PDB entry 5h2f

View 5h2f on RCSB PDB site
Description: Crystal structure of the PsbM-deletion mutant of photosystem II
Class: photosynthesis
Keywords: Photosynthesis, Photosystem II, Mutant, PsbM
Deposited on 2016-10-15, released 2017-03-22
The last revision prior to the SCOPe 2.08 freeze date was dated 2020-07-29, with a file datestamp of 2020-07-02.
Experiment type: XRAY
Resolution: 2.2 Å
R-factor: N/A
AEROSPACI score: 0.34 (click here for full SPACI score report)

Chains and heterogens:

• Chain 'A':
  Compound: Photosystem II protein D1 1
  Species: Thermosynechococcus elongatus (strain BP-1) [TaxId:197221]
  Database cross-references and differences (RAF-indexed):
  • Uniprot P0A444 (0-333)
  Domains in SCOPe 2.08: d5h2fa_
• Chain 'B':
  Compound: Photosystem II CP47 reaction center protein
  Species: THERMOSYNECHOCOCCUS ELONGATUS [TaxId:197221]
  Database cross-references and differences (RAF-indexed):
  • Uniprot Q8DIQ1 (0-504)
  Domains in SCOPe 2.08: d5h2fb_
• Chain 'C':
  Compound: Photosystem II CP43 reaction center protein
  Species: Thermosynechococcus elongatus (strain BP-1) [TaxId:197221]
  Database cross-references and differences (RAF-indexed):
  • Uniprot Q8DIF8 (Start-454)
  Domains in SCOPe 2.08: d5h2fc_
• Chain 'D':
  Compound: Photosystem II D2 protein
  Species: Thermosynechococcus elongatus (strain BP-1) [TaxId:197221]
  Database cross-references and differences (RAF-indexed):
  • Uniprot Q8CM25 (0-341)
  Domains in SCOPe 2.08: d5h2fd_
• Chain 'E':
  Compound: Cytochrome b559 subunit alpha
  Species: THERMOSYNECHOCOCCUS ELONGATUS [TaxId:197221]
  Database cross-references and differences (RAF-indexed):
  • Uniprot Q8DIP0 (0-End)
  Domains in SCOPe 2.08: d5h2fe_
• Chain 'F':
  Compound: Cytochrome b559 subunit beta
  Species: Thermosynechococcus elongatus (strain BP-1) [TaxId:197221]
  Database cross-references and differences (RAF-indexed):
  • Uniprot Q8DIN9 (0-32)
  Domains in SCOPe 2.08: d5h2ff_
• Chain 'H':
  Compound: Photosystem II reaction center protein H
  Species: Thermosynechococcus elongatus (strain BP-1) [TaxId:197221]
  Database cross-references and differences (RAF-indexed):
  • Uniprot Q8DJ43 (0-62)
  Domains in SCOPe 2.08: d5h2fh_
• Chain 'I':
  Compound: Photosystem II reaction center protein I
  Species: THERMOSYNECHOCOCCUS ELONGATUS [TaxId:197221]
  Database cross-references and differences (RAF-indexed):
  • Uniprot Q8DJZ6 (0-End)
• Chain 'J':
  Compound: Photosystem II reaction center protein J
  Species: THERMOSYNECHOCOCCUS ELONGATUS [TaxId:197221]
  Database cross-references and differences (RAF-indexed):
  • Uniprot P59087 (Start-39)
  Domains in SCOPe 2.08: d5h2fj_
• Chain 'K':
  Compound: Photosystem II reaction center protein K
  Species: Thermosynechococcus elongatus (strain BP-1) [TaxId:197221]
  Database cross-references and differences (RAF-indexed):
  • Uniprot Q9F1K9 (0-36)
  Domains in SCOPe 2.08: d5h2fk_
• Chain 'L':
  Compound: Photosystem II reaction center protein L
