HEADER TRANSCRIPTION 26-SEP-24 9JPL TITLE CRYSTAL STRUCTURE OF DHDR INDUCER BINDING DOMAIN IN COMPLEX WITH TITLE 2 INDUCER COMPND MOL_ID: 1; COMPND 2 MOLECULE: PYRUVATE DEHYDROGENASE COMPLEX REPRESSOR; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: DHDR; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ACHROMOBACTER DENITRIFICANS NBRC 15125; SOURCE 3 ORGANISM_TAXID: 1255278; SOURCE 4 GENE: FOC81_30220; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS TRANSCRIPTIONAL REGULATOR, TRANSCRIPTION EXPDTA X-RAY DIFFRACTION AUTHOR P.SUN,B.WANG REVDAT 1 06-NOV-24 9JPL 0 JRNL AUTH P.SUN,B.WANG JRNL TITL CRYSTAL STRUCTURE OF DHDR INDUCER BINDING DOMAIN JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 2.01 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.14_3260 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 : CDL V1.2 REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.01 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 40.72 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.350 REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 24391 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.202 REMARK 3 R VALUE (WORKING SET) : 0.200 REMARK 3 FREE R VALUE : 0.230 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.900 REMARK 3 FREE R VALUE TEST SET COUNT : 1196 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 40.7200 - 4.1800 1.00 2775 132 0.1920 0.2098 REMARK 3 2 4.1800 - 3.3200 1.00 2594 148 0.1894 0.1882 REMARK 3 3 3.3200 - 2.9000 1.00 2587 132 0.2083 0.2763 REMARK 3 4 2.9000 - 2.6300 1.00 2566 132 0.2090 0.2656 REMARK 3 5 2.6300 - 2.4400 1.00 2543 133 0.2041 0.2615 REMARK 3 6 2.4400 - 2.3000 1.00 2548 114 0.1953 0.2065 REMARK 3 7 2.3000 - 2.1900 1.00 2517 158 0.2118 0.2954 REMARK 3 8 2.1900 - 2.0900 1.00 2532 120 0.2195 0.2654 REMARK 3 9 2.0900 - 2.0100 1.00 2533 127 0.2502 0.3174 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) : 0.219 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 24.327 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 35.82 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 41.74 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 : 0.007 2278 REMARK 3 ANGLE : 0.875 3090 REMARK 3 CHIRALITY : 0.044 363 REMARK 3 PLANARITY : 0.005 415 REMARK 3 DIHEDRAL : 13.302 1382 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 9JPL COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 27-SEP-24. REMARK 100 THE DEPOSITION ID IS D_1300051922. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 24-SEP-24 REMARK 200 TEMPERATURE (KELVIN) : 177 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SSRF REMARK 200 BEAMLINE : BL02U1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.979145 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS3 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XIA2 REMARK 200 DATA SCALING SOFTWARE : XIA2 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 24439 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.010 