eF-site ID 6w1u-d PDB Code 6w1u Chain d click to enlarge Title RT XFEL structure of Photosystem II 400 microseconds after the second illumination at 2.09 Angstrom resolution Classification PHOTOSYNTHESIS Compound Photosystem II protein D1 1 Source ORGANISM_SCIENTIFIC: Thermosynechococcus elongatus (strain BP-1); Sequence d:  RGWFDILDDWLKRDRFVFVGWSGILLFPCAYLALGGWLTG TTFVTSWYTHGLASSYLEGCNFLTVAVSTPANSMGHSLLL LWGPEAQGDFTRWCQLGGLWTFIALHGAFGLIGFMLRQFE IARLVGVRPYNAIAFSAPIAVFVSVFLIYPLGQSSWFFAP SFGVAAIFRFLLFFQGFHNWTLNPFHMMGVAGVLGGALLC AIHGATVENTLFQDGEGASTFRAFNPTQAEETYSMVTANR FWSQIFGIAFSNKRWLHFFMLFVPVTGLWMSAIGVVGLAL NLRSYDFISQEIRAAEDPEFETFYTKNLLLNEGIRAWMAP QDQPHENFVFPEEVLPRGNAL Description Functional site 1) chain d residue 214 type sequence H description binding site for residue FE2 a 401 source : AN1 2) chain d residue 268 type sequence H description binding site for residue FE2 a 401 source : AN1 3) chain d residue 205 type sequence L description binding site for residue CLA a 402 source : AN2 4) chain d residue 157 type sequence F description binding site for residue CLA a 403 source : AN3 5) chain d residue 175 type sequence V description binding site for residue CLA a 403 source : AN3 6) chain d residue 178 type sequence I description binding site for residue CLA a 403 source : AN3 7) chain d residue 179 type sequence F description binding site for residue CLA a 403 source : AN3 8) chain d residue 182 type sequence L description binding site for residue CLA a 403 source : AN3 9) chain d residue 208 type sequence A description binding site for residue PHO a 404 source : AN4 10) chain d residue 209 type sequence L description binding site for residue PHO a 404 source : AN4 11) chain d residue 213 type sequence I description binding site for residue PHO a 404 source : AN4 12) chain d residue 253 type sequence W description binding site for residue PHO a 404 source : AN4 13) chain d residue 317 type sequence K description binding site for residue CL a 407 source : AN7 14) chain d residue 214 type sequence H description binding site for residue BCT a 409 source : AN9 15) chain d residue 244 type sequence Y description binding site for residue BCT a 409 source : AN9 16) chain d residue 264 type sequence K description binding site for residue BCT a 409 source : AN9 17) chain d residue 268 type sequence H description binding site for residue BCT a 409 source : AN9 18) chain d residue 30 type sequence V description binding site for residue PL9 a 410 source : AO1 19) chain d residue 39 type sequence P description binding site for residue PL9 a 410 source : AO1 20) chain d residue 41 type sequence A description binding site for residue PL9 a 410 source : AO1 21) chain d residue 45 type sequence L description binding site for residue PL9 a 410 source : AO1 22) chain d residue 198 type sequence M description binding site for residue CLA a 411 source : AO2 23) chain d residue 201 type sequence V description binding site for residue CLA a 411 source : AO2 24) chain d residue 202 type sequence A description binding site for residue CLA a 411 source : AO2 25) chain d residue 230 type sequence S description binding site for residue SQD a 412 source : AO3 26) chain d residue 232 type sequence F description binding site for residue SQD a 412 source : AO3 27) chain d residue 233 type sequence R description binding site for residue SQD a 412 source : AO3 28) chain d residue 159 type sequence I description binding site for residue CLA b 601 source : AO9 29) chain d residue 120 type sequence F description binding site for residue CLA b 607 source : AP6 30) chain d residue 123 type sequence I description binding site for residue CLA b 607 source : AP6 31) chain d residue 126 type sequence M description binding site for residue CLA b 607 source : AP6 32) chain d residue 41 type sequence A description binding site for residue PHO d 401 source : AU6 33) chain d