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= 002432
         (922 letters)

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

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



>pdb|4FHO|A Chain A, Crystal Structure Of An Internalin C2 (Inlc2) From
           Listeria Monocytogenes Str. 4b F2365 At 1.90 A
           Resolution
 pdb|4FHO|B Chain B, Crystal Structure Of An Internalin C2 (Inlc2) From
           Listeria Monocytogenes Str. 4b F2365 At 1.90 A
           Resolution
          Length = 231

 Score = 35.0 bits (79), Expect = 0.18,   Method: Composition-based stats.
 Identities = 19/55 (34%), Positives = 35/55 (63%), Gaps = 1/55 (1%)

Query: 254 GMRELKVVDLTNMQLFSLPSSIDLLVNLQTLCLDYSTLGDITIIGKLKNLEILSL 308
           G++ +K +DLT+ Q+  + + +  L NLQ L LD + + +I+ +  L NL+ LS+
Sbjct: 111 GLQSIKTLDLTSTQITDV-TPLAGLSNLQVLYLDLNQITNISPLAGLTNLQYLSI 164


>pdb|1H6U|A Chain A, Internalin H: Crystal Structure Of Fused N-Terminal
           Domains
          Length = 308

 Score = 33.5 bits (75), Expect = 0.57,   Method: Compositional matrix adjust.
 Identities = 19/63 (30%), Positives = 38/63 (60%), Gaps = 1/63 (1%)

Query: 254 GMRELKVVDLTNMQLFSLPSSIDLLVNLQTLCLDYSTLGDITIIGKLKNLEILSLIESDI 313
           G++ +K +DLT+ Q+  + + +  L NLQ L LD + + +I+ +  L NL+ LS+  + +
Sbjct: 105 GLQSIKTLDLTSTQITDV-TPLAGLSNLQVLYLDLNQITNISPLAGLTNLQYLSIGNAQV 163

Query: 314 VEF 316
            + 
Sbjct: 164 SDL 166


>pdb|1B8P|A Chain A, Malate Dehydrogenase From Aquaspirillum Arcticum
 pdb|1B8U|A Chain A, Malate Dehydrogenase From Aquaspirillum Arcticum
 pdb|1B8V|A Chain A, Malate Dehydrogenase From Aquaspirillum Arcticum
          Length = 329

 Score = 32.3 bits (72), Expect = 1.2,   Method: Compositional matrix adjust.
 Identities = 25/112 (22%), Positives = 46/112 (41%), Gaps = 24/112 (21%)

Query: 577 PSLQRIAVIKCNKMKEIFAIGGEEPDVVDNNNAIENIEFAQIRYLSLGNLPELKSFCCEV 636
           P ++R  +++ N   +IF + G+  D V + N         I+ L +GN     ++    
Sbjct: 97  PGMERKDLLEANA--QIFTVQGKAIDAVASRN---------IKVLVVGNPANTNAYIAMK 145

Query: 637 KGPSMPPSLFNGKVVLPNLEALELCEINVKS-----------IWHNQTPCCF 677
             PS+P   F   + L +  A  L +I  K+           +W N +P  +
Sbjct: 146 SAPSLPAKNFTAMLRLDHNRA--LSQIAAKTGKPVSSIEKLFVWGNHSPTMY 195


>pdb|3E6J|A Chain A, Crystal Structure Of Variable Lymphocyte Receptor (Vlr)
           Rbc36 In Complex With H-Trisaccharide
          Length = 229

 Score = 30.8 bits (68), Expect = 3.5,   Method: Composition-based stats.
 Identities = 23/73 (31%), Positives = 41/73 (56%), Gaps = 2/73 (2%)

Query: 247 IPQRFFTGMRELKVVDLTNMQLFSLPSSI-DLLVNLQTLCLDYSTLGDITI-IGKLKNLE 304
           +P   F  + +L V+DL   QL  LPS++ D LV+L+ L +  + L ++   I +L +L 
Sbjct: 79  LPVGVFDSLTQLTVLDLGTNQLTVLPSAVFDRLVHLKELFMCCNKLTELPRGIERLTHLT 138

Query: 305 ILSLIESDIVEFP 317
            L+L ++ +   P
Sbjct: 139 HLALDQNQLKSIP 151


>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 = 29.6 bits (65), Expect = 7.4,   Method: Composition-based stats.
 Identities = 39/152 (25%), Positives = 61/152 (40%), Gaps = 24/152 (15%)

Query: 711 IRNCTGLQVIISEGGPGQEPPCFAFRRVTNISLCHLPELTCLYPGLHTSEWPELKKLEVF 770
           ++  T L  +I  G   Q  P   F ++TN+    L E              +L+ L   
Sbjct: 81  LKELTNLTYLILTGNQLQSLPNGVFDKLTNLKELVLVE-------------NQLQSLPDG 127

Query: 771 SCDKLNTFASESFSFHSNEKKQLHVPKQPFFSFEKIFPNLEELGLSIKDIMMLLQGDFPQ 830
             DKL        +   N+ + L     P   F+K+  NL EL LS   +  L +G F +
Sbjct: 128 VFDKLTNLTY--LNLAHNQLQSL-----PKGVFDKL-TNLTELDLSYNQLQSLPEGVFDK 179

Query: 831 DHLFGSLKDLEVRDDDSASVPIGLLEKFHGLE 862
                 LKDL +  +   SVP G+ ++   L+
Sbjct: 180 ---LTQLKDLRLYQNQLKSVPDGVFDRLTSLQ 208


  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    0.139    0.422 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 25,417,741
Number of Sequences: 62578
Number of extensions: 1018071
Number of successful extensions: 2612
Number of sequences better than 100.0: 14
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 14
Number of HSP's that attempted gapping in prelim test: 2600
Number of HSP's gapped (non-prelim): 39
length of query: 922
length of database: 14,973,337
effective HSP length: 108
effective length of query: 814
effective length of database: 8,214,913
effective search space: 6686939182
effective search space used: 6686939182
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: 56 (26.2 bits)