Table 3. Surface proteins identified in ≥50% clinical isolates by “shaving” Streptococcus pneumoniae cells followed by LC/MS/MS analysis.

		Clinical Isolates
Locus	Description	5074	5104	5231	5278	5284	5330	5333	5334	5335	5337	5341	5342	5343	5344	5345	5431	# Isolates
Lipoproteins a
spr0884	foldase protein PrsA		×	×	×	×		×		×			×	×				8/16
spr1060	pneumococcal histidine triad protein D precursor	×		×	×	×	×			×		×		×	×			9/16
spr1382	ABC transporter substrate-binding protein - oligopeptide transport (AliB)	×	×	×		×	×			×	×	×		×				9/16
Cell Wall
spr0057	beta-N-acetylhexosaminidase	×	×	×	×	×	×		×	×	×	×	×	×	×		×	14/16
spr0075	cell wall surface anchor family protein			×	×		×			×	×	×	×		×			8/16
spr0247	alkaline amylopullulanase	×		×	×	×	×	×		×	×		×	×		×		11/16
spr0286	hyaluronate lyase precursor (hyaluronidase/hyase)			×	×	×	×		×	×	×	×	×		×	×	×	12/16
spr0328	cell wall surface anchor family protein	×	×	×		×	×	×	×	×	×	×	×	×	×	×	×	15/16
spr0440	endo-beta-N-acetylglucosaminidase, putative	×	×	×	×	×	×	×		×	×		×	×		×		12/16
spr0561	cell wall-associated serine proteinase precursor PrtA	×	×		×	×	×	×	×	×	×		×	×	×	×		13/16
spr0565	beta-galactosidase precursor	×			×	×		×	×	×		×	×	×	×		×	11/16
spr1403	hypothetical protein spr1403	×	×			×	×	×		×	×	×	×	×	×	×	×	13/16
spr1536	sialidase A precursor (neuraminidase A)	×	×		×	×	×	×	×	×		×	×	×	×	×		13/16
Membrane proteins (1TMD)
spr0121	surface protein pspA precursor	×	×	×	×	×	×		×	×	×	×	×	×	×		×	14/16
spr0329	penicillin-binding protein 1A			×		×	×	×		×		×	×	×				8/16
spr0334	hypothetical protein spr0334		×	×	×	×				×	×			×			×	8/16
spr0907	pneumococcal histidine triad protein D precursor	×		×	×	×		×	×	×	×	×	×	×	×	×	×	14/16
spr1370	hypothetical protein spr1370		×	×	×	×		×		×	×	×		×			×	10/16
spr1875	hypothetical protein spr1875	×		×		×	×	×		×				×	×			8/16
spr2045	serine protease	×		×	×	×	×	×	×		×		×	×			×	11/16
Membrane proteins (>1TMD)
SP_0071	immunoglobulin A1 protease	×	×	×	×	×	×					×	×	×				9/16
spr0012	cell division protein FtsH			×	×	×	×	×		×	×	×		×	×	×	×	12/16
spr0086	hypothetical protein spr0086	×	×	×	×	×	×	×		×	×	×			×		×	12/16
spr0581	Zinc metalloprotease	×	×	×	×	×	×	×	×	×	×	×	×	×	×	×	×	16/16
spr1042	immunoglobulin A1 protease	×	×	×	×	×	×	×	×	×	×	×	×	×	×	×	×	16/16
SPN23F_10590	Zinc metalloprotease ZmpD		×			×	×	×	×					×	×		×	8/16
SP670_2141	TMP repeat family		×	×	×	×	×				×			×		×		8/16
Secretory
spr0908	pneumococcal histidine triad protein E precursor	×	×		×	×		×		×	×		×	×	×			10/16
spr0931	hypothetical protein spr0931		×	×		×	×	×		×	×	×	×	×	×			11/16
spr1903	UTP-glucose-1-phosphate uridylyltransferase	×	×	×	×	×	×			×	×			×		×		10/16
spr1995	choline binding protein A	×	×	×	×	×	×	×	×	×	×	×	×	×	×	×	×	16/16
spr2021	general stress protein GSP-781	×	×		×	×	×	×	×	×	×	×		×	×			12/16

^aProtein categories were established according to LocateP subcellular predictions: lipoproteins were those predicted as lipid-anchored proteins; cell wall proteins, as those having an LPXTG motif; secretory proteins, as those possessing an SP1-type signal peptide; membrane proteins with one transmembrane domain (TMD), as those possessing either a C- or an N-terminally anchored transmembrane region; membrane proteins with more than one transmembrane domain, those predicted as multi-transmembrane proteins; “surface proteins” means the sum of the five previous categories; and cytoplasmic proteins, those without any exporting or sorting signal, and predicted as intracellular proteins.