1n6e

tricorn protease in complex with a tridecapeptide chloromethyl ketone derivative

Method: X-RAY DIFFRACTION

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

Tricorn protease

Thermoplasma acidophilum

State in the Current Structure

Assembly	Physical composition	Protein state	Molecular copy count	Associated components	Data consistency
1	Protein heterocomplex	Heteromer	Protein 12	DQTQKAAAELTFF × 6 water × 12	Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence

UniProt name	TRI_THEAC
Isoform	—
PDB entities	1
Chains and sequence ranges	Author chain A； PDBConstruct 1–1071； UniProt 1–1071 Author chain C； PDBConstruct 1–1071； UniProt 1–1071 Author chain E； PDBConstruct 1–1071； UniProt 1–1071 Author chain G； PDBConstruct 1–1071； UniProt 1–1071 Author chain I； PDBConstruct 1–1071； UniProt 1–1071 Author chain K； PDBConstruct 1–1071； UniProt 1–1071

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	1n6e
Deposition date deposition_date	2002-11-10
Structure title title	tricorn protease in complex with a tridecapeptide chloromethyl ketone derivative
Keywords keywords	tricorn protease, hydrolase, propeller; HYDROLASE
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.

1n6e__assembly_1__model_1

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

Download this curve (.dat)

1n6e__assembly_1__model_1 | I(q)

100 plotted points; both axes use logarithmic scales.

1n6e__assembly_1__model_1 | P(r) · Pending

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

Rg（Guinier）	59.87 Å
Rg (electron density)	59.29 Å
Total Rg	59.37 Å
Atom count	49584
Residues	6204
Excluded volume	879200 Å³
Maximum q	0.500 Å⁻¹

Assembly	Model	Structure unit	Oligomeric description	Status	CRYSOL	Actions
1	1	`1n6e__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 (3)

Entity 1 Entity 1 polymer

Description description	Tricorn protease
Molecular weight formula_weight	121779.5 kDa
EC 编号 ec_number	3.4.21.-
Source method src_method	man
Copy count entity_count	6

Polymer Polymer

Polymer type type	polypeptide(L)
Chain IDs strand_id	A,C,E,G,I,K
Atom count atom_count	50544

MPSLMSFGSCQWIDQGRFSRSLYRNFKTFKLHEMHGLCMPNLLLNPDIHGDRIIFVCCDDLWEHDLKSGSTRKIVSNLGVINNARFFPDGRKIAIRVMRGSSLNTADLYFYNGENGEIKRITYFSGKSTGRRMFTDVAGFDPDGNLIISTDAMQPFSSMTCLYRVENDGINFVPLNLGPATHILFADGRRVIGRNTFELPHWKGYRGGTRGKIWIEVNSGAFKKIVDMSTHVSSPVIVGHRIYFITDIDGFGQIYSTDLDGKDLRKHTSFTDYYPRHLNTDGRRILFSKGGSIYIFNPDTEKIEKIEIGDLESPEDRIISIPSKFAEDFSPLDGDLIAFVSRGQAFIQDVSGTYVLKVPEPLRIRYVRRGGDTKVAFIHGTREGDFLGIYDYRTGKAEKFEENLGNVFAMGVDRNGKFAVVANDRFEIMTVDLETGKPTVIERSREAMITDFTISDNSRFIAYGFPLKHGETDGYVMQAIHVYDMEGRKIFAATTENSHDYAPAFDADSKNLYYLSYRSLDPSPDRVVLNFSFEVVSKPFVIPLIPGSPNPTKLVPRSMTSEAGEYDLNDMYKRSSPINVDPGDYRMIIPLESSILIYSVPVHGEFAAYYQGAPEKGVLLKYDVKTRKVTEVKNNLTDLRLSADRKTVMVRKDDGKIYTFPLEKPEDERTVETDKRPLVSSIHEEFLQMYDEAWKLARDNYWNEAVAKEISERIYEKYRNLVPLCKTRYDLSNVIVEMQGEYRTSHSYEMGGTFTDKDPFRSGRIACDFKLDGDHYVVAKAYAGDYSNEGEKSPIFEYGIDPTGYLIEDIDGETVGAGSNIYRVLSEKAGTSARIRLSGKGGDKRDLMIDILDDDRFIRYRSWVEANRRYVHERSKGTIGYIHIPDMGMMGLNEFYRLFINESSYQGLIVDVRFNGGGFVSQLIIEKLMNKRIGYDNPRRGTLSPYPTNSVRGKIIAITNEYAGSDGDIFSFSFKKLGLGKLIGTRTWGGVVGITPKRRLIDGTVLTQPEFAFWFRDAGFGVENYGVDPDVEIEYAPHDYLSGKDPQIDYAIDALIEELRNWNEELPQRPS

