1w5c

Photosystem II from Thermosynechococcus elongatus

Method: X-RAY DIFFRACTION

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1. Protein Identity and Related Structures Protein Identity & Related Structures

PHOTOSYSTEM Q(B) PROTEIN 1

OrganismNot specified

State in the Current Structure

Assembly	Physical composition	Protein state	Molecular copy count	Associated components	Data consistency
1	Protein heterocomplex	Heteromer	Protein 10	PHOTOSYSTEM II CORE LIGHT HARVESTING PROTEIN × 1 （Q8DIQ1） PHOTOSYSTEM II CP43 PROTEIN × 1 （Q8DIF8） PHOTOSYSTEM II REACTION CENTER D2 PROTEIN × 1 （Q8CM25） CYTOCHROME B559 ALPHA SUBUNIT × 1 （P12238） CYTOCHROME B559 BETA SUBUNIT × 1 （P12239） PHOTOSYSTEM II MANGANESE-STABILIZING POLYPEPTIDE × 1 PHOTOSYSTEM II 12 KDA EXTRINSIC PROTEIN × 1 CYTOCHROME C-550 × 1 （P56150） UNASSIGNED SUBUNITS × 1 CHLOROPHYLL A × 35 PHEOPHYTIN A × 2 MANGANESE (II) ION × 4 FE (II) ION × 1 ;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 ; × 1 PROTOPORPHYRIN IX CONTAINING FE × 1 BETA-CAROTENE × 1 HEME C × 1	Consistent with protein count
2	Protein heterocomplex	Heteromer	Protein 10	PHOTOSYSTEM II CORE LIGHT HARVESTING PROTEIN × 1 （Q8DIQ1） PHOTOSYSTEM II CP43 PROTEIN × 1 （Q8DIF8） PHOTOSYSTEM II REACTION CENTER D2 PROTEIN × 1 （Q8CM25） CYTOCHROME B559 ALPHA SUBUNIT × 1 （P12238） CYTOCHROME B559 BETA SUBUNIT × 1 （P12239） PHOTOSYSTEM II MANGANESE-STABILIZING POLYPEPTIDE × 1 PHOTOSYSTEM II 12 KDA EXTRINSIC PROTEIN × 1 CYTOCHROME C-550 × 1 （P56150） UNASSIGNED SUBUNITS × 1 CHLOROPHYLL A × 35 PHEOPHYTIN A × 2 MANGANESE (II) ION × 4 FE (II) ION × 1 ;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 ; × 1 PROTOPORPHYRIN IX CONTAINING FE × 1 BETA-CAROTENE × 1 HEME C × 1	Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence

UniProt name	PSBA1_THEEB
Isoform	—
PDB entities	1
Chains and sequence ranges	Author chain A； PDBConstruct 1–360； UniProt 1–360 Author chain G； PDBConstruct 1–360； UniProt 1–360

PHOTOSYSTEM II CORE LIGHT HARVESTING PROTEIN

OrganismNot specified

UniProt Q8DIQ1

State in the Current Structure

Assembly	Physical composition	Protein state	Molecular copy count	Associated components	Data consistency
1	Protein heterocomplex	Heteromer	Protein 10	PHOTOSYSTEM Q(B) PROTEIN 1 × 1 （P0A444） PHOTOSYSTEM II CP43 PROTEIN × 1 （Q8DIF8） PHOTOSYSTEM II REACTION CENTER D2 PROTEIN × 1 （Q8CM25） CYTOCHROME B559 ALPHA SUBUNIT × 1 （P12238） CYTOCHROME B559 BETA SUBUNIT × 1 （P12239） PHOTOSYSTEM II MANGANESE-STABILIZING POLYPEPTIDE × 1 PHOTOSYSTEM II 12 KDA EXTRINSIC PROTEIN × 1 CYTOCHROME C-550 × 1 （P56150） UNASSIGNED SUBUNITS × 1 CHLOROPHYLL A × 35 PHEOPHYTIN A × 2 MANGANESE (II) ION × 4 FE (II) ION × 1 ;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 ; × 1 PROTOPORPHYRIN IX CONTAINING FE × 1 BETA-CAROTENE × 1 HEME C × 1	Consistent with protein count
2	Protein heterocomplex	Heteromer	Protein 10	PHOTOSYSTEM Q(B) PROTEIN 1 × 1 （P0A444） PHOTOSYSTEM II CP43 PROTEIN × 1 （Q8DIF8） PHOTOSYSTEM II REACTION CENTER D2 PROTEIN × 1 （Q8CM25） CYTOCHROME B559 ALPHA SUBUNIT × 1 （P12238） CYTOCHROME B559 BETA SUBUNIT × 1 （P12239） PHOTOSYSTEM II MANGANESE-STABILIZING POLYPEPTIDE × 1 PHOTOSYSTEM II 12 KDA EXTRINSIC PROTEIN × 1 CYTOCHROME C-550 × 1 （P56150） UNASSIGNED SUBUNITS × 1 CHLOROPHYLL A × 35 PHEOPHYTIN A × 2 MANGANESE (II) ION × 4 FE (II) ION × 1 ;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 ; × 1 PROTOPORPHYRIN IX CONTAINING FE × 1 BETA-CAROTENE × 1 HEME C × 1	Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence

