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: Citation Author = "Yan, N."

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 225 Structures.

Refinements

Structure Determination Methodology

experimental (225)

Scientific Name of Source Organism

	Homo sapiens (116)
	Oryctolagus cuniculus (21)
	Xanthomonas campestris pv. armoraciae (19)
	Sus scrofa (14)
	Arabidopsis thaliana (10)
	Escherichia coli K-12 (7)
	Caenorhabditis elegans (4)
	Drosophila melanogaster (4)
	Halalkalibacterium halodurans C-125 (4)
	Mycobacterium tuberculosis H37Rv (4)

More...

Taxonomy

	Eukaryota (177)
	Bacteria (47)
	Eukaryota (eukaryotes) (3)
	unclassified sequences (3)
	other sequences (2)
	Archaea (1)
	Riboviria (1)

Experimental Method

	ELECTRON MICROSCOPY (142)
	X-RAY DIFFRACTION (82)
	SOLUTION NMR (1)

Polymer Entity Type

	Protein (225)
	DNA (23)
	RNA (3)

Refinement Resolution (Å)

	1.5 - 2.0 (19)
	2.0 - 2.5 (30)
	2.5 - 3.0 (50)
	3.0 - 3.5 (70)
	3.5 - 4.0 (28)
	4.0 - 4.5 (18)
	> 4.5 (9)

Release Date

	2000 - 2004 (8)
	2005 - 2009 (10)
	2010 - 2014 (43)
	2015 - 2019 (66)
	2020 - 2024 (97)
	2025 - 2029 (1)

Enzyme Classification Name

	Hydrolases (15)
	Isomerases (16)
	Transferases (10)
	Translocases (6)
	Oxidoreductases (2)

Membrane Protein Annotation

	PDBTM (138)
	mpstruc (115)
	MemProtMD (97)
	OPM (95)

Symmetry Type

	Asymmetric (165)
	Cyclic (57)
	Dihedral (4)
	Helical (2)

SCOP Classification

	All alpha proteins (21)
	Artifacts (18)
	Membrane and cell surface proteins and peptides (8)
	Small proteins (4)
	All beta proteins (4)
	Alpha and beta proteins (a/b) (4)
	Alpha and beta proteins (a+b) (1)
	Peptides (1)

AllSelected

1 to 25 of 225 Structures

Page 1 of 9

Sort by

Explore in 3D

1OZJ \| pdb_00001ozj	Download File View File

Crystal structure of Smad3-MH1 bound to DNA at 2.4 A resolution

Chai, J., Wu, J.-W., Yan, N., Massague, J., Pavletich, N.P., Shi, Y.

(2003) J Biological Chem 278: 20327-20331

Released	2004-03-23
Method	X-RAY DIFFRACTION 2.4 Å
Organisms	Homo sapiens
Macromolecule	SMAD 3 (protein) Smad binding element (nucleic acid)
Unique Ligands	ZN

Explore in 3D

1Q4Q \| pdb_00001q4q	Download File View File

Crystal structure of a DIAP1-Dronc complex

Chai, J., Yan, N., Shi, Y.

(2003) Nat Struct Biol 10: 892-898

Released	2003-11-04
Method	X-RAY DIFFRACTION 2.1 Å
Organisms	Drosophila melanogaster
Macromolecule	Apoptosis 1 inhibitor (protein) Nedd2-like caspase CG8091-PA (protein)
Unique Ligands	ZN

Explore in 3D

1SDZ \| pdb_00001sdz	Download File View File

Crystal structure of DIAP1 BIR1 bound to a Reaper peptide

Yan, N., Wu, J.W., Shi, Y.

(2004) Nat Struct Mol Biol 11: 420-428

Released	2004-04-27
Method	X-RAY DIFFRACTION 1.78 Å
Organisms	Drosophila melanogaster
Macromolecule	Apoptosis 1 inhibitor (protein) Reaper (protein)
Unique Ligands	ZN

Explore in 3D

1SE0 \| pdb_00001se0	Download File View File

Crystal structure of DIAP1 BIR1 bound to a Grim peptide

Yan, N., Wu, J.W., Shi, Y.

