Danish

PDB ID: pdb_00009l5v

cryo-EM structure of PSII-ACPII from Rhodomonas sp. NIES-2332
Experimental method: ELECTRON MICROSCOPY
Resolution: 2.17 Å
Deposition date: 2024-12-23

Number of assemblies: 1

Assembly ID: 0 (author_defined_assembly)
Structural data	including_not_modeled
Oligomeric count	46
label_asym_ids of protein	46 chains (4 with heme) A, AA, B, BA, C, CA, D, DA, E, EA, F, FA, G, GA, H, HA, I, IA, J, JA, K, KA, L, LA, M, MA, N, NA, O, OA, P, PA, Q, QA, R, RA, S, SA, T, TA, U, V, W, X, Y, Z
label_asym_ids of heme	EG HD
label_asym_ids of the others	show AB (PL9), AC (LHG), AD (CLA), AE (MN), AF (CLA), AG (LHG), AH (II0), AI (CLA), AJ (CLA), AK (LMG), AL (CLA), AM (IHT), AN (KC2), AO (II0), BB (SQD), BC (CLA), BD (CLA), BE (LMG), BF (CLA), BG (LMG), BH (II0), BI (CLA), BJ (CLA), BK (II0), BL (CLA), BM (LMG), BN (KC2), BO (IHT), CB (CL), CC (CLA), CD (PL9), CE (CLA), CF (CLA), CG (WVN), CH (II0), CI (CLA), CJ (CLA), CK (CLA), CL (KC2), CM (II0), CN (CLA), CO (II0), DB (MN), DC (CLA), DD (LHG), DE (CLA), DF (CLA), DG (LMG), DH (IHT), DI (CLA), DJ (CLA), DK (CLA), DL (CLA), DM (CLA), DN (CLA), DO (LHG), EB (MN), EC (CLA), ED (LMG), EE (CLA), EF (CLA), EH (LHG), EI (CLA), EJ (II0), EK (CLA), EL (CLA), EM (CLA), EN (II0), EO (CLA), FB (LMG), FC (CLA), FD (WVN), FE (CLA), FF (CLA), FG (DGD), FH (CLA), FI (CLA), FJ (II0), FK (CLA), FL (II0), FM (CLA), FN (II0), FO (CLA), GB (CLA), GC (CLA), GD (LMG), GE (CLA), GF (CLA), GG (WVN), GH (CLA), GI (CLA), GJ (II0), GK (CLA), GL (II0), GM (CLA), GN (II0), GO (CLA), HB (CLA), HC (CLA), HE (CLA), HF (CLA), HG (LHG), HH (CLA), HI (CLA), HJ (WVN), HK (CLA), HL (II0), HM (KC2), HN (II0), HO (CLA), IB (CLA), IC (CLA), ID (WVN), IE (CLA), IF (CLA), IG (LMG), IH (CLA), II (CLA), IJ (CLA), IK (CLA), IL (CLA), IM (CLA), IN (IHT), IO (CLA), JB (CLA), JC (CLA), JD (DGD), JE (CLA), JF (CLA), JG (WVN), JH (KC2), JI (KC2), JJ (CLA), JK (CLA), JL (CLA), JM (CLA), JN (LMG), JO (CLA), KB (CLA), KC (CLA), KD (LHG), KE (CLA), KF (CLA), KG (LHG), KH (CLA), KI (CLA), KJ (CLA), KK (CLA), KL (LHG), KM (CLA), KN (II0), KO (CLA), LB (CLA), LC (CLA), LD (LMG), LE (CLA), LF (CLA), LG (CLA), LH (CLA), LI (CLA), LJ (CLA), LK (KC2), LL (CLA), LM (CLA), LN (LMG), LO (KC2), MB (CLA), MC (CLA), MD (WVN), ME (CLA), MF (WVN), MG (CLA), MH (CLA), MI (II0), MJ (KC2), MK (CLA), ML (CLA), MM (CLA), MN (CLA), MO (CLA), NB (CLA), NC (CLA), ND (WVN), NE (CLA), NF (WVN), NG (CLA), NH (CLA), NI (II0), NJ (CLA), NK (CLA), NL (CLA), NM (CLA), NN (CLA), NO (CLA), OB (CLA), OC (WVN), OD (LHG), OE (CLA), OF (WVN), OG (CLA), OH (KC2), OI (II0), OJ (CLA), OK (II0), OL (CLA), OM (II0), ON (CLA), OO (II0), PB (CLA), PC (WVN), PD (FE2), PE (CLA), PF (DGD), PG (KC2), PH (KC2), PI (II0), PJ (CLA), PK (II0), PL (CLA), PM (II0), PN (CLA), PO (II0), QB (CLA), QC (DGD), QD (CLA), QE (CLA), QF (LHG), QG (CLA), QH (KC2), QI (IHT), QJ (CLA), QK (II0), QL (CLA), QM (II0), QN (CLA), QO (WVN), RB (CLA), RC (LHG), RD (CLA), RE (CLA), RF (LMG), RG (CLA), RH (CLA), RI (LMG), RJ (KC2), RK (IHT), RL (CLA), RM (WVN), RN (CLA), RO (CLA), SB (CLA), SC (LMG), SD (PHO), SE (WVN), SF (LMG), SG (CLA), SH (CLA), SI (CLA), SJ (KC2), SK (WVN), SL (CLA), SM (CLA), SN (CLA), SO (CLA), TB (CLA), TC (LMG), TD (CLA), TE (WVN), TF (BCT), TG (CLA), TH (II0), TI (II0), TJ (CLA), TK (LHG), TL (CLA), TM (CLA), TN (CLA), UA (FE2), UB (CLA), UC (SQD), UD (WVN), UE (WVN), UF (CLA), UG (KC2), UH (II0), UI (LHG), UJ (CLA), UK (LMG), UL (KC2), UM (CLA), UN (CLA), VA (CLA), VB (CLA), VC (BCT), VD (PL9), VE (LMG), VF (PHO), VG (KC2), VH (II0), VI (CLA), VJ (II0), VK (CLA), VL (CLA), VM (KC2), VN (KC2), WA (CLA), WB (WVN), WC (LHG), WD (SQD), WE (LHG), WF (LMG), WG (KC2), WH (II0), WI (CLA), WJ (II0), WK (CLA), WL (CLA), WM (CLA), WN (CLA), XA (PHO), XB (WVN), XC (CLA), XD (LHG), XE (SQD), XF (CLA), XG (CLA), XH (IHT), XI (CLA), XJ (II0), XK (CLA), XL (II0), XM (CLA), XN (CLA), YA (CLA), YB (WVN), YC (PHO), YD (CL), YE (CL), YF (CLA), YG (CLA), YH (II0), YI (KC2), YJ (II0), YK (CLA), YL (II0), YM (CLA), YN (II0), ZA (WVN), ZB (LMG), ZC (LMG), ZD (MN), ZE (CLA), ZF (PL9), ZG (II0), ZH (LHG), ZI (CLA), ZJ (IHT), ZK (CLA), ZL (II0), ZM (CLA), ZN (II0)