UniProt name	Q8DIQ1
Isoform	—
PDB entities	2
Chains and sequence ranges	Author chain B； PDBConstruct 1–510； UniProt 1–510 Author chain H； PDBConstruct 1–510； UniProt 1–510

PHOTOSYSTEM II CP43 PROTEIN

OrganismNot specified

UniProt Q8DIF8

State in the Current Structure

Assembly	Physical composition	Protein state	Molecular copy count	Associated components	Data consistency
1	Protein heterocomplex	Heteromer	Protein 10	PHOTOSYSTEM Q(B) PROTEIN 1 × 1 （P0A444） PHOTOSYSTEM II CORE LIGHT HARVESTING PROTEIN × 1 （Q8DIQ1） PHOTOSYSTEM II REACTION CENTER D2 PROTEIN × 1 （Q8CM25） CYTOCHROME B559 ALPHA SUBUNIT × 1 （P12238） CYTOCHROME B559 BETA SUBUNIT × 1 （P12239） PHOTOSYSTEM II MANGANESE-STABILIZING POLYPEPTIDE × 1 PHOTOSYSTEM II 12 KDA EXTRINSIC PROTEIN × 1 CYTOCHROME C-550 × 1 （P56150） UNASSIGNED SUBUNITS × 1 CHLOROPHYLL A × 35 PHEOPHYTIN A × 2 MANGANESE (II) ION × 4 FE (II) ION × 1 ;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 ; × 1 PROTOPORPHYRIN IX CONTAINING FE × 1 BETA-CAROTENE × 1 HEME C × 1	Consistent with protein count
2	Protein heterocomplex	Heteromer	Protein 10	PHOTOSYSTEM Q(B) PROTEIN 1 × 1 （P0A444） PHOTOSYSTEM II CORE LIGHT HARVESTING PROTEIN × 1 （Q8DIQ1） PHOTOSYSTEM II REACTION CENTER D2 PROTEIN × 1 （Q8CM25） CYTOCHROME B559 ALPHA SUBUNIT × 1 （P12238） CYTOCHROME B559 BETA SUBUNIT × 1 （P12239） PHOTOSYSTEM II MANGANESE-STABILIZING POLYPEPTIDE × 1 PHOTOSYSTEM II 12 KDA EXTRINSIC PROTEIN × 1 CYTOCHROME C-550 × 1 （P56150） UNASSIGNED SUBUNITS × 1 CHLOROPHYLL A × 35 PHEOPHYTIN A × 2 MANGANESE (II) ION × 4 FE (II) ION × 1 ;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 ; × 1 PROTOPORPHYRIN IX CONTAINING FE × 1 BETA-CAROTENE × 1 HEME C × 1	Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence

UniProt name	Q8DIF8
Isoform	—
PDB entities	3
Chains and sequence ranges	Author chain C； PDBConstruct 1–473； UniProt 1–473 Author chain I； PDBConstruct 1–473； UniProt 1–473

PHOTOSYSTEM II REACTION CENTER D2 PROTEIN

OrganismNot specified

UniProt Q8CM25

State in the Current Structure

Assembly	Physical composition	Protein state	Molecular copy count	Associated components	Data consistency
1	Protein heterocomplex	Heteromer	Protein 10	PHOTOSYSTEM Q(B) PROTEIN 1 × 1 （P0A444） PHOTOSYSTEM II CORE LIGHT HARVESTING PROTEIN × 1 （Q8DIQ1） PHOTOSYSTEM II CP43 PROTEIN × 1 （Q8DIF8） CYTOCHROME B559 ALPHA SUBUNIT × 1 （P12238） CYTOCHROME B559 BETA SUBUNIT × 1 （P12239） PHOTOSYSTEM II MANGANESE-STABILIZING POLYPEPTIDE × 1 PHOTOSYSTEM II 12 KDA EXTRINSIC PROTEIN × 1 CYTOCHROME C-550 × 1 （P56150） UNASSIGNED SUBUNITS × 1 CHLOROPHYLL A × 35 PHEOPHYTIN A × 2 MANGANESE (II) ION × 4 FE (II) ION × 1 ;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 ; × 1 PROTOPORPHYRIN IX CONTAINING FE × 1 BETA-CAROTENE × 1 HEME C × 1	Consistent with protein count
2	Protein heterocomplex	Heteromer	Protein 10	PHOTOSYSTEM Q(B) PROTEIN 1 × 1 （P0A444） PHOTOSYSTEM II CORE LIGHT HARVESTING PROTEIN × 1 （Q8DIQ1） PHOTOSYSTEM II CP43 PROTEIN × 1 （Q8DIF8） CYTOCHROME B559 ALPHA SUBUNIT × 1 （P12238） CYTOCHROME B559 BETA SUBUNIT × 1 （P12239） PHOTOSYSTEM II MANGANESE-STABILIZING POLYPEPTIDE × 1 PHOTOSYSTEM II 12 KDA EXTRINSIC PROTEIN × 1 CYTOCHROME C-550 × 1 （P56150） UNASSIGNED SUBUNITS × 1 CHLOROPHYLL A × 35 PHEOPHYTIN A × 2 MANGANESE (II) ION × 4 FE (II) ION × 1 ;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 ; × 1 PROTOPORPHYRIN IX CONTAINING FE × 1 BETA-CAROTENE × 1 HEME C × 1	Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence

