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232,829 Structures from the PDB

1,068,577 Computed Structure Models (CSM)

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QUERY: Source Organism Taxonomy Name (Full Lineage) = "Marinomonas sp. MWYL1"

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Search Summary

This query matches 5,414 Structures.

Refinements

Structure Determination Methodology

	computational (5,128)
	experimental (286)

CSM Source Database

AlphaFoldDB (5,128)

pLDDT Global Quality Score

	< 50.0 (200)
	50.0 - 70.0 (959)
	70.0 - 90.0 (2,727)
	> 90.0 (1,242)

Scientific Name of Source Organism

	Schizosaccharomyces pombe 972h- (5,410)
	synthetic construct (20)
	Schizosaccharomyces pombe (13)
	Homo sapiens (10)
	Saccharomyces cerevisiae S288C (6)
	Bos taurus (5)
	Schizosaccharomyces pombe (strain 972 / ATCC 24843) (4)
	Drosophila melanogaster (2)
	Enterobacteria phage RB59 (2)
	Escherichia coli K-12 (2)

More...

Taxonomy

	Eukaryota (5,414)
	other sequences (20)
	Bacteria (6)
	Eukaryota (eukaryotes) (4)
	Duplodnaviria (2)

Experimental Method

	X-RAY DIFFRACTION (218)
	ELECTRON MICROSCOPY (57)
	SOLUTION NMR (11)

Polymer Entity Type

	Protein (5,414)
	DNA (28)
	RNA (13)

Refinement Resolution (Å)

	0.5 - 1.0 (1)
	1.0 - 1.5 (13)
	1.5 - 2.0 (54)
	2.0 - 2.5 (69)
	2.5 - 3.0 (67)
	3.0 - 3.5 (38)
	3.5 - 4.0 (16)
	4.0 - 4.5 (8)
	> 4.5 (9)

Release Date

	2005 - 2009 (5)
	2010 - 2014 (81)
	2015 - 2019 (112)
	2020 - 2024 (5,216)

Enzyme Classification Name

	Transferases (671)
	Hydrolases (570)
	Oxidoreductases (214)
	Ligases (108)
	Lyases (79)
	Isomerases (69)
	Translocases (24)

Membrane Protein Annotation

	OPM (3)
	mpstruc (3)
	PDBTM (2)
	MemProtMD (1)

Symmetry Type

	Asymmetric (5,233)
	Cyclic (56)
	Dihedral (10)
	Tetrahedral (1)

SCOP Classification

	All beta proteins (15)
	Alpha and beta proteins (a+b) (22)
	Artifacts (13)
	Alpha and beta proteins (a/b) (5)
	All alpha proteins (6)
	Small proteins (1)
	Coiled coil proteins (1)
	Peptides (1)
	Multi-domain proteins (alpha and beta) (1)

AllSelected

1 to 25 of 5,414 Structures

Page 1 of 217

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2DZE	Download File View File

Crystal structure of histone chaperone Asf1 in complex with a C-terminus of histone H3

Padmanabhan, B., Yokoyama, S., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

To be published

Released	2007-10-16
Method	X-RAY DIFFRACTION 1.8 Å
Organisms	Schizosaccharomyces pombe Schizosaccharomyces pombe (strain 972 / ATCC 24843)
Macromolecule	10-mer peptide from Histone H3.1/H3.2 (protein) Histone chaperone cia1 (protein)
Unique Ligands	PGE

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2L3N	Download File View File

Solution structure of Rap1-Taz1 fusion protein

Zhou, Z.R., Wang, F., Chen, Y., Lei, M., Hu, H.

(2011) Nat Struct Mol Biol 18: 213-221

Released	2011-01-12
Method	SOLUTION NMR
Organisms	Schizosaccharomyces pombe 972h-
Macromolecule	DNA-binding protein rap1,Telomere length regulator taz1 (protein)

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2LUY	Download File View File

Solution structure of the tandem zinc finger domain of fission yeast Stc1

He, C., Shi, Y., Bayne, E., Wu, J.

