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= 027570
         (221 letters)

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

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



>pdb|1VCS|A Chain A, Solution Structure Of Rsgi Ruh-009, An N-Terminal Domain
          Of Vti1a [mus Musculus]
          Length = 102

 Score = 56.2 bits (134), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 27/89 (30%), Positives = 51/89 (57%), Gaps = 2/89 (2%)

Query: 8  YERQYCEISANLSKKCTAAASLDGERKKQKVSEIQTGLDEAESLIRKMDLEARSLQPNVK 67
          YE+ +  ++A ++ K      L  + KKQ V+ ++  L+EA  L+ +MDLE R + P  +
Sbjct: 10 YEQDFAVLTAEITSKIARVPRLPPDEKKQMVANVEKQLEEARELLEQMDLEVREIPPQSR 69

Query: 68 AVLLAKLREYKSDLNNLKSEVK--RLVSG 94
           +   ++R YK ++  L+++ K  R+ SG
Sbjct: 70 GMYSNRMRSYKQEMGKLETDFKRSRIASG 98


>pdb|2NPS|C Chain C, Crystal Structure Of The Early Endosomal Snare Complex
          Length = 81

 Score = 38.1 bits (87), Expect = 0.004,   Method: Compositional matrix adjust.
 Identities = 23/78 (29%), Positives = 41/78 (52%)

Query: 120 RSRLMMSTERVNQSTDRIKDSRRTMLETEELGVXXXXXXXXXXXXXXHAHNTLHGVDDNV 179
           R+ L+ +TER+ +S+ R++   +  +ETE++G                A   L   D N+
Sbjct: 4   RAHLLDNTERLERSSRRLEAGYQIAVETEQIGQEMLENLSHDRERIQRARERLRETDANL 63

Query: 180 SKSKKVLTAMSRRMSRNK 197
            KS ++LT M RR+ +N+
Sbjct: 64  GKSSRILTGMLRRIIQNR 81


>pdb|1GL2|C Chain C, Crystal Structure Of An Endosomal Snare Core Complex
          Length = 65

 Score = 30.0 bits (66), Expect = 0.99,   Method: Compositional matrix adjust.
 Identities = 18/62 (29%), Positives = 32/62 (51%)

Query: 130 VNQSTDRIKDSRRTMLETEELGVXXXXXXXXXXXXXXHAHNTLHGVDDNVSKSKKVLTAM 189
           +N++T  I+ S R   ET+++G                  + L   ++N+SKS+K+L +M
Sbjct: 4   MNRATQSIERSHRIATETDQIGTEIIEELGEQRDQLERTKSRLVNTNENLSKSRKILRSM 63

Query: 190 SR 191
           SR
Sbjct: 64  SR 65


>pdb|2V8S|V Chain V, Vti1b Habc Domain - Epsinr Enth Domain Complex
          Length = 96

 Score = 28.5 bits (62), Expect = 3.4,   Method: Compositional matrix adjust.
 Identities = 18/58 (31%), Positives = 29/58 (50%)

Query: 32 ERKKQKVSEIQTGLDEAESLIRKMDLEARSLQPNVKAVLLAKLREYKSDLNNLKSEVK 89
          E KK+ V +      EA   + +M+ E R      +  +++KLR Y+ DL  L  EV+
Sbjct: 39 EEKKKLVRDFDEKQQEANETLAEMEEELRYAPLTFRNPMMSKLRNYRKDLAKLHREVR 96


  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
   0.312    0.125    0.327 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,324,556
Number of Sequences: 62578
Number of extensions: 121962
Number of successful extensions: 397
Number of sequences better than 100.0: 14
Number of HSP's better than 100.0 without gapping: 11
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 382
Number of HSP's gapped (non-prelim): 17
length of query: 221
length of database: 14,973,337
effective HSP length: 95
effective length of query: 126
effective length of database: 9,028,427
effective search space: 1137581802
effective search space used: 1137581802
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 49 (23.5 bits)