RCSB PDB: Search

Warning You are using a web browser that we do not support. Our website will not work properly. Please update to a newer version or download a new web browser, such as Chrome or Firefox.

Help

Help

RCSB PDB

Deposit
- PDBx/mmCIF file
- pdb_extract
- SF-Tool
- Ligand Expo
- MAXIT
- Validation Server
- Validation API
- Information for Journals
- Validation Task Forces
- wwPDB OneDep System
- PDB-IHM
Search
Visualize
Analyze
Download
Learn
- Training Courses
- Guide to PDB Data
- Molecule of the Month
- Educational Resources
- Curricula
- Browse
- News
- SciArt Galleries
- Irving Geis
- David Goodsell
About
Careers
COVID-19

233,605 Structures from the PDB

1,068,577 Computed Structure Models (CSM)

	Include CSM
Advanced Search \| Browse Annotations		Help

Search
Query History
Browse Annotations
MyPDB

QUERY: Structure Author = "Gouda, H."

MyPDB Login

Search API

Advanced Search Query Builder

Help

Full Text

Structure Attributes

Help

NOT

Count

Add Subquery

Chemical Attributes

Sequence Similarity

Sequence Motif

Structure Similarity

Structure Motif

Chemical Similarity

Return

grouped by

Include Computed Structure Models (CSM)

Count

Clear

Search Summary

This query matches 19 Structures.

Refinements

Structure Determination Methodology

experimental (19)

Scientific Name of Source Organism

	Homo sapiens (6)
	Serratia marcescens (5)
	Stenotrophomonas maltophilia R551-3 (4)
	Agelenopsis aperta (2)
	Staphylococcus aureus (2)

Taxonomy

	Bacteria (11)
	Eukaryota (8)

Experimental Method

	X-RAY DIFFRACTION (15)
	SOLUTION NMR (4)

Polymer Entity Type

Protein (19)

Refinement Resolution (Å)

	1.5 - 2.0 (7)
	2.0 - 2.5 (7)
	2.5 - 3.0 (1)

Release Date

	1995 - 1999 (4)
	2010 - 2014 (5)
	2020 - 2024 (10)

Enzyme Classification Name

	Hydrolases (10)
	Transferases (3)
	Isomerases (3)

Symmetry Type

	Cyclic (13)
	Asymmetric (13)

SCOP Classification

	All alpha proteins (2)
	Small proteins (2)

AllSelected

1 to 19 of 19 Structures

Page 1 of 1

Sort by

Explore in 3D

1BDC \| pdb_00001bdc	Download File View File

STAPHYLOCOCCUS AUREUS PROTEIN A, IMMUNOGLOBULIN-BINDING B DOMAIN, NMR, 10 STRUCTURES

Gouda, H., Torigoe, H., Saito, A., Sato, M., Arata, Y., Shimada, I.

(1992) Biochemistry 31: 9665-9672

Released	1997-01-11
Method	SOLUTION NMR
Organisms	Staphylococcus aureus
Macromolecule	STAPHYLOCOCCUS AUREUS PROTEIN A (protein)

Explore in 3D

1BDD \| pdb_00001bdd	Download File View File

STAPHYLOCOCCUS AUREUS PROTEIN A, IMMUNOGLOBULIN-BINDING B DOMAIN, NMR, MINIMIZED AVERAGE STRUCTURE

Gouda, H., Torigoe, H., Saito, A., Sato, M., Arata, Y., Shimada, I.

(1992) Biochemistry 31: 9665-9672

Released	1997-01-11
Method	SOLUTION NMR
Organisms	Staphylococcus aureus
Macromolecule	STAPHYLOCOCCUS AUREUS PROTEIN A (protein)

Explore in 3D

1OAV \| pdb_00001oav	Download File View File

OMEGA-AGATOXIN IVA

Kim, J.I., Konishi, S., Iwai, H., Kohno, T., Gouda, H., Shimada, I., Sato, K., Arata, Y.

(1995) J Mol Biology 250: 659-671

Released	1995-10-15
Method	SOLUTION NMR
Organisms	Agelenopsis aperta
Macromolecule	OMEGA-AGATOXIN IVA (protein)

Explore in 3D

1OAW \| pdb_00001oaw	Download File View File

OMEGA-AGATOXIN IVA

Kim, J.I., Konishi, S., Iwai, H., Kohno, T., Gouda, H., Shimada, I., Sato, K., Arata, Y.

