1S5L: Photosystem Q protein

Architecture of the photosynthetic oxygen evolving center. Determined by X-ray diffraction at 3.5 Å resolution. Released 24 Feb 2004.

Method: X-ray diffraction
Resolution: 3.5 Å
Organism: Thermosynechococcus elongatus
Chains: 38
Atoms: 45,945
Mol. weight: 692.76 kDa
Ligands: FE, BCT, OEC, CLA
Released: 24 Feb 2004

Explore 1S5L in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

1S5L contains 254 α-helices and 140 β-strands across 38 chains. Residue ranges use author residue numbering, as in the PDB file, from PDBe. To see them in 3D, choose the Cartoon representation with Secondary structure coloring: helices, sheets and coils get different colors.

Chain a: 13 helices, 10 β-strands

Element	Residues	Length	Sheet
α-helix	2013-2022	10
α-helix	2034-2054	21
β-strand	2058	1	37
β-strand	2067	1	37
α-helix	2077-2079	3
β-strand	2082	1	38
α-helix	2102-2107	6
α-helix	2110-2136	27
α-helix	2143-2155	13
α-helix	2156-2160	5
α-helix	2161-2165	5
β-strand	2174	1	38
α-helix	2176-2189	14
α-helix	2196-2221	26
β-strand	2223	1	39
β-strand	2246	1	39
α-helix	2248-2258	11
α-helix	2268-2292	25
β-strand	2297-2298	2	40
β-strand	2305-2307	3	41
β-strand	2312-2314	3	41
β-strand	2316	1	42
α-helix	2319-2331	13

Chain A: 14 helices, 10 β-strands

Element	Residues	Length	Sheet
α-helix	13-22	10
α-helix	34-54	21
β-strand	58	1	1
β-strand	67	1	1
α-helix	77-79	3
β-strand	82	1	2
α-helix	102-107	6
α-helix	110-136	27
α-helix	143-155	13
α-helix	156-160	5
α-helix	161-165	5
β-strand	174	1	2
α-helix	176-189	14
α-helix	196-221	26
β-strand	223	1	3
β-strand	246	1	3
α-helix	248-258	11
α-helix	268-292	25
α-helix	293-295	3
β-strand	297-298	2	4
β-strand	305-307	3	5
β-strand	312-314	3	5
β-strand	316	1	6
α-helix	319-331	13

Chain b: 27 helices, 15 β-strands

Element	Residues	Length	Sheet
α-helix	2009-2012	4
α-helix	2016-2044	29
α-helix	2055-2058	4
α-helix	2063-2068	6
α-helix	2093-2115	23
α-helix	2135-2152	18
α-helix	2153-2157	5
α-helix	2165	1
β-strand	2166-2167	2	43
β-strand	2178-2179	2	43
α-helix	2195-2217	23
α-helix	2224-2227	4
α-helix	2235-2258	24
α-helix	2265-2268	4
α-helix	2272-2276	5
α-helix	2279-2292	14
α-helix	2298-2302	5
α-helix	2307-2313	7
α-helix	2315-2317	3
α-helix	2330-2332	3
β-strand	2337	1	44
β-strand	2342	1	45
α-helix	2343	1
β-strand	2344-2347	4	46
α-helix	2352	1
β-strand	2353-2354	2	46
β-strand	2355-2356	2	47
α-helix	2357-2360	4
β-strand	2369-2371	3	47
β-strand	2377-2380	4	47
α-helix	2392-2395	4
β-strand	2398-2401	4	46
β-strand	2402	1	48
α-helix	2405-2407	3
β-strand	2408	1	48
β-strand	2411	1	46
α-helix	2414-2424	11
β-strand	2429	1	45
β-strand	2432	1	44
α-helix	2434-2436	3
α-helix	2447-2474	28
α-helix	2476-2479	4

