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 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,VAGIN,DODSON 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 SIDE-CHAIN BOND REFINED ATOMS (A**2): 980 ; 0.596 ; 2.000 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 930 ; 0.954 ; 3.000 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 RCSB ID CODE IS RCSB031921. 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- REMARK 300 Y, 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 HOH A 419 LIES ON A SPECIAL POSITION. 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 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 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 677 DISTANCE = 6.55 ANGSTROMS 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 MG A 383 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 PHE A 313 O REMARK 620 2 HOH A 400 O 102.5 REMARK 620 N 1 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 CYS A 375 SG REMARK 620 2 MMC A 384 C 96.6 REMARK 620 3 ARG A 251 NH1 108.4 69.8 REMARK 620 4 GLY A 249 O 60.5 121.6 163.3 REMARK 620 5 HOH A 730 O 100.8 70.0 132.3 64.2 REMARK 620 N 1 2 3 4 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 ARG A 120 NH1 147.9 131.0 REMARK 620 4 THR A 118 OG1 106.3 111.4 59.6 REMARK 620 N 1 2 3 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: NDB 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 O PHE A 313 MG MG A 383 1555 1555 2.42 LINK MG MG A 383 O HOH A 400 1555 1555 2.31 LINK SG CYS A 375 HG MMC A 384 1555 1555 1.41 LINK HG MMC A 382 SG CYS A 114 1555 1555 2.33 LINK HG MMC A 382 NH1 ARG A 120 1555 1555 3.31 LINK HG MMC A 382 OG1 THR A 118 1555 1555 3.08 LINK HG MMC A 384 NH1 ARG A 251 1555 1555 3.36 LINK HG MMC A 384 O GLY A 249 1555 1555 3.12 LINK HG MMC A 384 O HOH A 730 1555 1555 3.24 LINK MG MG A 383 O HOH A 400 1555 3565 2.31 LINK MG MG A 383 O PHE A 313 1555 2665 2.42 LINK MG MG A 383 O HOH A 400 1555 2665 2.31 LINK MG MG A 383 O PHE A 313 1555 3565 2.42 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 MASTER 454 0 3 8 26 0 4 6 0 0 0 30 END