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233,605 Structures from the PDB

1,068,577 Computed Structure Models (CSM)

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QUERY: Citation Author = "Song, C."

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Search Summary

This query matches 161 Structures.

Refinements

Structure Determination Methodology

experimental (161)

Scientific Name of Source Organism

	Homo sapiens (64)
	Geobacillus thermodenitrificans NG80-2 (17)
	Halobacterium salinarum NRC-1 (14)
	Gallus gallus (9)
	Chlamydomonas reinhardtii (8)
	Alcaligenes faecalis (7)
	Bacillus subtilis subsp. subtilis str. 168 (7)
	Escherichia coli K-12 (7)
	Escherichia coli (5)
	Rattus norvegicus (5)

More...

Taxonomy

	Eukaryota (115)
	Bacteria (37)
	Archaea (15)
	Riboviria (9)
	other sequences (2)

Experimental Method

	X-RAY DIFFRACTION (122)
	ELECTRON MICROSCOPY (39)

Polymer Entity Type

Protein (161)

Refinement Resolution (Å)

	0.5 - 1.0 (1)
	1.0 - 1.5 (17)
	1.5 - 2.0 (41)
	2.0 - 2.5 (43)
	2.5 - 3.0 (18)
	3.0 - 3.5 (21)
	3.5 - 4.0 (15)
	4.0 - 4.5 (2)
	> 4.5 (3)

Release Date

	2010 - 2014 (10)
	2015 - 2019 (88)
	2020 - 2024 (50)
	2025 - 2029 (13)

Enzyme Classification Name

	Oxidoreductases (21)
	Hydrolases (22)
	Transferases (7)
	Translocases (7)
	Isomerases (3)
	Ligases (1)

Membrane Protein Annotation

	PDBTM (40)
	mpstruc (28)
	OPM (11)
	MemProtMD (25)

Symmetry Type

	Cyclic (81)
	Asymmetric (74)
	Dihedral (5)
	Icosahedral (1)

SCOP Classification

	All beta proteins (55)
	Membrane and cell surface proteins and peptides (20)
	Alpha and beta proteins (a+b) (17)
	Alpha and beta proteins (a/b) (8)
	Artifacts (8)
	All alpha proteins (3)

AllSelected

1 to 25 of 161 Structures

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2YMK \| pdb_00002ymk	Download File View File

Crystal structure of the hexameric anti-microbial peptide channel dermcidin

Zeth, K.

(2013) Proc Natl Acad Sci U S A 110: 4586

Released	2012-10-17
Method	X-RAY DIFFRACTION 2.49 Å
Organisms	Homo sapiens
Macromolecule	DCD-1 (protein)
Unique Ligands	ZN

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3WUL \| pdb_00003wul	Download File View File

Crystal structure of hen egg-white lysozyme

Sugahara, M., Nango, E., Suzuki, M.

(2015) Nat Methods 12: 61-63

Released	2014-11-05
Method	X-RAY DIFFRACTION 2 Å
Organisms	Gallus gallus
Macromolecule	Lysozyme C (protein)
Unique Ligands	CL, NA

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3WUM \| pdb_00003wum	Download File View File

Crystal structure of hen egg-white lysozyme

Sugahara, M., Nango, E., Suzuki, M.

(2015) Nat Methods 12: 61-63

Released	2014-11-05
Method	X-RAY DIFFRACTION 2 Å
Organisms	Gallus gallus
Macromolecule	Lysozyme C (protein)
Unique Ligands	CL, NA

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3WXQ \| pdb_00003wxq	Download File View File

Serial femtosecond X-ray structure of human fatty acid-binding protein type-3 (FABP3) in complex with stearic acid (C18:0) determined using X-ray free-electron laser at SACLA

Mizohata, E., Suzuki, M., Kakinouchi, K., Sugiyama, S., Murata, M., Sugahara, M., Nango, E., Tanaka, T., Tanaka, R., Tono, K., Song, C., Hatsui, T., Joti, Y., Yabashi, M., Iwata, S.

