HEADER BIOSYNTHETIC PROTEIN 29-AUG-17 5Y9X TITLE CRYSTAL STRUCTURE OF THE KDO HYDROXYLASE KDOO, A NON-HEME FE(II) TITLE 2 ALPHAKETOGLUTARATE DEPENDENT DIOXYGENASE IN COMPLEX WITH TITLE 3 ALPHAKETOGLUTARATE AND COBLAT(II) COMPND MOL_ID: 1; COMPND 2 MOLECULE: UNCHARACTERIZED PROTEIN KDOO; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: 3-DEOXY-D-MANNO-OCT-2-ULOSONIC ACID HYDROXYLASE; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: METHYLACIDIPHILUM INFERNORUM (ISOLATE V4); SOURCE 3 ORGANISM_TAXID: 481448; SOURCE 4 STRAIN: ISOLATE V4; SOURCE 5 GENE: MINF_1012; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS FE(II)/O2/ALPHAKETOGLUTARATE DEPENDENT DIOXYGENASE, KDO2-LIPID A KEYWDS 2 DIOXYGENASE, DEOXYSUGAR DIOXYGENASE, LPS BIOSYNTHESIS, BIOSYNTHETIC KEYWDS 3 PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR H.S.CHUNG,C.W.PEMBLE,S.H.JOO,C.R.RAETZ REVDAT 2 27-MAR-24 5Y9X 1 LINK REVDAT 1 31-OCT-18 5Y9X 0 JRNL AUTH H.S.CHUNG,C.W.PEMBLE IV,S.H.JOO JRNL TITL BIOCHEMICAL AND STRUCTURAL INSIGHTS OF JRNL TITL 2 FE(II)/ALPHA-KETOGLUTARATE/O2-DEPENDENT DIOXYGENASE, KDOO JRNL TITL 3 FROM METHYLACIDIPHILUM INFERNORUM V4 JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.39 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) : 1.39 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 24.36 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 90.8 REMARK 3 NUMBER OF REFLECTIONS : 59132 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.134 REMARK 3 R VALUE (WORKING SET) : 0.133 REMARK 3 FREE R VALUE : 0.168 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 3.060 REMARK 3 FREE R VALUE TEST SET COUNT : 1810 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 24.3670 - 3.2604 0.99 5109 161 0.1477 0.1597 REMARK 3 2 3.2604 - 2.5888 0.99 4902 155 0.1523 0.1873 REMARK 3 3 2.5888 - 2.2619 0.98 4801 153 0.1373 0.1609 REMARK 3 4 2.2619 - 2.0552 0.98 4746 153 0.1217 0.1642 REMARK 3 5 2.0552 - 1.9079 0.97 4703 149 0.1145 0.1589 REMARK 3 6 1.9079 - 1.7955 0.95 4571 145 0.1119 0.1497 REMARK 3 7 1.7955 - 1.7056 0.94 4540 139 0.1141 0.1731 REMARK 3 8 1.7056 - 1.6314 0.91 4386 143 0.1155 0.1498 REMARK 3 9 1.6314 - 1.5686 0.90 4315 133 0.1145 0.1583 REMARK 3 10 1.5686 - 1.5144 0.86 4121 136 0.1121 0.1963 REMARK 3 11 1.5144 - 1.4671 0.81 3901 120 0.1241 0.1617 REMARK 3 12 1.4671 - 1.4252 0.79 3761 119 0.1400 0.2073 REMARK 3 13 1.4252 - 1.3877 0.73 3466 104 0.1706 0.2451 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) : 0.110 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 15.820 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 10.01 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 16.19 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 : 0.005 2590 REMARK 3 ANGLE : 0.789 3497 REMARK 3 CHIRALITY : 0.074 372 REMARK 3 PLANARITY : 0.005 449 REMARK 3 DIHEDRAL : 17.109 993 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 5Y9X COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 30-AUG-17. REMARK 100 THE DEPOSITION ID IS D_1300004909. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 31-JUL-11 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 4.