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= 0001.1200.p
         (251 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...   309   2e-85
gi|300309495|ref|YP_003773587.1| cytochrome c553 protein [Herbas...   104   6e-24

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

 Score =  309 bits (791), Expect = 2e-85,   Method: Compositional matrix adjust.
 Identities = 154/206 (74%), Positives = 172/206 (83%)

Query: 39  GMSERVAACIACHGQQGRATADGYYPRIAGKPEGYLLHQLQSFRDGRRRYPMMNYLLGNL 98
           GM+ER+AAC ACHG+QGRATADGYYPRIAGKPE YLL+QLQSFRDG+RRYPMMNYLL NL
Sbjct: 44  GMAERMAACTACHGKQGRATADGYYPRIAGKPEAYLLNQLQSFRDGQRRYPMMNYLLANL 103

Query: 99  SDAYLQQIAAFFAAQHPPYPPPVAADASAAVLERGRLLVHQGRPAQGIPACAACHGAELA 158
           SD YLQQIA FFA QHPPYPPP + +ASA VLERGR LV +G P + +PACAACH   L 
Sbjct: 104 SDDYLQQIARFFADQHPPYPPPASNEASATVLERGRRLVTEGDPQRRLPACAACHAPSLG 163

Query: 159 GVQPGIPGLLGLPRDYLTAQLGAWRNGERTAKAPDCMGQIARALSPEDLHAVSSWLSSQP 218
           GVQPGIPGLLGLPRDY+ AQLGAWRNG+RTAK PDCM  +ARALSPE+++A SSWLS+Q 
Sbjct: 164 GVQPGIPGLLGLPRDYINAQLGAWRNGDRTAKTPDCMAAVARALSPEEINAASSWLSAQA 223

Query: 219 VPPTYAPAATLPQALPVQCGSMSAAG 244
           VP  YAPA  LP  LP QCGS   +G
Sbjct: 224 VPADYAPAPALPSPLPQQCGSQPQSG 249


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

 Score =  104 bits (260), Expect = 6e-24,   Method: Compositional matrix adjust.
 Identities = 69/189 (36%), Positives = 102/189 (53%), Gaps = 9/189 (4%)

Query: 29  EPA-GEARVVPGMSER-VAACIACHGQQGRATADGYYPRIAGKPEGYLLHQLQSFRDGRR 86
           +PA GEA    G S R + AC++CHG  G +T     P++AG+ E Y+  QL +FR   R
Sbjct: 36  DPAKGEALYTNGDSARNIVACVSCHGAAGNSTIT-QNPKLAGQHEAYIAKQLLNFRTPDR 94

Query: 87  RYPMMNYLLGNLSDAYLQQIAAFFAAQHPPYPPPVAADASAAVLERGRLLVHQGRPAQGI 146
             P+M+ +   LSD  +  +AAF AAQ    P P AA  +   ++ G+ +   G  A+ +
Sbjct: 95  NNPVMSPMAKALSDEDIHNVAAFLAAQ---APKPGAAK-NKDTIDLGKHIWRAGIAAKNV 150

Query: 147 PACAACHGAELAGVQPGIPGLLGLPRDYLTAQLGAWRNGERTAKAPDCMGQIARALSPED 206
           PACA CH    AG+    P L G  +DY  AQL  +R G RT      M  I+  LS ++
Sbjct: 151 PACAGCHSPNGAGIPAQYPRLAGQHQDYTVAQLTNFRGGARTNSVQ--MTTISERLSDKE 208

Query: 207 LHAVSSWLS 215
           + AV+ +++
Sbjct: 209 IKAVADYIA 217


  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    0.133    0.407 

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: 795,830
Number of extensions: 34143
Number of successful extensions: 185
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 180
Number of HSP's successfully gapped: 2
Length of query: 251
Length of database: 1,619,870
Length adjustment: 83
Effective length of query: 168
Effective length of database: 1,226,865
Effective search space: 206113320
Effective search space used: 206113320
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)