HEADER OXIDOREDUCTASE 02-JUN-19 5BKC TITLE CRYSTAL STRUCTURE OF AAD-1 IN COMPLEX WITH (R)-DICLOFOP, MN(II), AND TITLE 2 2-OXOGLUTARATE COMPND MOL_ID: 1; COMPND 2 MOLECULE: (R)-PHENOXYPROPIONATE/ALPHA-KETOGLUTARATE-DIOXYGENASE; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: RDPA,(R)-DICHLORPROP/(R)-MECOPROP DIOXYGENASE,ALPHA- COMPND 5 KETOGLUTARATE-DEPENDENT DIOXYGENASE,DICHLORPROP/ALPHA-KETOGLUTARATE- COMPND 6 DIOXYGENASE,MECOPROP/ALPHA-KETOGLUTARATE-DIOXYGENASE; COMPND 7 EC: 1.14.11.44; COMPND 8 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: DELFTIA ACIDOVORANS; SOURCE 3 ORGANISM_COMMON: PSEUDOMONAS ACIDOVORANS; SOURCE 4 ORGANISM_TAXID: 80866; SOURCE 5 GENE: RDPA; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS DIOXYGENASE, HERBICIDE DEGRADATION, OXIDOREDUCTASE EXPDTA X-RAY DIFFRACTION AUTHOR J.R.CHEKAN,S.K.NAIR REVDAT 4 27-SEP-23 5BKC 1 REMARK LINK REVDAT 3 17-JUL-19 5BKC 1 JRNL REVDAT 2 03-JUL-19 5BKC 1 JRNL REVDAT 1 12-JUN-19 5BKC 0 JRNL AUTH J.R.CHEKAN,C.ONGPIPATTANAKUL,T.R.WRIGHT,B.ZHANG, JRNL AUTH 2 J.M.BOLLINGER JR.,L.J.RAJAKOVICH,C.KREBS,R.M.CICCHILLO, JRNL AUTH 3 S.K.NAIR JRNL TITL MOLECULAR BASIS FOR ENANTIOSELECTIVE HERBICIDE DEGRADATION JRNL TITL 2 IMPARTED BY ARYLOXYALKANOATE DIOXYGENASES IN TRANSGENIC JRNL TITL 3 PLANTS. JRNL REF PROC.NATL.ACAD.SCI.USA V. 116 13299 2019 JRNL REFN ESSN 1091-6490 JRNL PMID 31209034 JRNL DOI 10.1073/PNAS.1900711116 REMARK 2 REMARK 2 RESOLUTION. 1.80 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.9_1692 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) : 1.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 48.85 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.350 REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 55138 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.164 REMARK 3 R VALUE (WORKING SET) : 0.163 REMARK 3 FREE R VALUE : 0.201 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.970 REMARK 3 FREE R VALUE TEST SET COUNT : 2740 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 48.8680 - 4.8844 1.00 2832 137 0.1751 0.1781 REMARK 3 2 4.8844 - 3.8774 1.00 2694 130 0.1301 0.1586 REMARK 3 3 3.8774 - 3.3874 1.00 2660 155 0.1503 0.1768 REMARK 3 4 3.3874 - 3.0778 1.00 2616 149 0.1564 0.1897 REMARK 3 5 3.0778 - 2.8572 1.00 2649 135 0.1683 0.1979 REMARK 3 6 2.8572 - 2.6887 1.00 2603 136 0.1718 0.1933 REMARK 3 7 2.6887 - 2.5541 1.00 2626 146 0.1615 0.1979 REMARK 3 8 2.5541 - 2.4429 1.00 2582 156 0.1600 0.2042 REMARK 3 9 2.4429 - 2.3489 1.00 2613 140 0.1622 0.2277 REMARK 3 10 2.3489 - 2.2678 1.00 2573 141 0.1553 0.2307 REMARK 3 11 2.2678 - 2.1969 1.00 2641 119 0.1617 0.2135 REMARK 3 12 2.1969 - 2.1341 1.00 2589 132 0.1585 0.2130 REMARK 3 13 2.1341 - 2.0779 1.00 2602 127 0.1671 0.2399 REMARK 3 14 2.0779 - 