data_EMD-10557
# 
_entry.id   EMD-10557 
# 
_audit_conform.dict_name       mmcif_pdbx.dic 
_audit_conform.dict_version    5.397 
_audit_conform.dict_location   http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic 
# 
loop_
_database_2.database_id 
_database_2.database_code 
_database_2.pdbx_database_accession 
_database_2.pdbx_DOI 
PDB   6TRA         pdb_00006tra 10.2210/pdb6tra/pdb 
WWPDB D_1292105943 ?            ?                   
EMDB  EMD-10557    ?            ?                   
# 
_pdbx_database_related.db_name        EMDB 
_pdbx_database_related.details        
'Cryo- EM structure of the Thermosynechococcus elongatus photosystem I in the presence of cytochrome c6' 
_pdbx_database_related.db_id          EMD-10557 
_pdbx_database_related.content_type   'associated EM volume' 
# 
_citation.abstract                  ? 
_citation.abstract_id_CAS           ? 
_citation.book_id_ISBN              ? 
_citation.book_publisher            ? 
_citation.book_publisher_city       ? 
_citation.book_title                ? 
_citation.coordinate_linkage        ? 
_citation.country                   UK 
_citation.database_id_Medline       ? 
_citation.details                   ? 
_citation.id                        primary 
_citation.journal_abbrev            Curr.Opin.Struct.Biol. 
_citation.journal_id_ASTM           COSBEF 
_citation.journal_id_CSD            0801 
_citation.journal_id_ISSN           0959-440X 
_citation.journal_full              ? 
_citation.journal_issue             ? 
_citation.journal_volume            2 
_citation.language                  ? 
_citation.page_first                171 
_citation.page_last                 179 
_citation.title                     
'Current limits of structural biology: The transient interaction between cytochrome c6 and photosystem I' 
_citation.year                      2020 
_citation.database_id_CSD           ? 
_citation.pdbx_database_id_DOI      10.1016/j.crstbi.2020.08.003 
_citation.pdbx_database_id_PubMed   ? 
_citation.unpublished_flag          ? 
# 
loop_
_citation_author.citation_id 
_citation_author.name 
_citation_author.ordinal 
_citation_author.identifier_ORCID 
primary 'Koelsch, A.'    1  0000-0003-2633-460X 
primary 'Radon, C.'      2  0000-0002-3843-2832 
primary 'Golub, M.'      3  ?                   
primary 'Baumert, A.'    4  ?                   
primary 'Burger, J.'     5  ?                   
primary 'Miehlke, T.'    6  ?                   
primary 'Lisdat, F.'     7  ?                   
primary 'Feoktystov, A.' 8  ?                   
primary 'Pieper, J.'     9  ?                   
primary 'Zouni, A.'      10 0000-0003-0561-6990 
primary 'Wendler, P.'    11 0000-0002-8285-2199 
# 
loop_
_entity.id 
_entity.type 
_entity.src_method 
_entity.pdbx_description 
_entity.formula_weight 
_entity.pdbx_number_of_molecules 
_entity.pdbx_ec 
_entity.pdbx_mutation 
_entity.pdbx_fragment 
_entity.details 
1  polymer     nat 'Photosystem I P700 chlorophyll a apoprotein A1' 83267.773 1   1.97.1.12 ? ? ? 
2  polymer     nat 'Photosystem I P700 chlorophyll a apoprotein A2' 83123.648 1   1.97.1.12 ? ? ? 
3  polymer     nat 'Photosystem I iron-sulfur center'               8809.207  1   1.97.1.12 ? ? ? 
4  polymer     nat 'Photosystem I reaction center subunit II'       15389.494 1   ?         ? ? ? 
5  polymer     nat 'Photosystem I reaction center subunit IV'       8399.485  1   ?         ? ? ? 
6  polymer     nat 'Photosystem I reaction center subunit III'      15129.358 1   ?         ? ? ? 
7  polymer     nat 'Photosystem I reaction center subunit VIII'     4325.245  1   ?         ? ? ? 
8  polymer     nat 'Photosystem I reaction center subunit IX'       4798.708  1   ?         ? ? ? 
9  polymer     nat 'Photosystem I reaction center subunit PsaK'     8483.983  1   ?         ? ? ? 
10 polymer     nat 'Photosystem I reaction center subunit XI'       16287.765 1   ?         ? ? ? 
11 polymer     nat 'Photosystem I reaction center subunit XII'      3426.115  1   ?         ? ? ? 
