HEADER BIOSYNTHETIC PROTEIN 07-SEP-24 9DK2 TITLE LEXAPEPTIDE DEHYDRATASE COMPLEX LXMKY, ATP BOUND COMPND MOL_ID: 1; COMPND 2 MOLECULE: KINASE; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES; COMPND 5 OTHER_DETAILS: N-TERMINAL GA FROM PROTEOLYSED PURIFICATION TAG; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: LYASE; COMPND 8 CHAIN: B; COMPND 9 ENGINEERED: YES; COMPND 10 OTHER_DETAILS: N-TERMINAL GA FROM PROTEOLYSED PURIFICATION TAG SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: STREPTOMYCES ROCHEI; SOURCE 3 ORGANISM_TAXID: 1928; SOURCE 4 GENE: LXMK; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 MOL_ID: 2; SOURCE 8 ORGANISM_SCIENTIFIC: STREPTOMYCES ROCHEI; SOURCE 9 ORGANISM_TAXID: 1928; SOURCE 10 GENE: LXMY; SOURCE 11 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 12 EXPRESSION_SYSTEM_TAXID: 469008 KEYWDS KINASE, LYASE, LANTHIPEPTIDE DEHYDRATASE, COMPLEX, BIOSYNTHETIC KEYWDS 2 PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR G.T.RANDALL,G.BASHIRI REVDAT 2 01-JAN-25 9DK2 1 JRNL REVDAT 1 04-DEC-24 9DK2 0 JRNL AUTH G.T.RANDALL,E.S.GRANT-MACKIE,S.CHUNKATH,E.T.WILLIAMS, JRNL AUTH 2 M.J.MIDDLEDITCH,M.TAO,P.W.R.HARRIS,M.A.BRIMBLE,G.BASHIRI JRNL TITL A STABLE DEHYDRATASE COMPLEX CATALYZES THE FORMATION OF JRNL TITL 2 DEHYDRATED AMINO ACIDS IN A CLASS V LANTHIPEPTIDE. JRNL REF ACS CHEM.BIOL. V. 19 2548 2024 JRNL REFN ESSN 1554-8937 JRNL PMID 39586055 JRNL DOI 10.1021/ACSCHEMBIO.4C00637 REMARK 2 REMARK 2 RESOLUTION. 2.50 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0349 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) : 2.50 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 49.28 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 37783 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) : 0.224 REMARK 3 FREE R VALUE : 0.268 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.074 REMARK 3 FREE R VALUE TEST SET COUNT : 1916 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : NULL REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.50 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.57 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2606 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.93 REMARK 3 BIN R VALUE (WORKING SET) : 0.3900 REMARK 3 BIN FREE R VALUE SET COUNT : 144 REMARK 3 BIN FREE R VALUE : 0.3820 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4757 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 48 REMARK 3 SOLVENT ATOMS : 71 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 70.59 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -3.76500 REMARK 3 B22 (A**2) : 4.38500 REMARK 3 B33 (A**2) : -0.62000 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): 0.312 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.251 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): NULL REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): NULL REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.949 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): 4920 ; 0.014 ; 0.012 REMARK 3 BOND LENGTHS OTHERS (A): 4447 ; 0.002 ; 0.016 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 6720 ; 1.378 ; 1.639 REMARK 3 BOND ANGLES OTHERS (DEGREES): 10275 ; 0.813 ; 1.549 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 641 ; 6.092 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 54 ;13.782 ;10.000 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 662 ;15.422 ;10.