Chain B: 27 helices, 15 β-strands

Element	Residues	Length	Sheet
α-helix	9-12	4
α-helix	16-44	29
α-helix	55-58	4
α-helix	63-68	6
α-helix	93-115	23
α-helix	135-152	18
α-helix	153-157	5
α-helix	165	1
β-strand	166-167	2	7
β-strand	178-179	2	7
α-helix	195-217	23
α-helix	224-227	4
α-helix	235-258	24
α-helix	265-268	4
α-helix	272-276	5
α-helix	279-292	14
α-helix	298-302	5
α-helix	307-311	5
α-helix	315-317	3
α-helix	330-332	3
β-strand	337	1	8
β-strand	342	1	9
α-helix	343	1
β-strand	344-347	4	10
α-helix	352	1
β-strand	353-354	2	10
β-strand	355-356	2	11
α-helix	357-360	4
β-strand	369-371	3	11
β-strand	377-380	4	11
α-helix	392-395	4
β-strand	398-401	4	10
β-strand	402	1	12
α-helix	405-407	3
β-strand	408	1	12
β-strand	411	1	10
α-helix	414-424	11
β-strand	429	1	9
β-strand	432	1	8
α-helix	434-436	3
α-helix	447-474	28
α-helix	476-479	4

Chain c: 19 helices, 12 β-strands

Element	Residues	Length	Sheet
α-helix	2038-2041	4
α-helix	2046-2074	29
α-helix	2081-2084	4
α-helix	2089-2094	6
β-strand	2100	1	49
β-strand	2103	1	49
α-helix	2110-2134	25
α-helix	2142-2145	4
α-helix	2154-2180	27
β-strand	2185-2186	2	50
β-strand	2196-2197	2	50
α-helix	2206-2211	6
α-helix	2224-2226	3
α-helix	2230-2253	24
α-helix	2258-2263	6
α-helix	2268-2291	24
α-helix	2299-2302	4
α-helix	2306-2322	17
β-strand	2341-2343	3	51
β-strand	2349-2351	3	51
α-helix	2354-2356	3
α-helix	2367-2369	3
β-strand	2370-2371	2	52
β-strand	2374-2375	2	52
α-helix	2377-2382	6
α-helix	2387-2397	11
β-strand	2402-2403	2	40
β-strand	2407	1	53
β-strand	2408	1	40
β-strand	2418	1	53
α-helix	2422-2446	25

Chain C: 20 helices, 12 β-strands

Element	Residues	Length	Sheet
α-helix	38-41	4
α-helix	46-74	29
α-helix	81-84	4
α-helix	89-94	6
β-strand	100	1	13
β-strand	103	1	13
α-helix	110-134	25
α-helix	142-145	4
α-helix	154-180	27
β-strand	185-186	2	14
β-strand	196-197	2	14
α-helix	206-211	6
α-helix	212-214	3
α-helix	224-226	3
α-helix	230-253	24
α-helix	258-263	6
α-helix	268-291	24
α-helix	299-302	4
α-helix	306-322	17
β-strand	341-343	3	15
β-strand	349-351	3	15
α-helix	354-356	3
α-helix	367-369	3
β-strand	370-371	2	16
β-strand	374-375	2	16
α-helix	377-382	6
α-helix	387-397	11
β-strand	402-403	2	4
β-strand	407	1	17
β-strand	408	1	4
β-strand	418	1	17
α-helix	422-446	25

Chain d: 19 helices, 5 β-strands

Element	Residues	Length	Sheet
α-helix	2015-2023	9
α-helix	2034-2054	21
β-strand	2064	1	42
β-strand	2077-2078	2	54
α-helix	2083-2085	3
α-helix	2101-2106	6
α-helix	2109-2135	27
α-helix	2141-2145	5
α-helix	2147-2154	8
α-helix	2155-2159	5
α-helix	2160-2163	4
α-helix	2171-2172	2
β-strand	2173-2174	2	54
α-helix	2176-2188	13
α-helix	2191-2193	3
α-helix	2195-2221	27
β-strand	2222	1	55
α-helix	2223	1
β-strand	2244	1	55
α-helix	2246-2256	11
α-helix	2265-2289	25
α-helix	2299-2307	9
α-helix	2314-2333	20
α-helix	2343-2345	3