UniProt name	Q8CM25
Isoform	—
PDB entities	4
Chains and sequence ranges	Author chain D； PDBConstruct 1–352； UniProt 1–352 Author chain J； PDBConstruct 1–352； UniProt 1–352

CYTOCHROME B559 ALPHA SUBUNIT

OrganismNot specified

UniProt P12238

State in the Current Structure

Assembly	Physical composition	Protein state	Molecular copy count	Associated components	Data consistency
1	Protein heterocomplex	Heteromer	Protein 10	PHOTOSYSTEM Q(B) PROTEIN 1 × 1 （P0A444） PHOTOSYSTEM II CORE LIGHT HARVESTING PROTEIN × 1 （Q8DIQ1） PHOTOSYSTEM II CP43 PROTEIN × 1 （Q8DIF8） PHOTOSYSTEM II REACTION CENTER D2 PROTEIN × 1 （Q8CM25） CYTOCHROME B559 BETA SUBUNIT × 1 （P12239） PHOTOSYSTEM II MANGANESE-STABILIZING POLYPEPTIDE × 1 PHOTOSYSTEM II 12 KDA EXTRINSIC PROTEIN × 1 CYTOCHROME C-550 × 1 （P56150） UNASSIGNED SUBUNITS × 1 CHLOROPHYLL A × 35 PHEOPHYTIN A × 2 MANGANESE (II) ION × 4 FE (II) ION × 1 ;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 ; × 1 PROTOPORPHYRIN IX CONTAINING FE × 1 BETA-CAROTENE × 1 HEME C × 1	Consistent with protein count
2	Protein heterocomplex	Heteromer	Protein 10	PHOTOSYSTEM Q(B) PROTEIN 1 × 1 （P0A444） PHOTOSYSTEM II CORE LIGHT HARVESTING PROTEIN × 1 （Q8DIQ1） PHOTOSYSTEM II CP43 PROTEIN × 1 （Q8DIF8） PHOTOSYSTEM II REACTION CENTER D2 PROTEIN × 1 （Q8CM25） CYTOCHROME B559 BETA SUBUNIT × 1 （P12239） PHOTOSYSTEM II MANGANESE-STABILIZING POLYPEPTIDE × 1 PHOTOSYSTEM II 12 KDA EXTRINSIC PROTEIN × 1 CYTOCHROME C-550 × 1 （P56150） UNASSIGNED SUBUNITS × 1 CHLOROPHYLL A × 35 PHEOPHYTIN A × 2 MANGANESE (II) ION × 4 FE (II) ION × 1 ;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 ; × 1 PROTOPORPHYRIN IX CONTAINING FE × 1 BETA-CAROTENE × 1 HEME C × 1	Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence

UniProt name	PSBE_SYNVU
Isoform	—
PDB entities	5
Chains and sequence ranges	Author chain E； PDBConstruct 2–84； UniProt 1–83 Author chain K； PDBConstruct 2–84； UniProt 1–83

CYTOCHROME B559 BETA SUBUNIT

OrganismNot specified

UniProt P12239

State in the Current Structure

Assembly	Physical composition	Protein state	Molecular copy count	Associated components	Data consistency
1	Protein heterocomplex	Heteromer	Protein 10	PHOTOSYSTEM Q(B) PROTEIN 1 × 1 （P0A444） PHOTOSYSTEM II CORE LIGHT HARVESTING PROTEIN × 1 （Q8DIQ1） PHOTOSYSTEM II CP43 PROTEIN × 1 （Q8DIF8） PHOTOSYSTEM II REACTION CENTER D2 PROTEIN × 1 （Q8CM25） CYTOCHROME B559 ALPHA SUBUNIT × 1 （P12238） PHOTOSYSTEM II MANGANESE-STABILIZING POLYPEPTIDE × 1 PHOTOSYSTEM II 12 KDA EXTRINSIC PROTEIN × 1 CYTOCHROME C-550 × 1 （P56150） UNASSIGNED SUBUNITS × 1 CHLOROPHYLL A × 35 PHEOPHYTIN A × 2 MANGANESE (II) ION × 4 FE (II) ION × 1 ;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 ; × 1 PROTOPORPHYRIN IX CONTAINING FE × 1 BETA-CAROTENE × 1 HEME C × 1	Consistent with protein count
2	Protein heterocomplex	Heteromer	Protein 10	PHOTOSYSTEM Q(B) PROTEIN 1 × 1 （P0A444） PHOTOSYSTEM II CORE LIGHT HARVESTING PROTEIN × 1 （Q8DIQ1） PHOTOSYSTEM II CP43 PROTEIN × 1 （Q8DIF8） PHOTOSYSTEM II REACTION CENTER D2 PROTEIN × 1 （Q8CM25） CYTOCHROME B559 ALPHA SUBUNIT × 1 （P12238） PHOTOSYSTEM II MANGANESE-STABILIZING POLYPEPTIDE × 1 PHOTOSYSTEM II 12 KDA EXTRINSIC PROTEIN × 1 CYTOCHROME C-550 × 1 （P56150） UNASSIGNED SUBUNITS × 1 CHLOROPHYLL A × 35 PHEOPHYTIN A × 2 MANGANESE (II) ION × 4 FE (II) ION × 1 ;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 ; × 1 PROTOPORPHYRIN IX CONTAINING FE × 1 BETA-CAROTENE × 1 HEME C × 1	Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence

