FUNCTIONAL GENOMICS OF MYCOBACTERIUM TUBERCULOSIS
HTML Full TextFUNCTIONAL GENOMICS OF MYCOBACTERIUM TUBERCULOSIS
Anitha Jabamalai Raj 1, Sangilimuthu Algar Yadav 2, Velliyur Kanniappan Gopalakrishnan 3, Akila Selvaraj 4 and Sudarsanam Dorairaj*5
Research and Development Centre, Bharathiar University 1, Coimbatore- 641 046, Tamilnadu, India
Department of Biotechnology, Karpagam University 2, Coimbatore- 641021, Tamilnadu, India
Department of Bioinformatics, Karpagam University 1, 3, 4, Coimbatore- 641021, Tamilnadu, India
Department of Advanced Zoology, Biotechnology and Bioinformatics Unit, Loyola College 5, Chennai- 600034, Tamil Nadu, India
ABSTRACT
Mycobacterium tuberculosis is a deadly infectious disease, there is rising death of humans every year because of this disease, availability of genome sequences of Mycobacterium tuberculosis has provided tremendous amount of information that can be useful in drug target and new vaccine development. Sequence similarity provides accurate annotation for genes in newly sequenced genomes. In this present work about 107 hypothetical proteins of Mycobacetrium tuberculosis were taken and its functions were predicted using bioinformatics tools BLAST, BLOCKS, COGs, InterProScan and PFP. From our analysis of 107 hypothetical proteins only two shows 100% functions these proteins may serve as target for few antibiotics
Keywords:
Mycobacterium tuberculosis, Hypothetical Proteins, Sequence Similarity, Bioinformatics tools, |
Drug target
INTRODUCTION: The proteomics of Mycobacterium tuberculosis was intensively studied to expand our knowledge base and identify proteins or enzymes that would serve as targets for few antibiotics, many number of proteins present without any function. Tuberculosis is a common and often deadly infectious disease caused by mycobacteria, mainly Mycobacterium tuberculosis 1.
Mycobacterium tuberculosis is reputed to have the highest annual global mortality among all of the pathogens. The rise in tuberculosis incidence over the last two decades is partly due to tuberculosis deaths in HIV-infected patients and partly due to the emergence of multidrug resistant strains of the bacteria 2. This rapid increase in the disease has led to potential finding arrangements aimed at a large effort towards stopping this disease before it becomes a global epidemic. Due to its slow growth and high virulence it is extremely difficult to work with the tuberculosis bacterium. However, rapidly evolving Mycobacterium genomics with complete genome sequences known along with powerful bioinformatics approaches. The proteomics of Mycobacterium tuberculosis will be intensively studied to expand our knowledge base and identify proteins or enzymes that would serve as targets for few antibiotics 3; Mycobacterium tuberculosis has totally 4189 number of proteins.
In these proteins 2038 hypothetical proteins were present out of the 107 hypothetical proteins were taken for this work and its functions was predicted using bioinformatics tools such as BLAST, BLOCKS, COGs 4, InterProScan 5 and PROTEIN FUNCTION PREDICTION (PFP) 6.
The main aim of this present work was to predict the function of selected hypothetical proteins.
MATERIALS AND METHODS: The complete genome for Mycobacterium tuberculosis was sequenced at the Institute of Genome Research (TIGR) and complete genome sequence of Mycobacterium tuberculosis was downloaded from ExPASY 7 databases and NCBI database 8. In the genome sequence of Mycobacterium tuberculosis 2038 hypothetical proteins were present. Out of that only 107 hypothetical proteins of genome sequence was downloaded from the site 9 the function for these hypothetical proteins were predicted using bioinformatics tools such as BLAST 10 (11), BLOCKS 11, COGs 12, InterProScan 13 and PROTEIN FUNCTION PREDICTION (PFP) 14 . The confidence level can be measured on the basis of above tools.
- 100% confidence level was given to those proteins that indicate same functions in all the given five tools.
- 80% confidence level was given to those proteins that indicate same functions in any of the given four tools other are different.
- 60% confidence level was given to those proteins that indicate same functions in any of the given three tools other two given different functions.
- 40% confidence level was given to those proteins that indicate same functions in any of the give two tools other three given different functions.