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): NULL ; NULL ; NULL REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 766 ; 0.060 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 5815 ; 0.005 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 986 ; 0.006 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1053 ; 0.228 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 32 ; 0.257 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 2373 ; 0.173 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 112 ; 0.163 ; 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): 2586 ; 6.270 ; 7.466 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 2585 ; 6.261 ; 7.466 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3219 ; 9.238 ;11.178 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 3220 ; 9.237 ;11.178 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2334 ; 6.226 ; 7.717 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 2335 ; 6.224 ; 7.716 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 3501 ; 9.115 ;11.420 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 3502 ; 9.114 ;11.421 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 : MASK BULK SOLVENT 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: NULL REMARK 4 REMARK 4 9DK2 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 09-SEP-24. REMARK 100 THE DEPOSITION ID IS D_1000288257. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 13-MAR-22 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 : AUSTRALIAN SYNCHROTRON REMARK 200 BEAMLINE : MX2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.954 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS EIGER X 16M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : AIMLESS 1.12.13 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 37827 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.500 REMARK 200 RESOLUTION RANGE LOW (A) : 49.282 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 13.40 REMARK 200 R MERGE (I) : 0.22100 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 7.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.50 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.60 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 1.10 REMARK 200 R MERGE FOR SHELL (I) : 4.27800 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 61.82 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.22 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M BIS-TRIS PROPANE 7.5 20 % W/V REMARK 280 PEG 3350, PH 7.5, VAPOR DIFFUSION, TEMPERATURE 291.15K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 2 21 21 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,Y+1/2,-Z+1/2 