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= 0006.0001.p
         (312 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300312481|ref|YP_003776573.1| dipeptide ABC transporter perip...   464   e-132
gi|300310897|ref|YP_003774989.1| dipeptide ABC transporter perip...    93   3e-20
gi|300311169|ref|YP_003775261.1| dipeptide ABC transporter perip...    69   5e-13

>gi|300312481|ref|YP_003776573.1| dipeptide ABC transporter
           periplasmic protein [Herbaspirillum seropedicae SmR1]
          Length = 512

 Score =  464 bits (1194), Expect = e-132,   Method: Compositional matrix adjust.
 Identities = 218/277 (78%), Positives = 256/277 (92%)

Query: 36  KXRSAQLMTGAVDWIWRVPADQAESFKSMPKVTVQSGETMRVGFLTIDAPGSSSPNSPMR 95
           + R+AQLMTGA+DWIWRVP DQA+S K+ PK+ VQSGETMR+GF+T+D  G+S+PNSP +
Sbjct: 236 ETRAAQLMTGAIDWIWRVPPDQADSLKTNPKLAVQSGETMRIGFITLDTTGTSAPNSPFK 295

Query: 96  DLRVRQAINYAINRKGIADNLVRGGSKPIYTACFRTQFGCDAKVAINYEYNPAKAKELLA 155
           D+RVRQA+N+AINRKG ADNL+RGGS+P+YTACFRTQFGCD+  AI Y+YNPAKAKELLA
Sbjct: 296 DVRVRQAVNHAINRKGYADNLMRGGSQPVYTACFRTQFGCDSNAAIKYDYNPAKAKELLA 355

Query: 156 AAGFPNGFDTDIYAYREREFAEAIIGDLHKVGIRARLHYMKYAALQVEYRNGKTPLTFQA 215
           AAG+PNGFDTDIYAYRERE AEAIIGDL KVGIRARLHYMK+AALQ EYR+GKTP++F +
Sbjct: 356 AAGYPNGFDTDIYAYREREIAEAIIGDLRKVGIRARLHYMKFAALQTEYRSGKTPMSFYS 415

Query: 216 WGSFSMNDTSAFAGVFFKGGSDDITKDPQVRQWLETADSSTDPAVRKVNYSKALESISKQ 275
           WGSFSMNDTSAFAGV+FKGG+DDITKDPQ++Q+L+TAD+S DPAVRK NYSKA E ISKQ
Sbjct: 416 WGSFSMNDTSAFAGVYFKGGADDITKDPQLQQYLQTADTSIDPAVRKANYSKAQELISKQ 475

Query: 276 AFMAPLFSYSTFYAYNSQLKFQGYPDELPRFYEASWK 312
           A++AP+FSYST+YAYN+QL FQGYPDELPRFYEASWK
Sbjct: 476 AYVAPMFSYSTYYAYNAQLNFQGYPDELPRFYEASWK 512


>gi|300310897|ref|YP_003774989.1| dipeptide ABC transporter
           periplasmic protein [Herbaspirillum seropedicae SmR1]
          Length = 528

 Score = 92.8 bits (229), Expect = 3e-20,   Method: Compositional matrix adjust.
 Identities = 75/285 (26%), Positives = 129/285 (45%), Gaps = 31/285 (10%)

Query: 38  RSAQLMTGAVDWIWRVPADQAESFKSMPKVTVQSGETMRVGFL-----------TIDAPG 86
           R+A L++G VD I +V        K  P V V     +RV  +             D  G
Sbjct: 229 RTAALLSGDVDVIDKVSVSDLAKLKQSPNVKVYPYNGLRVLLIQPSFHQGPSPFITDNNG 288

Query: 87  SSSPNSPMRDLRVRQAINYAINRKGIADNLVRGGSKPIYTACFRTQFGCDAKVAINYEYN 146
                +P+ D+RVR+A++ AINRK + D +++G +           FG + ++  N  ++
Sbjct: 289 KQLDKNPLLDVRVRRAMSLAINRKALIDRILQGAATEANQWMPADTFGYNPEIK-NIPFD 347

Query: 147 PAKAKELLAAAGFPNGFDTDIYAYRER-----EFAEAIIGDLHKVGIRARLHYMKYAALQ 201
            A+AK+LLA AGFP+GF   I+   +R     E  +A+     ++GI+ ++  + +AA  
Sbjct: 348 AAQAKKLLADAGFPDGFKLTIHVPNDRYPQAPETMQAVAQFWTRIGIKTQVEVLPWAAYS 407

Query: 202 VEYRNGKTPLTFQAWGSFSMNDTSAFAGVFFKGGSDDITK-----------DPQVRQWLE 250
                 +  ++  AWG+ +   + A   V    GS D  K            P V + L 
Sbjct: 408 SRANKNEFAVSVLAWGNGTGEASYALVNVL---GSVDPKKGIGASNWNHYSSPAVDKALA 464

Query: 251 TADSSTDPAVRKVNYSKALESISKQAFMAPLFSYSTFYAYNSQLK 295
            + +  D A R+     A +++S++  + PL+ Y   +A    LK
Sbjct: 465 DSTAEFDAAKREAILRGAAKTVSEEVGVIPLYHYQNIWAAKKGLK 509


>gi|300311169|ref|YP_003775261.1| dipeptide ABC transporter
           periplasmic protein [Herbaspirillum seropedicae SmR1]
          Length = 523

 Score = 68.9 bits (167), Expect = 5e-13,   Method: Compositional matrix adjust.
 Identities = 46/164 (28%), Positives = 86/164 (52%), Gaps = 13/164 (7%)

Query: 38  RSAQLMTGAVDWIWRVPADQAESFKSMPKVTVQSGETMRVGFLTIDAPGSSSPNSPMRDL 97
           RSA + TG   + + +P +QA+  KS   + V +  ++   +++++     +   P  + 
Sbjct: 238 RSAMMQTGEAQFTYPLPYEQADLLKSKSNLDVVAAPSIIQRYMSMN-----TKQKPFDNP 292

Query: 98  RVRQAINYAINRKGIADNLVRGGSKPIYTACFRTQFGCDAKVAIN-YEYNPAKAKELLAA 156
           +VR+AINYAIN++ +      G + P+     +   G D       + Y+  KAK LLA 
Sbjct: 293 KVREAINYAINKQALVKVAFNGYAVPMDGVVPQ---GVDYAYKTGPWPYDVKKAKALLAE 349

Query: 157 AGFPNGFDTDIYAYREREFAEAII----GDLHKVGIRARLHYMK 196
           AG+PNGF+T++++      A  I+      L +VGI+A++  ++
Sbjct: 350 AGYPNGFETELWSAYTHSTAVKIVQFLQQQLAQVGIKAKIQALE 393


  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
   0.318    0.131    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: 894,590
Number of extensions: 35212
Number of successful extensions: 117
Number of sequences better than 1.0e-08: 3
Number of HSP's gapped: 112
Number of HSP's successfully gapped: 3
Length of query: 312
Length of database: 1,619,870
Length adjustment: 85
Effective length of query: 227
Effective length of database: 1,217,395
Effective search space: 276348665
Effective search space used: 276348665
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 (21.8 bits)
S2: 130 (54.7 bits)