6IKM

Crystal structure of SpuE-Spermidine in complex with ScFv5

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
IMGT Antibody Annotation
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	Type 2 solute binding protein-like	8076239	3000083	SCOP2B (2022-06-29)
AA [auth N]	SCOP2B Superfamily	Type 2 solute binding protein-like	8076239	3000083	SCOP2B (2022-06-29)
C [auth B]	SCOP2B Superfamily	Type 2 solute binding protein-like	8076239	3000083	SCOP2B (2022-06-29)
CA [auth O]	SCOP2B Superfamily	Type 2 solute binding protein-like	8076239	3000083	SCOP2B (2022-06-29)
E [auth C]	SCOP2B Superfamily	Type 2 solute binding protein-like	8076239	3000083	SCOP2B (2022-06-29)
EA [auth P]	SCOP2B Superfamily	Type 2 solute binding protein-like	8076239	3000083	SCOP2B (2022-06-29)
G [auth D]	SCOP2B Superfamily	Type 2 solute binding protein-like	8076239	3000083	SCOP2B (2022-06-29)
GA [auth Q]	SCOP2B Superfamily	Type 2 solute binding protein-like	8076239	3000083	SCOP2B (2022-06-29)
I [auth E]	SCOP2B Superfamily	Type 2 solute binding protein-like	8076239	3000083	SCOP2B (2022-06-29)
IA [auth R]	SCOP2B Superfamily	Type 2 solute binding protein-like	8076239	3000083	SCOP2B (2022-06-29)
K [auth F]	SCOP2B Superfamily	Type 2 solute binding protein-like	8076239	3000083	SCOP2B (2022-06-29)
M [auth G]	SCOP2B Superfamily	Type 2 solute binding protein-like	8076239	3000083	SCOP2B (2022-06-29)
O [auth H]	SCOP2B Superfamily	Type 2 solute binding protein-like	8076239	3000083	SCOP2B (2022-06-29)
Q [auth I]	SCOP2B Superfamily	Type 2 solute binding protein-like	8076239	3000083	SCOP2B (2022-06-29)
S [auth J]	SCOP2B Superfamily	Type 2 solute binding protein-like	8076239	3000083	SCOP2B (2022-06-29)
U [auth K]	SCOP2B Superfamily	Type 2 solute binding protein-like	8076239	3000083	SCOP2B (2022-06-29)
W [auth L]	SCOP2B Superfamily	Type 2 solute binding protein-like	8076239	3000083	SCOP2B (2022-06-29)
Y [auth M]	SCOP2B Superfamily	Type 2 solute binding protein-like	8076239	3000083	SCOP2B (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	PF13416	e6ikmA2	A: a/b three-layered sandwiches	X: Periplasmic binding protein-like II (From Topology)	H: Periplasmic binding protein-like II (From Topology)	T: Periplasmic binding protein-like II	F: PF13416	ECOD (1.6)
AA [auth N]	PF13416	e6ikmN1	A: a/b three-layered sandwiches	X: Periplasmic binding protein-like II (From Topology)	H: Periplasmic binding protein-like II (From Topology)	T: Periplasmic binding protein-like II	F: PF13416	ECOD (1.6)
C [auth B]	PF13416	e6ikmB2	A: a/b three-layered sandwiches	X: Periplasmic binding protein-like II (From Topology)	H: Periplasmic binding protein-like II (From Topology)	T: Periplasmic binding protein-like II	F: PF13416	ECOD (1.6)
CA [auth O]	PF13416	e6ikmO2	A: a/b three-layered sandwiches	X: Periplasmic binding protein-like II (From Topology)	H: Periplasmic binding protein-like II (From Topology)	T: Periplasmic binding protein-like II	F: PF13416	ECOD (1.6)
E [auth C]	PF13416	e6ikmC2	A: a/b three-layered sandwiches	X: Periplasmic binding protein-like II (From Topology)	H: Periplasmic binding protein-like II (From Topology)	T: Periplasmic binding protein-like II	F: PF13416	ECOD (1.6)
