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233,605 Structures from the PDB

1,068,577 Computed Structure Models (CSM)

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QUERY: Citation Author = "Krishnan, N.P."

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Search Summary

This query matches 43 Structures.

Refinements

Structure Determination Methodology

experimental (43)

Scientific Name of Source Organism

	Homo sapiens (18)
	Geobacter metallireducens GS-15 (9)
	Saccharomyces cerevisiae (9)
	Human coronavirus 229E (4)
	Arabidopsis thaliana (3)
	Mus musculus (2)
	Flavobacterium johnsoniae UW101 (1)
	Mycolicibacterium smegmatis MC2 155 (1)
	Saccharomyces cerevisiae S288C (1)
	Severe acute respiratory syndrome coronavirus 2 (1)

More...

Taxonomy

	Eukaryota (31)
	Bacteria (11)
	Riboviria (5)
	other sequences (1)

Experimental Method

	ELECTRON MICROSCOPY (27)
	X-RAY DIFFRACTION (16)

Polymer Entity Type

	Protein (43)
	DNA (1)

Refinement Resolution (Å)

	1.5 - 2.0 (2)
	2.0 - 2.5 (5)
	2.5 - 3.0 (5)
	3.0 - 3.5 (13)
	3.5 - 4.0 (7)
	4.0 - 4.5 (5)
	> 4.5 (6)

Release Date

	2015 - 2019 (27)
	2020 - 2024 (16)

Enzyme Classification Name

	Translocases (8)
	Hydrolases (6)
	Oxidoreductases (1)
	Transferases (2)

Membrane Protein Annotation

	PDBTM (12)
	OPM (9)
	mpstruc (9)
	MemProtMD (8)

Symmetry Type

	Asymmetric (25)
	Cyclic (18)
	Tetrahedral (1)

SCOP Classification

	All beta proteins (7)
	Alpha and beta proteins (a+b) (8)
	Artifacts (3)
	All alpha proteins (4)
	Membrane and cell surface proteins and peptides (1)
	Alpha and beta proteins (a/b) (1)
	Coiled coil proteins (1)
	Multi-domain proteins (alpha and beta) (1)

AllSelected

1 to 25 of 43 Structures

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3J9T \| pdb_00003j9t	Download File View File

Yeast V-ATPase state 1

Zhao, J., Benlekbir, S., Rubinstein, J.L.

(2015) Nature 521: 241-245

Released	2015-05-13
Method	ELECTRON MICROSCOPY 6.9 Å
Organisms	Saccharomyces cerevisiae
Macromolecule	Unique protein chains: 11

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3J9U \| pdb_00003j9u	Download File View File

Yeast V-ATPase state 2

Zhao, J., Benlekbir, S., Rubinstein, J.L.

(2015) Nature 521: 241-245

Released	2015-05-13
Method	ELECTRON MICROSCOPY 7.6 Å
Organisms	Saccharomyces cerevisiae
Macromolecule	Unique protein chains: 11

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3J9V \| pdb_00003j9v	Download File View File

Yeast V-ATPase state 3

Zhao, J., Benlekbir, S., Rubinstein, J.L.

(2015) Nature 521: 241-245

Released	2015-05-13
Method	ELECTRON MICROSCOPY 8.3 Å
Organisms	Saccharomyces cerevisiae
Macromolecule	Unique protein chains: 11

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5BXB \| pdb_00005bxb	Download File View File

Crystal structure of pentameric KCTD1 BTB domain form 1

Ji, A.X., Chu, A., Prive, G.G.

(2016) J Mol Biology 428: 92-107

Released	2015-09-02
Method	X-RAY DIFFRACTION 2.171 Å
Organisms	Homo sapiens
Macromolecule	BTB/POZ domain-containing protein KCTD1 (protein)

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5BXD \| pdb_00005bxd	Download File View File

Crystal structure of pentameric KCTD1 BTB domain form 2

Ji, A.X., Chu, A., Prive, G.G.