Chain D: 19 helices, 5 β-strands

Element	Residues	Length	Sheet
α-helix	15-23	9
α-helix	34-54	21
β-strand	64	1	6
β-strand	77-78	2	18
α-helix	83-85	3
α-helix	101-106	6
α-helix	109-135	27
α-helix	141-145	5
α-helix	147-154	8
α-helix	155-159	5
α-helix	160-163	4
α-helix	171-172	2
β-strand	173-174	2	18
α-helix	176-188	13
α-helix	191-193	3
α-helix	195-221	27
β-strand	222	1	19
α-helix	223	1
β-strand	244	1	19
α-helix	246-256	11
α-helix	265-289	25
α-helix	299-307	9
α-helix	314-333	20
α-helix	343-345	3

30 more chain groups are not listed. Open the entry in the viewer and use the sequence panel to see them.

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
Photosystem Q(B) protein	A, a	protein	344	Thermosynechococcus elongatus	P0A444 (AlphaFold model)
photosystem II core light harvesting protein	B, b	protein	510	Thermosynechococcus elongatus	Q8DIQ1 (AlphaFold model)
photosystem II CP43 protein	C, c	protein	473	Thermosynechococcus elongatus	Q8DIF8 (AlphaFold model)
photosystem II reaction center D2 protein	D, d	protein	352	Thermosynechococcus elongatus	Q8CM25 (AlphaFold model)
Cytochrome b559 alpha subunit	E, e	protein	84	Thermosynechococcus elongatus	Q8DIP0
Cytochrome b559 beta subunit	F, f	protein	45	Thermosynechococcus elongatus	Q8DIN9
photosystem II PsbH protein	H, h	protein	66	Thermosynechococcus elongatus	Q8DJ43
Photosystem II reaction center I protein	I, i	protein	38	Thermosynechococcus elongatus	Q8DJZ6
Photosystem II reaction center J protein	J, j	protein	40	Thermosynechococcus elongatus	P59087
Photosystem II reaction center protein K	K, k	protein	37	Thermosynechococcus elongatus	Q9F1K9
Photosystem II reaction center L protein	L, l	protein	37	Thermosynechococcus elongatus	Q8DIN8
Photosystem II reaction center M protein	M, m	protein	36	Thermosynechococcus elongatus	Q8DHA7

7 more molecules are not listed.

Sequence of entity 1 (A, a), FASTA

>1S5L_1 Photosystem Q(B) protein (chains A, a)
MTTTLQRRESANLWERFCNWVTSTDNRLYVGWFGVIMIPTLLAATICFVIAFIAAPPVDI
DGIREPVSGSLLYGNNIITGAVVPSSNAIGLHFYPIWEAASLDEWLYNGGPYQLIIFHFL
LGASCYMGRQWELSYRLGMRPWICVAYSAPLASAFAVFLIYPIGQGSFSDGMPLGISGTF
NFMIVFQAEHNILMHPFHQLGVAGVFGGALFCAMHGSLVTSSLIRETTETESANYGYKFG
QEEETYNIVAAHGYFGRLIFQYASFNNSRSLHFFLAAWPVVGVWFTALGISTMAFNLNGF
NFNHSVIDAKGNVINTWADIINRANLGMEVMHERNAHNFPLDLA