Each chain information

Showing all 46 chains (4 with heme). Show only chains with heme

Chain A
auth_asym_id	A
Residue indices (Uniprot)	10-336 (1-355)
Mutations (UniProt numbering)	D25E, T79S
Missing residues	224ILE-231GLU:240GLY-251ALA:260PHE-263ALA
Structural gaps	Exists
Uniprot ID	A6MVT2 ￫UniprotKB
label_asym_ids of heme	None
Available structure	PDB and Modeled
RMSD of experimental residues after energy minimization	0.13 Å

Chain AA
auth_asym_id	m
Residue indices (Uniprot)	2-37 (1-118)
Uniprot ID	A0ACM8DFN2 ￫UniprotKB
label_asym_ids of heme	None
Available structure	PDB

Chain B
auth_asym_id	B
Residue indices (Uniprot)	2-483 (2-509)
Uniprot ID	A6MW31 ￫UniprotKB
label_asym_ids of heme	None
Available structure	PDB

Chain BA
auth_asym_id	t
Residue indices (Uniprot)	1-30 (1-32)
Uniprot ID	A6MW32 ￫UniprotKB
label_asym_ids of heme	None
Available structure	PDB

Chain C
auth_asym_id	C
Residue indices (Uniprot)	37-486 (1-486)
Mutations (UniProt numbering)	L35I, T108S, V196L, V221A, V239C, T480V
Missing residues	339GLY-350GLY:418LEU-431VAL
Structural gaps	Exists
Uniprot ID	A6MVR2 ￫UniprotKB
label_asym_ids of heme	None
Available structure	PDB and Modeled
RMSD of experimental residues after energy minimization	0.12 Å

Chain CA
auth_asym_id	w
Residue indices (Uniprot)	29-73 (1-121)
Uniprot ID	A0ACM8DFN3 ￫UniprotKB
label_asym_ids of heme	None
Available structure	PDB

Chain D
auth_asym_id	D
Residue indices (Uniprot)	11-351 (1-351)
Mutations (UniProt numbering)	M17A
Uniprot ID	A6MVR3 ￫UniprotKB
label_asym_ids of heme	None
Available structure	PDB

