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233,605 Structures from the PDB

1,068,577 Computed Structure Models (CSM)

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QUERY: Structure Author = "Do, H."

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Search Summary

This query matches 59 Structures.

Refinements

Structure Determination Methodology

experimental (59)

Scientific Name of Source Organism

	Flavobacterium frigoris PS1 (7)
	Mycolicibacterium smegmatis MC2 155 (5)
	Methylocapsa palsarum (4)
	Oryza sativa Japonica Group (4)
	Colwellia psychrerythraea 34H (3)
	Porphyromonas gingivalis (3)
	Pygoscelis papua (3)
	Streptococcus pyogenes serotype M3 (3)
	Frondihabitans sp. (2)
	Gelidibacter salicanalis (2)

More...

Taxonomy

	Bacteria (48)
	Eukaryota (11)

Experimental Method

X-RAY DIFFRACTION (59)

Polymer Entity Type

Protein (59)

Refinement Resolution (Å)

	1.0 - 1.5 (2)
	1.5 - 2.0 (17)
	2.0 - 2.5 (29)
	2.5 - 3.0 (8)
	3.0 - 3.5 (3)

Release Date

	2010 - 2014 (5)
	2015 - 2019 (15)
	2020 - 2024 (35)
	2025 - 2029 (4)

Enzyme Classification Name

	Transferases (16)
	Oxidoreductases (10)
	Hydrolases (8)
	Lyases (2)
	Isomerases (1)

Symmetry Type

	Cyclic (33)
	Asymmetric (22)
	Dihedral (3)
	Tetrahedral (2)

SCOP Classification

	Alpha and beta proteins (a/b) (8)
	Alpha and beta proteins (a+b) (5)
	All alpha proteins (6)
	All beta proteins (3)
	Artifacts (1)

AllSelected

1 to 25 of 59 Structures

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3UYU \| pdb_00003uyu	Download File View File

Structural basis for the antifreeze activity of an ice-binding protein (LeIBP) from Arctic yeast

Lee, J.H., Park, A.K., Do, H., Park, K.S., Moh, S.H., Chi, Y.M., Kim, H.J.

(2012) J Biological Chem

Released	2012-02-15
Method	X-RAY DIFFRACTION 1.57 Å
Organisms	Leucosporidium sp. AY30
Macromolecule	Antifreeze protein (protein)
Unique Ligands	GOL

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3UYV \| pdb_00003uyv	Download File View File

Crystal structure of a glycosylated ice-binding protein (LeIBP) from Arctic yeast

Lee, J.H., Park, A.K., Do, H., Park, K.S., Moh, S.H., Chi, Y.M., Kim, H.J.

(2012) J Biological Chem

Released	2012-02-29
Method	X-RAY DIFFRACTION 2.43 Å
Organisms	Leucosporidium sp. AY30
Macromolecule	Antifreeze protein (protein)
Unique branched monosaccharides	BMA, MAN, NAG

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4NU2 \| pdb_00004nu2	Download File View File

Crystal structure of an ice-binding protein (FfIBP) from the Antarctic bacterium, Flavobacterium frigoris PS1

Do, H., Kim, S.J., Lee, S.G., Park, H., Kim, H.J., Lee, J.H.

(2014) Acta Crystallogr D Biol Crystallogr 70: 1061-1073

Released	2014-04-16
Method	X-RAY DIFFRACTION 2.1 Å
Organisms	Flavobacterium frigoris PS1
Macromolecule	Antifreeze protein (protein)

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4NU3 \| pdb_00004nu3	Download File View File

Crystal structure of mFfIBP, a capping head region swapped mutant of ice-binding protein

Do, H., Kim, S.J., Lee, S.G., Park, H., Kim, H.J., Lee, J.H.

