PDBsum entry 5l1z

Transcription/RNA

PDB id: 5l1z

Contents

Protein chains

311 a.a.

255 a.a.

34 a.a.

50 a.a.

DNA/RNA

Metals

_ZN ×2

PDB id:

5l1z

Name:

Transcription/RNA

Title:

Tar complex with HIV-1 tat-aff4-p-tefb

Structure:

Cyclin-dependent kinase 9. Chain: a. Synonym: c-2k,cell division cycle 2-like protein kinase 4,cell division protein kinase 9,serine/threonine-protein kinase pitalre, tat-associated kinase complex catalytic subunit. Engineered: yes. Cyclin-t1. Chain: b. Synonym: cyclin-t.

Source:

Homo sapiens. Human. Organism_taxid: 9606. Gene: cdk9, cdc2l4, tak. Expressed in: spodoptera frugiperda. Expression_system_taxid: 7108. Gene: ccnt1. Synthetic: yes. Human immunodeficiency virus type 1 group m

Resolution:

5.90Å R-factor: 0.217 R-free: 0.313

Authors:

U.Schulze-Gahmen,J.Hurley

Key ref:

u.schulze-gahmen et al. (2016). Insights into HIV-1 proviral transcription from integrative structure and dynamics of the Tat:AFF4:P-TEFb:TAR complex. Elife, 5, . PubMed id: 27731797

Date:

29-Jul-16 Release date: 26-Oct-16

Protein chain

P50750  (CDK9_HUMAN) -  Cyclin-dependent kinase 9 from Homo sapiens

Seq: 372 a.a.

Struc: 311 a.a.*

Protein chain

O60563  (CCNT1_HUMAN) -  Cyclin-T1 from Homo sapiens

Seq: 726 a.a.

Struc: 255 a.a.

Protein chain

Q9UHB7  (AFF4_HUMAN) -  AF4/FMR2 family member 4 from Homo sapiens

Seq: 1163 a.a.

Struc: 34 a.a.

Protein chain

P69697  (TAT_HV1B1) -  Protein Tat from Human immunodeficiency virus type 1 group M subtype B (isolate BH10)

Seq: 86 a.a.

Struc: 49 a.a.

* PDB and UniProt seqs differ at 1 residue position (black cross)

DNA/RNA chain

G-A-U-C-U-G-A-G-C-C-U-G-G-G-A-G-C-U-C-U-C 21 bases

Enzyme reactions

• Enzyme class 2: Chain A: E.C.2.7.11.22 - cyclin-dependent kinase.
• Reaction:
  1. L-seryl-[protein] + ATP = O-phospho-L-seryl-[protein] + ADP + H⁺
  2. L-threonyl-[protein] + ATP = O-phospho-L-threonyl-[protein] + ADP + H⁺
• Enzyme class 3: Chain A: E.C.2.7.11.23 - [RNA-polymerase]-subunit kinase.
• Reaction: [DNA-directed RNA polymerase] + ATP = phospho-[DNA-directed RNA polymerase] + ADP + H⁺

Note, where more than one E.C. class is given (as above), each may correspond to a different protein domain or, in the case of polyprotein precursors, to a different mature protein.

Molecule diagrams generated from .mol files obtained from the KEGG ftp site

reference

Elife 5: (2016)

PubMed id: 27731797

Insights into HIV-1 proviral transcription from integrative structure and dynamics of the Tat:AFF4:P-TEFb:TAR complex.

u.schulze-gahmen, i.echeverria, g.stjepanovic, y.bai, h.ld.schneidman-duhovny, j.a.doudna, q.zhou, a.sali, j.h.hur.

ABSTRACT

No abstract given.