REMARK 290 4555 -X,-Y+1/2,Z+1/2 REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 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 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 60.33050 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 76.38350 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 60.33050 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 76.38350 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: 3430 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 27750 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -36.0 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 GLY A -1 REMARK 465 ALA A 0 REMARK 465 MET A 1 REMARK 465 THR A 2 REMARK 465 THR A 3 REMARK 465 THR A 4 REMARK 465 THR A 5 REMARK 465 ALA A 6 REMARK 465 GLU A 7 REMARK 465 ARG A 8 REMARK 465 PRO A 9 REMARK 465 ARG A 10 REMARK 465 THR A 11 REMARK 465 ARG A 12 REMARK 465 GLN A 13 REMARK 465 ARG A 14 REMARK 465 TYR A 15 REMARK 465 ARG A 16 REMARK 465 PRO A 17 REMARK 465 THR A 18 REMARK 465 GLU A 19 REMARK 465 LEU A 20 REMARK 465 ASP A 21 REMARK 465 THR A 22 REMARK 465 VAL A 23 REMARK 465 PRO A 72 REMARK 465 ASP A 73 REMARK 465 GLY A 74 REMARK 465 THR A 75 REMARK 465 LEU A 152 REMARK 465 GLY A 153 REMARK 465 PRO A 154 REMARK 465 PRO A 272 REMARK 465 THR A 273 REMARK 465 GLU A 274 REMARK 465 ALA A 275 REMARK 465 GLY A 276 REMARK 465 ALA A 277 REMARK 465 GLY A 278 REMARK 465 ARG A 279 REMARK 465 PRO A 280 REMARK 465 GLU A 281 REMARK 465 GLU A 282 REMARK 465 SER A 283 REMARK 465 THR A 284 REMARK 465 ALA A 285 REMARK 465 GLY A 286 REMARK 465 PHE A 287 REMARK 465 ARG A 387 REMARK 465 THR A 388 REMARK 465 PRO A 389 REMARK 465 TYR A 390 REMARK 465 THR A 391 REMARK 465 PRO A 392 REMARK 465 HIS A 393 REMARK 465 ALA A 394 REMARK 465 THR A 395 REMARK 465 ASN A 396 REMARK 465 GLY A 397 REMARK 465 SER A 398 REMARK 465 ASP A 399 REMARK 465 HIS A 400 REMARK 465 ARG A 401 REMARK 465 GLY B -1 REMARK 465 ALA B 0 REMARK 465 MET B 1 REMARK 465 THR B 2 REMARK 465 THR B 3 REMARK 465 ALA B 4 REMARK 465 LEU B 5 REMARK 465 LEU B 6 REMARK 465 ASN B 7 REMARK 465 SER B 8 REMARK 465 PRO B 9 REMARK 465 VAL B 10 REMARK 465 PRO B 11 REMARK 465 ASP B 12 REMARK 465 HIS B 74 REMARK 465 ARG B 75 REMARK 465 GLY B 76 REMARK 465 GLY B 77 REMARK 465 ALA B 78 REMARK 465 VAL B 79 REMARK 465 PRO B 80 REMARK 465 ASP B 81 REMARK 465 GLY B 82 REMARK 465 PRO B 83 REMARK 465 PRO B 84 REMARK 465 PRO B 85 REMARK 465 ARG B 86 REMARK 465 ARG B 87 REMARK 465 THR B 88 REMARK 465 ASP B 312 REMARK 465 GLY B 313 REMARK 465 SER B 314 REMARK 465 GLU B 315 REMARK 465 ALA B 316 REMARK 465 SER B 317 REMARK 465 ASP B 318 REMARK 465 ALA B 319 REMARK 465 SER B 320 REMARK 465 GLY B 321 REMARK 465 ALA B 322 REMARK 465 SER B 323 REMARK 465 GLY B 324 REMARK 465 ALA B 325 REMARK 465 SER B 326 REMARK 465 GLU B 327 REMARK 465 ALA B 328 REMARK 465 THR B 329 REMARK 465 GLU B 330 REMARK 465 ALA B 331 REMARK 465 ALA B 332 REMARK 465 ASP B 333 REMARK 465 ALA B 334 REMARK 465 PRO B 335 REMARK 465 ARG B 336 REMARK 465 PRO B 337 REMARK 465 SER B 338 REMARK 465 