HEADER TRANSPORT PROTEIN 03-MAR-24 8S7L TITLE CRYSTAL STRUCTURE OF A DOUBLE MUTANT OF VIRB8-LIKE ORFG CENTRAL AND C- TITLE 2 TERMINAL DOMAINS OF STREPTOCOCCUS THERMOPHILUS ICEST3 (GRAM POSITIVE TITLE 3 CONJUGATIVE TYPE IV SECRETION SYSTEM). COMPND MOL_ID: 1; COMPND 2 MOLECULE: PUTATIVE TRANSFER PROTEIN; COMPND 3 CHAIN: A, B, C; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: STREPTOCOCCUS THERMOPHILUS; SOURCE 3 ORGANISM_TAXID: 1308; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 5 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 6 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 7 EXPRESSION_SYSTEM_PLASMID: PLYSS KEYWDS TRANSPORT PROTEIN, VIRB8, GRAM-POSITIVE, T4SS EXPDTA X-RAY DIFFRACTION AUTHOR F.FAVIER,C.DIDIERJEAN,R.MAFFO-WOULEFACK,B.DOUZI,N.LEBLOND-BOURGET REVDAT 1 12-MAR-25 8S7L 0 JRNL AUTH R.MAFFO-WOULEFACK,A.M.ALI,H.LAROUSSI,J.CAPPELE, JRNL AUTH 2 F.ROMERO-SAAVEDRA,N.RAMIA,E.ROBERT,S.MATHIOT,N.SOLER, JRNL AUTH 3 Y.ROUSSEL,R.FRONZES,J.HUEBNER,C.DIDIERJEAN,F.FAVIER, JRNL AUTH 4 N.LEBLOND-BOURGET,B.DOUZI JRNL TITL ELUCIDATING ASSEMBLY AND FUNCTION OF VIRB8 CELL WALL JRNL TITL 2 SUBUNITS REFINES THE DNA TRANSLOCATION MODEL IN JRNL TITL 3 GRAM-POSITIVE T4SSS. JRNL REF SCI ADV V. 11 Q5975 2025 JRNL REFN ESSN 2375-2548 JRNL PMID 39841841 JRNL DOI 10.1126/SCIADV.ADQ5975 REMARK 2 REMARK 2 RESOLUTION. 2.60 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0425 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.60 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 91.05 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 98.6 REMARK 3 NUMBER OF REFLECTIONS : 37211 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : FREE R-VALUE REMARK 3 FREE R VALUE TEST SET SELECTION : NULL REMARK 3 R VALUE (WORKING + TEST SET) : NULL REMARK 3 R VALUE (WORKING SET) : 0.202 REMARK 3 FREE R VALUE : 0.256 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.888 REMARK 3 FREE R VALUE TEST SET COUNT : 1819 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) : 2.60 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.67 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2617 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.86 REMARK 3 BIN R VALUE (WORKING SET) : 0.3430 REMARK 3 BIN FREE R VALUE SET COUNT : 148 REMARK 3 BIN FREE R VALUE : 0.3710 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 5912 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 0 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 50.28 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 86.28 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -2.73600 REMARK 3 B22 (A**2) : 0.31300 REMARK 3 B33 (A**2) : 2.58500 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -1.25900 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.380 