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= 0013.0043.p
         (356 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300313993|ref|YP_003778085.1| diguanylate cyclase/phosphodies...   231   6e-62
gi|300312438|ref|YP_003776530.1| ferredoxin [2Fe-2S]-type protei...   194   7e-51
gi|300312142|ref|YP_003776234.1| ferredoxin [2Fe-2S]-type protei...   120   2e-28
gi|300312167|ref|YP_003776259.1| ferredoxin [2Fe-2S]-type protei...    56   5e-09

>gi|300313993|ref|YP_003778085.1| diguanylate
           cyclase/phosphodiesterase with PAS/PAC sensor
           domain-containing protein [Herbaspirillum seropedicae
           SmR1]
          Length = 573

 Score =  231 bits (590), Expect = 6e-62,   Method: Compositional matrix adjust.
 Identities = 121/249 (48%), Positives = 175/249 (70%)

Query: 1   MKKMLDLLSLKLLRRIEIRYRLINSFLLVSMLPLLIAGVVAYRESSNASQEKVRIFAGEV 60
           M+K LD LS   LRRI I YRLI++F+LVS+LPLLI+G++AY E+S A+Q+KVR ++ +V
Sbjct: 1   MRKRLDFLSRHFLRRIAIGYRLISAFILVSLLPLLISGLLAYGETSRATQDKVRAYSVQV 60

Query: 61  VKQVAQNMLQQIEKIESSSEELAMSERMQNALAAYYSKTSSERAAGHADIIRLLLENYGS 120
           V+Q++QN+L ++EKIE +SE LA+SE+MQ  LA YYS  +   AA      R+LL+ YG+
Sbjct: 61  VQQISQNLLLRMEKIEDTSEALALSEKMQRLLADYYSGDADASAAARNSAARVLLDTYGA 120

Query: 121 FEYVNQKYVLDRRHRIMDPQVFAQLGDGVARFAEDAPDMKGRPYWDSYSTAAGQKSVVML 180
             YVNQKY+LDR  +++DPQ+FA L   + R AE+AP++ GR +W  Y    GQKS+ ML
Sbjct: 121 LTYVNQKYLLDRDRQVIDPQIFAPLASSIGRVAEEAPELTGRGWWTLYHAGHGQKSLAML 180

Query: 181 RDILFKGNNRVAGTLFVGLRPLHFSRIFESVNLGYGSRMLVIDARDGHVIVSANAANDNA 240
           R++ F  NNR AG LFVG+ P +F  IF   +LGYG+ + ++DA DG V+V +  ++ + 
Sbjct: 181 REVRFTANNRPAGVLFVGVHPSYFFDIFRGADLGYGASISIVDASDGAVVVQSRESSASQ 240

Query: 241 PESGLVAAI 249
            +  L+  I
Sbjct: 241 ADPALLGGI 249


>gi|300312438|ref|YP_003776530.1| ferredoxin [2Fe-2S]-type protein
           [Herbaspirillum seropedicae SmR1]
          Length = 112

 Score =  194 bits (494), Expect = 7e-51,   Method: Composition-based stats.
 Identities = 86/96 (89%), Positives = 93/96 (96%)

Query: 261 AAIDAPAGKSLCDAMLDSNVDIEHACEKSCACTTCHVVIREGFDTLDDPTDKEEDLLDMA 320
           + IDAPAGK+LCDA+LDS++DIEHACEKSCACTTCHVVIREGF+TLDDPTDKEEDLLDMA
Sbjct: 17  SVIDAPAGKTLCDALLDSDIDIEHACEKSCACTTCHVVIREGFETLDDPTDKEEDLLDMA 76

Query: 321 WGLEANSRLSCQVVLGDDDLVVEIPKYTINHASENH 356
           WGLEA SRLSCQVVLG+DDL VEIPKYTINHASENH
Sbjct: 77  WGLEATSRLSCQVVLGEDDLTVEIPKYTINHASENH 112


>gi|300312142|ref|YP_003776234.1| ferredoxin [2Fe-2S]-type protein
           [Herbaspirillum seropedicae SmR1]
          Length = 112

 Score =  120 bits (300), Expect = 2e-28,   Method: Compositional matrix adjust.
 Identities = 54/94 (57%), Positives = 71/94 (75%)

Query: 261 AAIDAPAGKSLCDAMLDSNVDIEHACEKSCACTTCHVVIREGFDTLDDPTDKEEDLLDMA 320
           ++ DA +G+ LCDA+L + + +EHACEKSCAC+TCHV++ EG+D+L    D EED L  A
Sbjct: 17  SSFDARSGQFLCDALLKNGIALEHACEKSCACSTCHVIVHEGYDSLAPAGDDEEDQLGRA 76

Query: 321 WGLEANSRLSCQVVLGDDDLVVEIPKYTINHASE 354
           WGL A SRL+CQVVL   DLV+E+P YT+N A E
Sbjct: 77  WGLSAQSRLACQVVLRQQDLVIELPLYTVNLARE 110


>gi|300312167|ref|YP_003776259.1| ferredoxin [2Fe-2S]-type protein
           [Herbaspirillum seropedicae SmR1]
          Length = 101

 Score = 55.8 bits (133), Expect = 5e-09,   Method: Composition-based stats.
 Identities = 25/82 (30%), Positives = 46/82 (56%)

Query: 263 IDAPAGKSLCDAMLDSNVDIEHACEKSCACTTCHVVIREGFDTLDDPTDKEEDLLDMAWG 322
           I+   G +L  A++ +   I + C+    C  CH+ + EG  ++   T  E   LD   G
Sbjct: 13  IEVSIGTTLLAAVMKAGEAIANKCQGKAECGACHIFVLEGRKSVSRTTPSENAKLDSIVG 72

Query: 323 LEANSRLSCQVVLGDDDLVVEI 344
           + + SRL+CQV++G++D+ +E+
Sbjct: 73  VGSKSRLACQVIVGEEDVTLEL 94


  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
   0.319    0.134    0.379 

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: 959,215
Number of extensions: 38350
Number of successful extensions: 134
Number of sequences better than 1.0e-08: 4
Number of HSP's gapped: 134
Number of HSP's successfully gapped: 4
Length of query: 356
Length of database: 1,619,870
Length adjustment: 86
Effective length of query: 270
Effective length of database: 1,212,660
Effective search space: 327418200
Effective search space used: 327418200
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: 131 (55.1 bits)