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233,605 Structures from the PDB

1,068,577 Computed Structure Models (CSM)

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QUERY: Citation Author = "Sahoo, S."

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Search Summary

This query matches 122 Structures.

Refinements

Structure Determination Methodology

experimental (122)

Scientific Name of Source Organism

	Sphingomonas sp. A1 (39)
	Bacillus sp. GL1 (15)
	Sphingomonas sp. (12)
	Bacillus subtilis (6)
	Streptobacillus moniliformis DSM 12112 (6)
	Streptococcus agalactiae NEM316 (6)
	Aspergillus nidulans (5)
	Pyrococcus furiosus DSM 3638 (5)
	Lacticaseibacillus rhamnosus (4)
	Paramecium bursaria Chlorella virus CVK2 (3)

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Taxonomy

	Bacteria (107)
	Archaea (6)
	Eukaryota (6)
	Varidnaviria (3)

Experimental Method

X-RAY DIFFRACTION (122)

Polymer Entity Type

Protein (122)

Refinement Resolution (Å)

	1.0 - 1.5 (8)
	1.5 - 2.0 (60)
	2.0 - 2.5 (32)
	2.5 - 3.0 (15)
	3.0 - 3.5 (5)
	3.5 - 4.0 (1)
	> 4.5 (1)

Release Date

	2000 - 2004 (8)
	2005 - 2009 (35)
	2010 - 2014 (36)
	2015 - 2019 (29)
	2020 - 2024 (14)

Enzyme Classification Name

	Hydrolases (19)
	Lyases (28)
	Isomerases (7)
	Oxidoreductases (6)
	Transferases (3)

Membrane Protein Annotation

	MemProtMD (4)
	PDBTM (4)
	mpstruc (2)
	OPM (1)

Symmetry Type

	Asymmetric (92)
	Dihedral (24)
	Cyclic (16)

SCOP Classification

	All alpha proteins (28)
	Alpha and beta proteins (a/b) (24)
	All beta proteins (15)
	Artifacts (7)
	Multi-domain proteins (alpha and beta) (2)

AllSelected

1 to 25 of 122 Structures

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1FP3 \| pdb_00001fp3	Download File View File

CRYSTAL STRUCTURE OF N-ACYL-D-GLUCOSAMINE 2-EPIMERASE FROM PORCINE KIDNEY

Itoh, T., Mikami, B., Maru, I., Ohta, Y., Hashimoto, W., Murata, K.

(2000) J Mol Biology 303: 733-744

Released	2000-11-22
Method	X-RAY DIFFRACTION 2 Å
Organisms	Sus scrofa
Macromolecule	N-ACYL-D-GLUCOSAMINE 2-EPIMERASE (protein)

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1HV6 \| pdb_00001hv6	Download File View File

CRYSTAL STRUCTURE OF ALGINATE LYASE A1-III COMPLEXED WITH TRISACCHARIDE PRODUCT.

Yoon, H.-J., Hashimoto, W., Miyake, O., Murata, K., Mikami, B.

(2001) J Mol Biology 307: 9-16

Released	2001-05-02
Method	X-RAY DIFFRACTION 2 Å
Organisms	Sphingomonas sp.
Macromolecule	ALGINATE LYASE (protein)
Unique Ligands	SO4
Unique branched monosaccharides	GCU, MAV, MAW

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1J0M \| pdb_00001j0m	Download File View File

Crystal Structure of Bacillus sp. GL1 Xanthan Lyase that Acts on Side Chains of Xanthan

Hashimoto, W., Nankai, H., Mikami, B., Murata, K.

(2003) J Biological Chem 278: 7663-7673

Released	2003-04-01
Method	X-RAY DIFFRACTION 2.3 Å
Organisms	Bacillus sp. GL1
Macromolecule	XANTHAN LYASE (protein)
Unique Ligands	CA

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1J0N \| pdb_00001j0n	Download File View File

Crystal Structure of Bacillus sp. GL1 Xanthan Lyase that Acts on Side Chains of Xanthan

Hashimoto, W., Nankai, H., Mikami, B., Murata, K.