12 polymer     nat 'Photosystem I 4.8K protein'                     4104.939  1   ?         ? ? ? 
13 non-polymer syn 'CHLOROPHYLL A ISOMER'                           893.489   1   ?         ? ? ? 
14 non-polymer syn 'CHLOROPHYLL A'                                  893.489   96  ?         ? ? ? 
15 non-polymer syn PHYLLOQUINONE                                    450.696   2   ?         ? ? ? 
16 non-polymer syn BETA-CAROTENE                                    536.873   24  ?         ? ? ? 
17 non-polymer syn 1,2-DIPALMITOYL-PHOSPHATIDYL-GLYCEROLE           722.970   5   ?         ? ? ? 
18 non-polymer syn 'IRON/SULFUR CLUSTER'                            351.640   3   ?         ? ? ? 
19 non-polymer syn 'CALCIUM ION'                                    40.078    2   ?         ? ? ? 
20 non-polymer syn 1,2-DISTEAROYL-MONOGALACTOSYL-DIGLYCERIDE        787.158   1   ?         ? ? ? 
21 water       nat water                                            18.015    217 ?         ? ? ? 
# 
loop_
_entity_poly.entity_id 
_entity_poly.type 
_entity_poly.pdbx_seq_one_letter_code 
1  'polypeptide(L)' 
;MTISPPEREPKVRVVVDNDPVPTSFEKWAKPGHFDRTLARGPQTTTWIWNLHALAHDFDTHTSDLEDISRKIFSAHFGHL
AVVFIWLSGMYFHGAKFSNYEAWLADPTGIKPSAQVVWPIVGQGILNGDVGGGFHGIQITSGLFQLWRASGITNEFQLYC
TAIGGLVMAGLMLFAGWFHYHKRAPKLEWFQNVESMLNHHLAGLLGLGSLAWAGHQIHVSLPINKLLDAGVAAKDIPLPH
EFILNPSLMAELYPKVDWGFFSGVIPFFTFNWAAYSDFLTFNGGLNPVTGGLWLSDTAHHHLAIAVLFIIAGHMYRTNWG
IGHSLKEILEAHKGPFTGAGHKGLYEVLTTSWHAQLAINLAMMGSLSIIVAQHMYAMPPYPYLATDYPTQLSLFTHHMWI
GGFLVVGGAAHGAIFMVRDYDPAMNQNNVLDRVLRHRDAIISHLNWVCIFLGFHSFGLYVHNDTMRAFGRPQDMFSDTGI
QLQPVFAQWVQNLHTLAPGGTAPNAAATASVAFGGDVVAVGGKVAMMPIVLGTADFMVHHIHAFTIHVTVLILLKGVLFA
RSSRLIPDKANLGFRFPCDGPGRGGTCQVSGWDHVFLGLFWMYNCISVVIFHFSWKMQSDVWGTVAPDGTVSHITGGNFA
QSAITINGWLRDFLWAQASQVIGSYGSALSAYGLLFLGAHFIWAFSLMFLFSGRGYWQELIESIVWAHNKLKVAPAIQPR
ALSIIQGRAVGVAHYLLGGIATTWAFFLARIISVG
;
2  'polypeptide(L)' 
;MATKFPKFSQDLAQDPTTRRIWYAIAMAHDFESHDGMTEENLYQKIFASHFGHLAIIFLWVSGSLFHVAWQGNFEQWVQD
PVNTRPIAHAIWDPQFGKAAVDAFTQAGASNPVDIAYSGVYHWWYTIGMRTNGDLYQGAIFLLILASLALFAGWLHLQPK
FRPSLSWFKNAESRLNHHLAGLFGVSSLAWAGHLIHVAIPESRGQHVGWDNFLSTMPHPAGLAPFFTGNWGVYAQNPDTA
SHVFGTAQGAGTAILTFLGGFHPQTESLWLTDMAHHHLAIAVLFIVAGHMYRTQFGIGHSIKEMMDAKDFFGTKVEGPFN
MPHQGIYETYNNSLHFQLGWHLACLGVITSLVAQHMYSLPPYAFIAQDHTTMAALYTHHQYIAGFLMVGAFAHGAIFLVR
DYDPAQNKGNVLDRVLQHKEAIISHLSWVSLFLGFHTLGLYVHNDVVVAFGTPEKQILIEPVFAQFIQAAHGKLLYGFDT
LLSNPDSIASTAWPNYGNVWLPGWLDAINSGTNSLFLTIGPGDFLVHHAIALGLHTTTLILVKGALDARGSKLMPDKKDF
GYAFPCDGPGRGGTCDISAWDAFYLAMFWMLNTIGWVTFYWHWKHLGVWEGNVAQFNESSTYLMGWLRDYLWLNSSQLIN
GYNPFGTNNLSVWAWMFLFGHLVWATGFMFLISWRGYWQELIETLVWAHERTPLANLVRWKDKPVALSIVQARLVGLAHF
SVGYILTYAAFLIASTAAKFG
;
3  'polypeptide(L)' 
;MAHTVKIYDTCIGCTQCVRACPTDVLEMVPWDGCKAGQIASSPRTEDCVGCKRCETACPTDFLSIRVYLGAETTRSMGLA
Y
;
4  'polypeptide(L)' 
;MTTLTGQPPLYGGSTGGLLSAADTEEKYAITWTSPKEQVFEMPTAGAAVMREGENLVYFARKEQCLALAAQQLRPRKIND
YKIYRIFPDGETVLIHPKDGVFPEKVNKGREAVNSVPRSIGQNPNPSQLKFTGKKPYDP
;
5  'polypeptide(L)' MVQRGSKVKILRPESYWYNEVGTVASVDQTPGVKYPVIVRFDKVNYTGYSGSASGVNTNNFALHEVQEVAPPKKGK 
6  'polypeptide(L)' 
;DVAGLVPCKDSPAFQKRAAAAVNTTADPASGQKRFERYSQALCGEDGLPHLVVDGRLSRAGDFLIPSVLFLYIAGWIGWV
GRAYLIAVRNSGEANEKEIIIDVPLAIKCMLTGFAWPLAALKELASGELTAKDNEITVSPR
;
7  'polypeptide(L)' '(FME)MGSYAASFLPWIFIPVVCWLMPTVVMGLLFLYIEGEA' 
8  'polypeptide(L)' '(FME)KHFLTYLSTAPVLAAIWMTITAGILIEFNRFYPDLLFHPL' 
9  'polypeptide(L)' 
;MVLATLPDTTWTPSVGLVVILCNLFAIALGRYAIQSRGKGPGLPIALPALFEGFGLPELLATTSFGHLLAAGVVSGLQYA
GAL
;
10 'polypeptide(L)' 
;MAEELVKPYNGDPFVGHLSTPISDSGLVKTFIGNLPAYRQGLSPILRGLEVGMAHGYFLIGPWVKLGPLRDSDVANLGGL
ISGIALILVATACLAAYGLVSFQKGGSSSDPLKTSEGWSQFTAGFFVGAMGSAFVAFFLLENFLVVDGIMTGLFN
;
11 'polypeptide(L)' MALTDTQVYVALVIALLPAVLAFRLSTELYK 
12 'polypeptide(L)' MATKSAKPTYAFRTFWAVLLLAINFLVAAYYFGILK 
# 
loop_
_pdbx_entity_nonpoly.entity_id 
