HEADER HYDROLASE 19-FEB-26 23UZ TITLE CRYSTAL STRUCTURE OF THE D51N VARIANT OF THE AQUIFEX AEOLICUS GYRB TITLE 2 ATPASE DOMAIN COMPLEXED WITH AMPPNP COMPND MOL_ID: 1; COMPND 2 MOLECULE: TYPE 2 TOPOISOMERASE SUBUNIT B; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: DNA GYRASE SUBUNIT B; COMPND 5 EC: 5.6.2.2; COMPND 6 ENGINEERED: YES; COMPND 7 MUTATION: YES; COMPND 8 OTHER_DETAILS: THE N-TERMINAL 10 RESIDUES, THE C-TERMINAL 15 COMPND 9 RESIDUES, RESIDUE 267, AND RESIDUES 305-314 LACK INTERPRETABLE COMPND 10 ELECTRON DENSITY AND WERE NOT MODELED. SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: AQUIFEX AEOLICUS VF5; SOURCE 3 ORGANISM_TAXID: 224324; SOURCE 4 GENE: GYRB, AQ_1026; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_VARIANT: ROSETTA2; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET-11A KEYWDS DNA GYRASE, ATPASE, GHKL ATPASE, AQUIFEX AEOLICUS, THERMOPHILE, KEYWDS 2 HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR K.FUKUI,T.MURAKAWA,T.YANO REVDAT 1 21-OCT-26 23UZ 0 JRNL AUTH K.FUKUI,A.SHIBUYA,T.MURAKAWA,T.YANO JRNL TITL TWO GLU/ASP RESIDUES COOPERATIVELY MEDIATE AN EARLY STEP OF JRNL TITL 2 ATP HYDROLYSIS IN GHKL ATPASES MUTL AND GYRB. JRNL REF ELIFE V. 15 2026 JRNL REFN ESSN 2050-084X JRNL PMID 42788712 JRNL DOI 10.7554/ELIFE.111443 REMARK 2 REMARK 2 RESOLUTION. 2.05 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.20.1_4487 REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : GEOSTD + MONOMER LIBRARY + CDL V1.2 REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.05 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 42.36 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 3 NUMBER OF REFLECTIONS : 53425 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.208 REMARK 3 R VALUE (WORKING SET) : 0.205 REMARK 3 FREE R VALUE : 0.248 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 2671 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 42.3600 - 5.4600 1.00 2863 151 0.1994 0.2200 REMARK 3 2 5.4600 - 4.3400 1.00 2736 144 0.1501 0.1640 REMARK 3 3 4.3400 - 3.7900 1.00 2729 144 0.1577 0.2050 REMARK 3 4 3.7900 - 3.4400 1.00 2706 142 0.1870 0.2435 REMARK 3 5 3.4400 - 3.2000 1.00 2676 140 0.2030 0.2247 REMARK 3 6 3.2000 - 3.0100 1.00 2679 141 0.2130 0.2375 REMARK 3 7 3.0100 - 2.8600 1.00 2660 140 0.2249 0.3240 REMARK 3 8 2.8600 - 2.7300 1.00 2675 141 0.2199 0.2725 REMARK 3 9 2.7300 - 2.6300 1.00 2663 140 0.2135 0.2345 REMARK 3 10 2.6300 - 2.5400 1.00 2654 140 0.2120 0.2533 REMARK 3 11 2.5400 - 2.4600 1.00 2643 139 0.2088 0.2984 REMARK 3 12 2.4600 - 2.3900 1.00 2641 139 0.2148 0.2819 REMARK 3 13 2.3900 - 2.3200 1.00 2662 