ASP B 339 REMARK 465 ALA B 340 REMARK 465 PRO B 341 REMARK 465 VAL B 342 REMARK 465 GLY B 343 REMARK 465 PRO B 344 REMARK 465 ASP B 369 REMARK 465 PRO B 370 REMARK 465 SER B 371 REMARK 465 PRO B 372 REMARK 465 GLY B 373 REMARK 465 ALA B 374 REMARK 465 ALA B 375 REMARK 465 ARG B 376 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 ARG A 37 CG CD NE CZ NH1 NH2 REMARK 470 ASP A 39 CG OD1 OD2 REMARK 470 ARG A 92 CG CD NE CZ NH1 NH2 REMARK 470 SER A 101 OG REMARK 470 ASP A 156 CG OD1 OD2 REMARK 470 LEU A 165 CG CD1 CD2 REMARK 470 ARG A 207 CG CD NE CZ NH1 NH2 REMARK 470 LEU A 289 CG CD1 CD2 REMARK 470 LEU A 326 CG CD1 CD2 REMARK 470 GLU A 386 CG CD OE1 OE2 REMARK 470 ARG B 41 CG CD NE CZ NH1 NH2 REMARK 470 GLU B 67 CG CD OE1 OE2 REMARK 470 ARG B 73 CG CD NE CZ NH1 NH2 REMARK 470 LEU B 89 CG CD1 CD2 REMARK 470 ARG B 110 CG CD NE CZ NH1 NH2 REMARK 470 ARG B 112 CG CD NE CZ NH1 NH2 REMARK 470 ASP B 121 CG OD1 OD2 REMARK 470 VAL B 146 CG1 CG2 REMARK 470 GLU B 155 CG CD OE1 OE2 REMARK 470 ARG B 180 CG CD NE CZ NH1 NH2 REMARK 470 GLN B 225 CG CD OE1 NE2 REMARK 470 ARG B 246 CG CD NE CZ NH1 NH2 REMARK 470 ARG B 254 CG CD NE CZ NH1 NH2 REMARK 470 GLN B 282 CG CD OE1 NE2 REMARK 470 GLN B 288 CG CD OE1 NE2 REMARK 470 GLN B 295 CG CD OE1 NE2 REMARK 470 LEU B 368 CG CD1 CD2 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 OD2 ASP A 241 MG MG A 502 1.66 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 ALA A 42 -9.06 72.63 REMARK 500 ARG A 92 30.71 -99.95 REMARK 500 CYS A 220 -2.56 78.88 REMARK 500 ASP A 221 53.47 -143.94 REMARK 500 VAL A 240 -169.75 -128.34 REMARK 500 ASP A 241 78.46 57.24 REMARK 500 TYR A 267 -67.81 -147.82 REMARK 500 ARG A 320 66.40 -152.18 REMARK 500 ALA A 385 151.43 -49.81 REMARK 500 ALA B 39 42.63 70.76 REMARK 500 ARG B 90 66.01 -160.00 REMARK 500 SER B 143 118.15 -169.47 REMARK 500 PRO B 144 170.34 -53.68 REMARK 500 ALA B 182 -54.07 69.16 REMARK 500 LEU B 221 127.71 -37.52 REMARK 500 ALA B 278 170.83 178.02 REMARK 500 LEU B 310 46.91 -89.64 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 32 0.10 SIDE CHAIN REMARK 500 ARG A 49 0.17 SIDE CHAIN REMARK 500 ARG A 211 0.16 SIDE CHAIN REMARK 500 ARG A 223 0.09 SIDE CHAIN REMARK 500 ARG A 229 0.15 SIDE CHAIN REMARK 500 ARG A 297 0.09 SIDE CHAIN REMARK 500 ARG A 308 0.20 SIDE CHAIN REMARK 500 ARG B 47 0.17 SIDE CHAIN REMARK 500 ARG B 162 0.08 SIDE CHAIN REMARK 500 ARG B 355 0.08 SIDE CHAIN 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 MG A 503 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLN A 226 OE1 REMARK 620 2 ATP A 501 O3G 96.3 REMARK 620 3 ATP A 501 O2A 104.9 110.8 REMARK 620 4 HOH A 638 O 119.2 108.0 115.8 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 502 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 241 OD1 REMARK 620 2 GLU A 243 OE2 76.6 REMARK 620 3 ATP A 501 O2G 163.2 109.1 REMARK 620 4 ATP A 501 O2B 75.1 83.2 89.7 REMARK 620 5 HOH A 621 O 91.4 83.0 104.9 162.6 REMARK 620 N 1 2 3 4 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 9DK1 RELATED DB: PDB REMARK 900 9DK1 IS THE APO FORM OF LXMKY