SAXSdb — 6l7i

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

TcdA1

Photorhabdus luminescens

State in the Current Structure

Assembly	Physical composition	Protein state	Molecular copy count	Associated components	Data consistency
1	Protein heterocomplex	Heteromer	Protein 8	TcdB1 × 1 （Q93EP6） TccC2 × 1 （Q93EP1） TccC2 × 1 （Q93EP1）	Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence

UniProt name	Q9RN43_PHOLU
Isoform	—
PDB entities	1
Chains and sequence ranges	Author chain A； PDBConstruct 1–190； UniProt 2327–2516 Author chain B； PDBConstruct 1–190； UniProt 2327–2516 Author chain C； PDBConstruct 1–190； UniProt 2327–2516 Author chain D； PDBConstruct 1–190； UniProt 2327–2516 Author chain E； PDBConstruct 1–190； UniProt 2327–2516

TcdB1

Photorhabdus luminescens

UniProt Q93EP6

State in the Current Structure

Assembly	Physical composition	Protein state	Molecular copy count	Associated components	Data consistency
1	Protein heterocomplex	Heteromer	Protein 8	TcdA1 × 5 （Q9RN43） TccC2 × 1 （Q93EP1） TccC2 × 1 （Q93EP1）	Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence

UniProt name	Q93EP6_PHOLU
Isoform	—
PDB entities	2
Chains and sequence ranges	Author chain F； PDBConstruct 1–1476； UniProt 1–1476

TccC2

Photorhabdus luminescens

UniProt Q93EP1

State in the Current Structure

Assembly	Physical composition	Protein state	Molecular copy count	Associated components	Data consistency
1	Protein heterocomplex	Heteromer	Protein 8	TcdA1 × 5 （Q9RN43） TcdB1 × 1 （Q93EP6）	Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence

UniProt name	Q93EP1_PHOLU
Isoform	—
PDB entities	3, 4
Chains and sequence ranges	Author chain G； PDBConstruct 1–664； UniProt 1–664 Author chain H； PDBConstruct 1–16； UniProt 665–680

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	6l7i
Deposition date deposition_date	2019-11-01
Structure title title	Signal substraction of TcdB1-TccC2 and part of TcdA1
Keywords keywords	protein transportation, TcdA1, TcdB1, TccC2, TOXIN-PROTEIN TRANSPORT complex; TOXIN/PROTEIN TRANSPORT
Experimental Method method	ELECTRON MICROSCOPY

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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.

6l7i__assembly_1__model_1

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

Download this curve (.dat)

6l7i__assembly_1__model_1 | I(q)

100 plotted points; both axes use logarithmic scales.

6l7i__assembly_1__model_1 | P(r) · Pending

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

Rg（Guinier）	53.45 Å
Rg (electron density)	53.40 Å
Total Rg	53.56 Å
Atom count	23561
Residues	3022
Excluded volume	415490 Å³
Maximum q	0.500 Å⁻¹

Assembly	Model	Structure unit	Oligomeric description	Status	CRYSOL	Actions
1	1	`6l7i__assembly_1__model_1`	octameric （8）	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 (4)

Entity 1 Entity 1 polymer

Description description	TcdA1
Molecular weight formula_weight	20255.9 kDa
Source method src_method	man
Copy count entity_count	5

Polymer Polymer

Polymer type type	polypeptide(L)
Chain IDs strand_id	A,B,C,D,E
Atom count atom_count	23561

RALEVERTVSLAEVYAGLPKDNGPFSLAQEIDKLVSQGSGSAGSGNNNLAFGAGTDTKTSLQASVSFADLKIREDYPASLGKIRRIKQISVTLPALLGPYQDVQAILSYGDKAGLANGCEALAVSHGMNDSGQFQLDFNDGKFLPFEGIAIDQGTLTLSFPNASMPEKGKQATMLKTLNDIILHIRYTIK

Source Source

Source organism organism	Photorhabdus luminescens
Common name common_name	Xenorhabdus luminescens
NCBI taxonomy ID ncbi_taxonomy_id	29488
Host organism host_organism	Escherichia coli

Entity 2 Entity 2 polymer

Description description	TcdB1
Molecular weight formula_weight	165296.5 kDa
Source method src_method	man
Copy count entity_count	1

