Table 1.

Nucleotide and derived amino acid sequences of the regions corresponding to periplasmic turns and surface-exposed loops

OmpA turn and loop variants (reference)DNA and derived amino acid sequencesaRelevant restriction site(s)
Periplasmic turns
 T2, wild type Gly Tyr Pro Ile Thr BstEII
84  85  86  87  88
GGT TAC C CA ATC ACT
 T2H1 (36) Gly Tyr Pro Lys Leu Gly Thr HindIII
84  85  86               88
GGT TAC CCC AAG CTT GGG ACT
 T2M1 (this study) Gly Tyr Pro Lys Leu Arg Arg Thr Arg Ala Ser Gln Leu Gly Thr BsmBI,MluI, BsmBI
84  85  86                                              88
GGT TAC CCC AAG CTG AGA CGC ACG CGT GCG TCT C AG CTT GGG ACT
 T2S0 (this study) Gly Tyr Pro Gly Thr SmaI
84  85  86      88
GGT TAC CCC GGG ACT
 T3, wild type Ala Ile Thr None
130 131 132
GCG ATC ACT
 T3B0 (36) Val Ile Thr BclI
       131 132
GTG ATC ACT
 T3S4 (36) Val Ile Arg Arg Arg Val Asp Ala Ser Thr Arg Arg Arg Ile Thr SalI (4 times)
    131                                                 132
GTG ATC CGT CGA CGC GTC GAC GCG TCG ACG CGT CGA CGG ATC ACT
 T3S1 (this study) Val Ile Arg Arg Arg Ile Thr SalI
    131                 132
GTG ATC CGT CGA CGG ATC ACT
 T3B1 (this study) Val Ile Arg Arg Ala Gly Cys Ala Gln Pro Ala Arg Arg Ile Thr BspMI,BssHII, BspMI
    131                                                 132
GTG ATC GCT CGA GCA GGT TGC GCG CAA CCT GC T CGA CGG ATC ACT
Surface-exposed loops
 ΔL1 (this study) Tyr Ser Arg Glu Asn XbaI
18          32  33
TAC  TCT AGA  GAA AAC
 ΔL2 (this study) Met Pro Arg Lys Ala AvrII
61  62      73  74
ATG CCT AGG  AAA GCT
 ΔL3 (this study) Ala Asp Thr Ser Val SpeI
104 105 106     119
GCA GAC ACT AGT  GTT
 ΔL4 (this study) Asn Ala Ser Asp Asn NheI
146         158 159
AAC  GCT AGC  GAC AAC
  • a Introduced linker sequences of turn variants and introduced nucleotides of loop deletion mutants are shown in boldface; relevant restriction sites are underlined. Wild-type amino acid residues are numbered according to the mature wild-type protein.