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 22-BM REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0 REMARK 200 MONOCHROMATOR : SI(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 : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 61166 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.390 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 (%) : 93.9 REMARK 200 DATA REDUNDANCY : 7.000 REMARK 200 R MERGE (I) : 0.06500 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 9.3000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.39 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.41 REMARK 200 COMPLETENESS FOR SHELL (%) : 81.5 REMARK 200 DATA REDUNDANCY IN SHELL : 4.30 REMARK 200 R MERGE FOR SHELL (I) : 0.43300 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: NULL REMARK 200 SOFTWARE USED: PHENIX REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 43.79 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.19 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1M SODIUM ACETATE (PH 4.5), 200MM REMARK 280 LITHIUM SULFATE, 50% V/V PEG 400, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 288K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 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 23.01900 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 58.12650 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 29.63150 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 58.12650 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 23.01900 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 29.63150 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: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 190 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 14290 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -13.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 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 PHE A 2 REMARK 465 PRO A 3 REMARK 465 MET A 4 REMARK 465 ASP A 5 REMARK 465 THR A 6 REMARK 465 LYS A 7 REMARK 465 THR A 8 REMARK 465 ASN A 9 REMARK 465 GLU A 10 REMARK 465 ALA A 309 REMARK 465 ALA A 310 REMARK 465 LEU A 311 REMARK 465 GLU A 312 REMARK 465 HIS A 313 REMARK 465 HIS A 314 REMARK 465 HIS A 315 REMARK 465 HIS A 316 REMARK 465 HIS A 317 REMARK 465 HIS A 318 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 ARG A 139 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 O HOH A 560 O HOH A 752 1.71 REMARK 500 CD LYS A 306 O ALA A 308 1.83 REMARK 500 O HOH A 752 O HOH A 756 1.99 REMARK 500 O HOH A 663 O HOH A 789 2.06 REMARK 500 O HOH A 662 O HOH A 760 2.07 REMARK 500 O HOH A 681 O HOH A 789 2.08 REMARK 500 OE1 GLU A 55 O HOH A 501 2.11 REMARK 500 O HOH A 601 O HOH A 662 2.11 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 608 O HOH A 760 4455 1.89 REMARK 500 O HOH A 599 O HOH A 760 4455 1.95 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 RES CSSEQI ATM2 DEVIATION REMARK 500 GLU A 303 CD GLU A 303 OE2 -0.075 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 ALA A 122 -142.14 -124.72 REMARK 500 PHE A 267 92.69 83.83 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 PG4 A 404 REMARK 610 PG4 A 405 REMARK 610 PG4 A 406 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 CO A 401 CO REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 146 NE2 REMARK 620 2 ASP A 148 OD1 92.6 REMARK 620 3 HIS A 260 NE2 88.3 94.3 REMARK 620 4 AKG A 402 O5 90.4 172.5 92.6 REMARK 620 5 AKG A 402 O2 166.9 98.8 97.3 77.6 REMARK 620 6 HOH A 650 O 87.0 86.1 175.3 87.2 87.3 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 CO A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue AKG A 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PG4 A 403 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PG4 A 404 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PG4 A 405 