BLASTP 2.2.21 [Jun-14-2009]

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= 0001.0016.p         (597 letters)

Database: COGmodified 
           192,987 sequences; 59,019,183 total letters

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

AF1032 [L] COG0419 ATPase involved in DNA repair Afu Archaeoglob...    42   0.004
PM0282 Non COG                                                         40   0.014
STM2746 [R] COG3950 Predicted ATP-binding protein involved in vi...    39   0.026
PAB0812 [L] COG0419 ATPase involved in DNA repair Pab Pyrococcus...    38   0.084
BMEII0287 [EP] COG0444 ABC-type dipeptide/oligopeptide/nickel tr...    37   0.12 

>AF1032 [L] COG0419 ATPase involved in DNA repair Afu Archaeoglobus
          fulgidus
          Length = 886

 Score = 42.0 bits (97), Expect = 0.004,   Method: Compositional matrix adjust.
 Identities = 29/91 (31%), Positives = 44/91 (48%), Gaps = 18/91 (19%)

Query: 3  LRYLHLKNYPPISDIKVCFASGSPLARECAIRFVVGVNGSGKSNLLRAVAEVFLAL--AD 60
          L+ L +KN+   SD K+ F +G        I  + G NG+GKS++L A+   F  L  A 
Sbjct: 4  LKELQIKNFRSHSDSKIEFDTG--------INLIAGRNGAGKSSILEAILVAFYGLKPAT 55

Query: 61 GRR--------SSFPVQLVYELGGRDSSASR 83
           R+        S + + L + L G D + SR
Sbjct: 56 LRKNDLVRVNSSGYSLSLTFSLNGDDYTISR 86



 Score = 32.3 bits (72), Expect = 3.0,   Method: Compositional matrix adjust.
 Identities = 21/65 (32%), Positives = 40/65 (61%), Gaps = 5/65 (7%)

Query: 431 LSDGEQMVLG---RMAL-FYLLKGQQDALLLLDEPETHFNDKWKREIVDIIDEAIGQTAN 486
           LS GE + LG   R+AL  ++++G+   LL+LDEP    +++ +R++VDI    + +   
Sbjct: 793 LSGGEIIALGLAFRLALSMFMIRGK-IPLLILDEPTPFLDEERRRKLVDITTNYLRKIPQ 851

Query: 487 DVLIS 491
            +++S
Sbjct: 852 VIIVS 856


>PM0282 Non COG
          Length = 517

 Score = 40.4 bits (93), Expect = 0.014,   Method: Compositional matrix adjust.
 Identities = 34/123 (27%), Positives = 57/123 (46%), Gaps = 3/123 (2%)

Query: 420 ASDIGILRYEELSDGEQMVLGRMALFYLLKGQQDALLLLDEPETHFNDKWKREIVDIIDE 479
           + DI +     +S G   VL  +    + K ++  L+LLDEPE+H +       +  + E
Sbjct: 338 SKDIVLQFINRMSSGHAFVLLTITQL-VAKVEEKTLVLLDEPESHLHPPLLSAFIRTLSE 396

Query: 480 AIGQTANDVLISTHSAIVLSDVFNNEIVMVQKTQ-EGSTVRTVDEPTFATDPSALMMTVF 538
            +       +++THS +VL ++  + I  + +T  E    R V E TF  +   L   VF
Sbjct: 397 LLDNRNAIAIVATHSPVVLQEIPKSCIWKIVRTGIETKAYRLVTE-TFGENIGILTREVF 455

Query: 539 GAE 541
           G E
Sbjct: 456 GLE 458


>STM2746 [R] COG3950 Predicted ATP-binding protein involved in virulence Sty
           Salmonella typhimurium LT2
          Length = 427

 Score = 39.3 bits (90), Expect = 0.026,   Method: Compositional matrix adjust.
 Identities = 23/75 (30%), Positives = 47/75 (62%), Gaps = 10/75 (13%)

Query: 431 LSDGEQMVLGRMALFY--LLKGQQDALLLLDEPETHFNDKWKREIVDIIDEAIGQTAND- 487
           LS GEQ    ++ +++  + K +Q++++L+DEPE   +  W++E +D I  A  Q  N+ 
Sbjct: 339 LSSGEQ---NQIVIYFDLIFKAKQNSVILIDEPEISLHVAWQKEFLDSI--ARIQKLNEF 393

Query: 488 --VLISTHSAIVLSD 500
             ++I+THS  ++++
Sbjct: 394 SKIIIATHSPQIVNN 408


>PAB0812 [L] COG0419 ATPase involved in DNA repair Pab Pyrococcus abyssi
          Length = 880

 Score = 37.7 bits (86), Expect = 0.084,   Method: Compositional matrix adjust.
 Identities = 22/64 (34%), Positives = 42/64 (65%), Gaps = 4/64 (6%)

Query: 431 LSDGEQMVLG---RMALFYLLKGQQDALLLLDEPETHFNDKWKREIVDIIDEAIGQTAND 487
           LS GE++ LG   R+AL   L G+ D LL+LDEP    +++ +R+++DI++  + + +  
Sbjct: 790 LSGGERIALGLAFRLALSMYLVGRID-LLILDEPTPFLDEERRRKLLDIMERHLRRISQV 848

Query: 488 VLIS 491
           +++S
Sbjct: 849 IMVS 852


>BMEII0287 [EP] COG0444 ABC-type dipeptide/oligopeptide/nickel transport
           system, ATPase component Bme Brucella melitensis
          Length = 341

 Score = 37.0 bits (84), Expect = 0.12,   Method: Compositional matrix adjust.
 Identities = 24/83 (28%), Positives = 46/83 (55%), Gaps = 4/83 (4%)

Query: 426 LRYEELSDGEQMVLGRMALFYLLKGQQDALLLLDEPETHFNDKWKREIVDIIDEAIGQTA 485
           L   +LS G++    R+ +   +  + D LL+ DEP T  +   + +I+D++DE I +T 
Sbjct: 150 LYPHQLSGGQRQ---RVMIAMAIACEPD-LLIADEPTTALDVTVQAQILDLMDELIDETG 205

Query: 486 NDVLISTHSAIVLSDVFNNEIVM 508
             +++ TH   V+S++ +   VM
Sbjct: 206 TALMLITHDLGVVSEMTDRIAVM 228