5V6Y | pdb_00005v6y

Crystal structure of the human CLR:RAMP1 extracellular domain heterodimer with bound high-affinity and altered selectivity adrenomedullin variant

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Pharos: Disease Associations
Protein Modification Annotation

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
D	SCOP2B Superfamily	Type 2 solute binding protein-like	8058187	3000083	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	FnI-like domain	8091130	3000979	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	RAMP1-like	8054000	3002261	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	RAMP1-like	8054000	3002261	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	FnI-like domain	8091130	3000979	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Type 2 solute binding protein-like	8058187	3000083	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Type 2 solute binding protein-like	8058187	3000083	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	FnI-like domain	8091130	3000979	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	RAMP1-like	8054000	3002261	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Type 2 solute binding protein-like	8058187	3000083	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	FnI-like domain	8091130	3000979	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	RAMP1-like	8054000	3002261	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)
D	SBP_bac_1	e5v6yD1	A: a/b three-layered sandwiches	X: Periplasmic binding protein-like II	H: Rubredoxin-related	T: Tetrapyrrole methylase C-terminal domain	F: SBP_bac_1	ECOD (v294.1)
D	Pro_isomerase	e5v6yD3	A: a/b three-layered sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: Pro_isomerase	ECOD (v294.1)
C	SBP_bac_1	e5v6yC2	A: a/b three-layered sandwiches	X: Periplasmic binding protein-like II	H: Rubredoxin-related	T: Tetrapyrrole methylase C-terminal domain	F: SBP_bac_1	ECOD (v294.1)
C	Pro_isomerase	e5v6yC4	A: a/b three-layered sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: Pro_isomerase	ECOD (v294.1)
B	Pkinase	e5v6yB1	A: a/b three-layered sandwiches	X: Protein kinase/SAICAR synthase/ATP-grasp	H: Protein kinase/SAICAR synthase/ATP-grasp	T: Protein kinase	F: Pkinase	ECOD (v294.1)
B	Pro_isomerase	e5v6yB4	A: a/b three-layered sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: Pro_isomerase	ECOD (v294.1)
A	SBP_bac_1	e5v6yA2	A: a/b three-layered sandwiches	X: Periplasmic binding protein-like II	H: Rubredoxin-related	T: Tetrapyrrole methylase C-terminal domain	F: SBP_bac_1	ECOD (v294.1)
A	Pro_isomerase	e5v6yA4	A: a/b three-layered sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: Pro_isomerase	ECOD (v294.1)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D	PF01547	Bacterial extracellular solute-binding protein (SBP_bac_1)	Bacterial extracellular solute-binding protein	-	Family
A, B, C, D	PF04901	Receptor activity modifying family (RAMP)	Receptor activity modifying family	-	Family
A, B, C, D	PF02793	Hormone receptor domain (HRM)	Hormone receptor domain	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
E, F, G, H	ADM	protein binding binding signaling receptor binding adrenomedullin receptor binding G protein-coupled receptor binding hormone activity molecular function activator activity molecular function regulator activity signaling receptor regulator activity receptor ligand activity signaling receptor activator activity	regulation of body fluid levels multicellular organismal process renal system process system process biological regulation regulation of urine volume regulation of biological quality heart process regulation of biological process regulation of heart contraction regulation of system process positive regulation of biological process positive regulation of heart rate positive regulation of blood circulation regulation of body fluid levels multicellular organismal process renal system process system process biological regulation regulation of urine volume regulation of biological quality heart process regulation of biological process regulation of heart contraction regulation of system process positive regulation of biological process positive regulation of heart rate positive regulation of blood circulation positive regulation of heart contraction circulatory system process regulation of blood circulation positive regulation of multicellular organismal process regulation of multicellular organismal process heart contraction blood circulation regulation of heart rate developmental process heart development multicellular organism development anatomical structure development animal organ development circulatory system