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= 0440.0016.p
         (108 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

SPy1324 [G] COG1440 Phosphotransferase system cellobiose-specifi...   103   5e-23
BH0909 [G] COG1440 Phosphotransferase system cellobiose-specific...    99   1e-21
BS_licB [G] COG1440 Phosphotransferase system cellobiose-specifi...    97   4e-21
lin1831 [G] COG1440 Phosphotransferase system cellobiose-specifi...    92   1e-19
lin0393 [G] COG1440 Phosphotransferase system cellobiose-specifi...    88   4e-18

>SPy1324 [G] COG1440 Phosphotransferase system cellobiose-specific component
           IIB
          Length = 103

 Score =  103 bits (257), Expect = 5e-23,   Method: Compositional matrix adjust.
 Identities = 57/104 (54%), Positives = 69/104 (66%), Gaps = 3/104 (2%)

Query: 7   MIKIVLVCSAGMSTSLMVKKMQEAAQTGGQEVSIQATAGENLSN--FGNDIDVLMLGPQV 64
           M  I+LVC+AGMSTS++V KMQ+AAQ    EVSI A       N    N IDVL+LGPQV
Sbjct: 1   MKSIMLVCNAGMSTSMLVTKMQKAAQARDLEVSIWAVPVSEADNEMAANSIDVLLLGPQV 60

Query: 65  AYMRKDYEKKFVPKGVKVDVINTVDYGRMNGEKVLARALELAAE 108
            ++ KD++ KF P  +KVD IN  DYG MNGEKVL  AL +  E
Sbjct: 61  KFLLKDFKDKFEP-DIKVDAINMADYGLMNGEKVLETALAMMEE 103


>BH0909 [G] COG1440 Phosphotransferase system cellobiose-specific component
           IIB
          Length = 98

 Score = 99.0 bits (245), Expect = 1e-21,   Method: Compositional matrix adjust.
 Identities = 48/98 (48%), Positives = 70/98 (71%)

Query: 8   IKIVLVCSAGMSTSLMVKKMQEAAQTGGQEVSIQATAGENLSNFGNDIDVLMLGPQVAYM 67
           +KI+LVCSAGMSTS++V KM++AA+  G E +I ATA   L+N     +++++GPQV Y+
Sbjct: 1   MKILLVCSAGMSTSILVDKMRKAAEVQGLEATIDATAESGLANELGTTNIILIGPQVRYL 60

Query: 68  RKDYEKKFVPKGVKVDVINTVDYGRMNGEKVLARALEL 105
               + K  P G+KV +I+++ YG MNGEKVL +AL L
Sbjct: 61  ESKIKSKAEPHGIKVAIIDSMAYGTMNGEKVLQQALAL 98


>BS_licB [G] COG1440 Phosphotransferase system cellobiose-specific component
           IIB
          Length = 102

 Score = 97.4 bits (241), Expect = 4e-21,   Method: Compositional matrix adjust.
 Identities = 50/98 (51%), Positives = 69/98 (70%)

Query: 8   IKIVLVCSAGMSTSLMVKKMQEAAQTGGQEVSIQATAGENLSNFGNDIDVLMLGPQVAYM 67
           + I+LVC+AGMSTSL+V KM+++AQ  G++ +I A +G+++ N  +  DVL+LGPQV YM
Sbjct: 1   MNILLVCAAGMSTSLLVSKMEKSAQEQGKDYTIWAVSGDSVQNHIDKADVLLLGPQVRYM 60

Query: 68  RKDYEKKFVPKGVKVDVINTVDYGRMNGEKVLARALEL 105
               +K    KGV VDVINTV YG  NG +VL  A +L
Sbjct: 61  LPQLKKLGESKGVPVDVINTVHYGTCNGAEVLKSAEQL 98


>lin1831 [G] COG1440 Phosphotransferase system cellobiose-specific component
           IIB
          Length = 301

 Score = 92.4 bits (228), Expect = 1e-19,   Method: Compositional matrix adjust.
 Identities = 6/99 (6%), Positives = 15/99 (15%)

Query: 7   MIKIVLVCSAGMSTSLMVKKMQEAAQTGGQEVSIQATAGENLSNFGNDIDVLMLGPQVAY 66
           M      C                      +     +     +             Q  Y
Sbjct: 1   MSIDKSYCGFIAIVGRPNVGKSTLLNKLLGQKISITSRKAQTTRHRIVGIHTEGAYQAIY 60

Query: 67  MRKDYEKKFVPKGVKVDVINTVDYGRMNGEKVLARALEL 105
           +          + +   +         + E V+      
Sbjct: 61  VDTPGLHMEEKRAINRLMNKAASSSIGDVELVIFVVEGT 99


>lin0393 [G] COG1440 Phosphotransferase system cellobiose-specific component
           IIB
          Length = 301

 Score = 87.8 bits (216), Expect = 4e-18,   Method: Compositional matrix adjust.
 Identities = 7/99 (7%), Positives = 18/99 (18%), Gaps = 1/99 (1%)

Query: 7   MIKIVLVCSAGMSTSLMVKKMQEAAQTGGQEVSIQATAGENLSNFGNDIDVLMLGPQVAY 66
           M      C                      +     +     +             Q  Y
Sbjct: 1   MSIDKSYCGFIAIVGRPNVGKSTLLNKLLGQKISITSRKAQTTRHRIVGIHTEGAYQAIY 60

Query: 67  MRKDYEKKFVPKGVKVDVINTVDYGRMNGEKVLARALEL 105
           +          K     ++N      +   +++   +E 
Sbjct: 61  VDTPGL-HMEEKRAINRLMNKAASSSIGDVELVIFVVEG 98


  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
   0.316    0.133    0.357 

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: 7,252,085
Number of extensions: 271433
Number of successful extensions: 513
Number of sequences better than 1.0e-05: 14
Number of HSP's gapped: 506
Number of HSP's successfully gapped: 14
Length of query: 108
Length of database: 38,378,431
Length adjustment: 76
Effective length of query: 32
Effective length of database: 29,613,047
Effective search space: 947617504
Effective search space used: 947617504
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 (21.6 bits)
S2: 109 (46.6 bits)