BLASTP 2.2.26 [Sep-21-2011]


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= psy2786
         (198 letters)

Database: swissprot 
           539,616 sequences; 191,569,459 total letters

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



>sp|Q2GDA1|RNH_NEOSM Ribonuclease H OS=Neorickettsia sennetsu (strain Miyayama) GN=rnhA
           PE=3 SV=1
          Length = 151

 Score = 42.0 bits (97), Expect = 0.003,   Method: Compositional matrix adjust.
 Identities = 20/55 (36%), Positives = 28/55 (50%), Gaps = 3/55 (5%)

Query: 33  KPKPLCLRVHLLCYGKQLAFLWCPSHTGIQGNEAVDRAARNPSASLPPLKLCSPE 87
           K K + +R+H +     + +LW  +H G   NE VDR AR  +AS      C PE
Sbjct: 100 KNKEMWVRLHGIAAAHTVRWLWVKAHNGDHYNEIVDRVARKEAASFTN---CEPE 151


>sp|P05895|POL_SIVVT Gag-Pol polyprotein OS=Simian immunodeficiency virus agm.vervet
            (isolate AGM TYO-1) GN=gag-pol PE=3 SV=2
          Length = 1467

 Score = 33.1 bits (74), Expect = 1.1,   Method: Composition-based stats.
 Identities = 16/41 (39%), Positives = 22/41 (53%), Gaps = 1/41 (2%)

Query: 30   PPNKPKPLCLRVHLLCYGKQLAFL-WCPSHTGIQGNEAVDR 69
            P     PL  ++  L   KQ  +L W P+H GI GNE +D+
Sbjct: 1126 PTQSDSPLVEQIIALMIQKQQIYLQWVPAHKGIGGNEEIDK 1166


>sp|Q49622|NADA_MYCLE Quinolinate synthase A OS=Mycobacterium leprae (strain TN) GN=nadA
           PE=3 SV=2
          Length = 352

 Score = 33.1 bits (74), Expect = 1.2,   Method: Compositional matrix adjust.
 Identities = 15/35 (42%), Positives = 21/35 (60%), Gaps = 3/35 (8%)

Query: 47  GKQLAFLW---CPSHTGIQGNEAVDRAARNPSASL 78
           G++  ++W   C  H GI G+E VD+A  NP A L
Sbjct: 193 GRKNVYVWMGECHVHAGINGDELVDQARANPDAEL 227


>sp|B8ZR90|NADA_MYCLB Quinolinate synthase A OS=Mycobacterium leprae (strain Br4923)
           GN=nadA PE=3 SV=1
          Length = 352

 Score = 33.1 bits (74), Expect = 1.2,   Method: Compositional matrix adjust.
 Identities = 15/35 (42%), Positives = 21/35 (60%), Gaps = 3/35 (8%)

Query: 47  GKQLAFLW---CPSHTGIQGNEAVDRAARNPSASL 78
           G++  ++W   C  H GI G+E VD+A  NP A L
Sbjct: 193 GRKNVYVWMGECHVHAGINGDELVDQARANPDAEL 227


>sp|Q0C3M1|RNH_HYPNA Ribonuclease H OS=Hyphomonas neptunium (strain ATCC 15444) GN=rnhA
           PE=3 SV=1
          Length = 150

 Score = 32.7 bits (73), Expect = 1.8,   Method: Compositional matrix adjust.
 Identities = 14/52 (26%), Positives = 24/52 (46%)

Query: 31  PNKPKPLCLRVHLLCYGKQLAFLWCPSHTGIQGNEAVDRAARNPSASLPPLK 82
           P K + L + +   C   ++ ++W   H G +GNE  D  AR  +  +   K
Sbjct: 99  PVKNQELWMAMEEACKRHEITWVWVKGHAGDEGNERADGLARKGTDEVRGRK 150


>sp|P22382|POL_SIVGB Gag-Pol polyprotein OS=Simian immunodeficiency virus (isolate GB1)
            GN=gag-pol PE=3 SV=2
          Length = 1441

 Score = 32.3 bits (72), Expect = 1.9,   Method: Composition-based stats.
 Identities = 15/41 (36%), Positives = 22/41 (53%), Gaps = 1/41 (2%)

Query: 30   PPNKPKPLCLRVHLLCYGKQLAFL-WCPSHTGIQGNEAVDR 69
            P     P+   +  L  GK+  +L W P+H GI GNE +D+
Sbjct: 1106 PTETDHPIVKEIIELMKGKEKIYLSWLPAHKGIGGNEQIDK 1146


>sp|P03371|POL_EIAVY Pol polyprotein OS=Equine infectious anemia virus (strain Wyoming)
           GN=pol PE=3 SV=1
          Length = 1145

 Score = 30.4 bits (67), Expect = 7.5,   Method: Composition-based stats.
 Identities = 11/21 (52%), Positives = 13/21 (61%)

Query: 52  FLWCPSHTGIQGNEAVDRAAR 72
           F W P H GI GN+  D AA+
Sbjct: 715 FAWVPGHKGIYGNQLADEAAK 735


  Database: swissprot
    Posted date:  Mar 23, 2013  2:32 AM
  Number of letters in database: 191,569,459
  Number of sequences in database:  539,616
  
Lambda     K      H
   0.321    0.137    0.456 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 81,234,069
Number of Sequences: 539616
Number of extensions: 3267922
Number of successful extensions: 6146
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 6140
Number of HSP's gapped (non-prelim): 10
length of query: 198
length of database: 191,569,459
effective HSP length: 111
effective length of query: 87
effective length of database: 131,672,083
effective search space: 11455471221
effective search space used: 11455471221
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 58 (26.9 bits)