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= 0001.4012.p
         (308 letters)

Database: BlastDatabases/690/690 
           3295 sequences; 1,000,347 total letters

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|134096064|ref|YP_001101139.1| signal recognition particle rec...   530   e-152
gi|134095939|ref|YP_001101014.1| GTP-binding signal recognition ...   119   2e-28
gi|134094537|ref|YP_001099612.1| flagellar biosynthesis regulato...    57   1e-09

>gi|134096064|ref|YP_001101139.1| signal recognition particle
           receptor [Herminiimonas arsenicoxydans]
          Length = 408

 Score =  530 bits (1365), Expect = e-152,   Method: Compositional matrix adjust.
 Identities = 259/307 (84%), Positives = 289/307 (94%), Gaps = 1/307 (0%)

Query: 1   VAAPEPAPEAKRSWLSRLKAGLSKTSSNLTTLFVGARIDEDLYEELESALLVSDAGVEAT 60
           VAA  PA E K+SW++RLK GLSKTSSNLTTLFVGA+IDEDLYEELESALL+SDAGV+AT
Sbjct: 102 VAAVTPA-EQKQSWMARLKVGLSKTSSNLTTLFVGAKIDEDLYEELESALLMSDAGVDAT 160

Query: 61  QWLLAELKKKVKNERLTEAAQVRTALRTLLIDLLQPLQRPLVLDRAKPLVMMIAGVNGAG 120
           Q+LL ELK+KV+NE+LTEAAQV+TALR+LL+++L PLQ+PLVL + +PLVMMI GVNGAG
Sbjct: 161 QFLLTELKRKVRNEKLTEAAQVKTALRSLLLEMLTPLQKPLVLGQHQPLVMMITGVNGAG 220

Query: 121 KTTTIGKLALHLQAHGQSVLLAAGDTFRAAAREQLAVWGERNNVQVIAQESGDPAAVAYD 180
           KTTTIGKLA HLQAH QSVLLAAGDTFRAAAREQL VWGERNNV VIAQESGDPAAVA+D
Sbjct: 221 KTTTIGKLAKHLQAHHQSVLLAAGDTFRAAAREQLTVWGERNNVTVIAQESGDPAAVAFD 280

Query: 181 SVHSAQARGTHVVMVDTAGRLPTQLHLMDELKKIKRVIAKAMSSAPHEVLLVIDGNTGQN 240
           +VHSAQARGT+VVMVDTAGRLPTQLHLM+ELKKIKRVIAK MSSAPHE+LL+IDGNTGQN
Sbjct: 281 AVHSAQARGTNVVMVDTAGRLPTQLHLMEELKKIKRVIAKGMSSAPHEILLIIDGNTGQN 340

Query: 241 ALAQVKAFDDALGLTGLVVTKLDGTAKGGILAAIAKTRPVPLYFIGVGEKIEDLQPFNAT 300
           AL QVKAFDDALGLTGLVVTKLDGTAKGG+LAAIA+ RP+P+YFIGVGE+IEDLQPFNA 
Sbjct: 341 ALTQVKAFDDALGLTGLVVTKLDGTAKGGVLAAIARARPIPVYFIGVGEQIEDLQPFNAQ 400

Query: 301 EFVDALL 307
           EFV+ALL
Sbjct: 401 EFVEALL 407


>gi|134095939|ref|YP_001101014.1| GTP-binding signal recognition
           particle protein [Herminiimonas arsenicoxydans]
          Length = 396

 Score =  119 bits (299), Expect = 2e-28,   Method: Compositional matrix adjust.
 Identities = 74/202 (36%), Positives = 111/202 (54%), Gaps = 8/202 (3%)

Query: 108 PLVMMIAGVNGAGKTTTIGKLALHLQAHGQS-VLLAAGDTFRAAAREQLAVWGERNNVQV 166
           P ++++AG+ GAGKTTT+GKLA +L+   +  VL  + D +R AA  QL    E+     
Sbjct: 45  PAIILMAGLQGAGKTTTVGKLAKYLREQKKKKVLTVSADVYRPAAIGQLKTVTEQVGADF 104

Query: 167 IAQESGD-PAAVAYDSVHSAQARGTHVVMVDTAGRLPTQLHLMDELKKIKRVIAKAMSSA 225
              E  D P  +A  ++  A+     V+++DTAGRL     +M E+  I   +       
Sbjct: 105 FPSEITDKPVDIALAALDYAKRHYHDVLIIDTAGRLGIDEAMMQEISAIHAAVK------ 158

Query: 226 PHEVLLVIDGNTGQNALAQVKAFDDALGLTGLVVTKLDGTAKGGILAAIAKTRPVPLYFI 285
           P E L V+D   GQ+A+   KAF DAL LTG+V+TKLDG ++GG   ++      P+ F 
Sbjct: 159 PIETLFVVDAMLGQDAINTAKAFSDALPLTGIVLTKLDGDSRGGAALSVRHITGKPIKFA 218

Query: 286 GVGEKIEDLQPFNATEFVDALL 307
           GV EK++ L+ F+     D +L
Sbjct: 219 GVAEKLDGLEAFDPVRMADRIL 240


>gi|134094537|ref|YP_001099612.1| flagellar biosynthesis regulator
           FlhF [Herminiimonas arsenicoxydans]
          Length = 423

 Score = 57.0 bits (136), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 56/200 (28%), Positives = 89/200 (44%), Gaps = 18/200 (9%)

Query: 110 VMMIAGVNGAGKTTTIGKLALH-LQAHGQSVL-LAAGDTFRAAAREQLAVWGERNNVQVI 167
           V  + G  G GKTTT  KLA   +  HG   L L   D +R    EQL ++G+   V V 
Sbjct: 196 VYALVGPTGVGKTTTTAKLAARCVMRHGPGKLALITTDGYRIGGYEQLRIYGKILGVMVH 255

Query: 168 AQESGDPAAVAYDSVHSAQARGTHVVMVDTAGRLPTQLHLMDELKKIKRVIAKAMSSAPH 227
           + +      +A D +     +G H V++DT G       + +++          +S A  
Sbjct: 256 SVKDEADLRIALDEL-----KGKHTVLIDTVGVSQRDNMVAEQIA--------MLSGAGS 302

Query: 228 EV--LLVIDGNTGQNALAQVKAFDDALGLTGLVVTKLDGTAKGGILAAIAKTRPVPLYFI 285
           +V  LL ++  +    L +V       GL G ++TKLD  A  G    +   + + LY++
Sbjct: 303 QVKRLLCLNATSTGETLNEVARSYMGDGLAGCILTKLDEAATIGSALDVVIRQKLNLYYV 362

Query: 286 GVGEKI-EDLQPFNATEFVD 304
             G+++ EDL   N    VD
Sbjct: 363 ANGQRVPEDLHVANQQYLVD 382


  Database: BlastDatabases/690/690
    Posted date:  Apr 9, 2011  4:48 AM
  Number of letters in database: 1,000,347
  Number of sequences in database:  3295
  
Lambda     K      H
   0.316    0.131    0.363 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 3295
Number of Hits to DB: 580,405
Number of extensions: 23682
Number of successful extensions: 163
Number of sequences better than 1.0e-08: 3
Number of HSP's gapped: 160
Number of HSP's successfully gapped: 3
Length of query: 308
Length of database: 1,000,347
Length adjustment: 81
Effective length of query: 227
Effective length of database: 733,452
Effective search space: 166493604
Effective search space used: 166493604
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 128 (53.9 bits)