - CA - C ANGL. DEV. = 19.2 DEGREES REMARK 500 VAL A 59 N - CA - CB ANGL. DEV. = -17.0 DEGREES REMARK 500 VAL A 59 CG1 - CB - CG2 ANGL. DEV. = -9.7 DEGREES REMARK 500 VAL A 59 CA - CB - CG1 ANGL. DEV. = 24.8 DEGREES REMARK 500 VAL A 59 O - C - N ANGL. DEV. = -10.3 DEGREES REMARK 500 GLU A 128 O - C - N ANGL. DEV. = -12.8 DEGREES REMARK 500 ARG B 36 CB - CG - CD ANGL. DEV. = -22.1 DEGREES REMARK 500 ARG B 36 NE - CZ - NH2 ANGL. DEV. = -4.0 DEGREES REMARK 500 ASP B 42 CB - CG - OD2 ANGL. DEV. = 5.9 DEGREES REMARK 500 ARG B 54 NE - CZ - NH2 ANGL. DEV. = -4.1 DEGREES REMARK 500 ASN B 55 N - CA - CB ANGL. DEV. = -14.6 DEGREES REMARK 500 ASN B 55 CA - CB - CG ANGL. DEV. = 20.9 DEGREES REMARK 500 ASN B 88 CB - CG - OD1 ANGL. DEV. = -12.0 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 SER A 21 -91.05 -146.74 REMARK 500 ASP A 39 -171.18 -170.97 REMARK 500 VAL A 59 42.75 78.40 REMARK 500 ASP A 89 -160.48 -75.65 REMARK 500 LEU A 90 -62.60 -95.51 REMARK 500 HIS A 125 -153.99 -132.41 REMARK 500 SER B 21 -96.18 -150.11 REMARK 500 ASP B 39 -166.88 -161.85 REMARK 500 ALA B 71 103.59 -55.64 REMARK 500 ASN B 79 61.63 61.23 REMARK 500 HIS B 125 -153.90 -136.33 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 LEU A 56 10.70 REMARK 500 VAL A 59 -19.90 REMARK 500 GLU A 128 23.21 REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B 403 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 404 REMARK 999 REMARK 999 SEQUENCE REMARK 999 THE SEQUENCE CONFLICTS MAY BE DUE TO A DIFFERENT REMARK 999 INTERPRETATION OF EXPERIMENTAL DATA AND/OR REMARK 999 EVOLUTIONARY GENE MUTATIONS. DBREF 1Q5T A 1 122 UNP P04084 PA2I_VIPAE 1 122 DBREF 1Q5T B 1 122 UNP P04084 PA2I_VIPAE 1 122 SEQADV 1Q5T ASN A 55 UNP P04084 VAL 54 SEE REMARK 999 SEQADV 1Q5T LEU A 56 UNP P04084 ASN 55 SEE REMARK 999 SEQADV 1Q5T VAL A 59 UNP P04084 ASP 56 SEE REMARK 999 SEQADV 1Q5T ASN B 55 UNP P04084 VAL 54 SEE REMARK 999 SEQADV 1Q5T LEU B 56 UNP P04084 ASN 55 SEE REMARK 999 SEQADV 1Q5T VAL B 59 UNP P04084 ASP 56 SEE REMARK 999 SEQRES 1 A 122 ASN LEU PHE GLN PHE GLY ASP MET ILE LEU GLN LYS THR SEQRES 2 A 122 GLY LYS GLU ALA VAL HIS SER TYR ALA ILE TYR GLY CYS SEQRES 3 A 122 TYR CYS GLY TRP GLY GLY GLN GLY ARG ALA GLN ASP ALA SEQRES 4 A 122 THR ASP ARG CYS CYS PHE ALA GLN ASP CYS CYS TYR GLY SEQRES 5 A 122 ARG ASN LEU VAL CYS ASN PRO LYS THR ALA THR TYR THR SEQRES 6 A 122 TYR SER PHE GLU ASN GLY ASP ILE VAL CYS GLY ASP ASN SEQRES 7 A 122 ASP LEU CYS LEU ARG ALA VAL CYS GLU CYS ASP ARG ALA SEQRES 8 A 122 ALA ALA ILE CYS LEU GLY GLU ASN VAL ASN THR TYR