HEADER PHOTOSYNTHESIS 06-JUN-23 8JNG TITLE METHANESULFONATE MONOOXYGENASE FERREDOXIN SUBUNIT OF PBS-PSII-PSI-LHCS TITLE 2 FROM PORPHYRIDIUM PURPUREUM. COMPND MOL_ID: 1; COMPND 2 MOLECULE: METHANESULFONATE MONOOXYGENASE FERREDOXIN SUBUNIT; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: PORPHYRIDIUM PURPUREUM; SOURCE 3 ORGANISM_TAXID: 35688; SOURCE 4 GENE: FVE85_7812; SOURCE 5 EXPRESSION_SYSTEM: PORPHYRIDIUM PURPUREUM; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 35688 KEYWDS METHANESULFONATE MONOOXYGENASE FERREDOXIN SUBUNIT, PHOTOSYNTHESIS EXPDTA ELECTRON MICROSCOPY AUTHOR X.YOU,X.ZHANG,J.CHENG,Y.N.XIAO,S.SUN,S.F.SUI REVDAT 1 02-AUG-23 8JNG 0 JRNL AUTH X.YOU,X.ZHANG,J.CHENG,Y.N.XIAO,S.SUN,S.F.SUI JRNL TITL STRUCTURE OF LATERAL HEXAMER OF PBS-PSII-PSI-LHCS JRNL TITL 2 MEGACOMPLEX AT 6.3 ANGSTROMS RESOLUTION. JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 3.20 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 SOFTWARE PACKAGES : NULL REMARK 3 RECONSTRUCTION SCHEMA : NULL REMARK 3 REMARK 3 EM MAP-MODEL FITTING AND REFINEMENT REMARK 3 PDB ENTRY : NULL REMARK 3 REFINEMENT SPACE : NULL REMARK 3 REFINEMENT PROTOCOL : NULL REMARK 3 REFINEMENT TARGET : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE : NULL REMARK 3 REMARK 3 FITTING PROCEDURE : NULL REMARK 3 REMARK 3 EM IMAGE RECONSTRUCTION STATISTICS REMARK 3 NOMINAL PIXEL SIZE (ANGSTROMS) : NULL REMARK 3 ACTUAL PIXEL SIZE (ANGSTROMS) : NULL REMARK 3 EFFECTIVE RESOLUTION (ANGSTROMS) : 3.200 REMARK 3 NUMBER OF PARTICLES : 762000 REMARK 3 CTF CORRECTION METHOD : PHASE FLIPPING ONLY REMARK 3 REMARK 3 EM RECONSTRUCTION MAGNIFICATION CALIBRATION: NULL REMARK 3 REMARK 3 OTHER DETAILS: NULL REMARK 4 REMARK 4 8JNG COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 22-JUN-23. REMARK 100 THE DEPOSITION ID IS D_1300038333. REMARK 245 REMARK 245 EXPERIMENTAL DETAILS REMARK 245 RECONSTRUCTION METHOD : SINGLE PARTICLE REMARK 245 SPECIMEN TYPE : NULL REMARK 245 REMARK 245 ELECTRON MICROSCOPE SAMPLE REMARK 245 SAMPLE TYPE : CELL REMARK 245 PARTICLE TYPE : POINT REMARK 245 NAME OF SAMPLE : METHANESULFONATE MONOOXYGENASE REMARK 245 FERREDOXIN SUBUNIT FROM REMARK 245 PORPHYRIDIUM PURPUREUM. REMARK 245 SAMPLE CONCENTRATION (MG ML-1) : NULL REMARK 245 SAMPLE SUPPORT DETAILS : NULL REMARK 245 SAMPLE VITRIFICATION DETAILS : NULL REMARK 245 SAMPLE BUFFER : NULL REMARK 245 PH : 7.60 REMARK 245 SAMPLE DETAILS : NULL REMARK 245 REMARK 245 DATA ACQUISITION REMARK 245 DATE OF EXPERIMENT : NULL REMARK 245 NUMBER OF MICROGRAPHS-IMAGES : NULL