HEADER OXIDOREDUCTASE 20-MAR-20 6YDI TITLE XFEL STRUCTURE OF THE SOLUBLE METHANE MONOOXYGENASE HYDROXYLASE AND TITLE 2 REGULATORY SUBUNIT COMPLEX, FROM METHYLOSINUS TRICHOSPORIUM OB3B, TITLE 3 DIFERROUS STATE COMPND MOL_ID: 1; COMPND 2 MOLECULE: METHANE MONOOXYGENASE; COMPND 3 CHAIN: B; COMPND 4 MOL_ID: 2; COMPND 5 MOLECULE: METHANE MONOOXYGENASE COMPONENT A ALPHA CHAIN; COMPND 6 CHAIN: D; COMPND 7 SYNONYM: METHANE HYDROXYLASE; COMPND 8 EC: 1.14.13.25; COMPND 9 MOL_ID: 3; COMPND 10 MOLECULE: METHANE MONOOXYGENASE; COMPND 11 CHAIN: F; COMPND 12 MOL_ID: 4; COMPND 13 MOLECULE: METHANE MONOOXYGENASE REGULATORY PROTEIN B; COMPND 14 CHAIN: G; COMPND 15 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: METHYLOSINUS TRICHOSPORIUM OB3B; SOURCE 3 ORGANISM_TAXID: 595536; SOURCE 4 MOL_ID: 2; SOURCE 5 ORGANISM_SCIENTIFIC: METHYLOSINUS TRICHOSPORIUM OB3B; SOURCE 6 ORGANISM_TAXID: 595536; SOURCE 7 MOL_ID: 3; SOURCE 8 ORGANISM_SCIENTIFIC: METHYLOSINUS TRICHOSPORIUM OB3B; SOURCE 9 ORGANISM_TAXID: 595536; SOURCE 10 MOL_ID: 4; SOURCE 11 ORGANISM_SCIENTIFIC: METHYLOSINUS TRICHOSPORIUM OB3B; SOURCE 12 ORGANISM_TAXID: 595536; SOURCE 13 GENE: MMOB; SOURCE 14 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 15 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS FERRITIN SUPERFAMILY, SOLUBLE METHANE MONOOXYGENASE, DI-IRON OXYGEN KEYWDS 2 ACTIVATION, SUBSTRATE OXIDATION., OXIDOREDUCTASE EXPDTA X-RAY DIFFRACTION AUTHOR V.SRINIVAS,M.HOGBOM REVDAT 2 24-JAN-24 6YDI 1 REMARK REVDAT 1 30-SEP-20 6YDI 0 JRNL AUTH V.SRINIVAS,R.BANERJEE,H.LEBRETTE,J.C.JONES,O.AURELIUS, JRNL AUTH 2 I.S.KIM,C.C.PHAM,S.GUL,K.D.SUTHERLIN,A.BHOWMICK,J.JOHN, JRNL AUTH 3 E.BOZKURT,T.FRANSSON,P.ALLER,A.BUTRYN,I.BOGACZ,P.SIMON, JRNL AUTH 4 S.KEABLE,A.BRITZ,K.TONO,K.S.KIM,S.Y.PARK,S.J.LEE,J.PARK, JRNL AUTH 5 R.ALONSO-MORI,F.D.FULLER,A.BATYUK,A.S.BREWSTER,U.BERGMANN, JRNL AUTH 6 N.K.SAUTER,A.M.ORVILLE,V.K.YACHANDRA,J.YANO,J.D.LIPSCOMB, JRNL AUTH 7 J.KERN,M.HOGBOM JRNL TITL HIGH-RESOLUTION XFEL STRUCTURE OF THE SOLUBLE METHANE JRNL TITL 2 MONOOXYGENASE HYDROXYLASE COMPLEX WITH ITS REGULATORY JRNL TITL 3 COMPONENT AT AMBIENT TEMPERATURE IN TWO OXIDATION STATES. JRNL REF J. AM. CHEM. SOC. V. 142 14249 2020 JRNL REFN ESSN 1520-5126 JRNL DOI 10.1021/JACS.0C05613 REMARK 2 REMARK 2 RESOLUTION. 