SAXSdb — 3e3j

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

DNA-directed RNA polymerase

Bacteriophage T7

State in the Current Structure

Assembly	Physical composition	Protein state	Molecular copy count	Associated components	Data consistency
1	Other combination	Monomer	Protein 1 DNA 2 RNA 1	DNA (28-MER) × 1 ;DNA (5'-D(DTPDAPDAPDTPDAPDCPDGPDAPDCPDTPDCPDAPDCPDTPDAPDTPDAPDTPDTPDTPDCPDTPDGPDCPDCPDAPDAPDAPDCPDGPDGPDC)-3') ; × 1 ;RNA (5'-R(GPGPGPAPGPUPAPA)-3') ; × 1	Consistent with all polymers
2	Other combination	Monomer	Protein 1 DNA 2 RNA 1	DNA (28-MER) × 1 ;DNA (5'-D(DTPDAPDAPDTPDAPDCPDGPDAPDCPDTPDCPDAPDCPDTPDAPDTPDAPDTPDTPDTPDCPDTPDGPDCPDCPDAPDAPDAPDCPDGPDGPDC)-3') ; × 1 ;RNA (5'-R(GPGPGPAPGPUPAPA)-3') ; × 1	Consistent with all polymers

Other States of the Same Protein in the Database

View Construct and Data Evidence

UniProt name	RPOL_BPT7
Isoform	—
PDB entities	1
Chains and sequence ranges	Author chain B； PDBConstruct 7–889； UniProt 1–883 Author chain C； PDBConstruct 7–889； UniProt 1–883

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	3e3j
Deposition date deposition_date	2008-08-07
Structure title title	Crystal Structure of an Intermediate Complex of T7 RNAP and 8nt of RNA
Keywords keywords	T7 RNA Polymerase, DNA-directed RNA Polymerase, Transcription, Nucleotidyltransferase, Transferase, Transferase-RNA-DNA COMPLEX; Transferase/RNA/DNA
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.

3e3j__assembly_1__model_1

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

Download this curve (.dat)

3e3j__assembly_1__model_1 | I(q)

100 plotted points; both axes use logarithmic scales.

3e3j__assembly_1__model_1 | P(r) · Pending

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

Rg（Guinier）	31.98 Å
Rg (electron density)	31.11 Å
Total Rg	31.88 Å
Atom count	7691
Residues	888
Excluded volume	133590 Å³
Maximum q	0.500 Å⁻¹

Assembly	Model	Structure unit	Oligomeric description	Status	CRYSOL	Actions
1	1	`3e3j__assembly_1__model_1`	tetrameric （4）	Success	4.1.3-1-20251215 (887e7ef)	View Download
2	1	`3e3j__assembly_2__model_1`	tetrameric （4）	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	DNA-directed RNA polymerase
Molecular weight formula_weight	99829.2 kDa
EC 编号 ec_number	2.7.7.6
Mutation mutation	P266L
Source method src_method	man
Copy count entity_count	2

Polymer Polymer

Polymer type type	polypeptide(L)
Chain IDs strand_id	C,B
Atom count atom_count	15406