(2013) Proc Natl Acad Sci U S A 110: E1879-E1888

Released	2013-05-08
Method	SOLUTION NMR
Organisms	Schizosaccharomyces pombe 972h-
Macromolecule	Meiotic chromosome segregation protein P8B7.28c (protein)
Unique Ligands	ZN

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2LVX	Download File View File

MRH domain of the Glucosidase II beta subunit from S. pombe

Dahms, N.M., Olson, L.J., Peterson, F.C.

(2013) J Biological Chem 288: 16460-16475

Released	2013-05-01
Method	SOLUTION NMR
Organisms	Schizosaccharomyces pombe 972h-
Macromolecule	Glucosidase 2 subunit beta (protein)

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2M7X	Download File View File

Structural and Functional Analysis of Transmembrane Segment IV of the Salt Tolerance Protein Sod2

Ullah, A., Kemp, G., Lee, B., Alves, C., Young, H., Sykes, B.D., Fliegel, L.

(2013) J Biological Chem 288: 24609-24624

Released	2013-06-05
Method	SOLUTION NMR
Organisms	Schizosaccharomyces pombe 972h-
Macromolecule	Na(+)/H(+) antiporter (protein)

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2N1H	Download File View File

Solution structure of the GBII-beta MRH domain W409A point mutant

Olson, L.J., Peterson, F.C., Damhs, N.M.

To be published

Released	2015-12-09
Method	SOLUTION NMR
Organisms	Schizosaccharomyces pombe 972h-
Macromolecule	Glucosidase 2 subunit beta (protein)

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2RSN	Download File View File

Solution structure of the chromodomain of Chp1 in complex with H3K9me3 peptide

Shimojo, H., Nishimura, Y.

(2012) Mol Cell 47: 228-241

Released	2012-08-29
Method	SOLUTION NMR
Organisms	Schizosaccharomyces pombe Schizosaccharomyces pombe 972h-
Macromolecule	Chromo domain-containing protein 1 (protein) peptide from Histone H3 (protein)

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2RSO	Download File View File

Solution structure of the chromodomain of Swi6

Shimojo, H., Nishimura, Y.

(2012) Mol Cell 47: 228-241

Released	2012-08-29
Method	SOLUTION NMR
Organisms	Schizosaccharomyces pombe 972h-
Macromolecule	Chromatin-associated protein swi6 (protein)

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2RT3	Download File View File

Solution structure of the second RRM domain of Nrd1

Kobayashi, A., Kanaba, T., Mishima, M.

(2013) Biochem Biophys Res Commun 437: 12-17

Released	2014-04-16
Method	SOLUTION NMR
Organisms	Schizosaccharomyces pombe 972h-
Macromolecule	Negative regulator of differentiation 1 (protein)

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2RUJ	Download File View File

Solution structure of MTSL spin-labeled Schizosaccharomyces pombe Sin1 CRIM domain

Furuita, K., Kataoka, S., Sugiki, T., Kobayashi, N., Ikegami, T., Shiozaki, K., Fujiwara, T., Kojima, C.

(2015) J Biomol NMR 61: 55-64

Released	2015-07-29
Method	SOLUTION NMR
Organisms	Schizosaccharomyces pombe 972h-
Macromolecule	Stress-activated map kinase-interacting protein 1 (protein)

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2RVK	Download File View File

Refined solution structure of Schizosaccharomyces pombe Sin1 CRIM domain

Furuita, K., Kataoka, S., Shiozaki, K., Kojima, C.

(2017) Elife 6:

Released	2017-01-25
Method	SOLUTION NMR
Organisms	Schizosaccharomyces pombe 972h-
Macromolecule	Stress-activated map kinase-interacting protein 1 (protein)

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2Z34	Download File View File

Crystal structure of SpCia1/Asf1 complex with Hip1

Malay, A.D., Padmanabhan, B., Yokoyama, S., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

(2008) J Biological Chem 283: 14022-14031

Released	2008-03-11
Method	X-RAY DIFFRACTION 2.4 Å
Organisms	Schizosaccharomyces pombe Schizosaccharomyces pombe (strain 972 / ATCC 24843)
Macromolecule	Histone chaperone cia1 (protein) Protein hir1 (protein)

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3AYH	Download File View File

Crystal structure of the C17/25 subcomplex from S. pombe RNA Polymerase III

Ehara, H., Sekine, S., Yokoyama, S.

