5W35

Crystal structure of the RNA polymerase domain (RPD) of Mycobacterium tuberculosis primase DnaG in complex with a double-stranded DNA oligomer with a 1-nucleotide overhang


Domain Annotation: ECOD Classification ECOD Database Homepage

ChainsFamily NameDomain Identifier ArchitecturePossible HomologyHomologyTopologyFamilyProvenance Source (Version)
ADnaB_binde5w35A3 A: alpha bundlesX: helical domain in DNA primase DnaG catalytic core (From Topology)H: helical domain in DNA primase DnaG catalytic core (From Topology)T: helical domain in DNA primase DnaG catalytic coreF: DnaB_bindECOD (1.6)
AToprim_Ne5w35A2 A: a+b two layersX: N-terminal a+b domain in DNA primase core (From Topology)H: N-terminal a+b domain in DNA primase core (From Topology)T: N-terminal a+b domain in DNA primase coreF: Toprim_NECOD (1.6)
AToprim_2e5w35A1 A: a/b three-layered sandwichesX: HAD domain-likeH: HAD domain-relatedT: Toprim domainF: Toprim_2ECOD (1.6)
BDnaB_binde5w35B1 A: alpha bundlesX: helical domain in DNA primase DnaG catalytic core (From Topology)H: helical domain in DNA primase DnaG catalytic core (From Topology)T: helical domain in DNA primase DnaG catalytic coreF: DnaB_bindECOD (1.6)
BToprim_Ne5w35B2 A: a+b two layersX: N-terminal a+b domain in DNA primase core (From Topology)H: N-terminal a+b domain in DNA primase core (From Topology)T: N-terminal a+b domain in DNA primase coreF: Toprim_NECOD (1.6)
BToprim_2e5w35B3 A: a/b three-layered sandwichesX: HAD domain-likeH: HAD domain-relatedT: Toprim domainF: Toprim_2ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Protein Family Annotation Pfam Database Homepage

ChainsAccessionNameDescriptionCommentsSource
A, B
PF10410DnaB-helicase binding domain of primase (DnaB_bind)DnaB-helicase binding domain of primaseThis domain is the C-terminal region three-helical domain of primase [1]. Primases synthesise short RNA strands on single-stranded DNA templates, thereby generating the hybrid duplexes required for the initiation of synthesis by DNA polymerases. Pri ...This domain is the C-terminal region three-helical domain of primase [1]. Primases synthesise short RNA strands on single-stranded DNA templates, thereby generating the hybrid duplexes required for the initiation of synthesis by DNA polymerases. Primases are recruited to single-stranded DNA by helicases, and this domain is the region of the primase which binds DnaB-helicase [2]. It is associated with the Toprim domain (Pfam:PF01751) which is the central catalytic core.
Domain
A, B
PF08275DNA primase catalytic core, N-terminal domain (DNAG_N)DNA primase catalytic core, N-terminal domainDNA primase (DNAG) is a a nucleotidyltransferase which synthesises the oligoribonucleotide primers required for DNA replication on the lagging strand of the replication fork. It can also prime the leading strand and has been implicated in cell divisi ...DNA primase (DNAG) is a a nucleotidyltransferase which synthesises the oligoribonucleotide primers required for DNA replication on the lagging strand of the replication fork. It can also prime the leading strand and has been implicated in cell division [1]. Primases comprise three domains: a zinc-binding domain at the N-terminal (Pfam:PF01807), a polymerase domain (catalytic core), and a domain that interacts with the replicative helicase (Pfam:PF01807). The catalytic core consists of an alpha+beta domain at the N-terminal (this entry) and a TOPRIM domain at the C-terminal (Pfam:PF13155) [1,2].
Domain
A, B
PF01751Toprim domain (Toprim)Toprim domain- Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

ChainsPolymerMolecular FunctionBiological ProcessCellular Component
A, B
DNA primase
synthetic DNA oligomer 5'-CCACTTCCGGTC---
synthetic DNA oligomer 5'-TGACCGGAAGTGG---