Source Source

Source organism organism	Thermoplasma acidophilum
NCBI taxonomy ID ncbi_taxonomy_id	2303
Host organism host_organism	Escherichia coli BL21

Entity 2 Entity 2 polymer

Description description	DQTQKAAAELTFF
Molecular weight formula_weight	1503.1 kDa
Source method src_method	syn
Copy count entity_count	6

Polymer Polymer

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

DQTQKAAAELTFFX

Entity 3 Entity 3 water

Description description	water
Molecular weight formula_weight	18.0 kDa
Source method src_method	nat
Copy count entity_count	960

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6. Fold Classification (SCOP + CATH) 54 domains

SCOP 2.08 (24 domains)

Domain ID domain_id	d1n6ea1
Class class	b — All beta proteins
Fold Fold fold	b.36 — PDZ domain-like
Superfamily Superfamily superfamily	b.36.1 — PDZ domain-like
Family Family family	b.36.1.3 — Tail specific protease PDZ domain

Domain ID domain_id	d1n6ea2
Class class	b — All beta proteins
Fold Fold fold	b.68 — 6-bladed beta-propeller
Superfamily Superfamily superfamily	b.68.7 — Tricorn protease N-terminal domain
Family Family family	b.68.7.1 — Tricorn protease N-terminal domain

Domain ID domain_id	d1n6ea3
Class class	b — All beta proteins
Fold Fold fold	b.69 — 7-bladed beta-propeller
Superfamily Superfamily superfamily	b.69.9 — Tricorn protease domain 2
Family Family family	b.69.9.1 — Tricorn protease domain 2

Domain ID domain_id	d1n6ea4
Class class	c — Alpha and beta proteins (a/b)
Fold Fold fold	c.14 — ClpP/crotonase
Superfamily Superfamily superfamily	c.14.1 — ClpP/crotonase
Family Family family	c.14.1.2 — Tail specific protease, catalytic domain

Domain ID domain_id	d1n6ec1
Class class	b — All beta proteins
Fold Fold fold	b.36 — PDZ domain-like
Superfamily Superfamily superfamily	b.36.1 — PDZ domain-like
Family Family family	b.36.1.3 — Tail specific protease PDZ domain

Domain ID domain_id	d1n6ec2
Class class	b — All beta proteins
Fold Fold fold	b.68 — 6-bladed beta-propeller
Superfamily Superfamily superfamily	b.68.7 — Tricorn protease N-terminal domain
Family Family family	b.68.7.1 — Tricorn protease N-terminal domain

Domain ID domain_id	d1n6ec3
Class class	b — All beta proteins
Fold Fold fold	b.69 — 7-bladed beta-propeller
Superfamily Superfamily superfamily	b.69.9 — Tricorn protease domain 2
Family Family family	b.69.9.1 — Tricorn protease domain 2

Domain ID domain_id	d1n6ec4
Class class	c — Alpha and beta proteins (a/b)
Fold Fold fold	c.14 — ClpP/crotonase
Superfamily Superfamily superfamily	c.14.1 — ClpP/crotonase
Family Family family	c.14.1.2 — Tail specific protease, catalytic domain

Domain ID domain_id	d1n6ee1
Class class	b — All beta proteins
Fold Fold fold	b.36 — PDZ domain-like
Superfamily Superfamily superfamily	b.36.1 — PDZ domain-like
Family Family family	b.36.1.3 — Tail specific protease PDZ domain

Domain ID domain_id	d1n6ee2
Class class	b — All beta proteins
Fold Fold fold	b.68 — 6-bladed beta-propeller
Superfamily Superfamily superfamily	b.68.7 — Tricorn protease N-terminal domain
Family Family family	b.68.7.1 — Tricorn protease N-terminal domain

Domain ID domain_id	d1n6ee3
Class class	b — All beta proteins
Fold Fold fold	b.69 — 7-bladed beta-propeller
Superfamily Superfamily superfamily	b.69.9 — Tricorn protease domain 2
Family Family family	b.69.9.1 — Tricorn protease domain 2

Domain ID domain_id	d1n6ee4
Class class	c — Alpha and beta proteins (a/b)
Fold Fold fold	c.14 — ClpP/crotonase
Superfamily Superfamily superfamily	c.14.1 — ClpP/crotonase
Family Family family	c.14.1.2 — Tail specific protease, catalytic domain