(2015) Nat Methods 12: 61-63

Released	2014-11-05
Method	X-RAY DIFFRACTION 1.6 Å
Organisms	Homo sapiens
Macromolecule	Fatty acid-binding protein, heart (protein)
Unique Ligands	STE

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3WXS \| pdb_00003wxs	Download File View File

Thaumatin structure determined by SPring-8 Angstrom Compact free electron Laser (SACLA)

Masuda, T., Nango, E., Sugahara, M., Mizohata, E., Tanaka, T., Tanaka, R., Suzuki, M., Mikami, B., Iwata, S.

(2015) Nat Methods 12: 61-63

Released	2014-11-05
Method	X-RAY DIFFRACTION 2 Å
Organisms	Thaumatococcus daniellii
Macromolecule	thaumatin I (protein)
Unique Ligands	TLA

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3WXT \| pdb_00003wxt	Download File View File

Crystal structure of hen egg-white lysozyme

Sugahara, M., Nango, E., Suzuki, M.

(2015) Nat Methods 12: 61-63

Released	2014-11-05
Method	X-RAY DIFFRACTION 2 Å
Organisms	Gallus gallus
Macromolecule	Lysozyme C (protein)
Unique Ligands	CL, NA

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3WXU \| pdb_00003wxu	Download File View File

Crystal structure of hen egg-white lysozyme

Sugahara, M., Nango, E., Suzuki, M.

(2015) Nat Methods 12: 61-63

Released	2014-11-05
Method	X-RAY DIFFRACTION 2 Å
Organisms	Gallus gallus
Macromolecule	Lysozyme C (protein)
Unique Ligands	CL, NA

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4EBY \| pdb_00004eby	Download File View File

Crystal structure of the ectodomain of a receptor like kinase

Chai, J., Liu, T., Han, Z., She, J, Wang, J.

(2012) Science 336: 1160-1164

Released	2012-06-27
Method	X-RAY DIFFRACTION 1.65 Å
Organisms	Arabidopsis thaliana
Macromolecule	Chitin elicitor receptor kinase 1 (protein)
Unique Ligands	NAG
Unique branched monosaccharides	BMA, NAG

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4EBZ \| pdb_00004ebz	Download File View File

Crystal structure of the ectodomain of a receptor like kinase

Chai, J., Liu, T., Han, Z., She, J, Wang, J.

(2012) Science 336: 1160-1164

Released	2012-06-27
Method	X-RAY DIFFRACTION 1.792 Å
Organisms	Arabidopsis thaliana
Macromolecule	Chitin elicitor receptor kinase 1 (protein)
Unique branched monosaccharides	BMA, MAN, NAG

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4PLJ \| pdb_00004plj	Download File View File

Hepatitis E Virus E2s domain (Genotype IV) in complex with a neutralizing antibody 8G12

Tang, X.H., Li, S.W., Sivaraman, J.

(2015) Cell Res 25: 604-620

Released	2015-04-15
Method	X-RAY DIFFRACTION 2.3 Å
Organisms	Mus musculus Paslahepevirus balayani
Macromolecule	8G12 heavy chain (protein) 8G12 light chain (protein) Capsid protein (protein)

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4PLK \| pdb_00004plk	Download File View File

Hepatitis E Virus E2s domain (Genotype I) in complex with a neutralizing antibody 8G12

Tang, X.H., Li, S.W., Sivaraman, J.

(2015) Cell Res 25: 604-620

Released	2015-04-08
Method	X-RAY DIFFRACTION 4 Å
Organisms	Mus musculus Paslahepevirus balayani
Macromolecule	8G12 heavy chain (protein) 8G12 light chain (protein) Capsid protein (protein)

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4W4Q \| pdb_00004w4q	Download File View File

Glucose isomerase structure determined by serial femtosecond crystallography at SACLA

Nango, E., Tanaka, T., Sugahara, M., Suzuki, M., Iwata, S.

