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= 023003
         (289 letters)

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

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



>pdb|3MV7|D Chain D, Crystal Structure Of The Tk3 Tcr In Complex With
           Hla-B3501HPVG
 pdb|3MV8|D Chain D, Crystal Structure Of The Tk3-Gln55his Tcr In Complex With
           Hla- B3501HPVG
 pdb|3MV9|D Chain D, Crystal Structure Of The Tk3-Gln55ala Tcr In Complex With
           Hla- B3501HPVG
          Length = 200

 Score = 30.8 bits (68), Expect = 0.98,   Method: Compositional matrix adjust.
 Identities = 14/38 (36%), Positives = 23/38 (60%), Gaps = 2/38 (5%)

Query: 174 SHIDVEHIVSNMIGLYFFGMSIGRTLGPEYLLKLYMAG 211
           S ++  + VS + GL+++    G+  GPE+L  LY AG
Sbjct: 17  SSLNCSYTVSGLRGLFWYRQDPGK--GPEFLFTLYSAG 52


>pdb|4EI8|A Chain A, Crystal Structure Of Bacillus Cereus Tubz, Apo-Form
          Length = 389

 Score = 28.5 bits (62), Expect = 5.1,   Method: Compositional matrix adjust.
 Identities = 15/63 (23%), Positives = 34/63 (53%), Gaps = 4/63 (6%)

Query: 116 SWLRQYGSSEVVYG--LIIANTAVFMLWRIADPKFMANNFTISLDNFLSGRLH--TLITS 171
           S +R    ++  +G  ++I N  ++  +   +P  +AN +T   + +++  LH   L+TS
Sbjct: 165 SRIRSIAXNQEAFGSIVLIDNAKLYRKFEEENPSALANEYTSYSNKYIADALHEINLVTS 224

Query: 172 AFS 174
           +F+
Sbjct: 225 SFT 227


>pdb|2NR9|A Chain A, Crystal Structure Of Glpg, Rhomboid Peptidase From
           Haemophilus Influenzae
 pdb|3ODJ|A Chain A, Crystal Structure Of H. Influenzae Rhomboid Glpg With
           Disordered Loop 4, Helix 5 And Loop 5
          Length = 196

 Score = 27.7 bits (60), Expect = 8.2,   Method: Compositional matrix adjust.
 Identities = 20/50 (40%), Positives = 26/50 (52%), Gaps = 1/50 (2%)

Query: 169 ITSAFSHIDVEHIVSNMIGLYFFGMSIGRTLGPEYLLKLY-MAGAIGGSV 217
           I+    H+   HI+ N+   + FG  I RT G   LL LY +A AI G V
Sbjct: 54  ISHTLVHLSNLHILFNLSWFFIFGGMIERTFGSVKLLMLYVVASAITGYV 103


>pdb|4EI7|A Chain A, Crystal Structure Of Bacillus Cereus Tubz, Gdp-Form
 pdb|4EI7|B Chain B, Crystal Structure Of Bacillus Cereus Tubz, Gdp-Form
 pdb|4EI9|A Chain A, Crystal Structure Of Bacillus Cereus Tubz, Gtp-Form
 pdb|4EI9|B Chain B, Crystal Structure Of Bacillus Cereus Tubz, Gtp-Form
          Length = 389

 Score = 27.7 bits (60), Expect = 8.5,   Method: Compositional matrix adjust.
 Identities = 15/63 (23%), Positives = 34/63 (53%), Gaps = 4/63 (6%)

Query: 116 SWLRQYGSSEVVYG--LIIANTAVFMLWRIADPKFMANNFTISLDNFLSGRLH--TLITS 171
           S +R    ++  +G  ++I N  ++  +   +P  +AN +T   + +++  LH   L+TS
Sbjct: 165 SRIRSIAMNQEAFGSIVLIDNAKLYRKFEEENPSALANEYTSYSNKYIADALHEINLVTS 224

Query: 172 AFS 174
           +F+
Sbjct: 225 SFT 227


>pdb|3C02|A Chain A, X-Ray Structure Of The Aquaglyceroporin From Plasmodium
           Falciparum
          Length = 258

 Score = 27.3 bits (59), Expect = 8.9,   Method: Compositional matrix adjust.
 Identities = 14/46 (30%), Positives = 22/46 (47%), Gaps = 2/46 (4%)

Query: 201 PEYLLKLYMAGAIGGSVFYLVYHAFLAMSSKRQGMWVVDPSRTPAL 246
           P Y     +   +G S  Y +YH F++ S   Q  W  + SR P++
Sbjct: 89  PVYFFAQLLGAFVGTSTVYGLYHGFISNSKIPQFAW--ETSRNPSI 132


  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
   0.328    0.139    0.429 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,573,785
Number of Sequences: 62578
Number of extensions: 287602
Number of successful extensions: 690
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 687
Number of HSP's gapped (non-prelim): 7
length of query: 289
length of database: 14,973,337
effective HSP length: 98
effective length of query: 191
effective length of database: 8,840,693
effective search space: 1688572363
effective search space used: 1688572363
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.8 bits)
S2: 51 (24.3 bits)