Polymer Polymer

Polymer type type	polypeptide(L)
Chain IDs strand_id	F

MQNSQTFSVTELSLPKGGGAITGMGEALTPAGPDGMAALSLPLPISAGRGYAPSLTLNYNSGTGNSPFGLGWDCGVMAIRRRTSTGVPNYDETDTFLGPEGEVLVVALNEAGQADIRSESSLQGINLGATFTVTCYRSRLESHFNRLEYWQPQTTGATDFWLIYSPDGQVHLLGKNPQARISNPLNVNQTAQWLLEASISSHSEQIYYQYRAEDEAGCETDELAAHPSATVQRYLQTVHYGNLTASDVFPTLNGDDPLKSGWMFCLVFDYGERKNSLSEMPLFKATGNWLCRKDRFSRYEYGFELRTRRLCRQILMFHRLQTLSGQAKGDDEPALVSRLILDYDENAMVSTLVSVRRVGHEDNNTVTALPPLELAYQPFEPEQTALWQSMDVLANFNTIQRWQLLDLKGEGVPGILYQDRNGWWYRSAQRQAGEEMNAVTWGKMQLLPITPAVQDNASLMDINGDGQLDWVITGPGLRGYHSQHPDGSWTRFTPLHALPIEYSHPRAQLADLMGAGLSDLVLIGPKSVRLYVNNRDGFTEGRDVVQSGDITLPLPGADARKLVAFSDVLGSGQAHLVEVSATQVTCWPNLGHGRFGQPIVLPGFSQSAASFNPDRVHLADLDGSGPADLIYVHADRLDIFSNESGNGFAKPFTLSFPDGLRFDDTCQLQVADVQGLGVVSLILSVPHMAPHHWRCDLTNAKPWLLSETNNNMGANHTLHYRSSVQFWLDEKAAALATGQTPVCYLPFPVHTLWQTETEDEISGNKLVTTLRYAHGAWDGREREFRGFGYVEQTDSHQLAQGNAPERTPPALTKSWYATGLPAVDNALSAGYWRGDKQAFAGFTPRFTLWKEGKDVPLTPEDDHNLYWLNRALKGQPLRSELYGLDGSAQQQIPYTVTESRPQVRQLQDGATVSPVLWASVVESRSYHYERIISDPQCNQDITLSSDLFGQPLKQVSVQYPRRNKPTTNPYPDTLPDTLFASSYDDQQQLLRLTCRQSSWHHLIGNELRVLGLPDGTRSDAFTYDAKQVPVDGLNLETLCAENSLIADDKPREYLNQQRTFYTDGKNQTPLKTPTRQALIAFTETAVLTESLLSAFDGGITPDELPGILTQAGYQQEPYLFPRTGENKVWVARQGYTDYGTEAQFWRPVAQRNSLLTGKMTLKWDTHYCVITQTQDAAGLTVSANYDWRFLTPTQLTDINDNVHLITLDALGRPVTQRFWGIESGVATGYSSSEEKPFSPPNDIDTAINLTGPLPVAQCLVYAPDSWMPLFSQETFNTLTQEEQETLRDSRIITEDWRICALTRRRWLQSQKISTPLVKLLTNSIGLPPHNLTLTTDRYDRDSEQQIRQQVAFSDGFGRLLQASVRHEAGEAWQRNQDGSLVTKVENTKTRWAVTGRTEYDNKGQTIRTYQPYFLNDWRYVSDDSARKEAYADTHIYDPIGREIRVITAKGWLRQSQYFPWFTVSEDENDTAADALV

Source Source

Source organism organism	Photorhabdus luminescens
Common name common_name	Xenorhabdus luminescens
NCBI taxonomy ID ncbi_taxonomy_id	29488
Host organism host_organism	Escherichia coli

Entity 3 Entity 3 polymer

Description description	TccC2
Molecular weight formula_weight	74759.1 kDa
Source method src_method	man
Copy count entity_count	1