- 20% confidence level was given to those proteins that indicates some function in any of the given tools
- Moreover 0% confidence level was given to those proteins that indicate unknown functions in all the given tools.
RESULTS AND DISCUSSION: Mycobacterium tuberculosis has totally 4189 proteins. In this 2038 proteins are hypothetical proteins from which 107 hypothetical proteins of Mycobacterium tuberculosis were retrieved for this work from NCBI Database hypothetical proteins were submitted to bioinformatics tools BLAST, InterProScan, BLOCKS, PFP and COGs. The results of different tools were analyzed and the functions observed in each output were noted down and tabulated against the sequence ID.
Table 1 (Functions of Hypothetical Protein) shows functional genomics of Mycobacterium tuberculosis using Bioinformatics tools. Protein function can be predicted from sequence, including posttranslational modifications, subcellular localization, and physical/chemical properties 15. Function prediction of genomic sequences for hypothetical proteins of Mycobacterium tuberculosis will help in the identification of new drug targets.
TABLE 1: FUNCTIONAL GENOMICS OF MYCOBACTERIUM TUBERCULOSIS
GENE ID | PROTEIN ID | BLAST | INTERPRO | BLOCKS | PROTEIN FUNCTION PREDICTION | COG | CONFIDENCE
LEVEL |
15839425 | P71705 | FUNCTION UNPREDICTED | PROTEIN OF UNKOWN FUNCTION | PROTEIN OF UNKNOWN FUNCTION | HYDROLASE'S ACTIVITY | NO RELATED COG | 20% |
15839426 | P64677 | FUNCTION UNPREDICTED | NO HITS | ClpX C4-TYPE ZINC FINGER | DNA -BINDING | NO RELATED COG | 20% |
15839428 | Q7DAJ3 | FUNCTION UNPREDICTED | HEMOPEXIN | Na+/Pi-COTRANSPOTER | FAD -BINDING | NO RELATED COG | 20% |
15839434 | P64679 | FUNCTION UNPREDICTED | NO HITS | L6-MEMBRANE | CALICUM-TRANSPORTING ATPASE ACTIVITY | NO RELATED COG | 20% |
15839436 | O53604 | FUNCTION UNPREDICTED | NO HITS | RNA POLYMERASE | ACETATE-COA LIGASE ACTIVITY | NO RELATED COG | 20% |
15839437 | O53605 | APPR-1-P PROCESSING | APPR-1-P-PROCESSING | PROTEIN OF UNKNOWN FUNCTION | PROTEIN FUNCTION UNKNOWN | UN CHARACTERIZED ACR | 40% |
15839438 | Q8VKS4 | FUNCTION UNPREDICTED | UNINTEGRATED | DRF AUTOREGLUATOR | GTPASE ACTIVATOR ACTIVITY | NO RELATED COG | 20% |
15839439 | Q8VKS3 | FUNCTION UNPREDICTED | NO HITS | PROTEIN OF UNKONOWN FUNCTION | TUMOR NECROSIS FACTOR RECEPTOR BINDING | NO HITS | 20% |
15839442 | Q8VKS2 | FUNCTION UNPREDICTED | UNINTEGRATED | VACULOR ATPASE | PROTEIN FUNCTION UNKNOWN | NO RELATED COG | 20% |
15839443 | O53609 | FUNCTION UNPREDICTED | PROTEIN OF UNKOWN FUNCTION | PROTEIN OF UNKNOWN FUNCTION | PROTEIN FUNCTION UNKNOWN | UNCHARACTERIZED ACR | 0% |
