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234,440 Structures from the PDB

1,068,577 Computed Structure Models (CSM)

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QUERY: Source Organism Taxonomy Name (Full Lineage) = "HIV-1 06TG.HT008"

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Search Summary

This query matches 47 Structures.

Refinements

Structure Determination Methodology

experimental (47)

Scientific Name of Source Organism

	HIV-1 06TG.HT008 (47)
	Homo sapiens (31)

Taxonomy

	Riboviria (47)
	Eukaryota (31)

Experimental Method

	X-RAY DIFFRACTION (24)
	ELECTRON MICROSCOPY (20)
	SOLUTION NMR (3)
	SOLUTION SCATTERING (2)

Polymer Entity Type

	Protein (46)
	RNA (3)

Refinement Resolution (Å)

	1.0 - 1.5 (2)
	1.5 - 2.0 (6)
	2.0 - 2.5 (12)
	2.5 - 3.0 (3)
	3.0 - 3.5 (5)
	3.5 - 4.0 (6)
	4.0 - 4.5 (6)
	> 4.5 (4)

Release Date

	2020 - 2024 (46)
	2025 - 2029 (1)

Enzyme Classification Name

Hydrolases (3)

Symmetry Type

	Asymmetric (26)
	Cyclic (20)

AllSelected

1 to 25 of 47 Structures

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7N05 \| pdb_00007n05	Download File View File

Crystal structure of the F240 antibody fragment bound to the HIV-1 gp41 immunodominant region

Cook, J.D., Lee, J.E.

(2022) Commun Biol 5: 291-291

Released	2022-03-30
Method	X-RAY DIFFRACTION 1.7 Å
Organisms	HIV-1 06TG.HT008 Homo sapiens
Macromolecule	Fab F240 heavy chain (protein) Fab F240 light chain (protein) HIV-1 gp41 immunodominant region (protein)
Unique Ligands	ACT, GOL

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7N08 \| pdb_00007n08	Download File View File

Crystal structure of the 3D6 antibody fragment bound to the HIV-1 gp41 immunodominant region

Cook, J.D., Lee, J.E.

(2022) Commun Biol 5: 291-291

Released	2022-03-30
Method	X-RAY DIFFRACTION 2 Å
Organisms	HIV-1 06TG.HT008 Homo sapiens
Macromolecule	Fab 3D6 heavy chain (protein) Fab 3D6 light chain (protein) HIV-1 gp41 immunodominant region (protein)

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7PS8 \| pdb_00007ps8	Download File View File

NMR Structure of the U3 RNA G-quadruplex

Marquevielle, J., Amrane, S.

To be published

Released	2023-04-05
Method	SOLUTION NMR
Organisms	HIV-1 06TG.HT008
Macromolecule	RNA (5'-R(CPAPGPGPGPAPGPGPUPGPUPGPGPCPCPUPGPGPGPCPGPGP*G)-3') (nucleic acid)
Unique Ligands	K

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7R7V \| pdb_00007r7v	Download File View File

Crystal structure of HLA-B*5301 complex with an HIV-1 Gag-derived epitope QW9

Li, X.L., Tan, K.M., Walker, B.D., Wang, J.H.

(2023) Nat Commun 14: 2929-2929

Released	2022-06-29
Method	X-RAY DIFFRACTION 1.6 Å
Organisms	HIV-1 06TG.HT008 Homo sapiens
Macromolecule	Beta-2-microglobulin (protein) GLN-ALA-SER-GLN-GLU-VAL-LYS-ASN-TRP (protein) MHC class I antigen (protein)
Unique Ligands	GOL

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7R7W \| pdb_00007r7w	Download File View File

Crystal structure of HLA-B*5301 complex with an HIV-1 Gag-derived epitope QW9 S3T variant

Li, X.L., Tan, K.M., Walker, B.D., Wang, J.H.

