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= 0009.0088.p
         (338 letters)

Database: BlastDatabases/689/689 
           4735 sequences; 1,619,870 total letters

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300310011|ref|YP_003774103.1| translation factor SUA5 [Herbas...   486   e-139
gi|300312576|ref|YP_003776668.1| translation factor SUA5 [Herbas...    58   1e-09

>gi|300310011|ref|YP_003774103.1| translation factor SUA5
           [Herbaspirillum seropedicae SmR1]
          Length = 347

 Score =  486 bits (1252), Expect = e-139,   Method: Compositional matrix adjust.
 Identities = 254/327 (77%), Positives = 283/327 (86%), Gaps = 2/327 (0%)

Query: 12  AARKLEAGKLVAFPTETVYGLGGDAENAAAIADIYAAKGRPANHPVIVHVAPEADISYWA 71
           AAR LE G LVAFPTETVYGLGGDAEN AAIA IYAAKGRPANHPVIVHV+PEADI YWA
Sbjct: 19  AARTLERGGLVAFPTETVYGLGGDAENPAAIAAIYAAKGRPANHPVIVHVSPEADIGYWA 78

Query: 72  ADVPPQARALIDAFWPGPLTLILKRAAHVPAAASGGQDSIGVRCPSHPVAQALLREFKGG 131
           A VP +AR LI +FWPGPLTLILKRAAH+P A +GGQDS+GVRCP+HPVAQALLREF+GG
Sbjct: 79  ASVPVEARRLIASFWPGPLTLILKRAAHIPDAVAGGQDSVGVRCPAHPVAQALLREFRGG 138

Query: 132 KGGVAGPSANKFGHVSPTTAQHVREEFG-EADSLLDYVLDGGQSEVGIESTIVDLSRVET 190
           KGG+AGPSANKFGHVSPTTA+HVREEFG +A SL+DYVLDGGQSEVGIESTIVDLSR++T
Sbjct: 139 KGGIAGPSANKFGHVSPTTAEHVREEFGSDAGSLVDYVLDGGQSEVGIESTIVDLSRIDT 198

Query: 191 HGAVLLRPGQISVDQIAAVLGVAPRAPDAAAPRASGTLDAHYAPHTPVAQVAPEQLAGVL 250
           HG VLLRPGQIS ++I AVLGV    PDA+APRASGTLDAHYAPHTPV QVAPE+LA VL
Sbjct: 199 HGPVLLRPGQISAERIEAVLGVPLATPDASAPRASGTLDAHYAPHTPVVQVAPEELATVL 258

Query: 251 QQLAAGGYKVALIYRTA-AMPVHASAAMSTDADRYAHGLYAALRDMDHKGADVIVVESLP 309
           ++LAA G KVALI R   +  V  + AM   AD YAH LYAALRDMDH GAD+IVVE+LP
Sbjct: 259 EKLAALGKKVALIARLQRSGLVSVTRAMPDTADAYAHDLYAALRDMDHTGADLIVVEALP 318

Query: 310 QTAEWQGINDRLRRAAFDSTGILSRLL 336
            + +WQG+NDRLRRAAFDS G+L+RL 
Sbjct: 319 LSGQWQGVNDRLRRAAFDSQGLLARLF 345


>gi|300312576|ref|YP_003776668.1| translation factor SUA5
           [Herbaspirillum seropedicae SmR1]
          Length = 211

 Score = 57.8 bits (138), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 51/193 (26%), Positives = 91/193 (47%), Gaps = 10/193 (5%)

Query: 9   VRLAARKLEAGKLVAFPTETVYGLGGDAENAAAIADIYAAKGRPANHPVIVHVAPEADIS 68
           ++ AA+ +  G LVA PT++ Y L    +N  A+  +   +G    H + +     ++I+
Sbjct: 17  IKQAAQIIHKGGLVALPTDSCYALVCQLDNKDAVERVRRIRGVDEKHHLTLLCRDLSEIA 76

Query: 69  YWAADVPPQARALIDAFWPGPLTLILKRAAHVPAAASG-GQDSIGVRCPSHPVAQALLRE 127
            +A     Q R L+ A  PG  T IL+    VP   S   + +IG+R P + +A  LL E
Sbjct: 77  QYAKVDNRQYR-LLKAATPGAYTFILEATKEVPRRLSHPSRKTIGLRVPENRIAHMLLEE 135

Query: 128 FKGGKGGVAGPSANKFGHVSPTTAQHVREEFGEADSLLDYVLDGGQSEVGIESTIVDLSR 187
              G+  +          +  T+A+ +R    +    +D V+D G   +   +T++DL+ 
Sbjct: 136 L--GQPLLGTTLILPDDDLPLTSAEDIRSHLEKQ---IDLVIDSGACSLE-PTTVIDLT- 188

Query: 188 VETHGAVLLRPGQ 200
            +    VL+R G+
Sbjct: 189 -DDEQPVLVRQGR 200


  Database: BlastDatabases/689/689
    Posted date:  Apr 10, 2011 12:15 AM
  Number of letters in database: 1,619,870
  Number of sequences in database:  4735
  
Lambda     K      H
   0.317    0.132    0.387 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 4735
Number of Hits to DB: 1,098,756
Number of extensions: 48026
Number of successful extensions: 206
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 203
Number of HSP's successfully gapped: 2
Length of query: 338
Length of database: 1,619,870
Length adjustment: 86
Effective length of query: 252
Effective length of database: 1,212,660
Effective search space: 305590320
Effective search space used: 305590320
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: 131 (55.1 bits)