Basic Information
Accession number
GCA_000006785.2
Release date
2014-04-01
Organism
Streptococcus pyogenes M1 GAS
Species name
Streptococcus pyogenes

Assembly level
Complete Genome
Assembly name
ASM678v2
Assembly submitter
Center for Molecular and Translational Human Infectious Diseases Research, Department of Pathology and Genomic Medicine, Houston Methodist Research Institute
Assembly Type
haploid
Genome size
1.9 Mb
GC percent
38.5
Contig count
1

Collection date
-
Sample location
-
Host
-
Isolation source
-
Isolate type
-
Strain
SF370
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
AE004092.2_187 # 200351 # 202057 750.0 771.155 patA 65.78 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.
AE004092.2_188 # 202060 # 203844 750.0 832.787 patB 66.95 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..
AE004092.2_1425 # 1461644 # 1462387 50.0 101.679 vanY gene in vanB cluster 35.36 ARO:3002956 protein homolog model glycopeptide antibiotic antibiotic target alteration vanY; glycopeptide resistance gene cluster Also known as vanYB, is a vanY variant found in the vanB gene cluster.
AE004092.2_1696 # 1770141 # 1771361 800.0 806.594 lmrP 98.77 ARO:3003969 protein homolog model macrolide antibiotic; lincosamide antibiotic; streptogramin antibiotic; tetracycline antibiotic antibiotic efflux major facilitator superfamily (MFS) antibiotic efflux pump lmrP is a proton motive force-dependent drug transporter that is part of the MFS efflux pump family.
VF List
Query_id %Identity E-value Related genes VF ID Virulence factor VFcategory VFcategoryID Characteristics Description Strain
AE004092.2_104 100.0 3.31E-136 lepA VF0531 GAS pili Adherence VFC0001 The GAS pili are encoded in the variable FCT (fibronectin- and collagen-binding T-antigen) region. (lepA) signal peptidase I [GAS pili (VF0531) - Adherence (VFC0001)] [Streptococcus pyogenes MGAS5005] Streptococcus pyogenes
AE004092.2_105 100.0 0.0 fctA VF0531 GAS pili Adherence VFC0001 The GAS pili are encoded in the variable FCT (fibronectin- and collagen-binding T-antigen) region. (fctA) major pilin FctA [GAS pili (VF0531) - Adherence (VFC0001)] [Streptococcus pyogenes MGAS5005] Streptococcus pyogenes
AE004092.2_106 100.0 9.47E-179 srtC1 VF0531 GAS pili Adherence VFC0001 The GAS pili are encoded in the variable FCT (fibronectin- and collagen-binding T-antigen) region. (srtC1) sortase [GAS pili (VF0531) - Adherence (VFC0001)] [Streptococcus pyogenes MGAS5005] Streptococcus pyogenes
AE004092.2_107 100.0 1.47E-158 fctB VF0531 GAS pili Adherence VFC0001 The GAS pili are encoded in the variable FCT (fibronectin- and collagen-binding T-antigen) region. (fctB) minor pilin FctB [GAS pili (VF0531) - Adherence (VFC0001)] [Streptococcus pyogenes MGAS5005] Streptococcus pyogenes
AE004092.2_138 100.0 0.0 slo VF0250 SLO Exotoxin VFC0235 A member of the cholesterol-dependent cytolysin family, related to pneumolysin from S. pneumoniae (slo) streptolysin O precursor [SLO (VF0250) - Exotoxin (VFC0235)] [Streptococcus pyogenes M1 GAS] Streptococcus pyogenes
AE004092.2_175 100.0 1.88E-174 speG VF0248 Spes Exotoxin VFC0235 Two prototypical streptococcal superantigens, SpeA and SpeC are both encoded on functional phage (speG) streptococcal exotoxin G precursor [Spes (VF0248) - Exotoxin (VFC0235)] [Streptococcus pyogenes M1 GAS] Streptococcus pyogenes
AE004092.2_184 90.604 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