(2023) Nat Commun 14: 2929-2929

Released	2022-06-29
Method	X-RAY DIFFRACTION 1.17 Å
Organisms	HIV-1 06TG.HT008 Homo sapiens
Macromolecule	Beta-2-microglobulin (protein) GLN-ALA-THR-GLN-GLU-VAL-LYS-ASN-TRP (protein) MHC class I antigen (protein)

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7R7X \| pdb_00007r7x	Download File View File

Crystal structure of HLA-B*5701 complex with an HIV-1 Gag-derived epitope QW9

Li, X.L., Tan, K.M., Walker, B.D., Wang, J.H.

(2023) Nat Commun 14: 2929-2929

Released	2022-06-29
Method	X-RAY DIFFRACTION 2.099 Å
Organisms	HIV-1 06TG.HT008 Homo sapiens
Macromolecule	Beta-2-microglobulin (protein) GLN-ALA-SER-GLN-GLU-VAL-LYS-ASN-TRP (protein) MHC class I antigen (protein)
Unique Ligands	IPA, MES

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7R7Y \| pdb_00007r7y	Download File View File

Crystal structure of HLA-B*5701 complex with an HIV-1 Gag-derived epitope QW9 S3T variant

Li, X.L., Ng, R., Tan, K.M., Walker, B.D., Wang, J.H.

(2023) Nat Commun 14: 2929-2929

Released	2022-06-29
Method	X-RAY DIFFRACTION 1.601 Å
Organisms	HIV-1 06TG.HT008 Homo sapiens
Macromolecule	Beta-2-microglobulin (protein) GLN-ALA-THR-GLN-GLU-VAL-LYS-ASN-TRP (protein) MHC class I antigen (protein)
Unique Ligands	GOL

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7R80 \| pdb_00007r80	Download File View File

Crystal structure of C3 TCR complex with QW9-bound HLA-B*5301

Li, X.L., Tan, K.M., Walker, B.D., Wang, J.H.

(2023) Nat Commun 14: 2929-2929

Released	2022-06-29
Method	X-RAY DIFFRACTION 2.9 Å
Organisms	HIV-1 06TG.HT008 Homo sapiens
Macromolecule	Alpha chain of C3 TCR (protein) Beta Chain of C3 TCR (protein) Beta-2-microglobulin (protein) GLN-ALA-SER-GLN-GLU-VAL-LYS-ASN-TRP (protein) MHC class I antigen (protein)

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7T0O \| pdb_00007t0o	Download File View File

cryoEM reconstruction of the HIV gp140 in complex with the extracellular domains of CD4 and the adnectin domain of Combinectin. The gp140 and CD4 coordinates from entry 6EDU were rigid body fitted to the EM map along withe the crystal structure of CD4+adnectin

Concha, N.O., William, S.P., Wenzel, D.L.

(2021) J Mol Biology 434: 167395-167395

Released	2022-01-12
Method	ELECTRON MICROSCOPY 8.7 Å
Organisms	HIV-1 06TG.HT008 Homo sapiens
Macromolecule	Unique protein chains: 6

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7T1O \| pdb_00007t1o	Download File View File

Solution structure of 7SK stem-loop 1 with HIV-1 Tat Subtype G Arginine Rich Motif

Pham, V.V., Gao, M., D'Souza, V.M.

(2022) Commun Biol 5: 819-819

Released	2022-09-14
Method	SOLUTION NMR SOLUTION SCATTERING
Organisms	HIV-1 06TG.HT008 Homo sapiens
Macromolecule	Tat Subtype G Arginine Rich Motif (protein) 7SK stem-loop 1 RNA (56-MER) (nucleic acid)

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7T1P \| pdb_00007t1p	Download File View File

Solution structure of 7SK stem-loop 1 with HIV-1 Tat Finland Arginine Rich Motif

Pham, V.V., Gao, M., D'Souza, V.M.

(2022) Commun Biol 5: 819-819

Released	2022-09-14
Method	SOLUTION NMR SOLUTION SCATTERING
Organisms	HIV-1 06TG.HT008 Homo sapiens
Macromolecule	Tat Finland Arginine Rich Motif (protein) RNA (56-MER) (nucleic acid)

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7TJO \| pdb_00007tjo	Download File View File

HIV-1 gp120 complex with CJF-II-197-S

Gong, Z., Hendrickson, W.A.

