Macromolecule Annotations for the Entities in PDB 1E3P

Domain Annotation: SCOP Classification SCOP Database (version: 1.75) Homepage

Chains Domain Info Class Fold Superfamily Family Domain Species
A263-345 d1e3pa1 All alpha proteins DNA/RNA-binding 3-helical bundle Polynucleotide phosphorylase/guanosine pentaphosphate synthase (PNPase/GPSI), domain 3 Polynucleotide phosphorylase/guanosine pentaphosphate synthase (PNPase/GPSI), domain 3 Polynucleotide phosphorylase/guanosine pentaphosphate synthase (PNPase/GPSI), domain 3 Streptomyces antibioticus [TaxId: 1890]
A656-717 d1e3pa2 All beta proteins OB-fold Nucleic acid-binding proteins Cold shock DNA-binding domain-like S1 RNA-binding domain of polyribonucleotide phosphorylase, PNPase Streptomyces antibioticus [TaxId: 1890]
A3-151 d1e3pa3 Alpha and beta proteins (a+b) Ribosomal protein S5 domain 2-like Ribosomal protein S5 domain 2-like Ribonuclease PH domain 1-like Polynucleotide phosphorylase/guanosine pentaphosphate synthase (PNPase/GPSI), domains 1 and 4 Streptomyces antibioticus [TaxId: 1890]
A346-482 d1e3pa4 Alpha and beta proteins (a+b) Ribosomal protein S5 domain 2-like Ribosomal protein S5 domain 2-like Ribonuclease PH domain 1-like Polynucleotide phosphorylase/guanosine pentaphosphate synthase (PNPase/GPSI), domains 1 and 4 Streptomyces antibioticus [TaxId: 1890]
A579-634 d1e3pa5 Alpha and beta proteins (a+b) Alpha-lytic protease prodomain-like Prokaryotic type KH domain (KH-domain type II) Prokaryotic type KH domain (KH-domain type II) Polynucleotide phosphorylase/guanosine pentaphosphate synthase (PNPase/GPSI), domain 6 Streptomyces antibioticus [TaxId: 1890]
A152-262 d1e3pa6 Alpha and beta proteins (a+b) Ribonuclease PH domain 2-like Ribonuclease PH domain 2-like Ribonuclease PH domain 2-like Polynucleotide phosphorylase/guanosine pentaphosphate synthase (PNPase/GPSI), domains 2 and 5 Streptomyces antibioticus [TaxId: 1890]
A483-578 d1e3pa7 Alpha and beta proteins (a+b) Ribonuclease PH domain 2-like Ribonuclease PH domain 2-like Ribonuclease PH domain 2-like Polynucleotide phosphorylase/guanosine pentaphosphate synthase (PNPase/GPSI), domains 2 and 5 Streptomyces antibioticus [TaxId: 1890]

Protein Family Annotation Pfam Database Homepage

Chains Pfam Accession Pfam Identifier Pfam Description Type Source
A PF01138 RNase_PH 3' exoribonuclease family, domain 1 Domain This family includes 3'-5' exoribonucleases. Ribonuclease PH contains a single copy of this domain, and removes nucleotide residues following the -CCA terminus of tRNA. Polyribonucleotide nucleotidyltransferase (PNPase) contains two tandem copies of the domain. PNPase is involved in mRNA degradation in a 3'-5' direction. The exosome is a 3'-5' exoribonuclease complex that is required for 3' processing of the 5.8S rRNA. Three of its five protein components, Swiss:P46948 Swiss:Q12277 and Swiss:P25359 contain a copy of this domain [1]. Swiss:Q10205, a hypothetical protein from S. pombe appears to belong to an uncharacterised subfamily. This subfamily is found in both eukaryotes and archaebacteria. PFAM PF01138
A PF00013 KH_1 KH domain Domain KH motifs bind RNA in vitro. Autoantibodies to Nova, a KH domain protein, cause paraneoplastic opsoclonus ataxia. PFAM PF00013
A PF01138 RNase_PH 3' exoribonuclease family, domain 1 Domain This family includes 3'-5' exoribonucleases. Ribonuclease PH contains a single copy of this domain, and removes nucleotide residues following the -CCA terminus of tRNA. Polyribonucleotide nucleotidyltransferase (PNPase) contains two tandem copies of the domain. PNPase is involved in mRNA degradation in a 3'-5' direction. The exosome is a 3'-5' exoribonuclease complex that is required for 3' processing of the 5.8S rRNA. Three of its five protein components, Swiss:P46948 Swiss:Q12277 and Swiss:P25359 contain a copy of this domain [1]. Swiss:Q10205, a hypothetical protein from S. pombe appears to belong to an uncharacterised subfamily. This subfamily is found in both eukaryotes and archaebacteria. PFAM PF01138
A PF03726 PNPase Polyribonucleotide nucleotidyltransferase, RNA binding domain Domain This family contains the RNA binding domain of Polyribonucleotide nucleotidyltransferase (PNPase) PNPase is involved in mRNA degradation in a 3'-5' direction. PFAM PF03726
A PF03725 RNase_PH_C 3' exoribonuclease family, domain 2 Domain This family includes 3'-5' exoribonucleases. Ribonuclease PH contains a single copy of this domain, and removes nucleotide residues following the -CCA terminus of tRNA. Polyribonucleotide nucleotidyltransferase (PNPase) contains two tandem copies of the domain. PNPase is involved in mRNA degradation in a 3'-5' direction. The exosome is a 3'-5' exoribonuclease complex that is required for 3' processing of the 5.8S rRNA. Three of its five protein components, Swiss:P46948 Swiss:Q12277 and Swiss:P25359 contain a copy of this domain [1]. Swiss:Q10205, a hypothetical protein from S. pombe appears to belong to an uncharacterised subfamily. This subfamily is found in both eukaryotes and archaebacteria. PFAM PF03725
A PF00575 S1 S1 RNA binding domain Domain The 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. PFAM PF00575

Protein Modification Annotation

Type PDB Residue Nr. Description