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 3.600 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 16.3000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.01 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 10.00 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL 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 : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHENIX REMARK 200 STARTING MODEL: ALPHAFOLD REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): NULL REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): NULL REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M BIS TRIS, PH 5.5, 25% W/V PEG REMARK 280 3350, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 41 21 2 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 -Y+1/2,X+1/2,Z+1/4 REMARK 290 4555 Y+1/2,-X+1/2,Z+3/4 REMARK 290 5555 -X+1/2,Y+1/2,-Z+1/4 REMARK 290 6555 X+1/2,-Y+1/2,-Z+3/4 REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-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 21.47500 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 64.00000 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 64.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 10.73750 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 64.00000 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 64.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 32.21250 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 64.00000 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 64.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 10.73750 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 64.00000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 64.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 32.21250 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 21.47500 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: 2100 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 13440 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -19.0 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 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 HOH A 452 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 453 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 467 LIES ON A SPECIAL POSITION. REMARK 375 HOH B 436 LIES ON A SPECIAL POSITION. REMARK 375 HOH B 451 LIES ON A SPECIAL POSITION. REMARK 375 HOH B 453 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 MET A 1 REMARK 465 LEU A 2 REMARK 465 SER A 3 REMARK 465 LYS A 4 REMARK 465 SER A 5 REMARK 465 LEU A 6 REMARK 465 THR A 7 REMARK 465 LEU A 8 REMARK 465 THR A 9 REMARK 465 GLU A 10 REMARK 465 GLN A 11 REMARK 465 VAL A 12 REMARK 465 ALA A 13 REMARK 465 ARG A 14 REMARK 465 GLN A 15 REMARK 465 ILE A 16 REMARK 465 ALA A 17 REMARK 465 GLY A 18 REMARK 465 ASP A 19 REMARK 465 ILE A 20 REMARK 465 ALA A 21 REMARK 465 GLU A 22 REMARK 465 GLY A 23 REMARK 465 VAL A 24 REMARK 465 HIS A 25 REMARK 465 SER A 26 REMARK 465 VAL A 27 REMARK 465 GLY A 28 REMARK 465 ALA A 29 REMARK 465 LYS A 30 REMARK 