HEADER TRANSCRIPTION/DNA 01-MAY-13 4KI2 TITLE CRYSTALLOGRAPHIC ANALYSIS OF AN RNA-POLYMERASE SIGMA-SUBUNIT FRAGMENT TITLE 2 COMPLEXED WITH -10 PROMOTER ELEMENT SSDNA COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA (5'-D(*TP*GP*TP*AP*CP*AP*AP*TP*GP*GP*G)-3'); COMPND 3 CHAIN: D, E, F, G; COMPND 4 ENGINEERED: YES; COMPND 5 OTHER_DETAILS: -10 ELEMENT NON-TEMPLATE STRAND SSDNA; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: RNA POLYMERASE SIGMA FACTOR; COMPND 8 CHAIN: A, B; COMPND 9 FRAGMENT: DOMAINS 2-3, (UNP RESIDUES 92-332); COMPND 10 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 OTHER_DETAILS: SEQUENCE FROM NON-TEMPLATE STRAND OF -10 BACTERIAL SOURCE 4 PROMOTER ELEMENT; SOURCE 5 MOL_ID: 2; SOURCE 6 ORGANISM_SCIENTIFIC: THERMUS AQUATICUS; SOURCE 7 ORGANISM_TAXID: 271; SOURCE 8 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 9 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS SSDNA, G-QUARTET, G-QUADRUPLEX, PROMOTER RECOGNITION, PROMOTER KEYWDS 2 OPENING, TRANSCRIPTION INITIATION, PROTEIN-DNA BINDING, SSDNA- KEYWDS 3 BINDING, TRANSCRIPTION-DNA COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR A.FEKLISTOV,S.A.DARST REVDAT 4 28-FEB-24 4KI2 1 REMARK SEQADV LINK REVDAT 3 24-JAN-18 4KI2 1 AUTHOR REVDAT 2 24-SEP-14 4KI2 1 JRNL REVDAT 1 04-SEP-13 4KI2 0 SPRSDE 04-SEP-13 4KI2 4GOR JRNL AUTH A.FEKLISTOV,S.A.DARST JRNL TITL CRYSTALLOGRAPHIC ANALYSIS OF AN RNA POLYMERASE SIGMA-SUBUNIT JRNL TITL 2 FRAGMENT COMPLEXED WITH -10 PROMOTER ELEMENT SSDNA: JRNL TITL 3 QUADRUPLEX FORMATION AS A POSSIBLE TOOL FOR ENGINEERING JRNL TITL 4 CRYSTAL CONTACTS IN PROTEIN-SSDNA COMPLEXES. JRNL REF ACTA CRYSTALLOGR.,SECT.F V. 69 950 2013 JRNL REFN ESSN 1744-3091 JRNL PMID 23989139 JRNL DOI 10.1107/S1744309113020368 REMARK 2 REMARK 2 RESOLUTION. 3.30 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE: 1.8.1_1168) 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 : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 3.30 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 29.53 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 13056 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.216 REMARK 3 R VALUE (WORKING SET) : 0.212 REMARK 3 FREE R VALUE : 0.262 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 10.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1306 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 29.5300 - 6.8382 1.00 1438 160 0.1905 0.2599 REMARK 3 2 6.8382 - 5.4388 1.00 1336 148 0.2259 0.2554 REMARK 3 3 5.4388 - 4.7545 1.00 1306 146 0.1795 0.2143 REMARK 3 4 4.7545 - 4.3213 1.00 1302 144 0.1764 0.2452 REMARK 3 5 4.3213 - 4.0123 1.00 1288 143 0.1798 0.2239 REMARK 3 6 4.0123 - 3.7763 1.00 1277 142 0.2267 0.2626 REMARK 3 7 3.7763 - 3.5875 1.00 1263 141 0.2700 0.3078 REMARK 3 8 3.5875 - 3.4316 1.00 1277 142 0.3276 0.3662 REMARK 3 9 3.4316 - 3.3000 1.00 1263 140 0.3708 0.4177 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) : 0.450 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 28.370 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL 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 : 0.010 3925 REMARK 3 ANGLE : 1.376 5424 REMARK 3 CHIRALITY : 0.072 591 REMARK 3 PLANARITY : 0.005 616 REMARK 3 DIHEDRAL : 20.423 1527 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 4KI2 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 09-MAY-13. REMARK 100 THE DEPOSITION ID IS D_1000079365. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 22-APR-09 REMARK 200 TEMPERATURE (KELVIN) : 77 REMARK 200 PH : 8.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 24-ID-E REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97918 REMARK 200 MONOCHROMATOR : SINGLE CRYSTAL SI(220) SIDE REMARK 200 BOUNCE REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 13060 REMARK 200 RESOLUTION RANGE HIGH (A) : 3.300 REMARK 200 RESOLUTION RANGE LOW (A) : 29.530 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 14.40 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 3.30 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.36 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 13.00 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.800 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 57.58 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.90 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 100 MM TRIS, PH 8.5, 5% W/V PEG8000, REMARK 280 20% W/V PEG300, 10% V/V GLYCEROL, 0.15% W/V MELLITIC ACID, VAPOR REMARK 280 DIFFUSION, HANGING DROP, TEMPERATURE 295.15K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 62 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+2/3 REMARK 290 3555 -X+Y,-X,Z+1/3 REMARK 290 4555 -X,-Y,Z REMARK 290 5555 Y,-X+Y,Z+2/3 REMARK 290 6555 X-Y,X,Z+1/3 REMARK 290 7555 Y,X,-Z+2/3 REMARK 290 8555 X-Y,-Y,-Z REMARK 290 9555 -X,-X+Y,-Z+1/3 REMARK 290 10555 -Y,-X,-Z+2/3 REMARK 290 11555 -X+Y,Y,-Z REMARK 290 12555 X,X-Y,-Z+1/3 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 133.89667 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 66.94833 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 5 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 5 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 133.89667 REMARK 290 SMTRY1 6 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 66.94833 REMARK 290 SMTRY1 7 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 7 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 133.89667 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 9 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 9 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 9 0.000000 0.000000 -1.000000 66.94833 REMARK 290 SMTRY1 10 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 10 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 10 0.000000 0.000000 -1.000000 133.89667 REMARK 290 SMTRY1 11 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 11 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 12 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 12 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 12 0.000000 0.000000 -1.000000 66.94833 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: TRIMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: D, G, A 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: TRIMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: E, F, 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 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 K K D 101 LIES ON A SPECIAL POSITION. REMARK 375 K K D 102 LIES ON A SPECIAL POSITION. REMARK 375 K K D 103 LIES ON A SPECIAL POSITION. REMARK 375 K K G 101 LIES ON A SPECIAL POSITION. REMARK 375 K K G 102 LIES ON A SPECIAL POSITION. 