140 0.2258 0.2644 REMARK 3 14 2.3200 - 2.2700 1.00 2639 140 0.2769 0.3640 REMARK 3 15 2.2700 - 2.2200 1.00 2653 138 0.3128 0.3856 REMARK 3 16 2.2200 - 2.1700 1.00 2630 139 0.2715 0.3180 REMARK 3 17 2.1700 - 2.1300 1.00 2614 137 0.2471 0.2728 REMARK 3 18 2.1300 - 2.0900 1.00 2663 141 0.2543 0.3264 REMARK 3 19 2.0900 - 2.0500 0.98 2568 135 0.2566 0.3065 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.256 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 24.477 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 27.01 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 28.28 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.008 5800 REMARK 3 ANGLE : 0.893 7845 REMARK 3 CHIRALITY : 0.058 890 REMARK 3 PLANARITY : 0.008 999 REMARK 3 DIHEDRAL : 14.801 2128 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 1 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: ALL REMARK 3 ORIGIN FOR THE GROUP (A): -14.7129 -7.4548 40.2646 REMARK 3 T TENSOR REMARK 3 T11: 0.2086 T22: 0.2145 REMARK 3 T33: 0.1850 T12: 0.0147 REMARK 3 T13: 0.0110 T23: -0.0004 REMARK 3 L TENSOR REMARK 3 L11: 0.3431 L22: 0.3672 REMARK 3 L33: 0.2857 L12: -0.0057 REMARK 3 L13: 0.1667 L23: 0.0829 REMARK 3 S TENSOR REMARK 3 S11: -0.0077 S12: -0.0162 S13: -0.0312 REMARK 3 S21: 0.0558 S22: 0.0429 S23: 0.0198 REMARK 3 S31: 0.0653 S32: 0.0466 S33: -0.0325 REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : 1 REMARK 3 NCS GROUP : ens_1 REMARK 3 NCS OPERATOR : 1 REMARK 3 REFERENCE SELECTION: NULL REMARK 3 SELECTION : (chain "A" and (resid 11 through 39 or REMARK 3 (resid 40 and (name N or name CA or name REMARK 3 C or name O or name CB )) or resid 41 REMARK 3 through 110 or (resid 111 through 112 and REMARK 3 (name N or name CA or name C or name O or REMARK 3 name CB )) or (resid 113 and (name N or REMARK 3 name CA or name C or name O or name CB or REMARK 3 name CG or name CD )) or resid 114 REMARK 3 through 115 or (resid 116 and (name N or REMARK 3 name CA or name C or name O or name CB )) REMARK 3 or resid 117 through 162 or (resid 163 REMARK 3 and (name N or name CA or name C or name REMARK 3 O or name CB )) or resid 164 through 206 REMARK 3 or (resid 207 and (name N or name CA or REMARK 3 name C or name O or name CB )) or resid REMARK 3 208 through 221 or (resid 222 and (name N REMARK 3 or name CA or name C or name O or name CB REMARK 3 or name CG or name CD or name CE )) or REMARK 3 resid 223 through 252 or (resid 253 and REMARK 3 (name N or name CA or name C or name O or REMARK 3 name CB or name CG )) or resid 254 REMARK 3 through 304 or resid 316 through 317 or REMARK 3 (resid 318 and (name N or