4LR3 | pdb_00004lr3

Crystal structure of E. coli YfbU at 2.5 A resolution

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family Annotation
InterPro: Protein Family Classification

Domain Annotation: SCOP/SCOPe Classification SCOP-e Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
P	d4lr3p_	All alpha proteins	YfbU-like	YfbU-like	YfbU-like	automated matches	(Escherichia coli ) [TaxId: 562 ],	SCOPe (2.08)
O	d4lr3o_	All alpha proteins	YfbU-like	YfbU-like	YfbU-like	automated matches	(Escherichia coli ) [TaxId: 562 ],	SCOPe (2.08)
N	d4lr3n_	All alpha proteins	YfbU-like	YfbU-like	YfbU-like	automated matches	(Escherichia coli ) [TaxId: 562 ],	SCOPe (2.08)
M	d4lr3m_	All alpha proteins	YfbU-like	YfbU-like	YfbU-like	automated matches	(Escherichia coli ) [TaxId: 562 ],	SCOPe (2.08)
L	d4lr3l_	All alpha proteins	YfbU-like	YfbU-like	YfbU-like	automated matches	(Escherichia coli ) [TaxId: 562 ],	SCOPe (2.08)
K	d4lr3k_	All alpha proteins	YfbU-like	YfbU-like	YfbU-like	automated matches	(Escherichia coli ) [TaxId: 562 ],	SCOPe (2.08)
J	d4lr3j_	All alpha proteins	YfbU-like	YfbU-like	YfbU-like	automated matches	(Escherichia coli ) [TaxId: 562 ],	SCOPe (2.08)
I	d4lr3i_	All alpha proteins	YfbU-like	YfbU-like	YfbU-like	automated matches	(Escherichia coli ) [TaxId: 562 ],	SCOPe (2.08)
H	d4lr3h_	All alpha proteins	YfbU-like	YfbU-like	YfbU-like	automated matches	(Escherichia coli ) [TaxId: 562 ],	SCOPe (2.08)
G	d4lr3g_	All alpha proteins	YfbU-like	YfbU-like	YfbU-like	automated matches	(Escherichia coli ) [TaxId: 562 ],	SCOPe (2.08)
F	d4lr3f_	All alpha proteins	YfbU-like	YfbU-like	YfbU-like	automated matches	(Escherichia coli ) [TaxId: 562 ],	SCOPe (2.08)
E	d4lr3e_	All alpha proteins	YfbU-like	YfbU-like	YfbU-like	automated matches	(Escherichia coli ) [TaxId: 562 ],	SCOPe (2.08)
D	d4lr3d_	All alpha proteins	YfbU-like	YfbU-like	YfbU-like	automated matches	(Escherichia coli ) [TaxId: 562 ],	SCOPe (2.08)
C	d4lr3c_	All alpha proteins	YfbU-like	YfbU-like	YfbU-like	automated matches	(Escherichia coli ) [TaxId: 562 ],	SCOPe (2.08)
B	d4lr3b_	All alpha proteins	YfbU-like	YfbU-like	YfbU-like	automated matches	(Escherichia coli ) [TaxId: 562 ],	SCOPe (2.08)
A	d4lr3a_	All alpha proteins	YfbU-like	YfbU-like	YfbU-like	automated matches	(Escherichia coli ) [TaxId: 562 ],	SCOPe (2.08)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
P	YfbU_C	e4lr3P2	A: alpha arrays	X: YfbU-like, C-terminal subdomain (From Topology)	H: YfbU-like, C-terminal subdomain (From Topology)	T: YfbU-like, C-terminal subdomain	F: YfbU_C	ECOD (1.6)
P	YfbU_N	e4lr3P1	A: alpha duplicates or obligate multimers	X: YfbU-like, N-terminal subdomain (From Topology)	H: YfbU-like, N-terminal subdomain (From Topology)	T: YfbU-like, N-terminal subdomain	F: YfbU_N	ECOD (1.6)
O	YfbU_C	e4lr3O2	A: alpha arrays	X: YfbU-like, C-terminal subdomain (From Topology)	H: YfbU-like, C-terminal subdomain (From Topology)	T: YfbU-like, C-terminal subdomain	F: YfbU_C	ECOD (1.6)
O	YfbU_N	e4lr3O1	A: alpha duplicates or obligate multimers	X: YfbU-like, N-terminal subdomain (From Topology)	H: YfbU-like, N-terminal subdomain (From Topology)	T: YfbU-like, N-terminal subdomain	F: YfbU_N	ECOD (1.6)