_pdbx_entity_nonpoly.name 
_pdbx_entity_nonpoly.comp_id 
13 'CHLOROPHYLL A ISOMER'                    CL0 
14 'CHLOROPHYLL A'                           CLA 
15 PHYLLOQUINONE                             PQN 
16 BETA-CAROTENE                             BCR 
17 1,2-DIPALMITOYL-PHOSPHATIDYL-GLYCEROLE    LHG 
18 'IRON/SULFUR CLUSTER'                     SF4 
19 'CALCIUM ION'                             CA  
20 1,2-DISTEAROYL-MONOGALACTOSYL-DIGLYCERIDE LMG 
21 water                                     HOH 
# 
loop_
_entity_src_nat.entity_id 
_entity_src_nat.pdbx_src_id 
_entity_src_nat.pdbx_alt_source_flag 
_entity_src_nat.pdbx_beg_seq_num 
_entity_src_nat.pdbx_end_seq_num 
_entity_src_nat.common_name 
_entity_src_nat.pdbx_organism_scientific 
_entity_src_nat.pdbx_ncbi_taxonomy_id 
_entity_src_nat.genus 
_entity_src_nat.species 
_entity_src_nat.strain 
_entity_src_nat.tissue 
_entity_src_nat.tissue_fraction 
_entity_src_nat.pdbx_secretion 
_entity_src_nat.pdbx_fragment 
_entity_src_nat.pdbx_variant 
_entity_src_nat.pdbx_cell_line 
_entity_src_nat.pdbx_atcc 
_entity_src_nat.pdbx_culture_collection 
_entity_src_nat.pdbx_cellular_location 
_entity_src_nat.pdbx_organ 
_entity_src_nat.pdbx_organelle 
_entity_src_nat.pdbx_cell 
_entity_src_nat.pdbx_plasmid_name 
_entity_src_nat.pdbx_plasmid_details 
_entity_src_nat.details 
1  1 sample 1 755 ? 'Thermosynechococcus elongatus (strain BP-1)' 197221 ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
2  1 sample 1 741 ? 'Thermosynechococcus elongatus (strain BP-1)' 197221 ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
3  1 sample 1 81  ? 'Thermosynechococcus elongatus (strain BP-1)' 197221 ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
4  1 sample 1 139 ? 'Thermosynechococcus elongatus (strain BP-1)' 197221 ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
5  1 sample 1 76  ? 'Thermosynechococcus elongatus (strain BP-1)' 197221 ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
6  1 sample 1 141 ? 'Thermosynechococcus elongatus (strain BP-1)' 197221 ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
7  1 sample 1 38  ? 'Thermosynechococcus elongatus (strain BP-1)' 197221 ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
8  1 sample 1 41  ? 'Thermosynechococcus elongatus (strain BP-1)' 197221 ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
9  1 sample 1 83  ? 'Thermosynechococcus elongatus (strain BP-1)' 197221 ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
10 1 sample 1 155 ? 'Thermosynechococcus elongatus (strain BP-1)' 197221 ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
11 1 sample 1 31  ? 'Thermosynechococcus elongatus (strain BP-1)' 197221 ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
12 1 sample 1 36  ? 'Thermosynechococcus elongatus (strain BP-1)' 197221 ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
# 
loop_
_chem_comp.id 
_chem_comp.type 
_chem_comp.mon_nstd_flag 
_chem_comp.name 
_chem_comp.pdbx_synonyms 
_chem_comp.formula 
_chem_comp.formula_weight 
ALA 'L-peptide linking' y ALANINE                                   ?                                                  
'C3 H7 N O2'         89.093  
ARG 'L-peptide linking' y ARGININE                                  ?                                                  
'C6 H15 N4 O2 1'     175.209 
ASN 'L-peptide linking' y ASPARAGINE                                ?                                                  
'C4 H8 N2 O3'        132.118 
ASP 'L-peptide linking' y 'ASPARTIC ACID'                           ?                                                  
'C4 H7 N O4'         133.103 
BCR non-polymer         . BETA-CAROTENE                             ?                                                  'C40 H56' 
536.873 