name CA or name REMARK 3 C or name O or name CB )) or resid 319 REMARK 3 through 382)) REMARK 3 ATOM PAIRS NUMBER : NULL REMARK 3 RMSD : NULL REMARK 3 NCS OPERATOR : 2 REMARK 3 REFERENCE SELECTION: NULL REMARK 3 SELECTION : (chain "B" and (resid 11 through 164 or REMARK 3 (resid 165 and (name N or name CA or name REMARK 3 C or name O or name CB )) or resid 166 REMARK 3 through 224 or (resid 225 and (name N or REMARK 3 name CA or name C or name O or name CB or REMARK 3 name CG )) or resid 226 through 264 or REMARK 3 (resid 265 through 266 and (name N or REMARK 3 name CA or name C or name O or name CB )) REMARK 3 or resid 268 through 304 or resid 316 REMARK 3 through 320 or (resid 321 through 322 and REMARK 3 (name N or name CA or name C or name O or REMARK 3 name CB )) or resid 323 through 367 or REMARK 3 (resid 368 and (name N or name CA or name REMARK 3 C or name O or name CB )) or resid 369 or REMARK 3 (resid 370 and (name N or name CA or name REMARK 3 C or name O or name CB )) or resid 371 REMARK 3 through 373 or (resid 374 through 375 and REMARK 3 (name N or name CA or name C or name O or REMARK 3 name CB )) or resid 376 through 377 or REMARK 3 (resid 378 through 381 and (name N or REMARK 3 name CA or name C or name O or name CB )) REMARK 3 or resid 382)) REMARK 3 ATOM PAIRS NUMBER : NULL REMARK 3 RMSD : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 23UZ COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 20-FEB-26. REMARK 100 THE DEPOSITION ID IS D_1300070484. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 22-JUL-21 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SPRING-8 REMARK 200 BEAMLINE : BL45XU 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 PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XDS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 53425 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.050 REMARK 200 RESOLUTION RANGE LOW (A) : 42.360 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 200 DATA REDUNDANCY : 7.000 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 9.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.05 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.12 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.9 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 6.900 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 (%): 47.37 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.34 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M SODIUM MALONATE PH 7.0, 12% W/V REMARK 280 POLYETHYLENE GLYCOL 3,350, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 293K 