DBREF1 9DK2 A 1 401 UNP A0A0K1TP15_STRRO DBREF2 9DK2 A A0A0K1TP15 1 401 DBREF1 9DK2 B 1 376 UNP A0A0K1TP21_STRRO DBREF2 9DK2 B A0A0K1TP21 1 376 SEQADV 9DK2 GLY A -1 UNP A0A0K1TP1 EXPRESSION TAG SEQADV 9DK2 ALA A 0 UNP A0A0K1TP1 EXPRESSION TAG SEQADV 9DK2 GLY B -1 UNP A0A0K1TP2 EXPRESSION TAG SEQADV 9DK2 ALA B 0 UNP A0A0K1TP2 EXPRESSION TAG SEQRES 1 A 403 GLY ALA MET THR THR THR THR ALA GLU ARG PRO ARG THR SEQRES 2 A 403 ARG GLN ARG TYR ARG PRO THR GLU LEU ASP THR VAL PRO SEQRES 3 A 403 ALA VAL ASN ALA LEU LEU LEU ARG LEU GLY LEU GLY ARG SEQRES 4 A 403 LEU ASP ALA ALA ALA THR THR ALA PHE GLY GLY ARG ASN SEQRES 5 A 403 ASP ASN TRP ALA GLY PRO THR THR THR GLY GLU GLN VAL SEQRES 6 A 403 PHE VAL LYS THR VAL THR PRO LEU PRO ASP GLY THR GLY SEQRES 7 A 403 CYS PRO GLU LEU ASP ARG SER LEU SER PHE GLU ASP LEU SEQRES 8 A 403 ALA ALA ARG LEU THR PRO ALA SER PRO LEU ARG SER PRO SEQRES 9 A 403 GLY LEU LEU GLY ALA ASP PRO ALA ALA GLY VAL MET VAL SEQRES 10 A 403 HIS ARG LEU VAL PRO GLY ALA ARG SER GLY ALA GLU LEU SEQRES 11 A 403 ALA LEU ASP GLY ASP PHE ASP ASP ASP LEU CYS ARG SER SEQRES 12 A 403 ALA GLY ARG ALA VAL GLY THR LEU HIS GLY LEU GLY PRO SEQRES 13 A 403 VAL ASP GLY LEU ASP THR GLY GLU ALA PRO LEU PRO PRO SEQRES 14 A 403 LEU SER TRP LEU LYS ALA LEU PRO TRP SER ALA VAL GLN SEQRES 15 A 403 GLU ARG SER MET ALA GLN ILE ALA ALA TRP GLN LEU VAL SEQRES 16 A 403 GLN ASP ASP THR GLU VAL VAL ASP ALA LEU HIS ARG LEU SEQRES 17 A 403 ARG ASP LEU GLU ARG THR VAL PRO LEU ALA PRO ALA HIS SEQRES 18 A 403 CYS ASP LEU ARG PHE ASP GLN PHE ILE ARG ALA ASP GLU SEQRES 19 A 403 GLY ALA GLY GLU LEU TYR LEU VAL ASP TRP GLU GLU PHE SEQRES 20 A 403 ARG LEU ALA ASP PRO ALA ARG ASP VAL GLY ALA PHE ALA SEQRES 21 A 403 GLY GLU TRP LEU PHE HIS ALA THR TYR SER VAL PHE ALA SEQRES 22 A 403 PRO THR GLU ALA GLY ALA GLY ARG PRO GLU GLU SER THR SEQRES 23 A 403 ALA GLY PHE GLY LEU THR HIS GLU GLU ILE VAL ALA ARG SEQRES 24 A 403 GLY SER ALA SER LEU ARG ARG HIS LEU PRO ARG ILE ALA SEQRES 25 A 403 ALA PHE TRP GLN GLY TYR LEU GLU CYS ARG PRO GLN ALA SEQRES 26 A 403 LEU ALA LEU ASP ALA GLY LEU PRO GLU ARG ALA ALA ALA SEQRES 27 A 403 TYR ALA GLY TRP HIS MET TYR ASP ARG LEU ILE ALA THR SEQRES 28 A 403 ALA GLU SER HIS ALA THR LEU ASN PRO VAL ALA ARG ALA SEQRES 29 A 403 ALA ALA GLY ILE GLY ARG THR VAL LEU LEU GLY PRO SER SEQRES 30 A 403 ALA ALA ALA ARG THR LEU GLY LEU SER ALA GLU ARG THR SEQRES 31 A 403 PRO TYR THR PRO HIS ALA THR ASN GLY SER ASP HIS ARG SEQRES 1 B 378 GLY ALA MET THR THR ALA LEU LEU ASN SER PRO VAL PRO SEQRES 2 B 378 ASP ALA SER PRO VAL ALA ARG HIS ARG GLY LEU ALA PRO SEQRES 3 B 378 ARG LEU ALA GLU ALA LEU ASP ALA VAL SER VAL ALA PRO SEQRES 4 B 378 GLY ALA ARG ARG ALA SER VAL ALA GLY ARG THR VAL THR SEQRES 5 B 378 ALA ASP SER PRO ARG ASP LEU ARG GLY ARG LEU THR ASN SEQRES 6 B 378 ALA LEU TYR GLU GLU LEU HIS ALA GLY ARG HIS ARG GLY SEQRES 7 B 378 GLY ALA VAL PRO ASP GLY PRO PRO PRO ARG ARG THR LEU SEQRES 8 B 378 ARG ASP PRO ALA LEU GLU ALA ARG LEU ALA ALA ALA VAL SEQRES 9 B 378 PRO HIS ARG THR THR PRO THR ARG GLY ARG LEU VAL GLU SEQRES 10 B 