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233,605 Structures from the PDB

1,068,577 Computed Structure Models (CSM)

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QUERY: Citation Author = "Ramachandran, R."

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Search Summary

This query matches 101 Structures.

Refinements

Structure Determination Methodology

experimental (101)

Scientific Name of Source Organism

	Methanosarcina acetivorans (18)
	Homo sapiens (17)
	Arabidopsis thaliana (11)
	Cerebratulus lacteus (9)
	Rattus norvegicus (4)
	Caenorhabditis elegans (3)
	Mycobacterium tuberculosis (3)
	Nicotiana tabacum (3)
	Agrobacterium tumefaciens (2)
	Bordetella pertussis Tohama I (2)

More...

Taxonomy

	Eukaryota (53)
	Bacteria (29)
	Archaea (19)
	other sequences (2)
	Eukaryota (eukaryotes) (1)

Experimental Method

X-RAY DIFFRACTION (101)

Polymer Entity Type

	Protein (101)
	DNA (3)

Refinement Resolution (Å)

	0.5 - 1.0 (1)
	1.0 - 1.5 (7)
	1.5 - 2.0 (33)
	2.0 - 2.5 (29)
	2.5 - 3.0 (21)
	3.0 - 3.5 (9)
	3.5 - 4.0 (1)

Release Date

	1995 - 1999 (4)
	2000 - 2004 (8)
	2005 - 2009 (12)
	2010 - 2014 (43)
	2015 - 2019 (15)
	2020 - 2024 (19)

Enzyme Classification Name

	Oxidoreductases (18)
	Hydrolases (9)
	Isomerases (3)
	Transferases (3)

Membrane Protein Annotation

OPM (2)

Symmetry Type

	Asymmetric (52)
	Cyclic (51)
	Dihedral (2)

SCOP Classification

	All alpha proteins (27)
	Alpha and beta proteins (a/b) (9)
	All beta proteins (8)
	Artifacts (3)

AllSelected

1 to 25 of 101 Structures

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1EHY \| pdb_00001ehy	Download File View File

X-ray structure of the epoxide hydrolase from agrobacterium radiobacter ad1

Nardini, M., Ridder, I.S., Rozeboom, H.J., Kalk, K.H., Rink, R., Janssen, D.B., Dijkstra, B.W.

(1999) J Biological Chem 274: 14579-14586

Released	1999-10-16
Method	X-RAY DIFFRACTION 2.1 Å
Organisms	Agrobacterium tumefaciens
Macromolecule	PROTEIN (SOLUBLE EPOXIDE HYDROLASE) (protein)
Unique Ligands	K

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1EQW \| pdb_00001eqw	Download File View File

CRYSTAL STRUCTURE OF SALMONELLA TYPHIMURIUM CU,ZN SUPEROXIDE DISMUTASE

Pesce, A., Battistoni, A., Stroppolo, M.E., Polizio, F., Nardini, M., Kroll, J.S., Langford, P.R., O'Neill, P., Sette, M., Desideri, A., Bolognesi, M.

(2000) J Mol Biology 302: 465-478

Released	2000-09-08
Method	X-RAY DIFFRACTION 2.3 Å
Organisms	Salmonella enterica subsp. enterica serovar Typhimurium
Macromolecule	CU,ZN SUPEROXIDE DISMUTASE (protein)
Unique Ligands	CU, ZN

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1EX9 \| pdb_00001ex9	Download File View File

CRYSTAL STRUCTURE OF THE PSEUDOMONAS AERUGINOSA LIPASE COMPLEXED WITH RC-(RP,SP)-1,2-DIOCTYLCARBAMOYL-GLYCERO-3-O-OCTYLPHOSPHONATE

Nardini, M., Lang, D.A., Liebeton, K., Jaeger, K.-E., Dijkstra, B.W.

(2000) J Biological Chem 275: 31219-31225

Released	2000-10-18
Method	X-RAY DIFFRACTION 2.54 Å
Organisms	Pseudomonas aeruginosa
Macromolecule	LACTONIZING LIPASE (protein)
Unique Ligands	CA, OCP

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1HKU \| pdb_00001hku	Download File View File

CtBP/BARS: a dual-function protein involved in transcription corepression and Golgi membrane fission

Nardini, M., Spano, S., Cericola, C., Pesce, A., Massaro, A., Millo, E., Luini, A., Corda, D., Bolognesi, M.

