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= 0541.0029.p
         (265 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

B3KB65.1 B3KB65_9BACI 3D domain protein                               227   7e-58
B1DDJ0.1 B1DDJ0_9BACL 3D domain protein                               182   2e-44
Q62QV9.1 Q62QV9_BACLD Conserved protein YuiC                          163   1e-38
Q65FE4.1 Q65FE4_BACLD YuiC                                            163   1e-38
C0ZKQ1.1 C0ZKQ1_BREBN Putative uncharacterized protein yuiC           161   5e-38

>B3KB65.1 B3KB65_9BACI 3D domain protein
          Length = 248

 Score =  227 bits (579), Expect = 7e-58,   Method: Compositional matrix adjust.
 Identities = 106/151 (70%), Positives = 127/151 (84%)

Query: 115 SIQVAAPAPEQIISSLKVTATGYTAGYESTGKTAKHPEYGITYSGVKVRRDKNAVSTIAA 174
           S+ V AP  +Q++ ++KVTATGYTAGYESTGK   HP+YGITYSGVKV+RD+N +STIAA
Sbjct: 98  SMPVLAPREDQVLHTVKVTATGYTAGYESTGKKPGHPQYGITYSGVKVKRDRNTLSTIAA 157

Query: 175 DPKVIPLGSVLYIPGYGYAVVADTGSAIKGRKIDLYFSTTKQVYKEWGKKTVVVQLIKRG 234
           DP V PLGS+LYIPGYGY +VAD GSAIKG+KIDLYFSTTKQV+KEWGKK V VQ+IK G
Sbjct: 158 DPDVFPLGSILYIPGYGYGIVADIGSAIKGQKIDLYFSTTKQVFKEWGKKDVEVQVIKTG 217

Query: 235 NGKCTENMLKSLGQAIQTYNAIPQDLLEEVI 265
           +GKCTE ML++L  AI+TY  +P  +LEE I
Sbjct: 218 SGKCTEAMLRTLEDAIETYRFLPSSVLEEAI 248


>B1DDJ0.1 B1DDJ0_9BACL 3D domain protein
          Length = 196

 Score =  182 bits (463), Expect = 2e-44,   Method: Compositional matrix adjust.
 Identities = 85/139 (61%), Positives = 112/139 (80%), Gaps = 2/139 (1%)

Query: 124 EQIISSLKVTATGYTAGYESTGKTAKHPEYGITYSGVKVRRDKNAVSTIAADPKVIPLGS 183
           EQ +S+++V ATGYTAGYESTGK   HP+YGITYSGVKVRR +  VST+AAD ++ P+G+
Sbjct: 59  EQALSTVQVVATGYTAGYESTGKRPGHPQYGITYSGVKVRRGQ--VSTVAADTRLFPIGT 116

Query: 184 VLYIPGYGYAVVADTGSAIKGRKIDLYFSTTKQVYKEWGKKTVVVQLIKRGNGKCTENML 243
           +LYIPGYGY VVADTGSAIKG ++DLYF T K VYK+WGK+TV VQ++++GNGK +++ L
Sbjct: 117 LLYIPGYGYGVVADTGSAIKGHRLDLYFETIKDVYKQWGKRTVDVQVLRKGNGKLSQSWL 176

Query: 244 KSLGQAIQTYNAIPQDLLE 262
             + +A++    IPQ  LE
Sbjct: 177 NQINRAVEAGKPIPQTYLE 195


>Q62QV9.1 Q62QV9_BACLD Conserved protein YuiC
          Length = 224

 Score =  163 bits (413), Expect = 1e-38,   Method: Compositional matrix adjust.
 Identities = 83/140 (59%), Positives = 103/140 (73%), Gaps = 10/140 (7%)

Query: 112 RPASIQVA---APAPEQIISSLKVTATGYTAGYESTGKTAKHPEYGITYSGVKVRRDKNA 168
           +P S++ A   +  P+Q     KVTATGYTAG ESTGK   HP+YGITYSGVKV+RD   
Sbjct: 76  KPKSLEDAFDWSKYPKQ-----KVTATGYTAGAESTGKQPHHPDYGITYSGVKVKRD--L 128