(2011) Protein Sci 20: 1558-1565

Released	2011-07-13
Method	X-RAY DIFFRACTION 2.193 Å
Organisms	Schizosaccharomyces pombe 972h-
Macromolecule	DNA-directed RNA polymerase III subunit rpc8 (protein) DNA-directed RNA polymerase III subunit rpc9 (protein)
Unique Ligands	SO4

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3FP4	Download File View File

Crystal structure of Tom71 complexed with Ssa1 C-terminal fragment

Li, J., Qian, X., Hu, J., Sha, B.

(2009) J Biological Chem 284: 23852-23859

Released	2009-07-28
Method	X-RAY DIFFRACTION 2.14 Å
Organisms	Saccharomyces cerevisiae Schizosaccharomyces pombe (strain 972 / ATCC 24843)
Macromolecule	Ssa1 (protein) TPR repeat-containing protein YHR117W (protein)
Unique Ligands	CL, NA, SO4

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3G7L	Download File View File

Chromodomain of Chp1 in complex with Histone H3K9me3 peptide

Schalch, T., Joshua-Tor, L.

(2009) Mol Cell 34: 36-46

Released	2009-04-21
Method	X-RAY DIFFRACTION 2.2 Å
Organisms	Schizosaccharomyces pombe Schizosaccharomyces pombe (strain 972 / ATCC 24843)
Macromolecule	Chromo domain-containing protein 1 (protein) Histone H3.1/H3.2 (protein)
Unique Ligands	ACY, ZN

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3H0G	Download File View File

RNA Polymerase II from Schizosaccharomyces pombe

Spahr, H., Calero, G., Bushnell, D.A., Kornberg, R.D.

(2009) Proc Natl Acad Sci U S A 106: 9185-9190

Released	2009-08-25
Method	X-RAY DIFFRACTION 3.65 Å
Organisms	Schizosaccharomyces pombe 972h-
Macromolecule	Unique protein chains: 12
Unique Ligands	MG, ZN

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3JB9	Download File View File

Cryo-EM structure of the yeast spliceosome at 3.6 angstrom resolution

Yan, C., Hang, J., Wan, R., Huang, M., Wong, C., Shi, Y.

(2015) Science 349: 1182-1191

Released	2015-09-23
Method	ELECTRON MICROSCOPY 3.6 Å
Organisms	Schizosaccharomyces pombe Schizosaccharomyces pombe 972h-
Macromolecule	Unique protein chains: 28 Unique nucleic acid chains: 5
Unique Ligands	ADP, GDP, MG, ZN

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3S6I	Download File View File

Schizosaccaromyces pombe 3-methyladenine DNA glycosylase (Mag1) in complex with abasic-DNA.

Adhikary, S., Eichman, B.F.

(2011) EMBO Rep 12: 1286-1292

Released	2011-12-14
Method	X-RAY DIFFRACTION 2.28 Å
Organisms	Schizosaccharomyces pombe 972h-
Macromolecule	DNA-3-methyladenine glycosylase 1 (protein) (5'-D(APAPGPAPCPTPTPGPGPAPC)-3') (nucleic acid) (5'-D(TPGPTPCPCPAP(3DR)PGPTPCPT)-3') (nucleic acid)
Unique Ligands	NA

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3SP4	Download File View File

Crystal structure of aprataxin ortholog Hnt3 from Schizosaccharomyces pombe

Gong, Y., Zhu, D., Ding, J., Dou, C., Ren, X., Jiang, T., Wang, D.

(2011) Nat Struct Mol Biol 18: 1297-1299

Released	2011-10-12
Method	X-RAY DIFFRACTION 1.8 Å
Organisms	Schizosaccharomyces pombe 972h-
Macromolecule	Aprataxin-like protein (protein)
Unique Ligands	SO4, ZN

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3SPD	Download File View File

Crystal structure of aprataxin ortholog Hnt3 in complex with DNA

Gong, Y., Zhu, D., Ding, J., Dou, C., Ren, X., Jiang, T., Wang, D.

