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= 0335.0017.p
         (142 letters)

Database: pfamseq 
           9,421,015 sequences; 3,060,696,203 total letters

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

B4BDW6.1 B4BDW6_CLOTM CheW protein                                     98   2e-19
A3DJ87.1 A3DJ87_CLOTH CheW protein                                     97   4e-19
B4BDR0.1 B4BDR0_CLOTM CheW protein                                     97   4e-19
A3DHQ8.1 A3DHQ8_CLOTH CheW protein                                     96   9e-19
A1HMP9.1 A1HMP9_9FIRM CheW protein                                     83   6e-15

>B4BDW6.1 B4BDW6_CLOTM CheW protein
          Length = 142

 Score = 98.2 bits (243), Expect = 2e-19,   Method: Compositional matrix adjust.
 Identities = 51/124 (41%), Positives = 77/124 (62%)

Query: 1   MMSTLQKEQYIELAVGQETCAIRIEEVHEIIKMLTITDIPFSRNEVKGVVNLRGKVVCVM 60
           MM+ L   QY+   +  E  A++I +V+EIIKM +IT I  S+  ++GV+NLRGK++ V 
Sbjct: 1   MMNDLLTSQYVAYELAGEKYALKISDVYEIIKMQSITPIHNSKPFLEGVINLRGKIIPVA 60

Query: 61  SLRNLLGMSDEPYTRATRIVVVRYRDEFVGLIVDKVNKVTTYGEIHPPSSGQGRGREGVF 120
           +L    G+ +   T+ TRIVVV+ RDE +G++VDKVN+V  + +I PP           F
Sbjct: 61  NLHKRFGLGNYTPTKKTRIVVVKSRDEMIGIVVDKVNQVIRFSDIQPPPEMVAGIDGSYF 120

Query: 121 LGIG 124
            G+G
Sbjct: 121 EGVG 124


>A3DJ87.1 A3DJ87_CLOTH CheW protein
          Length = 141

 Score = 97.1 bits (240), Expect = 4e-19,   Method: Compositional matrix adjust.
 Identities = 52/123 (42%), Positives = 77/123 (62%)

Query: 2   MSTLQKEQYIELAVGQETCAIRIEEVHEIIKMLTITDIPFSRNEVKGVVNLRGKVVCVMS 61
           M+ L    Y+   +  E  A++I +V+EIIKM  IT IP S+  ++GV+NLRGK++ V++
Sbjct: 1   MNELLTSLYVACELVNEKYALKISDVYEIIKMQNITPIPNSQPFLEGVINLRGKIIPVVN 60

Query: 62  LRNLLGMSDEPYTRATRIVVVRYRDEFVGLIVDKVNKVTTYGEIHPPSSGQGRGREGVFL 121
           L   LG+++   T+ TRIVVV+ RDE +G++VDKVN V  + +I PP           F 
Sbjct: 61  LHKRLGLTNYTPTKKTRIVVVKSRDEMIGVVVDKVNHVIRFSDIQPPPEMIAGIDGSYFE 120

Query: 122 GIG 124
           GIG
Sbjct: 121 GIG 123


>B4BDR0.1 B4BDR0_CLOTM CheW protein
          Length = 141

 Score = 97.1 bits (240), Expect = 4e-19,   Method: Compositional matrix adjust.
 Identities = 52/123 (42%), Positives = 77/123 (62%)

Query: 2   MSTLQKEQYIELAVGQETCAIRIEEVHEIIKMLTITDIPFSRNEVKGVVNLRGKVVCVMS 61
           M+ L    Y+   +  E  A++I +V+EIIKM  IT IP S+  ++GV+NLRGK++ V++
Sbjct: 1   MNELLTSLYVACELVNEKYALKISDVYEIIKMQNITPIPNSQPFLEGVINLRGKIIPVVN 60

Query: 62  LRNLLGMSDEPYTRATRIVVVRYRDEFVGLIVDKVNKVTTYGEIHPPSSGQGRGREGVFL 121
           L   LG+++   T+ TRIVVV+ RDE +G++VDKVN V  + +I PP           F 
Sbjct: 61  LHKRLGLTNYTPTKKTRIVVVKSRDEMIGVVVDKVNHVIRFSDIQPPPEMIAGIDGSYFE 120

Query: 122 GIG 124
           GIG
Sbjct: 121 GIG 123


>A3DHQ8.1 A3DHQ8_CLOTH CheW protein
          Length = 141

 Score = 95.9 bits (237), Expect = 9e-19,   Method: Compositional matrix adjust.
 Identities = 50/123 (40%), Positives = 76/123 (61%)

Query: 2   MSTLQKEQYIELAVGQETCAIRIEEVHEIIKMLTITDIPFSRNEVKGVVNLRGKVVCVMS 61
           M+ L   QY+   +  E  A++I +V+EIIKM +IT I  S+  ++GV+NLRGK++ V +
Sbjct: 1   MNDLLTSQYVAYELAGEKYALKISDVYEIIKMQSITPIHNSKPFLEGVINLRGKIIPVAN 60

Query: 62  LRNLLGMSDEPYTRATRIVVVRYRDEFVGLIVDKVNKVTTYGEIHPPSSGQGRGREGVFL 121
           L    G+ +   T+ TRIVVV+ RDE +G++VDKVN+V  + +I PP           F 
Sbjct: 61  LHKRFGLGNYTPTKKTRIVVVKSRDEMIGIVVDKVNQVIRFSDIQPPPEMVAGIDGSYFE 120

Query: 122 GIG 124
           G+G
Sbjct: 121 GVG 123


>A1HMP9.1 A1HMP9_9FIRM CheW protein
          Length = 149

 Score = 83.2 bits (204), Expect = 6e-15,   Method: Compositional matrix adjust.
 Identities = 48/123 (39%), Positives = 69/123 (56%), Gaps = 2/123 (1%)

Query: 9   QYIELAVGQETCAIRIEEVHEIIKMLTITDIPFSRNEVKGVVNLRGKVVCVMSLRNLLGM 68
           Q +   +GQE   I I +V EI +M  IT IP   + + GV+NLRG V+ VM L+  LG+
Sbjct: 12  QVVVFKLGQEEYGINILQVQEIKQMTEITRIPQVPDYITGVINLRGSVLPVMDLKRRLGL 71

Query: 69  SDEPYTRATRIVVVRYRDEFVGLIVDKVNKVTTYG--EIHPPSSGQGRGREGVFLGIGQR 126
           + +P T  TRIV+V+  D  +G+IVD V +V T     I PP +G          G+G+ 
Sbjct: 72  APQPITDDTRIVIVKIDDTAIGMIVDAVTEVLTINRENIEPPQAGICATSPNYLSGVGKL 131

Query: 127 EDQ 129
            D+
Sbjct: 132 NDR 134


  Database: pfamseq
    Posted date:  Aug 5, 2010  3:22 PM
  Number of letters in database: 3,060,696,203
  Number of sequences in database:  9,421,015
  
Lambda     K      H
   0.320    0.139    0.391 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 9421015
Number of Hits to DB: 723,308,054
Number of extensions: 26656708
Number of successful extensions: 55053
Number of sequences better than 1.0e-05: 778
Number of HSP's gapped: 55241
Number of HSP's successfully gapped: 787
Length of query: 142
Length of database: 3,060,696,203
Length adjustment: 105
Effective length of query: 37
Effective length of database: 2,071,489,628
Effective search space: 76645116236
Effective search space used: 76645116236
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: 126 (53.1 bits)