HEADER METAL TRANSPORT 21-APR-22 7XLI TITLE CRYSTAL STRUCTURE OF ISDB LINKER-NEAT2 BOUND TO A NANOBODY (VHH) COMPND MOL_ID: 1; COMPND 2 MOLECULE: IRON-REGULATED SURFACE DETERMINANT PROTEIN B; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: NEAT2; COMPND 5 SYNONYM: FUR-REGULATED PROTEIN B,STAPHYLOCOCCAL IRON-REGULATED COMPND 6 PROTEIN H,STAPHYLOCOCCUS AUREUS SURFACE PROTEIN J; COMPND 7 ENGINEERED: YES; COMPND 8 MOL_ID: 2; COMPND 9 MOLECULE: VHH6 NANOBODY; COMPND 10 CHAIN: B; COMPND 11 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: STAPHYLOCOCCUS AUREUS SUBSP. AUREUS MU50; SOURCE 3 ORGANISM_TAXID: 158878; SOURCE 4 GENE: ISDB, C7M54_06565, DD547_01151, EP54_07185, EQ90_05325, SOURCE 5 FAF17_11720, GO814_06830, GO942_06780, GQX37_07535, NCTC13131_00513, SOURCE 6 SA950122_02636, SAHC1335_02047, SAMEA103891415_00297, SOURCE 7 SAMEA2076235_00033, SAMEA2078260_00343, SAMEA2078588_00277, SOURCE 8 SAMEA2078837_01385, SAMEA2080344_00033, SAMEA2081063_00033, SOURCE 9 SAMEA4008575_00033, SAMEA70146418_01784; SOURCE 10 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 11 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 12 MOL_ID: 2; SOURCE 13 ORGANISM_SCIENTIFIC: LAMA GLAMA; SOURCE 14 ORGANISM_TAXID: 9844; SOURCE 15 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 16 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS ISDH SYSTEM HEME STAPHYLOCOCCUS AUREUS VHH NANODOBY ANTIMICROBIAL, KEYWDS 2 METAL TRANSPORT EXPDTA X-RAY DIFFRACTION AUTHOR J.M.M.CAAVEIRO,S.VALENCIANO-BELLIDO,K.TSUMOTO REVDAT 4 06-MAR-24 7XLI 1 COMPND SOURCE DBREF REVDAT 3 29-NOV-23 7XLI 1 REMARK REVDAT 2 01-NOV-23 7XLI 1 JRNL REVDAT 1 31-MAY-23 7XLI 0 JRNL AUTH S.VALENCIANO-BELLIDO,J.M.M.CAAVEIRO,M.NAKAKIDO,D.KURODA, JRNL AUTH 2 C.AIKAWA,I.NAKAGAWA,K.TSUMOTO JRNL TITL TARGETING HEMOGLOBIN RECEPTORS ISDH AND ISDB OF JRNL TITL 2 STAPHYLOCOCCUS AUREUS WITH A SINGLE VHH ANTIBODY INHIBITS JRNL TITL 3 BACTERIAL GROWTH. JRNL REF J.BIOL.CHEM. V. 299 04927 2023 JRNL REFN ESSN 1083-351X JRNL PMID 37330175 JRNL DOI 10.1016/J.JBC.2023.104927 REMARK 2 REMARK 2 RESOLUTION. 1.70 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0258 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) : 1.70 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 40.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 3 NUMBER OF REFLECTIONS : 29982 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) : 0.210 REMARK 3 R VALUE (WORKING SET) : 0.209 REMARK 3 FREE R VALUE : 0.237 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1251 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) : 1.70 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.74 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2158 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 97.26 REMARK 3 BIN R VALUE (WORKING SET) : 0.2980 REMARK 3 BIN FREE R VALUE SET COUNT : 82 REMARK 3 BIN FREE R VALUE : 0.3460 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1888 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 2 REMARK 3 SOLVENT ATOMS : 110 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 42.31 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 1.93000 REMARK 3 B22 (A**2) : 0.33000 REMARK 3 B33 (A**2) : -2.26000 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): 0.109 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.106 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.088 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 