HEADER VIRAL PROTEIN 11-FEB-05 1YU1 TITLE MAJOR TROPISM DETERMINANT P3C VARIANT COMPND MOL_ID: 1; COMPND 2 MOLECULE: MAJOR TROPISM DETERMINANT (MTD-P3C); COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: BORDETELLA PHAGE BPP-1; SOURCE 3 ORGANISM_TAXID: 194699; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 5 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 6 EXPRESSION_SYSTEM_STRAIN: BL21 (DE3); SOURCE 7 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 8 EXPRESSION_SYSTEM_PLASMID: PGEX KEYWDS C-TYPE LECTIN, BETA SANDWICH, BETA PRISM, VARIABILITY, DIVERSITY- KEYWDS 2 GENERATING RETROELEMENT, VIRAL PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR S.A.MCMAHON,J.L.MILLER,J.A.LAWTON,P.GHOSH REVDAT 6 29-NOV-23 1YU1 1 REMARK REVDAT 5 23-AUG-23 1YU1 1 REMARK LINK REVDAT 4 13-JUL-11 1YU1 1 VERSN REVDAT 3 24-FEB-09 1YU1 1 VERSN REVDAT 2 18-OCT-05 1YU1 1 JRNL REVDAT 1 20-SEP-05 1YU1 0 JRNL AUTH S.A.MCMAHON,J.L.MILLER,J.A.LAWTON,D.E.KERKOW,A.HODES, JRNL AUTH 2 M.A.MARTI-RENOM,S.DOULATOV,E.NARAYANAN,A.SALI,J.F.MILLER, JRNL AUTH 3 P.GHOSH JRNL TITL THE C-TYPE LECTIN FOLD AS AN EVOLUTIONARY SOLUTION FOR JRNL TITL 2 MASSIVE SEQUENCE VARIATION JRNL REF NAT.STRUCT.MOL.BIOL. V. 12 886 2005 JRNL REFN ISSN 1545-9993 JRNL PMID 16170324 JRNL DOI 10.1038/NSMB992 REMARK 2 REMARK 2 RESOLUTION. 2.07 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) : 2.07 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 28.99 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 95.1 REMARK 3 NUMBER OF REFLECTIONS : 26802 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) : 0.184 REMARK 3 R VALUE (WORKING SET) : 0.182 REMARK 3 FREE R VALUE : 0.221 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1340 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) : 2.07 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.12 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1775 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.2330 REMARK 3 BIN FREE R VALUE SET COUNT : 105 REMARK 3 BIN FREE R VALUE : 0.2830 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2753 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 5 REMARK 3 SOLVENT ATOMS : 369 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 19.95 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 OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.192 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.166 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.103 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 3.825 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.949 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.923 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2823 ; 0.007 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): 2424 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3848 ; 1.026 ; 1.902 REMARK 3 BOND ANGLES OTHERS (DEGREES): 5609 ; 0.765 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 375 ; 6.283 ; 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): 426 ; 0.063 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3290 ; 0.004 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 617 ; 0.004 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 556 ; 0.211 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 2876 ; 0.234 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): 1547 ; 0.081 ; 0.200 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 244 ; 0.128 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): 1 ; 0.088 ; 0.200 REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 21 ; 0.123 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 119 ; 0.261 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 30 ; 0.178 ; 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): 1843 ; 0.539 ; 2.000 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2918 ; 0.934 ; 3.