AE004092.2_312 61.979 5.69E-88 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
AE004092.2_335 100.0 4.31E-169 speJ VF0248 Spes Exotoxin VFC0235 Two prototypical streptococcal superantigens, SpeA and SpeC are both encoded on functional phage (speJ) streptococcal exotoxin J precursor [Spes (VF0248) - Exotoxin (VFC0235)] [Streptococcus pyogenes M1 GAS] Streptococcus pyogenes
AE004092.2_347 76.299 5.61E-175 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
AE004092.2_472 69.444 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
AE004092.2_552 100.0 7.84E-173 speC VF0248 Spes Exotoxin VFC0235 Two prototypical streptococcal superantigens, SpeA and SpeC are both encoded on functional phage (speC) streptococcal exotoxin C precursor, phage associated [Spes (VF0248) - Exotoxin (VFC0235)] [Streptococcus pyogenes M1 GAS] Streptococcus pyogenes
AE004092.2_553 100.0 0.0 mf2 VF0252 Mitogenic factor Exoenzyme VFC0251 DNase B has been shown to be the same molecule as the streptococcal mitogenic factor (MF). It does not contribute significantly to the superantigenic activity of S. pyogenes when compared with other Spes (mf2) deoxyribonuclease, phage associated [Mitogenic factor (VF0252) - Exoenzyme (VFC0251)] [Streptococcus pyogenes M1 GAS] Streptococcus pyogenes
AE004092.2_574 100.0 8.81E-33 sagA VF0251 SLS Exotoxin VFC0235 Oxygen stable, most potent cytotoxin; not immunogenic; unstable polypeptide bounds to carrier molecules, such as serum albumin, RNA core, or lipoteichoic acid; responsible for the beta-hemolysis surrounding colonies of GAS grown on blood agar plates; SagA serves as SLS toxin precursor and eight additional genes in an operon is required for toxin maturation and export. pro-SLS is converted into an active cytolysin by the actions of SagBCD, a trimeric oxazole/thiazole synthetase. (sagA) streptolysin S associated protein [SLS (VF0251) - Exotoxin (VFC0235)] [Streptococcus pyogenes M1 GAS] Streptococcus pyogenes
AE004092.2_676 100.0 0.0 ideS/mac VF0284 IdeS Immune modulation VFC0258 A secreted 35 kDa protein, does not require processing or activation to exert its enzymatic activity; also described as a CD11b homolog protein, Mac, CD11b is the alpha chain of complement receptor 3 (CR3), which is the receptor on phagocytes that recognizes C3b (ideS/mac) immunoglobulin G-degrading enzyme [IdeS (VF0284) - Immune modulation (VFC0258)] [Streptococcus pyogenes M1 GAS] Streptococcus pyogenes
AE004092.2_738 65.517 2.17E-142 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
AE004092.2_802 100.0 1.97E-165 speI VF0248 Spes Exotoxin VFC0235 Two prototypical streptococcal superantigens, SpeA and SpeC are both encoded on functional phage (speI) streptococcal exotoxin I precursor [Spes (VF0248) - Exotoxin (VFC0235)] [Streptococcus pyogenes M1 GAS] Streptococcus pyogenes
AE004092.2_803 100.0 4.96E-178 speH VF0248 Spes Exotoxin VFC0235 Two prototypical streptococcal superantigens, SpeA and SpeC are both encoded on functional phage (speH) streptococcal exotoxin H precursor [Spes (VF0248) - Exotoxin (VFC0235)] [Streptococcus pyogenes M1 GAS] Streptococcus pyogenes