EA [auth P]	PF13416	e6ikmP1	A: a/b three-layered sandwiches	X: Periplasmic binding protein-like II (From Topology)	H: Periplasmic binding protein-like II (From Topology)	T: Periplasmic binding protein-like II	F: PF13416	ECOD (1.6)
G [auth D]	PF13416	e6ikmD1	A: a/b three-layered sandwiches	X: Periplasmic binding protein-like II (From Topology)	H: Periplasmic binding protein-like II (From Topology)	T: Periplasmic binding protein-like II	F: PF13416	ECOD (1.6)
GA [auth Q]	PF13416	e6ikmQ2	A: a/b three-layered sandwiches	X: Periplasmic binding protein-like II (From Topology)	H: Periplasmic binding protein-like II (From Topology)	T: Periplasmic binding protein-like II	F: PF13416	ECOD (1.6)
I [auth E]	PF13416	e6ikmE2	A: a/b three-layered sandwiches	X: Periplasmic binding protein-like II (From Topology)	H: Periplasmic binding protein-like II (From Topology)	T: Periplasmic binding protein-like II	F: PF13416	ECOD (1.6)
IA [auth R]	PF13416	e6ikmR2	A: a/b three-layered sandwiches	X: Periplasmic binding protein-like II (From Topology)	H: Periplasmic binding protein-like II (From Topology)	T: Periplasmic binding protein-like II	F: PF13416	ECOD (1.6)
K [auth F]	PF13416	e6ikmF2	A: a/b three-layered sandwiches	X: Periplasmic binding protein-like II (From Topology)	H: Periplasmic binding protein-like II (From Topology)	T: Periplasmic binding protein-like II	F: PF13416	ECOD (1.6)
M [auth G]	PF13416	e6ikmG2	A: a/b three-layered sandwiches	X: Periplasmic binding protein-like II (From Topology)	H: Periplasmic binding protein-like II (From Topology)	T: Periplasmic binding protein-like II	F: PF13416	ECOD (1.6)
O [auth H]	PF13416	e6ikmH2	A: a/b three-layered sandwiches	X: Periplasmic binding protein-like II (From Topology)	H: Periplasmic binding protein-like II (From Topology)	T: Periplasmic binding protein-like II	F: PF13416	ECOD (1.6)
Q [auth I]	PF13416	e6ikmI1	A: a/b three-layered sandwiches	X: Periplasmic binding protein-like II (From Topology)	H: Periplasmic binding protein-like II (From Topology)	T: Periplasmic binding protein-like II	F: PF13416	ECOD (1.6)
S [auth J]	PF13416	e6ikmJ1	A: a/b three-layered sandwiches	X: Periplasmic binding protein-like II (From Topology)	H: Periplasmic binding protein-like II (From Topology)	T: Periplasmic binding protein-like II	F: PF13416	ECOD (1.6)
U [auth K]	PF13416	e6ikmK2	A: a/b three-layered sandwiches	X: Periplasmic binding protein-like II (From Topology)	H: Periplasmic binding protein-like II (From Topology)	T: Periplasmic binding protein-like II	F: PF13416	ECOD (1.6)
W [auth L]	PF13416	e6ikmL1	A: a/b three-layered sandwiches	X: Periplasmic binding protein-like II (From Topology)	H: Periplasmic binding protein-like II (From Topology)	T: Periplasmic binding protein-like II	F: PF13416	ECOD (1.6)
Y [auth M]	PF13416	e6ikmM2	A: a/b three-layered sandwiches	X: Periplasmic binding protein-like II (From Topology)	H: Periplasmic binding protein-like II (From Topology)	T: Periplasmic binding protein-like II	F: PF13416	ECOD (1.6)
B [auth a]	PF07686	e6ikma1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PF07686	ECOD (1.6)
BA [auth n]	PF07686	e6ikmn1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PF07686	ECOD (1.6)