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 980 ; 0.596 ; 2.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 930 ; 0.954 ; 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 : 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: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 1YU1 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 28-FEB-05. REMARK 100 THE DEPOSITION ID IS D_1000031921. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 19-ID REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.2309 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 : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 26802 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.070 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 95.1 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) : 2.07 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.14 REMARK 200 COMPLETENESS FOR SHELL (%) : 94.2 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: AMORE REMARK 200 STARTING MODEL: PDB ENTRY 1YU0 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 52.60 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.59 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: LITHIUM SULFATE, TRIS, SODIUM REMARK 280 CHLORIDE, PH 8.5, VAPOR DIFFUSION, TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 63 2 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 -X,-Y,Z+1/2 REMARK 290 5555 Y,-X+Y,Z+1/2 REMARK 290 6555 X-Y,X,Z+1/2 REMARK 290 7555 Y,X,-Z REMARK 290 8555 X-Y,-Y,-Z REMARK 290 9555 -X,-X+Y,-Z REMARK 290 10555 -Y,-X,-Z+1/2 REMARK 290 11555 -X+Y,Y,-Z+1/2 REMARK 290 12555 X,X-Y,-Z+1/2 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 -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 167.47650 REMARK 290 SMTRY1 5 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 5 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 167.47650 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 167.47650 REMARK 290 SMTRY1 7 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 7 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 9 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 9 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 9 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 10 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 10 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 10 0.000000 0.000000 -1.000000 167.47650 REMARK 290 SMTRY1 11 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 11 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 167.47650 REMARK 290 SMTRY1 12 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 12 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 12 0.000000 0.000000 -1.000000 167.47650 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 300 REMARK: THE BIOLOGICAL ASSEMBLY IS A TRIMER GENERATED FROM: -Y, X-Y, REMARK 300 Z AND -X+Y, -X, Z 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: TRIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA,PQS REMARK 350 TOTAL BURIED SURFACE AREA: 14250 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 35050 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -92.0 KCAL/MOL 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 BIOMT1 2 -0.500000 -0.866025 0.000000 33.27250 REMARK 350 BIOMT2 2 0.866025 -0.500000 0.000000 57.62966 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 3 -0.500000 0.866025 0.000000 -33.27250 REMARK 350 BIOMT2 3 -0.866025 -0.500000 0.000000 57.62966 REMARK 350 BIOMT3 3 0.000000 0.000000 1.000000 0.00000 REMARK 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 MG MG A 383 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 407 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 419 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 640 LIES ON A SPECIAL POSITION. 