HEADER OXIDOREDUCTASE/OXIDOREDUCTASE INHIBITOR 12-DEC-21 7T5K TITLE E. COLI DIHYDROOROTATE DEHYDROGENASE BOUND TO THE INHIBITOR HQNO COMPND MOL_ID: 1; COMPND 2 MOLECULE: DIHYDROOROTATE DEHYDROGENASE (QUINONE); COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: DHODEHASE,DHOD,DHODASE,DIHYDROOROTATE OXIDASE; COMPND 5 EC: 1.3.5.2; COMPND 6 ENGINEERED: YES; COMPND 7 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI K-12; SOURCE 3 ORGANISM_TAXID: 83333; SOURCE 4 STRAIN: K12; SOURCE 5 GENE: PYRD, B0945, JW0928; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI B; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 37762; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET28A(+) KEYWDS INHIBITOR, OXIDOREDUCTASE-OXIDOREDUCTASE INHIBITOR COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR S.M.HORWITZ,J.A.AMBARIAN,K.M.DAVIS REVDAT 3 18-OCT-23 7T5K 1 REMARK REVDAT 2 29-JUN-22 7T5K 1 JRNL REVDAT 1 02-MAR-22 7T5K 0 JRNL AUTH S.M.HORWITZ,T.C.BLUE,J.A.AMBARIAN,S.HOSHINO, JRNL AUTH 2 M.R.SEYEDSAYAMDOST,K.M.DAVIS JRNL TITL STRUCTURAL INSIGHTS INTO INHIBITION OF THE DRUG TARGET JRNL TITL 2 DIHYDROOROTATE DEHYDROGENASE BY BACTERIAL JRNL TITL 3 HYDROXYALKYLQUINOLINES. JRNL REF RSC CHEM BIOL V. 3 420 2022 JRNL REFN ESSN 2633-0679 JRNL PMID 35441142 JRNL DOI 10.1039/D1CB00255D REMARK 2 REMARK 2 RESOLUTION. 2.25 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.19.2_4158 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) : 2.25 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 48.30 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 3 NUMBER OF REFLECTIONS : 54501 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.218 REMARK 3 R VALUE (WORKING SET) : 0.217 REMARK 3 FREE R VALUE : 0.232 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 3.670 REMARK 3 FREE R VALUE TEST SET COUNT : 2001 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 48.3000 - 5.4200 0.99 3933 149 0.1724 0.1485 REMARK 3 2 5.4200 - 4.3000 1.00 3816 154 0.1579 0.1675 REMARK 3 3 4.3000 - 3.7600 0.99 3767 138 0.1783 0.2083 REMARK 3 4 3.7600 - 3.4200 1.00 3742 151 0.2142 0.2123 REMARK 3 5 3.4200 - 3.1700 1.00 3757 130 0.2446 0.2973 REMARK 3 6 3.1700 - 2.9800 1.00 3758 144 0.2718 0.3273 REMARK 3 7 2.9800 - 2.8300 1.00 3724 138 0.2703 0.2665 REMARK 3 8 2.8300 - 2.7100 1.00 3730 149 0.2706 0.3311 REMARK 3 9 2.7100 - 2.6100 1.00 3708 132 0.2780 0.3126 REMARK 3 10 2.6100 - 2.5200 1.00 3743 141 0.2940 0.3632 REMARK 3 11 2.5200 - 2.4400 1.00 3716 135 0.3159 0.3608 REMARK 3 12 2.4400 - 2.3700 1.00 3678 161 0.3212 0.3151 REMARK 3 13 2.3700 - 2.3100 1.00 3747 128 0.3406 0.3850 REMARK 3 14 2.3100 - 2.2500 0.98 3655 151 0.3739 0.3937 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) : 0.359 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 29.251 