ECOD: domain e3ikmA4

Domain ID e3ikmA4

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A: alpha arrays
X: helical bundle in Bacillus stearothermophilus-like DNA polymerase I
H: helical bundle in Bacillus stearothermophilus-like DNA polymerase I
T: helical bundle in Bacillus stearothermophilus-like DNA polymerase I
F: Unmapped domains

UID:	001117632
Type:	Manual and representative domain
Range:	A:911-1097
PDB:	3ikm
PDB Description:	DNA polymerase subunit gamma-1
UniProt:	P54098
Hsap BLAST neighbor:	P54098
Species:	Homo sapiens

Domains in the same chain:

e3ikmA1	A:70-417	Ribonuclease H-like	Ribonuclease H-like	Ribonuclease H-like
e3ikmA2	A:418-881	"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
e3ikmA3	A:882-910,A:1098-1239	Alpha-beta plaits	Adenylyl and guanylyl cyclase catalytic domain-like	Adenylyl and guanylyl cyclase catalytic domain-like
e3ikmA4	A:911-1097	helical bundle in Bacillus stearothermophilus-like DNA polymerase I	helical bundle in Bacillus stearothermophilus-like DNA polymerase I	helical bundle in Bacillus stearothermophilus-like DNA polymerase I

Domains in the same PDB:

e3ikmA1	A:70-417	Ribonuclease H-like	Ribonuclease H-like	Ribonuclease H-like
e3ikmA2	A:418-881	"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
e3ikmA3	A:882-910,A:1098-1239	Alpha-beta plaits	Adenylyl and guanylyl cyclase catalytic domain-like	Adenylyl and guanylyl cyclase catalytic domain-like
e3ikmA4	A:911-1097	helical bundle in Bacillus stearothermophilus-like DNA polymerase I	helical bundle in Bacillus stearothermophilus-like DNA polymerase I	helical bundle in Bacillus stearothermophilus-like DNA polymerase I
e3ikmB3	B:67-137,B:179-356	Class II aaRS and biotin synthetases	Class II aaRS and biotin synthetases	Class II aaRS and biotin synthetases
e3ikmB2	B:369-485	Anticodon-binding domain of Class II aaRS	Anticodon-binding domain of Class II aaRS	Anticodon-binding domain of Class II aaRS
e3ikmC5	C:59-146,C:178-359	Class II aaRS and biotin synthetases	Class II aaRS and biotin synthetases	Class II aaRS and biotin synthetases
e3ikmC6	C:360-485	Anticodon-binding domain of Class II aaRS	Anticodon-binding domain of Class II aaRS	Anticodon-binding domain of Class II aaRS
e3ikmD8	D:70-318,D:345-415	Ribonuclease H-like	Ribonuclease H-like	Ribonuclease H-like
e3ikmD5	D:416-673,D:710-879	"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
e3ikmD7	D:880-908,D:1081-1239	Alpha-beta plaits	Adenylyl and guanylyl cyclase catalytic domain-like	Adenylyl and guanylyl cyclase catalytic domain-like
e3ikmD6	D:909-1080	helical bundle in Bacillus stearothermophilus-like DNA polymerase I	helical bundle in Bacillus stearothermophilus-like DNA polymerase I	helical bundle in Bacillus stearothermophilus-like DNA polymerase I
e3ikmE3	E:67-137,E:179-356	Class II aaRS and biotin synthetases	Class II aaRS and biotin synthetases	Class II aaRS and biotin synthetases
e3ikmE2	E:369-485	Anticodon-binding domain of Class II aaRS	Anticodon-binding domain of Class II aaRS	Anticodon-binding domain of Class II aaRS
e3ikmF5	F:59-146,F:178-356	Class II aaRS and biotin synthetases	Class II aaRS and biotin synthetases	Class II aaRS and biotin synthetases
e3ikmF6	F:357-485	Anticodon-binding domain of Class II aaRS	Anticodon-binding domain of Class II aaRS	Anticodon-binding domain of Class II aaRS

Structural contacts of domain e3ikmA4 of H-group "helical bundle in Bacillus stearothermophilus-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 ID	Symmetry operator	H-group	Visualization
e3ikmD5	A:x,y,z->D:X,Y-1,Z	"fingers" domain in bacteriophage RB69-like DNA polymerase I	Interaction Interface Pymol
e3ikmF5	A:x,y,z->F:-Y+2,X-Y-2,Z-1/3	Class II aaRS and biotin synthetases	Interaction Interface Pymol
e3ikmF6	A:x,y,z->F:X,Y-1,Z	Anticodon-binding domain of Class II aaRS	Interaction Interface Pymol