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= 045261
         (227 letters)

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

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



>pdb|4FCG|A Chain A, Structure Of The Leucine-Rich Repeat Domain Of The Type
           Iii Effector Xcv3220 (Xopl)
          Length = 328

 Score = 35.8 bits (81), Expect = 0.018,   Method: Compositional matrix adjust.
 Identities = 40/165 (24%), Positives = 72/165 (43%), Gaps = 14/165 (8%)

Query: 18  LGALPSDMHKLNSLQDLDIRECPSIVSFPEEGFPTNLTSLAIG----EDMKMLYKGL--V 71
           L ALP+ +  LN L++L IR CP +   PE    T+ +    G    + +++ + G+  +
Sbjct: 139 LRALPASIASLNRLRELSIRACPELTELPEPLASTDASGEHQGLVNLQSLRLEWTGIRSL 198

Query: 72  QWGLHRLTSLRWLLIERCDESECFPDGMMGMTLPTSLVHLNIVEFQKXXXXXXXXXXXXX 131
              +  L +L+ L I         P   +G  +   L  L  ++ +              
Sbjct: 199 PASIANLQNLKSLKIRNS------PLSALGPAI-HHLPKLEELDLRGCTALRNYPPIFGG 251

Query: 132 XXXXRRLLIQDCPNLTSLP-KVGLPSSLLDLCIFNCPNLTSLPKV 175
               +RL+++DC NL +LP  +   + L  L +  C NL+ LP +
Sbjct: 252 RAPLKRLILKDCSNLLTLPLDIHRLTQLEKLDLRGCVNLSRLPSL 296



 Score = 31.2 bits (69), Expect = 0.49,   Method: Compositional matrix adjust.
 Identities = 13/35 (37%), Positives = 21/35 (60%)

Query: 12  IRRCEKLGALPSDMHKLNSLQDLDIRECPSIVSFP 46
           ++ C  L  LP D+H+L  L+ LD+R C ++   P
Sbjct: 260 LKDCSNLLTLPLDIHRLTQLEKLDLRGCVNLSRLP 294



 Score = 30.0 bits (66), Expect = 1.2,   Method: Compositional matrix adjust.
 Identities = 17/51 (33%), Positives = 30/51 (58%), Gaps = 5/51 (9%)

Query: 1   RRLPESISSVEIRRCEK-----LGALPSDMHKLNSLQDLDIRECPSIVSFP 46
           R LP SI++++  +  K     L AL   +H L  L++LD+R C ++ ++P
Sbjct: 196 RSLPASIANLQNLKSLKIRNSPLSALGPAIHHLPKLEELDLRGCTALRNYP 246


>pdb|3G06|A Chain A, The Salmonella Virulence Effector Ssph2 Functions As A
           Novel E3 Ligase
          Length = 622

 Score = 28.9 bits (63), Expect = 2.3,   Method: Compositional matrix adjust.
 Identities = 24/46 (52%), Positives = 27/46 (58%), Gaps = 5/46 (10%)

Query: 145 NLTSLPKVGLPSSLLDLCIFNCPNLTSLPKVGLPSSLLELTIFDCP 190
           NLTSLP   LP  L  L + +   LTSLP   LP  LLEL+IF  P
Sbjct: 72  NLTSLP--ALPPELRTLEV-SGNQLTSLPV--LPPGLLELSIFSNP 112


>pdb|4ECO|A Chain A, Crystal Structure Of A Hypothetical Protein (Bacegg_03329)
           From Bacteroides Eggerthii Dsm 20697 At 2.70 A
           Resolution
 pdb|4ECO|B Chain B, Crystal Structure Of A Hypothetical Protein (Bacegg_03329)
           From Bacteroides Eggerthii Dsm 20697 At 2.70 A
           Resolution
          Length = 636

 Score = 27.7 bits (60), Expect = 5.1,   Method: Compositional matrix adjust.
 Identities = 10/16 (62%), Positives = 13/16 (81%)

Query: 158 LLDLCIFNCPNLTSLP 173
           L D+ ++NCPNLT LP
Sbjct: 251 LTDVEVYNCPNLTKLP 266


  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
   0.321    0.139    0.428 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,233,433
Number of Sequences: 62578
Number of extensions: 231975
Number of successful extensions: 345
Number of sequences better than 100.0: 3
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 337
Number of HSP's gapped (non-prelim): 7
length of query: 227
length of database: 14,973,337
effective HSP length: 95
effective length of query: 132
effective length of database: 9,028,427
effective search space: 1191752364
effective search space used: 1191752364
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 50 (23.9 bits)