Domain ID e3rmdA5

Download files:
  • A: mixed a+b and a/b
  • X: Ribonuclease H-like
  • H: Ribonuclease H-like
  • T: Ribonuclease H-like
  • F: DNA_pol_B_exo1
UID: 001157044
Type: Automatic domain
Parent: e1ih7A4
Range: A:1-375
PDB: 3rmd
PDB Description: DNA polymerase
UniProt: Q38087
Species: Enterobacteria phage RB69

Structure of domain e3rmdA5

Domains in the same chain:

e3rmdA5 A:1-375 Ribonuclease H-like Ribonuclease H-like Ribonuclease H-like
e3rmdA8 A:376-468,A:575-732 Alpha-beta plaits Adenylyl and guanylyl cyclase catalytic domain-like Adenylyl and guanylyl cyclase catalytic domain-like
e3rmdA7 A:469-574 "fingers" domain in bacteriophage RB69-like DNA polymerase I "fingers" domain in bacteriophage RB69-like DNA polymerase I "fingers" domain in bacteriophage RB69-like DNA polymerase I
e3rmdA6 A:733-902 "thumb" domain in bacteriophage RB69-like DNA polymerase I "thumb" domain in bacteriophage RB69-like DNA polymerase I "thumb" domain in bacteriophage RB69-like DNA polymerase I

Domains in the same PDB:

e3rmdA5 A:1-375 Ribonuclease H-like Ribonuclease H-like Ribonuclease H-like
e3rmdA8 A:376-468,A:575-732 Alpha-beta plaits Adenylyl and guanylyl cyclase catalytic domain-like Adenylyl and guanylyl cyclase catalytic domain-like
e3rmdA7 A:469-574 "fingers" domain in bacteriophage RB69-like DNA polymerase I "fingers" domain in bacteriophage RB69-like DNA polymerase I "fingers" domain in bacteriophage RB69-like DNA polymerase I
e3rmdA6 A:733-902 "thumb" domain in bacteriophage RB69-like DNA polymerase I "thumb" domain in bacteriophage RB69-like DNA polymerase I "thumb" domain in bacteriophage RB69-like DNA polymerase I
e3rmdB5 B:1-375 Ribonuclease H-like Ribonuclease H-like Ribonuclease H-like
e3rmdB8 B:376-468,B:575-732 Alpha-beta plaits Adenylyl and guanylyl cyclase catalytic domain-like Adenylyl and guanylyl cyclase catalytic domain-like
e3rmdB7 B:469-574 "fingers" domain in bacteriophage RB69-like DNA polymerase I "fingers" domain in bacteriophage RB69-like DNA polymerase I "fingers" domain in bacteriophage RB69-like DNA polymerase I
e3rmdB6 B:733-902 "thumb" domain in bacteriophage RB69-like DNA polymerase I "thumb" domain in bacteriophage RB69-like DNA polymerase I "thumb" domain in bacteriophage RB69-like DNA polymerase I
e3rmdC4 C:1-375 Ribonuclease H-like Ribonuclease H-like Ribonuclease H-like
e3rmdC7 C:376-468,C:575-732 Alpha-beta plaits Adenylyl and guanylyl cyclase catalytic domain-like Adenylyl and guanylyl cyclase catalytic domain-like
e3rmdC6 C:469-574 "fingers" domain in bacteriophage RB69-like DNA polymerase I "fingers" domain in bacteriophage RB69-like DNA polymerase I "fingers" domain in bacteriophage RB69-like DNA polymerase I
e3rmdC5 C:733-901 "thumb" domain in bacteriophage RB69-like DNA polymerase I "thumb" domain in bacteriophage RB69-like DNA polymerase I "thumb" domain in bacteriophage RB69-like DNA polymerase I
e3rmdD5 D:1-375 Ribonuclease H-like Ribonuclease H-like Ribonuclease H-like
e3rmdD8 D:376-468,D:575-732 Alpha-beta plaits Adenylyl and guanylyl cyclase catalytic domain-like Adenylyl and guanylyl cyclase catalytic domain-like
e3rmdD7 D:469-574 "fingers" domain in bacteriophage RB69-like DNA polymerase I "fingers" domain in bacteriophage RB69-like DNA polymerase I "fingers" domain in bacteriophage RB69-like DNA polymerase I
e3rmdD6 D:733-897 "thumb" domain in bacteriophage RB69-like DNA polymerase I "thumb" domain in bacteriophage RB69-like DNA polymerase I "thumb" domain in bacteriophage RB69-like DNA polymerase I

Structural contacts of domain e3rmdA5 of H-group "Ribonuclease H-like":

The domain and its neighboring domains (both within the asymmetric unit and to crystallographic symmetry mates) are represented by spheres and linked by lines. Distances between the center of the domain and interfaces are shown for each contact.

Domain IDSymmetry operatorH-groupVisualization
e3rmdB5 A:X-1,Y,Z->B:x,y,z Ribonuclease H-like Interaction Interface Pymol
e3rmdA8 A:x,y,z->A:-X+1,Y-1/2,-Z+1 Adenylyl and guanylyl cyclase catalytic domain-like Interaction Interface Pymol
e3rmdA6 A:-X+1,Y-1/2,-Z+1->A:x,y,z "thumb" domain in bacteriophage RB69-like DNA polymerase I Interaction Interface Pymol
e3rmdC5 A:-X+1,Y-1/2,-Z+1->C:x,y,z "thumb" domain in bacteriophage RB69-like DNA polymerase I Interaction Interface Pymol