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= 0029.0098.p
         (364 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300313455|ref|YP_003777547.1| ABC transporter periplasmic pro...    91   1e-19
gi|300313454|ref|YP_003777546.1| ABC transporter periplasmic pro...    76   5e-15

>gi|300313455|ref|YP_003777547.1| ABC transporter periplasmic
           protein [Herbaspirillum seropedicae SmR1]
          Length = 326

 Score = 91.3 bits (225), Expect = 1e-19,   Method: Compositional matrix adjust.
 Identities = 82/293 (27%), Positives = 132/293 (45%), Gaps = 29/293 (9%)

Query: 61  EEAFKAYLQHQGLSVHYIPIRFSGRAEDAGRLRQEVRDAHPDLIYSWGTPTTLALAGKVD 120
           EE F+A     G ++ +      G    A ++ ++     PD I +  TP+  AL     
Sbjct: 57  EEGFEA-----GKNLKWEYQSAQGNTGTAAQIARKFVGDKPDAIVAIATPSAQALVA--- 108

Query: 121 GPAGDAIRDIPIVFTEVTDPVGAGLMRSLDHHESNVTGVSHVAPLPVQLNAIRSYRPFS- 179
                A + IP+V++ VTDPV A L++      +NVTGVS +  L  Q++ I+   P + 
Sbjct: 109 -----ATKSIPVVYSGVTDPVAAQLVKDWKASGTNVTGVSDLLELDKQVDLIKRVVPNAK 163

Query: 180 RLGYLHNPAEPNSALVRAQLQQLAAQQKFEVESADIPLDARGEPDVQALPGLIRGMAERK 239
           R+G ++NP E NSA+V   L++L A+    +  A  P         ++L G        K
Sbjct: 164 RVGMVYNPGEANSAVVVKALKELLAKSNMTLVEAAAPRSVDVGSAAKSLIG--------K 215

Query: 240 VDFLYIGPSTLLAFTHRDLVTGAALQARLPTFCATESIVRRSGCMFGLFSNGANTGRYAA 299
           VD +Y      +   +  LV      A++P   +    V+R G +  L  N  + GR   
Sbjct: 216 VDVIYTNTDNNVVSAYEALVK-VGNDAKIPLVASDTDSVKR-GAIAALGVNYYDLGRQTG 273

Query: 300 AKAMQILVQHIPAQRIPASTLQRFSLLINMRTA--QGLDLYPPMLLLNIAEVI 350
               +IL    P   IP++T  +  L +N   A  QG+ L P   L+N A+ +
Sbjct: 274 KVVGRILKGEKPGD-IPSATSSKLELFVNTAAAQKQGVTLSPE--LVNSAKTV 323


>gi|300313454|ref|YP_003777546.1| ABC transporter periplasmic
           protein [Herbaspirillum seropedicae SmR1]
          Length = 329

 Score = 75.9 bits (185), Expect = 5e-15,   Method: Compositional matrix adjust.
 Identities = 69/261 (26%), Positives = 114/261 (43%), Gaps = 22/261 (8%)

Query: 85  RAEDAGRLRQEVRDAHPDLIYSWGTPTTLALAGKVDGPAGDAIRDIPIVFTEVTDPVGAG 144
            A  AG++ ++    +PD+I + GTP+          P   A + IPIV++ + DP+ A 
Sbjct: 80  NAGTAGQIAKKFVGDNPDVIVAIGTPSAQ--------PMVAATKTIPIVYSAIADPMAAQ 131

Query: 145 LMRSLDHHESNVTGVSHVAPLPVQLNAIRSYRPFS-RLGYLHNPAEPNSALVRAQLQQLA 203
           L++      +NVTG+SH+     Q+  I+   P + R+G ++NP E NS      L+   
Sbjct: 132 LVKDWKPSGTNVTGMSHMLDPVKQVEVIKRVVPEAKRVGVVYNPGEANSVSALNNLKGEL 191

Query: 204 AQQKFEVESADIPLDARGEPDVQALPGLIRGMAERKVDFLYIGPSTLLAFTHRDLVTGAA 263
            +    +  A  P      P  ++L G        K+D +Y      +      L     
Sbjct: 192 QKAGLTLVEAAAPRSVDVAPAAKSLIG--------KIDVMYTTTDNNVVSVFESLAK-VC 242

Query: 264 LQARLPTFCATESIVRRSGCMFGLFSNGANTGRYAAAKAMQILVQHIPAQRIPASTLQRF 323
             A+LP   +    V+R G +  L  N  + GR      ++IL +   A  IP+S ++  
Sbjct: 243 NDAKLPLIASDTGSVKR-GAVAALGVNFYDMGRQTGKLVVRIL-KGEKAGDIPSSPVKNL 300

Query: 324 SLLINMRTA--QGLDLYPPML 342
            L +N   A  QG+ L P  L
Sbjct: 301 ELYVNTSAAQKQGVTLSPEFL 321


  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
   0.323    0.137    0.406 

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: 1,170,960
Number of extensions: 50542
Number of successful extensions: 141
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 138
Number of HSP's successfully gapped: 2
Length of query: 364
Length of database: 1,619,870
Length adjustment: 86
Effective length of query: 278
Effective length of database: 1,212,660
Effective search space: 337119480
Effective search space used: 337119480
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 131 (55.1 bits)