residue 48 type sequence W description binding site for residue PHO d 401 source : AU6 34) chain d residue 114 type sequence I description binding site for residue PHO d 401 source : AU6 35) chain d residue 121 type sequence G description binding site for residue PHO d 401 source : AU6 36) chain d residue 122 type sequence L description binding site for residue PHO d 401 source : AU6 37) chain d residue 125 type sequence F description binding site for residue PHO d 401 source : AU6 38) chain d residue 129 type sequence Q description binding site for residue PHO d 401 source : AU6 39) chain d residue 142 type sequence N description binding site for residue PHO d 401 source : AU6 40) chain d residue 145 type sequence A description binding site for residue PHO d 401 source : AU6 41) chain d residue 146 type sequence F description binding site for residue PHO d 401 source : AU6 42) chain d residue 153 type sequence F description binding site for residue PHO d 401 source : AU6 43) chain d residue 152 type sequence V description binding site for residue CLA d 402 source : AU7 44) chain d residue 156 type sequence V description binding site for residue CLA d 402 source : AU7 45) chain d residue 182 type sequence L description binding site for residue CLA d 402 source : AU7 46) chain d residue 185 type sequence F description binding site for residue CLA d 402 source : AU7 47) chain d residue 191 type sequence W description binding site for residue CLA d 402 source : AU7 48) chain d residue 192 type sequence T description binding site for residue CLA d 402 source : AU7 49) chain d residue 197 type sequence H description binding site for residue CLA d 402 source : AU7 50) chain d residue 200 type sequence G description binding site for residue CLA d 402 source : AU7 51) chain d residue 201 type sequence V description binding site for residue CLA d 402 source : AU7 52) chain d residue 282 type sequence S description binding site for residue CLA d 402 source : AU7 53) chain d residue 283 type sequence A description binding site for residue CLA d 402 source : AU7 54) chain d residue 286 type sequence V description binding site for residue CLA d 402 source : AU7 55) chain d residue 35 type sequence I description binding site for residue CLA d 403 source : AU8 56) chain d residue 40 type sequence C description binding site for residue CLA d 403 source : AU8 57) chain d residue 43 type sequence L description binding site for residue CLA d 403 source : AU8 58) chain d residue 89 type sequence L description binding site for residue CLA d 403 source : AU8 59) chain d residue 90 type sequence L description binding site for residue CLA d 403 source : AU8 60) chain d residue 91 type sequence L description binding site for residue CLA d 403 source : AU8 61) chain d residue 92 type sequence L description binding site for residue CLA d 403 source : AU8 62) chain d residue 93 type sequence W description binding site for residue CLA d 403 source : AU8 63) chain d residue 112 type sequence T description binding site for residue CLA d 403 source : AU8 64) chain d residue 113 type sequence F description binding site for residue CLA d 403 source : AU8 65) chain d residue 116 type sequence L description binding site for residue CLA d 403 source : AU8 66) chain d residue 117 type sequence H description binding site for residue CLA d 403 source : AU8 67) chain d residue 42 type sequence Y description binding site for residue BCR d 404 source : AU9 68) chain d residue 46 type sequence G description binding site for residue BCR d 404 source : AU9 69) chain d residue 47 type sequence G description binding site for residue BCR d 404 source : AU9 70) chain d residue 49 type sequence L description binding site for residue BCR d 404 source : AU9 71) chain d residue 50 type sequence T description binding site for residue BCR d 404 source : AU9 72) chain d residue 198 type