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= 005912
         (670 letters)

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

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



>pdb|1LP8|A Chain A, High Resolution Structure Of Recombinant Dianthin
           Antiviral Protein-Potent Anti-Hiv Agent
 pdb|1LPC|A Chain A, High Resolution Structure Of Recombinant Dianthin
           Antiviral Protein-Potent Anti-Hiv Agent (Complex With
           Cyclic Amp)
 pdb|1LPD|A Chain A, High Resolution Structure Of Recombinant Dianthin
           Antiviral Protein-Potent Anti-Hiv Agent (Complex With
           Adenine)
          Length = 254

 Score = 32.7 bits (73), Expect = 0.71,   Method: Compositional matrix adjust.
 Identities = 17/51 (33%), Positives = 25/51 (49%), Gaps = 1/51 (1%)

Query: 13  NALEIAYEMEAAGRMATTFHF-NHLLSCQATCGIPEVAFATFENMEYGEDY 62
           N   +AY       +   ++F N + S + T   PEV  A  + +EYGEDY
Sbjct: 71  NLYVVAYLAMDNANVNRAYYFKNQITSAELTALFPEVVVANQKQLEYGEDY 121


>pdb|1RL0|A Chain A, Crystal Structure Of A New Ribosome-Inactivating Protein
           (Rip): Dianthin 30
          Length = 255

 Score = 32.7 bits (73), Expect = 0.73,   Method: Compositional matrix adjust.
 Identities = 17/51 (33%), Positives = 25/51 (49%), Gaps = 1/51 (1%)

Query: 13  NALEIAYEMEAAGRMATTFHF-NHLLSCQATCGIPEVAFATFENMEYGEDY 62
           N   +AY       +   ++F N + S + T   PEV  A  + +EYGEDY
Sbjct: 71  NLYVVAYLAMDNANVNRAYYFKNQITSAELTALFPEVVVANQKQLEYGEDY 121


>pdb|1W55|A Chain A, Structure Of The Bifunctional Ispdf From Campylobacter
           Jejuni
 pdb|1W57|A Chain A, Structure Of The Bifunctional Ispdf From Campylobacter
           Jejuni Containing Zn
          Length = 371

 Score = 30.4 bits (67), Expect = 3.1,   Method: Compositional matrix adjust.
 Identities = 19/67 (28%), Positives = 33/67 (49%)

Query: 62  YMKPDTETYNCVIQAYTRAESYDRVQDVAELLGMMVEDHKRLQPNVKTYALLVECFTKYC 121
           YMK  T+ Y  +    TRAES  +  ++ +   +MV D  R+  +   +  L+E   K  
Sbjct: 59  YMKKFTKNYEFIEGGDTRAESLKKALELIDSEFVMVSDVARVLVSKNLFDRLIENLDKAD 118

Query: 122 AVTEAIR 128
            +T A++
Sbjct: 119 CITPALK 125


>pdb|1I7K|A Chain A, Crystal Structure Of Human Mitotic-Specific Ubiquitin-
           Conjugating Enzyme, Ubch10
 pdb|1I7K|B Chain B, Crystal Structure Of Human Mitotic-Specific Ubiquitin-
           Conjugating Enzyme, Ubch10
          Length = 179

 Score = 29.6 bits (65), Expect = 5.8,   Method: Compositional matrix adjust.
 Identities = 21/56 (37%), Positives = 30/56 (53%), Gaps = 4/56 (7%)

Query: 551 QKWSQEWEVELAIQIMLKVIELGGTPTIGDCAVIIRAAIRAPLPSAFLKILQKTHS 606
           +KWS  ++V     I+L +  L G P I D  +   AA     P+AF K LQ+T+S
Sbjct: 120 EKWSALYDVR---TILLSIQSLLGEPNI-DSPLNTHAAELWKNPTAFKKYLQETYS 171


>pdb|2KVU|A Chain A, Solution Nmr Structure Of Sap Domain Of MklMYOCARDIN-Like
           Protein 1 From H.Sapiens, Northeast Structural Genomics
           Consortium Target Target Hr4547e
 pdb|2KW9|A Chain A, Solution Nmr Structure Of Sap Domain Of MklMYOCARDIN-Like
           P From H.Sapiens, Northeast Structural Genomics
           Consortium Ta Hr4547e
          Length = 75

 Score = 29.3 bits (64), Expect = 8.4,   Method: Compositional matrix adjust.
 Identities = 13/29 (44%), Positives = 20/29 (68%)

Query: 322 MVVSELKEELDAQGLPTDGTRNVLYQRVQ 350
           M V+ELK+EL  + LP  GT+  L +R++
Sbjct: 29  MKVAELKQELKLRSLPVSGTKTELIERLR 57


  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
   0.318    0.135    0.398 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 17,533,157
Number of Sequences: 62578
Number of extensions: 671356
Number of successful extensions: 1769
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 1761
Number of HSP's gapped (non-prelim): 10
length of query: 670
length of database: 14,973,337
effective HSP length: 105
effective length of query: 565
effective length of database: 8,402,647
effective search space: 4747495555
effective search space used: 4747495555
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 55 (25.8 bits)