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= 0001.2884.p
         (413 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300312207|ref|YP_003776299.1| FAD-dependent pyridine nucleoti...   801   0.0  
gi|300312205|ref|YP_003776297.1| nitrite reductase large subunit...   174   1e-44

>gi|300312207|ref|YP_003776299.1| FAD-dependent pyridine
           nucleotide-disulfide oxidoreductase [Herbaspirillum
           seropedicae SmR1]
          Length = 413

 Score =  801 bits (2068), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 386/413 (93%), Positives = 403/413 (97%)

Query: 1   MQTSADKDQAKPSLVVVGNGMAAMRTVEELLKLAPDLYDITVFGAEPHGNYNRIMLSPVL 60
           M+T A+K  A+PSLVVVGNGMA MRTVEELLKLAPDLYDITVFGAEPHGNYNRIMLSPVL
Sbjct: 1   METQANKSTARPSLVVVGNGMAGMRTVEELLKLAPDLYDITVFGAEPHGNYNRIMLSPVL 60

Query: 61  AGDKSIDDIMLNPRAWYQENGITLHAGDPVIHIDRRLRSVHAKSGLSVKYDRLLLATGST 120
           AGDKSIDDIMLNPRAWY +NGITLHAGDPV+HIDRR R+VHAKSGL+V+YDRLLLATGST
Sbjct: 61  AGDKSIDDIMLNPRAWYDDNGITLHAGDPVVHIDRRQRTVHAKSGLTVQYDRLLLATGST 120

Query: 121 PFIIPVPGHQLPGVIAFRDIQDVDTMLQAARTHRHAVVIGGGLLGLEAANGLMRQGMEVT 180
           PFIIPVPGHQLPGVIAFRDIQDVD MLQAARTHRHAVVIGGGLLGLEAANGLMRQGM+VT
Sbjct: 121 PFIIPVPGHQLPGVIAFRDIQDVDAMLQAARTHRHAVVIGGGLLGLEAANGLMRQGMDVT 180

Query: 181 VVHVTDALMNQQLDKPAAELLKKALEAKGLRFLLNAHTEEIIGPDRVTAVRFKDGSRIPA 240
           VVHVTDALMNQQLDKPAA LLKKALE KGLRFLLNAHTEEI+GPDRVTAVRFKDGS IPA
Sbjct: 181 VVHVTDALMNQQLDKPAAALLKKALEDKGLRFLLNAHTEEIVGPDRVTAVRFKDGSSIPA 240

Query: 241 DLVVMTAGVRPNIALAKSAGLHCERAIIVDDTLQTYDPRIYAVGECVQHRQATFGLVAPI 300
           DLVVMTAGVRPNIALAK+AGLHCERAIIVDDTLQTYDPR+YAVGECVQHR+ATFGLVAPI
Sbjct: 241 DLVVMTAGVRPNIALAKAAGLHCERAIIVDDTLQTYDPRVYAVGECVQHRKATFGLVAPI 300

Query: 301 WDQARVCGAHLAGAGHRRYVQQATATKLKVTGVDLYSAGDFIGGDDTEDLVVRDPRRGIY 360
           WDQARVCGAHLAGAGHRRYVQQATATKLKVTGVDLYSAGDFIGGDDTEDL+VRDPRRG+Y
Sbjct: 301 WDQARVCGAHLAGAGHRRYVQQATATKLKVTGVDLYSAGDFIGGDDTEDLIVRDPRRGVY 360

Query: 361 KRLVLRGSRLVGAVLYGDVKDGPWYFDLIQSGRDISAFRRELPFGQAMCQQAA 413
           KRLVLRG+RLVGAVLYGDVKDGPWYFDLIQSGRDIS+FRRELPFGQAMCQQAA
Sbjct: 361 KRLVLRGTRLVGAVLYGDVKDGPWYFDLIQSGRDISSFRRELPFGQAMCQQAA 413


>gi|300312205|ref|YP_003776297.1| nitrite reductase large subunit
           [Herbaspirillum seropedicae SmR1]
          Length = 857

 Score =  174 bits (441), Expect = 1e-44,   Method: Compositional matrix adjust.
 Identities = 135/397 (34%), Positives = 207/397 (52%), Gaps = 26/397 (6%)

Query: 14  LVVVGNGMAAMRTVEELLKLAPDLYDITVFGAEPHGNYNRIMLSPVLAGDKSIDDIMLNP 73
           ++V+G+GM   + +E L +       +T+   EP   Y+R+ LS   AG K+ +D+ L  
Sbjct: 3   IIVIGHGMVGHKFLECLAESGAGDLQVTILCEEPRPAYDRVHLSEFFAG-KTAEDLSLVA 61

Query: 74  RAWYQ------ENGITLHAGDPVIHIDRRLRSVH-AKSGLSVKYDRLLLATGSTPFIIPV 126
             ++       +  + L+A    I ++R+   V+ A    ++ YD+L+LATGS PF+  V
Sbjct: 62  PGFFDRGRSAVQFDLKLNAKAQQIDLERKQVLVNVAGVEETMSYDKLVLATGSYPFVPTV 121

Query: 127 PGHQLPGVIAFRDIQDVDTMLQAARTHRHAVVIGGGLLGLEAANGLMRQGMEVTVVHVTD 186
            G+Q      +R I+D++ ML+     +  VVIGGGLLGLE A  L    +E  VV    
Sbjct: 122 AGNQRKDCFVYRTIEDLEAMLECGSRSKIGVVIGGGLLGLECAKALRDLKLETHVVEFAP 181

Query: 187 ALMNQQLDKPAAELLKKALEAKGLRFLLNAHTEEII-GPDRVTAVRFKDGSRIPADLVVM 245
            LM  Q+D+    +L++ +E  G+      +T EI+ G      + F+DGS +  D++V 
Sbjct: 182 RLMAVQVDESGGRVLRQKIEELGVTAHTQKNTVEIVDGKHHTHRMNFEDGSHLETDMIVF 241

Query: 246 TAGVRPNIALAKSAGLHC--ERAIIVDDTLQTYDPRIYAVGECVQHRQATFGLVAPIWDQ 303
           +AG+RP   LA+ AGL       I +D++  T DP +YA+GEC       FGLVAP +D 
Sbjct: 242 SAGIRPRDELARQAGLKVGDRGGIAIDNSCLTSDPAVYAIGECALWNGKIFGLVAPGYDM 301

Query: 304 ARVCGAHLAGAGHRRYVQQATA-------TKLKVTGVDLYSAGDFIGGD-DTEDLVVRDP 355
           AR    HL    HR    +  A       TKLK+ GVD+ S GD  G +  +      D 
Sbjct: 302 ARTAAKHL--LSHRDEAIEVPAFNGADMSTKLKLMGVDVASIGDAHGKEAGSRSYQFTDE 359

Query: 356 RRGIYKRLVL--RGSRLVGAVLYGDVKDGPWYFDLIQ 390
           R+ IYK++V+   G  L+GAV+ GD  +   Y  L+Q
Sbjct: 360 RKQIYKKIVVSESGKHLLGAVMVGDASE---YGTLLQ 393


  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
   0.322    0.139    0.411 

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: 1,273,425
Number of extensions: 53626
Number of successful extensions: 159
Number of sequences better than 1.0e-08: 3
Number of HSP's gapped: 157
Number of HSP's successfully gapped: 3
Length of query: 413
Length of database: 1,619,870
Length adjustment: 88
Effective length of query: 325
Effective length of database: 1,203,190
Effective search space: 391036750
Effective search space used: 391036750
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: 132 (55.5 bits)