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 54.04 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 60.10 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 : 0.011 5282 REMARK 3 ANGLE : 1.313 7166 REMARK 3 CHIRALITY : 0.082 811 REMARK 3 PLANARITY : 0.008 931 REMARK 3 DIHEDRAL : 17.308 1967 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 7T5K COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 13-DEC-21. REMARK 100 THE DEPOSITION ID IS D_1000261020. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 17-APR-21 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.1 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 23-ID-B REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.033184 REMARK 200 MONOCHROMATOR : DOUBLE CRYSTAL 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 : XDS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 54501 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.250 REMARK 200 RESOLUTION RANGE LOW (A) : 48.300 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 200 DATA REDUNDANCY : 7.400 REMARK 200 R MERGE (I) : 0.11640 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 9.3400 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.25 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.33 REMARK 200 COMPLETENESS FOR SHELL (%) : 98.8 REMARK 200 DATA REDUNDANCY IN SHELL : 7.40 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.090 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: 1F76 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 68.48 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.90 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: SODIUM MALONATE, PEG 3350, PH 7.1, REMARK 280 VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 2 2 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -X,Y,-Z+1/2 REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z REMARK 290 6555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 7555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 8555 X+1/2,-Y+1/2,-Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 64.98500 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 64.98500 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 1.000000 0.000000 0.000000 52.02300 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 84.66400 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 52.02300 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 84.66400 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 64.98500 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 52.02300 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 84.66400 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 64.98500 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 52.02300 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 84.66400 