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= 019347
         (342 letters)

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

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



>pdb|3KVN|X Chain X, Crystal Structure Of The Full-Length Autotransporter Esta
           From Pseudomonas Aeruginosa
 pdb|3KVN|A Chain A, Crystal Structure Of The Full-Length Autotransporter Esta
           From Pseudomonas Aeruginosa
          Length = 632

 Score = 40.4 bits (93), Expect = 0.002,   Method: Compositional matrix adjust.
 Identities = 91/336 (27%), Positives = 132/336 (39%), Gaps = 73/336 (21%)

Query: 28  MIVFGDSSVDTGNNNFIPTIARCNFEPYGRDFPGGIPTGRFCN--GRLSTDFLSESFGLK 85
           ++VFGDS  D G     P       +P G   P G  T RF N  G    +   E FG  
Sbjct: 18  LVVFGDSLSDAGQ---FP-------DPAG---PAG-STSRFTNRVGPTYQNGSGEIFG-- 61

Query: 86  PTIPAYLDPAYSIA--DFATGVCFASSATG-----------------FDNATAGVLEL-E 125
           PT P  L     IA  D A      ++  G                 +D+ TA    L E
Sbjct: 62  PTAPMLLGNQLGIAPGDLAASTSPVNAQQGIADGNNWAVGGYRTDQIYDSITAANGSLIE 121

Query: 126 FYKEYQRKLRAYLGVGKANKVIG---EALYTVSLGTNDFIENYYAIPGGRQSQFTVQEYQ 182
                 R    YL V +A + +G    ALY ++ G NDF++       GR     VQ  Q
Sbjct: 122 RDNTLLRSRDGYL-VDRARQGLGADPNALYYITGGGNDFLQ-------GRILN-DVQAQQ 172

Query: 183 DFLLGIAEDFLKKLYNLGARKISVTGIAPMGCLPVERTTDFMNNDYGCNEE--HNNVALE 240
               G   D ++ L   GAR I V  +  +G  P           +G   +   + ++  
Sbjct: 173 --AAGRLVDSVQALQQAGARYIVVWLLPDLGLTPAT---------FGGPLQPFASQLSGT 221

Query: 241 FNGKMMSLLSKLNKELPGFRIVFADGYNILLDLIKKPSKFGFEVAD---MGCCGSGTFET 297
           FN ++ + LS+    +    I       +L + +  P+ FG   AD   +G C SG   T
Sbjct: 222 FNAELTAQLSQAGANVIPLNIPL-----LLKEGMANPASFGL-AADQNLIGTCFSGNGCT 275

Query: 298 GFLCTDLFTCT-DANKFVFWDSVHPSEKANKIIANY 332
                 +   T D +K +F DSVHP+    ++IA+Y
Sbjct: 276 MNPTYGINGSTPDPSKLLFNDSVHPTITGQRLIADY 311


>pdb|3LQZ|A Chain A, Crystal Structure Of Hla-dp2
          Length = 181

 Score = 30.0 bits (66), Expect = 2.1,   Method: Compositional matrix adjust.
 Identities = 22/75 (29%), Positives = 31/75 (41%), Gaps = 7/75 (9%)

Query: 13  IQILRTTGANTKVPAMIVFGDSSVDTGNNNFIPTIARCNFEPYGRDFPGGIPTGRFCNGR 72
           IQ    T A    P + VF    V+ G     P    C+ + +   FP  +     CNG 
Sbjct: 74  IQRSNHTQATNDPPEVTVFPKEPVELGQ----PNTLICHIDKF---FPPVLNVTWLCNGE 126

Query: 73  LSTDFLSESFGLKPT 87
           L T+ ++ES  L  T
Sbjct: 127 LVTEGVAESLFLPRT 141


>pdb|3GR1|A Chain A, Periplamic Domain Of The T3ss Inner Membrane Protein Prgh
           From S.Typhimurium (Fragment 170-392)
 pdb|3GR1|B Chain B, Periplamic Domain Of The T3ss Inner Membrane Protein Prgh
           From S.Typhimurium (Fragment 170-392)
 pdb|3GR1|C Chain C, Periplamic Domain Of The T3ss Inner Membrane Protein Prgh
           From S.Typhimurium (Fragment 170-392)
 pdb|3GR1|D Chain D, Periplamic Domain Of The T3ss Inner Membrane Protein Prgh
           From S.Typhimurium (Fragment 170-392)
 pdb|3GR1|E Chain E, Periplamic Domain Of The T3ss Inner Membrane Protein Prgh
           From S.Typhimurium (Fragment 170-392)
 pdb|3GR1|F Chain F, Periplamic Domain Of The T3ss Inner Membrane Protein Prgh
           From S.Typhimurium (Fragment 170-392)
 pdb|3GR1|G Chain G, Periplamic Domain Of The T3ss Inner Membrane Protein Prgh
           From S.Typhimurium (Fragment 170-392)
 pdb|3GR1|H Chain H, Periplamic Domain Of The T3ss Inner Membrane Protein Prgh
           From S.Typhimurium (Fragment 170-392)
          Length = 227

 Score = 28.9 bits (63), Expect = 4.2,   Method: Compositional matrix adjust.
 Identities = 17/43 (39%), Positives = 23/43 (53%), Gaps = 1/43 (2%)

Query: 146 VIGEALYTVS-LGTNDFIENYYAIPGGRQSQFTVQEYQDFLLG 187
           VI  AL  V  L    F+++YY   GGR  QF ++   D+L G
Sbjct: 161 VIQGALDDVEILRARQFVDSYYRTWGGRYVQFAIELKDDWLKG 203


>pdb|2GTQ|A Chain A, Crystal Structure Of Aminopeptidase N From Human Pathogen
           Neisseria Meningitidis
          Length = 867

 Score = 28.1 bits (61), Expect = 7.2,   Method: Compositional matrix adjust.
 Identities = 14/53 (26%), Positives = 25/53 (47%)

Query: 233 EHNNVALEFNGKMMSLLSKLNKELPGFRIVFADGYNILLDLIKKPSKFGFEVA 285
           +H   +LE   K  SL+   ++ +P F      GY  + D + +  +F  +VA
Sbjct: 768 QHPKFSLENPNKARSLIGSFSRNVPHFHAEDGSGYRFIADKVIEIDRFNPQVA 820


  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    0.141    0.429 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,650,548
Number of Sequences: 62578
Number of extensions: 479869
Number of successful extensions: 856
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 853
Number of HSP's gapped (non-prelim): 5
length of query: 342
length of database: 14,973,337
effective HSP length: 100
effective length of query: 242
effective length of database: 8,715,537
effective search space: 2109159954
effective search space used: 2109159954
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: 52 (24.6 bits)