UniProt name	PSBF_SYNVU
Isoform	—
PDB entities	6
Chains and sequence ranges	Author chain F； PDBConstruct 1–44； UniProt 2–45 Author chain L； PDBConstruct 1–44； UniProt 2–45

CYTOCHROME C-550

OrganismNot specified

UniProt P56150

State in the Current Structure

Assembly	Physical composition	Protein state	Molecular copy count	Associated components	Data consistency
1	Protein heterocomplex	Heteromer	Protein 10	PHOTOSYSTEM Q(B) PROTEIN 1 × 1 （P0A444） PHOTOSYSTEM II CORE LIGHT HARVESTING PROTEIN × 1 （Q8DIQ1） PHOTOSYSTEM II CP43 PROTEIN × 1 （Q8DIF8） PHOTOSYSTEM II REACTION CENTER D2 PROTEIN × 1 （Q8CM25） CYTOCHROME B559 ALPHA SUBUNIT × 1 （P12238） CYTOCHROME B559 BETA SUBUNIT × 1 （P12239） PHOTOSYSTEM II MANGANESE-STABILIZING POLYPEPTIDE × 1 PHOTOSYSTEM II 12 KDA EXTRINSIC PROTEIN × 1 UNASSIGNED SUBUNITS × 1 CHLOROPHYLL A × 35 PHEOPHYTIN A × 2 MANGANESE (II) ION × 4 FE (II) ION × 1 ;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 ; × 1 PROTOPORPHYRIN IX CONTAINING FE × 1 BETA-CAROTENE × 1 HEME C × 1	Consistent with protein count
2	Protein heterocomplex	Heteromer	Protein 10	PHOTOSYSTEM Q(B) PROTEIN 1 × 1 （P0A444） PHOTOSYSTEM II CORE LIGHT HARVESTING PROTEIN × 1 （Q8DIQ1） PHOTOSYSTEM II CP43 PROTEIN × 1 （Q8DIF8） PHOTOSYSTEM II REACTION CENTER D2 PROTEIN × 1 （Q8CM25） CYTOCHROME B559 ALPHA SUBUNIT × 1 （P12238） CYTOCHROME B559 BETA SUBUNIT × 1 （P12239） PHOTOSYSTEM II MANGANESE-STABILIZING POLYPEPTIDE × 1 PHOTOSYSTEM II 12 KDA EXTRINSIC PROTEIN × 1 UNASSIGNED SUBUNITS × 1 CHLOROPHYLL A × 35 PHEOPHYTIN A × 2 MANGANESE (II) ION × 4 FE (II) ION × 1 ;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 ; × 1 PROTOPORPHYRIN IX CONTAINING FE × 1 BETA-CAROTENE × 1 HEME C × 1	Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence

UniProt name	C550_SYNEL
Isoform	—
PDB entities	9
Chains and sequence ranges	Author chain T； PDBConstruct 1–163； UniProt 1–163 Author chain V； PDBConstruct 1–163； UniProt 1–163

The page prioritizes protein identity, the current assembly, associated components, oligomeric state and cross-PDB links. Chain mapping and sequence ranges are retained as data evidence. Internal IDs, import timestamps and assembly operation expressions are maintenance fields and are not shown here.

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2. Structure Basics 2. Structure Basics

Entry ID entry_id	1w5c
Deposition date deposition_date	2004-08-06
Structure title title	Photosystem II from Thermosynechococcus elongatus
Keywords keywords	PHOTOSYNTHESIS, WATER OXIDATION, PHOTOSYSTEM, MEMBRANE PROTEIN; PHOTOSYNTHESIS
Experimental Method method	X-RAY DIFFRACTION

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3. Official assembly/model SAXS Official SAXS Profiles

This page reads only the latest assembly calculations. Every curve maps to an explicit PDB entry, official biological assembly and coordinate model.