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.278 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.231 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 11.501 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.948 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.921 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 6054 ; 0.012 ; 0.012 REMARK 3 BOND LENGTHS OTHERS (A): 5497 ; 0.001 ; 0.016 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 8208 ; 2.562 ; 1.838 REMARK 3 BOND ANGLES OTHERS (DEGREES): 12692 ; 0.816 ; 1.774 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 714 ; 8.758 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 9 ;16.183 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 1036 ;17.808 ;10.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): NULL ; NULL ; NULL REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 893 ; 0.112 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 6981 ; 0.012 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 1425 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 998 ; 0.212 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 89 ; 0.206 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 2866 ; 0.197 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 108 ; 0.147 ; 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): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL 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): 2871 ;10.727 ; 8.299 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 2872 ;10.725 ; 8.301 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3580 ;12.904 ;14.922 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 3581 ;12.904 ;14.923 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 3183 ;12.387 ; 8.921 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 3184 ;12.385 ; 8.921 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 4628 ;15.375 ;16.025 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 4629 ;15.374 ;16.025 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 PLUS MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THEIR REMARK 3 RIDING POSITIONS REMARK 4 REMARK 4 8S7L COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 03-MAR-24. REMARK 100 THE DEPOSITION ID IS D_1292136698. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 11-NOV-22 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : MASSIF-3 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.967697 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS EIGER X 4M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : POINTLESS 1.12.15 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 37215 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.600 REMARK 200 RESOLUTION RANGE LOW (A) : 91.054 