HEADER IMMUNE SYSTEM 20-APR-25 9ULP TITLE CRYSTAL STRUCTURE OF FTSB FROM STREPTOCOCCUS PYOGENES IN COMPLEX WITH TITLE 2 NB1 NANOBODY COMPND MOL_ID: 1; COMPND 2 MOLECULE: IRON-HYDROXAMATE ABC TRANSPORTER SUBSTRATE-BINDING PROTEIN; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: FTSB; COMPND 5 ENGINEERED: YES; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: VHH; COMPND 8 CHAIN: C, D; COMPND 9 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: STREPTOCOCCUS PYOGENES; SOURCE 3 ORGANISM_TAXID: 1314; SOURCE 4 GENE: E0F66_02370; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 MOL_ID: 2; SOURCE 8 ORGANISM_SCIENTIFIC: VICUGNA PACOS; SOURCE 9 ORGANISM_TAXID: 30538; SOURCE 10 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 11 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS VHH, FTSB, IRON ACQUISITION, SIDEROPHORE, ANTI-BACTERIAL STRATEGY, KEYWDS 2 IMMUNE SYSTEM EXPDTA X-RAY DIFFRACTION AUTHOR J.FERNANDEZ-PEREZ,J.M.M.CAAVEIRO,K.TSUMOTO REVDAT 1 25-MAR-26 9ULP 0 JRNL AUTH J.FERNANDEZ-PEREZ,S.DE VEGA,J.M.M.CAAVEIRO,M.NAKAKIDO, JRNL AUTH 2 S.NAGATOISHI,A.SENOO,K.TANOI,T.NOZAWA,I.NAKAGAWA,K.TSUMOTO JRNL TITL DEVELOPMENT OF AN INHIBITORY MONOCLONAL NANOBODY TARGETING JRNL TITL 2 STREPTOCOCCUS PYOGENES SIDEROPHORE BINDING PROTEIN FTSB. JRNL REF J.BIOL.CHEM. V. 302 11224 2026 JRNL REFN ESSN 1083-351X JRNL PMID 41651419 JRNL DOI 10.1016/J.JBC.2026.111224 REMARK 2 REMARK 2 RESOLUTION. 2.55 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0430 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) : 2.55 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 48.18 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 95.7 REMARK 3 NUMBER OF REFLECTIONS : 22967 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) : 0.256 REMARK 3 R VALUE (WORKING SET) : 0.253 REMARK 3 FREE R VALUE : 0.307 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1208 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) : 2.55 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.62 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1539 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 90.83 REMARK 3 BIN R VALUE (WORKING SET) : 0.3310 REMARK 3 BIN FREE R VALUE SET COUNT : 85 REMARK 3 BIN FREE R VALUE : 0.3330 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 6146 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 81 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 39.55 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -1.20000 REMARK 3 B22 (A**2) : -3.12000 REMARK 3 B33 (A**2) : 4.32000 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): NULL REMARK 3 ESU BASED ON FREE R VALUE (A): 0.421 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.360 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 35.474 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.893 