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= 0017.0103.p
         (347 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300310349|ref|YP_003774441.1| sugar ABC transporter permease ...   670   0.0  
gi|300310397|ref|YP_003774489.1| ribose/xylose/arabinose/galacto...   145   4e-36
gi|300313727|ref|YP_003777819.1| sugar ABC transporter permease ...   115   7e-27
gi|300310064|ref|YP_003774156.1| sugar ABC transporter permease ...   114   2e-26
gi|300313726|ref|YP_003777818.1| sugar ABC transporter permease ...    99   7e-22

>gi|300310349|ref|YP_003774441.1| sugar ABC transporter permease
           [Herbaspirillum seropedicae SmR1]
          Length = 347

 Score =  670 bits (1728), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 346/347 (99%), Positives = 346/347 (99%)

Query: 1   MDASTLTRQAADASTDAPVQRRPSLAALLKKNPSAFTLLLIVLVVLTVALINPAFFQLAV 60
           MDASTLTRQAADASTDAPVQRRPSLAALLKKNPSAFTLLLIVLVVLTVALINPAFFQLAV
Sbjct: 1   MDASTLTRQAADASTDAPVQRRPSLAALLKKNPSAFTLLLIVLVVLTVALINPAFFQLAV 60

Query: 61  LFDIVRACTTLGLFALGVMIVLAAGGIDVSFAAIAALTMYSITKVVMTWFPETHIAVILL 120
           LFDIVRACTTLGLFALGVMIVLAAGGIDVSFAAIAALTMYSITKVVMTWFPETHIAVILL
Sbjct: 61  LFDIVRACTTLGLFALGVMIVLAAGGIDVSFAAIAALTMYSITKVVMTWFPETHIAVILL 120

Query: 121 AGAVGGAGLGVLNGLLVDWLKAPSLIVTIGTQYLYRGILLTFVGTVFFMNIPHAMDSFGK 180
           AGAVGGAGLGVLNGLLVDWLKAPSLIVTIGTQYLYRGILLTFVGTVFFMNIPHAMDSFGK
Sbjct: 121 AGAVGGAGLGVLNGLLVDWLKAPSLIVTIGTQYLYRGILLTFVGTVFFMNIPHAMDSFGK 180

Query: 181 LALARHDTANGLHAVLPATVLVLVLASVLTWWLLNRTLMGRAVYAVGGSLAIAERLGYKL 240
           L LARHDTANGLHAVLPATVLVLVLASVLTWWLLNRTLMGRAVYAVGGSLAIAERLGYKL
Sbjct: 181 LTLARHDTANGLHAVLPATVLVLVLASVLTWWLLNRTLMGRAVYAVGGSLAIAERLGYKL 240

Query: 241 RSVHLFVFGYAGFLSGLAGIVHVSSTRLANPFDLVGSELDVIAAVVLGGARITGGHGSVM 300
           RSVHLFVFGYAGFLSGLAGIVHVSSTRLANPFDLVGSELDVIAAVVLGGARITGGHGSVM
Sbjct: 241 RSVHLFVFGYAGFLSGLAGIVHVSSTRLANPFDLVGSELDVIAAVVLGGARITGGHGSVM 300

Query: 301 GTLLGVLLVTLINNVLILAGVPSTWQKAIIGGFIVLAGAVFALRREK 347
           GTLLGVLLVTLINNVLILAGVPSTWQKAIIGGFIVLAGAVFALRREK
Sbjct: 301 GTLLGVLLVTLINNVLILAGVPSTWQKAIIGGFIVLAGAVFALRREK 347


>gi|300310397|ref|YP_003774489.1|
           ribose/xylose/arabinose/galactoside ABC transporter
           permease [Herbaspirillum seropedicae SmR1]
          Length = 328

 Score =  145 bits (367), Expect = 4e-36,   Method: Compositional matrix adjust.
 Identities = 121/337 (35%), Positives = 174/337 (51%), Gaps = 21/337 (6%)

Query: 2   DASTLTRQAADASTDAPVQRRPSLAALLKKNPSAFTLLLIVLVVLTVALINPAFFQLAVL 61
           DA+ L   AA   T A  + R      L  +P A  L  +V+V L + L +  FF L+  
Sbjct: 4   DANAL--PAASLHTAASARWRS-----LIHSPLALPLAGLVVVSLLMGLASDNFFTLSNW 56

Query: 62  FDIVRACTTLGLFALGVMIVLAAGGIDVSFAAIAALT-MYSITKVVMTWFPETHIAVILL 120
           F+++R  + +G+ A+G+  V+  GGID+S  A  AL    S   +V +  P     + LL
Sbjct: 57  FNVLRQVSIVGILAVGMSFVILTGGIDLSVGAAMALAGTISAGLIVNSGLPAP---LALL 113

