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Table 2 SIMBAL-derived subsequences from PrmC.

From: Sites Inferred by Metabolic Background Assertion Labeling (SIMBAL): adapting the Partial Phylogenetic Profiling algorithm to scan sequences for signatures that predict protein function

Subsequencea

E. coli PrmC subsequenceb

Consensusc

SIMBAL

scored

A

18-ES PRRD AEIL LEHV-31

esprlDAelL Lahv

8.5

B

66-EPI AHLTGVREFW S-79

EP vaYI lG erEF wG

10.3

C

90-I PRPD TE CLVE QAL-103

IPR PDTE eLVEaaL

17.7

D

115-DLGTGTGAIALALA-128

D LGTG SG AIAlALA

9.0

E

182-SNPPYI-187

SNPPY I

13.8

F

197-GDV RFEPLTAL VAA-210

eVlrfEP rsAL faG

6.4

G

237-EHGW QQGEAVRQAF-250

E iG ydQ geaVraLf

7.1

H

259-ETCRDYG DN ER VTL-272

etrkD LaGndR vvl

7.9

  1. a) subsequences as indicated in Figure 6B. b) Contacts with RF-1 observed in the PrmC:RF-1 crystal structure indicated in bold. c) Lower-case residues are less than 50% conserved, residues in bold are greater than 80% conserved. d) Scores are reported at a window of 14 amino acids except for subsequence E which has a window size of 6.