CA  non-polymer         . 'CALCIUM ION'                             ?                                                  'Ca 2' 
40.078  
CL0 non-polymer         . 'CHLOROPHYLL A ISOMER'                    ?                                                  
'C55 H72 Mg N4 O5 2' 893.489 
CLA non-polymer         . 'CHLOROPHYLL A'                           ?                                                  
'C55 H72 Mg N4 O5'   893.489 
CYS 'L-peptide linking' y CYSTEINE                                  ?                                                  
'C3 H7 N O2 S'       121.158 
FME 'L-peptide linking' n N-FORMYLMETHIONINE                        ?                                                  
'C6 H11 N O3 S'      177.221 
GLN 'L-peptide linking' y GLUTAMINE                                 ?                                                  
'C5 H10 N2 O3'       146.144 
GLU 'L-peptide linking' y 'GLUTAMIC ACID'                           ?                                                  
'C5 H9 N O4'         147.129 
GLY 'peptide linking'   y GLYCINE                                   ?                                                  
'C2 H5 N O2'         75.067  
HIS 'L-peptide linking' y HISTIDINE                                 ?                                                  
'C6 H10 N3 O2 1'     156.162 
HOH non-polymer         . WATER                                     ?                                                  'H2 O' 
18.015  
ILE 'L-peptide linking' y ISOLEUCINE                                ?                                                  
'C6 H13 N O2'        131.173 
LEU 'L-peptide linking' y LEUCINE                                   ?                                                  
'C6 H13 N O2'        131.173 
LHG non-polymer         . 1,2-DIPALMITOYL-PHOSPHATIDYL-GLYCEROLE    ?                                                  
'C38 H75 O10 P'      722.970 
LMG non-polymer         . 1,2-DISTEAROYL-MONOGALACTOSYL-DIGLYCERIDE ?                                                  
'C45 H86 O10'        787.158 
LYS 'L-peptide linking' y LYSINE                                    ?                                                  
'C6 H15 N2 O2 1'     147.195 
MET 'L-peptide linking' y METHIONINE                                ?                                                  
'C5 H11 N O2 S'      149.211 
PHE 'L-peptide linking' y PHENYLALANINE                             ?                                                  
'C9 H11 N O2'        165.189 
PQN non-polymer         . PHYLLOQUINONE                             'VITAMIN K1; 2-METHYL-3-PHYTYL-1,4-NAPHTHOQUINONE' 
'C31 H46 O2'         450.696 
PRO 'L-peptide linking' y PROLINE                                   ?                                                  
'C5 H9 N O2'         115.130 
SER 'L-peptide linking' y SERINE                                    ?                                                  
'C3 H7 N O3'         105.093 
SF4 non-polymer         . 'IRON/SULFUR CLUSTER'                     ?                                                  'Fe4 S4' 
351.640 
THR 'L-peptide linking' y THREONINE                                 ?                                                  
'C4 H9 N O3'         119.119 
TRP 'L-peptide linking' y TRYPTOPHAN                                ?                                                  
'C11 H12 N2 O2'      204.225 
TYR 'L-peptide linking' y TYROSINE                                  ?                                                  
'C9 H11 N O3'        181.189 
VAL 'L-peptide linking' y VALINE                                    ?                                                  
'C5 H11 N O2'        117.146 
# 
_exptl.entry_id         EMD-10557 
_exptl.details          ? 
