BMC Genomics

Table 5 Common patterns between ORPs and URPs in bacterias and eukaryotes

From: Characterization of oligopeptide patterns in large protein sets

ORP-E/URP-B				ORP-B/URP-E
Swiss-Prot		Genome		Swiss-Prot		genome
WDTAG	NP_BIND	PYVCK	ZN_FING	PGCSM	METAL	WNYWV	TRANSMEM
QGPPG	REGION	KPYTC	ZN_FING	CDKIT	METAL	RCWHY	METAL
EECGK	ZN_FING	YECNQ	ZN_FING	TRMKS	REGION	WAWGH	METAL
FHFIL	METAL	PHECK	ZN_FING			WQGQC	ZN_FING
AFHFI	METAL	KPYNC	ZN_FING			WFPKM	TRANSMEM
NPIIY	TRANSMEM	FECKQ	ZN_FING			MVPMW	TRANSMEM
		NHCGK	ZN_FING			AMWWI	TRANSMEM
		PYQCK	ZN_FING			WGGWW	TRANSMEM
		KPHKC	ZN_FING			WHPEW	ACT_SITE
		PYKCQ	ZN_FING			WGIMH	TRANSMEM
		PYKCT	ZN_FING			IYWHF	DOMAIN
		PCGHN	ZN_FING
		CMNGG	DISULFID
RLSCA		AWTWN		GANMQ		PMVWR	GHWYF
GWIIR		ECVWQ		PTDMQ		NFWQM	MTAWH
LRLSC		YWEFQ		ANMQR		YWGCP	WYVVH
ICLFL		YCQEY		GSYHD		GENHW	ANHWM
NYTPA		YHEWT		MIGDP		HGCCH	MWPVH
TLTWI		TMYCE		YHDVD		ACMHC	YWQVY
GHPIS		MIKCY		PYRKV		HNWPG	WIAAW
RNLSH		CYIFM		YPAME		SHIWY	EFWCR
KQRSM		GFHCN		RDVHP		WPMKH	MNAWA
FCAEA		SKFWY		LPHRY		WWIKA	YPCNY
		FCQVR		FHIGG		WMPSW	LCHYW
		CKQDV		TYNFP		FPMDW	IRWQH
		RSKFW		VMFGN		FCDWY	HWAYK
		NTWHR		MIEGP		WHKRP	MGKWL
		CKPPN		NIMEF		IEAHW	FWWNP
		MFGCP		VYKHA		TMWRG	GWLWF
		MWIPK		HGTYP		WMAMN	GMNKW
		PKYCI		KDHHS		FGWQV	PRHYW
		QNVMC				AHDWC	WRNAW
		MCVDY				WDMNF	MAHDW
		MYCEA				IMTWM	WAMTQ
		WWVSM				EHWHT	RHWMI
		RNMCP				TYAMW

Table shows patterns that are ORPs in eukaryotes and URPs in bacteria and vice versa. The upper part shows pattern with associated features and the lower part lists those without feature association. Only peptide patterns where residue bias can be excluded are shown (p ≤ 0.05).

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ISSN: 1471-2164

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