2.0272 1.00 2615 125 0.1720 0.2454 REMARK 3 15 2.0272 - 1.9811 1.00 2607 119 0.1687 0.2383 REMARK 3 16 1.9811 - 1.9390 1.00 2568 135 0.1734 0.2243 REMARK 3 17 1.9390 - 1.9002 1.00 2613 131 0.1767 0.2276 REMARK 3 18 1.9002 - 1.8643 1.00 2588 136 0.1885 0.2275 REMARK 3 19 1.8643 - 1.8310 1.00 2563 153 0.2072 0.2438 REMARK 3 20 1.8310 - 1.8000 1.00 2564 138 0.2241 0.2795 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) : 0.190 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 19.090 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 : 0.007 4661 REMARK 3 ANGLE : 1.066 6375 REMARK 3 CHIRALITY : 0.047 699 REMARK 3 PLANARITY : 0.005 839 REMARK 3 DIHEDRAL : 13.229 1738 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 5BKC COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 03-JUN-19. REMARK 100 THE DEPOSITION ID IS D_1001310068. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 23-FEB-14 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 9.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 21-ID-F REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9787 REMARK 200 MONOCHROMATOR : C(111) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 225 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : AUTOPROC REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 55192 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.800 REMARK 200 RESOLUTION RANGE LOW (A) : 85.800 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 9.200 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.11100 REMARK 200 FOR THE DATA SET : 18.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.80 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.81 REMARK 200 COMPLETENESS FOR SHELL (%) : 97.3 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.92900 REMARK 200 FOR SHELL : 2.600 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: 1GQW REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 44.14 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.20 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 25% PEG 3350 0.3M LISO4 0.1M BICINE PH REMARK 280 9.0 8 MG/ML AAD-1 CRYO: 15% GLYCEROL, VAPOR DIFFUSION, HANGING REMARK 280 DROP, TEMPERATURE 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z REMARK 290 3555 -X+1/2,Y+1/2,-Z REMARK 290 4555 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 0.00000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 42.88200 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 48.85000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 42.88200 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 48.85000 REMARK 290 SMTRY3 4 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 3420 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 22810 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -47.