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= 0093.0001.p
         (322 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300311608|ref|YP_003775700.1| sugar ABC transporter periplasm...    63   3e-11
gi|300310351|ref|YP_003774443.1| sugar ABC transporter periplasm...    60   3e-10
gi|300310384|ref|YP_003774476.1| sugar ABC transporter periplasm...    57   1e-09

>gi|300311608|ref|YP_003775700.1| sugar ABC transporter periplasmic
           protein [Herbaspirillum seropedicae SmR1]
          Length = 314

 Score = 62.8 bits (151), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 61/227 (26%), Positives = 108/227 (47%), Gaps = 31/227 (13%)

Query: 105 PLVREAVNTLVAEGIPVVTLISDLSNSR------RAAYVGMDNRAAGRTAGYLLGRFLGG 158
           P+V++A++     GI VV + + L ++          +VG DNR   + AG  LG+ L  
Sbjct: 106 PVVKKAIDA----GIIVVNIDNKLDDAALKEKGITVPFVGPDNRKGAKLAGDYLGKQLQK 161

Query: 159 GNAGGGKAKPMKVAMIAGSLSYRGHEEREMGFLHVLEEMFPHLQVVGLREGHDDADTNYK 218
           G+         KVA+I G  +    ++R +GF   ++++  +  VV ++ G  + D   K
Sbjct: 162 GD---------KVAIIEGVSTTFNAQQRTLGFQDAMKDVGAN--VVTVQSGQWEIDQGNK 210

Query: 219 QARTLLEQYPD----LAGMYNIGGASDGVGRALRESGREQKVVFIGHGLTPDTRGLLIDG 274
            A ++L  +PD    LAG  N+   + G   A+R +G+  KV  +G+      + +L DG
Sbjct: 211 VAASILNAHPDIKAILAGNDNM---ALGAVAAIRAAGKTGKVQLVGYDNINAIKPMLKDG 267

Query: 275 TVDAILTQHPQNM-IMNCVRIFGNLRDRK--EALAGVEAVRISVMLR 318
            V A + Q  Q   +         L ++K   AL GV   ++S++ +
Sbjct: 268 RVLATVDQFAQQQAVFGIETALKALSEKKPQSALGGVVETKVSLVTK 314


>gi|300310351|ref|YP_003774443.1| sugar ABC transporter periplasmic
           protein [Herbaspirillum seropedicae SmR1]
          Length = 335

 Score = 60.1 bits (144), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 51/200 (25%), Positives = 89/200 (44%), Gaps = 17/200 (8%)

Query: 92  RQADGVAFMALEHPLVREAVNTLVAEGIPVVTLISDLSNSRRAAYVGMDNRAAGRTAGYL 151
           ++ D +A ++++ P +   +   +  GI VVT  +D   +        DN A G      
Sbjct: 86  KKVDAIAVVSMDPPTLEPVLKRALDRGIKVVTHEADNQKNTLVDIEAFDNTAYGARLNDR 145

Query: 152 LGRFLGGGNAGGGKAKPMKVAMIAGSLSYRGHEEREMGFLHVLEEMFPHLQVVGLR-EGH 210
           L   +G   AG       K + + GSL  +   +   G      + +P + +V  + E  
Sbjct: 146 LAACMG--QAG-------KWSSLVGSLGSQSQVQWADGGAANAAKKYPKMTLVDAKNESA 196

Query: 211 DDADTNYKQARTLLEQYPDLAGMYNIGGASD----GVGRALRESGREQKVVFIGHGLTPD 266
           +DA+  Y +A+ +L ++PD+ G     G+S     G+GRA+ E+G + KV   G GL  +
Sbjct: 197 NDAEKAYAKAKEILRKHPDIKGFQ---GSSSLDVLGIGRAVEEAGLQGKVCVYGTGLPSE 253

Query: 267 TRGLLIDGTVDAILTQHPQN 286
               L  G V  I    P++
Sbjct: 254 AAKFLESGAVGGIAFWDPKD 273


>gi|300310384|ref|YP_003774476.1| sugar ABC transporter periplasmic
           protein [Herbaspirillum seropedicae SmR1]
          Length = 312

 Score = 57.4 bits (137), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 49/198 (24%), Positives = 94/198 (47%), Gaps = 20/198 (10%)

Query: 92  RQADGVAFMALEH----PLVREAVNTLVAEGIPVVTLISDLSNSRRAAYVGMDNRAAGRT 147
           ++   + F AL+     PL+++A     A  IPVV   S + +         DNRAA   
Sbjct: 83  KKPQAIGFAALDSKAAIPLLKKAQ----AAKIPVVAFDSGVDSDIPVTTATTDNRAAAAL 138

Query: 148 AGYLLGRFLGGGNAGGGKAKPMKVAMIAGSLSYRGHEEREMGFLHVLEEMFPHLQVVGLR 207
           A   +   +G         K  +VA++A   + R   +R  GFL  ++  +P ++VV ++
Sbjct: 139 AADKMAELVG---------KEGEVAVVAHDQTSRTGVDRRDGFLERIKSAYPKIKVVSVQ 189

Query: 208 EGHDDADTNYKQARTLLEQYPDLAGMYNIG-GASDGVGRALRESGREQKVVFIGHGLTPD 266
            G  D   + +  +++L+ YP + G++    G++ GV   ++E  R  K++ IG+     
Sbjct: 190 YGAGDQLKSTEVTKSILQAYPKIKGIFGTNEGSAIGVVNGVKEMKR--KIIIIGYDSGKQ 247

Query: 267 TRGLLIDGTVDAILTQHP 284
            +  + +G +   +TQ+P
Sbjct: 248 QKDAIREGIMAGAITQNP 265


  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    0.139    0.407 

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: 973,616
Number of extensions: 40378
Number of successful extensions: 149
Number of sequences better than 1.0e-08: 3
Number of HSP's gapped: 144
Number of HSP's successfully gapped: 3
Length of query: 322
Length of database: 1,619,870
Length adjustment: 85
Effective length of query: 237
Effective length of database: 1,217,395
Effective search space: 288522615
Effective search space used: 288522615
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: 130 (54.7 bits)