Macromolecule Annotations for the Entities in PDB 1PDI

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

Chains Domain Info Class Fold Superfamily Family Domain Species
A d1pdia_ Low resolution protein structures Bacteriophage T4 3D cryo-EM reconstruction Bacteriophage T4 3D cryo-EM reconstruction Bacteriophage T4 3D cryo-EM reconstruction Bacteriophage T4 3D cryo-EM reconstruction Bacteriophage T4 [TaxId: 10665]
B d1pdib_ Low resolution protein structures Bacteriophage T4 3D cryo-EM reconstruction Bacteriophage T4 3D cryo-EM reconstruction Bacteriophage T4 3D cryo-EM reconstruction Bacteriophage T4 3D cryo-EM reconstruction Bacteriophage T4 [TaxId: 10665]
C d1pdic_ Low resolution protein structures Bacteriophage T4 3D cryo-EM reconstruction Bacteriophage T4 3D cryo-EM reconstruction Bacteriophage T4 3D cryo-EM reconstruction Bacteriophage T4 3D cryo-EM reconstruction Bacteriophage T4 [TaxId: 10665]
D d1pdid_ Low resolution protein structures Bacteriophage T4 3D cryo-EM reconstruction Bacteriophage T4 3D cryo-EM reconstruction Bacteriophage T4 3D cryo-EM reconstruction Bacteriophage T4 3D cryo-EM reconstruction Bacteriophage T4 [TaxId: 10665]
E d1pdie_ Low resolution protein structures Bacteriophage T4 3D cryo-EM reconstruction Bacteriophage T4 3D cryo-EM reconstruction Bacteriophage T4 3D cryo-EM reconstruction Bacteriophage T4 3D cryo-EM reconstruction Bacteriophage T4 [TaxId: 10665]
F d1pdif_ Low resolution protein structures Bacteriophage T4 3D cryo-EM reconstruction Bacteriophage T4 3D cryo-EM reconstruction Bacteriophage T4 3D cryo-EM reconstruction Bacteriophage T4 3D cryo-EM reconstruction Bacteriophage T4 [TaxId: 10665]
G d1pdig_ Low resolution protein structures Bacteriophage T4 3D cryo-EM reconstruction Bacteriophage T4 3D cryo-EM reconstruction Bacteriophage T4 3D cryo-EM reconstruction Bacteriophage T4 3D cryo-EM reconstruction Bacteriophage T4 [TaxId: 10665]
H d1pdih_ Low resolution protein structures Bacteriophage T4 3D cryo-EM reconstruction Bacteriophage T4 3D cryo-EM reconstruction Bacteriophage T4 3D cryo-EM reconstruction Bacteriophage T4 3D cryo-EM reconstruction Bacteriophage T4 [TaxId: 10665]
I d1pdii_ Low resolution protein structures Bacteriophage T4 3D cryo-EM reconstruction Bacteriophage T4 3D cryo-EM reconstruction Bacteriophage T4 3D cryo-EM reconstruction Bacteriophage T4 3D cryo-EM reconstruction Bacteriophage T4 [TaxId: 10665]
J d1pdij_ Low resolution protein structures Bacteriophage T4 3D cryo-EM reconstruction Bacteriophage T4 3D cryo-EM reconstruction Bacteriophage T4 3D cryo-EM reconstruction Bacteriophage T4 3D cryo-EM reconstruction Bacteriophage T4 [TaxId: 10665]
K d1pdik_ Low resolution protein structures Bacteriophage T4 3D cryo-EM reconstruction Bacteriophage T4 3D cryo-EM reconstruction Bacteriophage T4 3D cryo-EM reconstruction Bacteriophage T4 3D cryo-EM reconstruction Bacteriophage T4 [TaxId: 10665]
L d1pdil_ Low resolution protein structures Bacteriophage T4 3D cryo-EM reconstruction Bacteriophage T4 3D cryo-EM reconstruction Bacteriophage T4 3D cryo-EM reconstruction Bacteriophage T4 3D cryo-EM reconstruction Bacteriophage T4 [TaxId: 10665]
M d1pdim_ Low resolution protein structures Bacteriophage T4 3D cryo-EM reconstruction Bacteriophage T4 3D cryo-EM reconstruction Bacteriophage T4 3D cryo-EM reconstruction Bacteriophage T4 3D cryo-EM reconstruction Bacteriophage T4 [TaxId: 10665]
N d1pdin_ Low resolution protein structures Bacteriophage T4 3D cryo-EM reconstruction Bacteriophage T4 3D cryo-EM reconstruction Bacteriophage T4 3D cryo-EM reconstruction Bacteriophage T4 3D cryo-EM reconstruction Bacteriophage T4 [TaxId: 10665]
O d1pdio_ Low resolution protein structures Bacteriophage T4 3D cryo-EM reconstruction Bacteriophage T4 3D cryo-EM reconstruction Bacteriophage T4 3D cryo-EM reconstruction Bacteriophage T4 3D cryo-EM reconstruction Bacteriophage T4 [TaxId: 10665]
P d1pdip_ Low resolution protein structures Bacteriophage T4 3D cryo-EM reconstruction Bacteriophage T4 3D cryo-EM reconstruction Bacteriophage T4 3D cryo-EM reconstruction Bacteriophage T4 3D cryo-EM reconstruction Bacteriophage T4 [TaxId: 10665]
Q d1pdiq_ Low resolution protein structures Bacteriophage T4 3D cryo-EM reconstruction Bacteriophage T4 3D cryo-EM reconstruction Bacteriophage T4 3D cryo-EM reconstruction Bacteriophage T4 3D cryo-EM reconstruction Bacteriophage T4 [TaxId: 10665]
R d1pdir_ Low resolution protein structures Bacteriophage T4 3D cryo-EM reconstruction Bacteriophage T4 3D cryo-EM reconstruction Bacteriophage T4 3D cryo-EM reconstruction Bacteriophage T4 3D cryo-EM reconstruction Bacteriophage T4 [TaxId: 10665]

