Basic Information
Accession number
GCA_000170115.1
Release date
2007-05-18
Organism
Streptococcus pneumoniae SP18-BS74
Species name
Streptococcus pneumoniae

Assembly level
Contig
Assembly name
ASM17011v1
Assembly submitter
Center for Genomic Sciences, Allegheny-Singer Research Institute
Assembly Type
haploid
Genome size
2.1 Mb
GC percent
39.5
Contig count
28

Collection date
-
Sample location
-
Host
-
Isolation source
-
Isolate type
-
Strain
SP18-BS74
Isolate
-
ARG List
ORF_ID Pass_Bitscore Best_Hit_Bitscore Best_Hit_ARO Best_Identities ARO Model_type SNPs_in_Best_Hit_ARO Other_SNPs Drug class Resistance mechanism AMR gene family Description
ABAE01000006.1_89 # 98596 # 99444 550.0 579.326 RlmA(II) 98.94 ARO:3001301 protein homolog model macrolide antibiotic; lincosamide antibiotic antibiotic target alteration non-erm 23S ribosomal RNA methyltransferase (G748) RlmA(II) is a methyltransferase found in Streptococcus pneumoniae and confers resistance to tylosin and mycinamicin. Specifically, this enzyme adds a methyl group to guanosine 748 (E. coli numbering) of 23S ribosomal RNA.
ABAE01000006.1_115 # 126175 # 127869 750.0 1130.16 patA 98.94 ARO:3000024 protein homolog model fluoroquinolone antibiotic antibiotic efflux ATP-binding cassette (ABC) antibiotic efflux pump PatA is an ABC transporter of Streptococcus pneumoniae that interacts with PatB to confer fluoroquinolone resistance.
ABAE01000006.1_117 # 128660 # 130426 750.0 1191.79 patB 99.32 ARO:3000025 protein homolog model fluoroquinolone antibiotic antibiotic efflux ATP-binding cassette (ABC) antibiotic efflux pump PatB is an ABC transporter of Streptococcus pneumoniae that interacts with PatA to confer fluoroquinolone resistance..
ABAE01000001.1_153 # 160813 # 161529 50.0 80.8777 vanY gene in vanM cluster 36.03 ARO:3002961 protein homolog model glycopeptide antibiotic antibiotic target alteration vanY; glycopeptide resistance gene cluster Also known as vanYM, is a vanY variant found in the vanM gene cluster.
VF List
Query_id %Identity E-value Related genes VF ID Virulence factor VFcategory VFcategoryID Characteristics Description Strain
ABAE01000019.1_10 69.697 0.0 tufA VF0460 EF-Tu Adherence VFC0001 (tufA) elongation factor Tu [EF-Tu (VF0460) - Adherence (VFC0001)] [Francisella tularensis subsp. tularensis SCHU S4] Francisella tularensis
ABAE01000018.1_53 86.328 2.63E-171 lytA VF0143 Autolysin Exoenzyme VFC0251 Surface protein: choline-binding proteins anchored to the cell surface by a non-covalent interaction of a repeat region at the C-terminal with the phosphorylcholine of the cell wall; Attachment of the enzyme to the choline of the S. pneumoniae cell wall teichoic acid is essential for the lytic activity of the enzyme; two other cell wall hydrolases, LytB and LytC have recently been described, but their roles in virulence have not been assessed. LytB plays a role in pneumococcal daughter cell separation. LytC has a lysozyme-like activity (lytA) autolysin (N-acetylmuramoyl-L-alanine amidase) [Autolysin (VF0143) - Exoenzyme (VFC0251)] [Streptococcus pneumoniae TIGR4] Streptococcus pneumoniae