(1995) J Mol Biology 250: 659-671

Released	1995-10-15
Method	SOLUTION NMR
Organisms	Agelenopsis aperta
Macromolecule	OMEGA-AGATOXIN IVA (protein)

Explore in 3D

3WD0 \| pdb_00003wd0	Download File View File

Serratia marcescens Chitinase B, tetragonal form

Hirose, T., Maita, N., Gouda, H., Koseki, J., Yamamoto, T., Sugawara, A., Nakano, H., Hirono, S., Shiomi, K., Watanabe, T., Taniguchi, H., Sharpless, K.B., Omura, S., Sunazuka, T.

(2013) Proc Natl Acad Sci U S A 110: 15892-15897

Released	2013-09-18
Method	X-RAY DIFFRACTION 1.7 Å
Organisms	Serratia marcescens
Macromolecule	Chitinase B (protein)
Unique Ligands	DTD, GOL, SO4

Explore in 3D

3WD1 \| pdb_00003wd1	Download File View File

Serratia marcescens Chitinase B complexed with syn-triazole inhibitor

Hirose, T., Maita, N., Gouda, H., Koseki, J., Yamamoto, T., Sugawara, A., Nakano, H., Hirono, S., Shiomi, K., Watanabe, T., Taniguchi, H., Sharpless, K.B., Omura, S., Sunazuka, T.

(2013) Proc Natl Acad Sci U S A 110: 15892-15897

Released	2013-09-18
Method	X-RAY DIFFRACTION 2.3 Å
Organisms	Serratia marcescens
Macromolecule	Chitinase B (protein)
Unique Ligands	GOL, PO3, SO4, ST7

Explore in 3D

3WD2 \| pdb_00003wd2	Download File View File

Serratia marcescens Chitinase B complexed with azide inhibitor

Hirose, T., Maita, N., Gouda, H., Koseki, J., Yamamoto, T., Sugawara, A., Nakano, H., Hirono, S., Shiomi, K., Watanabe, T., Taniguchi, H., Sharpless, K.B., Omura, S., Sunazuka, T.

(2013) Proc Natl Acad Sci U S A 110: 15892-15897

Released	2013-09-18
Method	X-RAY DIFFRACTION 2.2 Å
Organisms	Serratia marcescens
Macromolecule	Chitinase B (protein)
Unique Ligands	A1L, DTD, GOL, SO4

Explore in 3D

3WD3 \| pdb_00003wd3	Download File View File

Serratia marcescens Chitinase B complexed with azide inhibitor

Hirose, T., Maita, N., Gouda, H., Koseki, J., Yamamoto, T., Sugawara, A., Nakano, H., Hirono, S., Shiomi, K., Watanabe, T., Taniguchi, H., Sharpless, K.B., Omura, S., Sunazuka, T.

(2013) Proc Natl Acad Sci U S A 110: 15892-15897

Released	2013-09-18
Method	X-RAY DIFFRACTION 2.2 Å
Organisms	Serratia marcescens
Macromolecule	Chitinase B (protein)
Unique Ligands	A1L, GOL, SO4

Explore in 3D

3WD4 \| pdb_00003wd4	Download File View File

Serratia marcescens Chitinase B complexed with azide inhibitor and quinoline compound

Hirose, T., Maita, N., Gouda, H., Koseki, J., Yamamoto, T., Sugawara, A., Nakano, H., Hirono, S., Shiomi, K., Watanabe, T., Taniguchi, H., Sharpless, K.B., Omura, S., Sunazuka, T.

(2013) Proc Natl Acad Sci U S A 110: 15892-15897

Released	2013-09-18
Method	X-RAY DIFFRACTION 2 Å
Organisms	Serratia marcescens
Macromolecule	Chitinase B (protein)
Unique Ligands	A1L, GOL, QUB, SO4

Explore in 3D

7DKB \| pdb_00007dkb	Download File View File

Stenotrophomonas maltophilia DPP7 in complex with Val-Tyr

Sakamoto, Y., Nakamura, A., Suzuki, Y., Honma, N., Roppongi, S., Kushibiki, C., Yonezawa, N., Takahashi, M., Shida, Y., Gouda, H., Nonaka, T., Ogasawara, W., Tanaka, N.

(2021) Sci Rep 11: 7929-7929

Released	2021-11-03
Method	X-RAY DIFFRACTION 2.03 Å
Organisms	Stenotrophomonas maltophilia R551-3
Macromolecule	Dipeptidyl-peptidase (protein)
Unique Ligands	TYR, VAL

Explore in 3D

7DKC \| pdb_00007dkc	Download File View File

Stenotrophomonas maltophilia DPP7 in complex with Tyr-Tyr

Sakamoto, Y., Nakamura, A., Suzuki, Y., Honma, N., Roppongi, S., Kushibiki, C., Yonezawa, N., Takahashi, M., Shida, Y., Gouda, H., Nonaka, T., Ogasawara, W., Tanaka, N.