_exptl.method           'ELECTRON MICROSCOPY' 
_exptl.method_details   ? 
# 
_struct_keywords.entry_id        EMD-10557 
_struct_keywords.text            'Photosystem I, P700, Cyanobacteria, PHOTOSYNTHESIS' 
_struct_keywords.pdbx_keywords   PHOTOSYNTHESIS 
_struct_keywords.pdbx_details    ? 
# 
loop_
_struct_ref.id 
_struct_ref.db_name 
_struct_ref.db_code 
_struct_ref.entity_id 
1  UNP PSAA_THEEB   1  
2  UNP PSAB_THEEB   2  
3  UNP PSAC_THEEB   3  
4  UNP PSAD_THEEB   4  
5  UNP PSAE_THEEB   5  
6  UNP PSAF_THEEB   6  
7  UNP PSAI_THEEB   7  
8  UNP PSAJ_THEEB   8  
9  UNP PSAK_THEEB   9  
10 UNP PSAL_THEEB   10 
11 UNP PSAM_THEEB   11 
12 UNP Q8DKP6_THEEB 12 
# 
_em_3d_fitting.entry_id          EMD-10557 
_em_3d_fitting.id                1 
_em_3d_fitting.details           ? 
_em_3d_fitting.overall_b_value   ? 
_em_3d_fitting.ref_protocol      ? 
_em_3d_fitting.ref_space         ? 
_em_3d_fitting.target_criteria   ? 
_em_3d_fitting.method            ? 
# 
_em_3d_fitting_list.3d_fitting_id                 1 
_em_3d_fitting_list.id                            1 
_em_3d_fitting_list.details                       ? 
_em_3d_fitting_list.pdb_chain_id                  ? 
_em_3d_fitting_list.pdb_chain_residue_range       ? 
_em_3d_fitting_list.pdb_entry_id                  1JB0 
_em_3d_fitting_list.initial_refinement_model_id   1 
_em_3d_fitting_list.chain_id                      ? 
_em_3d_fitting_list.chain_residue_range           ? 
_em_3d_fitting_list.source_name                   PDB 
_em_3d_fitting_list.type                          'experimental model' 
_em_3d_fitting_list.accession_code                1JB0 
# 
_em_3d_reconstruction.entry_id                    EMD-10557 
_em_3d_reconstruction.id                          1 
_em_3d_reconstruction.algorithm                   ? 
_em_3d_reconstruction.details                     ? 
_em_3d_reconstruction.fsc_type                    ? 
_em_3d_reconstruction.refinement_type             ? 
_em_3d_reconstruction.image_processing_id         1 
_em_3d_reconstruction.num_class_averages          ? 
_em_3d_reconstruction.num_particles               175999 
_em_3d_reconstruction.resolution                  2.85 
_em_3d_reconstruction.resolution_method           'FSC 0.143 CUT-OFF' 
_em_3d_reconstruction.symmetry_type               POINT 
_em_3d_reconstruction.method                      ? 
_em_3d_reconstruction.nominal_pixel_size          ? 
_em_3d_reconstruction.actual_pixel_size           ? 
_em_3d_reconstruction.magnification_calibration   ? 
# 
_em_buffer.id            1 
_em_buffer.details       ? 
