Annotations: 2XJZ

Crystal structure of the LMO2:LDB1-LID complex, C2 crystal form

External Resource: Annotation

Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Pharos: Disease Associations

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
C	Toprim_4,RecR_C	e2xjzC2	A: alpha arrays	X: amino-terminal domain of OmpATb	H: amino-terminal domain of OmpATb	T: amino-terminal domain of OmpATb	F: Toprim_4,RecR_C	ECOD (v295.2)
C		e2xjzC4	A: alpha arrays	X: Alpha helical domain of ribonucleotide reductases	H: Alpha helical domain of ribonucleotide reductases	T: Alpha helical domain of ribonucleotide reductases	F:	ECOD (v295.2)
D	Toprim_4,RecR_C	e2xjzD1	A: alpha arrays	X: amino-terminal domain of OmpATb	H: amino-terminal domain of OmpATb	T: amino-terminal domain of OmpATb	F: Toprim_4,RecR_C	ECOD (v295.2)
D		e2xjzD4	A: alpha arrays	X: Alpha helical domain of ribonucleotide reductases	H: Alpha helical domain of ribonucleotide reductases	T: Alpha helical domain of ribonucleotide reductases	F:	ECOD (v295.2)
E	Cytochrome_CBB3	e2xjzE1	A: alpha arrays	X: Alpha-beta plaits	H: Phage tail protein-like	T: Transmembrane protein 14A	F: Cytochrome_CBB3	ECOD (v295.2)
B	Toprim_4,RecR_C	e2xjzB1	A: alpha arrays	X: amino-terminal domain of OmpATb	H: amino-terminal domain of OmpATb	T: amino-terminal domain of OmpATb	F: Toprim_4,RecR_C	ECOD (v295.2)
B		e2xjzB2	A: alpha arrays	X: Alpha helical domain of ribonucleotide reductases	H: Alpha helical domain of ribonucleotide reductases	T: Alpha helical domain of ribonucleotide reductases	F:	ECOD (v295.2)
A	Cytochrome_CBB3	e2xjzA1	A: alpha arrays	X: Alpha-beta plaits	H: Phage tail protein-like	T: Transmembrane protein 14A	F: Cytochrome_CBB3	ECOD (v295.2)
F [auth I]	YadA_stalk	e2xjzI01	A: alpha arrays	X: Colicin-A N-terminal domain	H: Colicin-A N-terminal domain	T: Colicin-A N-terminal domain	F: YadA_stalk	ECOD (v295.2)
G [auth J]	Med6	e2xjzJ1	A: alpha arrays	X: Hypothetical protein YqbG-like	H: Hypothetical protein YqbG-like	T: alpha/beta-Hydrolases	F: Med6	ECOD (v295.2)
H [auth K]	Med6	e2xjzK1	A: alpha arrays	X: Hypothetical protein YqbG-like	H: Hypothetical protein YqbG-like	T: alpha/beta-Hydrolases	F: Med6	ECOD (v295.2)
I [auth L]	Med6	e2xjzL1	A: alpha arrays	X: Hypothetical protein YqbG-like	H: Hypothetical protein YqbG-like	T: alpha/beta-Hydrolases	F: Med6	ECOD (v295.2)
J [auth M]	Med6	e2xjzM1	A: alpha arrays	X: Hypothetical protein YqbG-like	H: Hypothetical protein YqbG-like	T: alpha/beta-Hydrolases	F: Med6	ECOD (v295.2)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
C	2.10.110.10	Mainly Beta	Ribbon	Cysteine Rich Protein	Cysteine Rich Protein	CATH (4.3.0)
D	2.10.110.10	Mainly Beta	Ribbon	Cysteine Rich Protein	Cysteine Rich Protein	CATH (4.3.0)
E	2.10.110.10	Mainly Beta	Ribbon	Cysteine Rich Protein	Cysteine Rich Protein	CATH (4.3.0)
B	2.10.110.10	Mainly Beta	Ribbon	Cysteine Rich Protein	Cysteine Rich Protein	CATH (4.3.0)
A	2.10.110.10	Mainly Beta	Ribbon	Cysteine Rich Protein	Cysteine Rich Protein	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D, E	PF00412	LIM domain (LIM)	LIM domain	This family represents two copies of the LIM structural domain.	Domain
F [auth I], G [auth J], H [auth K], I [auth L], J [auth M]	PF17916	LIM interaction domain (LID) (LID)	LIM interaction domain (LID)	LIM-homeodomain (LIM-HD) proteins are transcription factors that are critical in the development of many cell types and tissues. The activity of LIM-HD proteins is dependent on the essential cofactor LIM domain-binding protein 1 (Ldb1). This entry re ...	LIM-homeodomain (LIM-HD) proteins are transcription factors that are critical in the development of many cell types and tissues. The activity of LIM-HD proteins is dependent on the essential cofactor LIM domain-binding protein 1 (Ldb1). This entry represents a 30-residue LIM interaction domain (LID) that binds to the LIM domains of all LIM-HD and closely related LIM-only (LMO) proteins. Isl1 (Insulin gene enhancer protein 1) and Isl2 each contain a LID-like sequence in their C-terminal regions, the Lhx3-binding domain (LBD), which binds the LIM domains Lhx3 and Lhx4 [1].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C, D, E	RHOMBOTIN-2	transcription coactivator activity transcription regulator activity transcription coregulator activity transcription factor binding transcription coregulator binding protein binding binding bHLH transcription factor binding DNA-binding transcription factor binding identical protein binding RNA polymerase II-specific DNA-binding transcription factor binding	developmental process multicellular organismal process cellular developmental process hemopoiesis animal organ development cell development embryo development multicellular organism development embryonic hemopoiesis cell differentiation anatomical structure development cellular process embryonic organ development animal gross anatomical part developmental process developmental process multicellular organismal process cellular developmental process hemopoiesis animal organ development cell development embryo development multicellular organism development embryonic hemopoiesis cell differentiation anatomical structure development cellular process embryonic organ development animal gross anatomical part developmental process regulation of cellular process positive regulation of DNA-templated transcription positive regulation of biological process RNA metabolic process positive regulation of macromolecule biosynthetic process regulation of primary metabolic process nucleobase-containing compound metabolic process RNA biosynthetic process nucleic acid biosynthetic process positive regulation of metabolic process DNA-templated transcription regulation of RNA metabolic process transcription by RNA polymerase II positive regulation of biosynthetic process positive regulation of macromolecule metabolic process regulation of nucleobase-containing compound metabolic process positive regulation of cellular process regulation of RNA biosynthetic process regulation of biosynthetic process regulation of transcription by RNA polymerase II regulation of biological process biological regulation primary metabolic process regulation of macromolecule metabolic process positive regulation of transcription by RNA polymerase II nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process positive regulation of RNA metabolic process regulation of gene expression biosynthetic process positive regulation of RNA biosynthetic process metabolic process regulation of macromolecule biosynthetic process macromolecule metabolic process regulation of DNA-templated transcription regulation of metabolic process	protein-containing complex transcription regulator complex membrane-bounded organelle intracellular anatomical structure nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen intracellular organelle cellular anatomical structure nucleoplasm organelle lumen organelle nuclear lumen
