BLAST/PSIBLAST alignment of GI: 254780610 and GI: 116253506 at iteration 1
>gi|116253506|ref|YP_769344.1| ribosomal large subunit pseudouridine synthase D [Rhizobium leguminosarum bv. viciae 3841] Length = 341
>gi|115258154|emb|CAK09255.1| putative ribosomal large subunit pseudouridine synthase D [Rhizobium leguminosarum bv. viciae 3841] Length = 341
 Score =  394 bits (1012), Expect = e-107,   Method: Compositional matrix adjust.
 Identities = 188/341 (55%), Positives = 241/341 (70%), Gaps = 4/341 (1%)

Query: 1   MQQTLDNCSSIKISLLSDSTAEGRIDRWLATSLKEQFSRSYVKILILNGFISINGMVSKN 60
           M       +  +  L +D TAEGR+D WL   + E+FSRS +K LI +G + + G    +
Sbjct: 1   MSDPFKQAAGNRKVLTADETAEGRLDAWLTAQVGEEFSRSRIKALIKDGQVLLRGEPVTD 60

Query: 61  PNRKVVPGDSFLITVPAAQKLNIAQENIPLDILYEDDDIIVINKPAGLVVHPAPGNWTGT 120
           P RKV  GDSF +T+P  +      E+IPLDIL+EDDD+IVI+KP+GLVVHP  GNWTGT
Sbjct: 61  PQRKVRTGDSFELTLPEPEDPTPQGEDIPLDILHEDDDVIVISKPSGLVVHPGAGNWTGT 120

Query: 121 LVNALLYHCHNNLSSINGVKRPGIVHRLDKDTTGVMVVAKNDLAHQKLSEQFVDHGKSTR 180
           LVNAL++HC + LS I GV+RPGIVHRLDKDTTGVMVVAKND+AH+ LS QF DHG++  
Sbjct: 121 LVNALIHHCSDTLSGIGGVRRPGIVHRLDKDTTGVMVVAKNDIAHRHLSLQFADHGRTMP 180

Query: 181 LKRAYYAMVWGIPLPDSGIINAPLGRCKSNRLRRAVKGIDDKTADSAITHYQTIEIYNKN 240
           L+RAY A+VWG P   SG ++APLGR   +R RRAVK  D + AD AITHYQ IE +++ 
Sbjct: 181 LERAYQAIVWGRPRTLSGTVDAPLGRATGDRTRRAVKRPDSQDADEAITHYQVIERFHEK 240

Query: 241 SN---FAVSLLKCHLETGRTHQIRVHMAHKGNPLIGDPLYGKGFKTKANIVNNNAKSAIL 297
            +   FA SL++C LETGRTHQIRVHMAH G+PL+GD +YG GFKTKAN++    +  + 
Sbjct: 241 PDATAFA-SLVECRLETGRTHQIRVHMAHIGHPLLGDTVYGAGFKTKANLLPEEIRKVVN 299

Query: 298 SLARQALHAHSLSFSHPRNNQDMDFQVPIPEDMLTVIRKLN 338
              RQALHA  L F HPR  + M F+VP+P+DM+ ++  L 
Sbjct: 300 GFGRQALHAFMLQFEHPRTGEIMHFEVPLPDDMVELVEALR 340