HEADER RECEPTOR 15-OCT-04 1W9R TITLE SOLUTION STRUCTURE OF CHOLINE BINDING PROTEIN A, DOMAIN R2, THE MAJOR TITLE 2 ADHESIN OF STREPTOCOCCUS PNEUMONIAE COMPND MOL_ID: 1; COMPND 2 MOLECULE: CHOLINE BINDING PROTEIN A; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: ADHESION DOMAIN RESIDUES 329-443; COMPND 5 SYNONYM: CBPA-R2; COMPND 6 ENGINEERED: YES; COMPND 7 OTHER_DETAILS: THE FIRST FOUR RESIDUES (N-TER-GSHM) DERIVE FROM THE COMPND 8 PET28A EXPRESSION VECTOR. THE FOLLOWING RESIDUES CORRESPOND TO COMPND 9 RESIDUES 329-443 OF CBPA FROM THE TIGR4 STRAIN OF S. PNEUMONIAE. SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: STREPTOCOCCUS PNEUMONIAE; SOURCE 3 ORGANISM_TAXID: 170187; SOURCE 4 STRAIN: TIGR4; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 8 EXPRESSION_SYSTEM_PLASMID: PET28A KEYWDS RECEPTOR, CBPA, POLYMERIC IMMUNOGLOBULIN RECEPTOR, PIGR, ADHESION, KEYWDS 2 INVASION, PATHOGENESIS EXPDTA SOLUTION NMR NUMMDL 19 AUTHOR R.LUO,B.MANN,W.S.LEWIS,A.ROWE,R.HEATH,M.L.STEWART,A.E.HAMBURGER, AUTHOR 2 P.J.BJORKMAN,S.SIVAKOLUNDU,E.R.LACY,E.TUOMANEN,R.W.KRIWACKI REVDAT 3 15-MAY-24 1W9R 1 REMARK REVDAT 2 24-FEB-09 1W9R 1 VERSN REVDAT 1 22-FEB-05 1W9R 0 JRNL AUTH R.LUO,B.MANN,W.S.LEWIS,A.ROWE,R.HEATH,M.L.STEWART, JRNL AUTH 2 A.E.HAMBURGER,S.SIVAKOLUNDU,E.R.LACY,P.J.BJORKMAN, JRNL AUTH 3 E.TUOMANEN,R.W.KRIWACKI JRNL TITL SOLUTION STRUCTURE OF CHOLINE BINDING PROTEIN A, THE MAJOR JRNL TITL 2 ADHESIN OF STREPTOCOCCUS PNEUMONIAE JRNL REF EMBO J. V. 24 34 2005 JRNL REFN ISSN 0261-4189 JRNL PMID 15616594 JRNL DOI 10.1038/SJ.EMBOJ.7600490 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 8.0 REMARK 3 AUTHORS : BRUNGER,ADAMS,CLORE,DELANO,GROS, GROSSE- REMARK 3 KUNSTLEVE,JIANG,KUSZEWSKI,NILGES, PANNU,READ, RICE, REMARK 3 SIMONSON,WARREN REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: A TOTAL OF 2292 NOE INTERPROTON REMARK 3 DISTANCE RESTRAINTS, 83 PAIRS OF PSI AND PHI AND BACKBONE REMARK 3 DIHEDRAL ANGLE RESTRAINTS, AND 146 PAIRS OF H-BOND RESTRAINTS REMARK 3 WERE USED TO CALCULATE AN ENSEMBLE OF STRUCTURES USING A REMARK 3 MODIFIED VERSION OF THE ORIGINAL TORSION ANGLE DYNAMICS PROTOCOL REMARK 3 ROUTINE WITHIN CNS. THE TAD PROTOCOL WAS AS FOLLOWS. 