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234,136 Structures from the PDB

1,068,577 Computed Structure Models (CSM)

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QUERY: Structure Author = "Marassi, F.M."

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Search Summary

This query matches 99 Structures.

Refinements

Structure Determination Methodology

experimental (99)

Scientific Name of Source Organism

	Homo sapiens (65)
	Human immunodeficiency virus 1 (19)
	Mus musculus (16)
	Norovirus (12)
	Plasmodium falciparum (9)
	Vicugna pacos (9)
	Norovirus GII (4)
	Macaca mulatta (3)
	Severe acute respiratory syndrome coronavirus 2 (3)
	Hare calicivirus Australia-1 (2)

More...

Taxonomy

	Eukaryota (86)
	Riboviria (47)
	Duplodnaviria (1)

Experimental Method

	X-RAY DIFFRACTION (93)
	ELECTRON MICROSCOPY (6)

Polymer Entity Type

Protein (99)

Refinement Resolution (Å)

	1.0 - 1.5 (8)
	1.5 - 2.0 (24)
	2.0 - 2.5 (29)
	2.5 - 3.0 (20)
	3.0 - 3.5 (8)
	3.5 - 4.0 (7)
	4.0 - 4.5 (1)
	> 4.5 (2)

Release Date

	2005 - 2009 (5)
	2010 - 2014 (10)
	2015 - 2019 (27)
	2020 - 2024 (57)

Symmetry Type

	Asymmetric (74)
	Cyclic (25)

SCOP Classification

	All beta proteins (35)
	Artifacts (7)
	Alpha and beta proteins (a+b) (4)
	Small proteins (1)

AllSelected

1 to 25 of 99 Structures

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3HI1 \| pdb_00003hi1	Download File View File

Structure of HIV-1 gp120 (core with V3) in Complex with CD4-Binding-Site Antibody F105

Kwon, Y.D., Chen, L., Zhou, T., Wu, X., O'Dell, S., Cavacini, L., Hessell, A.J., Pancera, M., Tang, M., Xu, L., Yang, Z., Zhang, M.-Y., Arthos, J., Burton, D.R., Dimitrov, D., Nabel, G.J., Posner, M., Sodroski, J., Wyatt, R., Mascola, J.R., Kwong, P.D.

(2009) Science 326: 1123-1127

Released	2009-11-17
Method	X-RAY DIFFRACTION 2.9 Å
Organisms	Homo sapiens Human immunodeficiency virus type 1 (isolate YU2)
Macromolecule	F105 Heavy Chain (protein) F105 Light Chain (protein) Glycoprotein 120 (protein)
Unique Ligands	NAG

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3IDX \| pdb_00003idx	Download File View File

Crystal structure of HIV-gp120 core in complex with CD4-binding site antibody b13, space group C222

Chen, L., Kwon, Y.D., Zhou, T., Wu, X., O'Dell, S., Cavacini, L., Hessell, A.J., Pancera, M., Tang, M., Xu, L., Yang, Z.Y., Zhang, M.Y., Arthos, J., Burton, D.R., Dimitrov, D.S., Nabel, G.J., Posner, M., Sodroski, J., Wyatt, R., Mascola, J.R., Kwong, P.D.

(2009) Science 326: 1123-1127

Released	2009-11-17
Method	X-RAY DIFFRACTION 2.5 Å
Organisms	Homo sapiens Human immunodeficiency virus 1
Macromolecule	Fab b13 heavy chain (protein) Fab b13 light chain (protein) HIV-1 HxBc2 gp120 core (protein)
Unique Ligands	EPE, GOL, NAG, SO4

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3IDY \| pdb_00003idy	Download File View File

Crystal structure of HIV-gp120 core in complex with CD4-binding site antibody b13, space group C2221

(2009) Science 326: 1123-1127

Released	2009-11-17
Method	X-RAY DIFFRACTION 3.2 Å
Organisms	Homo sapiens Human immunodeficiency virus 1
Macromolecule	Fab b13 heavy chain (protein) Fab b13 light chain (protein) HIV-1 HxBc2 gp120 core (protein)
Unique Ligands	NAG, SO4

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3JWD \| pdb_00003jwd	Download File View File

Structure of HIV-1 gp120 with gp41-Interactive Region: Layered Architecture and Basis of Conformational Mobility

Pancera, M., Majeed, S., Ban, Y.A., Chen, L., Huang, C.C., Kong, L., Kwon, Y.D., Stuckey, J., Zhou, T., Robinson, J.E., Schief, W.R., Sodroski, J., Wyatt, R., Kwong, P.D.