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 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 HIS A -31 REMARK 465 HIS A -30 REMARK 465 HIS A -29 REMARK 465 HIS A -28 REMARK 465 HIS A -27 REMARK 465 HIS A -26 REMARK 465 SER A -25 REMARK 465 SER A -24 REMARK 465 GLY A -23 REMARK 465 LEU A -22 REMARK 465 VAL A -21 REMARK 465 PRO A -20 REMARK 465 ARG A -19 REMARK 465 GLY A -18 REMARK 465 SER A -17 REMARK 465 HIS A -16 REMARK 465 MET A -15 REMARK 465 ALA A -14 REMARK 465 SER A -13 REMARK 465 MET A -12 REMARK 465 THR A -11 REMARK 465 GLY A -10 REMARK 465 GLY A -9 REMARK 465 GLN A -8 REMARK 465 GLN A -7 REMARK 465 MET A -6 REMARK 465 GLY A -5 REMARK 465 ARG A -4 REMARK 465 GLY A -3 REMARK 465 SER A -2 REMARK 465 GLU A -1 REMARK 465 PHE A 0 REMARK 465 MET A 1 REMARK 465 HIS B -31 REMARK 465 HIS B -30 REMARK 465 HIS B -29 REMARK 465 HIS B -28 REMARK 465 HIS B -27 REMARK 465 HIS B -26 REMARK 465 SER B -25 REMARK 465 SER B -24 REMARK 465 GLY B -23 REMARK 465 LEU B -22 REMARK 465 VAL B -21 REMARK 465 PRO B -20 REMARK 465 ARG B -19 REMARK 465 GLY B -18 REMARK 465 SER B -17 REMARK 465 HIS B -16 REMARK 465 MET B -15 REMARK 465 ALA B -14 REMARK 465 SER B -13 REMARK 465 MET B -12 REMARK 465 THR B -11 REMARK 465 GLY B -10 REMARK 465 GLY B -9 REMARK 465 GLN B -8 REMARK 465 GLN B -7 REMARK 465 MET B -6 REMARK 465 GLY B -5 REMARK 465 ARG B -4 REMARK 465 GLY B -3 REMARK 465 SER B -2 REMARK 465 GLU B -1 REMARK 465 PHE B 0 REMARK 465 MET B 1 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 TYR A 2 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 ARG A 28 CG CD NE CZ NH1 NH2 REMARK 470 ILE A 29 CG1 CG2 CD1 REMARK 470 PHE A 34 CG CD1 CD2 CE1 CE2 CZ REMARK 470 LEU A 37 CG CD1 CD2 REMARK 470 VAL A 38 CG1 CG2 REMARK 470 LYS A 41 CG CD CE NZ REMARK 470 ARG A 90 NE CZ NH1 NH2 REMARK 470 GLU A 224 OE1 OE2 REMARK 470 GLU A 225 CG CD OE1 OE2 REMARK 470 SER A 252 OG REMARK 470 TYR B 2 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 TYR B 3 CD1 REMARK 470 PHE B 5 CG CD1 CD2 CE1 CE2 CZ REMARK 470 VAL B 6 CG1 CG2 REMARK 470 GLU B 20 CD OE1 OE2 REMARK 470 PHE B 21 CG CD1 CD2 CE1 CE2 CZ REMARK 470 LYS B 41 CG CD CE NZ REMARK 470 ALA B 62 O REMARK 470 VAL B 87 CG1 CG2 REMARK 470 VAL B 148 CG1 CG2 REMARK 470 GLU B 149 CG CD OE1 OE2 REMARK 470 LYS B 152 CG CD CE NZ REMARK 470 ILE B 157 CD1 REMARK 470 LYS B 161 CE NZ REMARK 470 GLU B 188 CG CD OE1 OE2 REMARK 470 ASP B 192 CG OD1 OD2 REMARK 470 ILE B 293 CD1 REMARK 470 VAL B 295 CG1 CG2 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 ND2 ASN A 172 O4 ORO A 403 2.19 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 ASN A 246 -152.91 -81.89 REMARK 500 PRO A 270 -6.84 -59.20 REMARK 500 TYR A 318 -69.07 -137.67 REMARK 500 ASP B 65 74.19 -115.84 REMARK 500 ARG B 99 14.54 -142.30 REMARK 500 GLU B 107 54.28 35.68 REMARK 500 ASN B 246 -154.61 -81.18 REMARK 500 ARG B 251 16.46 -141.14 REMARK 500 TYR B 318 -65.59 -145.15 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 ALA A 244 THR A 245 40.14 REMARK 500 ALA B 244 THR B 245 43.71 REMARK 500 REMARK 500 REMARK: NULL REMARK 610 REMARK 610 MISSING HETEROATOM REMARK 610 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 610 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 610 I=INSERTION CODE): REMARK 610 M RES C SSEQI REMARK 610 FMN B 502 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 7T5Y RELATED DB: PDB REMARK 900 7T5Y CONTAINS THE SAME PROTEIN COMPLEXED WITH THE INHIBITOR HMNQ REMARK 900 RELATED ID: 7T6C RELATED DB: PDB REMARK 900 7T6C CONTAINS THE SAME PROTEIN COMPLEXED WITH THE UBIQUINONE REMARK 900 SURROGATE DCIP REMARK 900 RELATED ID: 7T6H RELATED DB: PDB REMARK 900 7T6H CONTAINS THE HOLO PROTEIN COMPLEXED WITH ITS PRODUCT ORO DBREF 7T5K A 1 336 UNP P0A7E1 PYRD_ECOLI 1 336 DBREF 7T5K B 1 336 UNP P0A7E1 PYRD_ECOLI 1 336 SEQADV 7T5K HIS A -31 UNP P0A7E1 EXPRESSION TAG SEQADV 7T5K HIS A -30 UNP P0A7E1 EXPRESSION TAG SEQADV 7T5K HIS A -29 UNP P0A7E1 EXPRESSION TAG SEQADV 7T5K HIS A -28 UNP P0A7E1 EXPRESSION TAG SEQADV 7T5K HIS A -27 UNP P0A7E1 EXPRESSION TAG SEQADV 7T5K HIS A -26 UNP P0A7E1 EXPRESSION TAG SEQADV 7T5K SER A -25 UNP P0A7E1 EXPRESSION TAG SEQADV 7T5K SER A -24 UNP P0A7E1 EXPRESSION TAG SEQADV 7T5K GLY A -23 UNP P0A7E1 EXPRESSION TAG SEQADV 7T5K LEU A -22 UNP P0A7E1 EXPRESSION TAG SEQADV 7T5K VAL A -21 UNP P0A7E1 EXPRESSION TAG SEQADV 7T5K PRO A -20 UNP P0A7E1 EXPRESSION TAG SEQADV 7T5K ARG A -19 UNP P0A7E1 EXPRESSION TAG SEQADV 7T5K GLY A -18 UNP P0A7E1 EXPRESSION TAG SEQADV 7T5K SER A -17 UNP P0A7E1 EXPRESSION TAG SEQADV 7T5K HIS A -16 UNP P0A7E1 EXPRESSION TAG SEQADV 7T5K MET A -15 UNP P0A7E1 EXPRESSION TAG SEQADV 7T5K ALA A -14 UNP P0A7E1 EXPRESSION TAG SEQADV 7T5K SER A -13 UNP P0A7E1 EXPRESSION TAG SEQADV 7T5K MET A -12 UNP P0A7E1 EXPRESSION TAG SEQADV 7T5K THR A -11 UNP P0A7E1 EXPRESSION TAG SEQADV 7T5K GLY A -10 UNP P0A7E1 EXPRESSION TAG SEQADV 7T5K GLY A -9 UNP P0A7E1 EXPRESSION TAG SEQADV 7T5K GLN A -8 UNP P0A7E1 EXPRESSION TAG SEQADV 7T5K GLN A -7 UNP P0A7E1 EXPRESSION TAG SEQADV 7T5K MET A -6 UNP P0A7E1 EXPRESSION TAG SEQADV 7T5K GLY A -5 UNP P0A7E1 EXPRESSION TAG SEQADV 7T5K ARG A -4 UNP P0A7E1 EXPRESSION TAG SEQADV 7T5K GLY A -3 UNP P0A7E1 EXPRESSION TAG SEQADV 7T5K SER A -2 UNP P0A7E1 EXPRESSION TAG SEQADV 7T5K GLU A -1 UNP P0A7E1 EXPRESSION TAG SEQADV 7T5K PHE A 0 UNP P0A7E1 EXPRESSION TAG SEQADV 7T5K HIS B -31 UNP P0A7E1 EXPRESSION TAG SEQADV 7T5K HIS B -30 UNP P0A7E1 EXPRESSION TAG SEQADV 7T5K HIS B -29 UNP P0A7E1 EXPRESSION TAG SEQADV 7T5K HIS B -28 UNP P0A7E1 EXPRESSION TAG SEQADV 7T5K HIS B -27 UNP P0A7E1 EXPRESSION TAG SEQADV 7T5K HIS B -26 UNP P0A7E1 EXPRESSION TAG SEQADV 7T5K SER B -25 