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 45.58500 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 65.55000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 45.58500 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 65.55000 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: 7140 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 28220 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 MET A 1 REMARK 465 LYS A 2 REMARK 465 LYS A 3 REMARK 465 ARG A 4 REMARK 465 GLN A 5 REMARK 465 SER A 6 REMARK 465 GLN A 7 REMARK 465 THR A 8 REMARK 465 PRO A 9 REMARK 465 GLN A 10 REMARK 465 TYR A 267 REMARK 465 LEU A 305 REMARK 465 LYS A 306 REMARK 465 LEU A 307 REMARK 465 ALA A 308 REMARK 465 LYS A 309 REMARK 465 GLU A 310 REMARK 465 LEU A 311 REMARK 465 LYS A 312 REMARK 465 LYS A 313 REMARK 465 SER A 314 REMARK 465 ALA A 383 REMARK 465 ALA A 384 REMARK 465 LEU A 385 REMARK 465 ALA A 386 REMARK 465 ARG A 387 REMARK 465 GLU A 388 REMARK 465 ALA A 389 REMARK 465 ALA A 390 REMARK 465 LYS A 391 REMARK 465 LYS A 392 REMARK 465 ALA A 393 REMARK 465 LYS A 394 REMARK 465 GLU A 395 REMARK 465 LEU A 396 REMARK 465 VAL A 397 REMARK 465 MET B 1 REMARK 465 LYS B 2 REMARK 465 LYS B 3 REMARK 465 ARG B 4 REMARK 465 GLN B 5 REMARK 465 SER B 6 REMARK 465 GLN B 7 REMARK 465 THR B 8 REMARK 465 PRO B 9 REMARK 465 GLN B 10 REMARK 465 LYS B 306 REMARK 465 LEU B 307 REMARK 465 ALA B 308 REMARK 465 LYS B 309 REMARK 465 GLU B 310 REMARK 465 LEU B 311 REMARK 465 LYS B 312 REMARK 465 LYS B 313 REMARK 465 SER B 314 REMARK 465 PHE B 315 REMARK 465 ALA B 384 REMARK 465 LEU B 385 REMARK 465 ALA B 386 REMARK 465 ARG B 387 REMARK 465 GLU B 388 REMARK 465 ALA B 389 REMARK 465 ALA B 390 REMARK 465 LYS B 391 REMARK 465 LYS B 392 REMARK 465 ALA B 393 REMARK 465 LYS B 394 REMARK 465 GLU B 395 REMARK 465 LEU B 396 REMARK 465 VAL B 397 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 GLU A 165 CG CD OE1 OE2 REMARK 470 ARG A 225 CD NE CZ NH1 NH2 REMARK 470 LYS A 243 CG CD CE NZ REMARK 470 LYS A 252 CG CD CE NZ REMARK 470 LYS A 265 CG CD CE NZ REMARK 470 ASP A 266 CG OD1 OD2 REMARK 470 LYS A 268 CG CD CE NZ REMARK 470 ARG A 321 CG CD NE CZ NH1 NH2 REMARK 470 GLU A 322 CG CD OE1 OE2 REMARK 470 LYS A 368 CG CD CE NZ REMARK 470 ARG A 370 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 374 CG CD CE NZ REMARK 470 GLU A 378 CG CD OE1 OE2 REMARK 470 LYS A 379 CG CD CE NZ REMARK 470 ILE A 381 CG1 CG2 CD1 REMARK 470 GLU A 382 CD OE1 OE2 REMARK 470 ARG B 40 CG CD NE CZ NH1 NH2 REMARK 470 GLU B 111 CG CD OE1 OE2 REMARK 470 LYS B 112 CG CD CE NZ REMARK 470 LYS B 113 CE NZ REMARK 470 THR B 116 OG1 CG2 REMARK 470 VAL B 