5NL1 | pdb_00005nl1

Shigella IpaA-VBS3/TBS in complex with the Talin VBS1 domain 488-512

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
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)
F	SCOP2B Superfamily	Talin 1 middle domain-like	8039487	3001370	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	Talin 1 middle domain-like	8039487	3001370	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	Talin 1 middle domain-like	8039487	3001370	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Talin 1 middle domain-like	8039487	3001370	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Talin 1 middle domain-like	8039487	3001370	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Talin 1 middle domain-like	8039487	3001370	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)
G	Pre-PUA	e5nl1G01	A: a/b three-layered sandwiches	X: Rossmann-like	H: P-loop domains-related	T: ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase	F: Pre-PUA	ECOD (v294.1)
F	VP4_haemagglut	e5nl1F1	A: a/b three-layered sandwiches	X: Phosphorylase/hydrolase-like	H: Peptidyl-tRNA hydrolase-like	T: Peptidyl-tRNA hydrolase-like	F: VP4_haemagglut	ECOD (v294.1)
E	VP4_haemagglut	e5nl1E1	A: a/b three-layered sandwiches	X: Phosphorylase/hydrolase-like	H: Peptidyl-tRNA hydrolase-like	T: Peptidyl-tRNA hydrolase-like	F: VP4_haemagglut	ECOD (v294.1)
D	VP4_haemagglut	e5nl1D1	A: a/b three-layered sandwiches	X: Phosphorylase/hydrolase-like	H: Peptidyl-tRNA hydrolase-like	T: Peptidyl-tRNA hydrolase-like	F: VP4_haemagglut	ECOD (v294.1)
C	VP4_haemagglut	e5nl1C1	A: a/b three-layered sandwiches	X: Phosphorylase/hydrolase-like	H: Peptidyl-tRNA hydrolase-like	T: Peptidyl-tRNA hydrolase-like	F: VP4_haemagglut	ECOD (v294.1)
B	Tli4_C	e5nl1B1	A: a/b three-layered sandwiches	X: Phosphorylase/hydrolase-like	H: Ribosomal protein S5 domain 2-like	T: Ribosomal protein S5 domain 2-like	F: Tli4_C	ECOD (v294.1)
A	VP4_haemagglut	e5nl1A1	A: a/b three-layered sandwiches	X: Phosphorylase/hydrolase-like	H: Peptidyl-tRNA hydrolase-like	T: Peptidyl-tRNA hydrolase-like	F: VP4_haemagglut	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
F	1.20.1420.10	Mainly Alpha	Up-down Bundle	A middle domain of Talin 1	Talin, central domain	CATH (utative)
E	1.20.1420.10	Mainly Alpha	Up-down Bundle	A middle domain of Talin 1	Talin, central domain	CATH (utative)
D	1.20.1420.10	Mainly Alpha	Up-down Bundle	A middle domain of Talin 1	Talin, central domain	CATH (utative)
C	1.20.1420.10	Mainly Alpha	Up-down Bundle	A middle domain of Talin 1	Talin, central domain	CATH (utative)
B	1.20.1420.10	Mainly Alpha	Up-down Bundle	A middle domain of Talin 1	Talin, central domain	CATH (utative)
A	1.20.1420.10	Mainly Alpha	Up-down Bundle	A middle domain of Talin 1	Talin, central domain	CATH (utative)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
G, H, I, J, K G, H, I, J, K, L	PF17985	SipA vinculin binding site (SipA_VBS)	SipA vinculin binding site	-	Motif
A, B, C, D, E A, B, C, D, E, F	PF09141	Talin, middle domain (Talin_middle)	Talin, middle domain	Members of this family adopt a structure consisting of five alpha helices that fold into a bundle. They contain a Vinculin binding site (VBS) composed of a hydrophobic surface spanning five turns of helix four. Activation of the VBS causes subsequent ...	Members of this family adopt a structure consisting of five alpha helices that fold into a bundle. They contain a Vinculin binding site (VBS) composed of a hydrophobic surface spanning five turns of helix four. Activation of the VBS causes subsequent recruitment of Vinculin, which enables maturation of small integrin/talin complexes into more stable adhesions. Formation of the complex between VBS and Vinculin requires prior unfolding of this middle domain: once released from the talin hydrophobic core, the VBS helix is then available to induce the 'bundle conversion' conformational change within the vinculin head domain thereby displacing the intramolecular interaction with the vinculin tail, allowing vinculin to bind actin [1].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
G, H, I, J, K G, H, I, J, K, L	Invasin IpaA	cytoskeletal protein binding protein binding binding vinculin binding actin binding	positive regulation of organelle organization regulation of cytoskeleton organization regulation of cellular component organization regulation of cellular process positive regulation of cellular component organization regulation of actin filament-based process regulation of cellular component size positive regulation of biological process protein-containing complex disassembly positive regulation of actin filament depolymerization regulation of protein-containing complex disassembly actin filament depolymerization cellular component organization regulation of actin filament depolymerization actin filament-based process positive regulation of organelle organization regulation of cytoskeleton organization regulation of cellular component organization regulation of cellular process positive regulation of cellular component organization regulation of actin filament-based process regulation of cellular component size positive regulation of biological process protein-containing complex disassembly positive regulation of actin filament depolymerization regulation of protein-containing complex disassembly actin filament depolymerization cellular component organization regulation of actin filament depolymerization actin filament-based process cellular component organization or biogenesis regulation of biological quality positive regulation of protein-containing complex disassembly positive regulation of cellular process cellular component disassembly actin polymerization or depolymerization regulation of biological process regulation of actin filament organization actin cytoskeleton organization protein-containing complex organization regulation of protein depolymerization positive regulation of protein depolymerization positive regulation of cytoskeleton organization biological regulation actin filament organization regulation of actin polymerization or depolymerization positive regulation of supramolecular fiber organization regulation of organelle organization organelle organization regulation of actin filament length regulation of actin cytoskeleton organization regulation of supramolecular fiber organization cellular process supramolecular fiber organization protein depolymerization cytoskeleton organization regulation of anatomical structure size	cellular anatomical structure extracellular region
A, B, C, D, E A, B, C, D, E, F	Talin-1	ion binding binding anion binding phosphatidylinositol binding small molecule binding cytoskeletal protein binding actin binding protein-containing complex binding protein binding actin filament binding LIM domain binding protein domain specific binding vinculin binding cell adhesion molecule binding ion binding binding anion binding phosphatidylinositol binding small molecule binding cytoskeletal protein binding actin binding protein-containing complex binding protein binding actin filament binding LIM domain binding protein domain specific binding vinculin binding cell adhesion molecule binding integrin binding signaling receptor binding structural constituent of cytoskeleton structural molecule activity modified amino acid binding phospholipid binding lipid binding phosphatidylserine binding	cellular component organization cellular component biogenesis cellular component assembly protein-containing complex organization protein-containing complex assembly cellular process integrin activation cellular component organization or biogenesis cortical cytoskeleton organization microtubule cytoskeleton organization cytoplasmic microtubule organization cortical microtubule organization organelle organization microtubule-based process cellular component organization cellular component biogenesis cellular component assembly protein-containing complex organization protein-containing complex assembly cellular process integrin activation cellular component organization or biogenesis cortical cytoskeleton organization microtubule cytoskeleton organization cytoplasmic microtubule organization cortical microtubule organization organelle organization microtubule-based process supramolecular fiber organization cytoskeleton organization cellular response to stimulus regulation of biological process integrin-mediated signaling pathway regulation of cellular process cell surface receptor signaling pathway response to stimulus signaling biological regulation cell communication signal transduction actin cytoskeleton organization actin filament-based process cell junction organization cell junction assembly cell-substrate junction assembly cell-substrate junction organization cortical actin cytoskeleton organization cell adhesion cell-cell adhesion	cellular anatomical structure anchoring junction cell junction focal adhesion cell-substrate junction ruffle cell leading edge plasma membrane membrane leading edge membrane plasma membrane bounded cell projection cell periphery cell projection ruffle membrane cellular anatomical structure anchoring junction cell junction focal adhesion cell-substrate junction ruffle cell leading edge plasma membrane membrane leading edge membrane plasma membrane bounded cell projection cell periphery cell projection ruffle membrane plasma membrane region cell projection membrane cell surface intracellular anatomical structure cytoplasm cytosol cell-cell junction adherens junction intracellular organelle cytoskeleton organelle membraneless organelle intracellular membraneless organelle