15839444 | O53610 | FUNCTION UNPREDICTED | UNINTEGRATED | PiLT PROTEIN N-TERMINAL | OXIDO REDUCTASE ACTIVITY | NO RELATED COG | 20% |
15839455 | O53621 | FUNCTION UNPREDICTED | UNINTEGRATED | RETICULON | TRANSCRIPTION ACTIVATOR ACTIVITY | NO RELATED COG | 20% |
15839458 | Q8VKS0 | FUNCTION UNPREDICTED | NO HITS | PROTEIN OF UNKONOWN FUNCTION | VIRION BINDING | NO RELATED COG | 20% |
15839459 | Q8VKR9 | FUNCTION UNPREDICTED | UNINTEGRATED | PROTEIN OF UNKONOWN FUNCTION | ATP BINDING | NO RELATED COG | 20% |
15839460 | O53624 | RIBOSOME ASSOCIATED PROTEIN | NO HITS | PHENOL HYDROLASE'S | CHROMATIN BINDING | NO RELATED COG | 20% |
15839461 | Q7DAH5 | FUNCTION UNPREDICTED | FMN-BINDING SPLIT BARREL | PROTEIN OF UNKNOWN FUNCTION | TRIOSE PHOSPHATE ISOMERASE ACTIVITY | NO RELATED COG | 20% |
15839468 | P0A5C3 | DIMETHYLADENOSINE TRANSFERASE | UNINTEGRATED | STREPTOMYCES CYCLASE/DEHYDRASE | ZINC- ION BINDING | NO RELATED COG | 20% |
15839470 | P64683 | FUNCTION UNPREDICTED | UNINTEGRATED | PROTEIN OF UNKNOWN FUNCTION | OLIGOPEPTIDE TRANSPORTER ACTIVITY | UNCHARACTERIZED MEMBRANE PROTEIN | 20% |
15839471 | Q8VKR8 | FUNCTION UNPREDICTED | UNINTEGRATED | RIBOSOMAL PROTEIN | PROTEIN BINDING | NO RELATED COG | 20% |
15839474 | Q10890 | FUNCTION UNPREDICTED | UNINTEGRATED | GLUCONATE TRANSPORTER | SULFATE PORTER ACTIVITY | NO RELATED COG | 20% |
15839475 | Q8VKR7 | FUNCTION UNPREDICTED | HNH NUCLEASE | PROTEIN OF UNKNOWN FUNCTION | NUCLEIC ACID BINDING | NO RELATED COG | 20% |
15839478 | P64685 | FUNCTION UNPREDICTED | NO HITS | CYSTIC FIBROSIS TRANSMEMBRANE | ATP BINDING | NO RELATED COG | 20% |
15839482 | P64689 | PREDICTED MEMBRANE PROTEIN | UNINTEGRATED | NA+ DEPENDENT NUCLEOSIDE TRANSPORT | CALICUM-SODIUM ANTIPORTER ACTIVITY | NO RELATED COG | 20% |
15839486 | P64691 | FUNCTION UNPREDICTED | COBALAMIN (VITAMIN B12) BIOSYNTHESIS COBW, C-TERMINAL | COBALAMINE SYNTHESIS | DNA DIRECTED RNA POLYMERASE | PUTATIVE GTPASE | 40% |
15839489 | Q7DAG8 | FUNCTION UNPREDICTED | NO HITS | PROTEIN OF UNKNOWN FUNCTION | PROTEIN TYROSINE KINASE | NO RELATED COG | 20% |
15839781 | P95206 | FUNCTION UNPREDICTED | UNINTEGRATED | SAPOSIN TYPE A | PHOSPHOTRANSFERASE ACTIVITY | NO RELATED COG | 20% |
15839784 | P95210 | FUNCTION UNPREDICTED | UNINTEGRATED | PROTEIN OF UNKNOWN FUNCTION | G-PROTEIN COUPLED RECEPTOR ACTIVITY | NO RELATED COG | 20% |
15839788 | P0A5K0 | FUNCTION UNPREDICTED | MEMBRANE PROTEIN | MYCOBACTERIUM MEMBRANE | ATPASE ACTIVITY | NO RELATED COG | 40% |
15839789 | Q8VKL6 | FUNCTION UNPREDICTED | NO HITS | PROTEIN OF UNKNOWN FUNCTION | PROTEIN UNKNOWN FUNCTION | NO HITS | 0% |
15839798 | Q7D9V2 | FUNCTION UNPREDICTED | UNINTEGRATED | BACTERIAL CONJUGATION Trbl-LIKE PROTEIN | MOTOR ACTIVITY | NO RELATED COG | 20% |