development system development regulation of tube diameter regulation of tube size negative regulation of biological process negative regulation of vasoconstriction vascular process in circulatory system regulation of vasoconstriction blood vessel diameter maintenance negative regulation of multicellular organismal process vasoconstriction regulation of anatomical structure size localization import into cell receptor internalization transport cellular process receptor-mediated endocytosis endocytosis establishment of localization vesicle-mediated transport regulation of cellular process regulation of developmental process cellular developmental process regulation of vasculogenesis regulation of cell differentiation vasculogenesis positive regulation of developmental process tube morphogenesis positive regulation of cell differentiation cell differentiation positive regulation of cellular process blood vessel development blood vessel morphogenesis tube development vasculature development anatomical structure morphogenesis positive regulation of vasculogenesis cell population proliferation smooth muscle cell differentiation cell development muscle cell differentiation muscle structure development vascular associated smooth muscle cell differentiation muscle cell development vascular associated smooth muscle cell development chordate embryonic development labyrinthine layer development embryo development embryonic placenta development embryo development ending in birth or egg hatching embryonic organ development epithelium development placenta development embryonic morphogenesis morphogenesis of an epithelium branching involved in labyrinthine layer morphogenesis tissue development in utero embryonic development embryonic placenta morphogenesis labyrinthine layer morphogenesis tissue morphogenesis morphogenesis of a branching structure morphogenesis of a branching epithelium developmental growth growth cellular response to stimulus response to stimulus signaling signal transduction cell communication negative regulation of vascular permeability regulation of vascular permeability adenylate cyclase-activating G protein-coupled receptor signaling pathway adenylate cyclase-modulating G protein-coupled receptor signaling pathway G protein-coupled receptor signaling pathway embryonic epithelial tube formation tube formation epithelial tube formation primary neural tube formation epithelial tube morphogenesis morphogenesis of embryonic epithelium neural tube development nervous system development neural tube closure neural tube formation anatomical structure formation involved in morphogenesis tube closure positive regulation of cell population proliferation regulation of cell population proliferation adrenomedullin receptor signaling pathway calcitonin family receptor signaling pathway angiogenesis regulation of vasculature development regulation of anatomical structure morphogenesis regulation of multicellular organismal development positive regulation of angiogenesis positive regulation of vasculature development regulation of angiogenesis positive regulation of progesterone biosynthetic process regulation of hormone biosynthetic process regulation of lipid metabolic process regulation of primary metabolic process positive regulation of metabolic process regulation of small molecule metabolic process positive regulation of lipid metabolic process small molecule metabolic process hormone biosynthetic process olefinic compound biosynthetic process regulation of hormone levels C21-steroid hormone biosynthetic process regulation of progesterone biosynthetic process primary metabolic process regulation of ketone metabolic process positive regulation of steroid biosynthetic process biosynthetic process metabolic process positive regulation of hormone biosynthetic process regulation of metabolic process regulation of steroid biosynthetic process ketone metabolic process regulation of hormone metabolic process steroid metabolic process lipid biosynthetic process C21-steroid hormone metabolic process positive regulation of biosynthetic process progesterone metabolic process steroid biosynthetic process steroid hormone biosynthetic process regulation of biosynthetic process small molecule biosynthetic process positive regulation of hormone metabolic process progesterone biosynthetic process regulation of ketone biosynthetic process regulation of steroid metabolic process hormone metabolic process positive regulation of lipid biosynthetic process positive regulation of steroid metabolic process olefinic compound metabolic process regulation of lipid biosynthetic process positive regulation of