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233,605 Structures from the PDB

1,068,577 Computed Structure Models (CSM)

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QUERY: Source Organism Taxonomy Name (Full Lineage) = "Escherichia coli str. K-12 substr. MC4100"

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Search Summary

This query matches 44 Structures.

Refinements

Structure Determination Methodology

experimental (44)

Scientific Name of Source Organism

	Escherichia coli str. K-12 substr. MC4100 (44)
	Thermus thermophilus HB8 (8)
	synthetic construct (7)
	Escherichia coli K-12 (2)
	Escherichia coli (1)
	Escherichia coli str. K-12 substr. MG1655 (1)
	Proteus vulgaris (1)
	Staphylococcus aureus (1)
	Streptomyces sp. (1)

Taxonomy

	Bacteria (44)
	other sequences (7)

Experimental Method

	X-RAY DIFFRACTION (35)
	SOLUTION NMR (5)
	ELECTRON MICROSCOPY (4)

Polymer Entity Type

	Protein (44)
	RNA (8)

Refinement Resolution (Å)

	0.5 - 1.0 (2)
	1.0 - 1.5 (7)
	1.5 - 2.0 (6)
	2.0 - 2.5 (7)
	2.5 - 3.0 (8)
	3.0 - 3.5 (5)
	3.5 - 4.0 (4)

Release Date

	2010 - 2014 (25)
	2015 - 2019 (15)
	2020 - 2024 (4)

Enzyme Classification Name

	Translocases (4)
	Oxidoreductases (12)
	Transferases (6)
	Hydrolases (5)
	Isomerases (4)
	Ligases (1)

Membrane Protein Annotation

	MemProtMD (7)
	PDBTM (7)
	OPM (6)
	mpstruc (5)

Symmetry Type

	Asymmetric (32)
	Cyclic (14)

SCOP Classification

	Alpha and beta proteins (a+b) (9)
	Multi-domain proteins (alpha and beta) (4)
	Alpha and beta proteins (a/b) (8)
	Membrane and cell surface proteins and peptides (5)
	All alpha proteins (3)
	All beta proteins (1)
	Peptides (1)

AllSelected

1 to 25 of 44 Structures

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2MLX \| pdb_00002mlx	Download File View File

NMR structure of E. coli Trigger Factor in complex with unfolded PhoA220-310

Saio, T., Guan, X., Rossi, P., Economou, A., Kalodimos, C.G.

(2014) Science 344: 1250494-1250494

Released	2014-05-21
Method	SOLUTION NMR
Organisms	Escherichia coli str. K-12 substr. MC4100
Macromolecule	Alkaline phosphatase (protein) Trigger factor (protein)

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2MLY \| pdb_00002mly	Download File View File

NMR structure of E. coli Trigger Factor in complex with unfolded PhoA1-150

Saio, T., Guan, X., Rossi, P., Economou, A., Kalodimos, C.G.

(2014) Science 344: 1250494-1250494

Released	2014-05-21
Method	SOLUTION NMR
Organisms	Escherichia coli str. K-12 substr. MC4100
Macromolecule	Alkaline phosphatase (protein) Trigger factor (protein)

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2MLZ \| pdb_00002mlz	Download File View File

NMR structure of E. coli Trigger Factor in complex with unfolded PhoA365-471

Saio, T., Guan, X., Rossi, P., Economou, A., Kalodimos, C.G.

(2014) Science 344: 1250494-1250494

Released	2014-05-21
Method	SOLUTION NMR
Organisms	Escherichia coli K-12 Escherichia coli str. K-12 substr. MC4100
Macromolecule	Alkaline phosphatase (protein) Trigger factor (protein)

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2MNH \| pdb_00002mnh	Download File View File

Refined structure of outer membrane protein x in nanodisc by measuring residual dipolar couplings

Bibow, S., Carneiro, M.G., Sabo, T.M., Schwiegk, C., Becker, S., Riek, R., Lee, D.

(2014) Protein Sci 23: 851-856

Released	2015-03-18
Method	SOLUTION NMR
Organisms	Escherichia coli str. K-12 substr. MC4100
Macromolecule	Outer membrane protein X (protein)

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2MOK \| pdb_00002mok	Download File View File

holo_FldA

Jin, C., Hu, Y., Ye, Q.