Query: 169 VSTIAADPKVIPLGSVLYIPGYGYAVVADTGSAIKGRKIDLYFSTTKQVYKEWGKKTVVV 228
            ST+AADP V P+G++L+IP YGY VVADTGSAIKG ++DLY+ T + VYKEWGKKT+ V
Sbjct: 129 YSTVAADPSVFPIGTILFIPDYGYGVVADTGSAIKGNRLDLYYETVEDVYKEWGKKTLDV 188

Query: 229 QLIKRGNGKCTENMLKSLGQ 248
            +IK+GNG  TE  L  L +
Sbjct: 189 YVIKKGNGTITEEDLLKLNE 208


>Q65FE4.1 Q65FE4_BACLD YuiC
          Length = 218

 Score =  163 bits (413), Expect = 1e-38,   Method: Compositional matrix adjust.
 Identities = 83/140 (59%), Positives = 103/140 (73%), Gaps = 10/140 (7%)

Query: 112 RPASIQVA---APAPEQIISSLKVTATGYTAGYESTGKTAKHPEYGITYSGVKVRRDKNA 168
           +P S++ A   +  P+Q     KVTATGYTAG ESTGK   HP+YGITYSGVKV+RD   
Sbjct: 70  KPKSLEDAFDWSKYPKQ-----KVTATGYTAGAESTGKQPHHPDYGITYSGVKVKRD--L 122

Query: 169 VSTIAADPKVIPLGSVLYIPGYGYAVVADTGSAIKGRKIDLYFSTTKQVYKEWGKKTVVV 228
            ST+AADP V P+G++L+IP YGY VVADTGSAIKG ++DLY+ T + VYKEWGKKT+ V
Sbjct: 123 YSTVAADPSVFPIGTILFIPDYGYGVVADTGSAIKGNRLDLYYETVEDVYKEWGKKTLDV 182

Query: 229 QLIKRGNGKCTENMLKSLGQ 248
            +IK+GNG  TE  L  L +
Sbjct: 183 YVIKKGNGTITEEDLLKLNE 202


>C0ZKQ1.1 C0ZKQ1_BREBN Putative uncharacterized protein yuiC
          Length = 211

 Score =  161 bits (408), Expect = 5e-38,   Method: Compositional matrix adjust.
 Identities = 77/119 (64%), Positives = 91/119 (76%), Gaps = 2/119 (1%)

Query: 130 LKVTATGYTAGYESTGKTAKHPEYGITYSGVKVRRDKNAVSTIAADPKVIPLGSVLYIPG 189
           ++V ATGY AGYESTGK   HP YGITYSGVKVRRD    STIAAD +V PLG++LYIPG
Sbjct: 78  VRVVATGYYAGYESTGKNPSHPSYGITYSGVKVRRDD--YSTIAADLRVFPLGTILYIPG 135

Query: 190 YGYAVVADTGSAIKGRKIDLYFSTTKQVYKEWGKKTVVVQLIKRGNGKCTENMLKSLGQ 248
           YGY VVAD G AI+G KIDLYF T + V+ +WGKK+V V ++K+G GK TE  L SL +
Sbjct: 136 YGYGVVADKGGAIRGHKIDLYFETKQDVFSQWGKKSVDVYIVKKGEGKVTEAFLNSLNE 194


  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
   0.311    0.127    0.351 

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: 1,405,598,936
Number of extensions: 51696659
Number of successful extensions: 111683
Number of sequences better than 1.0e-05: 715
Number of HSP's gapped: 111409
Number of HSP's successfully gapped: 715
Length of query: 265
Length of database: 3,060,696,203
Length adjustment: 133
Effective length of query: 132
Effective length of database: 1,807,701,208
Effective search space: 238616559456
Effective search space used: 238616559456
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: 130 (54.7 bits)