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233,605 Structures from the PDB

1,068,577 Computed Structure Models (CSM)

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QUERY: Citation Author = "Iyer, M.R."

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Search Summary

This query matches 39 Structures.

Refinements

Structure Determination Methodology

experimental (39)

Scientific Name of Source Organism

	Homo sapiens (25)
	Mus musculus (19)
	synthetic construct (11)
	Escherichia coli K-12 (9)
	Streptococcus pneumoniae TIGR4 (3)
	Escherichia coli (2)
	Equus caballus (1)

Taxonomy

	Eukaryota (36)
	Bacteria (14)
	other sequences (11)

Experimental Method

	ELECTRON MICROSCOPY (22)
	X-RAY DIFFRACTION (17)

Polymer Entity Type

	Protein (39)
	DNA (30)

Refinement Resolution (Å)

	1.0 - 1.5 (2)
	1.5 - 2.0 (1)
	2.5 - 3.0 (5)
	3.0 - 3.5 (13)
	3.5 - 4.0 (10)
	4.0 - 4.5 (8)

Release Date

	2000 - 2004 (1)
	2010 - 2014 (7)
	2015 - 2019 (10)
	2020 - 2024 (21)

Enzyme Classification Name

	Hydrolases (27)
	Transferases (31)
	Lyases (6)
	Ligases (1)

Symmetry Type

	Asymmetric (38)
	Cyclic (2)

SCOP Classification

	Alpha and beta proteins (a/b) (4)
	All beta proteins (1)
	Coiled coil proteins (1)
	Membrane and cell surface proteins and peptides (1)
	All alpha proteins (1)
	Artifacts (1)

AllSelected

1 to 25 of 39 Structures

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1FU1 \| pdb_00001fu1	Download File View File

CRYSTAL STRUCTURE OF HUMAN XRCC4

Junop, M., Modesti, M., Guarne, A., Gellert, M., Yang, W.

(2000) EMBO J 19: 5962-5970

Released	2000-12-11
Method	X-RAY DIFFRACTION 2.7 Å
Organisms	Homo sapiens
Macromolecule	DNA REPAIR PROTEIN XRCC4 (protein)
Unique Ligands	ACY

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2YP6 \| pdb_00002yp6	Download File View File

Crystal structure of the pneumoccocal exposed lipoprotein thioredoxin sp_1000 (Etrx2) from Streptococcus pneumoniae strain TIGR4 in complex with Cyclofos 3 TM

Bartual, S.G., Shalek, M., Abdullah, M.R., Jensch, I., Asmat, T.M., Petruschka, L., Pribyl, T., Hermoso, J.A., Hammerschmidt, S.

(2013) EMBO Mol Med 5: 1852

Released	2013-10-30
Method	X-RAY DIFFRACTION 1.767 Å
Organisms	Streptococcus pneumoniae TIGR4
Macromolecule	THIOREDOXIN FAMILY PROTEIN (protein)
Unique Ligands	C6W, MLI

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3THW \| pdb_00003thw	Download File View File

Human MutSbeta complexed with an IDL of 4 bases (Loop4) and ADP

Yang, W.

(2012) Nat Struct Mol Biol 19: 72-78

Released	2011-12-21
Method	X-RAY DIFFRACTION 3.09 Å
Organisms	Homo sapiens
Macromolecule	DNA mismatch repair protein Msh2 (protein) DNA mismatch repair protein Msh3 (protein) DNA Loop4 hairpin (nucleic acid)
Unique Ligands	ADP

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3THX \| pdb_00003thx	Download File View File

Human MutSbeta complexed with an IDL of 3 bases (Loop3) and ADP

Yang, W.

(2012) Nat Struct Mol Biol 19: 72-78

Released	2011-12-21
Method	X-RAY DIFFRACTION 2.7 Å
Organisms	Homo sapiens
Macromolecule	DNA mismatch repair protein Msh2 (protein) DNA mismatch repair protein Msh3 (protein) DNA Loop3 minus strand (nucleic acid) DNA Loop3 plus strand (nucleic acid)
Unique Ligands	ADP, NA

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3THY \| pdb_00003thy	Download File View File

Human MutSbeta complexed with an IDL of 2 bases (Loop2) and ADP

Yang, W.

