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= psy2035
         (141 letters)

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

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



>pdb|3FBY|A Chain A, The Crystal Structure Of The Signature Domain Of Cartilage
           Oligomeric Matrix Protein.
 pdb|3FBY|B Chain B, The Crystal Structure Of The Signature Domain Of Cartilage
           Oligomeric Matrix Protein.
 pdb|3FBY|C Chain C, The Crystal Structure Of The Signature Domain Of Cartilage
           Oligomeric Matrix Protein
          Length = 551

 Score = 63.5 bits (153), Expect = 4e-11,   Method: Compositional matrix adjust.
 Identities = 30/51 (58%), Positives = 37/51 (72%)

Query: 2   DNCPKVANPNQLDNDRDGKGDECDPDLDGDGISNDEDNCRLIYNPNQDDSD 52
           DNC  V N  Q D DRDG GD CDPD DGDG+ N++DNC L+ NP+Q ++D
Sbjct: 82  DNCVTVPNSGQEDVDRDGIGDACDPDADGDGVPNEKDNCPLVRNPDQRNTD 132



 Score = 38.1 bits (87), Expect = 0.002,   Method: Compositional matrix adjust.
 Identities = 20/39 (51%), Positives = 22/39 (56%)

Query: 2   DNCPKVANPNQLDNDRDGKGDECDPDLDGDGISNDEDNC 40
           DNC  V NP Q D DRDG GD C  D D D + +  D C
Sbjct: 274 DNCRLVPNPGQEDADRDGVGDVCQDDFDADKVVDKIDVC 312



 Score = 33.5 bits (75), Expect = 0.036,   Method: Compositional matrix adjust.
 Identities = 26/53 (49%), Positives = 33/53 (62%), Gaps = 2/53 (3%)

Query: 2   DNCPKVANPNQLDNDRDGKGDECDPDLDGDGISNDE--DNCRLIYNPNQDDSD 52
           DNCP+ +NP+Q D D D  GD CD D D DG  + +  DNC  + N  Q+DSD
Sbjct: 200 DNCPQKSNPDQADVDHDFVGDACDSDQDQDGDGHQDSRDNCPTVPNSAQEDSD 252



 Score = 32.7 bits (73), Expect = 0.072,   Method: Compositional matrix adjust.
 Identities = 29/51 (56%), Positives = 36/51 (70%)

Query: 2   DNCPKVANPNQLDNDRDGKGDECDPDLDGDGISNDEDNCRLIYNPNQDDSD 52
           DNCP V N  Q D+D DG+GD CD D D DG+ +  DNCRL+ NP Q+D+D
Sbjct: 238 DNCPTVPNSAQEDSDHDGQGDACDDDDDNDGVPDSRDNCRLVPNPGQEDAD 288



 Score = 30.8 bits (68), Expect = 0.23,   Method: Compositional matrix adjust.
 Identities = 27/80 (33%), Positives = 33/80 (41%), Gaps = 23/80 (28%)

Query: 2   DNCPKVANPNQLDNDRDGKG----------------DEC-------DPDLDGDGISNDED 38
           DNC    N +Q D D+DG+G                D C         D DGDGI +  D
Sbjct: 141 DNCRSQKNDDQKDTDQDGRGDACDDDIDGDRIRNQADNCPRVPNSDQKDSDGDGIGDACD 200

Query: 39  NCRLIYNPNQDDSDAHYNAD 58
           NC    NP+Q D D  +  D
Sbjct: 201 NCPQKSNPDQADVDHDFVGD 220


>pdb|2RHP|A Chain A, The Thrombospondin-1 Polymorphism Asn700ser Associated
           With Cornoary Artery Disease Causes Local And
           Long-Ranging Changes In Protein Structure
          Length = 622

 Score = 60.5 bits (145), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 27/52 (51%), Positives = 36/52 (69%)

Query: 2   DNCPKVANPNQLDNDRDGKGDECDPDLDGDGISNDEDNCRLIYNPNQDDSDA 53
           DNCP V NP Q+D D +G+GD C  D+DGD + N+ DNC  +YN +Q D+D 
Sbjct: 227 DNCPYVHNPAQIDTDNNGEGDACSVDIDGDDVFNERDNCPYVYNTDQRDTDG 278



 Score = 50.8 bits (120), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 29/53 (54%), Positives = 34/53 (64%), Gaps = 2/53 (3%)