465 LEU A 31 REMARK 465 PRO A 32 REMARK 465 PRO A 33 REMARK 465 GLY A 34 REMARK 465 ARG A 35 REMARK 465 VAL A 36 REMARK 465 LEU A 37 REMARK 465 ALA A 38 REMARK 465 GLU A 39 REMARK 465 GLN A 40 REMARK 465 TYR A 41 REMARK 465 GLY A 42 REMARK 465 VAL A 43 REMARK 465 SER A 44 REMARK 465 ALA A 45 REMARK 465 ALA A 46 REMARK 465 VAL A 47 REMARK 465 ILE A 48 REMARK 465 ARG A 49 REMARK 465 GLU A 50 REMARK 465 ALA A 51 REMARK 465 THR A 52 REMARK 465 GLU A 53 REMARK 465 ARG A 54 REMARK 465 LEU A 55 REMARK 465 ARG A 56 REMARK 465 ALA A 57 REMARK 465 GLN A 58 REMARK 465 GLY A 59 REMARK 465 LEU A 60 REMARK 465 ILE A 61 REMARK 465 GLN A 62 REMARK 465 SER A 63 REMARK 465 ARG A 64 REMARK 465 GLN A 65 REMARK 465 GLY A 66 REMARK 465 SER A 67 REMARK 465 GLY A 68 REMARK 465 SER A 69 REMARK 465 VAL A 70 REMARK 465 VAL A 71 REMARK 465 VAL A 72 REMARK 465 SER A 73 REMARK 465 ARG A 74 REMARK 465 THR A 75 REMARK 465 GLY A 76 REMARK 465 ALA A 77 REMARK 465 GLN A 78 REMARK 465 GLY A 79 REMARK 465 PHE A 80 REMARK 465 GLN A 81 REMARK 465 LEU A 230 REMARK 465 SER A 231 REMARK 465 PRO A 232 REMARK 465 ALA A 233 REMARK 465 ALA A 234 REMARK 465 ARG A 235 REMARK 465 GLN A 236 REMARK 465 THR A 237 REMARK 465 SER A 238 REMARK 465 MET B 1 REMARK 465 LEU B 2 REMARK 465 SER B 3 REMARK 465 LYS B 4 REMARK 465 SER B 5 REMARK 465 LEU B 6 REMARK 465 THR B 7 REMARK 465 LEU B 8 REMARK 465 THR B 9 REMARK 465 GLU B 10 REMARK 465 GLN B 11 REMARK 465 VAL B 12 REMARK 465 ALA B 13 REMARK 465 ARG B 14 REMARK 465 GLN B 15 REMARK 465 ILE B 16 REMARK 465 ALA B 17 REMARK 465 GLY B 18 REMARK 465 ASP B 19 REMARK 465 ILE B 20 REMARK 465 ALA B 21 REMARK 465 GLU B 22 REMARK 465 GLY B 23 REMARK 465 VAL B 24 REMARK 465 HIS B 25 REMARK 465 SER B 26 REMARK 465 VAL B 27 REMARK 465 GLY B 28 REMARK 465 ALA B 29 REMARK 465 LYS B 30 REMARK 465 LEU B 31 REMARK 465 PRO B 32 REMARK 465 PRO B 33 REMARK 465 GLY B 34 REMARK 465 ARG B 35 REMARK 465 VAL B 36 REMARK 465 LEU B 37 REMARK 465 ALA B 38 REMARK 465 GLU B 39 REMARK 465 GLN B 40 REMARK 465 TYR B 41 REMARK 465 GLY B 42 REMARK 465 VAL B 43 REMARK 465 SER B 44 REMARK 465 ALA B 45 REMARK 465 ALA B 46 REMARK 465 VAL B 47 REMARK 465 ILE B 48 REMARK 465 ARG B 49 REMARK 465 GLU B 50 REMARK 465 ALA B 51 REMARK 465 THR B 52 REMARK 465 GLU B 53 REMARK 465 ARG B 54 REMARK 465 LEU B 55 REMARK 465 ARG B 56 REMARK 465 ALA B 57 REMARK 465 GLN B 58 REMARK 465 GLY B 59 REMARK 465 LEU B 60 REMARK 465 ILE B 61 REMARK 465 GLN B 62 REMARK 465 SER B 63 REMARK 465 ARG B 64 REMARK 465 GLN B 65 REMARK 465 GLY B 66 REMARK 465 SER B 67 REMARK 465 GLY B 68 REMARK 465 SER B 69 REMARK 465 VAL B 70 REMARK 465 VAL B 71 REMARK 465 VAL B 72 REMARK 465 SER B 73 REMARK 465 ARG B 74 REMARK 465 THR B 75 REMARK 465 GLY B 76 REMARK 465 ALA B 77 REMARK 465 GLN B 78 REMARK 465 GLY B 79 REMARK 465 PHE B 80 REMARK 465 GLN B 81 REMARK 465 VAL B 82 REMARK 465 LEU B 230 REMARK 465 SER B 231 REMARK 465 PRO B 232 REMARK 465 ALA B 233 REMARK 465 ALA B 234 REMARK 465 ARG B 235 REMARK 465 GLN B 236 REMARK 465 THR B 237 