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= 009526
         (532 letters)

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

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



>pdb|2YPT|A Chain A, Crystal Structure Of The Human Nuclear Membrane Zinc
           Metalloprotease Zmpste24 Mutant (E336a) In Complex With
           A Synthetic Csim Tetrapeptide From The C-Terminus Of
           Prelamin A
 pdb|2YPT|B Chain B, Crystal Structure Of The Human Nuclear Membrane Zinc
           Metalloprotease Zmpste24 Mutant (E336a) In Complex With
           A Synthetic Csim Tetrapeptide From The C-Terminus Of
           Prelamin A
 pdb|2YPT|D Chain D, Crystal Structure Of The Human Nuclear Membrane Zinc
           Metalloprotease Zmpste24 Mutant (E336a) In Complex With
           A Synthetic Csim Tetrapeptide From The C-Terminus Of
           Prelamin A
 pdb|2YPT|E Chain E, Crystal Structure Of The Human Nuclear Membrane Zinc
           Metalloprotease Zmpste24 Mutant (E336a) In Complex With
           A Synthetic Csim Tetrapeptide From The C-Terminus Of
           Prelamin A
          Length = 482

 Score = 30.8 bits (68), Expect = 2.1,   Method: Compositional matrix adjust.
 Identities = 25/82 (30%), Positives = 40/82 (48%), Gaps = 19/82 (23%)

Query: 163 DIQEVIGSAIAIQILSHGVLPLWAGVIITALDCFIFLFLENYGVRKLEAVFAVLIATMAL 222
           ++  V+G A+    L H V      +II+ ++ F+  FL           FAVLI    L
Sbjct: 328 EVLAVLGHALGHWKLGHTV----KNIIISQMNSFLCFFL-----------FAVLIGRKEL 372

Query: 223 SFAWMFGDTQPSGKELLVGVLV 244
             A+ F D+QP+    L+G+L+
Sbjct: 373 FAAFGFYDSQPT----LIGLLI 390


>pdb|4EC5|A Chain A, Crystal Structure Of The S210c (dimer) Mutant From The
           N-terminal Domain Of The Secretin Xcpq From Pseudomonas
           Aeruginosa
 pdb|4EC5|B Chain B, Crystal Structure Of The S210c (dimer) Mutant From The
           N-terminal Domain Of The Secretin Xcpq From Pseudomonas
           Aeruginosa
          Length = 246

 Score = 29.6 bits (65), Expect = 4.9,   Method: Compositional matrix adjust.
 Identities = 20/70 (28%), Positives = 31/70 (44%), Gaps = 7/70 (10%)

Query: 280 IDPKKKGRVQEALNYYSIESSVALLVSFMINLFLTTVFAKGFYGTKQANSIGLVNAGQYL 339
           +DP+ KG+V       S+ S   L +S +  LFL+ +   GF    Q +   +V   +  
Sbjct: 48  VDPRVKGQV-------SVVSKAQLSLSEVYQLFLSVMSTHGFTVVAQGDQARIVPNAEAK 100

Query: 340 QEKYGGGYLP 349
            E  GG   P
Sbjct: 101 TEAGGGQSAP 110


>pdb|4E9J|A Chain A, Crystal Structure Of The N-terminal Domain Of The Secretin
           Xcpq From Pseudomonas Aeruginosa
 pdb|4E9J|B Chain B, Crystal Structure Of The N-terminal Domain Of The Secretin
           Xcpq From Pseudomonas Aeruginosa
          Length = 246

 Score = 29.3 bits (64), Expect = 5.4,   Method: Compositional matrix adjust.
 Identities = 20/70 (28%), Positives = 31/70 (44%), Gaps = 7/70 (10%)

Query: 280 IDPKKKGRVQEALNYYSIESSVALLVSFMINLFLTTVFAKGFYGTKQANSIGLVNAGQYL 339
           +DP+ KG+V       S+ S   L +S +  LFL+ +   GF    Q +   +V   +  
Sbjct: 48  VDPRVKGQV-------SVVSKAQLSLSEVYQLFLSVMSTHGFTVVAQGDQARIVPNAEAK 100

Query: 340 QEKYGGGYLP 349
            E  GG   P
Sbjct: 101 TEAGGGQSAP 110


  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
   0.323    0.139    0.416 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 14,979,870
Number of Sequences: 62578
Number of extensions: 600942
Number of successful extensions: 1115
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 1115
Number of HSP's gapped (non-prelim): 5
length of query: 532
length of database: 14,973,337
effective HSP length: 103
effective length of query: 429
effective length of database: 8,527,803
effective search space: 3658427487
effective search space used: 3658427487
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 54 (25.4 bits)