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= 0013.0243.p
         (633 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...   985   0.0  

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

 Score =  985 bits (2546), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 491/660 (74%), Positives = 549/660 (83%), Gaps = 29/660 (4%)

Query: 3   GLIIGLAEQTDVPDGKLKDVLAVRSQLAPLPPQWLALCGFAADYYQRPLGEVALPGLPKN 62
           G+++G   Q+ +  GK+K V+AVR QL PL   WLALCGFAADYYQRPLGEV LPGLPKN
Sbjct: 49  GVVVGHVSQSALEQGKIKQVIAVRHQLPPLSAHWLALCGFAADYYQRPLGEVMLPGLPKN 108

Query: 63  LRTLTTTALDRALKKLAKLDAGHDGNPVNTPQLKPEQQ----------EAVDAIAGAQGF 112
           LR L+T ALD+AL  L +L A       +  +  PE +             D +  AQ  
Sbjct: 109 LRALSTVALDKALNALGRLSAPKKSKARSKARAHPEDEARQETAAADATPADPMQFAQAP 168

Query: 113 A-------------------PLLLYGVTGSGKTEVYLQAAARILAQHEAAGEVAQVLVLV 153
           A                   PLLLYGVTGSGKTEVYLQAAA IL +   +GE AQ+LVLV
Sbjct: 169 ALNAAQQEAADAIAAAHAFAPLLLYGVTGSGKTEVYLQAAAAILRRAAESGERAQILVLV 228

Query: 154 PEINLTPQLESNIRARFPGVHVVSLHSGLAEGERTLSWLAAHQGQARIVLGTRLAILSSL 213
           PEINLTPQLE NIRARFP ++VV+LHSGLAEGER  +WLAAH GQA+IVLGTRLAIL+SL
Sbjct: 229 PEINLTPQLEGNIRARFPHLNVVALHSGLAEGERARNWLAAHLGQAQIVLGTRLAILASL 288

Query: 214 PHLKLIVIDEEHDPSYKQQEGLRYSARDLAVWRAHQLAIPVVLGSATPSLETWQHAQAGR 273
           P LKLIVIDEEHDPSYKQQEGLRYSARDLAVWRAHQL IPVVLGSATPSLETWQHAQAGR
Sbjct: 289 PALKLIVIDEEHDPSYKQQEGLRYSARDLAVWRAHQLGIPVVLGSATPSLETWQHAQAGR 348

Query: 274 YRKLQLRERAVRDAVLPKVKMIDMERDRPNDGLTSTLVAALKLRLERGEQSLLFLNRRGY 333
           YR+L+LR+RA R+AVLP VK+ID+ERD+P DGLT+TL+AA++ RLE+GEQSLLFLNRRGY
Sbjct: 349 YRRLELRQRAAREAVLPTVKVIDLERDKPVDGLTATLIAAVRKRLEQGEQSLLFLNRRGY 408

Query: 334 APVLNCDACGWISNCMRCTSFMVLHKPERRLRCHHCSLELYIPKACPTCGNVDLQPLGRG 393
           APVL CDACGWISNCMRC +FMV+H+PERRLRCHHCSLEL+IP+ACPTCGNVDLQPLGRG
Sbjct: 409 APVLACDACGWISNCMRCDAFMVVHRPERRLRCHHCSLELHIPRACPTCGNVDLQPLGRG 468

Query: 394 TQRVEEGLQAMFPEARILRIDADSTRLKGSAQNAFDSVHRGDVDILIGTQMVAKGHDFKR 453
           TQRVEEGLQA+FPEAR+LRIDADSTRLKGSAQ+AFDSVHRG+VDILIGTQMVAKGHDFK+
Sbjct: 469 TQRVEEGLQAIFPEARVLRIDADSTRLKGSAQSAFDSVHRGEVDILIGTQMVAKGHDFKK 528

Query: 454 LTLVGVMNPDTALFSHDYRASERLFAQLMQVAGRAGRAGQKEGGSPSEVLIQSRYPHHPL 513
           LTLVGV+NPDTALFSHDYRASERLFAQLMQVAGRAGRAG    GS  EVLIQ+RYPHHPL
Sbjct: 529 LTLVGVLNPDTALFSHDYRASERLFAQLMQVAGRAGRAGLSADGSSGEVLIQTRYPHHPL 588

Query: 514 YSAVAAHDYDGFATQLLEERRQAALPPFLYQALLRAEAAELDVALAFLQDAAACLEHPGI 573
           Y AV  HDYDGFA +LLEERRQA  PPF+YQALLRAEA ELD A+AFL+DAA  LE P I
Sbjct: 589 YQAVIRHDYDGFAGELLEERRQAHFPPFMYQALLRAEARELDTAMAFLKDAATLLEAPAI 648

Query: 574 TINDPIPMTMTRVANVERAQLLVECPSRPALQAFLRDWMEVLRQTKTRAKWSLEVDPVDI 633
           TIN+PIPMT+ RVANVERAQLL+EC SRP LQAFL+ W+ +LRQ KTRA+WSLEVDPVDI
Sbjct: 649 TINEPIPMTLMRVANVERAQLLIECASRPVLQAFLKQWLALLRQVKTRARWSLEVDPVDI 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    0.404 

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: 1,968,111
Number of extensions: 81967
Number of successful extensions: 245
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 245
Number of HSP's successfully gapped: 1
Length of query: 633
Length of database: 1,619,870
Length adjustment: 91
Effective length of query: 542
Effective length of database: 1,188,985
Effective search space: 644429870
Effective search space used: 644429870
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: 133 (55.8 bits)