Danish

PDB ID: pdb_00009eh5

Structure of a mutated photosystem II complex reveals changes to the hydrogen-bonding network that affect proton egress during O-O bond formation
Experimental method: ELECTRON MICROSCOPY
Resolution: unavailable
Deposition date: 2024-11-22

Number of assemblies: 1

Assembly ID: 0 (author_and_software_defined_assembly)
Structural data	modeled
Oligomeric count	42
label_asym_ids of protein	42 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, NA, O, OA, P, PA, Q, R, S, T, U, V, W, X, Y, Z
label_asym_ids of heme	DE MJ RI YE
label_asym_ids of the others	show AB (PL9), AC (BCR), AD (BCR), AE (LMT), AF (LMT), AG (CLA), AH (LMG), AI (BCR), AJ (LMT), BB (SQD), BC (BCR), BD (DGD), BE (LHG), BF (LMT), BG (CLA), BH (CLA), BI (BCR), BJ (LMT), CB (LMG), CC (SQD), CD (DGD), CE (LMT), CF (LMT), CG (CLA), CH (CLA), CI (CLA), CJ (LMG), DB (LMT), DC (LMG), DD (DGD), DF (LHG), DG (CLA), DH (CLA), DI (PHO), DJ (LMT), EB (LMT), EC (LMT), ED (LMG), EE (SQD), EF (OEX), EG (CLA), EH (CLA), EI (CLA), EJ (LMT), FB (BCT), FC (LMT), FD (LMG), FE (LMT), FF (FE2), FG (CLA), FH (CLA), FI (CLA), FJ (CA), GB (SQD), GC (LMT), GD (LMT), GE (RRX), GF (CL), GG (CLA), GH (CLA), GI (PL9), GJ (SQD), HB (LHG), HC (LMT), HD (LMT), HE (SQD), HF (CL), HG (CLA), HH (CLA), HI (LHG), HJ (LHG), IB (LHG), IC (LHG), ID (LMT), IE (DGD), IF (CLA), IG (CLA), IH (CLA), II (LMG), IJ (LMT), JB (CLA), JC (LMT), JD (LMT), JE (LMT), JF (CLA), JG (CLA), JH (CLA), JI (LMT), JJ (LMT), KB (CLA), KC (LMT), KD (LMT), KE (LMT), KF (PHO), KG (CLA), KH (CLA), KI (LMT), KJ (LMT), LB (CLA), LC (LMG), LD (BCR), LE (LMT), LF (CLA), LG (CLA), LH (CLA), LI (LMT), LJ (CA), MB (CLA), MC (SQD), MD (BCR), ME (LMT), MF (BCR), MG (CLA), MH (CLA), MI (BCR), NB (CLA), NC (CLA), ND (BCR), NE (LMT), NF (LMG), NG (CLA), NH (CLA), NI (LMT), NJ (CA), OB (CLA), OC (CLA), OD (CLA), OE (LMG), OF (PL9), OG (BCR), OH (BCR), OI (LMT), OJ (LMT), PB (CLA), PC (CLA), PD (PHO), PE (LMT), PF (SQD), PG (BCR), PH (DGD), PI (LHG), PJ (LMT), QA (OEX), QB (CLA), QC (CLA), QD (CLA), QE (LMT), QF (LMG), QG (BCR), QH (DGD), QI (LMT), QJ (LMT), RA (FE2), RB (CLA), RC (CLA), RD (CLA), RE (CA), RF (LMT), RG (SQD), RH (DGD), RJ (LHG), SA (CL), SB (CLA), SC (CLA), SD (PL9), SE (SQD), SF (LMT), SG (LMG), SH (LMG), SI (SQD), TA (CL), TB (CLA), TC (CLA), TD (LHG), TE (LHG), TF (BCT), TG (LMT), TH (LMG), TI (LMT), UA (CLA), UB (CLA), UC (CLA), UD (LMG), UE (LMT), UF (SQD), UG (LMT), UH (LMT), UI (RRX), VA (CLA), VB (CLA), VC (CLA), VD (LMT), VE (LMT), VF (LHG), VG (LMT), VH (LMT), VI (SQD), WA (PHO), WB (CLA), WC (CLA), WD (LMT), WE (LMT), WF (LHG), WG (LMT), WH (LMT), WI (DGD), XA (CLA), XB (CLA), XC (CLA), XD (LMT), XE (CA), XF (SQD), XG (LHG), XH (LMT), XI (LMT), YA (BCR), YB (CLA), YC (CLA), YD (BCR), YF (CLA), YG (LMT), YH (LMT), YI (LMT), ZA (LMG), ZB (BCR), ZC (CLA), ZD (LMT), ZE (CA), ZF (CLA), ZG (LMT), ZH (BCR), ZI (LMT)