(2016) J Mol Biology 428: 92-107

Released	2015-09-02
Method	X-RAY DIFFRACTION 1.796 Å
Organisms	Homo sapiens
Macromolecule	BTB/POZ domain-containing protein KCTD1 (protein)

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5BXH \| pdb_00005bxh	Download File View File

Crystal structure of pentameric KCTD9 BTB domain

Ji, A.X., Chu, A., Prive, G.G.

(2016) J Mol Biology 428: 92-107

Released	2015-09-02
Method	X-RAY DIFFRACTION 2.76 Å
Organisms	Homo sapiens
Macromolecule	BTB/POZ domain-containing protein KCTD9 (protein)

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5KGF \| pdb_00005kgf	Download File View File

Structural model of 53BP1 bound to a ubiquitylated and methylated nucleosome, at 4.5 A resolution

Wilson, M.D., Benlekbir, S., Sicheri, F., Rubinstein, J.L., Durocher, D.

(2016) Nature 536: 100-103

Released	2016-07-27
Method	ELECTRON MICROSCOPY 4.54 Å
Organisms	Homo sapiens Xenopus laevis synthetic construct
Macromolecule	Unique protein chains: 6 Unique nucleic acid chains: 2

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5TJ5 \| pdb_00005tj5	Download File View File

Atomic model for the membrane-embedded motor of a eukaryotic V-ATPase

Mazhab-Jafari, M.T., Rohou, A., Schmidt, C., Bueler, S.A., Benlekbir, S., Robinson, C.V., Rubinstein, J.L.

(2016) Nature 539: 118-122

Released	2016-10-26
Method	ELECTRON MICROSCOPY 3.9 Å
Organisms	Saccharomyces cerevisiae S288C
Macromolecule	Unique protein chains: 7

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5VKJ \| pdb_00005vkj	Download File View File

Crystal structure of human CD22 Ig domains 1-3

Julien, J.P., Ereno-Orbea, J., Sicard, T.

(2017) Nat Commun 8: 764-764

Released	2017-10-04
Method	X-RAY DIFFRACTION 2.12 Å
Organisms	Homo sapiens
Macromolecule	B-cell receptor CD22 (protein)
Unique Ligands	GOL
Unique branched monosaccharides	BMA, MAN, NAG

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5VKK \| pdb_00005vkk	Download File View File

Crystal structure of Fab fragment of anti-CD22 Epratuzumab

Sicard, T., Ereno-Orbea, J., Julien, J.P.

(2017) Nat Commun 8: 764-764

Released	2017-10-04
Method	X-RAY DIFFRACTION 2.014 Å
Organisms	Homo sapiens Mus musculus
Macromolecule	Epratuzumab Fab Heavy Chain (protein) Epratuzumab Fab Light Chain (protein)

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5VKM \| pdb_00005vkm	Download File View File

Crystal structure of human CD22 Ig domains 1-3 in complex with alpha 2-6 sialyllactose

Julien, J.P., Ereno-Orbea, J., Sicard, T.

(2017) Nat Commun 8: 764-764

Released	2017-10-04
Method	X-RAY DIFFRACTION 2.2 Å
Organisms	Homo sapiens
Macromolecule	B-cell receptor CD22 (protein)
Unique Ligands	GOL
Unique branched monosaccharides	BMA, GAL, MAN, NAG, SIA

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5VL3 \| pdb_00005vl3	Download File View File

CD22 d1-d3 in complex with therapeutic Fab Epratuzumab

Sicard, T., Ereno-Orbea, J., Julien, J.P.

