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= psy11285
         (189 letters)

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

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



>pdb|4AQS|A Chain A, Laminin Beta1 Ln-Le1-4 Structure
          Length = 525

 Score = 64.7 bits (156), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 40/99 (40%), Positives = 55/99 (55%), Gaps = 9/99 (9%)

Query: 27  DNAGCPSTCGCNKLGSTE--DACIEDTEQCKCKQGVGGLKCDRCEPGYWGLSKISSYAPD 84
           D  GC S C CN LG+    + C  +T  C CK+ V G +CD+C P +WGLS       D
Sbjct: 434 DPYGCKS-CACNPLGTIPGGNPCDSETGYCYCKRLVTGQRCDQCLPQHWGLSN------D 486

Query: 85  IDGCLKCGCSQFGSVREDCEQMTGRCVCKPGVKGSKCNE 123
           +DGC  C C   G++   C + +G+C C P + G +CNE
Sbjct: 487 LDGCRPCDCDLGGALNNSCSEDSGQCSCLPHMIGRQCNE 525



 Score = 51.2 bits (121), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 34/90 (37%), Positives = 48/90 (53%), Gaps = 9/90 (10%)

Query: 53  QCKCKQGVGGLKCDRCEPGYWGLSKISSYAPDIDGCLKCGCSQFGSVR--EDCEQMTGRC 110
           QC+CK  V G +CD C+ G++ LS     A D  GC  C C+  G++     C+  TG C
Sbjct: 408 QCRCKLHVEGERCDVCKEGFYDLS-----AEDPYGCKSCACNPLGTIPGGNPCDSETGYC 462

Query: 111 VCKPGVKGSKCNECLDPNKKLG--PNGCMP 138
            CK  V G +C++CL  +  L    +GC P
Sbjct: 463 YCKRLVTGQRCDQCLPQHWGLSNDLDGCRP 492



 Score = 26.9 bits (58), Expect = 6.3,   Method: Compositional matrix adjust.
 Identities = 18/72 (25%), Positives = 27/72 (37%), Gaps = 3/72 (4%)

Query: 53  QCKCKQGVGGLKCDRCEPGYWGLSKISSYAPDIDGCLKCGCSQFGSVREDCEQMTGRCVC 112
            C C+    GL C+ C   Y  L    +   + + C KC C++  S    C       + 
Sbjct: 280 HCMCRHNTKGLNCELCMDFYHDLPWRPAEGRNSNACKKCNCNEHSS---SCHFDMAVFLA 336

Query: 113 KPGVKGSKCNEC 124
              V G  C+ C
Sbjct: 337 TGNVSGGVCDNC 348



 Score = 26.9 bits (58), Expect = 7.1,   Method: Compositional matrix adjust.
 Identities = 20/78 (25%), Positives = 33/78 (42%), Gaps = 11/78 (14%)

Query: 56  CKQGVGGLKCDRCEPGYWGLSKISSYAPDIDGCLKCGCSQFGS---------VREDCEQM 106
           C+    G  C++C+P Y+   +     P++  C  C C   GS                +
Sbjct: 348 CQHNTMGRNCEQCKPFYFQHPERDIRDPNL--CEPCTCDPAGSENGGICDGYTDFSVGLI 405

Query: 107 TGRCVCKPGVKGSKCNEC 124
            G+C CK  V+G +C+ C
Sbjct: 406 AGQCRCKLHVEGERCDVC 423


>pdb|1KLO|A Chain A, Crystal Structure Of Three Consecutive Laminin-Type
           Epidermal Growth Factor-Like (Le) Modules Of Laminin
           Gamma1 Chain Harboring The Nidogen Binding Site
          Length = 162

 Score = 44.7 bits (104), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 27/73 (36%), Positives = 39/73 (53%), Gaps = 7/73 (9%)

Query: 55  KCKQGVGGLKCDRCEPGYWGLSKISSYAPD-IDGCLKCGCSQFGSVRED--CEQMTGRCV 111
           KC     G  CDRC+ G++G    +  AP+  D C  C C+ +G+V++   C  +TG+C 
Sbjct: 79  KCIYNTAGFYCDRCKEGFFG----NPLAPNPADKCKACACNPYGTVQQQSSCNPVTGQCQ 134

Query: 112 CKPGVKGSKCNEC 124
           C P V G  C  C
Sbjct: 135 CLPHVSGRDCGTC 147



 Score = 35.0 bits (79), Expect = 0.023,   Method: Compositional matrix adjust.
 Identities = 24/77 (31%), Positives = 35/77 (45%), Gaps = 9/77 (11%)

Query: 1   SGIYLKSCLDSWYGCCPDNKTLAQGPDNAGCPSTCGCNKLGSTED--ACIEDTEQCKCKQ 58
           +G Y   C + ++G       LA  P +      C CN  G+ +   +C   T QC+C  
Sbjct: 85  AGFYCDRCKEGFFG-----NPLAPNPADKC--KACACNPYGTVQQQSSCNPVTGQCQCLP 137

Query: 59  GVGGLKCDRCEPGYWGL 75
            V G  C  C+PGY+ L
Sbjct: 138 HVSGRDCGTCDPGYYNL 154


>pdb|1NPE|B Chain B, Crystal Structure Of Nidogen/laminin Complex
          Length = 164