Chain DA
auth_asym_id	x
Residue indices (Uniprot)	1-34 (1-39)
Uniprot ID	A6MVU5 ￫UniprotKB
label_asym_ids of heme	None
Available structure	PDB

Chain E heme
auth_asym_id	E
Residue indices (Uniprot)	20-83 (1-84)
Uniprot ID	A6MVV5 ￫UniprotKB
label_asym_ids of heme	HD
Available structure	PDB

Chain EA
auth_asym_id	y
Residue indices (Uniprot)	7-34 (1-34)
Uniprot ID	A6MVU9 ￫UniprotKB
label_asym_ids of heme	None
Available structure	PDB

Chain F heme
auth_asym_id	F
Residue indices (Uniprot)	14-42 (1-42)
Uniprot ID	A6MVV4 ￫UniprotKB
label_asym_ids of heme	HD
Available structure	PDB

Chain FA
auth_asym_id	z
Residue indices (Uniprot)	1-61 (1-62)
Uniprot ID	A6MVZ2 ￫UniprotKB
label_asym_ids of heme	None
Available structure	PDB

Chain G
auth_asym_id	H
Residue indices (Uniprot)	2-66 (1-67)
Uniprot ID	A6MW35 ￫UniprotKB
label_asym_ids of heme	None
Available structure	PDB

Chain GA
auth_asym_id	1
Residue indices (Uniprot)	41-232 (1-234)
Uniprot ID	A0ACM8DFN4 ￫UniprotKB
label_asym_ids of heme	None
Available structure	PDB

Chain H
auth_asym_id	I
Residue indices (Uniprot)	1-35 (1-38)
Uniprot ID	A6MVW0 ￫UniprotKB
label_asym_ids of heme	None
Available structure	PDB

Chain HA
auth_asym_id	N
Residue indices (Uniprot)	41-232 (1-234)
Uniprot ID	A0ACM8DFN4 ￫UniprotKB
label_asym_ids of heme	None
Available structure	PDB

Chain I
auth_asym_id	K
Residue indices (Uniprot)	9-45 (1-45)
Uniprot ID	A6MVZ3 ￫UniprotKB
label_asym_ids of heme	None
Available structure	PDB

Chain IA
auth_asym_id	2
Residue indices (Uniprot)	45-218 (1-215)
Uniprot ID	A0ACM8DFN5 ￫UniprotKB
label_asym_ids of heme	None
Available structure	PDB (not modeled)

Chain J
auth_asym_id	L
Residue indices (Uniprot)	2-38 (1-38)
Uniprot ID	A6MVV3 ￫UniprotKB
label_asym_ids of heme	None
Available structure	PDB

Chain JA
auth_asym_id	3
Residue indices (Uniprot)	40-219 (1-182)
Uniprot ID	A0ACM8DFN6 ￫UniprotKB
label_asym_ids of heme	None
Available structure	PDB

Chain K
auth_asym_id	M
Residue indices (Uniprot)	2-37 (1-118)
Uniprot ID	A0ACM8DFN2 ￫UniprotKB
label_asym_ids of heme	None
Available structure	PDB

Chain KA
auth_asym_id	4
Residue indices (Uniprot)	56-215 (1-200)
Uniprot ID	A0ACM8DFN7 ￫UniprotKB
label_asym_ids of heme	None
Available structure	PDB

Chain L
auth_asym_id	T
Residue indices (Uniprot)	1-30 (1-32)
Uniprot ID	A6MW32 ￫UniprotKB
label_asym_ids of heme	None
Available structure	PDB

Chain LA
auth_asym_id	5
Residue indices (Uniprot)	41-229 (1-228)
Uniprot ID	A0ACM8DFN8 ￫UniprotKB
label_asym_ids of heme	None
Available structure	PDB

Chain M
auth_asym_id	W
Residue indices (Uniprot)	29-73 (1-121)
Uniprot ID	A0ACM8DFN3 ￫UniprotKB
label_asym_ids of heme	None
Available structure	PDB

Chain MA
auth_asym_id	6
Residue indices (Uniprot)	65-237 (1-174)
Uniprot ID	A0ACM8DFN9 ￫UniprotKB
label_asym_ids of heme	None
Available structure	PDB

Chain N
auth_asym_id	X
Residue indices (Uniprot)	1-34 (1-39)
Uniprot ID	A6MVU5 ￫UniprotKB
label_asym_ids of heme	None
Available structure	PDB

Chain NA
auth_asym_id	G
Residue indices (Uniprot)	82-285 (1-292)
Structural gaps	Exists
Uniprot ID	A0ACM8DFP0 ￫UniprotKB
label_asym_ids of heme	None
Available structure	PDB

