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= psy3954
         (268 letters)

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

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



>pdb|3HN8|A Chain A, Crystal Structure Of Synaptotagmin
 pdb|3HN8|B Chain B, Crystal Structure Of Synaptotagmin
 pdb|3HN8|C Chain C, Crystal Structure Of Synaptotagmin
          Length = 296

 Score = 32.7 bits (73), Expect = 0.22,   Method: Compositional matrix adjust.
 Identities = 34/148 (22%), Positives = 61/148 (41%), Gaps = 14/148 (9%)

Query: 91  SPFFGEEFQFDIP-----RRFRHLAVYAYDRDRTSKTDRVLGKVTIQR--SDLHRISNKE 143
           +P F E FQF +P     +R  H +V  YD DR S+ D ++G+V +        +  ++ 
Sbjct: 68  NPIFNETFQFSVPLAELAQRKLHFSV--YDFDRFSRHD-LIGQVVLDNLLELAEQPPDRP 124

Query: 144 HWFPLTPVTQDSEVQGKIQIGVLSTPTS--LMVNVNEASGLTQVN--GQCDPTAMVTVHY 199
            W  +     +    G++   +   PT+  L V + +AS L  ++  G  DP    ++  
Sbjct: 125 LWRDILEGGSEKADLGELNFSLCYLPTAGLLTVTIIKASNLKAMDLTGFSDPYVKASLIS 184

Query: 200 THNXXXXXXXXXXXXXXXXXFNESFMFD 227
                               +NE+ +FD
Sbjct: 185 EGRRLKKRKTSIKKNTLNPTYNEALVFD 212


>pdb|1DQV|A Chain A, Crystal Structure Of Synaptotagmin Iii C2aC2B
          Length = 296

 Score = 32.7 bits (73), Expect = 0.23,   Method: Compositional matrix adjust.
 Identities = 34/148 (22%), Positives = 61/148 (41%), Gaps = 14/148 (9%)

Query: 91  SPFFGEEFQFDIP-----RRFRHLAVYAYDRDRTSKTDRVLGKVTIQR--SDLHRISNKE 143
           +P F E FQF +P     +R  H +V  YD DR S+ D ++G+V +        +  ++ 
Sbjct: 67  NPIFNETFQFSVPLAELAQRKLHFSV--YDFDRFSRHD-LIGQVVLDNLLELAEQPPDRP 123

Query: 144 HWFPLTPVTQDSEVQGKIQIGVLSTPTS--LMVNVNEASGLTQVN--GQCDPTAMVTVHY 199
            W  +     +    G++   +   PT+  L V + +AS L  ++  G  DP    ++  
Sbjct: 124 LWRDILEGGSEKADLGELNFSLCYLPTAGLLTVTIIKASNLKAMDLTGFSDPYVKASLIS 183

Query: 200 THNXXXXXXXXXXXXXXXXXFNESFMFD 227
                               +NE+ +FD
Sbjct: 184 EGRRLKKRKTSIKKNTLNPTYNEALVFD 211


>pdb|3N5A|A Chain A, Synaptotagmin-7, C2b-Domain, Calcium Bound
          Length = 138

 Score = 32.0 bits (71), Expect = 0.35,   Method: Compositional matrix adjust.
 Identities = 16/42 (38%), Positives = 25/42 (59%), Gaps = 4/42 (9%)

Query: 91  SPFFGEEFQFDIP-RRFRH--LAVYAYDRDRTSKTDRVLGKV 129
           +P F E F FDIP  + R   + +   D+D+ S+ D V+GK+
Sbjct: 65  NPIFNESFAFDIPTEKLRETTIIITVMDKDKLSRND-VIGKI 105


>pdb|1PV8|A Chain A, Crystal Structure Of A Low Activity F12l Mutant Of Human
           Porphobilinogen Synthase
 pdb|1PV8|B Chain B, Crystal Structure Of A Low Activity F12l Mutant Of Human
           Porphobilinogen Synthase
          Length = 330

 Score = 32.0 bits (71), Expect = 0.41,   Method: Compositional matrix adjust.
 Identities = 19/61 (31%), Positives = 30/61 (49%), Gaps = 1/61 (1%)

Query: 90  TSPFFGEEFQFDIPRRFRHLAVYAYDRDRTSKTDRVLGKVTIQRSDLHR-ISNKEHWFPL 148
           +SP FG+   + +P   R LA+ A DRD     D ++ K  +   D+ R + +K    PL
Sbjct: 214 SSPAFGDRRCYQLPPGARGLALRAVDRDVREGADMLMVKPGMPYLDIVREVKDKHPDLPL 273

Query: 149 T 149
            
Sbjct: 274 A 274


>pdb|1E51|A Chain A, Crystal Structure Of Native Human Erythrocyte 5-
           Aminolaevulinic Acid Dehydratase
 pdb|1E51|B Chain B, Crystal Structure Of Native Human Erythrocyte 5-
           Aminolaevulinic Acid Dehydratase
          Length = 330

 Score = 31.6 bits (70), Expect = 0.46,   Method: Compositional matrix adjust.
 Identities = 19/61 (31%), Positives = 30/61 (49%), Gaps = 1/61 (1%)

Query: 90  TSPFFGEEFQFDIPRRFRHLAVYAYDRDRTSKTDRVLGKVTIQRSDLHR-ISNKEHWFPL 148
           +SP FG+   + +P   R LA+ A DRD     D ++ K  +   D+ R + +K    PL
Sbjct: 214 SSPAFGDRRCYQLPPGARGLALRAVDRDVREGADMLMVKPGMPYLDIVREVKDKHPDLPL 273

Query: 149 T 149
            
Sbjct: 274 A 274


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

 Score = 30.4 bits (67), Expect = 1.1,   Method: Compositional matrix adjust.
 Identities = 17/47 (36%), Positives = 23/47 (48%), Gaps = 1/47 (2%)

Query: 107 RHLAVYAYDRDRTSKTDRVLGKVTIQRSDLHRISNKEHWFPLTPVTQ 153
           + L V  +D DR S  D  LG+V I  S    + N   W+PL   T+
Sbjct: 96  KTLEVTVWDYDRFSSND-FLGEVLIDLSSTSHLDNTPRWYPLKEQTE 141


  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
   0.321    0.134    0.407 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,553,853
Number of Sequences: 62578
Number of extensions: 281869
Number of successful extensions: 516
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 514
Number of HSP's gapped (non-prelim): 11
length of query: 268
length of database: 14,973,337
effective HSP length: 97
effective length of query: 171
effective length of database: 8,903,271
effective search space: 1522459341
effective search space used: 1522459341
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: 50 (23.9 bits)