1w5c__assembly_1__model_1

Assembly 1 · Model 1 · CRYSOL 4.1.3-1-20251215 (887e7ef)

Download this curve (.dat)

1w5c__assembly_1__model_1 | I(q)

100 plotted points; both axes use logarithmic scales.

1w5c__assembly_1__model_1 | P(r) · Pending

P(r) will be calculated and displayed separately for the same assembly/model.

Rg（Guinier）	41.62 Å
Rg (electron density)	40.52 Å
Total Rg	41.97 Å
Atom count	17629
Residues	2308
Excluded volume	336770 Å³
Maximum q	0.500 Å⁻¹

Assembly	Model	Structure unit	Oligomeric description	Status	CRYSOL	Actions
1	1	`1w5c__assembly_1__model_1`	decameric （10）	Success	4.1.3-1-20251215 (887e7ef)	View Download
2	1	`1w5c__assembly_2__model_1`	decameric （10）	Success	4.1.3-1-20251215 (887e7ef)	View Download

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4. Crystallography and Experiment 4. Crystallography & Experiment

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5. Entities and Polymers Entities & Polymers (18)

Entity 1 Entity 1 polymer

Description description	PHOTOSYSTEM Q(B) PROTEIN 1
Molecular weight formula_weight	39762.3 kDa
Source method src_method	nat
Copy count entity_count	2

Polymer Polymer

Polymer type type	polypeptide(L)
Chain IDs strand_id	A,G
Atom count atom_count	35614

MTTTLQRRESANLWERFCNWVTSTDNRLYVGWFGVIMIPTLLAATICFVIAFIAAPPVDIDGIREPVSGSLLYGNNIITGAVVPSSNAIGLHFYPIWEAASLDEWLYNGGPYQLIIFHFLLGASCYMGRQWELSYRLGMRPWICVAYSAPLASAFAVFLIYPIGQGSFSDGMPLGISGTFNFMIVFQAEHNILMHPFHQLGVAGVFGGALFCAMHGSLVTSSLIRETTETESANYGYKFGQEEETYNIVAAHGYFGRLIFQYASFNNSRSLHFFLAAWPVVGVWFTALGISTMAFNLNGFNFNHSVIDAKGNVINTWADIINRANLGMEVMHERNAHNFPLDLASAESAPVAMIAPSING

Entity 2 Entity 2 polymer

Description description	PHOTOSYSTEM II CORE LIGHT HARVESTING PROTEIN
Molecular weight formula_weight	56656.5 kDa
Source method src_method	nat
Copy count entity_count	2

Polymer Polymer

Polymer type type	polypeptide(L)
Chain IDs strand_id	B,H

MGLPWYRVHTVLINDPGRLIAAHLMHTALVAGWAGSMALYELATFDPSDPVLNPMWRQGMFVLPFMARLGVTGSWSGWSITGETGIDPGFWSFEGVALAHIVLSGLLFLAACWHWVYWDLELFRDPRTGEPALDLPKMFGIHLFLAGLLCFGFGAFHLTGLFGPGMWVSDPYGLTGSVQPVAPEWGPDGFNPYNPGGVVAHHIAAGIVGIIAGLFHILVRPPQRLYKALRMGNIETVLSSSIAAVFFAAFVVAGTMWYGSATTPIELFGPTRYQWDSSYFQQEINRRVQASLASGATLEEAWSAIPEKLAFYDYIGNNPAKGGLFRTGPMNKGDGIAQAWKGHAVFRNKEGEELFVRRMPAFFESFPVILTDKNGVVKADIPFRRAESKYSFEQQGVTVSFYGGELNGQTFTDPPTVKSYARKAIFGEIFEFDTETLNSDGIFRTSPRGWFTFAHAVFALLFFFGHIWHGARTLFRDVFSGIDPELSPEQVEWGFYQKVGDVTTRRKEAV

Entity 3 Entity 3 polymer

Description description	PHOTOSYSTEM II CP43 PROTEIN
Molecular weight formula_weight	51666.1 kDa
Source method src_method	nat
Copy count entity_count	2

Polymer Polymer

Polymer type type	polypeptide(L)
Chain IDs strand_id	C,I

MKTLSSQKRYSPVVTLSSNSIFATNRDQESSGFAWWAGNARLINLSGKLLGAHVAHAGLIVFWAGAMTLFELAHFIPEKPMYEQGLILIPHIATLGWGVGPGGEVVDTFPFFVVGVVHLISSAVLGFGGVYHAIRGPETLEEYSSFFGYDWKDKNKMTTILGFHLIVLGIGALLLVAKAMFFGGLYDTWAPGGGDVRVITNPTLDPRVIFGYLLKSPFGGEGWIVSVNNLEDVVGGHIWIGLICIAGGIWHILTTPFGWARRAFIWSGEAYLSYSLGALSMMGFIATCFVWFNNTVYPSEFYGPTGPEASQAQAMTFLIRDQKLGANVGSAQGPTGLGKYLMRSPTGEIIFGGETMRFWDFRGPWLEPLRGPNGLDLNKIKNDIQPWQERRAAEYMTHAPLGSLNSVGGVATEINSVNFVSPRSWLATSHFVLAFFFLVGHLWHAGRARAAAAGFEKGIDRESEPVLSMPSLD