(2010) Proc Natl Acad Sci U S A 107: 1166-1171

Released	2009-12-29
Method	X-RAY DIFFRACTION 2.61 Å
Organisms	Homo sapiens Human immunodeficiency virus 1
Macromolecule	FAB 48D HEAVY CHAIN (protein) FAB 48D LIGHT CHAIN (protein) HIV-1 GP120 ENVELOPE GLYCOPROTEIN (protein) T-cell surface glycoprotein CD4 (protein)
Unique Ligands	GOL, NAG

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3JWO \| pdb_00003jwo	Download File View File

Structure of HIV-1 gp120 with gp41-Interactive Region: Layered Architecture and Basis of Conformational Mobility

Pancera, M., Majeed, S., Huang, C.C., Kwon, Y.D., Zhou, T., Robinson, J.E., Sodroski, J., Wyatt, R., Kwong, P.D.

(2010) Proc Natl Acad Sci U S A 107: 1166-1171

Released	2009-12-29
Method	X-RAY DIFFRACTION 3.51 Å
Organisms	Homo sapiens
Macromolecule	FAB 48D Heavy CHAIN (protein) FAB 48D LIGHT CHAIN (protein) HIV-1 GP120 ENVELOPE GLYCOPROTEIN (protein) T-cell surface glycoprotein CD4 (protein)
Unique Ligands	NAG
Unique branched monosaccharides	FUL, NAG

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3LRS \| pdb_00003lrs	Download File View File

Structure of PG16, an antibody with broad and potent neutralization of HIV-1

Pancera, M., Kwong, P.D.

(2010) J Virol 84: 8098-8110

Released	2010-06-09
Method	X-RAY DIFFRACTION 2.37 Å
Organisms	Homo sapiens
Macromolecule	PG-16 Heavy Chain Fab (protein) PG-16 Light Chain Fab (protein)
Unique Ligands	NAG

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3MME \| pdb_00003mme	Download File View File

Structure and functional dissection of PG16, an antibody with broad and potent neutralization of HIV-1

Pancera, M., McLellan, J., Zhou, T., Zhu, J., Kwong, P.

(2010) J Virol 84: 8098-8110

Released	2010-06-09
Method	X-RAY DIFFRACTION 3.97 Å
Organisms	Homo sapiens
Macromolecule	PG16 HEAVY CHAIN FAB (protein) PG16 LIGHT CHAIN FAB (protein)
Unique Ligands	NAG
Unique branched monosaccharides	BMA, NAG

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3TCL \| pdb_00003tcl	Download File View File

Crystal Structure of HIV-1 Neutralizing Antibody CH04

Louder, R.K., McLellan, J.S., Pancera, M., Yang, Y., Zhang, B., Bonsignori, M., Kwong, P.D.

(2011) Nature 480: 336-343

Released	2011-11-30
Method	X-RAY DIFFRACTION 1.906 Å
Organisms	Homo sapiens
Macromolecule	CH04 Heavy Chain Fab (protein) CH04 Light Chain Fab (protein)
Unique Ligands	IMD

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3U2S \| pdb_00003u2s	Download File View File

Crystal Structure of PG9 Fab in Complex with V1V2 Region from HIV-1 strain ZM109

McLellan, J.S., Pancera, M., Kwong, P.D.

(2011) Nature 480: 336-343

Released	2011-11-30
Method	X-RAY DIFFRACTION 1.797 Å
Organisms	Homo sapiens Human immunodeficiency virus 1
Macromolecule	Envelope glycoprotein gp120 (protein) PG9 heavy chain (protein) PG9 light chain (protein)
Unique Ligands	BU3, NAG, SO4
Unique branched monosaccharides	BMA, MAN, NAG

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3U46 \| pdb_00003u46	Download File View File

CH04H/CH02L P212121

Louder, R., Pancera, M., McLellan, J.S., Kwong, P.D.

(2011) Nature 480: 336-343

Released	2011-11-30
Method	X-RAY DIFFRACTION 2.906 Å
Organisms	Homo sapiens
Macromolecule	CH02 Light chain Fab (protein) CH04 Heavy chain Fab (protein)

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3U4B \| pdb_00003u4b	Download File View File

CH04H/CH02L Fab P4

Pancera, M., Louder, R., Mclellan, J.S., KWong, P.D.

(2011) Nature 480: 336-343

Released	2011-11-30
Method	X-RAY DIFFRACTION 2.893 Å
Organisms	Homo sapiens
Macromolecule	CH02 Light chain (protein) CH04 Heavy chain (protein)

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3U4E \| pdb_00003u4e	Download File View File

Crystal Structure of PG9 Fab in Complex with V1V2 Region from HIV-1 strain CAP45

Gorman, J., McLellan, J., Pancera, M., Kwong, P.D.

