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= 0170.0017.p
         (167 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300313473|ref|YP_003777565.1| transcription accessory protein...   278   2e-76
gi|300312983|ref|YP_003777075.1| 30s ribosomal protein S1 [Herba...    59   2e-10

>gi|300313473|ref|YP_003777565.1| transcription accessory protein
           [Herbaspirillum seropedicae SmR1]
          Length = 783

 Score =  278 bits (710), Expect = 2e-76,   Method: Compositional matrix adjust.
 Identities = 146/165 (88%), Positives = 159/165 (96%)

Query: 3   EKKFGVPTVTDILKELEKPGRDPRPEFTTATFKDGVEEIKDLRPDMILEGVVTNVAAFGA 62
           ++KFGVPTVTDILKEL+KPGRDPRPEFTTATFK+GVEEIKDLRPDMILEGVVTNVAAFGA
Sbjct: 619 DEKFGVPTVTDILKELDKPGRDPRPEFTTATFKEGVEEIKDLRPDMILEGVVTNVAAFGA 678

Query: 63  FVDIGVHQDGLVHISALSNTFVKDPHTVVKAGQVVKVKVLEVDEKRKRIALTMRLSDSAP 122
           FVDIGVHQDGLVHISALSNT+VKDPHTVVKAGQVVKVKVLEVDEKRKRIALTMRL+D+AP
Sbjct: 679 FVDIGVHQDGLVHISALSNTYVKDPHTVVKAGQVVKVKVLEVDEKRKRIALTMRLNDTAP 738

Query: 123 AAGSKPEQRGDRNDARRLSQHQGQQSRQAAPANNAMAAAFAKLKG 167
           A G++ EQRGDR D+RRLSQHQ Q+ R+ APANNAMAAAFAKL+G
Sbjct: 739 APGARNEQRGDRTDSRRLSQHQNQRGREQAPANNAMAAAFAKLRG 783


>gi|300312983|ref|YP_003777075.1| 30s ribosomal protein S1
           [Herbaspirillum seropedicae SmR1]
          Length = 585

 Score = 58.9 bits (141), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 29/85 (34%), Positives = 52/85 (61%), Gaps = 1/85 (1%)

Query: 41  IKDLRPDMILEGVVTNVAAFGAFVDIGVHQDGLVHISALSNTFVKDPHTVVKAGQVVKVK 100
           ++ L+   ++ G+V N+  +GAFVD+G   DGL+HI+ L+   V+ P  V+  GQ +  K
Sbjct: 212 METLKEGTVVTGIVKNITDYGAFVDLG-GIDGLLHITDLAWRRVRHPSEVLSVGQEITAK 270

Query: 101 VLEVDEKRKRIALTMRLSDSAPAAG 125
           VL+ D+++ R++L ++     P  G
Sbjct: 271 VLKYDQEKNRVSLGVKQLGDDPWTG 295



 Score = 56.2 bits (134), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 32/74 (43%), Positives = 47/74 (63%), Gaps = 1/74 (1%)

Query: 50  LEGVVTNVAAFGAFVDIGVHQDGLVHISALSNTFVK-DPHTVVKAGQVVKVKVLEVDEKR 108
           L G VTN+  +GAFV++    +GLVH+S +  T     P+ VV+ G  V+V VLE+DE+R
Sbjct: 306 LFGKVTNLTDYGAFVEVEQGIEGLVHVSEMDWTNKNVAPNKVVQLGDEVEVMVLEIDEER 365

Query: 109 KRIALTMRLSDSAP 122
           +RI+L M+     P
Sbjct: 366 RRISLGMKQCKPNP 379


  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
   0.316    0.132    0.366 

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: 425,343
Number of extensions: 13429
Number of successful extensions: 43
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 42
Number of HSP's successfully gapped: 3
Length of query: 167
Length of database: 1,619,870
Length adjustment: 79
Effective length of query: 88
Effective length of database: 1,245,805
Effective search space: 109630840
Effective search space used: 109630840
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 127 (53.5 bits)