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= 0001.3597.p
         (101 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300312982|ref|YP_003777074.1| integration host factor subunit...   204   1e-54
gi|300311300|ref|YP_003775392.1| integration host factor alpha-s...    66   4e-13
gi|300309668|ref|YP_003773760.1| HU histone family DNA-binding p...    57   2e-10

>gi|300312982|ref|YP_003777074.1| integration host factor subunit
           beta [Herbaspirillum seropedicae SmR1]
          Length = 101

 Score =  204 bits (519), Expect = 1e-54,   Method: Compositional matrix adjust.
 Identities = 101/101 (100%), Positives = 101/101 (100%)

Query: 1   MTKSELIARLAERYPQLVAKDADYAVKTILDAMVDALATGQRIEIRGFGSFALNRRPPRI 60
           MTKSELIARLAERYPQLVAKDADYAVKTILDAMVDALATGQRIEIRGFGSFALNRRPPRI
Sbjct: 1   MTKSELIARLAERYPQLVAKDADYAVKTILDAMVDALATGQRIEIRGFGSFALNRRPPRI 60

Query: 61  GRNPKSGDKVMVPEKRVPHFKPGKELRERVDAMVGQPIRED 101
           GRNPKSGDKVMVPEKRVPHFKPGKELRERVDAMVGQPIRED
Sbjct: 61  GRNPKSGDKVMVPEKRVPHFKPGKELRERVDAMVGQPIRED 101


>gi|300311300|ref|YP_003775392.1| integration host factor
           alpha-subunit [Herbaspirillum seropedicae SmR1]
          Length = 104

 Score = 66.2 bits (160), Expect = 4e-13,   Method: Compositional matrix adjust.
 Identities = 35/98 (35%), Positives = 60/98 (61%), Gaps = 1/98 (1%)

Query: 1   MTKSELIARLAERYPQLVAKDADYAVKTILDAMVDALATGQRIEIRGFGSFALNRRPPRI 60
           +TK+EL   L E+   L  ++A   V+T  D + +AL  G+ +++ GFG+F L  +P R 
Sbjct: 4   LTKAELAELLFEQV-GLNKREAKDMVETFFDEIRNALERGEAVKLSGFGNFQLRDKPQRP 62

Query: 61  GRNPKSGDKVMVPEKRVPHFKPGKELRERVDAMVGQPI 98
           GRNPK+G+++ +  +RV  F   ++L+E V+   G P+
Sbjct: 63  GRNPKTGEEIPITARRVVTFHASQKLKEMVELSSGSPV 100


>gi|300309668|ref|YP_003773760.1| HU histone family DNA-binding
           protein [Herbaspirillum seropedicae SmR1]
          Length = 115

 Score = 57.0 bits (136), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 26/91 (28%), Positives = 52/91 (57%), Gaps = 1/91 (1%)

Query: 1   MTKSELIARLAERYPQLVAKDADYAVKTILDAMVDALATGQRIEIRGFGSFALNRRPPRI 60
           + KSEL+  +A    ++    A  A+ ++++ ++ A+  G  +++ GFGSF+  +R  R 
Sbjct: 22  VNKSELVDVIAAD-TEISKAAAQRALDSVIENIIKAVTKGDTVQLVGFGSFSTGKRAART 80

Query: 61  GRNPKSGDKVMVPEKRVPHFKPGKELRERVD 91
           GRNP++G+++ +       F  GK  +E V+
Sbjct: 81  GRNPQTGEEIKIAAATTVKFSAGKAFKEAVN 111


  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
   0.320    0.138    0.391 

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: 328,303
Number of extensions: 12683
Number of successful extensions: 37
Number of sequences better than 1.0e-08: 3
Number of HSP's gapped: 37
Number of HSP's successfully gapped: 3
Length of query: 101
Length of database: 1,619,870
Length adjustment: 70
Effective length of query: 31
Effective length of database: 1,288,420
Effective search space: 39941020
Effective search space used: 39941020
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: 123 (52.0 bits)