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= 0074.0006.p
         (120 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300313074|ref|YP_003777166.1| GGDEF domain-containing protein...   123   4e-30
gi|300312606|ref|YP_003776698.1| EAL domain transmembrane protei...    96   7e-22
gi|300310189|ref|YP_003774281.1| transmembrane protein [Herbaspi...    87   3e-19
gi|300311036|ref|YP_003775128.1| signal transduction protein [He...    78   2e-16
gi|300311453|ref|YP_003775545.1| signal transduction containing ...    77   4e-16

>gi|300313074|ref|YP_003777166.1| GGDEF domain-containing protein
           [Herbaspirillum seropedicae SmR1]
          Length = 738

 Score =  123 bits (309), Expect = 4e-30,   Method: Compositional matrix adjust.
 Identities = 67/105 (63%), Positives = 81/105 (77%), Gaps = 2/105 (1%)

Query: 2   AGDELLVKFAERLIDAVREVDTVARLAGDEFTVILERLHSPADAMGVAEKILVSMRRPFV 61
           AGDELLV+FA RL  +VR+VDTVARLAGDEF VILE L S  DA+ VAEKIL ++R PF 
Sbjct: 622 AGDELLVEFARRLQASVRDVDTVARLAGDEFVVILENLQSQQDAIMVAEKILHAIREPFE 681

Query: 62  LTAATVSVSSSIGVAIYEPSRHTD--QDALVAQADKAMYAAKRAG 104
           LT +TV +SSSIGVA+Y+P    +   + L++ ADKAMYAAKR G
Sbjct: 682 LTHSTVHISSSIGVAVYQPDLDGEIGPEELLSMADKAMYAAKRLG 726


>gi|300312606|ref|YP_003776698.1| EAL domain transmembrane protein
           [Herbaspirillum seropedicae SmR1]
          Length = 695

 Score = 96.3 bits (238), Expect = 7e-22,   Method: Compositional matrix adjust.
 Identities = 56/112 (50%), Positives = 72/112 (64%), Gaps = 2/112 (1%)

Query: 3   GDELLVKFAERLIDAVREVDTVARLAGDEFTVILERLHSPADAMGVAEKILVSMRRPFVL 62
           GD LLV+ A+RL  + R  DTVARL GDEF VIL  L++P DAMGVAEK++ ++ +PF +
Sbjct: 320 GDRLLVEVAQRLTSSSRANDTVARLGGDEF-VILVDLNTPEDAMGVAEKLVEAVNQPFKV 378

Query: 63  TAATVSVSSSIGVAIYEPSRHTDQDALVAQADKAMYAAKRAGGVYTKFIPPS 114
               + VS+S+G+AIY     T  D LV  AD AMY  KR+G     F  PS
Sbjct: 379 DQHELRVSASVGIAIYPEDGATRHD-LVINADAAMYHTKRSGRNGYHFFEPS 429


>gi|300310189|ref|YP_003774281.1| transmembrane protein
           [Herbaspirillum seropedicae SmR1]
          Length = 706

 Score = 87.4 bits (215), Expect = 3e-19,   Method: Compositional matrix adjust.
 Identities = 48/112 (42%), Positives = 70/112 (62%), Gaps = 1/112 (0%)

Query: 3   GDELLVKFAERLIDAVREVDTVARLAGDEFTVILERLHSPADAMGVAEKILVSMRRPFVL 62
           GD LLV  A+R+   +R  D VAR+ GDEF V++  L SP     ++E IL ++R+ F +
Sbjct: 316 GDGLLVAVAQRIRQCLRGEDMVARIGGDEFVVVVGNLSSPDVVEQLSENILAALRQDFQI 375

Query: 63  TAATVSVSSSIGVAIYEPSRHTDQDALVAQADKAMYAAKRAGGVYTKFIPPS 114
             AT+ V+SSIG+A+Y P+     DAL+  AD AMY AK++G    +F  P+
Sbjct: 376 DDATLRVTSSIGIAVY-PNSGDSVDALMKNADAAMYEAKQSGRNTYRFFEPA 426


>gi|300311036|ref|YP_003775128.1| signal transduction protein
           [Herbaspirillum seropedicae SmR1]
          Length = 750

 Score = 77.8 bits (190), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 45/102 (44%), Positives = 63/102 (61%), Gaps = 1/102 (0%)

Query: 3   GDELLVKFAERLIDAVREVDTVARLAGDEFTVILERLHSPADAMGVAEKILVSMRRPFVL 62
           GD+LLV  A+R+  +VRE D VARLAGDEF  +L RL + A    + + I+ ++  PF L
Sbjct: 367 GDQLLVVAAQRVRASVREHDLVARLAGDEFVAVLPRLEASAALTRIGDDIVAALAEPFQL 426

Query: 63  TAATVSVSSSIGVAIYEPSRHTDQDALVAQADKAMYAAKRAG 104
               V +S+S+G+AIY P        L+  AD+AM+AAK  G
Sbjct: 427 GEHRVRISASVGIAIY-PHDADTVTTLIGCADQAMFAAKGGG 467


>gi|300311453|ref|YP_003775545.1| signal transduction containing
           PAS/GGDEF/EAL domains protein [Herbaspirillum
           seropedicae SmR1]
          Length = 683

 Score = 77.0 bits (188), Expect = 4e-16,   Method: Composition-based stats.
 Identities = 48/104 (46%), Positives = 62/104 (59%), Gaps = 2/104 (1%)

Query: 1   VAGDELLVKFAERLIDAVREVDTVARLAGDEFTVILERLHSPADAMGVAEKILVSMRRPF 60
           VAGD LLV+ A RL  A+RE D VARL  DEF V L  +   + A  VA+K+L     PF
Sbjct: 296 VAGDMLLVEVAMRLRRALREQDVVARLGADEFAVALFGIDKDSPAY-VAQKLLALFDDPF 354

Query: 61  VLTAATVSVSSSIGVAIYEPSRHTDQDALVAQADKAMYAAKRAG 104
            +    + V +SIGV++Y P   TD + L+  AD AMY AK+ G
Sbjct: 355 FIDGHELRVGASIGVSLY-PENATDTETLLRLADIAMYRAKQGG 397


  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    0.134    0.363 

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: 326,842
Number of extensions: 10611
Number of successful extensions: 98
Number of sequences better than 1.0e-08: 17
Number of HSP's gapped: 97
Number of HSP's successfully gapped: 17
Length of query: 120
Length of database: 1,619,870
Length adjustment: 74
Effective length of query: 46
Effective length of database: 1,269,480
Effective search space: 58396080
Effective search space used: 58396080
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: 125 (52.8 bits)