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 MET A 1 REMARK 465 HIS A 2 REMARK 465 ALA A 3 REMARK 465 ALA A 4 REMARK 465 LEU A 5 REMARK 465 SER A 6 REMARK 465 MET B 1 REMARK 465 HIS B 2 REMARK 465 ALA B 3 REMARK 465 ALA B 4 REMARK 465 LEU B 5 REMARK 465 SER B 6 REMARK 465 PRO B 7 REMARK 465 LEU B 8 REMARK 465 SER B 9 REMARK 465 GLN B 10 REMARK 465 ARG B 11 REMARK 465 SER B 173 REMARK 465 LEU B 174 REMARK 465 TYR B 175 REMARK 465 GLN B 176 REMARK 465 ALA B 177 REMARK 465 GLN B 178 REMARK 465 ASN B 179 REMARK 465 ARG B 180 REMARK 465 ARG B 181 REMARK 465 PHE B 182 REMARK 465 SER B 183 REMARK 465 ASN B 184 REMARK 465 THR B 185 REMARK 465 SER B 186 REMARK 465 VAL B 187 REMARK 465 LYS B 188 REMARK 465 VAL B 189 REMARK 465 MET B 190 REMARK 465 ASP B 191 REMARK 465 VAL B 192 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 O HOH A 879 O HOH A 880 2.12 REMARK 500 NH2 ARG A 11 O HOH A 601 2.15 REMARK 500 O HOH A 651 O HOH A 826 2.16 REMARK 500 O HOH A 892 O HOH A 914 2.16 REMARK 500 O HOH A 617 O HOH A 727 2.17 REMARK 500 O HOH B 870 O HOH B 872 2.18 REMARK 500 O HOH B 635 O HOH B 680 2.18 REMARK 500 O HOH B 877 O HOH B 881 2.19 REMARK 500 O HOH A 692 O HOH A 733 2.19 REMARK 500 O HOH B 721 O HOH B 811 2.19 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 O HOH A 861 O HOH A 949 2665 2.18 REMARK 500 O HOH A 887 O HOH B 816 4555 2.18 REMARK 500 O HOH A 894 O HOH B 857 4555 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 GLN A 53 -33.49 71.89 REMARK 500 ASP A 78 83.79 -152.43 REMARK 500 ASP A 108 30.45 -87.19 REMARK 500 PHE A 171 22.93 -150.61 REMARK 500 TYR A 276 35.79 -140.58 REMARK 500 GLN B 53 -36.19 74.28 REMARK 500 ASP B 108 31.67 -85.79 REMARK 500 PHE B 171 33.39 -144.36 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A 981 DISTANCE = 5.81 ANGSTROMS REMARK 525 HOH A 982 DISTANCE = 5.94 ANGSTROMS REMARK 525 HOH A 983 DISTANCE = 6.12 ANGSTROMS REMARK 525 HOH A 984 DISTANCE = 6.24 ANGSTROMS REMARK 525 HOH A 985 DISTANCE = 6.36 ANGSTROMS REMARK 525 HOH B 879 DISTANCE = 5.82 ANGSTROMS REMARK 525 HOH B 880 DISTANCE = 6.27 ANGSTROMS REMARK 525 HOH B 881 DISTANCE = 6.38 ANGSTROMS REMARK 525 HOH B 882 DISTANCE = 6.54 ANGSTROMS REMARK 525 HOH B 883 DISTANCE = 7.09 ANGSTROMS 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 MN A 501 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 111 NE2 REMARK 620 2 ASP A 113 OD1 98.1 REMARK 620 3 HIS A 270 NE2 92.5 94.7 REMARK 620 4 AKG A 502 O1 150.2 98.8 110.3 REMARK 620 5 AKG A 502 O5 88.2 172.4 89.3 73.6 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN B 501 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS B 111 NE2 REMARK 620 2 ASP B 113 OD1 96.0 REMARK 620 3 HIS B 270 NE2 88.0 94.3 