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= psy9625
         (394 letters)

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

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



>pdb|1R0D|A Chain A, Hip1r Thatch Domain Core
 pdb|1R0D|B Chain B, Hip1r Thatch Domain Core
 pdb|1R0D|D Chain D, Hip1r Thatch Domain Core
 pdb|1R0D|E Chain E, Hip1r Thatch Domain Core
 pdb|1R0D|F Chain F, Hip1r Thatch Domain Core
 pdb|1R0D|G Chain G, Hip1r Thatch Domain Core
 pdb|1R0D|H Chain H, Hip1r Thatch Domain Core
 pdb|1R0D|I Chain I, Hip1r Thatch Domain Core
          Length = 206

 Score =  135 bits (339), Expect = 5e-32,   Method: Compositional matrix adjust.
 Identities = 85/173 (49%), Positives = 110/173 (63%), Gaps = 25/173 (14%)

Query: 3   TQSRRADTGVKLEVNEKILDSCTTLMKAIRILVQKSPDDLDIASLSLHQARRLEMEAQAE 62
            Q+R A +GVKLEVNE+IL+SCT L KAIR+LV          S SL          Q E
Sbjct: 41  NQARHASSGVKLEVNERILNSCTDLXKAIRLLV--------TTSTSL----------QKE 82

Query: 63  IIMAHHGSASNTREFYKRNHQWTEGLISAAKAVAMSAKYLLTAADQVV--SGGEGAKLER 120
           I+ +  G+A+  +EFY +N +WTEGLISA+KAV   A  L+ AAD+VV  +G    K E 
Sbjct: 83  IVESGRGAATQ-QEFYAKNSRWTEGLISASKAVGWGATQLVEAADKVVLHTG----KYEE 137

Query: 121 LIVASHGVAASTAQLVVASRVKAERNSVHLAALSQASRDVTNATGSVVATAKT 173
           LIV SH +AASTAQLV AS+VKA ++S HL+ L + SR V     +VVA+ K+
Sbjct: 138 LIVCSHEIAASTAQLVAASKVKANKHSPHLSRLQECSRTVNERAANVVASTKS 190



 Score = 99.8 bits (247), Expect = 3e-21,   Method: Compositional matrix adjust.
 Identities = 62/131 (47%), Positives = 84/131 (64%), Gaps = 8/131 (6%)

Query: 179 EIIMAHHGSASNTREFYKRNHQWTEGLISAAKAVAMSAKYLLTAADQVV--SGGEGAKLE 236
           EI+ +  G+A+  +EFY +N +WTEGLISA+KAV   A  L+ AAD+VV  +G    K E
Sbjct: 82  EIVESGRGAATQ-QEFYAKNSRWTEGLISASKAVGWGATQLVEAADKVVLHTG----KYE 136

Query: 237 RLIVASHGVAASTAQLVVASRVKAERNSVHLAALSQASRDVTNATGSVVATAKTCIHLVD 296
            LIV SH +AASTAQLV AS+VKA ++S HL+ L + SR V     +VVA+ K+    + 
Sbjct: 137 ELIVCSHEIAASTAQLVAASKVKANKHSPHLSRLQECSRTVNERAANVVASTKSGQEQI- 195

Query: 297 ESADDLDIASL 307
           E  D  D + L
Sbjct: 196 EDRDTXDFSGL 206


>pdb|2JSW|A Chain A, Nmr Structure Of The Talin C-Terminal Actin Binding Site
          Length = 189

 Score = 60.1 bits (144), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 40/99 (40%), Positives = 59/99 (59%), Gaps = 2/99 (2%)

Query: 198 NHQWTEGLISAAKAVAMSAKYLLTAADQVVSGGEGAKLERLIVASHGVAASTAQLVVASR 257
           + QW++GLISAA+ VA +   L  AA+  V G   A  E+LI ++  VAASTAQL+VA +
Sbjct: 93  DGQWSQGLISAARMVAAATNNLCEAANAAVQGH--ASQEKLISSAKQVAASTAQLLVACK 150

Query: 258 VKAERNSVHLAALSQASRDVTNATGSVVATAKTCIHLVD 296
           VKA+++S  +  L  A   V  A+ ++V  A+      D
Sbjct: 151 VKADQDSEAMKRLQAAGNAVKRASDNLVKAAQKAAAFED 189



 Score = 59.3 bits (142), Expect = 4e-09,   Method: Compositional matrix adjust.
 Identities = 39/92 (42%), Positives = 58/92 (63%), Gaps = 2/92 (2%)

Query: 81  NHQWTEGLISAAKAVAMSAKYLLTAADQVVSGGEGAKLERLIVASHGVAASTAQLVVASR 140
           + QW++GLISAA+ VA +   L  AA+  V G   A  E+LI ++  VAASTAQL+VA +
Sbjct: 93  DGQWSQGLISAARMVAAATNNLCEAANAAVQGH--ASQEKLISSAKQVAASTAQLLVACK 150

Query: 141 VKAERNSVHLAALSQASRDVTNATGSVVATAK 172
           VKA+++S  +  L  A   V  A+ ++V  A+
Sbjct: 151 VKADQDSEAMKRLQAAGNAVKRASDNLVKAAQ 182


>pdb|3PGE|A Chain A, Structure Of Sumoylated Pcna
          Length = 200

 Score = 32.0 bits (71), Expect = 0.58,   Method: Compositional matrix adjust.
 Identities = 27/92 (29%), Positives = 41/92 (44%), Gaps = 7/92 (7%)

Query: 19  KILDSCTTLMKAIRILVQKSPDDLDIASLSLHQARRLEMEAQAEIIM----AHHGSASN- 73
           K +DS   L   IRI   ++P+DLD+    + +A R ++    E I        GS S  
Sbjct: 64  KEMDSLRFLYDGIRIQADQTPEDLDMEDNDIIEAHREQIGGGGETIKFVADGDIGSGSVI 123

Query: 74  TREFYKRNHQWTEGLISAAKAVAMS--AKYLL 103
            + F    H  T   +   + V ++  AKYLL
Sbjct: 124 IKPFVDMEHPETSIKLEMDQPVDLTFGAKYLL 155


  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
   0.317    0.126    0.340 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,290,765
Number of Sequences: 62578
Number of extensions: 298899
Number of successful extensions: 841
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 829
Number of HSP's gapped (non-prelim): 15
length of query: 394
length of database: 14,973,337
effective HSP length: 101
effective length of query: 293
effective length of database: 8,652,959
effective search space: 2535316987
effective search space used: 2535316987
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: 52 (24.6 bits)