(2021) Sci Rep 11: 7929-7929

Released	2021-11-03
Method	X-RAY DIFFRACTION 1.86 Å
Organisms	Stenotrophomonas maltophilia R551-3
Macromolecule	Dipeptidyl-peptidase (protein)
Unique Ligands	GOL, TYR

Explore in 3D

7DKD \| pdb_00007dkd	Download File View File

Stenotrophomonas maltophilia DPP7 in complex with Asn-Tyr

Sakamoto, Y., Nakamura, A., Suzuki, Y., Honma, N., Roppongi, S., Kushibiki, C., Yonezawa, N., Takahashi, M., Shida, Y., Gouda, H., Nonaka, T., Ogasawara, W., Tanaka, N.

(2021) Sci Rep 11: 7929-7929

Released	2021-11-03
Method	X-RAY DIFFRACTION 1.92 Å
Organisms	Stenotrophomonas maltophilia R551-3
Macromolecule	Dipeptidyl-peptidase (protein)
Unique Ligands	ASN, GOL, TYR

Explore in 3D

7DKE \| pdb_00007dke	Download File View File

Stenotrophomonas maltophilia DPP7 in complex with Phe-Tyr

Sakamoto, Y., Nakamura, A., Suzuki, Y., Honma, N., Roppongi, S., Kushibiki, C., Yonezawa, N., Takahashi, M., Shida, Y., Gouda, H., Nonaka, T., Ogasawara, W., Tanaka, N.

(2021) Sci Rep 11: 7929-7929

Released	2021-11-03
Method	X-RAY DIFFRACTION 1.91 Å
Organisms	Stenotrophomonas maltophilia R551-3
Macromolecule	Dipeptidyl-peptidase (protein)
Unique Ligands	GOL, PHE, TYR

Explore in 3D

7RUT \| pdb_00007rut	Download File View File

Structure of Human ATP:Cobalamin Adenosyltransferase R190C bound to ATP

Mascarenhas, R., Gouda, H., Koutmos, M., Banerjee, R.

(2021) J Biological Chem 297: 101373-101373

Released	2021-11-24
Method	X-RAY DIFFRACTION 1.5 Å
Organisms	Homo sapiens
Macromolecule	Corrinoid adenosyltransferase (protein)
Unique Ligands	ATP, GOL, K, MG

Explore in 3D

7RUU \| pdb_00007ruu	Download File View File

Structure of Human ATP:Cobalamin Adenosyltransferase R190C bound to adenosylcobalamin

Mascarenhas, R., Gouda, H., Koutmos, M., Banerjee, R.

(2021) J Biological Chem 297: 101373-101373

Released	2021-11-24
Method	X-RAY DIFFRACTION 1.85 Å
Organisms	Homo sapiens
Macromolecule	Corrinoid adenosyltransferase (protein)
Unique Ligands	5AD, ACT, B12, K

Explore in 3D

7RUV \| pdb_00007ruv	Download File View File

Structure of Human ATP:Cobalamin Adenosyltransferase E193K bound to adenosylcobalamin

Mascarenhas, R., Gouda, H., Koutmos, M., Banerjee, R.

(2021) J Biological Chem 297: 101373-101373

Released	2021-11-24
Method	X-RAY DIFFRACTION 2.1 Å
Organisms	Homo sapiens
Macromolecule	Corrinoid adenosyltransferase (protein)
Unique Ligands	5AD, B12, GOL, K, MG

Explore in 3D

8DYJ \| pdb_00008dyj	Download File View File

Crystal structure of human methylmalonyl-CoA mutase in complex with ADP and cob(II)alamin

Mascarenhas, R.N., Gouda, H., Banerjee, R.

(2023) Proc Natl Acad Sci U S A 120: e2220677120-e2220677120

Released	2023-07-12
Method	X-RAY DIFFRACTION 2.2 Å
Organisms	Homo sapiens
Macromolecule	Methylmalonyl-CoA mutase, mitochondrial (protein)
Unique Ligands	ADP, B12

Explore in 3D

8DYL \| pdb_00008dyl	Download File View File

Crystal structure of human methylmalonyl-CoA mutase bound to aquocobalamin

Mascarenhas, R.N., Gouda, H., Banerjee, R.

