IMGT Repertoire (IG and TR)
3. 2D and 3D structures
Colliers de Perles
Make your own Collier de Perles with IMGT/Collier-de-Perles tool
V-REGION
- IGHV
- Mammalia: human (Homo sapiens), house mouse (Mus musculus), Arabian camel (Camelus dromedarius), llama (Lama glama), (Cricetinae gen. sp.), pig (Sus scrofa), domestic sheep (Ovis aries), Norway rat (Rattus norvegicus), European rabbit (Oryctolagus cuniculus)
- Sauropsida: common caiman (Caiman crocodilus)
- Amphibia: African clawed frog (Xenopus laevis)
- Teleostei: Japanese flounder (Paralichthys olivaceus), channel catfish (Ictalurus punctatus), Arctic char (Salvelinus alpinus), Atlantic cod (Gadus morhua), emerald rockcod (Pseudotrematomus bernacchii), goldfish (Carassius auratus), (Chaenocephalus aceratus), ladyfish (Elops saurus), Atlantic salmon (Salmo salar), tiger puffer (Takifugu rubripes), rainbow trout (Oncorhynchus mykiss), black rockcod (Notothenia coriiceps), leopard danio (Danio rerio), spotted wolffish (Anarhichas minor)
- Chondrichthyes: nurse shark (Ginglymostoma cirratum), bull shark (Carcharhinus leucas), clearnose skate (Raja eglanteria), horn shark (Heterodontus francisci), little skate (Leucoraja erinacea), Pacific ratfish (Hydrolagus colliei), sandbar shark (Carcharhinus plumbeus), spotted wobbegong (Orectolobus maculatus)
- Other: African lungfish (Protopterus aethiopicus)
- IGKV
- IGLV
- IGIV
- Teleostei: European sea bass (Dicentrarchus labrax), carp (Cyprinus carpio), channel catfish (Ictalurus punctatus), Atlantic cod (Gadus morhua), Atlantic salmon (Salmo salar), rainbow trout (Oncorhynchus mykiss), Japanese amberjack (Seriola quinqueradiata), leopard danio (Danio rerio), spotted wolffish (Anarhichas minor), Chautsi bass (Siniperca chuatsi)
- Chondrichthyes: horn shark (Heterodontus francisci), nurse shark (Ginglymostoma cirratum), Pacific ratfish (Hydrolagus colliei), sandbar shark (Carcharhinus plumbeus)
- TRAV
- TRBV
- Mammalia: human (Homo sapiens), house mouse (Mus musculus), domestic goat (Capra hircus), Ma's night monkey (Aotus nancymaae), dog (Canis lupus familiaris), Norway rat (Rattus norvegicus), Rhesus monkey (Macaca mulatta)
- Amphibia: African clawed frog (Xenopus laevis)
- Teleostei: rainbow trout (Oncorhynchus mykiss)
- TRGV
- TRDV
The Collier de Perles below have been generated manually (integration in IMGT/3Dstructure-DB in progress):
- TRBV
- Mammalia: Bovine (Bos taurus)
- TRGV
- Mammalia: Sheep (Ovis aries)
- TRDV
- Mammalia: Sheep (Ovis aries)
C-DOMAIN
- IGHC
- Mammalia: human (Homo sapiens), house mouse (Mus musculus), Arabian camel (Camelus dromedarius), (Cricetinae gen. sp.), Domestic guinea pig (Cavia porcellus), black rat (Rattus rattus), bovine (Bos taurus), chimpanzee (Pan troglodytes), dog (Canis lupus familiaris), common gibbon (Hylobates lar), gorilla (Gorilla gorilla), domestic horse (Equus caballus), crab eating macaque (Macaca fascicularis), gray short-tailed opossum (Monodelphis domestica), Bornean orangutan (Pongo pygmaeus), pig (Sus scrofa), common brush-tailed possum (Trichosurus vulpecula), European rabbit (Oryctolagus cuniculus), Norway rat (Rattus norvegicus), domestic sheep (Ovis aries)
- Teleostei: Japanese flounder (Paralichthys olivaceus), brown trout (Salmo trutta), carp (Cyprinus carpio), channel catfish (Ictalurus punctatus), Arctic char (Salvelinus alpinus), Atlantic cod (Gadus morhua), emerald rockcod (Pseudotrematomus bernacchii), Atlantic halibut (Hippoglossus hippoglossus), (Chaenocephalus aceratus), ladyfish (Elops saurus), Atlantic salmon (Salmo salar), rainbow trout (Oncorhynchus mykiss), black rockcod (Notothenia coriiceps), leopard danio (Danio rerio), spotted wolffish (Anarhichas minor)
- Chondrichthyes: clearnose skate (Raja eglanteria), horn shark (Heterodontus francisci), little skate (Leucoraja erinacea), nurse shark (Ginglymostoma cirratum), Pacific ratfish (Hydrolagus colliei), sandbar shark (Carcharhinus plumbeus)
- Other: African lungfish (Protopterus aethiopicus)
- IGKC
- Mammalia: human (Homo sapiens), house mouse (Mus musculus), Algerian mouse (Mus spretus), rock-loving mouse (Mus saxicola), Cook's mouse (Mus cookii), Gairdner's shrew-mouse (Mus pahari), Southern African pygmy mouse (Mus minutoides), Norway rat (Rattus norvegicus), European rabbit (Oryctolagus cuniculus)
- IGLC
- IGIC
- Teleostei: European sea bass (Dicentrarchus labrax), carp (Cyprinus carpio), channel catfish (Ictalurus punctatus), Atlantic cod (Gadus morhua), Atlantic salmon (Salmo salar), rainbow trout (Oncorhynchus mykiss), Japanese amberjack (Seriola quinqueradiata), leopard danio (Danio rerio), spotted wolffish (Anarhichas minor), Chautsi bass (Siniperca chuatsi), three spined stickleback (Gasterosteus aculeatus)
- IGHC duplicated genes (Collier de Perles generated manually):
- TRAC
- Mammalia: human (Homo sapiens), house mouse (Mus musculus), bovine (Bos taurus)
- Teleostei: tiger puffer (Takifugu rubripes)
- TRBC
- TRGC
- TRDC
V-DOMAIN (V-J-REGION and V-D-J-REGION)
- Examples of Colliers de Perles (link to IMGT/3Dstructure-DB):
For more V-DOMAINs, query "V-DOMAIN" in IMGT/3Dstructure-DB and click on "IMGT Collier de Perles" in the IMGT/3Dstructure-DB cards.