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 DT E 1 REMARK 465 DT F 1 REMARK 465 DG F 2 REMARK 465 DT F 3 REMARK 465 DA F 4 REMARK 465 DC F 5 REMARK 465 DA F 6 REMARK 465 DA F 7 REMARK 465 DT F 8 REMARK 465 DT G 1 REMARK 465 DG G 2 REMARK 465 DT G 3 REMARK 465 DA G 4 REMARK 465 DC G 5 REMARK 465 DA G 6 REMARK 465 DA G 7 REMARK 465 DT G 8 REMARK 465 GLY A 88 REMARK 465 PRO A 89 REMARK 465 HIS A 90 REMARK 465 MET A 91 REMARK 465 THR A 92 REMARK 465 ARG A 271 REMARK 465 THR A 272 REMARK 465 ILE A 273 REMARK 465 ARG A 274 REMARK 465 ILE A 275 REMARK 465 PRO A 276 REMARK 465 VAL A 277 REMARK 465 HIS A 278 REMARK 465 MET A 279 REMARK 465 VAL A 280 REMARK 465 GLU A 281 REMARK 465 THR A 282 REMARK 465 ILE A 283 REMARK 465 ASN A 284 REMARK 465 LYS A 285 REMARK 465 LEU A 286 REMARK 465 SER A 287 REMARK 465 ARG A 288 REMARK 465 THR A 289 REMARK 465 ALA A 290 REMARK 465 ARG A 291 REMARK 465 GLN A 292 REMARK 465 LEU A 293 REMARK 465 GLN A 294 REMARK 465 GLN A 295 REMARK 465 GLU A 296 REMARK 465 LEU A 297 REMARK 465 GLY A 298 REMARK 465 ARG A 299 REMARK 465 GLU A 300 REMARK 465 PRO A 301 REMARK 465 SER A 302 REMARK 465 TYR A 303 REMARK 465 GLU A 304 REMARK 465 GLU A 305 REMARK 465 ILE A 306 REMARK 465 ALA A 307 REMARK 465 GLU A 308 REMARK 465 ALA A 309 REMARK 465 MET A 310 REMARK 465 GLY A 311 REMARK 465 PRO A 312 REMARK 465 GLY A 313 REMARK 465 TRP A 314 REMARK 465 ASP A 315 REMARK 465 ALA A 316 REMARK 465 LYS A 317 REMARK 465 ARG A 318 REMARK 465 VAL A 319 REMARK 465 GLU A 320 REMARK 465 GLU A 321 REMARK 465 THR A 322 REMARK 465 LEU A 323 REMARK 465 LYS A 324 REMARK 465 ILE A 325 REMARK 465 ALA A 326 REMARK 465 GLN A 327 REMARK 465 GLU A 328 REMARK 465 PRO A 329 REMARK 465 VAL A 330 REMARK 465 SER A 331 REMARK 465 LEU A 332 REMARK 465 GLY B 88 REMARK 465 PRO B 89 REMARK 465 HIS B 90 REMARK 465 MET B 91 REMARK 465 THR B 92 REMARK 465 GLN B 327 REMARK 465 GLU B 328 REMARK 465 PRO B 329 REMARK 465 VAL B 330 REMARK 465 SER B 331 REMARK 465 LEU B 332 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 SER A 93 CB OG REMARK 470 ASP A 94 CB CG OD1 OD2 REMARK 470 ARG A 97 CB CG CD NE CZ NH1 NH2 REMARK 470 GLU A 102 CB CG CD OE1 OE2 REMARK 470 GLN A 157 CB CG CD OE1 NE2 REMARK 470 LYS A 163 CB CG CD CE NZ REMARK 470 LYS A 165 CB CG CD CE NZ REMARK 470 GLU A 172 CB CG CD OE1 OE2 REMARK 470 LYS A 179 CB CG CD CE NZ REMARK 470 LEU A 181 CB CG CD1 CD2 REMARK 470 LYS A 183 CB CG CD CE NZ REMARK 470 GLU A 184 CB CG CD OE1 OE2 REMARK 470 LYS A 186 CB CG CD CE NZ REMARK 470 ARG A 187 CB CG CD NE CZ NH1 NH2 REMARK 470 LYS A 216 CB CG CD CE NZ REMARK 470 SER B 93 CB OG REMARK 470 ASP B 94 CB CG OD1 OD2 REMARK 470 ARG B 