(2023) ACS Med Chem Lett 14: 51-58

Released	2023-01-25
Method	X-RAY DIFFRACTION 3.07 Å
Organisms	HIV-1 06TG.HT008
Macromolecule	Glycoprotein 120 (protein)
Unique Ligands	I6Q, IMD, NAG

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7TJP \| pdb_00007tjp	Download File View File

HIV-1 gp120 complex with CJF-II-195

Gong, Z., Hendrickson, W.A.

(2023) ACS Med Chem Lett 14: 51-58

Released	2023-01-25
Method	X-RAY DIFFRACTION 2.77 Å
Organisms	HIV-1 06TG.HT008
Macromolecule	Glycoprotein 120 (protein)
Unique Ligands	I6M, IMD, NAG

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8ELI \| pdb_00008eli	Download File View File

Broadly neutralizing antibody VRC34-combo.1 in complex with HIV fusion peptide (residue 512-519)

Xu, K., Kwong, P.D.

(2023) Nat Commun 14: 7593-7593

Released	2023-09-27
Method	X-RAY DIFFRACTION 1.49 Å
Organisms	HIV-1 06TG.HT008 Homo sapiens
Macromolecule	Fusion peptide (protein) VRC34-combo.1 Fab Heavy chain (protein) VRC34-combo.1 Fab Light chain (protein)

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8F7M \| pdb_00008f7m	Download File View File

Crystal Structure of HLA-B*57:01-TW10-T242N complex

Chatzileontiadou, D.S.M., Lobos, C.A., Gras, S.

(2024) Cell Rep 43: 114555-114555

Released	2024-06-05
Method	X-RAY DIFFRACTION 1.88 Å
Organisms	HIV-1 06TG.HT008 Homo sapiens
Macromolecule	Beta-2-microglobulin (protein) T242N peptide (TW10 mutant) (protein) heavy chain HLA-B*57:01 (protein)
Unique Ligands	ACT, PEG

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8FLY \| pdb_00008fly	Download File View File

HIV-1 gp120 complex with BNM-III-170

Gong, Z., Hendrickson, W.A.

(2023) Proc Natl Acad Sci U S A 120: e2222073120-e2222073120

Released	2023-04-05
Method	X-RAY DIFFRACTION 2.04 Å
Organisms	HIV-1 06TG.HT008
Macromolecule	Envelope glycoprotein gp120 (protein)
Unique Ligands	5VG, NAG

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8FLZ \| pdb_00008flz	Download File View File

HIV-1 gp120 complex with CJF-III-049-S

Gong, Z., Hendrickson, W.A.

(2023) Proc Natl Acad Sci U S A 120: e2222073120-e2222073120

Released	2023-04-05
Method	X-RAY DIFFRACTION 2 Å
Organisms	HIV-1 06TG.HT008
Macromolecule	Envelope glycoprotein gp120 (protein)
Unique Ligands	7IT, NAG

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8FM0 \| pdb_00008fm0	Download File View File

HIV-1 gp120 complex with CJF-III-214

Gong, Z., Hendrickson, W.A.

(2023) Proc Natl Acad Sci U S A 120: e2222073120-e2222073120

Released	2023-04-05
Method	X-RAY DIFFRACTION 2.08 Å
Organisms	HIV-1 06TG.HT008
Macromolecule	Envelope glycoprotein gp120 (protein)
Unique Ligands	NAG, Y1O

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8FM2 \| pdb_00008fm2	Download File View File

HIV-1 gp120 complex with CJF-III-289

Gong, Z., Hendrickson, W.A.

(2023) Proc Natl Acad Sci U S A 120: e2222073120-e2222073120

Released	2023-04-05
Method	X-RAY DIFFRACTION 2.4 Å
Organisms	HIV-1 06TG.HT008
Macromolecule	Envelope glycoprotein gp120 (protein)
Unique Ligands	IMD, NAG, Y1X

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8FM3 \| pdb_00008fm3	Download File View File

HIV-1 gp120 complex with CJF-III-288

Gong, Z., Hendrickson, W.A.

