BLASTP 2.2.18 [Mar-02-2008]


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= 0035.0013.p
         (373 letters)

Database: BlastDatabases/689/689 
           4735 sequences; 1,619,870 total letters

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300311210|ref|YP_003775302.1| ribonuclease E protein [Herbasp...   693   0.0  
gi|300312859|ref|YP_003776951.1| cytoplasmic axial filament ribo...   159   5e-40

>gi|300311210|ref|YP_003775302.1| ribonuclease E protein
           [Herbaspirillum seropedicae SmR1]
          Length = 1062

 Score =  693 bits (1789), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 355/453 (78%), Positives = 362/453 (79%), Gaps = 83/453 (18%)

Query: 1   MKRMLFNATQQEELRVAIVDGQKLIDIDIEATGREQRKSNIYKGVITRIEPSLEACFVNY 60
           MKRMLFNATQQEELRVAIVDGQKLIDIDIE TGREQRKSNIYKGVITRIEPSLEACFVNY
Sbjct: 1   MKRMLFNATQQEELRVAIVDGQKLIDIDIETTGREQRKSNIYKGVITRIEPSLEACFVNY 60

Query: 61  GEERHGFLPFKEVARTYFKEGIDVRNASIKEALREGQEIIVQVEKEERGNKGAALTSFIS 120
           GEERHGFLPFKEVAR+YFKEGIDVRNASIKEALREGQEIIVQVEKEERGNKGAALTSFIS
Sbjct: 61  GEERHGFLPFKEVARSYFKEGIDVRNASIKEALREGQEIIVQVEKEERGNKGAALTSFIS 120

Query: 121 LAGRYLVLMPNNPRGGGVSRRVEGEDRQELRETMDKLDL--------------------- 159
           LAGRYLVLMPNNPRGGGVSRRVEGEDRQELRETMDKLDL                     
Sbjct: 121 LAGRYLVLMPNNPRGGGVSRRVEGEDRQELRETMDKLDLPNGMSVIARTAGIGRNVDELQ 180

Query: 160 --------------------XGAFLIYQESSLVIRAIRDYFQPDIGEILIDTDDIHEQAQ 199
                                GAFLIYQESSLVIRAIRDYFQPDIGEILIDTDDIH+QAQ
Sbjct: 181 WDLNYLMQLWRAIEGAGQSASGAFLIYQESSLVIRAIRDYFQPDIGEILIDTDDIHDQAQ 240

Query: 200 QFMAHVMPDMVHRVKRYHDDVPLFSRFQIEHQIETAYSRTVPLPSGGAIVI--------- 250
           QFMAHVMPDMVHRVKRY DDVPLFSRFQIEHQIETAYSRTVPLPSGGAIVI         
Sbjct: 241 QFMAHVMPDMVHRVKRYRDDVPLFSRFQIEHQIETAYSRTVPLPSGGAIVIDHTEALVSV 300

Query: 251 -MENAKNQRE--------------------------------VDFIDMENAKNQREVESR 277
            + +A+  R                                 +DFIDMEN+KNQREVE R
Sbjct: 301 DVNSARATRGSDIETTAFNTNLEAADEVARQLRLRDLGGLIVIDFIDMENSKNQREVEGR 360

Query: 278 LKDALHHDRARVQMGKISRFGLMELSRQRLRPSLSEGSHVTCPRCNGTGHIRDTESSALQ 337
           LKDALHHDRARVQMGKISRFGLMELSRQRLRPSLSEGSHVTCPRCNGTGHIRDTESSALQ
Sbjct: 361 LKDALHHDRARVQMGKISRFGLMELSRQRLRPSLSEGSHVTCPRCNGTGHIRDTESSALQ 420

Query: 338 VLRIIQEEAMKENSAAIHVQAPVDVAAFLLNEK 370
           VLRIIQEEAMKENSAAIHVQAPVDVAAFLLNEK
Sbjct: 421 VLRIIQEEAMKENSAAIHVQAPVDVAAFLLNEK 453