ABAE01000016.1_27 97.838 0.0 pavB/pfbB VF0524 PavB Adherence VFC0001 (pavB/pfbB) cell wall surface anchor family protein, Plasminogen- and Fibronectin-binding protein B [PavB (VF0524) - Adherence (VFC0001)] [Streptococcus pneumoniae R6] Streptococcus pneumoniae
ABAE01000016.1_28 96.849 0.0 pavB/pfbB VF0524 PavB Adherence VFC0001 (pavB/pfbB) cell wall surface anchor family protein, Plasminogen- and Fibronectin-binding protein B [PavB (VF0524) - Adherence (VFC0001)] [Streptococcus pneumoniae R6] Streptococcus pneumoniae
ABAE01000015.1_1 71.429 1.98E-9 cbpA/pspC VF0150 CbpA/PspC Adherence VFC0001 Also known as PspC, SpsA, Hic (factor H-binding inhibitor of complement); surface protein: choline-binding protein (cbpA/pspC) choline binding protein A [CbpA/PspC (VF0150) - Adherence (VFC0001)] [Streptococcus pneumoniae TIGR4] Streptococcus pneumoniae
ABAE01000013.1_52 99.33 0.0 cbpD VF0143 Autolysin Exoenzyme VFC0251 Surface protein: choline-binding proteins anchored to the cell surface by a non-covalent interaction of a repeat region at the C-terminal with the phosphorylcholine of the cell wall; Attachment of the enzyme to the choline of the S. pneumoniae cell wall teichoic acid is essential for the lytic activity of the enzyme; two other cell wall hydrolases, LytB and LytC have recently been described, but their roles in virulence have not been assessed. LytB plays a role in pneumococcal daughter cell separation. LytC has a lysozyme-like activity (cbpD) choline binding protein D [Autolysin (VF0143) - Exoenzyme (VFC0251)] [Streptococcus pneumoniae TIGR4] Streptococcus pneumoniae
ABAE01000013.1_62 70.695 0.0 cbpA/pspC VF0150 CbpA/PspC Adherence VFC0001 Also known as PspC, SpsA, Hic (factor H-binding inhibitor of complement); surface protein: choline-binding protein (cbpA/pspC) choline binding protein A [CbpA/PspC (VF0150) - Adherence (VFC0001)] [Streptococcus pneumoniae TIGR4] Streptococcus pneumoniae
ABAE01000012.1_15 63.918 1.79E-92 clpP VF0074 ClpP Stress survival VFC0282 21.6 kDa protein belongs to a family of proteases highly conserved in prokaryotes and eukaryotes (clpP) ATP-dependent Clp protease proteolytic subunit [ClpP (VF0074) - Stress survival (VFC0282)] [Listeria monocytogenes EGD-e] Listeria monocytogenes
ABAE01000010.1_9 69.143 0.0 groEL VF0594 GroEL Adherence VFC0001 GroEL of numerous bacteria, such as L. pneumophila, H. pylori, H. ducreyi, M. avium, S. typhimurium, A. actinomycetemcomitans and B. burgdorferi, has been shown to be involved in adhesion or invasion of various target cells or tissues. (groEL) chaperonin GroEL [GroEL (VF0594) - Adherence (VFC0001)] [Clostridium difficile 630] Clostridium difficile
ABAE01000010.1_24 100.0 0.0 ply VF0149 Pneumolysin Exotoxin VFC0235 Shares amino acid homology with similar hemolysins such as SLO, LLO, but pneumolysin is a cytoplasmic protein rather than a secreted protein (ply) pneumolysin [Pneumolysin (VF0149) - Exotoxin (VFC0235)] [Streptococcus pneumoniae TIGR4] Streptococcus pneumoniae