(2015) Nat Methods 12: 61-63

Released	2014-11-05
Method	X-RAY DIFFRACTION 2 Å
Organisms	Streptomyces rubiginosus
Macromolecule	Xylose isomerase (protein)
Unique Ligands	CA

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4X1I \| pdb_00004x1i	Download File View File

Discovery of cytotoxic Dolastatin 10 analogs with N-terminal modifications

Parris, K.D.

(2014) J Med Chem 57: 10527-10543

Released	2015-03-25
Method	X-RAY DIFFRACTION 3.11 Å
Organisms	Ovis aries Rattus norvegicus
Macromolecule	Stathmin-4 (protein) Tubulin alpha chain (protein) Tubulin beta chain (protein)
Unique Ligands	3WD, GDP, GTP, LOC, MG

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4X1K \| pdb_00004x1k	Download File View File

Discovery of cytotoxic Dolastatin 10 analogs with N-terminal modifications

Parris, K.D.

(2014) J Med Chem 57: 10527-10543

Released	2015-03-25
Method	X-RAY DIFFRACTION 3.5 Å
Organisms	Ovis aries Rattus norvegicus
Macromolecule	Stathmin-4 (protein) Tubulin alpha chain (protein) Tubulin beta chain (protein)
Unique Ligands	3WZ, GDP, GTP, LOC, MG

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4X1Y \| pdb_00004x1y	Download File View File

Discovery of cytotoxic Dolastatin 10 analogs with N-terminal modifications

Parris, K.D.

(2014) J Med Chem 57: 10527-10543

Released	2015-03-25
Method	X-RAY DIFFRACTION 3.19 Å
Organisms	Ovis aries Rattus norvegicus
Macromolecule	Stathmin-4 (protein) Tubulin alpha chain (protein) Tubulin beta chain (protein)
Unique Ligands	3WV, GDP, GTP, LOC, MG

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4X20 \| pdb_00004x20	Download File View File

Discovery of cytotoxic Dolastatin 10 analogs with N-terminal modifications

Parris, K.D.

(2014) J Med Chem 57: 10527-10543

Released	2015-03-25
Method	X-RAY DIFFRACTION 3.5 Å
Organisms	Ovis aries Rattus norvegicus
Macromolecule	Stathmin-4 (protein) Tubulin alpha chain (protein) Tubulin beta chain (protein)
Unique Ligands	3WY, GDP, GTP, LOC, MG

Explore in 3D

4YOP \| pdb_00004yop	Download File View File

CRYSTAL STRUCTURE OF HEN EGG-WHITE LYSOZYME

Sugahara, M., Nakane, T., Suzuki, M., Nango, E.

(2015) Acta Crystallogr D Biol Crystallogr 71: 2519-2525

Released	2015-12-23
Method	X-RAY DIFFRACTION 2.1 Å
Organisms	Gallus gallus
Macromolecule	Lysozyme C (protein)
Unique Ligands	CL, NA

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4YSA \| pdb_00004ysa	Download File View File

Completely oxidized structure of copper nitrite reductase from Geobacillus thermodenitrificans

Fukuda, Y., Tse, K.M., Suzuki, M., Diederichs, K., Hirata, K., Nakane, T., Sugahara, M., Nango, E., Tono, K., Joti, Y., Kameshima, T., Song, C., Hatsui, T., Yabashi, M., Nureki, O., Matsumura, H., Inoue, T., Iwata, S., Mizohata, E.

(2016) J Biochem 159: 527-538

Released	2016-02-24
Method	X-RAY DIFFRACTION 1.43 Å
Organisms	Geobacillus thermodenitrificans NG80-2
Macromolecule	Nitrite reductase (protein)
Unique Ligands	CU, NA

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4YSC \| pdb_00004ysc	Download File View File

Completely oxidized structure of copper nitrite reductase from Alcaligenes faecalis

(2016) Proc Natl Acad Sci U S A 113: 2928-2933

Released	2016-03-09
Method	X-RAY DIFFRACTION 2.03 Å
Organisms	Alcaligenes faecalis
Macromolecule	Copper-containing nitrite reductase (protein)
Unique Ligands	CL, CU