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.8 REMARK 200 DATA REDUNDANCY : 3.100 REMARK 200 R MERGE (I) : 0.06200 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 10.6000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.60 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.72 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.8 REMARK 200 DATA REDUNDANCY IN SHELL : 3.30 REMARK 200 R MERGE FOR SHELL (I) : 0.66500 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.800 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP 11.9.02 REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 63.30 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.35 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: DROPLET: 0.3 UL [PROTEIN (33MG/ML) IN REMARK 280 50 MM TRIS PH 8.0 + 100 MM NACL] + 0.3 UL [RESERVOIR] RESERVOIR: REMARK 280 50 UL [40% V/V PEG 300, 100 MM POTASSIUM PHOSPHATE CITRATE, PH REMARK 280 4.2], VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y,-Z REMARK 290 3555 X+1/2,Y+1/2,Z REMARK 290 4555 -X+1/2,Y+1/2,-Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 3 1.000000 0.000000 0.000000 76.37150 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 44.59250 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 76.37150 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 44.59250 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: TRIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 11180 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 37160 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -49.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C 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 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 SER A 64 REMARK 465 ASN A 65 REMARK 465 LYS A 66 REMARK 465 VAL A 67 REMARK 465 GLY A 68 REMARK 465 THR A 69 REMARK 465 LEU A 70 REMARK 465 GLN A 71 REMARK 465 ALA A 72 REMARK 465 GLN A 73 REMARK 465 VAL A 74 REMARK 465 GLU A 75 REMARK 465 ALA A 76 REMARK 465 THR A 77 REMARK 465 GLN A 78 REMARK 465 LYS A 79 REMARK 465 GLN A 80 REMARK 465 LYS A 81 REMARK 465 ALA A 82 REMARK 465 GLN A 83 REMARK 465 PRO A 84 REMARK 465 ILE A 85 REMARK 465 ASP A 86 REMARK 465 ALA A 87 REMARK 465 ASN A 88 REMARK 465 ASP A 171 REMARK 465 LYS A 172 REMARK 465 SER B 64 REMARK 465 ASN B 65 REMARK 465 LYS B 66 REMARK 465 VAL B 67 REMARK 465 GLY B 68 REMARK 465 THR B 69 REMARK 465 LEU B 70 REMARK 465 GLN B 71 REMARK 465 ALA B 72 REMARK 465 GLN B 73 REMARK 465 VAL B 74 REMARK 465 GLU B 75 REMARK 465 ALA B 76 REMARK 465 THR B 77 REMARK 465 GLN B 78 REMARK 465 LYS B 79 REMARK 465 GLN B 80 REMARK 465 LYS B 81 REMARK 465 ALA B 82 REMARK 465 GLN B 83 REMARK 465 PRO B 84 REMARK 465 ILE B 85 REMARK 465 ASP B 86 REMARK 465 ALA B 87 REMARK 465 ASN B 88 REMARK 465 ASP B 171 REMARK 465 LYS B 172 