Each chain information

Showing all 42 chains (6 with heme). Show only chains with heme

Chain A
auth_asym_id	A
Residue indices (Uniprot)	11-344 (1-344)
Uniprot ID	P16033 ￫UniprotKB
label_asym_ids of heme	None
Available structure	PDB

Chain AA heme
auth_asym_id	f
Residue indices (Uniprot)	10-44 (1-44)
Uniprot ID	P09191 ￫UniprotKB
label_asym_ids of heme	RI
Available structure	PDB

Chain B
auth_asym_id	B
Residue indices (Uniprot)	2-507 (1-507)
Uniprot ID	P05429 ￫UniprotKB
label_asym_ids of heme	None
Available structure	PDB

Chain BA
auth_asym_id	h
Residue indices (Uniprot)	2-64 (1-64)
Uniprot ID	P14835 ￫UniprotKB
label_asym_ids of heme	None
Available structure	PDB

Chain C
auth_asym_id	C
Residue indices (Uniprot)	11-460 (1-460)
Uniprot ID	P09193 ￫UniprotKB
label_asym_ids of heme	None
Available structure	PDB

Chain CA
auth_asym_id	i
Residue indices (Uniprot)	1-37 (1-38)
Missing residues	1MET-1MET
Nonstandard amino acids	FME
Uniprot ID	Q54697 ￫UniprotKB
label_asym_ids of heme	None
Available structure	PDB and Modeled
RMSD of experimental residues after energy minimization	0.14 Å

Chain D
auth_asym_id	D
Residue indices (Uniprot)	12-352 (1-352)
Mutations (UniProt numbering)	K317A
Uniprot ID	P09192 ￫UniprotKB
label_asym_ids of heme	None
Available structure	PDB

Chain DA
auth_asym_id	j
Residue indices (Uniprot)	1-39 (1-39)
Missing residues	1MET-1MET
Nonstandard amino acids	FME
Uniprot ID	P73070 ￫UniprotKB
label_asym_ids of heme	None
Available structure	PDB and Modeled
RMSD of experimental residues after energy minimization	0.14 Å

Chain E heme
auth_asym_id	E
Residue indices (Uniprot)	3-80 (1-81)
Uniprot ID	P09190 ￫UniprotKB
label_asym_ids of heme	DE
Available structure	PDB

Chain EA
auth_asym_id	k
Residue indices (Uniprot)	9-45 (1-45)
Uniprot ID	P15819 ￫UniprotKB
label_asym_ids of heme	None
Available structure	PDB

Chain F heme
auth_asym_id	F
Residue indices (Uniprot)	10-44 (1-44)
Uniprot ID	P09191 ￫UniprotKB
label_asym_ids of heme	DE
Available structure	PDB

Chain FA
auth_asym_id	l
Residue indices (Uniprot)	1-39 (1-39)
Uniprot ID	Q55354 ￫UniprotKB
label_asym_ids of heme	None
Available structure	PDB

Chain G
auth_asym_id	H
Residue indices (Uniprot)	2-64 (1-64)
Uniprot ID	P14835 ￫UniprotKB
label_asym_ids of heme	None
Available structure	PDB

Chain GA
auth_asym_id	m
Residue indices (Uniprot)	1-31 (1-35)
Missing residues	1MET-1MET
Nonstandard amino acids	FME
Uniprot ID	P72701 ￫UniprotKB
label_asym_ids of heme	None
Available structure	PDB and Modeled
RMSD of experimental residues after energy minimization	0.15 Å

Chain H
auth_asym_id	I
Residue indices (Uniprot)	1-37 (1-38)
Missing residues	1MET-1MET
Nonstandard amino acids	FME
Uniprot ID	Q54697 ￫UniprotKB
label_asym_ids of heme	None
Available structure	PDB and Modeled
RMSD of experimental residues after energy minimization	0.14 Å

Chain HA
auth_asym_id	o
Residue indices (Uniprot)	30-272 (1-274)
Uniprot ID	P10549 ￫UniprotKB
label_asym_ids of heme	None
Available structure	PDB

Chain I
auth_asym_id	J
Residue indices (Uniprot)	1-39 (1-39)
Missing residues	1MET-1MET
Nonstandard amino acids	FME
Uniprot ID	P73070 ￫UniprotKB
label_asym_ids of heme	None
Available structure	PDB and Modeled
RMSD of experimental residues after energy minimization	0.14 Å

Chain IA
auth_asym_id	q
Residue indices (Uniprot)	32-146 (1-149)
Uniprot ID	P73048 ￫UniprotKB
label_asym_ids of heme	None
Available structure	PDB

Chain J
auth_asym_id	K
Residue indices (Uniprot)	9-45 (1-45)
Uniprot ID	P15819 ￫UniprotKB
label_asym_ids of heme	None
Available structure	PDB

Chain JA
auth_asym_id	r
Residue indices (Uniprot)	2-35 (1-39)
Uniprot ID	P73676 ￫UniprotKB
label_asym_ids of heme	None
Available structure	PDB