To be published

Released	2015-05-20
Method	SOLUTION NMR
Organisms	Escherichia coli str. K-12 substr. MC4100
Macromolecule	Flavodoxin (protein)
Unique Ligands	FMN

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4CU4 \| pdb_00004cu4	Download File View File

FhuA from E. coli in complex with the lasso peptide microcin J25 (MccJ25)

Mathavan, I., Rebuffat, S., Beis, K.

(2014) Nat Chem Biol 10: 340

Released	2014-04-09
Method	X-RAY DIFFRACTION 2.3 Å
Organisms	Escherichia coli str. K-12 substr. MC4100 Escherichia coli str. K-12 substr. MG1655
Macromolecule	FERRICHROME-IRON RECEPTOR (protein) MICROCIN J25 (protein)
Unique Ligands	3PH, DAO, DPO, FTT, LDA, MYR, PO4
Unique branched monosaccharides	GCS, GMH, KDO, PA1

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4OUD \| pdb_00004oud	Download File View File

Engineered tyrosyl-tRNA synthetase with the nonstandard amino acid L-4,4-biphenylalanine

Takeuchi, R., Mandell, D.J., Lajoie, M.J., Church, G.M., Stoddard, B.L.

(2015) Nature 518: 55-60

Released	2015-01-28
Method	X-RAY DIFFRACTION 2.65 Å
Organisms	Escherichia coli str. K-12 substr. MC4100
Macromolecule	Tyrosyl-tRNA synthetase (protein)
Unique Ligands	TYR

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4OVF \| pdb_00004ovf	Download File View File

E. coli sliding clamp in complex with (R)-6-chloro-2,3,4,9-tetrahydro-1H-carbazole-2-carboxylic acid

Yin, Z., Oakley, A.J.

(2015) J Med Chem 58: 4693-4702

Released	2014-03-05
Method	X-RAY DIFFRACTION 2.05 Å
Organisms	Escherichia coli str. K-12 substr. MC4100
Macromolecule	DNA polymerase III subunit beta (protein)
Unique Ligands	2VG, CA, CL, PEG, PG4, PGE

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4OVG \| pdb_00004ovg	Download File View File

E. coli sliding clamp in complex with (R)-9-(2-amino-2-oxoethyl)-6-chloro-2,3,4,9-tetrahydro-1H-carbazole-2-carboxylic acid

Yin, Z., Oakley, A.J.

(2015) J Med Chem 58: 4693-4702

Released	2014-03-05
Method	X-RAY DIFFRACTION 1.9 Å
Organisms	Escherichia coli str. K-12 substr. MC4100
Macromolecule	DNA polymerase III subunit beta (protein)
Unique Ligands	2VF, CA, CL, EDO, PEG, PG4, PGE

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4OVH \| pdb_00004ovh	Download File View File

E. coli sliding clamp in complex with (R)-6-bromo-9-(2-(carboxymethylamino)-2-oxoethyl)-2,3,4,9-tetrahydro-1H-carbazole-2-carboxylic acid

Yin, Z., Oakley, A.J.

(2015) J Med Chem 58: 4693-4702

Released	2014-03-05
Method	X-RAY DIFFRACTION 2.25 Å
Organisms	Escherichia coli str. K-12 substr. MC4100
Macromolecule	DNA polymerase III subunit beta (protein)
Unique Ligands	2VE, CA, CL, PEG, PG4

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4PNU \| pdb_00004pnu	Download File View File

E. coli sliding clamp in complex with (R)-6-bromo-9-(2-((R)-1-carboxy-2-phenylethylamino)-2-oxoethyl)-2,3,4,9-tetrahydro-1H-carbazole-2-carboxylic acid

Yin, Z., Oakley, A.J.

(2015) J Med Chem 58: 4693-4702

Released	2014-03-05
Method	X-RAY DIFFRACTION 1.9 Å
Organisms	Escherichia coli str. K-12 substr. MC4100
Macromolecule	DNA polymerase III subunit beta (protein)
Unique Ligands	2VD, CA, CL, PEG

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4PNV \| pdb_00004pnv	Download File View File

E. coli sliding clamp apo-crystal in P21 space group with larger cell dimensions

Yin, Z., Oakley, A.J.