(2017) Nat Commun 8: 764-764

Released	2017-10-11
Method	X-RAY DIFFRACTION 3.1 Å
Organisms	Homo sapiens Mus musculus
Macromolecule	B-cell receptor CD22 (protein) Epratuzumab Fab Heavy Chain (protein) Epratuzumab Fab Light Chain (protein)
Unique Ligands	GOL
Unique branched monosaccharides	BMA, MAN, NAG

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6BTM \| pdb_00006btm	Download File View File

Structure of Alternative Complex III from Flavobacterium johnsoniae (Wild Type)

Sun, C., Benlekbir, S., Venkatakrishnan, P., Yuhang, W., Tajkhorshid, E., Rubinstein, J.L., Gennis, R.B.

(2018) Nature 557: 123-126

Released	2018-05-09
Method	ELECTRON MICROSCOPY 3.4 Å
Organisms	Flavobacterium johnsoniae UW101
Macromolecule	Unique protein chains: 6
Unique Ligands	DKA, F3S, FAW, HEC, SF4

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6HWH \| pdb_00006hwh	Download File View File

Structure of a functional obligate respiratory supercomplex from Mycobacterium smegmatis

Wiseman, B., Nitharwal, R.G., Fedotovskaya, O., Schafer, J., Guo, H., Kuang, Q., Benlekbir, S., Sjostrand, D., Adelroth, P., Rubinstein, J.L., Brzezinski, P., Hogbom, M.

(2018) Nat Struct Mol Biol 25: 1128-1136

Released	2018-11-07
Method	ELECTRON MICROSCOPY 3.3 Å
Organisms	Mycolicibacterium smegmatis MC2 155
Macromolecule	Unique protein chains: 13
Unique Ligands	CDL, CU, FES, HAS, HEC, HEM, MQ9

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6OJX \| pdb_00006ojx	Download File View File

PilT4 from Geobacter metallireducens bound to ATP

McCallum, M., Howell, P.L.

(2019) Nat Commun 10: 5198-5198

Released	2019-11-20
Method	X-RAY DIFFRACTION 1.892 Å
Organisms	Geobacter metallireducens GS-15
Macromolecule	Twitching motility pilus retraction ATPase (protein)
Unique Ligands	ATP, EDO, MG

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6OJY \| pdb_00006ojy	Download File View File

Methylated PilT4 from Geobacter metallireducens bound to sulfate: C3ocococ conformation

McCallum, M., Howell, P.L.

(2019) Nat Commun 10: 5198-5198

Released	2019-11-20
Method	X-RAY DIFFRACTION 3.3 Å
Organisms	Geobacter metallireducens GS-15
Macromolecule	Twitching motility pilus retraction ATPase (protein)
Unique Ligands	SO4

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6OJZ \| pdb_00006ojz	Download File View File

PilT4 from Geobacter metallireducens bound to ADP with partial occupancy: C3ocococ conformation

McCallum, M., Howell, P.L.

(2019) Nat Commun 10: 5198-5198

Released	2019-11-20
Method	X-RAY DIFFRACTION 3.027 Å
Organisms	Geobacter metallireducens GS-15
Macromolecule	Twitching motility pilus retraction ATPase (protein)
Unique Ligands	ADP

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6OK2 \| pdb_00006ok2	Download File View File

PilT4 from Geobacter metallireducens bound to ADP: C3ocococ conformation

McCallum, M., Howell, P.L.

(2019) Nat Commun 10: 5198-5198

Released	2019-11-20
Method	X-RAY DIFFRACTION 3.287 Å
Organisms	Geobacter metallireducens GS-15
Macromolecule	Twitching motility pilus retraction ATPase (protein)
Unique Ligands	ADP

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6OKV \| pdb_00006okv	Download File View File

PilT4 from Geobacter metallireducens bound to AMP-PNP: C2ccocco conformation

McCallum, M., Howell, P.L.

(2019) Nat Commun 10: 5198-5198

Released	2019-11-20
Method	X-RAY DIFFRACTION 4.007 Å
Organisms	Geobacter metallireducens GS-15
Macromolecule	Twitching motility pilus retraction ATPase (protein)
Unique Ligands	ADP, ANP, MG

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6OLJ \| pdb_00006olj	Download File View File

CryoEM structure of PilB from Geobacter metallireducens: C2ccocco conformation

McCallum, M., Howell, P.L.