1.95 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.18.2_3874 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 : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.95 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 33.71 REMARK 3 MIN(FOBS/SIGMA_FOBS) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 128981 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.176 REMARK 3 R VALUE (WORKING SET) : 0.175 REMARK 3 FREE R VALUE : 0.197 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 1.550 REMARK 3 FREE R VALUE TEST SET COUNT : 1999 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 33.7100 - 4.7000 1.00 9648 153 0.1603 0.1819 REMARK 3 2 4.7000 - 3.7300 1.00 9260 145 0.1332 0.1371 REMARK 3 3 3.7300 - 3.2600 1.00 9149 144 0.1486 0.1807 REMARK 3 4 3.2600 - 2.9600 1.00 9083 143 0.1711 0.1914 REMARK 3 5 2.9600 - 2.7500 1.00 9062 143 0.1714 0.1904 REMARK 3 6 2.7500 - 2.5900 1.00 9059 143 0.1888 0.2261 REMARK 3 7 2.5900 - 2.4600 1.00 9005 142 0.2049 0.2366 REMARK 3 8 2.4600 - 2.3500 1.00 8984 141 0.2093 0.2547 REMARK 3 9 2.3500 - 2.2600 1.00 8973 141 0.2243 0.2597 REMARK 3 10 2.2600 - 2.1800 1.00 8946 140 0.2349 0.2396 REMARK 3 11 2.1800 - 2.1100 1.00 8979 142 0.2601 0.3001 REMARK 3 12 2.1100 - 2.0500 1.00 8928 141 0.2850 0.3185 REMARK 3 13 2.0500 - 2.0000 1.00 8951 141 0.3239 0.3260 REMARK 3 14 2.0000 - 1.9500 1.00 8887 140 0.3629 0.4187 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) : 0.270 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 24.030 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 41.14 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 45.74 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 : NULL NULL REMARK 3 ANGLE : NULL NULL REMARK 3 CHIRALITY : NULL NULL REMARK 3 PLANARITY : NULL NULL REMARK 3 DIHEDRAL : NULL NULL 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 6YDI COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 21-MAR-20. REMARK 100 THE DEPOSITION ID IS D_1292107425. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 08-DEC-18 REMARK 200 TEMPERATURE (KELVIN) : 298 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : FREE ELECTRON LASER REMARK 200 BEAMLINE : MFX REMARK 200 X-RAY GENERATOR MODEL : SLAC LCLS BEAMLINE MFX REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.30448 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : RAYONIX MX340-HS REMARK 200 INTENSITY-INTEGRATION SOFTWARE : CCTBX.XFEL REMARK 200 DATA SCALING SOFTWARE : CXI.MERGE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 128981 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.950 REMARK 200 RESOLUTION RANGE LOW (A) : 33.710 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 80.49 