eF-site ID 5kaf-A PDB Code 5kaf Chain A click to enlarge Title RT XFEL structure of Photosystem II in the dark state at 3.0 A resolution Classification ELECTRON TRANSPORT Compound Photosystem II protein D1 1 Source ORGANISM_SCIENTIFIC: Thermosynechococcus elongatus (strain BP-1); Sequence A:  ANLWERFCNWVTSTDNRLYVGWFGVIMIPTLLAATICFVI AFIAAPPVDIDGIREPVSGSLLYGNNIITGAVVPSSNAIG LHFYPIWEAASLDEWLYNGGPYQLIIFHFLLGASCYMGRQ WELSYRLGMRPWICVAYSAPLASAFAVFLIYPIGQGSFSD GMPLGISGTFNFMIVFQAEHNILMHPFHQLGVAGVFGGAL FCAMHGSLVTSSLIRETTETESANYGYKFGQEEETYNIVA AHGYFGRLIFQYASFNNSRSLHFFLAAWPVVGVWFTALGI STMAFNLNGFNFNHSVIDAKGNVINTWADIINRANLGMEV MHERNAHNFPLDLA Description Functional site 1) chain A residue 170 type sequence D description binding site for residue OEX A 601 source : AC1 2) chain A residue 189 type sequence E description binding site for residue OEX A 601 source : AC1 3) chain A residue 332 type sequence H description binding site for residue OEX A 601 source : AC1 4) chain A residue 333 type sequence E description binding site for residue OEX A 601 source : AC1 5) chain A residue 337 type sequence H description binding site for residue OEX A 601 source : AC1 6) chain A residue 342 type sequence D description binding site for residue OEX A 601 source : AC1 7) chain A residue 344 type sequence A description binding site for residue OEX A 601 source : AC1 8) chain A residue 215 type sequence H description binding site for residue FE2 A 602 source : AC2 9) chain A residue 272 type sequence H description binding site for residue FE2 A 602 source : AC2 10) chain A residue 200 type sequence L description binding site for residue SQD A 603 source : AC3 11) chain A residue 267 type sequence N description binding site for residue SQD A 603 source : AC3 12) chain A residue 270 type sequence S description binding site for residue SQD A 603 source : AC3 13) chain A residue 274 type sequence F description binding site for residue SQD A 603 source : AC3 14) chain A residue 278 type sequence W description binding site for residue SQD A 603 source : AC3 15) chain A residue 282 type sequence G description binding site for residue SQD A 603 source : AC3 16) chain A residue 332 type sequence H description binding site for residue CL A 604 source : AC4 17) chain A residue 333 type sequence E description binding site for residue CL A 604 source : AC4 18) chain A residue 337 type sequence H description binding site for residue CL A 605 source : AC5 19) chain A residue 338 type sequence N description binding site for residue CL A 605 source : AC5 20) chain A residue 339 type sequence F description binding site for residue CL A 605 source : AC5 21) chain A residue 147 type sequence Y description binding site for residue CLA A 606 source : AC6 22) chain A residue 150 type sequence P description binding site for residue CLA A 606 source : AC6 23) chain A residue 153 type sequence S description binding site for residue CLA A 606 source : AC6 24) chain A residue 157 type sequence V description binding site for residue CLA A 606 source : AC6 25) chain A residue 183 type sequence M description binding site for residue CLA A 606 source : AC6 26) chain A residue 186 type sequence F description binding site for residue CLA A 606 source : AC6 27) chain A residue 192 type sequence I description binding site for residue CLA A 606 source : AC6 28) chain A residue 193 type sequence L description binding site for residue CLA A 606 source : AC6 29) chain A residue 198 type sequence H description binding site for residue CLA A 606 source : AC6 30) chain A residue 201 type sequence G description binding site for residue CLA A 606 source : AC6 31) chain A residue 202 type sequence V description binding site for residue CLA A 606 source : AC6 32) chain A residue 206 type sequence F description binding site for residue CLA A 606 source : AC6 33) chain A residue 286 type sequence T description binding site for residue CLA A 606 source : AC6 34) chain A residue 287 type sequence A description binding site for residue CLA A 606 source : AC6 35) chain A residue 290 type sequence I description binding site for residue CLA A 606 source : AC6 36) chain A residue 199 type sequence Q description binding site for residue CLA A 607 source : AC7 37) chain A residue 202 type sequence V description binding site for residue CLA A 607 source : AC7 38) chain A residue 203 type sequence A description binding site for residue CLA A 607 source : AC7 39) chain A residue 207 type sequence G description binding site for residue CLA A 607 source : AC7 40) chain A residue 278 type sequence W description binding site for residue CLA A 607 source : AC7 41) chain A residue 41 type sequence L description binding site for residue PHO A 608 source : AC8 42) chain A residue 45 type sequence T description binding site for residue PHO A 608 source : AC8 43) chain A residue 126 type