>gi|300312859|ref|YP_003776951.1| cytoplasmic axial filament
           ribonuclease G protein [Herbaspirillum seropedicae SmR1]
          Length = 487

 Score =  159 bits (401), Expect = 5e-40,   Method: Compositional matrix adjust.
 Identities = 122/454 (26%), Positives = 205/454 (45%), Gaps = 87/454 (19%)

Query: 4   MLFNATQQEELRVAIVDGQKLIDIDIEATGREQRKSNIYKGVITRIEPSLEACFVNYGEE 63
           +L N T QE  RVA++    + ++ IE T       NIY G + R+ P +++ F++ G E
Sbjct: 5   ILINITPQET-RVALILQGAVQELHIERTLSRGLAGNIYLGKVVRVLPGMQSAFIDIGLE 63

Query: 64  RHGFLPFKEVARTYFKEGIDVRNASIKEALREGQEIIVQVEKEERGNKGAALTSFISLAG 123
           R  FL   ++      +G +     I++ L +GQ I VQV K+  G KGA L++ IS+AG
Sbjct: 64  RAAFLHVADIWEARSHDGQNTPAIPIEKLLHDGQSITVQVIKDPIGTKGARLSTQISIAG 123

Query: 124 RYLVLMPNNPRGGGVSRRVEGE-DRQELRETMDKL---DLXGAF---------------- 163
           R LV +P + +  G+S+R+E E +R+ LR  +  L   +  G F                
Sbjct: 124 RMLVYLPQD-KHIGISQRIENEAERELLRSKVQALLPPEEKGGFIIRTMAEDASDADLQM 182

Query: 164 -----------------------LIYQESSLVIRAIRDYFQPDIGEILIDTDDIHEQAQQ 200
                                  L++Q+ SL  R +RD+       I +D+ +     Q+
Sbjct: 183 DVEYLRKTWATIVKQGKTNPAPTLLHQDLSLAQRVLRDFVGDHTATIQVDSRENFHMLQE 242

Query: 201 FMAHVMPDMVHRVKRYHDDVPLFSRFQIEHQIETAYSRTVPLPSGGAIVIME-------- 252
           F A   P ++ ++  Y  + PLF  + +E +IE A  R V L SGG +++ +        
Sbjct: 243 FGAIYTPSVLTKLTHYRGERPLFDLYGVEEEIERALGRRVDLKSGGYLIVDQTEAMTTID 302

Query: 253 -------NAKNQRE---------------------------VDFIDMENAKNQREVESRL 278
                  N +N  +                           +DFIDME+ ++++ V + L
Sbjct: 303 VNTGSFVNGRNFDDTIFKTNLEAAHAIARQLRLRNLGGIIILDFIDMESTEHRQAVLAEL 362

Query: 279 KDALHHDRARVQMGKISRFGLMELSRQRLRPSLSEGSHVTCPRCNGTGHIRDTESSALQV 338
             AL  DR ++ +   S  GL+E++R+R R SL+     TCP C G G ++   +   ++
Sbjct: 363 GKALQRDRTKISVSGFSTLGLVEMTRKRTRESLAHILCETCPACKGRGQVKTPRTVCYEI 422

Query: 339 LRIIQEEAMKENSAAIHVQAPVDVAAFLLNEKAK 372
           LR +  EA + N     + A   V    L E+++
Sbjct: 423 LREVMREAKQFNPREFRILASQVVVDMFLEEESQ 456


  Database: BlastDatabases/689/689
    Posted date:  Apr 10, 2011 12:15 AM
  Number of letters in database: 1,619,870
  Number of sequences in database:  4735
  
Lambda     K      H
   0.319    0.135    0.376 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 4735
Number of Hits to DB: 991,885
Number of extensions: 37602
Number of successful extensions: 121
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 121
Number of HSP's successfully gapped: 6
Length of query: 373
Length of database: 1,619,870
Length adjustment: 87
Effective length of query: 286
Effective length of database: 1,207,925
Effective search space: 345466550
Effective search space used: 345466550
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 131 (55.1 bits)