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 27.5190 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.95 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.02 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.7 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: PHASER REMARK 200 STARTING MODEL: 6YD0 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 60.48 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.11 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 30 MM SODIUM-IODIDE, 30 MM SODIUM REMARK 280 -BROMIDE, 30 MM SODIUM-FLUORIDE, 20% (V/V) GLYCEROL, 10% (W/V) REMARK 280 PEG 4000, 100 MM HEPES/MOPS PH 7.5 10 MM IRON(III) CHLORIDE, REMARK 280 VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 298K 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 151.99450 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 53.47300 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 53.47300 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 75.99725 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 53.47300 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 53.47300 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 227.99175 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 53.47300 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 53.47300 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 75.99725 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 53.47300 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 53.47300 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 227.99175 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 151.99450 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: OCTAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: OCTAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 55610 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 66060 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -269.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: B, D, F, G REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 2 0.000000 1.000000 0.000000 106.94600 REMARK 350 BIOMT2 2 1.000000 0.000000 0.000000 -106.94600 REMARK 350 BIOMT3 2 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 B 610 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 B 1 REMARK 465 SER B 2 REMARK 465 GLN B 3 REMARK 465 PRO B 4 REMARK 465 LYS B 394 REMARK 465 ASN B 395 REMARK 465 MET D 1 REMARK 465 ALA D 2 REMARK 465 ILE D 3 REMARK 465 SER D 4 REMARK 465 LEU D 5 REMARK 465 ALA D 6 REMARK 465 THR D 7 REMARK 465 