sequence M description binding site for residue PL9 d 405 source : AV1 73) chain d residue 202 type sequence A description binding site for residue PL9 d 405 source : AV1 74) chain d residue 214 type sequence H description binding site for residue PL9 d 405 source : AV1 75) chain d residue 217 type sequence T description binding site for residue PL9 d 405 source : AV1 76) chain d residue 253 type sequence W description binding site for residue PL9 d 405 source : AV1 77) chain d residue 260 type sequence A description binding site for residue PL9 d 405 source : AV1 78) chain d residue 261 type sequence F description binding site for residue PL9 d 405 source : AV1 79) chain d residue 267 type sequence L description binding site for residue PL9 d 405 source : AV1 80) chain d residue 270 type sequence F description binding site for residue PL9 d 405 source : AV1 81) chain d residue 141 type sequence Y description binding site for residue LHG d 406 source : AV2 82) chain d residue 144 type sequence I description binding site for residue LHG d 406 source : AV2 83) chain d residue 266 type sequence W description binding site for residue LHG d 406 source : AV2 84) chain d residue 269 type sequence F description binding site for residue LHG d 406 source : AV2 85) chain d residue 277 type sequence T description binding site for residue LHG d 406 source : AV2 86) chain d residue 256 type sequence I description binding site for residue LHG d 407 source : AV3 87) chain d residue 257 type sequence F description binding site for residue LHG d 407 source : AV3 88) chain d residue 260 type sequence A description binding site for residue LHG d 407 source : AV3 89) chain d residue 262 type sequence S description binding site for residue LHG d 407 source : AV3 90) chain d residue 263 type sequence N description binding site for residue LHG d 407 source : AV3 91) chain d residue 266 type sequence W description binding site for residue LHG d 407 source : AV3 92) chain d residue 219 type sequence E description binding site for residue LHG d 408 source : AV4 93) chain d residue 220 type sequence N description binding site for residue LHG d 408 source : AV4 94) chain d residue 229 type sequence A description binding site for residue LHG d 408 source : AV4 95) chain d residue 230 type sequence S description binding site for residue LHG d 408 source : AV4 96) chain d residue 231 type sequence T description binding site for residue LHG d 408 source : AV4 97) chain d residue 232 type sequence F description binding site for residue LHG d 408 source : AV4 98) chain d residue 67 type sequence Y description binding site for residue LMG d 409 source : AV5 99) chain d residue 70 type sequence G description binding site for residue LMG d 409 source : AV5 100) chain d residue 71 type sequence C description binding site for residue LMG d 409 source : AV5 101) chain d residue 72 type sequence N description binding site for residue LMG d 409 source : AV5 102) chain d residue 73 type sequence F description binding site for residue LMG d 409 source : AV5 103) chain d residue 131 type sequence E description binding site for residue STE d 410 source : AV6 104) chain d residue 134 type sequence R description binding site for residue STE d 410 source : AV6 105) chain d residue 93 type sequence W description binding site for residue STE d 411 source : AV7 106) chain d residue 98 type sequence Q description binding site for residue STE d 411 source : AV7 107) chain d residue 99 type sequence G description binding site for residue STE d 411 source : AV7 108) chain d residue 16 type sequence D description binding site for residue STE d 412 source : AV8 109) chain d residue 19 type sequence D description binding site for residue STE d 412 source : AV8 110) chain d residue 23 type sequence K description binding site for residue STE d 412 source : AV8 111) chain d residue 32 type sequence