5B5E

Crystal structure analysis of Photosystem II complex

Entity

Entity ID	Chain ID	Description	Type	Chain length	Formula weight	Number of molecules	DB Name (Accession)	Biological source	Descriptive keywords
1	A, T (A, a)	Photosystem II protein D1	polymer	344	38235.6	2	UniProt (P51765) Pfam (PF00124)	Thermosynechococcus vulcanus	PSII D1 protein,Photosystem II Q(B) protein
2	B, U (B, b)	Photosystem II CP47 reaction center protein	polymer	505	56068.7	2	UniProt (D0VWR1) Pfam (PF00421)	Thermosynechococcus vulcanus	PSII 47 kDa protein,Protein CP-47
3	C, V (C, c)	Photosystem II CP43 reaction center protein	polymer	455	49668.8	2	UniProt (D0VWR7) Pfam (PF00421)	Thermosynechococcus vulcanus	PSII 43 kDa protein,Protein CP-43
4	D, W (D, d)	Photosystem II D2 protein	polymer	342	38404.9	2	UniProt (D0VWR8) Pfam (PF00124)	Thermosynechococcus vulcanus	PSII D2 protein,Photosystem Q(A) protein
5	E, X (E, e)	Cytochrome b559 subunit alpha	polymer	83	9449.6	2	UniProt (P12238) Pfam (PF00283) Pfam (PF00284)	Thermosynechococcus vulcanus	PSII reaction center subunit V
6	F, Y (F, f)	Cytochrome b559 subunit beta	polymer	44	4936.7	2	UniProt (P12239) Pfam (PF00283)	Thermosynechococcus vulcanus	PSII reaction center subunit VI
7	G, Z (H, h)	Photosystem II reaction center protein H	polymer	65	7227.6	2	UniProt (P19052) Pfam (PF00737)	Thermosynechococcus vulcanus	PSII-H
8	AA, H (I, i)	Photosystem II reaction center protein I	polymer	38	4438.3	2	UniProt (P12240) Pfam (PF02532)	Thermosynechococcus vulcanus	PSII-I,PSII 4.4 kDa protein
9	BA, I (J, j)	Photosystem II reaction center protein J	polymer	40	4105.9	2	UniProt (Q7DGD4) Pfam (PF01788)	Thermosynechococcus vulcanus	PSII-J
10	CA, J (K, k)	Photosystem II reaction center protein K	polymer	37	4101.9	2	UniProt (P19054) Pfam (PF02533)	Thermosynechococcus vulcanus	PSII-K
11	DA, K (L, l)	Photosystem II reaction center protein L	polymer	37	4299.0	2	UniProt (P12241) Pfam (PF02419)	Thermosynechococcus vulcanus	PSII-L
12	EA, L (M, m)	Photosystem II reaction center protein M	polymer	36	3981.7	2	UniProt (P12312) Pfam (PF05151)	Thermosynechococcus vulcanus	PSII-M
13	FA, M (O, o)	Photosystem II manganese-stabilizing polypeptide	polymer	244	26651.7	2	UniProt (D0VWR2) Pfam (PF01716)	Thermosynechococcus vulcanus	MSP
14	GA, N (T, t)	Photosystem II reaction center protein T	polymer	32	3906.7	2	UniProt (P12313) Pfam (PF01405)	Thermosynechococcus vulcanus	PSII-Tc
15	HA, O (U, u)	Photosystem II 12 kDa extrinsic protein	polymer	104	11656.0	2	UniProt (P56152) Pfam (PF06514)	Thermosynechococcus vulcanus	PS II complex 12 kDa extrinsic protein,PSII-U
16	IA, P (V, v)	Cytochrome c-550	polymer	137	15148.3	2	UniProt (P0A387) Pfam (PF14495)	Thermosynechococcus vulcanus	Cytochrome c550,Low-potential cytochrome c
17	JA, Q (Y, y)	Photosystem II reaction center protein Ycf12	polymer	30	3228.0	2	UniProt (D0VWR3) Pfam (PF05969)	Thermosynechococcus vulcanus
18	KA, R (X, x)	Photosystem II reaction center protein X	polymer	40	4191.0	2	UniProt (D0VWR4) Pfam (PF06596)	Thermosynechococcus vulcanus