(2004) Nat Struct Mol Biol 11: 420-428

Released	2004-04-27
Method	X-RAY DIFFRACTION 1.75 Å
Organisms	Drosophila melanogaster
Macromolecule	Apoptosis 1 inhibitor (protein) Cell death protein Grim (protein)
Unique Ligands	ZN

Explore in 3D

1T29 \| pdb_00001t29	Download File View File

Crystal structure of the BRCA1 BRCT repeats bound to a phosphorylated BACH1 peptide

Shiozaki, E.N., Gu, L., Yan, N., Shi, Y.

(2004) Mol Cell 14: 405-412

Released	2004-05-11
Method	X-RAY DIFFRACTION 2.3 Å
Organisms	Homo sapiens
Macromolecule	BACH1 phosphorylated peptide (protein) Breast cancer type 1 susceptibility protein (protein)

Explore in 3D

1TY4 \| pdb_00001ty4	Download File View File

Crystal structure of a CED-9/EGL-1 complex

Yan, N., Gu, L., Kokel, D., Xue, D., Shi, Y.

(2004) Mol Cell 15: 999-1006

Released	2004-09-28
Method	X-RAY DIFFRACTION 2.2 Å
Organisms	Caenorhabditis elegans
Macromolecule	Apoptosis regulator ced-9 (protein) EGg Laying defective EGL-1, programmed cell death activator (protein)

Explore in 3D

1U6T \| pdb_00001u6t	Download File View File

Crystal structure of the human SH3 binding glutamic-rich protein like

Yin, L., Xiang, Y., Yang, N., Zhu, D.-Y., Huang, R.-H., Wang, D.-C.

(2005) Proteins 61: 213-216

Released	2005-08-09
Method	X-RAY DIFFRACTION 1.9 Å
Organisms	Homo sapiens
Macromolecule	SH3 domain-binding glutamic acid-rich-like protein (protein)
Unique Ligands	CIT

Explore in 3D

1XZY \| pdb_00001xzy	Download File View File

Solution structure of the P30-trans form of Alpha Hemoglobin Stabilizing Protein (AHSP)

Gell, D.A., Feng, L., Zhou, S., Kong, Y., Lee, C., Weiss, M.J., Shi, Y., Mackay, J.P.

(2004) Cell 119: 629-640

Released	2004-12-21
Method	SOLUTION NMR
Organisms	Homo sapiens
Macromolecule	Alpha-hemoglobin stabilizing protein (protein)

Explore in 3D

1Y01 \| pdb_00001y01	Download File View File

Crystal structure of AHSP bound to Fe(II) alpha-hemoglobin

Feng, L., Gell, D.A., Zhou, S., Gu, L., Gow, A.J., Weiss, M.J., Mackay, J.P., Shi, Y.

(2004) Cell 119: 629-640

Released	2004-12-21
Method	X-RAY DIFFRACTION 2.8 Å
Organisms	Homo sapiens
Macromolecule	Alpha-hemoglobin stabilizing protein (protein) Hemoglobin alpha chain (protein)
Unique Ligands	CHK, HEM, OXY

Explore in 3D

2A5Y \| pdb_00002a5y	Download File View File

Structure of a CED-4/CED-9 complex

Yan, N., Liu, Q., Hao, Q., Gu, L., Shi, Y.

(2005) Nature 437: 831-837

Released	2005-10-11
Method	X-RAY DIFFRACTION 2.6 Å
Organisms	Caenorhabditis elegans
Macromolecule	Apoptosis regulator ced-9 (protein) ced-4 (protein)
Unique Ligands	ATP, MG

Explore in 3D

2FP3 \| pdb_00002fp3	Download File View File

Crystal structure of the Drosophila initiator caspase Dronc

Yan, N., Gu, L., Shi, Y.

(2006) J Biological Chem 281: 8667-8674

Released	2006-01-31
Method	X-RAY DIFFRACTION 2.5 Å
Organisms	Drosophila melanogaster
Macromolecule	Caspase Nc (protein)

Explore in 3D

2NRF \| pdb_00002nrf	Download File View File

Crystal Structure of GlpG, a Rhomboid family intramembrane protease

Wu, Z., Yan, N., Feng, L., Yan, H., Gu, L., Shi, Y.