LYS D 8 REMARK 465 ALA D 9 REMARK 465 ALA D 10 REMARK 465 THR D 11 REMARK 465 ASP D 12 REMARK 465 ALA D 13 REMARK 465 LEU D 14 REMARK 465 LYS D 15 REMARK 465 MET F 1 REMARK 465 MET G 1 REMARK 465 SER G 2 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 TRP B 46 -162.68 -110.67 REMARK 500 ASP B 97 112.09 -160.93 REMARK 500 THR B 258 -73.11 -109.82 REMARK 500 PHE B 267 -70.37 -97.44 REMARK 500 CYS B 305 -72.57 -100.83 REMARK 500 ALA B 351 -63.83 -126.42 REMARK 500 TYR B 372 -54.95 -127.20 REMARK 500 ASP D 84 -80.34 -96.30 REMARK 500 ASP D 170 23.98 -151.08 REMARK 500 ALA D 189 -77.91 -133.37 REMARK 500 LYS D 295 -60.68 -92.89 REMARK 500 TRP D 317 -65.04 -98.48 REMARK 500 HIS D 382 -69.15 -105.04 REMARK 500 HIS D 413 61.73 -101.35 REMARK 500 SER F 42 167.04 80.63 REMARK 500 LYS G 58 -86.42 -113.10 REMARK 500 ALA G 73 -73.93 73.48 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 FE2 D 601 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU D 114 OE1 REMARK 620 2 GLU D 144 OE2 95.0 REMARK 620 3 HIS D 147 ND1 102.9 92.2 REMARK 620 4 GLU D 243 OE1 163.1 99.6 85.2 REMARK 620 5 HOH D 708 O 79.5 163.2 104.4 84.2 REMARK 620 6 HOH D 882 O 88.5 93.4 166.8 82.2 70.8 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 FE2 D 602 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU D 144 OE1 REMARK 620 2 GLU D 209 OE2 99.3 REMARK 620 3 GLU D 243 OE1 106.3 153.3 REMARK 620 4 GLU D 243 OE2 164.0 96.5 57.8 REMARK 620 5 HIS D 246 ND1 87.5 106.8 82.2 89.6 REMARK 620 6 HOH D 882 O 87.8 98.7 75.1 88.0 154.5 REMARK 620 N 1 2 3 4 5 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 6YD0 RELATED DB: PDB REMARK 900 RELATED ID: 6YDU RELATED DB: PDB REMARK 900 RELATED ID: 6YY3 RELATED DB: PDB DBREF1 6YDI B 1 395 UNP A0A2D2D5X7_METTR DBREF2 6YDI B A0A2D2D5X7 1 395 DBREF 6YDI D 1 526 UNP P27353 MEMA_METTR 1 526 DBREF1 6YDI F 1 169 UNP A0A1A6FHH2_9RHIZ DBREF2 6YDI F A0A1A6FHH2 1 169 DBREF 6YDI G 1 138 UNP P27356 MMOB_METTR 1 138 SEQRES 1 B 395 MET SER GLN PRO GLN SER SER GLN VAL THR LYS ARG GLY SEQRES 2 B 395 LEU THR ASP PRO GLU ARG ALA ALA ILE ILE ALA ALA ALA SEQRES 3 B 395 VAL PRO ASP HIS ALA LEU ASP THR GLN ARG LYS TYR HIS SEQRES 4 B 395 TYR PHE ILE GLN PRO ARG TRP LYS ARG LEU SER GLU TYR SEQRES 5 B 395 GLU GLN LEU SER CYS TYR ALA GLN PRO ASN PRO ASP TRP SEQRES 6 B 395 ILE ALA GLY GLY LEU ASP TRP GLY ASP TRP THR GLN LYS SEQRES 7 B 395 PHE HIS GLY GLY ARG PRO SER TRP GLY ASN GLU SER THR SEQRES 8 B 395 GLU LEU ARG THR THR ASP TRP TYR ARG HIS ARG ASP PRO SEQRES 9 B 395 