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= psy15268
         (256 letters)

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

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



>pdb|4EZE|A Chain A, Crystal Structure Of Had Family Hydrolase T0658 From
           Salmonella Enterica Subsp. Enterica Serovar Typhi
           (Target Efi-501419)
 pdb|4EZE|B Chain B, Crystal Structure Of Had Family Hydrolase T0658 From
           Salmonella Enterica Subsp. Enterica Serovar Typhi
           (Target Efi-501419)
          Length = 317

 Score = 32.3 bits (72), Expect = 0.30,   Method: Compositional matrix adjust.
 Identities = 16/44 (36%), Positives = 25/44 (56%), Gaps = 4/44 (9%)

Query: 13  VTARAMTYYLDVSAECTRRIVAIDG----AMKAICSRLSLGAGI 52
           +T +AM   LD +A  TRRI  + G     + A+C R++L  G+
Sbjct: 141 ITQQAMEGKLDFNASFTRRIGMLKGTPKAVLNAVCDRMTLSPGL 184


>pdb|2C6X|A Chain A, Structure Of Bacillus Subtilis Citrate Synthase
 pdb|2C6X|B Chain B, Structure Of Bacillus Subtilis Citrate Synthase
 pdb|2C6X|C Chain C, Structure Of Bacillus Subtilis Citrate Synthase
 pdb|2C6X|D Chain D, Structure Of Bacillus Subtilis Citrate Synthase
          Length = 363

 Score = 30.4 bits (67), Expect = 0.92,   Method: Compositional matrix adjust.
 Identities = 27/94 (28%), Positives = 42/94 (44%), Gaps = 9/94 (9%)

Query: 157 RFTRRGVDPAPLAQHGLASELLIRLS----NAAGSNPLNTSL-----GGANVSTASASGT 207
           R+TR     AP +Q+G        L+    + A    L T +      G N ST SA  T
Sbjct: 130 RWTRGEQAIAPSSQYGHVENYYYMLTGEQPSEAKKKALETYMILATEHGMNASTFSARVT 189

Query: 208 LATEAKASSGSVSTIVSLLSALCRGSPSITSDLL 241
           L+TE+   S   + + ++   L  G+PS  + +L
Sbjct: 190 LSTESDLVSAVTAALGTMKGPLHGGAPSAVTKML 223


>pdb|2Y5W|A Chain A, Crystal Structure Of Drosophila Melanogaster Kinesin-1
           Motor Domain Dimer
 pdb|2Y5W|B Chain B, Crystal Structure Of Drosophila Melanogaster Kinesin-1
           Motor Domain Dimer
 pdb|2Y65|A Chain A, Crystal Structure Of Drosophila Melanogaster Kinesin-1
           Motor Domain Dimer-Tail Complex
 pdb|2Y65|B Chain B, Crystal Structure Of Drosophila Melanogaster Kinesin-1
           Motor Domain Dimer-Tail Complex
 pdb|2Y65|C Chain C, Crystal Structure Of Drosophila Melanogaster Kinesin-1
           Motor Domain Dimer-Tail Complex
 pdb|2Y65|D Chain D, Crystal Structure Of Drosophila Melanogaster Kinesin-1
           Motor Domain Dimer-Tail Complex
          Length = 365

 Score = 28.1 bits (61), Expect = 5.1,   Method: Compositional matrix adjust.
 Identities = 15/41 (36%), Positives = 24/41 (58%)

Query: 195 GGANVSTASASGTLATEAKASSGSVSTIVSLLSALCRGSPS 235
           G   VS   A GT+  EAK  + S+S + +++SAL  G+ +
Sbjct: 241 GSEKVSKTGAEGTVLDEAKNINKSLSALGNVISALADGNKT 281


>pdb|1BG2|A Chain A, Human Ubiquitous Kinesin Motor Domain
 pdb|2P4N|K Chain K, Human Monomeric Kinesin (1bg2) And Bovine Tubulin (1jff)
           Docked Into The 9-Angstrom Cryo-Em Map Of
           Nucleotide-Free Kinesin Complexed To The Microtubule
          Length = 325

 Score = 27.3 bits (59), Expect = 8.2,   Method: Compositional matrix adjust.
 Identities = 15/42 (35%), Positives = 23/42 (54%)

Query: 195 GGANVSTASASGTLATEAKASSGSVSTIVSLLSALCRGSPSI 236
           G   VS   A G +  EAK  + S+S + +++SAL  GS  +
Sbjct: 234 GSEKVSKTGAEGAVLDEAKNINKSLSALGNVISALAEGSTYV 275


>pdb|4ATX|C Chain C, Rigor Kinesin Motor Domain With An Ordered Neck-Linker,
           Docked On Tubulin Dimer, Modelled Into The 8a Cryo-Em
           Map Of Doublecortin-Microtubules Decorated With Kinesin
          Length = 340

 Score = 27.3 bits (59), Expect = 8.2,   Method: Compositional matrix adjust.
 Identities = 15/42 (35%), Positives = 23/42 (54%)

Query: 195 GGANVSTASASGTLATEAKASSGSVSTIVSLLSALCRGSPSI 236
           G   VS   A G +  EAK  + S+S + +++SAL  GS  +
Sbjct: 234 GSEKVSKTGAEGAVLDEAKNINKSLSALGNVISALAEGSTYV 275


>pdb|1MKJ|A Chain A, Human Kinesin Motor Domain With Docked Neck Linker
          Length = 349

 Score = 27.3 bits (59), Expect = 8.4,   Method: Compositional matrix adjust.
 Identities = 15/42 (35%), Positives = 23/42 (54%)

Query: 195 GGANVSTASASGTLATEAKASSGSVSTIVSLLSALCRGSPSI 236
           G   VS   A G +  EAK  + S+S + +++SAL  GS  +
Sbjct: 234 GSEKVSKTGAEGAVLDEAKNINKSLSALGNVISALAEGSTYV 275


  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
   0.317    0.129    0.363 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,544,997
Number of Sequences: 62578
Number of extensions: 219946
Number of successful extensions: 641
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 634
Number of HSP's gapped (non-prelim): 10
length of query: 256
length of database: 14,973,337
effective HSP length: 97
effective length of query: 159
effective length of database: 8,903,271
effective search space: 1415620089
effective search space used: 1415620089
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)