F [auth I], G [auth J], H [auth K], I [auth L], J [auth M]	LIM DOMAIN-BINDING PROTEIN 1	protein binding binding LIM domain binding protein domain specific binding transcription factor binding RNA polymerase II-specific DNA-binding transcription factor binding DNA-binding transcription factor binding chromatin binding transcription coactivator activity transcription regulator activity transcription coregulator activity DNA binding nucleic acid binding identical protein binding protein binding binding LIM domain binding protein domain specific binding transcription factor binding RNA polymerase II-specific DNA-binding transcription factor binding DNA-binding transcription factor binding chromatin binding transcription coactivator activity transcription regulator activity transcription coregulator activity DNA binding nucleic acid binding identical protein binding protein homodimerization activity protein dimerization activity enzyme binding	regulation of cellular process negative regulation of biological process RNA metabolic process regulation of primary metabolic process negative regulation of RNA biosynthetic process RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription nucleic acid biosynthetic process regulation of RNA metabolic process negative regulation of cellular process negative regulation of nucleobase-containing compound metabolic process regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process regulation of cellular process negative regulation of biological process RNA metabolic process regulation of primary metabolic process negative regulation of RNA biosynthetic process RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription nucleic acid biosynthetic process regulation of RNA metabolic process negative regulation of cellular process negative regulation of nucleobase-containing compound metabolic process regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process negative regulation of macromolecule metabolic process regulation of biosynthetic process negative regulation of DNA-templated transcription regulation of biological process negative regulation of metabolic process biological regulation primary metabolic process regulation of macromolecule metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process regulation of gene expression biosynthetic process negative regulation of biosynthetic process negative regulation of macromolecule biosynthetic process metabolic process cellular process regulation of macromolecule biosynthetic process macromolecule metabolic process regulation of DNA-templated transcription regulation of metabolic process negative regulation of RNA metabolic process regulation of cellular component organization cell-substrate junction assembly cellular component organization cellular component biogenesis cell adhesion cellular component assembly cell junction assembly regulation of cell-substrate junction organization cellular component organization or biogenesis focal adhesion assembly regulation of cell-substrate adhesion regulation of cell adhesion cell-substrate adhesion regulation of cellular component biogenesis regulation of cell junction assembly cell junction organization cell-matrix adhesion regulation of cell-matrix adhesion cell-substrate junction organization regulation of focal adhesion assembly regulation of cell-substrate junction assembly organelle organization chromosome organization transcription-dependent tethering of RNA polymerase II gene DNA at nuclear periphery developmental process head development anatomical structure development animal gross anatomical part developmental process transcription by RNA polymerase II multicellular organismal process regulation of developmental process cellular developmental process homeostatic process cell development regulation of cell differentiation regulation of cell development multicellular organism development negative regulation of erythrocyte differentiation cell differentiation negative regulation of cell differentiation regulation of immune system process regulation of multicellular organismal process myeloid cell homeostasis erythrocyte homeostasis regulation of multicellular organismal development negative regulation of developmental process hemopoiesis regulation of myeloid cell differentiation negative regulation of myeloid cell differentiation erythrocyte differentiation regulation of erythrocyte differentiation multicellular organismal-level homeostasis myeloid cell differentiation immune system process regulation of hemopoiesis homeostasis of number of cells nervous system development generation of neurons neurogenesis neuron differentiation system development positive regulation of protein metabolic process positive regulation of biological process positive regulation of macromolecule biosynthetic process positive regulation of hemoglobin biosynthetic process positive regulation of metabolic process positive regulation of biosynthetic process positive regulation of macromolecule metabolic process protein metabolic process positive regulation of cellular process hemoglobin metabolic process hemoglobin biosynthetic process regulation of protein metabolic process regulation of hemoglobin biosynthetic process regulation of cell motility regulation of locomotion regulation of cell migration cell migration cell motility locomotion transcription elongation by RNA polymerase II positive regulation of DNA-templated transcription positive regulation of transcription elongation by RNA polymerase II positive regulation of DNA-templated transcription, elongation regulation of transcription by RNA polymerase II regulation of DNA-templated transcription elongation regulation of transcription elongation by RNA polymerase II positive regulation of transcription by RNA polymerase II positive regulation of RNA metabolic process DNA-templated transcription elongation positive regulation of RNA biosynthetic process negative regulation of transcription by RNA polymerase II regulation of catalytic activity phosphorylation regulation of transferase activity regulation of molecular function regulation of kinase activity phosphate-containing compound metabolic process regulation of phosphorylation	RNA polymerase II transcription regulator complex membrane-bounded organelle protein-containing complex intracellular anatomical structure nucleus nuclear protein-containing complex transcription regulator complex intracellular membrane-bounded organelle intracellular organelle cellular anatomical structure organelle beta-catenin-TCF complex cell leading edge membrane-enclosed lumen RNA polymerase II transcription regulator complex membrane-bounded organelle protein-containing complex intracellular anatomical structure nucleus nuclear protein-containing complex transcription regulator complex intracellular membrane-bounded organelle intracellular organelle cellular anatomical structure organelle beta-catenin-TCF complex cell leading edge membrane-enclosed lumen intracellular organelle lumen nucleoplasm organelle lumen nuclear lumen membraneless organelle intracellular membraneless organelle chromatin chromosome