Sequence of entity 2 (B, b), FASTA

>1S5L_2 photosystem II core light harvesting protein (chains B, b)
MGLPWYRVHTVLINDPGRLIAAHLMHTALVAGWAGSMALYELATFDPSDPVLNPMWRQGM
FVLPFMARLGVTGSWSGWSITGETGIDPGFWSFEGVALAHIVLSGLLFLAACWHWVYWDL
ELFRDPRTGEPALDLPKMFGIHLFLAGLLCFGFGAFHLTGLFGPGMWVSDPYGLTGSVQP
VAPEWGPDGFNPYNPGGVVAHHIAAGIVGIIAGLFHILVRPPQRLYKALRMGNIETVLSS
SIAAVFFAAFVVAGTMWYGSATTPIELFGPTRYQWDSSYFQQEINRRVQASLASGATLEE
AWSAIPEKLAFYDYIGNNPAKGGLFRTGPMNKGDGIAQAWKGHAVFRNKEGEELFVRRMP
AFFESFPVILTDKNGVVKADIPFRRAESKYSFEQQGVTVSFYGGELNGQTFTDPPTVKSY
ARKAIFGEIFEFDTETLNSDGIFRTSPRGWFTFAHAVFALLFFFGHIWHGARTLFRDVFS
GIDPELSPEQVEWGFYQKVGDVTTRRKEAV

Sequence of entity 3 (C, c), FASTA

>1S5L_3 photosystem II CP43 protein (chains C, c)
MKTLSSQKRYSPVVTLSSNSIFATNRDQESSGFAWWAGNARLINLSGKLLGAHVAHAGLI
VFWAGAMTLFELAHFIPEKPMYEQGLILIPHIATLGWGVGPGGEVVDTFPFFVVGVVHLI
SSAVLGFGGVYHAIRGPETLEEYSSFFGYDWKDKNKMTTILGFHLIVLGIGALLLVAKAM
FFGGLYDTWAPGGGDVRVITNPTLDPRVIFGYLLKSPFGGEGWIVSVNNLEDVVGGHIWI
GLICIAGGIWHILTTPFGWARRAFIWSGEAYLSYSLGALSMMGFIATCFVWFNNTVYPSE
FYGPTGPEASQAQAMTFLIRDQKLGANVGSAQGPTGLGKYLMRSPTGEIIFGGETMRFWD
FRGPWLEPLRGPNGLDLNKIKNDIQPWQERRAAEYMTHAPLGSLNSVGGVATEINSVNFV
SPRSWLATSHFVLAFFFLVGHLWHAGRARAAAAGFEKGIDRESEPVLSMPSLD

Sequence of entity 4 (D, d), FASTA

>1S5L_4 photosystem II reaction center D2 protein (chains D, d)
MTIAIGRAPAERGWFDILDDWLKRDRFVFVGWSGILLFPCAYLALGGWLTGTTFVTSWYT
HGLASSYLEGCNFLTVAVSTPANSMGHSLLLLWGPEAQGDFTRWCQLGGLWTFIALHGAF
GLIGFMLRQFEIARLVGVRPYNAIAFSAPIAVFVSVFLIYPLGQSSWFFAPSFGVAAIFR
FLLFFQGFHNWTLNPFHMMGVAGVLGGALLCAIHGATVENTLFQDGEGASTFRAFNPTQA
EETYSMVTANRFWSQIFGIAFSNKRWLHFFMLFVPVTGLWMSAIGVVGLALNLRSYDFIS
QEIRAAEDPEFETFYTKNLLLNEGIRAWMAPQDQPHENFVFPEEVLPRGNAL

Sequence of entity 5 (E, e), FASTA

>1S5L_5 Cytochrome b559 alpha subunit (chains E, e)
MAGTTGERPFSDIITSVRYWVIHSITIPALFIAGWLFVSTGLAYDVFGTPRPDSYYAQEQ
RSIPLVTDRFEAKQQVETFLEQLK

Sequence of entity 6 (F, f), FASTA

>1S5L_6 Cytochrome b559 beta subunit (chains F, f)
MTSNTPNQEPVSYPIFTVRWVAVHTLAVPTIFFLGAIAAMQFIQR