163 CG1 CG2 REMARK 470 LYS B 207 CG CD CE NZ REMARK 470 LYS B 222 NZ REMARK 470 LYS B 243 CG CD CE NZ REMARK 470 LYS B 252 CG CD CE NZ REMARK 470 GLU B 253 CD OE1 OE2 REMARK 470 TYR B 267 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 LYS B 268 CG CD CE NZ REMARK 470 GLU B 318 CG CD OE1 OE2 REMARK 470 GLU B 382 CD OE1 OE2 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 LYS A 112 43.44 -102.32 REMARK 500 THR A 116 -79.70 -115.69 REMARK 500 TYR A 117 60.04 -101.65 REMARK 500 LEU A 121 -10.83 -167.15 REMARK 500 VAL A 124 -41.03 -130.20 REMARK 500 LYS A 369 79.11 -108.18 REMARK 500 LYS B 112 44.76 -102.66 REMARK 500 THR B 116 -82.35 -117.22 REMARK 500 TYR B 117 56.62 -99.76 REMARK 500 LEU B 121 -15.14 -165.61 REMARK 500 VAL B 124 -42.18 -131.77 REMARK 500 LYS B 369 78.20 -105.41 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 B 401 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ANP B 402 O1A REMARK 620 2 ANP B 402 O1G 105.0 REMARK 620 3 ANP B 402 N3B 67.3 55.4 REMARK 620 N 1 2 DBREF 23UZ A 1 397 UNP O67137 TOP4B_AQUAE 1 397 DBREF 23UZ B 1 397 UNP O67137 TOP4B_AQUAE 1 397 SEQADV 23UZ ASN A 51 UNP O67137 ASP 51 VARIANT SEQADV 23UZ ASN B 51 UNP O67137 ASP 51 VARIANT SEQRES 1 A 397 MET LYS LYS ARG GLN SER GLN THR PRO GLN GLU TYR THR SEQRES 2 A 397 ALA GLU ALA ILE LYS ALA VAL SER GLY LEU GLU HIS VAL SEQRES 3 A 397 ARG LEU ARG PRO ALA MET TYR ILE GLY ASP ILE GLY GLU SEQRES 4 A 397 ARG GLY LEU HIS HIS LEU ILE TRP GLU ILE LEU ASN ASN SEQRES 5 A 397 ALA VAL ASP GLU ALA VAL ALA GLY TYR ALA ARG ASN ILE SEQRES 6 A 397 SER VAL THR ILE HIS ARG ASP ASN SER VAL THR VAL GLU SEQRES 7 A 397 ASP ASP GLY ARG GLY ILE PRO VAL ASP ILE HIS PRO GLU SEQRES 8 A 397 THR GLY LYS PRO ALA VAL GLU MET VAL PHE THR MET LEU SEQRES 9 A 397 GLY ALA GLY GLY LYS PHE GLU LYS LYS VAL TYR THR TYR SEQRES 10 A 397 SER GLY GLY LEU HIS GLY VAL GLY ALA SER VAL VAL ASN SEQRES 11 A 397 ALA LEU SER GLU TRP LEU ILE VAL GLU VAL TYR ARG ASP SEQRES 12 A 397 GLY LYS ILE TYR ARG MET ALA PHE LYS ARG GLY GLU VAL SEQRES 13 A 397 VAL GLU PRO LEU HIS VAL VAL GLY GLU THR LYS LYS ARG SEQRES 14 A 397 GLY THR LYS VAL SER PHE LYS PRO ASP PRO GLU ILE PHE SEQRES 15 A 397 GLU THR THR GLU ILE LYS PHE ASP ILE VAL GLU LYS ARG SEQRES 16 A 397 VAL ARG GLU LEU ALA TYR LEU ASN PRO GLU VAL LYS PHE SEQRES 17 A 397 GLU LEU THR ASP GLU ARG LEU GLY LYS HIS LEU ILE TYR SEQRES 18 A 397 LYS PHE ASP ARG GLY ILE GLU GLU LEU VAL LYS TYR LEU SEQRES 19 A 397 ASN GLU GLY LYS GLU PRO LEU PHE LYS ASP ILE ILE ARG SEQRES 20 A 397 ILE GLN GLY GLU LYS GLU GLY VAL ILE VAL ASP ILE ALA SEQRES 21 A 397 PHE GLN TYR VAL LYS ASP TYR LYS GLU ARG ILE GLU SER