N	YfbU_C	e4lr3N2	A: alpha arrays	X: YfbU-like, C-terminal subdomain (From Topology)	H: YfbU-like, C-terminal subdomain (From Topology)	T: YfbU-like, C-terminal subdomain	F: YfbU_C	ECOD (1.6)
N	YfbU_N	e4lr3N1	A: alpha duplicates or obligate multimers	X: YfbU-like, N-terminal subdomain (From Topology)	H: YfbU-like, N-terminal subdomain (From Topology)	T: YfbU-like, N-terminal subdomain	F: YfbU_N	ECOD (1.6)
M	YfbU_C	e4lr3M2	A: alpha arrays	X: YfbU-like, C-terminal subdomain (From Topology)	H: YfbU-like, C-terminal subdomain (From Topology)	T: YfbU-like, C-terminal subdomain	F: YfbU_C	ECOD (1.6)
M	YfbU_N	e4lr3M1	A: alpha duplicates or obligate multimers	X: YfbU-like, N-terminal subdomain (From Topology)	H: YfbU-like, N-terminal subdomain (From Topology)	T: YfbU-like, N-terminal subdomain	F: YfbU_N	ECOD (1.6)
L	YfbU_C	e4lr3L2	A: alpha arrays	X: YfbU-like, C-terminal subdomain (From Topology)	H: YfbU-like, C-terminal subdomain (From Topology)	T: YfbU-like, C-terminal subdomain	F: YfbU_C	ECOD (1.6)
L	YfbU_N	e4lr3L1	A: alpha duplicates or obligate multimers	X: YfbU-like, N-terminal subdomain (From Topology)	H: YfbU-like, N-terminal subdomain (From Topology)	T: YfbU-like, N-terminal subdomain	F: YfbU_N	ECOD (1.6)
K	YfbU_C	e4lr3K2	A: alpha arrays	X: YfbU-like, C-terminal subdomain (From Topology)	H: YfbU-like, C-terminal subdomain (From Topology)	T: YfbU-like, C-terminal subdomain	F: YfbU_C	ECOD (1.6)
K	YfbU_N	e4lr3K1	A: alpha duplicates or obligate multimers	X: YfbU-like, N-terminal subdomain (From Topology)	H: YfbU-like, N-terminal subdomain (From Topology)	T: YfbU-like, N-terminal subdomain	F: YfbU_N	ECOD (1.6)
J	YfbU_C	e4lr3J2	A: alpha arrays	X: YfbU-like, C-terminal subdomain (From Topology)	H: YfbU-like, C-terminal subdomain (From Topology)	T: YfbU-like, C-terminal subdomain	F: YfbU_C	ECOD (1.6)
J	YfbU_N	e4lr3J1	A: alpha duplicates or obligate multimers	X: YfbU-like, N-terminal subdomain (From Topology)	H: YfbU-like, N-terminal subdomain (From Topology)	T: YfbU-like, N-terminal subdomain	F: YfbU_N	ECOD (1.6)
I	YfbU_C	e4lr3I2	A: alpha arrays	X: YfbU-like, C-terminal subdomain (From Topology)	H: YfbU-like, C-terminal subdomain (From Topology)	T: YfbU-like, C-terminal subdomain	F: YfbU_C	ECOD (1.6)
I	YfbU_N	e4lr3I1	A: alpha duplicates or obligate multimers	X: YfbU-like, N-terminal subdomain (From Topology)	H: YfbU-like, N-terminal subdomain (From Topology)	T: YfbU-like, N-terminal subdomain	F: YfbU_N	ECOD (1.6)
H	YfbU_C	e4lr3H2	A: alpha arrays	X: YfbU-like, C-terminal subdomain (From Topology)	H: YfbU-like, C-terminal subdomain (From Topology)	T: YfbU-like, C-terminal subdomain	F: YfbU_C	ECOD (1.6)
H	YfbU_N	e4lr3H1	A: alpha duplicates or obligate multimers	X: YfbU-like, N-terminal subdomain (From Topology)	H: YfbU-like, N-terminal subdomain (From Topology)	T: YfbU-like, N-terminal subdomain	F: YfbU_N	ECOD (1.6)
G	YfbU_C	e4lr3G2	A: alpha arrays	X: YfbU-like, C-terminal subdomain (From Topology)	H: YfbU-like, C-terminal subdomain (From Topology)	T: YfbU-like, C-terminal subdomain	F: YfbU_C	ECOD (1.6)
G	YfbU_N	e4lr3G1	A: alpha duplicates or obligate multimers	X: YfbU-like, N-terminal subdomain (From Topology)	H: YfbU-like, N-terminal subdomain (From Topology)	T: YfbU-like, N-terminal subdomain	F: YfbU_N	ECOD (1.6)