(2015) J Med Chem 58: 4693-4702

Released	2014-03-05
Method	X-RAY DIFFRACTION 1.86 Å
Organisms	Escherichia coli str. K-12 substr. MC4100
Macromolecule	DNA polymerase III subunit beta (protein)
Unique Ligands	CA, CL, PEG

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4PNW \| pdb_00004pnw	Download File View File

E. coli sliding clamp in complex with (R)-6-bromo-9-(2-((S)-1-carboxy-2-phenylethylamino)-2-oxoethyl)-2,3,4,9-tetrahydro-1H-carbazole-2-carboxylic acid

Yin, Z., Oakley, A.J.

(2015) J Med Chem 58: 4693-4702

Released	2014-03-05
Method	X-RAY DIFFRACTION 2 Å
Organisms	Escherichia coli str. K-12 substr. MC4100
Macromolecule	DNA polymerase III subunit beta (protein)
Unique Ligands	2VM, CA, CL, PEG

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4PQK \| pdb_00004pqk	Download File View File

C-Terminal domain of DNA binding protein

Schumacher, M.A., Chinnam, N., Tonthat, N.K.

(2014) Proc Natl Acad Sci U S A 111: 9121-9126

Released	2014-06-18
Method	X-RAY DIFFRACTION 3.401 Å
Organisms	Escherichia coli str. K-12 substr. MC4100 Staphylococcus aureus
Macromolecule	Maltose ABC transporter periplasmic protein, Truncated replication protein RepA (protein)
Unique branched monosaccharides	GLC

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4PSS \| pdb_00004pss	Download File View File

Multiconformer model for Escherichia coli dihydrofolate reductase at 100K

Keedy, D.A., van den Bedem, H., Sivak, D.A., Petsko, G.A., Ringe, D., Wilson, M.A., Fraser, J.S.

(2014) Structure 22: 899-910

Released	2014-06-04
Method	X-RAY DIFFRACTION 0.849 Å
Organisms	Escherichia coli str. K-12 substr. MC4100
Macromolecule	Dihydrofolate reductase (protein)
Unique Ligands	FOL, MN, NAP

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4PST \| pdb_00004pst	Download File View File

Multiconformer model for Escherichia coli dihydrofolate reductase at 277 K

Keedy, D.A., van den Bedem, H., Sivak, D.A., Petsko, G.A., Ringe, D., Wilson, M.A., Fraser, J.S.

(2014) Structure 22: 899-910

Released	2014-06-04
Method	X-RAY DIFFRACTION 1.05 Å
Organisms	Escherichia coli str. K-12 substr. MC4100
Macromolecule	Dihydrofolate reductase (protein)
Unique Ligands	FOL, MN, NAP

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4PSY \| pdb_00004psy	Download File View File

100K crystal structure of Escherichia coli dihydrofolate reductase

Wilson, M.A., Wan, Q., Bennet, B.C., Dealwis, C., Ringe, D., Petsko, G.A.

(2014) Proc Natl Acad Sci U S A 22: 899-910

Released	2014-05-14
Method	X-RAY DIFFRACTION 0.85 Å
Organisms	Escherichia coli str. K-12 substr. MC4100
Macromolecule	Dihydrofolate reductase (protein)
Unique Ligands	FOL, MN, NAP

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4QLE \| pdb_00004qle	Download File View File

Crystal structure of I14A DHFR mutant complexed with folate and NADP+

Stojkovic, V., Gakhar, L., Kohen, A.

(2015) J Phys Chem B 119: 906-916

Released	2014-11-26
Method	X-RAY DIFFRACTION 1.35 Å
Organisms	Escherichia coli str. K-12 substr. MC4100
Macromolecule	Dihydrofolate reductase (protein)
Unique Ligands	FOL, NAP

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4QLF \| pdb_00004qlf	Download File View File

Crystal structure of I14G DHFR mutant complexed with folate and NADP+

Stojkovic, V., Gakhar, L., Kohen, A.

(2015) J Phys Chem B 119: 906-916

Released	2014-11-26
Method	X-RAY DIFFRACTION 1.44 Å
Organisms	Escherichia coli str. K-12 substr. MC4100
Macromolecule	Dihydrofolate reductase (protein)
Unique Ligands	FOL, NAP

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4QLG \| pdb_00004qlg	Download File View File

Crystal structure of I14V DHFR mutant complexed with folate and NADP+

Stojkovic, V., Gakhar, L., Kohen, A.