SEQRES 22 A 397 PHE VAL ASN ASN ILE LYS THR VAL GLU GLY GLY THR HIS SEQRES 23 A 397 VAL THR GLY PHE ARG SER GLY LEU SER LYS ALA VAL ILE SEQRES 24 A 397 ARG MET ALA GLN GLY LEU LYS LEU ALA LYS GLU LEU LYS SEQRES 25 A 397 LYS SER PHE THR GLY GLU ASP VAL ARG GLU GLY LEU THR SEQRES 26 A 397 ALA VAL VAL ALA CYS LYS VAL PRO ASN PRO GLN PHE GLU SEQRES 27 A 397 GLY GLN THR LYS THR LYS LEU GLY ASN GLN ASN VAL LYS SEQRES 28 A 397 GLN ILE VAL GLU SER ILE THR TYR ASP PHE LEU THR SER SEQRES 29 A 397 TYR PHE GLU LYS LYS ARG ASP VAL LEU LYS ALA ILE VAL SEQRES 30 A 397 GLU LYS ALA ILE GLU ALA ALA LEU ALA ARG GLU ALA ALA SEQRES 31 A 397 LYS LYS ALA LYS GLU LEU VAL SEQRES 1 B 397 MET LYS LYS ARG GLN SER GLN THR PRO GLN GLU TYR THR SEQRES 2 B 397 ALA GLU ALA ILE LYS ALA VAL SER GLY LEU GLU HIS VAL SEQRES 3 B 397 ARG LEU ARG PRO ALA MET TYR ILE GLY ASP ILE GLY GLU SEQRES 4 B 397 ARG GLY LEU HIS HIS LEU ILE TRP GLU ILE LEU ASN ASN SEQRES 5 B 397 ALA VAL ASP GLU ALA VAL ALA GLY TYR ALA ARG ASN ILE SEQRES 6 B 397 SER VAL THR ILE HIS ARG ASP ASN SER VAL THR VAL GLU SEQRES 7 B 397 ASP ASP GLY ARG GLY ILE PRO VAL ASP ILE HIS PRO GLU SEQRES 8 B 397 THR GLY LYS PRO ALA VAL GLU MET VAL PHE THR MET LEU SEQRES 9 B 397 GLY ALA GLY GLY LYS PHE GLU LYS LYS VAL TYR THR TYR SEQRES 10 B 397 SER GLY GLY LEU HIS GLY VAL GLY ALA SER VAL VAL ASN SEQRES 11 B 397 ALA LEU SER GLU TRP LEU ILE VAL GLU VAL TYR ARG ASP SEQRES 12 B 397 GLY LYS ILE TYR ARG MET ALA PHE LYS ARG GLY GLU VAL SEQRES 13 B 397 VAL GLU PRO LEU HIS VAL VAL GLY GLU THR LYS LYS ARG SEQRES 14 B 397 GLY THR LYS VAL SER PHE LYS PRO ASP PRO GLU ILE PHE SEQRES 15 B 397 GLU THR THR GLU ILE LYS PHE ASP ILE VAL GLU LYS ARG SEQRES 16 B 397 VAL ARG GLU LEU ALA TYR LEU ASN PRO GLU VAL LYS PHE SEQRES 17 B 397 GLU LEU THR ASP GLU ARG LEU GLY LYS HIS LEU ILE TYR SEQRES 18 B 397 LYS PHE ASP ARG GLY ILE GLU GLU LEU VAL LYS TYR LEU SEQRES 19 B 397 ASN GLU GLY LYS GLU PRO LEU PHE LYS ASP ILE ILE ARG SEQRES 20 B 397 ILE GLN GLY GLU LYS GLU GLY VAL ILE VAL ASP ILE ALA SEQRES 21 B 397 PHE GLN TYR VAL LYS ASP TYR LYS GLU ARG ILE GLU SER SEQRES 22 B 397 PHE VAL ASN ASN ILE LYS THR VAL GLU GLY GLY THR HIS SEQRES 23 B 397 VAL THR GLY PHE ARG SER GLY LEU SER LYS ALA VAL ILE SEQRES 24 B 397 ARG MET ALA GLN GLY LEU LYS LEU ALA LYS GLU LEU LYS SEQRES 25 B 397 LYS SER PHE THR GLY GLU ASP VAL ARG GLU GLY LEU THR SEQRES 26 B 397 ALA VAL VAL ALA CYS LYS VAL PRO ASN PRO GLN PHE GLU SEQRES 27 B 397 GLY GLN THR LYS THR LYS LEU GLY ASN GLN ASN VAL LYS SEQRES 28 B 397 GLN ILE VAL GLU SER ILE THR TYR ASP PHE LEU THR SER SEQRES 29 B 397 TYR PHE GLU LYS LYS ARG ASP VAL LEU LYS ALA ILE VAL