⊟Summary[edit | edit source]

pan ID^?: SAUPAN000977000
symbol^?: capD
synonym:
description^?: polysaccharide biosynthesis protein
- polysaccharide biosynthesis protein
- capsular polysaccharide biosynthesis protein Cap5D
- capsular polysaccharide synthesis enzyme CapD
- capsular polysaccharide synthesis protein Cap5D
- polysaccharide biosynthesis protein CapD
- type 8 capsular polysaccharide synthesis protein Cap8D
- capsular polysaccharide biosynthesis protein capD
- Capsular polysaccharide synthesis enzyme Cap8D
- capsular polysaccharide synthesis enzyme
- capsular polysaccharide synthesis enzyme Cap5D
- polysaccharide biosynthesis family protein
- pseudogene
- UDP-D-quinovosamine 4-dehydrogenase
strand^?: +
coordinates^?: 1232687..1234601
synteny block^?: BlockID0005110
occurrence^?: in 97% of 34 strains

capD : capsule polysaccharide precursor UDP-N-acetylglucosamine 6-dehydratase CapD ^[1]

Staphylococci can produce up to 15 different capsules based on variants of the core trisaccharide N-acetyl-D-mannosaminouronate (ManNAcA) - N-acetyl-L-fucosamine (L-FucNAc) - N-acetyl-D-fucosamine (D-FucNAc). CapD catalyzes the first committed step in biosynthesis of capsular polysaccharide monomer UDP-N-acetyl-D-fucosamine via C-4,6 dehydrogenation of UDP-N-acetylglucosamine.

Note: several strains will be capsule-deficient due to a nonfunctional CapD frameshift mutation characteristic of USA300 and USA500 lineages. They should be annotated as "nonfunctional capsule polysaccharide precursor UDP-N-acetylglucosamine 6-dehydratase CapD pseudogene".

Historically, different capsule types were assigned their own nomenclature (i.e. Cap5D and Cap8D for the two most prevalent capsule types, CP5 and CP8). The CapD protein is 99% identical between Cap5D and Cap8D, provides the same function, and is therefore harmonized as CapD.

⊟Orthologs[edit | edit source]

COL:

SACOL0139 (cap5D)

N315:

SA0147 (capD)

NCTC8325:

SAOUHSC_00117

Newman:

NWMN_0098 (capD)

USA300_FPR3757:

SAUSA300_0155 (cap5D)

04-02981:

SA2981_0153 (capD)

08BA02176:

C248_0141 (capD)

11819-97:

MS7_0146

6850:

RSAU_000106 (capD)

71193:

ST398NM01_0166

ECT-R 2:

ECTR2_109

ED133:

SAOV_0099

ED98:

SAAV_0120 (cap5D)

HO 5096 0412:

SAEMRSA15_01180 (capD)

JH1:

SaurJH1_0143

JH9:

SaurJH9_0138

JKD6008:

SAA6008_00130 (cap5D)

JKD6159:

SAA6159_00136 (cap5D)

JSNZ:

JSNZ_000095 (cap8D)

LGA251:

SARLGA251_01260 (capD)

M013:

M013TW_0142

MRSA252:

SAR0154 (capD)

MSHR1132:

SAMSHR1132_01260

MSSA476:

SAS0127

Mu3:

SAHV_0151 (capD)

Mu50:

SAV0152 (capD)

MW2:

MW0127 (cap8D)

RF122:

SAB0093 (capD)

ST398:

SAPIG0166

T0131:

SAT0131_00142

TCH60:

HMPREF0772_10346 (capD)

TW20:

SATW20_01630 (capD)

USA300_TCH1516:

—

VC40:

SAVC_00530

⊟Genome Viewer[edit | edit source]

⊟Alignments[edit | edit source]

alignment of orthologues:
CLUSTAL format alignment by MAFFT L-INS-i (v7.307)

COL             ----MAHLSVKLRLLILALIDSLIVTFSVFVSYYILEPYFKTYSVKLLILAAISLFISHH
N315            ----MAHLSVKLRLLILALIDSLIVTFSVFVSYYILEPYFKTYSVKLLILAAISLFISHH
NCTC8325        ----MAHLSVKLRLLILALIDSLIVTFSVFVSYYILEPYFKTYSVKLLILAAISLFISHH
Newman          MRGFMAHLSVKLRLLILALIDSLIVTFSVFVSYYILEPYFKTYSVKLLILAAISLFISHH
                    ********************************************************

