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233,605 Structures from the PDB

1,068,577 Computed Structure Models (CSM)

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QUERY: Structure Author = "Srivastava, D."

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Search Summary

This query matches 24 Structures.

Refinements

Structure Determination Methodology

experimental (24)

Scientific Name of Source Organism

	Homo sapiens (20)
	Mus musculus (5)
	Bos taurus (4)
	Escherichia coli O157:H7 (2)
	synthetic construct (1)

Taxonomy

	Eukaryota (24)
	Bacteria (2)
	other sequences (1)

Experimental Method

	X-RAY DIFFRACTION (18)
	ELECTRON MICROSCOPY (6)

Polymer Entity Type

	Protein (24)
	DNA (1)

Refinement Resolution (Å)

	1.0 - 1.5 (2)
	1.5 - 2.0 (7)
	2.0 - 2.5 (5)
	2.5 - 3.0 (3)
	3.0 - 3.5 (5)
	3.5 - 4.0 (2)

Release Date

	2010 - 2014 (4)
	2015 - 2019 (7)
	2020 - 2024 (13)

Enzyme Classification Name

	Transferases (8)
	Hydrolases (4)
	Oxidoreductases (4)

Symmetry Type

	Cyclic (13)
	Asymmetric (7)
	Dihedral (5)

SCOP Classification

	Alpha and beta proteins (a/b) (6)
	Artifacts (3)

AllSelected

1 to 24 of 24 Structures

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3V9G \| pdb_00003v9g	Download File View File

Crystal structure of human 1-pyrroline-5-carboxylate dehydrogenase

Tanner, J.J., Srivastava, D.

(2012) J Mol Biology 420: 176-189

Released	2012-05-02
Method	X-RAY DIFFRACTION 2.5 Å
Organisms	Homo sapiens
Macromolecule	Delta-1-pyrroline-5-carboxylate dehydrogenase, mitochondrial (protein)

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3V9J \| pdb_00003v9j	Download File View File

Crystal structure of mouse 1-pyrroline-5-carboxylate dehydrogenase complexed with sulfate ion

Tanner, J.J., Srivastava, D.

(2012) J Mol Biology 420: 176-189

Released	2012-05-02
Method	X-RAY DIFFRACTION 1.299 Å
Organisms	Mus musculus
Macromolecule	Delta-1-pyrroline-5-carboxylate dehydrogenase, mitochondrial (protein)
Unique Ligands	GOL, SO4

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3V9K \| pdb_00003v9k	Download File View File

Crystal structure of mouse 1-pyrroline-5-carboxylate dehydrogenase complexed with the product glutamate

Tanner, J.J., Srivastava, D.

(2012) J Mol Biology 420: 176-189

Released	2012-05-02
Method	X-RAY DIFFRACTION 1.501 Å
Organisms	Mus musculus
Macromolecule	Delta-1-pyrroline-5-carboxylate dehydrogenase, mitochondrial (protein)
Unique Ligands	GLU, GOL

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3V9L \| pdb_00003v9l	Download File View File

Crystal structure of mouse 1-pyrroline-5-carboxylate dehydrogenase complexed with NAD+

Tanner, J.J., Srivastava, D.

(2012) J Mol Biology 420: 176-189

Released	2012-05-02
Method	X-RAY DIFFRACTION 1.502 Å
Organisms	Mus musculus
Macromolecule	Delta-1-pyrroline-5-carboxylate dehydrogenase, mitochondrial (protein)
Unique Ligands	GOL, NAD

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6B6U \| pdb_00006b6u	Download File View File

Pyruvate Kinase M2 mutant - S437Y

Srivastava, D., Dey, M.

(2017) Biochemistry 56: 6517-6520

Released	2017-12-20
Method	X-RAY DIFFRACTION 1.35 Å
Organisms	Homo sapiens
Macromolecule	Pyruvate kinase PKM (protein)
Unique Ligands	B3P, CL, EDO, K, MG, OXL, PEG, PG4, SCN

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6N84 \| pdb_00006n84	Download File View File

MBP-fusion protein of transducin-alpha residues 327-350

Srivastava, D., Gakhar, L., Artemyev, N.O.