 Score = 44.7 bits (104), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 27/73 (36%), Positives = 39/73 (53%), Gaps = 7/73 (9%)

Query: 55  KCKQGVGGLKCDRCEPGYWGLSKISSYAPD-IDGCLKCGCSQFGSVRED--CEQMTGRCV 111
           KC     G  CDRC+ G++G    +  AP+  D C  C C+ +G+V++   C  +TG+C 
Sbjct: 81  KCIYNTAGFYCDRCKEGFFG----NPLAPNPADKCKACACNPYGTVQQQSSCNPVTGQCQ 136

Query: 112 CKPGVKGSKCNEC 124
           C P V G  C  C
Sbjct: 137 CLPHVSGRDCGTC 149



 Score = 35.4 bits (80), Expect = 0.019,   Method: Compositional matrix adjust.
 Identities = 24/79 (30%), Positives = 35/79 (44%), Gaps = 9/79 (11%)

Query: 1   SGIYLKSCLDSWYGCCPDNKTLAQGPDNAGCPSTCGCNKLGSTED--ACIEDTEQCKCKQ 58
           +G Y   C + ++G       LA  P +      C CN  G+ +   +C   T QC+C  
Sbjct: 87  AGFYCDRCKEGFFG-----NPLAPNPADKC--KACACNPYGTVQQQSSCNPVTGQCQCLP 139

Query: 59  GVGGLKCDRCEPGYWGLSK 77
            V G  C  C+PGY+ L  
Sbjct: 140 HVSGRDCGTCDPGYYNLQS 158


>pdb|2GY5|A Chain A, Tie2 Ligand-Binding Domain Crystal Structure
 pdb|2GY7|B Chain B, Angiopoietin-2TIE2 COMPLEX CRYSTAL STRUCTURE
          Length = 423

 Score = 32.0 bits (71), Expect = 0.24,   Method: Compositional matrix adjust.
 Identities = 26/76 (34%), Positives = 38/76 (50%), Gaps = 16/76 (21%)

Query: 47  CIEDTEQCKCKQGVGGLKCDR-CEPGYWGLSKISSYAPDIDGCLKCGCSQFGSVREDCEQ 105
           C+ D   C C  G  GL+C+  C PG++G        PD    L+C C+      E C++
Sbjct: 258 CLPDPYGCSCATGWKGLQCNEACHPGFYG--------PDCK--LRCSCNN----GEMCDR 303

Query: 106 MTGRCVCKPGVKGSKC 121
             G C+C PG +G +C
Sbjct: 304 FQG-CLCSPGWQGLQC 318


>pdb|4AQT|A Chain A, Laminin Gamma1 Ln-Le1-2 Structure
          Length = 375

 Score = 28.1 bits (61), Expect = 2.8,   Method: Compositional matrix adjust.
 Identities = 24/90 (26%), Positives = 35/90 (38%), Gaps = 7/90 (7%)

Query: 50  DTEQCKCKQGVGGLKCDRCEPGYWGLSKISSYAPDIDGCLKCGC---SQFGSVREDCEQM 106
           D   C CK    G+ C++C P +       + A     CL C C   SQ      +  + 
Sbjct: 270 DKLMCNCKHNTYGVDCEKCLPFFNDRPWRRATAESASECLPCDCNGRSQECYFDPELYRS 329

Query: 107 TGR----CVCKPGVKGSKCNECLDPNKKLG 132
           TG       C+    G+KC  C +   +LG
Sbjct: 330 TGHGGHCTNCRDNTDGAKCERCRENFFRLG 359


>pdb|3PZS|A Chain A, Crystal Structure Of A Pyridoxamine Kinase From Yersinia
           Pestis Co92
 pdb|3PZS|B Chain B, Crystal Structure Of A Pyridoxamine Kinase From Yersinia
           Pestis Co92
          Length = 289

 Score = 27.3 bits (59), Expect = 5.0,   Method: Compositional matrix adjust.
 Identities = 16/51 (31%), Positives = 27/51 (52%), Gaps = 5/51 (9%)

Query: 110 CVCKPGVKGSKCNECLDPNKKLGPNGCMPGMEVKPCNGEPPVINLQTGVEL 160
           C+  PGV    CNE L  +  + PN     +E++  +GE  V N++  V++
Sbjct: 124 CIVAPGVAEFFCNEALPASDXIAPN----LLELEQLSGE-RVENVEQAVQV 169


  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
   0.319    0.139    0.488 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,480,681
Number of Sequences: 62578
Number of extensions: 276857
Number of successful extensions: 482
Number of sequences better than 100.0: 39
Number of HSP's better than 100.0 without gapping: 12
Number of HSP's successfully gapped in prelim test: 27
Number of HSP's that attempted gapping in prelim test: 424
Number of HSP's gapped (non-prelim): 69
length of query: 189
length of database: 14,973,337
effective HSP length: 93
effective length of query: 96
effective length of database: 9,153,583
effective search space: 878743968
effective search space used: 878743968
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 48 (23.1 bits)