Domain ID domain_id	d1n6eg1
Class class	b — All beta proteins
Fold Fold fold	b.36 — PDZ domain-like
Superfamily Superfamily superfamily	b.36.1 — PDZ domain-like
Family Family family	b.36.1.3 — Tail specific protease PDZ domain

Domain ID domain_id	d1n6eg2
Class class	b — All beta proteins
Fold Fold fold	b.68 — 6-bladed beta-propeller
Superfamily Superfamily superfamily	b.68.7 — Tricorn protease N-terminal domain
Family Family family	b.68.7.1 — Tricorn protease N-terminal domain

Domain ID domain_id	d1n6eg3
Class class	b — All beta proteins
Fold Fold fold	b.69 — 7-bladed beta-propeller
Superfamily Superfamily superfamily	b.69.9 — Tricorn protease domain 2
Family Family family	b.69.9.1 — Tricorn protease domain 2

Domain ID domain_id	d1n6eg4
Class class	c — Alpha and beta proteins (a/b)
Fold Fold fold	c.14 — ClpP/crotonase
Superfamily Superfamily superfamily	c.14.1 — ClpP/crotonase
Family Family family	c.14.1.2 — Tail specific protease, catalytic domain

Domain ID domain_id	d1n6ei1
Class class	b — All beta proteins
Fold Fold fold	b.36 — PDZ domain-like
Superfamily Superfamily superfamily	b.36.1 — PDZ domain-like
Family Family family	b.36.1.3 — Tail specific protease PDZ domain

Domain ID domain_id	d1n6ei2
Class class	b — All beta proteins
Fold Fold fold	b.68 — 6-bladed beta-propeller
Superfamily Superfamily superfamily	b.68.7 — Tricorn protease N-terminal domain
Family Family family	b.68.7.1 — Tricorn protease N-terminal domain

Domain ID domain_id	d1n6ei3
Class class	b — All beta proteins
Fold Fold fold	b.69 — 7-bladed beta-propeller
Superfamily Superfamily superfamily	b.69.9 — Tricorn protease domain 2
Family Family family	b.69.9.1 — Tricorn protease domain 2

Domain ID domain_id	d1n6ei4
Class class	c — Alpha and beta proteins (a/b)
Fold Fold fold	c.14 — ClpP/crotonase
Superfamily Superfamily superfamily	c.14.1 — ClpP/crotonase
Family Family family	c.14.1.2 — Tail specific protease, catalytic domain

Domain ID domain_id	d1n6ek1
Class class	b — All beta proteins
Fold Fold fold	b.36 — PDZ domain-like
Superfamily Superfamily superfamily	b.36.1 — PDZ domain-like
Family Family family	b.36.1.3 — Tail specific protease PDZ domain

Domain ID domain_id	d1n6ek2
Class class	b — All beta proteins
Fold Fold fold	b.68 — 6-bladed beta-propeller
Superfamily Superfamily superfamily	b.68.7 — Tricorn protease N-terminal domain
Family Family family	b.68.7.1 — Tricorn protease N-terminal domain

Domain ID domain_id	d1n6ek3
Class class	b — All beta proteins
Fold Fold fold	b.69 — 7-bladed beta-propeller
Superfamily Superfamily superfamily	b.69.9 — Tricorn protease domain 2
Family Family family	b.69.9.1 — Tricorn protease domain 2

Domain ID domain_id	d1n6ek4
Class class	c — Alpha and beta proteins (a/b)
Fold Fold fold	c.14 — ClpP/crotonase
Superfamily Superfamily superfamily	c.14.1 — ClpP/crotonase
Family Family family	c.14.1.2 — Tail specific protease, catalytic domain

CATH v4.4 (30 domains)

Domain ID domain_id	1n6eA01
Class class	2 — Mainly Beta
Architecture architecture	120 — 6 Propeller
Topology topology	10 — Neuraminidase
Homologous superfamily homologous superfamily	60 — Tricorn protease N-terminal domain

Domain ID domain_id	1n6eA02
Class class	2 — Mainly Beta
Architecture architecture	130 — 7 Propeller
Topology topology	10 — Methylamine Dehydrogenase; Chain H
Homologous superfamily homologous superfamily	10 — YVTN repeat-like/Quinoprotein amine dehydrogenase

Domain ID domain_id	1n6eA03
Class class	3 — Alpha Beta
Architecture architecture	30 — 2-Layer Sandwich
Topology topology	750 — Transcription Regulator spoIIAA
Homologous superfamily homologous superfamily	44 —

Domain ID domain_id	1n6eA04
Class class	2 — Mainly Beta
Architecture architecture	30 — Roll
Topology topology	42 — Pdz3 Domain
Homologous superfamily homologous superfamily	10 — PDZ domain