(2023) Proc Natl Acad Sci U S A 120: e2220677120-e2220677120

Released	2023-07-12
Method	X-RAY DIFFRACTION 1.9 Å
Organisms	Homo sapiens
Macromolecule	Methylmalonyl-CoA mutase, mitochondrial (protein)
Unique Ligands	B12, GOL

Explore in 3D

8GJU \| pdb_00008gju	Download File View File

Crystal structure of human methylmalonyl-CoA mutase (MMUT) in complex with methylmalonic acidemia type A protein (MMAA), coenzyme A, and GDP

Mascarenhas, R.M., Ruetz, M., Gouda, H., Yaw, M., Banerjee, R.

(2023) Nat Commun 14: 4332-4332

Released	2023-08-09
Method	X-RAY DIFFRACTION 2.79 Å
Organisms	Homo sapiens
Macromolecule	Methylmalonic aciduria type A protein, mitochondrial (protein) Methylmalonyl-CoA mutase, mitochondrial (protein)
Unique Ligands	COA, GDP, MG

1 to 19 of 19 Structures

Page 1 of 1

Sort by

About
About Us
Citing Us
Publications
Team
Careers
Usage & Privacy

Support
Contact Us
Help
Website FAQ
Glossary
Service Status

RCSB PDB is hosted by

RCSB PDB is a member of the

RCSB Partners
Nucleic Acid Knowledgebase

wwPDB Partners
RCSB PDB
PDBe
PDBj
BMRB
EMDB

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.

1BDC | pdb_00001bdc

STAPHYLOCOCCUS AUREUS PROTEIN A, IMMUNOGLOBULIN-BINDING B DOMAIN, NMR, 10 STRUCTURES

1BDD | pdb_00001bdd

STAPHYLOCOCCUS AUREUS PROTEIN A, IMMUNOGLOBULIN-BINDING B DOMAIN, NMR, MINIMIZED AVERAGE STRUCTURE

1OAV | pdb_00001oav

OMEGA-AGATOXIN IVA

1OAW | pdb_00001oaw

OMEGA-AGATOXIN IVA

3WD0 | pdb_00003wd0

Serratia marcescens Chitinase B, tetragonal form

3WD1 | pdb_00003wd1

Serratia marcescens Chitinase B complexed with syn-triazole inhibitor

3WD2 | pdb_00003wd2

Serratia marcescens Chitinase B complexed with azide inhibitor

3WD3 | pdb_00003wd3

Serratia marcescens Chitinase B complexed with azide inhibitor

3WD4 | pdb_00003wd4

Serratia marcescens Chitinase B complexed with azide inhibitor and quinoline compound

7DKB | pdb_00007dkb

Stenotrophomonas maltophilia DPP7 in complex with Val-Tyr

7DKC | pdb_00007dkc

Stenotrophomonas maltophilia DPP7 in complex with Tyr-Tyr

7DKD | pdb_00007dkd

Stenotrophomonas maltophilia DPP7 in complex with Asn-Tyr

7DKE | pdb_00007dke

Stenotrophomonas maltophilia DPP7 in complex with Phe-Tyr

7RUT | pdb_00007rut

Structure of Human ATP:Cobalamin Adenosyltransferase R190C bound to ATP

7RUU | pdb_00007ruu

Structure of Human ATP:Cobalamin Adenosyltransferase R190C bound to adenosylcobalamin

7RUV | pdb_00007ruv

Structure of Human ATP:Cobalamin Adenosyltransferase E193K bound to adenosylcobalamin

8DYJ | pdb_00008dyj

Crystal structure of human methylmalonyl-CoA mutase in complex with ADP and cob(II)alamin

8DYL | pdb_00008dyl

Crystal structure of human methylmalonyl-CoA mutase bound to aquocobalamin

8GJU | pdb_00008gju

Crystal structure of human methylmalonyl-CoA mutase (MMUT) in complex with methylmalonic acidemia type A protein (MMAA), coenzyme A, and GDP

Prepare Data

Validate Data

Deposit Data

Help and Resources

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

1BDC | pdb_00001bdc

1BDD | pdb_00001bdd

1OAV | pdb_00001oav

1OAW | pdb_00001oaw

3WD0 | pdb_00003wd0

3WD1 | pdb_00003wd1

3WD2 | pdb_00003wd2

3WD3 | pdb_00003wd3

3WD4 | pdb_00003wd4

7DKB | pdb_00007dkb

7DKC | pdb_00007dkc

7DKD | pdb_00007dkd

7DKE | pdb_00007dke

7RUT | pdb_00007rut

7RUU | pdb_00007ruu

7RUV | pdb_00007ruv

8DYJ | pdb_00008dyj

8DYL | pdb_00008dyl

8GJU | pdb_00008gju