(2003) EMBO J 22: 3122

Released	2003-06-19
Method	X-RAY DIFFRACTION 2.3 Å
Organisms	Rattus norvegicus
Macromolecule	C-TERMINAL BINDING PROTEIN 3 (protein)
Unique Ligands	FMT, GOL, NAD

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1HL3 \| pdb_00001hl3	Download File View File

CtBP/BARS in ternary complex with NAD(H) and PIDLSKK peptide

Nardini, M., Spano, S., Cericola, C., Pesce, A., Massaro, A., Millo, E., Luini, A., Corda, D., Bolognesi, M.

(2003) EMBO J 22: 3122

Released	2003-06-19
Method	X-RAY DIFFRACTION 3.1 Å
Organisms	Rattus norvegicus synthetic construct
Macromolecule	C-TERMINAL BINDING PROTEIN 3 (protein) PRO-ILE-ASP-LEU-SER-LYS-LYS PEPTIDE (protein)
Unique Ligands	NAD

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1KR7 \| pdb_00001kr7	Download File View File

Crystal structure of the nerve tissue mini-hemoglobin from the nemertean worm Cerebratulus lacteus

Pesce, A., Nardini, M., Dewilde, S., Geuens, E., Yamauchi, k., Ascenzi, P., Riggs, A.F., Moens, L., Bolognesi, M.

(2002) Structure 10: 725-735

Released	2002-05-15
Method	X-RAY DIFFRACTION 1.5 Å
Organisms	Cerebratulus lacteus
Macromolecule	Neural globin (protein)
Unique Ligands	ACT, HEM, OXY, SO4

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1LHS \| pdb_00001lhs	Download File View File

LOGGERHEAD SEA TURTLE MYOGLOBIN (AQUO-MET)

Nardini, M., Tarricone, C., Lania, A., Desideri, A., De Sanctis, G., Coletta, M., Petruzzelli, R., Ascenzi, P., Coda, A., Bolognesi, M.

(1995) J Mol Biology 247: 459-465

Released	1995-06-03
Method	X-RAY DIFFRACTION 2 Å
Organisms	Caretta caretta
Macromolecule	MYOGLOBIN (protein)
Unique Ligands	HEM

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1LHT \| pdb_00001lht	Download File View File

LOGGERHEAD SEA TURTLE MYOGLOBIN (CYANO-MET)

Nardini, M., Tarricone, C., Lania, A., Desideri, A., De Sanctis, G., Coletta, M., Petruzzelli, R., Ascenzi, P., Coda, A., Bolognesi, M.

(1995) J Mol Biology 247: 459-465

Released	1995-06-03
Method	X-RAY DIFFRACTION 2 Å
Organisms	Caretta caretta
Macromolecule	MYOGLOBIN (protein)
Unique Ligands	CYN, HEM

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1OJ6 \| pdb_00001oj6	Download File View File

Human brain neuroglobin three-dimensional structure

Pesce, A., Dewilde, S., Nardini, M., Moens, L., Ascenzi, P., Hankeln, T., Burmester, T., Bolognesi, M.

(2003) Structure 11: 1087

Released	2003-09-11
Method	X-RAY DIFFRACTION 1.95 Å
Organisms	Homo sapiens
Macromolecule	Neuroglobin (protein)
Unique Ligands	HEM, SO4

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1T1V \| pdb_00001t1v	Download File View File

Crystal Structure of the Glutaredoxin-like Protein SH3BGRL3 at 1.6 A resolution

Nardini, M., Mazzocco, M., Massaro, M., Maffei, M., Vergano, A., Donadini, A., Scartezzini, M., Bolognesi, M.

(2004) Biochem Biophys Res Commun 318: 470-476

Released	2004-06-29
Method	X-RAY DIFFRACTION 1.6 Å
Organisms	Mus musculus
Macromolecule	SH3 domain-binding glutamic acid-rich protein-like 3 (protein)
Unique Ligands	ACY, GOL, SO4

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1UMA \| pdb_00001uma	Download File View File

ALPHA-THROMBIN (HIRUGEN) COMPLEXED WITH NA-(N,N-DIMETHYLCARBAMOYL)-ALPHA-AZALYSINE

Nardini, M., Pesce, A., Rizzi, M., Casale, E., Ferraccioli, R., Balliano, G., Milla, P., Ascenzi, P., Bolognesi, M.

(1996) J Mol Biology 258: 851-859

Released	1996-11-08
Method	X-RAY DIFFRACTION 2 Å
Organisms	Hirudo medicinalis Homo sapiens
Macromolecule	ALPHA-THROMBIN (protein) HIRUDIN I (protein)
Unique Ligands	IN2, NAG

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1V07 \| pdb_00001v07	Download File View File

CRYSTAL STRUCTURE OF ThrE11Val mutant of THE NERVE TISSUE MINI-HEMOGLOBIN FROM THE NEMERTEAN WORM CEREBRATULUS LACTEUS

Pesce, A., Nardini, M., Ascenzi, P., Geuens, E., Dewilde, S., Moens, L., Bolognesi, M., Riggs, A., Hale, A., Deng, P., Nienhaus, G.U., Olson, J.S., Nienhaus, K.

