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

239,267
Structures from the PDB archive

1,068,577
Computed Structure Models (CSM)

	Include CSM
Advanced Search \| Browse Annotations		Help

Search
Query History
Browse Annotations
MyPDB

QUERY: Source Organism Taxonomy Name (Full Lineage) = "Trematomus bernacchii"

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 12 Structures.

Refinements

Structure Determination Methodology

experimental (12)

Scientific Name of Source Organism

Trematomus bernacchii (12)

Taxonomy

Eukaryota (12)

Experimental Method

X-RAY DIFFRACTION (12)

Polymer Entity Type

Protein (12)

Refinement Resolution (Å)

	1.0 - 1.5 (3)
	1.5 - 2.0 (3)
	2.0 - 2.5 (3)
	2.5 - 3.0 (3)

Release Date

	1990 - 1994 (1)
	1995 - 1999 (1)
	2000 - 2004 (2)
	2005 - 2009 (5)
	2010 - 2014 (3)

Symmetry Type

Cyclic (12)

SCOP Classification

All alpha proteins (12)

AllSelected

1 to 12 of 12 Structures

Page 1 of 1

Sort by

Explore in 3D

1HBH \| pdb_00001hbh	Download File View File

STRUCTURE OF DEOXYHAEMOGLOBIN OF THE ANTARCTIC FISH PAGOTHENIA BERNACCHII AND STRUCTURAL BASIS OF THE ROOT EFFECT

Ito, N., Komiyama, N.H., Fermi, G.

(1995) J Mol Biology 250: 648-658

Released	1995-04-20
Method	X-RAY DIFFRACTION 2.2 Å
Organisms	Trematomus bernacchii
Macromolecule	HEMOGLOBIN (DEOXY) (ALPHA CHAIN) (protein) HEMOGLOBIN (DEOXY) (BETA CHAIN) (protein)
Unique Ligands	HEM

Explore in 3D

1PBX \| pdb_00001pbx	Download File View File

HAEMOGLOBIN OF THE ANTARCTIC FISH PAGOTHENIA BERNACCHII: AMINO ACID SEQUENCE, OXYGEN EQUILIBRIA AND CRYSTAL STRUCTURE OF ITS CARBONMONOXY DERIVATIVE

Fermi, G.

(1992) J Mol Biology 224: 449-460

Released	1992-10-15
Method	X-RAY DIFFRACTION 2.5 Å
Organisms	Trematomus bernacchii
Macromolecule	HEMOGLOBIN (CARBONMONOXY) (ALPHA CHAIN) (protein) HEMOGLOBIN (CARBONMONOXY) (BETA CHAIN) (protein)
Unique Ligands	CMO, HEM

Explore in 3D

1S5X \| pdb_00001s5x	Download File View File

The crystal structure of Trematomus bernacchii hemoglobin oxidized by air

Vitagliano, L., Bonomi, G., Riccio, A., di Prisco, G., Smulevich, G., Mazzarella, L.

(2004) Eur J Biochem 271: 1651-1659

Released	2004-05-04
Method	X-RAY DIFFRACTION 2.4 Å
Organisms	Trematomus bernacchii
Macromolecule	Hemoglobin alpha chain (protein) Hemoglobin beta chain (protein)
Unique Ligands	HEM

Explore in 3D

1S5Y \| pdb_00001s5y	Download File View File

The crystal structure of Trematomus bernacchii hemoglobin oxidized by ferricyanide

Vitagliano, L., Bonomi, G., Riccio, A., di Prisco, G., Smulevich, G., Mazzarella, L.

(2004) Eur J Biochem 271: 1651-1659

Released	2004-05-04
Method	X-RAY DIFFRACTION 2.5 Å
Organisms	Trematomus bernacchii
Macromolecule	Hemoglobin alpha chain (protein) Hemoglobin beta chain (protein)
Unique Ligands	HEM

Explore in 3D

2H8D \| pdb_00002h8d	Download File View File

Crystal structure of deoxy hemoglobin from Trematomus bernacchii at pH 8.4

Mazzarella, L., Vergara, A., Vitagliano, L., Merlino, A., Bonomi, G., Scala, S., Verde, C., di Prisco, G.

(2006) Proteins 65: 490-498

Released	2006-08-29
Method	X-RAY DIFFRACTION 1.78 Å
Organisms	Trematomus bernacchii
Macromolecule	Hemoglobin alpha subunit (protein) Hemoglobin beta subunit (protein)
Unique Ligands	HEM, K

Explore in 3D

2H8F \| pdb_00002h8f	Download File View File

Crystal structure of deoxy hemoglobin from Trematomus bernacchii at pH 6.2

Mazzarella, L., Vergara, A., Vitagliano, L., Merlino, A., Bonomi, G., Scala, S., Verde, C., di Prisco, G.

(2006) Proteins 65: 490-498

Released	2006-08-29
Method	X-RAY DIFFRACTION 1.3 Å
Organisms	Trematomus bernacchii
Macromolecule	Hemoglobin alpha subunit (protein) Hemoglobin beta subunit (protein)
Unique Ligands	HEM

Explore in 3D

2PEG \| pdb_00002peg	Download File View File

Crystal structure of Trematomus bernacchii hemoglobin in a partial hemichrome state

Vergara, A., Franzese, M., Merlino, A., Vitagliano, L., Mazzarella, L.

