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= 0012.0106.p
         (202 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300313408|ref|YP_003777500.1| branched-chain amino acid ABC t...   346   7e-97
gi|300310681|ref|YP_003774773.1| amino acid ABC transporter peri...   193   9e-51
gi|300313298|ref|YP_003777390.1| branched-chain amino acid ABC t...   190   6e-50

>gi|300313408|ref|YP_003777500.1| branched-chain amino acid ABC
           transporter periplasmic protein [Herbaspirillum
           seropedicae SmR1]
          Length = 381

 Score =  346 bits (888), Expect = 7e-97,   Method: Compositional matrix adjust.
 Identities = 167/202 (82%), Positives = 183/202 (90%)

Query: 1   LKKVEVVANERFARNDTSATAQALKLMSAKPDAILIAGSGTPAVVPQRALAERGYKGLIY 60
           LKK+E+VANERFA  D+S TAQALKL++AKPDAILIA SGTPAVVPQRAL ERG+KG IY
Sbjct: 180 LKKLELVANERFAPTDSSTTAQALKLVAAKPDAILIAASGTPAVVPQRALKERGFKGQIY 239

Query: 61  QTHGVANSDFLRVGGKLLDNTLLPAGPVLVAAQLPADNPIRKVALGYTAKYEAIHGKDSV 120
           QTHGVAN+DFLRVGGK+LD TLLPAGPVLVAAQLPA NPIRKVAL YT KYEA+HGKDSV
Sbjct: 240 QTHGVANADFLRVGGKMLDGTLLPAGPVLVAAQLPASNPIRKVALDYTTKYEAVHGKDSV 299

Query: 121 SLFGGYAWDAGLLLQAAAPEALKKGKPGTPEFRAALRDALEASKNVNGVHGVYNMSATDH 180
           SLFGGYAWDAG+LL+ A P ALK  KPGTPEFRAALRD LEA+K V GVHGVY MS+TDH
Sbjct: 300 SLFGGYAWDAGVLLRWAIPVALKGAKPGTPEFRAALRDVLEATKEVTGVHGVYTMSSTDH 359

Query: 181 LGLDQRASVMVKIVNGAWKYQP 202
           LGLDQRA+VMVKIV+GAW+YQP
Sbjct: 360 LGLDQRAAVMVKIVDGAWQYQP 381


>gi|300310681|ref|YP_003774773.1| amino acid ABC transporter
           periplasmic protein [Herbaspirillum seropedicae SmR1]
          Length = 385

 Score =  193 bits (490), Expect = 9e-51,   Method: Compositional matrix adjust.
 Identities = 96/195 (49%), Positives = 130/195 (66%), Gaps = 1/195 (0%)

Query: 4   VEVVANERFARNDTSATAQALKLMSAKPDAILIAGSGTPAVVPQRALAERGYKGLIYQTH 63
           +++VANER+ R DTS TAQ+LK+++A PDA+L+A  G   V+PQ  L ++GYKG IYQTH
Sbjct: 187 IKIVANERYQRTDTSVTAQSLKIVAANPDAVLVAAPGAATVLPQTTLFDQGYKGKIYQTH 246

Query: 64  GVANSDFLRVGGKLLDNTLLPAGPVLVAAQLPADNPIRKVALGYTAKYEAIHGKDSVSLF 123
           G A   FL++G   ++ T+L A  +LV  ++P  NP +KVA  Y   Y+ ++     + F
Sbjct: 247 GAALPAFLQLGKNKVEGTILAASLMLVLPEIPDSNPSKKVATDYIEAYKKMYNAVPAT-F 305

Query: 124 GGYAWDAGLLLQAAAPEALKKGKPGTPEFRAALRDALEASKNVNGVHGVYNMSATDHLGL 183
           G   +DAGLLL+ A P A +K KPG+ EFRAALRDALE +K V G  GVYNMSATDH G 
Sbjct: 306 GANVYDAGLLLEKAIPVAARKAKPGSKEFRAALRDALENTKEVVGTQGVYNMSATDHSGF 365

Query: 184 DQRASVMVKIVNGAW 198
           D R   ++ +  G W
Sbjct: 366 DDRGRELITVKGGNW 380


>gi|300313298|ref|YP_003777390.1| branched-chain amino acid ABC
           transporter periplasmic protein [Herbaspirillum
           seropedicae SmR1]
          Length = 381

 Score =  190 bits (483), Expect = 6e-50,   Method: Compositional matrix adjust.
 Identities = 92/190 (48%), Positives = 125/190 (65%)

Query: 10  ERFARNDTSATAQALKLMSAKPDAILIAGSGTPAVVPQRALAERGYKGLIYQTHGVANSD 69
           ERF+R DTS TAQAL+++S+ PDA+L+  SG+ A +P +AL ERGYKG I+QTH  A+ D
Sbjct: 188 ERFSRADTSVTAQALRVVSSNPDAVLVVASGSGAAMPHKALIERGYKGKIFQTHSAASRD 247

Query: 70  FLRVGGKLLDNTLLPAGPVLVAAQLPADNPIRKVALGYTAKYEAIHGKDSVSLFGGYAWD 129
            +R+GGK ++   + +GP +V   LP  N  +K+A+ +  +YE   G  S +LF  + +D
Sbjct: 248 LIRLGGKDVEGAYVISGPAVVPEALPDSNASKKLAMDFVTRYEKQFGAGSRNLFAAHTYD 307

Query: 130 AGLLLQAAAPEALKKGKPGTPEFRAALRDALEASKNVNGVHGVYNMSATDHLGLDQRASV 189
           A L+LQ   PEALKK KPGTP FRAAL++ALE S  +    G  N S  DH GL   A +
Sbjct: 308 AQLVLQKVVPEALKKAKPGTPAFRAALKEALETSGPIQITQGTLNYSPKDHFGLGDDARI 367

Query: 190 MVKIVNGAWK 199
           M+ I NG WK
Sbjct: 368 MLTIQNGNWK 377


  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
   0.316    0.132    0.381 

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: 671,323
Number of extensions: 29149
Number of successful extensions: 112
Number of sequences better than 1.0e-08: 3
Number of HSP's gapped: 111
Number of HSP's successfully gapped: 3
Length of query: 202
Length of database: 1,619,870
Length adjustment: 81
Effective length of query: 121
Effective length of database: 1,236,335
Effective search space: 149596535
Effective search space used: 149596535
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 (21.6 bits)
S2: 128 (53.9 bits)