COL             ISAFIFNMYHRAWEYASVSELILIVKAVTTSIVITMVVVTIVTGNRPFFRLYLITWMMHL
N315            ISAFIFNMYHRAWEYASVSELILIVKAVTTSIVITMVVVTIVTGNRPFFRLYLITWMMHL
NCTC8325        ISAFIFNMYHRAWEYASVSELILIVKAVTTSIVITMVVVTIVTGNRPFFRLYLITWMMHL
Newman          ISAFIFNMYHRAWEYASVSELILIVKAVTTSIVITMVVVTIVTGNRPFFRLYLITWMMHL
                ************************************************************

COL             ILIGGSRLFWRIYRKYLGGKSFNKKPTLVVGAGQAGSMLIRQMLKSDEMKLEPVLAVDDD
N315            ILIGGSRLFWRIYRKYLGGKSFNKKPTLVVGAGQAGSMLIRQMLKSDEMKLEPVLAVDDD
NCTC8325        ILIGGSRLFWRIYRKYLGGKSFNKKPTLVVGAGQAGSMLIRQMLKSDEMKLEPVLAVDDD
Newman          ILIGGSRLFWRIYRKYLGGKSFNKKPTLVVGAGQAGSMLIRQMLKSDEMKLEPVLAVDDD
                ************************************************************

COL             EHKRNITITEGVKVQGKIADIPELVRKYKIKKIIIAIPTIGQERLKEINNICHMDGVELL
N315            EHKRNITITEGVKVQGKIADIPELVRKYKIKKIIIAIPTIGQERLKEINNICHMDGVELL
NCTC8325        EHKRNITITEGVKVQGKIADIPELVRKYKIKKIIIAIPTIGQERLKEINNICHMDGVELL
Newman          EHKRNITITEGVKVQGKIADIPELVRKYKIKKIIIAIPTIGQERLKEINNICHMDGVELL
                ************************************************************

COL             KMPNIEDVMSGELEVNQLKKVEVEDLLGRDPVELDMDMISNELTNKTILVTGAGGSIGSE
N315            KMPNIEDVMSGELEVNQLKKVEVEDLLGRDPVELDMDMISNELTNKTILVTGAGGSIGSE
NCTC8325        KMPNIEDVMSGELEVNQLKKVEVEDLLGRDPVELDMDMISNELTNKTILVTGAGGSIGSE
Newman          KMPNIEDVMSGELEVNQLKKVEVEDLLGRDPVELDMDMISNELTNKTILVTGAGGSIGSE
                ************************************************************

COL             ICRQVCNFYPERIILLGHGENSIYLINRELRNRFGKNVDIVPIIADVQNRARMFEIMETY
N315            ICRQVCNFYPERIILLGHGENSIYLINRELRNRFGKNVDIVPIIADVQNRARMFEIMETY
NCTC8325        ICRQVCNFYPERIILLGHGENSIYLINRELRNRFGKNVDIVPIIADVQNRARMFEIMETY
Newman          ICRQVCNFYPERIILLGHGENSIYLINRELRNRFGKNVDIVPIIADVQNRARMFEIMETY
                ************************************************************

COL             KPYAVYHAAAHKHVPLMEDNPEEAVRNNILGTKNTAEAAKNAEVKKFVMISTDKAVNPPN
N315            KPYAVYHAAAHKHVPLMEDNPEEAVHNNILGTKNTAEAAKNAEVKKFVMISTDKAVNPPN
NCTC8325        KPYAVYHAAAHKHVPLMEDNPEEAVRNNILGTKNTAEAAKNAEVKKFVMISTDKAVNPPN
Newman          KPYAVYHAAAHKHVPLMEDNPEEAVRNNILGTKNTAEAAKNAEVKKFVMISTDKAVNPPN
                *************************:**********************************