75 PS HIGH- REMARK 3 TEMPERATURE TAD 50000 K FOLLOWED BY COOLING TO 1000 K OVER THE REMARK 3 COURSE OF 75 PS AND RAMPING OF THE VAN DER WAALS SCALING TERM REMARK 3 FROM 0.1 TO 1.0. THE MOLECULES WERE FURTHER COOLED TO 300 K OVER REMARK 3 THE COURSE OF 20 PS USING CONVENTIONAL CARTESIAN DYNAMICS REMARK 3 FOLLOWED FINALLY BY 10000 STEPS OF CONJUGATE GRADIENT ENERGY REMARK 3 MINIMIZATION. THE NOE ENERGY TERM WAS 150 KCAL PER MOL FOR THE REMARK 3 FIRST THREE STEPS AND 100 KCAL PER MOL FOR THE LAST. THE REMARK 3 DIHEDRAL RESTRAINT TERM WAS 100 KCAL PER MOL FOR THE FIRST THREE REMARK 3 STEPS AND 300 KCAL PER MOL FOR THE LAST. TWO HUNDRED STRUCTURES REMARK 3 WERE CALCULATED, AND THE LOWEST 40 STRUCTURES WERE FURTHER REMARK 3 REFINED BY USING THE SANDER MODULE OF AMBER 8.0 MOLECULAR REMARK 3 MODELING SUITE. THE SOLVENT WAS REPRESENTED BY GENERALIZED-BORN REMARK 3 GB SOLVENT MODEL. THE STRUCTURES WERE FIRST ENERGY MINIMIZED REMARK 3 FOR1 PS WITHOUT ANY RESTRAINTS FOLLOWED BY 40 PS SIMULATED REMARK 3 ANNEALING FROM 400 K TO 0 K WITH ALL THE RESTRAINTS. THE REMARK 3 DISTANCE AND ANGLE RESTRAINTS WERE REPRESENTED BY A SQUARE-WELL REMARK 3 PENALTY FUNCTION WITH FORCE CONSTANTS OF 20 KCAL PER MOL AND 2 REMARK 3 KCAL PER MOL, RESPECTIVELY. REMARK 4 REMARK 4 1W9R COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 15-OCT-04. REMARK 100 THE DEPOSITION ID IS D_1290021201. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298.0 REMARK 210 PH : 6.5 REMARK 210 IONIC STRENGTH : APPROX. 60 MM REMARK 210 PRESSURE : 1.0 ATM REMARK 210 SAMPLE CONTENTS : 10 MM POTASSIUM PHOSPHATE REMARK 210 BUFFER, PH 6.5, 50 MM NACL, 0.02 REMARK 210 % (W/V) SODIUM AZIDE, AND 95% REMARK 210 H2O/5 % 2H2O (V/V) REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 3D CT-HNCA; 3D CT-HNCOCA; 3D CT REMARK 210 -HNCACB; 3D CT- HNCOCACB; 4D REMARK 210 HNCOCA; 4D HNCACO; 3D CCONH- REMARK 210 TOCSY; 3D HCCONH-TOCSY; 3D REMARK 210 HBHACBCACONH; 3D HCCH-COSY; 3D REMARK 210 HCCH-TOSCY; 3D NOESY- 1H-15N REMARK 210 HSQC; 3D NOESY-1H- 13 CHSQC; 4D REMARK 210 1H-15N HSQC- NOESY-1H-15N HSQC; REMARK 210 4D 1H- 15N HSQC-NOESY-1H-13C REMARK 210 HSQC; 4D 1H-13C HSQC-NOESY-1H- REMARK 210 13C HSQC. REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ REMARK 210 SPECTROMETER MODEL : INOVA REMARK 210 SPECTROMETER MANUFACTURER : VARIAN REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : CNS REMARK 210 METHOD USED : TAD REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 200 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 19 REMARK 210 CONFORMERS, SELECTION CRITERIA : LEAST ENERGY REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : NULL REMARK 210 REMARK 210 REMARK: CBPA-R2 