(2004) J Biological Chem 279: 33662

Released	2004-06-03
Method	X-RAY DIFFRACTION 1.7 Å
Organisms	Cerebratulus lacteus
Macromolecule	NEURAL HEMOGLOBIN (protein)
Unique Ligands	HEM, OXY, SO4

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2BK9 \| pdb_00002bk9	Download File View File

Drosophila Melanogaster globin

de Sanctis, D., Dewilde, S., Pesce, A., Moens, L., Ascenzi, P., Hankeln, T., Burmester, T., Ponassi, M., Nardini, M., Bolognesi, M.

(2005) J Biological Chem 280: 27222

Released	2005-05-20
Method	X-RAY DIFFRACTION 1.2 Å
Organisms	Drosophila melanogaster
Macromolecule	CG9734-PA (protein)
Unique Ligands	CL, CXS, HEM, MG

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2C0K \| pdb_00002c0k	Download File View File

The structure of hemoglobin from the botfly Gasterophilus intestinalis

Pesce, A., Nardini, M., Dewilde, S., Hoogewijs, D., Ascenzi, P., Moens, L., Bolognesi, M.

(2005) Protein Sci 14: 3057

Released	2005-11-09
Method	X-RAY DIFFRACTION 2.6 Å
Organisms	Gasterophilus intestinalis
Macromolecule	HEMOGLOBIN (protein)
Unique Ligands	HEM, OXY

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2HIH \| pdb_00002hih	Download File View File

Crystal structure of Staphylococcus hyicus lipase

Tiesinga, J.J.W., van Pouderoyen, G., Nardini, M., Dijkstra, B.W.

(2007) J Mol Biology 371: 447-456

Released	2007-05-22
Method	X-RAY DIFFRACTION 2.86 Å
Organisms	Staphylococcus hyicus
Macromolecule	Lipase 46 kDa form (protein)
Unique Ligands	CA, ZN

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2HU2 \| pdb_00002hu2	Download File View File

CTBP/BARS in ternary complex with NAD(H) and RRTGAPPAL peptide

Nardini, M., Bolognesi, M., Quinlan, K.G.R., Verger, A., Francescato, P., Crossley, M.

(2006) Mol Cell Biol 26: 8159-8172

Released	2006-10-31
Method	X-RAY DIFFRACTION 2.85 Å
Organisms	Homo sapiens Rattus norvegicus
Macromolecule	9-mer peptide from Zinc finger protein 217 (protein) C-terminal-binding protein 1 (protein)
Unique Ligands	FMT, NAD

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2IG3 \| pdb_00002ig3	Download File View File

Crystal structure of group III truncated hemoglobin from Campylobacter jejuni

Nardini, M., Pesce, A., Labarre, M., Ascenzi, P., Guertin, M., Bolognesi, M.

(2006) J Biological Chem 281: 37803-37812

Released	2006-10-10
Method	X-RAY DIFFRACTION 2.15 Å
Organisms	Campylobacter jejuni
Macromolecule	Group III truncated haemoglobin (protein)
Unique Ligands	ACT, CYN, HEM, SO4

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2VEB \| pdb_00002veb	Download File View File

High resolution structure of protoglobin from Methanosarcina acetivorans C2A

Nardini, M., Pesce, A., Thijs, L., Saito, J.A., Dewilde, S., Alam, M., Ascenzi, P., Coletta, M., Ciaccio, C., Moens, L., Bolognesi, M.

(2008) EMBO Rep 9: 157

Released	2008-01-22
Method	X-RAY DIFFRACTION 1.3 Å
Organisms	Methanosarcina acetivorans
Macromolecule	PROTOGLOBIN (protein)
Unique Ligands	GOL, HEM, OXY, PO4

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2VEE \| pdb_00002vee	Download File View File

Structure of protoglobin from Methanosarcina acetivorans C2A

Nardini, M., Pesce, A., Thijs, L., Saito, J.A., Dewilde, S., Alam, M., Ascenzi, P., Coletta, M., Ciaccio, C., Moens, L., Bolognesi, M.

(2008) EMBO Rep 9: 157

Released	2008-01-22
Method	X-RAY DIFFRACTION 2.6 Å
Organisms	Methanosarcina acetivorans
Macromolecule	PROTOGLOBIN (protein)
Unique Ligands	HEM

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2VYW \| pdb_00002vyw	Download File View File

Hemoglobin (Hb2) from trematode Fasciola hepatica

Dewilde, S., Ioanitescu, A.I., Kiger, L., Gilany, K., Marden, M.C., Van Doorslaer, S., Vercruysse, J., Pesce, A., Nardini, M., Bolognesi, M., Moens, L.