(2019) Nat Commun 10: 5198-5198

Released	2019-11-20
Method	ELECTRON MICROSCOPY 7.8 Å
Organisms	Geobacter metallireducens GS-15
Macromolecule	Type IV pilus biogenesis ATPase PilB (protein)

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6OLK \| pdb_00006olk	Download File View File

CryoEM structure of PilT4 from Geobacter metallireducens without adding nucleotide: C3ocococ conformation

McCallum, M., Howell, P.L.

(2019) Nat Commun 10: 5198-5198

Released	2019-11-20
Method	ELECTRON MICROSCOPY 4 Å
Organisms	Geobacter metallireducens GS-15
Macromolecule	Twitching motility pilus retraction ATPase (protein)

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6OLL \| pdb_00006oll	Download File View File

CryoEM structure of PilT4 from Geobacter metallireducens without adding nucleotide: C2oocooc conformation

McCallum, M., Howell, P.L.

(2019) Nat Commun 10: 5198-5198

Released	2019-11-20
Method	ELECTRON MICROSCOPY 4.1 Å
Organisms	Geobacter metallireducens GS-15
Macromolecule	Twitching motility pilus retraction ATPase (protein)

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6OLM \| pdb_00006olm	Download File View File

CryoEM structure of PilT4 from Geobacter metallireducens with added ATP: C6cccccc conformation

McCallum, M., Howell, P.L.

(2019) Nat Commun 10: 5198-5198

Released	2019-11-20
Method	ELECTRON MICROSCOPY 4.4 Å
Organisms	Geobacter metallireducens GS-15
Macromolecule	Twitching motility pilus retraction ATPase (protein)
Unique Ligands	ATP

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6U7E \| pdb_00006u7e	Download File View File

HCoV-229E RBD Class III in complex with human APN

Tomlinson, A.C.A., Li, Z., Rini, J.M.

(2019) Elife 8:

Released	2019-11-13
Method	X-RAY DIFFRACTION 3 Å
Organisms	Homo sapiens Human coronavirus 229E
Macromolecule	Aminopeptidase N (protein) Spike glycoprotein (protein)
Unique Ligands	NAG, ZN
Unique branched monosaccharides	BMA, NAG

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6U7F \| pdb_00006u7f	Download File View File

HCoV-229E RBD Class IV in complex with human APN

Tomlinson, A.C.A., Li, Z., Rini, J.M.

(2019) Elife 8:

Released	2019-11-13
Method	X-RAY DIFFRACTION 2.75 Å
Organisms	Homo sapiens Human coronavirus 229E
Macromolecule	Aminopeptidase N (protein) Spike glycoprotein (protein)
Unique Ligands	NAG, ZN
Unique branched monosaccharides	NAG

1 to 25 of 43 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

3J9T | pdb_00003j9t

3J9U | pdb_00003j9u

3J9V | pdb_00003j9v

5BXB | pdb_00005bxb

5BXD | pdb_00005bxd

5BXH | pdb_00005bxh

5KGF | pdb_00005kgf

5TJ5 | pdb_00005tj5

5VKJ | pdb_00005vkj

5VKK | pdb_00005vkk

5VKM | pdb_00005vkm

5VL3 | pdb_00005vl3

6BTM | pdb_00006btm

6HWH | pdb_00006hwh

6OJX | pdb_00006ojx

6OJY | pdb_00006ojy

6OJZ | pdb_00006ojz

6OK2 | pdb_00006ok2

6OKV | pdb_00006okv

6OLJ | pdb_00006olj

6OLK | pdb_00006olk

6OLL | pdb_00006oll

6OLM | pdb_00006olm

6U7E | pdb_00006u7e

6U7F | pdb_00006u7f