15839804 | Q8VKL5 | FUNCTION UNPREDICTED | UNINTEGRATED | MoeZ/MoeB | LIGASE ACTIVITY | NO RELATED COG | 20% |
15839806 | P96265 | LIPOPROTEIN PEPTIDASE | METALLOPEPTIDASE | L-SERYL-tRNA SELENIUM TRANSFERASE | NEUROTENSIN RECEPTOR ACTIVITY | PREDICTED METALLOPROTEASE | 20% |
15839807 | P96266 | FUNCTION UNPREDICTED | UNINTEGRATED | ALPHA-L-ARABINOFURONSIDASE B | ZINC- ION BINDING | NO RELATED COG | 40% |
15839808 | P96267 | FUNCTION UNPREDICTED | ESTERASE/LIPASE/THIOESTREASE | 2-NITROPROPANE DIOXYGENASE, NPD | PROTEIN BINDING | PREDICTED HYDROLASE'S | 20% |
15839811 | Q8VKL4 | FUNCTION UNPREDICTED | NO HITS | RIBOSOMAL PROTEIN S5 | FUNCTION UNKNOWN | NO RELATED COG | 20% |
15839813 | Q8VKL3 | FUNCTION UNPREDICTED | UNINTEGRATED | HERPESVIRUS | ATP BINDING | NO RELATED COG | 20% |
15839815 | Q7D9U2 | FUNCTION UNPREDICTED | UNINTEGRATED | G2 NIDOGEN AND FIBULIN G2F | EXTRACELLULAR MATRIX CONFERRING ELASTICITY | NO RELATED COG | 20% |
15839817 | Q7D9U1 | FUNCTION UNPREDICTED | HELIX -TURN- HELIX FIS TYPE | GOLGI PHOSPHOPROTEIN | ARGININE -Trna LIGASE | NO RELATED COG | 20% |
15839820 | P64693 | CARBOXYLATE AMINE LIGASE | GULUTAMATE CYSTEINE LIGASE | GLUTAMATE-CYSTEINE LIGASE ACTIVITY | GLUTAMATE-CYSEINE LIGASE ACTIVITY | UNCHARACTERIZED BCR | 20% |
15839821 | Q7D9T9 | PEPTIDASE | PEPTIDASE | ELK POTASSIUM CHANNEL | ATP BINDING | LON PROTEASE | 60% |
15839822 | Q8VKL2 | FUNCTION UNPREDICTED | UNINTEGRATED | PROTEIN OF UNKNOWN FUNCTION | PROTEIN FUNCTION UNKNOWN | NO HITS | 40% |
15839831 | Q7D9T5 | FUNCTION UNPREDICTED | UNINTEGRATED | RIBOSOMAL PROTEIN L25 | ISOMERASE ACTIVITY | NO RELATED COG | 20% |
15839832 | O53729 | FUNCTION UNPREDICTED | UNINTEGRATED | 3-OXO-5-ALPHA-STEROID 4-DEHYDROGENASE | SPERMIDINE SYNTHASE ACTIVITY | NO RELATED COG | 20% |
15839834 | Q7D9T2 | TRANSMEMBRANE PROTEIN | 3-OXO5-ALPHA DEHYDROGENASE | LYSINE EXPORTER PROTEIN | S-ISOPRENYLCYSTEINE O-METYL TRANSFERASE | NO RELATED COG | 20% |
15839836 | Q7D9T0 | PERIDCTED NAD/FAD BINDING PROTEIN | PROTEIN OF UNKOWN FUNCTION | PROTEIN OF UNKONOWN FUNCTION | ENDONUCLEASE ACTIVITY | UNCAHARACTERIZED ACR | 20% |
15839837 | O53734 | PREDICTED NAD/FAD BINDING PROTEIN | MONOMETHYLAMINE METHYL TRNASFERASE | ADRENODOXIN REDUCTASE FAMILY | OXIDO REDUCTASE ACTIVITY | PREDICTED NAD/FAD BINDING PROTEIN | 40% |
15839839 | P0A5K2 | FUNCTION UNPREDICTED | MYCOBACTERIUM MEMBRANE | MYCOBACTERIUM MEMBRANE | OXIDO REDUCTASE ACTIVITY | NO RELATED COG | 40% |
15839840 | Q7D9S8 | MONOMETHYLAMINE TRANSFERASE | BACTERIAL REGULATORY PROTEIN Ter | BACTERIAL REGULATOR PROTEIN TetR, | TRANSCRIPTION FACTOR ACTIVITY | TRANSCRIPTIONL REGULATORY | 60% |