Polymer Polymer

Polymer type type	polypeptide(L)
Chain IDs strand_id	G

MSSYNSAIDQKTPSIKVLDNRKLNVRTLEYLRTQADENSDELITFYEFNIPGFQVKSTDPRKNKNQSGPNFIRVFNLAGQVLREESVDAGRTITLNDIESRPVLIINATGVRQNHRYEDNTLPGRLLAITEQVQAGEKTTERLIWAGNTPQEKDYNLAGQCVRHYDTAGLTQLNSLSLAGVVLSQSQQLLVDDKNADWTGEDQSLWQQKLSSDVYTTQNKADATGALLTQTDAKGNIQRLAYDVAGQLKGCWLTLKGQAEQVIIKSLTYSAAGQKLREEHGNGVITEYSYEPETQRLIGIATRRPSDAKVLQDLRYQYDPVGNVINIRNDAEATRFWRNQKVVPENSYTYDSLYQLISATGREMANIGQQNNQLPSPALPSDNNTYTNYTRSYSYDHSGNLTQIRHSSPATQNNYTVAITLSNRSNRGVLSTLTTDPNQVDTLFDAGGHQTSLLPGQTLIWTPRGELKQVNNGPGNEWYRYDSNGMRQLKVSEQPTQNTTQQQRVIYLPGLELRTTQSNATTTEELHVITLGEAGRAQVRVLHWESGKPEDVNNNQLRYSYDNLIGSSQLELDNQGQIISEEEYYPFGGTALWAANSQTEASYKTIRYSGKERDATGLYYYGYRYYQPWAGRWLSADPAGTIDGLNLYRMVRNNPVSLQDENGL

Source Source

Source organism organism	Photorhabdus luminescens
Common name common_name	Xenorhabdus luminescens
NCBI taxonomy ID ncbi_taxonomy_id	29488
Host organism host_organism	Escherichia coli

Entity 4 Entity 4 polymer

Description description	TccC2
Molecular weight formula_weight	1905.1 kDa
Source method src_method	man
Copy count entity_count	1

Polymer Polymer

Polymer type type	polypeptide(L)
Chain IDs strand_id	H

APEKGKYTKEVNFFDE

Source Source

Source organism organism	Photorhabdus luminescens
Common name common_name	Xenorhabdus luminescens
NCBI taxonomy ID ncbi_taxonomy_id	29488
Host organism host_organism	Escherichia coli

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Resolution resolution	2.90 Å
Resolution测定Method resolution_method	—
颗粒数 num_particles	124828

Signal substraction of TcdB1-TccC2 and part of TcdA1

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

TcdA1

State in the Current Structure

Other States of the Same Protein in the Database

TcdB1

State in the Current Structure

Other States of the Same Protein in the Database

TccC2

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

6l7i__assembly_1__model_1

6l7i__assembly_1__model_1 | I(q)

6l7i__assembly_1__model_1 | P(r) · Pending

4. Crystallography and Experiment 4. Crystallography & Experiment

冷冻电镜 EM 3D

5. Entities and Polymers Entities & Polymers (4)

Entity 1 Entity 1 polymer

Polymer Polymer

Source Source

Entity 2 Entity 2 polymer

Polymer Polymer

Source Source

Entity 3 Entity 3 polymer

Polymer Polymer

Source Source

Entity 4 Entity 4 polymer

Polymer Polymer

Source Source

7. Citations (1)

Signal substraction of TcdB1-TccC2 and part of TcdA1

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

TcdA1

State in the Current Structure

Other States of the Same Protein in the Database

Monomer

Homodimer

Homotetramer

Other homooligomers

Heteromeric or nucleic-acid complex

TcdB1

State in the Current Structure

Other States of the Same Protein in the Database

Monomer

Homodimer

Homotetramer

Other homooligomers

Heteromeric or nucleic-acid complex

TccC2

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

6l7i__assembly_1__model_1

6l7i__assembly_1__model_1 | I(q)

6l7i__assembly_1__model_1 | P(r) · Pending

4. Crystallography and Experiment 4. Crystallography & Experiment

冷冻电镜 EM 3D

5. Entities and Polymers Entities & Polymers (4)

Entity 1 Entity 1 polymer

Polymer Polymer

Source Source

Entity 2 Entity 2 polymer

Polymer Polymer

Source Source

Entity 3 Entity 3 polymer

Polymer Polymer

Source Source

Entity 4 Entity 4 polymer

Polymer Polymer

Source Source

7. Citations (1)