UNP P0A7E1 EXPRESSION TAG SEQADV 7T5K SER B -24 UNP P0A7E1 EXPRESSION TAG SEQADV 7T5K GLY B -23 UNP P0A7E1 EXPRESSION TAG SEQADV 7T5K LEU B -22 UNP P0A7E1 EXPRESSION TAG SEQADV 7T5K VAL B -21 UNP P0A7E1 EXPRESSION TAG SEQADV 7T5K PRO B -20 UNP P0A7E1 EXPRESSION TAG SEQADV 7T5K ARG B -19 UNP P0A7E1 EXPRESSION TAG SEQADV 7T5K GLY B -18 UNP P0A7E1 EXPRESSION TAG SEQADV 7T5K SER B -17 UNP P0A7E1 EXPRESSION TAG SEQADV 7T5K HIS B -16 UNP P0A7E1 EXPRESSION TAG SEQADV 7T5K MET B -15 UNP P0A7E1 EXPRESSION TAG SEQADV 7T5K ALA B -14 UNP P0A7E1 EXPRESSION TAG SEQADV 7T5K SER B -13 UNP P0A7E1 EXPRESSION TAG SEQADV 7T5K MET B -12 UNP P0A7E1 EXPRESSION TAG SEQADV 7T5K THR B -11 UNP P0A7E1 EXPRESSION TAG SEQADV 7T5K GLY B -10 UNP P0A7E1 EXPRESSION TAG SEQADV 7T5K GLY B -9 UNP P0A7E1 EXPRESSION TAG SEQADV 7T5K GLN B -8 UNP P0A7E1 EXPRESSION TAG SEQADV 7T5K GLN B -7 UNP P0A7E1 EXPRESSION TAG SEQADV 7T5K MET B -6 UNP P0A7E1 EXPRESSION TAG SEQADV 7T5K GLY B -5 UNP P0A7E1 EXPRESSION TAG SEQADV 7T5K ARG B -4 UNP P0A7E1 EXPRESSION TAG SEQADV 7T5K GLY B -3 UNP P0A7E1 EXPRESSION TAG SEQADV 7T5K SER B -2 UNP P0A7E1 EXPRESSION TAG SEQADV 7T5K GLU B -1 UNP P0A7E1 EXPRESSION TAG SEQADV 7T5K PHE B 0 UNP P0A7E1 EXPRESSION TAG SEQRES 1 A 368 HIS HIS HIS HIS HIS HIS SER SER GLY LEU VAL PRO ARG SEQRES 2 A 368 GLY SER HIS MET ALA SER MET THR GLY GLY GLN GLN MET SEQRES 3 A 368 GLY ARG GLY SER GLU PHE MET TYR TYR PRO PHE VAL ARG SEQRES 4 A 368 LYS ALA LEU PHE GLN LEU ASP PRO GLU ARG ALA HIS GLU SEQRES 5 A 368 PHE THR PHE GLN GLN LEU ARG ARG ILE THR GLY THR PRO SEQRES 6 A 368 PHE GLU ALA LEU VAL ARG GLN LYS VAL PRO ALA LYS PRO SEQRES 7 A 368 VAL ASN CYS MET GLY LEU THR PHE LYS ASN PRO LEU GLY SEQRES 8 A 368 LEU ALA ALA GLY LEU ASP LYS ASP GLY GLU CYS ILE ASP SEQRES 9 A 368 ALA LEU GLY ALA MET GLY PHE GLY SER ILE GLU ILE GLY SEQRES 10 A 368 THR VAL THR PRO ARG PRO GLN PRO GLY ASN ASP LYS PRO SEQRES 11 A 368 ARG LEU PHE ARG LEU VAL ASP ALA GLU GLY LEU ILE ASN SEQRES 12 A 368 ARG MET GLY PHE ASN ASN LEU GLY VAL ASP ASN LEU VAL SEQRES 13 A 368 GLU ASN VAL LYS LYS ALA HIS TYR ASP GLY VAL LEU GLY SEQRES 14 A 368 ILE ASN ILE GLY LYS ASN LYS ASP THR PRO VAL GLU GLN SEQRES 15 A 368 GLY LYS ASP ASP TYR LEU ILE CYS MET GLU LYS ILE TYR SEQRES 16 A 368 ALA TYR ALA GLY TYR ILE ALA ILE ASN ILE SER SER PRO SEQRES 17 A 368 ASN THR PRO GLY LEU ARG THR LEU GLN TYR GLY GLU ALA SEQRES 18 A 368 LEU ASP ASP LEU LEU THR ALA ILE LYS ASN LYS GLN ASN SEQRES 19 A 368 ASP LEU GLN ALA MET HIS HIS LYS TYR VAL PRO ILE ALA SEQRES 20 A 368 VAL LYS ILE ALA PRO ASP LEU SER GLU GLU GLU LEU ILE SEQRES 21 A 368 GLN VAL ALA ASP SER LEU VAL ARG HIS ASN ILE ASP GLY SEQRES 22 A 368 VAL ILE ALA THR ASN THR THR LEU ASP ARG SER LEU VAL SEQRES 23 A 368 GLN GLY MET LYS ASN CYS ASP GLN THR GLY GLY LEU SER SEQRES 24 A 368 GLY ARG PRO LEU GLN