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= 0012.0028.p
         (703 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300312456|ref|YP_003776548.1| excinuclease ABC subunit B [Her...  1298   0.0  

>gi|300312456|ref|YP_003776548.1| excinuclease ABC subunit B
           [Herbaspirillum seropedicae SmR1]
          Length = 693

 Score = 1298 bits (3358), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 634/703 (90%), Positives = 667/703 (94%), Gaps = 10/703 (1%)

Query: 1   MADLSPVSAASSTLDESKFLTFPDSPYRLYQPFPPAGDQPAAIDKLVEGVHDGLFFQTLL 60
           MA+L+P++   + LDESKF+TFPDSP++LYQ FPPAGDQPAAIDKLVEGV+DGLF+QTLL
Sbjct: 1   MAELTPIN---TELDESKFVTFPDSPFKLYQVFPPAGDQPAAIDKLVEGVNDGLFYQTLL 57

Query: 61  GVTGSGKTYTMANTIARLGRPAIIFAPNKTLAAQLYSEFREFFPQNAVEYFVSYYDYYQP 120
           GVTGSGKTYTMANTIARLGRPAI+FAPNKTLAAQLYSEFREFFP NAVEYFVSYYDYYQP
Sbjct: 58  GVTGSGKTYTMANTIARLGRPAIVFAPNKTLAAQLYSEFREFFPHNAVEYFVSYYDYYQP 117

Query: 121 EAYVPQRDLFIEKDSSINEHIEQMRLSCTKSLMERRDVVIVATVSAIYGIGNPNEYHQMI 180
           EAYVPQRDLFIEKDSSINEHIEQMRLSCTKSLMERRDVVIVATVSAIYGIGNPNEYHQMI
Sbjct: 118 EAYVPQRDLFIEKDSSINEHIEQMRLSCTKSLMERRDVVIVATVSAIYGIGNPNEYHQMI 177

Query: 181 LTLRAKDKVSQRDVIARLIQMQYSRNEVDFGRGTFRVRGDTIDVFPAEHAELAVRIEMFD 240
           LTLRAKDKVSQRDVIARLIQMQY+RNEVDFGRGTFRVRGDTIDVFPAEHAELAVRIE FD
Sbjct: 178 LTLRAKDKVSQRDVIARLIQMQYTRNEVDFGRGTFRVRGDTIDVFPAEHAELAVRIETFD 237

Query: 241 DEIDSLQLFDPLTGRVRQKIPRFTVYPGSHYVTPRATVLRAIETIKDELRERLEFFRKEN 300
           DEIDSLQLFDPLTGRVRQKIPRFT+YPGSHYVTPR+TVLRAIETIK+EL ERLEFFRKEN
Sbjct: 238 DEIDSLQLFDPLTGRVRQKIPRFTIYPGSHYVTPRSTVLRAIETIKEELAERLEFFRKEN 297

Query: 301 KLIEEQRLEQRTRFDIEMMTEIGFTKGIENYSRHLSGAKAGDPPPTLVDYLPPDAIMFLD 360
           KLIEEQRLEQRTRFDIEMMTEIGFTKGIENYSRHLSGAK GDPPPTLVDYLP DAIMFLD
Sbjct: 298 KLIEEQRLEQRTRFDIEMMTEIGFTKGIENYSRHLSGAKPGDPPPTLVDYLPKDAIMFLD 357

Query: 361 ESHVLIGQLNGMYNGDRARKTNLVDYGFRLPSALDNRPLKFDEFQGKMRQTIFVSATPAE 420
           ESHVLIGQLNGMYNGDRARK NLVDYGFRLPSALDNRPLKFDEF+ KMRQTIFVSATPA+
Sbjct: 358 ESHVLIGQLNGMYNGDRARKVNLVDYGFRLPSALDNRPLKFDEFEKKMRQTIFVSATPAD 417

Query: 421 YENTHSDQVVEQVVRPTGLVDPLITVRPATTQVDDLMQEITIRVKKNERVLVTTLTKRMS 480
           YENTH+DQVVEQVVRPTGLVDP+I VRPATTQVDDLMQEI  R+ K+ERVLVTTLTKRM+
Sbjct: 418 YENTHADQVVEQVVRPTGLVDPIIAVRPATTQVDDLMQEINDRIAKDERVLVTTLTKRMA 477

Query: 481 EQLTEFLSDNGIKVRYLHSDIDTVERVEIIRDLRLGTFDVLVGINLLREGLDIPEVSLVA 540
           EQLTEFLSDNGIKVRYLHSDIDTVERVEIIRDLRLGTFDV+VGINLLREGLDIPEVSLVA
Sbjct: 478 EQLTEFLSDNGIKVRYLHSDIDTVERVEIIRDLRLGTFDVVVGINLLREGLDIPEVSLVA 537

Query: 541 ILDADKEGFLRSERSLIQTIGRAARNXRAARNLNGMAILYGDKVTDSMHKAIGETERRRA 600
           ILDADKEGFLRSERSLIQTIG      RAARNLNGMAILYGD VTDSMHKAIGETERRRA
Sbjct: 538 ILDADKEGFLRSERSLIQTIG------RAARNLNGMAILYGDVVTDSMHKAIGETERRRA 591

Query: 601 KQVAFNEANGITPMGIKKEIRELIDGVYSPQEARVELMVAQEQANYEAMSEKQVSKEIKR 660
           KQ+AFN ANGI P GIKKEIRELIDGV++P +AR EL+VA+E+ NYE+MSEKQ+SKEIKR
Sbjct: 592 KQLAFNAANGIVPTGIKKEIRELIDGVFNPAQARTELLVAEEKKNYESMSEKQISKEIKR 651

Query: 661 LEKLMQDHAKNLEFEKAAKVRDQLHQLKQQLFGAAGDDTVAVA 703
           LEK MQ+HAKNLEFEKAA  RDQLH LKQQLFGA G DT AVA
Sbjct: 652 LEKQMQEHAKNLEFEKAAAARDQLHLLKQQLFGAPGSDT-AVA 693


  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    0.136    0.380 

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: 2,011,974
Number of extensions: 82308
Number of successful extensions: 258
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 259
Number of HSP's successfully gapped: 1
Length of query: 703
Length of database: 1,619,870
Length adjustment: 92
Effective length of query: 611
Effective length of database: 1,184,250
Effective search space: 723576750
Effective search space used: 723576750
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: 134 (56.2 bits)