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= 0002.0605.p
         (225 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300310720|ref|YP_003774812.1| cytochrome c553 protein [Herbas...   261   4e-71
gi|300309495|ref|YP_003773587.1| cytochrome c553 protein [Herbas...   100   1e-22

>gi|300310720|ref|YP_003774812.1| cytochrome c553 protein
           [Herbaspirillum seropedicae SmR1]
          Length = 252

 Score =  261 bits (667), Expect = 4e-71,   Method: Compositional matrix adjust.
 Identities = 128/203 (63%), Positives = 154/203 (75%)

Query: 23  IAQRVAACTACHGKEGRASSDGYYPRIAGKPEGYLYNQLTNFRDGNRQYPLMTYLLDHLS 82
           +A+R+AACTACHGK+GRA++DGYYPRIAGKPE YL NQL +FRDG R+YP+M YLL +LS
Sbjct: 45  MAERMAACTACHGKQGRATADGYYPRIAGKPEAYLLNQLQSFRDGQRRYPMMNYLLANLS 104

Query: 83  DAYLHEIAAYFSAQHPPYPAPQPVEATPAVLERGRALVMNGDSSKKVPACIACHGQALTG 142
           D YL +IA +F+ QHPPYP P   EA+  VLERGR LV  GD  +++PAC ACH  +L G
Sbjct: 105 DDYLQQIARFFADQHPPYPPPASNEASATVLERGRRLVTEGDPQRRLPACAACHAPSLGG 164

Query: 143 VAPAVPGLIGLPRDYINSQFGAWRNGVRRARAPDCMAQITQRLSLEDINAASSWLAAQTV 202
           V P +PGL+GLPRDYIN+Q GAWRNG R A+ PDCMA + + LS E+INAASSWL+AQ V
Sbjct: 165 VQPGIPGLLGLPRDYINAQLGAWRNGDRTAKTPDCMAAVARALSPEEINAASSWLSAQAV 224

Query: 203 PEGARPAAATTVKLPLPCGSVAQ 225
           P    PA A    LP  CGS  Q
Sbjct: 225 PADYAPAPALPSPLPQQCGSQPQ 247


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

 Score =  100 bits (248), Expect = 1e-22,   Method: Compositional matrix adjust.
 Identities = 60/176 (34%), Positives = 94/176 (53%), Gaps = 9/176 (5%)

Query: 24  AQRVAACTACHGKEGRASSDGYYPRIAGKPEGYLYNQLTNFRDGNRQYPLMTYLLDHLSD 83
           A+ + AC +CHG  G  S+    P++AG+ E Y+  QL NFR  +R  P+M+ +   LSD
Sbjct: 50  ARNIVACVSCHGAAGN-STITQNPKLAGQHEAYIAKQLLNFRTPDRNNPVMSPMAKALSD 108

Query: 84  AYLHEIAAYFSAQHPPYPAPQPVEA-TPAVLERGRALVMNGDSSKKVPACIACHGQALTG 142
             +H +AA+ +AQ     AP+P  A     ++ G+ +   G ++K VPAC  CH     G
Sbjct: 109 EDIHNVAAFLAAQ-----APKPGAAKNKDTIDLGKHIWRAGIAAKNVPACAGCHSPNGAG 163

Query: 143 VAPAVPGLIGLPRDYINSQFGAWRNGVRRARAPDCMAQITQRLSLEDINAASSWLA 198
           +    P L G  +DY  +Q   +R G R       M  I++RLS ++I A + ++A
Sbjct: 164 IPAQYPRLAGQHQDYTVAQLTNFRGGARTNSVQ--MTTISERLSDKEIKAVADYIA 217



 Score = 57.8 bits (138), Expect = 7e-10,   Method: Compositional matrix adjust.
 Identities = 43/125 (34%), Positives = 60/125 (48%), Gaps = 10/125 (8%)

Query: 86  LHEIAAYF----SAQHPPYPAPQPVEATPAVLERGRALVMNGDSSKKVPACIACHGQALT 141
           L+ + A F    S  H       PV+A PA   +G AL  NGDS++ + AC++CHG A  
Sbjct: 9   LYSVFAAFLAVASTAHAADDKKAPVKADPA---KGEALYTNGDSARNIVACVSCHGAAGN 65

Query: 142 GVAPAVPGLIGLPRDYINSQFGAWRNGVRRARAPDCMAQITQRLSLEDINAASSWLAAQT 201
                 P L G    YI  Q   +R   R       M+ + + LS EDI+  +++LAAQ 
Sbjct: 66  STITQNPKLAGQHEAYIAKQLLNFRTPDRN---NPVMSPMAKALSDEDIHNVAAFLAAQA 122

Query: 202 VPEGA 206
              GA
Sbjct: 123 PKPGA 127


  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
   0.319    0.132    0.412 

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: 828,907
Number of extensions: 36609
Number of successful extensions: 135
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 126
Number of HSP's successfully gapped: 3
Length of query: 225
Length of database: 1,619,870
Length adjustment: 82
Effective length of query: 143
Effective length of database: 1,231,600
Effective search space: 176118800
Effective search space used: 176118800
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: 129 (54.3 bits)