Query: 121 AGAVGGAGLGVLNGLLVDWLKAPSLIVTIGTQYLYRGILLTFVGTVFFMNIPHAMDSFGK 180
            G      +G+LNG LV W + P++IVT+ T  + RG+ L + G      +P  +  FG 
Sbjct: 114 CGVGLATCIGLLNGALVAWGRMPAIIVTLATMGVARGVGLIYSGGYPISGLPGWISWFGV 173

Query: 181 LALARHDTANGLHAVLPATVLVLVLASVLTWWLLNRTLMGRAVYAVGGSLAIAERLGYKL 240
                     G   ++P  V+++++   L W LL RT  GR VYA+GG+   A   G K 
Sbjct: 174 ----------GRIGMVPVPVILMLIVYALAWLLLQRTAFGRHVYAIGGNEMAARLSGVKT 223

Query: 241 RSVHLFVFGYAGFLSGLAGIVHVSSTRLANPFDLVGSELDVIAAVVLGGARITGGHGSVM 300
             + L V+  +GF SGLA I+         P   VG ELD IAAVVLGG  I GG G V+
Sbjct: 224 TRIKLAVYAISGFTSGLAAIILTGRLMSGQPNAGVGFELDAIAAVVLGGTAIAGGRGLVV 283

Query: 301 GTLLGVLLVTLINNVLILAGVPSTWQKAIIGGFIVLA 337
           GTL+G +L+ ++NN L L G+    Q  I G  I+LA
Sbjct: 284 GTLIGAVLLGILNNGLNLMGINPYLQDIIRGVIILLA 320


>gi|300313727|ref|YP_003777819.1| sugar ABC transporter permease
           [Herbaspirillum seropedicae SmR1]
          Length = 352

 Score =  115 bits (287), Expect = 7e-27,   Method: Compositional matrix adjust.
 Identities = 95/297 (31%), Positives = 151/297 (50%), Gaps = 14/297 (4%)

Query: 53  PAFFQLAVLFDIVRACTTLGLFALGVMIVLAAGGIDVSFAAIAALTMYSITKVVMTWFPE 112
           P F     + +++       + AL  M+V+   GID+S A+  AL+   ++ ++   FP 
Sbjct: 47  PVFLSAQSMDNLLTDSAITIMLALAQMLVILTRGIDLSVASNLALSGM-MSALLAMHFPA 105

Query: 113 THIAVILLAGAVGGAGLGVLNGLLVDWLKAPSLIVTIGTQYLYRGILLTFVGTVFF--MN 170
             + V +L   + G  LG+LNG L+ +L+ P ++VT+G+  +YRG++    G  +    N
Sbjct: 106 LPVGVFILMAVLIGLMLGLLNGWLIGYLELPPIVVTLGSMSVYRGMVFVLSGGAWVSSRN 165

Query: 171 IPHAMDSFGKLALARHDTANGLHAVLPATVLVLVLASVLTWWLLNRTLMGRAVYAVGGSL 230
           +P    +F    LAR      L       V +  LA V  W+L   T  GR +YA+G   
Sbjct: 166 MPADFIAF---PLARLGGLTHL-------VWLGALAVVAIWFLARHTRFGRDLYAIGNDP 215

Query: 231 AIAERLGYKLRSVHLFVFGYAGFLSGLAGIVHVSSTRLANPFDLVGSELDVIAAVVLGGA 290
           A A  +G   R   L+ +G +G ++GLAG + V+   +A      G EL VIAA V+GG 
Sbjct: 216 AAAAYVGIASRGRLLWTYGLSGAMAGLAGYLWVARYAVAYTEIAYGFELTVIAACVIGGV 275

Query: 291 RITGGHGSVMGTLLGVLLVTLINNVLILAGVPSTWQKAIIGGFIVLAGAVFALRREK 347
            I GG G V G +LG L +++INN L +  +   WQ A+  G ++L   V   R ++
Sbjct: 276 SIAGGVGQVSGAVLGALFLSVINNALPIMRISPFWQSALT-GLVILCAVVLNARGKQ 331


>gi|300310064|ref|YP_003774156.1| sugar ABC transporter permease
           [Herbaspirillum seropedicae SmR1]
          Length = 344

 Score =  114 bits (284), Expect = 2e-26,   Method: Compositional matrix adjust.
 Identities = 97/287 (33%), Positives = 151/287 (52%), Gaps = 17/287 (5%)

Query: 63  DIVRACTTLGLFALGVMIVLAAGGIDVSFAAIAALTMYSITKVVMTWFPETHIAVILLAG 122
           +I+R      + A G+  V+   GID+S  ++ A++     +V +   P   I + + +G
Sbjct: 68  NILRQVAINLVLAAGMTFVILTAGIDLSVGSVLAVSAVLGMQVSLGAAPGWAIPMFIFSG 127

