RPS-BLAST 2.2.22 [Sep-27-2009]

Database: mmdb70 
           33,805 sequences; 4,956,049 total letters

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

Query= gi|254781067|ref|YP_003065480.1| elongation factor P
[Candidatus Liberibacter asiaticus str. psy62]
         (189 letters)



>1ueb_A EF-P, TT0860, elongation factor P; beta barrel, riken
           structural genomics/proteomics initiative, RSGI,
           structural genomics; 1.65A {Thermus thermophilus}
           (A:64-125)
          Length = 62

 Score = 84.7 bits (210), Expect = 8e-18
 Identities = 21/63 (33%), Positives = 34/63 (53%), Gaps = 1/63 (1%)

Query: 66  FVEDQRFQFLYQDQEGFHFMNPETYDQVTVSEEVIGDQKVYFQEGMEVKLLIHEGVALSV 125
           +VE +  Q+LY + E   FM+ ETY+Q  V    +   + +F+EGM     ++EG  + V
Sbjct: 1   YVETRELQYLYPEGEEMVFMDLETYEQFAVPRSRVVGAE-FFKEGMTALGDMYEGQPIKV 59

Query: 126 EVP 128
             P
Sbjct: 60  TPP 62


>1yby_A Translation elongation factor P; conserved hypothetical
           protein, structural genomics, PSI, protein structure
           initiative; 1.95A {Clostridium thermocellum} (A:94-156)
          Length = 63

 Score = 80.8 bits (200), Expect = 1e-16
 Identities = 20/62 (32%), Positives = 38/62 (61%)

Query: 67  VEDQRFQFLYQDQEGFHFMNPETYDQVTVSEEVIGDQKVYFQEGMEVKLLIHEGVALSVE 126
           +E +  Q+LY D + ++F + ET++Q+ + ++ IGD   + +E   VK+L H+G    +E
Sbjct: 2   IERKDXQYLYNDGDLYYFXDTETFEQLPLGKDKIGDALKFVKENEIVKVLSHKGNVFGIE 61

Query: 127 VP 128
            P
Sbjct: 62  PP 63


>1yby_A Translation elongation factor P; conserved hypothetical
           protein, structural genomics, PSI, protein structure
           initiative; 1.95A {Clostridium thermocellum} (A:157-215)
          Length = 59

 Score = 75.0 bits (185), Expect = 6e-15
 Identities = 26/58 (44%), Positives = 29/58 (50%)

Query: 130 HVVFTVIDTEPSSKGQTVTASYKPAILSNDIRTTVPPHINIGDDIVILTEDNSYVERV 187
            V   V DTEP  KG T T + KPAI+       VP  +N GD I I T    Y ERV
Sbjct: 2   FVELEVTDTEPGFKGDTATGATKPAIVETGASIKVPLFVNKGDIIRIDTRTGEYXERV 59


>1ueb_A EF-P, TT0860, elongation factor P; beta barrel, riken
           structural genomics/proteomics initiative, RSGI,
           structural genomics; 1.65A {Thermus thermophilus}
           (A:126-184)
          Length = 59

 Score = 74.6 bits (184), Expect = 8e-15
 Identities = 20/56 (35%), Positives = 26/56 (46%)

Query: 131 VVFTVIDTEPSSKGQTVTASYKPAILSNDIRTTVPPHINIGDDIVILTEDNSYVER 186
           V   V+DT P  +G TV+   KPA L       VP  +  G+ I + T    YV R
Sbjct: 3   VELKVVDTPPGVRGDTVSGGSKPATLETGAVVQVPLFVEPGEVIKVDTRTGEYVGR 58


>1yby_A Translation elongation factor P; conserved hypothetical
          protein, structural genomics, PSI, protein structure
          initiative; 1.95A {Clostridium thermocellum} (A:1-93)
          Length = 93

 Score = 72.1 bits (177), Expect = 4e-14
 Identities = 13/65 (20%), Positives = 33/65 (50%)

Query: 1  MVKVIASAVRKGNVLDVDGKLYIVLVAKNFHPGKGTPITQVEMRRISDGVKVSNRWRTTE 60
           + + A   + G   ++DG+++ V+  ++  PGKG    + +++ I  G  +   +  T+
Sbjct: 29 GLXISAGDFKNGVTFELDGQIFQVIEFQHVKPGKGAAFVRTKLKNIVTGATIEKTFNPTD 88

Query: 61 QVERA 65
          +  +A
Sbjct: 89 KXPKA 93


>1ueb_A EF-P, TT0860, elongation factor P; beta barrel, riken
          structural genomics/proteomics initiative, RSGI,
          structural genomics; 1.65A {Thermus thermophilus}
          (A:1-63)
          Length = 63

 Score = 61.9 bits (151), Expect = 5e-11
 Identities = 11/59 (18%), Positives = 27/59 (45%)

Query: 6  ASAVRKGNVLDVDGKLYIVLVAKNFHPGKGTPITQVEMRRISDGVKVSNRWRTTEQVER 64
           + +R G  + +DG L+  +  ++   G+G      + + +  G  V   + + E++E 
Sbjct: 4  VTDLRPGTKVKMDGGLWECVEYQHQKLGRGGAKVVAKFKNLETGATVERTFNSGEKLED 62


>3gxs_A Phenylacetate-coenzyme A ligase; APC62324.1, structural
           genomics, PSI-2, protein structure initiative; 1.43A
           {Bacteroides vulgatus atcc 8482} (A:)
          Length = 109

 Score = 26.1 bits (57), Expect = 3.2
 Identities = 15/100 (15%), Positives = 28/100 (28%), Gaps = 4/100 (4%)

Query: 45  RISDGVKVSNRWRTTEQVERAFVEDQRFQFLYQDQEGFHFMNPETYDQVTVSEEVIGDQK 104
              D + +        Q+E   ++ +     Y         N E   +V +S+    D  
Sbjct: 2   NADDXIILKGVNIFPIQIETILLQFKELGSDYLITLETAESNDEXTVEVELSQLFTDDY- 60

Query: 105 VYFQEGMEVKLLIHEGVALSVEVPRHVVFTVIDTEPSSKG 144
                   +   I   +   + V   V        P S+G
Sbjct: 61  ---GRLQALTREITRQLKDEILVTPRVKLVPKGALPKSEG 97


  Database: mmdb70
    Posted date:  Jun 20, 2010  3:12 AM
  Number of letters in database: 4,956,049
  Number of sequences in database:  33,805
  
Lambda     K      H
   0.318    0.135    0.381 

Gapped
Lambda     K      H
   0.267   0.0550    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 33805
Number of Hits to DB: 1,437,473
Number of extensions: 62977
Number of successful extensions: 155
Number of sequences better than 10.0: 1
Number of HSP's gapped: 154
Number of HSP's successfully gapped: 11
Length of query: 189
Length of database: 4,956,049
Length adjustment: 84
Effective length of query: 105
Effective length of database: 2,116,429
Effective search space: 222225045
Effective search space used: 222225045
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 (21.7 bits)
S2: 52 (24.2 bits)