STRUCTURES WERE CALCULATED USING NMR DATA REMARK 210 COLLECTED AT 25 C. INTERPROTON DISTANCES WERE ESTIMATED FROM THE REMARK 210 VOLUMES OF CROSS-PEAKS IN 3D AND 4D NOESY SPECTRA. THE RESTRAINT REMARK 210 LOWER BOUNDS WERE SET TO THE VAN DER WAALS DISTANCE, AND UPPER REMARK 210 BOUNDS WERE SET TO 2.5, 3.5, AND 6.0 FOR STRONG, MEDIUM, AND REMARK 210 WEAK RESONANCES, RESPECTIVELY. ESTIMATES OF BACKBONE DIHEDRAL REMARK 210 ANGLES F AND Y WERE OBTAINED USING THE PROGRAM TALOS AND 1H , REMARK 210 15N, 13C , 13C , AND 13CO CHEMICAL SHIFT VALUES. TALOS-BASED AND REMARK 210 RESTRAINTS WERE USED ONLY WHEN A WELL-DEFINED PREDICTION WAS REMARK 210 OBTAINED, AND THIS OCCURRED WITHIN THE HELICAL SEGMENTS OF CBPA- REMARK 210 R2. IN ADDITION, H-BOND RESTRAINTS WERE USED WITHIN -HELICES IN REMARK 210 THE FOLLOWING WAY. TWO DISTANCE RESTRAINTS WERE USED FOR EACH REMARK 210 HYDROGEN BOND, ONE BETWEEN THE HYDROGEN AND THE ACCEPTOR ATOM REMARK 210 1.5-2.3 AND ONE BETWEEN THE DONOR HEAVY ATOM AND THE ACCEPTOR REMARK 210 ATOM 2.4-3.3. THESE WERE INTRODUCED AFTER THE INITIAL SET OF REMARK 210 STRUCTURE CALCULATIONS. AMIDE PROTONS INVOLVED IN H-BONDS WERE REMARK 210 IDENTIFIED ON THE BASIS OF SLOW EXCHANGE WITH D2O. A TOTAL OF REMARK 210 2292 NOE INTERPROTON DISTANCE RESTRAINTS, 83 PAIRS OF AND REMARK 210 BACKBONE DIHEDRAL ANGLE RESTRAINTS, AND 146 PAIRS OF H-BOND REMARK 210 RESTRAINTS WERE USED TO CALCULATE AN ENSEMBLE OF STRUCTURES REMARK 210 USING A MODIFIED VERSION OF THE ORIGINAL TORSION ANGLE DYNAMICS REMARK 210 PROTOCOL ROUTINE WITHIN CNS. THE TAD PROTOCOL WAS AS FOLLOWS 75 REMARK 210 PS HIGH-TEMPERATURE TAD 50 000 K FOLLOWED BY COOLING TO 1000 K REMARK 210 OVER THE COURSE OF 75 PS AND RAMPING OF THE VAN DER WAALS REMARK 210 SCALING TERM FROM 0.1 TO 1.0. THE MOLECULES WERE FURTHER COOLED REMARK 210 TO 300 K OVER THE COURSE OF 20 PS USING CONVENTIONAL CARTESIAN REMARK 210 DYNAMICS FOLLOWED FINALLY BY 10000 STEPS OF CONJUGATE GRADIENT REMARK 210 ENERGY MINIMIZATION. THE NOE ENERGY TERM WAS 150 FOR THE FIRST REMARK 210 THREE STEPS AND 100 FOR THE LAST. THE DIHEDRAL RESTRAINT TERM REMARK 210 WAS 100 FOR THE FIRST THREE STEPS AND 300 FOR THE LAST. TWO REMARK 210 HUNDRED STRUCTURES WERE CALCULATED, AND THE LOWEST 40 STRUCTURES REMARK 210 WERE FURTHER REFINED BY USING THE SANDER MODULE OF AMBER 8.0 REMARK 210 MOLECULAR MODELING SUITE. REMARK 215 REMARK 215 NMR STUDY REMARK 215 THE COORDINATES IN THIS ENTRY WERE GENERATED FROM SOLUTION REMARK 215 NMR DATA. PROTEIN DATA BANK CONVENTIONS REQUIRE THAT REMARK 215 CRYST1 AND SCALE RECORDS BE INCLUDED, BUT THE VALUES ON REMARK 215 THESE RECORDS ARE MEANINGLESS. 