_em_buffer.pH            8.0 
_em_buffer.specimen_id   1 
_em_buffer.name          ? 
# 
_em_entity_assembly.id                   1 
_em_entity_assembly.parent_id            0 
_em_entity_assembly.details              ? 
_em_entity_assembly.go_id                ? 
_em_entity_assembly.name                 'photosystem I' 
_em_entity_assembly.source               NATURAL 
_em_entity_assembly.type                 COMPLEX 
_em_entity_assembly.entity_id_list       1,2,3,4,5,6,7,8,9,10,11,12 
_em_entity_assembly.ipr_id               ? 
_em_entity_assembly.synonym              ? 
_em_entity_assembly.number_of_copies     ? 
_em_entity_assembly.oligomeric_details   ? 
# 
_em_imaging.id                              1 
_em_imaging.entry_id                        EMD-10557 
_em_imaging.accelerating_voltage            300 
_em_imaging.alignment_procedure             ? 
_em_imaging.c2_aperture_diameter            ? 
_em_imaging.calibrated_defocus_max          ? 
_em_imaging.calibrated_defocus_min          ? 
_em_imaging.calibrated_magnification        ? 
_em_imaging.cryogen                         NITROGEN 
_em_imaging.details                         ? 
_em_imaging.electron_source                 'FIELD EMISSION GUN' 
_em_imaging.illumination_mode               'FLOOD BEAM' 
_em_imaging.microscope_model                'FEI POLARA 300' 
_em_imaging.mode                            'BRIGHT FIELD' 
_em_imaging.nominal_cs                      ? 
_em_imaging.nominal_defocus_max             ? 
_em_imaging.nominal_defocus_min             ? 
_em_imaging.nominal_magnification           ? 
_em_imaging.recording_temperature_maximum   ? 
_em_imaging.recording_temperature_minimum   ? 
_em_imaging.residual_tilt                   ? 
_em_imaging.specimen_holder_model           ? 
_em_imaging.specimen_id                     1 
_em_imaging.sample_support_id               1 
_em_imaging.citation_id                     ? 
_em_imaging.detector_id                     1 
_em_imaging.scans_id                        1 
_em_imaging.date                            ? 
_em_imaging.temperature                     ? 
_em_imaging.tilt_angle_min                  ? 
_em_imaging.tilt_angle_max                  ? 
_em_imaging.astigmatism                     ? 
_em_imaging.detector_distance               ? 
_em_imaging.electron_beam_tilt_params       ? 
_em_imaging.specimen_holder_type            ? 
# 
_em_sample_support.id               1 
_em_sample_support.specimen_id      1 
_em_sample_support.method           ? 
_em_sample_support.film_material    ? 
_em_sample_support.grid_material    ? 
_em_sample_support.grid_mesh_size   ? 
_em_sample_support.grid_type        ? 
_em_sample_support.details          ? 
# 
_em_vitrification.id                      1 
_em_vitrification.specimen_id             1 
_em_vitrification.chamber_temperature     ? 
_em_vitrification.cryogen_name            ETHANE 
_em_vitrification.details                 ? 
_em_vitrification.humidity                ? 
_em_vitrification.instrument              ? 
_em_vitrification.entry_id                EMD-10557 
_em_vitrification.sample_preparation_id   ? 
_em_vitrification.citation_id             ? 
_em_vitrification.method                  ? 
_em_vitrification.temp                    ? 
_em_vitrification.time_resolved_state     ? 
# 
_em_experiment.entry_id                EMD-10557 
_em_experiment.id                      1 
_em_experiment.aggregation_state       PARTICLE 
_em_experiment.reconstruction_method   'SINGLE PARTICLE' 
_em_experiment.entity_assembly_id      1 
# 
_em_single_particle_entity.entry_id              EMD-10557 
_em_single_particle_entity.id                    1 
_em_single_particle_entity.image_processing_id   1 
_em_single_particle_entity.point_symmetry        C1 
# 
_em_admin.entry_id              EMD-10557 
_em_admin.current_status        REL 
_em_admin.deposition_date       2019-12-18 
_em_admin.deposition_site       PDBE 
_em_admin.details               ? 
_em_admin.last_update           2024-10-16 
_em_admin.map_release_date      2020-09-16 
_em_admin.obsoleted_date        ? 
_em_admin.title                 
'Cryo- EM structure of the Thermosynechococcus elongatus photosystem I in the presence of cytochrome c6' 
_em_admin.header_release_date   2020-09-16 
# 
loop_
_em_author_list.ordinal 
_em_author_list.author 
1 'Koelsch, A.' 
