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= 0001.2688.p
         (315 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300311955|ref|YP_003776047.1| cobalamin biosynthesis CobD/Cbi...   454   e-129
gi|300310842|ref|YP_003774934.1| cobalamin biosynthesis transmem...    99   4e-22

>gi|300311955|ref|YP_003776047.1| cobalamin biosynthesis CobD/CbiB
           [Herbaspirillum seropedicae SmR1]
          Length = 317

 Score =  454 bits (1169), Expect = e-129,   Method: Compositional matrix adjust.
 Identities = 258/307 (84%), Positives = 277/307 (90%)

Query: 1   MLSGLSWPWLAVLMALGMALDLLLGEARRWHPLVGFGHLAQRIEALLNARPGLRLRGVLA 60
           ML GLSWPWLAVLMALG+ALDL LGEARRWHPLVGFG LAQRIEA LN  PGLRLRGVLA
Sbjct: 1   MLIGLSWPWLAVLMALGLALDLRLGEARRWHPLVGFGRLAQRIEAALNRAPGLRLRGVLA 60

Query: 61  WSLAVLPAVLLTIWLLSWLPWWLSALLHATLLYFCIGLRSLREHTLPIAQALATGELEQA 120
           W+LAVLP VLL  WL++  PWWL+ALLHA LLYFCIGLRSLREHTLPIAQAL  GEL QA
Sbjct: 61  WALAVLPPVLLAAWLIAQTPWWLAALLHAGLLYFCIGLRSLREHTLPIAQALGAGELAQA 120

Query: 121 RRLTSYIVSRDTRQSNEQELAKAGVESLLENGNDAVFGTLFWFLVAGGPGALLFRLANTL 180
           RRLT++IVSRDTR ++EQELAKAGVESLLENGNDAVFGTLFWFL+AGGPGALLFRL+NTL
Sbjct: 121 RRLTAWIVSRDTRSASEQELAKAGVESLLENGNDAVFGTLFWFLLAGGPGALLFRLSNTL 180

Query: 181 DAMWGYRTERFLQFGWAAARIDDVLNWIPARLTALSYAWLGQRQLAMRCWQQQAPAWSSP 240
           DAMWGYR  RFL FGWAAARIDD LNW PARLTALSYA LGQR+ A+ CW++QAPAWSSP
Sbjct: 181 DAMWGYRNARFLYFGWAAARIDDALNWCPARLTALSYAVLGQRRQALACWKEQAPAWSSP 240

Query: 241 NAGPVMAAGAGALGLALGGPAIYDGELEQRPPLGLGQPPQGPDIVRAWRLVAMSAALWLA 300
           NAGPVMAAGAGALGLALGG A+YDGE+EQRPPLG G  PQG DIVRAWRLVAMSAALW+A
Sbjct: 241 NAGPVMAAGAGALGLALGGAAVYDGEVEQRPPLGCGVAPQGADIVRAWRLVAMSAALWMA 300

Query: 301 VVGAVAV 307
           VV AVA+
Sbjct: 301 VVAAVAL 307


>gi|300310842|ref|YP_003774934.1| cobalamin biosynthesis
           transmembrane protein [Herbaspirillum seropedicae SmR1]
          Length = 319

 Score = 99.4 bits (246), Expect = 4e-22,   Method: Compositional matrix adjust.
 Identities = 75/232 (32%), Positives = 115/232 (49%), Gaps = 21/232 (9%)

Query: 39  LAQRIEALLNARPGLRLRGVLAWSLAVLPAVLLTIWLLSWLPWWLSALLHATLL------ 92
            A  IE   NA  G    G L W +A++ A+ + + L+ WL      LLH +L+      
Sbjct: 31  FAATIEGWFNA--GQVHHGRLGW-VAMVGALTVPVALVYWL------LLHVSLVAAFAWN 81

Query: 93  ----YFCIGLRSLREHTLPIAQALATGELEQARRLTSYIVSRDTRQSNEQELAKAGVESL 148
               Y  +G R    +   I  AL +G+   AR L +    +DT   +  E+++   E  
Sbjct: 82  VLVVYLTLGFRHYSHYFTSIQLALNSGDEMTARALLAEWTRQDTTGMDVSEISRIASERA 141

Query: 149 LENGNDAVFGTLFWFLVAGGPG-ALLFRLANTLDAMWGYRTE-RFLQFGWAAARIDDVLN 206
           L   +  VFG  FWFL+  GP  A+++R+A  L   W      +F  FG  AA+    ++
Sbjct: 142 LITTHRHVFGVFFWFLMPVGPALAVMYRVAEYLSRAWNEPDHMKFEAFGRFAAQAFYWID 201

Query: 207 WIPARLTALSYAWLGQRQLAMRCWQQQAPAWSSPNAGPVMAAGAGALGLALG 258
           WIPARLTA ++A +G  + A+  W+  A  W   +AG ++AAG GA+G+  G
Sbjct: 202 WIPARLTAAAFAVVGNFEDAIYAWRNFASRWDDESAGIILAAGGGAMGVRFG 253


  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
   0.324    0.138    0.456 

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: 814,139
Number of extensions: 30143
Number of successful extensions: 157
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 156
Number of HSP's successfully gapped: 2
Length of query: 315
Length of database: 1,619,870
Length adjustment: 85
Effective length of query: 230
Effective length of database: 1,217,395
Effective search space: 280000850
Effective search space used: 280000850
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 130 (54.7 bits)