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: MONOMERIC 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 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS 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 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 4 ARG A 69 CZ ARG A 69 NH1 2.504 REMARK 500 4 ASN A 70 N ASN A 70 CA 2.470 REMARK 500 4 ASN A 70 CB ASN A 70 CG 2.357 REMARK 500 4 GLU A 71 N GLU A 71 CA 0.653 REMARK 500 4 GLU A 71 CA GLU A 71 CB 2.743 REMARK 500 4 GLU A 71 CB GLU A 71 CG 0.649 REMARK 500 4 GLU A 71 CA GLU A 71 C 2.674 REMARK 500 4 GLU A 72 CB GLU A 72 CG 5.109 REMARK 500 4 GLU A 72 CA GLU A 72 C 4.195 REMARK 500 4 LYS A 73 CA LYS A 73 CB 3.968 REMARK 500 4 LYS A 73 CB LYS A 73 CG 1.630 REMARK 500 4 LYS A 73 CD LYS A 73 CE 4.081 REMARK 500 4 VAL A 74 N VAL A 74 CA 1.174 REMARK 500 4 VAL A 74 CA VAL A 74 CB 3.309 REMARK 500 4 VAL A 74 CB VAL A 74 CG2 2.228 REMARK 500 4 LYS A 75 CA LYS A 75 CB 5.173 REMARK 500 4 LYS A 75 CA LYS A 75 C 5.034 REMARK 500 4 GLN A 76 N GLN A 76 CA 5.114 REMARK 500 4 GLN A 76 CB GLN A 76 CG 4.718 REMARK 500 4 GLN A 76 CD GLN A 76 OE1 6.142 REMARK 500 4 GLN A 76 CD GLN A 76 NE2 6.084 REMARK 500 4 GLN A 76 CA GLN A 76 C 5.823 REMARK 500 4 ALA A 77 N ALA A 77 CA 3.505 REMARK 500 4 ALA A 77 CA ALA A 77 CB 5.133 REMARK 500 4 ALA A 77 C ALA A 77 O 5.501 REMARK 500 4 LYS A 78 CB LYS A 78 CG 6.057 REMARK 500 4 LYS A 78 CD LYS A 78 CE 5.679 REMARK 500 4 LYS A 78 CE LYS A 78 NZ 4.717 REMARK 500 4 LYS A 78 C LYS A 78 O 6.350 REMARK 500 4 ALA A 79 N ALA A 79 CA 4.987 REMARK 500 4 ALA A 79 CA ALA A 79 CB 7.052 REMARK 500 4 GLU A 80 CA GLU A 80 CB 5.498 REMARK 500 4 GLU A 80 CB GLU A 80 CG 3.015 REMARK 500 4 GLU A 80 CA GLU A 80 C 3.620 REMARK 500 4 GLU A 80 C GLU A 80 O 5.781 REMARK 500 4 VAL A 81 CA VAL A 81 CB 3.842 REMARK 500 4 VAL A 81 CB VAL A 81 CG1 4.751 REMARK 500 4 VAL A 81 CA VAL A 81 C 4.967 REMARK 500 4 VAL A 81 C VAL A 81 O 6.352 REMARK 500 4 GLU A 82 N GLU A 82 CA 5.946 REMARK 500 4 GLU A 82 CG GLU A 82 CD 7.631 REMARK 500 4 GLU A 82 CA GLU A 82 C 6.464 REMARK 500 4 SER A 83 CB SER A 83 OG 5.113 REMARK 500 4 SER A 83 CA SER A 83 C 6.380 REMARK 500 4 LYS A 84 CA LYS A 84 CB 4.405 REMARK 500 4 LYS A 84 CE LYS A 84 NZ 4.714 REMARK 500 4 LYS A 84 CA LYS A 84 C 5.908 REMARK 500 4 LYS A 85 CA LYS A 85 C 5.895 REMARK 500 4 ALA A 86 N ALA A 86 CA 6.010 REMARK 500 4 ALA A 86 CA ALA A 86 CB 7.793 REMARK 500 REMARK 500 THIS ENTRY HAS 55 BOND DEVIATIONS. 