REMARK 620 4 AKG B 502 O2 155.2 103.9 104.9 REMARK 620 5 AKG B 502 O5 88.7 174.9 87.8 71.0 REMARK 620 6 HOH B 734 O 87.7 93.6 171.4 76.6 84.6 REMARK 620 N 1 2 3 4 5 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MN A 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue AKG A 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue O0D A 503 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 A 504 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 A 505 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MN B 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue AKG B 502 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5BKB RELATED DB: PDB REMARK 900 RELATED ID: 5BKD RELATED DB: PDB REMARK 900 RELATED ID: 5BK9 RELATED DB: PDB REMARK 900 RELATED ID: 5BKE RELATED DB: PDB DBREF 5BKC A 1 295 UNP P83310 RDPA_DELAC 1 295 DBREF 5BKC B 1 295 UNP P83310 RDPA_DELAC 1 295 SEQRES 1 A 295 MET HIS ALA ALA LEU SER PRO LEU SER GLN ARG PHE GLU SEQRES 2 A 295 ARG ILE ALA VAL GLN PRO LEU THR GLY VAL LEU GLY ALA SEQRES 3 A 295 GLU ILE THR GLY VAL ASP LEU ARG GLU PRO LEU ASP ASP SEQRES 4 A 295 SER THR TRP ASN GLU ILE LEU ASP ALA PHE HIS THR TYR SEQRES 5 A 295 GLN VAL ILE TYR PHE PRO GLY GLN ALA ILE THR ASN GLU SEQRES 6 A 295 GLN HIS ILE ALA PHE SER ARG ARG PHE GLY PRO VAL ASP SEQRES 7 A 295 PRO VAL PRO LEU LEU LYS SER ILE GLU GLY TYR PRO GLU SEQRES 8 A 295 VAL GLN MET ILE ARG ARG GLU ALA ASN GLU SER GLY ARG SEQRES 9 A 295 VAL ILE GLY ASP ASP TRP HIS THR ASP SER THR PHE LEU SEQRES 10 A 295 ASP ALA PRO PRO ALA ALA VAL VAL MET ARG ALA ILE ASP SEQRES 11 A 295 VAL PRO GLU HIS GLY GLY ASP THR GLY PHE LEU SER MET SEQRES 12 A 295 TYR THR ALA TRP GLU THR LEU SER PRO THR MET GLN ALA SEQRES 13 A 295 THR ILE GLU GLY LEU ASN VAL VAL HIS SER ALA THR ARG SEQRES 14 A 295 VAL PHE GLY SER LEU TYR GLN ALA GLN ASN ARG ARG PHE SEQRES 15 A 295 SER ASN THR SER VAL LYS VAL MET ASP VAL ASP ALA GLY SEQRES 16 A 295 ASP ARG GLU THR VAL HIS PRO LEU VAL VAL THR HIS PRO SEQRES 17 A 295 GLY SER GLY ARG LYS GLY LEU TYR VAL ASN GLN VAL TYR SEQRES 18 A 295 CYS GLN ARG ILE GLU GLY MET THR ASP ALA GLU SER LYS SEQRES 19 A 295 PRO LEU LEU GLN PHE LEU TYR GLU HIS ALA THR ARG PHE SEQRES 20 A 295 ASP PHE THR CYS ARG VAL ARG TRP LYS LYS ASP GLN VAL SEQRES 21 A 295 LEU VAL TRP ASP ASN LEU CYS THR MET HIS ARG ALA VAL SEQRES 22 A 295 PRO ASP TYR ALA GLY LYS PHE ARG TYR LEU THR ARG THR SEQRES 23 A 295 THR VAL GLY GLY VAL ARG PRO ALA ARG SEQRES 1 B 295 MET HIS ALA ALA LEU SER PRO LEU SER GLN ARG PHE GLU SEQRES 2 B 295 ARG ILE ALA VAL GLN PRO LEU THR GLY VAL LEU GLY ALA SEQRES 3 B 295 GLU ILE THR GLY VAL ASP LEU ARG GLU PRO LEU ASP ASP SEQRES 4 B 295 SER THR TRP ASN GLU ILE LEU ASP ALA PHE HIS THR TYR SEQRES 5 B 295 GLN VAL ILE TYR PHE PRO GLY GLN ALA ILE