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= 0029.0056.p
         (305 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300312815|ref|YP_003776907.1| amino acid ABC transporter/sign...   389   e-109
gi|300313151|ref|YP_003777243.1| glutamate/aspartate ABC transpo...   192   4e-50
gi|300311002|ref|YP_003775094.1| amino acid ABC transporter/sign...    57   2e-09

>gi|300312815|ref|YP_003776907.1| amino acid ABC transporter/signal
           transduction system periplasmic protein [Herbaspirillum
           seropedicae SmR1]
          Length = 305

 Score =  389 bits (999), Expect = e-109,   Method: Compositional matrix adjust.
 Identities = 187/223 (83%), Positives = 200/223 (89%), Gaps = 5/223 (2%)

Query: 8   LLALLSTLACASAVHAADAGLGPTLQKIKDGNVIAIGHRTSSIPFSYYDENQKVVGYSQD 67
           +LA+L   ACA     AD+ LGPTLQKIKD N+IAIGHRTSSIPFSYYDENQ+V+GYSQD
Sbjct: 17  MLAVLPQQACA-----ADSALGPTLQKIKDANLIAIGHRTSSIPFSYYDENQQVIGYSQD 71

Query: 68  LCNKAIDAVKAKLNLPNLEVRMIPVTSQNRTPLLQNGTIDLECGVTSNLKDRWQQVSFNT 127
           LCNK IDAVK K+    LEVRM+PVTSQNRTPLLQNGTIDLECGVTSNLK RWQQVSF T
Sbjct: 72  LCNKVIDAVKTKIGAAKLEVRMVPVTSQNRTPLLQNGTIDLECGVTSNLKSRWQQVSFAT 131

Query: 128 TFFVASSRILTRKDSGIKDFPDLAGKAVVTNAGTTSERLLRTLNERRKMNMQIQSAKDYG 187
            FFVASSRILT++DSGIKDFPDLAGKAVVTNAGTTSE+LLR LNE RKM MQIQSAKDYG
Sbjct: 132 NFFVASSRILTKRDSGIKDFPDLAGKAVVTNAGTTSEQLLRNLNEHRKMGMQIQSAKDYG 191

Query: 188 EAFLILQSGRVAAYVMDDILLAGARTTAQKPNDWLLTGTPFGA 230
           EAFLILQSGRVAAYVMDD+LLAGARTTAQKPNDW+LTG PFGA
Sbjct: 192 EAFLILQSGRVAAYVMDDVLLAGARTTAQKPNDWVLTGNPFGA 234


>gi|300313151|ref|YP_003777243.1| glutamate/aspartate ABC
           transporter periplasmic protein [Herbaspirillum
           seropedicae SmR1]
          Length = 315

 Score =  192 bits (487), Expect = 4e-50,   Method: Compositional matrix adjust.
 Identities = 94/216 (43%), Positives = 140/216 (64%), Gaps = 7/216 (3%)

Query: 19  SAVHAADAGLGPTLQKIKDGNVIAIGHRTSSIPFSYYDENQKVVGYSQDLCNKAIDAVKA 78
           S+VHA +      L+KIKD   + +G R SSIPFSY D+ Q   GYS DLC KA  A++ 
Sbjct: 18  SSVHAEE--FTGRLKKIKDSGTLTLGVRDSSIPFSYLDDKQSYQGYSIDLCLKAATAIQK 75

Query: 79  KLNLPNLEVRMIPVTSQNRTPLLQNGTIDLECGVTSNLKDRWQQVSFNTTFFVASSRILT 138
           KL L +L ++M+PVTS  R PL+ NGT D+ C   +N ++RW QV+F+ T FV +++ L+
Sbjct: 76  KLGLTSLNIKMVPVTSATRIPLIANGTTDISCDSATNNQERWNQVAFSVTEFVTANKFLS 135

Query: 139 RKDSGIKDFPDLAGKAVVTNAGTTSERLLRTLNERRKMNMQIQSAKDYGEAFLILQSGRV 198
           +K + +K   DL GK VV+ +GT++ + +  LN  R + M I +AKD+ EAFL++++GR 
Sbjct: 136 KKAANLKTLEDLKGKTVVSTSGTSNLKQITALNAERNLGMNILAAKDHAEAFLMVETGRA 195

Query: 199 AAYVMDDILLAGARTTAQKPNDW-----LLTGTPFG 229
           AA+VMDDILL+     ++ P D+      L+  P+G
Sbjct: 196 AAFVMDDILLSSLAANSKAPGDYQVSSEALSVEPYG 231


>gi|300311002|ref|YP_003775094.1| amino acid ABC transporter/signal
           transduction system periplasmic
           protein/domain-containing protein [Herbaspirillum
           seropedicae SmR1]
          Length = 279

 Score = 57.0 bits (136), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 41/148 (27%), Positives = 71/148 (47%), Gaps = 12/148 (8%)

Query: 51  PFSYYD-ENQKVVGYSQDLCNKAIDAVKAKLNLPNLEVRMIPVTSQNRTPLLQNGTIDLE 109
           P  + D ++++VVG+  D+C     AV  +L +   ++    VT + R P L  G  DL 
Sbjct: 52  PLGFPDPQSRQVVGFDVDMCA----AVARRLGV---QMEQKSVTVEGRLPALIEGQADLV 104

Query: 110 CGVTSNLKDRWQQVSFNTTFFVASSRILTRKDSGIKDFPDLAGKAVVTNAGTTSERLLRT 169
                  ++R +Q+ F  + +    +++ + DSG+    DLA K +  N  +T E+ +R 
Sbjct: 105 SAALGYTRERARQIDFTASHYQNPIKLIVQSDSGLNLISDLADKRISANRSSTPEQAVR- 163

Query: 170 LNERRKMNMQIQSAKDYGEAFLILQSGR 197
              R      +Q+  D  +AFL L  GR
Sbjct: 164 ---RVLPKAMLQTFADTPQAFLALAQGR 188


  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    0.132    0.382 

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: 863,123
Number of extensions: 32829
Number of successful extensions: 126
Number of sequences better than 1.0e-08: 5
Number of HSP's gapped: 128
Number of HSP's successfully gapped: 5
Length of query: 305
Length of database: 1,619,870
Length adjustment: 85
Effective length of query: 220
Effective length of database: 1,217,395
Effective search space: 267826900
Effective search space used: 267826900
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)