15839842 | Q8VKL1 | FUNCTION UNPREDICTED | NO HITS | PURINE AND PHOSPHORYLASE | PROTEIN FUNCTION UNKNOWN | NO RELATED COG | 20% |
15839843 | Q7D9S6 | FUNCTION UNPREDICTED | UNINTEGRATED | FLAGIN HOOK IN | HYDROLASE'S ACTIVITY | NO RELATED COG | 20% |
15839845 | Q8VKL0 | FUNCTION UNPREDICTED | UNINTEGRATED | AROMATIC AMINO ACID PERMEASE | PROTEIN TYROSINE PHOSPHOTASE ACTIVITY | NO RELATED COG | 20% |
15839848 | O53744 | FUNCTION UNPREDICTED | PROTEIN OF UNKOWN FUNCTION | PROTEIN OF UNKNOWN FUNCTION | ENDOPEPTIDASE INHIBITOR ACTIVITY | UNCAHARACTERIZED ACR | 20% |
15839849 | Q7D9S2 | FUNCTION UNPREDICTED | UNINTEGRATED | SUGAR TRANSPORTER SIGNATURE | SODIUM SYMPORTER ACTIVITY | NO RELATED COG | 20% |
15839850 | Q7D9S1 | FUNCTION UNPREDICTED | UNINTEGRATED | NADH-UBIQUINONE OXIDOREDUCTASE | MALATE SYNTHASE ACTIVITY | NO RELATED COG | 20% |
15839852 | O53748 | FUNCTION UNPREDICTED | UNINTEGRATED | MIP FAMILY | PRENYL TRANSFERASE ACTIVITY | NO RELATED COG | 20% |
15839853 | O53749 | FUNCTION UNPREDICTED | CARBOXYMUCONOLACTONE DECARBOXYLASE | CARBOXYMUCONOLACTONE DECARBOXYLASE | AMINO PEPTIDASE ACTIVITY | UNCAHARACTERIZED ACR | 40% |
15839855 | O53751 | ACYL THIOESTERASE | ACYL ACP THIOESTERASE | FUNCTION UNKNOWN | ACYL CARRIER ACTIVITY | PREDICTED THIOESTERASE | 80% |
15839859 | Q8VKK9 | FUNCTION UNPREDICTED | 1,4-DIHYDROXY 2NAPHTHOATEOCTOPRENYL TRANSFERASE | 6-PHOSPHOGULCONATE DEHYDROGENASE | TRANSFERASE ACTIVITY | 1, 4DIHYDROXY2-NAPHTHOATE OCTOPRENYLTRANSFERASE | 40% |
15839860 | O53756 | FUNCTION UNPREDICTED | TRANSMEMBRANE REGION | TatD DEOXYRIBONUCLEASE | NEUROTENSIN RECEPTOR ACTIVITY | NO RELATED COG | 20% |
15839862 | Q7D9R2 | CONSERVED TRANSMEMBRANE | PROTEIN OF UNKOWN FUNCTION | CLASS I CYTOCHROME C | RNA POLYMERASE ACTIVITY | UNCHARACTERIZED MEMBRANE PROTEIN | 20% |
15839864 | Q8VKK8 | FUNCTION UNPREDICTED | NO HITS | ANTISTASIN | BINDING | NO HITS | 20% |
15839865 | P0A5P6 | FUNCTION UNPREDICTED | GTP BINDING SIGNAL RECOGNITION SRP54 | ACID SHOCK | ACETYL-COA CARBOXYLASE ACTIVITY | NO RELATED COG | 20% |
15839866 | Q8VKK7 | FUNCTION UNPREDICTED | NO HITS | FUNCTION UNKNOWN | NUCLEIC ACID BINDING | NO HITS | 20% |
15839867 | P64697 | FUNCTION UNPREDICTED | TRANSMEMBRANE REGION | BACTERIAL CONJUGATION TrbI-LIKE PRO | METHYL TRANSFERASE ACTIVITY | NO RELATED COG | 20% |
15839869 | P64699 | FUNCTION UNPREDICTED | TRANSMEMBRANE REGION | CATION DEPENDENT MANNOSE 6-PHOSPHATE | PROTEIN FUNCTION UNKNOWN | NO RELATED COG | 20% |
15839871 | P64701 | FUNCTION UNPREDICTED | NO HITS | DNA-DIRECTED DNA POLYMERASE | RNA POLYMERASE ACTIVITY | NO RELATED COG | 40% |