97 CB CG CD NE CZ NH1 NH2 REMARK 470 GLU B 102 CB CG CD OE1 OE2 REMARK 470 LYS B 158 CB CG CD CE NZ REMARK 470 LYS B 163 CB CG CD CE NZ REMARK 470 LYS B 165 CB CG CD CE NZ REMARK 470 GLU B 172 CB CG CD OE1 OE2 REMARK 470 LYS B 179 CB CG CD CE NZ REMARK 470 LEU B 181 CB CG CD1 CD2 REMARK 470 LYS B 183 CB CG CD CE NZ REMARK 470 GLU B 184 CB CG CD OE1 OE2 REMARK 470 LYS B 186 CB CG CD CE NZ REMARK 470 ARG B 187 CB CG CD NE CZ NH1 NH2 REMARK 470 LYS B 216 CB CG CD CE NZ REMARK 470 ARG B 264 CB CG CD NE CZ NH1 NH2 REMARK 470 ARG B 271 CG CD NE CZ NH1 NH2 REMARK 470 THR B 272 OG1 CG2 REMARK 470 ILE B 273 CG1 CG2 CD1 REMARK 470 ARG B 274 CG CD NE CZ NH1 NH2 REMARK 470 ILE B 275 CG1 CG2 CD1 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 OG SER A 132 O LEU A 137 2.01 REMARK 500 O LYS B 285 OG1 THR B 289 2.11 REMARK 500 O ILE A 228 ND2 ASN A 232 2.12 REMARK 500 O GLY A 176 OG SER A 180 2.18 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS 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,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) 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 RES CSSEQI ATM2 DEVIATION REMARK 500 DC E 5 O3' DC E 5 C3' -0.043 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 DG D 2 O4' - C4' - C3' ANGL. DEV. = -2.8 DEGREES REMARK 500 DG D 2 C1' - O4' - C4' ANGL. DEV. = -6.7 DEGREES REMARK 500 DG D 2 O4' - C1' - N9 ANGL. DEV. = 3.3 DEGREES REMARK 500 DA D 6 O4' - C1' - N9 ANGL. DEV. = -11.9 DEGREES REMARK 500 DA D 7 O4' - C1' - C2' ANGL. DEV. = -7.9 DEGREES REMARK 500 DG D 10 O4' - C1' - C2' ANGL. DEV. = -4.8 DEGREES REMARK 500 DA E 4 O4' - C1' - N9 ANGL. DEV. = -6.8 DEGREES REMARK 500 DA E 6 O4' - C1' - N9 ANGL. DEV. = -10.3 DEGREES REMARK 500 DA E 7 O4' - C1' - C2' ANGL. DEV. = -5.3 DEGREES REMARK 500 DG E 11 O4' - C1' - N9 ANGL. DEV. = -6.0 DEGREES REMARK 500 DG E 11 C5 - C6 - O6 ANGL. DEV. = -4.1 DEGREES REMARK 500 DG G 11 O4' - C1' - N9 ANGL. DEV. = -5.6 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 ASP A 94 -106.95 -145.28 REMARK 500 GLU A 114 -54.96 -29.86 REMARK 500 ILE A 128 -25.81 -37.36 REMARK 500 PRO A 160 156.57 -47.81 REMARK 500 LYS A 165 -140.62 77.60 REMARK 500 PRO A 166 -88.74 -86.30 REMARK 500 PRO A 182 172.20 -49.18 REMARK 500 LEU A 185 -81.63 -72.69 REMARK 500 LYS A 186 -69.55 37.47 REMARK 500 LYS A 215 -34.01 -39.99 REMARK 500 LEU B 151 -18.42 -47.43 REMARK 500 GLN B 157 -78.39 -92.31 REMARK 500 LYS B 165 155.65 -49.75 REMARK 500 PRO B 182 -171.74 -58.98 REMARK 500 ALA B 265 -77.22 -50.99 REMARK 500 ARG B 271 -127.23 61.26 REMARK 500 ARG B 274 -8.87 99.78 REMARK 500 GLU B 296 -58.45 -121.98 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 K D 102 K REMARK 620 N RES CSSEQI ATOM REMARK 620 1 DG D 9 O6 REMARK 620 2 DG D 10 O6 77.2 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 K D 103 K REMARK 620 N RES CSSEQI ATOM REMARK 620 1 DG D 9 O6 REMARK 620 2 DG G 11 O6 81.5 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 K D 101 K REMARK 620 N RES CSSEQI ATOM REMARK 620 1 DG D 10 O6 REMARK 620 2 DG D 11 O6 60.9 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 K G 102 K