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= 0002.0514.p
         (227 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300313432|ref|YP_003777524.1| signal recognition particle GTP...   413   e-117
gi|300309714|ref|YP_003773806.1| signal recognition particle sub...   134   6e-33

>gi|300313432|ref|YP_003777524.1| signal recognition particle GTPase
           involved in cell division protein [Herbaspirillum
           seropedicae SmR1]
          Length = 321

 Score =  413 bits (1061), Expect = e-117,   Method: Compositional matrix adjust.
 Identities = 203/227 (89%), Positives = 216/227 (95%)

Query: 1   VRQALRALLIEMLRPLQKPLVLGRHQPLVMMIAGVNGAGKTTTIGKLAKHLQAHDQSVLL 60
           VR ALR LLIE+L+PLQ+PLVLGR +PLVMMIAGVNGAGKTTTIGKLA HLQAH QSVLL
Sbjct: 95  VRTALRTLLIELLQPLQRPLVLGRDKPLVMMIAGVNGAGKTTTIGKLALHLQAHGQSVLL 154

Query: 61  AAGDTFRAAAREQLTIWGERNNITVISQESGDPAAVAYDAVHSATARGTNVVMVDTAGRL 120
           AAGDTFRAAAREQL +WGERNN+ VI+QESGDPAAVAYD+VHSA ARGT+VVMVDTAGRL
Sbjct: 155 AAGDTFRAAAREQLAVWGERNNVQVIAQESGDPAAVAYDSVHSAQARGTHVVMVDTAGRL 214

Query: 121 PTQLHLMDELKKIKRVIGKAMDTAPHEVLLVIDGNTGQNALAQVKAFDDALGLTGLVVTK 180
           PTQLHLMDELKKIKRVIGKAM +APHEVLLVIDGNTGQNALAQVKAFDDALGLTGLVVTK
Sbjct: 215 PTQLHLMDELKKIKRVIGKAMHSAPHEVLLVIDGNTGQNALAQVKAFDDALGLTGLVVTK 274

Query: 181 LDGTAKGGILAAIARTRPVPLYFIGVGESIDDLQAFDAEEFVDALLS 227
           LDGTAKGGILAAIA+TRPVPLYFIGVGE I+DLQAF+A EFVDALLS
Sbjct: 275 LDGTAKGGILAAIAKTRPVPLYFIGVGEQIEDLQAFNATEFVDALLS 321


>gi|300309714|ref|YP_003773806.1| signal recognition particle
           subunit SRP54 protein [Herbaspirillum seropedicae SmR1]
          Length = 456

 Score =  134 bits (337), Expect = 6e-33,   Method: Compositional matrix adjust.
 Identities = 86/228 (37%), Positives = 126/228 (55%), Gaps = 8/228 (3%)

Query: 1   VRQALRALLIEMLRPLQKPLVLGRHQPLVMMIAGVNGAGKTTTIGKLAKHL-QAHDQSVL 59
           V++ L +L+   L P    L      P ++++AG+ GAGKTTT+GKLAK+L +   + VL
Sbjct: 78  VQRELASLMGADLGPEASQLNFATQPPAIILMAGLQGAGKTTTVGKLAKYLRETTKKKVL 137

Query: 60  LAAGDTFRAAAREQL-TIWGERNNITVISQESGDPAAVAYDAVHSATARGTNVVMVDTAG 118
             + D +R AA  QL T+ G+       SQ +  P  +A  A+  A      V++VDTAG
Sbjct: 138 TVSADVYRPAAIGQLETVTGQAGADFFPSQATDKPVDIALAALDYAKKHHHEVLIVDTAG 197

Query: 119 RLPTQLHLMDELKKIKRVIGKAMDTAPHEVLLVIDGNTGQNALAQVKAFDDALGLTGLVV 178
           RL     +MDE++ +   I       P E L V+D   GQ+A+   KAF DAL LTG+V+
Sbjct: 198 RLGIDQAMMDEIRAVHAAI------KPIETLFVVDAMLGQDAINTAKAFSDALPLTGVVL 251

Query: 179 TKLDGTAKGGILAAIARTRPVPLYFIGVGESIDDLQAFDAEEFVDALL 226
           TKLDG ++GG   ++      P+ F GV E +D L+AFD     + +L
Sbjct: 252 TKLDGDSRGGAALSVRHITGKPIKFAGVAEKLDGLEAFDPSRMANRIL 299


  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    0.135    0.377 

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: 729,960
Number of extensions: 31417
Number of successful extensions: 237
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 236
Number of HSP's successfully gapped: 2
Length of query: 227
Length of database: 1,619,870
Length adjustment: 82
Effective length of query: 145
Effective length of database: 1,231,600
Effective search space: 178582000
Effective search space used: 178582000
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)