ALA ARG ARG TRP HIS HIS PRO TYR VAL LYS ASP LYS SER SEQRES 10 B 395 GLU GLU ALA ARG TYR THR GLN ARG PHE LEU ALA ALA TYR SEQRES 11 B 395 SER SER GLU GLY SER ILE ARG THR ILE ASP PRO TYR TRP SEQRES 12 B 395 ARG ASP GLU ILE LEU ASN LYS TYR PHE GLY ALA LEU LEU SEQRES 13 B 395 TYR SER GLU TYR GLY LEU PHE ASN ALA HIS SER SER VAL SEQRES 14 B 395 GLY ARG ASP CYS LEU SER ASP THR ILE ARG GLN THR ALA SEQRES 15 B 395 VAL PHE ALA ALA LEU ASP LYS VAL ASP ASN ALA GLN MET SEQRES 16 B 395 ILE GLN MET GLU ARG LEU PHE ILE ALA LYS LEU VAL PRO SEQRES 17 B 395 GLY PHE ASP ALA SER THR ASP VAL PRO LYS LYS ILE TRP SEQRES 18 B 395 THR THR ASP PRO ILE TYR SER GLY ALA ARG ALA THR VAL SEQRES 19 B 395 GLN GLU ILE TRP GLN GLY VAL GLN ASP TRP ASN GLU ILE SEQRES 20 B 395 LEU TRP ALA GLY HIS ALA VAL TYR ASP ALA THR PHE GLY SEQRES 21 B 395 GLN PHE ALA ARG ARG GLU PHE PHE GLN ARG LEU ALA THR SEQRES 22 B 395 VAL TYR GLY ASP THR LEU THR PRO PHE PHE THR ALA GLN SEQRES 23 B 395 SER GLN THR TYR PHE GLN THR THR ARG GLY ALA ILE ASP SEQRES 24 B 395 ASP LEU PHE VAL TYR CYS LEU ALA ASN ASP SER GLU PHE SEQRES 25 B 395 GLY ALA HIS ASN ARG THR PHE LEU ASN ALA TRP THR GLU SEQRES 26 B 395 HIS TYR LEU ALA SER SER VAL ALA ALA LEU LYS ASP PHE SEQRES 27 B 395 VAL GLY LEU TYR ALA LYS VAL GLU LYS VAL ALA GLY ALA SEQRES 28 B 395 THR ASP ARG ALA GLY VAL SER GLU ALA LEU GLN ARG VAL SEQRES 29 B 395 PHE GLY ASP TRP LYS ILE ASP TYR ALA ASP LYS ILE GLY SEQRES 30 B 395 PHE ARG VAL ASP VAL ASP GLN LYS VAL ASP ALA VAL LEU SEQRES 31 B 395 ALA GLY TYR LYS ASN SEQRES 1 D 526 MET ALA ILE SER LEU ALA THR LYS ALA ALA THR ASP ALA SEQRES 2 D 526 LEU LYS VAL ASN ARG ALA PRO VAL GLY VAL GLU PRO GLN SEQRES 3 D 526 GLU VAL HIS LYS TRP LEU GLN SER PHE ASN TRP ASP PHE SEQRES 4 D 526 LYS GLU ASN ARG THR LYS TYR PRO THR LYS TYR HIS MET SEQRES 5 D 526 ALA ASN GLU THR LYS GLU GLN PHE LYS VAL ILE ALA LYS SEQRES 6 D 526 GLU TYR ALA ARG MET GLU ALA ALA LYS ASP GLU ARG GLN SEQRES 7 D 526 PHE GLY THR LEU LEU ASP GLY LEU THR ARG LEU GLY ALA SEQRES 8 D 526 GLY ASN LYS VAL HIS PRO ARG TRP GLY GLU THR MET LYS SEQRES 9 D 526 VAL ILE SER ASN PHE LEU GLU VAL GLY GLU TYR ASN ALA SEQRES 10 D 526 ILE ALA ALA SER ALA MET LEU TRP ASP SER ALA THR ALA SEQRES 11 D 526 ALA GLU GLN LYS ASN GLY TYR LEU ALA GLN VAL LEU ASP SEQRES 12 D 526 GLU ILE ARG HIS THR HIS GLN CYS ALA PHE ILE ASN HIS SEQRES 13 D 526 TYR TYR SER LYS HIS TYR HIS ASP PRO ALA GLY HIS ASN SEQRES 14 D 526 ASP ALA ARG ARG THR ARG ALA ILE GLY PRO LEU TRP LYS SEQRES 15 D 526 GLY MET LYS ARG VAL PHE