5.417 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.958 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.951 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 1948 ; 0.014 ; 0.013 REMARK 3 BOND LENGTHS OTHERS (A): 1755 ; 0.002 ; 0.017 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 2634 ; 1.780 ; 1.649 REMARK 3 BOND ANGLES OTHERS (DEGREES): 4078 ; 1.391 ; 1.587 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 242 ;15.544 ; 5.145 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 106 ;32.242 ;23.302 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 344 ;14.440 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 9 ;21.751 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 248 ; 0.086 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2292 ; 0.012 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 422 ; 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): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 2 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 342 A 451 REMARK 3 ORIGIN FOR THE GROUP (A): -3.6885 5.1406 5.4580 REMARK 3 T TENSOR REMARK 3 T11: 0.3209 T22: 0.4035 REMARK 3 T33: 0.3822 T12: -0.0165 REMARK 3 T13: -0.0758 T23: -0.0993 REMARK 3 L TENSOR REMARK 3 L11: 1.5239 L22: 1.6920 REMARK 3 L33: 4.8438 L12: 0.4484 REMARK 3 L13: 0.9438 L23: 1.3001 REMARK 3 S TENSOR REMARK 3 S11: 0.0987 S12: 0.4894 S13: -0.4611 REMARK 3 S21: -0.3439 S22: -0.0504 S23: 0.2350 REMARK 3 S31: 0.3574 S32: -0.4523 S33: -0.0483 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 : B 1 B 125 REMARK 3 ORIGIN FOR THE GROUP (A): 4.1676 12.4804 33.9734 REMARK 3 T TENSOR REMARK 3 T11: 0.1281 T22: 0.0204 REMARK 3 T33: 0.1525 T12: -0.0008 REMARK 3 T13: -0.0227 T23: -0.0030 REMARK 3 L TENSOR REMARK 3 L11: 1.3498 L22: 2.4440 REMARK 3 L33: 2.8567 L12: 0.1023 REMARK 3 L13: -0.4695 L23: -0.2544 REMARK 3 S TENSOR REMARK 3 S11: -0.0006 S12: -0.0782 S13: 0.0010 REMARK 3 S21: 0.2351 S22: 0.0194 S23: -0.0936 REMARK 3 S31: 0.0673 S32: 0.2227 S33: -0.0187 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 U VALUES : WITH TLS ADDED REMARK 4 REMARK 4 7XLI COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 27-APR-22. REMARK 100 THE DEPOSITION ID IS D_1300029098. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 07-DEC-19 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5 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) : 1.000 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS3 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM 7.2.2 REMARK 200 DATA SCALING SOFTWARE : SCALA 3.3.22 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 31303 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.700 REMARK 200 RESOLUTION RANGE LOW (A) : 40.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 200 DATA REDUNDANCY : 8.400 REMARK 200 R MERGE (I) : 0.06800 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 14.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.70 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.79 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.82800 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.300 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: 7XLD REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 37.31 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.96 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 25% PEG 3,350 0.1 M HEPES (PH 7.5), REMARK 280 VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 