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= 0001.3929.p
         (259 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300310072|ref|YP_003774164.1| transmembrane protein [Herbaspi...   472   e-134
gi|300313328|ref|YP_003777420.1| type IV / VI secretion system t...   447   e-127

>gi|300310072|ref|YP_003774164.1| transmembrane protein
           [Herbaspirillum seropedicae SmR1]
          Length = 263

 Score =  472 bits (1215), Expect = e-134,   Method: Compositional matrix adjust.
 Identities = 231/263 (87%), Positives = 242/263 (92%), Gaps = 4/263 (1%)

Query: 1   MNMTSAPSLLDPDHRPPTQAASAP----VNARSLLDLMYDGFYALFMLKNGSAPVDEASF 56
           MNMTSAPSLLD D  P +  +       V A SLLDLMYDGFYALFML+NG+AP+DEASF
Sbjct: 1   MNMTSAPSLLDQDSFPSSSPSPTSASAPVKANSLLDLMYDGFYALFMLRNGNAPLDEASF 60

Query: 57  SMKMQKFLGDVERNAKKLDVSPEDVYAAKYAFCASVDEIILRSNFGIRDAWERRPLQLTM 116
           ++KMQKFLGDVERNAKKLDVSPEDVYAAKYAFCASVDEIILRSNF IRDAWERRPLQLTM
Sbjct: 61  AIKMQKFLGDVERNAKKLDVSPEDVYAAKYAFCASVDEIILRSNFTIRDAWERRPLQLTM 120

Query: 117 FGDQLAGENFFKQLEDLRIRGNAHIQALEVFHMCLLLGFQGKYALEGPEKLNYLTARLGD 176
           FGDQLAGENFFKQLEDLR+RGNAH+QALEVFHMCLLLGFQGKYALEGPEKL YLTARLGD
Sbjct: 121 FGDQLAGENFFKQLEDLRVRGNAHVQALEVFHMCLLLGFQGKYALEGPEKLGYLTARLGD 180

Query: 177 EIAHLKGKSAGFAPHWARPDAIVNKLRNDVPLWVVASLFAFIAMFAYLGLNWMLTSGTEN 236
           EIAH+KGKSAGFAPHWARPDAIVNKLRNDVPLW V SLFA IA+FAYLGLNWMLTSGTEN
Sbjct: 181 EIAHMKGKSAGFAPHWARPDAIVNKLRNDVPLWAVGSLFALIALFAYLGLNWMLTSGTEN 240

Query: 237 GLAGYADIVKLAPRTANLTITLP 259
           GLAGY DIVKLAPRTANLTITLP
Sbjct: 241 GLAGYTDIVKLAPRTANLTITLP 263


>gi|300313328|ref|YP_003777420.1| type IV / VI secretion system
           transmembrane protein [Herbaspirillum seropedicae SmR1]
          Length = 257

 Score =  447 bits (1151), Expect = e-127,   Method: Compositional matrix adjust.
 Identities = 213/257 (82%), Positives = 229/257 (89%)

Query: 3   MTSAPSLLDPDHRPPTQAASAPVNARSLLDLMYDGFYALFMLKNGSAPVDEASFSMKMQK 62
           MTS PSLLDP          AP+NARSLLDL+YDGFYALFMLKNG  PVD+ SF  KMQK
Sbjct: 1   MTSPPSLLDPTPLQMPVTTGAPINARSLLDLIYDGFYALFMLKNGGTPVDDVSFESKMQK 60

Query: 63  FLGDVERNAKKLDVSPEDVYAAKYAFCASVDEIILRSNFGIRDAWERRPLQLTMFGDQLA 122
           FLG+VERNAKK++ SP+D+YAAKYAFCASVDEIILRS FGIR AWERRPLQLTMFGDQLA
Sbjct: 61  FLGEVERNAKKINASPDDIYAAKYAFCASVDEIILRSKFGIRPAWERRPLQLTMFGDQLA 120

Query: 123 GENFFKQLEDLRIRGNAHIQALEVFHMCLLLGFQGKYALEGPEKLNYLTARLGDEIAHLK 182
           GENFF +LE+LR+ GNAHIQALEVFHMCLLLGFQGKYALEGPEKLNYLTARLGDEIAHLK
Sbjct: 121 GENFFHKLEELRLHGNAHIQALEVFHMCLLLGFQGKYALEGPEKLNYLTARLGDEIAHLK 180

Query: 183 GKSAGFAPHWARPDAIVNKLRNDVPLWVVASLFAFIAMFAYLGLNWMLTSGTENGLAGYA 242
           GKSAGFAPHW RPDA++NKLRNDVPLWVV SLFA I +FAYLG+ WML S TENGLAGY+
Sbjct: 181 GKSAGFAPHWERPDAVINKLRNDVPLWVVISLFALITLFAYLGVRWMLISDTENGLAGYS 240

Query: 243 DIVKLAPRTANLTITLP 259
           DIVKLAPRTANLTITLP
Sbjct: 241 DIVKLAPRTANLTITLP 257


  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
   0.322    0.137    0.414 

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: 846,912
Number of extensions: 34767
Number of successful extensions: 97
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 96
Number of HSP's successfully gapped: 2
Length of query: 259
Length of database: 1,619,870
Length adjustment: 83
Effective length of query: 176
Effective length of database: 1,226,865
Effective search space: 215928240
Effective search space used: 215928240
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 129 (54.3 bits)