(2011) Nature 480: 336-343

Released	2011-11-30
Method	X-RAY DIFFRACTION 2.185 Å
Organisms	Homo sapiens Human immunodeficiency virus 1
Macromolecule	PG9 Heavy Chain (protein) PG9 Light Chain (protein) V1V2 region of HIV-1 on 1FD6 scaffold (protein)
Unique Ligands	SO4
Unique branched monosaccharides	BMA, MAN, NAG

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4DQO \| pdb_00004dqo	Download File View File

Crystal Structure of PG16 Fab in Complex with V1V2 Region from HIV-1 strain ZM109

Pancera, M., McLellan, J.S., Kwong, P.D.

(2013) Nat Struct Mol Biol 20: 804-813

Released	2013-03-06
Method	X-RAY DIFFRACTION 2.438 Å
Organisms	Homo sapiens Human immunodeficiency virus 1
Macromolecule	1FD6-V1V2 scaffold ZM109 HIV-1 strain (protein) PG16 Fab Heavy Chain (protein) PG16 Fab Light Chain (protein)
Unique branched monosaccharides	BMA, GAL, MAN, NAG, SIA

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4TOY \| pdb_00004toy	Download File View File

Structure of 35O22 Fab, a HIV-1 neutralizing antibody

Pancera, M., Kwong, P.D.

(2014) Nature 515: 138-142

Released	2014-09-03
Method	X-RAY DIFFRACTION 1.551 Å
Organisms	Homo sapiens
Macromolecule	35O22 Fab Heavy chain (protein) 35O22 Fab Light chain (protein)

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4TVP \| pdb_00004tvp	Download File View File

Crystal Structure of the HIV-1 BG505 SOSIP.664 Env Trimer Ectodomain, Comprising Atomic-Level Definition of Pre-Fusion gp120 and gp41, in Complex with Human Antibodies PGT122 and 35O22

Pancera, M., Zhou, T., Kwong, P.D.

(2014) Nature 514: 455-461

Released	2014-10-08
Method	X-RAY DIFFRACTION 3.1 Å
Organisms	Homo sapiens Human immunodeficiency virus 1
Macromolecule	Unique protein chains: 6
Unique Ligands	NAG, SO4
Unique branched monosaccharides	BMA, MAN, NAG

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5TF1 \| pdb_00005tf1	Download File View File

Structure of chimeric 02-CC Fab, a VRC01-like germline antibody

Pancera, M.

(2016) Cell Rep 17: 1560-1570

Released	2016-11-16
Method	X-RAY DIFFRACTION 1.858 Å
Organisms	Homo sapiens
Macromolecule	02-CC Fab Heavy chain (protein) O2-CC Fab Light Chain (protein)

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5TFS \| pdb_00005tfs	Download File View File

Structure of chimeric 02-K Fab, a VRC01-like germline antibody

Pancera, M.

(2016) Cell Rep 17: 1560-1570

Released	2016-11-09
Method	X-RAY DIFFRACTION 2.319 Å
Organisms	Homo sapiens
Macromolecule	02-K Fab Heavy chain (protein) 02-K Fab Light chain (protein)
Unique Ligands	SO4

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5TGB \| pdb_00005tgb	Download File View File

Structure of chimeric 02-CB Fab, a VRC01-like germline antibody

Pancera, M.

(2016) Cell Rep 17: 1560-1570

Released	2016-11-09
Method	X-RAY DIFFRACTION 2.741 Å
Organisms	Homo sapiens
Macromolecule	02-CB Fab Heavy Chain (protein) 02-CB Fab Light Chain (protein)

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5U7M \| pdb_00005u7m	Download File View File

Crystal Structure of HIV-1 BG505 SOSIP.664 Prefusion Env Trimer Bound to Small Molecule HIV-1 Entry Inhibitor BMS-378806 in Complex with Human Antibodies PGT122 and 35O22 at 3.8 Angstrom

Pancera, M., Lai, Y.-T., Kwong, P.D.

(2017) Nat Chem Biol 13: 1115-1122

Released	2017-08-30
Method	X-RAY DIFFRACTION 3.025 Å
Organisms	Homo sapiens Human immunodeficiency virus 1
Macromolecule	Unique protein chains: 6
Unique Ligands	83G, NAG, SO4
Unique branched monosaccharides	BMA, MAN, NAG

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5U7O \| pdb_00005u7o	Download File View File

Crystal Structure of HIV-1 BG505 SOSIP.664 Prefusion Env Trimer Bound to Small Molecule HIV-1 Entry Inhibitor BMS-626529 in Complex with Human Antibodies PGT122 and 35O22 at 3.8 Angstrom

Pancera, M., Lai, Y.-T., Kwong, P.D.