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 1 ARG A 31 NE - CZ - NH1 ANGL. DEV. = 3.5 DEGREES REMARK 500 1 ARG A 32 NE - CZ - NH1 ANGL. DEV. = 3.0 DEGREES REMARK 500 1 TYR A 34 CB - CG - CD1 ANGL. DEV. = -5.3 DEGREES REMARK 500 1 ARG A 107 NE - CZ - NH1 ANGL. DEV. = 3.3 DEGREES REMARK 500 2 TYR A 34 CB - CG - CD2 ANGL. DEV. = -4.2 DEGREES REMARK 500 2 ASN A 37 CB - CA - C ANGL. DEV. = 12.9 DEGREES REMARK 500 2 GLU A 67 N - CA - C ANGL. DEV. = 19.3 DEGREES REMARK 500 3 ARG A 32 NE - CZ - NH1 ANGL. DEV. = 3.2 DEGREES REMARK 500 3 TYR A 34 CB - CG - CD2 ANGL. DEV. = -4.3 DEGREES REMARK 500 3 PRO A 68 C - N - CA ANGL. DEV. = -17.4 DEGREES REMARK 500 3 PRO A 68 N - CA - CB ANGL. DEV. = 8.7 DEGREES REMARK 500 3 ARG A 107 NE - CZ - NH1 ANGL. DEV. = 3.1 DEGREES REMARK 500 4 ARG A 32 NE - CZ - NH1 ANGL. DEV. = 3.0 DEGREES REMARK 500 4 TYR A 34 CB - CG - CD2 ANGL. DEV. = -4.6 DEGREES REMARK 500 4 GLU A 67 N - CA - C ANGL. DEV. = 19.9 DEGREES REMARK 500 4 ARG A 69 NH1 - CZ - NH2 ANGL. DEV. = 13.6 DEGREES REMARK 500 4 ARG A 69 NE - CZ - NH1 ANGL. DEV. = -80.6 DEGREES REMARK 500 4 ASN A 70 C - N - CA ANGL. DEV. = -38.3 DEGREES REMARK 500 4 ASN A 70 N - CA - CB ANGL. DEV. = -27.3 DEGREES REMARK 500 4 ASN A 70 CB - CG - OD1 ANGL. DEV. = -36.2 DEGREES REMARK 500 4 ASN A 70 N - CA - C ANGL. DEV. = 46.9 DEGREES REMARK 500 4 GLU A 71 C - N - CA ANGL. DEV. = -82.6 DEGREES REMARK 500 4 GLU A 71 CB - CA - C ANGL. DEV. = -74.5 DEGREES REMARK 500 4 GLU A 71 N - CA - CB ANGL. DEV. = -90.4 DEGREES REMARK 500 4 GLU A 71 CA - CB - CG ANGL. DEV. = -87.9 DEGREES REMARK 500 4 GLU A 71 CB - CG - CD ANGL. DEV. = -53.4 DEGREES REMARK 500 4 GLU A 71 N - CA - C ANGL. DEV. = -83.5 DEGREES REMARK 500 4 GLU A 71 CA - C - O ANGL. DEV. = 29.1 DEGREES REMARK 500 4 GLU A 72 CB - CA - C ANGL. DEV. = 60.3 DEGREES REMARK 500 4 GLU A 72 CA - CB - CG ANGL. DEV. = -78.5 DEGREES REMARK 500 4 GLU A 72 CB - CG - CD ANGL. DEV. = -46.4 DEGREES REMARK 500 4 GLU A 72 N - CA - C ANGL. DEV. = -31.1 DEGREES REMARK 500 4 GLU A 72 CA - C - O ANGL. DEV. = 20.8 DEGREES REMARK 500 4 GLU A 72 CA - C - N ANGL. DEV. = -59.4 DEGREES REMARK 500 4 LYS A 73 CB - CA - C ANGL. DEV. = 13.2 DEGREES REMARK 500 4 LYS A 73 CA - CB - CG ANGL. DEV. = -97.7 