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= 0001.3941.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|300313332|ref|YP_003777424.1| stringent starvation transcript...   414   e-117
gi|300310022|ref|YP_003774114.1| glutathione S-transferase [Herb...    59   2e-10
gi|300310452|ref|YP_003774544.1| maleylacetoacetate isomerase [H...    57   8e-10

>gi|300313332|ref|YP_003777424.1| stringent starvation transcription
           regulator A protein [Herbaspirillum seropedicae SmR1]
          Length = 203

 Score =  414 bits (1065), Expect = e-117,   Method: Compositional matrix adjust.
 Identities = 201/203 (99%), Positives = 203/203 (100%)

Query: 1   MMVLYSGTTCPFSQRCRLVLFEKGMDFEIRDVDLFNKPEDISVMNPYGQVPILVERDLVL 60
           MMVLYSGTTCPFSQRCRLVLFEKGMDFEIRDVDLFNKPEDISVMNPYGQVPILVERDLVL
Sbjct: 1   MMVLYSGTTCPFSQRCRLVLFEKGMDFEIRDVDLFNKPEDISVMNPYGQVPILVERDLVL 60

Query: 61  YESNIINEYIDERFPHPQLMPADPLMRARARLMLFNFEKELFVHVHTLENEKSKAAEKNQ 120
           YESNIINEYIDERFPHPQLMPADPLMRARARLMLFNFEKELFVHVHTLENEKSKAAEK+Q
Sbjct: 61  YESNIINEYIDERFPHPQLMPADPLMRARARLMLFNFEKELFVHVHTLENEKSKAAEKSQ 120

Query: 121 EKARHEIRDRLTQLAPLFLKNKYMLGDEFSMLDVALAPLLWRLDHYGIELSKTAAPLMKY 180
           EKAR+EIRDRLTQLAPLFLKNKYMLGDEFSMLDVALAPLLWRLDHYGIELSKTAAPLMKY
Sbjct: 121 EKARNEIRDRLTQLAPLFLKNKYMLGDEFSMLDVALAPLLWRLDHYGIELSKTAAPLMKY 180

Query: 181 AERIFSRPAYIEALTPSEKVMRR 203
           AERIFSRPAYIEALTPSEKVMRR
Sbjct: 181 AERIFSRPAYIEALTPSEKVMRR 203


>gi|300310022|ref|YP_003774114.1| glutathione S-transferase
           [Herbaspirillum seropedicae SmR1]
          Length = 204

 Score = 59.3 bits (142), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 44/167 (26%), Positives = 80/167 (47%), Gaps = 9/167 (5%)

Query: 1   MMVLYSGTTCPFSQRCRLVLFEKGMDFEIRDVDLFNKPEDISVMNPYGQVPILVERD-LV 59
           M+ L      PF ++ R+V+ EK +D+E    D+++    I   NP G+VP L+  D   
Sbjct: 1   MLKLIGSNASPFVRKVRVVMAEKKIDYEFILEDVWSASTTIQQSNPLGKVPCLLMDDGGA 60

Query: 60  LYESNIINEYIDERFPHPQLMPADPLMRARARLMLFNFEKELFVHVHTLEN-EKSKAAEK 118
           +++S +I EY+D   P  +L+P  P  R RA +  +    +  +    L   EK+    K
Sbjct: 61  MFDSRVIVEYLDTLTPVGKLLP--PNGRERAEIKCWEALADGMLDAAVLVRLEKTLRPTK 118

Query: 119 NQ-----EKARHEIRDRLTQLAPLFLKNKYMLGDEFSMLDVALAPLL 160
            Q     ++   ++   L  +A    +  + +G+ +S+ DVA+   L
Sbjct: 119 QQSPEWIKRQWSKVEASLKAMADGLGEKPFCVGNHYSLADVAVCCAL 165


>gi|300310452|ref|YP_003774544.1| maleylacetoacetate isomerase
           [Herbaspirillum seropedicae SmR1]
          Length = 215

 Score = 57.4 bits (137), Expect = 8e-10,   Method: Compositional matrix adjust.
 Identities = 48/189 (25%), Positives = 78/189 (41%), Gaps = 22/189 (11%)

Query: 1   MMVLYSGTTCPFSQRCRLVLFEKGMDFEIRDVDLFNKPED-----ISVMNPYGQVPILVE 55
           M  LYS      S R R+ L  K + +E   V L N+  +      + +NP+  VP+L E
Sbjct: 1   MTTLYSYFRSSASYRVRIALHLKDLPYETVPVHLLNQGGEQLLPAFTEINPHALVPVLAE 60

Query: 56  RDLVLYESNIINEYIDERFPHPQLMPADPLMRARARLMLFNFEKELFVHVHTLEN----- 110
               + +S  + E ++ER P P L+P D   RA  R +      +    +H L N     
Sbjct: 61  EGHYVSQSLAMLELLEERHPTPSLLPGDAFQRAHIRALSLAIACD----IHPLNNLRVLK 116

Query: 111 ----EKSKAAEKNQEKARHEIRDRLT----QLAPLFLKNKYMLGDEFSMLDVALAPLLWR 162
               E     E+      H I    T    QLA    +  + +GD  +M D  L P ++ 
Sbjct: 117 YLKRELGMDDERKNAWIAHWINLGFTALERQLAADTTRGHFCVGDAPTMADCCLVPQIFN 176

Query: 163 LDHYGIELS 171
              + ++++
Sbjct: 177 ARRFEVDMA 185


  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    0.139    0.407 

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: 589,962
Number of extensions: 22504
Number of successful extensions: 69
Number of sequences better than 1.0e-08: 4
Number of HSP's gapped: 70
Number of HSP's successfully gapped: 4
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: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 128 (53.9 bits)