REMARK 620 N RES CSSEQI ATOM REMARK 620 1 DG G 9 O6 REMARK 620 2 DG G 10 O6 78.7 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 K G 101 K REMARK 620 N RES CSSEQI ATOM REMARK 620 1 DG G 10 O6 REMARK 620 2 DG G 11 O6 80.2 REMARK 620 N 1 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE K D 101 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE K D 102 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE K D 103 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE K G 101 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE K G 102 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3UGO RELATED DB: PDB REMARK 900 RELATED ID: 3UGP RELATED DB: PDB DBREF 4KI2 A 92 332 UNP Q9EZJ8 Q9EZJ8_THEAQ 92 332 DBREF 4KI2 B 92 332 UNP Q9EZJ8 Q9EZJ8_THEAQ 92 332 DBREF 4KI2 D 1 11 PDB 4KI2 4KI2 1 11 DBREF 4KI2 E 1 11 PDB 4KI2 4KI2 1 11 DBREF 4KI2 F 1 11 PDB 4KI2 4KI2 1 11 DBREF 4KI2 G 1 11 PDB 4KI2 4KI2 1 11 SEQADV 4KI2 GLY A 88 UNP Q9EZJ8 EXPRESSION TAG SEQADV 4KI2 PRO A 89 UNP Q9EZJ8 EXPRESSION TAG SEQADV 4KI2 HIS A 90 UNP Q9EZJ8 EXPRESSION TAG SEQADV 4KI2 MET A 91 UNP Q9EZJ8 EXPRESSION TAG SEQADV 4KI2 GLY B 88 UNP Q9EZJ8 EXPRESSION TAG SEQADV 4KI2 PRO B 89 UNP Q9EZJ8 EXPRESSION TAG SEQADV 4KI2 HIS B 90 UNP Q9EZJ8 EXPRESSION TAG SEQADV 4KI2 MET B 91 UNP Q9EZJ8 EXPRESSION TAG SEQRES 1 D 11 DT DG DT DA DC DA DA DT DG DG DG SEQRES 1 E 11 DT DG DT DA DC DA DA DT DG DG DG SEQRES 1 F 11 DT DG DT DA DC DA DA DT DG DG DG SEQRES 1 G 11 DT DG DT DA DC DA DA DT DG DG DG SEQRES 1 A 245 GLY PRO HIS MET THR SER ASP PRO VAL ARG GLN TYR LEU SEQRES 2 A 245 HIS GLU ILE GLY GLN VAL PRO LEU LEU THR LEU GLU GLU SEQRES 3 A 245 GLU ILE ASP LEU ALA ARG LYS VAL GLU GLU GLY MET GLU SEQRES 4 A 245 ALA ILE LYS LYS LEU SER GLU ALA THR GLY LEU ASP GLN SEQRES 5 A 245 GLU LEU ILE ARG GLU VAL VAL ARG ALA LYS ILE LEU GLY SEQRES 6 A 245 THR ALA ARG ILE GLN LYS ILE PRO GLY LEU LYS GLU LYS SEQRES 7 A 245 PRO ASP PRO LYS THR VAL GLU GLU VAL ASP GLY LYS LEU SEQRES 8 A 245 LYS SER LEU PRO LYS GLU LEU LYS ARG TYR LEU HIS ILE SEQRES 9 A 245 ALA ARG GLU GLY GLU ALA ALA ARG GLN HIS LEU ILE GLU SEQRES 10 A 245 ALA ASN LEU ARG LEU VAL VAL SER ILE ALA LYS LYS TYR SEQRES 11 A 245 THR GLY ARG GLY LEU SER PHE LEU ASP LEU ILE GLN GLU SEQRES 12 A 245 GLY ASN GLN GLY LEU ILE ARG ALA VAL GLU LYS PHE GLU SEQRES 13 A 245 TYR LYS ARG ARG PHE LYS PHE SER THR TYR ALA THR TRP SEQRES 14 A 245 TRP ILE ARG GLN ALA ILE ASN ARG ALA ILE ALA ASP GLN SEQRES 15 A 245 ALA ARG THR ILE ARG ILE PRO VAL HIS MET VAL GLU THR SEQRES 16 A 245 ILE ASN LYS LEU SER ARG THR ALA ARG GLN LEU GLN GLN SEQRES 17 A 245 GLU LEU GLY ARG GLU PRO SER TYR GLU GLU ILE ALA GLU SEQRES 18 A 245 ALA MET GLY PRO GLY TRP ASP ALA LYS ARG VAL GLU GLU SEQRES 19 A 245 THR LEU LYS ILE ALA GLN GLU PRO VAL SER LEU SEQRES 1 B 245 GLY PRO HIS MET THR SER ASP PRO VAL ARG GLN TYR LEU SEQRES 2 B 245 HIS GLU ILE GLY GLN VAL PRO LEU LEU THR LEU GLU GLU SEQRES 3 B 245 GLU ILE ASP LEU ALA ARG LYS VAL GLU GLU GLY MET GLU SEQRES 4 B 245 ALA ILE LYS LYS LEU SER GLU ALA THR GLY LEU ASP GLN SEQRES 5 B 245 GLU LEU ILE ARG GLU VAL VAL ARG ALA LYS ILE LEU GLY SEQRES 6 B 