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= 0136.0009.p
         (203 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300311440|ref|YP_003775532.1| transcription elongation/transc...   308   1e-85
gi|300310712|ref|YP_003774804.1| transcription elongation factor...   103   1e-23

>gi|300311440|ref|YP_003775532.1| transcription
           elongation/transcript cleavage factor protein
           [Herbaspirillum seropedicae SmR1]
          Length = 185

 Score =  308 bits (790), Expect = 1e-85,   Method: Compositional matrix adjust.
 Identities = 155/183 (84%), Positives = 171/183 (93%), Gaps = 1/183 (0%)

Query: 11  MNKAFVKESDGDDDEE-LALPAIPAGTKNYMTPAGHKRIKDELLQLIDVDRPEVVRIVHW 69
           MNKAFVKESDGDDD+E +ALP++PAG+KNYMTP GH+RIKDELL LID +RPEVVR+V W
Sbjct: 1   MNKAFVKESDGDDDDEDIALPSVPAGSKNYMTPQGHQRIKDELLHLIDEERPEVVRVVSW 60

Query: 70  AASNGDRSENGDYIYGKRRLREIDRRIRFLTKRLDIAEVVDPSIHHGNDQVFFGATVTYE 129
           AASNGDRSENGDY+YGK+RLREIDRRIRFLTKRLD AEVVDPS+HHG+DQ+FFGATVTYE
Sbjct: 61  AASNGDRSENGDYLYGKKRLREIDRRIRFLTKRLDNAEVVDPSVHHGSDQIFFGATVTYE 120

Query: 130 NQDGIEHTVTIVGIDELDPLNGKISWISPVARALTKAREGDEVTLQTPAGVEQLTILDVS 189
           NQ G  HTVTIVGIDELDPL G+ISWISPVARALTKAREGDEV LQTPAG+EQLTIL+VS
Sbjct: 121 NQRGEAHTVTIVGIDELDPLKGRISWISPVARALTKAREGDEVVLQTPAGLEQLTILEVS 180

Query: 190 YPG 192
           YP 
Sbjct: 181 YPA 183


>gi|300310712|ref|YP_003774804.1| transcription elongation factor
           protein [Herbaspirillum seropedicae SmR1]
          Length = 158

 Score =  103 bits (257), Expect = 1e-23,   Method: Compositional matrix adjust.
 Identities = 61/152 (40%), Positives = 88/152 (57%), Gaps = 1/152 (0%)

Query: 40  MTPAGHKRIKDELLQLIDVDRPEVVRIVHWAASNGDRSENGDYIYGKRRLREIDRRIRFL 99
           +T  G + +K+EL +L   DRPEV+  +  A + GD SEN +Y   K R   I+ RI  L
Sbjct: 6   LTKRGAELLKEELHRLKTKDRPEVINAIAEARAQGDLSENAEYESAKERQAFIEGRIADL 65

Query: 100 TKRLDIAEVVDPSIHHGNDQVFFGATVTYENQDGIEH-TVTIVGIDELDPLNGKISWISP 158
             +L  A++VDP+  +   +V F +TV  EN D  E  T  IVG+DE D    K+S  SP
Sbjct: 66  EGKLGAAQIVDPAELNAEGRVVFASTVDLENLDSGEKVTYQIVGLDEADIKESKVSVTSP 125

Query: 159 VARALTKAREGDEVTLQTPAGVEQLTILDVSY 190
           +ARAL     GD V ++ P+G+++  IL+V Y
Sbjct: 126 IARALIGKSAGDVVAVEAPSGLKEYEILEVRY 157


  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
   0.315    0.136    0.392 

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: 663,986
Number of extensions: 27182
Number of successful extensions: 48
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 46
Number of HSP's successfully gapped: 2
Length of query: 203
Length of database: 1,619,870
Length adjustment: 81
Effective length of query: 122
Effective length of database: 1,236,335
Effective search space: 150832870
Effective search space used: 150832870
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: 42 (22.0 bits)
S2: 128 (53.9 bits)