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= 0526.0007.p
         (526 letters)

Database: COG 
           115,334 sequences; 38,378,431 total letters

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

YPO1808 [N] COG1256 Flagellar hook-associated protein                 108   2e-23
YPO0732 [N] COG1256 Flagellar hook-associated protein                  94   4e-19

>YPO1808 [N] COG1256 Flagellar hook-associated protein
          Length = 554

 Score =  108 bits (269), Expect = 2e-23,   Method: Compositional matrix adjust.
 Identities = 140/566 (24%), Positives = 236/566 (41%), Gaps = 76/566 (13%)

Query: 8   IETAKRSLNTQTAALNTAGHNIANVNTEGYSRQ-VVKMQASLPMEAYGFLRSTAAGQMGT 66
           + TA   LN    AL+T  +NI N    GY+RQ  V  Q    + + GF+        G 
Sbjct: 6   MNTAMSGLNAAQYALSTVSNNITNFQVAGYNRQNTVFAQNGGTITSAGFI--------GN 57

Query: 67  GVDFTSIERVRQSFLDDQYRNESSNSGSWDVRFDTLKKLESIVNEPSDTGIRKVLDNFWN 126
           GV  T + R   +F+ +Q R   + S      +  + +++++++  S+  +   + +F++
Sbjct: 58  GVTVTGVNREYNAFITNQLRASQTQSSGLATYYQQISQIDNLLSNASNN-LSTTMQDFFS 116

Query: 127 AWSDLSQDPENITNRKIVKETTKALTDAMNQVSTQLDALTTDLTSNISLKTTEINSLLQT 186
              +L  + ++   RK V    + L +        L  +   +   I+   T+IN+  + 
Sbjct: 117 NLQNLVSNADDDAARKTVLGKAEGLVNQFQNADKYLRDMDDGVNQKITDSATQINNYAEQ 176

Query: 187 VADLNNNITKLEGL-GDNPNDLRDQRDLAIDKLSKLANVQVTQLS-DGYQVTLSGQL-VV 243
           +A LN+ IT+L G  G  PN L DQRD  + +L+++  V VTQ   D Y V+ +G L +V
Sbjct: 177 IAKLNDQITRLRGSSGSEPNALLDQRDQLVTELNQIMAVTVTQQDGDAYNVSFAGGLSLV 236

Query: 244 TGDQVTAVTA-----------------DGLKAAYDGGTLTGGEVYGMFMSRDKYVTDYKN 286
            G     V A                 +G     D   +T G + G    R + +   +N
Sbjct: 237 QGPNAYKVEAIPSSADATRLTLGYKRGNGEATEVDESRITTGSLGGTLKFRSEALDSARN 296

Query: 287 QMNQLA-------NTLANGDIEITLPAGT---VLPEGTVL----NTGANGTPVTYSNANN 332
           Q+ QLA       NT  N   +I    G       + TVL    N G     V Y + + 
Sbjct: 297 QLGQLALVMADSFNTQHNAGFDINGDEGEDFFSFADPTVLKNAKNQGNASITVEYKDTSK 356

Query: 333 NRT----------------ITADTKV-TVKGIN--GLLQLGYTVSGATPEKGLALFTTKD 373
            +                 ++ +TKV T  G+N  G   L +       + G      KD
Sbjct: 357 VKASDYTVEFDGTDWQVTRLSDNTKVQTTPGVNADGDPTLEFEGVAIKIDNGTPGPQAKD 416

Query: 374 SGAI-TAGNITLNPLIAADPNKISTSMRVTGVGTTNEKVVIGNNDMALIMAGLKTAKFDF 432
              I T  N+  N  +A     I+ S ++   G+ +  +    N  AL+   L++ K   
Sbjct: 417 KFTIKTVSNVAANLQVA-----ITDSSKIAAAGSADGGISDNTNAQALL--DLQSKKL-- 467

Query: 433 GSALSAPGTMDDYFASIVGQLGVQTQEAERQAKNAEQLTEQVELNRASVSGVSLDEEMTD 492
              +    T+   +A +V  +G QT  A+  +     +  Q+   + S+SGV+LDEE  D
Sbjct: 468 ---VEGKTTLSGAYAGLVSNVGNQTATAKTNSTAQANIVTQLTTEQQSISGVNLDEEYGD 524

Query: 493 LIKFQHAYSAASRFMTTFDELLNKLI 518
           L +FQ  Y A ++ +     L N L+
Sbjct: 525 LQRFQQYYLANAQVLQAASTLFNALL 550


>YPO0732 [N] COG1256 Flagellar hook-associated protein
          Length = 453

 Score = 94.4 bits (233), Expect = 4e-19,   Method: Compositional matrix adjust.
 Identities = 75/240 (31%), Positives = 122/240 (50%), Gaps = 10/240 (4%)

Query: 8   IETAKRSLNTQTAALNTAGHNIANVNTEGYSRQVVKMQASLPMEAYGFLRSTAAGQMGTG 67
           I TA   +    A LN    NIAN++T GYSRQ  + Q+++  +  G + +      G G
Sbjct: 4   IRTAFSGMQATQAHLNATSMNIANMHTPGYSRQRAE-QSAIGADGQGGVNA------GNG 56

Query: 68  VDFTSIERVRQSFLDDQYRNESSNSGSWDVRFDTLKKLESIVNEPSDTGIRKVLDNFWNA 127
           V+   I R+ Q ++  Q    +S    +D     L  +E +V+  S T +   L+NF+++
Sbjct: 57  VNVDGIRRLSQQYVVMQEWRANSQQQYYDAGEQYLNAVELMVSNES-TSLATGLNNFFSS 115

Query: 128 WSDLSQDPENITNRKIVKETTKALTDAMNQVSTQLDALTTDLTSNISLKTTEINSLLQTV 187
            S  +Q P++   R+ + E+  A+    N V+  +      +     +   EINSL +++
Sbjct: 116 LSAATQLPDSPPMRQQIIESANAMALRFNNVNNFIVQQKKSIGQQRDITVKEINSLTRSI 175

Query: 188 ADLNNNITKLEGLGDNPNDLRDQRDLAIDKLSKLANVQVTQLSDG-YQVTLS-GQLVVTG 245
           AD N  I K    G+N NDL D+++L I KLS L   QV Q  DG Y++++  GQ +V G
Sbjct: 176 ADYNQQILKNRSDGNNINDLLDKQELQIKKLSGLIETQVNQAEDGTYRISVKQGQPLVNG 235


  Database: COG
    Posted date:  Aug 3, 2010  9:58 AM
  Number of letters in database: 38,378,431
  Number of sequences in database:  115,334
  
Lambda     K      H
   0.311    0.127    0.346 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 115334
Number of Hits to DB: 35,767,292
Number of extensions: 1515503
Number of successful extensions: 3450
Number of sequences better than 1.0e-05: 2
Number of HSP's gapped: 3443
Number of HSP's successfully gapped: 2
Length of query: 526
Length of database: 38,378,431
Length adjustment: 111
Effective length of query: 415
Effective length of database: 25,576,357
Effective search space: 10614188155
Effective search space used: 10614188155
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 118 (50.1 bits)