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.861 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 6288 ; 0.004 ; 0.012 REMARK 3 BOND LENGTHS OTHERS (A): 6070 ; 0.002 ; 0.016 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 8523 ; 1.137 ; 1.824 REMARK 3 BOND ANGLES OTHERS (DEGREES): 14009 ; 0.411 ; 1.767 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 782 ; 6.732 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 28 ; 7.469 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 1108 ;14.997 ;10.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): NULL ; NULL ; NULL REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 959 ; 0.056 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 7258 ; 0.004 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 1382 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL 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): 3137 ; 0.786 ; 1.700 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 3137 ; 0.786 ; 1.700 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3916 ; 1.377 ; 3.053 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 3917 ; 1.377 ; 3.053 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 3151 ; 0.646 ; 1.754 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 3152 ; 0.646 ; 1.754 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 4608 ; 1.163 ; 3.200 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 6952 ; 2.595 ;17.100 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 6949 ; 2.591 ;17.110 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 : 4 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 34 A 308 REMARK 3 ORIGIN FOR THE GROUP (A): 4.6459 24.6392 66.4587 REMARK 3 T TENSOR REMARK 3 T11: 0.2427 T22: 0.3652 REMARK 3 T33: 0.0651 T12: -0.0647 REMARK 3 T13: 0.0340 T23: 0.0146 REMARK 3 L TENSOR REMARK 3 L11: 2.2085 L22: 1.5695 REMARK 3 L33: 1.3424 L12: -1.0954 REMARK 3 L13: -0.0106 L23: -0.1168 REMARK 3 S TENSOR REMARK 3 S11: -0.0044 S12: -0.2037 S13: -0.0274 REMARK 3 S21: 0.0461 S22: -0.0215 S23: -0.0172 REMARK 3 S31: 0.0021 S32: 0.0729 S33: 0.0259 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : C 2 C 120 REMARK 3 ORIGIN FOR THE GROUP (A): -9.9492 17.3478 41.8036 REMARK 3 T TENSOR REMARK 3 T11: 0.2908 T22: 0.2802 REMARK 3 T33: 0.0707 T12: 0.0112 REMARK 3 T13: 0.0221 T23: 0.0095 REMARK 3 L TENSOR REMARK 3 L11: 1.9354 L22: 0.9690 REMARK 3 L33: 2.2812 L12: 0.6549 REMARK 3 L13: 1.4102 L23: 0.6842 REMARK 3 S TENSOR REMARK 3 S11: 0.0472 S12: 0.1127 S13: 0.0626 REMARK 3 S21: -0.0481 S22: -0.0189 S23: 0.0641 REMARK 3 S31: -0.1019 S32: 0.0276 S33: -0.0283 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 35 B 308 REMARK 3 ORIGIN FOR THE GROUP (A): 2.1969 -16.7164 17.4664 REMARK 3 T TENSOR REMARK 3 T11: 0.2325 T22: 0.2663 REMARK 3 T33: 0.0049 T12: -0.0208 REMARK 3 T13: 0.0296 T23: -0.0155 