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232,059 Structures from the PDB

1,068,577 Computed Structure Models (CSM)

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QUERY: Structure Keywords HAS EXACT PHRASE "ENDOCYTOSIS"

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Search Summary

This query matches 17 Structures.

Refinements

Structure Determination Methodology

experimental (17)

Scientific Name of Source Organism

	Homo sapiens (17)
	Human immunodeficiency virus 1 (9)
	Hepacivirus hominis (2)
	Severe acute respiratory syndrome coronavirus 2 (2)
	Hepatitis B virus (1)

Taxonomy

	Eukaryota (17)
	Riboviria (14)

Experimental Method

	ELECTRON MICROSCOPY (10)
	X-RAY DIFFRACTION (7)

Polymer Entity Type

Protein (17)

Refinement Resolution (Å)

	1.0 - 1.5 (1)
	1.5 - 2.0 (1)
	2.0 - 2.5 (1)
	2.5 - 3.0 (2)
	3.0 - 3.5 (6)
	3.5 - 4.0 (3)
	4.0 - 4.5 (3)

Release Date

	2015 - 2019 (2)
	2020 - 2024 (15)

Symmetry Type

	Asymmetric (9)
	Cyclic (8)

SCOP Classification

All beta proteins (1)

AllSelected

1 to 17 of 17 Structures

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6OKP	Download File View File

B41 SOSIP.664 in complex with the silent-face antibody SF12 and V3-targeting antibody 10-1074

Barnes, C.O., Bjorkman, P.J.

(2019) Immunity 50: 1513

Released	2019-06-05
Method	ELECTRON MICROSCOPY 3.28 Å
Organisms	Homo sapiens Human immunodeficiency virus 1
Macromolecule	Unique protein chains: 6
Unique Ligands	NAG
Unique branched monosaccharides	BMA, MAN, NAG

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6OKQ	Download File View File

Crystal structure of the SF12 Fab

Barnes, C.O., Bjorkman, P.J.

(2019) Immunity 50: 1513

Released	2019-06-05
Method	X-RAY DIFFRACTION 3.2 Å
Organisms	Homo sapiens
Macromolecule	SF12 Fab Heavy Chain,SF12 Fab Heavy Chain (protein) SF12 Fab Light Chain,SF12 Fab Light Chain (protein)

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6UDJ	Download File View File

HIV-1 bNAb 1-18 in complex with BG505 SOSIP.664 and 10-1074

Abernathy, M.E., Barnes, C.O., Gristick, H.B., Bjorkman, P.J.

(2020) Cell 180: 471

Released	2020-01-29
Method	ELECTRON MICROSCOPY 2.5 Å
Organisms	Homo sapiens Human immunodeficiency virus 1
Macromolecule	Unique protein chains: 6
Unique Ligands	NAG
Unique branched monosaccharides	BMA, MAN, NAG

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6UDK	Download File View File

HIV-1 bNAb 1-55 in complex with modified BG505 SOSIP-based immunogen RC1 and 10-1074

Abernathy, M.E., Barnes, C.O., Gristick, H.B., Bjorkman, P.J.

(2020) Cell 180: 471

Released	2020-01-29
Method	ELECTRON MICROSCOPY 3.9 Å
Organisms	Homo sapiens Human immunodeficiency virus 1
Macromolecule	Unique protein chains: 6
Unique Ligands	NAG
Unique branched monosaccharides	BMA, MAN, NAG

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6VJT	Download File View File

Co-crystals of broadly neutralizing antibody with the linear epitope from Hepatitis B surface antigen

Oren, D.A., Nussenzweig, M.C., Wang, Q.

(2020) Cell Host Microbe 28: 335-349.e6

Released	2020-08-26
Method	X-RAY DIFFRACTION 1.782 Å
Organisms	Hepatitis B virus Homo sapiens
Macromolecule	Heavy Chain Fab Fragment of Monoclonal Ab15 (protein) Light Chain Fab Fragment of Monoclonal antibody A15 (protein) antigenic region 139-148 of Hepatitis B surface antigen protein (protein)

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7RFB	Download File View File

Crystal structure of broadly neutralizing antibody mAb1198 in complex with Hepatitis C virus envelope glycoprotein E2 ectodomain

Flyak, A.I., Bjorkman, P.J.

(2022) Immunity 55: 341-354.e7

Released	2022-01-12
Method	X-RAY DIFFRACTION 2.7 Å
Organisms	Hepacivirus hominis Homo sapiens
Macromolecule	envelope glycoprotein E2 (protein) mAb1198 Heavy Chain (protein) mAb1198 Light Chain (protein)
Unique Ligands	NAG
Unique branched monosaccharides	BMA, MAN, NAG

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7RFC	Download File View File

Crystal structure of broadly neutralizing antibody mAb1382 in complex with Hepatitis C virus envelope glycoprotein E2 ectodomain

Flyak, A.I., Bjorkman, P.J.

(2022) Immunity 55: 341-354.e7

Released	2022-01-12
Method	X-RAY DIFFRACTION 3.24 Å
Organisms	Hepacivirus hominis Homo sapiens
Macromolecule	envelope glycoprotein E2 (protein) mAb1382 Heavy Chain (protein) mAb1382 Light Chain (protein)
Unique Ligands	NAG
Unique branched monosaccharides	BMA, MAN, NAG

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7UCE	Download File View File

Structure of the anti-HIV-1 neutralizing antibody BG24 Fab fragment

Barnes, C.O., Bjorkman, P.J.

