5B04

Crystal structure of the eukaryotic translation initiation factor 2B from Schizosaccharomyces pombe

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2B Superfamily	NagB/RpiA/CoA transferase-like	8100680	3000693	SCOP2B (2022-06-29)
B	SCOP2 Family	IF2B-like	8100679	4002100	SCOP2 (2022-06-29)
B	SCOP2 Superfamily	NagB/RpiA/CoA transferase-like	8100680	3000693	SCOP2 (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
A	IF-2B_N_1	e5b04A2	A: alpha bundles	X: Translation initiation factor eIF-2B delta subunit N-terminal helical domain (From Topology)	H: Translation initiation factor eIF-2B delta subunit N-terminal helical domain (From Topology)	T: Translation initiation factor eIF-2B delta subunit N-terminal helical domain	F: IF-2B_N_1	ECOD (1.6)
A	IF-2B_C	e5b04A1	A: a/b three-layered sandwiches	X: Rossmann-like	H: Rossmann-related	T: NagB/RpiA/CoA transferase-like	F: IF-2B_C	ECOD (1.6)
B	IF-2B_N_1	e5b04B1	A: alpha bundles	X: Translation initiation factor eIF-2B delta subunit N-terminal helical domain (From Topology)	H: Translation initiation factor eIF-2B delta subunit N-terminal helical domain (From Topology)	T: Translation initiation factor eIF-2B delta subunit N-terminal helical domain	F: IF-2B_N_1	ECOD (1.6)
B	IF-2B_C	e5b04B2	A: a/b three-layered sandwiches	X: Rossmann-like	H: Rossmann-related	T: NagB/RpiA/CoA transferase-like	F: IF-2B_C	ECOD (1.6)
C	KOG1465	e5b04C2	A: alpha bundles	X: Translation initiation factor eIF-2B delta subunit N-terminal helical domain (From Topology)	H: Translation initiation factor eIF-2B delta subunit N-terminal helical domain (From Topology)	T: Translation initiation factor eIF-2B delta subunit N-terminal helical domain	F: KOG1465	ECOD (1.6)
C	IF-2B_C	e5b04C1	A: a/b three-layered sandwiches	X: Rossmann-like	H: Rossmann-related	T: NagB/RpiA/CoA transferase-like	F: IF-2B_C	ECOD (1.6)
D	KOG1465	e5b04D2	A: alpha bundles	X: Translation initiation factor eIF-2B delta subunit N-terminal helical domain (From Topology)	H: Translation initiation factor eIF-2B delta subunit N-terminal helical domain (From Topology)	T: Translation initiation factor eIF-2B delta subunit N-terminal helical domain	F: KOG1465	ECOD (1.6)
D	IF-2B_C	e5b04D1	A: a/b three-layered sandwiches	X: Rossmann-like	H: Rossmann-related	T: NagB/RpiA/CoA transferase-like	F: IF-2B_C	ECOD (1.6)
E	Hexapep_2_1	e5b04E2	A: beta duplicates or obligate multimers	X: Single-stranded left-handed beta-helix	H: Trimeric LpxA-like enzymes (From Topology)	T: Trimeric LpxA-like enzymes	F: Hexapep_2_1	ECOD (1.6)
E	NTP_transferase	e5b04E1	A: a/b three-layered sandwiches	X: Nucleotide-diphospho-sugar transferases (From Topology)	H: Nucleotide-diphospho-sugar transferases (From Topology)	T: Nucleotide-diphospho-sugar transferases	F: NTP_transferase	ECOD (1.6)
F	Hexapep_2_1	e5b04F2	A: beta duplicates or obligate multimers	X: Single-stranded left-handed beta-helix	H: Trimeric LpxA-like enzymes (From Topology)	T: Trimeric LpxA-like enzymes	F: Hexapep_2_1	ECOD (1.6)
F	NTP_transferase	e5b04F1	A: a/b three-layered sandwiches	X: Nucleotide-diphospho-sugar transferases (From Topology)	H: Nucleotide-diphospho-sugar transferases (From Topology)	T: Nucleotide-diphospho-sugar transferases	F: NTP_transferase	ECOD (1.6)
H	IF-2B_N_1	e5b04H2	A: alpha bundles	X: Translation initiation factor eIF-2B delta subunit N-terminal helical domain (From Topology)	H: Translation initiation factor eIF-2B delta subunit N-terminal helical domain (From Topology)	T: Translation initiation factor eIF-2B delta subunit N-terminal helical domain	F: IF-2B_N_1	ECOD (1.6)
H	IF-2B_C	e5b04H1	A: a/b three-layered sandwiches	X: Rossmann-like	H: Rossmann-related	T: NagB/RpiA/CoA transferase-like	F: IF-2B_C	ECOD (1.6)
G	IF-2B_N_1	e5b04G2	A: alpha bundles	X: Translation initiation factor eIF-2B delta subunit N-terminal helical domain (From Topology)	H: Translation initiation factor eIF-2B delta subunit N-terminal helical domain (From Topology)	T: Translation initiation factor eIF-2B delta subunit N-terminal helical domain	F: IF-2B_N_1	ECOD (1.6)
G	IF-2B_C	e5b04G1	A: a/b three-layered sandwiches	X: Rossmann-like	H: Rossmann-related	T: NagB/RpiA/CoA transferase-like	F: IF-2B_C	ECOD (1.6)
I	Hexapep_2_1	e5b04I2	A: beta duplicates or obligate multimers	X: Single-stranded left-handed beta-helix	H: Trimeric LpxA-like enzymes (From Topology)	T: Trimeric LpxA-like enzymes	F: Hexapep_2_1	ECOD (1.6)
