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= 0118.0003.p
         (116 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

B3KA36.1 B3KA36_9BACI Ribonuclease PH EC=2.7.7.56                     166   5e-40
B1DDV1.1 B1DDV1_9BACL Ribonuclease PH EC=2.7.7.56                     132   1e-29
B2UZ31.1 RNPH_CLOBA Ribonuclease PH EC=2.7.7.56                       128   2e-28
B2TJ05.1 RNPH_CLOBB Ribonuclease PH EC=2.7.7.56                       127   2e-28
A5N2V9.1 RNPH_CLOK5 Ribonuclease PH EC=2.7.7.56                       127   4e-28

>B3KA36.1 B3KA36_9BACI Ribonuclease PH EC=2.7.7.56
          Length = 252

 Score =  166 bits (420), Expect = 5e-40,   Method: Compositional matrix adjust.
 Identities = 81/107 (75%), Positives = 92/107 (85%)

Query: 1   MAFAVNKIALQHKLSVFPITDYLAAISVGVVGDETLLDLNYEEDSKAKVDMNVVMTGGGA 60
           +A AVNKIA QHKL+VFPITDYLA+ISVG+ G + LLDLNYEEDSKAKVDMN+VMTG G 
Sbjct: 137 LAIAVNKIAEQHKLAVFPITDYLASISVGIAGGQALLDLNYEEDSKAKVDMNLVMTGSGK 196

Query: 61  FVEVQGTGEERPFTRQELDQLLGLGEKGIYELIAVQKEVLGAIALKI 107
           FVEVQGTGEE PF+R+ELDQ+L LGE+GI ELI  Q+E LG IA KI
Sbjct: 197 FVEVQGTGEESPFSREELDQILELGEQGIRELIERQQEALGPIAAKI 243


>B1DDV1.1 B1DDV1_9BACL Ribonuclease PH EC=2.7.7.56
          Length = 245

 Score =  132 bits (331), Expect = 1e-29,   Method: Compositional matrix adjust.
 Identities = 64/107 (59%), Positives = 83/107 (77%)

Query: 1   MAFAVNKIALQHKLSVFPITDYLAAISVGVVGDETLLDLNYEEDSKAKVDMNVVMTGGGA 60
           +  AVNK++   +   +PIT +LA++SVGV+ +  LLDLNY+EDSKAKVDMNVVMTG G 
Sbjct: 137 LCLAVNKLSKTTQFPKYPITAFLASVSVGVIQERELLDLNYDEDSKAKVDMNVVMTGEGK 196

Query: 61  FVEVQGTGEERPFTRQELDQLLGLGEKGIYELIAVQKEVLGAIALKI 107
           FVE+QGTGE+ PF+R+EL++LL L E GI ELI  Q+E LG IA +I
Sbjct: 197 FVELQGTGEDSPFSREELNKLLELAEGGIEELIEKQREALGEIADRI 243


>B2UZ31.1 RNPH_CLOBA Ribonuclease PH EC=2.7.7.56
          Length = 249

 Score =  128 bits (321), Expect = 2e-28,   Method: Compositional matrix adjust.
 Identities = 62/107 (57%), Positives = 81/107 (75%)

Query: 4   AVNKIALQHKLSVFPITDYLAAISVGVVGDETLLDLNYEEDSKAKVDMNVVMTGGGAFVE 63
           AVNK+       ++PI  ++AA+SVG+V +E +LDL Y+EDSKAKVDMN++MT  G+FVE
Sbjct: 140 AVNKLHKIKPFKIYPIRSFVAAVSVGIVNEEKILDLCYQEDSKAKVDMNIIMTDEGSFVE 199

Query: 64  VQGTGEERPFTRQELDQLLGLGEKGIYELIAVQKEVLGAIALKIPAG 110
           VQGTGEE P+TR EL++LL LGEKGI ++I VQKE L   +L I  G
Sbjct: 200 VQGTGEESPYTRTELNELLDLGEKGIKQMINVQKESLKMDSLWIGTG 246


>B2TJ05.1 RNPH_CLOBB Ribonuclease PH EC=2.7.7.56
          Length = 249

 Score =  127 bits (320), Expect = 2e-28,   Method: Compositional matrix adjust.
 Identities = 62/107 (57%), Positives = 81/107 (75%)

Query: 4   AVNKIALQHKLSVFPITDYLAAISVGVVGDETLLDLNYEEDSKAKVDMNVVMTGGGAFVE 63
           AVNK+       ++PI  ++AA+SVG+V +E +LDL Y+EDSKAKVDMN++MT  G+FVE
Sbjct: 140 AVNKLHKIKPFKIYPIRSFVAAVSVGIVNEEKILDLCYQEDSKAKVDMNIIMTDEGSFVE 199

Query: 64  VQGTGEERPFTRQELDQLLGLGEKGIYELIAVQKEVLGAIALKIPAG 110
           VQGTGEE P+TR EL++LL LGEKGI ++I VQKE L   +L I  G
Sbjct: 200 VQGTGEESPYTRAELNELLDLGEKGIKQMINVQKESLKMDSLWIGTG 246


>A5N2V9.1 RNPH_CLOK5 Ribonuclease PH EC=2.7.7.56
          Length = 248

 Score =  127 bits (318), Expect = 4e-28,   Method: Compositional matrix adjust.
 Identities = 59/107 (55%), Positives = 80/107 (74%)

Query: 4   AVNKIALQHKLSVFPITDYLAAISVGVVGDETLLDLNYEEDSKAKVDMNVVMTGGGAFVE 63
           AVNK+  Q+  +++PI D+++A+SVG+V D  +LDL Y EDS+AKVDMNVVMT  G FVE
Sbjct: 140 AVNKLHKQNPFTIYPIRDFVSAVSVGIVNDTRMLDLCYLEDSRAKVDMNVVMTDSGEFVE 199

Query: 64  VQGTGEERPFTRQELDQLLGLGEKGIYELIAVQKEVLGAIALKIPAG 110
           +QGTGE+ PFTR++L +LL L EKGI  +I+ QK+ L   +L I  G
Sbjct: 200 IQGTGEQNPFTREDLKELLALAEKGIKSMISAQKDSLKMDSLWIGTG 246


  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
   0.316    0.137    0.370 

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: 673,930,327
Number of extensions: 27199793
Number of successful extensions: 68052
Number of sequences better than 1.0e-05: 989
Number of HSP's gapped: 67989
Number of HSP's successfully gapped: 989
Length of query: 116
Length of database: 3,060,696,203
Length adjustment: 83
Effective length of query: 33
Effective length of database: 2,278,751,958
Effective search space: 75198814614
Effective search space used: 75198814614
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: 125 (52.8 bits)