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D, E	IPR001781	Zinc finger, LIM-type	Domain
A, B, C, D, E	IPR050945	LMO/RBTN Transcription Factors	Family
F [auth I], G [auth J], H [auth K], I [auth L], J [auth M]	IPR060717	LIM-domain binding protein, DD and LCCD	Domain
F [auth I], G [auth J], H [auth K], I [auth L], J [auth M]	IPR029005	LIM-domain binding protein/SEUSS	Family
F [auth I], G [auth J], H [auth K], I [auth L], J [auth M]	IPR041363	LIM interaction domain	Domain

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A, B, C, D, E	: P25791	T-cell leukemia Precursor T-Cell Lymphoblastic Leukemia-Lymphoma subependymal giant cell astrocytoma tuberculosis acute T cell leukemia breast cancer glioblastoma medulloblastoma osteosarcoma pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia sinusitis T-B+ severe combined immunodeficiency due to gamma chain deficiency ulcerative colitis adult T-cell leukemia/lymphoma breast carcinoma T-cell leukemia Precursor T-Cell Lymphoblastic Leukemia-Lymphoma subependymal giant cell astrocytoma tuberculosis acute T cell leukemia breast cancer glioblastoma medulloblastoma osteosarcoma pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia sinusitis T-B+ severe combined immunodeficiency due to gamma chain deficiency ulcerative colitis adult T-cell leukemia/lymphoma breast carcinoma hematologic disease lung adenocarcinoma nasopharyngeal carcinoma ovarian cancer pilocytic astrocytoma Sjogren syndrome B-cell chronic lymphocytic leukemia cancer invasive ductal breast carcinoma lymphoplasmacytic lymphoma non-small cell lung carcinoma pancreatic intraductal papillary-mucinous carcinoma
F [auth I], G [auth J], H [auth K], I [auth L], J [auth M]	: Q86U70	attention deficit hyperactivity disorder, inattentive type colorectal cancer