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= 047058
         (301 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 = 34.7 bits (78), Expect = 0.075,   Method: Compositional matrix adjust.
 Identities = 21/62 (33%), Positives = 36/62 (58%), Gaps = 4/62 (6%)

Query: 96  NALFWVGEIGGSDYARTFGSSISHELLTKLTLGQISKIVKSLLDNGAKYIVVQGLPPLGC 155
           NAL+++   GG+D+ +     I +++  +   G++   V++L   GA+YIVV  LP LG 
Sbjct: 147 NALYYI-TGGGNDFLQ---GRILNDVQAQQAAGRLVDSVQALQQAGARYIVVWLLPDLGL 202

Query: 156 CP 157
            P
Sbjct: 203 TP 204


>pdb|3T95|A Chain A, Crystal Structure Of Lsrb From Yersinia Pestis Complexed
           With Autoinducer-2
          Length = 335

 Score = 32.0 bits (71), Expect = 0.42,   Method: Compositional matrix adjust.
 Identities = 17/72 (23%), Positives = 33/72 (45%), Gaps = 3/72 (4%)

Query: 97  ALFWVGEIGGSDYARTFGSSISHELLTKLTLGQISKIVKSLLDNGAKYIVVQGLPPLGCC 156
             F  G  G  D  +  G  ++++  T+ ++    +++ + ++ G   IVV  + P G C
Sbjct: 35  GFFTSGGKGAVDAGKALGVDVTYDGPTEPSVSGQVQLINNFVNQGYNAIVVSAVSPDGLC 94

Query: 157 PLEMFLSKAFDR 168
           P    L +A  R
Sbjct: 95  PA---LKRAMQR 103


>pdb|1TJY|A Chain A, Crystal Structure Of Salmonella Typhimurium Ai-2 Receptor
           Lsrb In Complex With R-Thmf
 pdb|1TM2|A Chain A, Crystal Structure Of The Apo Form Of The Salmonella
           Typhimurium Ai-2 Receptor Lsrb
          Length = 316

 Score = 30.0 bits (66), Expect = 1.5,   Method: Compositional matrix adjust.
 Identities = 16/72 (22%), Positives = 33/72 (45%), Gaps = 3/72 (4%)

Query: 97  ALFWVGEIGGSDYARTFGSSISHELLTKLTLGQISKIVKSLLDNGAKYIVVQGLPPLGCC 156
             F  G  G  +  +  G  ++++  T+ ++    ++V + ++ G   I+V  + P G C
Sbjct: 16  GFFTSGGNGAQEAGKALGIDVTYDGPTEPSVSGQVQLVNNFVNQGYDAIIVSAVSPDGLC 75

Query: 157 PLEMFLSKAFDR 168
           P    L +A  R
Sbjct: 76  PA---LKRAMQR 84


>pdb|2VPT|A Chain A, Clostridium Thermocellum Family 3 Carbohydrate Esterase
          Length = 215

 Score = 28.9 bits (63), Expect = 3.3,   Method: Compositional matrix adjust.
 Identities = 11/25 (44%), Positives = 18/25 (72%)

Query: 257 DPSRLMHWDGIHLTEAMYKHIADLF 281
           D +  + WDG+HL+E  YK IA+++
Sbjct: 167 DRNTDISWDGLHLSEIGYKKIANIW 191


>pdb|1JNF|A Chain A, Rabbit Serum Transferrin At 2.6 A Resolution
          Length = 676

 Score = 28.9 bits (63), Expect = 4.0,   Method: Compositional matrix adjust.
 Identities = 46/197 (23%), Positives = 72/197 (36%), Gaps = 23/197 (11%)

Query: 75  RFMREVACKGMSDSECKAEIENALFWVGEIGGSDYARTFGSSIS-------HELLTKLTL 127
           R +RE  C      ECKA    AL     +   +++ T G  I         + + K+  
Sbjct: 324 RNLREGICPDPLQDECKAVKWCALGHHERLKCDEWSVTSGGLIECESAETPEDCIAKIMN 383

Query: 128 GQISKIVKSLLDNGAKYIVVQGLPPLGCCPLEMFLSKAFDRDQMGCAST----CNALVQS 183
           G+   +    LD G  YI  Q       C L   L++ ++      A        A+V+ 
Sbjct: 384 GEADAMS---LDGGYVYIAGQ-------CGLVPVLAENYESTDCKKAPEEGYLSVAVVKK 433

Query: 184 HNDNLQKMILEWQKQYPNCVIAYADFWRAFETILTHYKDYEFDEPFKACCGAGGPLNFNM 243
            N ++    LE +K     V   A +      +        FDE F+  C  G   N ++
Sbjct: 434 SNPDINWNNLEGKKSCHTAVDRTAGWNIPMGLLYNRINHCRFDEFFRQGCAPGSQKNSSL 493

Query: 244 HSLCGSIGTSTCTDPSR 260
             LC  +G S C   +R
Sbjct: 494 CELC--VGPSVCAPNNR 508


  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
   0.324    0.139    0.452 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,689,715
Number of Sequences: 62578
Number of extensions: 330542
Number of successful extensions: 850
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 845
Number of HSP's gapped (non-prelim): 8
length of query: 301
length of database: 14,973,337
effective HSP length: 98
effective length of query: 203
effective length of database: 8,840,693
effective search space: 1794660679
effective search space used: 1794660679
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.5 bits)
S2: 51 (24.3 bits)