sequence Y description binding site for residue PHO A 608 source : AC8 44) chain A residue 130 type sequence Q description binding site for residue PHO A 608 source : AC8 45) chain A residue 147 type sequence Y description binding site for residue PHO A 608 source : AC8 46) chain A residue 279 type sequence P description binding site for residue PHO A 608 source : AC8 47) chain A residue 283 type sequence V description binding site for residue PHO A 608 source : AC8 48) chain A residue 36 type sequence I description binding site for residue CLA A 609 source : AC9 49) chain A residue 40 type sequence T description binding site for residue CLA A 609 source : AC9 50) chain A residue 93 type sequence F description binding site for residue CLA A 609 source : AC9 51) chain A residue 94 type sequence Y description binding site for residue CLA A 609 source : AC9 52) chain A residue 95 type sequence P description binding site for residue CLA A 609 source : AC9 53) chain A residue 96 type sequence I description binding site for residue CLA A 609 source : AC9 54) chain A residue 97 type sequence W description binding site for residue CLA A 609 source : AC9 55) chain A residue 114 type sequence L description binding site for residue CLA A 609 source : AC9 56) chain A residue 118 type sequence H description binding site for residue CLA A 609 source : AC9 57) chain A residue 38 type sequence I description binding site for residue BCR A 610 source : AD1 58) chain A residue 42 type sequence L description binding site for residue BCR A 610 source : AD1 59) chain A residue 43 type sequence A description binding site for residue BCR A 610 source : AD1 60) chain A residue 211 type sequence F description binding site for residue PL9 A 611 source : AD2 61) chain A residue 215 type sequence H description binding site for residue PL9 A 611 source : AD2 62) chain A residue 218 type sequence L description binding site for residue PL9 A 611 source : AD2 63) chain A residue 255 type sequence F description binding site for residue PL9 A 611 source : AD2 64) chain A residue 263 type sequence A description binding site for residue PL9 A 611 source : AD2 65) chain A residue 264 type sequence S description binding site for residue PL9 A 611 source : AD2 66) chain A residue 265 type sequence F description binding site for residue PL9 A 611 source : AD2 67) chain A residue 271 type sequence L description binding site for residue PL9 A 611 source : AD2 68) chain A residue 97 type sequence W description binding site for residue LMG A 612 source : AD3 69) chain A residue 98 type sequence E description binding site for residue LMG A 612 source : AD3 70) chain A residue 117 type sequence F description binding site for residue LMG A 612 source : AD3 71) chain A residue 26 type sequence N description binding site for residue LMG A 613 source : AD4 72) chain A residue 27 type sequence R description binding site for residue LMG A 613 source : AD4 73) chain A residue 28 type sequence L description binding site for residue LMG A 613 source : AD4 74) chain A residue 42 type sequence L description binding site for residue LMG A 613 source : AD4 75) chain A residue 48 type sequence F description binding site for residue CLA A 615 source : AD5 76) chain A residue 158 type sequence F description binding site for residue CLA A 615 source : AD5 77) chain A residue 172 type sequence M description binding site for residue CLA A 615 source : AD5 78) chain A residue 176 type sequence I description binding site for residue CLA A 615 source : AD5 79) chain A residue 179 type sequence T description binding site for residue CLA A 615 source : AD5 80) chain A residue 180 type sequence F description binding site for residue CLA A 615 source : AD5 81) chain A residue 183 type sequence M description binding site for residue CLA A 615 source : AD5 82) chain A residue 232 type sequence S description binding site for residue LHG A 616 source : AD6 83) chain A residue 234 type sequence N description binding site for residue LHG A 616 source : AD6 84) chain A residue 140 type sequence R description binding site for residue LHG A 617 source : AD7 85) chain A residue 142 type sequence W description binding site for residue LHG A 617 source : AD7 86) chain A residue 273 type sequence F description binding site for residue LHG A 617 source : AD7 87) chain A residue 285 type sequence F description binding site for residue LHG A 617 source : AD7 88) chain A residue 258 type sequence L description binding site for residue LHG A 618 source : AD8 89) chain A residue 262 type sequence Y description binding site for residue LHG A 618 source : AD8 90) chain A residue 264 type sequence S description binding site for residue LHG A 618 source : AD8 91) chain A residue 265 type sequence F description binding site for residue LHG A 618 source : AD8 92) chain A residue 103 