HHHHHHMNTINIAKNDFSDIELAAIPFNTLADHYGERLAREQLALEHESYEMGEARFRKMFERQLKAGEVADNAAAKPLITTLLPKMIARINDWFEEVKAKRGKRPTAFQFLQEIKPEAVAYITIKTTLACLTSADNTTVQAVASAIGRAIEDEARFGRIRDLEAKHFKKNVEEQLNKRVGHVYKKAFMQVVEADMLSKGLLGGEAWSSWHKEDSIHVGVRCIEMLIESTGMVSLHRQNAGVVGQDSETIELAPEYAEAIATRAGALAGISLMFQPCVVPPKPWTGITGGGYWANGRRPLALVRTHSKKALMRYEDVYMPEVYKAINIAQNTAWKINKKVLAVANVITKWKHCPVEDIPAIEREELPMKPEDIDMNPEALTAWKRAAAAVYRKDKARKSRRISLEFMLEQANKFANHKAIWFPYNMDWRGRVYAVSMFNPQGNDMTKGLLTLAKGKPIGKEGYYWLKIHGANCAGVDKVPFPERIKFIEENHENIMACAKSPLENTWWAEQDSPFCFLAFCFEYAGVQHHGLSYNCSLPLAFDGSCSGIQHFSAMLRDEVGGRAVNLLPSETVQDIYGIVAKKVNEILQADAINGTDNEVVTVTDENTGEISEKVKLGTKALAGQWLAYGVTRSVTKRSVMTLAYGSKEFGFRQQVLEDTIQPAIDSGKGLMFTQPNQAAGYMAKLIWESVSVTVVAAVEAMNWLKSAAKLLAAEVKDKKTGEILRKRCAVHWVTPDGFPVWQEYKKPIQTRLNLMFLGQFRLQPTINTNKDSEIDAHKQESGIAPNFVHSQDGSHLRKTVVWAHEKYGIESFALIHDSFGTIPADAANLFKAVRETMVDTYESCDVLADFYDQFADQLHESQLDKMPALPAKGNLNLRDILESDFAFA

Source Source

Source organism organism	Bacteriophage T7
NCBI taxonomy ID ncbi_taxonomy_id	10760
Host organism host_organism	Escherichia coli

Entity 2 Entity 2 polymer

Description description	DNA (28-MER)
Molecular weight formula_weight	9788.3 kDa
Source method src_method	syn
Copy count entity_count	2

Polymer Polymer

Polymer type type	polydeoxyribonucleotide
Chain IDs strand_id	T,X

GCCGTTTTTACTCCCTATAGTGAGTCGTATTA

Entity 3 Entity 3 polymer

Description description	;DNA (5'-D(DTPDAPDAPDTPDAPDCPDGPDAPDCPDTPDCPDAPDCPDTPDAPDTPDAPDTPDTPDTPDCPDTPDGPDCPDCPDAPDAPDAPDCPDGPDGPDC)-3') ;
Molecular weight formula_weight	9744.3 kDa
Source method src_method	syn
Copy count entity_count	2

Polymer Polymer

Polymer type type	polydeoxyribonucleotide
Chain IDs strand_id	N,Y

TAATACGACTCACTATATTTCTGCCAAACGGC

Entity 4 Entity 4 polymer

Description description	;RNA (5'-R(GPGPGPAPGPUPAPA)-3') ;
Molecular weight formula_weight	2629.6 kDa
Source method src_method	syn
Copy count entity_count	2

Polymer Polymer

Polymer type type	polyribonucleotide
Chain IDs strand_id	R,Z

GGGAGUAA

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Unit-cell length a length_a	99.216 Å
Unit-cell length b length_b	180.602 Å
Unit-cell length c length_c	198.619 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	6.700 Å
Low-resolution limit resolution_low	49.810 Å
R factor r_factor	0.3949
R_work r_work	0.3922
R_free r_free	0.4542

Crystal Structure of an Intermediate Complex of T7 RNAP and 8nt of RNA

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

DNA-directed RNA polymerase

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

3e3j__assembly_1__model_1

3e3j__assembly_1__model_1 | I(q)

3e3j__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 (4)

Entity 1 Entity 1 polymer

Polymer Polymer

Source Source

Entity 2 Entity 2 polymer

Polymer Polymer

Entity 3 Entity 3 polymer

Polymer Polymer

Entity 4 Entity 4 polymer

Polymer Polymer

7. Citations (1)

Crystal Structure of an Intermediate Complex of T7 RNAP and 8nt of RNA

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

DNA-directed RNA polymerase

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

3e3j__assembly_1__model_1

3e3j__assembly_1__model_1 | I(q)

3e3j__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 (4)

Entity 1 Entity 1 polymer

Polymer Polymer

Source Source

Entity 2 Entity 2 polymer

Polymer Polymer

Entity 3 Entity 3 polymer

Polymer Polymer

Entity 4 Entity 4 polymer

Polymer Polymer

7. Citations (1)