2 'Radon, C.'   
# 
loop_
_em_buffer_component.buffer_id 
_em_buffer_component.id 
_em_buffer_component.concentration 
_em_buffer_component.concentration_units 
_em_buffer_component.formula 
_em_buffer_component.name 
1 1 0.025 mM Tricine   Tricine                      
1 2 0.025 mM NaCl      'sodium chloride'            
1 3 0.02  %  C24H46O11 'n-Dodecyl beta-D-maltoside' 
# 
_em_ctf_correction.id                                1 
_em_ctf_correction.em_image_processing_id            1 
_em_ctf_correction.type                              'PHASE FLIPPING AND AMPLITUDE CORRECTION' 
_em_ctf_correction.details                           
'CTFFIND4 was used to estimate contrast transfer function parameters. CTF correction was done in Relion 3.0.' 
_em_ctf_correction.amplitude_correction              ? 
_em_ctf_correction.amplitude_correction_factor       ? 
_em_ctf_correction.amplitude_correction_space        ? 
_em_ctf_correction.correction_operation              ? 
_em_ctf_correction.phase_reversal                    ? 
_em_ctf_correction.phase_reversal_anisotropic        ? 
_em_ctf_correction.phase_reversal_correction_space   ? 
# 
_em_db_reference.id             1 
_em_db_reference.access_code    6TRA 
_em_db_reference.db_name        PDB 
_em_db_reference.details        ? 
_em_db_reference.relationship   'IN FRAME' 
# 
_em_entity_assembly_molwt.entity_assembly_id   1 
_em_entity_assembly_molwt.id                   1 
_em_entity_assembly_molwt.experimental_flag    NO 
_em_entity_assembly_molwt.units                MEGADALTONS 
_em_entity_assembly_molwt.value                1 
# 
_em_entity_assembly_naturalsource.id                   2 
_em_entity_assembly_naturalsource.entity_assembly_id   1 
_em_entity_assembly_naturalsource.cell                 ? 
_em_entity_assembly_naturalsource.cellular_location    ? 
_em_entity_assembly_naturalsource.ncbi_tax_id          197221 
_em_entity_assembly_naturalsource.organ                ? 
_em_entity_assembly_naturalsource.organelle            ? 
_em_entity_assembly_naturalsource.organism             'Thermosynechococcus elongatus BP-1' 
_em_entity_assembly_naturalsource.strain               ? 
_em_entity_assembly_naturalsource.tissue               ? 
# 
loop_
_em_euler_angle_assignment.id 
_em_euler_angle_assignment.details 
_em_euler_angle_assignment.image_processing_id 
_em_euler_angle_assignment.order 
_em_euler_angle_assignment.proj_matching_angular_sampling 
_em_euler_angle_assignment.proj_matching_merit_function 
_em_euler_angle_assignment.proj_matching_num_projections 
_em_euler_angle_assignment.type 
1 ? 1 INITIAL ? ? ? 'MAXIMUM LIKELIHOOD' 
2 ? 1 FINAL   ? ? ? 'MAXIMUM LIKELIHOOD' 
# 
_em_image_processing.id                   1 
_em_image_processing.image_recording_id   1 
_em_image_processing.details              ? 
# 
_em_image_recording.id                            1 
_em_image_recording.imaging_id                    1 
_em_image_recording.avg_electron_dose_per_image   32 
_em_image_recording.average_exposure_time         ? 
_em_image_recording.details                       ? 
_em_image_recording.detector_mode                 SUPER-RESOLUTION 
_em_image_recording.film_or_detector_model        'GATAN K2 SUMMIT (4k x 4k)' 
_em_image_recording.num_diffraction_images        ? 
_em_image_recording.num_grids_imaged              ? 
_em_image_recording.num_real_images               ? 
# 
_em_map.entry_id               EMD-10557 
_em_map.id                     1 
_em_map.annotation_details     'Structure of trimeric photosystem I from Thermosynechococcus elongatus. Asymmetric unit.' 