F	YfbU_C	e4lr3F2	A: alpha arrays	X: YfbU-like, C-terminal subdomain (From Topology)	H: YfbU-like, C-terminal subdomain (From Topology)	T: YfbU-like, C-terminal subdomain	F: YfbU_C	ECOD (1.6)
F	YfbU_N	e4lr3F1	A: alpha duplicates or obligate multimers	X: YfbU-like, N-terminal subdomain (From Topology)	H: YfbU-like, N-terminal subdomain (From Topology)	T: YfbU-like, N-terminal subdomain	F: YfbU_N	ECOD (1.6)
E	YfbU_C	e4lr3E2	A: alpha arrays	X: YfbU-like, C-terminal subdomain (From Topology)	H: YfbU-like, C-terminal subdomain (From Topology)	T: YfbU-like, C-terminal subdomain	F: YfbU_C	ECOD (1.6)
E	YfbU_N	e4lr3E1	A: alpha duplicates or obligate multimers	X: YfbU-like, N-terminal subdomain (From Topology)	H: YfbU-like, N-terminal subdomain (From Topology)	T: YfbU-like, N-terminal subdomain	F: YfbU_N	ECOD (1.6)
D	YfbU_C	e4lr3D2	A: alpha arrays	X: YfbU-like, C-terminal subdomain (From Topology)	H: YfbU-like, C-terminal subdomain (From Topology)	T: YfbU-like, C-terminal subdomain	F: YfbU_C	ECOD (1.6)
D	YfbU_N	e4lr3D1	A: alpha duplicates or obligate multimers	X: YfbU-like, N-terminal subdomain (From Topology)	H: YfbU-like, N-terminal subdomain (From Topology)	T: YfbU-like, N-terminal subdomain	F: YfbU_N	ECOD (1.6)
C	YfbU_C	e4lr3C2	A: alpha arrays	X: YfbU-like, C-terminal subdomain (From Topology)	H: YfbU-like, C-terminal subdomain (From Topology)	T: YfbU-like, C-terminal subdomain	F: YfbU_C	ECOD (1.6)
C	YfbU_N	e4lr3C1	A: alpha duplicates or obligate multimers	X: YfbU-like, N-terminal subdomain (From Topology)	H: YfbU-like, N-terminal subdomain (From Topology)	T: YfbU-like, N-terminal subdomain	F: YfbU_N	ECOD (1.6)
B	YfbU_C	e4lr3B2	A: alpha arrays	X: YfbU-like, C-terminal subdomain (From Topology)	H: YfbU-like, C-terminal subdomain (From Topology)	T: YfbU-like, C-terminal subdomain	F: YfbU_C	ECOD (1.6)
B	YfbU_N	e4lr3B1	A: alpha duplicates or obligate multimers	X: YfbU-like, N-terminal subdomain (From Topology)	H: YfbU-like, N-terminal subdomain (From Topology)	T: YfbU-like, N-terminal subdomain	F: YfbU_N	ECOD (1.6)
A	YfbU_C	e4lr3A2	A: alpha arrays	X: YfbU-like, C-terminal subdomain (From Topology)	H: YfbU-like, C-terminal subdomain (From Topology)	T: YfbU-like, C-terminal subdomain	F: YfbU_C	ECOD (1.6)
A	YfbU_N	e4lr3A1	A: alpha duplicates or obligate multimers	X: YfbU-like, N-terminal subdomain (From Topology)	H: YfbU-like, N-terminal subdomain (From Topology)	T: YfbU-like, N-terminal subdomain	F: YfbU_N	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
P	1.10.287.680	Mainly Alpha	Orthogonal Bundle	Helix Hairpins	Helix hairpin bin	CATH (4.3.0)
P	1.10.3190.10	Mainly Alpha	Orthogonal Bundle	yfbu gene product, domain 2	yfbu gene product, domain 2	CATH (4.3.0)
O	1.10.287.680	Mainly Alpha	Orthogonal Bundle	Helix Hairpins	Helix hairpin bin	CATH (4.3.0)
O	1.10.3190.10	Mainly Alpha	Orthogonal Bundle	yfbu gene product, domain 2	yfbu gene product, domain 2	CATH (4.3.0)
N	1.10.287.680	Mainly Alpha	Orthogonal Bundle	Helix Hairpins	Helix hairpin bin	CATH (4.3.0)
N	1.10.3190.10	Mainly Alpha	Orthogonal Bundle	yfbu gene product, domain 2	yfbu gene product, domain 2	CATH (4.3.0)
M	1.10.287.680	Mainly Alpha	Orthogonal Bundle	Helix Hairpins	Helix hairpin bin	CATH (4.3.0)
M	1.10.3190.10	Mainly Alpha	Orthogonal Bundle	yfbu gene product, domain 2	yfbu gene product, domain 2	CATH (4.3.0)
