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= psy14466
         (231 letters)

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

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



>pdb|4HFS|A Chain A, Crystal Structure Of An Uncharacterized Protein (Yncm)
           From Bacillus Subtilis Subsp. Subtilis Str. 168 At 1.55
           A Resolution
 pdb|4HFS|B Chain B, Crystal Structure Of An Uncharacterized Protein (Yncm)
           From Bacillus Subtilis Subsp. Subtilis Str. 168 At 1.55
           A Resolution
          Length = 212

 Score = 30.4 bits (67), Expect = 0.79,   Method: Compositional matrix adjust.
 Identities = 19/47 (40%), Positives = 25/47 (53%), Gaps = 3/47 (6%)

Query: 156 LSAAIHLNLTSAVHAALLLLPEHFSEYDLLSTITNLSYSGDFRMTFG 202
           +   ++LN T AV  A ++LPE     D +ST     YSG FR T G
Sbjct: 17  IGGRVYLNSTGAVFTAKIVLPETVKNNDSVSTP--YIYSG-FRATSG 60


>pdb|2O1S|A Chain A, 1-Deoxy-D-Xylulose 5-Phosphate Synthase (Dxs) From
           Escherichia Coli
 pdb|2O1S|B Chain B, 1-Deoxy-D-Xylulose 5-Phosphate Synthase (Dxs) From
           Escherichia Coli
 pdb|2O1S|C Chain C, 1-Deoxy-D-Xylulose 5-Phosphate Synthase (Dxs) From
           Escherichia Coli
 pdb|2O1S|D Chain D, 1-Deoxy-D-Xylulose 5-Phosphate Synthase (Dxs) From
           Escherichia Coli
          Length = 621

 Score = 28.1 bits (61), Expect = 4.8,   Method: Compositional matrix adjust.
 Identities = 36/141 (25%), Positives = 59/141 (41%), Gaps = 38/141 (26%)

Query: 55  DIILVVNDSEKFHSENLIRNNNH---------YSFLKYFGPGV----------LKKVQEN 95
           D ++++ND+E   SEN+   NNH         YS L+  G  V          LK+ +E+
Sbjct: 173 DXLVILNDNEXSISENVGALNNHLAQLLSGKLYSSLREGGKKVFSGVPPIKELLKRTEEH 232

Query: 96  YGS---------KMYFNTHIPMDDLNVTLKYGIINRQHFLSDLLDWQHLYVA---GRLHK 143
                       ++ FN   P+D  +V    G+I       DL   Q L++    GR ++
Sbjct: 233 IKGXVVPGTLFEELGFNYIGPVDGHDV---LGLITTLKNXRDLKGPQFLHIXTKKGRGYE 289

Query: 144 PV----FTFHKLTNYELSAAI 160
           P      TFH +  ++ S+  
Sbjct: 290 PAEKDPITFHAVPKFDPSSGC 310


>pdb|3D54|D Chain D, Stucture Of Purlqs From Thermotoga Maritima
 pdb|3D54|H Chain H, Stucture Of Purlqs From Thermotoga Maritima
 pdb|3D54|L Chain L, Stucture Of Purlqs From Thermotoga Maritima
          Length = 213

 Score = 27.7 bits (60), Expect = 5.6,   Method: Compositional matrix adjust.
 Identities = 20/62 (32%), Positives = 31/62 (50%), Gaps = 6/62 (9%)

Query: 58  LVVNDSEKFHSE--NLIRNNNHYSFLKYFGPGVLKKVQENYGSKMYFNTHIPMDDLNVTL 115
           L+ N S KF  +  +LI  NN   F   F  G   ++   +G    F  ++ +DD+NV L
Sbjct: 102 LLQNSSGKFICKWVDLIVENNDTPFTNAFEKGEKIRIPIAHG----FGRYVKIDDVNVVL 157

Query: 116 KY 117
           +Y
Sbjct: 158 RY 159


>pdb|2CB3|A Chain A, Crystal Structure Of Peptidoglycan Recognition
          Protein-Le In Complex With Tracheal Cytotoxin
          (Monomeric Diaminopimelic Acid-Type Peptidoglycan)
 pdb|2CB3|B Chain B, Crystal Structure Of Peptidoglycan Recognition
          Protein-Le In Complex With Tracheal Cytotoxin
          (Monomeric Diaminopimelic Acid-Type Peptidoglycan)
 pdb|2CB3|C Chain C, Crystal Structure Of Peptidoglycan Recognition
          Protein-Le In Complex With Tracheal Cytotoxin
          (Monomeric Diaminopimelic Acid-Type Peptidoglycan)
 pdb|2CB3|D Chain D, Crystal Structure Of Peptidoglycan Recognition
          Protein-Le In Complex With Tracheal Cytotoxin
          (Monomeric Diaminopimelic Acid-Type Peptidoglycan)
          Length = 175

 Score = 27.7 bits (60), Expect = 5.8,   Method: Compositional matrix adjust.
 Identities = 18/57 (31%), Positives = 29/57 (50%), Gaps = 9/57 (15%)

Query: 25 QFPTEYVVHAFGYGSGVFQQANKSSIKSMVDIILVVNDSEKFHSENLIRNNNHYSFL 81
          Q P +YVV        +   A +SS K  +++ L+  D + FH E+   N+  Y+FL
Sbjct: 26 QLPVKYVV--------ILHTATESSEKRAINVRLI-RDMQSFHIESRGWNDIAYNFL 73


>pdb|2EVX|A Chain A, Crystal Structure Of Pumpkin Seed Globulin
 pdb|2E9Q|A Chain A, Recombinant Pro-11s Globulin Of Pumpkin
          Length = 459

 Score = 27.7 bits (60), Expect = 5.9,   Method: Compositional matrix adjust.
 Identities = 17/62 (27%), Positives = 30/62 (48%), Gaps = 6/62 (9%)

Query: 169 HAALLLLPEHFSEYDLLSTITNLSYSGDFRMTFGENKNKIDNIVQGQLEQFRLLYSPILD 228
              +L++P++F        I   S  G   + F  N N I N++ G++ Q R+L   +L 
Sbjct: 373 EGQVLMIPQNFV------VIKRASDRGFEWIAFKTNDNAITNLLAGRVSQMRMLPLGVLS 426

Query: 229 NI 230
           N+
Sbjct: 427 NM 428


  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    0.400 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,894,903
Number of Sequences: 62578
Number of extensions: 284058
Number of successful extensions: 574
Number of sequences better than 100.0: 18
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 12
Number of HSP's that attempted gapping in prelim test: 568
Number of HSP's gapped (non-prelim): 18
length of query: 231
length of database: 14,973,337
effective HSP length: 96
effective length of query: 135
effective length of database: 8,965,849
effective search space: 1210389615
effective search space used: 1210389615
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: 50 (23.9 bits)