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= 027326
         (225 letters)

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

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



>pdb|2J3T|D Chain D, The Crystal Structure Of The Bet3-Trs33-Bet5-Trs23 Complex
          Length = 219

 Score = 31.6 bits (70), Expect = 0.34,   Method: Compositional matrix adjust.
 Identities = 23/90 (25%), Positives = 37/90 (41%), Gaps = 5/90 (5%)

Query: 128 VDMPQRYVEIHPDLPKYFWQPESWPKHVLIRYT---WEEQSEIDVASGFYVLFASGKSLY 184
           +D+  RY     ++ +Y   P ++P  V IR+         ++ +AS F+ LFA G  L 
Sbjct: 69  MDVNGRYTADGKEVLEYLGNPANYP--VSIRFGRPRLTSNEKLMLASMFHSLFAIGSQLS 126

Query: 185 SNQGSKWYWLLYRALISHSCCVNFLASRFC 214
             QGS    +L        C       +F 
Sbjct: 127 PEQGSSGIEMLETDTFKLHCYQTLTGIKFV 156


>pdb|2ZMV|A Chain A, Crystal Structure Of Synbindin
 pdb|2ZMV|B Chain B, Crystal Structure Of Synbindin
          Length = 227

 Score = 31.6 bits (70), Expect = 0.36,   Method: Compositional matrix adjust.
 Identities = 23/90 (25%), Positives = 37/90 (41%), Gaps = 5/90 (5%)

Query: 128 VDMPQRYVEIHPDLPKYFWQPESWPKHVLIRYT---WEEQSEIDVASGFYVLFASGKSLY 184
           +D+  RY     ++ +Y   P ++P  V IR+         ++ +AS F+ LFA G  L 
Sbjct: 69  MDVNGRYTADGKEVLEYLGNPANYP--VSIRFGRPRLTSNEKLMLASMFHSLFAIGSQLS 126

Query: 185 SNQGSKWYWLLYRALISHSCCVNFLASRFC 214
             QGS    +L        C       +F 
Sbjct: 127 PEQGSSGIEMLETDTFKLHCYQTLTGIKFV 156


>pdb|3ZYJ|B Chain B, Netring1 In Complex With Ngl1
 pdb|3ZYJ|D Chain D, Netring1 In Complex With Ngl1
          Length = 426

 Score = 28.1 bits (61), Expect = 4.1,   Method: Compositional matrix adjust.
 Identities = 15/67 (22%), Positives = 27/67 (40%), Gaps = 3/67 (4%)

Query: 118 NDLLGVTAKIVDMPQRYVEIHPDLPKYFWQPESW---PKHVLIRYTWEEQSEIDVASGFY 174
           N+    T ++   P+   +     P  FWQ  +W   PK + +  T      I++     
Sbjct: 90  NECDASTPELAHPPELMFDFEGRHPSTFWQSATWKEYPKPLQVNITLSWSKTIELTDNIV 149

Query: 175 VLFASGK 181
           + F SG+
Sbjct: 150 ITFESGR 156


>pdb|1K0W|A Chain A, Crystal Structure Of L-Ribulose-5-Phosphate 4-Epimerase
 pdb|1K0W|B Chain B, Crystal Structure Of L-Ribulose-5-Phosphate 4-Epimerase
 pdb|1K0W|C Chain C, Crystal Structure Of L-Ribulose-5-Phosphate 4-Epimerase
 pdb|1K0W|D Chain D, Crystal Structure Of L-Ribulose-5-Phosphate 4-Epimerase
 pdb|1K0W|E Chain E, Crystal Structure Of L-Ribulose-5-Phosphate 4-Epimerase
 pdb|1K0W|F Chain F, Crystal Structure Of L-Ribulose-5-Phosphate 4-Epimerase
          Length = 231

 Score = 27.7 bits (60), Expect = 5.9,   Method: Compositional matrix adjust.
 Identities = 12/31 (38%), Positives = 17/31 (54%)

Query: 150 SWPKHVLIRYTWEEQSEIDVASGFYVLFASG 180
           + PKH L+  TW   S +D   G +V+  SG
Sbjct: 15  ALPKHNLVTLTWGNVSAVDRERGVFVIKPSG 45


>pdb|1JDI|A Chain A, Crystal Structure Of L-Ribulose-5-Phosphate 4-Epimerase
 pdb|1JDI|B Chain B, Crystal Structure Of L-Ribulose-5-Phosphate 4-Epimerase
 pdb|1JDI|C Chain C, Crystal Structure Of L-Ribulose-5-Phosphate 4-Epimerase
 pdb|1JDI|D Chain D, Crystal Structure Of L-Ribulose-5-Phosphate 4-Epimerase
 pdb|1JDI|E Chain E, Crystal Structure Of L-Ribulose-5-Phosphate 4-Epimerase
 pdb|1JDI|F Chain F, Crystal Structure Of L-Ribulose-5-Phosphate 4-Epimerase
          Length = 231

 Score = 27.7 bits (60), Expect = 6.0,   Method: Compositional matrix adjust.
 Identities = 12/31 (38%), Positives = 17/31 (54%)

Query: 150 SWPKHVLIRYTWEEQSEIDVASGFYVLFASG 180
           + PKH L+  TW   S +D   G +V+  SG
Sbjct: 15  ALPKHNLVTLTWGNVSAVDRERGVFVIKPSG 45


  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
   0.325    0.138    0.458 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,700,182
Number of Sequences: 62578
Number of extensions: 277177
Number of successful extensions: 852
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 850
Number of HSP's gapped (non-prelim): 5
length of query: 225
length of database: 14,973,337
effective HSP length: 95
effective length of query: 130
effective length of database: 9,028,427
effective search space: 1173695510
effective search space used: 1173695510
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 50 (23.9 bits)