Query: 2   DNCPKVANPNQLDNDRDGKGDECD--PDLDGDGISNDEDNCRLIYNPNQDDSD 52
           DNCP V NP+Q D D D  GD+CD   D+D DG  N++DNC  I N NQ D D
Sbjct: 286 DNCPLVHNPDQTDVDNDLVGDQCDNNEDIDDDGHQNNQDNCPYISNANQADHD 338



 Score = 49.7 bits (117), Expect = 6e-07,   Method: Compositional matrix adjust.
 Identities = 33/58 (56%), Positives = 44/58 (75%)

Query: 2   DNCPKVANPNQLDNDRDGKGDECDPDLDGDGISNDEDNCRLIYNPNQDDSDAHYNADL 59
           DNCP ++N NQ D+DRDG+GD CDPD D DG+ +D DNCRL++NP+Q+D D     D+
Sbjct: 324 DNCPYISNANQADHDRDGQGDACDPDDDNDGVPDDRDNCRLVFNPDQEDLDGDGRGDI 381



 Score = 30.8 bits (68), Expect = 0.29,   Method: Compositional matrix adjust.
 Identities = 27/51 (52%), Positives = 37/51 (72%)

Query: 2   DNCPKVANPNQLDNDRDGKGDECDPDLDGDGISNDEDNCRLIYNPNQDDSD 52
           DNCP + N  Q D D+DG GD CD D D DG+++++DNC+L++NP Q D D
Sbjct: 168 DNCPHLPNSGQEDFDKDGIGDACDDDDDNDGVTDEKDNCQLLFNPRQADYD 218



 Score = 30.0 bits (66), Expect = 0.50,   Method: Compositional matrix adjust.
 Identities = 15/27 (55%), Positives = 17/27 (62%)

Query: 2   DNCPKVANPNQLDNDRDGKGDECDPDL 28
           DNC  V NP+Q D D DG+GD C  D 
Sbjct: 360 DNCRLVFNPDQEDLDGDGRGDICKDDF 386


>pdb|1YO8|A Chain A, Structure Of The C-Terminal Domain Of Human
           Thrombospondin-2
          Length = 634

 Score = 60.1 bits (144), Expect = 4e-10,   Method: Compositional matrix adjust.
 Identities = 27/52 (51%), Positives = 36/52 (69%)

Query: 2   DNCPKVANPNQLDNDRDGKGDECDPDLDGDGISNDEDNCRLIYNPNQDDSDA 53
           DNCP V NP Q+D D +G+GD C  D+DGD + N+ DNC  +YN +Q D+D 
Sbjct: 230 DNCPYVHNPAQIDTDNNGEGDACSVDIDGDDVFNERDNCPYVYNTDQRDTDG 281



 Score = 50.4 bits (119), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 29/53 (54%), Positives = 34/53 (64%), Gaps = 2/53 (3%)

Query: 2   DNCPKVANPNQLDNDRDGKGDECD--PDLDGDGISNDEDNCRLIYNPNQDDSD 52
           DNCP V NP+Q D D D  GD+CD   D+D DG  N++DNC  I N NQ D D
Sbjct: 289 DNCPLVHNPDQTDVDNDLVGDQCDNNEDIDDDGHQNNQDNCPYISNANQADHD 341



 Score = 49.3 bits (116), Expect = 7e-07,   Method: Compositional matrix adjust.
 Identities = 33/58 (56%), Positives = 44/58 (75%)

Query: 2   DNCPKVANPNQLDNDRDGKGDECDPDLDGDGISNDEDNCRLIYNPNQDDSDAHYNADL 59
           DNCP ++N NQ D+DRDG+GD CDPD D DG+ +D DNCRL++NP+Q+D D     D+
Sbjct: 327 DNCPYISNANQADHDRDGQGDACDPDDDNDGVPDDRDNCRLVFNPDQEDLDGDGRGDI 384



 Score = 30.4 bits (67), Expect = 0.34,   Method: Compositional matrix adjust.
 Identities = 27/51 (52%), Positives = 37/51 (72%)

Query: 2   DNCPKVANPNQLDNDRDGKGDECDPDLDGDGISNDEDNCRLIYNPNQDDSD 52
           DNCP + N  Q D D+DG GD CD D D DG+++++DNC+L++NP Q D D
Sbjct: 171 DNCPHLPNSGQEDFDKDGIGDACDDDDDNDGVTDEKDNCQLLFNPRQADYD 221



