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= 0269.0008.p
         (139 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

C4REW6.1 C4REW6_9ACTO Ribose transport system permease rbsC           103   6e-21
C4EH32.1 C4EH32_STRRS Monosaccharide ABC transporter membrane pr...   102   7e-21
B5HW82.1 B5HW82_9ACTO Ribose transport system permease protein         97   3e-19
A0QT48.1 A0QT48_MYCS2 Ribose transport system permease protein R...    92   2e-17
Q2K8G5.1 Q2K8G5_RHIEC Probable sugar ABC transporter, permease p...    92   2e-17

>C4REW6.1 C4REW6_9ACTO Ribose transport system permease rbsC
          Length = 356

 Score =  103 bits (256), Expect = 6e-21,   Method: Compositional matrix adjust.
 Identities = 49/74 (66%), Positives = 59/74 (79%)

Query: 22  YSPDFFSITVHDGHLYGSLIDILNFGAPLILVAIGMTLVVATKGIDLSVGSIVAISGAIA 81
           Y P F S+ + +G LYGSLIDI+   APLILVA+GM+LV+AT GIDLSVGS+ A+SGAIA
Sbjct: 33  YRPSFLSVELKNGQLYGSLIDIVRLSAPLILVALGMSLVIATGGIDLSVGSVAAVSGAIA 92

Query: 82  CLSISRGADQNSMG 95
           CL IS   DQNS+G
Sbjct: 93  CLYISEQPDQNSLG 106


>C4EH32.1 C4EH32_STRRS Monosaccharide ABC transporter membrane protein,
          CUT2 family
          Length = 348

 Score =  102 bits (255), Expect = 7e-21,   Method: Compositional matrix adjust.
 Identities = 49/73 (67%), Positives = 64/73 (87%)

Query: 22 YSPDFFSITVHDGHLYGSLIDILNFGAPLILVAIGMTLVVATKGIDLSVGSIVAISGAIA 81
          ++ +FF++ + DGHLYGSLIDI+ FGAPLILVA+GMTLV+AT GIDLSVGS+V+I+GA+A
Sbjct: 26 FTDNFFAVQMRDGHLYGSLIDIVRFGAPLILVALGMTLVIATGGIDLSVGSVVSITGALA 85

Query: 82 CLSISRGADQNSM 94
          CL IS   DQN++
Sbjct: 86 CLRISGMDDQNAV 98


>B5HW82.1 B5HW82_9ACTO Ribose transport system permease protein
          Length = 361

 Score = 97.4 bits (241), Expect = 3e-19,   Method: Compositional matrix adjust.
 Identities = 46/73 (63%), Positives = 62/73 (84%)

Query: 22  YSPDFFSITVHDGHLYGSLIDILNFGAPLILVAIGMTLVVATKGIDLSVGSIVAISGAIA 81
           ++PDFF+I + +GHLYGSL+ I+ FG+PLILVA+GMTLV+AT GIDLSVG++VAI+GA+ 
Sbjct: 32  FTPDFFAIHMTNGHLYGSLVSIVLFGSPLILVAVGMTLVIATGGIDLSVGAVVAITGALT 91

Query: 82  CLSISRGADQNSM 94
           C  IS  ADQ ++
Sbjct: 92  CSYISDQADQGAL 104


>A0QT48.1 A0QT48_MYCS2 Ribose transport system permease protein RbsC
           EC=3.6.3.17
          Length = 357

 Score = 91.7 bits (226), Expect = 2e-17,   Method: Compositional matrix adjust.
 Identities = 45/72 (62%), Positives = 58/72 (80%)

Query: 23  SPDFFSITVHDGHLYGSLIDILNFGAPLILVAIGMTLVVATKGIDLSVGSIVAISGAIAC 82
           +P F S+ V DGHLYGS+IDIL  GAP +LVA+GMTLV+A++GIDLSVG++VAISGA+AC
Sbjct: 29  TPGFLSVRVQDGHLYGSVIDILRNGAPTLLVALGMTLVIASRGIDLSVGAVVAISGALAC 88

Query: 83  LSISRGADQNSM 94
             I+   D  S+
Sbjct: 89  SHIAAAGDPASV 100


>Q2K8G5.1 Q2K8G5_RHIEC Probable sugar ABC transporter, permease protein
          Length = 334

 Score = 91.7 bits (226), Expect = 2e-17,   Method: Compositional matrix adjust.
 Identities = 44/66 (66%), Positives = 55/66 (83%)

Query: 23 SPDFFSITVHDGHLYGSLIDILNFGAPLILVAIGMTLVVATKGIDLSVGSIVAISGAIAC 82
          SP FF++ V +G LYGSLID+LN GAP+ L+AIGMTLV+ATKGIDLSVG+++AI GA+A 
Sbjct: 30 SPQFFNVVVQNGRLYGSLIDVLNRGAPVALLAIGMTLVIATKGIDLSVGAVIAICGAVAA 89

Query: 83 LSISRG 88
           SI  G
Sbjct: 90 SSIVSG 95


  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
   0.322    0.141    0.417 

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: 625,538,594
Number of extensions: 18884387
Number of successful extensions: 50037
Number of sequences better than 1.0e-05: 189
Number of HSP's gapped: 50042
Number of HSP's successfully gapped: 189
Length of query: 139
Length of database: 3,060,696,203
Length adjustment: 103
Effective length of query: 36
Effective length of database: 2,090,331,658
Effective search space: 75251939688
Effective search space used: 75251939688
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 (21.9 bits)
S2: 125 (52.8 bits)