Danish

PDB ID: pdb_00008irh

XFEL structure of cyanobacterial photosystem II following two flashes (2F) with a 200-microsecond delay
Experimental method: X-RAY DIFFRACTION
Resolution: 2.25 Å
Deposition date: 2023-03-17

Number of assemblies: 1

Assembly ID: 0 (author_and_software_defined_assembly)
Structural data	modeled
Oligomeric count	39
label_asym_ids of protein	39 chains (6 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, O, P, Q, R, S, T, U, V, W, X, Y, Z
label_asym_ids of heme	AJ JI RE YD
label_asym_ids of the others	show AB (OEX), AC (BCR), AD (BCR), AE (BCR), AF (CL), AG (CLA), AH (CLA), AI (PL9), BB (PL9), BC (SQD), BD (BCR), BE (DGD), BF (CLA), BG (CLA), BH (CLA), BI (LHG), BJ (GOL), CB (UNL), CC (HTG), CD (DGD), CE (UNL), CF (CLA), CG (CLA), CH (CLA), CI (LHG), CJ (UNL), DB (PHO), DC (HTG), DD (DGD), DE (UNL), DF (CLA), DG (CLA), DH (CLA), DI (UNL), DJ (BCR), EB (LMT), EC (GOL), ED (DGD), EE (MG), EF (PHO), EG (CLA), EH (CLA), EI (UNL), EJ (LMG), FB (GOL), FC (HTG), FD (LMG), FE (UNL), FF (CLA), FG (CLA), FH (CLA), FI (HTG), FJ (LMG), GB (LHG), GC (UNL), GD (LMG), GE (BCR), GF (BCR), GG (CLA), GH (CLA), GI (LMG), HB (LMT), HC (GOL), HD (HTG), HE (LHG), HF (SQD), HG (BCR), HH (CLA), HI (GOL), IB (CLA), IC (LMT), ID (GOL), IE (SQD), IF (GOL), IG (BCR), IH (BCR), II (LHG), JB (CLA), JC (LMT), JD (CA), JE (LMG), JF (SQD), JG (BCR), JH (BCR), KB (CLA), KC (UNL), KD (BCT), KE (LMT), KF (OEX), KG (LMT), KH (DGD), KI (LMT), LB (CLA), LC (LMT), LD (CLA), LE (UNL), LF (PL9), LG (HTG), LH (DGD), LI (SQD), MB (CLA), MC (LMG), MD (CLA), ME (LMT), MF (UNL), MG (HTG), MH (DGD), MI (CA), NA (OEY), NB (CLA), NC (CLA), ND (BCR), NE (CA), NF (LMG), NG (GOL), NH (LMG), NI (BCR), OA (FE2), OB (CLA), OC (CLA), OD (PL9), OE (GOL), OF (GOL), OG (HTG), OH (LMG), OI (DGD), PA (CL), PB (CLA), PC (CLA), PD (LHG), PE (GOL), PF (GOL), PG (UNL), PH (HTG), PI (UNL), QA (CL), QB (CLA), QC (CLA), QD (LHG), QE (BCR), QF (LHG), QG (LMT), QH (CA), QI (MG), RA (CLA), RB (CLA), RC (CLA), RD (UNL), RF (CLA), RG (GOL), RH (CA), RI (BCR), SA (CLA), SB (CLA), SC (CLA), SD (UNL), SE (HTG), SF (CLA), SG (LHG), SH (UNL), SI (GOL), TA (CLA), TB (CLA), TC (CLA), TD (HTG), TE (GOL), TF (CLA), TG (LMG), TH (GOL), TI (UNL), UA (PHO), UB (CLA), UC (CLA), UD (LMG), UE (SQD), UF (CLA), UG (LMT), UH (GOL), UI (LMT), VA (CLA), VB (CLA), VC (CLA), VD (GOL), VE (UNL), VF (CLA), VG (CLA), VH (BCT), VI (CA), WA (BCR), WB (CLA), WC (CLA), WD (LHG), WE (BCR), WF (CLA), WG (CLA), WH (PHO), WI (GOL), XA (SQD), XB (CLA), XC (CLA), XD (LMT), XE (OEY), XF (CLA), XG (CLA), XH (CLA), XI (GOL), YA (GOL), YB (BCR), YC (CLA), YE (FE2), YF (CLA), YG (CLA), YH (CLA), YI (LMT), ZA (SQD), ZB (BCR), ZC (CLA), ZD (CA), ZE (CL), ZF (CLA), ZG (CLA), ZH (BCR), ZI (BCR)