Entity 4 Entity 4 polymer

Description description	PHOTOSYSTEM II REACTION CENTER D2 PROTEIN
Molecular weight formula_weight	39388.2 kDa
Source method src_method	nat
Copy count entity_count	2

Polymer Polymer

Polymer type type	polypeptide(L)
Chain IDs strand_id	D,J

MTIAIGRAPAERGWFDILDDWLKRDRFVFVGWSGILLFPCAYLALGGWLTGTTFVTSWYTHGLASSYLEGCNFLTVAVSTPANSMGHSLLLLWGPEAQGDFTRWCQLGGLWTFIALHGAFGLIGFMLRQFEIARLVGVRPYNAIAFSAPIAVFVSVFLIYPLGQSSWFFAPSFGVAAIFRFLLFFQGFHNWTLNPFHMMGVAGVLGGALLCAIHGATVENTLFQDGEGASTFRAFNPTQAEETYSMVTANRFWSQIFGIAFSNKRWLHFFMLFVPVTGLWMSAIGVVGLALNLRSYDFISQEIRAAEDPEFETFYTKNLLLNEGIRAWMAPQDQPHENFVFPEEVLPRGNAL

Entity 5 Entity 5 polymer

Description description	CYTOCHROME B559 ALPHA SUBUNIT
Molecular weight formula_weight	9580.8 kDa
Source method src_method	nat
Copy count entity_count	2

Polymer Polymer

Polymer type type	polypeptide(L)
Chain IDs strand_id	E,K

MAGTTGERPFSDIITSVRYWVIHSITIPALFIAGWLFVSTGLAYDVFGTPRPDSYYAQEQRSIPLVTDRFEAKQQVETFLEQLK

Entity 6 Entity 6 polymer

Description description	CYTOCHROME B559 BETA SUBUNIT
Molecular weight formula_weight	4936.7 kDa
Source method src_method	nat
Copy count entity_count	2

Polymer Polymer

Polymer type type	polypeptide(L)
Chain IDs strand_id	F,L

TSNTPNQEPVSYPIFTVRWVAVHTLAVPTIFFLGAIAAMQFIQR

Entity 7 Entity 7 polymer

Description description	PHOTOSYSTEM II MANGANESE-STABILIZING POLYPEPTIDE
Molecular weight formula_weight	15251.8 kDa
Source method src_method	nat
Copy count entity_count	2

Polymer Polymer

Polymer type type	polypeptide(L)
Chain IDs strand_id	O,P

XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX

Entity 8 Entity 8 polymer

Description description	PHOTOSYSTEM II 12 KDA EXTRINSIC PROTEIN
Molecular weight formula_weight	8528.5 kDa
Source method src_method	nat
Copy count entity_count	2

Polymer Polymer

Polymer type type	polypeptide(L)
Chain IDs strand_id	S,U

XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX

Entity 9 Entity 9 polymer

Description description	CYTOCHROME C-550
Molecular weight formula_weight	18046.9 kDa
Source method src_method	nat
Copy count entity_count	2

Polymer Polymer

Polymer type type	polypeptide(L)
Chain IDs strand_id	T,V

MLKKCVWLAVALCLCLWQFTMGTALAAELTPEVLTVPLNSEGKTITLTEKQYLEGKRLFQYACASCHVGGITKTNPSLDLRTETLALATPPRDNIEGLVDYMKNPTTYDGEQEIAEVHPSLRSADIFPKMRNLTEKDLVAIAGHILVEPKILGDKWGGGKVYY

Entity 10 Entity 10 polymer

Description description	UNASSIGNED SUBUNITS
Molecular weight formula_weight	30570.6 kDa
Source method src_method	nat
Copy count entity_count	2

Polymer Polymer

Polymer type type	polypeptide(L)
Chain IDs strand_id	X,Y

XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX

Entity 11 Entity 11 non-polymer

Description description	CHLOROPHYLL A
Molecular weight formula_weight	893.5 kDa
Source method src_method	syn
Copy count entity_count	70

Entity 12 Entity 12 non-polymer

Description description	PHEOPHYTIN A
Molecular weight formula_weight	871.2 kDa
Source method src_method	syn
Copy count entity_count	4

Entity 13 Entity 13 non-polymer

Description description	MANGANESE (II) ION
Molecular weight formula_weight	54.9 kDa
Source method src_method	syn
Copy count entity_count	8

Entity 14 Entity 14 non-polymer

Description description	FE (II) ION
Molecular weight formula_weight	55.8 kDa
Source method src_method	syn
Copy count entity_count	2

Entity 15 Entity 15 non-polymer

Description description	;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 ;
Molecular weight formula_weight	749.2 kDa
Source method src_method	syn
Copy count entity_count	2

