SAXSdb — 5mq3

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

6,7-dimethyl-8-ribityllumazine synthase

Aquifex aeolicus

State in the Current Structure

Assembly	Physical composition	Protein state	Molecular copy count	Associated components	Data consistency
1	Protein homooligomer	Homooligomer	Protein 180	No other associated polymer	Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence

UniProt name	RISB_AQUAE
Isoform	—
PDB entities	1
Chains and sequence ranges	Author chain AA； PDBConstruct 1–154； UniProt 1–154 Author chain AB； PDBConstruct 1–154； UniProt 1–154 Author chain AC； PDBConstruct 1–154； UniProt 1–154 Author chain AD； PDBConstruct 1–154； UniProt 1–154 Author chain AE； PDBConstruct 1–154； UniProt 1–154 Author chain AF； PDBConstruct 1–154； UniProt 1–154 Author chain AG； PDBConstruct 1–154； UniProt 1–154 Author chain AH； PDBConstruct 1–154； UniProt 1–154 Author chain AI； PDBConstruct 1–154； UniProt 1–154 Author chain AJ； PDBConstruct 1–154； UniProt 1–154 Author chain AK； PDBConstruct 1–154； UniProt 1–154 Author chain AL； PDBConstruct 1–154； UniProt 1–154 Author chain AM； PDBConstruct 1–154； UniProt 1–154 Author chain AN； PDBConstruct 1–154； UniProt 1–154 Author chain AO； PDBConstruct 1–154； UniProt 1–154 Author chain BA； PDBConstruct 1–154； UniProt 1–154 Author chain BB； PDBConstruct 1–154； UniProt 1–154 Author chain BC； PDBConstruct 1–154； UniProt 1–154 Author chain BD； PDBConstruct 1–154； UniProt 1–154 Author chain BE； PDBConstruct 1–154； UniProt 1–154 Author chain BF； PDBConstruct 1–154； UniProt 1–154 Author chain BG； PDBConstruct 1–154； UniProt 1–154 Author chain BH； PDBConstruct 1–154； UniProt 1–154 Author chain BI； PDBConstruct 1–154； UniProt 1–154 Author chain BJ； PDBConstruct 1–154； UniProt 1–154 Author chain BK； PDBConstruct 1–154； UniProt 1–154 Author chain BL； PDBConstruct 1–154； UniProt 1–154 Author chain BM； PDBConstruct 1–154； UniProt 1–154 Author chain BN； PDBConstruct 1–154； UniProt 1–154 Author chain BO； PDBConstruct 1–154； UniProt 1–154 Author chain CA； PDBConstruct 1–154； UniProt 1–154 Author chain CB； PDBConstruct 1–154； UniProt 1–154 Author chain CC； PDBConstruct 1–154； UniProt 1–154 Author chain CD； PDBConstruct 1–154； UniProt 1–154 Author chain CE； PDBConstruct 1–154； UniProt 1–154 Author chain CF； PDBConstruct 1–154； UniProt 1–154 Author chain CG； PDBConstruct 1–154； UniProt 1–154 Author chain CH； PDBConstruct 1–154； UniProt 1–154 Author chain CI； PDBConstruct 1–154； UniProt 1–154 Author chain CJ； PDBConstruct 1–154； UniProt 1–154 Author chain CK； PDBConstruct 1–154； UniProt 1–154 Author chain CL； PDBConstruct 1–154； UniProt 1–154 Author chain CM； PDBConstruct 1–154； UniProt 1–154 Author chain CN； PDBConstruct 1–154； UniProt 1–154 Author chain CO； PDBConstruct 1–154； UniProt 1–154 Author chain DA； PDBConstruct 1–154； UniProt 1–154 Author chain DB； PDBConstruct 1–154； UniProt 1–154 Author chain DC； PDBConstruct 1–154； UniProt 1–154 Author chain DD； PDBConstruct 1–154； UniProt 1–154 Author chain DE； PDBConstruct 1–154； UniProt 1–154 Author chain DF； PDBConstruct 1–154； UniProt 1–154 Author chain DG； PDBConstruct 1–154； UniProt 1–154 Author chain DH； PDBConstruct 1–154； UniProt 1–154 Author chain DI； PDBConstruct 1–154； UniProt 