Domain ID domain_id	1n6eA05
Class class	3 — Alpha Beta
Architecture architecture	90 — Alpha-Beta Complex
Topology topology	226 — 2-enoyl-CoA Hydratase; Chain A, domain 1
Homologous superfamily homologous superfamily	10 — 2-enoyl-CoA Hydratase; Chain A, domain 1

Domain ID domain_id	1n6eC01
Class class	2 — Mainly Beta
Architecture architecture	120 — 6 Propeller
Topology topology	10 — Neuraminidase
Homologous superfamily homologous superfamily	60 — Tricorn protease N-terminal domain

Domain ID domain_id	1n6eC02
Class class	2 — Mainly Beta
Architecture architecture	130 — 7 Propeller
Topology topology	10 — Methylamine Dehydrogenase; Chain H
Homologous superfamily homologous superfamily	10 — YVTN repeat-like/Quinoprotein amine dehydrogenase

Domain ID domain_id	1n6eC03
Class class	3 — Alpha Beta
Architecture architecture	30 — 2-Layer Sandwich
Topology topology	750 — Transcription Regulator spoIIAA
Homologous superfamily homologous superfamily	44 —

Domain ID domain_id	1n6eC04
Class class	2 — Mainly Beta
Architecture architecture	30 — Roll
Topology topology	42 — Pdz3 Domain
Homologous superfamily homologous superfamily	10 — PDZ domain

Domain ID domain_id	1n6eC05
Class class	3 — Alpha Beta
Architecture architecture	90 — Alpha-Beta Complex
Topology topology	226 — 2-enoyl-CoA Hydratase; Chain A, domain 1
Homologous superfamily homologous superfamily	10 — 2-enoyl-CoA Hydratase; Chain A, domain 1

Domain ID domain_id	1n6eE01
Class class	2 — Mainly Beta
Architecture architecture	120 — 6 Propeller
Topology topology	10 — Neuraminidase
Homologous superfamily homologous superfamily	60 — Tricorn protease N-terminal domain

Domain ID domain_id	1n6eE02
Class class	2 — Mainly Beta
Architecture architecture	130 — 7 Propeller
Topology topology	10 — Methylamine Dehydrogenase; Chain H
Homologous superfamily homologous superfamily	10 — YVTN repeat-like/Quinoprotein amine dehydrogenase

Domain ID domain_id	1n6eE03
Class class	3 — Alpha Beta
Architecture architecture	30 — 2-Layer Sandwich
Topology topology	750 — Transcription Regulator spoIIAA
Homologous superfamily homologous superfamily	44 —

Domain ID domain_id	1n6eE04
Class class	2 — Mainly Beta
Architecture architecture	30 — Roll
Topology topology	42 — Pdz3 Domain
Homologous superfamily homologous superfamily	10 — PDZ domain

Domain ID domain_id	1n6eE05
Class class	3 — Alpha Beta
Architecture architecture	90 — Alpha-Beta Complex
Topology topology	226 — 2-enoyl-CoA Hydratase; Chain A, domain 1
Homologous superfamily homologous superfamily	10 — 2-enoyl-CoA Hydratase; Chain A, domain 1

Domain ID domain_id	1n6eG01
Class class	2 — Mainly Beta
Architecture architecture	120 — 6 Propeller
Topology topology	10 — Neuraminidase
Homologous superfamily homologous superfamily	60 — Tricorn protease N-terminal domain

Domain ID domain_id	1n6eG02
Class class	2 — Mainly Beta
Architecture architecture	130 — 7 Propeller
Topology topology	10 — Methylamine Dehydrogenase; Chain H
Homologous superfamily homologous superfamily	10 — YVTN repeat-like/Quinoprotein amine dehydrogenase

Domain ID domain_id	1n6eG03
Class class	3 — Alpha Beta
Architecture architecture	30 — 2-Layer Sandwich
Topology topology	750 — Transcription Regulator spoIIAA
Homologous superfamily homologous superfamily	44 —

Domain ID domain_id	1n6eG04
Class class	2 — Mainly Beta
Architecture architecture	30 — Roll
Topology topology	42 — Pdz3 Domain
Homologous superfamily homologous superfamily	10 — PDZ domain

Domain ID domain_id	1n6eG05
Class class	3 — Alpha Beta
Architecture architecture	90 — Alpha-Beta Complex
Topology topology	226 — 2-enoyl-CoA Hydratase; Chain A, domain 1
Homologous superfamily homologous superfamily	10 — 2-enoyl-CoA Hydratase; Chain A, domain 1