(2019) Nat Commun 10: 3084-3084

Released	2019-07-10
Method	X-RAY DIFFRACTION 1.75 Å
Organisms	Escherichia coli O157:H7 Homo sapiens
Macromolecule	Maltose/maltodextrin-binding periplasmic protein,Guanine nucleotide-binding protein G(t) subunit alpha-2 (protein)
Unique Ligands	SO4
Unique branched monosaccharides	GLC

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6N85 \| pdb_00006n85	Download File View File

Resistance to inhibitors of cholinesterase 8A (Ric8A) protein in complex with MBP-tagged transducin-alpha residues 327-350

Srivastava, D., Gakhar, L., Artemyev, N.O.

(2019) Nat Commun 10: 3084-3084

Released	2019-07-10
Method	X-RAY DIFFRACTION 2.5 Å
Organisms	Bos taurus Escherichia coli O157:H7 Homo sapiens
Macromolecule	Maltose/maltodextrin-binding periplasmic protein,Guanine nucleotide-binding protein G(t) subunit alpha-2 (protein) Synembryn-A (protein)
Unique branched monosaccharides	GLC

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6N86 \| pdb_00006n86	Download File View File

Resistance to inhibitors of cholinesterase 8A (Ric8A) protein

Srivastava, D., Gakhar, L., Artemyev, N.O.

(2019) Nat Commun 10: 3084-3084

Released	2019-07-10
Method	X-RAY DIFFRACTION 3.9 Å
Organisms	Bos taurus
Macromolecule	Synembryn-A (protein)

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6NU1 \| pdb_00006nu1	Download File View File

Crystal Structure of Human PKM2 in Complex with L-cysteine

Srivastava, D., Nandi, S., Dey, M.

(2019) Biochemistry 58: 3669-3682

Released	2019-08-21
Method	X-RAY DIFFRACTION 2.25 Å
Organisms	Homo sapiens
Macromolecule	Pyruvate kinase PKM (protein)
Unique Ligands	CYS, FBP, K, MG, OXL

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6NU5 \| pdb_00006nu5	Download File View File

Pyruvate Kinase M2 Mutant - S437Y in Complex with L-cysteine

Srivastava, D., Nandi, S., Dey, M.

(2019) Biochemistry 58: 3669-3682

Released	2019-08-21
Method	X-RAY DIFFRACTION 1.6 Å
Organisms	Homo sapiens
Macromolecule	Pyruvate kinase PKM (protein)
Unique Ligands	B3P, CYS, EDO, K, MG, OXL, SCN

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6NUB \| pdb_00006nub	Download File View File

Pyruvate Kinase M2 Mutant - S437Y in Complex with L-serine

Srivastava, D., Nandi, S., Dey, M.

(2019) Biochemistry 58: 3669-3682

Released	2019-08-21
Method	X-RAY DIFFRACTION 1.7 Å
Organisms	Homo sapiens
Macromolecule	Pyruvate kinase PKM (protein)
Unique Ligands	B3P, EDO, K, MG, OXL, PEG, PG4, SCN, SER

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6WP3 \| pdb_00006wp3	Download File View File

Pyruvate Kinase M2 Mutant-K433Q

Nandi, S., Razzaghi, M., Srivastava, D., Dey, M.

(2020) J Biological Chem 295: 17425-17440

Released	2020-10-07
Method	X-RAY DIFFRACTION 1.84 Å
Organisms	Homo sapiens
Macromolecule	Pyruvate kinase PKM (protein)
Unique Ligands	CL, GOL, K, MG, NO3, OXL

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6WP4 \| pdb_00006wp4	Download File View File

Pyruvate Kinase M2 mutant-S37E

Nandi, S., Razzaghi, M., Srivastava, D., Dey, M.