REMARK 465 ASP B 329 REMARK 465 LYS B 330 REMARK 465 ASP B 331 REMARK 465 SER C 64 REMARK 465 ASN C 65 REMARK 465 LYS C 66 REMARK 465 VAL C 67 REMARK 465 GLY C 68 REMARK 465 THR C 69 REMARK 465 LEU C 70 REMARK 465 GLN C 71 REMARK 465 ALA C 72 REMARK 465 GLN C 73 REMARK 465 VAL C 74 REMARK 465 GLU C 75 REMARK 465 ALA C 76 REMARK 465 THR C 77 REMARK 465 GLN C 78 REMARK 465 LYS C 79 REMARK 465 GLN C 80 REMARK 465 LYS C 81 REMARK 465 ALA C 82 REMARK 465 GLN C 83 REMARK 465 PRO C 84 REMARK 465 ILE C 85 REMARK 465 ASP C 86 REMARK 465 ALA C 87 REMARK 465 ASN C 88 REMARK 465 ASP C 329 REMARK 465 LYS C 330 REMARK 465 ASP C 331 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 LYS C 172 CG CD CE NZ 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 OE2 GLU B 175 OE2 GLU B 175 2555 2.19 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 LEU A 150 CB - CG - CD2 ANGL. DEV. = 12.2 DEGREES REMARK 500 GLU A 215 CB - CA - C ANGL. DEV. = -12.1 DEGREES REMARK 500 HIS A 226 CB - CA - C ANGL. DEV. = 17.0 DEGREES REMARK 500 LYS A 234 N - CA - CB ANGL. DEV. = -11.9 DEGREES REMARK 500 LYS A 269 CB - CG - CD ANGL. DEV. = 16.8 DEGREES REMARK 500 TYR A 313 N - CA - CB ANGL. DEV. = -10.9 DEGREES REMARK 500 LEU A 324 CB - CG - CD1 ANGL. DEV. = -10.9 DEGREES REMARK 500 LYS B 161 CB - CA - C ANGL. DEV. = 13.7 DEGREES REMARK 500 HIS B 226 CB - CA - C ANGL. DEV. = 18.3 DEGREES REMARK 500 TYR B 313 CB - CA - C ANGL. DEV. = 12.9 DEGREES REMARK 500 TYR B 313 N - CA - CB ANGL. DEV. = -12.7 DEGREES REMARK 500 GLN C 111 CB - CA - C ANGL. DEV. = -12.6 DEGREES REMARK 500 TYR C 313 CB - CA - C ANGL. DEV. = 12.2 DEGREES REMARK 500 TYR C 313 N - CA - CB ANGL. DEV. = -11.2 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 TYR A 212 49.36 70.90 REMARK 500 HIS A 226 48.78 -104.38 REMARK 500 SER A 228 142.68 -33.66 REMARK 500 THR A 248 -44.45 -144.48 REMARK 500 LYS A 269 -63.42 -127.68 REMARK 500 THR A 274 111.55 -165.81 REMARK 500 ARG A 280 -113.28 49.02 REMARK 500 ASP A 310 -125.17 62.10 REMARK 500 SER A 312 -155.14 -136.50 REMARK 500 ALA A 327 42.47 -108.12 REMARK 500 GLU B 112 107.44 -49.84 REMARK 500 GLN B 138 137.41 79.15 REMARK 500 TYR B 212 49.31 71.55 REMARK 500 HIS B 226 44.10 -102.03 REMARK 500 THR B 248 -43.56 -144.23 REMARK 500 LYS B 269 -61.28 -129.07 REMARK 500 THR B 274 112.33 -166.30 REMARK 500 ARG B 280 -113.97 49.36 REMARK 500 ASP B 310 -125.88 62.56 REMARK 500 SER B 312 -155.86 -142.57 REMARK 500 ALA B 327 61.73 -105.57 REMARK 500 ASP C 173 -168.59 -169.66 REMARK 500 THR C 248 -40.63 -143.38 REMARK 500 LYS C 269 -58.09 -130.96 REMARK 500 THR C 274 111.75 -166.48 REMARK 500 ARG C 280 -112.52 49.04 REMARK 500 ASP C 310 -128.36 62.53 REMARK 500 SER C 312 -156.05 -140.91 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 GLN B 136 GLY B 137 148.97 REMARK 