small molecule metabolic process ketone biosynthetic process lipid metabolic process regulation of systemic arterial blood pressure regulation of blood pressure defense response response to stress inflammatory response negative adaptation of signaling pathway negative regulation of signaling desensitization of G protein-coupled receptor signaling pathway regulation of signal transduction negative regulation of G protein-coupled receptor signaling pathway negative regulation of cell communication negative regulation of cellular process regulation of G protein-coupled receptor signaling pathway G protein-coupled receptor internalization regulation of signaling negative regulation of response to stimulus negative regulation of signal transduction regulation of response to stimulus adaptation of signaling pathway regulation of cell communication	cellular anatomical structure intracellular anatomical structure cytoplasm extracellular region membrane-bounded organelle vesicle lumen intracellular vesicle membrane-enclosed lumen cytoplasmic vesicle lumen secretory granule lumen intracellular membrane-bounded organelle endomembrane system intracellular organelle lumen intracellular organelle cellular anatomical structure intracellular anatomical structure cytoplasm extracellular region membrane-bounded organelle vesicle lumen intracellular vesicle membrane-enclosed lumen cytoplasmic vesicle lumen secretory granule lumen intracellular membrane-bounded organelle endomembrane system intracellular organelle lumen intracellular organelle cytoplasmic vesicle organelle lumen organelle secretory granule secretory vesicle vesicle
A, B, C, D	Maltose-binding periplasmic protein,Receptor activity-modifying protein 1,Calcitonin gene-related peptide type 1 receptor	calcitonin family binding calcitonin gene-related peptide binding binding peptide hormone binding hormone binding molecular transducer activity coreceptor activity signaling receptor activity calcitonin family receptor activity peptide receptor activity G protein-coupled receptor activity G protein-coupled peptide receptor activity transmembrane signaling receptor activity calcitonin gene-related peptide receptor activity calcitonin family binding calcitonin gene-related peptide binding binding peptide hormone binding hormone binding molecular transducer activity coreceptor activity signaling receptor activity calcitonin family receptor activity peptide receptor activity G protein-coupled receptor activity G protein-coupled peptide receptor activity transmembrane signaling receptor activity calcitonin gene-related peptide receptor activity amylin receptor activity transporter activity carbohydrate transmembrane transporter activity transmembrane transporter activity oligosaccharide binding disaccharide binding carbohydrate binding maltose binding calcitonin receptor activity adrenomedullin binding adrenomedullin receptor activity	cellular response to stimulus regulation of biological process regulation of cellular process response to stimulus signaling biological regulation adenylate cyclase-activating G protein-coupled receptor signaling pathway cell communication adenylate cyclase-modulating G protein-coupled receptor signaling pathway G protein-coupled receptor signaling pathway cellular process signal transduction cellular localization establishment of protein localization cellular response to stimulus regulation of biological process regulation of cellular process response to stimulus signaling biological regulation adenylate cyclase-activating G protein-coupled receptor signaling pathway cell communication adenylate cyclase-modulating G protein-coupled receptor signaling pathway G protein-coupled receptor signaling pathway cellular process signal transduction cellular localization establishment of protein localization transport intracellular transport establishment of localization localization protein transport establishment of localization in cell macromolecule localization intracellular protein localization intracellular protein transport regulation of signaling regulation of signal transduction regulation of response to stimulus regulation of cell communication regulation of G protein-coupled receptor signaling pathway import into cell receptor internalization receptor-mediated endocytosis endocytosis vesicle-mediated transport developmental process multicellular organismal process blood vessel morphogenesis tube development angiogenesis vasculature development circulatory system development anatomical structure morphogenesis multicellular organism development tube morphogenesis anatomical structure formation involved in morphogenesis