6CYT

HIV-1 TAR loop in complex with Tat:AFF4:P-TEFb


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.5 Å
  • R-Value Free: 0.283 
  • R-Value Work: 0.247 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Structural mechanism for HIV-1 TAR loop recognition by Tat and the super elongation complex.

Schulze-Gahmen, U.Hurley, J.H.

(2018) Proc. Natl. Acad. Sci. U.S.A. 115: 12973-12978


Macromolecules

Find similar proteins by: Sequence  |  Structure


Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Cyclin-dependent kinase 9
A
332Homo sapiensMutation(s): 0 
Gene Names: CDK9 (CDC2L4, TAK)
EC: 2.7.11.22, 2.7.11.23
Find proteins for P50750 (Homo sapiens)
Go to Gene View: CDK9
Go to UniProtKB:  P50750
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
Cyclin-T1
B
264Homo sapiensMutation(s): 0 
Gene Names: CCNT1
Find proteins for O60563 (Homo sapiens)
Go to Gene View: CCNT1
Go to UniProtKB:  O60563
Entity ID: 3
MoleculeChainsSequence LengthOrganismDetails
AF4/FMR2 family member 4
C
36Homo sapiensMutation(s): 0 
Gene Names: AFF4 (AF5Q31, MCEF)
Find proteins for Q9UHB7 (Homo sapiens)
Go to Gene View: AFF4
Go to UniProtKB:  Q9UHB7
Entity ID: 4
MoleculeChainsSequence LengthOrganismDetails
Protein Tat
D
58Human immunodeficiency virus 1Mutation(s): 0 
Gene Names: tat
Find proteins for A0A0C5HAL9 (Human immunodeficiency virus 1)
Go to UniProtKB:  A0A0C5HAL9
Entity ID: 5
MoleculeChainsLengthOrganism
RNA (5'-R(P*AP*UP*CP*UP*GP*AP*GP*CP*CP*UP*GP*GP*GP*AP*GP*CP*U)-3')N20Human immunodeficiency virus 1
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
ZN
Query on ZN

Download SDF File 
Download CCD File 
D
ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
 Ligand Interaction
Modified Residues  2 Unique
IDChainsTypeFormula2D DiagramParent
TPO
Query on TPO
A
L-PEPTIDE LINKINGC4 H10 N O6 PTHR
ACE
Query on ACE
D
NON-POLYMERC2 H4 O

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Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.5 Å
  • R-Value Free: 0.283 
  • R-Value Work: 0.247 
  • Space Group: P 32 2 1
Unit Cell:
Length (Å)Angle (°)
a = 148.580α = 90.00
b = 148.580β = 90.00
c = 104.630γ = 120.00
Software Package:
Software NamePurpose
PDB_EXTRACTdata extraction
XDSdata reduction
PHENIXrefinement
Aimlessdata scaling
PHENIXphasing

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Institutes of Health/National Institute of General Medical SciencesUnited StatesP50GM0882250

Revision History 

  • Version 1.0: 2018-12-12
    Type: Initial release
  • Version 1.1: 2018-12-19
    Type: Data collection, Database references
  • Version 1.2: 2019-01-02
    Type: Data collection, Database references