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234,136 Structures from the PDB

1,068,577 Computed Structure Models (CSM)

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QUERY: Source Organism Taxonomy Name (Full Lineage) = "Flavobacterium sp."

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Search Summary

This query matches 15 Structures.

Refinements

Structure Determination Methodology

experimental (15)

Scientific Name of Source Organism

Flavobacterium sp. (15)

Taxonomy

Bacteria (15)

Experimental Method

X-RAY DIFFRACTION (15)

Polymer Entity Type

Protein (15)

Refinement Resolution (Å)

	1.0 - 1.5 (1)
	1.5 - 2.0 (12)
	2.0 - 2.5 (1)
	2.5 - 3.0 (1)

Release Date

	2000 - 2004 (2)
	2005 - 2009 (10)
	2015 - 2019 (3)

Enzyme Classification Name

	Hydrolases (12)
	Oxidoreductases (2)

Symmetry Type

	Asymmetric (12)
	Cyclic (13)

SCOP Classification

	Multi-domain proteins (alpha and beta) (10)
	Alpha and beta proteins (a/b) (2)
	All beta proteins (1)

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1 to 15 of 15 Structures

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1P6B \| pdb_00001p6b	Download File View File

X-ray structure of phosphotriesterase, triple mutant H254G/H257W/L303T

Hill, C.M., Li, W., Thoden, J.B., Holden, H.M., Raushel, F.M.

(2003) J Am Chem Soc 125: 8990-8991

Released	2003-09-16
Method	X-RAY DIFFRACTION 1.9 Å
Organisms	Flavobacterium sp.
Macromolecule	Parathion hydrolase (protein)
Unique Ligands	EBP, EFS, ZN

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1P6C \| pdb_00001p6c	Download File View File

crystal structure of phosphotriesterase triple mutant H254G/H257W/L303T complexed with diisopropylmethylphosphonate

Hill, C.M., Li, W., Thoden, J.B., Holden, H.M., Raushel, F.M.

(2003) J Am Chem Soc 125: 8990-8991

Released	2003-09-16
Method	X-RAY DIFFRACTION 2 Å
Organisms	Flavobacterium sp.
Macromolecule	Parathion hydrolase (protein)
Unique Ligands	DII, EBP, ZN

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1WYB \| pdb_00001wyb	Download File View File

Structure of 6-aminohexanoate-dimer hydrolase

Negoro, S., Ohki, T., Shibata, N., Mizuno, N., Wakitani, Y., Tsurukame, J., Matsumoto, K., Kawamoto, I., Takeo, M., Higuchi, Y.

To be published

Released	2005-09-20
Method	X-RAY DIFFRACTION 1.8 Å
Organisms	Flavobacterium sp.
Macromolecule	6-aminohexanoate-dimer hydrolase (protein)

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1WYC \| pdb_00001wyc	Download File View File

Structure of 6-aminohexanoate-dimer hydrolase, DN mutant

Negoro, S., Ohki, T., Shibata, N., Mizuno, N., Wakitani, Y., Tsurukame, J., Matsumoto, K., Kawamoto, I., Takeo, M., Higuchi, Y.

(2007) J Mol Biology 370: 142-156

Released	2006-02-21
Method	X-RAY DIFFRACTION 1.58 Å
Organisms	Flavobacterium sp.
Macromolecule	6-aminohexanoate-dimer hydrolase (protein)

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2DCF \| pdb_00002dcf	Download File View File

Crystal structure of 6-aminohexanoate-dimer hydrolase S112A/G181D/H266N mutant with substrate

Ohki, T., Shibata, N., Higuchi, Y., Takeo, M., Negoro, S.

(2007) J Mol Biology 370: 142-156

Released	2007-01-09
Method	X-RAY DIFFRACTION 1.4 Å
Organisms	Flavobacterium sp.
Macromolecule	6-aminohexanoate-dimer hydrolase (protein)
Unique Ligands	ACA, GOL, MES, SO4

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2ZLY \| pdb_00002zly	Download File View File

Structure of 6-aminohexanoate-dimer hydrolase, D370Y mutant

Ohki, T., Shibata, N., Higuchi, Y., Kawashima, Y., Takeo, M., Kato, D., Negoro, S.