REMARK 3 L TENSOR REMARK 3 L11: 1.2511 L22: 1.4454 REMARK 3 L33: 0.8104 L12: -0.5005 REMARK 3 L13: 0.2956 L23: -0.4545 REMARK 3 S TENSOR REMARK 3 S11: -0.0157 S12: -0.0408 S13: -0.0173 REMARK 3 S21: -0.0265 S22: 0.0201 S23: 0.0204 REMARK 3 S31: -0.0108 S32: -0.0002 S33: -0.0044 REMARK 3 REMARK 3 TLS GROUP : 4 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : D 2 D 117 REMARK 3 ORIGIN FOR THE GROUP (A): 17.9891 -9.6761 40.6765 REMARK 3 T TENSOR REMARK 3 T11: 0.2919 T22: 0.2733 REMARK 3 T33: 0.1853 T12: -0.0151 REMARK 3 T13: 0.0228 T23: -0.0018 REMARK 3 L TENSOR REMARK 3 L11: 1.4794 L22: 0.9786 REMARK 3 L33: 2.8526 L12: 0.2612 REMARK 3 L13: 1.2308 L23: 0.7108 REMARK 3 S TENSOR REMARK 3 S11: 0.0297 S12: -0.2260 S13: -0.1667 REMARK 3 S21: 0.0291 S22: -0.1208 S23: -0.0714 REMARK 3 S31: 0.0840 S32: -0.0769 S33: 0.0911 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : 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 THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 9ULP COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 21-APR-25. REMARK 100 THE DEPOSITION ID IS D_1300058689. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 02-JUL-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 : PHOTON FACTORY REMARK 200 BEAMLINE : BL-5A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0000 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS3 S 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : AIMLESS 0.7.15 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 24247 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.550 REMARK 200 RESOLUTION RANGE LOW (A) : 48.200 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 96.0 REMARK 200 DATA REDUNDANCY : 5.600 REMARK 200 R MERGE (I) : 0.11500 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 10.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.55 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.66 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.60900 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.700 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER 2.8.3 REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 39.50 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.03 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 2% TACSIMATE PH 6.0; 100 MM BIS-TRIS REMARK 280 PH 6.5, 20% PEG 3350, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE REMARK 280 293.15K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 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 19.18200 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 159.04200 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 30.23200 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 159.04200 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 19.18200 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 30.23200 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 1900 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 17360 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -10.