D [auth b]	PF07686	e6ikmb1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PF07686	ECOD (1.6)
DA [auth o]	PF07686	e6ikmo2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PF07686	ECOD (1.6)
F [auth c]	PF07686	e6ikmc1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PF07686	ECOD (1.6)
FA [auth p]	PF07686	e6ikmp2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PF07686	ECOD (1.6)
H [auth d]	PF07686	e6ikmd2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PF07686	ECOD (1.6)
HA [auth q]	PF07686	e6ikmq2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PF07686	ECOD (1.6)
J [auth e]	PF07686	e6ikme1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PF07686	ECOD (1.6)
JA [auth r]	PF07686	e6ikmr2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PF07686	ECOD (1.6)
L [auth f]	PF07686	e6ikmf1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PF07686	ECOD (1.6)
N [auth g]	PF07686	e6ikmg1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PF07686	ECOD (1.6)
P [auth h]	PF07686	e6ikmh2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PF07686	ECOD (1.6)
R [auth i]	PF07686	e6ikmi1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PF07686	ECOD (1.6)
T [auth j]	PF07686	e6ikmj1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PF07686	ECOD (1.6)
V [auth k]	PF07686	e6ikmk1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PF07686	ECOD (1.6)
X [auth l]	PF07686	e6ikml2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PF07686	ECOD (1.6)
Z [auth m]	PF07686	e6ikmm2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PF07686	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	3.40.190.10	Alpha Beta	3-Layer(aba) Sandwich	D-Maltodextrin-Binding Protein	domain 2	CATH (utative)
AA [auth N]	3.40.190.10	Alpha Beta	3-Layer(aba) Sandwich	D-Maltodextrin-Binding Protein	domain 2	CATH (utative)
C [auth B]	3.40.190.10	Alpha Beta	3-Layer(aba) Sandwich	D-Maltodextrin-Binding Protein	domain 2	CATH (utative)
CA [auth O]	3.40.190.10	Alpha Beta	3-Layer(aba) Sandwich	D-Maltodextrin-Binding Protein	domain 2	CATH (utative)
E [auth C]	3.40.190.10	Alpha Beta	3-Layer(aba) Sandwich	D-Maltodextrin-Binding Protein	domain 2	CATH (utative)
EA [auth P]	3.40.190.10	Alpha Beta	3-Layer(aba) Sandwich	D-Maltodextrin-Binding Protein	domain 2	CATH (utative)
G [auth D]	3.40.190.10	Alpha Beta	3-Layer(aba) Sandwich	D-Maltodextrin-Binding Protein	domain 2	CATH (utative)
GA [auth Q]	3.40.190.10	Alpha Beta	3-Layer(aba) Sandwich	D-Maltodextrin-Binding Protein	domain 2	CATH (utative)
I [auth E]	3.40.190.10	Alpha Beta	3-Layer(aba) Sandwich	D-Maltodextrin-Binding Protein	domain 2	CATH (utative)
IA [auth R]	3.40.190.10	Alpha Beta	3-Layer(aba) Sandwich	D-Maltodextrin-Binding Protein	domain 2	CATH (utative)
K [auth F]	3.40.190.10	Alpha Beta	3-Layer(aba) Sandwich	D-Maltodextrin-Binding Protein	domain 2	CATH (utative)
M [auth G]	3.40.190.10	Alpha Beta	3-Layer(aba) Sandwich	D-Maltodextrin-Binding Protein	domain 2	CATH (utative)
O [auth H]	3.40.190.10	Alpha Beta	3-Layer(aba) Sandwich	D-Maltodextrin-Binding Protein	domain 2	CATH (utative)
Q [auth I]	3.40.190.10	Alpha Beta	3-Layer(aba) Sandwich	D-Maltodextrin-Binding Protein	domain 2	CATH (utative)