(2012) Nat Struct Mol Biol 19: 72-78

Released	2011-12-21
Method	X-RAY DIFFRACTION 2.894 Å
Organisms	Homo sapiens
Macromolecule	DNA mismatch repair protein Msh2 (protein) DNA mismatch repair protein Msh3 (protein) DNA Loop2 minus strand (nucleic acid) DNA Loop2 plus strand (nucleic acid)
Unique Ligands	ADP

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3THZ \| pdb_00003thz	Download File View File

Human MutSbeta complexed with an IDL of 6 bases (Loop6) and ADP

Yang, W.

(2012) Nat Struct Mol Biol 19: 72-78

Released	2011-12-21
Method	X-RAY DIFFRACTION 4.3 Å
Organisms	Homo sapiens
Macromolecule	DNA mismatch repair protein Msh2 (protein) DNA mismatch repair protein Msh3 (protein) DNA Loop6 minus strand (nucleic acid) DNA Loop6 plus strand (nucleic acid)
Unique Ligands	ADP

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4HQS \| pdb_00004hqs	Download File View File

Crystal structure of the pneumoccocal exposed lipoprotein thioredoxin sp_0659 (Etrx1) from Streptococcus pneumoniae strain TIGR4

Bartual, S.G., Saleh, M., Abdullah, M.R., Jensch, I., Asmat, T.M., Petruschka, L., Pribyl, T., Hermoso, J.A., Hammerschmidt, S.

(2013) EMBO Mol Med 5: 1852-1870

Released	2013-12-25
Method	X-RAY DIFFRACTION 1.48 Å
Organisms	Streptococcus pneumoniae TIGR4
Macromolecule	Thioredoxin family protein (protein)
Unique Ligands	GOL, MG

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4HQZ \| pdb_00004hqz	Download File View File

Crystal structure of the pneumoccocal exposed lipoprotein thioredoxin sp_1000 (Etrx2) from Streptococcus pneumoniae strain TIGR4 in complex with 2-hydroxyethyl disulfide

Bartual, S.G., Saleh, M., Abdullah, M.R., Jensch, I., Asmat, T.M., Petruschka, L., Pribyl, T., Hermoso, J.A., Hammerschmidt, S.

(2013) EMBO Mol Med 5: 1852-1870

Released	2013-12-25
Method	X-RAY DIFFRACTION 1.22 Å
Organisms	Streptococcus pneumoniae TIGR4
Macromolecule	Thioredoxin family protein (protein)
Unique Ligands	HED, PEG

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4WWX \| pdb_00004wwx	Download File View File

Crystal structure of the core RAG1/2 recombinase

Kim, M.S., Lapkouski, M., Yang, W., Gellert, M.

(2015) Nature 518: 507-511

Released	2015-02-25
Method	X-RAY DIFFRACTION 3.2001 Å
Organisms	Mus musculus
Macromolecule	V(D)J recombination-activating protein 1 (protein) V(D)J recombination-activating protein 2 (protein)
Unique Ligands	ZN

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5ZDZ \| pdb_00005zdz	Download File View File

Hairpin Forming Complex, RAG1/2-Nicked 12RSS/23RSS complex in Ca2+

Kim, M.S., Chuenchor, W., Chen, X., Gellert, M., Yang, W.

(2018) Mol Cell 70: 358-370.e4

Released	2018-04-25
Method	X-RAY DIFFRACTION 2.8 Å
Organisms	Mus musculus synthetic construct
Macromolecule	Unique protein chains: 3 Unique nucleic acid chains: 6
Unique Ligands	CA, EDO, K, ZN

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5ZE0 \| pdb_00005ze0	Download File View File

Hairpin Forming Complex, RAG1/2-Nicked(with Dideoxy) 12RSS/23RSS complex in Mg2+

Kim, M.S., Chuenchor, W., Chen, X., Gellert, M., Yang, W.

(2018) Mol Cell 70: 358-370.e4

Released	2018-04-25
Method	X-RAY DIFFRACTION 2.75 Å
Organisms	Mus musculus synthetic construct
Macromolecule	Unique protein chains: 3 Unique nucleic acid chains: 6
Unique Ligands	EDO, K, MG, ZN

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5ZE1 \| pdb_00005ze1	Download File View File

Hairpin Forming Complex, RAG1/2-Nicked 12RSS/23RSS complex in 2mM Mn2+ for 10 min at 4'C

Kim, M.S., Chuenchor, W., Chen, X., Gellert, M., Yang, W.

