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= 0001.4215.p
         (713 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300313640|ref|YP_003777732.1| primosomal protein N' [Herbaspi...  1226   0.0  

>gi|300313640|ref|YP_003777732.1| primosomal protein N'
           [Herbaspirillum seropedicae SmR1]
          Length = 708

 Score = 1226 bits (3171), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 637/716 (88%), Positives = 663/716 (92%), Gaps = 11/716 (1%)

Query: 1   VEQRLLQVALDTPLHTVFDYRWQAATEDEPIPAIGQLVVVPFGRREAVGVVVGHVAQTEL 60
           +EQR+LQVALDTPLHTVFDY WQA  E E +PAIGQLVVVPFGRREAVGVVVGHV+Q+ L
Sbjct: 1   MEQRILQVALDTPLHTVFDYAWQAQAEGELVPAIGQLVVVPFGRREAVGVVVGHVSQSAL 60

Query: 61  EAGKIKDVIAVRHQLPPLSAHWLALCGFAADYYQRPLGEVMLPGLPKNLRALTTVALDKA 120
           E GKIK VIAVRHQLPPLSAHWLALCGFAADYYQRPLGEVMLPGLPKNLRAL+TVALDKA
Sbjct: 61  EQGKIKQVIAVRHQLPPLSAHWLALCGFAADYYQRPLGEVMLPGLPKNLRALSTVALDKA 120

Query: 121 LKALGRLTAPKKSKARRKTDVHSEVQA---DAPASIPPPDPLQLGAAPPLNAAQQEAVQA 177
           L ALGRL+APKKSKAR K   H E +A    A A   P DP+Q   AP LNAAQQEA  A
Sbjct: 121 LNALGRLSAPKKSKARSKARAHPEDEARQETAAADATPADPMQFAQAPALNAAQQEAADA 180

Query: 178 IAGAQGFAPLLLYGVTGSGKTEVYLQAAAAILQRAAQEAGQSQPGQAAPAQILVLVPEIN 237
           IA A  FAPLLLYGVTGSGKTEVYLQAAAAIL+  A E+G+        AQILVLVPEIN
Sbjct: 181 IAAAHAFAPLLLYGVTGSGKTEVYLQAAAAILR-RAAESGER-------AQILVLVPEIN 232

Query: 238 LTPQLEGNIRARFPHLNVVALHSGLAEGERARNWLAAHLGQAHIVLGTRLAILASLPTLK 297
           LTPQLEGNIRARFPHLNVVALHSGLAEGERARNWLAAHLGQA IVLGTRLAILASLP LK
Sbjct: 233 LTPQLEGNIRARFPHLNVVALHSGLAEGERARNWLAAHLGQAQIVLGTRLAILASLPALK 292

Query: 298 LIVIDEEHDPSYKQQEGLRYSARDLAVWRAHQLGIPVVLGSATPSLETWQHAQAGRYRRL 357
           LIVIDEEHDPSYKQQEGLRYSARDLAVWRAHQLGIPVVLGSATPSLETWQHAQAGRYRRL
Sbjct: 293 LIVIDEEHDPSYKQQEGLRYSARDLAVWRAHQLGIPVVLGSATPSLETWQHAQAGRYRRL 352

Query: 358 ELRQRAAQQAVLPSVKVIDMERDKPVDGLTSTLVAAVRKRLEQGEQSLLFLNRRGYAPVL 417
           ELRQRAA++AVLP+VKVID+ERDKPVDGLT+TL+AAVRKRLEQGEQSLLFLNRRGYAPVL
Sbjct: 353 ELRQRAAREAVLPTVKVIDLERDKPVDGLTATLIAAVRKRLEQGEQSLLFLNRRGYAPVL 412

Query: 418 ACDACGWISNCMRCDAFMVVHRPERRLRCHHCSLELQIPRACPTCGNVDLQPLGRGTQRV 477
           ACDACGWISNCMRCDAFMVVHRPERRLRCHHCSLEL IPRACPTCGNVDLQPLGRGTQRV
Sbjct: 413 ACDACGWISNCMRCDAFMVVHRPERRLRCHHCSLELHIPRACPTCGNVDLQPLGRGTQRV 472

Query: 478 EEGLQAIFPEARVLRIDADSTRLKGSAQSAFDSVHRGEVDILIGTQMVAKGHDFKKLTLV 537
           EEGLQAIFPEARVLRIDADSTRLKGSAQSAFDSVHRGEVDILIGTQMVAKGHDFKKLTLV
Sbjct: 473 EEGLQAIFPEARVLRIDADSTRLKGSAQSAFDSVHRGEVDILIGTQMVAKGHDFKKLTLV 532

Query: 538 GVLNPDTALFSHDYRASERLFAQLMQVAGRAGRAGLSADGSSGEVLIQTRYPHHPLYQAV 597
           GVLNPDTALFSHDYRASERLFAQLMQVAGRAGRAGLSADGSSGEVLIQTRYPHHPLYQAV
Sbjct: 533 GVLNPDTALFSHDYRASERLFAQLMQVAGRAGRAGLSADGSSGEVLIQTRYPHHPLYQAV 592

Query: 598 MRHDYDGFAGDLLQERRQAYFPPFMYQALLRAEARELETAMDFLKEAAHLLEAPAITINE 657
           +RHDYDGFAG+LL+ERRQA+FPPFMYQALLRAEAREL+TAM FLK+AA LLEAPAITINE
Sbjct: 593 IRHDYDGFAGELLEERRQAHFPPFMYQALLRAEARELDTAMAFLKDAATLLEAPAITINE 652

Query: 658 PIPMTLVRVANVERAQLLLECPSRPALQGFLKQWLALLRQVKTRVRWSLEVDPVDI 713
           PIPMTL+RVANVERAQLL+EC SRP LQ FLKQWLALLRQVKTR RWSLEVDPVDI
Sbjct: 653 PIPMTLMRVANVERAQLLIECASRPVLQAFLKQWLALLRQVKTRARWSLEVDPVDI 708


  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
   0.321    0.136    0.403 

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: 2,130,448
Number of extensions: 86280
Number of successful extensions: 287
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 285
Number of HSP's successfully gapped: 1
Length of query: 713
Length of database: 1,619,870
Length adjustment: 92
Effective length of query: 621
Effective length of database: 1,184,250
Effective search space: 735419250
Effective search space used: 735419250
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 (21.9 bits)
S2: 134 (56.2 bits)