500 THR C 222 ALA C 223 146.39 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 ARG A 140 0.07 SIDE CHAIN REMARK 500 ASN A 224 0.09 SIDE CHAIN REMARK 500 ARG A 280 0.08 SIDE CHAIN REMARK 500 ARG B 140 0.09 SIDE CHAIN REMARK 500 ARG B 280 0.11 SIDE CHAIN REMARK 500 ARG C 89 0.12 SIDE CHAIN REMARK 500 ARG C 140 0.10 SIDE CHAIN REMARK 500 ARG C 280 0.09 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL DBREF 8S7L A 64 331 UNP Q70CA4 Q70CA4_STRTR 64 331 DBREF 8S7L B 64 331 UNP Q70CA4 Q70CA4_STRTR 64 331 DBREF 8S7L C 64 331 UNP Q70CA4 Q70CA4_STRTR 64 331 SEQADV 8S7L CYS A 204 UNP Q70CA4 ALA 204 ENGINEERED MUTATION SEQADV 8S7L CYS A 264 UNP Q70CA4 ALA 264 ENGINEERED MUTATION SEQADV 8S7L CYS B 204 UNP Q70CA4 ALA 204 ENGINEERED MUTATION SEQADV 8S7L CYS B 264 UNP Q70CA4 ALA 264 ENGINEERED MUTATION SEQADV 8S7L CYS C 204 UNP Q70CA4 ALA 204 ENGINEERED MUTATION SEQADV 8S7L CYS C 264 UNP Q70CA4 ALA 264 ENGINEERED MUTATION SEQRES 1 A 268 SER ASN LYS VAL GLY THR LEU GLN ALA GLN VAL GLU ALA SEQRES 2 A 268 THR GLN LYS GLN LYS ALA GLN PRO ILE ASP ALA ASN ARG SEQRES 3 A 268 LYS TYR ASP TYR LYS LEU GLN TYR TYR LEU ASN ASP TYR SEQRES 4 A 268 VAL TYR ALA TYR PHE THR LEU PRO GLN GLU GLY ASP LYS SEQRES 5 A 268 GLN GLN ALA GLN VAL GLU HIS LEU ASN SER PHE TYR ASN SEQRES 6 A 268 PHE VAL PRO ASP VAL LYS ALA GLN GLY GLN VAL ARG ASN SEQRES 7 A 268 PRO SER THR LEU LEU ASP SER GLN LEU VAL THR VAL GLU SEQRES 8 A 268 GLY LYS VAL ALA THR TYR LYS VAL LYS TYR LYS GLU MET SEQRES 9 A 268 ILE GLN HIS ASP LYS ASP THR GLU GLU LYS GLU LEU VAL SEQRES 10 A 268 THR GLY PHE ASN ILE PRO PHE ASP GLU LYS GLU GLY LYS SEQRES 11 A 268 TYR TYR VAL SER GLY LEU PRO TRP PHE SER CYS ILE GLU SEQRES 12 A 268 SER SER GLN ALA GLY TYR PHE SER GLU ASP ASP GLN LEU SEQRES 13 A 268 GLN LEU THR ALA ASN ASP HIS VAL SER ASP SER GLN HIS SEQRES 14 A 268 LYS LYS VAL GLU LYS PHE LEU LYS VAL PHE PHE THR ASN SEQRES 15 A 268 TYR THR THR ASN GLN ASP ASN LEU ASN LEU ILE ALA LYS SEQRES 16 A 268 ASN VAL ALA ILE VAL CYS ASN THR THR PHE LYS THR ILE SEQRES 17 A 268 ASP TYR THR TYR LEU LYS LYS ASP ARG ALA ASP LEU ILE SEQRES 18 A 268 ALA TYR VAL GLN ALA THR PHE GLU VAL GLY GLY THR THR SEQRES 19 A 268 HIS SER GLU ASN PHE THR PHE THR LEU SER GLU LYS ASP SEQRES 20 A 268 LYS SER TYR TYR VAL THR LYS LEU GLU HIS THR ILE PRO SEQRES 21 A 268 LEU ASN TYR ALA ASN ASP LYS ASP SEQRES 1 B 268 SER ASN LYS VAL GLY THR LEU GLN ALA GLN VAL GLU ALA SEQRES 2 B 268 THR GLN LYS GLN LYS ALA GLN PRO ILE ASP ALA ASN ARG SEQRES 3 B 268 LYS TYR ASP TYR LYS LEU GLN TYR TYR LEU ASN ASP TYR SEQRES 4 B 268 VAL TYR ALA TYR PHE THR LEU PRO GLN GLU GLY ASP LYS SEQRES 5 B 268 GLN GLN ALA GLN VAL GLU HIS LEU ASN SER PHE TYR ASN SEQRES 6 B 268 PHE VAL PRO ASP VAL LYS ALA GLN GLY GLN VAL ARG ASN SEQRES 7 B 268 PRO SER THR LEU LEU ASP SER GLN LEU VAL