(2003) J Biological Chem 278: 7663-7673

Released	2003-04-01
Method	X-RAY DIFFRACTION 2.4 Å
Organisms	Bacillus sp. GL1
Macromolecule	XANTHAN LYASE (protein)
Unique Ligands	CA, CEG

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1J1N \| pdb_00001j1n	Download File View File

Structure Analysis of AlgQ2, A Macromolecule(Alginate)-Binding Periplasmic Protein Of Sphingomonas Sp. A1., Complexed with an Alginate Tetrasaccharide

Momma, K., Mikami, B., Mishima, Y., Hashimoto, W., Murata, K.

(2003) J Biological Chem 278: 6552-6559

Released	2003-06-10
Method	X-RAY DIFFRACTION 1.6 Å
Organisms	Sphingomonas sp. A1
Macromolecule	AlgQ2 (protein)
Unique Ligands	CA
Unique branched monosaccharides	BEM, LGU, MAV

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1KWH \| pdb_00001kwh	Download File View File

Structure Analysis AlgQ2, a Macromolecule(alginate)-Binding Periplasmic Protein of Sphingomonas sp. A1.

Momma, K., Mikami, B., Mishima, Y., Hashimoto, W., Murata, K.

(2002) J Mol Biology 316: 1051-1059

Released	2002-02-13
Method	X-RAY DIFFRACTION 2 Å
Organisms	Sphingomonas sp. A1
Macromolecule	Macromolecule-Binding Periplasmic Protein (protein)
Unique Ligands	CA

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1VAV \| pdb_00001vav	Download File View File

Crystal structure of alginate lyase PA1167 from Pseudomonas aeruginosa at 2.0 A resolution

Yamasaki, M., Moriwaki, S., Miyake, O., Hashimoto, W., Murata, K., Mikami, B.

(2004) J Biological Chem 279: 31863-31872

Released	2004-05-25
Method	X-RAY DIFFRACTION 2 Å
Organisms	Pseudomonas aeruginosa PAO1
Macromolecule	Alginate lyase PA1167 (protein)

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1VD5 \| pdb_00001vd5	Download File View File

Crystal Structure of Unsaturated Glucuronyl Hydrolase, Responsible for the Degradation of Glycosaminoglycan, from Bacillus sp. GL1 at 1.8 A Resolution

Itoh, T., Akao, S., Hashimoto, W., Mikami, B., Murata, K.

(2004) J Biological Chem 279: 31804-31812

Released	2004-07-13
Method	X-RAY DIFFRACTION 1.8 Å
Organisms	Bacillus sp. GL1
Macromolecule	unsaturated glucuronyl hydrolase (protein)
Unique Ligands	DTT, GLY, MPD

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1X1H \| pdb_00001x1h	Download File View File

Crystal Structure of Xanthan Lyase (N194A)

Maruyama, Y., Hashimoto, W., Mikami, B., Murata, K.

(2005) J Mol Biology 350: 974-986

Released	2005-07-19
Method	X-RAY DIFFRACTION 2.3 Å
Organisms	Bacillus sp. GL1
Macromolecule	xanthan lyase (protein)

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1X1I \| pdb_00001x1i	Download File View File

Crystal Structure of Xanthan Lyase (N194A) Complexed with a Product

Maruyama, Y., Hashimoto, W., Mikami, B., Murata, K.

(2005) J Mol Biology 350: 974-986

Released	2005-07-19
Method	X-RAY DIFFRACTION 1.8 Å
Organisms	Bacillus sp. GL1
Macromolecule	xanthan lyase (protein)
Unique Ligands	46M

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1X1J \| pdb_00001x1j	Download File View File

Crystal Structure of Xanthan Lyase (N194A) with a Substrate.

Maruyama, Y., Hashimoto, W., Mikami, B., Murata, K.

(2005) J Mol Biology 350: 974-986

Released	2005-07-19
Method	X-RAY DIFFRACTION 2.1 Å
Organisms	Bacillus sp. GL1
Macromolecule	xanthan lyase (protein)
Unique Ligands	46D, CA

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1Y3H \| pdb_00001y3h	Download File View File

Crystal Structure of Inorganic Polyphosphate/ATP-NAD kinase from Mycobacterium tuberculosis

Mori, S., Yamasaki, M., Maruyama, Y., Momma, K., kawai, S., Hashimoto, W., Mikami, B., Murata, K.