(2011) Nat Struct Mol Biol 18: 1297-1299

Released	2011-10-12
Method	X-RAY DIFFRACTION 1.912 Å
Organisms	Schizosaccharomyces pombe 972h-
Macromolecule	Aprataxin-like protein (protein) DNA (5'-D(GPTPCPAPCPTPAPTPCPGPGPAPAPTPGPAPG)-3') (nucleic acid) DNA (5'-D(TPAPTPTPCPCPGPAPTPAPGPTPGPAPC)-3') (nucleic acid)
Unique Ligands	SO4, ZN

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3SPL	Download File View File

Crystal structure of aprataxin ortholog Hnt3 in complex with DNA and AMP

Gong, Y., Zhu, D., Ding, J., Dou, C., Ren, X., Jiang, T., Wang, D.

(2011) Nat Struct Mol Biol 18: 1297-1299

Released	2011-10-12
Method	X-RAY DIFFRACTION 2.101 Å
Organisms	Schizosaccharomyces pombe 972h-
Macromolecule	Aprataxin-like protein (protein) DNA (5'-D(GPTPCPAPCPTPAPTPCPGPGPAPAPTPGPAPG)-3') (nucleic acid) DNA (5'-D(TPAPTPTPCPCPGPAPTPAPGPTPGPAPC)-3') (nucleic acid)
Unique Ligands	AMP, SO4, ZN

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3SWN	Download File View File

Structure of the LSm657 Complex: An Assembly Intermediate of the LSm1 7 and LSm2 8 Rings

Mund, M., Neu, A., Ullmann, J.L., Neu, U., Sprangers, R.

(2011) J Mol Biology 414: 165-176

Released	2011-10-26
Method	X-RAY DIFFRACTION 2.5 Å
Organisms	Schizosaccharomyces pombe 972h-
Macromolecule	U6 snRNA-associated Sm-like protein LSm5 (protein) U6 snRNA-associated Sm-like protein LSm6 (protein) U6 snRNA-associated Sm-like protein LSm7 (protein)
Unique Ligands	ZN

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3SZQ	Download File View File

Structure of an S. pombe APTX/DNA/AMP/Zn complex

Tumbale, P., Krahn, J., Williams, R.S.

(2011) Nat Struct Mol Biol 18: 1189-1195

Released	2011-10-12
Method	X-RAY DIFFRACTION 2.353 Å
Organisms	Schizosaccharomyces pombe 972h-
Macromolecule	Aprataxin-like protein (protein) 5'-D(CPCPCPTPG)-3' (nucleic acid) 5'-D(TPAPTPCPGPGPAPAPTPCPAPGPGP*G)-3' (nucleic acid)
Unique Ligands	AMP, BME, ZN

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3TIX	Download File View File

Crystal structure of the Chp1-Tas3 complex core

Schalch, T., Joshua-Tor, L.

(2011) Nat Struct Mol Biol 18: 1351-1357

Released	2011-11-16
Method	X-RAY DIFFRACTION 2.9001 Å
Organisms	Saccharomyces cerevisiae S288C Schizosaccharomyces pombe 972h-
Macromolecule	Chromo domain-containing protein 1 (protein) Ubiquitin-like protein SMT3,RNA-induced transcriptional silencing complex protein tas3 (protein)
Unique Ligands	CL, K

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3TY3	Download File View File

Crystal structure of homoisocitrate dehydrogenase from Schizosaccharomyces pombe bound to glycyl-glycyl-glycine

Bulfer, S.L., Hendershot, J.M., Trievel, R.C.

(2012) Proteins 80: 661-666

Released	2011-11-09
Method	X-RAY DIFFRACTION 1.85 Å
Organisms	Schizosaccharomyces pombe 972h-
Macromolecule	Probable homoisocitrate dehydrogenase (protein)
Unique Ligands	GGG, GOL