AE004092.2_807 99.636 0.0 fbp54 VF0243 FBPs Adherence VFC0001 Surface protein: linked to the bacterial cell wall via C-terminal LPXTG motif; including PrtF1 (protein F1) also known as SfbI (streptococcal fibronectin binding proteinI), SfbII/SOF (serum opacity factor), FbaA, FbaB, FBP54 (fibronectin-binding protein 54), protein F2, PFBP (pyogene fibronectin-binding protein) (fbp54) fibronectin-bing protein Fbp54 [FBPs (VF0243) - Adherence (VFC0001)] [Streptococcus pyogenes MGAS6180] Streptococcus pyogenes
AE004092.2_820 100.0 0.0 hylA VF0246 Hyaluronidase Exoenzyme VFC0251 GAS are capable of producing two types of hyaluronidase, a bacteriophage associated enzyme and an extracellular hyaluronidase that is secreted from the cell; since the capsule of GAS is composed solely of hyaluronic acid, the hyaluronidase presumably benefits the phage by aiding in capsule penetration during its infection of or release from streptococci (hylA) hyaluronidase [Hyaluronidase (VF0246) - Exoenzyme (VFC0251)] [Streptococcus pyogenes M1 GAS] Streptococcus pyogenes
AE004092.2_839 62.308 9.78E-57 msrA/B(pilB VF0456 MsrAB Stress survival VFC0282 Methionine sulfoxide reductases (Msr) are enzymes that catalyze the reduction of free and protein-bound methionine sulfoxide (MetSO) back to Met. Two structurally unrelated classes of Msrs have been described so far. MsrAs are stereo specific toward the S isomer on the sulfur of the sulfoxide function, whereas MsrBs are specific toward the R isomer (msrA/B(pilB)) trifunctional thioredoxin/methionine sulfoxide reductase A/B protein [MsrAB (VF0456) - Stress survival (VFC0282)] [Neisseria meningitidis MC58] Neisseria meningitidis
AE004092.2_1029 60.7 2.07E-107 cfa/cfb VF0280 CAMP factor Exotoxin VFC0235 CAMP factor, a pore-forming protein toxin of ~24 kDa gives rise to the so-called CAMP reaction, which consists of a zone of strong hemolysis that is observed when S. agalactiae is streaked next to Staphylococcus aureus on sheep blood agar. S. aureus secretes sphingomyelinase. Sheep red blood cells are rich in sphingomyelin and, upon exposure to sphingomyelinase, become greatly sensitized to CAMP factor, which then effects hemolysis. This co-hemolytic phenomenon was first described by Christie, Atkins, and Munch-Petersen, and the CAMP acronym represents these investigators' last names.; Paralogs of <iS. agalactiae</i> CAMP factor genes have been sequenced in a wide range of Gram-positive pathogens, including Streptococcus uberisand Cutibacterium acnes (cfa/cfb) cAMP factor [CAMP factor (VF0280) - Exotoxin (VFC0235)] [Streptococcus agalactiae NEM316] Streptococcus agalactiae
AE004092.2_1095 100.0 1.84E-155 grab VF0254 GRAB Others VFC0346 Surface protein: linked to the bacterial cell wall via C-terminal LPXTG motif; high affinity (Ka = 2.0 x 108M-1) for <term>alpha2-macroglobulin (alpha2M)</term>; encoded by grab gene that is present in most S. pyogene strains and is well conserved (grab) protein GRAB (protein G-related alpha 2M-binding protein) [GRAB (VF0254) - Others (VFC0346)] [Streptococcus pyogenes M1 GAS] Streptococcus pyogenes
AE004092.2_1153 100.0 0.0 mf3 VF0252 Mitogenic factor Exoenzyme VFC0251 DNase B has been shown to be the same molecule as the streptococcal mitogenic factor (MF). It does not contribute significantly to the superantigenic activity of S. pyogenes when compared with other Spes (mf3) deoxyribonuclease [Mitogenic factor (VF0252) - Exoenzyme (VFC0251)] [Streptococcus pyogenes M1 GAS] Streptococcus pyogenes
AE004092.2_1589 100.0 0.0 ska VF0247 Streptokinase Exoenzyme VFC0251 (ska) streptokinase A precursor [Streptokinase (VF0247) - Exoenzyme (VFC0251)] [Streptococcus pyogenes M1 GAS] Streptococcus pyogenes