1–154 Author chain DJ； PDBConstruct 1–154； UniProt 1–154 Author chain DK； PDBConstruct 1–154； UniProt 1–154 Author chain DL； PDBConstruct 1–154； UniProt 1–154 Author chain DM； PDBConstruct 1–154； UniProt 1–154 Author chain DN； PDBConstruct 1–154； UniProt 1–154 Author chain DO； PDBConstruct 1–154； UniProt 1–154 Author chain EA； PDBConstruct 1–154； UniProt 1–154 Author chain EB； PDBConstruct 1–154； UniProt 1–154 Author chain EC； PDBConstruct 1–154； UniProt 1–154 Author chain ED； PDBConstruct 1–154； UniProt 1–154 Author chain EE； PDBConstruct 1–154； UniProt 1–154 Author chain EF； PDBConstruct 1–154； UniProt 1–154 Author chain EG； PDBConstruct 1–154； UniProt 1–154 Author chain EH； PDBConstruct 1–154； UniProt 1–154 Author chain EI； PDBConstruct 1–154； UniProt 1–154 Author chain EJ； PDBConstruct 1–154； UniProt 1–154 Author chain EK； PDBConstruct 1–154； UniProt 1–154 Author chain EL； PDBConstruct 1–154； UniProt 1–154 Author chain EM； PDBConstruct 1–154； UniProt 1–154 Author chain EN； PDBConstruct 1–154； UniProt 1–154 Author chain EO； PDBConstruct 1–154； UniProt 1–154 Author chain FA； PDBConstruct 1–154； UniProt 1–154 Author chain FB； PDBConstruct 1–154； UniProt 1–154 Author chain FC； PDBConstruct 1–154； UniProt 1–154 Author chain FD； PDBConstruct 1–154； UniProt 1–154 Author chain FE； PDBConstruct 1–154； UniProt 1–154 Author chain FF； PDBConstruct 1–154； UniProt 1–154 Author chain FG； PDBConstruct 1–154； UniProt 1–154 Author chain FH； PDBConstruct 1–154； UniProt 1–154 Author chain FI； PDBConstruct 1–154； UniProt 1–154 Author chain FJ； PDBConstruct 1–154； UniProt 1–154 Author chain FK； PDBConstruct 1–154； UniProt 1–154 Author chain FL； PDBConstruct 1–154； UniProt 1–154 Author chain FM； PDBConstruct 1–154； UniProt 1–154 Author chain FN； PDBConstruct 1–154； UniProt 1–154 Author chain FO； PDBConstruct 1–154； UniProt 1–154 Author chain GA； PDBConstruct 1–154； UniProt 1–154 Author chain GB； PDBConstruct 1–154； UniProt 1–154 Author chain GC； PDBConstruct 1–154； UniProt 1–154 Author chain GD； PDBConstruct 1–154； UniProt 1–154 Author chain GE； PDBConstruct 1–154； UniProt 1–154 Author chain GF； PDBConstruct 1–154； UniProt 1–154 Author chain GG； PDBConstruct 1–154； UniProt 1–154 Author chain GH； PDBConstruct 1–154； UniProt 1–154 Author chain GI； PDBConstruct 1–154； UniProt 1–154 Author chain GJ； PDBConstruct 1–154； UniProt 1–154 Author chain GK； PDBConstruct 1–154； UniProt 1–154 Author chain GL； PDBConstruct 1–154； UniProt 1–154 Author chain GM； PDBConstruct 1–154； UniProt 1–154 Author chain GN； PDBConstruct 1–154； UniProt 1–154 Author chain GO； PDBConstruct 1–154； UniProt 1–154 Author chain HA； PDBConstruct 1–154； UniProt 1–154 Author chain HB； PDBConstruct 1–154； UniProt 1–154 Author chain HC； PDBConstruct 1–154； UniProt 1–154 Author chain HD； PDBConstruct 1–154； UniProt 1–154 Author chain HE； PDBConstruct 1–154； UniProt 1–154 Author chain HF； PDBConstruct 1–154； UniProt 1–154 Author chain HG； PDBConstruct 1–154； UniProt 1–154 Author chain HH； PDBConstruct 1–154； UniProt 1–154 Author chain HI； PDBConstruct 1–154； UniProt 1–154 Author chain HJ； PDBConstruct 1–154； UniProt 1–154 Author chain HK； PDBConstruct 1–154； UniProt 1–154 Author chain HL； PDBConstruct 1–154； UniProt 