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= 040282
         (161 letters)

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

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



>pdb|1RCD|A Chain A, Bullfrog Red Cell L Ferritin TartrateMGPH 5.5
 pdb|1RCG|A Chain A, Bullfrog Red Cell L Ferritin SulfateMNPH 6.3
          Length = 173

 Score = 27.7 bits (60), Expect = 2.9,   Method: Compositional matrix adjust.
 Identities = 22/69 (31%), Positives = 35/69 (50%), Gaps = 16/69 (23%)

Query: 22 HSFYVYYSI--------IACSSFLILLNLQGHFFRQKASEADRKSAEKLVKTRNNEVMTL 73
          HS YVY S+        +A S+F         FFR++ SE +++ AEKL++ +N     +
Sbjct: 26 HSSYVYLSMASYFNRDDVALSNF-------AKFFRER-SEEEKEHAEKLIEYQNQRGGRV 77

Query: 74 DWHSIEPKE 82
             S+E  E
Sbjct: 78 FLQSVEKPE 86


>pdb|2EC6|B Chain B, Placopecten Striated Muscle Myosin Ii
          Length = 133

 Score = 27.3 bits (59), Expect = 3.4,   Method: Compositional matrix adjust.
 Identities = 16/58 (27%), Positives = 25/58 (43%)

Query: 80  PKEVVCLLRVHLTSLSGIPTIKHLRIVVGTSDEDSKKEAQKRMIKKLLKKESIEWTED 137
           P      L +    LSG  + + +R   G  DED+ K+     IK LL+     + +D
Sbjct: 50  PLNFTMFLSIFSDKLSGTDSEETIRNAFGMFDEDATKKLNIEYIKDLLENMGDNFNKD 107


>pdb|2Y5B|B Chain B, Structure Of Usp21 In Complex With Linear
           Diubiquitin-Aldehyde
 pdb|2Y5B|F Chain F, Structure Of Usp21 In Complex With Linear
           Diubiquitin-Aldehyde
          Length = 152

 Score = 27.3 bits (59), Expect = 3.5,   Method: Compositional matrix adjust.
 Identities = 21/88 (23%), Positives = 38/88 (43%), Gaps = 16/88 (18%)

Query: 28  YSIIACSSFLILLNLQGHFFRQKASEADRKSAEKLVKTRNNEVMTLDWHSIEPKEVVCLL 87
           Y+I   S+  ++L L+GH              +  VKT   + +TL+   +EP + +  +
Sbjct: 59  YNIQKESTLHLVLRLRGHM-------------QIFVKTLTGKTITLE---VEPSDTIENV 102

Query: 88  RVHLTSLSGIPTIKHLRIVVGTSDEDSK 115
           +  +    GIP  +   I  G   ED +
Sbjct: 103 KAKIQDKEGIPPDQQRLIFAGKQLEDGR 130


>pdb|1RCI|A Chain A, Bullfrog Red Cell L Ferritin TartrateMGPH 5.5
          Length = 173

 Score = 26.6 bits (57), Expect = 6.3,   Method: Compositional matrix adjust.
 Identities = 18/63 (28%), Positives = 34/63 (53%), Gaps = 5/63 (7%)

Query: 24 FYVYYSIIACSSFL----ILLNLQGHFFRQKASEADRKSAEKLVKTRNNEVMTLDWHSIE 79
          FY  Y  ++ +S+     + L+    FFR++ SE +++ AEKL++ +N     +   S+E
Sbjct: 25 FYSSYVYLSMASYFNRDDVALSNFAKFFRER-SEEEKEHAEKLIEYQNQRGGRVFLQSVE 83

Query: 80 PKE 82
            E
Sbjct: 84 KPE 86


  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    0.385 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,282,016
Number of Sequences: 62578
Number of extensions: 152855
Number of successful extensions: 596
Number of sequences better than 100.0: 17
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 11
Number of HSP's that attempted gapping in prelim test: 590
Number of HSP's gapped (non-prelim): 18
length of query: 161
length of database: 14,973,337
effective HSP length: 91
effective length of query: 70
effective length of database: 9,278,739
effective search space: 649511730
effective search space used: 649511730
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: 47 (22.7 bits)