(2020) J Biological Chem 295: 17425-17440

Released	2020-09-30
Method	X-RAY DIFFRACTION 1.9 Å
Organisms	Homo sapiens
Macromolecule	Pyruvate kinase PKM (protein)
Unique Ligands	CL, GOL, K, MG, OXL, PO4

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6WP5 \| pdb_00006wp5	Download File View File

Pyruvate Kinase M2 mutant-S37D

Nandi, S., Razzaghi, M., Srivastava, D., Dey, M.

(2020) J Biological Chem 295: 17425-17440

Released	2020-09-30
Method	X-RAY DIFFRACTION 2.17 Å
Organisms	Homo sapiens
Macromolecule	Pyruvate kinase PKM (protein)
Unique Ligands	FBP, GOL, K, MG, OXL

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6WP6 \| pdb_00006wp6	Download File View File

Pyruvate Kinase M2 mutant-S37E K433E

Nandi, S., Razzaghi, M., Srivastava, D., Dey, M.

(2020) J Biological Chem 295: 17425-17440

Released	2020-10-07
Method	X-RAY DIFFRACTION 2.45 Å
Organisms	Homo sapiens
Macromolecule	Pyruvate kinase PKM (protein)
Unique Ligands	GOL, MG, NO3, OXL

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7UMO \| pdb_00007umo	Download File View File

Structure of Unc119-inhibitor complex.

Srivastava, D., Sebag, J.A., Artemyev, N.O.

(2023) Cell Chem Biol 30: 933-942.e6

Released	2023-07-26
Method	X-RAY DIFFRACTION 2.3 Å
Organisms	Homo sapiens
Macromolecule	Protein unc-119 homolog A (protein)
Unique Ligands	GOL, NT6

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8EOA \| pdb_00008eoa	Download File View File

Cryo-EM structure of human HSP90B-AIPL1 complex

Srivastava, D., Artemyev, N.O.

(2023) Structure 31: 309

Released	2023-01-25
Method	ELECTRON MICROSCOPY 3.9 Å
Organisms	Homo sapiens Mus musculus
Macromolecule	Aryl-hydrocarbon-interacting protein-like 1 (protein) Heat shock protein HSP 90-beta (protein)
Unique Ligands	ANP, MG

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8EOB \| pdb_00008eob	Download File View File

Cryo-EM structure of human HSP90B in the closed state

Srivastava, D., Artemyev, N.O.

(2023) Structure 31: 309

Released	2023-01-25
Method	ELECTRON MICROSCOPY 3.1 Å
Organisms	Homo sapiens
Macromolecule	Heat shock protein HSP 90-beta (protein)
Unique Ligands	ANP, MG

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8G0M \| pdb_00008g0m	Download File View File

Structure of complex between TV6.6 and CD98hc ECD

Kariolis, M.S., Lexa, K., Liau, N.P.D., Srivastava, D., Tran, H., Wells, R.C.

(2023) Nat Commun 14: 5053-5053

Released	2023-10-18
Method	X-RAY DIFFRACTION 2.25 Å
Organisms	Homo sapiens synthetic construct
Macromolecule	4F2 cell-surface antigen heavy chain (protein) TV 6.6 Fc fragment (protein)
Unique Ligands	EDO, PG4
Unique branched monosaccharides	BMA, FUC, GAL, MAN, NAG

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9B8U \| pdb_00009b8u	Download File View File

Crystal structure of CRX-Ret4 oligonucleotide complex

Srivastava, D., Artemyev, N.O.

