HEADER TRANSCRIPTION/DNA 12-JAN-17 5UI5 TITLE CRYSTAL STRUCTURE OF AQUIFEX AEOLICUS SIGMAN BOUND TO PROMOTER DNA COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA (31-MER); COMPND 3 CHAIN: A, N; COMPND 4 ENGINEERED: YES; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: DNA (30-MER); COMPND 7 CHAIN: B, O; COMPND 8 ENGINEERED: YES; COMPND 9 MOL_ID: 3; COMPND 10 MOLECULE: RNA POLYMERASE SIGMA FACTOR RPON; COMPND 11 CHAIN: I, V; COMPND 12 FRAGMENT: UNP RESIDUES 61-398; COMPND 13 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 ORGANISM_SCIENTIFIC: AQUIFEX AEOLICUS; SOURCE 4 ORGANISM_TAXID: 63363; SOURCE 5 MOL_ID: 2; SOURCE 6 SYNTHETIC: YES; SOURCE 7 ORGANISM_SCIENTIFIC: AQUIFEX AEOLICUS; SOURCE 8 ORGANISM_TAXID: 63363; SOURCE 9 MOL_ID: 3; SOURCE 10 ORGANISM_SCIENTIFIC: AQUIFEX AEOLICUS (STRAIN VF5); SOURCE 11 ORGANISM_TAXID: 224324; SOURCE 12 STRAIN: VF5; SOURCE 13 GENE: RPON, AQ_599; SOURCE 14 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 15 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 16 EXPRESSION_SYSTEM_STRAIN: BL21(DE3) KEYWDS HELIX-TURN-HELIX DNA BINDING MOTIF WINGED HELIX-TURN-HELIX DNA KEYWDS 2 BINDING MOTIF BACTERIAL RNA POLYMERASE SIGMAN BACTERIAL RNA KEYWDS 3 POLYMERASE SIGMA54, TRANSCRIPTION-DNA COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR S.A.DARST,E.A.CAMPBELL,K.RAJASHANKAR REVDAT 6 06-MAR-24 5UI5 1 REMARK REVDAT 5 01-JAN-20 5UI5 1 REMARK REVDAT 4 13-SEP-17 5UI5 1 REMARK REVDAT 3 22-MAR-17 5UI5 1 JRNL REVDAT 2 08-MAR-17 5UI5 1 JRNL REVDAT 1 22-FEB-17 5UI5 0 JRNL AUTH E.A.CAMPBELL,S.KAMATH,K.R.RAJASHANKAR,M.WU,S.A.DARST JRNL TITL CRYSTAL STRUCTURE OF AQUIFEX AEOLICUS SIGMA (N) BOUND TO JRNL TITL 2 PROMOTER DNA AND THE STRUCTURE OF SIGMA (N)-HOLOENZYME. JRNL REF PROC. NATL. ACAD. SCI. V. 114 E1805 2017 JRNL REF 2 U.S.A. JRNL REFN ESSN 1091-6490 JRNL PMID 28223493 JRNL DOI 10.1073/PNAS.1619464114 REMARK 2 REMARK 2 RESOLUTION. 3.40 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.10.1_2155 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 : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 3.40 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 14.99 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.960 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 18697 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.291 REMARK 3 R VALUE (WORKING SET) : 0.289 REMARK 3 FREE R VALUE : 0.336 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.080 REMARK 3 FREE R VALUE TEST SET COUNT : 950 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 14.9927 - 6.3592 1.00 2534 127 0.2082 0.2397 REMARK 3 2 6.3592 - 5.1132 1.00 2550 119 0.3173 0.3752 REMARK 3 3 5.1132 - 4.4867 1.00 2556 135 0.2993 0.3672 REMARK 3 4 4.4867 - 4.0855 1.00 2539 120 0.3174 0.3197 REMARK 3 5 4.0855 - 