Molecular characterization and computational structure prediction of activin receptor type IIB in aseel and broiler chicken.
ACTRIIB
Characterization
Contact map
Hydrogen bond plot
Ramachandran plot
Three dimensional structure
Journal
Research in veterinary science
ISSN: 1532-2661
Titre abrégé: Res Vet Sci
Pays: England
ID NLM: 0401300
Informations de publication
Date de publication:
Oct 2019
Oct 2019
Historique:
received:
30
04
2019
revised:
19
07
2019
accepted:
27
08
2019
pubmed:
7
9
2019
medline:
29
1
2020
entrez:
7
9
2019
Statut:
ppublish
Résumé
The present study was formulated to characterize and comprehend the molecular structural characteristics of ACTRIIB receptor in Aseel and control broiler (CB) populations. The full length coding sequence (1539 bp) of the receptor was amplified, cloned, sequenced and analyzed using bioinformatic tools. The physico chemical properties of protein and structural features like secondary structure, solvent accessibility and disorder regions were computed. The 3D structure was predicted by I-TASSER and evaluated by Ramachandran Plot and tools under Structural Analysis and Verification Server. The nucleotides differences between CB and Aseel were c. [156G > A; 210 T > C; 493C > T; c.520G > C; 665A > C; 686G > A; 937C > G; 1011A > C; 1130A > G; 1208 T > A; 1326 T > C; 1433 T > C]. The amino acid substitutions between CB and Aseel were p. [(Pro165Ser; Glu174Gln; Gln222Pro; Ser229Asn; His313Asp; Gln377Arg; Val403Asp; and Ile478Thr)]. While, the silent changes includes p. [(Lys53=; Glu71=; Leu337=; Asp442=)]. The molecular weight of mature protein was predicted to be 55.51 kDa and 57.80 kDa in Aseel and CB, respectively. The higher rank 3D model had a C-score of -1.60 in Aseel and - 1.41 in CB, while the estimated TM-score (0.54 ± 0.14) and RMSD (5.8 ± 1.2 Å) were found to be similar in Aseel and CB. Among the 512 residues, >90% were in favored region, 4.7% in allowed region and <1.5% in disallowed region in both Aseel and CB. The pattern of contact map was comparable in Aseel and CB. The Hydrogen bond plots of the Aseel and CB shared similar secondary structure pattern. The ACTRIIB protein was predicted to interact with ACVR1B, ACVR1C, INHBA, SMAD 1,2,5,7 & 9 and BMPR1A&B. Clustal and phylogenetic analysis implied that both the lines were closely related and formed a sub cluster with in avian cluster. The current research provides insights about structural and functional aspects of the receptor and also aids in understanding the evolutionary history of ACTRIIB.
Identifiants
pubmed: 31491670
pii: S0034-5288(19)30404-7
doi: 10.1016/j.rvsc.2019.08.025
pii:
doi:
Substances chimiques
Activin Receptors, Type II
EC 2.7.11.30
activin receptor type II-B
EC 2.7.11.30
Types de publication
Journal Article
Langues
eng
Sous-ensembles de citation
IM
Pagination
139-149Informations de copyright
Copyright © 2019 Elsevier Ltd. All rights reserved.