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 1 REMARK 465 SER A 2 REMARK 465 THR A 3 REMARK 465 ALA A 4 REMARK 465 GLU A 381 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 OD2 ASP A 214 O ALA A 367 1.94 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 727 O HOH A 728 3565 1.97 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 375 CB CYS A 375 SG 0.111 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 178 CB - CG - OD2 ANGL. DEV. = 6.4 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 40 -44.73 -149.10 REMARK 500 ALA A 152 -131.22 -143.06 REMARK 500 ALA A 154 34.98 -141.25 REMARK 500 ASN A 157 -165.34 -103.75 REMARK 500 PHE A 172 86.82 -159.49 REMARK 500 ASN A 199 52.65 -92.07 REMARK 500 ASN A 311 43.35 -95.18 REMARK 500 THR A 348 -135.80 53.57 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 MMC A 382 HG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 114 SG REMARK 620 2 MMC A 382 C 80.2 REMARK 620 3 THR A 118 OG1 106.3 111.4 REMARK 620 4 ARG A 120 NH1 147.9 131.0 59.6 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MMC A 384 HG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLY A 249 O REMARK 620 2 MMC A 384 C 121.6 REMARK 620 3 ARG A 251 NH1 163.3 69.8 REMARK 620 4 CYS A 375 SG 60.5 96.6 108.4 REMARK 620 5 HOH A 730 O 64.2 70.0 132.3 100.8 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 383 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 PHE A 313 O REMARK 620 2 PHE A 313 O 91.1 REMARK 620 3 PHE A 313 O 91.0 91.0 REMARK 620 4 HOH A 400 O 102.5 166.0 92.1 REMARK 620 5 HOH A 400 O 166.1 92.1 102.4 73.9 REMARK 620 6 HOH A 400 O 92.2 102.5 166.1 73.9 73.9 REMARK 620 N 1 2 3 4 5 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 383 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MMC A 384 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MMC A 382 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1YU0 RELATED DB: PDB REMARK 900 RELATED ID: 1YU2 RELATED DB: PDB REMARK 900 RELATED ID: 1YU3 RELATED DB: PDB REMARK 900 RELATED ID: 1YU4 RELATED DB: PDB REMARK 999 REMARK 999 SEQUENCE REMARK 999 THE AUTHOR STATES THERE IS AN ERROR IN THE DATABASE REMARK 999 SEQUENCE. DBREF 1YU1 A 1 381 UNP Q775D6 Q775D6_9CAUD 1 381 SEQADV 1YU1 ASN A 344 UNP Q775D6 ALA 344 SEE REMARK 999 SEQADV 1YU1 SER A 346 UNP Q775D6 ASN 346 SEE REMARK 999 SEQADV 1YU1 ASN A 347 UNP Q775D6 GLY 347 SEE REMARK 999 SEQADV 1YU1 HIS A 350 UNP Q775D6 LEU 350 SEE REMARK 999 SEQADV 1YU1 VAL A 360 UNP Q775D6 SER 360 SEE REMARK 999 SEQADV 1YU1 ASN A 364 UNP Q775D6 PHE 364 SEE REMARK 999 SEQADV 1YU1 GLY A 368 UNP Q775D6 PHE 368 SEE REMARK 999 SEQADV 1YU1 ILE A 369 UNP Q775D6 PHE 369 SEE REMARK 999 SEQRES 1 A 381 MET SER THR ALA VAL GLN PHE ARG GLY GLY THR THR ALA SEQRES 2 A 381 GLN HIS ALA THR PHE THR GLY ALA ALA ARG GLU ILE THR SEQRES 3 A 381 VAL ASP THR ASP LYS ASN THR VAL VAL VAL HIS ASP GLY SEQRES 4 A 381 ALA THR ALA GLY GLY PHE PRO LEU ALA ARG HIS ASP LEU SEQRES 5 A 381 VAL LYS THR ALA PHE ILE LYS ALA ASP LYS SER ALA VAL SEQRES 6 A 381 ALA PHE THR ARG THR GLY ASN ALA THR ALA SER ILE LYS SEQRES 7 A 381 ALA GLY THR ILE VAL GLU VAL ASN GLY LYS LEU VAL GLN SEQRES 8 A 381 PHE THR ALA ASP THR ALA ILE THR MET PRO ALA LEU THR SEQRES 9 A 381 ALA GLY THR ASP TYR ALA ILE TYR VAL CYS ASP ASP GLY SEQRES 10 A 381 THR VAL ARG ALA ASP SER ASN PHE SER ALA PRO THR GLY SEQRES 11 A 381 TYR THR SER THR THR ALA ARG LYS VAL GLY GLY PHE HIS SEQRES 12 A 381 TYR ALA PRO GLY SER ASN ALA ALA ALA GLN ALA GLY GLY SEQRES 13 A 381 ASN THR THR ALA GLN ILE ASN GLU TYR SER LEU TRP ASP SEQRES 14 A 381 ILE LYS PHE ARG PRO ALA ALA LEU ASP PRO ARG GLY MET SEQRES 15 A 381 THR LEU VAL