_em_map.axis_order_fast        X 
_em_map.axis_order_medium      Y 
_em_map.axis_order_slow        Z 
_em_map.cell_a                 351.68002 
_em_map.cell_alpha             90.0 
_em_map.cell_b                 351.68002 
_em_map.cell_beta              90.0 
_em_map.cell_c                 351.68002 
_em_map.cell_gamma             90.0 
_em_map.contour_level          0.017 
_em_map.contour_level_source   author 
_em_map.data_type              'Image stored as floating point number (4 bytes)' 
_em_map.dimensions_col         560 
_em_map.dimensions_row         560 
_em_map.dimensions_sec         560 
_em_map.endian_type            big 
_em_map.file                   emd_10557.map.gz 
_em_map.format                 CCP4 
_em_map.label                  ::::EMDATABANK.org::::EMD-10557:::: 
_em_map.limit_col              559 
_em_map.limit_row              559 
_em_map.limit_sec              559 
_em_map.origin_col             0 
_em_map.origin_row             0 
_em_map.origin_sec             0 
_em_map.partition              1 
_em_map.pixel_spacing_x        0.628 
_em_map.pixel_spacing_y        0.628 
_em_map.pixel_spacing_z        0.628 
_em_map.size_kb                702465024 
_em_map.spacing_x              560 
_em_map.spacing_y              560 
_em_map.spacing_z              560 
_em_map.statistics_average     3.6910576E-5 
_em_map.statistics_maximum     0.071256354 
_em_map.statistics_minimum     -0.049069483 
_em_map.statistics_std         0.0013604629 
_em_map.symmetry_space_group   1 
_em_map.type                   'primary map' 
# 
loop_
_em_software.id 
_em_software.category 
_em_software.details 
_em_software.name 
_em_software.version 
_em_software.image_processing_id 
_em_software.fitting_id 
_em_software.imaging_id 
1  'PARTICLE SELECTION'       ? ?       ?       1 ? ? 
2  'IMAGE ACQUISITION'        ? ?       ?       ? ? 1 
3  MASKING                    ? ?       ?       ? ? ? 
4  'CTF CORRECTION'           ? CTFFIND 4.1.10  1 ? ? 
5  'LAYERLINE INDEXING'       ? ?       ?       ? ? ? 
6  'DIFFRACTION INDEXING'     ? ?       ?       ? ? ? 
7  'MODEL FITTING'            ? Coot    0.8.9.1 ? 1 ? 
8  OTHER                      ? ?       ?       ? ? ? 
9  'INITIAL EULER ASSIGNMENT' ? RELION  3.0     1 ? ? 
10 'FINAL EULER ASSIGNMENT'   ? RELION  3.0     1 ? ? 
11 CLASSIFICATION             ? ?       ?       1 ? ? 
12 RECONSTRUCTION             ? RELION  3.0     1 ? ? 
13 'MODEL REFINEMENT'         ? PHENIX  1.15    ? 1 ? 
# 
_em_specimen.id                      1 
_em_specimen.experiment_id           1 
_em_specimen.concentration           0.2 
_em_specimen.details                 
'Photosystem I was crosslinked with its electron donor cytochrome c6. Crosslinked particles are monodisperse.' 
_em_specimen.embedding_applied       NO 
_em_specimen.shadowing_applied       NO 
_em_specimen.staining_applied        NO 
_em_specimen.vitrification_applied   YES 
# 
_em_start_model.id                               1 
_em_start_model.details                          ? 
_em_start_model.image_processing_id              1 
_em_start_model.emdb_id                          ? 
_em_start_model.insilico_model                   ? 
_em_start_model.orthogonal_tilt_angle1           ? 
_em_start_model.orthogonal_tilt_angle2           ? 
_em_start_model.orthogonal_tilt_num_images       ? 
_em_start_model.other                            ? 
_em_start_model.pdb_id                           ? 
_em_start_model.random_conical_tilt_angle        ? 
_em_start_model.random_conical_tilt_num_images   ? 
_em_start_model.type                             'PDB ENTRY' 
# 
_em_support_film.id                  1 
_em_support_film.sample_support_id   1 
_em_support_film.material            CARBON 
_em_support_film.thickness           ? 
_em_support_film.topology            HOLEY 
# 
loop_
_pdbx_audit_support.funding_organization 
_pdbx_audit_support.country 
_pdbx_audit_support.grant_number 
_pdbx_audit_support.details 
_pdbx_audit_support.ordinal 
'German Research Foundation (DFG)'                   Germany 'EXC 2008/1'   ? 1 
'German Research Foundation (DFG)'                   Germany 'EXC 314/2'    ? 2 
'German Federal Ministry for Education and Research' Germany '031B0557 A+B' ? 3 
# 
_pdbx_initial_refinement_model.id               1 
_pdbx_initial_refinement_model.type             'experimental model' 
_pdbx_initial_refinement_model.source_name      PDB 
_pdbx_initial_refinement_model.accession_code   1JB0 
# 