3.7978 1.00 2525 144 0.3771 0.4431 REMARK 3 6 3.7978 - 3.5771 1.00 2534 155 0.3645 0.4151 REMARK 3 7 3.5771 - 3.4001 1.00 2509 150 0.3937 0.4336 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL 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) : 0.710 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 41.720 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 : 0.004 8126 REMARK 3 ANGLE : 0.907 11446 REMARK 3 CHIRALITY : 0.090 1285 REMARK 3 PLANARITY : 0.003 1029 REMARK 3 DIHEDRAL : 24.915 4550 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 5UI5 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 20-JAN-17. REMARK 100 THE DEPOSITION ID IS D_1000225900. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 15-AUG-07; 08-DEC-08 REMARK 200 TEMPERATURE (KELVIN) : 100; 100 REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y; Y REMARK 200 RADIATION SOURCE : APS; NSLS REMARK 200 BEAMLINE : 24-ID-C; X3A REMARK 200 X-RAY GENERATOR MODEL : NULL; NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M; M REMARK 200 WAVELENGTH OR RANGE (A) : 0.987; 0.987 REMARK 200 MONOCHROMATOR : NULL; NULL REMARK 200 OPTICS : NULL; NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD; CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 4; MAR CCD 165 MM REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 18717 REMARK 200 RESOLUTION RANGE HIGH (A) : 3.400 REMARK 200 RESOLUTION RANGE LOW (A) : 15.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.0 REMARK 200 DATA REDUNDANCY : 13.10 REMARK 200 R MERGE (I) : 0.14000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 20.4200 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 3.40 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.52 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 7.50 REMARK 200 R MERGE FOR SHELL (I) : 0.90300 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH; SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MIR REMARK 200 SOFTWARE USED: AUTOSHARP REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 58.85 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.99 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 50 MM SODIUM CACODYLATE, PH 6.5, 0.2 M REMARK 280 KCL, 0.1 M MG-ACETATE, 14%-18% POLYETHYLENE GLYCOL 8000, VAPOR REMARK 280 DIFFUSION, HANGING DROP, TEMPERATURE 295K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 32 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 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 82.20000 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 41.10000 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 5680 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 28730 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -27.