AE004092.2_1604 100.0 1.43E-173 smeZ VF0248 Spes Exotoxin VFC0235 Two prototypical streptococcal superantigens, SpeA and SpeC are both encoded on functional phage (smeZ) streptococcal mitogenic exotoxin Z [Spes (VF0248) - Exotoxin (VFC0235)] [Streptococcus pyogenes M1 GAS] Streptococcus pyogenes
AE004092.2_1613 99.673 0.0 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
AE004092.2_1614 76.066 0.0 fbaA VF0243 FBPs Adherence VFC0001 Surface protein: linked to the bacterial cell wall via C-terminal LPXTG motif; including PrtF1 (protein F1) also known as SfbI (streptococcal fibronectin binding proteinI), SfbII/SOF (serum opacity factor), FbaA, FbaB, FBP54 (fibronectin-binding protein 54), protein F2, PFBP (pyogene fibronectin-binding protein) (fbaA) protein F2 like fibronectin-binding protein [FBPs (VF0243) - Adherence (VFC0001)] [Streptococcus pyogenes MGAS6180] Streptococcus pyogenes
AE004092.2_1615 100.0 0.0 scpA/scpB VF0245 C5a peptidase Adherence VFC0001 Surface protein: LPTTN motif (scpA/scpB) streptococcal C5a peptidase [C5a peptidase (VF0245) - Adherence (VFC0001)] [Streptococcus pyogenes M1 GAS] Streptococcus pyogenes
AE004092.2_1617 100.0 0.0 sic VF0255 SIC Immune modulation VFC0258 A hypervariable extracellular protein, with the amount of polymorphism far exceeding that present in any bacterial protein except those directly associated with antibiotic resistance. This variation may arise from pressure from the immune system that makes it expedient for the bacteria to change their surface antigens (sic) inhibitor of complement-mediated lysis [SIC (VF0255) - Immune modulation (VFC0258)] [Streptococcus pyogenes M1 GAS] Streptococcus pyogenes
AE004092.2_1618 100.0 0.0 emm VF0242 M protein Immune modulation VFC0258 Surface protein: LPXTG motif; M proteins are used for classification of S. pyogenes strains into M serotypes because of N-terminal hypervariable region that exhibits extensive sequence variability between strains (emm) M protein [M protein (VF0242) - Immune modulation (VFC0258)] [Streptococcus pyogenes M1 GAS] Streptococcus pyogenes
AE004092.2_1632 100.0 0.0 speB VF0249 SpeB Exoenzyme VFC0251 (speB) pyrogenic exotoxin B [SpeB (VF0249) - Exoenzyme (VFC0251)] [Streptococcus pyogenes M1 GAS] Streptococcus pyogenes
AE004092.2_1635 100.0 0.0 mf/spd VF0252 Mitogenic factor Exoenzyme VFC0251 DNase B has been shown to be the same molecule as the streptococcal mitogenic factor (MF). It does not contribute significantly to the superantigenic activity of S. pyogenes when compared with other Spes (mf/spd) deoxyribonuclease [Mitogenic factor (VF0252) - Exoenzyme (VFC0251)] [Streptococcus pyogenes M1 GAS] Streptococcus pyogenes
AE004092.2_1655 67.238 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
AE004092.2_1762 100.0 0.0 hasA VF0244 Hyaluronic acid capsule Immune modulation VFC0258 (hasA) hyaluronan synthase HasA [Hyaluronic acid capsule (VF0244) - Immune modulation (VFC0258)] [Streptococcus pyogenes M1 GAS] Streptococcus pyogenes
AE004092.2_1763 100.0 0.0 hasB VF0244 Hyaluronic acid capsule Immune modulation VFC0258 (hasB) UDP-glucose 6-dehydrogenase HasB [Hyaluronic acid capsule (VF0244) - Immune modulation (VFC0258)] [Streptococcus pyogenes M1 GAS] Streptococcus pyogenes
AE004092.2_1764 100.0 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