REMARK 245 TEMPERATURE (KELVIN) : NULL REMARK 245 MICROSCOPE MODEL : FEI TITAN KRIOS REMARK 245 DETECTOR TYPE : GATAN K3 (6K X 4K) REMARK 245 MINIMUM DEFOCUS (NM) : 1000.00 REMARK 245 MAXIMUM DEFOCUS (NM) : 6000.00 REMARK 245 MINIMUM TILT ANGLE (DEGREES) : NULL REMARK 245 MAXIMUM TILT ANGLE (DEGREES) : NULL REMARK 245 NOMINAL CS : NULL REMARK 245 IMAGING MODE : BRIGHT FIELD REMARK 245 ELECTRON DOSE (ELECTRONS NM**-2) : 3500.00 REMARK 245 ILLUMINATION MODE : SPOT SCAN REMARK 245 NOMINAL MAGNIFICATION : NULL REMARK 245 CALIBRATED MAGNIFICATION : NULL REMARK 245 SOURCE : FIELD EMISSION GUN REMARK 245 ACCELERATION VOLTAGE (KV) : 300 REMARK 245 IMAGING DETAILS : NULL REMARK 247 REMARK 247 ELECTRON MICROSCOPY REMARK 247 THE COORDINATES IN THIS ENTRY WERE GENERATED FROM ELECTRON REMARK 247 MICROSCOPY DATA. PROTEIN DATA BANK CONVENTIONS REQUIRE REMARK 247 THAT CRYST1 AND SCALE RECORDS BE INCLUDED, BUT THE VALUES REMARK 247 ON THESE RECORDS ARE MEANINGLESS EXCEPT FOR THE CALCULATION REMARK 247 OF THE STRUCTURE FACTORS. 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 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 ALA A 2 REMARK 465 PHE A 3 REMARK 465 VAL A 4 REMARK 465 SER A 5 REMARK 465 ALA A 6 REMARK 465 GLY A 7 REMARK 465 GLY A 8 REMARK 465 VAL A 9 REMARK 465 GLY A 10 REMARK 465 ALA A 11 REMARK 465 SER A 12 REMARK 465 ARG A 13 REMARK 465 GLN A 14 REMARK 465 ASN A 15 REMARK 465 ARG A 16 REMARK 465 ALA A 17 REMARK 465 ALA A 18 REMARK 465 GLY A 19 REMARK 465 SER A 20 REMARK 465 TRP A 21 REMARK 465 SER A 22 REMARK 465 GLY A 23 REMARK 465 VAL A 24 REMARK 465 GLN A 25 REMARK 465 GLY A 26 REMARK 465 ALA A 27 REMARK 465 TRP A 28 REMARK 465 ALA A 29 REMARK 465 ALA A 30 REMARK 465 ALA A 31 REMARK 465 ALA A 32 REMARK 465 PRO A 33 REMARK 465 ALA A 34 REMARK 465 ALA A 35 REMARK 465 PRO A 36 REMARK 465 VAL A 37 REMARK 465 ARG A 38 REMARK 465 ALA A 39 REMARK 465 ARG A 40 REMARK 465 GLN A 41 REMARK 465 ASN A 42 REMARK 465 ARG A 43 REMARK 465 ARG A 44 REMARK 465 ALA A 45 REMARK 465 ALA A 46 REMARK 465 GLN A 47 REMARK 465 ILE A 48 REMARK 465 GLN A 49 REMARK 465 MET A 50 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 ND1 HIS A 98 S1 FES A 201 1.63 REMARK 500 NH2 ARG A 189 OE1 GLU A 195 1.97 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 57 93.09 -68.56 REMARK 500 PRO A 137 121.54 -32.97 REMARK 500 LEU A 139 -0.88 63.19 REMARK 500 ASP A 187 16.74 80.71 REMARK 500 ALA A 188 -126.75 -158.62 REMARK 500 ARG A 189 23.01 47.91 REMARK 500 GLU A 195 -138.50 46.75 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 