 Score = 29.6 bits (65), Expect = 0.60,   Method: Compositional matrix adjust.
 Identities = 15/27 (55%), Positives = 17/27 (62%)

Query: 2   DNCPKVANPNQLDNDRDGKGDECDPDL 28
           DNC  V NP+Q D D DG+GD C  D 
Sbjct: 363 DNCRLVFNPDQEDLDGDGRGDICKDDF 389


>pdb|1UX6|A Chain A, Structure Of A Thrombospondin C-Terminal Fragment Reveals
           A Novel Calcium Core In The Type 3 Repeats
          Length = 350

 Score = 50.8 bits (120), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 34/53 (64%), Positives = 41/53 (77%)

Query: 1   MDNCPKVANPNQLDNDRDGKGDECDPDLDGDGISNDEDNCRLIYNPNQDDSDA 53
           +DNCP V N NQ D+D+DGKGD CD D D DGI +D+DNCRL+ NP+Q DSD 
Sbjct: 51  LDNCPYVPNANQADHDKDGKGDACDHDDDNDGIPDDKDNCRLVPNPDQKDSDG 103



 Score = 49.3 bits (116), Expect = 8e-07,   Method: Compositional matrix adjust.
 Identities = 28/53 (52%), Positives = 33/53 (62%), Gaps = 2/53 (3%)

Query: 2  DNCPKVANPNQLDNDRDGKGDECD--PDLDGDGISNDEDNCRLIYNPNQDDSD 52
          DNCP   NP+QLD+D D  GD CD   D+D DG  N+ DNC  + N NQ D D
Sbjct: 14 DNCPLEHNPDQLDSDSDRIGDTCDNNQDIDEDGHQNNLDNCPYVPNANQADHD 66



 Score = 40.8 bits (94), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 19/39 (48%), Positives = 25/39 (64%)

Query: 2   DNCPKVANPNQLDNDRDGKGDECDPDLDGDGISNDEDNC 40
           DNC  V NP+Q D+D DG+GD C  D D D + + +D C
Sbjct: 88  DNCRLVPNPDQKDSDGDGRGDACKDDFDHDSVPDIDDIC 126


>pdb|2XHY|A Chain A, Crystal Structure Of E.Coli Bgla
 pdb|2XHY|B Chain B, Crystal Structure Of E.Coli Bgla
 pdb|2XHY|C Chain C, Crystal Structure Of E.Coli Bgla
 pdb|2XHY|D Chain D, Crystal Structure Of E.Coli Bgla
          Length = 479

 Score = 26.2 bits (56), Expect = 6.9,   Method: Composition-based stats.
 Identities = 15/49 (30%), Positives = 25/49 (51%)

Query: 20  KGDECDPDLDGDGISNDEDNCRLIYNPNQDDSDAHYNADLILMRQVMAW 68
           KGDE  P+ +G    +D  +  L YN     + +H+   L L++Q  +W
Sbjct: 100 KGDEAQPNEEGLKFYDDMFDELLKYNIEPVITLSHFEMPLHLVQQYGSW 148


>pdb|2XMO|A Chain A, The Crystal Structure Of Lmo2642
 pdb|2XMO|B Chain B, The Crystal Structure Of Lmo2642
          Length = 443

 Score = 26.2 bits (56), Expect = 7.2,   Method: Compositional matrix adjust.
 Identities = 16/46 (34%), Positives = 22/46 (47%), Gaps = 4/46 (8%)

Query: 92  LSSTELTSGFMAGFSHSYWTQAQRNKKDTCQTEESSQQGNETTESG 137
           +SS E +  ++A  S   W        DT   + + QQGN TTE G
Sbjct: 174 ISSDEFSLSYLAAPSSKVWLLML----DTAIYKTNMQQGNPTTEGG 215


  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
   0.312    0.127    0.380 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,430,671
Number of Sequences: 62578
Number of extensions: 170277
Number of successful extensions: 267
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 226
Number of HSP's gapped (non-prelim): 33
length of query: 141
length of database: 14,973,337
effective HSP length: 89
effective length of query: 52
effective length of database: 9,403,895
effective search space: 489002540
effective search space used: 489002540
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 46 (22.3 bits)