ALA ASP GLY PHE ILE SER GLY SEQRES 16 D 526 ASP ALA VAL GLU CYS SER VAL ASN LEU GLN LEU VAL GLY SEQRES 17 D 526 GLU ALA CYS PHE THR ASN PRO LEU ILE VAL ALA VAL THR SEQRES 18 D 526 GLU TRP ALA SER ALA ASN GLY ASP GLU ILE THR PRO THR SEQRES 19 D 526 VAL PHE LEU SER VAL GLU THR ASP GLU LEU ARG HIS MET SEQRES 20 D 526 ALA ASN GLY TYR GLN THR VAL VAL SER ILE ALA ASN ASP SEQRES 21 D 526 PRO ALA SER ALA LYS PHE LEU ASN THR ASP LEU ASN ASN SEQRES 22 D 526 ALA PHE TRP THR GLN GLN LYS TYR PHE THR PRO VAL LEU SEQRES 23 D 526 GLY TYR LEU PHE GLU TYR GLY SER LYS PHE LYS VAL GLU SEQRES 24 D 526 PRO TRP VAL LYS THR TRP ASN ARG TRP VAL TYR GLU ASP SEQRES 25 D 526 TRP GLY GLY ILE TRP ILE GLY ARG LEU GLY LYS TYR GLY SEQRES 26 D 526 VAL GLU SER PRO ALA SER LEU ARG ASP ALA LYS ARG ASP SEQRES 27 D 526 ALA TYR TRP ALA HIS HIS ASP LEU ALA LEU ALA ALA TYR SEQRES 28 D 526 ALA MET TRP PRO LEU GLY PHE ALA ARG LEU ALA LEU PRO SEQRES 29 D 526 ASP GLU GLU ASP GLN ALA TRP PHE GLU ALA ASN TYR PRO SEQRES 30 D 526 GLY TRP ALA ASP HIS TYR GLY LYS ILE PHE ASN GLU TRP SEQRES 31 D 526 LYS LYS LEU GLY TYR GLU ASP PRO LYS SER GLY PHE ILE SEQRES 32 D 526 PRO TYR GLN TRP LEU LEU ALA ASN GLY HIS ASP VAL TYR SEQRES 33 D 526 ILE ASP ARG VAL SER GLN VAL PRO PHE ILE PRO SER LEU SEQRES 34 D 526 ALA LYS GLY THR GLY SER LEU ARG VAL HIS GLU PHE ASN SEQRES 35 D 526 GLY LYS LYS HIS SER LEU THR ASP ASP TRP GLY GLU ARG SEQRES 36 D 526 GLN TRP LEU ILE GLU PRO GLU ARG TYR GLU CYS HIS ASN SEQRES 37 D 526 VAL PHE GLU GLN TYR GLU GLY ARG GLU LEU SER GLU VAL SEQRES 38 D 526 ILE ALA GLU GLY HIS GLY VAL ARG SER ASP GLY LYS THR SEQRES 39 D 526 LEU ILE ALA GLN PRO HIS THR ARG GLY ASP ASN LEU TRP SEQRES 40 D 526 THR LEU GLU ASP ILE LYS ARG ALA GLY CYS VAL PHE PRO SEQRES 41 D 526 ASP PRO LEU ALA LYS PHE SEQRES 1 F 169 MET ALA LYS ARG GLU PRO ILE HIS ASP ASN SER ILE ARG SEQRES 2 F 169 THR GLU TRP GLU ALA LYS ILE ALA LYS LEU THR SER VAL SEQRES 3 F 169 ASP GLN ALA THR LYS PHE ILE GLN ASP PHE ARG LEU ALA SEQRES 4 F 169 TYR THR SER PRO PHE ARG LYS SER TYR ASP ILE ASP VAL SEQRES 5 F 169 ASP TYR GLN TYR ILE GLU ARG LYS ILE GLU GLU LYS LEU SEQRES 6 F 169 SER VAL LEU LYS THR GLU LYS LEU PRO VAL ALA ASP LEU SEQRES 7 F 169 ILE THR LYS ALA THR THR GLY GLU ASP ALA ALA ALA VAL SEQRES 8 F 169 GLU ALA THR TRP ILE ALA LYS ILE LYS ALA ALA LYS SER SEQRES 9 F 169 LYS TYR GLU ALA GLU ARG ILE HIS ILE GLU PHE ARG GLN SEQRES 10 F 169 LEU TYR LYS PRO PRO VAL LEU PRO VAL ASN VAL PHE LEU SEQRES 11 F 169 ARG THR ASP ALA ALA LEU GLY THR VAL LEU MET GLU