Query: 123 AVGGAGLGVLNGLLVDWLKAPSLIVTIGTQYLYRG--ILLTFVGTVFFMNIPHAMDSFGK 180
            V    +G++NG +V  L   + +VT+GT   +RG   LL    TV   +IP    SF  
Sbjct: 128 LV----MGMVNGAMVALLNINAFVVTLGTMTAFRGAAYLLADGTTVLNNDIP----SFEW 179

Query: 181 LALARHDTANGLHAVLPATVLVLVLASVLTWWLLNRTLMGRAVYAVGGSLAIAERLGYKL 240
           +        NG    +P  + V V   +L+W +L +T++G  +YA+GG+L  A   G ++
Sbjct: 180 IG-------NGDFLHVPWLIWVAVAVVLLSWVILRKTVLGMHIYAIGGNLQAARLTGIRV 232

Query: 241 RSVHLFVFGYAGFLSGLAGIVHVSSTRLANPFDLVGSELDVIAAVVLGGARITGGHGSVM 300
             V LFV+  +G  SGLAG +  S    AN     G ELD IAAVVLGG  + GG GS+ 
Sbjct: 233 GLVLLFVYSISGLFSGLAGAMSASRLYGANGNWGSGYELDAIAAVVLGGTSLMGGVGSIW 292

Query: 301 GTLLGVLLVTLINNVLILAGVPSTWQKAIIGGFIVLAGAVFALRREK 347
           GT++G L++ ++NN L + G+ S WQ    G  IVLA  +   R++ 
Sbjct: 293 GTVVGALIIGVMNNGLTILGLSSFWQYVAKGAVIVLAVILDKWRQKD 339


>gi|300313726|ref|YP_003777818.1| sugar ABC transporter permease
           [Herbaspirillum seropedicae SmR1]
          Length = 342

 Score = 98.6 bits (244), Expect = 7e-22,   Method: Compositional matrix adjust.
 Identities = 93/301 (30%), Positives = 148/301 (49%), Gaps = 18/301 (5%)

Query: 50  LINPAFFQLAVLFDIVRACTTLGLFALGVMIVLAAGGIDVSFAAIAALTMYSITKVVMTW 109
           L+ P FF    L D     +   + AL + +++    ID+S +AI AL   ++       
Sbjct: 52  LLLPHFFDPYNLADSTFNFSEKAMIALPMALLIICREIDISVSAIIALASVAMGLANQAG 111

Query: 110 FPETHIAVILLAGAVGGAGLGVLNGLLVDWLKAPSLIVTIGTQYLYRGILLTFVGTVFFM 169
            P   + ++L+A A G A  G+LNG LV  L  PS++VTIG+  L+RG+    +G   F 
Sbjct: 112 VPP--LGLLLVAIATGTA-CGLLNGALVTRLGLPSIVVTIGSMSLFRGLASVVLGDQAFT 168

Query: 170 NIPHAMDSFGKLALARHDTANGLHAVLPATVLVLVLASVLTWWLLNRTLMGRAVYAVGGS 229
             P  +  +G+              VLP   +V +LA+V+   LL+ T  GR +YA+G +
Sbjct: 169 QYPEVLGDWGQ---------GYFFDVLPRPFVVWLLAAVVFAVLLHVTRWGRRLYAIGNN 219

Query: 230 LAIAERLGYKLRSVHLFVFGYAGFLSGLAGIV---HVSSTRLANPFDLVGSELDVIAAVV 286
              A   G  +    L +F   G ++GLA       + STR   P   +G EL++I  V+
Sbjct: 220 PVAARFSGVAVDRYRLALFVLTGAMAGLAAFFLTGRIGSTR---PNIAMGWELEIITVVI 276

Query: 287 LGGARITGGHGSVMGTLLGVLLVTLINNVLILAGVPSTWQKAIIGGFIVLAGAVFALRRE 346
           LGG  I GG GS+ G +L VL++ ++   L LA +P      ++G  ++   A+  L R 
Sbjct: 277 LGGVSIAGGTGSIGGVMLSVLVMGMLTYGLALANIPGIIMTIVVGALLLATIAIPRLLRG 336

Query: 347 K 347
           +
Sbjct: 337 R 337


  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
   0.328    0.141    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: 853,021
Number of extensions: 28774
Number of successful extensions: 247
Number of sequences better than 1.0e-08: 19
Number of HSP's gapped: 236
Number of HSP's successfully gapped: 20
Length of query: 347
Length of database: 1,619,870
Length adjustment: 86
Effective length of query: 261
Effective length of database: 1,212,660
Effective search space: 316504260
Effective search space used: 316504260
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 131 (55.1 bits)