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= 011275
         (489 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 =  178 bits (451), Expect = 6e-45,   Method: Compositional matrix adjust.
 Identities = 143/488 (29%), Positives = 224/488 (45%), Gaps = 48/488 (9%)

Query: 41  NTNPSWKLSFPHVLVATLSSFLFGYHLGVVNEPLESISL------DLGFNGNTLAEGLVV 94
           NT  +    F   LVATL   LFGY   V++  +ES++       +L  +      G  V
Sbjct: 2   NTQYNSSYIFSITLVATLGGLLFGYDTAVISGTVESLNTVFVAPQNLSESAANSLLGFCV 61

Query: 95  SMCLGGAFIGSTLSGWIADGVGRRRAFQLCALPMIIGASISA---------TTRNLIGML 145
           +  L G  IG  L G+ ++  GRR + ++ A+   I    SA            N + + 
Sbjct: 62  ASALIGCIIGGALGGYCSNRFGRRDSLKIAAVLFFISGVGSAWPELGFTSINPDNTVPVY 121

Query: 146 LG---------RFVVGTGMGLGPTVAALYVTEVSPPFVRGTYGAFIQIATCLGLMGSLLI 196
           L          R + G G+GL   ++ +Y+ E++P  +RG   +F Q A   G +    +
Sbjct: 122 LAGYVPEFVIYRIIGGIGVGLASMLSPMYIAELAPAHIRGKLVSFNQFAIIFGQLLVYCV 181

Query: 197 G--IPVKEIAGW-----WRICFWVSIVPAAILCLAMVFCAESPHWLYKKGRTAEAEAEFE 249
              I     A W     WR  F    +PA +  + +    ESP WL  +G+  +AE    
Sbjct: 182 NYFIARSGDASWLNTDGWRYMFASECIPALLFLMLLYTVPESPRWLMSRGKQEQAEGILR 241

Query: 250 KLLGGSHVKSSLAELSKLDRGDDGDIVKFEELLYGRHFRVVFIGSTLFALQQLSGINAIF 309
           K++G +    ++ E+      D G       L++G    V+ IG  L   QQ  GIN + 
Sbjct: 242 KIMGNTLATQAVQEIKH--SLDHGRKTGGRLLMFG--VGVIVIGVMLSIFQQFVGINVVL 297

Query: 310 YFSSSVFKSAGLSSGLA---NVFVGIANLLGSVVAMVLMDKLGRKALLQWSFFSMAVSMA 366
           Y++  VFK+ G S+ +A    + VG+ NL  +V+A++ +DK GRK L       MA+ M 
Sbjct: 298 YYAPEVFKTLGASTDIALLQTIIVGVINLTFTVLAIMTVDKFGRKPLQIIGALGMAIGMF 357

Query: 367 IQVAASSSYIPGSASLYLSVGGMLMFVLTFALGAGPVPSLLLPEIFPSRIRAKAMAVCMS 426
               A  +  PG  +L      ML +V  FA+  GPV  +LL EIFP+ IR KA+A+ ++
Sbjct: 358 SLGTAFYTQAPGIVALL----SMLFYVAAFAMSWGPVCWVLLSEIFPNAIRGKALAIAVA 413

Query: 427 VHWVINFFVGXXXXXXXXXXXXXX------XYSIFGTFCLMAVAFVKRNVVETKGKSLQE 480
             W+ N+FV                      Y I+G   ++A  F+ + V ETKGK+L+E
Sbjct: 414 AQWLANYFVSWTFPMMDKNSWLVAHFHNGFSYWIYGCMGVLAALFMWKFVPETKGKTLEE 473

Query: 481 IEIALLPQ 488
           +E    P+
Sbjct: 474 LEALWEPE 481


>pdb|1NSA|A Chain A, Three-Dimensional Structure Of Porcine Procarboxypeptidase
           B: A Structural Basis Of Its Inactivity
          Length = 395

 Score = 31.6 bits (70), Expect = 1.1,   Method: Compositional matrix adjust.
 Identities = 21/71 (29%), Positives = 33/71 (46%), Gaps = 11/71 (15%)

Query: 371 ASSSYIPGSASLYLSVGGM--------LMFVLTFALGAGPVPSLLLPEIFPSRIRAKAMA 422
            S SY PGS ++Y + GG         + +  TF L        +LPE   S+I+A    
Sbjct: 323 TSYSYGPGSTTIYPAAGGSDDWAYNQGIKYSFTFELRDKGRFGFVLPE---SQIQATCQE 379

Query: 423 VCMSVHWVINF 433
             ++V +V N+
Sbjct: 380 TMLAVKYVTNY 390


  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
   0.325    0.139    0.419 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,485,050
Number of Sequences: 62578
Number of extensions: 473676
Number of successful extensions: 1232
Number of sequences better than 100.0: 3
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 1225
Number of HSP's gapped (non-prelim): 3
length of query: 489
length of database: 14,973,337
effective HSP length: 103
effective length of query: 386
effective length of database: 8,527,803
effective search space: 3291731958
effective search space used: 3291731958
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 53 (25.0 bits)