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= 013301
         (446 letters)

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

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



>pdb|3HQX|A Chain A, Crystal Structure Of Protein Of Unknown Function
           (Duf1255,Pf06865) From Acinetobacter Sp. Adp1
          Length = 111

 Score = 30.4 bits (67), Expect = 2.1,   Method: Compositional matrix adjust.
 Identities = 21/75 (28%), Positives = 34/75 (45%), Gaps = 19/75 (25%)

Query: 135 FDSVGRSSKSNVLGGGLCLKNIHTSSSMCFSAGSAHDLSFDGGSRNELIGSVASEQTILG 194
           FD V    KSNV  GGLC+               +H + F+ G++  L   + +EQ +  
Sbjct: 9   FDHVTVIKKSNVYFGGLCI---------------SHTVQFEDGTKKTLGVILPTEQPLTF 53

Query: 195 ERAL----KLLSGSC 205
           E  +    +++SG C
Sbjct: 54  ETHVPERXEIISGEC 68


>pdb|3RFZ|B Chain B, Crystal Structure Of The Fimd Usher Bound To Its Cognate
           Fimc:fimh Substrate
 pdb|3RFZ|E Chain E, Crystal Structure Of The Fimd Usher Bound To Its Cognate
           Fimc:fimh Substrate
          Length = 843

 Score = 29.3 bits (64), Expect = 4.3,   Method: Compositional matrix adjust.
 Identities = 18/61 (29%), Positives = 28/61 (45%), Gaps = 7/61 (11%)

Query: 300 IHAVNLGDSGFMVVRDGCTIFQSPVQQHGFNFTYQLESGNTGDLP-------SSGQVFTI 352
           IH +  G +   + ++G  I+ S V    F       +GN+GDL         S Q+FT+
Sbjct: 256 IHGIARGTAQVTIKQNGYDIYNSTVPPGPFTINDIYAAGNSGDLQVTIKEADGSTQIFTV 315

Query: 353 P 353
           P
Sbjct: 316 P 316


>pdb|4EN0|A Chain A, Crystal Structure Of Light
 pdb|4EN0|B Chain B, Crystal Structure Of Light
 pdb|4EN0|C Chain C, Crystal Structure Of Light
          Length = 167

 Score = 29.3 bits (64), Expect = 5.2,   Method: Compositional matrix adjust.
 Identities = 18/68 (26%), Positives = 28/68 (41%)

Query: 261 VQEESTHAIDPARVLEKAHSSTKAKGSSTACIIALTSKAIHAVNLGDSGFMVVRDGCTIF 320
           +QE  +H ++PA  L  A+SS    G        L    +  ++  D   +V + G    
Sbjct: 11  IQERRSHEVNPAAHLTGANSSLTGSGGPLLWETQLGLAFLRGLSYHDGALVVTKAGYYYI 70

Query: 321 QSPVQQHG 328
            S VQ  G
Sbjct: 71  YSKVQLGG 78


>pdb|3OHN|A Chain A, Crystal Structure Of The Fimd Translocation Domain
 pdb|3OHN|B Chain B, Crystal Structure Of The Fimd Translocation Domain
          Length = 558

 Score = 28.9 bits (63), Expect = 6.1,   Method: Compositional matrix adjust.
 Identities = 18/61 (29%), Positives = 28/61 (45%), Gaps = 7/61 (11%)

Query: 300 IHAVNLGDSGFMVVRDGCTIFQSPVQQHGFNFTYQLESGNTGDLP-------SSGQVFTI 352
           IH +  G +   + ++G  I+ S V    F       +GN+GDL         S Q+FT+
Sbjct: 133 IHGIARGTAQVTIKQNGYDIYNSTVPPGPFTINDIYAAGNSGDLQVTIKEADGSTQIFTV 192

Query: 353 P 353
           P
Sbjct: 193 P 193


  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
   0.317    0.133    0.385 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,130,998
Number of Sequences: 62578
Number of extensions: 464565
Number of successful extensions: 963
Number of sequences better than 100.0: 4
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 962
Number of HSP's gapped (non-prelim): 4
length of query: 446
length of database: 14,973,337
effective HSP length: 102
effective length of query: 344
effective length of database: 8,590,381
effective search space: 2955091064
effective search space used: 2955091064
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 53 (25.0 bits)