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)
A [auth E]SCOP2B SuperfamilyNucleic acid-binding proteins8042151 3000135 SCOP2B (2022-06-29)
A [auth E]SCOP2B SuperfamilyeIF2alpha middle domain-like8042150 3001761 SCOP2B (2022-06-29)
BSCOP2B SuperfamilyMetallo-dependent phosphatases8036891 3001067 SCOP2B (2022-06-29)
C [auth A]SCOP2B SuperfamilyActin-like ATPases8040509 3000092 SCOP2B (2022-06-29)
C [auth A]SCOP2B SuperfamilyActin-like ATPases8040506 3000092 SCOP2B (2022-06-29)
DSCOP2B SuperfamilyDNase I-like8036570 3000957 SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

ChainsFamily NameDomain Identifier ArchitecturePossible HomologyHomologyTopologyFamilyProvenance Source (Version)
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)
DPF03372e7nzmD1 A: a+b four layersX: Carbon-nitrogen hydrolase-likeH: DNase I-like (From Topology)T: DNase I-likeF: PF03372ECOD (1.6)

Protein Family Annotation Pfam Database Homepage

ChainsAccessionNameDescriptionCommentsSource
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
C [auth A]PF00022Actin (Actin)Actin- Family
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
E [auth C]PF10488Phosphatase-1 catalytic subunit binding region (PP1c_bdg)Phosphatase-1 catalytic subunit binding regionThis conserved C-terminus appears to be a protein phosphatase-1 catalytic subunit (PP1C) binding region, which may in some circumstances also be retroviral in origin since it is found in both herpes simplex virus and in mouse and man. This domain is ...This conserved C-terminus appears to be a protein phosphatase-1 catalytic subunit (PP1C) binding region, which may in some circumstances also be retroviral in origin since it is found in both herpes simplex virus and in mouse and man. This domain is found in Gadd-34 apoptosis-associated proteins as well as the constitutive repressor of eIF2-alpha phosphorylation/protein phosphatase 1, regulatory (inhibitor) subunit 15b, otherwise known as CReP. Diverse stressful conditions are associated with phosphorylation of the {alpha} subunit of eukaryotic translation initiation factor 2 (eIF2{alpha}) on serine 51. This signaling event, which is conserved from yeast to mammals, negatively regulates the guanine nucleotide exchange factor, eIF2-B and inhibits the recycling of eIF2 to its active GTP bound form. In mammalian cells eIF2{alpha} phosphorylation emerges as an important event in stress signaling that impacts on gene expression at both the translational and transcriptional levels [1].
Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

ChainsPolymerMolecular FunctionBiological ProcessCellular Component
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
Deoxyribonuclease-1
E [auth C]Protein phosphatase 1 regulatory subunit 15A,Maltose/maltodextrin-binding periplasmic protein

InterPro: Protein Family Classification InterPro Database Homepage

ChainsAccessionNameType
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
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

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