(2009) Protein Sci 18: 1662-1673

Released	2009-04-21
Method	X-RAY DIFFRACTION 1.58 Å
Organisms	Flavobacterium sp.
Macromolecule	6-aminohexanoate-dimer hydrolase (protein)
Unique Ligands	GOL, MES, SO4

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2ZM0 \| pdb_00002zm0	Download File View File

Structure of 6-aminohexanoate-dimer hydrolase, G181D/H266N/D370Y mutant

Ohki, T., Shibata, N., Higuchi, Y., Kawashima, Y., Takeo, M., Kato, D., Nego, S.

(2009) FEBS J 276: 2547-2556

Released	2009-04-07
Method	X-RAY DIFFRACTION 1.5 Å
Organisms	Flavobacterium sp.
Macromolecule	6-aminohexanoate-dimer hydrolase (protein)
Unique Ligands	GOL, MES, SO4

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2ZM2 \| pdb_00002zm2	Download File View File

Structure of 6-aminohexanoate-dimer hydrolase, A61V/A124V/R187S/F264C/G291R/G338A/D370Y mutant (Hyb-S4M94)

Ohki, T., Shibata, N., Higuchi, Y., Kawashima, Y., Takeo, M., Kato, D., Nego, S.

(2009) Protein Sci 18: 1662-1673

Released	2009-04-21
Method	X-RAY DIFFRACTION 1.55 Å
Organisms	Flavobacterium sp.
Macromolecule	6-aminohexanoate-dimer hydrolase (protein)
Unique Ligands	GOL, MES, SO4

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2ZM7 \| pdb_00002zm7	Download File View File

Structure of 6-Aminohexanoate-dimer Hydrolase, S112A/G181D Mutant Complexed with 6-Aminohexanoate-dimer

Ohki, T., Shibata, N., Higuchi, Y., Kawashima, Y., Takeo, M., Kato, D., Negoro, S.

(2009) FEBS J 276: 2547-2556

Released	2009-04-07
Method	X-RAY DIFFRACTION 1.6 Å
Organisms	Flavobacterium sp.
Macromolecule	6-aminohexanoate-dimer hydrolase (protein)
Unique Ligands	ACA, GOL, MES, SO4

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2ZM8 \| pdb_00002zm8	Download File View File

Structure of 6-Aminohexanoate-dimer Hydrolase, S112A/D370Y Mutant Complexed with 6-Aminohexanoate-dimer

Ohki, T., Shibata, N., Higuchi, Y., Kawashima, Y., Takeo, M., Kato, D., Negoro, S.

(2009) Protein Sci 18: 1662-1673

Released	2009-04-14
Method	X-RAY DIFFRACTION 1.55 Å
Organisms	Flavobacterium sp.
Macromolecule	6-aminohexanoate-dimer hydrolase (protein)
Unique Ligands	ACA, GOL, MES, SO4

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2ZM9 \| pdb_00002zm9	Download File View File

Structure of 6-Aminohexanoate-dimer Hydrolase, A61V/S112A/A124V/R187S/F264C/G291R/G338A/D370Y mutant (Hyb-S4M94) with Substrate

Ohki, T., Shibata, N., Higuchi, Y., Kawashima, Y., Takeo, M., Kato, D., Negoro, S.

(2009) Protein Sci 18: 1662-1673

Released	2009-04-14
Method	X-RAY DIFFRACTION 1.5 Å
Organisms	Flavobacterium sp.
Macromolecule	6-aminohexanoate-dimer hydrolase (protein)
Unique Ligands	ACA, GOL, MES, SO4

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2ZMA \| pdb_00002zma	Download File View File

Crystal Structure of 6-Aminohexanoate-dimer Hydrolase S112A/G181D/H266N/D370Y Mutant with Substrate

Ohki, T., Shibata, N., Higuchi, Y., Takeo, M., Negoro, S.

(2009) FEBS J 276: 2547-2556

Released	2009-04-07
Method	X-RAY DIFFRACTION 1.51 Å
Organisms	Flavobacterium sp.
Macromolecule	6-aminohexanoate-dimer hydrolase (protein)
Unique Ligands	ACA, GOL, MES, SO4

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5WUT \| pdb_00005wut	Download File View File

Crystal structure of laminarinase from Flavobacterium sp. UMI-01

Qin, H.M., Miyakawa, Y., Nakamura, A., Tanokura, M.

