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= 011470
         (485 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 =  159 bits (401), Expect = 4e-39,   Method: Compositional matrix adjust.
 Identities = 122/428 (28%), Positives = 205/428 (47%), Gaps = 58/428 (13%)

Query: 94  VGAMVGAITSGQISEYIGRKGSLMIAAIPNII-----GWLAISFAR----ESSFLYMG-- 142
           +G ++G    G  S   GR+ SL IAA+   I      W  + F       +  +Y+   
Sbjct: 66  IGCIIGGALGGYCSNRFGRRDSLKIAAVLFFISGVGSAWPELGFTSINPDNTVPVYLAGY 125

Query: 143 -------RLLEGFGVGIISYTVPVYIAEIAPQNLRGALGSVNQLSVTIGIMLAYLLGLFV 195
                  R++ G GVG+ S   P+YIAE+AP ++RG L S NQ ++  G +L Y +  F+
Sbjct: 126 VPEFVIYRIIGGIGVGLASMLSPMYIAELAPAHIRGKLVSFNQFAIIFGQLLVYCVNYFI 185

Query: 196 P------------WRILAVLGILPCTILITGLFFIPESPRWLAKMGMTEDFEASLQVLRG 243
                        WR +     +P  + +  L+ +PESPRWL   G  E  E  L+ + G
Sbjct: 186 ARSGDASWLNTDGWRYMFASECIPALLFLMLLYTVPESPRWLMSRGKQEQAEGILRKIMG 245

Query: 244 FDTDISIEVNEIKRSVASSSRRTTIRFSELKQRRYYFPLTVXXXXXXXXXXSGINGVVFY 303
            +T  +  V EIK S+    R+T  R            + +           GIN V++Y
Sbjct: 246 -NTLATQAVQEIKHSL-DHGRKTGGRLLMFGVGV----IVIGVMLSIFQQFVGINVVLYY 299

Query: 304 SSTIFESAGITSSDVA---TLGLGALQVIATGVTTWLADKAGRRALLIISSVGMTVSILI 360
           +  +F++ G  S+D+A   T+ +G + +  T +     DK GR+ L II ++GM + +  
Sbjct: 300 APEVFKTLG-ASTDIALLQTIIVGVINLTFTVLAIMTVDKFGRKPLQIIGALGMAIGMFS 358

Query: 361 VAVSFFVKGFVSDDSSCYSILDIFSVIGVVAMVVTFSLGMGPIPWVIMSEILPINIKGLA 420
           +  +F+ +              I +++ ++  V  F++  GP+ WV++SEI P  I+G A
Sbjct: 359 LGTAFYTQA-----------PGIVALLSMLFYVAAFAMSWGPVCWVLLSEIFPNAIRGKA 407

Query: 421 GSVATLANWLTVWLIT-----MTAN--LLLNWSGGGTFAIYTVVSAFTVAFVSIWVPETK 473
            ++A  A WL  + ++     M  N  L+ ++  G ++ IY  +      F+  +VPETK
Sbjct: 408 LAIAVAAQWLANYFVSWTFPMMDKNSWLVAHFHNGFSYWIYGCMGVLAALFMWKFVPETK 467

Query: 474 GKTLEEIQ 481
           GKTLEE++
Sbjct: 468 GKTLEELE 475


>pdb|2O7I|A Chain A, The X-Ray Crystal Structure Of A Thermophilic Cellobiose
           Binding Protein Bound With Cellobiose
 pdb|3I5O|A Chain A, The X-Ray Crystal Structure Of A Thermophilic Cellobiose
           Binding Protein Bound With Cellopentaose
 pdb|3I5O|B Chain B, The X-Ray Crystal Structure Of A Thermophilic Cellobiose
           Binding Protein Bound With Cellopentaose
          Length = 592

 Score = 29.6 bits (65), Expect = 3.7,   Method: Compositional matrix adjust.
 Identities = 18/60 (30%), Positives = 32/60 (53%), Gaps = 3/60 (5%)

Query: 395 TFSLGMGPIPWVIMSEILPINIKGLAGSVATLANWLTVWLITMTA---NLLLNWSGGGTF 451
           T S+  G   W++M E++  N++ +   V T     +VW   MT    +L+++WS G +F
Sbjct: 376 TISVPYGWTDWMMMCEMIAKNLRSIGIDVKTEFPDFSVWADRMTKGTFDLIISWSVGPSF 435


>pdb|3HD6|A Chain A, Crystal Structure Of The Human Rhesus Glycoprotein Rhcg
          Length = 490

 Score = 28.9 bits (63), Expect = 7.0,   Method: Compositional matrix adjust.
 Identities = 24/72 (33%), Positives = 34/72 (47%), Gaps = 2/72 (2%)

Query: 101 ITSGQISEYIGRKGSLMIAAIPN--IIGWLAISFARESSFLYMGRLLEGFGVGIISYTVP 158
           +TS  IS  + +KG L +  I N  + G +A+  A E   +  G L+ GF  GIIS    
Sbjct: 267 LTSVAISSALHKKGKLDMVHIQNATLAGGVAVGTAAEMMLMPYGALIIGFVCGIISTLGF 326

Query: 159 VYIAEIAPQNLR 170
           VY+       L 
Sbjct: 327 VYLTPFLESRLH 338


  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    0.138    0.407 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 11,946,995
Number of Sequences: 62578
Number of extensions: 433319
Number of successful extensions: 1184
Number of sequences better than 100.0: 4
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 1177
Number of HSP's gapped (non-prelim): 4
length of query: 485
length of database: 14,973,337
effective HSP length: 103
effective length of query: 382
effective length of database: 8,527,803
effective search space: 3257620746
effective search space used: 3257620746
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)