Chain O
auth_asym_id	Y
Residue indices (Uniprot)	7-34 (1-34)
Uniprot ID	A6MVU9 ￫UniprotKB
label_asym_ids of heme	None
Available structure	PDB

Chain OA
auth_asym_id	O
Residue indices (Uniprot)	45-216 (1-215)
Uniprot ID	A0ACM8DFN5 ￫UniprotKB
label_asym_ids of heme	None
Available structure	PDB

Chain P
auth_asym_id	Z
Residue indices (Uniprot)	1-61 (1-62)
Uniprot ID	A6MVZ2 ￫UniprotKB
label_asym_ids of heme	None
Available structure	PDB

Chain PA
auth_asym_id	P
Residue indices (Uniprot)	40-219 (1-182)
Uniprot ID	A0ACM8DFN6 ￫UniprotKB
label_asym_ids of heme	None
Available structure	PDB

Chain Q
auth_asym_id	a
Residue indices (Uniprot)	10-336 (1-355)
Mutations (UniProt numbering)	D25E, T79S
Missing residues	228THR-231GLU:240GLY-251ALA
Structural gaps	Exists
Uniprot ID	A6MVT2 ￫UniprotKB
label_asym_ids of heme	None
Available structure	PDB and Modeled
RMSD of experimental residues after energy minimization	0.10 Å

Chain QA
auth_asym_id	Q
Residue indices (Uniprot)	56-215 (1-200)
Uniprot ID	A0ACM8DFN7 ￫UniprotKB
label_asym_ids of heme	None
Available structure	PDB

Chain R
auth_asym_id	b
Residue indices (Uniprot)	2-482 (2-509)
Uniprot ID	A6MW31 ￫UniprotKB
label_asym_ids of heme	None
Available structure	PDB

Chain RA
auth_asym_id	R
Residue indices (Uniprot)	41-229 (1-228)
Uniprot ID	A0ACM8DFN8 ￫UniprotKB
label_asym_ids of heme	None
Available structure	PDB

Chain S
auth_asym_id	c
Residue indices (Uniprot)	38-486 (1-486)
Mutations (UniProt numbering)	L35I, T108S, V196L, V221A, V239C, T480V
Missing residues	339GLY-351LEU:418LEU-432ASN
Structural gaps	Exists
Uniprot ID	A6MVR2 ￫UniprotKB
label_asym_ids of heme	None
Available structure	PDB and Modeled
RMSD of experimental residues after energy minimization	0.11 Å

Chain SA
auth_asym_id	S
Residue indices (Uniprot)	65-237 (1-174)
Uniprot ID	A0ACM8DFN9 ￫UniprotKB
label_asym_ids of heme	None
Available structure	PDB

Chain T
auth_asym_id	d
Residue indices (Uniprot)	11-351 (1-351)
Mutations (UniProt numbering)	M17A
Uniprot ID	A6MVR3 ￫UniprotKB
label_asym_ids of heme	None
Available structure	PDB

Chain TA
auth_asym_id	g
Residue indices (Uniprot)	83-285 (1-292)
Structural gaps	Exists
Uniprot ID	A0ACM8DFP1 ￫UniprotKB
label_asym_ids of heme	None
Available structure	PDB

Chain U heme
auth_asym_id	e
Residue indices (Uniprot)	20-83 (1-84)
Uniprot ID	A6MVV5 ￫UniprotKB
label_asym_ids of heme	EG
Available structure	PDB

Chain V heme
auth_asym_id	f
Residue indices (Uniprot)	13-42 (1-42)
Uniprot ID	A6MVV4 ￫UniprotKB
label_asym_ids of heme	EG
Available structure	PDB

Chain W
auth_asym_id	h
Residue indices (Uniprot)	2-66 (1-67)
Uniprot ID	A6MW35 ￫UniprotKB
label_asym_ids of heme	None
Available structure	PDB

Chain X
auth_asym_id	i
Residue indices (Uniprot)	1-35 (1-38)
Uniprot ID	A6MVW0 ￫UniprotKB
label_asym_ids of heme	None
Available structure	PDB

Chain Y
auth_asym_id	k
Residue indices (Uniprot)	9-45 (1-45)
Uniprot ID	A6MVZ3 ￫UniprotKB
label_asym_ids of heme	None
Available structure	PDB

Chain Z
auth_asym_id	l
Residue indices (Uniprot)	2-38 (1-38)
Uniprot ID	A6MVV3 ￫UniprotKB
label_asym_ids of heme	None
Available structure	PDB