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= 0024.0006.p
         (255 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300311089|ref|YP_003775181.1| LamB/YcsF family protein [Herba...   415   e-117
gi|300313397|ref|YP_003777489.1| LamB/YcsF family protein [Herba...   166   3e-42

>gi|300311089|ref|YP_003775181.1| LamB/YcsF family protein
           [Herbaspirillum seropedicae SmR1]
          Length = 246

 Score =  415 bits (1066), Expect = e-117,   Method: Compositional matrix adjust.
 Identities = 200/248 (80%), Positives = 223/248 (89%), Gaps = 4/248 (1%)

Query: 6   MHIDLNADLGEGCDNDEQLLTLVSSANIACGWHAGDANTMRQSVRWAIRNHVAIGAHPSF 65
           MHIDLNADLGEGCD DEQLLTLVSSANIACGWHAGDANTMR+SVRWAI+NHVAIGAHPSF
Sbjct: 1   MHIDLNADLGEGCDTDEQLLTLVSSANIACGWHAGDANTMRRSVRWAIQNHVAIGAHPSF 60

Query: 66  PDREKXGENFGRSAMNLSPEEIISAMLYQLGALDAIVRAEGGRMVHVKPHGALYNQAARD 125
           PDRE    NFGRSAM L PEEI+S MLYQLGAL+AIVRAEGGRM HVKPHGALYNQAA+D
Sbjct: 61  PDRE----NFGRSAMQLPPEEIVSGMLYQLGALEAIVRAEGGRMTHVKPHGALYNQAAKD 116

Query: 126 PVLAHAICSAIRTFNPELALFGLAGSELISAAKQAGLTAIEEVFADRAYNADGSLVSRTL 185
            VLA+AIC+AIRTFNPEL+L+GLAGSELI+AA+ A L A+EEVFADRAY ADGSLV+R+ 
Sbjct: 117 AVLANAICAAIRTFNPELSLYGLAGSELIAAARHADLNAVEEVFADRAYEADGSLVARSK 176

Query: 186 PGAMIEDEAQAIAQTISFVKDKQVTAIDGSVVKVNAQTVCLHGDGAHALQFARQIRTRLG 245
           PGA+I+++A AIAQT+  VK K+V AIDGS+V+VNAQTVCLHGDGAHAL FARQIR RL 
Sbjct: 177 PGALIDNDADAIAQTLMLVKQKKVKAIDGSIVEVNAQTVCLHGDGAHALDFARQIRARLH 236

Query: 246 SEHIAIRA 253
            E IA+RA
Sbjct: 237 EERIAVRA 244


>gi|300313397|ref|YP_003777489.1| LamB/YcsF family protein
           [Herbaspirillum seropedicae SmR1]
          Length = 252

 Score =  166 bits (419), Expect = 3e-42,   Method: Compositional matrix adjust.
 Identities = 101/254 (39%), Positives = 140/254 (55%), Gaps = 13/254 (5%)

Query: 8   IDLNADLGEGCDN-------DEQLLTLVSSANIACGWHAGDANTMRQSVRWAIRNHVAIG 60
           +DLN+D+GEG          D  +L L+SSANIA G+HAGD NTMR++V  A ++ VAIG
Sbjct: 4   VDLNSDMGEGFGPWTIGDGVDAAILPLISSANIATGFHAGDPNTMRRTVELARQHGVAIG 63

Query: 61  AHPSFPDREKXGENFGRSAMNLSPEEIISAMLYQLGALDAIVRAEGGRMVHVKPHGALYN 120
           AHP F  R+  G  FGR  +N    E+++ MLYQLGAL    R  G  + H+KPHGALY 
Sbjct: 64  AHPGF--RDLVG--FGRRHLNAPAIELVNDMLYQLGALREFARLNGLPLQHIKPHGALYM 119

Query: 121 QAARDPVLAHAICSAIRTFNPELALFGLAGSELISAAKQAGLTAIEEVFADRAYNADGSL 180
             ARD   A      +R  +P L LF + GS +   A++     + E +ADR Y+  GS+
Sbjct: 120 HLARDEEAARVFVQTLRQLDPNLLLFCMHGSAVWRVAQELQQAVVCEFYADRDYDNSGSI 179

Query: 181 VSRTLPGAMIEDEAQAIAQTISFVKDKQVTAIDGSVVKVNAQTVCLHGDGAHALQFARQI 240
           V     GA+  D AQ  A+ +    +  V  ++G  + +   +VC+H D   AL   +  
Sbjct: 180 VFTRRVGAL--DAAQVAAKVLRACCEGVVRTVEGRDIPIAFDSVCIHSDTPGALALVQAT 237

Query: 241 RTRLGSEHIAIRAP 254
           R  L +  IAI AP
Sbjct: 238 RNSLEAADIAIAAP 251


  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    0.132    0.383 

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: 798,970
Number of extensions: 31687
Number of successful extensions: 102
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 98
Number of HSP's successfully gapped: 2
Length of query: 255
Length of database: 1,619,870
Length adjustment: 83
Effective length of query: 172
Effective length of database: 1,226,865
Effective search space: 211020780
Effective search space used: 211020780
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: 129 (54.3 bits)