ABAE01000010.1_36 99.686 0.0 lytA VF0143 Autolysin Exoenzyme VFC0251 Surface protein: choline-binding proteins anchored to the cell surface by a non-covalent interaction of a repeat region at the C-terminal with the phosphorylcholine of the cell wall; Attachment of the enzyme to the choline of the S. pneumoniae cell wall teichoic acid is essential for the lytic activity of the enzyme; two other cell wall hydrolases, LytB and LytC have recently been described, but their roles in virulence have not been assessed. LytB plays a role in pneumococcal daughter cell separation. LytC has a lysozyme-like activity (lytA) autolysin (N-acetylmuramoyl-L-alanine amidase) [Autolysin (VF0143) - Exoenzyme (VFC0251)] [Streptococcus pneumoniae TIGR4] Streptococcus pneumoniae
ABAE01000006.1_99 86.348 0.0 hasC VF0244 Hyaluronic acid capsule Immune modulation VFC0258 (hasC) UTP--glucose-1-phosphate uridylyltransferase HasC [Hyaluronic acid capsule (VF0244) - Immune modulation (VFC0258)] [Streptococcus pyogenes M1 GAS] Streptococcus pyogenes
ABAE01000005.1_56 99.353 0.0 psaA VF0151 PsaA Nutritional/Metabolic factor VFC0272 Surface protein: lipid-attached; AdcABC is another ABC transporter for Zn2+ uptake (psaA) manganese ABC transporter, manganese-binding adhesion liprotein [PsaA (VF0151) - Nutritional/Metabolic factor (VFC0272)] [Streptococcus pneumoniae TIGR4] Streptococcus pneumoniae
ABAE01000005.1_92 98.899 0.0 nanB VF0148 Neuraminidase Exoenzyme VFC0251 Surface protein: LPXTG-anchored; two forms of the pneumococcal neuraminidase enzymes, NanA and NanB. The activity of NanB is approximately 100 times lower than that of NanA. NanA but not NanB contains a LPXTG motif in C-terminal, the sequence similarity between the two enzymes is only 20%; maximum activity: NanA at ~pH5, NanB at ~pH7 (nanB) neuraminidase B [Neuraminidase (VF0148) - Exoenzyme (VFC0251)] [Streptococcus pneumoniae TIGR4] Streptococcus pneumoniae
ABAE01000005.1_95 98.795 1.13E-175 nanB VF0148 Neuraminidase Exoenzyme VFC0251 Surface protein: LPXTG-anchored; two forms of the pneumococcal neuraminidase enzymes, NanA and NanB. The activity of NanB is approximately 100 times lower than that of NanA. NanA but not NanB contains a LPXTG motif in C-terminal, the sequence similarity between the two enzymes is only 20%; maximum activity: NanA at ~pH5, NanB at ~pH7 (nanB) neuraminidase B [Neuraminidase (VF0148) - Exoenzyme (VFC0251)] [Streptococcus pneumoniae TIGR4] Streptococcus pneumoniae
ABAE01000004.1_65 99.859 0.0 pfbA VF0525 PfbA Adherence VFC0001 (pfbA) cell wall surface anchor family protein, Plasminogen- and Fibronectin-binding protein A [PfbA (VF0525) - Adherence (VFC0001)] [Streptococcus pneumoniae R6] Streptococcus pneumoniae
ABAE01000003.1_20 85.842 0.0 iga VF0147 IgA1 protease Immune modulation VFC0258 Two more zinc metalloproteinase ZmpB and ZmpC may also contribute to virulence (iga) G5 domain-containing protein [IgA1 protease (VF0147) - Immune modulation (VFC0258)] [Streptococcus pneumoniae TIGR4] Streptococcus pneumoniae
ABAE01000003.1_135 63.607 1.15E-138 lmb VF0275 Lmb Adherence VFC0001 Lmb is an extracellular protein that was first identified in S. agalactiae. Homologs of this protein were reported in S. pyogenes and S. pneumonia and termed Lbp and AdcAII, respectively (lmb) laminin-binding surface protein [Lmb (VF0275) - Adherence (VFC0001)] [Streptococcus agalactiae NEM316] Streptococcus agalactiae