  Species: Thermosynechococcus elongatus (strain BP-1) [TaxId:197221]
  Database cross-references and differences (RAF-indexed):
  • Uniprot Q8DIN8 (0-34)
  Domains in SCOPe 2.08: d5h2fl_
• Chain 'O':
  Compound: Photosystem II manganese-stabilizing polypeptide
  Species: Thermosynechococcus elongatus (strain BP-1) [TaxId:197221]
  Database cross-references and differences (RAF-indexed):
  • Uniprot P0A431 (0-242)
  Domains in SCOPe 2.08: d5h2fo_
• Chain 'T':
  Compound: Photosystem II reaction center protein T
  Species: THERMOSYNECHOCOCCUS ELONGATUS [TaxId:197221]
  Database cross-references and differences (RAF-indexed):
  • Uniprot Q8DIQ0 (0-29)
  Domains in SCOPe 2.08: d5h2ft_
• Chain 'U':
  Compound: Photosystem II 12 kDa extrinsic protein
  Species: Thermosynechococcus elongatus (strain BP-1) [TaxId:197221]
  Database cross-references and differences (RAF-indexed):
  • Uniprot Q9F1L5 (0-96)
• Chain 'V':
  Compound: cytochrome c-550
  Species: Thermosynechococcus elongatus (strain BP-1) [TaxId:197221]
  Database cross-references and differences (RAF-indexed):
  • Uniprot P0A386 (0-136)
  Domains in SCOPe 2.08: d5h2fv_
• Chain 'X':
  Compound: Photosystem II reaction center X protein
  Species: Thermosynechococcus elongatus (strain BP-1) [TaxId:197221]
  Database cross-references and differences (RAF-indexed):
  • Uniprot Q9F1R6 (0-36)
  Domains in SCOPe 2.08: d5h2fx_
• Chain 'Y':
  Compound: Photosystem II reaction center protein ycf12
  Species: Thermosynechococcus elongatus (strain BP-1) [TaxId:197221]
  Database cross-references and differences (RAF-indexed):
  • Uniprot Q8DJI1 (0-28)
• Chain 'Z':
  Compound: Photosystem II reaction center protein Z
  Species: Thermosynechococcus elongatus (strain BP-1) [TaxId:197221]
  Database cross-references and differences (RAF-indexed):
  • Uniprot Q8DHJ2 (0-61)
  Domains in SCOPe 2.08: d5h2fz_
• Chain 'a':
  Compound: Photosystem II protein D1 1
  Species: Thermosynechococcus elongatus (strain BP-1) [TaxId:197221]
  Database cross-references and differences (RAF-indexed):
  • Uniprot P0A444 (0-333)
• Chain 'b':
  Compound: Photosystem II CP47 reaction center protein
  Species: THERMOSYNECHOCOCCUS ELONGATUS [TaxId:197221]
  Database cross-references and differences (RAF-indexed):
  • Uniprot Q8DIQ1 (0-End)
• Chain 'c':
  Compound: Photosystem II CP43 reaction center protein
  Species: Thermosynechococcus elongatus (strain BP-1) [TaxId:197221]
  Database cross-references and differences (RAF-indexed):
  • Uniprot Q8DIF8 (0-454)
• Chain 'd':
  Compound: Photosystem II D2 protein
  Species: Thermosynechococcus elongatus (strain BP-1) [TaxId:197221]
  Database cross-references and differences (RAF-indexed):
  • Uniprot Q8CM25 (Start-341)
• Chain 'e':
  Compound: Cytochrome b559 subunit alpha
  Species: THERMOSYNECHOCOCCUS ELONGATUS [TaxId:197221]
  Database cross-references and differences (RAF-indexed):
  • Uniprot Q8DIP0 (Start-79)
• Chain 'f':