THR VAL GLU SEQRES 8 B 268 GLY LYS VAL ALA THR TYR LYS VAL LYS TYR LYS GLU MET SEQRES 9 B 268 ILE GLN HIS ASP LYS ASP THR GLU GLU LYS GLU LEU VAL SEQRES 10 B 268 THR GLY PHE ASN ILE PRO PHE ASP GLU LYS GLU GLY LYS SEQRES 11 B 268 TYR TYR VAL SER GLY LEU PRO TRP PHE SER CYS ILE GLU SEQRES 12 B 268 SER SER GLN ALA GLY TYR PHE SER GLU ASP ASP GLN LEU SEQRES 13 B 268 GLN LEU THR ALA ASN ASP HIS VAL SER ASP SER GLN HIS SEQRES 14 B 268 LYS LYS VAL GLU LYS PHE LEU LYS VAL PHE PHE THR ASN SEQRES 15 B 268 TYR THR THR ASN GLN ASP ASN LEU ASN LEU ILE ALA LYS SEQRES 16 B 268 ASN VAL ALA ILE VAL CYS ASN THR THR PHE LYS THR ILE SEQRES 17 B 268 ASP TYR THR TYR LEU LYS LYS ASP ARG ALA ASP LEU ILE SEQRES 18 B 268 ALA TYR VAL GLN ALA THR PHE GLU VAL GLY GLY THR THR SEQRES 19 B 268 HIS SER GLU ASN PHE THR PHE THR LEU SER GLU LYS ASP SEQRES 20 B 268 LYS SER TYR TYR VAL THR LYS LEU GLU HIS THR ILE PRO SEQRES 21 B 268 LEU ASN TYR ALA ASN ASP LYS ASP SEQRES 1 C 268 SER ASN LYS VAL GLY THR LEU GLN ALA GLN VAL GLU ALA SEQRES 2 C 268 THR GLN LYS GLN LYS ALA GLN PRO ILE ASP ALA ASN ARG SEQRES 3 C 268 LYS TYR ASP TYR LYS LEU GLN TYR TYR LEU ASN ASP TYR SEQRES 4 C 268 VAL TYR ALA TYR PHE THR LEU PRO GLN GLU GLY ASP LYS SEQRES 5 C 268 GLN GLN ALA GLN VAL GLU HIS LEU ASN SER PHE TYR ASN SEQRES 6 C 268 PHE VAL PRO ASP VAL LYS ALA GLN GLY GLN VAL ARG ASN SEQRES 7 C 268 PRO SER THR LEU LEU ASP SER GLN LEU VAL THR VAL GLU SEQRES 8 C 268 GLY LYS VAL ALA THR TYR LYS VAL LYS TYR LYS GLU MET SEQRES 9 C 268 ILE GLN HIS ASP LYS ASP THR GLU GLU LYS GLU LEU VAL SEQRES 10 C 268 THR GLY PHE ASN ILE PRO PHE ASP GLU LYS GLU GLY LYS SEQRES 11 C 268 TYR TYR VAL SER GLY LEU PRO TRP PHE SER CYS ILE GLU SEQRES 12 C 268 SER SER GLN ALA GLY TYR PHE SER GLU ASP ASP GLN LEU SEQRES 13 C 268 GLN LEU THR ALA ASN ASP HIS VAL SER ASP SER GLN HIS SEQRES 14 C 268 LYS LYS VAL GLU LYS PHE LEU LYS VAL PHE PHE THR ASN SEQRES 15 C 268 TYR THR THR ASN GLN ASP ASN LEU ASN LEU ILE ALA LYS SEQRES 16 C 268 ASN VAL ALA ILE VAL CYS ASN THR THR PHE LYS THR ILE SEQRES 17 C 268 ASP TYR THR TYR LEU LYS LYS ASP ARG ALA ASP LEU ILE SEQRES 18 C 268 ALA TYR VAL GLN ALA THR PHE GLU VAL GLY GLY THR THR SEQRES 19 C 268 HIS SER GLU ASN PHE THR PHE THR LEU SER GLU LYS ASP SEQRES 20 C 268 LYS SER TYR TYR VAL THR LYS LEU GLU HIS THR ILE PRO SEQRES 21 C 268 LEU ASN TYR ALA ASN ASP LYS ASP HELIX 1 AA1 TYR A 93 THR A 108 1 16 HELIX 2 AA2 GLU A 112 SER A 125 1 14 HELIX 3 AA3 SER A 214 GLN A 218 5 5 HELIX 4 AA4 SER A 228 THR A 247 1 20 HELIX 5 AA5 ASN A 249 ALA A 257 1 9 HELIX 6 AA6 ALA A 327 ASP A 331 5 5 HELIX 7 AA7 TYR B 93 THR B 108 1 16 HELIX 8 AA8 ASP B 114 SER B 125 1 12 HELIX 9 AA9 SER B 214 GLN B 218 5 5 HELIX 10 AB1 SER B 228 THR B 247 1 20 HELIX 11 AB2 ASN B 249 ALA B 257 1 9 HELIX 12 AB3 TYR C 93 THR C 108 1 16 HELIX 13 AB4 