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
G, H, I, J, K G, H, I, J, K, L	IPR015138	Salmonella invasion protein A, N-terminal	Domain
G, H, I, J, K G, H, I, J, K, L	IPR023225	Salmonella invasion protein A, chaperone-binding	Homologous Superfamily
G, H, I, J, K G, H, I, J, K, L	IPR040658	SipA, vinculin binding site	Conserved Site
A, B, C, D, E A, B, C, D, E, F	IPR000299	FERM domain	Domain
A, B, C, D, E A, B, C, D, E, F	IPR002404	IRS-type PTB domain	Domain
A, B, C, D, E A, B, C, D, E, F	IPR014352	FERM/acyl-CoA-binding protein superfamily	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F	IPR019748	FERM central domain	Domain
A, B, C, D, E A, B, C, D, E, F	IPR015009	Vinculin-binding site-containing domain	Domain
A, B, C, D, E A, B, C, D, E, F	IPR032425	Talin, N-terminal F0 domain	Domain
A, B, C, D, E A, B, C, D, E, F	IPR011993	PH-like domain superfamily	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F	IPR035964	I/LWEQ domain superfamily	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F	IPR015224	Talin, central	Domain
A, B, C, D, E A, B, C, D, E, F	IPR054082	Talin, IBS2B domain	Domain
A, B, C, D, E A, B, C, D, E, F	IPR019749	Band 4.1 domain	Domain
A, B, C, D, E A, B, C, D, E, F	IPR057346	Talin-1/2, VBS2 domain	Domain
A, B, C, D, E A, B, C, D, E, F	IPR035963	FERM superfamily, second domain	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F	IPR036476	Talin, central domain superfamily	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F	IPR036723	Alpha-catenin/vinculin-like superfamily	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F	IPR002558	I/LWEQ domain	Domain
A, B, C, D, E A, B, C, D, E, F	IPR019747	FERM conserved site	Conserved Site
A, B, C, D, E A, B, C, D, E, F	IPR054060	Talin 1-like, rod-segment domain	Domain
A, B, C, D, E A, B, C, D, E, F	IPR049108	Talin, R4 domain	Domain
A, B, C, D, E A, B, C, D, E, F	IPR029071	Ubiquitin-like domain superfamily	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F	IPR037438	Talin-1/2, rod-segment	Domain