(2022) Sci Adv 8: eabp8155-eabp8155

Released	2022-08-17
Method	X-RAY DIFFRACTION 2.25 Å
Organisms	Homo sapiens
Macromolecule	BG24 Fab heavy chain (protein) BG24 Fab light chain (protein)
Unique branched monosaccharides	NAG

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7UCF	Download File View File

Structure of the BG505 SOSIP.664 trimer in complex with neutralizing antibody Fab fragments 10-1074 and BG24

Barnes, C.O., Bjorkman, P.J.

(2022) Sci Adv 8: eabp8155-eabp8155

Released	2022-08-17
Method	X-RAY DIFFRACTION 4 Å
Organisms	Homo sapiens Human immunodeficiency virus 1
Macromolecule	Unique protein chains: 6
Unique Ligands	FUC, NAG
Unique branched monosaccharides	BMA, FUC, GAL, MAN, NAG

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7UCG	Download File View File

Structure of the DU422 SOSIP.664 trimer in complex with neutralizing antibody Fab fragments 10-1074 and BG24

Barnes, C.O., Bjorkman, P.J.

(2022) Sci Adv 8: eabp8155-eabp8155

Released	2022-08-17
Method	ELECTRON MICROSCOPY 3.5 Å
Organisms	Homo sapiens Human immunodeficiency virus 1
Macromolecule	Unique protein chains: 6
Unique Ligands	NAG
Unique branched monosaccharides	BMA, MAN, NAG

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7UGM	Download File View File

Crystal Structure of BG24-iGL CDR3mat Fab

Dam, K.A., Barnes, C.O., Bjorkman, P.J.

(2022) Nat Commun 13: 6123-6123

Released	2022-11-09
Method	X-RAY DIFFRACTION 1.4 Å
Organisms	Homo sapiens
Macromolecule	BG24-iGL CDR3mat Fab heavy chain (protein) BG24-iGL CDR3mat Fab light chain (protein)

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7UGN	Download File View File

Cryo-EM structure of BG24 inferred germline Fabs with germline CDR3s and 10-1074 Fabs in complex with HIV-1 Env immunogen BG505-SOSIPv4.1-GT1 - Class 1

Dam, K.A., Bjorkman, P.J.

(2022) Nat Commun 13: 6123-6123

Released	2022-10-26
Method	ELECTRON MICROSCOPY 3.4 Å
Organisms	Homo sapiens Human immunodeficiency virus 1
Macromolecule	Unique protein chains: 6
Unique Ligands	MAN, NAG
Unique branched monosaccharides	BMA, MAN, NAG

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7UGO	Download File View File

Cryo-EM structure of BG24 inferred germline Fabs with mature CDR3s and 10-1074 Fabs in complex with HIV-1 Env immunogen BG505-SOSIPv4.1-GT1

Dam, K.A., Bjorkman, P.J.

(2022) Nat Commun 13: 6123-6123

Released	2022-10-26
Method	ELECTRON MICROSCOPY 4.1 Å
Organisms	Homo sapiens Human immunodeficiency virus 1
Macromolecule	Unique protein chains: 6
Unique Ligands	MAN, NAG
Unique branched monosaccharides	BMA, MAN, NAG

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7UGP	Download File View File

Cryo-EM structure of BG24 Fabs with an inferred germline light chain and 10-1074 Fabs in complex with HIV-1 Env immunogen BG505-SOSIPv4.1-GT1 containing the N276 gp120 glycan- Class 1

Dam, K.A., Bjorkman, P.J.

(2022) Nat Commun 13: 6123-6123

Released	2022-11-09
Method	ELECTRON MICROSCOPY 4.2 Å
Organisms	Homo sapiens Human immunodeficiency virus 1
Macromolecule	Unique protein chains: 6
Unique Ligands	NAG
Unique branched monosaccharides	BMA, MAN, NAG

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7UGQ	Download File View File

Cryo-EM structure of BG24 Fabs with an inferred germline CDRL1 and 10-1074 Fabs in complex with HIV-1 Env 6405-SOSIP.664

Dam, K.A., Bjorkman, P.J.

(2022) Nat Commun 13: 6123-6123

Released	2022-11-09
Method	ELECTRON MICROSCOPY 3.4 Å
Organisms	Homo sapiens Human immunodeficiency virus 1
Macromolecule	Unique protein chains: 6
Unique Ligands	NAG
Unique branched monosaccharides	BMA, MAN, NAG

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7V26	Download File View File

XG005-bound SARS-CoV-2 S

Zhan, W.Q., Zhang, X., Sun, L., Chen, Z.G.

(2022) Protein Cell 13: 655-675

Released	2021-10-20
Method	ELECTRON MICROSCOPY 3.85 Å
Organisms	Homo sapiens Severe acute respiratory syndrome coronavirus 2
Macromolecule	Spike glycoprotein (protein) XG005 Heavy chain (protein) XG005 Light Chain (protein)
Unique Ligands	NAG

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7V2A	Download File View File

SARS-CoV-2 Spike trimer in complex with XG014 Fab

Wang, K., Wang, X., Pan, L.

(2022) Protein Cell 13: 655-675

Released	2021-10-20
Method	ELECTRON MICROSCOPY 3.4 Å
Organisms	Homo sapiens Severe acute respiratory syndrome coronavirus 2
Macromolecule	Spike glycoprotein (protein) The heavy chain of XG014 (protein) The light chain of XG014 Fab (protein)
Unique Ligands	NAG

1 to 17 of 17 Structures

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