L	1.10.287.680	Mainly Alpha	Orthogonal Bundle	Helix Hairpins	Helix hairpin bin	CATH (4.3.0)
L	1.10.3190.10	Mainly Alpha	Orthogonal Bundle	yfbu gene product, domain 2	yfbu gene product, domain 2	CATH (4.3.0)
K	1.10.287.680	Mainly Alpha	Orthogonal Bundle	Helix Hairpins	Helix hairpin bin	CATH (4.3.0)
K	1.10.3190.10	Mainly Alpha	Orthogonal Bundle	yfbu gene product, domain 2	yfbu gene product, domain 2	CATH (4.3.0)
J	1.10.287.680	Mainly Alpha	Orthogonal Bundle	Helix Hairpins	Helix hairpin bin	CATH (4.3.0)
J	1.10.3190.10	Mainly Alpha	Orthogonal Bundle	yfbu gene product, domain 2	yfbu gene product, domain 2	CATH (4.3.0)
I	1.10.287.680	Mainly Alpha	Orthogonal Bundle	Helix Hairpins	Helix hairpin bin	CATH (4.3.0)
I	1.10.3190.10	Mainly Alpha	Orthogonal Bundle	yfbu gene product, domain 2	yfbu gene product, domain 2	CATH (4.3.0)
H	1.10.287.680	Mainly Alpha	Orthogonal Bundle	Helix Hairpins	Helix hairpin bin	CATH (4.3.0)
H	1.10.3190.10	Mainly Alpha	Orthogonal Bundle	yfbu gene product, domain 2	yfbu gene product, domain 2	CATH (4.3.0)
G	1.10.287.680	Mainly Alpha	Orthogonal Bundle	Helix Hairpins	Helix hairpin bin	CATH (4.3.0)
G	1.10.3190.10	Mainly Alpha	Orthogonal Bundle	yfbu gene product, domain 2	yfbu gene product, domain 2	CATH (4.3.0)
F	1.10.287.680	Mainly Alpha	Orthogonal Bundle	Helix Hairpins	Helix hairpin bin	CATH (4.3.0)
F	1.10.3190.10	Mainly Alpha	Orthogonal Bundle	yfbu gene product, domain 2	yfbu gene product, domain 2	CATH (4.3.0)
E	1.10.287.680	Mainly Alpha	Orthogonal Bundle	Helix Hairpins	Helix hairpin bin	CATH (4.3.0)
E	1.10.3190.10	Mainly Alpha	Orthogonal Bundle	yfbu gene product, domain 2	yfbu gene product, domain 2	CATH (4.3.0)
D	1.10.287.680	Mainly Alpha	Orthogonal Bundle	Helix Hairpins	Helix hairpin bin	CATH (4.3.0)
D	1.10.3190.10	Mainly Alpha	Orthogonal Bundle	yfbu gene product, domain 2	yfbu gene product, domain 2	CATH (4.3.0)
C	1.10.287.680	Mainly Alpha	Orthogonal Bundle	Helix Hairpins	Helix hairpin bin	CATH (4.3.0)
C	1.10.3190.10	Mainly Alpha	Orthogonal Bundle	yfbu gene product, domain 2	yfbu gene product, domain 2	CATH (4.3.0)
B	1.10.287.680	Mainly Alpha	Orthogonal Bundle	Helix Hairpins	Helix hairpin bin	CATH (4.3.0)
B	1.10.3190.10	Mainly Alpha	Orthogonal Bundle	yfbu gene product, domain 2	yfbu gene product, domain 2	CATH (4.3.0)
A	1.10.287.680	Mainly Alpha	Orthogonal Bundle	Helix Hairpins	Helix hairpin bin	CATH (4.3.0)
A	1.10.3190.10	Mainly Alpha	Orthogonal Bundle	yfbu gene product, domain 2	yfbu gene product, domain 2	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L, M, N, O, P	PF03887	YfbU domain (YfbU)	YfbU domain	This presumed domain is about 160 residues long. It is found in archaebacteria and eubacteria. In Swiss:Q9EUM2 it is associated with a helix-turn-helix domain. This suggests that this may be a ligand binding domain.	Domain

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L, M, N, O, P	IPR005587	Uncharacterised protein family UPF0304, YfbU	Family
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L, M, N, O, P	IPR023146	YfbU, alpha-helical bundle domain superfamily	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L, M, N, O, P	IPR023145	YfbU, helix-hairpin domain superfamily	Homologous Superfamily