(2014) Acta Crystallogr D Biol Crystallogr 70: 1061-1073

Released	2014-04-16
Method	X-RAY DIFFRACTION 1.399 Å
Organisms	Flavobacterium frigoris PS1
Macromolecule	ice-binding protein (protein)
Unique Ligands	NA, SO4

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4NUH \| pdb_00004nuh	Download File View File

Crystal structure of mLeIBP, a capping head region swapped mutant of ice-binding protein

Do, H., Kim, S.J., Lee, S.G., Park, H., Kim, H.J., Lee, J.H.

(2014) Acta Crystallogr D Biol Crystallogr 70: 1061-1073

Released	2014-04-16
Method	X-RAY DIFFRACTION 1.34 Å
Organisms	Leucosporidium
Macromolecule	ice-binding protein (protein)
Unique Ligands	PEG

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4RHE \| pdb_00004rhe	Download File View File

Crystal structure of UbiX, an aromatic acid decarboxylase from the Colwellia psychrerythraea 34H

Do, H., Kim, S.J., Lee, C.W., Kim, H.-W., Park, H.H., Kim, H.M., Park, H., Park, H.J., Lee, J.H.

(2015) Sci Rep 5: 8196-8196

Released	2015-02-18
Method	X-RAY DIFFRACTION 2.003 Å
Organisms	Colwellia psychrerythraea 34H
Macromolecule	3-octaprenyl-4-hydroxybenzoate carboxy-lyase (protein)
Unique Ligands	FMN, SO4

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4RHF \| pdb_00004rhf	Download File View File

Crystal structure of UbiX mutant V47S from Colwellia psychrerythraea 34H

Do, H., Kim, S.J., Lee, C.W., Kim, H.-W., Park, H.H., Kim, H.M., Park, H., Park, H.J., Lee, J.H.

(2015) Sci Rep 5: 8196-8196

Released	2015-02-18
Method	X-RAY DIFFRACTION 1.764 Å
Organisms	Colwellia psychrerythraea 34H
Macromolecule	3-octaprenyl-4-hydroxybenzoate carboxy-lyase (protein)
Unique Ligands	SO4

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4ZZ7 \| pdb_00004zz7	Download File View File

Crystal structure of methylmalonate-semialdehyde dehydrogenase (DddC) from Oceanimonas doudoroffii

Do, H., Lee, C.W., Lee, S.G., Kang, H., Park, C.M., Kim, H.J., Park, H., Park, H., Lee, J.H.

(2016) J Microbiol 54: 114-121

Released	2016-04-06
Method	X-RAY DIFFRACTION 2.9 Å
Organisms	Oceanimonas doudoroffii
Macromolecule	Methylmalonate-semialdehyde dehydrogenase (protein)
Unique Ligands	NAD

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5BVQ \| pdb_00005bvq	Download File View File

Ligand-unbound pFABP4

Lee, J.H., Lee, C.W., Do, H.

(2015) Biochem Biophys Res Commun 465: 12-18

Released	2015-08-05
Method	X-RAY DIFFRACTION 2.1 Å
Organisms	Pygoscelis papua
Macromolecule	fatty acid-binding protein (protein)

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5BVS \| pdb_00005bvs	Download File View File

Linoleate-bound pFABP4

Lee, J.H., Lee, C.W., Do, H.

(2015) Biochem Biophys Res Commun 465: 12-18

Released	2015-08-05
Method	X-RAY DIFFRACTION 2.2 Å
Organisms	Pygoscelis papua
Macromolecule	Fatty acid-binding protein (protein)
Unique Ligands	EIC

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5BVT \| pdb_00005bvt	Download File View File

Palmitate-bound pFABP5

Lee, J.H., Lee, C.W., Do, H.

(2015) Biochem Biophys Res Commun 465: 12-18

Released	2015-08-05
Method	X-RAY DIFFRACTION 2.31 Å
Organisms	Pygoscelis papua
Macromolecule	Epidermal fatty acid-binding protein (protein)
Unique Ligands	PAM

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5BY2 \| pdb_00005by2	Download File View File

Sedoheptulose 7-phosphate isomerase from Colwellia psychrerythraea strain 34H

Lee, J.H., Chang, J.H., Do, H., Yun, J.S.