Entity 16 Entity 16 non-polymer

Description description	PROTOPORPHYRIN IX CONTAINING FE
Molecular weight formula_weight	616.5 kDa
Source method src_method	syn
Copy count entity_count	2

Entity 17 Entity 17 non-polymer

Description description	BETA-CAROTENE
Molecular weight formula_weight	536.9 kDa
Source method src_method	syn
Copy count entity_count	2

Entity 18 Entity 18 non-polymer

Description description	HEME C
Molecular weight formula_weight	618.5 kDa
Source method src_method	syn
Copy count entity_count	2

▼

6. Fold Classification (SCOP + CATH) 22 domains

SCOP 2.08 (14 domains)

Domain ID domain_id	d1w5ca_
Class class	i — Low resolution protein structures
Fold Fold fold	i.5 — Photosystems
Superfamily Superfamily superfamily	i.5.1 — Photosystems
Family Family family	i.5.1.1 — Photosystems

Domain ID domain_id	d1w5cb_
Class class	i — Low resolution protein structures
Fold Fold fold	i.5 — Photosystems
Superfamily Superfamily superfamily	i.5.1 — Photosystems
Family Family family	i.5.1.1 — Photosystems

Domain ID domain_id	d1w5cc_
Class class	i — Low resolution protein structures
Fold Fold fold	i.5 — Photosystems
Superfamily Superfamily superfamily	i.5.1 — Photosystems
Family Family family	i.5.1.1 — Photosystems

Domain ID domain_id	d1w5cd_
Class class	i — Low resolution protein structures
Fold Fold fold	i.5 — Photosystems
Superfamily Superfamily superfamily	i.5.1 — Photosystems
Family Family family	i.5.1.1 — Photosystems

Domain ID domain_id	d1w5ce_
Class class	i — Low resolution protein structures
Fold Fold fold	i.5 — Photosystems
Superfamily Superfamily superfamily	i.5.1 — Photosystems
Family Family family	i.5.1.1 — Photosystems

Domain ID domain_id	d1w5cf_
Class class	i — Low resolution protein structures
Fold Fold fold	i.5 — Photosystems
Superfamily Superfamily superfamily	i.5.1 — Photosystems
Family Family family	i.5.1.1 — Photosystems

Domain ID domain_id	d1w5cg_
Class class	i — Low resolution protein structures
Fold Fold fold	i.5 — Photosystems
Superfamily Superfamily superfamily	i.5.1 — Photosystems
Family Family family	i.5.1.1 — Photosystems

Domain ID domain_id	d1w5ch_
Class class	i — Low resolution protein structures
Fold Fold fold	i.5 — Photosystems
Superfamily Superfamily superfamily	i.5.1 — Photosystems
Family Family family	i.5.1.1 — Photosystems

Domain ID domain_id	d1w5ci_
Class class	i — Low resolution protein structures
Fold Fold fold	i.5 — Photosystems
Superfamily Superfamily superfamily	i.5.1 — Photosystems
Family Family family	i.5.1.1 — Photosystems

Domain ID domain_id	d1w5cj_
Class class	i — Low resolution protein structures
Fold Fold fold	i.5 — Photosystems
Superfamily Superfamily superfamily	i.5.1 — Photosystems
Family Family family	i.5.1.1 — Photosystems

Domain ID domain_id	d1w5ck_
Class class	i — Low resolution protein structures
Fold Fold fold	i.5 — Photosystems
Superfamily Superfamily superfamily	i.5.1 — Photosystems
Family Family family	i.5.1.1 — Photosystems

Domain ID domain_id	d1w5cl_
Class class	i — Low resolution protein structures
Fold Fold fold	i.5 — Photosystems
Superfamily Superfamily superfamily	i.5.1 — Photosystems
Family Family family	i.5.1.1 — Photosystems

Domain ID domain_id	d1w5ct_
Class class	i — Low resolution protein structures
Fold Fold fold	i.5 — Photosystems
Superfamily Superfamily superfamily	i.5.1 — Photosystems
Family Family family	i.5.1.1 — Photosystems

Domain ID domain_id	d1w5cv_
Class class	i — Low resolution protein structures
Fold Fold fold	i.5 — Photosystems
Superfamily Superfamily superfamily	i.5.1 — Photosystems
Family Family family	i.5.1.1 — Photosystems

CATH v4.4 (8 domains)

Domain ID domain_id	1w5cB02
Class class	3 — Alpha Beta
Architecture architecture	10 — Roll
Topology topology	680 — Photosystem II CP47 reaction center protein
Homologous superfamily homologous superfamily	10 — Photosystem II CP47 reaction center protein

Domain ID domain_id	1w5cC02
Class class	1 — Mainly Alpha
Architecture architecture	10 — Orthogonal Bundle
Topology topology	10 — Arc Repressor Mutant, subunit A
Homologous superfamily homologous superfamily	670 — photosystem ii from thermosynechococcus elongatus