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, 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 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 1850 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 17530 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -10.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: B, D 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 28 REMARK 465 ASN A 29 REMARK 465 THR A 30 REMARK 465 ALA A 31 REMARK 465 SER A 32 REMARK 465 LYS A 33 REMARK 465 GLU A 309 REMARK 465 ASN A 310 REMARK 465 GLN C 1 REMARK 465 HIS C 121 REMARK 465 HIS C 122 REMARK 465 HIS C 123 REMARK 465 HIS C 124 REMARK 465 SER B 28 REMARK 465 ASN B 29 REMARK 465 THR B 30 REMARK 465 ALA B 31 REMARK 465 SER B 32 REMARK 465 LYS B 33 REMARK 465 SER B 34 REMARK 465 GLU B 309 REMARK 465 ASN B 310 REMARK 465 GLN D 1 REMARK 465 SER D 118 REMARK 465 HIS D 119 REMARK 465 HIS D 120 REMARK 465 HIS D 121 REMARK 465 HIS D 122 REMARK 465 HIS D 123 REMARK 465 HIS D 124 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 GLN A 40 CG CD OE1 NE2 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 OG SER C 17 ND2 ASN D 73 1455 2.16 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 ASN A 122 34.40 -99.36 REMARK 500 ARG A 138 -8.36 88.06 REMARK 500 ASN A 154 63.12 37.91 REMARK 500 LYS A 184 34.85 -140.41 REMARK 500 GLU A 194 -117.27 61.43 REMARK 500 TRP A 204 29.09 -142.74 REMARK 500 SER A 259 45.74 25.78 REMARK 500 ALA A 260 -55.31 -137.63 REMARK 500 THR A 289 22.48 -145.11 REMARK 500 SER A 307 38.37 -97.80 REMARK 500 VAL C 48 -65.69 -108.86 REMARK 500 ASN C 76 65.18 25.40 REMARK 500 THR C 104 52.33 -99.92 REMARK 500 ASN B 122 41.77 -103.06 REMARK 500 ARG B 138 -9.49 87.53 REMARK 500 GLU B 194 -117.22 62.28 REMARK 500 TRP B 204 30.15 -140.64 REMARK 500 GLN B 213 -60.22 -96.94 REMARK 500 SER B 259 132.95 -39.25 REMARK 500 ALA B 260 -20.99 85.94 REMARK 500 THR B 289 22.72 -146.61 REMARK 500 SER B 307 33.31 -97.35 REMARK 500 VAL D 48 -66.58 -109.88 REMARK 500 ASN D 76 -7.13 71.31 REMARK 500 THR D 104 51.20 -100.49 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 VAL D 116 SER D 117 149.38 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 C 66 0.07 SIDE CHAIN REMARK 500 ARG D 66 0.07 SIDE CHAIN 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 427 DISTANCE = 6.42 ANGSTROMS DBREF1 9ULP A 28 310 UNP A0A5S4TPK8_STRPY DBREF2 9ULP A A0A5S4TPK8 28 310 DBREF 9ULP C 1 124 PDB 9ULP 9ULP 1 124 DBREF1 9ULP B 28 310 UNP A0A5S4TPK8_STRPY DBREF2 9ULP B A0A5S4TPK8 28 310 DBREF 9ULP D 1 124 PDB 9ULP 9ULP 1 124 SEQRES 1 A 283 SER ASN THR ALA SER LYS SER LEU SER PRO MET PRO GLN SEQRES 2 A 283 ILE ALA GLY VAL THR