SEQRES 30 B 397 GLU LYS ALA ILE GLU ALA ALA LEU ALA ARG GLU ALA ALA SEQRES 31 B 397 LYS LYS ALA LYS GLU LEU VAL HET ANP A 401 31 HET PEG A 402 7 HET MG B 401 1 HET ANP B 402 31 HET PEG B 403 7 HETNAM ANP PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER HETNAM PEG DI(HYDROXYETHYL)ETHER HETNAM MG MAGNESIUM ION FORMUL 3 ANP 2(C10 H17 N6 O12 P3) FORMUL 4 PEG 2(C4 H10 O3) FORMUL 5 MG MG 2+ FORMUL 8 HOH *367(H2 O) HELIX 1 AA1 THR A 13 ILE A 17 5 5 HELIX 2 AA2 SER A 21 ARG A 29 1 9 HELIX 3 AA3 ARG A 29 GLY A 35 1 7 HELIX 4 AA4 GLY A 38 ALA A 59 1 22 HELIX 5 AA5 PRO A 95 MET A 103 1 9 HELIX 6 AA6 VAL A 124 LEU A 132 1 9 HELIX 7 AA7 LYS A 188 ASN A 203 1 16 HELIX 8 AA8 GLY A 226 ASN A 235 1 10 HELIX 9 AA9 GLY A 284 GLN A 303 1 20 HELIX 10 AB1 THR A 316 ARG A 321 1 6 HELIX 11 AB2 ASN A 347 LYS A 369 1 23 HELIX 12 AB3 LYS A 369 GLU A 382 1 14 HELIX 13 AB4 THR B 13 ILE B 17 5 5 HELIX 14 AB5 SER B 21 ARG B 29 1 9 HELIX 15 AB6 ARG B 29 GLY B 35 1 7 HELIX 16 AB7 GLY B 38 ALA B 59 1 22 HELIX 17 AB8 PRO B 95 MET B 103 1 9 HELIX 18 AB9 VAL B 124 LEU B 132 1 9 HELIX 19 AC1 LYS B 188 ASN B 203 1 16 HELIX 20 AC2 ILE B 227 ASN B 235 1 9 HELIX 21 AC3 GLY B 284 GLN B 303 1 20 HELIX 22 AC4 GLY B 317 ARG B 321 1 5 HELIX 23 AC5 ASN B 347 LYS B 369 1 23 HELIX 24 AC6 LYS B 369 ALA B 383 1 15 SHEET 1 AA1 2 LYS A 18 ALA A 19 0 SHEET 2 AA1 2 ALA B 106 GLY B 107 -1 O GLY B 107 N LYS A 18 SHEET 1 AA2 8 GLU A 155 GLU A 165 0 SHEET 2 AA2 8 LYS A 145 LYS A 152 -1 N ILE A 146 O GLY A 164 SHEET 3 AA2 8 SER A 133 ARG A 142 -1 N VAL A 140 O TYR A 147 SHEET 4 AA2 8 GLY A 170 PRO A 177 -1 O SER A 174 N ILE A 137 SHEET 5 AA2 8 VAL A 75 ASP A 79 -1 N VAL A 77 O VAL A 173 SHEET 6 AA2 8 ASN A 64 ILE A 69 -1 N SER A 66 O GLU A 78 SHEET 7 AA2 8 LYS A 207 ASP A 212 1 O GLU A 209 N VAL A 67 SHEET 8 AA2 8 LYS A 217 ILE A 220 -1 O LEU A 219 N LEU A 210 SHEET 1 AA3 2 ALA A 106 GLY A 107 0 SHEET 2 AA3 2 LYS B 18 ALA B 19 -1 O LYS B 18 N GLY A 107 SHEET 1 AA4 5 ILE A 246 LYS A 252 0 SHEET 2 AA4 5 VAL A 255 TYR A 263 -1 O ILE A 259 N ILE A 248 SHEET 3 AA4 5 LEU A 324 LYS A 331 -1 O VAL A 327 N ALA A 260 SHEET 4 AA4 5 ARG A 270 VAL A 275 1 N PHE A 274 O VAL A 328 SHEET 5 AA4 5 ILE A 278 LYS A 279 -1 O ILE A 278 N VAL A 275 SHEET 1 AA5 8 GLU B 155 GLU B 165 0 SHEET 2 AA5 8 LYS B 145 LYS B 152 -1 N ILE B 146 O VAL B 163 SHEET 3 AA5 8 SER B 133 ARG B 142 -1 N VAL B 140 O TYR B 147 SHEET 4 AA5 8 GLY B 170 PRO B 177 -1 O SER B 174 N ILE B 137 SHEET 5 AA5 8 VAL B 75 ASP B 79 -1 N VAL B 77 O VAL B 173 SHEET 6 AA5 8 ASN B 64 ILE B 69 -1 N SER B 66 O GLU B 78 SHEET 7 AA5 8 LYS B 207 ASP B 212 1 O THR B 211 N ILE B 69 SHEET 8 AA5 8 LYS