Domain ID e3rmbC5

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  • A: alpha bundles
  • X: "thumb" domain in bacteriophage RB69-like DNA polymerase I
  • H: "thumb" domain in bacteriophage RB69-like DNA polymerase I
  • T: "thumb" domain in bacteriophage RB69-like DNA polymerase I
  • F: Unmapped domains
UID: 001256565
Type: Automatic domain
Parent: e1ih7A2
Range: C:733-900
Ligands: SO4
PDB: 3rmb
PDB Description: DNA polymerase
UniProt: Q38087
Species: Enterobacteria phage RB69

Structure of domain e3rmbC5

Domains in the same chain:

e3rmbC4 C:1-375 Ribonuclease H-like Ribonuclease H-like Ribonuclease H-like
e3rmbC7 C:376-468,C:575-732 Alpha-beta plaits Adenylyl and guanylyl cyclase catalytic domain-like Adenylyl and guanylyl cyclase catalytic domain-like
e3rmbC6 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
e3rmbC5 C:733-900 "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:

e3rmbA4 A:1-375 Ribonuclease H-like Ribonuclease H-like Ribonuclease H-like
e3rmbA7 A:376-468,A:575-732 Alpha-beta plaits Adenylyl and guanylyl cyclase catalytic domain-like Adenylyl and guanylyl cyclase catalytic domain-like
e3rmbA6 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
e3rmbA5 A:733-903 "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
e3rmbB4 B:1-375 Ribonuclease H-like Ribonuclease H-like Ribonuclease H-like
e3rmbB7 B:376-468,B:575-732 Alpha-beta plaits Adenylyl and guanylyl cyclase catalytic domain-like Adenylyl and guanylyl cyclase catalytic domain-like
e3rmbB6 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
e3rmbB5 B:733-903 "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
e3rmbC4 C:1-375 Ribonuclease H-like Ribonuclease H-like Ribonuclease H-like
e3rmbC7 C:376-468,C:575-732 Alpha-beta plaits Adenylyl and guanylyl cyclase catalytic domain-like Adenylyl and guanylyl cyclase catalytic domain-like
e3rmbC6 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
e3rmbC5 C:733-900 "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
e3rmbD5 D:1-375 Ribonuclease H-like Ribonuclease H-like Ribonuclease H-like
e3rmbD8 D:376-468,D:575-732 Alpha-beta plaits Adenylyl and guanylyl cyclase catalytic domain-like Adenylyl and guanylyl cyclase catalytic domain-like
e3rmbD7 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
e3rmbD6 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 e3rmbC5 of H-group ""thumb" domain in bacteriophage RB69-like DNA polymerase I":

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
e3rmbA7 C:x,y,z->A:-X,Y-1/2,-Z+1 Adenylyl and guanylyl cyclase catalytic domain-like Interaction Interface Pymol
e3rmbB4 C:x,y,z->B:X,Y-1,Z Ribonuclease H-like Interaction Interface Pymol
e3rmbA5 C:x,y,z->A:-X+1,Y-1/2,-Z+1 "thumb" domain in bacteriophage RB69-like DNA polymerase I Interaction Interface Pymol
e3rmbA4 C:x,y,z->A:-X+1,Y-1/2,-Z+1 Ribonuclease H-like Interaction Interface Pymol