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, I 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 5470 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 29160 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -32.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: N, O, V 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 DG B 33 REMARK 465 GLY I 57 REMARK 465 PRO I 58 REMARK 465 HIS I 59 REMARK 465 MET I 60 REMARK 465 GLU I 61 REMARK 465 THR I 62 REMARK 465 VAL I 63 REMARK 465 PRO I 64 REMARK 465 TYR I 65 REMARK 465 GLN I 66 REMARK 465 ILE I 67 REMARK 465 PRO I 68 REMARK 465 TYR I 69 REMARK 465 THR I 70 REMARK 465 PRO I 71 REMARK 465 SER I 72 REMARK 465 LEU I 192 REMARK 465 SER I 193 REMARK 465 SER I 194 REMARK 465 LYS I 239 REMARK 465 SER I 240 REMARK 465 ARG I 241 REMARK 465 ASN I 353 REMARK 465 GLU I 354 REMARK 465 ASP I 355 REMARK 465 LYS I 356 REMARK 465 DG O 33 REMARK 465 GLY V 57 REMARK 465 PRO V 58 REMARK 465 HIS V 59 REMARK 465 MET V 60 REMARK 465 GLU V 61 REMARK 465 THR V 62 REMARK 465 VAL V 63 REMARK 465 PRO V 64 REMARK 465 TYR V 65 REMARK 465 GLN V 66 REMARK 465 ILE V 67 REMARK 465 PRO V 68 REMARK 465 TYR V 69 REMARK 465 THR V 70 REMARK 465 PRO V 71 REMARK 465 SER V 72 REMARK 465 SER V 193 REMARK 465 SER V 194 REMARK 465 ILE V 398 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 ASN I 242 CG OD1 ND2 REMARK 470 ARG I 357 CG CD NE CZ NH1 NH2 REMARK 470 LYS I 358 CG CD CE NZ REMARK 470 LYS I 375 CG CD CE NZ REMARK 470 ARG I 397 CG CD NE CZ NH1 NH2 REMARK 470 ILE I 398 CG1 CG2 CD1 REMARK 470 ARG V 241 CG CD NE CZ NH1 NH2 REMARK 470 ARG V 310 CG CD NE CZ NH1 NH2 REMARK 470 ASN V 353 CG OD1 ND2 REMARK 470 LYS V 358 CG CD CE NZ REMARK 470 LYS V 383 CG CD CE NZ REMARK 470 ILE V 390 CG1 CG2 CD1 REMARK 470 ARG V 396 CG CD NE CZ NH1 NH2 REMARK 470 ARG V 397 CG CD NE CZ NH1 NH2 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 OP2 DT O 53 OG1 THR V 380 1.93 REMARK 500 OP2 DT A 19 OG SER I 309 1.97 REMARK 500 OP1 DG B 52 OH TYR I 384 1.97 REMARK 500 OE2 GLU V 222 NH2 ARG V 264 1.98 REMARK 500 O TYR I 360 OG SER I 393 1.98 REMARK 500 OG1 THR V 319 O GLY V 322 2.00 REMARK 500 OP1 DG O 52 OH TYR V 384 2.09 REMARK 500 O6 DG B 54 NH1 ARG I 379 2.11 REMARK 500 NH1 ARG I 278 O PRO I 291 2.15 REMARK 500 OG SER I 114 O CYS I 119 2.16 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 O5' DG A 1 O3' DG A 31 1445 2.11 REMARK 500 O5' DG N 1 O3' DG N 31 1565 2.19 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 A 1 C3' - C2' - C1' ANGL. DEV. = -5.0 DEGREES REMARK 500 DG A 1 O4' - C1' - N9 ANGL. DEV. = 2.8 DEGREES REMARK 500 DA A 6 O4' - C1' - N9 ANGL. DEV. = 1.8 DEGREES REMARK 500 DT B 38 C3' - C2' - C1' ANGL. DEV. = -5.3 DEGREES REMARK 500 DT B 38 O4' - C1' - N1 ANGL. DEV. = 2.4 DEGREES REMARK 500 DT B 39 O3' - P - OP2 ANGL. DEV. = -23.1 DEGREES REMARK 