To be published

Released	2018-01-03
Method	X-RAY DIFFRACTION 1.6 Å
Organisms	Flavobacterium sp.
Macromolecule	ULam111 (protein)

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6EXF \| pdb_00006exf	Download File View File

Crystal structure of the complex Fe(II)/alpha-ketoglutarate dependent dioxygenase KDO5 with Fe(II)/Lysine

Isabet, T., Stura, E., Legrand, P., Zaparucha, A., Bastard, K.

(2018) Sci Rep 8: 16587-16587

Released	2018-11-14
Method	X-RAY DIFFRACTION 1.95 Å
Organisms	Flavobacterium sp.
Macromolecule	L-lysine 4-hydroxylase (protein)
Unique Ligands	FE, GOL, LYS

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6EXH \| pdb_00006exh	Download File View File

Crystal structure of the complex Fe(II)/alpha-ketoglutarate dependent dioxygenase KDO5 with Fe(II)/succinate/(4R)-4-hydroxy-L-lysine

Isabet, T., Stura, E., Legrand, P., Zaparucha, A., Bastard, K.

(2018) Sci Rep 8: 16587-16587

Released	2018-11-14
Method	X-RAY DIFFRACTION 2.6 Å
Organisms	Flavobacterium sp.
Macromolecule	L-lysine 4-hydroxylase (protein)
Unique Ligands	FE, GOL, LYO, SIN

1 to 15 of 15 Structures

Page 1 of 1

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RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729.

1P6B | pdb_00001p6b

X-ray structure of phosphotriesterase, triple mutant H254G/H257W/L303T

1P6C | pdb_00001p6c

crystal structure of phosphotriesterase triple mutant H254G/H257W/L303T complexed with diisopropylmethylphosphonate

1WYB | pdb_00001wyb

Structure of 6-aminohexanoate-dimer hydrolase

1WYC | pdb_00001wyc

Structure of 6-aminohexanoate-dimer hydrolase, DN mutant

2DCF | pdb_00002dcf

Crystal structure of 6-aminohexanoate-dimer hydrolase S112A/G181D/H266N mutant with substrate

2ZLY | pdb_00002zly

Structure of 6-aminohexanoate-dimer hydrolase, D370Y mutant

2ZM0 | pdb_00002zm0

Structure of 6-aminohexanoate-dimer hydrolase, G181D/H266N/D370Y mutant

2ZM2 | pdb_00002zm2

Structure of 6-aminohexanoate-dimer hydrolase, A61V/A124V/R187S/F264C/G291R/G338A/D370Y mutant (Hyb-S4M94)

2ZM7 | pdb_00002zm7

Structure of 6-Aminohexanoate-dimer Hydrolase, S112A/G181D Mutant Complexed with 6-Aminohexanoate-dimer

2ZM8 | pdb_00002zm8

Structure of 6-Aminohexanoate-dimer Hydrolase, S112A/D370Y Mutant Complexed with 6-Aminohexanoate-dimer

2ZM9 | pdb_00002zm9

Structure of 6-Aminohexanoate-dimer Hydrolase, A61V/S112A/A124V/R187S/F264C/G291R/G338A/D370Y mutant (Hyb-S4M94) with Substrate

2ZMA | pdb_00002zma

Crystal Structure of 6-Aminohexanoate-dimer Hydrolase S112A/G181D/H266N/D370Y Mutant with Substrate

5WUT | pdb_00005wut

Crystal structure of laminarinase from Flavobacterium sp. UMI-01

6EXF | pdb_00006exf

Crystal structure of the complex Fe(II)/alpha-ketoglutarate dependent dioxygenase KDO5 with Fe(II)/Lysine

6EXH | pdb_00006exh

Crystal structure of the complex Fe(II)/alpha-ketoglutarate dependent dioxygenase KDO5 with Fe(II)/succinate/(4R)-4-hydroxy-L-lysine

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Structure Determination Methodology

Scientific Name of Source Organism

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1P6B | pdb_00001p6b

1P6C | pdb_00001p6c

1WYB | pdb_00001wyb

1WYC | pdb_00001wyc

2DCF | pdb_00002dcf

2ZLY | pdb_00002zly

2ZM0 | pdb_00002zm0

2ZM2 | pdb_00002zm2

2ZM7 | pdb_00002zm7

2ZM8 | pdb_00002zm8

2ZM9 | pdb_00002zm9

2ZMA | pdb_00002zma

5WUT | pdb_00005wut

6EXF | pdb_00006exf

6EXH | pdb_00006exh