ILE SEQRES 12 F 169 ARG ASN THR ASP TYR TYR GLY THR PRO LEU GLU GLY LEU SEQRES 13 F 169 ARG LYS GLU ARG GLY VAL LYS VAL LEU HIS LEU GLN ALA SEQRES 1 G 138 MET SER SER ALA HIS ASN ALA TYR ASN ALA GLY ILE MET SEQRES 2 G 138 GLN LYS THR GLY LYS ALA PHE ALA ASP GLU PHE PHE ALA SEQRES 3 G 138 GLU GLU ASN GLN VAL VAL HIS GLU SER ASN ALA VAL VAL SEQRES 4 G 138 LEU VAL LEU MET LYS SER ASP GLU ILE ASP ALA ILE ILE SEQRES 5 G 138 GLU ASP ILE VAL LEU LYS GLY GLY LYS ALA LYS ASN PRO SEQRES 6 G 138 SER ILE VAL VAL GLU ASP LYS ALA GLY PHE TRP TRP ILE SEQRES 7 G 138 LYS ALA ASP GLY ALA ILE GLU ILE ASP ALA ALA GLU ALA SEQRES 8 G 138 GLY GLU LEU LEU GLY LYS PRO PHE SER VAL TYR ASP LEU SEQRES 9 G 138 LEU ILE ASN VAL SER SER THR VAL GLY ARG ALA TYR THR SEQRES 10 G 138 LEU GLY THR LYS PHE THR ILE THR SER GLU LEU MET GLY SEQRES 11 G 138 LEU ASP ARG ALA LEU THR ASP ILE HET GOL B 401 6 HET FE2 D 601 1 HET FE2 D 602 1 HETNAM GOL GLYCEROL HETNAM FE2 FE (II) ION HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 5 GOL C3 H8 O3 FORMUL 6 FE2 2(FE 2+) FORMUL 8 HOH *469(H2 O) HELIX 1 AA1 ASP B 16 VAL B 27 1 12 HELIX 2 AA2 SER B 50 CYS B 57 1 8 HELIX 3 AA3 GLY B 87 THR B 91 5 5 HELIX 4 AA4 ASP B 97 HIS B 101 5 5 HELIX 5 AA5 TRP B 108 GLY B 134 1 27 HELIX 6 AA6 SER B 135 ILE B 139 5 5 HELIX 7 AA7 ASP B 140 GLU B 146 1 7 HELIX 8 AA8 GLU B 146 ALA B 165 1 20 HELIX 9 AA9 ALA B 165 CYS B 173 1 9 HELIX 10 AB1 SER B 175 VAL B 207 1 33 HELIX 11 AB2 THR B 214 ASP B 224 1 11 HELIX 12 AB3 TYR B 227 GLY B 240 1 14 HELIX 13 AB4 ASP B 243 VAL B 254 1 12 HELIX 14 AB5 VAL B 254 ARG B 265 1 12 HELIX 15 AB6 PHE B 267 THR B 273 1 7 HELIX 16 AB7 LEU B 279 VAL B 303 1 25 HELIX 17 AB8 CYS B 305 ASP B 309 5 5 HELIX 18 AB9 PHE B 312 VAL B 339 1 28 HELIX 19 AC1 GLY B 340 VAL B 345 5 6 HELIX 20 AC2 ASP B 353 TYR B 372 1 20 HELIX 21 AC3 ALA B 373 ILE B 376 5 4 HELIX 22 AC4 ASP B 381 ALA B 391 1 11 HELIX 23 AC5 GLU D 24 LYS D 30 1 7 HELIX 24 AC6 TRP D 31 ASN D 36 5 6 HELIX 25 AC7 ILE D 63 ASP D 84 1 22 HELIX 26 AC8 ASP D 84 LEU D 89 1 6 HELIX 27 AC9 GLY D 90 LYS D 94 5 5 HELIX 28 AD1 HIS D 96 ALA D 128 1 33 HELIX 29 AD2 ALA D 130 TYR D 162 1 33 HELIX 30 AD3 ASP D 170 ARG D 175 1 6 HELIX 31 AD4 GLY D 178 ALA D 189 1 12 HELIX 32 AD5 ALA D 189 SER D 194 1 6 HELIX 33 AD6 ASP D 196 GLN D 205 1 10 HELIX 34 AD7 PHE D 212 VAL D 218 1 7 HELIX 35 AD8 VAL D 218 ASN D 227 1 10 HELIX 36 AD9 GLU D 230 ILE D 257 1 28 HELIX 37 AE1 ASP D 260 GLY D 293 1 34 HELIX 38 AE2 PRO D 300 VAL D 309 1 10 HELIX 39 AE3 GLU D 311 TRP D 317 1 