(2018) Mol Cell 70: 358-370.e4

Released	2018-04-25
Method	X-RAY DIFFRACTION 3 Å
Organisms	Mus musculus synthetic construct
Macromolecule	Unique protein chains: 3 Unique nucleic acid chains: 6
Unique Ligands	EDO, K, MN, ZN

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5ZE2 \| pdb_00005ze2	Download File View File

Hairpin Complex, RAG1/2-hairpin 12RSS/23RSS complex in 5mM Mn2+ for 2 min at 4'C

Kim, M.S., Chuenchor, W., Chen, X., Gellert, M., Yang, W.

(2018) Mol Cell 70: 358-370.e4

Released	2018-04-25
Method	X-RAY DIFFRACTION 3.3 Å
Organisms	Mus musculus synthetic construct
Macromolecule	Unique protein chains: 3 Unique nucleic acid chains: 6
Unique Ligands	EDO, K, MN, ZN

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6CG0 \| pdb_00006cg0	Download File View File

Cryo-EM structure of mouse RAG1/2 HFC complex (3.17 A)

Chen, X., Kim, M., Chuenchor, W., Cui, Y., Zhang, X., Zhou, Z.H., Gellert, M., Yang, W.

(2018) Mol Cell 70: 358-370.e4

Released	2018-04-25
Method	ELECTRON MICROSCOPY 3.17 Å
Organisms	Escherichia coli K-12 Homo sapiens Mus musculus
Macromolecule	Unique protein chains: 3 Unique nucleic acid chains: 6
Unique Ligands	CA, ZN

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6CIJ \| pdb_00006cij	Download File View File

Cryo-EM structure of mouse RAG1/2 HFC complex containing partial HMGB1 linker(3.9 A)

Chen, X., Kim, M., Chuenchor, W., Cui, Y., Zhang, X., Zhou, Z.H., Gellert, M., Yang, W.

(2018) Mol Cell 70: 358-370.e4

Released	2018-04-25
Method	ELECTRON MICROSCOPY 3.9 Å
Organisms	Homo sapiens Mus musculus
Macromolecule	Unique protein chains: 3 Unique nucleic acid chains: 6
Unique Ligands	CA, ZN

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6CIK \| pdb_00006cik	Download File View File

Pre-Reaction Complex, RAG1(E962Q)/2-intact/nicked 12/23RSS complex in Mn2+

Chuenchor, W., Chen, X., Kim, M.S., Gellert, M., Yang, W.

(2018) Mol Cell 70: 358-370.e4

Released	2018-04-25
Method	X-RAY DIFFRACTION 3.15 Å
Organisms	Homo sapiens Mus musculus
Macromolecule	Unique protein chains: 3 Unique nucleic acid chains: 5
Unique Ligands	MN, ZN

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6CIL \| pdb_00006cil	Download File View File

PRE-REACTION COMPLEX, RAG1(E962Q)/2-INTACT/INTACT 12/23RSS COMPLEX IN MN2+

Chuenchor, W., Chen, X., Kim, M.S., Gellert, M., Yang, W.

(2018) Mol Cell 70: 358-370.e4

Released	2018-04-25
Method	X-RAY DIFFRACTION 4.15 Å
Organisms	Homo sapiens Mus musculus
Macromolecule	Unique protein chains: 3 Unique nucleic acid chains: 4
Unique Ligands	MN, ZN

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6CIM \| pdb_00006cim	Download File View File

Pre-Reaction Complex, RAG1(E962Q)/2-nicked/intact 12/23RSS complex in Mn2+

Chuenchor, W., Chen, X., Kim, M.S., Gellert, M., Yang, W.

(2018) Mol Cell 70: 358-370.e4

Released	2018-04-25
Method	X-RAY DIFFRACTION 3.6 Å
Organisms	Homo sapiens Mus musculus
Macromolecule	Unique protein chains: 3 Unique nucleic acid chains: 5
Unique Ligands	MN, ZN

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6OEM \| pdb_00006oem	Download File View File

Cryo-EM structure of mouse RAG1/2 PRC complex (DNA0)

Chen, X., Cui, Y., Zhou, Z.H., Yang, W., Gellert, M.

(2020) Nat Struct Mol Biol 27: 119-126

Released	2020-01-29
Method	ELECTRON MICROSCOPY 3.6 Å
Organisms	Escherichia coli K-12 Homo sapiens Mus musculus
Macromolecule	Unique protein chains: 3 Unique nucleic acid chains: 4
Unique Ligands	MG, ZN

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6OEN \| pdb_00006oen	Download File View File

Cryo-EM structure of mouse RAG1/2 PRC complex (DNA1)

Chen, X., Cui, Y., Zhou, Z.H., Yang, W., Gellert, M.