TYR TYR GLY ASP ILE PRO LYS GLN SEQRES 3 A 283 PRO LYS ARG VAL VAL SER LEU ALA SER THR TYR THR GLY SEQRES 4 A 283 TYR LEU LYS LYS LEU ASP MET ASN LEU VAL GLY VAL THR SEQRES 5 A 283 SER TYR ASP LYS LYS ASN PRO ILE LEU ALA LYS THR VAL SEQRES 6 A 283 LYS LYS ALA LYS GLN VAL ALA ALA THR ASP LEU GLU ALA SEQRES 7 A 283 ILE THR THR LEU LYS PRO ASP LEU ILE VAL VAL GLY SER SEQRES 8 A 283 THR GLU GLU ASN ILE LYS GLN LEU ALA GLU ILE ALA PRO SEQRES 9 A 283 VAL ILE SER ILE GLU TYR ARG LYS ARG ASP TYR LEU GLN SEQRES 10 A 283 VAL LEU SER ASP PHE GLY ARG ILE PHE ASN LYS GLU GLY SEQRES 11 A 283 LYS ALA LYS LYS TRP LEU LYS ASP TRP LYS THR LYS THR SEQRES 12 A 283 ALA ALA TYR GLU LYS GLU VAL LYS ALA VAL THR GLY ASP SEQRES 13 A 283 LYS ALA THR PHE THR ILE MET GLY LEU TYR GLU LYS ASP SEQRES 14 A 283 VAL TYR LEU PHE GLY LYS ASP TRP GLY ARG GLY GLY GLU SEQRES 15 A 283 ILE ILE HIS GLN ALA PHE HIS TYR ASP ALA PRO GLU LYS SEQRES 16 A 283 VAL LYS THR GLU VAL PHE LYS GLN GLY TYR LEU SER LEU SEQRES 17 A 283 SER GLN GLU VAL LEU PRO ASP TYR ILE GLY ASP TYR VAL SEQRES 18 A 283 VAL ILE ALA ALA GLU ASP ASP LYS THR GLY SER ALA LEU SEQRES 19 A 283 TYR GLU SER LYS LEU TRP GLN SER ILE PRO ALA VAL LYS SEQRES 20 A 283 LYS HIS HIS VAL ILE LYS VAL ASN ALA ASN VAL PHE TYR SEQRES 21 A 283 PHE THR ASP PRO LEU SER LEU GLU TYR GLN LEU GLU THR SEQRES 22 A 283 LEU ARG GLU ALA ILE LEU SER SER GLU ASN SEQRES 1 C 124 GLN VAL GLN LEU VAL GLU SER GLY GLY GLY LEU VAL GLN SEQRES 2 C 124 PRO GLY GLY SER LEU ARG LEU SER CYS ALA ALA SER ARG SEQRES 3 C 124 SER ILE ILE GLY ILE ASN VAL ALA GLY TRP TYR ARG GLN SEQRES 4 C 124 ALA PRO GLY LYS GLN ARG GLU LEU VAL ALA VAL ILE THR SEQRES 5 C 124 THR GLY GLY SER THR ASN TYR ALA ASP SER ALA LYS GLY SEQRES 6 C 124 ARG PHE THR ILE SER ARG ASP ASN ALA GLN ASN THR LEU SEQRES 7 C 124 TYR LEU GLN MET ASN SER LEU LYS PRO SER ASP THR ALA SEQRES 8 C 124 VAL TYR TYR CYS ASN VAL ARG GLY HIS PRO PRO LEU THR SEQRES 9 C 124 TYR ASP TYR TRP GLY GLN GLY THR ARG VAL THR VAL SER SEQRES 10 C 124 SER HIS HIS HIS HIS HIS HIS SEQRES 1 B 283 SER ASN THR ALA SER LYS SER LEU SER PRO MET PRO GLN SEQRES 2 B 283 ILE ALA GLY VAL THR TYR TYR GLY ASP ILE PRO LYS GLN SEQRES 3 B 283 PRO LYS ARG VAL VAL SER LEU ALA SER THR TYR THR GLY SEQRES 4 B 283 TYR LEU LYS LYS LEU ASP MET ASN LEU VAL GLY VAL THR SEQRES 5 B 283 SER TYR ASP LYS LYS ASN PRO ILE LEU ALA LYS THR VAL SEQRES 6 B 283 LYS LYS ALA LYS GLN VAL ALA ALA THR ASP LEU GLU ALA SEQRES 7 B 283 ILE THR THR LEU LYS PRO ASP LEU ILE VAL VAL GLY SER SEQRES 8 B 283 THR GLU GLU ASN ILE LYS GLN LEU ALA GLU ILE ALA PRO SEQRES 9 B 283 VAL ILE SER ILE GLU TYR ARG LYS ARG ASP TYR LEU GLN SEQRES 10 B 283 VAL LEU SER ASP PHE GLY ARG ILE PHE ASN LYS GLU GLY SEQRES 11 B 283 LYS ALA LYS LYS TRP LEU LYS ASP TRP LYS THR LYS THR SEQRES 12 B 283 ALA ALA TYR GLU LYS GLU VAL LYS ALA VAL THR GLY ASP SEQRES 13 B 283 