8DTU | pdb_00008dtu

The complex of nanobody 5344N74D with BCL11A ZF6.

External Resource: Annotation

Domain Annotation: ECOD Classification
Domain Annotation: CATH
SAbDab Antibody Annotation
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	zf-H2C2_5	e8dtuC1	A: few secondary structure elements	X: beta-beta-alpha zinc fingers	H: beta-beta-alpha zinc fingers (From Topology)	T: beta-beta-alpha zinc fingers	F: zf-H2C2_5	ECOD (1.6)
B [auth A]	V-set_12	e8dtuA1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: V-set_12	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
B [auth A]	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (utative)

SAbDab Antibody Annotation SAbDab Database Homepage

Chain	Chain Class	Chain Subclass	Chain Type	Antigen Name(s)	Provenance Source
B [auth A]	Heavy Chain	IGHV1	-	b-cell lymphoma/leukemia 11a \| nanobody 5344n74d	SAbDab (2025-03-21)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
C	PF00096	Zinc finger, C2H2 type (zf-C2H2)	Zinc finger, C2H2 type	The C2H2 zinc finger is the classical zinc finger domain. The two conserved cysteines and histidines co-ordinate a zinc ion. The following pattern describes the zinc finger. #-X-C-X(1-5)-C-X3-#-X5-#-X2-H-X(3-6)-[H/C] Where X can be any amino acid, an ...	The C2H2 zinc finger is the classical zinc finger domain. The two conserved cysteines and histidines co-ordinate a zinc ion. The following pattern describes the zinc finger. #-X-C-X(1-5)-C-X3-#-X5-#-X2-H-X(3-6)-[H/C] Where X can be any amino acid, and numbers in brackets indicate the number of residues. The positions marked # are those that are important for the stable fold of the zinc finger. The final position can be either his or cys. The C2H2 zinc finger is composed of two short beta strands followed by an alpha helix. The amino terminal part of the helix binds the major groove in DNA binding zinc fingers. The accepted consensus binding sequence for Sp1 is usually defined by the asymmetric hexanucleotide core GGGCGG but this sequence does not include, among others, the GAG (=CTC) repeat that constitutes a high-affinity site for Sp1 binding to the wt1 promoter [2].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
C	B-cell lymphoma/leukemia 11A	DNA-binding transcription factor activity, RNA polymerase II-specific DNA-binding transcription repressor activity, RNA polymerase II-specific transcription regulator activity DNA-binding transcription repressor activity DNA-binding transcription factor activity transcription coregulator activity protein-macromolecule adaptor activity molecular adaptor activity DNA binding sequence-specific DNA binding binding double-stranded DNA binding nucleic acid binding RNA polymerase II transcription regulatory region sequence-specific DNA binding DNA-binding transcription factor activity, RNA polymerase II-specific DNA-binding transcription repressor activity, RNA polymerase II-specific transcription regulator activity DNA-binding transcription repressor activity DNA-binding transcription factor activity transcription coregulator activity protein-macromolecule adaptor activity molecular adaptor activity DNA binding sequence-specific DNA binding binding double-stranded DNA binding nucleic acid binding RNA polymerase II transcription regulatory region sequence-specific DNA binding cis-regulatory region sequence-specific DNA binding sequence-specific double-stranded DNA binding transcription cis-regulatory region binding transcription regulatory region nucleic acid binding RNA polymerase II cis-regulatory region sequence-specific DNA binding protein heterodimerization activity protein binding protein dimerization activity identical protein binding protein homodimerization activity kinase binding enzyme binding protein kinase binding transcription factor binding DNA-binding transcription factor binding cation binding ion binding metal ion binding small molecule binding	multicellular organismal process regulation of growth regulation of cellular process axonogenesis regulation of cellular component size cell projection organization developmental growth negative regulation of biological process regulation of cell differentiation regulation of neurogenesis neuron projection development regulation of cell development multicellular organism development cell projection morphogenesis neuron differentiation multicellular organismal process regulation of growth regulation of cellular process axonogenesis regulation of cellular component size cell projection organization developmental growth negative regulation of biological process regulation of cell differentiation regulation of neurogenesis neuron projection development regulation of cell development multicellular organism development cell projection morphogenesis neuron differentiation negative regulation of growth neuron projection morphogenesis cell differentiation anatomical structure development regulation of biological quality system development developmental process regulation of biological process negative regulation of cellular component organization regulation of cell projection organization negative regulation of cell growth nervous system development developmental growth involved in morphogenesis generation of neurons negative regulation of axonogenesis negative regulation of developmental growth negative regulation of multicellular organismal process regulation of neuron projection development regulation of collateral sprouting regulation of cellular component organization cellular developmental process regulation of developmental process plasma membrane bounded cell projection morphogenesis cell development cell growth cell morphogenesis cellular component organization regulation of nervous system development neurogenesis negative regulation of neurogenesis regulation of extent of cell growth regulation of axonogenesis negative regulation of cellular process negative regulation of nervous system development regulation of multicellular organismal process negative regulation of cell differentiation cellular component organization or biogenesis negative regulation of cell projection organization regulation of anatomical structure morphogenesis regulation of cell size regulation of multicellular organismal development collateral sprouting regulation of developmental growth plasma membrane bounded cell projection organization developmental cell growth negative regulation of developmental process biological regulation growth axon development regulation of cell growth cell morphogenesis involved in neuron differentiation negative regulation of neuron projection development anatomical structure morphogenesis negative regulation of cell development neuron development cellular process negative regulation of collateral sprouting regulation of plasma membrane bounded cell projection organization regulation of anatomical structure size axon extension regulation of axon extension neuron projection extension negative regulation of axon extension regulation of biosynthetic process positive regulation of biological process regulation of macromolecule metabolic process gene expression macromolecule biosynthetic process positive regulation of macromolecule biosynthetic process regulation of gene expression positive regulation of metabolic process biosynthetic process positive regulation of gene expression positive regulation of biosynthetic process regulation of macromolecule biosynthetic process metabolic process positive regulation of macromolecule metabolic process macromolecule metabolic process regulation of metabolic process positive regulation of cellular process peptidyl-lysine modification primary metabolic process protein sumoylation macromolecule modification peptidyl-amino acid modification protein metabolic process protein modification process post-translational protein modification protein modification by small protein conjugation protein modification by small protein conjugation or removal dendrite development regulation of dendrite development negative regulation of dendrite development positive regulation of cellular component organization positive regulation of neuron projection development positive regulation of cell projection organization cellular response to acid chemical cellular response to stimulus cellular response to nitrogen compound cellular response to amino acid stimulus response to stimulus cellular response to L-glutamate response to oxygen-containing compound response to nitrogen compound response to amino acid cellular response to oxygen-containing compound response to acid chemical cellular response to chemical stimulus response to chemical response to L-glutamate negative regulation of protein homooligomerization regulation of protein oligomerization cellular component biogenesis regulation of protein homooligomerization regulation of protein-containing complex assembly cellular component assembly protein-containing complex assembly protein homooligomerization negative regulation of protein oligomerization protein-containing complex organization regulation of cellular component biogenesis negative regulation of protein-containing complex assembly protein complex oligomerization positive regulation of nervous system development positive regulation of developmental process positive regulation of developmental growth positive regulation of collateral sprouting positive regulation of cell development positive regulation of multicellular organismal process positive regulation of cell differentiation positive regulation of neurogenesis positive regulation of axonogenesis positive regulation of cell growth positive regulation of growth RNA metabolic process regulation of primary metabolic process nucleobase-containing compound metabolic process RNA biosynthetic process nucleic acid biosynthetic process DNA-templated transcription regulation of RNA metabolic process transcription by RNA polymerase II regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process regulation of transcription by RNA polymerase II nucleobase-containing compound biosynthetic process nucleic acid metabolic process regulation of DNA-templated transcription regulation of morphogenesis of a branching structure negative regulation of branching morphogenesis of a nerve regulation of branching morphogenesis of a nerve morphogenesis of a branching structure branching morphogenesis of a nerve negative regulation of RNA biosynthetic process negative regulation of nucleobase-containing compound metabolic process negative regulation of macromolecule metabolic process negative regulation of DNA-templated transcription negative regulation of transcription by RNA polymerase II negative regulation of metabolic process negative regulation of biosynthetic process negative regulation of macromolecule biosynthetic process negative regulation of RNA metabolic process regulation of cell morphogenesis negative regulation of dendrite extension dendrite extension regulation of dendrite extension positive regulation of DNA-templated transcription positive regulation of nucleobase-containing compound metabolic process positive regulation of transcription by RNA polymerase II positive regulation of RNA metabolic process positive regulation of RNA biosynthetic process regulation of neuron remodeling regulation of neuron maturation negative regulation of neuron maturation neuron remodeling cell maturation regulation of cell maturation negative regulation of neuron remodeling developmental maturation anatomical structure maturation neuron maturation negative regulation of cell maturation regulation of neuron differentiation	membrane-bounded organelle intracellular anatomical structure nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen intracellular organelle cellular anatomical structure organelle lumen organelle nuclear lumen nuclear matrix nuclear body nucleoplasm membrane-bounded organelle intracellular anatomical structure nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen intracellular organelle cellular anatomical structure organelle lumen organelle nuclear lumen nuclear matrix nuclear body nucleoplasm paraspeckles cytoplasm cytosol SWI/SNF complex ATPase complex protein-containing complex catalytic complex nuclear protein-containing complex intracellular membraneless organelle chromatin chromosome membraneless organelle SWI/SNF superfamily-type complex postsynapse synapse cell junction
A [auth B]	Nanobody 5344N74D	-	-	-
B [auth A]	Nanobody 5344N74D	-	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
C	IPR013087	Zinc finger C2H2-type	Domain
C	IPR036236	Zinc finger C2H2 superfamily	Homologous Superfamily
C	IPR051497	Developmental and Hematopoietic Transcription Factors	Family