I	NTP_transferase	e5b04I1	A: a/b three-layered sandwiches	X: Nucleotide-diphospho-sugar transferases (From Topology)	H: Nucleotide-diphospho-sugar transferases (From Topology)	T: Nucleotide-diphospho-sugar transferases	F: NTP_transferase	ECOD (1.6)
J	Hexapep_2_1	e5b04J2	A: beta duplicates or obligate multimers	X: Single-stranded left-handed beta-helix	H: Trimeric LpxA-like enzymes (From Topology)	T: Trimeric LpxA-like enzymes	F: Hexapep_2_1	ECOD (1.6)
J	NTP_transferase	e5b04J1	A: a/b three-layered sandwiches	X: Nucleotide-diphospho-sugar transferases (From Topology)	H: Nucleotide-diphospho-sugar transferases (From Topology)	T: Nucleotide-diphospho-sugar transferases	F: NTP_transferase	ECOD (1.6)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B	PF01008	Initiation factor 2 subunit family (IF-2B)	Initiation factor 2 subunit family	-	Family
C, D	PF01008	Initiation factor 2 subunit family (IF-2B)	Initiation factor 2 subunit family	-	Family
E, F	PF00483	Nucleotidyl transferase (NTP_transferase)	Nucleotidyl transferase	-	Family
G, H	PF01008	Initiation factor 2 subunit family (IF-2B)	Initiation factor 2 subunit family	-	Family
I, J	PF00483	Nucleotidyl transferase (NTP_transferase)	Nucleotidyl transferase	-	Family
I, J	PF00132	Bacterial transferase hexapeptide (six repeats) (Hexapep)	Bacterial transferase hexapeptide (six repeats)	-	Repeat

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B	Translation initiation factor eIF-2B subunit alpha	translation regulator activity binding organic cyclic compound binding translation regulator activity, nucleic acid binding nucleic acid binding translation initiation factor activity translation factor activity, RNA binding GTPase regulator activity enzyme regulator activity guanyl-nucleotide exchange factor activity nucleoside-triphosphatase regulator activity molecular function regulator activity	biosynthetic process translational initiation metabolic process cellular process primary metabolic process protein metabolic process macromolecule metabolic process translation gene expression macromolecule biosynthetic process cytoplasmic translation cytoplasmic translational initiation cellular response to stimulus regulation of cellular process biosynthetic process translational initiation metabolic process cellular process primary metabolic process protein metabolic process macromolecule metabolic process translation gene expression macromolecule biosynthetic process cytoplasmic translation cytoplasmic translational initiation cellular response to stimulus regulation of cellular process response to stimulus signaling negative regulation of signaling negative regulation of intracellular signal transduction negative regulation of biological process regulation of signal transduction intracellular signal transduction negative regulation of cell communication cell communication negative regulation of TORC1 signaling regulation of intracellular signal transduction negative regulation of TOR signaling negative regulation of cellular process signal transduction regulation of TORC1 signaling TOR signaling regulation of biological process regulation of signaling regulation of TOR signaling negative regulation of response to stimulus biological regulation negative regulation of signal transduction regulation of response to stimulus regulation of cell communication TORC1 signaling	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol protein-containing complex eukaryotic translation initiation factor 2B complex
C, D	Probable translation initiation factor eIF-2B subunit beta	translation regulator activity binding organic cyclic compound binding translation regulator activity, nucleic acid binding nucleic acid binding translation initiation factor activity translation factor activity, RNA binding GTPase regulator activity enzyme regulator activity guanyl-nucleotide exchange factor activity nucleoside-triphosphatase regulator activity molecular function regulator activity	biosynthetic process translational initiation metabolic process cellular process primary metabolic process protein metabolic process macromolecule metabolic process translation gene expression macromolecule biosynthetic process cytoplasmic translation cytoplasmic translational initiation	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol protein-containing complex eukaryotic translation initiation factor 2B complex