(2015) Mol Cells 38: 1086-1095

Released	2015-12-23
Method	X-RAY DIFFRACTION 2.8 Å
Organisms	Colwellia psychrerythraea 34H
Macromolecule	Phosphoheptose isomerase (protein)

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5D9T \| pdb_00005d9t	Download File View File

Crystal structure of dehydroascorbate reductase (OsDHAR) from Oryza sativa L. japonica

Do, H., Lee, J.H.

(2016) Sci Rep 6: 19498-19498

Released	2016-02-03
Method	X-RAY DIFFRACTION 1.9 Å
Organisms	Oryza sativa Japonica Group
Macromolecule	Dehydroascorbate reductase (protein)
Unique Ligands	NA

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5D9V \| pdb_00005d9v	Download File View File

Crystal structure of oxidized dehydroascorbate reductase (OsDHAR) from Oryza sativa L. japonica

Do, H., Lee, J.H.

(2016) Sci Rep 6: 19498-19498

Released	2016-02-03
Method	X-RAY DIFFRACTION 1.69 Å
Organisms	Oryza sativa Japonica Group
Macromolecule	Dehydroascorbate reductase (protein)
Unique Ligands	CA, PEG

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5D9W \| pdb_00005d9w	Download File View File

Dehydroascorbate reductase (OsDHAR) complexed with ASA

Do, H., Lee, J.H.

(2016) Sci Rep 6: 19498-19498

Released	2016-02-03
Method	X-RAY DIFFRACTION 1.6897 Å
Organisms	Oryza sativa Japonica Group
Macromolecule	Dehydroascorbate reductase (protein)
Unique Ligands	ASC

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5D9X \| pdb_00005d9x	Download File View File

Dehydroascorbate reductase complexed with GSH

Do, H., Lee, J.H.

(2016) Sci Rep 6: 19498-19498

Released	2016-02-03
Method	X-RAY DIFFRACTION 1.68 Å
Organisms	Oryza sativa Japonica Group
Macromolecule	Dehydroascorbate reductase (protein)
Unique Ligands	CA, GSH

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5JLS \| pdb_00005jls	Download File View File

Crystal Structure of Adhesin competence repressor (AdcR) from Streptococcus pyogenes (C-terminally His tagged)

Do, H., Kumaraswami, M.

To be published

Released	2017-05-03
Method	X-RAY DIFFRACTION 2.7 Å
Organisms	Streptococcus pyogenes serotype M3
Macromolecule	Adhesin competence repressor (protein)
Unique Ligands	ZN

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5JLU \| pdb_00005jlu	Download File View File

Crystal Structure of Adhesin competence repressor (AdcR) from Streptococcus pyogenes

Do, H., Kumaraswami, M.

To be published

Released	2017-05-03
Method	X-RAY DIFFRACTION 2.2 Å
Organisms	Streptococcus pyogenes serotype M3
Macromolecule	Adhesin competence repressor (protein)
Unique Ligands	ZN

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6DQL \| pdb_00006dql	Download File View File

Crystal structure of Regulator of Proteinase B RopB complexed with SIP

Do, H., Makthal, N., VanderWal, A.R., Olsen, R.J., Musser, J.M., Kumaraswami, M.

(2019) Nat Commun 10: 2586-2586

Released	2019-05-15
Method	X-RAY DIFFRACTION 3.3 Å
Organisms	Streptococcus pyogenes
Macromolecule	Regulator of Proteinase B RopB (protein) SpeB-inducing peptide (SIP) (protein)

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6KRT \| pdb_00006krt	Download File View File

monodehydroascorbate reductase, MDHAR, from Antarctic hairgrass Deschampsia antarctica

Park, A.K., Do, H., Lee, J.H., Kim, H., Choi, W., Kim, I.S., Kim, H.W.