ALA GLY ALA PHE TRP ALA ASP ILE TYR LEU SEQRES 16 A 381 LEU GLY VAL ASN HIS LEU THR ASP GLY THR SER LYS TYR SEQRES 17 A 381 ASN VAL THR ILE ALA ASP GLY SER ALA SER PRO LYS LYS SEQRES 18 A 381 SER THR LYS PHE GLY GLY ASP GLY SER ALA ALA TYR SER SEQRES 19 A 381 ASP GLY ALA TRP TYR ASN PHE ALA GLU VAL MET THR HIS SEQRES 20 A 381 HIS GLY LYS ARG LEU PRO ASN TYR ASN GLU PHE GLN ALA SEQRES 21 A 381 LEU ALA PHE GLY THR THR GLU ALA THR SER SER GLY GLY SEQRES 22 A 381 THR ASP VAL PRO THR THR GLY VAL ASN GLY THR GLY ALA SEQRES 23 A 381 THR SER ALA TRP ASN ILE PHE THR SER LYS TRP GLY VAL SEQRES 24 A 381 VAL GLN ALA SER GLY CYS LEU TRP THR TRP GLY ASN GLU SEQRES 25 A 381 PHE GLY GLY VAL ASN GLY ALA SER GLU TYR THR ALA ASN SEQRES 26 A 381 THR GLY GLY ARG GLY SER VAL TYR ALA GLN PRO ALA ALA SEQRES 27 A 381 ALA LEU PHE GLY GLY ASN TRP SER ASN THR SER HIS SER SEQRES 28 A 381 GLY SER ARG ALA ALA LEU TRP TYR VAL GLY PRO SER ASN SEQRES 29 A 381 SER PHE ALA GLY ILE GLY ALA ARG GLY VAL CYS ASP HIS SEQRES 30 A 381 LEU ILE LEU GLU HET MG A 383 1 HET MMC A 384 2 HET MMC A 382 2 HETNAM MG MAGNESIUM ION HETNAM MMC METHYL MERCURY ION FORMUL 2 MG MG 2+ FORMUL 3 MMC 2(C H3 HG 1+) FORMUL 5 HOH *369(H2 O) HELIX 1 1 THR A 11 THR A 17 1 7 HELIX 2 2 ARG A 49 LYS A 54 5 6 HELIX 3 3 GLU A 164 LEU A 167 5 4 HELIX 4 4 ASN A 199 GLY A 204 1 6 HELIX 5 5 ALA A 237 HIS A 248 1 12 HELIX 6 6 ASN A 254 ALA A 262 1 9 HELIX 7 7 ALA A 289 THR A 294 5 6 HELIX 8 8 ASN A 347 SER A 351 5 5 SHEET 1 A 4 GLY A 9 GLY A 10 0 SHEET 2 A 4 ILE A 25 ASP A 28 1 O VAL A 27 N GLY A 10 SHEET 3 A 4 THR A 33 VAL A 36 -1 O VAL A 35 N THR A 26 SHEET 4 A 4 PHE A 45 PRO A 46 -1 O PHE A 45 N VAL A 36 SHEET 1 B 3 PHE A 57 ILE A 58 0 SHEET 2 B 3 THR A 81 VAL A 85 -1 O ILE A 82 N ILE A 58 SHEET 3 B 3 LYS A 88 PHE A 92 -1 O VAL A 90 N VAL A 83 SHEET 1 C 3 PHE A 67 GLY A 71 0 SHEET 2 C 3 THR A 74 ILE A 77 -1 O SER A 76 N THR A 68 SHEET 3 C 3 THR A 96 ALA A 97 -1 O THR A 96 N ILE A 77 SHEET 1 D 4 VAL A 119 ASP A 122 0 SHEET 2 D 4 THR A 107 CYS A 114 -1 N TYR A 112 O ARG A 120 SHEET 3 D 4 ALA A 136 ALA A 145 -1 O TYR A 144 N THR A 107 SHEET 4 D 4 GLN A 161 ILE A 162 -1 O GLN A 161 N ALA A 145 SHEET 1 E 4 VAL A 119 ASP A 122 0 SHEET 2 E 4 THR A 107 CYS A 114 -1 N TYR A 112 O ARG A 120 SHEET 3 E 4 ALA A 136 ALA A 145 -1 O TYR A 144 N THR A 107 SHEET 4 E 4 TRP A 168 ASP A 169 -1 O TRP A 168 N GLY A 141 SHEET 1 F 4 PHE A 172 PRO A 174 0 SHEET 2 F 4 VAL A 374 ILE A 379 -1 O LEU A 378 N ARG A 173 SHEET 3 F 4 PHE A 189 ASP A 192 -1 N TRP A 190 O CYS A 375 SHEET 4 F 4 MET A 182 VAL A 185 -1 N VAL A 185 O PHE A 189 SHEET 1 G 4 ALA A 356 LEU A 357 0 SHEET 2 G 4 PRO A 336 PHE A 341 -1 N LEU A 340 O LEU A 357 SHEET 3 G 4 TRP A 307 ASN A 317 -1 N GLU A 312 O ALA A 339 SHEET 4 G 4 ILE A 369 GLY A 370 1 O GLY A 370 N TRP A 307 LINK SG CYS A 114 HG MMC A 382 1555 1555 2.33 LINK OG1 THR A 118 HG MMC A 382 1555 1555 3.08 LINK NH1 ARG A 120 HG MMC A 382 1555 1555 3.31 LINK O GLY A 249 HG MMC A 384 1555 1555 3.12 LINK NH1 ARG A 251 HG MMC A 384 1555 1555 3.36 LINK O PHE A 313 MG MG A 383 1555 1555 2.42 LINK O PHE A 313 MG MG A 383 2665 1555 2.42 LINK O PHE A 313 MG MG A 383 3565 1555 2.42 LINK SG CYS A 375 HG MMC A 384 1555 1555 1.41 LINK MG MG A 383 O HOH A 400 1555 1555 2.31 LINK MG MG A 383 O HOH A 400 1555 3565 2.31 LINK MG MG A 383 O HOH A 400 1555 2665 2.31 LINK HG MMC A 384 O HOH A 730 1555 1555 3.24 SITE 1 AC1 2 PHE A 313 HOH A 400 SITE 1 AC2 4 GLY A 249 LYS A 250 ARG A 251 CYS A 375 SITE 1 AC3 6 TYR A 112 VAL A 113 CYS A 114 THR A 118 SITE 2 AC3 6 VAL A 119 ARG A 120 CRYST1 66.545 66.545 334.953 90.00 90.00 120.00 P 63 2 2 12 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 0.015027 0.008676 0.000000 0.00000 SCALE2 0.000000 0.017352 0.000000 0.00000 SCALE3 0.000000 0.000000 0.002985 0.00000