E, F	Probable translation initiation factor eIF-2B subunit gamma	translation regulator activity binding organic cyclic compound binding translation regulator activity, nucleic acid binding nucleic acid binding translation initiation factor activity translation factor activity, RNA binding GTPase regulator activity enzyme regulator activity guanyl-nucleotide exchange factor activity nucleoside-triphosphatase regulator activity molecular function regulator activity	primary metabolic process translation gene expression macromolecule biosynthetic process biosynthetic process cytoplasmic translation cytoplasmic translational initiation metabolic process cellular process translational initiation protein metabolic process macromolecule metabolic process	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol protein-containing complex eukaryotic translation initiation factor 2B complex guanyl-nucleotide exchange factor complex intracellular protein-containing complex
G, H	Probable translation initiation factor eIF-2B subunit delta	translation regulator activity binding organic cyclic compound binding translation regulator activity, nucleic acid binding nucleic acid binding translation initiation factor activity translation factor activity, RNA binding GTPase regulator activity enzyme regulator activity guanyl-nucleotide exchange factor activity nucleoside-triphosphatase regulator activity molecular function regulator activity	primary metabolic process translation gene expression macromolecule biosynthetic process biosynthetic process cytoplasmic translation cytoplasmic translational initiation metabolic process cellular process translational initiation protein metabolic process macromolecule metabolic process	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol protein-containing complex eukaryotic translation initiation factor 2B complex
I, J	Probable translation initiation factor eIF-2B subunit epsilon	translation regulator activity binding organic cyclic compound binding translation regulator activity, nucleic acid binding nucleic acid binding translation initiation factor activity translation factor activity, RNA binding protein binding translation initiation factor binding GTPase regulator activity enzyme regulator activity guanyl-nucleotide exchange factor activity nucleoside-triphosphatase regulator activity molecular function regulator activity	primary metabolic process translation gene expression macromolecule biosynthetic process biosynthetic process cytoplasmic translation cytoplasmic translational initiation metabolic process cellular process translational initiation protein metabolic process macromolecule metabolic process	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol protein-containing complex eukaryotic translation initiation factor 2B complex

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B	IPR051501	Eukaryotic initiation factor 2B subunits alpha/beta/delta	Family
A, B	IPR042529	Initiation factor 2B-like, C-terminal	Homologous Superfamily
A, B	IPR037171	NagB/RpiA transferase-like	Homologous Superfamily
A, B	IPR042528	Translation initiation factor eIF-2B subunit alpha, N-terminal	Homologous Superfamily
A, B	IPR000649	Initiation factor 2B-related	Family
C, D	IPR051855	Eukaryotic initiation factor 2B subunit beta	Family
C, D	IPR042529	Initiation factor 2B-like, C-terminal	Homologous Superfamily
C, D	IPR037171	NagB/RpiA transferase-like	Homologous Superfamily
C, D	IPR000649	Initiation factor 2B-related	Family
C, D	IPR027363	Methylthioribose-1-phosphate isomerase, N-terminal	Homologous Superfamily
E, F	IPR051960	Eukaryotic Initiation Factor 2B Subunit Gamma	Family
E, F	IPR005835	Nucleotidyl transferase domain	Domain
E, F	IPR029044	Nucleotide-diphospho-sugar transferases	Homologous Superfamily
G, H	IPR042529	Initiation factor 2B-like, C-terminal	Homologous Superfamily
G, H	IPR037171	NagB/RpiA transferase-like	Homologous Superfamily
G, H	IPR000649	Initiation factor 2B-related	Family
I, J	IPR044123	Translation initiation factor eIF-2B subunit epsilon, W2 domain	Domain
I, J	IPR016024	Armadillo-type fold	Homologous Superfamily
I, J	IPR003307	W2 domain	Domain
I, J	IPR001451	Hexapeptide repeat	Repeat
I, J	IPR035543	Translation initiation factor eIF-2B subunit epsilon, N-terminal	Domain
I, J	IPR011004	Trimeric LpxA-like superfamily	Homologous Superfamily
I, J	IPR005835	Nucleotidyl transferase domain	Domain
I, J	IPR029044	Nucleotide-diphospho-sugar transferases	Homologous Superfamily
I, J	IPR051956	eIF2B Complex Subunit Epsilon	Family