BLASTP 2.2.26 [Sep-21-2011]


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= 026165
         (242 letters)

Database: pdbaa 
           62,578 sequences; 14,973,337 total letters

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



>pdb|2KJK|A Chain A, Solution Structure Of The Second Domain Of The Listeria
           Protein Lin2157, Northeast Structural Genomics
           Consortium Target Lkr136b
          Length = 100

 Score = 30.4 bits (67), Expect = 0.91,   Method: Compositional matrix adjust.
 Identities = 19/52 (36%), Positives = 27/52 (51%), Gaps = 1/52 (1%)

Query: 73  SWSEFIDYVVASIKSEDVKLILEGHSNADGAAYAKIVAQKSKGMPRISISLT 124
           S  EFIDY+ +    + VK+  + H N +  A  K+ A   KG P I I+L 
Sbjct: 40  SSQEFIDYIHSKKVGDTVKIKYK-HGNKNEEASIKLTAIDKKGTPGIGITLV 90


>pdb|1IN4|A Chain A, Thermotoga Maritima Ruvb Holliday Junction Branch
           Migration Motor
          Length = 334

 Score = 29.6 bits (65), Expect = 1.7,   Method: Compositional matrix adjust.
 Identities = 11/22 (50%), Positives = 19/22 (86%)

Query: 104 AYAKIVAQKSKGMPRISISLTR 125
           A A+++A++S+G PRI+I LT+
Sbjct: 203 AAAEMIAKRSRGTPRIAIRLTK 224


>pdb|1IN6|A Chain A, Thermotoga Maritima Ruvb K64r Mutant
          Length = 334

 Score = 29.6 bits (65), Expect = 1.7,   Method: Compositional matrix adjust.
 Identities = 11/22 (50%), Positives = 19/22 (86%)

Query: 104 AYAKIVAQKSKGMPRISISLTR 125
           A A+++A++S+G PRI+I LT+
Sbjct: 203 AAAEMIAKRSRGTPRIAIRLTK 224


>pdb|1IN8|A Chain A, Thermotoga Maritima Ruvb T158v
          Length = 334

 Score = 29.6 bits (65), Expect = 1.7,   Method: Compositional matrix adjust.
 Identities = 11/22 (50%), Positives = 19/22 (86%)

Query: 104 AYAKIVAQKSKGMPRISISLTR 125
           A A+++A++S+G PRI+I LT+
Sbjct: 203 AAAEMIAKRSRGTPRIAIRLTK 224


>pdb|1IN5|A Chain A, Thermogota Maritima Ruvb A156s Mutant
          Length = 334

 Score = 29.6 bits (65), Expect = 1.7,   Method: Compositional matrix adjust.
 Identities = 11/22 (50%), Positives = 19/22 (86%)

Query: 104 AYAKIVAQKSKGMPRISISLTR 125
           A A+++A++S+G PRI+I LT+
Sbjct: 203 AAAEMIAKRSRGTPRIAIRLTK 224


>pdb|1IN7|A Chain A, Thermotoga Maritima Ruvb R170a
          Length = 334

 Score = 29.6 bits (65), Expect = 1.7,   Method: Compositional matrix adjust.
 Identities = 11/22 (50%), Positives = 19/22 (86%)

Query: 104 AYAKIVAQKSKGMPRISISLTR 125
           A A+++A++S+G PRI+I LT+
Sbjct: 203 AAAEMIAKRSRGTPRIAIRLTK 224


>pdb|3I1E|A Chain A, Crystal Structure Of The Pdz Domain Of The Sdrc-Like
           Protein (Lin2157) From Listeria Innocua, Northeast
           Structural Genomics Consortium Target Lkr136c
 pdb|3I1E|B Chain B, Crystal Structure Of The Pdz Domain Of The Sdrc-Like
           Protein (Lin2157) From Listeria Innocua, Northeast
           Structural Genomics Consortium Target Lkr136c
          Length = 90

 Score = 28.5 bits (62), Expect = 3.8,   Method: Compositional matrix adjust.
 Identities = 18/49 (36%), Positives = 25/49 (51%), Gaps = 1/49 (2%)

Query: 73  SWSEFIDYVVASIKSEDVKLILEGHSNADGAAYAKIVAQKSKGMPRISI 121
           S  EFIDY+ +    + VK+  + H N +  A  K+ A   KG P I I
Sbjct: 35  SSQEFIDYIHSKKVGDTVKIKYK-HGNKNEEASIKLTAIDKKGTPGIGI 82


>pdb|3P8C|B Chain B, Structure And Control Of The Actin Regulatory Wave Complex
          Length = 1128

 Score = 28.1 bits (61), Expect = 4.0,   Method: Compositional matrix adjust.
 Identities = 12/18 (66%), Positives = 14/18 (77%)

Query: 224 WKLAWFNSSCLGIFRIEV 241
           WKLA  +SSCL +FR EV
Sbjct: 283 WKLALQSSSCLSLFRDEV 300


>pdb|2BV3|A Chain A, Crystal Structure Of A Mutant Elongation Factor G Trapped
           With A Gtp Analogue
          Length = 691

 Score = 26.9 bits (58), Expect = 9.7,   Method: Compositional matrix adjust.
 Identities = 15/55 (27%), Positives = 28/55 (50%)

Query: 90  VKLILEGHSNADGAAYAKIVAQKSKGMPRISISLTRLTGSAATEAMAKLSLELFT 144
           + + +E  + AD    ++ +A+ ++  P  S+S    TGS     M +LSLE+  
Sbjct: 409 IDVAIEPKTKADQEKLSQALARLAEESPTFSVSTHPETGSTIISGMGELSLEIIV 463


  Database: pdbaa
    Posted date:  Mar 3, 2013 10:34 PM
  Number of letters in database: 14,973,337
  Number of sequences in database:  62,578
  
Lambda     K      H
   0.318    0.131    0.384 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,390,731
Number of Sequences: 62578
Number of extensions: 216998
Number of successful extensions: 813
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 805
Number of HSP's gapped (non-prelim): 10
length of query: 242
length of database: 14,973,337
effective HSP length: 96
effective length of query: 146
effective length of database: 8,965,849
effective search space: 1309013954
effective search space used: 1309013954
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 50 (23.9 bits)