DEGREES REMARK 500 4 LYS A 73 CG - CD - CE ANGL. DEV. = -27.7 DEGREES REMARK 500 4 LYS A 73 CD - CE - NZ ANGL. DEV. = 24.7 DEGREES REMARK 500 4 VAL A 74 C - N - CA ANGL. DEV. = -74.2 DEGREES REMARK 500 4 VAL A 74 N - CA - CB ANGL. DEV. = -93.8 DEGREES REMARK 500 4 VAL A 74 CG1 - CB - CG2 ANGL. DEV. = 61.9 DEGREES REMARK 500 4 VAL A 74 CA - CB - CG1 ANGL. DEV. = 40.5 DEGREES REMARK 500 4 VAL A 74 CA - CB - CG2 ANGL. DEV. = -80.0 DEGREES REMARK 500 4 VAL A 74 N - CA - C ANGL. DEV. = -26.0 DEGREES REMARK 500 4 LYS A 75 CB - CA - C ANGL. DEV. = -88.6 DEGREES REMARK 500 4 LYS A 75 N - CA - CB ANGL. DEV. = -42.2 DEGREES REMARK 500 4 LYS A 75 CA - CB - CG ANGL. DEV. = -46.4 DEGREES REMARK 500 4 LYS A 75 N - CA - C ANGL. DEV. = -39.0 DEGREES REMARK 500 4 LYS A 75 CA - C - O ANGL. DEV. = -44.2 DEGREES REMARK 500 4 GLN A 76 CB - CA - C ANGL. DEV. = 28.3 DEGREES REMARK 500 REMARK 500 THIS ENTRY HAS 161 ANGLE DEVIATIONS. 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 1 SER A 2 -162.81 54.56 REMARK 500 1 HIS A 3 -40.91 125.91 REMARK 500 1 MET A 4 -24.23 -142.80 REMARK 500 1 ASP A 30 21.36 -60.72 REMARK 500 1 ARG A 31 -12.75 -140.92 REMARK 500 1 PRO A 35 -44.49 -28.22 REMARK 500 1 TYR A 39 -47.99 -0.04 REMARK 500 1 GLU A 104 42.92 -71.81 REMARK 500 1 ALA A 109 16.42 57.95 REMARK 500 1 ALA A 110 14.88 -146.39 REMARK 500 1 GLU A 112 -35.97 66.00 REMARK 500 2 SER A 2 93.35 63.68 REMARK 500 2 HIS A 3 -75.90 -137.81 REMARK 500 2 ALA A 12 0.82 -67.79 REMARK 500 2 TYR A 39 -58.24 12.20 REMARK 500 2 THR A 41 85.66 19.71 REMARK 500 2 LEU A 42 -18.52 -48.95 REMARK 500 2 ARG A 69 11.81 57.47 REMARK 500 2 ASN A 70 36.17 -73.92 REMARK 500 2 GLU A 71 -28.47 72.57 REMARK 500 2 GLU A 103 -45.07 66.13 REMARK 500 2 ARG A 107 -120.08 -134.57 REMARK 500 2 GLU A 111 27.31 47.07 REMARK 500 3 HIS A 3 -82.17 -134.15 REMARK 500 3 MET A 4 82.49 -155.57 REMARK 500 3 PRO A 5 6.60 -61.12 REMARK 500 3 GLU A 6 -33.39 -38.44 REMARK 500 3 PRO A 35 -42.89 -28.14 REMARK 500 3 TYR A 39 -59.76 9.70 REMARK 500 3 THR A 41 84.83 36.30 REMARK 500 3 ARG A 69 63.44 25.24 REMARK 500 3 GLU A 71 -28.10 74.84 REMARK 500 3 GLU A 103 51.90 38.59 REMARK 500 3 GLU A 104 16.67 58.51 REMARK 500 3 ARG A 107 67.20 37.39 REMARK 500 3 ALA A 110 19.92 52.54 REMARK 500 4 HIS A 3 -97.08 -131.60 REMARK 500 4 PRO A 5 -2.53 -50.61 REMARK 500 4 GLU A 6 -37.49 -39.35 REMARK 500 4 ASP A 30 14.46 -53.97 REMARK 500 4 PRO A 35 -43.61 -29.10 REMARK 500 4 ASN A 37 52.29 