(2015) J Phys Chem B 119: 906-916

Released	2014-11-26
Method	X-RAY DIFFRACTION 1.5 Å
Organisms	Escherichia coli str. K-12 substr. MC4100
Macromolecule	Dihydrofolate reductase (protein)
Unique Ligands	FOL, NAP

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4QNZ \| pdb_00004qnz	Download File View File

Crystal structure of rhomboid intramembrane protease GlpG F146I in complex with peptide derived inhibitor Ac-FATA-cmk

Zoll, S., Strisovsky, K.

(2014) EMBO J 33: 2408-2421

Released	2014-09-24
Method	X-RAY DIFFRACTION 2.55 Å
Organisms	Escherichia coli str. K-12 substr. MC4100
Macromolecule	ACE-PHE-ALA-THR-ALA-0QE (protein) Rhomboid protease GlpG (protein)
Unique Ligands	BNG, CL

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4QO0 \| pdb_00004qo0	Download File View File

Crystal structure of rhomboid intramembrane protease GlpG in complex with peptide derived inhibitor Ac-FATA-cmk

Zoll, S., Strisovsky, K.

(2014) EMBO J 33: 2408-2421

Released	2014-09-24
Method	X-RAY DIFFRACTION 2.9 Å
Organisms	Escherichia coli str. K-12 substr. MC4100
Macromolecule	ACE-PHE-ALA-THR-ALA-0QE (protein) Rhomboid protease GlpG (protein)
Unique Ligands	BNG, CL

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4QO2 \| pdb_00004qo2	Download File View File

Crystal structure of rhomboid intramembrane protease GlpG in complex with peptide derived inhibitor Ac-IATA-cmk

Zoll, S., Strisovsky, K.

(2014) EMBO J 33: 2408-2421

Released	2014-09-24
Method	X-RAY DIFFRACTION 2.1 Å
Organisms	Escherichia coli str. K-12 substr. MC4100
Macromolecule	6-AMINO-2-METHYL-1,7-DIHYDRO-8H-IMIDAZO[4,5-G]QUINAZOLIN-8-ONE (protein) Rhomboid protease GlpG (protein)
Unique Ligands	BNG, CL

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4RGC \| pdb_00004rgc	Download File View File

277K Crystal structure of Escherichia Coli dihydrofolate reductase

Wilson, M.A., Wan, Q., Bennett, B.C., Dealwis, C.

(2014) Proc Natl Acad Sci U S A 111: 18225-18230

Released	2014-10-15
Method	X-RAY DIFFRACTION 1.05 Å
Organisms	Escherichia coli str. K-12 substr. MC4100
Macromolecule	Dihydrofolate reductase (protein)
Unique Ligands	FOL, MN, NAP

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4TMA \| pdb_00004tma	Download File View File

Crystal structure of gyrase bound to its inhibitor YacG

Vos, S.M., Lyubimov, A.Y., Hershey, D.M., Schoeffler, A.J., Berger, J.M.

(2014) Genes Dev 28: 1485-1497

Released	2014-07-23
Method	X-RAY DIFFRACTION 3.3 Å
Organisms	Escherichia coli K-12 Escherichia coli str. K-12 substr. MC4100
Macromolecule	DNA gyrase inhibitor YacG (protein) DNA gyrase subunit A (protein) DNA gyrase subunit B (protein)
Unique Ligands	ZN

1 to 25 of 44 Structures

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Structure Determination Methodology

Scientific Name of Source Organism

Taxonomy

Experimental Method

Polymer Entity Type

Refinement Resolution (Å)

Release Date

Enzyme Classification Name

Membrane Protein Annotation

Symmetry Type

SCOP Classification

2MLX | pdb_00002mlx

2MLY | pdb_00002mly

2MLZ | pdb_00002mlz

2MNH | pdb_00002mnh

2MOK | pdb_00002mok

4CU4 | pdb_00004cu4

4OUD | pdb_00004oud

4OVF | pdb_00004ovf

4OVG | pdb_00004ovg

4OVH | pdb_00004ovh

4PNU | pdb_00004pnu

4PNV | pdb_00004pnv

4PNW | pdb_00004pnw

4PQK | pdb_00004pqk

4PSS | pdb_00004pss

4PST | pdb_00004pst

4PSY | pdb_00004psy

4QLE | pdb_00004qle

4QLF | pdb_00004qlf

4QLG | pdb_00004qlg

4QNZ | pdb_00004qnz

4QO0 | pdb_00004qo0

4QO2 | pdb_00004qo2

4RGC | pdb_00004rgc

4TMA | pdb_00004tma