W description binding site for residue STE d 412 source : AV8 112) chain d residue 27 type sequence F description binding site for residue LHG e 102 source : AW1 113) chain d residue 24 type sequence R description binding site for residue SQD f 101 source : AW2 114) chain d residue 26 type sequence R description binding site for residue SQD f 101 source : AW2 115) chain d residue 87 type sequence H description binding site for residue DGD h 102 source : AW4 116) chain d residue 162 type sequence L description binding site for residue DGD h 102 source : AW4 117) chain d residue 163 type sequence G description binding site for residue DGD h 102 source : AW4 118) chain d residue 291 type sequence L description binding site for residue DGD h 102 source : AW4 119) chain d residue 266 type sequence W description binding site for residue LHG l 101 source : AW7 120) chain d residue 273 type sequence F description binding site for residue LHG l 101 source : AW7 121) chain d residue 300 type sequence S description binding site for Di-peptide FME m 1 and GLU m 2 source : AX4 122) chain d residue 304 type sequence R description binding site for Di-peptide FME m 1 and GLU m 2 source : AX4 123) chain d residue 214 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 124) chain d residue 261 type BINDING sequence F 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:25006873, ECO:0000303|PubMed:25043005 source Swiss-Prot : SWS_FT_FI9 125) chain d residue 268 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:25006873, ECO:0000303|PubMed:25043005, ECO:0000303|DOI:10.1039/B406989G source Swiss-Prot : SWS_FT_FI10 126) chain d residue 132-140 type TOPO_DOM sequence IARLVGVRP description Lumenal source Swiss-Prot : SWS_FT_FI1 127) chain d residue 218-265 type TOPO_DOM sequence VENTLFQDGEGASTFRAFNPTQAEETYSMVTANRFWSQIF GIAFSNKR description Lumenal source Swiss-Prot : SWS_FT_FI1 128) chain d residue 142 type BINDING sequence N description BINDING => ECO:0000255|HAMAP-Rule:MF_01383, ECO:0000269|PubMed:16355230, ECO:0000269|PubMed:19219048, ECO:0000303|PubMed:20558739, ECO:0000303|PubMed:21367867, ECO:0000303|PubMed:25043005 source Swiss-Prot : SWS_FT_FI6 129) chain d residue 197 type BINDING sequence H description axial binding residue => 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_FI7 130) chain d residue 266-288 type TRANSMEM sequence WLHFFMLFVPVTGLWMSAIGVVG description Helical => ECO:0000269|PubMed:33846594, ECO:0007744|PDB:7NHQ source Swiss-Prot : SWS_FT_FI2 131) chain d residue 32-53 type TRANSMEM sequence WSGILLFPCAYLALGGWLTGTT description Helical => ECO:0000269|PubMed:33846594, ECO:0007744|PDB:7NHQ source Swiss-Prot : SWS_FT_FI2 132) chain d residue 109-131 type TRANSMEM sequence GLWTFIALHGAFGLIGFMLRQFE description Helical => ECO:0000269|PubMed:33846594, ECO:0007744|PDB:7NHQ source Swiss-Prot : SWS_FT_FI2 133) chain d residue 141-160 type TRANSMEM sequence YNAIAFSAPIAVFVSVFLIY description Helical => ECO:0000269|PubMed:33846594, ECO:0007744|PDB:7NHQ source Swiss-Prot : SWS_FT_FI2 134) chain d residue 194-217 type TRANSMEM sequence NPFHMMGVAGVLGGALLCAIHGAT description Helical => ECO:0000269|PubMed:33846594, ECO:0007744|PDB:7NHQ source Swiss-Prot : SWS_FT_FI2 135) chain d residue 54-108 type TOPO_DOM sequence FVTSWYTHGLASSYLEGCNFLTVAVSTPANSMGHSLLLLW GPEAQGDFTRWCQLG description Cytoplasmic => ECO:0000269|PubMed:33846594, ECO:0007744|PDB:7NHQ source Swiss-Prot : SWS_FT_FI3 136) chain d residue 161-193 type TOPO_DOM sequence PLGQSSWFFAPSFGVAAIFRFLLFFQGFHNWTL description Cytoplasmic => ECO:0000269|PubMed:33846594, ECO:0007744|PDB:7NHQ source Swiss-Prot : SWS_FT_FI3 137) chain d residue 289-352 type TOPO_DOM sequence LALNLRSYDFISQEIRAAEDPEFETFYTKNLLLNEGIRAW MAPQDQPHENFVFPEEVLPRGNAL description Cytoplasmic => ECO:0000269|PubMed:33846594, ECO:0007744|PDB:7NHQ source Swiss-Prot : SWS_FT_FI3

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