SAXSdb — 6y3d

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

C-phycocyanin alpha chain

OrganismNot specified

UniProt O19910

State in the Current Structure

Assembly	Physical composition	Protein state	Molecular copy count	Associated components	Data consistency
1	Protein heterocomplex	Heteromer	Protein 12	C-phycocyanin beta chain × 6 （O19909） PHYCOCYANOBILIN × 18 GLYCEROL × 1 ACETATE ION × 2 water × 12	Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence

UniProt name	PHCA_CYACA
Isoform	—
PDB entities	1
Chains and sequence ranges	Author chain AAA； PDBConstruct 1–162； UniProt 1–162 Author chain CCC； PDBConstruct 1–162； UniProt 1–162 Author chain EEE； PDBConstruct 1–162； UniProt 1–162 Author chain GGG； PDBConstruct 1–162； UniProt 1–162 Author chain III； PDBConstruct 1–162； UniProt 1–162 Author chain KKK； PDBConstruct 1–162； UniProt 1–162

C-phycocyanin beta chain

OrganismNot specified

UniProt O19909

State in the Current Structure

Assembly	Physical composition	Protein state	Molecular copy count	Associated components	Data consistency
1	Protein heterocomplex	Heteromer	Protein 12	C-phycocyanin alpha chain × 6 （O19910） PHYCOCYANOBILIN × 18 GLYCEROL × 1 ACETATE ION × 2 water × 12	Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence

UniProt name	PHCB_CYACA
Isoform	—
PDB entities	2
Chains and sequence ranges	Author chain BBB； PDBConstruct 1–172； UniProt 1–172 Author chain DDD； PDBConstruct 1–172； UniProt 1–172 Author chain FFF； PDBConstruct 1–172； UniProt 1–172 Author chain HHH； PDBConstruct 1–172； UniProt 1–172 Author chain JJJ； PDBConstruct 1–172； UniProt 1–172 Author chain LLL； PDBConstruct 1–172； UniProt 1–172

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	6y3d
Deposition date deposition_date	2020-02-18
Structure title title	X-ray structure of thermophilic C-phycocyanin from Galdiera phlegrea
Keywords keywords	red algae, C-phycocyanin, pigment, fluorescent, Phycobilisomes, FLUORESCENT PROTEIN; FLUORESCENT PROTEIN
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.

6y3d__assembly_1__model_1

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

Download this curve (.dat)

6y3d__assembly_1__model_1 | I(q)

100 plotted points; both axes use logarithmic scales.

6y3d__assembly_1__model_1 | P(r) · Pending

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

Rg（Guinier）	41.31 Å
Rg (electron density)	40.57 Å
Total Rg	40.99 Å
Atom count	15662
Residues	1998
Excluded volume	278560 Å³
Maximum q	0.500 Å⁻¹

Assembly	Model	Structure unit	Oligomeric description	Status	CRYSOL	Actions
1	1	`6y3d__assembly_1__model_1`	dodecameric （12）	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 (6)

Entity 1 Entity 1 polymer

Description description	C-phycocyanin alpha chain
Molecular weight formula_weight	17260.4 kDa
Source method src_method	nat
Copy count entity_count	6

Polymer Polymer

Polymer type type	polypeptide(L)
Chain IDs strand_id	AAA,CCC,EEE,GGG,III,KKK
Atom count atom_count	16970

MKTPITEAIATADSQGRFLSNTELQSCAGRFQRAGASLDAARSLTANAQRLIDGAAQAVYSKFPYTTQMTGPCYASSAIGKAKCSRDIGYYLRMVTYCLVAGGTGPMDEYLVAGLEEINRTFDLSPSWYVEALKNIKASHGLSGAAASEANAYINYAINSLS

Entity 2 Entity 2 polymer

Description description	C-phycocyanin beta chain
Molecular weight formula_weight	18203.6 kDa
Source method src_method	nat
Copy count entity_count	6

Polymer Polymer

Polymer type type	polypeptide(L)
Chain IDs strand_id	BBB,DDD,FFF,HHH,JJJ,LLL

MLDAFSKVVAQADARGEFLSNTQLDALSKMVADGNKRLDATAAISANAATIVTNAARSLFSEQPQLIQPGGNAYTNRRMAACLRDMEIILRYVSYATIAGDSSVLDDRCLNGLRETYQALGVPGASVALAVEKMKEAAIAFANDSSNVTIGDCSALISEIATYFDRAAKAVV

Entity 3 Entity 3 non-polymer

Description description	PHYCOCYANOBILIN
Molecular weight formula_weight	588.7 kDa
Source method src_method	syn
Copy count entity_count	18

Entity 4 Entity 4 non-polymer

Description description	GLYCEROL
Molecular weight formula_weight	92.1 kDa
Source method src_method	syn
Copy count entity_count	1

Entity 5 Entity 5 non-polymer

Description description	ACETATE ION
Molecular weight formula_weight	59.0 kDa
Source method src_method	syn
Copy count entity_count	2

Entity 6 Entity 6 water

Description description	water
Molecular weight formula_weight	18.0 kDa
Source method src_method	nat
Copy count entity_count	1215

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Unit-cell length a length_a	60.030 Å
Unit-cell length b length_b	189.130 Å
Unit-cell length c length_c	208.130 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	24

Space group space_group	P 2 21 21
Space-group number int_tables_number	18
Crystal system crystal_system	—

Resolution resolution	1.800 Å
Low-resolution limit resolution_low	94.744 Å
R factor r_factor	—
R_work r_work	0.2211
R_free r_free	0.2682

X-ray structure of thermophilic C-phycocyanin from Galdiera phlegrea

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

C-phycocyanin alpha chain

State in the Current Structure

Other States of the Same Protein in the Database

C-phycocyanin beta chain

State in the Current Structure

Other States of the Same Protein in the Database

2. Structure Basics 2. Structure Basics

3. Official assembly/model SAXS Official SAXS Profiles

6y3d__assembly_1__model_1

6y3d__assembly_1__model_1 | I(q)

6y3d__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 (6)

Entity 1 Entity 1 polymer

Polymer Polymer

Entity 2 Entity 2 polymer

Polymer Polymer

Entity 3 Entity 3 non-polymer

Entity 4 Entity 4 non-polymer

Entity 5 Entity 5 non-polymer

Entity 6 Entity 6 water

7. Citations (1)

X-ray structure of thermophilic C-phycocyanin from Galdiera phlegrea

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

C-phycocyanin alpha chain

State in the Current Structure

Other States of the Same Protein in the Database

Monomer

Homodimer

Homotetramer

Other homooligomers

Heteromeric or nucleic-acid complex

C-phycocyanin beta chain

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

6y3d__assembly_1__model_1

6y3d__assembly_1__model_1 | I(q)

6y3d__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 (6)

Entity 1 Entity 1 polymer

Polymer Polymer

Entity 2 Entity 2 polymer

Polymer Polymer

Entity 3 Entity 3 non-polymer

Entity 4 Entity 4 non-polymer

Entity 5 Entity 5 non-polymer

Entity 6 Entity 6 water

7. Citations (1)