B 217 ILE B 220 -1 O LEU B 219 N LEU B 210 SHEET 1 AA6 5 ILE B 246 LYS B 252 0 SHEET 2 AA6 5 VAL B 255 TYR B 263 -1 O ILE B 259 N ILE B 248 SHEET 3 AA6 5 LEU B 324 LYS B 331 -1 O ALA B 329 N ASP B 258 SHEET 4 AA6 5 ARG B 270 VAL B 275 1 N ARG B 270 O ALA B 326 SHEET 5 AA6 5 ILE B 278 LYS B 279 -1 O ILE B 278 N VAL B 275 LINK MG MG B 401 O1A ANP B 402 1555 1555 2.88 LINK MG MG B 401 O1G ANP B 402 1555 1555 2.47 LINK MG MG B 401 N3B ANP B 402 1555 1555 2.93 CRYST1 69.970 91.170 131.100 90.00 90.00 90.00 P 2 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 0.014292 0.000000 0.000000 0.00000 SCALE2 0.000000 0.010969 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007628 0.00000 MTRIX1 1 -0.684000 -0.538321 0.492296 -47.95006 1 MTRIX2 1 -0.509557 -0.130340 -0.850508 18.59630 1 MTRIX3 1 0.522012 -0.832600 -0.185153 49.09655 1 CONECT 5625 5626 5627 5628 5632 CONECT 5626 5625 CONECT 5627 5625 CONECT 5628 5625 CONECT 5629 5630 5631 5632 5636 CONECT 5630 5629 CONECT 5631 5629 CONECT 5632 5625 5629 CONECT 5633 5634 5635 5636 5637 CONECT 5634 5633 CONECT 5635 5633 CONECT 5636 5629 5633 CONECT 5637 5633 5638 CONECT 5638 5637 5639 CONECT 5639 5638 5640 5641 CONECT 5640 5639 5645 CONECT 5641 5639 5642 5643 CONECT 5642 5641 CONECT 5643 5641 5644 5645 CONECT 5644 5643 CONECT 5645 5640 5643 5646 CONECT 5646 5645 5647 5655 CONECT 5647 5646 5648 CONECT 5648 5647 5649 CONECT 5649 5648 5650 5655 CONECT 5650 5649 5651 5652 CONECT 5651 5650 CONECT 5652 5650 5653 CONECT 5653 5652 5654 CONECT 5654 5653 5655 CONECT 5655 5646 5649 5654 CONECT 5656 5657 5658 CONECT 5657 5656 CONECT 5658 5656 5659 CONECT 5659 5658 5660 CONECT 5660 5659 5661 CONECT 5661 5660 5662 CONECT 5662 5661 CONECT 5663 5665 5671 5673 CONECT 5664 5665 5666 5667 5671 CONECT 5665 5663 5664 CONECT 5666 5664 CONECT 5667 5664 CONECT 5668 5669 5670 5671 5675 CONECT 5669 5668 CONECT 5670 5668 CONECT 5671 5663 5664 5668 CONECT 5672 5673 5674 5675 5676 CONECT 5673 5663 5672 CONECT 5674 5672 CONECT 5675 5668 5672 CONECT 5676 5672 5677 CONECT 5677 5676 5678 CONECT 5678 5677 5679 5680 CONECT 5679 5678 5684 CONECT 5680 5678 5681 5682 CONECT 5681 5680 CONECT 5682 5680 5683 5684 CONECT 5683 5682 CONECT 5684 5679 5682 5685 CONECT 5685 5684 5686 5694 CONECT 5686 5685 5687 CONECT 5687 5686 5688 CONECT 5688 5687 5689 5694 CONECT 5689 5688 5690 5691 CONECT 5690 5689 CONECT 5691 5689 5692 CONECT 5692 5691 5693 CONECT 5693 5692 5694 CONECT 5694 5685 5688 5693 CONECT 5695 5696 5697 CONECT 5696 5695 CONECT 5697 5695 5698 CONECT 5698 5697 5699 CONECT 5699 5698 5700 CONECT 5700 5699 5701 CONECT 5701 5700 MASTER 437 0 5 24 30 0 0 9 6066 2 77 62 END