Domain ID domain_id	1n6eI01
Class class	2 — Mainly Beta
Architecture architecture	120 — 6 Propeller
Topology topology	10 — Neuraminidase
Homologous superfamily homologous superfamily	60 — Tricorn protease N-terminal domain

Domain ID domain_id	1n6eI02
Class class	2 — Mainly Beta
Architecture architecture	130 — 7 Propeller
Topology topology	10 — Methylamine Dehydrogenase; Chain H
Homologous superfamily homologous superfamily	10 — YVTN repeat-like/Quinoprotein amine dehydrogenase

Domain ID domain_id	1n6eI03
Class class	3 — Alpha Beta
Architecture architecture	30 — 2-Layer Sandwich
Topology topology	750 — Transcription Regulator spoIIAA
Homologous superfamily homologous superfamily	44 —

Domain ID domain_id	1n6eI04
Class class	2 — Mainly Beta
Architecture architecture	30 — Roll
Topology topology	42 — Pdz3 Domain
Homologous superfamily homologous superfamily	10 — PDZ domain

Domain ID domain_id	1n6eI05
Class class	3 — Alpha Beta
Architecture architecture	90 — Alpha-Beta Complex
Topology topology	226 — 2-enoyl-CoA Hydratase; Chain A, domain 1
Homologous superfamily homologous superfamily	10 — 2-enoyl-CoA Hydratase; Chain A, domain 1

Domain ID domain_id	1n6eK01
Class class	2 — Mainly Beta
Architecture architecture	120 — 6 Propeller
Topology topology	10 — Neuraminidase
Homologous superfamily homologous superfamily	60 — Tricorn protease N-terminal domain

Domain ID domain_id	1n6eK02
Class class	2 — Mainly Beta
Architecture architecture	130 — 7 Propeller
Topology topology	10 — Methylamine Dehydrogenase; Chain H
Homologous superfamily homologous superfamily	10 — YVTN repeat-like/Quinoprotein amine dehydrogenase

Domain ID domain_id	1n6eK03
Class class	3 — Alpha Beta
Architecture architecture	30 — 2-Layer Sandwich
Topology topology	750 — Transcription Regulator spoIIAA
Homologous superfamily homologous superfamily	44 —

Domain ID domain_id	1n6eK04
Class class	2 — Mainly Beta
Architecture architecture	30 — Roll
Topology topology	42 — Pdz3 Domain
Homologous superfamily homologous superfamily	10 — PDZ domain

Domain ID domain_id	1n6eK05
Class class	3 — Alpha Beta
Architecture architecture	90 — Alpha-Beta Complex
Topology topology	226 — 2-enoyl-CoA Hydratase; Chain A, domain 1
Homologous superfamily homologous superfamily	10 — 2-enoyl-CoA Hydratase; Chain A, domain 1

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Unit-cell length a length_a	95.470 Å
Unit-cell length b length_b	245.100 Å
Unit-cell length c length_c	157.890 Å
Unit-cell angle α angle_alpha	90.00 °
Unit-cell angle β angle_beta	105.19 °
Unit-cell angle γ angle_gamma	90.00 °
Molecules per unit cell Z z_pdb	12

Space group space_group	P 1 21 1
Space-group number int_tables_number	4
Crystal system crystal_system	—

Resolution resolution	2.600 Å
Low-resolution limit resolution_low	6.000 Å
R factor r_factor	0.2540
R_work r_work	0.2540
R_free r_free	0.2880

tricorn protease in complex with a tridecapeptide chloromethyl ketone derivative

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

Tricorn protease

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

1n6e__assembly_1__model_1

1n6e__assembly_1__model_1 | I(q)

1n6e__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 (3)

Entity 1 Entity 1 polymer

Polymer Polymer

Source Source

Entity 2 Entity 2 polymer

Polymer Polymer

Entity 3 Entity 3 water

6. Fold Classification (SCOP + CATH) 54 domains

SCOP 2.08 (24 domains)

CATH v4.4 (30 domains)

7. Citations (1)

tricorn protease in complex with a tridecapeptide chloromethyl ketone derivative

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

Tricorn protease

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

1n6e__assembly_1__model_1

1n6e__assembly_1__model_1 | I(q)

1n6e__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 (3)

Entity 1 Entity 1 polymer

Polymer Polymer

Source Source

Entity 2 Entity 2 polymer

Polymer Polymer

Entity 3 Entity 3 water

6. Fold Classification (SCOP + CATH) 54 domains

SCOP 2.08 (24 domains)

CATH v4.4 (30 domains)

7. Citations (1)