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= 0001.2996.p
         (68 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300312332|ref|YP_003776424.1| cold shock-like transcription r...   139   3e-35
gi|300310729|ref|YP_003774821.1| cold-shock DNA-binding domain-c...   119   4e-29
gi|300309840|ref|YP_003773932.1| cold-shock transcription regula...   100   3e-23

>gi|300312332|ref|YP_003776424.1| cold shock-like transcription
          regulator protein [Herbaspirillum seropedicae SmR1]
          Length = 68

 Score =  139 bits (351), Expect = 3e-35,   Method: Compositional matrix adjust.
 Identities = 68/68 (100%), Positives = 68/68 (100%)

Query: 1  MATGTVKWFNDAKGFGFITPDEGGEDLFAHFSAIQSNGFKSLKENQRVSFEVTTGPKGKQ 60
          MATGTVKWFNDAKGFGFITPDEGGEDLFAHFSAIQSNGFKSLKENQRVSFEVTTGPKGKQ
Sbjct: 1  MATGTVKWFNDAKGFGFITPDEGGEDLFAHFSAIQSNGFKSLKENQRVSFEVTTGPKGKQ 60

Query: 61 ASNIVPAA 68
          ASNIVPAA
Sbjct: 61 ASNIVPAA 68


>gi|300310729|ref|YP_003774821.1| cold-shock DNA-binding
          domain-containing protein [Herbaspirillum seropedicae
          SmR1]
          Length = 68

 Score =  119 bits (298), Expect = 4e-29,   Method: Compositional matrix adjust.
 Identities = 57/68 (83%), Positives = 62/68 (91%)

Query: 1  MATGTVKWFNDAKGFGFITPDEGGEDLFAHFSAIQSNGFKSLKENQRVSFEVTTGPKGKQ 60
          MATGTVKWFND+KGFGFITPD+GGEDLFAHFSAIQ NGFK+LKE Q+V F+VT GPKGKQ
Sbjct: 1  MATGTVKWFNDSKGFGFITPDDGGEDLFAHFSAIQMNGFKTLKEGQKVQFDVTQGPKGKQ 60

Query: 61 ASNIVPAA 68
          ASNI  AA
Sbjct: 61 ASNIQNAA 68


>gi|300309840|ref|YP_003773932.1| cold-shock transcription
          regulator protein [Herbaspirillum seropedicae SmR1]
          Length = 70

 Score =  100 bits (248), Expect = 3e-23,   Method: Compositional matrix adjust.
 Identities = 46/62 (74%), Positives = 52/62 (83%)

Query: 3  TGTVKWFNDAKGFGFITPDEGGEDLFAHFSAIQSNGFKSLKENQRVSFEVTTGPKGKQAS 62
          TG VKWFNDAKGFGFITPD GG D+FAHF  IQS GF+SL ENQRVSF+   GPKG++A+
Sbjct: 5  TGVVKWFNDAKGFGFITPDAGGADVFAHFQDIQSTGFRSLSENQRVSFDRGVGPKGEKAT 64

Query: 63 NI 64
          NI
Sbjct: 65 NI 66


  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
   0.314    0.132    0.389 

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: 221,142
Number of extensions: 6596
Number of successful extensions: 10
Number of sequences better than 1.0e-08: 3
Number of HSP's gapped: 10
Number of HSP's successfully gapped: 3
Length of query: 68
Length of database: 1,619,870
Length adjustment: 40
Effective length of query: 28
Effective length of database: 1,430,470
Effective search space: 40053160
Effective search space used: 40053160
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: 42 (22.0 bits)
S2: 123 (52.0 bits)