Sequence of entity 7 (H, h), FASTA

>1S5L_7 photosystem II PsbH protein (chains H, h)
MARRTWLGDILRPLNSEYGKVAPGWGTTPLMAVFMGLFLVFLLIILEIYNSTLILDGVNV
SWKALG

Sequence of entity 8 (I, i), FASTA

>1S5L_8 Photosystem II reaction center I protein (chains I, i)
METLKITVYIVVTFFVLLFVFGFLSGDPARNPKRKDLE

Sequence of entity 9 (J, j), FASTA

>1S5L_9 Photosystem II reaction center J protein (chains J, j)
MMSEGGRIPLWIVATVAGMGVIVIVGLFFYGAYAGLGSSL

Sequence of entity 10 (K, k), FASTA

>1S5L_10 Photosystem II reaction center protein K (chains K, k)
KLPEAYAIFDPLVDVLPVIPVLFLALAFVWQAAVGFR

Sequence of entity 11 (L, l), FASTA

>1S5L_11 Photosystem II reaction center L protein (chains L, l)
MEPNPNRQPVELNRTSLYLGLLLILVLALLFSSYFFN

Sequence of entity 12 (M, m), FASTA

>1S5L_12 Photosystem II reaction center M protein (chains M, m)
MEVNQLGLIATALFVLVPSVFLIILYVQTESQQKSS

Ligands and cofactors

ID	Name	Formula	Copies
FE	FE (III) ion	Fe	2
BCT	Bicarbonate ion	C H O3	4
OEC	Oxygen evolving system	Ca Mn4 O4	2
CLA	Chlorophyll a	C55 H72 Mg N4 O5	72
PL9	2,3-dimethyl-5-(3,7,11,15,19,23,27,31,35-nonamethyl-2,6,10,14,18,22,26,30,34-he…	C53 H80 O2	4
LMT	Dodecyl-beta-D-maltoside	C24 H46 O11	2
BCR	Beta-carotene	C40 H56	14
HEC	Heme C	C34 H36 Fe N4 O4	4
PHO	Pheophytin a	C55 H74 N4 O5	4

Primary citation

Architecture of the Photosynthetic Oxygen-Evolving Center. Ferreira, K.N., Iverson, T.M., Maghlaoui, K. et al. Science (2004) 303:1831-1838. DOI 10.1126/science.1093087 · PubMed

Other PDB entries of the same protein (UniProt P0A444 (AlphaFold model), which also has an AlphaFold model), best resolution first:

5OJ5 1.08 Å, YCF48 bound to D1 peptide
9EVX 1.71 Å, cryoEM structure of Photosystem II averaged across S2-S3 states at 1.71 Angstrom…
7RF1 1.89 Å, RT XFEL structure of Photosystem II averaged across all S-states at 1.89 Angstrom…
9Z35 1.93 Å, RT XFEL structure of two-flash state of Photosystem II (2F, S3 rich) at 1.93 Angstrom…
9Z6A 1.93 Å, RT XFEL structure of the two-flash state of Photosystem II (2F, S3 rich) at 1.93…
9Z33 1.97 Å, RT XFEL structure of dark-stable state of Photosystem II (0F, S1 rich) at 1.97 Angstrom…
9Z68 1.97 Å, RT XFEL structure of the dark-stable state of Photosystem II (0F, S1 rich) at 1.97…
9Z34 1.98 Å, RT XFEL structure of one-flash state of Photosystem II (1F, S2 rich) at 1.98 Angstrom…
9Z69 1.98 Å, RT XFEL structure of the one-flash state of Photosystem II (1F, S2 rich) at 1.98…
8F4C 2.0 Å, RT XFEL structure of the two-flash state of Photosystem II (2F, S3-rich) at 2.00…
8F4I 2.0 Å, RT XFEL structure of Photosystem II 2000 microseconds after the third illumination at…
8F4J 2.0 Å, RT XFEL structure of Photosystem II 4000 microseconds after the third illumination at…

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1S5L is part of these collections:

Photosynthesis

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