36.71 REMARK 500 4 TYR A 39 -46.37 -4.18 REMARK 500 4 THR A 41 80.35 41.13 REMARK 500 4 GLU A 64 -76.58 -71.77 REMARK 500 4 ARG A 69 17.24 58.78 REMARK 500 4 ASN A 70 23.96 -32.69 REMARK 500 4 ALA A 77 73.24 2.92 REMARK 500 4 GLU A 82 63.81 -100.25 REMARK 500 4 LYS A 85 -108.47 -87.49 REMARK 500 REMARK 500 THIS ENTRY HAS 216 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 HIS A 3 MET A 4 1 141.64 REMARK 500 LYS A 66 GLU A 67 1 -115.88 REMARK 500 HIS A 3 MET A 4 2 145.46 REMARK 500 ASN A 33 TYR A 34 2 143.61 REMARK 500 LYS A 66 GLU A 67 2 -141.94 REMARK 500 PRO A 68 ARG A 69 2 126.55 REMARK 500 HIS A 3 MET A 4 3 124.06 REMARK 500 PRO A 5 GLU A 6 3 146.90 REMARK 500 ASN A 37 THR A 38 3 148.53 REMARK 500 ALA A 65 LYS A 66 3 -142.71 REMARK 500 GLU A 67 PRO A 68 3 -76.61 REMARK 500 GLU A 63 GLU A 64 4 140.21 REMARK 500 GLU A 64 ALA A 65 4 -142.54 REMARK 500 LYS A 66 GLU A 67 4 -131.01 REMARK 500 PRO A 68 ARG A 69 4 125.99 REMARK 500 ASN A 70 GLU A 71 4 -39.57 REMARK 500 GLU A 72 LYS A 73 4 -125.24 REMARK 500 LYS A 73 VAL A 74 4 -43.88 REMARK 500 LYS A 78 ALA A 79 4 -145.27 REMARK 500 GLU A 82 SER A 83 4 100.27 REMARK 500 LYS A 85 ALA A 86 4 -55.48 REMARK 500 ASN A 37 THR A 38 5 149.55 REMARK 500 LYS A 66 GLU A 67 5 -139.32 REMARK 500 GLU A 67 PRO A 68 5 -149.55 REMARK 500 HIS A 3 MET A 4 6 122.32 REMARK 500 PRO A 5 GLU A 6 6 146.78 REMARK 500 HIS A 3 MET A 4 7 94.03 REMARK 500 PRO A 5 GLU A 6 7 146.68 REMARK 500 ASN A 33 TYR A 34 7 140.49 REMARK 500 ASN A 37 THR A 38 7 146.09 REMARK 500 LYS A 40 THR A 41 7 -139.45 REMARK 500 LYS A 40 THR A 41 8 -44.40 REMARK 500 LYS A 66 GLU A 67 8 -144.80 REMARK 500 PRO A 68 ARG A 69 8 139.66 REMARK 500 ARG A 107 LYS A 108 8 -39.86 REMARK 500 HIS A 3 MET A 4 9 131.50 REMARK 500 LYS A 66 GLU A 67 9 -144.34 REMARK 500 PRO A 68 ARG A 69 10 148.07 REMARK 500 LYS A 75 GLN A 76 10 149.57 REMARK 500 ASN A 33 TYR A 34 13 142.83 REMARK 500 TYR A 34 PRO A 35 13 64.62 REMARK 500 ASN A 37 THR A 38 13 146.80 REMARK 500 GLU A 63 GLU A 64 13 137.85 REMARK 500 GLU A 64 ALA A 65 13 -139.69 REMARK 500 LYS A 66 GLU A 67 13 -140.42 REMARK 500 PRO A 68 ARG A 69 13 127.50 REMARK 500 LYS A 66 GLU A 67 14 -127.46 REMARK 500 GLU A 67 PRO A 68 14 -148.30 REMARK 500 PRO A 68 ARG A 69 15 140.00 REMARK 500 HIS A 3 MET A 4 16 144.22 REMARK 500 REMARK 500 THIS ENTRY HAS 64 NON CIS, NON-TRANS OMEGA OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 2 TYR A 34 0.13 SIDE CHAIN REMARK 500 