(2023) Proc Natl Acad Sci U S A 120: e2222073120-e2222073120

Released	2023-04-05
Method	X-RAY DIFFRACTION 2.11 Å
Organisms	HIV-1 06TG.HT008
Macromolecule	Envelope glycoprotein gp120 (protein)
Unique Ligands	NAG, Y26

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8FM4 \| pdb_00008fm4	Download File View File

HIV-1 gp120 complex with CJF-IV-047

Gong, Z., Hendrickson, W.A.

(2023) Proc Natl Acad Sci U S A 120: e2222073120-e2222073120

Released	2023-04-05
Method	X-RAY DIFFRACTION 2.18 Å
Organisms	HIV-1 06TG.HT008
Macromolecule	Envelope glycoprotein gp120 (protein)
Unique Ligands	NAG, Y2K

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8FM5 \| pdb_00008fm5	Download File View File

HIV-1 gp120 complex with DY-III-065

Gong, Z., Hendrickson, W.A.

(2023) Proc Natl Acad Sci U S A 120: e2222073120-e2222073120

Released	2023-04-05
Method	X-RAY DIFFRACTION 1.88 Å
Organisms	HIV-1 06TG.HT008
Macromolecule	Envelope glycoprotein gp120 (protein)
Unique Ligands	NAG, Y2E

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8FM7 \| pdb_00008fm7	Download File View File

HIV-1 gp120 complex with CJF-III-192

Gong, Z., Hendrickson, W.A.

(2023) Proc Natl Acad Sci U S A 120: e2222073120-e2222073120

Released	2023-04-05
Method	X-RAY DIFFRACTION 2.34 Å
Organisms	HIV-1 06TG.HT008
Macromolecule	Envelope glycoprotein gp120 (protein)
Unique Ligands	NAG, Y2O

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8FM8 \| pdb_00008fm8	Download File View File

HIV-1 gp120 complex with CJF-IV-046

Gong, Z., Hendrickson, W.A.

(2023) Proc Natl Acad Sci U S A 120: e2222073120-e2222073120

Released	2023-04-05
Method	X-RAY DIFFRACTION 2.47 Å
Organisms	HIV-1 06TG.HT008
Macromolecule	Envelope glycoprotein gp120 (protein)
Unique Ligands	IMD, NAG, Y1T

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8GVB \| pdb_00008gvb	Download File View File

The complex between public TCR TD08 and HLA-A24 bound to HIV-1 Nef138-8 peptide

Gao, G.F., Shi, Y., Ma, K., Chai, Y., Guan, J., Qi, J., Tan, S., Dong, T., Iwamoto, A., Kawana-Tachikawa, A.

(2022) J Immunol 209: 1652-1661

Released	2022-10-19
Method	X-RAY DIFFRACTION 3.2 Å
Organisms	HIV-1 06TG.HT008 Homo sapiens
Macromolecule	8-mer peptide from Protein Nef (protein) Beta-2-microglobulin (protein) MHC class I antigen (protein) TD08 TCR alpha chain (protein) TD08 TCR beta chain (protein)

1 to 25 of 47 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

7N05 | pdb_00007n05

7N08 | pdb_00007n08

7PS8 | pdb_00007ps8

7R7V | pdb_00007r7v

7R7W | pdb_00007r7w

7R7X | pdb_00007r7x

7R7Y | pdb_00007r7y

7R80 | pdb_00007r80

7T0O | pdb_00007t0o

7T1O | pdb_00007t1o

7T1P | pdb_00007t1p

7TJO | pdb_00007tjo

7TJP | pdb_00007tjp

8ELI | pdb_00008eli

8F7M | pdb_00008f7m

8FLY | pdb_00008fly

8FLZ | pdb_00008flz

8FM0 | pdb_00008fm0

8FM2 | pdb_00008fm2

8FM3 | pdb_00008fm3

8FM4 | pdb_00008fm4

8FM5 | pdb_00008fm5

8FM7 | pdb_00008fm7

8FM8 | pdb_00008fm8

8GVB | pdb_00008gvb