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= 0012.0140.p
         (253 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...   195   3e-51
gi|300309495|ref|YP_003773587.1| cytochrome c553 protein [Herbas...    94   7e-21

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

 Score =  195 bits (496), Expect = 3e-51,   Method: Compositional matrix adjust.
 Identities = 101/201 (50%), Positives = 129/201 (64%)

Query: 52  MEARMQACVTCHGQQGQGTSDEYFPRIAGKPAAYLYNQLLAFREGRRVYPPMNYLVSYLP 111
           M  RM AC  CHG+QG+ T+D Y+PRIAGKP AYL NQL +FR+G+R YP MNYL++ L 
Sbjct: 45  MAERMAACTACHGKQGRATADGYYPRIAGKPEAYLLNQLQSFRDGQRRYPMMNYLLANLS 104

Query: 112 DAYLKEIADYFAAQRPAFETTAARPLSAPMAERGRTLVQQGDAAHGIPACVACHGKQLTG 171
           D YL++IA +FA Q P +   A+   SA + ERGR LV +GD    +PAC ACH   L G
Sbjct: 105 DDYLQQIARFFADQHPPYPPPASNEASATVLERGRRLVTEGDPQRRLPACAACHAPSLGG 164

Query: 172 MLPGIPGLAGLKPAYIAGQLTRWRVGERVAAEPDCMKRIATRLTDSDISAVAGWLAQQPA 231
           + PGIPGL GL   YI  QL  WR G+R A  PDCM  +A  L+  +I+A + WL+ Q  
Sbjct: 165 VQPGIPGLLGLPRDYINAQLGAWRNGDRTAKTPDCMAAVARALSPEEINAASSWLSAQAV 224

Query: 232 PDNAAPEASNLIRMPLACGSQ 252
           P + AP  +    +P  CGSQ
Sbjct: 225 PADYAPAPALPSPLPQQCGSQ 245


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

 Score = 94.4 bits (233), Expect = 7e-21,   Method: Compositional matrix adjust.
 Identities = 61/173 (35%), Positives = 89/173 (51%), Gaps = 7/173 (4%)

Query: 55  RMQACVTCHGQQGQGTSDEYFPRIAGKPAAYLYNQLLAFREGRRVYPPMNYLVSYLPDAY 114
            + ACV+CHG  G  T  +  P++AG+  AY+  QLL FR   R  P M+ +   L D  
Sbjct: 52  NIVACVSCHGAAGNSTITQN-PKLAGQHEAYIAKQLLNFRTPDRNNPVMSPMAKALSDED 110

Query: 115 LKEIADYFAAQRPAFETTAARPLSAPMAERGRTLVQQGDAAHGIPACVACHGKQLTGMLP 174
           +  +A + AAQ P  +  AA+  +    + G+ + + G AA  +PAC  CH     G+  
Sbjct: 111 IHNVAAFLAAQAP--KPGAAK--NKDTIDLGKHIWRAGIAAKNVPACAGCHSPNGAGIPA 166

Query: 175 GIPGLAGLKPAYIAGQLTRWRVGERVAAEPDCMKRIATRLTDSDISAVAGWLA 227
             P LAG    Y   QLT +R G R  +    M  I+ RL+D +I AVA ++A
Sbjct: 167 QYPRLAGQHQDYTVAQLTNFRGGARTNSVQ--MTTISERLSDKEIKAVADYIA 217



 Score = 60.8 bits (146), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 39/102 (38%), Positives = 51/102 (50%), Gaps = 4/102 (3%)

Query: 144 RGRTLVQQGDAAHGIPACVACHGKQLTGMLPGIPGLAGLKPAYIAGQLTRWRVGERVAAE 203
           +G  L   GD+A  I ACV+CHG      +   P LAG   AYIA QL  +R  +R    
Sbjct: 39  KGEALYTNGDSARNIVACVSCHGAAGNSTITQNPKLAGQHEAYIAKQLLNFRTPDR---N 95

Query: 204 PDCMKRIATRLTDSDISAVAGWLAQQPAPDNAAPEASNLIRM 245
              M  +A  L+D DI  VA +LA Q AP   A +  + I +
Sbjct: 96  NPVMSPMAKALSDEDIHNVAAFLAAQ-APKPGAAKNKDTIDL 136


  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
   0.321    0.133    0.408 

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: 805,782
Number of extensions: 34056
Number of successful extensions: 153
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 149
Number of HSP's successfully gapped: 3
Length of query: 253
Length of database: 1,619,870
Length adjustment: 83
Effective length of query: 170
Effective length of database: 1,226,865
Effective search space: 208567050
Effective search space used: 208567050
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 (21.9 bits)
S2: 129 (54.3 bits)