(2020) Nat Struct Mol Biol 27: 119-126

Released	2020-01-29
Method	ELECTRON MICROSCOPY 4.3 Å
Organisms	Escherichia coli K-12 Homo sapiens Mus musculus
Macromolecule	Unique protein chains: 3 Unique nucleic acid chains: 4
Unique Ligands	CA, ZN

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6OEO \| pdb_00006oeo	Download File View File

Cryo-EM structure of mouse RAG1/2 NFC complex (DNA1)

Chen, X., Cui, Y., Zhou, Z.H., Yang, W., Gellert, M.

(2020) Nat Struct Mol Biol 27: 119-126

Released	2020-01-29
Method	ELECTRON MICROSCOPY 3.69 Å
Organisms	Escherichia coli K-12 Homo sapiens Mus musculus
Macromolecule	Unique protein chains: 3 Unique nucleic acid chains: 4
Unique Ligands	CA, ZN

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6OEP \| pdb_00006oep	Download File View File

Cryo-EM structure of mouse RAG1/2 12RSS-NFC/23RSS-PRC complex (DNA1)

Chen, X., Cui, Y., Zhou, Z.H., Yang, W., Gellert, M.

(2020) Nat Struct Mol Biol 27: 119-126

Released	2020-01-29
Method	ELECTRON MICROSCOPY 3.7 Å
Organisms	Escherichia coli K-12 Mus musculus
Macromolecule	Unique protein chains: 2 Unique nucleic acid chains: 4
Unique Ligands	CA, ZN

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6OEQ \| pdb_00006oeq	Download File View File

Cryo-EM structure of mouse RAG1/2 12RSS-PRC/23RSS-NFC complex (DNA1)

Chen, X., Cui, Y., Zhou, Z.H., Yang, W., Gellert, M.

(2020) Nat Struct Mol Biol 27: 119-126

Released	2020-01-29
Method	ELECTRON MICROSCOPY 4.3 Å
Organisms	Escherichia coli K-12 Mus musculus
Macromolecule	Unique protein chains: 2 Unique nucleic acid chains: 4
Unique Ligands	CA, ZN

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6OER \| pdb_00006oer	Download File View File

Cryo-EM structure of mouse RAG1/2 NFC complex (DNA2)

Chen, X., Cui, Y., Zhou, Z.H., Yang, W., Gellert, M.

(2020) Nat Struct Mol Biol 27: 119-126

Released	2020-01-29
Method	ELECTRON MICROSCOPY 3.29 Å
Organisms	Equus caballus Escherichia coli K-12 Mus musculus
Macromolecule	Unique protein chains: 3 Unique nucleic acid chains: 4
Unique Ligands	CA, ZN

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6OES \| pdb_00006oes	Download File View File

Cryo-EM structure of mouse RAG1/2 STC complex (without NBD domain)

Chen, X., Cui, Y., Zhou, Z.H., Yang, W., Gellert, M.

(2020) Nat Struct Mol Biol 27: 127-133

Released	2020-01-22
Method	ELECTRON MICROSCOPY 3.06 Å
Organisms	Escherichia coli K-12 Mus musculus
Macromolecule	Unique protein chains: 2 Unique nucleic acid chains: 5
Unique Ligands	CA, ZN

1 to 25 of 39 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

Symmetry Type

SCOP Classification

1FU1 | pdb_00001fu1

2YP6 | pdb_00002yp6

3THW | pdb_00003thw

3THX | pdb_00003thx

3THY | pdb_00003thy

3THZ | pdb_00003thz

4HQS | pdb_00004hqs

4HQZ | pdb_00004hqz

4WWX | pdb_00004wwx

5ZDZ | pdb_00005zdz

5ZE0 | pdb_00005ze0

5ZE1 | pdb_00005ze1

5ZE2 | pdb_00005ze2

6CG0 | pdb_00006cg0

6CIJ | pdb_00006cij

6CIK | pdb_00006cik

6CIL | pdb_00006cil

6CIM | pdb_00006cim

6OEM | pdb_00006oem

6OEN | pdb_00006oen

6OEO | pdb_00006oeo

6OEP | pdb_00006oep

6OEQ | pdb_00006oeq

6OER | pdb_00006oer

6OES | pdb_00006oes