ABAE01000003.1_168 99.274 0.0 pavA VF0283 PavA Adherence VFC0001 PavA was the first Fibronectin-binding protein identified in S. pneumoniae and shares about 70% sequence identity with the Fibronectin-binding proteins FBP54 of S. pyogenes and FbpA of S. gordonii (pavA) Fibronectin-binding protein-like protein A [PavA (VF0283) - Adherence (VFC0001)] [Streptococcus pneumoniae R6] Streptococcus pneumoniae
ABAE01000003.1_205 97.608 0.0 pce/cbpE VF0145 CBPs Adherence VFC0001 Surface protein: choline-binding (pce/cbpE) choline binding protein E [CBPs (VF0145) - Adherence (VFC0001)] [Streptococcus pneumoniae TIGR4] Streptococcus pneumoniae
ABAE01000002.1_190 98.536 0.0 hysA VF0146 Hyaluronidase Exoenzyme VFC0251 Surface protein: LPXTG-anchored proteins (hysA) hyaluronidase [Hyaluronidase (VF0146) - Exoenzyme (VFC0251)] [Streptococcus pneumoniae TIGR4] Streptococcus pneumoniae
ABAE01000002.1_193 98.969 0.0 hysA VF0146 Hyaluronidase Exoenzyme VFC0251 Surface protein: LPXTG-anchored proteins (hysA) hyaluronidase [Hyaluronidase (VF0146) - Exoenzyme (VFC0251)] [Streptococcus pneumoniae TIGR4] Streptococcus pneumoniae
ABAE01000002.1_224 93.347 0.0 cps4A VF0144 Capsule Immune modulation VFC0258 Ninety different capsule types have been identified. Each has a structurally distinct capsule, composed of repeating oligosaccharide units joined by glycosidic linkages (cps4A) capsular polysaccharide biosynthesis protein Cps4A [Capsule (VF0144) - Immune modulation (VFC0258)] [Streptococcus pneumoniae TIGR4] Streptococcus pneumoniae
ABAE01000002.1_225 94.239 7.26E-175 cps4B VF0144 Capsule Immune modulation VFC0258 Ninety different capsule types have been identified. Each has a structurally distinct capsule, composed of repeating oligosaccharide units joined by glycosidic linkages (cps4B) capsular polysaccharide biosynthesis protein Cps4B [Capsule (VF0144) - Immune modulation (VFC0258)] [Streptococcus pneumoniae TIGR4] Streptococcus pneumoniae
ABAE01000002.1_226 77.391 1.11E-130 cpsC VF0144 Capsule Immune modulation VFC0258 Ninety different capsule types have been identified. Each has a structurally distinct capsule, composed of repeating oligosaccharide units joined by glycosidic linkages (cpsC) capsular polysaccharide biosynthesis protein CpsC [Capsule (VF0144) - Immune modulation (VFC0258)] [Streptococcus pneumoniae TIGR4] Streptococcus pneumoniae
ABAE01000002.1_227 78.761 1.99E-134 cps4D VF0144 Capsule Immune modulation VFC0258 Ninety different capsule types have been identified. Each has a structurally distinct capsule, composed of repeating oligosaccharide units joined by glycosidic linkages (cps4D) capsular polysaccharide biosynthesis protein Cps4D [Capsule (VF0144) - Immune modulation (VFC0258)] [Streptococcus pneumoniae TIGR4] Streptococcus pneumoniae
ABAE01000002.1_235 64.828 2.73E-139 wbtL VF0542 LPS Immune modulation VFC0258 The structure of Francisella spp. lipid A is unique in that it is modified by various carbohydrates that greatly reduce TLR4 activation and allow for immune evasion (wbtL) glucose-1-phosphate thymidylyltransferase [LPS (VF0542) - Immune modulation (VFC0258)] [Francisella tularensis subsp. tularensis SCHU S4] Francisella tularensis