anatomical structure development blood vessel development system development calcitonin family receptor signaling pathway calcitonin gene-related peptide receptor signaling pathway amylin receptor signaling pathway positive regulation of glycoprotein metabolic process positive regulation of protein metabolic process positive regulation of biological process carbohydrate derivative metabolic process positive regulation of macromolecule biosynthetic process regulation of primary metabolic 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 regulation of glycoprotein biosynthetic process positive regulation of glycoprotein biosynthetic process carbohydrate derivative biosynthetic process regulation of biosynthetic process regulation of protein metabolic process glycoprotein biosynthetic process primary metabolic process regulation of macromolecule metabolic process glycoprotein metabolic process macromolecule biosynthetic process regulation of glycoprotein metabolic process biosynthetic process metabolic process regulation of macromolecule biosynthetic process macromolecule metabolic process regulation of metabolic process monoatomic ion transport monoatomic cation transport calcium ion transport metal ion transport protein localization to cell periphery protein localization to plasma membrane localization within membrane protein localization to membrane amylin receptor 1 signaling pathway cellular response to endogenous stimulus cellular response to chemical stimulus response to hormone response to endogenous stimulus response to chemical cellular response to hormone stimulus cellular response to stress DNA damage response response to stress cell chemotaxis chemotaxis response to external stimulus taxis cell migration cell motility locomotion carbohydrate transport oligosaccharide transport disaccharide transport maltose transport polysaccharide localization dextrin transport maltodextrin transmembrane transport polysaccharide transport response to disaccharide response to oxygen-containing compound detection of maltose stimulus detection of stimulus response to carbohydrate detection of chemical stimulus detection of disaccharide stimulus response to maltose detection of carbohydrate stimulus heart development animal organ development regulation of vascular associated smooth muscle cell proliferation cell population proliferation positive regulation of vascular associated smooth muscle cell proliferation regulation of smooth muscle cell proliferation positive regulation of cell population proliferation smooth muscle cell proliferation positive regulation of smooth muscle cell proliferation regulation of cell population proliferation muscle cell proliferation vascular associated smooth muscle cell proliferation cell surface receptor signaling pathway adrenomedullin receptor signaling pathway cellular response to oxygen-containing compound cellular response to sucrose stimulus cellular response to carbohydrate stimulus response to sucrose cellular response to disaccharide stimulus G protein-coupled receptor signaling pathway, coupled to cyclic nucleotide second messenger	protein-containing complex signaling receptor complex cell surface cellular anatomical structure cell periphery plasma membrane membrane plasma membrane protein complex membrane protein complex plasma membrane signaling receptor complex G protein-coupled receptor complex CGRP receptor complex calcitonin family receptor complex ATPase dependent transmembrane transport complex protein-containing complex signaling receptor complex cell surface cellular anatomical structure cell periphery plasma membrane membrane plasma membrane protein complex membrane protein complex plasma membrane signaling receptor complex G protein-coupled receptor complex CGRP receptor complex calcitonin family receptor complex ATPase dependent transmembrane transport complex transporter complex ATP-binding cassette (ABC) transporter complex transmembrane transporter complex ATP-binding cassette (ABC) transporter complex, substrate-binding subunit-containing maltose transport complex extracellular region periplasmic space outer membrane-bounded periplasmic space cell envelope intracellular anatomical structure cytoplasm G protein-coupled receptor dimeric complex adrenomedullin receptor complex membrane-bounded organelle intracellular organelle organelle lytic vacuole vacuole intracellular membrane-bounded organelle lysosome endosome intracellular vesicle endomembrane system cytoplasmic vesicle vesicle endoplasmic reticulum

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
E, F, G, H	IPR001710	Pro-adrenomedullin	Family