(2005) Biochem Biophys Res Commun 327: 500-508

Released	2005-01-18
Method	X-RAY DIFFRACTION 2.8 Å
Organisms	Mycobacterium tuberculosis
Macromolecule	Inorganic polyphosphate/ATP-NAD kinase (protein)

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1Y3I \| pdb_00001y3i	Download File View File

Crystal Structure of Mycobacterium tuberculosis NAD kinase-NAD complex

Mori, S., Yamasaki, M., Maruyama, Y., Momma, K., Kawai, S., Hashimoto, W., Mikami, B., Murata, K.

(2005) Biochem Biophys Res Commun 327: 500-508

Released	2005-01-18
Method	X-RAY DIFFRACTION 2.6 Å
Organisms	Mycobacterium tuberculosis
Macromolecule	Inorganic polyphosphate/ATP-NAD kinase (protein)
Unique Ligands	GOL, NAD, SO4

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1Y3N \| pdb_00001y3n	Download File View File

Structure of AlgQ1, alginate-binding protein, complexed with an alginate disaccharide

Momma, K., Mishima, Y., Hashimoto, W., Mikami, B., Murata, K.

(2005) Biochemistry 44: 5053-5064

Released	2005-04-12
Method	X-RAY DIFFRACTION 1.6 Å
Organisms	Sphingomonas sp. A1
Macromolecule	AlgQ1 (protein)
Unique Ligands	CA
Unique branched monosaccharides	BEM, MAV

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1Y3P \| pdb_00001y3p	Download File View File

Structure of AlgQ1, alginate-binding protein, complexed with an alginate tetrasaccharide

Momma, K., Mishima, Y., Hashimoto, W., Mikami, B., Murata, K.

(2005) Biochemistry 44: 5053-5064

Released	2005-04-12
Method	X-RAY DIFFRACTION 2 Å
Organisms	Sphingomonas sp. A1
Macromolecule	AlgQ1 (protein)
Unique Ligands	CA
Unique branched monosaccharides	BEM, LGU, MAV

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1Y3Q \| pdb_00001y3q	Download File View File

Structure of AlgQ1, alginate-binding protein

Momma, K., Mishima, Y., Hashimoto, W., Mikami, B., Murata, K.

(2005) Biochemistry 44: 5053-5064

Released	2005-04-12
Method	X-RAY DIFFRACTION 1.9 Å
Organisms	Sphingomonas sp. A1
Macromolecule	AlgQ1 (protein)
Unique Ligands	CA

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2AHF \| pdb_00002ahf	Download File View File

Unsaturated glucuronyl hydrolase mutant D88N

Itoh, T., Hashimoto, W., Mikami, B., Murata, K.

(2006) J Biological Chem 281: 29807-29816

Released	2006-08-15
Method	X-RAY DIFFRACTION 1.52 Å
Organisms	Bacillus sp. GL1
Macromolecule	unsaturated glucuronyl hydrolase (protein)

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2AHG \| pdb_00002ahg	Download File View File

Unsaturated glucuronyl hydrolase mutant D88N with dGlcA-GalNAc

Itoh, T., Hashimoto, W., Mikami, B., Murata, K.

(2006) J Biological Chem 281: 29807-29816

Released	2006-08-15
Method	X-RAY DIFFRACTION 1.9 Å
Organisms	Bacillus sp. GL1
Macromolecule	unsaturated glucuronyl hydrolase (protein)
Unique branched monosaccharides	GCD, NGA

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2CWS \| pdb_00002cws	Download File View File

Crystal structure at 1.0 A of alginate lyase A1-II', a member of polysaccharide lyase family-7

Yamasaki, M., Ogura, K., Hashimoto, W., Mikami, B., Murata, K.