1–154 Author chain HM； PDBConstruct 1–154； UniProt 1–154 Author chain HN； PDBConstruct 1–154； UniProt 1–154 Author chain HO； PDBConstruct 1–154； UniProt 1–154 Author chain IA； PDBConstruct 1–154； UniProt 1–154 Author chain IB； PDBConstruct 1–154； UniProt 1–154 Author chain IC； PDBConstruct 1–154； UniProt 1–154 Author chain ID； PDBConstruct 1–154； UniProt 1–154 Author chain IE； PDBConstruct 1–154； UniProt 1–154 Author chain IF； PDBConstruct 1–154； UniProt 1–154 Author chain IG； PDBConstruct 1–154； UniProt 1–154 Author chain IH； PDBConstruct 1–154； UniProt 1–154 Author chain II； PDBConstruct 1–154； UniProt 1–154 Author chain IJ； PDBConstruct 1–154； UniProt 1–154 Author chain IK； PDBConstruct 1–154； UniProt 1–154 Author chain IL； PDBConstruct 1–154； UniProt 1–154 Author chain IM； PDBConstruct 1–154； UniProt 1–154 Author chain IN； PDBConstruct 1–154； UniProt 1–154 Author chain IO； PDBConstruct 1–154； UniProt 1–154 Author chain JA； PDBConstruct 1–154； UniProt 1–154 Author chain JB； PDBConstruct 1–154； UniProt 1–154 Author chain JC； PDBConstruct 1–154； UniProt 1–154 Author chain JD； PDBConstruct 1–154； UniProt 1–154 Author chain JE； PDBConstruct 1–154； UniProt 1–154 Author chain JF； PDBConstruct 1–154； UniProt 1–154 Author chain JG； PDBConstruct 1–154； UniProt 1–154 Author chain JH； PDBConstruct 1–154； UniProt 1–154 Author chain JI； PDBConstruct 1–154； UniProt 1–154 Author chain JJ； PDBConstruct 1–154； UniProt 1–154 Author chain JK； PDBConstruct 1–154； UniProt 1–154 Author chain JL； PDBConstruct 1–154； UniProt 1–154 Author chain JM； PDBConstruct 1–154； UniProt 1–154 Author chain JN； PDBConstruct 1–154； UniProt 1–154 Author chain JO； PDBConstruct 1–154； UniProt 1–154 Author chain KA； PDBConstruct 1–154； UniProt 1–154 Author chain KB； PDBConstruct 1–154； UniProt 1–154 Author chain KC； PDBConstruct 1–154； UniProt 1–154 Author chain KD； PDBConstruct 1–154； UniProt 1–154 Author chain KE； PDBConstruct 1–154； UniProt 1–154 Author chain KF； PDBConstruct 1–154； UniProt 1–154 Author chain KG； PDBConstruct 1–154； UniProt 1–154 Author chain KH； PDBConstruct 1–154； UniProt 1–154 Author chain KI； PDBConstruct 1–154； UniProt 1–154 Author chain KJ； PDBConstruct 1–154； UniProt 1–154 Author chain KK； PDBConstruct 1–154； UniProt 1–154 Author chain KL； PDBConstruct 1–154； UniProt 1–154 Author chain KM； PDBConstruct 1–154； UniProt 1–154 Author chain KN； PDBConstruct 1–154； UniProt 1–154 Author chain KO； PDBConstruct 1–154； UniProt 1–154 Author chain LA； PDBConstruct 1–154； UniProt 1–154 Author chain LB； PDBConstruct 1–154； UniProt 1–154 Author chain LC； PDBConstruct 1–154； UniProt 1–154 Author chain LD； PDBConstruct 1–154； UniProt 1–154 Author chain LE； PDBConstruct 1–154； UniProt 1–154 Author chain LF； PDBConstruct 1–154； UniProt 1–154 Author chain LG； PDBConstruct 1–154； UniProt 1–154 Author chain LH； PDBConstruct 1–154； UniProt 1–154 Author chain LI； PDBConstruct 1–154； UniProt 1–154 Author chain LJ； PDBConstruct 1–154； UniProt 1–154 Author chain LK； PDBConstruct 1–154； UniProt 1–154 Author chain LL； PDBConstruct 1–154； UniProt 1–154 Author chain LM； PDBConstruct 1–154； UniProt 1–154 Author chain LN； PDBConstruct 1–154； UniProt 1–154 Author chain LO； PDBConstruct 1–154； UniProt 1–154

