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= 0515.0020.p
         (65 letters)

Database: pfamseq 
           9,421,015 sequences; 3,060,696,203 total letters

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

B3K7F1.1 B3K7F1_9BACI Cold-shock protein DNA-binding                  124   4e-27
B1DE96.1 B1DE96_9BACL Cold-shock DNA-binding domain protein           120   3e-26
Q9K6W4.1 Q9K6W4_BACHD Cold-shock protein                              119   1e-25
Q5WDF6.1 Q5WDF6_BACSK Cold shock protein CspC                         115   1e-24
A5CYJ3.1 A5CYJ3_PELTS Cold shock proteins                             115   1e-24

>B3K7F1.1 B3K7F1_9BACI Cold-shock protein DNA-binding
          Length = 65

 Score =  124 bits (310), Expect = 4e-27,   Method: Compositional matrix adjust.
 Identities = 59/65 (90%), Positives = 64/65 (98%)

Query: 1  MEGKVKWFNAEKGYGFIETADGGDVFVHFSAIQTDGFKTLDEGQSVEFDIVEGARGPQAA 60
          M+GKVKWFNAEKGYGFIET DGGDVFVHFSAIQ++GFKTL+EGQSVEF+IVEGARGPQAA
Sbjct: 1  MQGKVKWFNAEKGYGFIETEDGGDVFVHFSAIQSEGFKTLEEGQSVEFEIVEGARGPQAA 60

Query: 61 NVIKL 65
          NVIKL
Sbjct: 61 NVIKL 65


>B1DE96.1 B1DE96_9BACL Cold-shock DNA-binding domain protein
          Length = 65

 Score =  120 bits (302), Expect = 3e-26,   Method: Compositional matrix adjust.
 Identities = 57/65 (87%), Positives = 62/65 (95%)

Query: 1  MEGKVKWFNAEKGYGFIETADGGDVFVHFSAIQTDGFKTLDEGQSVEFDIVEGARGPQAA 60
          M+GKVKWFNAEKGYGFIET  GGDVFVHFSAIQ +GFKTL+EGQ+VEFDIVEGARGPQAA
Sbjct: 1  MQGKVKWFNAEKGYGFIETEQGGDVFVHFSAIQAEGFKTLEEGQAVEFDIVEGARGPQAA 60

Query: 61 NVIKL 65
          NV+KL
Sbjct: 61 NVVKL 65


>Q9K6W4.1 Q9K6W4_BACHD Cold-shock protein
          Length = 65

 Score =  119 bits (298), Expect = 1e-25,   Method: Compositional matrix adjust.
 Identities = 58/65 (89%), Positives = 60/65 (92%)

Query: 1  MEGKVKWFNAEKGYGFIETADGGDVFVHFSAIQTDGFKTLDEGQSVEFDIVEGARGPQAA 60
          M+GKVKWFNAEKG+GFIE  DG DVFVHFSAI TDGFKTLDEGQSVEFDIVEGARGPQAA
Sbjct: 1  MQGKVKWFNAEKGFGFIEREDGDDVFVHFSAINTDGFKTLDEGQSVEFDIVEGARGPQAA 60

Query: 61 NVIKL 65
          NV KL
Sbjct: 61 NVTKL 65


>Q5WDF6.1 Q5WDF6_BACSK Cold shock protein CspC
          Length = 65

 Score =  115 bits (288), Expect = 1e-24,   Method: Compositional matrix adjust.
 Identities = 55/65 (84%), Positives = 60/65 (92%)

Query: 1  MEGKVKWFNAEKGYGFIETADGGDVFVHFSAIQTDGFKTLDEGQSVEFDIVEGARGPQAA 60
          M+GKVKWFNAEKG+GFIE  DG DVFVHFSAI +DGFKTLDEGQ VEF+IVEGARGPQAA
Sbjct: 1  MQGKVKWFNAEKGFGFIEREDGDDVFVHFSAINSDGFKTLDEGQDVEFEIVEGARGPQAA 60

Query: 61 NVIKL 65
          NV+KL
Sbjct: 61 NVVKL 65


>A5CYJ3.1 A5CYJ3_PELTS Cold shock proteins
          Length = 65

 Score =  115 bits (287), Expect = 1e-24,   Method: Compositional matrix adjust.
 Identities = 57/65 (87%), Positives = 58/65 (89%)

Query: 1  MEGKVKWFNAEKGYGFIETADGGDVFVHFSAIQTDGFKTLDEGQSVEFDIVEGARGPQAA 60
          M GKVKWFN EKGYGFIE  DGGDVFVHFSAIQ +GFKTL EGQ VEFDIVEGARGPQAA
Sbjct: 1  MLGKVKWFNQEKGYGFIEREDGGDVFVHFSAIQEEGFKTLAEGQKVEFDIVEGARGPQAA 60

Query: 61 NVIKL 65
          NVIKL
Sbjct: 61 NVIKL 65


  Database: pfamseq
    Posted date:  Aug 5, 2010  3:22 PM
  Number of letters in database: 3,060,696,203
  Number of sequences in database:  9,421,015
  
Lambda     K      H
   0.317    0.138    0.409 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 9421015
Number of Hits to DB: 401,134,822
Number of extensions: 12992507
Number of successful extensions: 34347
Number of sequences better than 1.0e-05: 4240
Number of HSP's gapped: 32067
Number of HSP's successfully gapped: 4274
Length of query: 65
Length of database: 3,060,696,203
Length adjustment: 37
Effective length of query: 28
Effective length of database: 2,712,118,648
Effective search space: 75939322144
Effective search space used: 75939322144
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: 125 (52.8 bits)