To be published

Released	2020-08-26
Method	X-RAY DIFFRACTION 2.2 Å
Organisms	Deschampsia antarctica
Macromolecule	monodehydroascorbate reductase (protein)
Unique Ligands	FAD

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6O5C \| pdb_00006o5c	Download File View File

X-ray crystal structure of metal-dependent transcriptional regulator MtsR

Do, H., Kumaraswami, M.

(2019) Nucleic Acids Res 47: 7476-7493

Released	2019-06-12
Method	X-RAY DIFFRACTION 3.1 Å
Organisms	Streptococcus pyogenes serotype M3
Macromolecule	Putative metal-dependent transcriptional regulator (protein)
Unique Ligands	MN, PEG

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7CRM \| pdb_00007crm	Download File View File

Aminoglycoside 2'-N-acetyltransferase from Mycolicibacterium smegmatis-APO Structure

Jeong, C.S., Hwang, J., Do, H., Lee, J.H.

(2020) Sci Rep 10: 21503-21503

Released	2021-06-23
Method	X-RAY DIFFRACTION 2.487 Å
Organisms	Mycolicibacterium smegmatis MC2 155
Macromolecule	Aminoglycoside 2'-N-acetyltransferase (protein)
Unique Ligands	EDO

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7CS0 \| pdb_00007cs0	Download File View File

Aminoglycoside 2'-N-acetyltransferase from Mycolicibacterium smegmatis-Complex with Coenzyme A and Paromomycin

Jeong, C.S., Hwang, J., Do, H., Lee, J.H.

(2020) Sci Rep 10: 21503-21503

Released	2021-06-23
Method	X-RAY DIFFRACTION 2.05 Å
Organisms	Mycolicibacterium smegmatis MC2 155
Macromolecule	Aminoglycoside 2'-N-acetyltransferase (protein)
Unique Ligands	ACT, CA, COA, EDO, PAR

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7CS1 \| pdb_00007cs1	Download File View File

Aminoglycoside 2'-N-acetyltransferase from Mycolicibacterium smegmatis-Complex with Coenzyme A and Neomycin

Jeong, C.S., Hwang, J., Do, H., Lee, J.H.

(2020) Sci Rep 10: 21503-21503

Released	2021-06-23
Method	X-RAY DIFFRACTION 1.966 Å
Organisms	Mycolicibacterium smegmatis MC2 155
Macromolecule	Aminoglycoside 2'-N-acetyltransferase (protein)
Unique Ligands	COA, NMY

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7CSI \| pdb_00007csi	Download File View File

Aminoglycoside 2'-N-acetyltransferase from Mycolicibacterium smegmatis-Complex with Coenzyme A and Sisomicin

Jeong, C.S., Hwang, J., Do, H., Lee, J.H.

(2020) Sci Rep 10: 21503-21503

Released	2021-06-23
Method	X-RAY DIFFRACTION 1.89 Å
Organisms	Mycolicibacterium smegmatis MC2 155
Macromolecule	Aminoglycoside 2'-N-acetyltransferase (protein)
Unique Ligands	COA, SIS

1 to 25 of 59 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

Symmetry Type

SCOP Classification

3UYU | pdb_00003uyu

3UYV | pdb_00003uyv

4NU2 | pdb_00004nu2

4NU3 | pdb_00004nu3

4NUH | pdb_00004nuh

4RHE | pdb_00004rhe

4RHF | pdb_00004rhf

4ZZ7 | pdb_00004zz7

5BVQ | pdb_00005bvq

5BVS | pdb_00005bvs

5BVT | pdb_00005bvt

5BY2 | pdb_00005by2

5D9T | pdb_00005d9t

5D9V | pdb_00005d9v

5D9W | pdb_00005d9w

5D9X | pdb_00005d9x

5JLS | pdb_00005jls

5JLU | pdb_00005jlu

6DQL | pdb_00006dql

6KRT | pdb_00006krt

6O5C | pdb_00006o5c

7CRM | pdb_00007crm

7CS0 | pdb_00007cs0

7CS1 | pdb_00007cs1

7CSI | pdb_00007csi