378 VAL LEU ARG ARG PRO ASP GLY ASP GLN LEU VAL VAL ARG SEQRES 11 B 378 LEU PRO GLU VAL THR ALA ARG VAL PRO ALA ASP ARG LEU SEQRES 12 B 378 LEU SER PRO SER VAL PRO PRO ALA PRO GLY GLU THR VAL SEQRES 13 B 378 GLU LEU ALA LEU GLU ALA ALA ARG PRO ALA LEU SER PRO SEQRES 14 B 378 GLY PHE PHE TYR VAL MET GLY SER ARG PRO LEU PRO ARG SEQRES 15 B 378 PRO ALA GLY ALA VAL ARG ARG ILE PHE LEU HIS ALA ARG SEQRES 16 B 378 ASP ALA ASP ALA ALA VAL VAL LEU TRP GLY ALA ALA LEU SEQRES 17 B 378 GLY ALA LEU GLU GLU ALA ALA ALA LEU TYR HIS ALA LYS SEQRES 18 B 378 VAL LEU SER ASP PRO GLN ASP PHE PRO ARG ARG ASP ALA SEQRES 19 B 378 VAL VAL LEU TYR LEU HIS GLY ASP HIS ARG PRO GLY GLU SEQRES 20 B 378 ARG ALA VAL THR GLU ALA VAL SER ARG TYR ALA GLY THR SEQRES 21 B 378 LEU THR GLY PRO ASP THR SER VAL PHE THR GLU GLU LEU SEQRES 22 B 378 ALA PRO GLY VAL ALA ALA ALA TRP ASP PRO GLN ASP PRO SEQRES 23 B 378 ARG PRO GLY GLN SER GLY MET SER PHE GLY GLN HIS ARG SEQRES 24 B 378 ALA PHE ALA LEU ALA SER GLY LEU ILE ASP CYS ALA LEU SEQRES 25 B 378 ALA ASP GLY SER GLU ALA SER ASP ALA SER GLY ALA SER SEQRES 26 B 378 GLY ALA SER GLU ALA THR GLU ALA ALA ASP ALA PRO ARG SEQRES 27 B 378 PRO SER ASP ALA PRO VAL GLY PRO GLY ARG ALA GLU HIS SEQRES 28 B 378 VAL VAL ARG ALA LEU ARG GLU ALA GLY ILE ASP PRO LEU SEQRES 29 B 378 HIS PRO GLN ASN ASN LEU ASP PRO SER PRO GLY ALA ALA SEQRES 30 B 378 ARG HET ATP A 501 31 HET MG A 502 1 HET MG A 503 1 HET ACY A 504 4 HET GOL A 505 6 HET PO4 B 401 5 HETNAM ATP ADENOSINE-5'-TRIPHOSPHATE HETNAM MG MAGNESIUM ION HETNAM ACY ACETIC ACID HETNAM GOL GLYCEROL HETNAM PO4 PHOSPHATE ION HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 3 ATP C10 H16 N5 O13 P3 FORMUL 4 MG 2(MG 2+) FORMUL 6 ACY C2 H4 O2 FORMUL 7 GOL C3 H8 O3 FORMUL 8 PO4 O4 P 3- FORMUL 9 HOH *71(H2 O) HELIX 1 AA1 PRO A 24 ARG A 32 1 9 HELIX 2 AA2 CYS A 77 ARG A 92 1 16 HELIX 3 AA3 GLY A 125 ASP A 131 1 7 HELIX 4 AA4 ASP A 135 GLY A 151 1 17 HELIX 5 AA5 PRO A 167 ALA A 173 1 7 HELIX 6 AA6 TRP A 176 GLN A 180 1 5 HELIX 7 AA7 SER A 183 ASP A 195 1 13 HELIX 8 AA8 ASP A 196 GLU A 210 1 15 HELIX 9 AA9 ARG A 223 ASP A 225 5 3 HELIX 10 AB1 ALA A 230 ALA A 234 1 5 HELIX 11 AB2 PRO A 250 TYR A 267 1 18 HELIX 12 AB3 SER A 268 ALA A 271 5 4 HELIX 13 AB4 THR A 290 ARG A 304 1 15 HELIX 14 AB5 HIS A 305 ARG A 320 1 16 HELIX 15 AB6 GLY A 329 ALA A 350 1 22 HELIX 16 AB7 GLU A 351 HIS A 353 5 3 HELIX 17 AB8 ASN A 357 GLY A 373 1 17 HELIX 18 AB9 GLY A 373 LEU A 381 1 9 HELIX 19 AC1 SER B 14 HIS B 19 1 6 HELIX 20 AC2 ALA B 23 LEU B 30 1 8 HELIX 21 AC3 SER B 53 HIS B 70 1 18 HELIX 22 AC4 ASP B 91 ALA B 100 1 10 HELIX 23 AC5 ASP B 194 ALA B 212 1 19 HELIX 24 AC6 ASP B 223 PHE B 227 5 5 HELIX 25 AC7 HIS B 241 ARG B 254 1 14 HELIX 26 AC8 SER B 292 LEU B 310 1 19 HELIX 27 AC9 ARG B 346 ALA B 357 1 12 SHEET 1 AA1 4 ASP A 51 PRO A 56 0 SHEET 2 AA1 4 GLN A 62 THR A 67 -1 O VAL A 65 N TRP A 53 SHEET 3 AA1 4 VAL A 113 ARG A 117 -1 O HIS A 116 N PHE A 64 SHEET 4 AA1 4 LEU A 104 ASP A 108 -1 N GLY A 106 O VAL A 115 SHEET 1 AA2 3 ARG A 123 SER A 124 0 SHEET 2 AA2 3 PHE A 227 ARG A 229 -1 