500 DT B 39 O3' - P - OP1 ANGL. DEV. = -20.6 DEGREES REMARK 500 DT B 39 OP1 - P - OP2 ANGL. DEV. = 15.9 DEGREES REMARK 500 DT B 39 O4' - C1' - N1 ANGL. DEV. = 2.4 DEGREES REMARK 500 DT B 48 O4' - C1' - N1 ANGL. DEV. = 2.5 DEGREES REMARK 500 DT B 49 O3' - P - OP2 ANGL. DEV. = -27.0 DEGREES REMARK 500 DT B 49 O3' - P - OP1 ANGL. DEV. = -13.9 DEGREES REMARK 500 DT B 49 OP1 - P - OP2 ANGL. DEV. = 14.4 DEGREES REMARK 500 DT B 49 O5' - P - OP2 ANGL. DEV. = 8.7 DEGREES REMARK 500 DT B 49 O4' - C1' - N1 ANGL. DEV. = 1.9 DEGREES REMARK 500 DT O 38 O4' - C1' - N1 ANGL. DEV. = 2.5 DEGREES REMARK 500 DT O 39 O4' - C1' - N1 ANGL. DEV. = 2.5 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 TYR I 156 64.41 -114.48 REMARK 500 LYS I 174 174.65 172.87 REMARK 500 PHE I 190 143.73 -177.92 REMARK 500 GLU I 212 -165.10 -78.93 REMARK 500 LEU I 326 -18.09 76.82 REMARK 500 ALA I 335 -140.89 58.92 REMARK 500 SER I 361 -75.96 -89.27 REMARK 500 ASP I 362 -70.73 -133.71 REMARK 500 VAL V 139 -71.60 -56.95 REMARK 500 THR V 293 70.14 70.26 REMARK 500 ALA V 335 71.53 58.92 REMARK 500 GLU V 336 -121.95 62.89 REMARK 500 LYS V 356 -135.04 58.57 REMARK 500 ARG V 357 -115.03 50.70 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 LEU I 97 ASN I 98 146.55 REMARK 500 THR I 284 GLY I 285 -149.32 REMARK 500 LEU V 292 THR V 293 31.96 REMARK 500 REMARK 500 REMARK: NULL DBREF 5UI5 A 1 31 PDB 5UI5 5UI5 1 31 DBREF 5UI5 B 33 63 PDB 5UI5 5UI5 33 63 DBREF 5UI5 I 61 398 UNP O66858 O66858_AQUAE 61 398 DBREF 5UI5 N 1 31 PDB 5UI5 5UI5 1 31 DBREF 5UI5 O 33 63 PDB 5UI5 5UI5 33 63 DBREF 5UI5 V 61 398 UNP O66858 O66858_AQUAE 61 398 SEQADV 5UI5 GLY I 57 UNP O66858 EXPRESSION TAG SEQADV 5UI5 PRO I 58 UNP O66858 EXPRESSION TAG SEQADV 5UI5 HIS I 59 UNP O66858 EXPRESSION TAG SEQADV 5UI5 MET I 60 UNP O66858 EXPRESSION TAG SEQADV 5UI5 GLY V 57 UNP O66858 EXPRESSION TAG SEQADV 5UI5 PRO V 58 UNP O66858 EXPRESSION TAG SEQADV 5UI5 HIS V 59 UNP O66858 EXPRESSION TAG SEQADV 5UI5 MET V 60 UNP O66858 EXPRESSION TAG SEQRES 1 A 31 DG DC DG DA DA DA DT DT DG DG DC DA DC SEQRES 2 A 31 DG DA DA DA DA DT DT DG DC DA DA DT DA SEQRES 3 A 31 DA DA DT DA DG SEQRES 1 B 31 DG DC DT DA DT DT DT DA DT DT DG DC DA SEQRES 2 B 31 DA DT DT DT DT DC DG DT DG DC DC DA DA SEQRES 3 B 31 DT DT DT DC DG SEQRES 1 I 342 GLY PRO HIS MET GLU THR VAL PRO TYR GLN ILE PRO TYR SEQRES 2 I 342 THR PRO SER GLU LEU GLU GLU LEU GLN GLN ASN ILE LYS SEQRES 3 I 342 LEU GLU LEU GLU GLY LYS GLU GLN GLU LEU ALA LEU GLU SEQRES 4 I 342 LEU LEU ASN TYR LEU ASN GLU LYS GLY PHE LEU SER LYS SEQRES 5 I 342 SER VAL GLU GLU ILE SER ASP VAL LEU ARG CYS SER VAL SEQRES 6 I 342 GLU GLU LEU GLU LYS VAL ARG GLN LYS VAL LEU ARG LEU SEQRES 7 I 342 GLU PRO LEU GLY VAL CYS SER LYS ASP VAL TRP GLU PHE SEQRES 8 I 342 LEU GLU LEU GLN ILE GLU GLU ILE TYR PRO GLU