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PG4 A 406 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 A 407 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 A 408 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 A 409 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ACT A 410 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ACT A 411 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ACT A 412 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ACT A 413 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ACT A 414 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ACT A 415 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 416 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL A 417 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL A 418 REMARK 800 REMARK 800 SITE_IDENTIFIER: AE1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL A 419 DBREF 5Y9X A 1 305 UNP B3DUR4 B3DUR4_METI4 1 305 SEQADV 5Y9X LYS A 306 UNP B3DUR4 EXPRESSION TAG SEQADV 5Y9X LEU A 307 UNP B3DUR4 EXPRESSION TAG SEQADV 5Y9X ALA A 308 UNP B3DUR4 EXPRESSION TAG SEQADV 5Y9X ALA A 309 UNP B3DUR4 EXPRESSION TAG SEQADV 5Y9X ALA A 310 UNP B3DUR4 EXPRESSION TAG SEQADV 5Y9X LEU A 311 UNP B3DUR4 EXPRESSION TAG SEQADV 5Y9X GLU A 312 UNP B3DUR4 EXPRESSION TAG SEQADV 5Y9X HIS A 313 UNP B3DUR4 EXPRESSION TAG SEQADV 5Y9X HIS A 314 UNP B3DUR4 EXPRESSION TAG SEQADV 5Y9X HIS A 315 UNP B3DUR4 EXPRESSION TAG SEQADV 5Y9X HIS A 316 UNP B3DUR4 EXPRESSION TAG SEQADV 5Y9X HIS A 317 UNP B3DUR4 EXPRESSION TAG SEQADV 5Y9X HIS A 318 UNP B3DUR4 EXPRESSION TAG SEQRES 1 A 318 MET PHE PRO MET ASP THR LYS THR ASN GLU GLN PRO ILE SEQRES 2 A 318 ILE GLN PHE ASP ALA GLU SER TRP GLU ALA GLU PHE THR SEQRES 3 A 318 GLN GLU ILE GLN ASP LYS ALA ILE GLU GLY LEU GLU SER SEQRES 4 A 318 GLY SER VAL LEU PHE PHE PRO LYS LEU ASN PHE PRO LEU SEQRES 5 A 318 LEU THR GLU GLU LEU LYS PHE LEU ASP PRO THR TRP VAL SEQRES 6 A 318 SER GLY ALA LYS ASN ILE SER TYR ASP PRO ARG SER ALA SEQRES 7 A 318 THR LEU LYS GLY VAL GLU GLY LYS SER GLU ASP LEU ARG SEQRES 8 A 318 LEU LEU SER GLY LEU LEU LYS ARG TYR ALA GLU LYS THR SEQRES 9 A 318 ALA ALA PHE LEU HIS LEU LEU PHE PRO PHE TYR GLY SER SEQRES 10 A 318 SER LEU LYS ILE ALA ARG THR SER PHE ARG PRO VAL GLU SEQRES 11 A 318 ILE SER GLY ARG ALA THR SER ALA ARG LYS ASP ASP THR SEQRES 12 A 318 ARG LEU HIS VAL ASP ALA PHE PRO SER SER PRO THR GLY SEQRES 13 A 318 GLY GLU ARG ILE LEU ARG VAL PHE SER ASN ILE ASN PRO SEQRES 14 A 318 GLN GLY LYS PRO ARG SER TRP ARG ILE GLY GLU PRO PHE SEQRES 15 A 318 GLN ASN TYR LEU ASN HIS LEU LEU PRO GLN LEU SER PRO SEQRES 16 A 318 PRO ALA PRO GLY LYS ARG PHE LEU LEU TYR LEU PHE GLY SEQRES 17 A 318 ILE THR LYS GLY TYR ARG SER LEU TYR ASP HIS TYR MET SEQRES 18 A 318 LEU GLU LEU HIS ASP LYS GLY LYS LEU ASP LEU GLU TYR SEQRES 19 A 318 GLN LYS ASN SER PRO GLN VAL ALA PHE ASP PHE PRO ALA SEQRES 20 A 318 GLY SER THR TRP ILE VAL PHE THR ASP GLN VAL LEU HIS SEQRES 21 A 318 ALA VAL ASP LYS GLY GLN PHE LEU LEU GLU GLN THR PHE SEQRES 22 A 318 HIS LEU LYS VAL ASN ALA LEU LYS HIS PRO GLU LYS SER SEQRES 23 A 318 PRO LEU LYS LEU LEU GLU THR ALA LEU ASN LYS LYS LEU SEQRES 24 A 318 VAL SER SER GLU SER PHE LYS LEU ALA ALA ALA LEU GLU SEQRES 25 A 318 HIS HIS HIS HIS HIS HIS HET CO A 401 1 HET AKG A 402 10 HET PG4 A 403 13 HET PG4 A 404 10 HET PG4 A 405 10 HET PG4 A 406 7 HET SO4 A 407 5 HET SO4 A 408 5 HET SO4 A 409 5 HET ACT A 410 4 HET ACT A 411 4 HET ACT A 412 4 HET ACT A 413 4 HET ACT A 414 4 HET ACT A 415 4 HET GOL A 416 6 HET CL A 417 1 HET CL A 418 1 HET