(2005) J Mol Biology 352: 11-21

Released	2005-11-15
Method	X-RAY DIFFRACTION 1 Å
Organisms	Sphingomonas sp. A1
Macromolecule	alginate lyase A1-II' (protein)
Unique Ligands	GOL, SO4

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2D5J \| pdb_00002d5j	Download File View File

Unsaturated Glucuronyl Hydrolase Triggers Hydration of Vinyl Ether Group but not of Glycosidic Bond

Itoh, T., Hashimoto, W., Mikami, B., Murata, K.

(2006) J Biological Chem 281: 29807-29816

Released	2006-08-15
Method	X-RAY DIFFRACTION 1.6 Å
Organisms	Bacillus sp. GL1
Macromolecule	unsaturated glucuronyl hydrolase (protein)

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2D8L \| pdb_00002d8l	Download File View File

Crystal Structure of Unsaturated Rhamnogalacturonyl Hydrolase in complex with dGlcA-GalNAc

Itoh, T., Ochiai, A., Mikami, B., Hashimoto, W., Murata, K.

(2006) J Mol Biology 360: 573-585

Released	2006-11-14
Method	X-RAY DIFFRACTION 1.7 Å
Organisms	Bacillus subtilis
Macromolecule	Putative glycosyl hydrolase yteR (protein)
Unique branched monosaccharides	GCD, NGA

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2E22 \| pdb_00002e22	Download File View File

Crystal structure of xanthan lyase in complex with mannose

Maruyama, Y., Mikami, B., Hashimoto, W., Murata, K.

(2007) Biochemistry 46: 781-791

Released	2007-01-30
Method	X-RAY DIFFRACTION 2.4 Å
Organisms	Bacillus sp. GL1
Macromolecule	Xanthan lyase (protein)
Unique Ligands	MAN

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2E24 \| pdb_00002e24	Download File View File

crystal structure of a mutant (R612A) of xanthan lyase

Maruyama, Y., Mikami, B., Hashimoto, W., Murata, K.

(2007) Biochemistry 46: 781-791

Released	2007-01-30
Method	X-RAY DIFFRACTION 2.15 Å
Organisms	Bacillus sp. GL1
Macromolecule	Xanthan lyase (protein)
Unique Ligands	PEG

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2FUZ \| pdb_00002fuz	Download File View File

UGL hexagonal crystal structure without glycine and DTT molecules

Itoh, T., Hashimoto, W., Mikami, B., Murata, K.

(2006) Biochem Biophys Res Commun 344: 253-262

Released	2006-05-30
Method	X-RAY DIFFRACTION 1.8 Å
Organisms	Bacillus sp. GL1
Macromolecule	Unsaturated glucuronyl hydrolase (protein)
Unique Ligands	MPD

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2FV0 \| pdb_00002fv0	Download File View File

UGL_D88N/dGlcA-Glc-Rha-Glc

Itoh, T., Hashimoto, W., Mikami, B., Murata, K.

(2006) Biochem Biophys Res Commun 344: 253-262

Released	2006-05-30
Method	X-RAY DIFFRACTION 1.91 Å
Organisms	Bacillus sp. GL1
Macromolecule	Unsaturated glucuronyl hydrolase (protein)
Unique branched monosaccharides	BGC, GAD, RAM

1 to 25 of 122 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

1FP3 | pdb_00001fp3

1HV6 | pdb_00001hv6

1J0M | pdb_00001j0m

1J0N | pdb_00001j0n

1J1N | pdb_00001j1n

1KWH | pdb_00001kwh

1VAV | pdb_00001vav

1VD5 | pdb_00001vd5

1X1H | pdb_00001x1h

1X1I | pdb_00001x1i

1X1J | pdb_00001x1j

1Y3H | pdb_00001y3h

1Y3I | pdb_00001y3i

1Y3N | pdb_00001y3n

1Y3P | pdb_00001y3p

1Y3Q | pdb_00001y3q

2AHF | pdb_00002ahf

2AHG | pdb_00002ahg

2CWS | pdb_00002cws

2D5J | pdb_00002d5j

2D8L | pdb_00002d8l

2E22 | pdb_00002e22

2E24 | pdb_00002e24

2FUZ | pdb_00002fuz

2FV0 | pdb_00002fv0