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4YSD \| pdb_00004ysd	Download File View File

Room temperature structure of copper nitrite reductase from Geobacillus thermodenitrificans

(2016) J Biochem 159: 527-538

Released	2016-02-24
Method	X-RAY DIFFRACTION 1.35 Å
Organisms	Geobacillus thermodenitrificans NG80-2
Macromolecule	Nitrite reductase (protein)
Unique Ligands	ACY, CU

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4YSE \| pdb_00004yse	Download File View File

High resolution synchrotron structure of copper nitrite reductase from Alcaligenes faecalis

(2016) Proc Natl Acad Sci U S A 113: 2928-2933

Released	2016-03-09
Method	X-RAY DIFFRACTION 1.2 Å
Organisms	Alcaligenes faecalis
Macromolecule	Copper-containing nitrite reductase (protein)
Unique Ligands	ACY, CU, MPD

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4YSO \| pdb_00004yso	Download File View File

Copper nitrite reductase from Geobacillus thermodenitrificans - 0.064 MGy

(2016) J Biochem 159: 527-538

Released	2016-02-24
Method	X-RAY DIFFRACTION 1.5 Å
Organisms	Geobacillus thermodenitrificans NG80-2
Macromolecule	Nitrite reductase (protein)
Unique Ligands	CU, MPD, SO4

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4YSP \| pdb_00004ysp	Download File View File

Structure of copper nitrite reductase from Geobacillus thermodenitrificans - 8.32 MGy

Fukuda, Y., Tse, K.M., Suzuki, M., Diedrichs, K., Hirata, K., Nakane, T., Sugahara, M., Nango, E., Tono, K., Joti, Y., Kameshima, T., Song, C., Hatsui, T., Yabashi, M., Nureki, O., Matsumura, H., Inoue, T., Iwata, S., Mizohata, E.

(2016) J Biochem 159: 527-538

Released	2016-02-24
Method	X-RAY DIFFRACTION 1.34 Å
Organisms	Geobacillus thermodenitrificans NG80-2
Macromolecule	Nitrite reductase (protein)
Unique Ligands	CU, MPD, SO4

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4YSQ \| pdb_00004ysq	Download File View File

Structure of copper nitrite reductase from Geobacillus thermodenitrificans - 8.38 MGy

(2016) J Biochem 159: 527-538

Released	2016-02-24
Method	X-RAY DIFFRACTION 1.5 Å
Organisms	Geobacillus thermodenitrificans NG80-2
Macromolecule	Nitrite reductase (protein)
Unique Ligands	CU, MPD, SO4

Explore in 3D

4YSR \| pdb_00004ysr	Download File View File

Structure of copper nitrite reductase from Geobacillus thermodenitrificans - 16.6 MGy

(2016) J Biochem 159: 527-538

Released	2016-02-24
Method	X-RAY DIFFRACTION 1.34 Å
Organisms	Geobacillus thermodenitrificans NG80-2
Macromolecule	Nitrite reductase (protein)
Unique Ligands	CU, MPD, SO4

1 to 25 of 161 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

2YMK | pdb_00002ymk

3WUL | pdb_00003wul

3WUM | pdb_00003wum

3WXQ | pdb_00003wxq

3WXS | pdb_00003wxs

3WXT | pdb_00003wxt

3WXU | pdb_00003wxu

4EBY | pdb_00004eby

4EBZ | pdb_00004ebz

4PLJ | pdb_00004plj

4PLK | pdb_00004plk

4W4Q | pdb_00004w4q

4X1I | pdb_00004x1i

4X1K | pdb_00004x1k

4X1Y | pdb_00004x1y

4X20 | pdb_00004x20

4YOP | pdb_00004yop

4YSA | pdb_00004ysa

4YSC | pdb_00004ysc

4YSD | pdb_00004ysd

4YSE | pdb_00004yse

4YSO | pdb_00004yso

4YSP | pdb_00004ysp

4YSQ | pdb_00004ysq

4YSR | pdb_00004ysr