COL             VMGASKRIAEMIIQSLNDETHRTNFVAVRFGNVLGSRGSVIPLFKSQIEEGGPVTVTHPE
N315            VMGASKRIAEMIIQSLNDETHRTNFVAVRFGNVLGSRGSVIPLFKSQIEEGGPVTVTHPE
NCTC8325        VMGASKRIAEMIIQSLNDETHRTNFVAVRFGNVLGSRGSVIPLFKSQIEEGGPVTVTHPE
Newman          VMGASKRIAEMIIQSLNDETHRTNFVAVRFGNVLGSRGSVIPLFKSQIEEGGPVTVTHPE
                ************************************************************

COL             MTRYFMTIPEASRLVLQAGALAEGGEVFVLDMGEPVKIVDLARNLIKLSGKKEDDIRITY
N315            MTRYFMTIPEASRLVLQAGALAEGGEVFVLDMGEPVKIVDLARNLIKLSGKKEDDIRITY
NCTC8325        MTRYFMTIPEASRLVLQAGALAEGGEVFVLDMGEPVKIVDLARNLIKLSGKKEDDIRITY
Newman          MTRYFMTIPEASRLVLQAGALAEGGEVFVLDMGEPVKIVDLARNLIKLSGKKEDDIRITY
                ************************************************************

COL             TGIRPGEKMFEELMNKDEVHPEQVFEKIYRGKVQHMKCNEVEAIIQDIVNDFSKEKIINY
N315            TGIRPGEKMFEELMNKDEVHPEQVFEKIYRGKVQHMKCNEVEAIIQDIVNDFSKEKIINY
NCTC8325        TGIRPGEKMFEELMNKDEVHPEQVFEKIYRGKVQHMKCNEVEAIIQDIVNDFSKEKIINY
Newman          TGIRPGEKMFEELMNKDEVHPEQVFEKIYRGKVQHMKCNEVEAIIQDIVNDFSKEKIINY
                ************************************************************

COL             ANGKKGDNYVR
N315            ANGKKGDNYVR
NCTC8325        ANGKKGDNYVR
Newman          ANGKKGDNYVR
                ***********

↑ Susan Boyle-Vavra, Xue Li, Md Tauqeer Alam, Timothy D Read, Julia Sieth, Colette Cywes-Bentley, Ginette Dobbins, Michael Z David, Neha Kumar, Samantha J Eells, Loren G Miller, David J Boxrud, Henry F Chambers, Ruth Lynfield, Jean C Lee, Robert S Daum
USA300 and USA500 clonal lineages of Staphylococcus aureus do not produce a capsular polysaccharide due to conserved mutations in the cap5 locus.
mBio: 2015, 6(2);
[PubMed:25852165] [WorldCat.org] [DOI] (I e)Satsawat Visansirikul, Stephen A Kolodziej, Alexei V Demchenko
Staphylococcus aureus capsular polysaccharides: a structural and synthetic perspective.
Org Biomol Chem: 2020, 18(5);783-798
[PubMed:31922180] [WorldCat.org] [DOI] (I p)

[1] Susan Boyle-Vavra, Xue Li, Md Tauqeer Alam, Timothy D Read, Julia Sieth, Colette Cywes-Bentley, Ginette Dobbins, Michael Z David, Neha Kumar, Samantha J Eells, Loren G Miller, David J Boxrud, Henry F Chambers, Ruth Lynfield, Jean C Lee, Robert S Daum
USA300 and USA500 clonal lineages of Staphylococcus aureus do not produce a capsular polysaccharide due to conserved mutations in the cap5 locus.
mBio: 2015, 6(2);
[PubMed:25852165] [WorldCat.org] [DOI] (I e)Satsawat Visansirikul, Stephen A Kolodziej, Alexei V Demchenko
Staphylococcus aureus capsular polysaccharides: a structural and synthetic perspective.
Org Biomol Chem: 2020, 18(5);783-798
[PubMed:31922180] [WorldCat.org] [DOI] (I p)

[1]

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Contents

⊟Summary[edit | edit source]

⊟Orthologs[edit | edit source]

⊟Genome Viewer[edit | edit source]

⊟Alignments[edit | edit source]

COL
N315
NCTC8325
Newman
USA300_FPR3757

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⊟Summary[edit | edit source]

⊟Orthologs[edit | edit source]

⊟Genome Viewer[edit | edit source]

⊟Alignments[edit | edit source]