AMPDB_459 | RNA-splicing ligase RtcB homolog

PEPTIDE SUMMARY

RNA-splicing ligase RtcB homolog

1 General Description

AMPDB ID: AMPDB_459

Protein Names: RNA-splicing ligase RtcB homolog (EC 6.5.1.8) (3`-phosphate 5`-hydroxy nucleic acid ligase)

Protein Family: BPI LBP Plunc superfamily; BPI LBP family; RtcB family

Gene Name: RTCB

Source Organism: Oryctolagus cuniculus (Rabbit)

Protein Length: 936 AA

Protein Existence: Inferred from homology

2 Protein Sequence & Composition

2.1 Sequence

MYAKTIPVIWGCFFLWNLYSSSSQTIYPGIKARVTQRALDYGVQAGMEMIGQMLKERNIPDLQGSESLDFLKVDYVDYNFSNIKINAFSFPNTSLAFVPGVGIKALTNHGTANVSTNWAVKSPLFKDAGGANLFLSGVYFTGNIILNRNDFGQPLLKLEDCYAQVSHAHVSFFGQFSVLYNSFAEPMEKPILKNLNEMLCPIITGEVEALNVNLSTLEVLTKIDNYTLLDYSIIDSPEITENSLDVNFKGTFYPLENLVDPPFSPAPFVLPERSDSMLYIGISEYFFKSASFAYYTAGAFDVTFSTKEISNHLIQNSQGLGNVLSRIADIYILAQPFMVRIMATEPPIINLQPGNFSLDIPASIMMLTQPENSTMKTIVSMDFVASTSVGLVILGQRLICSLSLNRFRLSLPEPKRSKIEVLRFENILSSILHFGVLPLANAKLQQGFPLPNPYNISFVNSDIEVLQVEGVFYVNDALEKLMFEELRNACRGGGVGGFLPAMKQIGNVAALPGIVHRSIGLPDVHSGYGFAIGNMAAFDMNDPEAVVSPGGVGFDINCGVRLLRTNLDESDVQPVKEQLAQAMFDHIPVGVGSKGVIPMNAKDLEEALEMGVDWSLREGYAWAEDKEHCEEYGRMLQADPNKVSPRAKKRGLPQLGTLGAGNHYAEIQVVDEIFNEYAAKKMGIDHKGQVCVMIHSGSRGLGHQVATDALVAMEKAMKRDKIIVNDRQLACARIASVEGQDYLKGMAAAGNYAWVNRSSMTFLTRQAFAKVFNTTPDDLDLHVIYDVSHNIAKVEQHVVDGKERTLLVHRKGSTRAFPPHHPLIAVDYQLTGQPVLIGGTMGTCSYVLTGTEQGMTETFGTTCHGAGRALSRAKSRRNLDFQDVLDKLADMGIAIRVASPKLVMEESEVECFEGSLLSRPLRRVILPCRLLSPTRM

FASTA format

2.2 Composition

Counts of Amino Acids

'A': 70, 'R': 40, 'N': 51, 'D': 47, 'C': 13, 'Q': 34, 'E': 51, 'G': 73, 'H': 20, 'I': 59, 'L': 94, 'K': 42, 'M': 32, 'F': 47, 'P': 49, 'S': 66, 'T': 41, 'W': 6, 'Y': 29, 'V': 72

Frequencies of Amino Acids

'A': 7.48%, 'R': 4.27%, 'N': 5.45%, 'D': 5.02%, 'C': 1.39%, 'Q': 3.63%, 'E': 5.45%, 'G': 7.8%, 'H': 2.14%, 'I': 6.3%, 'L': 10.04%, 'K': 4.49%, 'M': 3.42%, 'F': 5.02%, 'P': 5.24%, 'S': 7.05%, 'T': 4.38%, 'W': 0.64%, 'Y': 3.1%, 'V': 7.69%

Missing Amino Acid(s)

No Amino Acid(s) are missing in this protein

Most Occurring Amino Acid(s)

Less Occurring Amino Acid(s)

Hydrophobic Amino Acid(s) Count

502

Hydrophilic Amino Acid(s) Count

434

Basic Amino Acid(s) Count

Acidic Amino Acid(s) Count

102

Modified Amino Acid(s) Count

Modified Amino Acid(s) Frequencies

Computed by biopython (version 1.79) & proteinAnalysis (version 1)

3 Physicochemical Properties

Sl. No.	Properties	Values	Reference
1.	Molecular Mass	103110 Da	Computed by ProtParam module (biopython 1.79)
2.	Aliphatic Index	93.536	Computed by ProtParam module (biopython 1.79)
3.	Instability Index (Half Life)	40.352	Computed by ProtParam module (biopython 1.79)
4.	Hydrophobicity (GRAVY)	-0.005	Computed by ProtParam module (biopython 1.79)
5.	Hydrophobic Moment	0.814	Computed by ProtParam module (biopython 1.79)
6.	Isoelectric Point	6.014	Computed by ProtParam module (biopython 1.79)
7.	Charge (at pH 7)	-14.915	Computed by ProtParam module (biopython 1.79)
8.	Secondary Structure Fraction	0.328, 0.255, 0.264 [Helix, Turn, Sheet]	Computed by ProtParam module (biopython 1.79)
9.	Aromaticity	0.088	Computed by ProtParam module (biopython 1.79)
10.	Molar Extinction Coefficient (cysteine\|cystine)	76210, 76960	Computed by ProtParam module (biopython 1.79)

4 Activity Details

4.1 Target Organism(s)

Gram Negative Bacteria

4.2 Antimicrobial Activity

Antibiotic, Antimicrobial, Anti-gram-negative

4.3 Enzymatic Activity

Ligase

4.4 Inhibitory Effect

Not found

4.5 Other Biological Activity

Cytotoxin, Non-hemolytic, Non-ribosomal

Activity data manually curated from Literature and UniProt

5 Database Cross-references

5.1 Literature Database

5.1.1 PubMed

Citation 1: Lindblad-Toh K, Garber M, Zuk O, et al. A high-resolution map of human evolutionary constraint using 29 mammals. Nature. 2011;478(7370):476-82. Published 2011 Oct 12. doi:10.1038/nature10530

PMID: 21993624

5.2 Protein Sequence Databases

UniProt: A0A5F9C548

5.3 3D Structure Databases

No PDB Ids found

AlphaFoldDB: A0A5F9C548

5.4 Nucleotide Sequence Databases

Sl. no.	Accession(s)	Access Link(s)
1.	AAGW02060970	GenBank \|\| EMBL
2.	AAGW02060971	GenBank \|\| EMBL

CCDS: Not found

RefSeq: Not found

5.5 Protein-Protein Interaction Databases

STRING: Not found

IntAct: Not found

MINT: Not found

DIP: Not found

BioGRID: Not found

5.6 Ligand Databases

BindingDB: Not found

DrugBank: Not found

ChEMBL: Not found

5.7 Family & Domain Databases

InterPro: IPR017943, IPR032942, IPR032950, IPR001124, IPR017942, IPR001233, IPR036025, IPR027513

PANTHER: PTHR10504, PTHR10504:SF17

PROSITE: PS01288

5.8 Genome Annotation Databases

Ensembl: ENSGT00940000155911

KEGG: Not found

5.9 Phylogenomic Databases

GeneTree: ENSGT00940000155911

5.10 Enzyme & Pathway Databases

BRENDA: Not found

BioCyc: Not found

5.11 Protein-RNA Interaction Databases

RNAct: Not found

Download