(2006) Nat Struct Mol Biol 13: 1084-1091

Released	2006-11-14
Method	X-RAY DIFFRACTION 2.6 Å
Organisms	Escherichia coli
Macromolecule	Protein GlpG (protein)

Explore in 3D

3B4R \| pdb_00003b4r	Download File View File

Site-2 Protease from Methanocaldococcus jannaschii

Jeffrey, P.D., Feng, L., Yan, H., Wu, Z., Yan, N., Wang, Z., Shi, Y.

(2007) Science 318: 1608-1612

Released	2008-01-15
Method	X-RAY DIFFRACTION 3.3 Å
Organisms	Methanocaldococcus jannaschii
Macromolecule	Putative zinc metalloprotease MJ0392 (protein)
Unique Ligands	ZN

Explore in 3D

3J8H \| pdb_00003j8h	Download File View File

Structure of the rabbit ryanodine receptor RyR1 in complex with FKBP12 at 3.8 Angstrom resolution

Yan, Z., Bai, X., Yan, C., Wu, J., Scheres, S.H.W., Shi, Y., Yan, N.

(2015) Nature 517: 50-55

Released	2014-12-10
Method	ELECTRON MICROSCOPY 3.8 Å
Organisms	Oryctolagus cuniculus
Macromolecule	Peptidyl-prolyl cis-trans isomerase FKBP1A (protein) Ryanodine receptor 1 (protein)
Unique Ligands	ZN

Explore in 3D

3JBR \| pdb_00003jbr	Download File View File

Cryo-EM structure of the rabbit voltage-gated calcium channel Cav1.1 complex at 4.2 angstrom

Wu, J.P., Yan, Z., Yan, N.

(2015) Science 350: aad2395-aad2395

Released	2015-12-30
Method	ELECTRON MICROSCOPY 4.2 Å
Organisms	Oryctolagus cuniculus Rattus norvegicus
Macromolecule	Voltage-dependent L-type calcium channel subunit alpha-1S (protein) Voltage-dependent L-type calcium channel subunit beta-2 (protein) Voltage-dependent calcium channel gamma-1 subunit (protein) Voltage-dependent calcium channel subunit alpha-2/delta-1 (protein)
Unique Ligands	BMA, CA, NAG

Explore in 3D

3JD8 \| pdb_00003jd8	Download File View File

cryo-EM structure of the full-length human NPC1 at 4.4 angstrom

Gong, X., Qian, H.W., Zhou, X.H., Wu, J.P., Zhou, Q., Yan, N.

To be published

Released	2016-06-01
Method	ELECTRON MICROSCOPY 4.43 Å
Organisms	Homo sapiens
Macromolecule	Niemann-Pick C1 protein (protein)
Unique Ligands	CLR, NAG
Unique branched monosaccharides	BMA, MAN, NAG

Explore in 3D

3KCU \| pdb_00003kcu	Download File View File

Structure of formate channel

Wang, Y., Huang, Y., Wang, J., Yan, N., Shi, Y.

(2009) Nature 462: 467-472

Released	2009-12-01
Method	X-RAY DIFFRACTION 2.243 Å
Organisms	Escherichia coli O157:H7
Macromolecule	Probable formate transporter 1 (protein)
Unique Ligands	MA5

Explore in 3D

3KCV \| pdb_00003kcv	Download File View File

Structure of formate channel

Wang, Y., Huang, Y., Wang, J., Yan, N., Shi, Y.

(2009) Nature 462: 467-472

Released	2009-12-01
Method	X-RAY DIFFRACTION 3.198 Å
Organisms	Escherichia coli O157:H7
Macromolecule	Probable formate transporter 1 (protein)

Explore in 3D

3KDH \| pdb_00003kdh	Download File View File

Structure of ligand-free PYL2

Yin, P., Fan, H., Hao, Q., Yuan, X., Yan, N.