ASP SEQRES 9 A 122 LYS ASN TYR GLU TYR TYR SER ILE SER HIS CYS THR GLU SEQRES 10 A 122 GLU SER GLU GLN CYS SEQRES 1 B 122 ASN LEU PHE GLN PHE GLY ASP MET ILE LEU GLN LYS THR SEQRES 2 B 122 GLY LYS GLU ALA VAL HIS SER TYR ALA ILE TYR GLY CYS SEQRES 3 B 122 TYR CYS GLY TRP GLY GLY GLN GLY ARG ALA GLN ASP ALA SEQRES 4 B 122 THR ASP ARG CYS CYS PHE ALA GLN ASP CYS CYS TYR GLY SEQRES 5 B 122 ARG ASN LEU VAL CYS ASN PRO LYS THR ALA THR TYR THR SEQRES 6 B 122 TYR SER PHE GLU ASN GLY ASP ILE VAL CYS GLY ASP ASN SEQRES 7 B 122 ASP LEU CYS LEU ARG ALA VAL CYS GLU CYS ASP ARG ALA SEQRES 8 B 122 ALA ALA ILE CYS LEU GLY GLU ASN VAL ASN THR TYR ASP SEQRES 9 B 122 LYS ASN TYR GLU TYR TYR SER ILE SER HIS CYS THR GLU SEQRES 10 B 122 GLU SER GLU GLN CYS HET SO4 A 401 5 HET SO4 A 402 5 HET SO4 A 404 5 HET SO4 B 403 5 HETNAM SO4 SULFATE ION FORMUL 3 SO4 4(O4 S 2-) FORMUL 7 HOH *336(H2 O) HELIX 1 1 ASN A 1 GLY A 14 1 14 HELIX 2 2 GLU A 17 TYR A 25 5 9 HELIX 3 3 ASP A 39 GLY A 53 1 15 HELIX 4 4 LEU A 90 ASN A 109 1 20 HELIX 5 5 VAL A 110 TYR A 113 5 4 HELIX 6 6 ASP A 114 GLU A 118 5 5 HELIX 7 7 ASN B 1 GLY B 14 1 14 HELIX 8 8 GLU B 17 TYR B 25 5 9 HELIX 9 9 ASP B 39 ARG B 54 1 16 HELIX 10 10 ASP B 89 ASN B 109 1 21 HELIX 11 11 VAL B 110 TYR B 113 5 4 HELIX 12 12 ASP B 114 GLU B 118 5 5 SHEET 1 A 2 TYR A 75 GLU A 78 0 SHEET 2 A 2 ASP A 81 CYS A 84 -1 O VAL A 83 N SER A 76 SHEET 1 B 2 TYR B 75 GLU B 78 0 SHEET 2 B 2 ASP B 81 CYS B 84 -1 O VAL B 83 N SER B 76 SSBOND 1 CYS A 27 CYS A 126 1555 1555 2.06 SSBOND 2 CYS A 29 CYS A 45 1555 1555 2.04 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 2.04 SSBOND 7 CYS A 84 CYS A 96 1555 1555 2.06 SSBOND 8 CYS B 27 CYS B 126 1555 1555 2.03 SSBOND 9 CYS B 29 CYS B 45 1555 1555 2.04 SSBOND 10 CYS B 44 CYS B 105 1555 1555 2.01 SSBOND 11 CYS B 50 CYS B 133 1555 1555 2.06 SSBOND 12 CYS B 51 CYS B 98 1555 1555 2.06 SSBOND 13 CYS B 61 CYS B 91 1555 1555 2.02 SSBOND 14 CYS B 84 CYS B 96 1555 1555 2.02 SITE 1 AC1 8 GLY A 35 ARG A 36 GLN A 38 TYR A 120 SITE 2 AC1 8 HIS A 125 CYS A 126 THR A 127 GLU A 128 SITE 1 AC2 5 ALA A 40 ARG A 43 HOH A 481 HOH A 554 SITE 2 AC2 5 ASN B 111 SITE 1 AC3 8 GLY B 35 ARG B 36 GLN B 38 TYR B 120 SITE 2 AC3 8 HIS B 125 CYS B 126 THR B 127 GLU B 128 SITE 1 AC4 6 ARG A 54 ASP A 89 LEU A 90 CYS A 91 SITE 2 AC4 6 HOH A 494 HOH A 496 CRYST1 58.948 58.948 139.119 90.00 90.00 90.00 P 41 2 2 16 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.016964 0.000000 0.000000 0.00000 SCALE2 0.000000 0.016964 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007188 0.00000