GLU C 112 SER C 125 1 14 HELIX 14 AB5 SER C 214 GLN C 218 5 5 HELIX 15 AB6 SER C 228 THR C 247 1 20 HELIX 16 AB7 ASN C 249 ALA C 257 1 9 SHEET 1 AA1 5 TYR A 91 ASP A 92 0 SHEET 2 AA1 5 SER C 143 GLU C 154 -1 O VAL C 153 N TYR A 91 SHEET 3 AA1 5 VAL C 157 GLN C 169 -1 O THR C 159 N VAL C 151 SHEET 4 AA1 5 THR C 174 LYS C 190 -1 O PHE C 183 N TYR C 160 SHEET 5 AA1 5 LYS C 193 VAL C 196 -1 O TYR C 195 N ASP C 188 SHEET 1 AA2 5 TYR A 91 ASP A 92 0 SHEET 2 AA2 5 SER C 143 GLU C 154 -1 O VAL C 153 N TYR A 91 SHEET 3 AA2 5 VAL C 157 GLN C 169 -1 O THR C 159 N VAL C 151 SHEET 4 AA2 5 THR C 174 LYS C 190 -1 O PHE C 183 N TYR C 160 SHEET 5 AA2 5 TRP C 201 SER C 203 -1 O SER C 203 N GLY C 182 SHEET 1 AA3 3 LYS A 193 VAL A 196 0 SHEET 2 AA3 3 GLU A 175 LYS A 190 -1 N LYS A 190 O LYS A 193 SHEET 3 AA3 3 TRP A 201 SER A 203 -1 O SER A 203 N GLY A 182 SHEET 1 AA4 5 LYS A 193 VAL A 196 0 SHEET 2 AA4 5 GLU A 175 LYS A 190 -1 N LYS A 190 O LYS A 193 SHEET 3 AA4 5 VAL A 157 ILE A 168 -1 N TYR A 160 O PHE A 183 SHEET 4 AA4 5 SER A 143 GLU A 154 -1 N VAL A 151 O THR A 159 SHEET 5 AA4 5 TYR B 91 ASP B 92 -1 O TYR B 91 N VAL A 153 SHEET 1 AA5 4 THR A 267 ASP A 279 0 SHEET 2 AA5 4 ASP A 282 VAL A 293 -1 O ASP A 282 N ASP A 279 SHEET 3 AA5 4 THR A 296 LYS A 309 -1 O LEU A 306 N LEU A 283 SHEET 4 AA5 4 SER A 312 GLU A 319 -1 O SER A 312 N LYS A 309 SHEET 1 AA6 3 LYS B 193 VAL B 196 0 SHEET 2 AA6 3 GLU B 175 LYS B 190 -1 N ASP B 188 O TYR B 195 SHEET 3 AA6 3 TRP B 201 SER B 203 -1 O SER B 203 N GLY B 182 SHEET 1 AA7 5 LYS B 193 VAL B 196 0 SHEET 2 AA7 5 GLU B 175 LYS B 190 -1 N ASP B 188 O TYR B 195 SHEET 3 AA7 5 VAL B 157 ILE B 168 -1 N TYR B 160 O PHE B 183 SHEET 4 AA7 5 SER B 143 GLU B 154 -1 N VAL B 151 O THR B 159 SHEET 5 AA7 5 TYR C 91 ASP C 92 -1 O TYR C 91 N VAL B 153 SHEET 1 AA8 4 THR B 267 ASP B 279 0 SHEET 2 AA8 4 ASP B 282 VAL B 293 -1 O ASP B 282 N ASP B 279 SHEET 3 AA8 4 THR B 296 LYS B 309 -1 O LEU B 306 N LEU B 283 SHEET 4 AA8 4 SER B 312 GLU B 319 -1 O SER B 312 N LYS B 309 SHEET 1 AA9 4 THR C 267 ASP C 279 0 SHEET 2 AA9 4 ASP C 282 VAL C 293 -1 O ASP C 282 N ASP C 279 SHEET 3 AA9 4 THR C 296 LYS C 309 -1 O LEU C 306 N LEU C 283 SHEET 4 AA9 4 SER C 312 GLU C 319 -1 O SER C 312 N LYS C 309 SSBOND 1 CYS A 204 CYS C 264 1555 1555 2.13 SSBOND 2 CYS A 264 CYS B 204 1555 1555 2.10 SSBOND 3 CYS B 264 CYS C 204 1555 1555 2.11 CRYST1 152.743 89.185 98.424 90.00 112.31 90.00 C 1 2 1 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 0.006547 0.000000 0.002687 0.00000 SCALE2 0.000000 0.011213 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010983 0.00000 TER 3824 ASP A 331 TER 7602 ASN B 328 TER 11401 ASN C 328 CONECT 183610386 CONECT 2763 5660 CONECT 5660 2763 CONECT 6587 9459 CONECT 9459 6587 CONECT10386 1836 MASTER 472 0 0 16 38 0 0 6 5912 3 6 63 END