LYS ALA THR PHE THR ILE MET GLY LEU TYR GLU LYS ASP SEQRES 14 B 283 VAL TYR LEU PHE GLY LYS ASP TRP GLY ARG GLY GLY GLU SEQRES 15 B 283 ILE ILE HIS GLN ALA PHE HIS TYR ASP ALA PRO GLU LYS SEQRES 16 B 283 VAL LYS THR GLU VAL PHE LYS GLN GLY TYR LEU SER LEU SEQRES 17 B 283 SER GLN GLU VAL LEU PRO ASP TYR ILE GLY ASP TYR VAL SEQRES 18 B 283 VAL ILE ALA ALA GLU ASP ASP LYS THR GLY SER ALA LEU SEQRES 19 B 283 TYR GLU SER LYS LEU TRP GLN SER ILE PRO ALA VAL LYS SEQRES 20 B 283 LYS HIS HIS VAL ILE LYS VAL ASN ALA ASN VAL PHE TYR SEQRES 21 B 283 PHE THR ASP PRO LEU SER LEU GLU TYR GLN LEU GLU THR SEQRES 22 B 283 LEU ARG GLU ALA ILE LEU SER SER GLU ASN SEQRES 1 D 124 GLN VAL GLN LEU VAL GLU SER GLY GLY GLY LEU VAL GLN SEQRES 2 D 124 PRO GLY GLY SER LEU ARG LEU SER CYS ALA ALA SER ARG SEQRES 3 D 124 SER ILE ILE GLY ILE ASN VAL ALA GLY TRP TYR ARG GLN SEQRES 4 D 124 ALA PRO GLY LYS GLN ARG GLU LEU VAL ALA VAL ILE THR SEQRES 5 D 124 THR GLY GLY SER THR ASN TYR ALA ASP SER ALA LYS GLY SEQRES 6 D 124 ARG PHE THR ILE SER ARG ASP ASN ALA GLN ASN THR LEU SEQRES 7 D 124 TYR LEU GLN MET ASN SER LEU LYS PRO SER ASP THR ALA SEQRES 8 D 124 VAL TYR TYR CYS ASN VAL ARG GLY HIS PRO PRO LEU THR SEQRES 9 D 124 TYR ASP TYR TRP GLY GLN GLY THR ARG VAL THR VAL SER SEQRES 10 D 124 SER HIS HIS HIS HIS HIS HIS FORMUL 5 HOH *81(H2 O) HELIX 1 AA1 ALA A 61 LEU A 71 1 11 HELIX 2 AA2 THR A 79 LYS A 84 1 6 HELIX 3 AA3 LEU A 88 VAL A 92 5 5 HELIX 4 AA4 ASP A 102 LEU A 109 1 8 HELIX 5 AA5 ASN A 122 GLU A 128 1 7 HELIX 6 AA6 LEU A 143 PHE A 153 1 11 HELIX 7 AA7 LYS A 155 GLY A 182 1 28 HELIX 8 AA8 GLY A 207 GLN A 213 1 7 HELIX 9 AA9 PRO A 220 VAL A 227 1 8 HELIX 10 AB1 SER A 236 ILE A 244 5 9 HELIX 11 AB2 SER A 264 ILE A 270 1 7 HELIX 12 AB3 ILE A 270 LYS A 275 1 6 HELIX 13 AB4 ALA A 283 TYR A 287 1 5 HELIX 14 AB5 ASP A 290 SER A 307 1 18 HELIX 15 AB6 ASP C 61 LYS C 64 5 4 HELIX 16 AB7 ASN C 73 GLN C 75 5 3 HELIX 17 AB8 LYS C 86 THR C 90 5 5 HELIX 18 AB9 ALA B 61 LEU B 71 1 11 HELIX 19 AC1 THR B 79 LYS B 84 1 6 HELIX 20 AC2 LEU B 88 VAL B 92 5 5 HELIX 21 AC3 ASP B 102 LEU B 109 1 8 HELIX 22 AC4 ASN B 122 GLU B 128 1 7 HELIX 23 AC5 LEU B 143 PHE B 153 1 11 HELIX 24 AC6 LYS B 155 GLY B 182 1 28 HELIX 25 AC7 GLY B 207 GLN B 213 1 7 HELIX 26 AC8 PRO B 220 VAL B 227 1 8 HELIX 27 AC9 SER B 236 ILE B 244 5 9 HELIX 28 AD1 SER B 264 ILE B 270 1 7 HELIX 29 AD2 ILE B 270 LYS B 275 1 6 HELIX 30 AD3 ALA B 283 TYR B 287 1 5 HELIX 31 AD4 ASP B 290 SER B 307 1 18 HELIX 32 AD5 ASP D 61 LYS D 64 5 4 HELIX 33 AD6 LYS D 86 THR D 90 5 5 SHEET 1 AA1 6 VAL A 44 TYR A 47 0 SHEET 2 AA1 6 VAL A 132 ILE A 135 -1 O VAL A 132 N TYR A 47 SHEET 3 AA1 6 LEU A 113 GLY A 117 1 N VAL A 116 O ILE A 133 SHEET 4 AA1 6 VAL A 57 SER A 59 1 N VAL A 58 O VAL A 115 SHEET 5 AA1 6 LEU A 75 VAL A 78 1 O GLY A 77 N SER A 59 SHEET 6 AA1 6 LYS A 96 GLN A 97 1 O LYS A 96 N VAL A 76 SHEET 