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= 0001.3024.p
         (540 letters)

Database: BlastDatabases/690/690 
           3295 sequences; 1,000,347 total letters

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|134094598|ref|YP_001099673.1| cytochrome d terminal oxidase, ...   649   0.0  

>gi|134094598|ref|YP_001099673.1| cytochrome d terminal oxidase,
           polypeptide subunit I [Herminiimonas arsenicoxydans]
          Length = 533

 Score =  649 bits (1673), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 323/528 (61%), Positives = 398/528 (75%), Gaps = 6/528 (1%)

Query: 6   EVVSLSRLQFAVTALYHFLFVPLTLGLSWILVIMESVYVMTGNQIYKDMTRFWGKLFGIN 65
           ++VSLSRLQFA+TALYHFLFVPLT+GL+ +L IME+VYVMT   I++DMT+FWG LFGIN
Sbjct: 4   DIVSLSRLQFAITALYHFLFVPLTIGLAILLAIMETVYVMTDRVIWRDMTKFWGALFGIN 63

Query: 66  FAMGVATGITLEFQFGTNWSYYSHYVGDIFGTPLAIEGLMAFFMESTFVGLFFFGWDKLS 125
           FAMGVATG+ +EFQFG NWSYYSHYVGDIFG PLAIEGLMAFF+E+TFVGLFFFGWDKLS
Sbjct: 64  FAMGVATGVVMEFQFGMNWSYYSHYVGDIFGAPLAIEGLMAFFLEATFVGLFFFGWDKLS 123

Query: 126 RKQHLIVTVLVAVGSNLSALWILIANGWMNNPVGAEFNFETMRMELVSMTDVIFNPVAQV 185
           +  HLI T  VA+GSN SALWILIANGWM NPVGA  N ETMRME+     V+ NPVAQ 
Sbjct: 124 KVGHLITTWAVAIGSNFSALWILIANGWMQNPVGAALNPETMRMEVTDFAAVLTNPVAQA 183

Query: 186 KFVHTVAAGYVTASMFVLGISAWYLLKARDTAFALRSFAVAAGFGLAATLSVIVLGDESG 245
           KFVHTV+AGYVTA++FVLG+SAWY+LK R    A RS  VAA FGLAA LSV+VLGDESG
Sbjct: 184 KFVHTVSAGYVTAAIFVLGVSAWYVLKGRHLELAKRSMTVAASFGLAAALSVVVLGDESG 243

Query: 246 YTAGEVNKVKLAAIEAEWDTHPAPAGLTLFGLPNEKEQRTDYAVKIPYVLGLIGTRSVDT 305
           Y + E  K+KLAAIE  W+T PAPA  TL G PN++ + T YA+ IP+V+GLIGTRS+DT
Sbjct: 244 YLSTEHQKMKLAAIEGMWETQPAPASFTLIGFPNQEARETHYAIHIPWVMGLIGTRSLDT 303

Query: 306 QVLGIKDLKKENEVRIRNGMLAYAALTKLKS---GDK-SPEARADFNKLKKDLGYGLLLK 361
            + GI +L +  E+RI NG+ AY AL K+++   G+K +P  R  F +   DLGY LLLK
Sbjct: 304 VIPGINELVQHAELRIANGIQAYDALQKIRAVGQGEKITPAMRFAFEETGGDLGYALLLK 363

Query: 362 KYTNNVVDATPEQIALAVDDTIPKVAPMFWSFRGMVGLGFLFLFIFAASFWFL-AKKQLA 420
           +Y ++   ATP QI  A  DT+P+VAP+FW FR MVG+G +FL +   +F+FL A++QL 
Sbjct: 364 RYVDDPRQATPAQITQAALDTVPQVAPLFWLFRIMVGIG-MFLILLTGTFFFLSARRQLT 422

Query: 421 PQRWLLRLAVIAIPLPWIAAELGWVVAEYGRQPWTIAGILPTHLSASSLQPGSLYFSLAG 480
             RWLL+LAV A+PLPWIA E GW+VAE+GRQPW I G+LPT ++ SSL   +L  +L G
Sbjct: 423 QHRWLLKLAVCAVPLPWIAVEAGWLVAEFGRQPWVIEGVLPTAVAVSSLGIKTLLITLGG 482

Query: 481 FILFYTFLLVVEMILMVKYARLGPSSLHTGKYYWESKNQDSGPDDVLP 528
           FIL YT L ++EM L+ K    GPS+ H+ +   + K   +G     P
Sbjct: 483 FILIYTVLFIIEMKLIFKVIHAGPSAEHSPQEMSDLKPVLAGTPAATP 530


  Database: BlastDatabases/690/690
    Posted date:  Apr 9, 2011  4:48 AM
  Number of letters in database: 1,000,347
  Number of sequences in database:  3295
  
Lambda     K      H
   0.324    0.139    0.428 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 3295
Number of Hits to DB: 997,442
Number of extensions: 39891
Number of successful extensions: 140
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 139
Number of HSP's successfully gapped: 1
Length of query: 540
Length of database: 1,000,347
Length adjustment: 86
Effective length of query: 454
Effective length of database: 716,977
Effective search space: 325507558
Effective search space used: 325507558
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 131 (55.1 bits)