(2017) Nat Chem Biol 13: 1115-1122

Released	2017-08-30
Method	X-RAY DIFFRACTION 3.031 Å
Organisms	Homo sapiens Human immunodeficiency virus 1
Macromolecule	Unique protein chains: 6
Unique Ligands	83J, NAG, SO4
Unique branched monosaccharides	BMA, MAN, NAG

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5UTF \| pdb_00005utf	Download File View File

Crystal Structure of a Stabilized DS-SOSIP.6mut BG505 gp140 HIV-1 Env Trimer, Containing Mutations I201C-P433C (DS), L154M, Y177W, N300M, N302M, T320L, I420M in Complex with Human Antibodies PGT122 and 35O22 at 4.3 A

Pancera, M., Chuang, G.-Y., Xu, K., Kwong, P.D.

(2017) J Virol 91:

Released	2017-03-29
Method	X-RAY DIFFRACTION 3.503 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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5UTY \| pdb_00005uty	Download File View File

Crystal Structure of a Stabilized DS-SOSIP.mut4 BG505 gp140 HIV-1 Env Trimer, Containing Mutations I201C-P433C (DS), L154M, N300M, N302M, T320L in Complex with Human Antibodies PGT122 and 35O22 at 4.1 Angstrom

Xu, K., Chuang, G.-Y., Pancera, M., Kwong, P.D.

(2017) J Virol 91:

Released	2017-03-29
Method	X-RAY DIFFRACTION 3.412 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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6B5L \| pdb_00006b5l	Download File View File

Structure of PfCSP peptide 20 with human protective antibody CIS43

Pancera, M., Weidle, C.

(2018) Nat Med 24: 408-416

Released	2018-03-21
Method	X-RAY DIFFRACTION 2.4 Å
Organisms	Homo sapiens Plasmodium falciparum
Macromolecule	CIS43 Fab Heavy chain (protein) CIS43 Fab Light Chain (protein) PfCSP peptide 20: ASN-PRO-ASP-PRO-ASN-ALA-ASN-PRO-ASN-VAL (protein)

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6B5M \| pdb_00006b5m	Download File View File

Structure of PfCSP peptide 21 with human protective antibody CIS43

Pancera, M., Weidle, C.

(2018) Nat Med 24: 408-416

Released	2018-03-21
Method	X-RAY DIFFRACTION 1.79 Å
Organisms	Homo sapiens Plasmodium falciparum
Macromolecule	CIS43 Fab Heavy chain (protein) CIS43 Fab Light chain (protein) pfCSP peptide 21: ASN-PRO-ASP-PRO-ASN-ALA-ASN-PRO-ASN-VAL-ASP-PRO-ASN (protein)
Unique Ligands	EDO, SO4

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6B5N \| pdb_00006b5n	Download File View File

Structure of PfCSP peptide 25 with human protective antibody CIS43

Pancera, M., Weidle, C.

(2018) Nat Med 24: 408-416

Released	2018-03-21
Method	X-RAY DIFFRACTION 1.98 Å
Organisms	Homo sapiens Plasmodium falciparum
Macromolecule	CIS43 Fab Heavy chain (protein) CIS43 Fab Light chain (protein) pfCSP peptide 25: ASN-VAL-ASP-PRO-ASN-ALA-ASN-PRO-ASN-VAL-ASP (protein)

1 to 25 of 99 Structures

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Structure Determination Methodology

Scientific Name of Source Organism

Taxonomy

Experimental Method

Polymer Entity Type

Refinement Resolution (Å)

Release Date

Symmetry Type

SCOP Classification

3HI1 | pdb_00003hi1

3IDX | pdb_00003idx

3IDY | pdb_00003idy

3JWD | pdb_00003jwd

3JWO | pdb_00003jwo

3LRS | pdb_00003lrs

3MME | pdb_00003mme

3TCL | pdb_00003tcl

3U2S | pdb_00003u2s

3U46 | pdb_00003u46

3U4B | pdb_00003u4b

3U4E | pdb_00003u4e

4DQO | pdb_00004dqo

4TOY | pdb_00004toy

4TVP | pdb_00004tvp

5TF1 | pdb_00005tf1

5TFS | pdb_00005tfs

5TGB | pdb_00005tgb

5U7M | pdb_00005u7m

5U7O | pdb_00005u7o

5UTF | pdb_00005utf

5UTY | pdb_00005uty

6B5L | pdb_00006b5l

6B5M | pdb_00006b5m

6B5N | pdb_00006b5n