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= 007656
         (594 letters)

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

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



>pdb|3RFS|A Chain A, Design Of A Binding Scaffold Based On Variable Lymphocyte
           Receptors Of Jawless Vertebrates By Module Engineering
 pdb|3RFS|B Chain B, Design Of A Binding Scaffold Based On Variable Lymphocyte
           Receptors Of Jawless Vertebrates By Module Engineering
          Length = 272

 Score = 32.7 bits (73), Expect = 0.62,   Method: Compositional matrix adjust.
 Identities = 24/101 (23%), Positives = 44/101 (43%), Gaps = 2/101 (1%)

Query: 231 NSLQRITDGFFQLMPSLKVLKMSNCWNFTLKLPLAMSELGSSLELLDISYASITELPEEX 290
           N LQ + DG F  + +L  L +++  N    LP  + +  ++L  LD+SY  +  LPE  
Sbjct: 119 NQLQSLPDGVFDKLTNLTYLNLAH--NQLQSLPKGVFDKLTNLTELDLSYNQLQSLPEGV 176

Query: 291 XXXXXXXXXXXRWTDTLNKIPRQLISILSWLRVLRMLGTGW 331
                       + + L  +P  +   L+ L+ + +    W
Sbjct: 177 FDKLTQLKDLRLYQNQLKSVPDGVFDRLTSLQYIWLHDNPW 217


>pdb|3OJA|B Chain B, Crystal Structure Of Lrim1APL1C COMPLEX
          Length = 597

 Score = 32.3 bits (72), Expect = 0.83,   Method: Compositional matrix adjust.
 Identities = 25/82 (30%), Positives = 40/82 (48%), Gaps = 22/82 (26%)

Query: 218 TCPHLHTLFLASNNSLQRITDGFFQLMPSLKVLKMSN-------------------CWNF 258
             P L TL + SNN+L+RI D  FQ   SL+ L++S+                    +N 
Sbjct: 145 NTPKLTTLSM-SNNNLERIEDDTFQATTSLQNLQLSSNRLTHVDLSLIPSLFHANVSYNL 203

Query: 259 --TLKLPLAMSELGSSLELLDI 278
             TL +P+A+ EL +S   +++
Sbjct: 204 LSTLAIPIAVEELDASHNSINV 225


>pdb|3O6N|A Chain A, Crystal Structure Of Apl1 Leucine-Rich Repeat Domain
          Length = 390

 Score = 30.0 bits (66), Expect = 3.5,   Method: Compositional matrix adjust.
 Identities = 25/76 (32%), Positives = 37/76 (48%), Gaps = 22/76 (28%)

Query: 218 TCPHLHTLFLASNNSLQRITDGFFQLMPSLKVLKMSN-------------------CWNF 258
             P L TL + SNN+L+RI D  FQ   SL+ L++S+                    +N 
Sbjct: 139 NTPKLTTLSM-SNNNLERIEDDTFQATTSLQNLQLSSNRLTHVDLSLIPSLFHANVSYNL 197

Query: 259 --TLKLPLAMSELGSS 272
             TL +P+A+ EL +S
Sbjct: 198 LSTLAIPIAVEELDAS 213


>pdb|1BY1|A Chain A, Dbl Homology Domain From Beta-Pix
          Length = 209

 Score = 29.6 bits (65), Expect = 5.3,   Method: Compositional matrix adjust.
 Identities = 21/73 (28%), Positives = 34/73 (46%), Gaps = 17/73 (23%)

Query: 443 FRSLHCVRIEQCHKLKDVT------FLIFAPNLKSLDLSYCSSMEEVISV--------GK 488
           F+ +    +E+C KL +        FL   P +K+L L+YC++    ++V        G+
Sbjct: 67  FQQMLVQSLEECTKLPEAQQRVGGCFLNLMPQMKTLYLTYCANHPSAVNVLTEHSEELGE 126

Query: 489 FAETPEMMGHISP 501
           F ET    G  SP
Sbjct: 127 FMETK---GASSP 136


>pdb|4DB3|A Chain A, 1.95 Angstrom Resolution Crystal Structure Of
           N-Acetyl-D-Glucosamine Kinase From Vibrio Vulnificus
          Length = 327

 Score = 28.9 bits (63), Expect = 9.6,   Method: Compositional matrix adjust.
 Identities = 16/47 (34%), Positives = 21/47 (44%)

Query: 127 TLIAEGVFEAVATEVVPERAPEPVADKRPIEPTIVGLQSQLEQVWRC 173
           T I  G F      V  ER P P  D   +  TI GL ++ +Q + C
Sbjct: 34  TKIEFGAFNEKLERVATERVPTPTDDYPLLLETIAGLVAKYDQEFAC 80


  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
   0.322    0.137    0.419 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 16,057,460
Number of Sequences: 62578
Number of extensions: 605869
Number of successful extensions: 1281
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 1271
Number of HSP's gapped (non-prelim): 13
length of query: 594
length of database: 14,973,337
effective HSP length: 104
effective length of query: 490
effective length of database: 8,465,225
effective search space: 4147960250
effective search space used: 4147960250
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 54 (25.4 bits)