245 THR ALA ARG ILE GLN LYS ILE PRO GLY LEU LYS GLU LYS SEQRES 7 B 245 PRO ASP PRO LYS THR VAL GLU GLU VAL ASP GLY LYS LEU SEQRES 8 B 245 LYS SER LEU PRO LYS GLU LEU LYS ARG TYR LEU HIS ILE SEQRES 9 B 245 ALA ARG GLU GLY GLU ALA ALA ARG GLN HIS LEU ILE GLU SEQRES 10 B 245 ALA ASN LEU ARG LEU VAL VAL SER ILE ALA LYS LYS TYR SEQRES 11 B 245 THR GLY ARG GLY LEU SER PHE LEU ASP LEU ILE GLN GLU SEQRES 12 B 245 GLY ASN GLN GLY LEU ILE ARG ALA VAL GLU LYS PHE GLU SEQRES 13 B 245 TYR LYS ARG ARG PHE LYS PHE SER THR TYR ALA THR TRP SEQRES 14 B 245 TRP ILE ARG GLN ALA ILE ASN ARG ALA ILE ALA ASP GLN SEQRES 15 B 245 ALA ARG THR ILE ARG ILE PRO VAL HIS MET VAL GLU THR SEQRES 16 B 245 ILE ASN LYS LEU SER ARG THR ALA ARG GLN LEU GLN GLN SEQRES 17 B 245 GLU LEU GLY ARG GLU PRO SER TYR GLU GLU ILE ALA GLU SEQRES 18 B 245 ALA MET GLY PRO GLY TRP ASP ALA LYS ARG VAL GLU GLU SEQRES 19 B 245 THR LEU LYS ILE ALA GLN GLU PRO VAL SER LEU HET K D 101 1 HET K D 102 1 HET K D 103 1 HET K G 101 1 HET K G 102 1 HETNAM K POTASSIUM ION FORMUL 7 K 5(K 1+) HELIX 1 1 VAL A 96 VAL A 106 1 11 HELIX 2 2 THR A 110 GLY A 136 1 27 HELIX 3 3 ASP A 138 LEU A 151 1 14 HELIX 4 4 GLY A 152 ALA A 154 5 3 HELIX 5 5 ASP A 167 SER A 180 1 14 HELIX 6 6 LYS A 186 ASN A 206 1 21 HELIX 7 7 ASN A 206 LYS A 215 1 10 HELIX 8 8 LYS A 216 THR A 218 5 3 HELIX 9 9 SER A 223 PHE A 242 1 20 HELIX 10 10 GLU A 243 ARG A 247 5 5 HELIX 11 11 LYS A 249 ASP A 268 1 20 HELIX 12 12 ASP B 94 GLN B 105 1 12 HELIX 13 13 THR B 110 THR B 135 1 26 HELIX 14 14 ASP B 138 LEU B 151 1 14 HELIX 15 15 GLY B 152 ALA B 154 5 3 HELIX 16 16 ASP B 167 SER B 180 1 14 HELIX 17 17 LYS B 186 ASN B 206 1 21 HELIX 18 18 ASN B 206 LYS B 215 1 10 HELIX 19 19 LYS B 216 THR B 218 5 3 HELIX 20 20 SER B 223 PHE B 242 1 20 HELIX 21 21 GLU B 243 ARG B 247 5 5 HELIX 22 22 LYS B 249 ALA B 267 1 19 HELIX 23 23 PRO B 276 ARG B 288 1 13 HELIX 24 24 ARG B 288 LEU B 293 1 6 HELIX 25 25 SER B 302 MET B 310 1 9 HELIX 26 26 ASP B 315 LEU B 323 1 9 HELIX 27 27 LYS B 324 ALA B 326 5 3 LINK O6 DG D 9 K K D 102 1555 1555 2.96 LINK O6 DG D 9 K K D 103 1555 1555 2.65 LINK O6 DG D 10 K K D 101 1555 1555 3.07 LINK O6 DG D 10 K K D 102 1555 1555 2.70 LINK O6 DG D 11 K K D 101 1555 1555 2.68 LINK K K D 103 O6 DG G 11 1555 1555 2.94 LINK O6 DG G 9 K K G 102 1555 1555 2.69 LINK O6 DG G 10 K K G 101 1555 1555 2.94 LINK O6 DG G 10 K K G 102 1555 1555 2.92 LINK O6 DG G 11 K K G 101 1555 1555 2.61 CISPEP 1 LYS A 165 PRO A 166 0 2.30 CISPEP 2 ILE B 273 ARG B 274 0 -9.63 CISPEP 3 GLY B 311 PRO B 312 0 -1.92 SITE 1 AC1 5 DG D 10 DG D 11 K D 102 DG E 10 SITE 2 AC1 5 DG E 11 SITE 1 AC2 6 DG D 9 DG D 10 K D 101 K D 103 SITE 2 AC2 6 DG E 9 DG E 10 SITE 1 AC3 6 DG D 9 K D 102 DG E 9 DG F 11 SITE 2 AC3 6 DG G 11 K G 101 SITE 1 AC4 6 K D 103 DG F 10 DG F 11 DG G 10 SITE 2 AC4 6 DG G 11 K G 102 SITE 1 AC5 5 DG F 9 DG F 10 DG G 9 DG G 10 SITE 2 AC5 5 K G 101 CRYST1 118.110 118.110 200.845 90.00 90.00 120.00 P 62 2 2 48 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 0.008467 0.004888 0.000000 0.00000 SCALE2 0.000000 0.009776 0.000000 0.00000 SCALE3 0.000000 0.000000 0.004979 0.00000