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= 0029.0144.p
         (117 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300310946|ref|YP_003775038.1| periplasmic cytochrome c553 pro...   236   3e-64
gi|300309495|ref|YP_003773587.1| cytochrome c553 protein [Herbas...    58   2e-10
gi|300310945|ref|YP_003775037.1| periplasmic cytochrome c553 pro...    57   3e-10

>gi|300310946|ref|YP_003775038.1| periplasmic cytochrome c553
           protein [Herbaspirillum seropedicae SmR1]
          Length = 117

 Score =  236 bits (603), Expect = 3e-64,   Method: Compositional matrix adjust.
 Identities = 116/117 (99%), Positives = 116/117 (99%)

Query: 1   MKKNLITLCLLAAATLCAQAANAADVANGRALTEKYNCASCHGKDYNSPTEPAYPKLAGQ 60
           MKKNLITLCLLAAATLC QAANAADVANGRALTEKYNCASCHGKDYNSPTEPAYPKLAGQ
Sbjct: 1   MKKNLITLCLLAAATLCTQAANAADVANGRALTEKYNCASCHGKDYNSPTEPAYPKLAGQ 60

Query: 61  HADYLKHALTAYRRGNTAMNGRNNAIMSAQAKPLSDRDINDIAAYLHSLPGSLVVRK 117
           HADYLKHALTAYRRGNTAMNGRNNAIMSAQAKPLSDRDINDIAAYLHSLPGSLVVRK
Sbjct: 61  HADYLKHALTAYRRGNTAMNGRNNAIMSAQAKPLSDRDINDIAAYLHSLPGSLVVRK 117


>gi|300309495|ref|YP_003773587.1| cytochrome c553 protein
           [Herbaspirillum seropedicae SmR1]
          Length = 220

 Score = 57.8 bits (138), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 35/79 (44%), Positives = 44/79 (55%), Gaps = 6/79 (7%)

Query: 28  NGRALTEKYNCASCHGKDYNSPTEPAYPKLAGQHADYLKHALTAYRRGNTAMNGRNNAIM 87
           NG +      C SCHG   NS T    PKLAGQH  Y+   L  +R  +     RNN +M
Sbjct: 46  NGDSARNIVACVSCHGAAGNS-TITQNPKLAGQHEAYIAKQLLNFRTPD-----RNNPVM 99

Query: 88  SAQAKPLSDRDINDIAAYL 106
           S  AK LSD DI+++AA+L
Sbjct: 100 SPMAKALSDEDIHNVAAFL 118


>gi|300310945|ref|YP_003775037.1| periplasmic cytochrome c553
           protein [Herbaspirillum seropedicae SmR1]
          Length = 106

 Score = 57.4 bits (137), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 43/110 (39%), Positives = 58/110 (52%), Gaps = 14/110 (12%)

Query: 1   MKKNLITLCLLAAATLCAQAANAAD-VANGRALTEKYN-CASCHG-KDYNSPTEPAY--P 55
           MKK+L+ L L+        +A+AAD V N +A   K + C  CHG   Y +     Y  P
Sbjct: 1   MKKHLVFLALVGVVG----SASAADIVGNAKAAENKVSMCIGCHGIPGYKASYPEVYQVP 56

Query: 56  KLAGQHADYLKHALTAYRRGNTAMNGRNNAIMSAQAKPLSDRDINDIAAY 105
            L GQ A Y++ AL AY++G      R +  M   A  LSD+DI D+AAY
Sbjct: 57  MLGGQSAAYIESALRAYQKGE-----RKHPSMMGVAASLSDQDIADLAAY 101


  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    0.128    0.375 

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: 290,075
Number of extensions: 10129
Number of successful extensions: 46
Number of sequences better than 1.0e-08: 3
Number of HSP's gapped: 46
Number of HSP's successfully gapped: 3
Length of query: 117
Length of database: 1,619,870
Length adjustment: 74
Effective length of query: 43
Effective length of database: 1,269,480
Effective search space: 54587640
Effective search space used: 54587640
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 (21.7 bits)
S2: 124 (52.4 bits)