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= psy2532
         (410 letters)

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

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



>pdb|2F6H|X Chain X, Myosin V Cargo Binding Domain
          Length = 419

 Score = 58.2 bits (139), Expect = 8e-09,   Method: Compositional matrix adjust.
 Identities = 33/122 (27%), Positives = 62/122 (50%), Gaps = 2/122 (1%)

Query: 67  SKLFHFLNVWAFNRLVANNSIYCSKAWGVRIKNRLAHIQMWAERQGLELAADCHLAKLMQ 126
           + L ++++   FN L+   + + S   G+++   +  ++ W +  GL    +C L  L+Q
Sbjct: 233 TTLLNYVDAICFNELIMKRN-FLSWKRGLQLNYNVTRLEEWCKTHGLTDGTEC-LQHLIQ 290

Query: 127 AAHLLQAPKYTGDELAELTSTCFKLNSLQLRALLLKYQPTPDEPRLPHEVIENVVRVAEN 186
            A LLQ  KYT +++  L   C+ L   QL+ L+ +YQ    E  +P E++  V  + + 
Sbjct: 291 TAKLLQVRKYTIEDIDILRGICYSLTPAQLQKLISQYQVADYESPIPQEILRYVADIVKK 350

Query: 187 LA 188
            A
Sbjct: 351 EA 352


>pdb|3MMI|A Chain A, Crystal Structure Of The Globular Tail Of Myo4p
 pdb|3MMI|B Chain B, Crystal Structure Of The Globular Tail Of Myo4p
          Length = 386

 Score = 43.5 bits (101), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 35/129 (27%), Positives = 65/129 (50%), Gaps = 8/129 (6%)

Query: 64  QLFSKLFHFLNVWAFNRLVANNSIYCSKAWGVRIKNRLAHIQMWAERQGLELAADCHLAK 123
           ++F+    +LNV  FN L+        K +G  +   +  +  W E +  ++  +  L +
Sbjct: 214 KIFNDTLKYLNVMLFNDLITKCPALNWK-YGYEVDRNIERLVSWFEPRIEDVRPN--LIQ 270

Query: 124 LMQAAHLLQAPKYTGDELAELTSTCFKLNSLQLRALLLKYQP-TPDEPRLPHEVIE---N 179
           ++QA  +LQ      +E   L    + LN  Q++A+LLKY+P    E  +P+E++    N
Sbjct: 271 IIQAVKILQLKISNLNEFKLLFDFWYALNPAQIQAILLKYKPANKGEAGVPNEILNYLAN 330

Query: 180 VVRVAENLA 188
           V++  ENL+
Sbjct: 331 VIK-RENLS 338


>pdb|1RH8|A Chain A, Three-Dimensional Structure Of The Calcium-Free Piccolo
           C2a- Domain
          Length = 142

 Score = 28.9 bits (63), Expect = 4.9,   Method: Compositional matrix adjust.
 Identities = 24/103 (23%), Positives = 44/103 (42%), Gaps = 2/103 (1%)

Query: 237 LQAAGLCRLSAQPTSNGYWTVYMGPHNSQGPVIRSPSAMSNRSAGYIANREEPDIQVIKL 296
           LQA  L        S+ +  VY+ P   Q  V+++ SA   R   Y+     P+     +
Sbjct: 25  LQARNLVPRDNNGYSDPFVKVYLLPGRGQVMVVQNASAEYKRRTKYVQKSLNPEWNQTVI 84

Query: 297 HKSSTYERYTRGTDPILPAVLEIREETEEAFLHALITDLEPSA 339
           +KS + E+  + T  +   V +    +   FL  ++ DL  ++
Sbjct: 85  YKSISMEQLMKKTLEV--TVWDYDRFSSNDFLGEVLIDLSSTS 125


  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
   0.322    0.135    0.404 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,544,921
Number of Sequences: 62578
Number of extensions: 373518
Number of successful extensions: 622
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 616
Number of HSP's gapped (non-prelim): 7
length of query: 410
length of database: 14,973,337
effective HSP length: 101
effective length of query: 309
effective length of database: 8,652,959
effective search space: 2673764331
effective search space used: 2673764331
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 53 (25.0 bits)