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Table 2 Characterization of UPMs in homologues from different species identified by RMA

From: A reinforced merging methodology for mapping unique peptide motifs in members of protein families

protein familya

UPM

position

loop coverage (%)b

Molecular recognition

Refs

RNaseA

     

Bovine

TAAAKFE#

3–9

14

 

[53]

 

KSRNLTKD#

31–38

63

αbpRNaseAc

[21, 53]

 

AVCSQKNVA

56–64

56

 

[53]

 

QSYSTMS

74–80

29

 

[53]

 

ETGSSK#

86–91

67

 

[53]

 

KTTQANK

98–104

0

 

[53]

Human

SRAKKFQ#

3–9

100, -d

 

[48]

 

RRRNMTQG#

31–38

75

 

[48]

 

NVCFQEKVT

56–64

56

 

[48]

 

KSNSSMH#

74–80

29

 

[48]

 

LTNGSR#

86–91

67

 

[48]

 

RTSPKER#

98–104

0

 

[48]

MsbA

     

Escherichia coli

MHNDKD#

1–6

-e

 

[22]

 

PSVMDS

273–278

100

 

[22]

 

DVEFRN

341–346

67, -d

 

[22]

 

RNINLKI

360–366

-

 

[22]

 

HRGVY

568–572

-

 

[22]

Vibrio cholera

ADTYMIS

40–46

0

 

[23]

 

ESNFL

60–64

100

 

[23]

 

NHFMHM

106–111

83

 

[23]

 

ADPVIQ

251–256

100

 

[23]

 

RAELT

276–280

100

 

[23]

 

GKYEAER#

331–337

100

 

[23]

 

VDVKD#

342–346

20

 

[23]

 

YQGKEK#

351–356

0

 

[23]

  1. aThe members of each protein family were analyzed by RMA. The proteins possessing resolved 3-D structures or epitope information are listed in column 1.
  2. b The loop coverage of each identified UPM was calculated and shown as percentage localized within a loop in accordance with the 3-D structure.
  3. c The epitope of the antibody containing or within the identified UPMs is indicated.
  4. dThe loop coverage is calculated based on the sequences located in the solved 3-D structures.
  5. e"-", No 3-D structural information is currently available.
  6. #UPMs overlap with the potential antigenic regions by 70% as predicted by PROTEAN.