  Compound: Cytochrome b559 subunit beta
  Species: Thermosynechococcus elongatus (strain BP-1) [TaxId:197221]
  Database cross-references and differences (RAF-indexed):
  • Uniprot Q8DIN9 (Start-32)
• Chain 'h':
  Compound: Photosystem II reaction center protein H
  Species: Thermosynechococcus elongatus (strain BP-1) [TaxId:197221]
  Database cross-references and differences (RAF-indexed):
  • Uniprot Q8DJ43 (0-End)
• Chain 'i':
  Compound: Photosystem II reaction center protein I
  Species: THERMOSYNECHOCOCCUS ELONGATUS [TaxId:197221]
  Database cross-references and differences (RAF-indexed):
  • Uniprot Q8DJZ6 (0-35)
• Chain 'j':
  Compound: Photosystem II reaction center protein J
  Species: THERMOSYNECHOCOCCUS ELONGATUS [TaxId:197221]
  Database cross-references and differences (RAF-indexed):
  • Uniprot P59087 (0-39)
• Chain 'k':
  Compound: Photosystem II reaction center protein K
  Species: Thermosynechococcus elongatus (strain BP-1) [TaxId:197221]
  Database cross-references and differences (RAF-indexed):
  • Uniprot Q9F1K9 (0-36)
• Chain 'l':
  Compound: Photosystem II reaction center protein L
  Species: Thermosynechococcus elongatus (strain BP-1) [TaxId:197221]
  Database cross-references and differences (RAF-indexed):
  • Uniprot Q8DIN8 (0-34)
• Chain 'o':
  Compound: Photosystem II manganese-stabilizing polypeptide
  Species: Thermosynechococcus elongatus (strain BP-1) [TaxId:197221]
  Database cross-references and differences (RAF-indexed):
  • Uniprot P0A431 (0-242)
• Chain 't':
  Compound: Photosystem II reaction center protein T
  Species: THERMOSYNECHOCOCCUS ELONGATUS [TaxId:197221]
  Database cross-references and differences (RAF-indexed):
  • Uniprot Q8DIQ0 (0-29)
• Chain 'u':
  Compound: Photosystem II 12 kDa extrinsic protein
  Species: Thermosynechococcus elongatus (strain BP-1) [TaxId:197221]
  Database cross-references and differences (RAF-indexed):
  • Uniprot Q9F1L5 (0-96)
  Domains in SCOPe 2.08: d5h2fu_
• Chain 'v':
  Compound: cytochrome c-550
  Species: Thermosynechococcus elongatus (strain BP-1) [TaxId:197221]
  Database cross-references and differences (RAF-indexed):
  • Uniprot P0A386 (0-136)
• Chain 'x':
  Compound: Photosystem II reaction center X protein
  Species: Thermosynechococcus elongatus (strain BP-1) [TaxId:197221]
  Database cross-references and differences (RAF-indexed):
  • Uniprot Q9F1R6 (0-End)
• Chain 'y':
  Compound: Photosystem II reaction center protein ycf12
  Species: Thermosynechococcus elongatus (strain BP-1) [TaxId:197221]
  Database cross-references and differences (RAF-indexed):
  • Uniprot Q8DJI1 (0-28)
• Chain 'z':
  Compound: Photosystem II reaction center protein Z
  Species: Thermosynechococcus elongatus (strain BP-1) [TaxId:197221]
  Database cross-references and differences (RAF-indexed):
  • Uniprot Q8DHJ2 (0-End)
• Heterogens: OEX, FE2, CL, CLA, PHO, BCR, LMG, PL9, LHG, SQD, LMT, UNL, DMS, BCT, CA, HTG, DGD, HEM, RRX, MG, HEC, HOH