7 HELIX 40 AE4 TRP D 317 GLY D 322 1 6 HELIX 41 AE5 LYS D 323 GLY D 325 5 3 HELIX 42 AE6 SER D 331 MET D 353 1 23 HELIX 43 AE7 TRP D 354 GLY D 357 5 4 HELIX 44 AE8 ASP D 365 TYR D 376 1 12 HELIX 45 AE9 GLY D 378 GLY D 394 1 17 HELIX 46 AF1 ASP D 397 GLY D 401 5 5 HELIX 47 AF2 ILE D 403 ASN D 411 1 9 HELIX 48 AF3 ASP D 450 GLU D 460 1 11 HELIX 49 AF4 PRO D 461 TYR D 464 5 4 HELIX 50 AF5 ASN D 468 GLU D 474 1 7 HELIX 51 AF6 GLU D 477 GLY D 485 1 9 HELIX 52 AF7 THR D 508 ALA D 515 1 8 HELIX 53 AF8 ASN F 10 LYS F 22 1 13 HELIX 54 AF9 SER F 25 THR F 41 1 17 HELIX 55 AG1 ASP F 53 LEU F 73 1 21 HELIX 56 AG2 PRO F 74 LYS F 81 1 8 HELIX 57 AG3 ASP F 87 ALA F 101 1 15 HELIX 58 AG4 SER F 104 LYS F 120 1 17 HELIX 59 AG5 PRO F 125 ASN F 145 1 21 HELIX 60 AG6 PRO F 152 GLY F 161 1 10 HELIX 61 AG7 SER G 3 ALA G 7 5 5 HELIX 62 AG8 ALA G 10 LYS G 15 5 6 HELIX 63 AG9 THR G 16 PHE G 25 1 10 HELIX 64 AH1 ALA G 26 VAL G 31 5 6 HELIX 65 AH2 SER G 45 ILE G 55 1 11 HELIX 66 AH3 LYS G 58 ASN G 64 1 7 HELIX 67 AH4 ALA G 88 GLY G 96 1 9 HELIX 68 AH5 SER G 100 LEU G 105 1 6 SHEET 1 AA1 2 TYR D 416 ILE D 417 0 SHEET 2 AA1 2 PRO D 424 PHE D 425 -1 O PHE D 425 N TYR D 416 SHEET 1 AA2 3 LYS D 444 LEU D 448 0 SHEET 2 AA2 3 ARG D 437 PHE D 441 -1 N ARG D 437 O LEU D 448 SHEET 3 AA2 3 LYS F 163 LEU F 167 -1 O LEU F 165 N VAL D 438 SHEET 1 AA3 4 VAL G 68 ASP G 71 0 SHEET 2 AA3 4 PHE G 75 ASP G 81 -1 O TRP G 77 N GLU G 70 SHEET 3 AA3 4 ALA G 37 MET G 43 -1 N LEU G 42 O TRP G 76 SHEET 4 AA3 4 VAL G 108 VAL G 112 -1 O VAL G 112 N VAL G 39 SHEET 1 AA4 3 ALA G 83 ASP G 87 0 SHEET 2 AA4 3 LYS G 121 THR G 125 -1 O PHE G 122 N ILE G 86 SHEET 3 AA4 3 ARG G 114 LEU G 118 -1 N ARG G 114 O THR G 125 LINK OE1 GLU D 114 FE FE2 D 601 1555 1555 2.14 LINK OE2 GLU D 144 FE FE2 D 601 1555 1555 2.08 LINK OE1 GLU D 144 FE FE2 D 602 1555 1555 2.06 LINK ND1 HIS D 147 FE FE2 D 601 1555 1555 2.24 LINK OE2 GLU D 209 FE FE2 D 602 1555 1555 2.18 LINK OE1 GLU D 243 FE FE2 D 601 1555 1555 2.17 LINK OE1 GLU D 243 FE FE2 D 602 1555 1555 2.38 LINK OE2 GLU D 243 FE FE2 D 602 1555 1555 2.18 LINK ND1 HIS D 246 FE FE2 D 602 1555 1555 2.20 LINK FE FE2 D 601 O HOH D 708 1555 1555 2.11 LINK FE FE2 D 601 O HOH D 882 1555 1555 2.36 LINK FE FE2 D 602 O HOH D 882 1555 1555 2.51 CISPEP 1 PRO F 121 PRO F 122 0 11.51 CRYST1 106.946 106.946 303.989 90.00 90.00 90.00 P 41 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 0.009351 0.000000 0.000000 0.00000 SCALE2 0.000000 0.009351 0.000000 0.00000 SCALE3 0.000000 0.000000 0.003290 0.00000