CL A 419 1 HETNAM CO COBALT (II) ION HETNAM AKG 2-OXOGLUTARIC ACID HETNAM PG4 TETRAETHYLENE GLYCOL HETNAM SO4 SULFATE ION HETNAM ACT ACETATE ION HETNAM GOL GLYCEROL HETNAM CL CHLORIDE ION HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 2 CO CO 2+ FORMUL 3 AKG C5 H6 O5 FORMUL 4 PG4 4(C8 H18 O5) FORMUL 8 SO4 3(O4 S 2-) FORMUL 11 ACT 6(C2 H3 O2 1-) FORMUL 17 GOL C3 H8 O3 FORMUL 18 CL 3(CL 1-) FORMUL 21 HOH *320(H2 O) HELIX 1 AA1 THR A 26 SER A 39 1 14 HELIX 2 AA2 LEU A 53 LEU A 60 5 8 HELIX 3 AA3 ASP A 61 VAL A 65 5 5 HELIX 4 AA4 LYS A 86 PHE A 112 1 27 HELIX 5 AA5 PRO A 113 LEU A 119 5 7 HELIX 6 AA6 GLU A 130 ARG A 134 5 5 HELIX 7 AA7 PRO A 181 LEU A 190 1 10 HELIX 8 AA8 PRO A 191 LEU A 193 5 3 HELIX 9 AA9 GLY A 199 PHE A 207 1 9 HELIX 10 AB1 SER A 215 ASP A 231 1 17 HELIX 11 AB2 ASP A 231 SER A 238 1 8 HELIX 12 AB3 LYS A 276 LEU A 280 5 5 HELIX 13 AB4 HIS A 282 LYS A 285 5 4 HELIX 14 AB5 SER A 286 ASN A 296 1 11 SHEET 1 AA1 8 ILE A 13 GLN A 15 0 SHEET 2 AA1 8 VAL A 42 PHE A 45 1 O VAL A 42 N ILE A 14 SHEET 3 AA1 8 THR A 250 PHE A 254 -1 O THR A 250 N PHE A 45 SHEET 4 AA1 8 ARG A 159 ASN A 166 -1 N PHE A 164 O TRP A 251 SHEET 5 AA1 8 LEU A 268 LEU A 275 -1 O LEU A 275 N ARG A 159 SHEET 6 AA1 8 LYS A 120 ARG A 127 -1 N SER A 125 O GLU A 270 SHEET 7 AA1 8 ILE A 71 ASP A 74 -1 N TYR A 73 O THR A 124 SHEET 8 AA1 8 THR A 79 LYS A 81 -1 O LYS A 81 N SER A 72 SHEET 1 AA2 3 GLN A 240 PHE A 245 0 SHEET 2 AA2 3 ARG A 174 GLY A 179 -1 N TRP A 176 O PHE A 243 SHEET 3 AA2 3 HIS A 260 LYS A 264 -1 O ASP A 263 N SER A 175 LINK NE2 HIS A 146 CO CO A 401 1555 1555 2.16 LINK OD1 ASP A 148 CO CO A 401 1555 1555 2.05 LINK NE2 HIS A 260 CO CO A 401 1555 1555 2.13 LINK CO CO A 401 O5 AKG A 402 1555 1555 2.24 LINK CO CO A 401 O2 AKG A 402 1555 1555 2.07 LINK CO CO A 401 O HOH A 650 1555 1555 2.22 SITE 1 AC1 5 HIS A 146 ASP A 148 HIS A 260 AKG A 402 SITE 2 AC1 5 HOH A 650 SITE 1 AC2 13 ARG A 127 ASP A 142 HIS A 146 ASP A 148 SITE 2 AC2 13 ARG A 162 PHE A 164 ARG A 174 TRP A 176 SITE 3 AC2 13 HIS A 260 VAL A 262 CO A 401 HOH A 623 SITE 4 AC2 13 HOH A 650 SITE 1 AC3 8 GLU A 22 LEU A 57 LYS A 58 GLU A 102 SITE 2 AC3 8 LYS A 103 HOH A 507 HOH A 517 HOH A 580 SITE 1 AC4 4 TYR A 205 HOH A 594 HOH A 607 HOH A 638 SITE 1 AC5 11 ARG A 201 TYR A 213 SER A 215 LEU A 216 SITE 2 AC5 11 LEU A 299 SER A 301 SER A 302 ACT A 414 SITE 3 AC5 11 HOH A 520 HOH A 624 HOH A 726 SITE 1 AC6 5 ARG A 177 GLN A 235 GLN A 240 ASP A 263 SITE 2 AC6 5 ASN A 296 SITE 1 AC7 4 SER A 118 LYS A 120 LYS A 276 HOH A 516 SITE 1 AC8 7 PRO A 12 LEU A 193 SER A 194 PRO A 195 SITE 2 AC8 7 TYR A 220 LEU A 295 HOH A 508 SITE 1 AC9 3 ARG A 76 HIS A 274 ACT A 411 SITE 1 AD1 5 LYS A 140 PHE A 150 PRO A 151 SER A 152 SITE 2 AD1 5 HOH A 532 SITE 1 AD2 5 PHE A 150 SER A 153 HIS A 274 SO4 A 409 SITE 2 AD2 5 HOH A 504 SITE 1 AD3 5 LYS A 81 LYS A 276 ASN A 278 SER A 304 SITE 2 AD3 5 HOH A 631 SITE 1 AD4 1 HOH A 503 SITE 1 AD5 6 PRO A 198 GLY A 199 ARG A 201 PG4 A 405 SITE 2 AD5 6 CL A 418 HOH A 640 SITE 1 AD6 1 ARG A 214 SITE 1 AD7 7 ILE A 131 LYS A 140 ASP A 142 VAL A 262 SITE 2 AD7 7 HOH A 542 HOH A 623 HOH A 626 SITE 1 AD8 6 PHE A 16 ASP A 17 ILE A 29 LYS A 32 SITE 2 AD8 6 HOH A 715 HOH A 751 SITE 1 AD9 4 GLY A 199 PHE A 202 TYR A 213 ACT A 414 SITE 1 AE1 2 LYS A 86 SER A 87 CRYST1 46.038 59.263 116.253 90.00 90.00 90.00 P 21 21 21 4 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 0.021721 0.000000 0.000000 0.00000 SCALE2 0.000000 0.016874 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008602 0.00000