THR ASN GLU SEQRES 6 B 295 GLN HIS ILE ALA PHE SER ARG ARG PHE GLY PRO VAL ASP SEQRES 7 B 295 PRO VAL PRO LEU LEU LYS SER ILE GLU GLY TYR PRO GLU SEQRES 8 B 295 VAL GLN MET ILE ARG ARG GLU ALA ASN GLU SER GLY ARG SEQRES 9 B 295 VAL ILE GLY ASP ASP TRP HIS THR ASP SER THR PHE LEU SEQRES 10 B 295 ASP ALA PRO PRO ALA ALA VAL VAL MET ARG ALA ILE ASP SEQRES 11 B 295 VAL PRO GLU HIS GLY GLY ASP THR GLY PHE LEU SER MET SEQRES 12 B 295 TYR THR ALA TRP GLU THR LEU SER PRO THR MET GLN ALA SEQRES 13 B 295 THR ILE GLU GLY LEU ASN VAL VAL HIS SER ALA THR ARG SEQRES 14 B 295 VAL PHE GLY SER LEU TYR GLN ALA GLN ASN ARG ARG PHE SEQRES 15 B 295 SER ASN THR SER VAL LYS VAL MET ASP VAL ASP ALA GLY SEQRES 16 B 295 ASP ARG GLU THR VAL HIS PRO LEU VAL VAL THR HIS PRO SEQRES 17 B 295 GLY SER GLY ARG LYS GLY LEU TYR VAL ASN GLN VAL TYR SEQRES 18 B 295 CYS GLN ARG ILE GLU GLY MET THR ASP ALA GLU SER LYS SEQRES 19 B 295 PRO LEU LEU GLN PHE LEU TYR GLU HIS ALA THR ARG PHE SEQRES 20 B 295 ASP PHE THR CYS ARG VAL ARG TRP LYS LYS ASP GLN VAL SEQRES 21 B 295 LEU VAL TRP ASP ASN LEU CYS THR MET HIS ARG ALA VAL SEQRES 22 B 295 PRO ASP TYR ALA GLY LYS PHE ARG TYR LEU THR ARG THR SEQRES 23 B 295 THR VAL GLY GLY VAL ARG PRO ALA ARG HET MN A 501 1 HET AKG A 502 10 HET O0D A 503 21 HET SO4 A 504 5 HET SO4 A 505 5 HET MN B 501 1 HET AKG B 502 10 HETNAM MN MANGANESE (II) ION HETNAM AKG 2-OXOGLUTARIC ACID HETNAM O0D (2R)-2-{4-[(3,5-DICHLOROPYRIDIN-2-YL) HETNAM 2 O0D OXY]PHENOXY}PROPANOIC ACID HETNAM SO4 SULFATE ION FORMUL 3 MN 2(MN 2+) FORMUL 4 AKG 2(C5 H6 O5) FORMUL 5 O0D C14 H11 CL2 N O4 FORMUL 6 SO4 2(O4 S 2-) FORMUL 10 HOH *668(H2 O) HELIX 1 AA1 PRO A 7 PHE A 12 1 6 HELIX 2 AA2 ASP A 38 GLN A 53 1 16 HELIX 3 AA3 THR A 63 ARG A 73 1 11 HELIX 4 AA4 MET A 143 THR A 149 1 7 HELIX 5 AA5 SER A 151 GLU A 159 1 9 HELIX 6 AA6 ALA A 167 GLY A 172 1 6 HELIX 7 AA7 GLY A 172 ALA A 177 1 6 HELIX 8 AA8 ASP A 191 ARG A 197 1 7 HELIX 9 AA9 THR A 229 THR A 245 1 17 HELIX 10 AB1 ARG A 246 ASP A 248 5 3 HELIX 11 AB2 ASP B 38 GLN B 53 1 16 HELIX 12 AB3 THR B 63 ARG B 73 1 11 HELIX 13 AB4 MET B 143 THR B 149 1 7 HELIX 14 AB5 SER B 151 GLU B 159 1 9 HELIX 15 AB6 THR B 229 THR B 245 1 17 HELIX 16 AB7 ARG B 246 ASP B 248 5 3 SHEET 1 AA1 8 ALA A 16 PRO A 19 0 SHEET 2 AA1 8 ALA A 26 THR A 29 -1 O THR A 29 N ALA A 16 SHEET 3 AA1 8 VAL A 54 PHE A 57 1 O TYR A 56 N ILE A 28 SHEET 4 AA1 8 VAL A 260 ASP A 264 -1 O VAL A 260 N PHE A 57 SHEET 5 AA1 8 ALA A 123 ASP A 130 -1 N MET A 126 O LEU A 261 SHEET 6 AA1 8 ARG A 281 VAL A 288 -1 O THR A 284 N ARG A 127 SHEET 7 AA1 8 TYR A 89 ARG A 97 -1 N ARG A 97 O ARG A 281 SHEET 8 AA1 8 SER A 85 ILE A 86 -1 N ILE A 86 O VAL A 92 SHEET 1 AA2 3 THR A 250 VAL A 253 0 SHEET 2 AA2 3 THR A 138 SER A 142 -1 N THR A 138 O VAL A 253 SHEET 3 AA2 