Chain K
auth_asym_id	L
Residue indices (Uniprot)	1-39 (1-39)
Uniprot ID	Q55354 ￫UniprotKB
label_asym_ids of heme	None
Available structure	PDB

Chain KA
auth_asym_id	t
Residue indices (Uniprot)	1-30 (1-31)
Missing residues	1MET-1MET
Nonstandard amino acids	FME
Uniprot ID	P74787 ￫UniprotKB
label_asym_ids of heme	None
Available structure	PDB and Modeled
RMSD of experimental residues after energy minimization	0.14 Å

Chain L
auth_asym_id	M
Residue indices (Uniprot)	1-31 (1-35)
Missing residues	1MET-1MET
Nonstandard amino acids	FME
Uniprot ID	P72701 ￫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	u
Residue indices (Uniprot)	37-131 (1-131)
Uniprot ID	Q55332 ￫UniprotKB
label_asym_ids of heme	None
Available structure	PDB

Chain M
auth_asym_id	O
Residue indices (Uniprot)	30-272 (1-274)
Uniprot ID	P10549 ￫UniprotKB
label_asym_ids of heme	None
Available structure	PDB

Chain MA heme
auth_asym_id	v
Residue indices (Uniprot)	26-160 (1-160)
Uniprot ID	Q55013 ￫UniprotKB
label_asym_ids of heme	MJ
Available structure	PDB

Chain N
auth_asym_id	Q
Residue indices (Uniprot)	32-146 (1-149)
Uniprot ID	P73048 ￫UniprotKB
label_asym_ids of heme	None
Available structure	PDB

Chain NA
auth_asym_id	x
Residue indices (Uniprot)	1-38 (1-39)
Uniprot ID	P72575 ￫UniprotKB
label_asym_ids of heme	None
Available structure	PDB

Chain O
auth_asym_id	R
Residue indices (Uniprot)	2-35 (1-39)
Uniprot ID	P73676 ￫UniprotKB
label_asym_ids of heme	None
Available structure	PDB

Chain OA
auth_asym_id	y
Residue indices (Uniprot)	62-93 (1-39)
Uniprot ID	Q55438 ￫UniprotKB
label_asym_ids of heme	None
Available structure	PDB

Chain P
auth_asym_id	T
Residue indices (Uniprot)	1-30 (1-31)
Missing residues	1MET-1MET
Nonstandard amino acids	FME
Uniprot ID	P74787 ￫UniprotKB
label_asym_ids of heme	None
Available structure	PDB and Modeled
RMSD of experimental residues after energy minimization	0.14 Å

Chain PA
auth_asym_id	z
Residue indices (Uniprot)	2-61 (1-62)
Uniprot ID	P73528 ￫UniprotKB
label_asym_ids of heme	None
Available structure	PDB

Chain Q
auth_asym_id	U
Residue indices (Uniprot)	37-131 (1-131)
Uniprot ID	Q55332 ￫UniprotKB
label_asym_ids of heme	None
Available structure	PDB

Chain R heme
auth_asym_id	V
Residue indices (Uniprot)	26-160 (1-160)
Uniprot ID	Q55013 ￫UniprotKB
label_asym_ids of heme	YE
Available structure	PDB

Chain S
auth_asym_id	X
Residue indices (Uniprot)	1-38 (1-39)
Uniprot ID	P72575 ￫UniprotKB
label_asym_ids of heme	None
Available structure	PDB

Chain T
auth_asym_id	Y
Residue indices (Uniprot)	62-93 (1-39)
Uniprot ID	Q55438 ￫UniprotKB
label_asym_ids of heme	None
Available structure	PDB

Chain U
auth_asym_id	Z
Residue indices (Uniprot)	2-61 (1-62)
Uniprot ID	P73528 ￫UniprotKB
label_asym_ids of heme	None
Available structure	PDB

Chain V
auth_asym_id	a
Residue indices (Uniprot)	11-344 (1-344)
Uniprot ID	P16033 ￫UniprotKB
label_asym_ids of heme	None
Available structure	PDB

Chain W
auth_asym_id	b
Residue indices (Uniprot)	2-507 (1-507)
Uniprot ID	P05429 ￫UniprotKB
label_asym_ids of heme	None
Available structure	PDB

Chain X
auth_asym_id	c
Residue indices (Uniprot)	11-460 (1-460)
Uniprot ID	P09193 ￫UniprotKB
label_asym_ids of heme	None
Available structure	PDB

Chain Y
auth_asym_id	d
Residue indices (Uniprot)	12-352 (1-352)
Mutations (UniProt numbering)	K317A
Uniprot ID	P09192 ￫UniprotKB
label_asym_ids of heme	None
Available structure	PDB

Chain Z heme
auth_asym_id	e
Residue indices (Uniprot)	3-80 (1-81)
Uniprot ID	P09190 ￫UniprotKB
label_asym_ids of heme	RI
Available structure	PDB