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= 0001.0106.p
         (348 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300311915|ref|YP_003776007.1| glycine cleavage system protein...   446   e-126

>gi|300311915|ref|YP_003776007.1| glycine cleavage system protein T
           [Herbaspirillum seropedicae SmR1]
          Length = 360

 Score =  446 bits (1148), Expect = e-126,   Method: Compositional matrix adjust.
 Identities = 228/365 (62%), Positives = 266/365 (72%), Gaps = 22/365 (6%)

Query: 1   MTDPTPARSAWHTFLDQQGSHINADAG--------------ALLP---DNFVAPLNDLGL 43
           MT+ T + SAW  FL QQG+   AD+               A  P   ++F+APL  LGL
Sbjct: 1   MTEMTSSPSAWRDFLAQQGAQFEADSAEPVDHADVIGFAPTAAAPQSLESFMAPLTSLGL 60

Query: 44  ISLTGDDAASFLHNQITNDVEKLDLASVRLAGYCTPKGRLLATFLMWKDADQIVLQLPRT 103
           I++TG+DAASFLH Q+TNDV+ LD  S RLAGYC+PKGRLLATFLMW+D     LQLPR+
Sbjct: 61  IAVTGEDAASFLHGQLTNDVQHLDTGSARLAGYCSPKGRLLATFLMWRDDQASWLQLPRS 120

Query: 104 LQPAIQKRLQMFVLRAKAKLADISEQRVALGLAGNTAAAALQQWFPQLPAQPYGKTDNEH 163
           LQPAIQKRLQMFV+RAKAKLAD S +R  LGLAG   A AL +WFP LPA PY K DN H
Sbjct: 121 LQPAIQKRLQMFVMRAKAKLADASTERGVLGLAGPATANALAEWFPVLPAAPYDKIDNSH 180

Query: 164 GTLLRVADSRGAPRFQWITTEEQAIAAWPLLAQKLTVADAHAWRLSDIYAGVPTITQPTQ 223
           GTL+R+AD+ G+PR+QWI   +   AAWP LAQ LT   + AWRLS+I AGVP I   TQ
Sbjct: 181 GTLIRLADAAGSPRYQWIAAIDTLTAAWPRLAQHLTPTASLAWRLSEIRAGVPGIVAATQ 240

Query: 224 EQFVPQMINFELIGGVNFKKGCYPGQEIVARSQYLGKLKRRSVLALVAAGQVAAGTEVFS 283
           EQFVPQMINFELIGGVNFKKGCYPGQEIVARSQYLGKLKRR++LA + +    AG EVF+
Sbjct: 241 EQFVPQMINFELIGGVNFKKGCYPGQEIVARSQYLGKLKRRTMLATIDSAAARAGQEVFA 300

Query: 284 SADPGQPCGMVVNAEPXKKKKKKKNSACLVEIKLAAAESGSIHLGSVDGPALQLQTLPYE 343
           +ADPGQPCGMVVNAE         ++  LVE+KLAAAE  ++HLG+ DGPAL    LPYE
Sbjct: 301 AADPGQPCGMVVNAEAL----DDGHALALVEMKLAAAED-AVHLGAADGPALHFHALPYE 355

Query: 344 LTDPQ 348
           L DPQ
Sbjct: 356 LADPQ 360


  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
   0.318    0.133    0.394 

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: 1,033,341
Number of extensions: 39054
Number of successful extensions: 115
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 112
Number of HSP's successfully gapped: 1
Length of query: 348
Length of database: 1,619,870
Length adjustment: 86
Effective length of query: 262
Effective length of database: 1,212,660
Effective search space: 317716920
Effective search space used: 317716920
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 (21.7 bits)
S2: 131 (55.1 bits)