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	5mq3
Deposition date deposition_date	2016-12-20
Structure title title	Structure of AaLS-neg
Keywords keywords	cryo-EM, porous protein cage, tetrahedral symmetry, engineered lumazine synthase, TRANSFERASE; TRANSFERASE
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.

5mq3__assembly_1__model_1

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

Download this curve (.dat)

5mq3__assembly_1__model_1 | I(q)

100 plotted points; both axes use logarithmic scales.

5mq3__assembly_1__model_1 | P(r) · Pending

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

Rg（Guinier）	0.00 Å
Rg (electron density)	124.80 Å
Total Rg	124.80 Å
Atom count	143640
Residues	28980
Excluded volume	2331800 Å³
Maximum q	0.500 Å⁻¹

Assembly	Model	Structure unit	Oligomeric description	Status	CRYSOL	Actions
1	1	`5mq3__assembly_1__model_1`	180-meric （180）	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 (1)

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Unit-cell length a length_a	1.000 Å
Unit-cell length b length_b	1.000 Å
Unit-cell length c length_c	1.000 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	—

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

Resolution resolution	5.40 Å
Resolution测定Method resolution_method	—
颗粒数 num_particles	26769

Description description	6,7-dimethyl-8-ribityllumazine synthase
Molecular weight formula_weight	17690.1 kDa
EC 编号 ec_number	2.5.1.78
Source method src_method	man
Copy count entity_count	180

Polymer type type	polypeptide(L)
Chain IDs strand_id	;AA,AB,AC,AD,AE,AF,AG,AH,AI,AJ,AK,AL,AM,AN,AO,BA,BB,BC,BD,BE,BF,BG,BH,BI,BJ,BK,BL,BM,BN,BO,CA,CB,CC,CD,CE,CF,CG,CH,CI,CJ,CK,CL,CM,CN,CO,DA,DB,DC,DD,DE,DF,DG,DH,DI,DJ,DK,DL,DM,DN,DO,EA,EB,EC,ED,EE,EF,EG,EH,EI,EJ,EK,EL,EM,EN,EO,FA,FB,FC,FD,FE,FF,FG,FH,FI,FJ,FK,FL,FM,FN,FO,GA,GB,GC,GD,GE,GF,GG,GH,GI,GJ,GK,GL,GM,GN,GO,HA,HB,HC,HD,HE,HF,HG,HH,HI,HJ,HK,HL,HM,HN,HO,IA,IB,IC,ID,IE,IF,IG,IH,II,IJ,IK,IL,IM,IN,IO,JA,JB,JC,JD,JE,JF,JG,JH,JI,JJ,JK,JL,JM,JN,JO,KA,KB,KC,KD,KE,KF,KG,KH,KI,KJ,KK,KL,KM,KN,KO,LA,LB,LC,LD,LE,LF,LG,LH,LI,LJ,LK,LL,LM,LN,LO ;
Atom count atom_count	143640

Structure of AaLS-neg

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

6,7-dimethyl-8-ribityllumazine synthase

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

5mq3__assembly_1__model_1

5mq3__assembly_1__model_1 | I(q)

5mq3__assembly_1__model_1 | P(r) · Pending

4. Crystallography and Experiment 4. Crystallography & Experiment

Unit cell Unit Cell

Symmetry Symmetry

冷冻电镜 EM 3D

5. Entities and Polymers Entities & Polymers (1)

Entity 1 Entity 1 polymer

Polymer Polymer

Source Source

7. Citations (1)

Source organism organism	Aquifex aeolicus
NCBI taxonomy ID ncbi_taxonomy_id	63363
Host organism host_organism	Escherichia coli

Structure of AaLS-neg

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

6,7-dimethyl-8-ribityllumazine synthase

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

5mq3__assembly_1__model_1

5mq3__assembly_1__model_1 | I(q)

5mq3__assembly_1__model_1 | P(r) · Pending

4. Crystallography and Experiment 4. Crystallography & Experiment

Unit cell Unit Cell

Symmetry Symmetry

冷冻电镜 EM 3D

5. Entities and Polymers Entities & Polymers (1)

Entity 1 Entity 1 polymer

Polymer Polymer

Source Source

7. Citations (1)