PDB Chain Sequences:

• Chain 'A':
  Sequence; same for both SEQRES and ATOM records: (download)
  

  >5h2fA (A:)
  anlwerfcnwvtstdnrlyvgwfgvimiptllaaticfviafiaappvdidgirepvsgs
  llygnniitgavvpssnaiglhfypiweaasldewlynggpyqliifhfllgascymgrq
  welsyrlgmrpwicvaysaplasafavfliypigqgsfsdgmplgisgtfnfmivfqaeh
  nilmhpfhqlgvagvfggalfcamhgslvtsslirettetesanygykfgqeeetyniva
  ahgyfgrlifqyasfnnsrslhfflaawpvvgvwftalgistmafnlngfnfnhsvidak
  gnvintwadiinranlgmevmhernahnfpldla
  

  
  
• Chain 'B':
  Sequence; same for both SEQRES and ATOM records: (download)
  

  >5h2fB (B:)
  glpwyrvhtvlindpgrliaahlmhtalvagwagsmalyelatfdpsdpvlnpmwrqgmf
  vlpfmarlgvtgswsgwsitgetgidpgfwsfegvalahivlsgllflaacwhwvywdle
  lfrdprtgepaldlpkmfgihlflagllcfgfgafhltglfgpgmwvsdpygltgsvqpv
  apewgpdgfnpynpggvvahhiaagivgiiaglfhilvrppqrlykalrmgnietvlsss
  iaavffaafvvagtmwygsattpielfgptryqwdssyfqqeinrrvqaslasgatleea
  wsaipeklafydyignnpakgglfrtgpmnkgdgiaqawkghavfrnkegeelfvrrmpa
  ffesfpviltdkngvvkadipfrraeskysfeqqgvtvsfyggelngqtftdpptvksya
  rkaifgeifefdtetlnsdgifrtsprgwftfahavfallfffghiwhgartlfrdvfsg
  idpelspeqvewgfyqkvgdvttrr
  

  
  
• Chain 'C':
  Sequence, based on SEQRES records: (download)
  

  >5h2fC (C:)
  nsifatnrdqessgfawwagnarlinlsgkllgahvahaglivfwagamtlfelahfipe
  kpmyeqgliliphiatlgwgvgpggevvdtfpffvvgvvhlissavlgfggvyhairgpe
  tleeyssffgydwkdknkmttilgfhlivlgigalllvakamffgglydtwapgggdvrv
  itnptldprvifgyllkspfggegwivsvnnledvvgghiwigliciaggiwhilttpfg
  warrafiwsgeaylsyslgalsmmgfiatcfvwfnntvypsefygptgpeasqaqamtfl
  irdqklganvgsaqgptglgkylmrsptgeiifggetmrfwdfrgpwleplrgpngldln
  kikndiqpwqerraaeymthaplgslnsvggvateinsvnfvsprswlatshfvlafffl
  vghlwhagraraaaagfekgidresepvlsmpsld
  

  
  Sequence, based on observed residues (ATOM records): (download)
  

  >5h2fC (C:)
  atnrdqessgfawwagnarlinlsgkllgahvahaglivfwagamtlfelahfipekpmy
  eqgliliphiatlgwgvgpggevvdtfpffvvgvvhlissavlgfggvyhairgpetlee
  yssffgydwkdknkmttilgfhlivlgigalllvakamffgglydtwapgggdvrvitnp
  tldprvifgyllkspfggegwivsvnnledvvgghiwigliciaggiwhilttpfgwarr
  afiwsgeaylsyslgalsmmgfiatcfvwfnntvypsefygptgpeasqaqamtflirdq
  klganvgsaqgptglgkylmrsptgeiifggetmrfwdfrgpwleplrgpngldlnkikn
  diqpwqerraaeymthaplgslnsvggvateinsvnfvsprswlatshfvlaffflvghl
  whagraraaaagfekgidresepvlsmpsld
  

  
  
• Chain 'D':
  Sequence; same for both SEQRES and ATOM records: (download)
  

  >5h2fD (D:)
  ergwfdilddwlkrdrfvfvgwsgillfpcaylalggwltgttfvtswythglassyleg
  cnfltvavstpansmghsllllwgpeaqgdftrwcqlgglwtfialhgafgligfmlrqf
  eiarlvgvrpynaiafsapiavfvsvfliyplgqsswffapsfgvaaifrfllffqgfhn
  wtlnpfhmmgvagvlggallcaihgatventlfqdgegastfrafnptqaeetysmvtan
  rfwsqifgiafsnkrwlhffmlfvpvtglwmsaigvvglalnlrsydfisqeiraaedpe
  fetfytknlllnegirawmapqdqphenfvfpeevlprgnal
  

  
  
• Chain 'E':
  Sequence, based on SEQRES records: (download)
  

  >5h2fE (E:)
  tgerpfsdiitsvrywvihsitipalfiagwlfvstglaydvfgtprpdsyyaqeqrsip
  lvtdrfeakqqvetfleqlk
  

  
  Sequence, based on observed residues (ATOM records): (download)
  

  >5h2fE (E:)
  tgerpfsdiitsvrywvihsitipalfiagwlfvstglaydvfgtprpdsyyaqeqrsip
  lvtdrfeakqqvetfleql
  

  
  
• Chain 'F':
  Sequence; same for both SEQRES and ATOM records: (download)
  

  >5h2fF (F:)
  ypiftvrwvavhtlavptifflgaiaamqfiqr
  

  
  
• Chain 'H':
  Sequence; same for both SEQRES and ATOM records: (download)
  

  >5h2fH (H:)
  arrtwlgdilrplnseygkvapgwgttplmavfmglflvflliileiynstlildgvnvs
  wka
  

  
  
• Chain 'I':
  No sequence available.
  