15839873 | P64703 | ErfK/YbiS/YcfS/YnhG | ErfK/YbiS/YcfS/YnhG | ErfK/YbiS/YcfS/YnhG | PROTEIN FUNCTION UNKNOWN | NO RELATED COG | 60% |
15839877 | P64709 | FUNCTION UNPREDICTED | NO HITS | RIBOSOMAL PROTEIN L5 SIGNATURE | PROTEIN FUNCTION UNKNOWN | NO RELATED COG | 20% |
15839878 | Q8VKK6 | FUNCTION UNPREDICTED | NO HITS | FUNCTION UNKNOWN | PROTEIN FUNCTION UNKNOWN | NO HITS | 20% |
15839884 | Q11157 | FUNCTION UNPREDICTED | NO HITS | ANTRAX RECEPTOR C-TERMINAL | FERRIC IRON BINDING | NO RELATED COG | 20% |
15839885 | Q11158 | FUNCTION UNPREDICTED | NO HITS | GALACTOSE-3-O-SULFOTRANSFERASE | PROEIN FUNCTION UNKNOWN | NO RELATED COG | 20% |
15839887 | P64713 | FUNCTION UNPREDICTED | SIGNAL PEPTIDE | KINESIN ASSOCIATED | NUTRIENT RESERVOIR ACTIVITY | NO RELATED COG | 20% |
15839888 | P65786 | EXOPOLYPHOSPHATASE | PPX/GPPA PHOSPHATASE | PPX/GPPA PHOSPHOTASE | HYDROLASE'S ACTIVITTY | EXOPOLYPHOSPHATASE | 80% |
15839889 | P64715 | FUNCTION UNPREDICTED | UNINTEGRATED | FUNCTION UNKNOWN | HYDROGEN TRANSPORTING ATPASE | NO RELATED COG | 20% |
15839890 | P64717 | SUGAR PHOSPHATASE ISOMERASE | XYLOSE ISOMERASE LIKE TIM BARREL | RETROVIRAL M-DOMAIN | FLAP ENDONUCLEASE | SUGAR PHOSPHATE ISOMERASE/EPIMERASE | 60% |
15839897 | Q8VKK4 | FUNCTION UNPREDICTED | NO HITS | FUNCTION UNKNOWN | ATP BINDING | NO RELATED COG | 20% |
15839899 | P65376 | CONSERVED MEMBRANE PROTEIN | MYCOBACTERIUM MEMBRANE | MYCOBACTERIUM MEMBRANE | CARBOXY-LYASE ACTIVITY | NO RELATED COG | 60% |
15839901 | P64727 | FUNCTION UNPREDICTED | GLUTAREDOXIN | FUNCTION UNKNOWN | PROTEIN FUNCTION UNKNOWN | THIODISULPHATE ISOMERASE AND THIOREDOXINS | 20% |
15839906 | Q8VKS4 | MONOMETHYLAMINE TRANSFERASE | UNINTEGRATED | ATPASE ACTIVITY | HYDROLASE'S ACTIVITTY | NO RELATED COG | 20% |
15839907 | O33359 | FUNCTION UNPREDICTED | UNINTEGRATED | FUNCTION UNKNOWN | PROTEIN FUNCTION UNKNOWN | NO RELATED COG | 0% |
15839908 | Q7D9Q7 | FUNCTION UNPREDICTED | HNH ENDONUCLEASE | ANTI-SIGMA FACTOR ANTAGONIST | NUCLEIC ACID BINDING | NO RELATED COG | 20% |
15839909 | Q7D9Q6 | FUNCTION UNPREDICTED | SULFATE TRANSPORTER ANTAGONIST | LIPOLYTIC ENZYME | OXALATE TRANSPORTER ACTIVITY | ANTI-ANTI SIGMA FACTOR | 20% |
15839911 | O33363 | LIPOLYTIC ENZYME | LIPOLYTIC ENZYME | LIPOLYTIC ENZYME | ATP BINDING | MOLECULAR CHAPERON | 60% |
15839912 | Q8VKK3 | FUNCTION UNPREDICTED | UNINTEGRATED | FUNCTION UNKNOWN | ACETYL COA CARBOXYLASE ACTIVITY | NO HITS | 20% |
15839913 | O33364 | FUNCTION UNPREDICTED | ESTERASE/LIPASE/THIOESTREASE | ESTERASE | CATALYTIC ACTIVITY | NO RELATED COG | 40% |
15839915 | Q8VKK2 | FUNCTION UNPREDICTED | S-ADENOSINE L-METHINONE DEPENDENTMETYL TRANSFERASE | DEOXYNUCLEOSIDE KINASE | ATP BINDING | NO HITS | 20% |
