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= 0004.0116.p
         (708 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300310659|ref|YP_003774751.1| aerobic-type carbon monoxide de...   213   6e-56

>gi|300310659|ref|YP_003774751.1| aerobic-type carbon monoxide
           dehydrogenase large subunit [Herbaspirillum seropedicae
           SmR1]
          Length = 759

 Score =  213 bits (541), Expect = 6e-56,   Method: Compositional matrix adjust.
 Identities = 206/749 (27%), Positives = 336/749 (44%), Gaps = 61/749 (8%)

Query: 4   TRRDFLKATALVGGGLTLGVSLPGAVSVSQAAGTLHTPNAWVHIADDNTITLISARSEMG 63
           +R D L  T     G+      PGA S    +     P+ +V I  +  +   +   ++G
Sbjct: 20  SRSDVLLVTRAPQPGVKPAPGQPGAAS----SYVQPLPDVFVAILGEGQVLAFNGHVDLG 75

Query: 64  QGVYTSMPMLIAEELGVDIRKIKVEIAPVGEVYTNALLGGQLTGGSTSVRDGWEKLRVAG 123
            G+ TS+  ++AEEL + + ++ + +      +T        T  S +++     LR A 
Sbjct: 76  TGIRTSLAQIVAEELSLSMEQVSMILG-----HTEEAPNQGPTIASATIQISAMPLRKAA 130

Query: 124 AQVRTMLVAAAAQKWNVDAATLTAGDGKVTGP--GGRKATYGELADAASKLPV--PKDVV 179
           AQ R  L+A AA +W      L    G +      GR  +Y EL      +    P +V 
Sbjct: 131 AQAREHLLAMAAARWATPVGRLRVEAGCIIDADVAGRTISYFELLRGQRIVLTLEPGEVP 190

Query: 180 LKDPKDFKIIGKPTKRLDTPRKVNGTAVFGIDVKLPGMVYASLEQCP--------VIGGK 231
           LK    + ++G+ ++R+D P KV    V+  DV++PGM++  + + P         +G  
Sbjct: 191 LKPVSQYTLVGRSSQRVDIPAKVRAQPVYVHDVRVPGMLHGRVVRPPHPGRDGGDFVGRS 250

Query: 232 VVSFDASKAKTMPGVIDVVQIRDGVAVVADSYWRAKKAREAVTVAWDEGAGAAIDNASMM 291
           +++ D      +PG++ VV   D + VVA+   +A++A   + V W      +I     M
Sbjct: 251 LLAVDRQSVAHIPGLVAVVVEGDFIGVVAEREEQAQRAMRELKVQWK-----SIPPLPPM 305

Query: 292 DGI----RNAKDAPTPIKKTGDADAAMKSAARTMQAEYWSPLLAHATMEPQNFTADFNAK 347
           D +    R+       + + GD DAA  SAA  ++  Y  P   HA++ P    AD+   
Sbjct: 306 DDLEARLRSLPARRRELVRQGDPDAASASAAGHIERTYVWPYQLHASIGPSCAVADWR-P 364

Query: 348 DGKCLVIGPAQFQQGTQGNVAAAVGLKPEDVTVQTTFLGGGFGRRLEYDFAVQAAQISKA 407
           +G  +  G  Q     + +++    L    + V      G +GR    D    AA +S+A
Sbjct: 365 EGLTVWSG-TQNPHVMRIDLSRLCDLDEGSIEVIRLEASGCYGRNCADDVVADAALLSRA 423

Query: 408 VGKPVKLLWSREDDTTHDFYRPMAFHRMAAGLDAAGKPVALTFQLTSQSVTQRAFGL--- 464
           VG+PV++  +RE +   +         +  G+DA G+     FQ    S       L   
Sbjct: 424 VGRPVRVQLTREQEHAWEPKGAAQLMDVCGGVDAQGRLSHYRFQTRYPSNDAPVLALLLT 483

Query: 465 PKGALDPFMAE----AAVVGYDIPNMTQELIEHDSGLRVGYWRSVSHALNAFANESFIDE 520
            K A +P + E     AV  Y  P+M  +  +    +R G+ R VS   N+FA+E FIDE
Sbjct: 484 GKIAPEPRVLEMGDRTAVPPYAYPHMQIDCDDVAPIVRAGWLRGVSAMPNSFAHEVFIDE 543

Query: 521 LAAAAGKDPYQYRLAMLDKQPRFANVLKIAATKAGW--------GKPLAKG--RSRGIAL 570
           LA  AG D   +RLA L  Q R + +L+  A KAGW        G+  A G  R RGIA 
Sbjct: 544 LAELAGADRLAFRLAHLPDQ-RASELLQAVAHKAGWVAHAQGSRGQVQADGKLRGRGIAY 602

Query: 571 MEGYDT--------YMAQVAEISVK--DNEITVHKMWVAADLGRMVNPDTVEAQIESSIA 620
                +        + A V ++ V      + V  + V  D G MVNP  V  Q+  +I 
Sbjct: 603 ARYVHSKFPGFGAAWSAWVIDVEVDPVTGALAVTSLVVGQDTGMMVNPAGVRHQMHGNIL 662

Query: 621 FGLSSVLGSEITLDKGRVQQTNFHDYPVIRMSQMPRIDVTLVKSTEKPG-GIGEPATALV 679
             LS VL   +           +  YP++  +++P I++ L++  ++P  G GE A+   
Sbjct: 663 QSLSRVLKERVAFGPHGASSLEWGAYPILHFTEVPPIEIVLMERQDQPPMGAGESASVPS 722

Query: 680 GPAVANALFAATGKRVRKIPLSPDNIKSA 708
             A++NALF ATG+R+R+ P + + I +A
Sbjct: 723 AAALSNALFDATGRRLRQPPFNAECILAA 751


  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    0.132    0.383 

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: 2,177,562
Number of extensions: 93660
Number of successful extensions: 330
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 325
Number of HSP's successfully gapped: 1
Length of query: 708
Length of database: 1,619,870
Length adjustment: 92
Effective length of query: 616
Effective length of database: 1,184,250
Effective search space: 729498000
Effective search space used: 729498000
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: 134 (56.2 bits)