  
• Chain 'J':
  Sequence, based on SEQRES records: (download)
  

  >5h2fJ (J:)
  mmseggriplwivatvagmgvivivglffygayaglgssl
  

  
  Sequence, based on observed residues (ATOM records): (download)
  

  >5h2fJ (J:)
  ggriplwivatvagmgvivivglffygayaglgssl
  

  
  
• Chain 'K':
  Sequence; same for both SEQRES and ATOM records: (download)
  

  >5h2fK (K:)
  klpeayaifdplvdvlpvipvlflalafvwqaavgfr
  

  
  
• Chain 'L':
  Sequence; same for both SEQRES and ATOM records: (download)
  

  >5h2fL (L:)
  pnpnrqpvelnrtslylglllilvlallfssyffn
  

  
  
• Chain 'O':
  Sequence; same for both SEQRES and ATOM records: (download)
  

  >5h2fO (O:)
  tltyddivgtglankcptlddtargaypidssqtyriarlclqpttflvkeepknkrqea
  efvptklvtrettsldqiqgelkvnsdgsltfveedgidfqpvtvqmaggeripllftvk
  nlvastqpnvtsittstdfkgefnvpsyrtanfldpkgrglasgydsaialpqakeeela
  ranvkrfsltkgqislnvakvdgrtgeiagtfeseqlsdddmgahephevkiqgvfyasi
  epa
  

  
  
• Chain 'T':
  Sequence; same for both SEQRES and ATOM records: (download)
  

  >5h2fT (T:)
  metityvfifaciialfffaiffrepprit
  

  
  
• Chain 'U':
  No sequence available.
  
  
• Chain 'V':
  Sequence; same for both SEQRES and ATOM records: (download)
  

  >5h2fV (V:)
  aeltpevltvplnsegktitltekqylegkrlfqyacaschvggitktnpsldlrtetla
  latpprdnieglvdymknpttydgeqeiaevhpslrsadifpkmrnltekdlvaiaghil
  vepkilgdkwgggkvyy
  

  
  
• Chain 'X':
  Sequence; same for both SEQRES and ATOM records: (download)
  

  >5h2fX (X:)
  titpslkgffigllsgavvlgltfavliaisqidkvq
  

  
  
• Chain 'Y':
  No sequence available.
  
  
• Chain 'Z':
  Sequence; same for both SEQRES and ATOM records: (download)
  

  >5h2fZ (Z:)
  mtilfqlalaalvilsfvmvigvpvayaspqdwdrskqliflgsglwialvlvvgvlnff
  vv
  

  
  
• Chain 'a':
  No sequence available.
  
  
• Chain 'b':
  No sequence available.
  
  
• Chain 'c':
  No sequence available.
  
  
• Chain 'd':
  No sequence available.
  
  
• Chain 'e':
  No sequence available.
  
  
• Chain 'f':
  No sequence available.
  
  
• Chain 'h':
  No sequence available.
  
  
• Chain 'i':
  No sequence available.
  
  
• Chain 'j':
  No sequence available.
  
  
• Chain 'k':
  No sequence available.
  
  
• Chain 'l':
  No sequence available.
  
  
• Chain 'o':
  No sequence available.
  
  
• Chain 't':
  No sequence available.
  
  
• Chain 'u':
  Sequence; same for both SEQRES and ATOM records: (download)
  

  >5h2fu (u:)
  elvnvvdeklgtaygekidlnntniaafiqyrglyptlaklivknapyesvedvlnipgl
  terqkqilrenlehftvtevetalveggdrynnglyk
  

  
  
• Chain 'v':
  No sequence available.
  
  
• Chain 'x':
  No sequence available.
  
  
• Chain 'y':
  No sequence available.
  
  
• Chain 'z':
  No sequence available.