Colliers de Perles with hydrogen bonds
- IGHV-D-J: Mouse 231 (link to IMGT/3Dstructure-DB)
For more V-DOMAINs with hydrogen bonds, query "V-DOMAIN" in IMGT/3Dstructure-DB and click on "IMGT Collier de Perles" in the IMGT/3Dstructure-DB cards.
3D representations
V-DOMAIN
- IGHV-D-J: Mouse E5.2Fv (sideview)
- IGKV-J: Mouse E5.2Fv (sideview), D1.3Fv (sideview)
- IGLV-J: Mouse D1.3Fv (sideview)
- TRAV-J: Human A6 (sideview), B7 (sideview)
- TRBV-D-J: Human A6 (sideview), B7 (sideview)
- TRGV-J: Human G115 (sideview)
- TRDV-D-J: Human G115 (sideview)
C-DOMAIN
- IGKC: Human IgmRf2A2
FR-IMGT and CDR-IMGT lengths (V-REGION and V-DOMAIN)
FR-IMGT lengths for comparison of humanized antibodies
FR-IMGT and CDR-IMGT (V-REGION)
CDR1-IMGT (summary) and correspondence with "canonical structures"
CDR2-IMGT (summary) and correspondence with "canonical structures"
CDR3-IMGT (V-DOMAIN)
For IG and TR with known 3D structures, query IMGT/3Dstructure-DB.
CDR-IMGT 3D structures
CDR1-IMGT
- IGLV: Human
CDR2-IMGT
- IGLV: Human
Tables of identification (V-DOMAIN)
Strand and loop lengths (C-DOMAIN)
Examples of C-DOMAINs
Protein displays
- IG-Light C-DOMAINs: Human, Mouse, Teleostei
- TR C-DOMAINs: Human, Mouse
Strand and loop lengths
- IG-Light C-DOMAINs: Human, Mouse, Teleostei
Proteins with known 3D structures
Overview
- Immunoglobulin: Human
Identification and Colliers de Perles
Protein display V-DOMAIN
Classification by gene names
Classification by CDR-IMGT lengths
IG proteins updates from 09/05/2001 and TR proteins, are available in IMGT/3Dstructure-DB.
Last updated: Monday, 17-Oct-2011 17:58:31 CEST
Editor: Chantal Ginestoux
Contact: Marie-Paule Lefranc
Software material and data coming from IMGT server may be used for academic research only,
provided that it is referred to IMGT®, and cited as "IMGT®, the international ImMunoGeneTics
information system® http://www.imgt.org
(founder and director: Marie-Paule Lefranc, Montpellier, France)."
References to cite:
Lefranc, M.-P. et al.,
Nucleic Acids Research, 27, 209-212 (1999)
Cover of NAR;
Ruiz, M. et al.,
Nucleic Acids Research, 28, 219-221 (2000);
Lefranc, M.-P.,
Nucleic Acids Research, 29, 207-209 (2001);
Lefranc, M.-P.,
Nucleic Acids Res., 31, 307-310 (2003);
Lefranc, M.-P. et al.,
In Silico Biol., 5, 0006 (2004) [Epub],
5, 45-60 (2005);
Lefranc, M.-P. et al.,
Nucleic Acids Res., 33, D593-D597 (2005)
Full text;
Lefranc, M.-P. et al.,
Nucleic Acids Research 2009 37:
D1006-D1012; doi:10.1093/nar/gkn838
Full text.
For any other use please contact Marie-Paule Lefranc
Marie-Paule.Lefranc@igh.cnrs.fr.
IMGT founder and director: Marie-Paule Lefranc
Marie-Paule.Lefranc@igh.cnrs.fr
Bioinformatics manager: Véronique Giudicelli
Veronique.Giudicelli@igh.cnrs.fr
Computer manager: Patrice Duroux
Patrice.Duroux@igh.cnrs.fr
Webmaster: Chantal Ginestoux
Chantal.Ginestoux@igh.cnrs.fr
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