BLASTP 2.2.21 [Jun-14-2009]

Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, 
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), 
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs",  Nucleic Acids Res. 25:3389-3402.

Reference for compositional score matrix adjustment: Altschul, Stephen F., 
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.

Query= 0001.4304.p         (495 letters)

Database: COGmodified 
           192,987 sequences; 59,019,183 total letters

Searching..................................................done



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

RSc2858 [R] COG4324 Predicted aminopeptidase Rso Ralstonia solan...    33   1.8  
STM3638 [NU] COG3188 P pilus assembly protein, porin PapC Sty Sa...    32   2.5  
AGc2956 [R] COG1489 DNA-binding protein, stimulates sugar fermen...    31   7.2  

>RSc2858 [R] COG4324 Predicted aminopeptidase Rso Ralstonia solanacearum
          Length = 384

 Score = 32.7 bits (73), Expect = 1.8,   Method: Compositional matrix adjust.
 Identities = 30/117 (25%), Positives = 54/117 (46%), Gaps = 7/117 (5%)

Query: 231 RVSANISVNRVLLEQAAIDARGLEAAEMTVPFLSRLNLHGMGEVPDDFHAAEDDGTAALK 290
           R  A+ +   V  E A  DAR ++   + + + +RL       V DD   A   G  AL 
Sbjct: 213 RWLADAATPEVRAEYATYDARRVQFRALLLDYRNRLEALYASPVSDDEKRA---GKRALF 269

Query: 291 EIL----ARMFGNDGLLAPVDEYFSRPMSHSDIDLIVNWSQKLQEAYITTRGMGGDW 343
           + L    A++    G  A  D +F++P+S++ + ++ ++ Q +       +  GGDW
Sbjct: 270 DSLRADYAKLKAGWGGYAGYDRWFAQPLSNAHLGVVASYLQWVPAFTALYQRDGGDW 326


>STM3638 [NU] COG3188 P pilus assembly protein, porin PapC Sty Salmonella
           typhimurium LT2
          Length = 842

 Score = 32.3 bits (72), Expect = 2.5,   Method: Compositional matrix adjust.
 Identities = 23/65 (35%), Positives = 32/65 (49%), Gaps = 6/65 (9%)

Query: 222 SSVKESLPARVSANISVN------RVLLEQAAIDARGLEAAEMTVPFLSRLNLHGMGEVP 275
           S+  E LP +   ++ VN      R L  +AA +A+  +  E  VP LSR+ L  MG   
Sbjct: 57  SNKAEHLPGKYRVSVVVNEKKMESRTLEFKAATEAQRAKMGESLVPCLSRVQLEDMGVRI 116

Query: 276 DDFHA 280
           D F A
Sbjct: 117 DSFPA 121


>AGc2956 [R] COG1489 DNA-binding protein, stimulates sugar fermentation Atu
           Agrobacterium tumefaciens strain C58 (Cereon)
          Length = 239

 Score = 30.8 bits (68), Expect = 7.2,   Method: Compositional matrix adjust.
 Identities = 25/74 (33%), Positives = 37/74 (50%), Gaps = 9/74 (12%)

Query: 122 DTPVRLVYRNMLEWVESD----GLNPESSNYQLSAETVFGHTLEVIEGLQRDQVHIYEQN 177
           D+P R  YR+M E VE+D    G+N    N +L+ E +    +  + G    +    EQ 
Sbjct: 57  DSPTR-KYRHMFEMVEADGTVVGINTGMPN-RLAEEAILNGRIPELAGYSTIR---REQK 111

Query: 178 YRKNSGLDKSLSIP 191
           Y +NS +D  LS P
Sbjct: 112 YGRNSRIDFLLSEP 125