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= 0003.0067.p
         (252 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300313095|ref|YP_003777187.1| NlpD lipoprotein [Herbaspirillu...   376   e-105
gi|300312264|ref|YP_003776356.1| NlpD precursor lipoprotein [Her...   187   5e-49
gi|300309506|ref|YP_003773598.1| membrane-bound metallopeptidase...    70   1e-13

>gi|300313095|ref|YP_003777187.1| NlpD lipoprotein [Herbaspirillum
           seropedicae SmR1]
          Length = 254

 Score =  376 bits (965), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 193/233 (82%), Positives = 206/233 (88%), Gaps = 5/233 (2%)

Query: 24  GCASTADSEGYYTVKRGDTLYSIGRDFDQSPANLRAWNRLRNPDDLEVGQRILVRPPAGV 83
           GCASTADS+GYYTVKRGDTLYSIGRDFDQSPANLR WNRLRNPDDLEVGQRILVRPP GV
Sbjct: 23  GCASTADSDGYYTVKRGDTLYSIGRDFDQSPANLRTWNRLRNPDDLEVGQRILVRPPVGV 82

Query: 84  VARTGAGQTPRASASSGAETTPRKNA----GKPAAKPAPKSQDDDDAPAPADAKLDWMWP 139
           VARTGAGQ+PR +ASS    +   +      +P AKPA K QDDD APA A+AK+DW WP
Sbjct: 83  VARTGAGQSPRPAASSSPSASGSGSRKPAPSRPTAKPAAKPQDDD-APAGAEAKVDWSWP 141

Query: 140 TQGKSAPSADSYKKGIDITGTQGQTVVAAAAGKVTYAGHGIRGYGNMVIIKHTPQLLSVY 199
           T GKSAPSADSYKKGIDI G++GQ+VVAAAAGKVTYAGHGIRGYGNMVIIKHTPQLLSVY
Sbjct: 142 TAGKSAPSADSYKKGIDIIGSEGQSVVAAAAGKVTYAGHGIRGYGNMVIIKHTPQLLSVY 201

Query: 200 AHNATITVKEGQMVTRGQQIATMGNSDTNKVKLYFEIRRNGKPVNVMALLPAR 252
           AHN TI VKEGQ VTRGQQIATMGNSDTNKVKLYFEIRRNGKP+NVMA+LPAR
Sbjct: 202 AHNKTILVKEGQTVTRGQQIATMGNSDTNKVKLYFEIRRNGKPINVMAVLPAR 254


>gi|300312264|ref|YP_003776356.1| NlpD precursor lipoprotein
           [Herbaspirillum seropedicae SmR1]
          Length = 332

 Score =  187 bits (476), Expect = 5e-49,   Method: Compositional matrix adjust.
 Identities = 119/277 (42%), Positives = 149/277 (53%), Gaps = 57/277 (20%)

Query: 33  GYYTVKRGDTLYSIGRDFDQSPANLRAWNRLRNPDDLEVGQRILVRPP--AGVVART--- 87
           GYYTVK+GDTLY I  +  Q+  ++ AWN L NP+D++V Q + V PP  A   A+T   
Sbjct: 56  GYYTVKKGDTLYRIALEAGQNWRDIVAWNNLTNPNDIKVDQTLRVAPPDRAPGTAQTAAI 115

Query: 88  -------------GAGQT--PRASASSGAETTPRKNAGKPAAKPAPKSQDDDDAP-APA- 130
                        GA  T  P A    G+  T  +   +P ++ A    +  DAP APA 
Sbjct: 116 AASPAAGLEVKPLGAPGTSAPAAPVPVGSNKTGPRGDKRPYSESALAELEKPDAPSAPAA 175

Query: 131 -----------------------------------DAKLDWMWPTQGKSAPSADSYKKGI 155
                                              D  + WMWP +GK   + +  KKG+
Sbjct: 176 SGTSVASAAPSAPAKAEQPHAADKPAAAASQAAADDEGVSWMWPAEGKVVGTFEGGKKGV 235

Query: 156 DITGTQGQTVVAAAAGKVTYAGHGIRGYGNMVIIKHTPQLLSVYAHNATITVKEGQMVTR 215
           DI G  GQ V+AA AGKV YAG GIRGYGN+VIIKHT  LLS YAHN TI VKEGQ VT+
Sbjct: 236 DIAGKAGQAVLAAGAGKVMYAGSGIRGYGNLVIIKHTSNLLSAYAHNQTILVKEGQSVTK 295

Query: 216 GQQIATMGNSDTNKVKLYFEIRRNGKPVNVMALLPAR 252
           GQ+IA MG SD++ VKL+FEIR+ GKPV+    LP R
Sbjct: 296 GQKIAEMGKSDSDTVKLHFEIRQQGKPVDPSKYLPPR 332


>gi|300309506|ref|YP_003773598.1| membrane-bound metallopeptidase
           [Herbaspirillum seropedicae SmR1]
          Length = 470

 Score = 70.5 bits (171), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 35/93 (37%), Positives = 57/93 (61%), Gaps = 2/93 (2%)

Query: 153 KGIDITGTQGQTVVAAAAGKVTYAGHGIRGYGNMVIIKHTPQLLSVYAHNATITVKEGQM 212
           +G+ I   +G  V A AAG+V +A   +RG+GN++I+ H  Q +++Y +N ++  + G +
Sbjct: 371 RGLFIRAHEGAEVRAVAAGRVVFA-DWLRGFGNLIIVDHGNQYMTIYGNNQSVLKRAGDL 429

Query: 213 VTRGQQIATMGNSDTNKVK-LYFEIRRNGKPVN 244
           V  G  IAT GNS  N+   LYFE+R  G+  +
Sbjct: 430 VKAGDTIATAGNSGGNEQSGLYFEMRYQGRAFD 462


  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
   0.314    0.130    0.382 

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: 703,060
Number of extensions: 27002
Number of successful extensions: 101
Number of sequences better than 1.0e-08: 4
Number of HSP's gapped: 100
Number of HSP's successfully gapped: 4
Length of query: 252
Length of database: 1,619,870
Length adjustment: 83
Effective length of query: 169
Effective length of database: 1,226,865
Effective search space: 207340185
Effective search space used: 207340185
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 129 (54.3 bits)