Each chain information

Showing all 39 chains (6 with heme). Show only chains with heme

Chain A
auth_asym_id	A
Residue indices (Uniprot)	11-344 (1-344)
Mutations (UniProt numbering)	R279P
Uniprot ID	P51765 ￫UniprotKB
label_asym_ids of heme	None
Available structure	PDB

Chain AA
auth_asym_id	j
Residue indices (Uniprot)	1-39 (2-40)
Uniprot ID	Q7DGD4 ￫UniprotKB
label_asym_ids of heme	None
Available structure	PDB

Chain B
auth_asym_id	B
Residue indices (Uniprot)	2-505 (1-505)
Uniprot ID	D0VWR1 ￫UniprotKB
label_asym_ids of heme	None
Available structure	PDB

Chain BA
auth_asym_id	k
Residue indices (Uniprot)	10-46 (1-37)
Mutations (UniProt numbering)	F24L, V30W
Uniprot ID	P19054 ￫UniprotKB
label_asym_ids of heme	None
Available structure	PDB

Chain C
auth_asym_id	C
Residue indices (Uniprot)	23-473 (1-451)
Uniprot ID	D0VWR7 ￫UniprotKB
label_asym_ids of heme	None
Available structure	PDB

Chain CA
auth_asym_id	l
Residue indices (Uniprot)	2-37 (1-37)
Uniprot ID	P12241 ￫UniprotKB
label_asym_ids of heme	None
Available structure	PDB

Chain D
auth_asym_id	D
Residue indices (Uniprot)	11-352 (1-342)
Uniprot ID	D0VWR8 ￫UniprotKB
label_asym_ids of heme	None
Available structure	PDB

Chain DA
auth_asym_id	m
Residue indices (Uniprot)	1-34 (1-36)
Mutations (UniProt numbering)	F8L
Missing residues	1MET-1MET
Nonstandard amino acids	FME
Uniprot ID	P12312 ￫UniprotKB
label_asym_ids of heme	None
Available structure	PDB and Modeled
RMSD of experimental residues after energy minimization	0.15 Å

Chain E heme
auth_asym_id	E
Residue indices (Uniprot)	4-84 (1-84)
Uniprot ID	P12238 ￫UniprotKB
label_asym_ids of heme	YD
Available structure	PDB

Chain EA
auth_asym_id	o
Residue indices (Uniprot)	4-246 (1-244)
Uniprot ID	D0VWR2 ￫UniprotKB
S-S bonds	19:44
label_asym_ids of heme	None
Available structure	PDB

Chain F heme
auth_asym_id	F
Residue indices (Uniprot)	12-45 (2-45)
Uniprot ID	P12239 ￫UniprotKB
label_asym_ids of heme	YD
Available structure	PDB

Chain FA
auth_asym_id	t
Residue indices (Uniprot)	1-30 (1-32)
Missing residues	1MET-1MET
Nonstandard amino acids	FME
Uniprot ID	P12313 ￫UniprotKB
label_asym_ids of heme	None
Available structure	PDB and Modeled
RMSD of experimental residues after energy minimization	0.17 Å

Chain G
auth_asym_id	H
Residue indices (Uniprot)	2-65 (1-65)
Uniprot ID	P19052 ￫UniprotKB
label_asym_ids of heme	None
Available structure	PDB

Chain GA
auth_asym_id	u
Residue indices (Uniprot)	8-104 (1-104)
Uniprot ID	P56152 ￫UniprotKB
label_asym_ids of heme	None
Available structure	PDB

Chain H
auth_asym_id	I
Residue indices (Uniprot)	1-38 (1-38)
Missing residues	1MET-1MET
Nonstandard amino acids	FME
Uniprot ID	P12240 ￫UniprotKB
label_asym_ids of heme	None
Available structure	PDB and Modeled
RMSD of experimental residues after energy minimization	0.15 Å

Chain HA heme
auth_asym_id	v
Residue indices (Uniprot)	1-137 (27-163)
Uniprot ID	P0A387 ￫UniprotKB
label_asym_ids of heme	AJ
Available structure	PDB

Chain I
auth_asym_id	J
Residue indices (Uniprot)	2-39 (2-40)
Uniprot ID	Q7DGD4 ￫UniprotKB
label_asym_ids of heme	None
Available structure	PDB

Chain IA
auth_asym_id	x
Residue indices (Uniprot)	2-39 (1-40)
Uniprot ID	D0VWR4 ￫UniprotKB
label_asym_ids of heme	None
Available structure	PDB

Chain J
auth_asym_id	K
Residue indices (Uniprot)	10-46 (1-37)
Mutations (UniProt numbering)	F24L, V30W
Uniprot ID	P19054 ￫UniprotKB
label_asym_ids of heme	None
Available structure	PDB