(2007) Biophys J 93: 2822-2829

Released	2007-07-24
Method	X-RAY DIFFRACTION 1.48 Å
Organisms	Trematomus bernacchii
Macromolecule	Hemoglobin subunit alpha (protein) Hemoglobin subunit beta (protein)
Unique Ligands	HEM

Explore in 3D

3GKV \| pdb_00003gkv	Download File View File

X-ray structure of an intermediate along the oxidation pathway of Trematomus bernacchii hemoglobin

Merlino, A., Vitagliano, L., Sica, F., Vergara, A., Mazzarella, L.

(2009) Biopolymers 91: 1117-1125

Released	2009-05-05
Method	X-RAY DIFFRACTION 1.4 Å
Organisms	Trematomus bernacchii
Macromolecule	Hemoglobin subunit alpha (protein) Hemoglobin subunit beta (protein)
Unique Ligands	CMO, HEM

Explore in 3D

3GQG \| pdb_00003gqg	Download File View File

Crystal structure at acidic pH of the ferric form of the Root effect hemoglobin from Trematomus bernacchii.

Vergara, A., Franzese, M., Merlino, A., Bonomi, G., Mazzarella, L.

(2009) Biophys J 97: 866-874

Released	2009-10-13
Method	X-RAY DIFFRACTION 1.73 Å
Organisms	Trematomus bernacchii
Macromolecule	Hemoglobin subunit alpha (protein) Hemoglobin subunit beta (protein)
Unique Ligands	HEM

Explore in 3D

4G51 \| pdb_00004g51	Download File View File

Crystallographic analysis of the interaction of nitric oxide with hemoglobin from Trematomus bernacchii in the T quaternary structure (fully ligated state).

Merlino, A., Balsamo, A., Pica, A., Mazzarella, L., Vergara, A.

(2013) Acta Crystallogr D Biol Crystallogr 69: 137-140

Released	2013-01-16
Method	X-RAY DIFFRACTION 2.5 Å
Organisms	Trematomus bernacchii
Macromolecule	Hemoglobin subunit alpha (protein) Hemoglobin subunit beta (protein)
Unique Ligands	HEM, NO

Explore in 3D

4IRO \| pdb_00004iro	Download File View File

Crystal structure of T-state carbonmonoxy hemoglobin from Trematomus bernacchii at pH 8.4

Merlino, A., Balsamo, A., Mazzarella, L., Vergara, A.

(2013) Biochim Biophys Acta 1834: 1885-1893

Released	2013-02-20
Method	X-RAY DIFFRACTION 2.2 Å
Organisms	Trematomus bernacchii
Macromolecule	Hemoglobin subunit alpha (protein) Hemoglobin subunit beta (protein)
Unique Ligands	CMO, HEM

Explore in 3D

4ODC \| pdb_00004odc	Download File View File

Crystal structure of Trematomus bernacchii hemoglobin in a partially cyanided state

Mazzarella, L., Merlino, A., Vitagliano, L., Vergara, A.

(2014) RSC Adv 4: 25852-25856

Released	2014-12-24
Method	X-RAY DIFFRACTION 1.54 Å
Organisms	Trematomus bernacchii
Macromolecule	Hemoglobin subunit alpha (protein) Hemoglobin subunit beta (protein)
Unique Ligands	CYN, GOL, HEM

1 to 12 of 12 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.

1HBH | pdb_00001hbh

STRUCTURE OF DEOXYHAEMOGLOBIN OF THE ANTARCTIC FISH PAGOTHENIA BERNACCHII AND STRUCTURAL BASIS OF THE ROOT EFFECT

1PBX | pdb_00001pbx

HAEMOGLOBIN OF THE ANTARCTIC FISH PAGOTHENIA BERNACCHII: AMINO ACID SEQUENCE, OXYGEN EQUILIBRIA AND CRYSTAL STRUCTURE OF ITS CARBONMONOXY DERIVATIVE

1S5X | pdb_00001s5x

The crystal structure of Trematomus bernacchii hemoglobin oxidized by air

1S5Y | pdb_00001s5y

The crystal structure of Trematomus bernacchii hemoglobin oxidized by ferricyanide

2H8D | pdb_00002h8d

Crystal structure of deoxy hemoglobin from Trematomus bernacchii at pH 8.4

2H8F | pdb_00002h8f

Crystal structure of deoxy hemoglobin from Trematomus bernacchii at pH 6.2

2PEG | pdb_00002peg

Crystal structure of Trematomus bernacchii hemoglobin in a partial hemichrome state

3GKV | pdb_00003gkv

X-ray structure of an intermediate along the oxidation pathway of Trematomus bernacchii hemoglobin

3GQG | pdb_00003gqg

Crystal structure at acidic pH of the ferric form of the Root effect hemoglobin from Trematomus bernacchii.

4G51 | pdb_00004g51

Crystallographic analysis of the interaction of nitric oxide with hemoglobin from Trematomus bernacchii in the T quaternary structure (fully ligated state).

4IRO | pdb_00004iro

Crystal structure of T-state carbonmonoxy hemoglobin from Trematomus bernacchii at pH 8.4

4ODC | pdb_00004odc

Crystal structure of Trematomus bernacchii hemoglobin in a partially cyanided state

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

Symmetry Type

SCOP Classification

1HBH | pdb_00001hbh

1PBX | pdb_00001pbx

1S5X | pdb_00001s5x

1S5Y | pdb_00001s5y

2H8D | pdb_00002h8d

2H8F | pdb_00002h8f

2PEG | pdb_00002peg

3GKV | pdb_00003gkv

3GQG | pdb_00003gqg

4G51 | pdb_00004g51

4IRO | pdb_00004iro

4ODC | pdb_00004odc