REMARK 465 SER B 238 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 130 CG CD OE1 OE2 REMARK 470 LEU A 133 CG CD1 CD2 REMARK 470 ASP A 134 CG OD1 OD2 REMARK 470 GLU A 137 CG CD OE1 OE2 REMARK 470 GLN A 138 CG CD OE1 NE2 REMARK 470 GLU A 185 CG CD OE1 OE2 REMARK 470 ASP A 228 CG OD1 OD2 REMARK 470 LEU B 86 CG CD1 CD2 REMARK 470 ASP B 87 CG OD1 OD2 REMARK 470 ASP B 134 CG OD1 OD2 REMARK 470 HIS B 135 CG ND1 CD2 CE1 NE2 REMARK 470 GLU B 137 CG CD OE1 OE2 REMARK 470 GLN B 138 CG CD OE1 NE2 REMARK 470 GLU B 141 CG CD OE1 OE2 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 OE1 GLU B 130 O HOH B 401 1.90 REMARK 500 OE2 GLU B 101 O HOH B 402 2.15 REMARK 500 NH2 ARG A 178 O HOH A 401 2.16 REMARK 500 O HOH A 409 O HOH A 457 2.18 REMARK 500 OE2 GLU A 97 NH1 ARG B 113 2.18 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 GLU B 185 -152.64 61.22 REMARK 500 ASP B 228 76.89 53.12 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 ZN A 304 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 143 OD1 REMARK 620 2 HIS A 147 NE2 85.2 REMARK 620 3 HIS A 195 NE2 89.9 101.2 REMARK 620 4 HIS A 217 NE2 173.3 101.1 86.7 REMARK 620 5 2HG A 303 O2 90.9 89.0 169.8 91.4 REMARK 620 6 2HG A 303 O3 83.7 162.2 92.6 90.7 77.3 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B 302 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP B 143 OD1 REMARK 620 2 HIS B 147 NE2 92.1 REMARK 620 3 HIS B 195 NE2 90.2 96.4 REMARK 620 4 HIS B 217 NE2 170.6 96.6 85.2 REMARK 620 5 2HG B 301 O1 97.4 94.4 166.5 85.5 REMARK 620 6 2HG B 301 O3 81.4 166.8 95.1 90.7 75.2 REMARK 620 N 1 2 3 4 5 DBREF1 9JPL A 1 238 UNP A0A6N0JVZ6_ACHDE DBREF2 9JPL A A0A6N0JVZ6 1 238 DBREF1 9JPL B 1 238 UNP A0A6N0JVZ6_ACHDE DBREF2 9JPL B A0A6N0JVZ6 1 238 SEQADV 9JPL ALA A 120 UNP A0A6N0JVZ VAL 120 CONFLICT SEQADV 9JPL ASP A 134 UNP A0A6N0JVZ GLU 134 CONFLICT SEQADV 9JPL ALA B 120 UNP A0A6N0JVZ VAL 120 CONFLICT SEQADV 9JPL ASP B 134 UNP A0A6N0JVZ GLU 134 CONFLICT SEQRES 1 A 238 MET LEU SER LYS SER LEU THR LEU THR GLU GLN VAL ALA SEQRES 2 A 238 ARG GLN ILE ALA GLY ASP ILE ALA GLU GLY VAL HIS SER SEQRES 3 A 238 VAL GLY ALA LYS LEU PRO PRO GLY ARG VAL LEU ALA GLU SEQRES 4 A 238 GLN TYR GLY VAL SER ALA ALA VAL ILE ARG GLU ALA THR SEQRES 5 A 238 GLU ARG LEU ARG ALA GLN GLY LEU ILE GLN SER ARG GLN SEQRES 6 A 238 GLY SER GLY SER VAL VAL VAL SER ARG THR GLY ALA GLN SEQRES 7 A 238 GLY PHE GLN VAL SER ALA GLY LEU ASP ASP ARG GLU GLN SEQRES 8 A 238 LEU ALA SER VAL TYR GLU LEU ARG MET GLU LEU GLU GLY SEQRES 9 A 238 GLY ALA ALA ALA LEU ALA ALA ARG ARG ARG ASN ALA THR SEQRES 10 A 238 ASP LEU ALA ALA MET ALA GLU ALA LEU ALA ALA LEU GLU SEQRES 11 A 238 ALA ASN LEU ASP HIS PRO GLU GLN GLY VAL GLU HIS ASP SEQRES 12 A 238 ILE ALA PHE HIS VAL ALA ILE ALA ALA ALA THR HIS ASN SEQRES 13 A 238 ARG TYR TYR GLN ASP LEU LEU GLN TYR LEU ASN LEU GLN SEQRES 14 A 238 LEU ARG LEU ALA VAL SER THR ALA ARG THR ASN SER ARG SEQRES 15 A 238 ARG GLN GLU GLY LEU THR ALA VAL VAL HIS GLN GLU HIS SEQRES 16 A 238 VAL ALA VAL TYR ASP ALA ILE LEU