Chain JA
auth_asym_id	y
Residue indices (Uniprot)	18-46 (1-30)
Uniprot ID	D0VWR3 ￫UniprotKB
label_asym_ids of heme	None
Available structure	PDB

Chain K
auth_asym_id	L
Residue indices (Uniprot)	2-37 (1-37)
Uniprot ID	P12241 ￫UniprotKB
label_asym_ids of heme	None
Available structure	PDB

Chain KA
auth_asym_id	Z
Residue indices (Uniprot)	1-62 (1-62)
Uniprot ID	D0VWR5 ￫UniprotKB
label_asym_ids of heme	None
Available structure	PDB

Chain L
auth_asym_id	M
Residue indices (Uniprot)	1-33 (1-36)
Mutations (UniProt numbering)	F8L
Missing residues	1MET-1MET
Nonstandard amino acids	FME
Uniprot ID	P12312 ￫UniprotKB
label_asym_ids of heme	None
Available structure	PDB and Modeled
RMSD of experimental residues after energy minimization	0.15 Å

Chain LA
auth_asym_id	R
Residue indices (Uniprot)	2-35 (1-34)
Uniprot ID	P0DM37 ￫UniprotKB
label_asym_ids of heme	None
Available structure	PDB

Chain M
auth_asym_id	O
Residue indices (Uniprot)	4-246 (1-244)
Uniprot ID	D0VWR2 ￫UniprotKB
S-S bonds	19:44
label_asym_ids of heme	None
Available structure	PDB

Chain MA
auth_asym_id	z
Residue indices (Uniprot)	1-62 (1-62)
Uniprot ID	D0VWR5 ￫UniprotKB
label_asym_ids of heme	None
Available structure	PDB

Chain N
auth_asym_id	T
Residue indices (Uniprot)	1-30 (1-32)
Missing residues	1MET-1MET
Nonstandard amino acids	FME
Uniprot ID	P12313 ￫UniprotKB
label_asym_ids of heme	None
Available structure	PDB and Modeled
RMSD of experimental residues after energy minimization	0.16 Å

Chain O
auth_asym_id	U
Residue indices (Uniprot)	9-104 (1-104)
Uniprot ID	P56152 ￫UniprotKB
label_asym_ids of heme	None
Available structure	PDB

Chain P heme
auth_asym_id	V
Residue indices (Uniprot)	1-137 (27-163)
Uniprot ID	P0A387 ￫UniprotKB
label_asym_ids of heme	RE
Available structure	PDB

Chain Q
auth_asym_id	X
Residue indices (Uniprot)	2-39 (1-40)
Uniprot ID	D0VWR4 ￫UniprotKB
label_asym_ids of heme	None
Available structure	PDB

Chain R
auth_asym_id	Y
Residue indices (Uniprot)	18-46 (1-30)
Uniprot ID	D0VWR3 ￫UniprotKB
label_asym_ids of heme	None
Available structure	PDB

Chain S
auth_asym_id	a
Residue indices (Uniprot)	11-344 (1-344)
Mutations (UniProt numbering)	R279P
Uniprot ID	P51765 ￫UniprotKB
label_asym_ids of heme	None
Available structure	PDB

Chain T
auth_asym_id	b
Residue indices (Uniprot)	2-505 (1-505)
Uniprot ID	D0VWR1 ￫UniprotKB
label_asym_ids of heme	None
Available structure	PDB

Chain U
auth_asym_id	c
Residue indices (Uniprot)	19-473 (1-451)
Uniprot ID	D0VWR7 ￫UniprotKB
label_asym_ids of heme	None
Available structure	PDB

Chain V
auth_asym_id	d
Residue indices (Uniprot)	12-352 (1-342)
Uniprot ID	D0VWR8 ￫UniprotKB
label_asym_ids of heme	None
Available structure	PDB

Chain W heme
auth_asym_id	e
Residue indices (Uniprot)	6-84 (1-84)
Uniprot ID	P12238 ￫UniprotKB
label_asym_ids of heme	JI
Available structure	PDB

Chain X heme
auth_asym_id	f
Residue indices (Uniprot)	15-45 (2-45)
Uniprot ID	P12239 ￫UniprotKB
label_asym_ids of heme	JI
Available structure	PDB

Chain Y
auth_asym_id	h
Residue indices (Uniprot)	2-65 (1-65)
Uniprot ID	P19052 ￫UniprotKB
label_asym_ids of heme	None
Available structure	PDB

Chain Z
auth_asym_id	i
Residue indices (Uniprot)	1-38 (1-38)
Missing residues	1MET-1MET
Nonstandard amino acids	FME
Uniprot ID	P12240 ￫UniprotKB
label_asym_ids of heme	None
Available structure	PDB and Modeled
RMSD of experimental residues after energy minimization	0.14 Å