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= 0001.4436.p
         (452 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300313831|ref|YP_003777923.1| sugar ABC transporter periplasm...   790   0.0  
gi|300309614|ref|YP_003773706.1| sugar ABC transporter periplasm...    60   3e-10

>gi|300313831|ref|YP_003777923.1| sugar ABC transporter periplasmic
           protein [Herbaspirillum seropedicae SmR1]
          Length = 446

 Score =  790 bits (2041), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 386/452 (85%), Positives = 411/452 (90%), Gaps = 6/452 (1%)

Query: 1   MTTTKRPANARIGPARCGLVAGWLLAWALWLGLGVAQAQSAPAVAVAGPLAAPSNPVASL 60
           MT TKRPANAR GPARCGL A  L A  LWLG   AQAQS P+  V      P+    SL
Sbjct: 1   MTRTKRPANARTGPARCGLAAVCLCALTLWLGGLPAQAQS-PSSPVP-----PATATGSL 54

Query: 61  QVLHWWTSASERQAINVVVNQLAREHIQWRDVAIPGGAGMGAAKVLKSMVLANRAPEVTQ 120
           QVLHWWTSASERQAINVVVNQLA++ IQWRDVAIPGGAGMGAAKVLKSMVLANRAPEVTQ
Sbjct: 55  QVLHWWTSASERQAINVVVNQLAKQDIQWRDVAIPGGAGMGAAKVLKSMVLANRAPEVTQ 114

Query: 121 LNGVVFAEWADLGLLLTLDNVAAQGNWEKLMFPTVWSLLNNRGHVVAAPLGIHRINSLFY 180
           LNGVVF EWADLGLLL LDNVA QGNWEK MFPTVWSLLNN GHVVAAPLGIHRINSL+Y
Sbjct: 115 LNGVVFGEWADLGLLLELDNVAVQGNWEKQMFPTVWSLLNNHGHVVAAPLGIHRINSLYY 174

Query: 181 NIAIFQRYHLSPPRTWDEFDHIVKKLQGTGVIPLAQSAEAWQLAGLFENLVLAESGPAYY 240
           N+A+F+RY+LSPP+TWDEFD IVKKLQG+GV+PLAQSAEAWQLA LFENL LAESGPAYY
Sbjct: 175 NVAVFKRYNLSPPKTWDEFDQIVKKLQGSGVVPLAQSAEAWQLATLFENLALAESGPAYY 234

Query: 241 RRLFVDMNPAAFLDARMLHILKRFRALAAAMPQPLRERPWTEMARSMVSGEAAMLIMGDW 300
           R+LFV+M+PAA+LDARMLHILKR RALA AM QP+RERPWTE+ARSMVSGEAAMLIMGDW
Sbjct: 235 RKLFVEMSPAAYLDARMLHILKRLRALAGAMAQPVRERPWTEVARSMVSGEAAMLIMGDW 294

Query: 301 AKGELNAWGMEVDQQFGCAPAPGTAEFHLYNTDTLAMFAGNHAHQAMQETLARLTMSPAV 360
           AKGELNAWGMEVDQQFGCAPAPGT E+HLY+TDTLAMFAGN+AHQ MQETLARLTMSPAV
Sbjct: 295 AKGELNAWGMEVDQQFGCAPAPGTGEYHLYSTDTLAMFAGNYAHQPMQETLARLTMSPAV 354

Query: 361 QSEYNRIKGSIPVLRAADPHMDRCARDSWRTFSKGPAYQAPSLVHRMTTDDTTKDAIVAE 420
           QSEYNRIKGSIPVLRAADPHMDRCARDSWRTFSKGP +QAPSLVHRM TDDTTKDAIVAE
Sbjct: 355 QSEYNRIKGSIPVLRAADPHMDRCARDSWRTFSKGPMWQAPSLVHRMATDDTTKDAIVAE 414

Query: 421 VQRFFLDRSISEEQAQKRLAAIARTVARNRND 452
           VQRFF+DRSISEEQAQKRLA IART++RNRND
Sbjct: 415 VQRFFMDRSISEEQAQKRLATIARTLSRNRND 446


>gi|300309614|ref|YP_003773706.1| sugar ABC transporter periplasmic
           protein [Herbaspirillum seropedicae SmR1]
          Length = 415

 Score = 60.5 bits (145), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 55/206 (26%), Positives = 101/206 (49%), Gaps = 24/206 (11%)

Query: 111 LANRAPEVTQL-NGVVFAEWADLGLLLTLDNVAAQGNWEKLMFPTVWSLLNNRGHVVAAP 169
           L+ +AP++    NG   A +A  GLL  +     +  W+   + +     +  G   + P
Sbjct: 78  LSTQAPDIINWHNGERMAFYASRGLLEDVSEDWKKNGWD-ATYASTKEASSWHGKQYSVP 136

Query: 170 LGIHRINSLFYNIAIFQRYHLS-PPRTWDEFDHIVKKLQGTGVIPLAQSA-EAWQLAGLF 227
             ++    +FY   +F++  ++  P+TWDEF    KKL+  G+ P+A    +AW LAG F
Sbjct: 137 T-VYYSWGMFYRKDLFKKVGIAGEPKTWDEFLDACKKLKAAGIAPIAVGGRDAWTLAGWF 195

Query: 228 ENLVLAESGPAYYRRLFVDMNPAAFLDARMLHILKRFRALAAAMPQPLRERPWTEMARS- 286
           + L L  +G A++++L       A+ DAR+  +   +++L       +  + + + A S 
Sbjct: 196 DYLDLRINGNAFHQQLMA--GDIAYTDARVKKVHTAWKSL-------IDNKYFIDNALSY 246

Query: 287 --------MVSGEAAMLIMGDW-AKG 303
                   +  G+AAM++MG + AKG
Sbjct: 247 DLDGAQPFLFQGKAAMMLMGTFIAKG 272


  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
   0.321    0.132    0.411 

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: 1,344,823
Number of extensions: 55389
Number of successful extensions: 172
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 171
Number of HSP's successfully gapped: 2
Length of query: 452
Length of database: 1,619,870
Length adjustment: 88
Effective length of query: 364
Effective length of database: 1,203,190
Effective search space: 437961160
Effective search space used: 437961160
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: 132 (55.5 bits)