GLU GLU SEQRES 9 I 342 GLU ILE LEU LYS LYS ALA LEU ARG ASP LEU LYS ARG GLY SEQRES 10 I 342 LYS LYS LEU LYS PRO GLU ILE LYS GLY LYS LEU SER ARG SEQRES 11 I 342 LEU ARG LEU PHE PRO LEU SER SER SER ALA GLU LYS VAL SEQRES 12 I 342 TYR THR PHE ALA LYS VAL ASP ALA ILE ILE GLU GLU GLU SEQRES 13 I 342 ASN GLY GLU PHE PHE ILE TYR LEU TYR GLU ASP PHE ILE SEQRES 14 I 342 ASP ILE ASP LEU ASN GLU GLU TYR TRP GLU LEU TYR LYS SEQRES 15 I 342 LYS SER ARG ASN LEU GLN LYS GLU LEU LYS GLU ALA PHE SEQRES 16 I 342 GLU ARG TYR GLU SER ILE ARG LYS VAL LEU ASP ILE ARG SEQRES 17 I 342 ARG ARG ASN LEU ARG LYS VAL LEU GLU LYS ILE VAL GLU SEQRES 18 I 342 ARG GLN LYS ASP PHE LEU THR GLY LYS GLY SER LEU LYS SEQRES 19 I 342 PRO LEU THR LEU ARG GLU VAL SER SER GLU ILE GLY ILE SEQRES 20 I 342 HIS GLU SER THR LEU SER ARG ILE VAL ASN SER LYS TYR SEQRES 21 I 342 VAL LYS THR PRO VAL GLY THR TYR SER LEU ARG THR PHE SEQRES 22 I 342 PHE VAL ARG GLU SER ALA GLU GLY LEU THR GLN GLY GLU SEQRES 23 I 342 LEU MET LYS LEU ILE LYS GLU ILE VAL GLU ASN GLU ASP SEQRES 24 I 342 LYS ARG LYS PRO TYR SER ASP GLN GLU ILE ALA ASN ILE SEQRES 25 I 342 LEU LYS GLU LYS GLY PHE LYS VAL ALA ARG ARG THR VAL SEQRES 26 I 342 ALA LYS TYR ARG GLU MET LEU GLY ILE PRO SER SER ARG SEQRES 27 I 342 GLU ARG ARG ILE SEQRES 1 N 31 DG DC DG DA DA DA DT DT DG DG DC DA DC SEQRES 2 N 31 DG DA DA DA DA DT DT DG DC DA DA DT DA SEQRES 3 N 31 DA DA DT DA DG SEQRES 1 O 31 DG DC DT DA DT DT DT DA DT DT DG DC DA SEQRES 2 O 31 DA DT DT DT DT DC DG DT DG DC DC DA DA SEQRES 3 O 31 DT DT DT DC DG SEQRES 1 V 342 GLY PRO HIS MET GLU THR VAL PRO TYR GLN ILE PRO TYR SEQRES 2 V 342 THR PRO SER GLU LEU GLU GLU LEU GLN GLN ASN ILE LYS SEQRES 3 V 342 LEU GLU LEU GLU GLY LYS GLU GLN GLU LEU ALA LEU GLU SEQRES 4 V 342 LEU LEU ASN TYR LEU ASN GLU LYS GLY PHE LEU SER LYS SEQRES 5 V 342 SER VAL GLU GLU ILE SER ASP VAL LEU ARG CYS SER VAL SEQRES 6 V 342 GLU GLU LEU GLU LYS VAL ARG GLN LYS VAL LEU ARG LEU SEQRES 7 V 342 GLU PRO LEU GLY VAL CYS SER LYS ASP VAL TRP GLU PHE SEQRES 8 V 342 LEU GLU LEU GLN ILE GLU GLU ILE TYR PRO GLU GLU GLU SEQRES 9 V 342 GLU ILE LEU LYS LYS ALA LEU ARG ASP LEU LYS ARG GLY SEQRES 10 V 342 LYS LYS LEU LYS PRO GLU ILE LYS GLY LYS LEU SER ARG SEQRES 11 V 342 LEU ARG LEU PHE PRO LEU SER SER SER ALA GLU LYS VAL SEQRES 12 V 342 TYR THR PHE ALA LYS VAL ASP ALA ILE ILE GLU GLU GLU SEQRES 13 V 342 ASN GLY GLU PHE PHE ILE TYR LEU TYR GLU ASP PHE ILE SEQRES 14 V 342 ASP ILE ASP LEU ASN GLU GLU TYR TRP GLU LEU TYR LYS SEQRES 15 V 342 LYS SER ARG ASN LEU GLN LYS GLU LEU LYS GLU ALA PHE SEQRES 16 V 342 GLU ARG TYR GLU SER ILE ARG LYS VAL LEU ASP ILE ARG SEQRES 17 V 342 ARG ARG ASN LEU ARG LYS VAL LEU GLU LYS ILE VAL GLU SEQRES 18 V 342 ARG GLN LYS ASP PHE LEU THR GLY LYS GLY SER LEU LYS SEQRES 19 V 342 PRO LEU THR LEU ARG