4 ARG A 69 0.25 SIDE CHAIN REMARK 500 4 ASN A 70 0.24 SIDE CHAIN REMARK 500 4 GLN A 76 0.09 SIDE CHAIN REMARK 500 4 GLU A 82 0.11 SIDE CHAIN REMARK 500 4 GLU A 87 0.17 SIDE CHAIN REMARK 500 10 ARG A 32 0.08 SIDE CHAIN REMARK 500 13 ARG A 32 0.08 SIDE CHAIN REMARK 500 13 TYR A 34 0.08 SIDE CHAIN REMARK 500 18 ARG A 32 0.08 SIDE CHAIN 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 4 GLU A 72 24.84 REMARK 500 4 GLN A 76 18.09 REMARK 500 4 ALA A 77 62.59 REMARK 500 4 VAL A 81 88.98 REMARK 500 4 GLU A 82 -39.01 REMARK 500 4 LYS A 85 53.25 REMARK 500 REMARK 500 REMARK: NULL REMARK 999 REMARK 999 SEQUENCE REMARK 999 THE PRIMARY ACCESSION NUMBER CORRESPONDS TO THE CBPA REMARK 999 PROTEIN SEQUENCE. THIS IS DERIVED FROM THE GENOME REMARK 999 SEQUENCE DETERMINED BY TIGR. THAT ENTRY HAS ACCESSION REMARK 999 NUMBER AE007507. DBREF 1W9R A 1 4 PDB 1W9R 1W9R 1 4 DBREF 1W9R A 5 119 UNP Q97N74 Q97N74 329 443 SEQRES 1 A 119 GLY SER HIS MET PRO GLU LYS LYS VAL ALA GLU ALA GLU SEQRES 2 A 119 LYS LYS VAL GLU GLU ALA LYS LYS LYS ALA GLU ASP GLN SEQRES 3 A 119 LYS GLU GLU ASP ARG ARG ASN TYR PRO THR ASN THR TYR SEQRES 4 A 119 LYS THR LEU GLU LEU GLU ILE ALA GLU SER ASP VAL GLU SEQRES 5 A 119 VAL LYS LYS ALA GLU LEU GLU LEU VAL LYS GLU GLU ALA SEQRES 6 A 119 LYS GLU PRO ARG ASN GLU GLU LYS VAL LYS GLN ALA LYS SEQRES 7 A 119 ALA GLU VAL GLU SER LYS LYS ALA GLU ALA THR ARG LEU SEQRES 8 A 119 GLU LYS ILE LYS THR ASP ARG LYS LYS ALA GLU GLU GLU SEQRES 9 A 119 ALA LYS ARG LYS ALA ALA GLU GLU ASP LYS VAL LYS GLU SEQRES 10 A 119 LYS PRO HELIX 1 1 PRO A 5 ASN A 33 1 29 HELIX 2 2 THR A 41 LYS A 66 1 26 HELIX 3 3 GLU A 71 GLU A 102 1 32 HELIX 4 4 GLU A 112 GLU A 117 5 6 CISPEP 1 MET A 4 PRO A 5 1 2.93 CISPEP 2 GLU A 67 PRO A 68 2 -27.05 CISPEP 3 GLU A 67 PRO A 68 4 -24.39 CISPEP 4 GLN A 76 ALA A 77 4 -25.65 CISPEP 5 VAL A 81 GLU A 82 4 -28.33 CISPEP 6 GLY A 1 SER A 2 5 6.64 CISPEP 7 GLU A 67 PRO A 68 6 -7.72 CISPEP 8 GLU A 67 PRO A 68 8 -19.73 CISPEP 9 GLU A 67 PRO A 68 10 -11.56 CISPEP 10 GLU A 67 PRO A 68 11 -1.82 CISPEP 11 GLU A 67 PRO A 68 12 -8.66 CISPEP 12 GLY A 1 SER A 2 13 2.18 CISPEP 13 GLU A 67 PRO A 68 13 -22.34 CISPEP 14 GLU A 67 PRO A 68 15 -7.21 CISPEP 15 GLU A 67 PRO A 68 19 -21.58 CRYST1 1.000 1.000 1.000 90.00 90.00 90.00 P 1 1 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 1.000000 0.000000 0.000000 0.00000 SCALE2 0.000000 1.000000 0.000000 0.00000 SCALE3 0.000000 0.000000 1.000000 0.00000 MODEL 1