E, F, G, H	IPR051665	Adrenomedullin-regulatory peptide	Family
E, F, G, H	IPR021116	Calcitonin/adrenomedullin	Family
A, B, C, D	IPR038126	RAMP domain superfamily	Homologous Superfamily
A, B, C, D	IPR006985	Receptor activity modifying protein	Family
A, B, C, D	IPR006061	Solute-binding family 1, conserved site	Conserved Site
A, B, C, D	IPR006060	Maltose/Cyclodextrin ABC transporter, substrate-binding protein	Family
A, B, C, D	IPR006059	Bacterial-type extracellular solute-binding protein	Family
A, B, C, D	IPR017983	GPCR, family 2, secretin-like, conserved site	Conserved Site
A, B, C, D	IPR050332	G-protein coupled receptor 2	Family
A, B, C, D	IPR036445	GPCR family 2, extracellular hormone receptor domain superfamily	Homologous Superfamily
A, B, C, D	IPR000832	GPCR, family 2, secretin-like	Family
A, B, C, D	IPR017981	GPCR, family 2-like, 7TM	Domain
A, B, C, D	IPR001879	GPCR, family 2, extracellular hormone receptor domain	Domain
A, B, C, D	IPR003287	GPCR, family 2, calcitonin receptor family	Family
A, B, C, D	IPR003289	GPCR, family 2, calcitonin gene-related peptide, type 1 receptor	Family

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
E, F, G, H	Pharos: P35318	glomerulonephritis Hyperalgesia gastric ulcer hepatocellular carcinoma rheumatoid arthritis interstitial cystitis large cell medulloblastoma malignant ependymoma autism breast carcinoma myopathy colorectal cancer ductal breast carcinoma in situ pancreatic intraductal papillary-mucinous neoplasm gastric carcinoma glomerulonephritis Hyperalgesia gastric ulcer hepatocellular carcinoma rheumatoid arthritis interstitial cystitis large cell medulloblastoma malignant ependymoma autism breast carcinoma myopathy colorectal cancer ductal breast carcinoma in situ pancreatic intraductal papillary-mucinous neoplasm gastric carcinoma pituitary cancer glioblastoma schizophrenia invasive ductal breast carcinoma tuberculosis malignant glioma medulloblastoma breast fibroadenoma Crohn disease Emery-Dreifuss muscular dystrophy pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia plasma cell myeloma hypertensive disorder juvenile dermatomyositis ulcerative colitis lung cancer atypical teratoid rhabdoid tumor malignant pancreatic neoplasm bipolar disorder multiple sclerosis dermatomyositis gastric cancer phaeochromocytoma psoriasis
A, B, C, D	Pharos: Q16602	Liver Cirrhosis, Experimental migraine disorder atypical teratoid rhabdoid tumor large cell medulloblastoma malignant mesothelioma osteosarcoma pancreatic intraductal papillary-mucinous neoplasm primitive neuroectodermal tumor ulcerative colitis breast carcinoma medulloblastoma ovarian cancer pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia interstitial cystitis lung adenocarcinoma Liver Cirrhosis, Experimental migraine disorder atypical teratoid rhabdoid tumor large cell medulloblastoma malignant mesothelioma osteosarcoma pancreatic intraductal papillary-mucinous neoplasm primitive neuroectodermal tumor ulcerative colitis breast carcinoma medulloblastoma ovarian cancer pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia interstitial cystitis lung adenocarcinoma pancreatic intraductal papillary-mucinous carcinoma allergic contact dermatitis pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia Preventive treatment of episodic migraine in adults tuberculosis glioblastoma large cell medulloblastoma lung carcinoma medulloblastoma oligodendroglioma pancreatic intraductal papillary-mucinous carcinoma pilocytic astrocytoma primitive neuroectodermal tumor ulcerative colitis astrocytic tumor heart disease lung adenocarcinoma malignant ependymoma migraine disorder osteosarcoma pancreatic intraductal papillary-mucinous neoplasm psoriasis atypical teratoid rhabdoid tumor interstitial cystitis lung cancer malignant glioma non-small cell lung carcinoma ovarian cancer

Protein Modification Annotation

Modified Residue(s)
Chain	Residue(s)	Description
E, F, G, H	NH2	RESID: AA0081 , AA0083 , AA0084 , AA0086 , AA0087 , AA0088 , AA0090 , AA0091 , AA0092 , AA0093 , AA0095 , AA0096 , AA0097 , AA0098 , AA0099 , AA0100 PSI-MOD : L-alanine amide MOD:00090 , L-asparagine amide MOD:00092 , L-aspartic acid 1-amide MOD:00093 , L-glutamine amide MOD:00095 , L-glutamic acid 1-amide MOD:00096 , glycine amide MOD:00097 , L-isoleucine amide MOD:00099 , L-leucine amide MOD:00100 , L-lysine amide MOD:00101 , L-methionine amide MOD:00102 , L-proline amide MOD:00104 , L-serine amide MOD:00105 , L-threonine amide MOD:00106 , L-tryptophan amide MOD:00107 , L-tyrosine amide MOD:00108 , L-valine amide MOD:00109

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. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.