293K 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 20.16050 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 70.35000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 24.29000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 70.35000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 20.16050 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 24.29000 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 1490 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 11910 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -28.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B 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 LYS A 274 REMARK 465 ALA A 275 REMARK 465 GLU A 276 REMARK 465 LYS A 277 REMARK 465 LEU A 278 REMARK 465 LEU A 279 REMARK 465 ALA A 280 REMARK 465 PRO A 281 REMARK 465 TYR A 282 REMARK 465 LYS A 283 REMARK 465 LYS A 284 REMARK 465 ALA A 285 REMARK 465 LYS A 286 REMARK 465 THR A 287 REMARK 465 LEU A 288 REMARK 465 GLU A 289 REMARK 465 ARG A 290 REMARK 465 GLN A 291 REMARK 465 VAL A 292 REMARK 465 TYR A 293 REMARK 465 GLU A 294 REMARK 465 LEU A 295 REMARK 465 ASN A 296 REMARK 465 LYS A 297 REMARK 465 ILE A 298 REMARK 465 GLN A 299 REMARK 465 ASP A 300 REMARK 465 LYS A 301 REMARK 465 LEU A 302 REMARK 465 PRO A 303 REMARK 465 GLU A 304 REMARK 465 LYS A 305 REMARK 465 LEU A 306 REMARK 465 LYS A 307 REMARK 465 ALA A 308 REMARK 465 GLU A 309 REMARK 465 TYR A 310 REMARK 465 LYS A 311 REMARK 465 LYS A 312 REMARK 465 LYS A 313 REMARK 465 LEU A 314 REMARK 465 GLU A 315 REMARK 465 ASP A 316 REMARK 465 THR A 317 REMARK 465 LYS A 318 REMARK 465 LYS A 319 REMARK 465 ALA A 320 REMARK 465 LEU A 321 REMARK 465 ASP A 322 REMARK 465 GLU A 323 REMARK 465 GLN A 324 REMARK 465 VAL A 325 REMARK 465 LYS A 326 REMARK 465 SER A 327 REMARK 465 ALA A 328 REMARK 465 ILE A 329 REMARK 465 THR A 330 REMARK 465 GLU A 331 REMARK 465 PHE A 332 REMARK 465 GLN A 333 REMARK 465 ASN A 334 REMARK 465 VAL A 335 REMARK 465 GLN A 336 REMARK 465 PRO A 337 REMARK 465 THR A 338 REMARK 465 ASN A 339 REMARK 465 GLU A 340 REMARK 465 LYS A 341 REMARK 465 GLU A 452 REMARK 465 ALA A 453 REMARK 465 ALA B 126 REMARK 465 ALA B 127 REMARK 465 GLY B 128 REMARK 465 HIS B 129 REMARK 465 HIS B 130 REMARK 465 HIS B 131 REMARK 465 HIS B 132 REMARK 465 HIS B 133 REMARK 465 HIS B 134 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 PHE B 71 CB - CG - CD2 ANGL. DEV. = -4.5 DEGREES REMARK 500 PHE B 71 CB - CG - CD1 ANGL. DEV. = 5.1 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 THR A 343 -73.19 -87.54 REMARK 500 ASN A 377 -126.56 51.22 REMARK 500 ASN A 388 92.48 58.16 REMARK 500 ASN A 388 101.18 46.25 REMARK 500 ASN A 412 20.81 48.94 REMARK 500 THR A 413 -155.40 -81.79 REMARK 500 ARG A 414 122.83 164.47 REMARK 500 REMARK 500 REMARK: NULL REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA B 201 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP B 102 OD1 REMARK 620 2 GLY B 111 O 80.2 REMARK 620 3 ASP B 113 OD1 92.1 84.2 REMARK 620 N 1 2 DBREF1 7XLI A 274 453 UNP A0A0D6HSN6_STAAU DBREF2 7XLI A A0A0D6HSN6 274 453 DBREF 7XLI B 1 134 PDB 7XLI 7XLI 1 134 SEQRES 1 A 180 LYS ALA GLU LYS LEU LEU ALA PRO TYR LYS LYS ALA LYS SEQRES 2 A 180 THR LEU GLU ARG GLN VAL TYR GLU LEU ASN LYS ILE GLN SEQRES 3 A 180 ASP LYS LEU PRO GLU LYS LEU LYS ALA GLU TYR LYS LYS SEQRES 4 A 180 LYS LEU GLU ASP THR LYS LYS ALA LEU ASP GLU GLN VAL SEQRES 5 A 180 LYS SER ALA ILE THR GLU PHE GLN ASN VAL