19	LA, S (Z, z)	Photosystem II reaction center protein Z	polymer	62	6766.2	2	UniProt (D0VWR5) Pfam (PF01737)	Thermosynechococcus vulcanus	PSII-Z
20	MA, OH (A, a)	CA-MN4-O5 CLUSTER	non-polymer		339.8	2	Chemie (OEX)
21	NA, PH (A, a)	FE (II) ION	non-polymer		55.8	2	Chemie (FE2)
22	OA, PA, QH, RH (A, a)	CHLORIDE ION	non-polymer		35.5	4	Chemie (CL)
23	AC, AJ, BJ, HK, ID... (B, b, c, C, D...)	CHLOROPHYLL A	non-polymer		893.5	70	Chemie (CLA)
24	PE, SA, UH, VH (D, A, a)	PHEOPHYTIN A	non-polymer		871.2	4	Chemie (PHO)
25	BC, CC, CJ, DC, DJ... (B, b, j, k, Y...)	BETA-CAROTENE	non-polymer		536.9	20	Chemie (BCR)
26	AB, CG, DI, EC, JO... (A, L, a, B, x...)	1,2-DI-O-ACYL-3-O-[6-DEOXY-6-SULFO-ALPHA-D-GLUCOPYRANOSYL]-SN-GLYCEROL	non-polymer		795.1	8	Chemie (SQD)
27	AI, TE, WA, WL (a, D, A, d)	2,3-DIMETHYL-5-(3,7,11,15,19,23,27,31,35-NONAMETHYL-2,6,10,14,18,22,26,30,34-HEXATRIACONTANONAENYL-2,5-CYCLOHEXADIENE-1,4-DIONE-2,3-DIMETHYL-5-SOLANESYL-1,4-BENZOQUINONE	non-polymer		749.2	4	Chemie (PL9)
28	AG, AM, BG, BI, FF... (K, d, L, a, E...)	1,2-DIPALMITOYL-PHOSPHATIDYL-GLYCEROLE	non-polymer		723.0	14	Chemie (LHG)
29	AF, CB, CI, CM, CN... (D, A, a, d, j...)	UNKNOWN LIGAND	non-polymer			53	Chemie (UNL)
30	AD, BB, BD, DG, EI... (B, A, M, a, b...)	DODECYL-BETA-D-MALTOSIDE	non-polymer		510.6	16	Chemie (LMT)
31	AK, AO, BH, BK, CD... (b, v, V, B, D...)	DIMETHYL SULFOXIDE	non-polymer		78.1	112	Chemie (DMS)
32	FB, KI (A, a)	BICARBONATE ION	non-polymer		61.0	2	Chemie (BCT)
33	FG, GK, KB, LI, ON (O, c, B, b, o)	CALCIUM ION	non-polymer		40.1	5	Chemie (CA)
34	AE, AN, BM, FC, HD... (C, j, d, B, c...)	1,2-DISTEAROYL-MONOGALACTOSYL-DIGLYCERIDE	non-polymer		787.2	12	Chemie (LMG)
35	AH, AL, BE, BF, BL... (V, c, C, D, v...)	heptyl 1-thio-beta-D-glucopyranoside	non-polymer		294.4	20	Chemie (HTG)
36	OF, QM, UE, WK, XD... (H, h, D, c, C...)	DIGALACTOSYL DIACYL GLYCEROL (DGDG)	non-polymer		949.3	10	Chemie (DGD)
37	JF, OM (E, e)	PROTOPORPHYRIN IX CONTAINING FE	non-polymer		616.5	2	Chemie (HEM)
38	KO, NF (x, H)	(3R)-beta,beta-caroten-3-ol	non-polymer		552.9	2	Chemie (RRX)
39	BN, WF (j, J)	MAGNESIUM ION	non-polymer		24.3	2	Chemie (MG)
40	BO, ZG (v, V)	HEME C	non-polymer		618.5	2	Chemie (HEC)
41	AP, BP, CP, DP, EP... (O, T, U, V, Y...)	water	water		18.0	3624	Chemie (HOH)

Sequence modifications

A, a: 1 - 344 (UniProt: P51765)

PDB	External Database	Details
Pro 279	Arg 279	see sequence details

C, c: 23 - 473 (UniProt: D0VWR7)

PDB	External Database	Details
Asn 19	-	see sequence details
Ser 20	-	see sequence details
Ile 21	-	see sequence details
Phe 22	-	see sequence details

K, k: 10 - 46 (UniProt: P19054)

PDB	External Database	Details
Leu 33	Phe 24	see sequence details
Trp 39	Val 30	see sequence details

M, m: 1 - 36 (UniProt: P12312)

PDB	External Database	Details
Leu 8	Phe 8	see sequence details

Contents of the asymmetric unit

Polymers	Number of chains	38
	Total formula weight	592933.4
Non-Polymers*	Number of molecules	366
	Total formula weight	142873.5
All*	Total formula weight	735806.9

*Water molecules are not included.