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= 016751
         (383 letters)

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

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



>pdb|1FQV|A Chain A, Insights Into Scf Ubiquitin Ligases From The Structure Of
           The Skp1-Skp2 Complex
 pdb|1FQV|C Chain C, Insights Into Scf Ubiquitin Ligases From The Structure Of
           The Skp1-Skp2 Complex
 pdb|1FQV|E Chain E, Insights Into Scf Ubiquitin Ligases From The Structure Of
           The Skp1-Skp2 Complex
 pdb|1FQV|G Chain G, Insights Into Scf Ubiquitin Ligases From The Structure Of
           The Skp1-Skp2 Complex
 pdb|1FQV|I Chain I, Insights Into Scf Ubiquitin Ligases From The Structure Of
           The Skp1-Skp2 Complex
 pdb|1FQV|K Chain K, Insights Into Scf Ubiquitin Ligases From The Structure Of
           The Skp1-Skp2 Complex
 pdb|1FQV|M Chain M, Insights Into Scf Ubiquitin Ligases From The Structure Of
           The Skp1-Skp2 Complex
 pdb|1FQV|O Chain O, Insights Into Scf Ubiquitin Ligases From The Structure Of
           The Skp1-Skp2 Complex
 pdb|2ASS|B Chain B, Crystal Structure Of The Skp1-Skp2-Cks1 Complex
 pdb|2AST|B Chain B, Crystal Structure Of Skp1-Skp2-Cks1 In Complex With A P27
           Peptide
          Length = 336

 Score = 34.3 bits (77), Expect = 0.12,   Method: Compositional matrix adjust.
 Identities = 32/125 (25%), Positives = 61/125 (48%), Gaps = 9/125 (7%)

Query: 26  LPEDVMIDIFLRLEVKNLARLRCVCKSWNTLLTSKTFVEIHLNQSMRNPRPLLFRHGISP 85
           LP+++++ IF  L +  L ++  VCK W  L + ++  +  L+ + +N  P +    +S 
Sbjct: 12  LPDELLLGIFSCLCLPELLKVSGVCKRWYRLASDESLWQT-LDLTGKNLHPDVTGRLLSQ 70

Query: 86  SYLGFYSTKCKEFEDLCD--PPFRTQLADLD----VVGSCNGVLCFCSNGSDRSL--IYL 137
             + F   +    + L +   PFR Q  DL      V + +G+L  CS   + SL  + L
Sbjct: 71  GVIAFRCPRSFMDQPLAEHFSPFRVQHMDLSNSVIEVSTLHGILSQCSKLQNLSLEGLRL 130

Query: 138 WNPLI 142
            +P++
Sbjct: 131 SDPIV 135


>pdb|3APR|E Chain E, Binding Of A Reduced Peptide Inhibitor To The Aspartic
           Proteinase From Rhizopus Chinensis. Implications For A
           Mechanism Of Action
 pdb|4APR|E Chain E, Structures Of Complexes Of Rhizopuspepsin With Pepstatin
           And Other Statine-Containing Inhibitors
 pdb|5APR|E Chain E, Structures Of Complexes Of Rhizopuspepsin With Pepstatin
           And Other Statine-Containing Inhibitors
 pdb|6APR|E Chain E, Structures Of Complexes Of Rhizopuspepsin With Pepstatin
           And Other Statine-Containing Inhibitors
 pdb|2APR|A Chain A, Structure And Refinement At 1.8 Angstroms Resolution Of
           The Aspartic Proteinase From Rhizopus Chinensis
          Length = 325

 Score = 31.6 bits (70), Expect = 0.87,   Method: Compositional matrix adjust.
 Identities = 35/130 (26%), Positives = 48/130 (36%), Gaps = 27/130 (20%)

Query: 232 DNSCPWLIVSFDFAKEIFQTVMMPYDLSTDDADKYLNVFDGYLCVFATIPNNTFRSYELW 291
           DNS  W  ++ D A     TV   +D   D     L            +PNN   S    
Sbjct: 189 DNSRGWWGITVDRATVGTSTVASSFDGILDTGTTLL-----------ILPNNIAAS---- 233

Query: 292 VMKEYGLTESWTKLYTIEKPQRIWWPLGFTERGKIF-----------IRGECRHG-GYGL 339
           V + YG +++    YTI      + PL F+  G  F            +G+C  G GYG 
Sbjct: 234 VARAYGASDNGDGTYTISCDTSAFKPLVFSINGASFQVSPDSLVFEEFQGQCIAGFGYGN 293

Query: 340 LVYNPHSDTF 349
             +    DTF
Sbjct: 294 WGFAIIGDTF 303


>pdb|1UH7|A Chain A, Crystal Structure Of Rhizopuspepsin At Ph 4.6
 pdb|1UH8|A Chain A, Crystal Structure Of Rhizopuspepsin At Ph 8.0
 pdb|1UH9|A Chain A, Crystal Structure Of Rhizopuspepsin At Ph 7.0
          Length = 325

 Score = 30.0 bits (66), Expect = 2.1,   Method: Compositional matrix adjust.
 Identities = 35/130 (26%), Positives = 48/130 (36%), Gaps = 27/130 (20%)

Query: 232 DNSCPWLIVSFDFAKEIFQTVMMPYDLSTDDADKYLNVFDGYLCVFATIPNNTFRSYELW 291
           DNS  W  ++ D A     TV   +D   D     L            +PNN   S    
Sbjct: 189 DNSRGWWGITVDRATVGTSTVASSFDGILDTGTTLL-----------ILPNNIAAS---- 233

Query: 292 VMKEYGLTESWTKLYTIEKPQRIWWPLGFTERGKIF-----------IRGECRHG-GYGL 339
           V + YG +++    YTI      + PL F+  G  F            +G+C  G GYG 
Sbjct: 234 VARAYGASDNGDGTYTISCDTSRFKPLVFSINGASFQVSPDSLVFEEFQGQCIAGFGYGN 293

Query: 340 LVYNPHSDTF 349
             +    DTF
Sbjct: 294 WDFAIIGDTF 303


  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    0.140    0.455 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,204,262
Number of Sequences: 62578
Number of extensions: 533367
Number of successful extensions: 1302
Number of sequences better than 100.0: 4
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 1302
Number of HSP's gapped (non-prelim): 4
length of query: 383
length of database: 14,973,337
effective HSP length: 101
effective length of query: 282
effective length of database: 8,652,959
effective search space: 2440134438
effective search space used: 2440134438
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: 52 (24.6 bits)