(2009) Nat Struct Mol Biol 16: 1230-1236

Released	2009-11-10
Method	X-RAY DIFFRACTION 1.653 Å
Organisms	Arabidopsis thaliana
Macromolecule	Putative uncharacterized protein At2g26040 (protein)

Explore in 3D

3KDI \| pdb_00003kdi	Download File View File

Structure of (+)-ABA bound PYL2

Yin, P., Fan, H., Hao, Q., Yuan, X., Yan, N.

(2009) Nat Struct Mol Biol 16: 1230-1236

Released	2009-11-10
Method	X-RAY DIFFRACTION 2.379 Å
Organisms	Arabidopsis thaliana
Macromolecule	Putative uncharacterized protein At2g26040 (protein)
Unique Ligands	A8S

Explore in 3D

3KDJ \| pdb_00003kdj	Download File View File

Complex structure of (+)-ABA-bound PYL1 and ABI1

Yin, P., Fan, H., Hao, Q., Yuan, X., Yan, N.

(2009) Nat Struct Mol Biol 16: 1230-1236

Released	2009-11-10
Method	X-RAY DIFFRACTION 1.878 Å
Organisms	Arabidopsis thaliana
Macromolecule	Protein phosphatase 2C 56 (protein) Putative uncharacterized protein At5g46790 (protein)
Unique Ligands	A8S, MN

Explore in 3D

3LQQ \| pdb_00003lqq	Download File View File

Structure of the CED-4 Apoptosome

Qi, S., Pang, Y., Shi, Y., Yan, N., Liu, Q.

(2010) Cell 141: 446-457

Released	2010-04-28
Method	X-RAY DIFFRACTION 3.534 Å
Organisms	Caenorhabditis elegans
Macromolecule	Cell death protein 4 (protein)
Unique Ligands	ATP, MG

Explore in 3D

3LQR \| pdb_00003lqr	Download File View File

Structure of CED-4:CED-3 complex

Qi, S., Pang, Y., Shi, Y., Yan, N.

(2010) Cell 141: 446-457

Released	2010-04-28
Method	X-RAY DIFFRACTION 3.896 Å
Organisms	Caenorhabditis elegans
Macromolecule	Cell death protein 4 (protein)
Unique Ligands	ATP, MG

Explore in 3D

3NEF \| pdb_00003nef	Download File View File

High-resolution pyrabactin-bound PYL1 structure

Yan, N.

(2010) J Biological Chem 285: 28946-28952

Released	2010-06-16
Method	X-RAY DIFFRACTION 2.4 Å
Organisms	Arabidopsis thaliana
Macromolecule	Abscisic acid receptor PYL1 (protein)
Unique Ligands	PYV

Explore in 3D

3NEG \| pdb_00003neg	Download File View File

Pyrabactin-bound PYL1 structure in the open and close forms

Yan, N.

(2010) J Biological Chem 285: 28946-28952

Released	2010-06-16
Method	X-RAY DIFFRACTION 2.801 Å
Organisms	Arabidopsis thaliana
Macromolecule	Abscisic acid receptor PYL1 (protein)
Unique Ligands	BR, PYV

1 to 25 of 225 Structures

Page 1 of 9

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.

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

Membrane Protein Annotation

Symmetry Type

SCOP Classification

1OZJ | pdb_00001ozj

1Q4Q | pdb_00001q4q

1SDZ | pdb_00001sdz

1SE0 | pdb_00001se0

1T29 | pdb_00001t29

1TY4 | pdb_00001ty4

1U6T | pdb_00001u6t

1XZY | pdb_00001xzy

1Y01 | pdb_00001y01

2A5Y | pdb_00002a5y

2FP3 | pdb_00002fp3

2NRF | pdb_00002nrf

3B4R | pdb_00003b4r

3J8H | pdb_00003j8h

3JBR | pdb_00003jbr

3JD8 | pdb_00003jd8

3KCU | pdb_00003kcu

3KCV | pdb_00003kcv

3KDH | pdb_00003kdh

3KDI | pdb_00003kdi

3KDJ | pdb_00003kdj

3LQQ | pdb_00003lqq

3LQR | pdb_00003lqr

3NEF | pdb_00003nef

3NEG | pdb_00003neg