(2008) Protein Sci 17: 1653

Released	2008-08-12
Method	X-RAY DIFFRACTION 1.8 Å
Organisms	Fasciola hepatica
Macromolecule	HEMOGLOBIN (protein)
Unique Ligands	HEM, OXY

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2VYY \| pdb_00002vyy	Download File View File

Mutant Ala55Trp of Cerebratuls lacteus mini-hemoglobin

Salter, M.D., Nienhaus, K., Nienhaus, G.U., Dewilde, S., Moens, L., Pesce, A., Nardini, M., Bolognesi, M., Olson, J.S.

(2008) J Biological Chem 283: 35689

Released	2008-10-07
Method	X-RAY DIFFRACTION 1.6 Å
Organisms	Cerebratulus lacteus
Macromolecule	NEURAL HEMOGLOBIN (protein)
Unique Ligands	GOL, HEM, OXY, SO4

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2VYZ \| pdb_00002vyz	Download File View File

Mutant Ala55Phe of Cerebratulus lacteus mini-hemoglobin

Salter, M.D., Nienhaus, K., Nienhaus, G.U., Dewilde, S., Moens, L., Pesce, A., Nardini, M., Bolognesi, M., Olson, J.S.

(2008) J Biological Chem 283: 35689

Released	2008-10-07
Method	X-RAY DIFFRACTION 1.8 Å
Organisms	Cerebratulus lacteus
Macromolecule	NEURAL HEMOGLOBIN (protein)
Unique Ligands	ACT, GOL, HEM, OXY, SO4

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2W31 \| pdb_00002w31	Download File View File

globin domain of Geobacter sulfurreducens globin-coupled sensor

Pesce, A., Thijs, L., Nardini, M., Desmet, F., Sisinni, L., Gourlay, L., Bolli, A., Coletta, M., Van Doorslaer, S., Wan, X., Alam, M., Ascenzi, P., Moens, L., Bolognesi, M., Dewilde, S.

(2009) J Mol Biology 386: 246

Released	2009-01-13
Method	X-RAY DIFFRACTION 1.5 Å
Organisms	Geobacter sulfurreducens
Macromolecule	GLOBIN (protein)
Unique Ligands	GOL, HEM

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2WTG \| pdb_00002wtg	Download File View File

High resolution 3D structure of C.elegans globin-like protein GLB-1

Geuens, E., Hoogewijs, D., Nardini, M., Vinck, E., Pesce, A., Kiger, L., Fago, A., Tilleman, L., De Henau, S., Marden, M., Weber, R.E., Van Doorslaer, S., Vanfleteren, J., Moens, L., Bolognesi, M., Dewilde, S.

(2010) BMC Biochem 11: 17

Released	2010-04-21
Method	X-RAY DIFFRACTION 1.5 Å
Organisms	Caenorhabditis elegans
Macromolecule	GLOBIN-LIKE PROTEIN (protein)
Unique Ligands	HEM, OXY

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2WTH \| pdb_00002wth	Download File View File

Low resolution 3D structure of C.elegans globin-like protein (GLB-1): P3121 crystal form

(2010) BMC Biochem 11: 17

Released	2010-04-21
Method	X-RAY DIFFRACTION 2.8 Å
Organisms	Caenorhabditis elegans
Macromolecule	GLOBIN-LIKE PROTEIN (protein)
Unique Ligands	GOL, HEM, OXY, SO4

1 to 25 of 101 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

1EHY | pdb_00001ehy

1EQW | pdb_00001eqw

1EX9 | pdb_00001ex9

1HKU | pdb_00001hku

1HL3 | pdb_00001hl3

1KR7 | pdb_00001kr7

1LHS | pdb_00001lhs

1LHT | pdb_00001lht

1OJ6 | pdb_00001oj6

1T1V | pdb_00001t1v

1UMA | pdb_00001uma

1V07 | pdb_00001v07

2BK9 | pdb_00002bk9

2C0K | pdb_00002c0k

2HIH | pdb_00002hih

2HU2 | pdb_00002hu2

2IG3 | pdb_00002ig3

2VEB | pdb_00002veb

2VEE | pdb_00002vee

2VYW | pdb_00002vyw

2VYY | pdb_00002vyy

2VYZ | pdb_00002vyz

2W31 | pdb_00002w31

2WTG | pdb_00002wtg

2WTH | pdb_00002wth