S [auth J]	3.40.190.10	Alpha Beta	3-Layer(aba) Sandwich	D-Maltodextrin-Binding Protein	domain 2	CATH (utative)
U [auth K]	3.40.190.10	Alpha Beta	3-Layer(aba) Sandwich	D-Maltodextrin-Binding Protein	domain 2	CATH (utative)
W [auth L]	3.40.190.10	Alpha Beta	3-Layer(aba) Sandwich	D-Maltodextrin-Binding Protein	domain 2	CATH (utative)
Y [auth M]	3.40.190.10	Alpha Beta	3-Layer(aba) Sandwich	D-Maltodextrin-Binding Protein	domain 2	CATH (utative)

IMGT Antibody Annotation IMGT Database Homepage

Chain	Protein Name	Description	Organism Name	Gene Allele Name(s)	Domain Name(s)	Receptor Type	Receptor Description	Provenance Source
B [auth a], BA [auth n], D [auth b], DA [auth o], F [auth c], B [auth a], BA [auth n], D [auth b], DA [auth o], F [auth c], FA [auth p], H [auth d], HA [auth q], J [auth e], JA [auth r], L [auth f], N [auth g], P [auth h], R [auth i], T [auth j], V [auth k], X [auth l], Z [auth m]	scFv 5, anti-SpuE	SCFV-HEAVY-LAMBDA	Homo sapiens (human)	IGHV1-202, IGHJ604, IGLV1-5101, IGLJ201, IGLJ3*01	V-DOMAIN VH, V-DOMAIN V-LAMBDA	IG	SCFV-HEAVY-LAMBDA	IMGT (202421-0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, AA [auth N], C [auth B], CA [auth O], E [auth C], A, AA [auth N], C [auth B], CA [auth O], E [auth C], EA [auth P], G [auth D], GA [auth Q], I [auth E], IA [auth R], K [auth F], M [auth G], O [auth H], Q [auth I], S [auth J], U [auth K], W [auth L], Y [auth M]	PF13416	Bacterial extracellular solute-binding protein (SBP_bac_8)	Bacterial extracellular solute-binding protein	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, AA [auth N], C [auth B], CA [auth O], E [auth C], A, AA [auth N], C [auth B], CA [auth O], E [auth C], EA [auth P], G [auth D], GA [auth Q], I [auth E], IA [auth R], K [auth F], M [auth G], O [auth H], Q [auth I], S [auth J], U [auth K], W [auth L], Y [auth M]	Polyamine transport protein	cation binding spermidine binding polyamine binding binding ion binding amine binding small molecule binding	localization nitrogen compound transport transport organic substance transport polyamine transport establishment of localization	periplasmic space cellular anatomical entity extracellular region extracellular space
B [auth a], BA [auth n], D [auth b], DA [auth o], F [auth c], B [auth a], BA [auth n], D [auth b], DA [auth o], F [auth c], FA [auth p], H [auth d], HA [auth q], J [auth e], JA [auth r], L [auth f], N [auth g], P [auth h], R [auth i], T [auth j], V [auth k], X [auth l], Z [auth m]	ScFv5	-	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, AA [auth N], C [auth B], CA [auth O], E [auth C], A, AA [auth N], C [auth B], CA [auth O], E [auth C], EA [auth P], G [auth D], GA [auth Q], I [auth E], IA [auth R], K [auth F], M [auth G], O [auth H], Q [auth I], S [auth J], U [auth K], W [auth L], Y [auth M]	IPR006059	Bacterial-type extracellular solute-binding protein	Family
A, AA [auth N], C [auth B], CA [auth O], E [auth C], A, AA [auth N], C [auth B], CA [auth O], E [auth C], EA [auth P], G [auth D], GA [auth Q], I [auth E], IA [auth R], K [auth F], M [auth G], O [auth H], Q [auth I], S [auth J], U [auth K], W [auth L], Y [auth M]	IPR001188	Spermidine/putrescine-binding periplasmic protein	Family