type sequence D description binding site for residue SQD A 619 source : AD9 93) chain A residue 106 type sequence L description binding site for residue SQD A 619 source : AD9 94) chain A residue 215 type sequence H description binding site for residue BCT A 620 source : AE1 95) chain A residue 244 type sequence E description binding site for residue BCT A 620 source : AE1 96) chain A residue 246 type sequence Y description binding site for residue BCT A 620 source : AE1 97) chain A residue 272 type sequence H description binding site for residue BCT A 620 source : AE1 98) chain A residue 33 type sequence F description binding site for residue CLA C 505 source : AH3 99) chain A residue 121 type sequence L description binding site for residue CLA C 505 source : AH3 100) chain A residue 131 type sequence W description binding site for residue CLA C 505 source : AH3 101) chain A residue 91 type sequence L description binding site for residue DGD C 516 source : AI5 102) chain A residue 155 type sequence F description binding site for residue DGD C 516 source : AI5 103) chain A residue 163 type sequence I description binding site for residue DGD C 516 source : AI5 104) chain A residue 197 type sequence F description binding site for residue DGD C 517 source : AI6 105) chain A residue 196 type sequence P description binding site for residue DGD C 518 source : AI7 106) chain A residue 199 type sequence Q description binding site for residue DGD C 518 source : AI7 107) chain A residue 301 type sequence N description binding site for residue DGD C 518 source : AI7 108) chain A residue 302 type sequence F description binding site for residue DGD C 518 source : AI7 109) chain A residue 305 type sequence S description binding site for residue DGD C 518 source : AI7 110) chain A residue 210 type sequence L description binding site for residue PHO D 401 source : AJ1 111) chain A residue 214 type sequence M description binding site for residue PHO D 401 source : AJ1 112) chain A residue 258 type sequence L description binding site for residue PHO D 401 source : AJ1 113) chain A residue 183 type sequence M description binding site for residue CLA D 402 source : AJ2 114) chain A residue 52 type sequence F description binding site for residue PL9 D 407 source : AJ7 115) chain A residue 77 type sequence I description binding site for residue PL9 D 407 source : AJ7 116) chain A residue 102 type sequence L description binding site for residue SQD I 101 source : AK4 117) chain A residue 232 type sequence S description binding site for residue LHG L 101 source : AK6 118) chain A residue 234 type sequence N description binding site for residue LHG L 101 source : AK6 119) chain A residue 191-217 type prosite sequence NILMHPFHQLGVAGVFGGALFCAMHGS description REACTION_CENTER Photosynthetic reaction center proteins signature. NwtlnPfHmmGvagvlggallcAiHGA source prosite : PS00244 120) chain A residue 344 type BINDING sequence A description BINDING => ECO:0000255|HAMAP-Rule:MF_01379, ECO:0000269|PubMed:19219048, ECO:0000303|PubMed:14764885, ECO:0000303|PubMed:16355230, ECO:0000303|PubMed:20558739, ECO:0000303|PubMed:21367867, ECO:0000303|PubMed:23413188, ECO:0000303|PubMed:25043005 source Swiss-Prot : SWS_FT_FI11 121) chain A residue 161 type SITE sequence Y description Tyrosine radical intermediate => ECO:0000255|HAMAP-Rule:MF_01379, ECO:0000303|PubMed:11217865, ECO:0000303|PubMed:14764885, ECO:0000303|PubMed:19219048, ECO:0000303|PubMed:21367867, ECO:0000303|DOI:10.1039/B406989G source Swiss-Prot : SWS_FT_FI12 122) chain A residue 190 type SITE sequence H description Stabilizes free radical intermediate => ECO:0000255|HAMAP-Rule:MF_01379 source Swiss-Prot : SWS_FT_FI13 123) chain A residue 344 type SITE sequence A description Cleavage; by CtpA => ECO:0000255|HAMAP-Rule:MF_01379 source Swiss-Prot : SWS_FT_FI14 124) chain A residue 272 type MOD_RES sequence H description N-acetylthreonine => ECO:0000269|PubMed:19219048, ECO:0000269|PubMed:20558739 source Swiss-Prot : SWS_FT_FI5 125) chain A residue 332 type BINDING sequence H description BINDING => ECO:0000255|HAMAP-Rule:MF_01383, ECO:0000269|PubMed:16355230, ECO:0000269|PubMed:19219048, ECO:0000303|PubMed:14764885, ECO:0000303|PubMed:20558739, ECO:0000303|PubMed:21367867, ECO:0000303|PubMed:22665786, ECO:0000303|PubMed:23413188, ECO:0000303|PubMed:25043005, ECO:0000303|DOI:10.1039/B406989G source Swiss-Prot : SWS_FT_FI8 126) chain A residue 333 type BINDING sequence E description BINDING => ECO:0000255|HAMAP-Rule:MF_01383, ECO:0000269|PubMed:16355230, ECO:0000269|PubMed:19219048, ECO:0000303|PubMed:14764885, ECO:0000303|PubMed:20558739, ECO:0000303|PubMed:21367867, ECO:0000303|PubMed:22665786, ECO:0000303|PubMed:23413188, ECO:0000303|PubMed:25043005, ECO:0000303|DOI:10.1039/B406989G source Swiss-Prot : SWS_FT_FI8

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