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= 0030.0183.p
         (444 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300309525|ref|YP_003773617.1| ATP-dependent protease HslVU AT...   421   e-119
gi|300311894|ref|YP_003775986.1| ATP-dependent protease ATP-bind...    93   5e-20

>gi|300309525|ref|YP_003773617.1| ATP-dependent protease HslVU
           ATPase subunit [Herbaspirillum seropedicae SmR1]
          Length = 448

 Score =  421 bits (1083), Expect = e-119,   Method: Compositional matrix adjust.
 Identities = 219/274 (79%), Positives = 238/274 (86%), Gaps = 17/274 (6%)

Query: 1   MNMTPKEIVSELDKHVVGQGRAKRAVAIALRNRWRXKRAVAIALRNRRQQVAEPLRHEIT 60
           MNMTPKEIVSELDKHVVGQ RAKRAV+IALRNRWR            RQQ+ EPLRHEIT
Sbjct: 1   MNMTPKEIVSELDKHVVGQARAKRAVSIALRNRWR------------RQQIEEPLRHEIT 48

Query: 61  PKNILMIGPTGVGKTEIARRLAKLADAPFIKIEATKFTEVGYVGRDVDTIIRDLIDIGIK 120
           PKNILMIGPTGVGKTEIARRLAKLADAPFIKIEATKFTEVGYVGRDVDTIIRDL+DIGIK
Sbjct: 49  PKNILMIGPTGVGKTEIARRLAKLADAPFIKIEATKFTEVGYVGRDVDTIIRDLVDIGIK 108

Query: 121 QTREGEVRKVRARAEDAAEDRVLDILLPPARDFGFTPEGNKNAVASDDGVEEKGSTTRQT 180
           QTRE E RKVR RAEDAAEDR+LD+LLPPARDFGFTP+G+ N+   DD      +TTRQT
Sbjct: 109 QTRELETRKVRTRAEDAAEDRILDVLLPPARDFGFTPDGSNNSGEKDD-----KNTTRQT 163

Query: 181 FRKRLREGALDDREIEIELSESSPAMEIMAPPGMEEMTEQIKSMFSGMGNNRKKTRKVKI 240
           FRKRLREGALDDREIE+EL+E++P+MEIMAPPGMEEMTEQIKSMFSG+GN RKK RK+KI
Sbjct: 164 FRKRLREGALDDREIELELAEAAPSMEIMAPPGMEEMTEQIKSMFSGLGNQRKKARKIKI 223

Query: 241 REAMKFLIEEEAGKLVNEEELKQKAIDVASDDGV 274
           +EAMK LIEEEA KLVNEEELKQKAI     +G+
Sbjct: 224 KEAMKLLIEEEAAKLVNEEELKQKAIANVEQNGI 257



 Score =  154 bits (388), Expect = 2e-38,   Method: Compositional matrix adjust.
 Identities = 84/109 (77%), Positives = 98/109 (89%)

Query: 267 DVASDDGVEEKGSTTRQTFRKRLREGALDDREIEIELSESSPAMEIMAPPGMEEMTEQIK 326
           D +++ G ++  +TTRQTFRKRLREGALDDREIE+EL+E++P+MEIMAPPGMEEMTEQIK
Sbjct: 146 DGSNNSGEKDDKNTTRQTFRKRLREGALDDREIELELAEAAPSMEIMAPPGMEEMTEQIK 205

Query: 327 SMFSGMGNNRKKTRKVKIREAMKFLIEEEAGKLVNEEELKQKAIANHRQ 375
           SMFSG+GN RKK RK+KI+EAMK LIEEEA KLVNEEELKQKAIAN  Q
Sbjct: 206 SMFSGLGNQRKKARKIKIKEAMKLLIEEEAAKLVNEEELKQKAIANVEQ 254


>gi|300311894|ref|YP_003775986.1| ATP-dependent protease ATP-binding
           specificity subunit [Herbaspirillum seropedicae SmR1]
          Length = 421

 Score = 92.8 bits (229), Expect = 5e-20,   Method: Compositional matrix adjust.
 Identities = 44/112 (39%), Positives = 70/112 (62%), Gaps = 11/112 (9%)

Query: 4   TPKEIVSELDKHVVGQGRAKRAVAIALRNRWRXKRAVAIALRNRRQQVAEPLRHEITPKN 63
           TP+EI   LD++V+GQ  AKR +++A+ N ++           R + + +    E+   N
Sbjct: 67  TPQEITELLDQYVIGQATAKRILSVAVYNHYK-----------RLKHLGKKDDVELAKSN 115

Query: 64  ILMIGPTGVGKTEIARRLAKLADAPFIKIEATKFTEVGYVGRDVDTIIRDLI 115
           IL++GPTG GKT +A+ LA++ + PF+  +AT  TE GYVG DV+ II+ L+
Sbjct: 116 ILLVGPTGSGKTLLAQTLARMLNVPFVIADATTLTEAGYVGEDVENIIQKLL 167


  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
   0.317    0.132    0.364 

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: 1,086,099
Number of extensions: 39091
Number of successful extensions: 221
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 217
Number of HSP's successfully gapped: 3
Length of query: 444
Length of database: 1,619,870
Length adjustment: 88
Effective length of query: 356
Effective length of database: 1,203,190
Effective search space: 428335640
Effective search space used: 428335640
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 (21.7 bits)
S2: 132 (55.5 bits)