GLU VAL SER SER GLU ILE GLY ILE SEQRES 20 V 342 HIS GLU SER THR LEU SER ARG ILE VAL ASN SER LYS TYR SEQRES 21 V 342 VAL LYS THR PRO VAL GLY THR TYR SER LEU ARG THR PHE SEQRES 22 V 342 PHE VAL ARG GLU SER ALA GLU GLY LEU THR GLN GLY GLU SEQRES 23 V 342 LEU MET LYS LEU ILE LYS GLU ILE VAL GLU ASN GLU ASP SEQRES 24 V 342 LYS ARG LYS PRO TYR SER ASP GLN GLU ILE ALA ASN ILE SEQRES 25 V 342 LEU LYS GLU LYS GLY PHE LYS VAL ALA ARG ARG THR VAL SEQRES 26 V 342 ALA LYS TYR ARG GLU MET LEU GLY ILE PRO SER SER ARG SEQRES 27 V 342 GLU ARG ARG ILE FORMUL 7 HOH *32(H2 O) HELIX 1 AA1 GLU I 73 LEU I 85 1 13 HELIX 2 AA2 GLY I 87 LEU I 97 1 11 HELIX 3 AA3 SER I 109 ARG I 118 1 10 HELIX 4 AA4 SER I 120 LEU I 132 1 13 HELIX 5 AA5 ASP I 143 ILE I 155 1 13 HELIX 6 AA6 GLU I 159 ARG I 172 1 14 HELIX 7 AA7 LYS I 177 LEU I 184 1 8 HELIX 8 AA8 SER I 185 LEU I 187 5 3 HELIX 9 AA9 GLU I 222 ILE I 225 5 4 HELIX 10 AB1 ASN I 230 LEU I 236 1 7 HELIX 11 AB2 LEU I 243 GLY I 285 1 43 HELIX 12 AB3 THR I 293 SER I 299 1 7 HELIX 13 AB4 HIS I 304 LYS I 315 1 12 HELIX 14 AB5 THR I 339 GLU I 352 1 14 HELIX 15 AB6 ASP I 362 LYS I 372 1 11 HELIX 16 AB7 ALA I 377 LEU I 388 1 12 HELIX 17 AB8 LEU V 74 LEU V 85 1 12 HELIX 18 AB9 GLY V 87 LEU V 97 1 11 HELIX 19 AC1 SER V 109 ARG V 118 1 10 HELIX 20 AC2 SER V 120 LEU V 132 1 13 HELIX 21 AC3 ASP V 143 ILE V 155 1 13 HELIX 22 AC4 GLU V 159 GLY V 173 1 15 HELIX 23 AC5 LYS V 177 LEU V 184 1 8 HELIX 24 AC6 SER V 185 LEU V 187 5 3 HELIX 25 AC7 GLU V 222 ILE V 225 5 4 HELIX 26 AC8 ASN V 230 LEU V 236 1 7 HELIX 27 AC9 TYR V 237 LYS V 239 5 3 HELIX 28 AD1 SER V 240 ARG V 241 5 2 HELIX 29 AD2 ASN V 242 GLY V 285 1 44 HELIX 30 AD3 THR V 293 SER V 299 1 7 HELIX 31 AD4 HIS V 304 LYS V 315 1 12 HELIX 32 AD5 ARG V 327 PHE V 330 5 4 HELIX 33 AD6 THR V 339 GLU V 354 1 16 HELIX 34 AD7 SER V 361 GLY V 373 1 13 HELIX 35 AD8 ALA V 377 LEU V 388 1 12 SHEET 1 AA1 2 ALA I 207 GLU I 210 0 SHEET 2 AA1 2 PHE I 217 LEU I 220 -1 O PHE I 217 N GLU I 210 SHEET 1 AA2 2 VAL I 317 LYS I 318 0 SHEET 2 AA2 2 THR I 323 TYR I 324 -1 O TYR I 324 N VAL I 317 SHEET 1 AA3 2 ALA V 207 GLU V 210 0 SHEET 2 AA3 2 PHE V 217 LEU V 220 -1 O PHE V 217 N GLU V 210 SHEET 1 AA4 2 TYR V 316 LYS V 318 0 SHEET 2 AA4 2 THR V 323 SER V 325 -1 O TYR V 324 N VAL V 317 CISPEP 1 GLU I 135 PRO I 136 0 -1.49 CISPEP 2 GLU I 215 PHE I 216 0 -25.64 CISPEP 3 GLY I 337 LEU I 338 0 -1.59 CISPEP 4 GLU V 135 PRO V 136 0 -1.28 CISPEP 5 GLU V 210 GLU V 211 0 -8.16 CISPEP 6 GLU V 212 ASN V 213 0 12.38 CISPEP 7 GLY V 214 GLU V 215 0 -17.73 CISPEP 8 ILE V 390 PRO V 391 0 -20.88 CRYST1 99.921 99.921 123.300 90.00 90.00 120.00 P 32 6 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 0.010008 0.005778 0.000000 0.00000 SCALE2 0.000000 0.011556 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008110 0.00000