GLN PRO THR SEQRES 6 A 180 ASN GLU LYS MET THR ASP LEU GLN ASP THR LYS TYR VAL SEQRES 7 A 180 VAL TYR GLU SER VAL GLU ASN ASN GLU SER MET MET ASP SEQRES 8 A 180 THR PHE VAL LYS HIS PRO ILE LYS THR GLY MET LEU ASN SEQRES 9 A 180 GLY LYS LYS TYR MET VAL MET GLU THR THR ASN ASP ASP SEQRES 10 A 180 TYR TRP LYS ASP PHE MET VAL GLU GLY GLN ARG VAL ARG SEQRES 11 A 180 THR ILE SER LYS ASP ALA LYS ASN ASN THR ARG THR ILE SEQRES 12 A 180 ILE PHE PRO TYR VAL GLU GLY LYS THR LEU TYR ASP ALA SEQRES 13 A 180 ILE VAL LYS VAL HIS VAL LYS THR ILE ASP TYR ASP GLY SEQRES 14 A 180 GLN TYR HIS VAL ARG ILE VAL ASP LYS GLU ALA SEQRES 1 B 134 GLU LEU GLN LEU VAL GLU SER GLY GLY GLY LEU VAL GLN SEQRES 2 B 134 PRO GLY GLY SER LEU SER LEU SER CYS GLU VAL SER GLY SEQRES 3 B 134 PHE SER PHE ASP ASP VAL ASP ASN PHE ILE ILE ALA TRP SEQRES 4 B 134 PHE ARG GLN ALA PRO GLY LYS GLU ARG GLU GLY VAL SER SEQRES 5 B 134 PHE LEU ARG LYS TYR ASP MET SER THR TYR TYR ALA GLU SEQRES 6 B 134 SER VAL LYS GLY ARG PHE THR ILE SER SER ASP ASN ALA SEQRES 7 B 134 ARG ASP THR VAL TYR LEU GLN MET THR ASN LEU LYS PRO SEQRES 8 B 134 GLU ASP THR ALA VAL TYR TYR CYS ALA LEU ASP ARG GLU SEQRES 9 B 134 GLY PHE VAL PHE GLU GLN GLY MET ASP PHE TRP GLY LYS SEQRES 10 B 134 GLY THR GLN VAL THR VAL SER SER ALA ALA GLY HIS HIS SEQRES 11 B 134 HIS HIS HIS HIS HET CL A 501 1 HET CA B 201 1 HETNAM CL CHLORIDE ION HETNAM CA CALCIUM ION FORMUL 3 CL CL 1- FORMUL 4 CA CA 2+ FORMUL 5 HOH *110(H2 O) HELIX 1 AA1 SER A 361 VAL A 367 5 7 HELIX 2 AA2 ASN A 388 TRP A 392 5 5 HELIX 3 AA3 LYS A 436 ASP A 439 5 4 HELIX 4 AA4 SER B 28 VAL B 32 5 5 HELIX 5 AA5 ASN B 77 ARG B 79 5 3 HELIX 6 AA6 LYS B 90 THR B 94 5 5 HELIX 7 AA7 PHE B 108 MET B 112 5 5 SHEET 1 AA1 5 GLN A 346 ASP A 347 0 SHEET 2 AA1 5 LYS A 372 LEU A 376 -1 O THR A 373 N GLN A 346 SHEET 3 AA1 5 LYS A 379 GLU A 385 -1 O VAL A 383 N LYS A 372 SHEET 4 AA1 5 ARG A 414 PRO A 419 -1 O ILE A 416 N MET A 384 SHEET 5 AA1 5 ARG A 403 LYS A 407 -1 N ILE A 405 O THR A 415 SHEET 1 AA2 5 TYR A 350 GLU A 354 0 SHEET 2 AA2 5 TYR A 440 ASP A 450 -1 O ARG A 447 N TYR A 353 SHEET 3 AA2 5 LEU A 426 VAL A 435 -1 N TYR A 427 O ILE A 448 SHEET 4 AA2 5 LYS A 393 VAL A 397 -1 N MET A 396 O ILE A 430 SHEET 5 AA2 5 GLN A 400 ARG A 401 -1 O GLN A 400 N VAL A 397 SHEET 1 AA3 4 GLN B 3 SER B 7 0 SHEET 2 AA3 4 LEU B 18 SER B 25 -1 O SER B 25 N GLN B 3 SHEET 3 AA3 4 THR B 81 MET B 86 -1 O VAL B 82 N CYS B 22 SHEET 4 AA3 4 PHE B 71 ASP B 76 -1 N ASP B 76 O THR B 81 SHEET 1 AA4 6 LEU B 11 VAL B 12 0 SHEET 2 AA4 6 THR B 119 VAL B 123 1 O THR B 122 N VAL B 12 SHEET 3 AA4 6 ALA B 95 ASP B 102 -1 N TYR B 97 O THR B 119 SHEET 4 AA4 6 ILE B 36 GLN B 42 -1 N ALA B 38 O ALA B 100 SHEET 5 AA4 6 GLU B 49 ARG B 55 -1 O GLU B 49 N ARG B 41 SHEET 6 AA4 6 SER B 60 TYR B 63 -1 O SER B 60 N ARG B 55 SHEET 1 AA5 4 LEU B 11 VAL B 12 0 SHEET 2 AA5 4 THR B 119 VAL B 123 1 O THR B 122 N VAL B 12 SHEET 3 AA5 4 ALA B 95 ASP B 102 -1 N TYR B 97 O THR B 119 SHEET 4 AA5 4 PHE B 114 TRP B 115 -1 O PHE B 114 N LEU B 101 SSBOND 1 CYS B 22 CYS B 99 1555 1555 2.02 LINK OD1 ASP B 102 CA CA B 201 1555 1555 2.35 LINK O GLY B 111 CA CA B 201 1555 1555 2.27 LINK OD1 ASP B 113 CA CA B 201 1555 1555 2.39 CISPEP 1 HIS A 369 PRO A 370 0 -8.49 CRYST1 40.321 48.580 140.700 90.00 90.00 90.00 P 21 21 21 4 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 0.024801 0.000000 0.000000 0.00000 SCALE2 0.000000 0.020585 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007107 0.00000