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= 0029.0008.p
         (431 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300311100|ref|YP_003775192.1| NADH dehydrogenase I subunit F ...   835   0.0  
gi|300310807|ref|YP_003774899.1| NAD-dependent formate dehydroge...   310   1e-85

>gi|300311100|ref|YP_003775192.1| NADH dehydrogenase I subunit F
           [Herbaspirillum seropedicae SmR1]
          Length = 431

 Score =  835 bits (2157), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 409/431 (94%), Positives = 423/431 (98%)

Query: 1   MTCLHDRHIKPLILADLDGQNWHLEDYVKRGGYESLKRILAENITPEQVIAELKSSGLRG 60
           MTCLHDRHIKPLILADL+G+NWHLEDYVKRGGYESLKRIL E ITPEQVIA+LK+SGLRG
Sbjct: 1   MTCLHDRHIKPLILADLNGENWHLEDYVKRGGYESLKRILNEKITPEQVIADLKASGLRG 60

Query: 61  RGGAGFPTGLKWSFMPRQFPGQKYLVCNSDEGEPGTFKDRDIIRYNPHSLIEGMIIGGYA 120
           RGGAGFPTGLKWSFMPRQFPGQKYLVCN+DEGEPGTFKDRDIIRYNPH+LIEGMIIGGYA
Sbjct: 61  RGGAGFPTGLKWSFMPRQFPGQKYLVCNTDEGEPGTFKDRDIIRYNPHALIEGMIIGGYA 120

Query: 121 MGITVGYNYIHGEIFDAYLRFEEALEEARAAGFLGDNILGTNFSFQLHGHHGYGAYICGE 180
           MGITVGYNYIHGEIF AY RFEEALEEARAAGFLGDNILGT FSFQLH HHGYGAYICGE
Sbjct: 121 MGITVGYNYIHGEIFSAYERFEEALEEARAAGFLGDNILGTGFSFQLHAHHGYGAYICGE 180

Query: 181 ETALLESLEGKKGQPRFKPPFPASFGLYGKPTTINNTETFAAVPFIFKIGAQAYADIGKP 240
           ETALLESLEGKKGQPRFKPPFPASFGLYGKPTTINNTETFAAVPFIFK+G QAYA++GKP
Sbjct: 181 ETALLESLEGKKGQPRFKPPFPASFGLYGKPTTINNTETFAAVPFIFKVGPQAYAEMGKP 240

Query: 241 NNGGTKIFSISGDVERPGNYEIPLGTPFSTLLELAGGMRGGKKLKAVIPGGSSAPVIRGD 300
           NNGGTKIFSISGDVERPGNYEIPLGTPFSTLLELAGGMRGGKK+KAVIPGGSSAPVIRGD
Sbjct: 241 NNGGTKIFSISGDVERPGNYEIPLGTPFSTLLELAGGMRGGKKIKAVIPGGSSAPVIRGD 300

Query: 301 VMMETTMDYDAIAKAGSMLGSGAVIVMDETRCMVKSLLRLAYFYYEESCGQCTPCREGTG 360
           VMM+TTMDYDAIAKAGSMLGSGAVIVMDETRCMVKSLLRL+YFYYEESCGQCTPCREGTG
Sbjct: 301 VMMDTTMDYDAIAKAGSMLGSGAVIVMDETRCMVKSLLRLSYFYYEESCGQCTPCREGTG 360

Query: 361 WMYRMVERIENGHGKLEDLDVLNSVADNIQGRTICALGDAAAMPVRAFIKNFREEFEYHI 420
           WMYRMVERIENGHGK+EDLDVLNSVADNIQGRTICALGDAAAMPVRAF+KNFREEFEYHI
Sbjct: 361 WMYRMVERIENGHGKMEDLDVLNSVADNIQGRTICALGDAAAMPVRAFVKNFREEFEYHI 420

Query: 421 EHKHCSVPAYI 431
           EHKHC VPAYI
Sbjct: 421 EHKHCLVPAYI 431


>gi|300310807|ref|YP_003774899.1| NAD-dependent formate
           dehydrogenase beta subunit [Herbaspirillum seropedicae
           SmR1]
          Length = 520

 Score =  310 bits (794), Expect = 1e-85,   Method: Compositional matrix adjust.
 Identities = 167/394 (42%), Positives = 235/394 (59%), Gaps = 4/394 (1%)

Query: 24  LEDYVKRGGYESLKRILAENITPEQVIAELKSSGLRGRGGAGFPTGLKWSFMPRQFPGQK 83
           LEDY+   GY  LK  LA+  TPE ++ E+ +SGLRGRGGA FPTG+KW  + R    QK
Sbjct: 122 LEDYLAHEGYVGLKNALAK--TPEAIVQEMIASGLRGRGGAAFPTGIKWQTVLRAQSAQK 179

Query: 84  YLVCNSDEGEPGTFKDRDIIRYNPHSLIEGMIIGGYAMGITVGYNYIHGEIFDAYLRFEE 143
           Y+VCN+DEG+ GTF DR I+  +P +LIEGM I G A+G T GY Y+  E   +    E+
Sbjct: 180 YVVCNADEGDSGTFSDRMIMEDDPFTLIEGMTIAGVAVGATEGYIYVRSEYPHSIATLEQ 239

Query: 144 ALEEARAAGFLGDNILGTNFSFQLHGHHGYGAYICGEETALLESLEGKKGQPRFKPPFPA 203
           A+  A A G+LGD+ILG+  SF+L    G GAYICGEETA+LESLEGK+G  R KPP PA
Sbjct: 240 AIAIAHAQGYLGDDILGSGKSFRLEVRKGAGAYICGEETAMLESLEGKRGVVRAKPPLPA 299

Query: 204 SFGLYGKPTTINNTETFAAVPFIFKIGAQAYADIGKPNNGGTKIFSISGDVERPGNYEIP 263
             GL+GKPT INN  + A+VP I   GA  Y + G   + GT  F ++G++ + G  E  
Sbjct: 300 IEGLFGKPTVINNLISLASVPVILARGADFYKNFGVGRSHGTLPFQLAGNIRQGGLVEKA 359

Query: 264 LGTPFSTLLE-LAGGMRGGKKLKAVIPGGSSAPVIRGDVMMETTMDYDAIAKAGSMLGSG 322
            G     LLE   GG   G+ ++AV  GG     +      +T +DY+A A  G+M+G G
Sbjct: 360 FGLTLRQLLEDFGGGSASGRPIRAVQMGGPLGAYLP-QSQFDTPLDYEAFAAIGAMIGHG 418

Query: 323 AVIVMDETRCMVKSLLRLAYFYYEESCGQCTPCREGTGWMYRMVERIENGHGKLEDLDVL 382
            ++  D++  M +       F   ESCG+CTPCR G+     ++++I     + + + +L
Sbjct: 419 GLVAFDDSVDMARQARYAMQFCAVESCGKCTPCRIGSTRGVEVIDKIIANDDRAQQIHLL 478

Query: 383 NSVADNIQGRTICALGDAAAMPVRAFIKNFREEF 416
            S+ D +   ++CA+G     PV + + +F E+F
Sbjct: 479 KSLCDTMVNGSLCAMGGMTPFPVLSALNHFPEDF 512


  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
   0.320    0.141    0.432 

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: 1,465,177
Number of extensions: 65598
Number of successful extensions: 161
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 159
Number of HSP's successfully gapped: 2
Length of query: 431
Length of database: 1,619,870
Length adjustment: 88
Effective length of query: 343
Effective length of database: 1,203,190
Effective search space: 412694170
Effective search space used: 412694170
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: 132 (55.5 bits)