7NZM

Cryo-EM structure of pre-dephosphorylation complex of phosphorylated eIF2alpha with trapped holophosphatase (PP1A_D64A/PPP1R15A/G-actin/DNase I)


Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

ChainsTypeFamily Name Domain Identifier Family IdentifierProvenance Source (Version)
DSCOP2B SuperfamilyDNase I-like8036570 3000957 SCOP2B (2021-05-27)
A [auth E]SCOP2B SuperfamilyNucleic acid-binding proteins8042151 3000135 SCOP2B (2021-05-27)
A [auth E]SCOP2B SuperfamilyeIF2alpha middle domain-like8042150 3001761 SCOP2B (2021-05-27)
BSCOP2B SuperfamilyMetallo-dependent phosphatases8036891 3001067 SCOP2B (2021-05-27)
C [auth A]SCOP2B SuperfamilyActin-like ATPases8040509 3000092 SCOP2B (2021-05-27)
C [auth A]SCOP2B SuperfamilyActin-like ATPases8040506 3000092 SCOP2B (2021-05-27)

Domain Annotation: ECOD Classification ECOD Database Homepage

ChainsFamily NameDomain Identifier ArchitecturePossible HomologyHomologyTopologyFamilyProvenance Source (Version)
DPF03372e7nzmD1 A: a+b four layersX: Carbon-nitrogen hydrolase-likeH: DNase I-like (From Topology)T: DNase I-likeF: PF03372ECOD (1.6)
A [auth E]PF00575e7nzmE2 A: beta barrelsX: OB-foldH: Nucleic acid-binding proteins (From Topology)T: Nucleic acid-binding proteinsF: PF00575ECOD (1.6)
A [auth E]PF07541e7nzmE1 A: alpha arraysX: HhH/H2THH: eIF2alpha middle domain (From Topology)T: eIF2alpha middle domainF: PF07541ECOD (1.6)
BPF00149,PF16891e7nzmB1 A: a+b four layersX: Carbon-nitrogen hydrolase-likeH: Metallo-dependent phosphatases (From Topology)T: Metallo-dependent phosphatasesF: PF00149,PF16891ECOD (1.6)
C [auth A]PF00022e7nzmA2 A: mixed a+b and a/bX: Ribonuclease H-likeH: Ribonuclease H-like (From Topology)T: Ribonuclease H-likeF: PF00022ECOD (1.6)

Protein Family Annotation Pfam Database Homepage

ChainsAccessionNameDescriptionCommentsSource
PF03372Endonuclease/Exonuclease/phosphatase family (Exo_endo_phos)Endonuclease/Exonuclease/phosphatase familyThis large family of proteins includes magnesium dependent endonucleases and a large number of phosphatases involved in intracellular signalling [1]. This family includes: AP endonuclease proteins EC:4.2.99.18 e.g Swiss:P27695, DNase I proteins EC:3. ...This large family of proteins includes magnesium dependent endonucleases and a large number of phosphatases involved in intracellular signalling [1]. This family includes: AP endonuclease proteins EC:4.2.99.18 e.g Swiss:P27695, DNase I proteins EC:3.1.21.1 e.g. Swiss:P24855, Synaptojanin an inositol-1,4,5-trisphosphate phosphatase EC:3.1.3.56 Swiss:O43426, Sphingomyelinase EC:3.1.4.12 Swiss:P11889 and Nocturnin Swiss:O35710.
Domain
A [auth E]PF07541Eukaryotic translation initiation factor 2 alpha subunit (EIF_2_alpha)Eukaryotic translation initiation factor 2 alpha subunit- Family
A [auth E]PF00575S1 RNA binding domain (S1)S1 RNA binding domainThe S1 domain occurs in a wide range of RNA associated proteins. It is structurally similar to cold shock protein which binds nucleic acids. The S1 domain has an OB-fold structure.Domain
PF00149Calcineurin-like phosphoesterase (Metallophos)Calcineurin-like phosphoesteraseThis family includes a diverse range of phosphoesterases [1], including protein phosphoserine phosphatases, nucleotidases, sphingomyelin phosphodiesterases and 2'-3' cAMP phosphodiesterases as well as nucleases such as bacterial SbcD Swiss:P13457 or ...This family includes a diverse range of phosphoesterases [1], including protein phosphoserine phosphatases, nucleotidases, sphingomyelin phosphodiesterases and 2'-3' cAMP phosphodiesterases as well as nucleases such as bacterial SbcD Swiss:P13457 or yeast MRE11 Swiss:P32829. The most conserved regions in this superfamily centre around the metal chelating residues.
Domain
PF16891Serine-threonine protein phosphatase N-terminal domain (STPPase_N)Serine-threonine protein phosphatase N-terminal domain- Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

ChainsPolymerMolecular FunctionBiological ProcessCellular Component
Deoxyribonuclease-1
E [auth C]Protein phosphatase 1 regulatory subunit 15A,Maltose/maltodextrin-binding periplasmic protein
A [auth E]Eukaryotic translation initiation factor 2 subunit 1
Serine/threonine-protein phosphatase PP1-alpha catalytic subunit
C [auth A]Actin, alpha skeletal muscle, intermediate form

InterPro: Protein Family Classification InterPro Database Homepage

ChainsAccessionNameType
IPR005135Endonuclease/exonuclease/phosphataseDomain
IPR018057Deoxyribonuclease I, active siteActive Site
IPR033125Deoxyribonuclease I, conservied siteConserved Site
IPR016202Deoxyribonuclease IFamily
IPR036691Endonuclease/exonuclease/phosphatase superfamilyHomologous Superfamily
E [auth C]IPR006061Solute-binding family 1, conserved siteConserved Site
E [auth C]IPR006060Maltose/Cyclodextrin ABC transporter, substrate-binding proteinFamily
E [auth C]IPR006059Bacterial-type extracellular solute-binding proteinFamily
E [auth C]IPR019523Protein phosphatase 1, regulatory subunit 15A/B, C-terminalDomain
A [auth E]IPR044126IF2a, S1-like domainDomain
A [auth E]IPR024054Translation initiation factor 2, alpha subunit, middle domain superfamilyHomologous Superfamily
A [auth E]IPR024055Translation initiation factor 2, alpha subunit, C-terminalHomologous Superfamily
A [auth E]IPR003029S1 domainDomain
A [auth E]IPR012340Nucleic acid-binding, OB-foldHomologous Superfamily
A [auth E]IPR011488Translation initiation factor 2, alpha subunitFamily
IPR004843Calcineurin-like phosphoesterase domain, ApaH typeDomain
IPR031675Serine-threonine protein phosphatase, N-terminalDomain
IPR029052Metallo-dependent phosphatase-likeHomologous Superfamily
IPR006186Serine/threonine-specific protein phosphatase/bis(5-nucleosyl)-tetraphosphataseDomain
C [auth A]IPR020902Actin/actin-like conserved siteConserved Site
C [auth A]IPR043129ATPase, nucleotide binding domainHomologous Superfamily
C [auth A]IPR004001Actin, conserved siteConserved Site
C [auth A]IPR004000Actin familyFamily

Protein Modification Annotation

Modified Residue(s)
ChainResidue(s)Description
A [auth E]SEP Parent Component: SER

RESIDAA0037

PSI-MOD :  O-phospho-L-serine MOD:00046