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= 009442
         (534 letters)

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

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



>pdb|4GBY|A Chain A, The Structure Of The Mfs (Major Facilitator Superfamily)
           Proton:xylose Symporter Xyle Bound To D-Xylose
 pdb|4GBZ|A Chain A, The Structure Of The Mfs (Major Facilitator Superfamily)
           Proton:xylose Symporter Xyle Bound To D-Glucose
 pdb|4GC0|A Chain A, The Structure Of The Mfs (Major Facilitator Superfamily)
           Proton:xylose Symporter Xyle Bound To
           6-Bromo-6-Deoxy-D-Glucose
          Length = 491

 Score = 52.0 bits (123), Expect = 8e-07,   Method: Compositional matrix adjust.
 Identities = 111/510 (21%), Positives = 191/510 (37%), Gaps = 90/510 (17%)

Query: 39  LFCISTVSKLLGRLYYYDPA--------------NPKHNPGKLPTPINNFVIGVALVGTL 84
           +F I+ V+ L G L+ YD A               P++        +  F +  AL+G +
Sbjct: 10  IFSITLVATLGGLLFGYDTAVISGTVESLNTVFVAPQNLSESAANSLLGFCVASALIGCI 69

Query: 85  TGQLFFGWLGDKLGRKKVYGITLILMVICAICSG---LSFGS---------SARSVIGTL 132
            G    G+  ++ GR+    I  +L  I  + S    L F S              +   
Sbjct: 70  IGGALGGYCSNRFGRRDSLKIAAVLFFISGVGSAWPELGFTSINPDNTVPVYLAGYVPEF 129

Query: 133 CFFRFWLGFGIGGDYPLSATIMSEYANKKTRGAFIAAVFAMQGVGIIFAGLVSMILSKIF 192
             +R   G G+G    LS   ++E A    RG  +    +     IIF  L+   ++   
Sbjct: 130 VIYRIIGGIGVGLASMLSPMYIAELAPAHIRGKLV----SFNQFAIIFGQLLVYCVNYFI 185

Query: 193 LQLFPAPAFEDDEIFSTQPEGDYLWRIVLMLGALPALTTYYWRMKMPETGRYTAIIEGNA 252
            +   A     D            WR +     +PAL        +PE+ R+  +  G  
Sbjct: 186 ARSGDASWLNTDG-----------WRYMFASECIPALLFLMLLYTVPESPRWL-MSRGKQ 233

Query: 253 KQAASDMGRVLDIEIDEEHDKLSQFKEVNKYPLLSREFFQRHGLHLIGTMSTWFLLDIAF 312
           +QA   + +++   +  +  +  +    +      R      G+ +IG M + F      
Sbjct: 234 EQAEGILRKIMGNTLATQAVQEIKHSLDHGRKTGGRLLMFGVGVIVIGVMLSIF------ 287

Query: 313 YSQNLTQKDIFPAMGLVHKAPQVNALREVFETSRAMFVVALLGTF----PGYWFTVFLI- 367
             Q     ++     +++ AP      EVF+T  A   +ALL T         FTV  I 
Sbjct: 288 --QQFVGINV-----VLYYAP------EVFKTLGASTDIALLQTIIVGVINLTFTVLAIM 334

Query: 368 --EKIGRFIIQLVGFFMMSLFMLIIGIKYDYLKNDNKWLFATLYGLTFFFANFGPNSTTF 425
             +K GR  +Q++G   M++ M  +G  +         L + L+ +  F  ++GP    +
Sbjct: 335 TVDKFGRKPLQIIGALGMAIGMFSLGTAFYTQAPGIVALLSMLFYVAAFAMSWGP--VCW 392

Query: 426 VLPAELFPTRVRSTCHXXXXXXXXXXXXXXXFVVQSY-TLDEDSKKIQH----------- 473
           VL +E+FP  +R                   FV  ++  +D++S  + H           
Sbjct: 393 VLLSEIFPNAIRGKA---LAIAVAAQWLANYFVSWTFPMMDKNSWLVAHFHNGFSYWIYG 449

Query: 474 AVLVLAFTNMLGFCCTFLVTETKGRSLEEI 503
            + VLA   M  F     V ETKG++LEE+
Sbjct: 450 CMGVLAALFMWKF-----VPETKGKTLEEL 474


>pdb|2JEK|A Chain A, Crystal Structure Of The Conserved Hypothetical Protein
           Rv1873 From Mycobacterium Tuberculosis At 1.38 A
          Length = 145

 Score = 30.0 bits (66), Expect = 3.1,   Method: Compositional matrix adjust.
 Identities = 20/66 (30%), Positives = 30/66 (45%), Gaps = 5/66 (7%)

Query: 463 TLDEDSKKIQHAVLVLAFTNMLGFCCTFLVTETKGRSLEEISGEDGGVGYYHDTEMSSRP 522
           +L+E    +QH +L           CT LV + +GRS+EEI G    +       + +R 
Sbjct: 61  SLEEAQAYLQHDLLGPRLHE-----CTGLVNQVQGRSIEEIFGPPDDLKLCSSMTLFARA 115

Query: 523 TGARQS 528
           T A Q 
Sbjct: 116 TDANQD 121


>pdb|2I2S|A Chain A, Crystal Structure Of The Porcine Crw-8 Rotavirus Vp8
           Carbohydrate- Recognising Domain
 pdb|2I2S|B Chain B, Crystal Structure Of The Porcine Crw-8 Rotavirus Vp8
           Carbohydrate- Recognising Domain
 pdb|3TAY|A Chain A, Crystal Structure Of Porcine Rotavirus Crw-8 Vp8 In
           Complex With N- Glycolylneuraminic Acid
 pdb|3TAY|B Chain B, Crystal Structure Of Porcine Rotavirus Crw-8 Vp8 In
           Complex With N- Glycolylneuraminic Acid
          Length = 163

 Score = 28.5 bits (62), Expect = 9.1,   Method: Composition-based stats.
 Identities = 18/64 (28%), Positives = 27/64 (42%), Gaps = 3/64 (4%)

Query: 9   LNALDTARTQWYHVTAIVIAGMGFFTDAYDLFC---ISTVSKLLGRLYYYDPANPKHNPG 65
           L+  +T++TQW  +        G +T    LF    +  V K  GR+Y Y+   P    G
Sbjct: 67  LSVENTSQTQWKFIDVSKTTPTGNYTQHGSLFSTPKLYAVMKFSGRIYTYNGTTPNATTG 126

Query: 66  KLPT 69
              T
Sbjct: 127 YYST 130


  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
   0.327    0.142    0.436 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 15,237,081
Number of Sequences: 62578
Number of extensions: 621061
Number of successful extensions: 1242
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 1238
Number of HSP's gapped (non-prelim): 12
length of query: 534
length of database: 14,973,337
effective HSP length: 103
effective length of query: 431
effective length of database: 8,527,803
effective search space: 3675483093
effective search space used: 3675483093
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 54 (25.4 bits)