PHE A 136 PRO A 137 -111.11 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 FES A 201 FE2 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 98 ND1 REMARK 620 2 FES A 201 S1 45.4 REMARK 620 3 FES A 201 S2 129.5 89.3 REMARK 620 4 HIS A 118 ND1 120.3 92.7 73.7 REMARK 620 N 1 2 3 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: EMD-33597 RELATED DB: EMDB DBREF1 8JNG A 1 197 UNP A0A5J4YIW4_PORPP DBREF2 8JNG A A0A5J4YIW4 1 197 SEQRES 1 A 197 MET ALA PHE VAL SER ALA GLY GLY VAL GLY ALA SER ARG SEQRES 2 A 197 GLN ASN ARG ALA ALA GLY SER TRP SER GLY VAL GLN GLY SEQRES 3 A 197 ALA TRP ALA ALA ALA ALA PRO ALA ALA PRO VAL ARG ALA SEQRES 4 A 197 ARG GLN ASN ARG ARG ALA ALA GLN ILE GLN MET ALA LYS SEQRES 5 A 197 GLU ALA TRP VAL GLN LEU LEU PRO THR SER ASP ILE SER SEQRES 6 A 197 PRO GLY GLU LEU LYS PRO VAL PHE ALA ALA GLY GLN SER SEQRES 7 A 197 VAL VAL VAL ALA CYS ASP TYR ASP GLY GLN VAL TYR ALA SEQRES 8 A 197 SER ALA ASN ILE CYS PRO HIS LEU GLY THR PRO LEU ASP SEQRES 9 A 197 ASN GLY SER VAL GLY ASP GLY ASN ILE VAL CYS ALA GLN SEQRES 10 A 197 HIS LYS SER SER TRP ASN LEU SER THR GLY GLU LEU ALA SEQRES 11 A 197 GLY ASP TRP CYS PRO PHE PRO PRO LEU ILE GLY PRO LEU SEQRES 12 A 197 LEU GLY LYS LEU VAL THR PRO SER PRO LEU ASN VAL PHE SEQRES 13 A 197 SER VAL ARG GLU ASN ASP GLY PHE ILE GLU ALA LEU LEU SEQRES 14 A 197 ASP ILE ASP LEU LYS SER ASP TYR GLU SER ASN TYR TRP SEQRES 15 A 197 VAL GLY LEU LEU ASP ALA ARG GLY LYS ALA SER GLY GLU SEQRES 16 A 197 TYR PHE HET FES A 201 4 HETNAM FES FE2/S2 (INORGANIC) CLUSTER FORMUL 2 FES FE2 S2 HELIX 1 AA1 ILE A 140 LYS A 146 1 7 HELIX 2 AA2 ASP A 172 GLU A 178 1 7 SHEET 1 AA1 3 GLU A 53 PRO A 60 0 SHEET 2 AA1 3 PHE A 164 ASP A 170 -1 O ILE A 165 N LEU A 59 SHEET 3 AA1 3 VAL A 158 ASN A 161 -1 N ARG A 159 O GLU A 166 SHEET 1 AA2 4 GLU A 68 ALA A 74 0 SHEET 2 AA2 4 GLN A 77 CYS A 83 -1 O VAL A 79 N VAL A 72 SHEET 3 AA2 4 VAL A 89 ALA A 93 -1 O TYR A 90 N ALA A 82 SHEET 4 AA2 4 VAL A 155 PHE A 156 -1 O PHE A 156 N ALA A 91 SHEET 1 AA3 4 SER A 107 GLY A 109 0 SHEET 2 AA3 4 ASN A 112 VAL A 114 -1 O ASN A 112 N GLY A 109 SHEET 3 AA3 4 SER A 121 ASN A 123 -1 O TRP A 122 N ILE A 113 SHEET 4 AA3 4 LEU A 129 ALA A 130 -1 O ALA A 130 N SER A 121 LINK ND1 HIS A 98 FE2 FES A 201 1555 1555 2.02 LINK ND1 HIS A 118 FE2 FES A 201 1555 1555 2.80 CRYST1 1.000 1.000 1.000 90.00 90.00 90.00 P 1 1 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 1.000000 0.000000 0.000000 0.00000 SCALE2 0.000000 1.000000 0.000000 0.00000 SCALE3 0.000000 0.000000 1.000000 0.00000