Protein Family Annotation Pfam Database Homepage

Chains Pfam Accession Pfam Identifier Pfam Description Type Source
A PF09089 gp12-short_mid Phage short tail fibre protein gp12, middle domain Domain Members of this family adopt a right-handed triple-stranded beta-helix fold, and are found in the middle of the phage short tail fibre protein gp12 [1]. PFAM PF09089
A PF07484 Collar Phage Tail Collar Domain Domain This region is occasionally found in conjunction with Pfam:PF03335. Most of the family appear to be phage tail proteins; however some appear to be involved in other processes. For instance Swiss:Q03314 from Rhizobium leguminosarum may be involved in plant-microbe interactions ([1]). A related protein Swiss:Q9L3N1 is involved in the pathogenicity of Microcystis aeruginosa. The finding of this family in a structural component of the phage tail fibre baseplate (Swiss:P10930) suggests that its function is structural rather than enzymatic. Structural studies show this region consists of a helix and a loop ([2]) and three beta-strands. This alignment does not catch the third strand as it is separated from the rest of the structure by around 100 residues. This strand is conserved in homologues but the intervening sequence is not. Much of the function of Swiss:P10930 appears to reside in this intervening region. In the tertiary structure of the phage baseplate this domain forms part of the 'collar'. The domain may bind SO4, however the residues accredited with this vary between the PDB file and the Swiss-Prot entry. The long unconserved region maybe due to domain swapping in and out of a loop or reflective of rapid evolution. PFAM PF07484
A PF14928 S_tail_recep_bd Short tail fibre protein receptor-binding domain Domain This domain is a receptor binding domain found on bacteriophage short tail fibre proteins. It contains a zinc-binding site and a potential lipopolysaccharide-binding site [1]. PFAM PF14928

Gene Product Annotation Gene Ontology Consortium Homepage

Chains Polymer Molecular Function Biological Process Cellular Component
A,B,C,D,E,F,G,H,I,J,K,L,M,N,O,P,Q,R Short tail fiber protein (1PDI:A,B,C,D,E,F,G,H,I,J,K,L,M,N,O,P,Q,R)
  • none
  • none