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= 0012.0003.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|300313817|ref|YP_003777909.1| tricarboxylic acid transport pr...   526   e-151
gi|300312630|ref|YP_003776722.1| hypothetical protein Hsero_3333...    63   2e-11

>gi|300313817|ref|YP_003777909.1| tricarboxylic acid transport
           protein [Herbaspirillum seropedicae SmR1]
          Length = 320

 Score =  526 bits (1356), Expect = e-151,   Method: Compositional matrix adjust.
 Identities = 258/301 (85%), Positives = 276/301 (91%)

Query: 12  PCALAAECIVPAKPGGGMDASCKLLRQAMQEEGGKQDFKVAYLPGGIGAVAWSSVVSQRR 71
           PCALAAECIVPAKPGGGMDASCKLL++ MQEEG  +  K++YLPGGIGAVAWSSVVSQRR
Sbjct: 20  PCALAAECIVPAKPGGGMDASCKLLQRVMQEEGEPRSLKLSYLPGGIGAVAWSSVVSQRR 79

Query: 72  GGPETLVAFSGGSLLSLAQGKYGPADVGDVRWVAGIGIDHGMIAVRSDAPWRNLKQLLEA 131
           GGP+TLVAFSGGSLL LAQGKYG A   DVRWVAGIGIDHGMIAVRSDAPWRNLKQLL+A
Sbjct: 80  GGPDTLVAFSGGSLLGLAQGKYGKAVPDDVRWVAGIGIDHGMIAVRSDAPWRNLKQLLQA 139

Query: 132 IRKDPSAVTVGLSGTVGSQDWLKMALLAQQAGFTPRQFRFVALEGGGDSFAALQAGHVQV 191
           IR+DPSAVT+GLSGTVGSQDWLKMALL Q+AG  PRQFRFVALEGGGDSFAALQAGHVQV
Sbjct: 140 IRRDPSAVTIGLSGTVGSQDWLKMALLGQRAGIVPRQFRFVALEGGGDSFAALQAGHVQV 199

Query: 192 ISGDTSEAAYFMADGKVRILAVLSEQRLPGPLQAIPTAREQGYEVVWPIIRGFYMSPHAP 251
           ISGD SEAAYFMA+GKVR+LAVLSEQRLPGPLQA+PTAREQGYEVVWPIIRGFYMSPH P
Sbjct: 200 ISGDASEAAYFMAEGKVRVLAVLSEQRLPGPLQAVPTAREQGYEVVWPIIRGFYMSPHVP 259

Query: 252 EADYRRWVRYFDRVLADPEFDRQRSIGGLQPFAMTGKPLSDYIAQTVARYRRQSQELGLV 311
           EADY+RWVRYFDR++ADP F  QRS  GLQPFAMTG  LS YI QTV +YR+QSQELGLV
Sbjct: 260 EADYQRWVRYFDRMMADPVFLAQRSTSGLQPFAMTGSQLSQYINQTVTQYRKQSQELGLV 319

Query: 312 R 312
           R
Sbjct: 320 R 320


>gi|300312630|ref|YP_003776722.1| hypothetical protein Hsero_3333
           [Herbaspirillum seropedicae SmR1]
          Length = 339

 Score = 63.2 bits (152), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 62/222 (27%), Positives = 97/222 (43%), Gaps = 16/222 (7%)

Query: 5   CLLACAMPCALAA------ECIVPAKPGGGMDASCKLLRQAMQEEGGKQDFKVAYLPGGI 58
            L   A PCA AA        +VP   GGG DA+ +++   ++++ G Q   V    GG 
Sbjct: 30  ALSVLAAPCAFAAWPERPVTLVVPWGAGGGTDATARIIGALLEKDLG-QPVNVVNRTGGN 88

Query: 59  GAVAWSSVVSQRRGGPETLVAFSGGSLLSLAQG--KYGPADVGDVRWVAGIGIDHGMIAV 116
           GAV   ++ S    G    +A    S++   QG  K  P D   +   A +  D   + V
Sbjct: 89  GAVGHQAIASAAPDGYTIGIATVEISMMH-HQGLTKLTPRDFTPL---ALMNFDPAALTV 144

Query: 117 RSDAPWRNLKQLLEAIRKDPSAVTVGLSGTVGSQDW-LKMALLAQQAGFTPRQFRFVALE 175
             D+P+++   LL+AI+ +P  +    SGT     W L +A +       P   RFV   
Sbjct: 145 SHDSPYKSFDDLLKAIKANPGKLKA--SGTGQGGIWHLGLAGMLNDLKVAPNAVRFVPSN 202

Query: 176 GGGDSFAALQAGHVQVISGDTSEAAYFMADGKVRILAVLSEQ 217
           G   +   L AG V +++    EA   +  GK   L V++ +
Sbjct: 203 GAAPAMVDLAAGGVDIVAASLPEARSLIDAGKAVPLVVMANE 244


  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    0.137    0.420 

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: 1,104,917
Number of extensions: 50715
Number of successful extensions: 169
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 168
Number of HSP's successfully gapped: 2
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 (21.9 bits)
S2: 130 (54.7 bits)