ABAE01000002.1_249 70.339 0.0 gndA VF0560 Capsule Immune modulation VFC0258 The Klebsiella polysaccharide capsule is produced through a Wzy-dependent process, for which the synthesis and export machinery are encoded in a single 10-30 kb region of the genome known as the K locus.; 78 distinct capsule phenotypes have been recognized by serological typing, but many isolates are serologically non-typable.; capsular serotypes vary substantially in the degree of serum resistance; K1, K2 and K5 are highly serum resistant and are associated with hypervirulent strains that differ from classical K. pneumoniae in that they commonly cause community-acquired disease. (gndA) NADP-dependent phosphogluconate dehydrogenase [Capsule (VF0560) - Immune modulation (VFC0258)] [Klebsiella pneumoniae subsp. pneumoniae NTUH-K2044] Klebsiella pneumoniae
ABAE01000002.1_262 98.387 3.52E-135 cbpG VF0145 CBPs Adherence VFC0001 Surface protein: choline-binding (cbpG) choline binding protein G [CBPs (VF0145) - Adherence (VFC0001)] [Streptococcus pneumoniae TIGR4] Streptococcus pneumoniae
ABAE01000002.1_263 92.784 5.77E-62 cbpG VF0145 CBPs Adherence VFC0001 Surface protein: choline-binding (cbpG) choline binding protein G [CBPs (VF0145) - Adherence (VFC0001)] [Streptococcus pneumoniae TIGR4] Streptococcus pneumoniae
ABAE01000001.1_6 83.108 0.0 rrgA VF0529 RlrA islet Adherence VFC0001 Pili are encoded by the rlrA pathogenicity islet, which carries genes for three pilin proteins (the major pilin RrgB and two minor pilins, RrgA and RrgC, RrgA is the tip adhesin) as well as three sortases (rrgA) cell wall surface anchor family protein, pilus tip adhesin RrgA [RlrA islet (VF0529) - Adherence (VFC0001)] [Streptococcus pneumoniae TIGR4] Streptococcus pneumoniae
ABAE01000001.1_8 99.746 0.0 rrgC VF0529 RlrA islet Adherence VFC0001 Pili are encoded by the rlrA pathogenicity islet, which carries genes for three pilin proteins (the major pilin RrgB and two minor pilins, RrgA and RrgC, RrgA is the tip adhesin) as well as three sortases (rrgC) cell wall surface anchor family protein, minor pili RrgC [RlrA islet (VF0529) - Adherence (VFC0001)] [Streptococcus pneumoniae TIGR4] Streptococcus pneumoniae
ABAE01000001.1_9 100.0 0.0 srtC-1/srtB VF0529 RlrA islet Adherence VFC0001 Pili are encoded by the rlrA pathogenicity islet, which carries genes for three pilin proteins (the major pilin RrgB and two minor pilins, RrgA and RrgC, RrgA is the tip adhesin) as well as three sortases (srtC-1/srtB) sortase [RlrA islet (VF0529) - Adherence (VFC0001)] [Streptococcus pneumoniae TIGR4] Streptococcus pneumoniae
ABAE01000001.1_10 95.27 0.0 srtC-2/srtC VF0529 RlrA islet Adherence VFC0001 Pili are encoded by the rlrA pathogenicity islet, which carries genes for three pilin proteins (the major pilin RrgB and two minor pilins, RrgA and RrgC, RrgA is the tip adhesin) as well as three sortases (srtC-2/srtC) sortase [RlrA islet (VF0529) - Adherence (VFC0001)] [Streptococcus pneumoniae TIGR4] Streptococcus pneumoniae
ABAE01000001.1_11 91.519 0.0 srtC-3/srtD VF0529 RlrA islet Adherence VFC0001 Pili are encoded by the rlrA pathogenicity islet, which carries genes for three pilin proteins (the major pilin RrgB and two minor pilins, RrgA and RrgC, RrgA is the tip adhesin) as well as three sortases (srtC-3/srtD) sortase [RlrA islet (VF0529) - Adherence (VFC0001)] [Streptococcus pneumoniae TIGR4] Streptococcus pneumoniae