LEU LYS SER THR GLU ILE ILE ARG SEQRES 25 A 368 ARG LEU SER LEU GLU LEU ASN GLY ARG LEU PRO ILE ILE SEQRES 26 A 368 GLY VAL GLY GLY ILE ASP SER VAL ILE ALA ALA ARG GLU SEQRES 27 A 368 LYS ILE ALA ALA GLY ALA SER LEU VAL GLN ILE TYR SER SEQRES 28 A 368 GLY PHE ILE PHE LYS GLY PRO PRO LEU ILE LYS GLU ILE SEQRES 29 A 368 VAL THR HIS ILE SEQRES 1 B 368 HIS HIS HIS HIS HIS HIS SER SER GLY LEU VAL PRO ARG SEQRES 2 B 368 GLY SER HIS MET ALA SER MET THR GLY GLY GLN GLN MET SEQRES 3 B 368 GLY ARG GLY SER GLU PHE MET TYR TYR PRO PHE VAL ARG SEQRES 4 B 368 LYS ALA LEU PHE GLN LEU ASP PRO GLU ARG ALA HIS GLU SEQRES 5 B 368 PHE THR PHE GLN GLN LEU ARG ARG ILE THR GLY THR PRO SEQRES 6 B 368 PHE GLU ALA LEU VAL ARG GLN LYS VAL PRO ALA LYS PRO SEQRES 7 B 368 VAL ASN CYS MET GLY LEU THR PHE LYS ASN PRO LEU GLY SEQRES 8 B 368 LEU ALA ALA GLY LEU ASP LYS ASP GLY GLU CYS ILE ASP SEQRES 9 B 368 ALA LEU GLY ALA MET GLY PHE GLY SER ILE GLU ILE GLY SEQRES 10 B 368 THR VAL THR PRO ARG PRO GLN PRO GLY ASN ASP LYS PRO SEQRES 11 B 368 ARG LEU PHE ARG LEU VAL ASP ALA GLU GLY LEU ILE ASN SEQRES 12 B 368 ARG MET GLY PHE ASN ASN LEU GLY VAL ASP ASN LEU VAL SEQRES 13 B 368 GLU ASN VAL LYS LYS ALA HIS TYR ASP GLY VAL LEU GLY SEQRES 14 B 368 ILE ASN ILE GLY LYS ASN LYS ASP THR PRO VAL GLU GLN SEQRES 15 B 368 GLY LYS ASP ASP TYR LEU ILE CYS MET GLU LYS ILE TYR SEQRES 16 B 368 ALA TYR ALA GLY TYR ILE ALA ILE ASN ILE SER SER PRO SEQRES 17 B 368 ASN THR PRO GLY LEU ARG THR LEU GLN TYR GLY GLU ALA SEQRES 18 B 368 LEU ASP ASP LEU LEU THR ALA ILE LYS ASN LYS GLN ASN SEQRES 19 B 368 ASP LEU GLN ALA MET HIS HIS LYS TYR VAL PRO ILE ALA SEQRES 20 B 368 VAL LYS ILE ALA PRO ASP LEU SER GLU GLU GLU LEU ILE SEQRES 21 B 368 GLN VAL ALA ASP SER LEU VAL ARG HIS ASN ILE ASP GLY SEQRES 22 B 368 VAL ILE ALA THR ASN THR THR LEU ASP ARG SER LEU VAL SEQRES 23 B 368 GLN GLY MET LYS ASN CYS ASP GLN THR GLY GLY LEU SER SEQRES 24 B 368 GLY ARG PRO LEU GLN LEU LYS SER THR GLU ILE ILE ARG SEQRES 25 B 368 ARG LEU SER LEU GLU LEU ASN GLY ARG LEU PRO ILE ILE SEQRES 26 B 368 GLY VAL GLY GLY ILE ASP SER VAL ILE ALA ALA ARG GLU SEQRES 27 B 368 LYS ILE ALA ALA GLY ALA SER LEU VAL GLN ILE TYR SER SEQRES 28 B 368 GLY PHE ILE PHE LYS GLY PRO PRO LEU ILE LYS GLU ILE SEQRES 29 B 368 VAL THR HIS ILE HET FMN A 401 31 HET HQO A 402 19 HET ORO A 403 11 HET HQO B 501 19 HET FMN B 502 30 HET ORO B 503 11 HETNAM FMN FLAVIN MONONUCLEOTIDE HETNAM HQO 2-HEPTYL-4-HYDROXY QUINOLINE N-OXIDE HETNAM ORO OROTIC ACID HETSYN FMN RIBOFLAVIN MONOPHOSPHATE HETSYN HQO 2-HEPTYL-1-OXY-QUINOLIN-4-OL FORMUL 3 FMN 2(C17 H21 N4 O9 P) FORMUL 4 HQO 2(C16 H21 N O2) FORMUL 5 ORO 2(C5 H4 N2 O4) FORMUL 9 HOH *133(H2 O) HELIX 1 AA1 TYR A 2 PHE A 11 1 10 HELIX 2 AA2 ASP A 14 THR A 30 1 17 HELIX 3 AA3 THR A 32 VAL A 38 5 7 HELIX 4 AA4 CYS A 70 ALA A 76 1 7 HELIX 5 AA5 