O ARG A 229 N ARG A 123 SHEET 3 AA2 3 LEU A 237 LEU A 239 -1 O TYR A 238 N ILE A 228 SHEET 1 AA3 6 LEU A 174 PRO A 175 0 SHEET 2 AA3 6 THR B 133 PRO B 137 1 O ARG B 135 N LEU A 174 SHEET 3 AA3 6 GLN B 124 ARG B 128 -1 N LEU B 125 O VAL B 136 SHEET 4 AA3 6 THR B 106 LEU B 117 -1 N VAL B 114 O VAL B 126 SHEET 5 AA3 6 THR B 153 GLU B 159 -1 O LEU B 156 N THR B 109 SHEET 6 AA3 6 LEU B 141 SER B 143 -1 N LEU B 142 O GLU B 155 SHEET 1 AA4 2 ALA A 216 ALA A 218 0 SHEET 2 AA4 2 ARG A 246 ALA A 248 -1 O ARG A 246 N ALA A 218 SHEET 1 AA5 3 VAL B 33 VAL B 35 0 SHEET 2 AA5 3 ARG B 41 VAL B 44 -1 O SER B 43 N SER B 34 SHEET 3 AA5 3 ARG B 47 THR B 50 -1 O ARG B 47 N VAL B 44 SHEET 1 AA6 7 ALA B 161 SER B 166 0 SHEET 2 AA6 7 PHE B 169 MET B 173 -1 O TYR B 171 N ARG B 162 SHEET 3 AA6 7 TYR B 216 LEU B 221 -1 O ALA B 218 N VAL B 172 SHEET 4 AA6 7 ARG B 229 HIS B 238 -1 O TYR B 236 N HIS B 217 SHEET 5 AA6 7 VAL B 185 ALA B 192 -1 N ARG B 186 O LEU B 237 SHEET 6 AA6 7 VAL B 275 TRP B 279 -1 O ALA B 278 N ARG B 187 SHEET 7 AA6 7 GLU B 269 ALA B 272 -1 N LEU B 271 O VAL B 275 LINK OE1 GLN A 226 MG MG A 503 1555 1555 2.35 LINK OD1 ASP A 241 MG MG A 502 1555 1555 2.34 LINK OE2 GLU A 243 MG MG A 502 1555 1555 1.93 LINK O2G ATP A 501 MG MG A 502 1555 1555 2.03 LINK O2B ATP A 501 MG MG A 502 1555 1555 2.21 LINK O3G ATP A 501 MG MG A 503 1555 1555 2.25 LINK O2A ATP A 501 MG MG A 503 1555 1555 2.24 LINK MG MG A 502 O HOH A 621 1555 1555 2.44 LINK MG MG A 503 O HOH A 638 1555 1555 2.79 CISPEP 1 LEU A 165 PRO A 166 0 8.00 CISPEP 2 SER B 143 PRO B 144 0 -20.87 CISPEP 3 PHE B 227 PRO B 228 0 15.78 CRYST1 57.716 120.661 152.767 90.00 90.00 90.00 P 2 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 0.017326 0.000000 0.000000 0.00000 SCALE2 0.000000 0.008288 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006546 0.00000 CONECT 1429 4792 CONECT 1546 4791 CONECT 1570 4791 CONECT 4760 4761 4762 4763 4767 CONECT 4761 4760 CONECT 4762 4760 4791 CONECT 4763 4760 4792 CONECT 4764 4765 4766 4767 4771 CONECT 4765 4764 CONECT 4766 4764 4791 CONECT 4767 4760 4764 CONECT 4768 4769 4770 4771 4772 CONECT 4769 4768 CONECT 4770 4768 4792 CONECT 4771 4764 4768 CONECT 4772 4768 4773 CONECT 4773 4772 4774 CONECT 4774 4773 4775 4776 CONECT 4775 4774 4780 CONECT 4776 4774 4777 4778 CONECT 4777 4776 CONECT 4778 4776 4779 4780 CONECT 4779 4778 CONECT 4780 4775 4778 4781 CONECT 4781 4780 4782 4790 CONECT 4782 4781 4783 CONECT 4783 4782 4784 CONECT 4784 4783 4785 4790 CONECT 4785 4784 4786 4787 CONECT 4786 4785 CONECT 4787 4785 4788 CONECT 4788 4787 4789 CONECT 4789 4788 4790 CONECT 4790 4781 4784 4789 CONECT 4791 1546 1570 4762 4766 CONECT 4791 4828 CONECT 4792 1429 4763 4770 4845 CONECT 4793 4794 4795 4796 CONECT 4794 4793 CONECT 4795 4793 CONECT 4796 4793 CONECT 4797 4798 4799 CONECT 4798 4797 CONECT 4799 4797 4800 4801 CONECT 4800 4799 CONECT 4801 4799 4802 CONECT 4802 4801 CONECT 4803 4804 4805 4806 4807 CONECT 4804 4803 CONECT 4805 4803 CONECT 4806 4803 CONECT 4807 4803 CONECT 4828 4791 CONECT 4845 4792 MASTER 507 0 6 27 25 0 0 6 4876 2 54 61 END