ALA GLY ASP PRO ASP SEQRES 17 A 238 ARG ALA ARG LEU ALA ALA THR ARG HIS LEU GLN GLN ALA SEQRES 18 A 238 ALA SER ARG LEU ARG LEU ASP LEU LEU SER PRO ALA ALA SEQRES 19 A 238 ARG GLN THR SER SEQRES 1 B 238 MET LEU SER LYS SER LEU THR LEU THR GLU GLN VAL ALA SEQRES 2 B 238 ARG GLN ILE ALA GLY ASP ILE ALA GLU GLY VAL HIS SER SEQRES 3 B 238 VAL GLY ALA LYS LEU PRO PRO GLY ARG VAL LEU ALA GLU SEQRES 4 B 238 GLN TYR GLY VAL SER ALA ALA VAL ILE ARG GLU ALA THR SEQRES 5 B 238 GLU ARG LEU ARG ALA GLN GLY LEU ILE GLN SER ARG GLN SEQRES 6 B 238 GLY SER GLY SER VAL VAL VAL SER ARG THR GLY ALA GLN SEQRES 7 B 238 GLY PHE GLN VAL SER ALA GLY LEU ASP ASP ARG GLU GLN SEQRES 8 B 238 LEU ALA SER VAL TYR GLU LEU ARG MET GLU LEU GLU GLY SEQRES 9 B 238 GLY ALA ALA ALA LEU ALA ALA ARG ARG ARG ASN ALA THR SEQRES 10 B 238 ASP LEU ALA ALA MET ALA GLU ALA LEU ALA ALA LEU GLU SEQRES 11 B 238 ALA ASN LEU ASP HIS PRO GLU GLN GLY VAL GLU HIS ASP SEQRES 12 B 238 ILE ALA PHE HIS VAL ALA ILE ALA ALA ALA THR HIS ASN SEQRES 13 B 238 ARG TYR TYR GLN ASP LEU LEU GLN TYR LEU ASN LEU GLN SEQRES 14 B 238 LEU ARG LEU ALA VAL SER THR ALA ARG THR ASN SER ARG SEQRES 15 B 238 ARG GLN GLU GLY LEU THR ALA VAL VAL HIS GLN GLU HIS SEQRES 16 B 238 VAL ALA VAL TYR ASP ALA ILE LEU ALA GLY ASP PRO ASP SEQRES 17 B 238 ARG ALA ARG LEU ALA ALA THR ARG HIS LEU GLN GLN ALA SEQRES 18 B 238 ALA SER ARG LEU ARG LEU ASP LEU LEU SER PRO ALA ALA SEQRES 19 B 238 ARG GLN THR SER HET CL A 301 1 HET 2HG A 302 10 HET 2HG A 303 10 HET ZN A 304 1 HET 2HG B 301 10 HET ZN B 302 1 HETNAM CL CHLORIDE ION HETNAM 2HG (2R)-2-HYDROXYPENTANEDIOIC ACID HETNAM ZN ZINC ION FORMUL 3 CL CL 1- FORMUL 4 2HG 3(C5 H8 O5) FORMUL 6 ZN 2(ZN 2+) FORMUL 9 HOH *120(H2 O) HELIX 1 AA1 GLY A 85 ARG A 114 1 30 HELIX 2 AA2 ASN A 115 ALA A 131 1 17 HELIX 3 AA3 HIS A 135 ALA A 153 1 19 HELIX 4 AA4 ASN A 156 LEU A 166 1 11 HELIX 5 AA5 LEU A 166 ARG A 182 1 17 HELIX 6 AA6 GLY A 186 ALA A 204 1 19 HELIX 7 AA7 ASP A 206 LEU A 225 1 20 HELIX 8 AA8 ASP B 88 ARG B 114 1 27 HELIX 9 AA9 ASN B 115 ASN B 132 1 18 HELIX 10 AB1 GLN B 138 THR B 154 1 17 HELIX 11 AB2 ASN B 156 LEU B 166 1 11 HELIX 12 AB3 LEU B 166 ARG B 182 1 17 HELIX 13 AB4 GLY B 186 GLY B 205 1 20 HELIX 14 AB5 ASP B 206 LEU B 225 1 20 LINK OD1 ASP A 143 ZN ZN A 304 1555 1555 2.37 LINK NE2 HIS A 147 ZN ZN A 304 1555 1555 2.11 LINK NE2 HIS A 195 ZN ZN A 304 1555 1555 2.13 LINK NE2 HIS A 217 ZN ZN A 304 1555 1555 2.23 LINK O2 2HG A 303 ZN ZN A 304 1555 1555 2.05 LINK O3 2HG A 303 ZN ZN A 304 1555 1555 2.16 LINK OD1 ASP B 143 ZN ZN B 302 1555 1555 2.40 LINK NE2 HIS B 147 ZN ZN B 302 1555 1555 2.19 LINK NE2 HIS B 195 ZN ZN B 302 1555 1555 2.06 LINK NE2 HIS B 217 ZN ZN B 302 1555 1555 2.22 LINK O1 2HG B 301 ZN ZN B 302 1555 1555 2.24 LINK O3 2HG B 301 ZN ZN B 302 1555 1555 2.32 CRYST1 128.000 128.000 42.950 90.00 90.00 90.00 P 41 21 2 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 0.007812 0.000000 0.000000 0.00000 SCALE2 0.000000 0.007812 0.000000 0.00000 SCALE3 0.000000 0.000000 0.023283 0.00000