GLY A 119 LYS A 129 1 11 HELIX 6 AA6 PRO A 147 GLU A 149 5 3 HELIX 7 AA7 GLN A 150 TYR A 163 1 14 HELIX 8 AA8 GLY A 180 GLN A 185 5 6 HELIX 9 AA9 TYR A 186 HIS A 209 1 24 HELIX 10 AB1 SER A 223 HIS A 237 1 15 HELIX 11 AB2 LEU A 271 ASN A 287 1 17 HELIX 12 AB3 SER A 300 GLY A 311 1 12 HELIX 13 AB4 TYR A 318 GLY A 325 1 8 HELIX 14 AB5 GLY A 325 ILE A 336 1 12 HELIX 15 AB6 TYR B 3 PHE B 11 1 9 HELIX 16 AB7 ASP B 14 ARG B 28 1 15 HELIX 17 AB8 THR B 32 VAL B 38 5 7 HELIX 18 AB9 CYS B 70 MET B 77 1 8 HELIX 19 AC1 GLY B 119 LYS B 129 1 11 HELIX 20 AC2 PRO B 147 GLU B 149 5 3 HELIX 21 AC3 GLN B 150 TYR B 163 1 14 HELIX 22 AC4 ALA B 164 ALA B 166 5 3 HELIX 23 AC5 GLY B 180 GLN B 185 5 6 HELIX 24 AC6 TYR B 186 HIS B 209 1 24 HELIX 25 AC7 SER B 223 HIS B 237 1 15 HELIX 26 AC8 LEU B 271 ASN B 287 1 17 HELIX 27 AC9 SER B 300 ALA B 310 1 11 HELIX 28 AD1 TYR B 318 GLY B 325 1 8 HELIX 29 AD2 GLY B 325 ILE B 336 1 12 SHEET 1 AA1 2 VAL A 47 CYS A 49 0 SHEET 2 AA1 2 LEU A 52 PHE A 54 -1 O PHE A 54 N VAL A 47 SHEET 1 AA2 9 LEU A 58 LEU A 60 0 SHEET 2 AA2 9 SER A 81 VAL A 87 1 O GLU A 83 N LEU A 60 SHEET 3 AA2 9 VAL A 135 ILE A 140 1 O ASN A 139 N ILE A 84 SHEET 4 AA2 9 TYR A 168 ASN A 172 1 O ALA A 170 N ILE A 140 SHEET 5 AA2 9 ILE A 214 LYS A 217 1 O ALA A 215 N ILE A 169 SHEET 6 AA2 9 GLY A 241 ALA A 244 1 O ILE A 243 N VAL A 216 SHEET 7 AA2 9 ILE A 292 VAL A 295 1 O ILE A 293 N VAL A 242 SHEET 8 AA2 9 LEU A 314 ILE A 317 1 O LEU A 314 N GLY A 294 SHEET 9 AA2 9 LEU A 58 LEU A 60 1 N GLY A 59 O VAL A 315 SHEET 1 AA3 3 LEU A 100 LEU A 103 0 SHEET 2 AA3 3 GLY A 108 ASN A 111 -1 O ILE A 110 N PHE A 101 SHEET 3 AA3 3 GLY A 265 GLY A 268 -1 O SER A 267 N LEU A 109 SHEET 1 AA4 2 VAL B 47 CYS B 49 0 SHEET 2 AA4 2 LEU B 52 PHE B 54 -1 O PHE B 54 N VAL B 47 SHEET 1 AA5 9 LEU B 58 LEU B 60 0 SHEET 2 AA5 9 SER B 81 VAL B 87 1 O GLU B 83 N LEU B 60 SHEET 3 AA5 9 VAL B 135 ILE B 140 1 O GLY B 137 N ILE B 82 SHEET 4 AA5 9 TYR B 168 ASN B 172 1 O ALA B 170 N ILE B 140 SHEET 5 AA5 9 ILE B 214 ILE B 218 1 O ALA B 215 N ILE B 169 SHEET 6 AA5 9 GLY B 241 ALA B 244 1 O ILE B 243 N ILE B 218 SHEET 7 AA5 9 ILE B 292 VAL B 295 1 O ILE B 293 N VAL B 242 SHEET 8 AA5 9 ALA B 312 ILE B 317 1 O SER B 313 N ILE B 292 SHEET 9 AA5 9 LEU B 58 LEU B 60 1 N GLY B 59 O VAL B 315 SHEET 1 AA6 3 LEU B 100 LEU B 103 0 SHEET 2 AA6 3 GLY B 108 ASN B 111 -1 O ILE B 110 N PHE B 101 SHEET 3 AA6 3 GLY B 265 GLY B 268 -1 O SER B 267 N LEU B 109 CISPEP 1 GLY A 85 THR A 86 0 -0.06 CISPEP 2 LYS A 97 PRO A 98 0 -0.40 CISPEP 3 GLY B 85 THR B 86 0 21.57 CISPEP 4 LYS B 97 PRO B 98 0 0.74 CRYST1 104.046 169.328 129.970 90.00 90.00 90.00 C 2 2 21 16 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 0.009611 0.000000 0.000000 0.00000 SCALE2 0.000000 0.005906 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007694 0.00000