3 THR A 268 ALA A 272 -1 O ARG A 271 N GLY A 139 SHEET 1 AA3 3 THR A 199 PRO A 202 0 SHEET 2 AA3 3 ASN A 162 HIS A 165 -1 N VAL A 163 O HIS A 201 SHEET 3 AA3 3 CYS A 222 ILE A 225 -1 O GLN A 223 N VAL A 164 SHEET 1 AA4 2 VAL A 204 THR A 206 0 SHEET 2 AA4 2 LYS A 213 LEU A 215 -1 O GLY A 214 N VAL A 205 SHEET 1 AA5 8 ALA B 16 PRO B 19 0 SHEET 2 AA5 8 ALA B 26 THR B 29 -1 O GLU B 27 N GLN B 18 SHEET 3 AA5 8 VAL B 54 PHE B 57 1 O TYR B 56 N ILE B 28 SHEET 4 AA5 8 VAL B 260 ASP B 264 -1 O VAL B 260 N PHE B 57 SHEET 5 AA5 8 ALA B 123 ASP B 130 -1 N MET B 126 O LEU B 261 SHEET 6 AA5 8 ARG B 281 VAL B 288 -1 O VAL B 288 N ALA B 123 SHEET 7 AA5 8 TYR B 89 ARG B 97 -1 N ILE B 95 O LEU B 283 SHEET 8 AA5 8 SER B 85 ILE B 86 -1 N ILE B 86 O VAL B 92 SHEET 1 AA6 3 THR B 250 VAL B 253 0 SHEET 2 AA6 3 THR B 138 SER B 142 -1 N THR B 138 O VAL B 253 SHEET 3 AA6 3 THR B 268 ALA B 272 -1 O ARG B 271 N GLY B 139 SHEET 1 AA7 3 THR B 199 PRO B 202 0 SHEET 2 AA7 3 ASN B 162 HIS B 165 -1 N HIS B 165 O THR B 199 SHEET 3 AA7 3 CYS B 222 ILE B 225 -1 O GLN B 223 N VAL B 164 SHEET 1 AA8 2 VAL B 204 THR B 206 0 SHEET 2 AA8 2 LYS B 213 LEU B 215 -1 O GLY B 214 N VAL B 205 LINK NE2 HIS A 111 MN MN A 501 1555 1555 2.22 LINK OD1 ASP A 113 MN MN A 501 1555 1555 2.12 LINK NE2 HIS A 270 MN MN A 501 1555 1555 2.17 LINK MN MN A 501 O1 AKG A 502 1555 1555 2.05 LINK MN MN A 501 O5 AKG A 502 1555 1555 2.41 LINK NE2 HIS B 111 MN MN B 501 1555 1555 2.26 LINK OD1 ASP B 113 MN MN B 501 1555 1555 2.17 LINK NE2 HIS B 270 MN MN B 501 1555 1555 2.09 LINK MN MN B 501 O2 AKG B 502 1555 1555 2.08 LINK MN MN B 501 O5 AKG B 502 1555 1555 2.48 LINK MN MN B 501 O HOH B 734 1555 1555 2.46 SITE 1 AC1 4 HIS A 111 ASP A 113 HIS A 270 AKG A 502 SITE 1 AC2 12 ILE A 95 HIS A 111 ASP A 113 MET A 126 SITE 2 AC2 12 THR A 138 HIS A 270 ALA A 272 ARG A 281 SITE 3 AC2 12 ARG A 285 MN A 501 HOH A 670 HOH A 761 SITE 1 AC3 14 VAL A 80 LEU A 82 LEU A 83 GLY A 107 SITE 2 AC3 14 ASP A 108 ASP A 109 HIS A 111 ASP A 113 SITE 3 AC3 14 SER A 114 VAL A 170 PHE A 182 VAL A 220 SITE 4 AC3 14 TYR A 221 HOH A 786 SITE 1 AC4 7 ARG A 34 GLN A 66 ARG A 224 GLY A 227 SITE 2 AC4 7 MET A 228 HOH A 645 HOH A 665 SITE 1 AC5 9 ASP A 109 TRP A 110 ARG A 271 HOH A 609 SITE 2 AC5 9 HOH A 617 HOH A 671 ARG B 246 PHE B 247 SITE 3 AC5 9 HOH B 671 SITE 1 AC6 5 HIS B 111 ASP B 113 HIS B 270 AKG B 502 SITE 2 AC6 5 HOH B 734 SITE 1 AC7 12 ILE B 95 HIS B 111 ASP B 113 MET B 126 SITE 2 AC7 12 THR B 138 HIS B 270 ARG B 281 ARG B 285 SITE 3 AC7 12 MN B 501 HOH B 663 HOH B 734 HOH B 758 CRYST1 85.764 97.700 69.913 90.00 90.00 90.00 P 21 21 2 8 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.011660 0.000000 0.000000 0.00000 SCALE2 0.000000 0.010235 0.000000 0.00000 SCALE3 0.000000 0.000000 0.014303 0.00000