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
C	Pharos: Q9H165	polycystic ovary syndrome sickle cell anemia Dias-Logan syndrome intellectual disability adenoid cystic carcinoma Language Development Disorders salivary gland adenoid cystic carcinoma cutaneous lupus erythematosus esophageal adenocarcinoma large cell medulloblastoma malignant colon neoplasm malignant mesothelioma medulloblastoma osteosarcoma astrocytic tumor polycystic ovary syndrome sickle cell anemia Dias-Logan syndrome intellectual disability adenoid cystic carcinoma Language Development Disorders salivary gland adenoid cystic carcinoma cutaneous lupus erythematosus esophageal adenocarcinoma large cell medulloblastoma malignant colon neoplasm malignant mesothelioma medulloblastoma osteosarcoma astrocytic tumor salivary gland cancer auditory perceptual disorders schizophrenia breast carcinoma glioblastoma lung cancer agnosia malignant ependymoma non-small cell lung carcinoma ovarian cancer psoriasis attention deficit hyperactivity disorder, inattentive type benign prostatic hyperplasia chronic obstructive pulmonary disease Sjogren syndrome lung carcinoma anemia malignant glioma oligodendroglioma pilocytic astrocytoma atypical teratoid rhabdoid tumor sarcoidosis breast cancer

RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729.