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= 028191
         (212 letters)

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

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



>pdb|2EBM|A Chain A, Solution Structure Of The Rwd Domain Of Human Rwd Domain
           Containing Protein 1
          Length = 128

 Score = 60.5 bits (145), Expect = 7e-10,   Method: Compositional matrix adjust.
 Identities = 30/71 (42%), Positives = 45/71 (63%)

Query: 12  AVELALIFSHTEKYPDEPPLLNVKSLRGIQAGDLKILKEKLEQEASENLGMAMIYTLVTS 71
            V+  L F+++EKYPDE PL  + S   ++  D+  + + L  +A ENLGM MI+TLVT+
Sbjct: 54  TVQTTLKFTYSEKYPDEAPLYEIFSQENLEDNDVSDILKLLALQAEENLGMVMIFTLVTA 113

Query: 72  AKEWLSERYSQ 82
            +E L+E   Q
Sbjct: 114 VQEKLNEIVDQ 124


>pdb|2DAY|A Chain A, Solution Structure Of The Rwd Domain Of Human Ring Finger
           Protein 25
          Length = 128

 Score = 38.5 bits (88), Expect = 0.003,   Method: Compositional matrix adjust.
 Identities = 20/65 (30%), Positives = 33/65 (50%)

Query: 13  VELALIFSHTEKYPDEPPLLNVKSLRGIQAGDLKILKEKLEQEASENLGMAMIYTLVTSA 72
           V   L+     +YP E P +++++ RG+    +  + + L   A   LG AM+Y L+   
Sbjct: 59  VCFTLVLQVPAEYPHEVPQISIRNPRGLSDEQIHTILQVLGHVAKAGLGTAMLYELIEKG 118

Query: 73  KEWLS 77
           KE LS
Sbjct: 119 KEILS 123


>pdb|2DMF|A Chain A, An Extended Conformation Of The Rwd Domain Of Human Ring
           Finger Protein 25
          Length = 137

 Score = 38.1 bits (87), Expect = 0.003,   Method: Compositional matrix adjust.
 Identities = 19/67 (28%), Positives = 34/67 (50%)

Query: 13  VELALIFSHTEKYPDEPPLLNVKSLRGIQAGDLKILKEKLEQEASENLGMAMIYTLVTSA 72
           V   L+     +YP E P +++++ RG+    +  + + L   A   LG AM+Y L+   
Sbjct: 59  VCFTLVLQVPAEYPHEVPQISIRNPRGLSDEQIHTILQVLGHVAKAGLGTAMLYELIEKG 118

Query: 73  KEWLSER 79
           KE L++ 
Sbjct: 119 KEILTDN 125


>pdb|1UKX|A Chain A, Solution Structure Of The Rwd Domain Of Mouse Gcn2
          Length = 137

 Score = 37.7 bits (86), Expect = 0.005,   Method: Compositional matrix adjust.
 Identities = 20/66 (30%), Positives = 35/66 (53%)

Query: 13  VELALIFSHTEKYPDEPPLLNVKSLRGIQAGDLKILKEKLEQEASENLGMAMIYTLVTSA 72
           V++ L       YPD  P +++K+ +G+    + +LK  LE+ A +  G  MI+ L    
Sbjct: 63  VQVELRVKCPPTYPDVVPEIDLKNAKGLSNESVNLLKSHLEELAKKQCGEVMIFELAHHV 122

Query: 73  KEWLSE 78
           + +LSE
Sbjct: 123 QSFLSE 128


  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
   0.310    0.127    0.351 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,900,542
Number of Sequences: 62578
Number of extensions: 149212
Number of successful extensions: 348
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 344
Number of HSP's gapped (non-prelim): 6
length of query: 212
length of database: 14,973,337
effective HSP length: 95
effective length of query: 117
effective length of database: 9,028,427
effective search space: 1056325959
effective search space used: 1056325959
T: 11
A: 40
X1: 16 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.7 bits)
S2: 49 (23.5 bits)