15839917 | Q7D9Q1 | FUNCTION UNPREDICTED | MYCOBACTERIUM TUBERCULOSIS PARALOGUS FAMILY | FUNCTION UNKNOWN | HYDROLASE'S ACTIVITY | NO RELATED COG | 20% |
15839920 | O06392 | THIODISULPHATE ISOMERASE | THIOREDOXIN RELATED | THIOREDOXIN | PROTEIN FUNCTION UNKNOWN | THIO DISULPHATE ISOMERASE AND THIOREDOXINS | 80% |
15839922 | Q7D9P8 | FUNCTION UNPREDICTED | ReSB LIKE | ReSB LIKE | DNA BINDING | ReS PROTEIN REQUIRED FOR CYTOCHROME BIOSYNTHESIS | 60% |
15839924 | Q8VKJ9 | FUNCTION UNPREDICTED | UNINTEGRATED | CABYORINIC ACID a,c-DIAMIDE SYNTHASE | ATP BINDING | ATPASE INVOLVED IN CHROMOSOME PARTIONING | 20% |
15839925 | Q8VKJ8 | FUNCTION UNPREDICTED | UNINTEGRATED | AFLATOXIN BIOSYNTHESIS REGULATORY PROTEIN | ATP BINDING | NO HITS | 20% |
15839927 | Q8VKJ7 | FUNCTION UNPREDICTED | UNINTEGRATED | FUNCTION UNKNOWN | CYSTEINE TYPE PEPTIDASE ACTIVITY | NO RELATED COG | 20% |
15839933 | O06403 | FUNCTION UNPREDICTED | UNINTEGRATED | ADENYLATE CYCLASE | FATTY ACID COA LIGASE ACTIVITY | NO RELATED COG | 20% |
15839934 | Q7D9P2 | FUNCTION UNPREDICTED | UNINTEGRATED | EXTENSIN PROTEIN LIKE | PROTEIN BINDING | NO RELATED COG | 20% |
15839936 | Q8VKJ5 | FUNCTION UNPREDICTED | UNINTEGRATED | 3-HYDROXYCOA CARBOXYL DEHYDROGENASE | SODIUM IODIDE SYMPORTER ACTIVITY | UNCHARACTERIZED BCR | 20% |
15839937 | Q8VKJ4 | FUNCTION UNPREDICTED | UNINTEGRATED | CARBON STARVATION PROTEIN CstA | DNA HELICASE ACTIVITY | NO RELATED COG | 20% |
15839939 | Q8VKJ3 | FUNCTION UNPREDICTED | NO HITS | FUNGAL CHITIN SYNTHASE | 1,4 BETA MANNOSIDASE ACTIVITY
|
NO RELATED COG | 20% |
15839940 | O06410 | FUNCTION UNPREDICTED | UNINTEGRATED | NADH-UBIQUINONE OXIDOREDUCTASE | HEME TRANSPORTER ACTIVITY | NO RELATED COG | 20% |
15839942 | O06412 | FUNCTION UNPREDICTED | GLYOXALASE | GLYOXALASE | LACTOYL GLUTATHIONE LYASE | LACTOYLGLUTATHIONE LYASE | 40% |
15839945 | Q8VKJ2 | FUNCTION UNPREDICTED | NO HITS | FUNCTION UNKNOWN | PROTEIN FUNCTION UNKNOWN | NO RELATED COG | 0% |
15839946 | O06415 | PREDICTED NUCLEIC ACID BINDIIG PROTEIN | Pil T PROTEIN N-TERMINAL | FUNCTION UNKNOWN | PROTEIN BINDING | NO RELATED COG | 40% |
15839947 | O06416 | FUNCTION UNPREDICTED | RIBBON HELIX-HELIX | OCTOPAMINE RECEPTOR SIGNATURE | ATP BINDING | NO RELATED COG | 20% |
15839948 | Q8VKJ1 | FUNCTION UNPREDICTED | UNINTEGRATED | PENCILLIN BINDING PROTEIN TRANSPE | KINASE ACTIVITY | NO RELATED COG | 20% |
15839950 | Q7D9N3 | AMINO HYDROLASE'S | METALLO DEPENDENT HYDROLASE'S | AMINOHYDROLASE | HYDROLASE'S ACTIVITTY | PERDICTED METAL DEPENDED HYDROLASE'S | 100% |
15839954 | Q7D9N0 | FUNCTION UNPREDICTED | UNINTEGRATED | FecCD TRANSPORT FAMILY | MONOOXYGENASE | NO RELATED COG | 20% |