1 AA2 5 TYR A 232 LEU A 235 0 SHEET 2 AA2 5 ASP A 196 PHE A 200 -1 N LEU A 199 O LEU A 233 SHEET 3 AA2 5 PHE A 187 TYR A 193 -1 N TYR A 193 O ASP A 196 SHEET 4 AA2 5 TYR A 247 ALA A 252 1 O VAL A 249 N MET A 190 SHEET 5 AA2 5 VAL A 278 ASN A 282 1 O VAL A 281 N ILE A 250 SHEET 1 AA3 4 LEU C 4 SER C 7 0 SHEET 2 AA3 4 LEU C 18 ALA C 24 -1 O ALA C 23 N VAL C 5 SHEET 3 AA3 4 THR C 77 MET C 82 -1 O MET C 82 N LEU C 18 SHEET 4 AA3 4 PHE C 67 ASP C 72 -1 N SER C 70 O TYR C 79 SHEET 1 AA4 6 LEU C 11 VAL C 12 0 SHEET 2 AA4 6 THR C 112 VAL C 116 1 O THR C 115 N VAL C 12 SHEET 3 AA4 6 ALA C 91 GLY C 99 -1 N TYR C 93 O THR C 112 SHEET 4 AA4 6 ASN C 32 GLN C 39 -1 N TYR C 37 O TYR C 94 SHEET 5 AA4 6 GLU C 46 THR C 52 -1 O ILE C 51 N ALA C 34 SHEET 6 AA4 6 THR C 57 TYR C 59 -1 O ASN C 58 N VAL C 50 SHEET 1 AA5 4 LEU C 11 VAL C 12 0 SHEET 2 AA5 4 THR C 112 VAL C 116 1 O THR C 115 N VAL C 12 SHEET 3 AA5 4 ALA C 91 GLY C 99 -1 N TYR C 93 O THR C 112 SHEET 4 AA5 4 ASP C 106 TRP C 108 -1 O TYR C 107 N VAL C 97 SHEET 1 AA6 6 VAL B 44 TYR B 47 0 SHEET 2 AA6 6 VAL B 132 ILE B 135 -1 O VAL B 132 N TYR B 47 SHEET 3 AA6 6 LEU B 113 GLY B 117 1 N VAL B 116 O ILE B 133 SHEET 4 AA6 6 VAL B 57 SER B 59 1 N VAL B 58 O VAL B 115 SHEET 5 AA6 6 LEU B 75 VAL B 78 1 O GLY B 77 N SER B 59 SHEET 6 AA6 6 LYS B 96 GLN B 97 1 O LYS B 96 N VAL B 76 SHEET 1 AA7 5 TYR B 232 LEU B 235 0 SHEET 2 AA7 5 ASP B 196 PHE B 200 -1 N LEU B 199 O LEU B 233 SHEET 3 AA7 5 PHE B 187 TYR B 193 -1 N GLY B 191 O TYR B 198 SHEET 4 AA7 5 TYR B 247 ALA B 252 1 O VAL B 249 N MET B 190 SHEET 5 AA7 5 VAL B 278 ASN B 282 1 O VAL B 281 N ILE B 250 SHEET 1 AA8 4 LEU D 4 SER D 7 0 SHEET 2 AA8 4 LEU D 18 ALA D 24 -1 O ALA D 23 N VAL D 5 SHEET 3 AA8 4 THR D 77 MET D 82 -1 O MET D 82 N LEU D 18 SHEET 4 AA8 4 PHE D 67 SER D 70 -1 N SER D 70 O TYR D 79 SHEET 1 AA9 6 LEU D 11 VAL D 12 0 SHEET 2 AA9 6 THR D 112 VAL D 116 1 O THR D 115 N VAL D 12 SHEET 3 AA9 6 ALA D 91 GLY D 99 -1 N TYR D 93 O THR D 112 SHEET 4 AA9 6 ASN D 32 GLN D 39 -1 N TYR D 37 O TYR D 94 SHEET 5 AA9 6 ARG D 45 THR D 52 -1 O ILE D 51 N ALA D 34 SHEET 6 AA9 6 THR D 57 TYR D 59 -1 O ASN D 58 N VAL D 50 SHEET 1 AB1 4 LEU D 11 VAL D 12 0 SHEET 2 AB1 4 THR D 112 VAL D 116 1 O THR D 115 N VAL D 12 SHEET 3 AB1 4 ALA D 91 GLY D 99 -1 N TYR D 93 O THR D 112 SHEET 4 AB1 4 ASP D 106 TRP D 108 -1 O TYR D 107 N VAL D 97 SSBOND 1 CYS C 22 CYS C 95 1555 1555 2.06 SSBOND 2 CYS D 22 CYS D 95 1555 1555 2.02 CISPEP 1 PRO C 101 PRO C 102 0 4.27 CISPEP 2 PRO D 101 PRO D 102 0 4.89 CRYST1 38.364 60.464 318.084 90.00 90.00 90.00 P 21 21 21 8 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 0.026066 0.000000 0.000000 0.00000 SCALE2 0.000000 0.016539 0.000000 0.00000 SCALE3 0.000000 0.000000 0.003144 0.00000 CONECT 2337 2894 CONECT 2894 2337 CONECT 5424 5981 CONECT 5981 5424 MASTER 471 0 0 33 50 0 0 6 6227 4 4 64 END