(2024) Structure 32: 1751-1759.e4

Released	2024-07-31
Method	X-RAY DIFFRACTION 2.9 Å
Organisms	Homo sapiens
Macromolecule	Cone-rod homeobox protein (protein) DNA (5'-D(PCPAPGPGPAPGPCPTPTPAPGPGPAPGPGPGPGPGPAPG)-3') (nucleic acid) DNA (5'-D(PCPTPCPCPCPCPCPTPCPCPTPAPAPGPCPTPCPCPTPG)-3') (nucleic acid)
Unique Ligands	CAC, GOL, K, MPD, NA

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9CXG \| pdb_00009cxg	Download File View File

Structure of PDE6C in complex with inhibitory cone p gamma in the presence of cGMP

Srivastava, D., Singh, S., Artemyev, N.

(2025) Proc Natl Acad Sci U S A 122: e2419732121-e2419732121

Released	2024-12-18
Method	ELECTRON MICROSCOPY 3 Å
Organisms	Homo sapiens
Macromolecule	Cone cGMP-specific 3',5'-cyclic phosphodiesterase subunit alpha' (protein) cone P gamma (protein)
Unique Ligands	5GP, MG, PCG, ZN

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9CXH \| pdb_00009cxh	Download File View File

Structure of PDE6C in complex with the rod inhibitory p gamma subunit in the presence of cGMP

Srivastava, D., Singh, S., Artemyev, N.

(2025) Proc Natl Acad Sci U S A 122: e2419732121-e2419732121

Released	2024-12-18
Method	ELECTRON MICROSCOPY 3.1 Å
Organisms	Bos taurus Homo sapiens
Macromolecule	Cone cGMP-specific 3',5'-cyclic phosphodiesterase subunit alpha' (protein) Retinal rod rhodopsin-sensitive cGMP 3',5'-cyclic phosphodiesterase subunit gamma (protein)
Unique Ligands	5GP, MG, PCG, ZN

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9CXI \| pdb_00009cxi	Download File View File

Structure of PDE6C in complex with the rod inhibitory p gamma subunit in the absence of added cGMP

Srivastava, D., Singh, S., Artemyev, N.

(2025) Proc Natl Acad Sci U S A 122: e2419732121-e2419732121

Released	2024-12-18
Method	ELECTRON MICROSCOPY 3 Å
Organisms	Homo sapiens Mus musculus
Macromolecule	Cone cGMP-specific 3',5'-cyclic phosphodiesterase subunit alpha' (protein) rod pg (protein)
Unique Ligands	MG, PCG, ZN

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9CXJ \| pdb_00009cxj	Download File View File

Structure of PDE6C in complex with the rod inhibitory p gamma subunit with disordered GafA region

Srivastava, D., Singh, S., Artemyev, N.

(2025) Proc Natl Acad Sci U S A 122: e2419732121-e2419732121

Released	2024-12-18
Method	ELECTRON MICROSCOPY 3.1 Å
Organisms	Bos taurus Homo sapiens
Macromolecule	Cone cGMP-specific 3',5'-cyclic phosphodiesterase subunit alpha' (protein) Retinal rod rhodopsin-sensitive cGMP 3',5'-cyclic phosphodiesterase subunit gamma (protein)
Unique Ligands	MG, ZN

1 to 24 of 24 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

3V9G | pdb_00003v9g

3V9J | pdb_00003v9j

3V9K | pdb_00003v9k

3V9L | pdb_00003v9l

6B6U | pdb_00006b6u

6N84 | pdb_00006n84

6N85 | pdb_00006n85

6N86 | pdb_00006n86

6NU1 | pdb_00006nu1

6NU5 | pdb_00006nu5

6NUB | pdb_00006nub

6WP3 | pdb_00006wp3

6WP4 | pdb_00006wp4

6WP5 | pdb_00006wp5

6WP6 | pdb_00006wp6

7UMO | pdb_00007umo

8EOA | pdb_00008eoa

8EOB | pdb_00008eob

8G0M | pdb_00008g0m

9B8U | pdb_00009b8u

9CXG | pdb_00009cxg

9CXH | pdb_00009cxh

9CXI | pdb_00009cxi

9CXJ | pdb_00009cxj