15839957 | O06425 | FUNCTION UNPREDICTED | UNINTEGRATED | Skb1 METHYLTRANSFERASE | PROTEIN BINDING | NO RELATED COG | 20% |
15839958 | O06426 | SAM DEPENDENT METHYL TRANSFERASE | SAM METHYL TRANSFERASE BINDING MOTIF | THIOPURINE S-METHYLTRANSFERASE | SAM METHYL TRANSFERASE | SAM METHYL DEPENDENT TRANSFERASE | 100% |
The results obtained was 100% confidence level for 2 proteins, with 80% confidence level for 4 proteins and some hypothetical proteins has not been predicted with much confidence level (i.e., Confidence level 60.0%; 40.0%; 20.0% and unknown function). All 107 hypothetical proteins were tabulated against their functions; only two proteins [GENE ID: 15839950 & 15839958] shows 100% results in future these two proteins are taken for modeling which may servers as target for drug designing.
Thus, by this functional genomics approach, the functions of hypothetical proteins of Mycobacterium tuberculosis were delineated and their target is identified which paved a way for curing this dreadful disease through docking approach.
CONCLUSION: The function of hypothetical proteins of Mycobacterium tuberculosis is predicted using Bioinformatics tools BLAST, BLOCKS, COGs, InterProScan, PROTFUN and PFP (Table 2).
TABLE 2: PERCENTAGE OF SIMILARITY
S. No. | Number of proteins in 100 % | Number of proteins in 80 % | Number of proteins in 60 % | Number of proteins in 40 % | Number of proteins in 20 % | Number of proteins in 0% |
1 | 2 | 3 | 7 | 13 | 78 | 4 |
Among 107 hypothetical proteins, only two proteins show 100% confidence level in all the mentioned tools. Three proteins were found to have the same function in any of the four tools. Seven Proteins were found to have the same function in any of the three tools. Thirteen Proteins were found to have the same function in any of the two tools. Seventy eight Proteins were found to have the some function in any of the tools. Three Proteins were found to have no functions. Two proteins those obtained same function such as METHYL TRANSFERASE and HYDROLASE’S. Further these two proteins may serves as target for few antibiotics, which helps in curing this dreadful disease.
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Article Information
32
1793-1798
681
1085
English
Ijpsr
Anitha Jabamalai Raj , Sangilimuthu Algar Yadav , Velliyur Kanniappan Gopalakrishnan , Akila Selvaraj and Sudarsanam Dorairaj*
Department Advanced Zoology and Biotechnology, Medical lab Technology & Biomedical Instrumentation ScienceLoyola College, Chennai-600034, India
11 April, 2011
14 May, 2011
26 June, 2011
http://dx.doi.org/10.13040/IJPSR.0975-8232.2(7).1793-98
01 July, 2011