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= 0001.1391.p
         (409 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300310217|ref|YP_003774309.1| bacteriophage-related tail D pr...   760   0.0  
gi|300309556|ref|YP_003773648.1| bacteriophage regulatory protei...    85   1e-17

>gi|300310217|ref|YP_003774309.1| bacteriophage-related tail D
           protein [Herbaspirillum seropedicae SmR1]
          Length = 409

 Score =  760 bits (1962), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 371/406 (91%), Positives = 386/406 (95%)

Query: 1   MTTTAPAFRIVIEEKDISRPVSDRLISITLRECRGDEADQLDIELDDSDDKLKIPPKGAK 60
           MTTTAPAFRI+IEEKDISRPVSDRLISITLRECRGDEADQLDIELDD D KLKIPP GAK
Sbjct: 1   MTTTAPAFRIIIEEKDISRPVSDRLISITLRECRGDEADQLDIELDDGDGKLKIPPMGAK 60

Query: 61  LQFALGWLGSPLVDKGAFVVSEVEHSGAPDRLTIRARSASMIDAFRQQRDRSFHETTLGA 120
           L FALGW GSPLVDKGAFVVSEVEHSG+PDR+TIRARSASMIDAFRQQRDRSFHETTLGA
Sbjct: 61  LSFALGWQGSPLVDKGAFVVSEVEHSGSPDRITIRARSASMIDAFRQQRDRSFHETTLGA 120

Query: 121 VVDAIAAGNGLASGISANLRGIAIKHLDQTHESDSALLRRLGKKYDAVATVKNDTLLFMP 180
           VVDA+AA NGLASGISA+LR IAIKHLDQTHESDSALLRRLGKKYDAVATVKNDTLLFMP
Sbjct: 121 VVDAVAASNGLASGISASLRAIAIKHLDQTHESDSALLRRLGKKYDAVATVKNDTLLFMP 180

Query: 181 INEGRTASGKPLPVVKVVRALGDQHRYHSSESDAYSGVRAFWMDEKYGRRRSVVAGQAGN 240
           IN+ RTASGKPLPVVKVVRALGDQHRYHSSESDAYSGVRAFWMDEKYGRRRSVVAGQAGN
Sbjct: 181 INDSRTASGKPLPVVKVVRALGDQHRYHSSESDAYSGVRAFWMDEKYGRRRSVVAGQAGN 240

Query: 241 SKRLRTTFANEADARTAAVAEWQRIERGLATFEMQLALGDANIMPQSPVMVTGFKADIDA 300
           SKRLRTTFANEADARTAAVAEWQRIERGLATFEMQLALGDA IMPQSPV+V+GFKADID 
Sbjct: 241 SKRLRTTFANEADARTAAVAEWQRIERGLATFEMQLALGDARIMPQSPVVVSGFKADIDT 300

Query: 301 TEWLSKTVTHSISDSGFTTRIEFEIKSEPAETERELEHDPEEGITGVKANWLDKAKTKNA 360
           TEWLSKTVTHSI+ +GFTTRIEFE KSE A+TE EL+HDPEEGITGVKA W DKA  KN 
Sbjct: 301 TEWLSKTVTHSINGNGFTTRIEFETKSEVADTECELDHDPEEGITGVKAEWHDKANKKNN 360

Query: 361 KGSELAGKADNAKTLKRTYATKQSAKRAAALEWAKIKEVREIILEN 406
           +G+ELAGKADNAKTLKRTYA+KQSAKRAAALEWAKIKEVREII EN
Sbjct: 361 RGTELAGKADNAKTLKRTYASKQSAKRAAALEWAKIKEVREIIAEN 406


>gi|300309556|ref|YP_003773648.1| bacteriophage regulatory protein
           [Herbaspirillum seropedicae SmR1]
          Length = 356

 Score = 85.1 bits (209), Expect = 1e-17,   Method: Compositional matrix adjust.
 Identities = 54/199 (27%), Positives = 102/199 (51%), Gaps = 7/199 (3%)

Query: 1   MTTTAPAFRIVIEEKDISRPVSDRLISITLRECRGDEADQLDIELDDSDDKLK---IPPK 57
           M   AP   +  E +DIS  +S  L+ I+  +    ++D +++ L+D+D + +    P  
Sbjct: 19  MQVAAPKVVVRYERRDISANISPSLLEISYTDFLEGQSDTIELVLEDADRRWQRAWYPQH 78

Query: 58  GAKLQFALGWLGSPLVDKGAFVVSEVEHSGAPDRLTIRARSASMIDAFRQQRDRSFHETT 117
           G  L+  LG+    L+  G F + EVE  G PD + I+A +A +  A R + DR++   T
Sbjct: 79  GDLLEVQLGYEAGALLPCGQFEIDEVELDGPPDVVRIKALAAGVTRALRTRNDRAYENIT 138

Query: 118 LGAVVDAIAAGNGLASGISANLRGIAIKHLDQTHESDSALLRRLGKKYDAVATVKNDTLL 177
           L  + + +A  NG+   +S  +  + ++ + Q +E+D A L+R+  +Y    +V++  + 
Sbjct: 139 LAELANTVARRNGMQ--VSGQIAPVRLERVTQVNETDLAFLKRVAAEYGYSFSVRHGKIC 196

Query: 178 FMPINEGRTASGKPLPVVK 196
                E R +  KP  V++
Sbjct: 197 LFARAELRQS--KPELVIE 213


  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
   0.314    0.129    0.364 

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: 1,193,325
Number of extensions: 47084
Number of successful extensions: 141
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 137
Number of HSP's successfully gapped: 2
Length of query: 409
Length of database: 1,619,870
Length adjustment: 87
Effective length of query: 322
Effective length of database: 1,207,925
Effective search space: 388951850
Effective search space used: 388951850
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: 132 (55.5 bits)