Domain ID domain_id	1w5cE00
Class class	1 — Mainly Alpha
Architecture architecture	20 — Up-down Bundle
Topology topology	5 — Single alpha-helices involved in coiled-coils or other helix-helix interfaces
Homologous superfamily homologous superfamily	860 — Photosystem II cytochrome b559, alpha subunit

Domain ID domain_id	1w5cH02
Class class	3 — Alpha Beta
Architecture architecture	10 — Roll
Topology topology	680 — Photosystem II CP47 reaction center protein
Homologous superfamily homologous superfamily	10 — Photosystem II CP47 reaction center protein

Domain ID domain_id	1w5cI02
Class class	1 — Mainly Alpha
Architecture architecture	10 — Orthogonal Bundle
Topology topology	10 — Arc Repressor Mutant, subunit A
Homologous superfamily homologous superfamily	670 — photosystem ii from thermosynechococcus elongatus

Domain ID domain_id	1w5cK00
Class class	1 — Mainly Alpha
Architecture architecture	20 — Up-down Bundle
Topology topology	5 — Single alpha-helices involved in coiled-coils or other helix-helix interfaces
Homologous superfamily homologous superfamily	860 — Photosystem II cytochrome b559, alpha subunit

Domain ID domain_id	1w5cT00
Class class	1 — Mainly Alpha
Architecture architecture	10 — Orthogonal Bundle
Topology topology	760 — Cytochrome Bc1 Complex; Chain D, domain 2
Homologous superfamily homologous superfamily	10 — Cytochrome c-like domain

Domain ID domain_id	1w5cV00
Class class	1 — Mainly Alpha
Architecture architecture	10 — Orthogonal Bundle
Topology topology	760 — Cytochrome Bc1 Complex; Chain D, domain 2
Homologous superfamily homologous superfamily	10 — Cytochrome c-like domain

▶

Unit-cell length a length_a	127.517 Å
Unit-cell length b length_b	224.612 Å
Unit-cell length c length_c	305.632 Å
Unit-cell angle α angle_alpha	90.00 °
Unit-cell angle β angle_beta	90.00 °
Unit-cell angle γ angle_gamma	90.00 °
Molecules per unit cell Z z_pdb	8

Space group space_group	P 21 21 21
Space-group number int_tables_number	19
Crystal system crystal_system	—

Resolution resolution	3.200 Å
Low-resolution limit resolution_low	10.000 Å
R factor r_factor	—
R_work r_work	—
R_free r_free	—

Photosystem II from Thermosynechococcus elongatus

1. Protein Identity and Related Structures Protein Identity & Related Structures

PHOTOSYSTEM Q(B) PROTEIN 1

State in the Current Structure

Other States of the Same Protein in the Database

Monomer

Homodimer

Homotetramer

Other homooligomers

Heteromeric or nucleic-acid complex

PHOTOSYSTEM II CORE LIGHT HARVESTING PROTEIN

State in the Current Structure

Other States of the Same Protein in the Database

Monomer

Homodimer

Homotetramer

Other homooligomers

Heteromeric or nucleic-acid complex

PHOTOSYSTEM II CP43 PROTEIN

State in the Current Structure

Other States of the Same Protein in the Database

Monomer

Homodimer

Homotetramer

Other homooligomers

Heteromeric or nucleic-acid complex

PHOTOSYSTEM II REACTION CENTER D2 PROTEIN

State in the Current Structure

Other States of the Same Protein in the Database

Monomer

Homodimer

Homotetramer

Other homooligomers

Heteromeric or nucleic-acid complex

CYTOCHROME B559 ALPHA SUBUNIT

State in the Current Structure

Other States of the Same Protein in the Database

Monomer

Homodimer

Homotetramer

Other homooligomers

Heteromeric or nucleic-acid complex

CYTOCHROME B559 BETA SUBUNIT

State in the Current Structure

Other States of the Same Protein in the Database

Monomer

Homodimer

Homotetramer

Other homooligomers

Heteromeric or nucleic-acid complex

CYTOCHROME C-550

State in the Current Structure

Other States of the Same Protein in the Database

Monomer

Homodimer

Homotetramer

Other homooligomers

Heteromeric or nucleic-acid complex

2. Structure Basics 2. Structure Basics

3. Official assembly/model SAXS Official SAXS Profiles

1w5c__assembly_1__model_1

1w5c__assembly_1__model_1 | I(q)

1w5c__assembly_1__model_1 | P(r) · Pending

4. Crystallography and Experiment 4. Crystallography & Experiment

Unit cell Unit Cell

Symmetry Symmetry

Refinement Refinement

Diffraction experiment Diffraction

5. Entities and Polymers Entities & Polymers (18)

Entity 1 Entity 1 polymer

Polymer Polymer

Entity 2 Entity 2 polymer

Polymer Polymer

Entity 3 Entity 3 polymer

Polymer Polymer

Entity 4 Entity 4 polymer

Polymer Polymer

Entity 5 Entity 5 polymer

Polymer Polymer

Entity 6 Entity 6 polymer