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= 017222
         (375 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 = 40.0 bits (92), Expect = 0.002,   Method: Compositional matrix adjust.
 Identities = 32/115 (27%), Positives = 52/115 (45%), Gaps = 21/115 (18%)

Query: 24  GLVGIGLGS--GPVCLSWFLEFIPASNRGMLMVVISTFWTLGTIFEAALAWMV------- 74
           G +G+GL S   P+ ++   E  PA  RG L+    +F     IF   L + V       
Sbjct: 136 GGIGVGLASMLSPMYIA---ELAPAHIRGKLV----SFNQFAIIFGQLLVYCVNYFIARS 188

Query: 75  -----MPRLNWRWLLALSSVPSFAVLLLYGLAPETPKYLCTAGKMADAAHVLEKM 124
                +    WR++ A   +P+   L+L    PE+P++L + GK   A  +L K+
Sbjct: 189 GDASWLNTDGWRYMFASECIPALLFLMLLYTVPESPRWLMSRGKQEQAEGILRKI 243


>pdb|3LTL|A Chain A, Crystal Structure Of Human Big1 Sec7 Domain
 pdb|3LTL|B Chain B, Crystal Structure Of Human Big1 Sec7 Domain
          Length = 211

 Score = 32.0 bits (71), Expect = 0.51,   Method: Compositional matrix adjust.
 Identities = 19/64 (29%), Positives = 34/64 (53%), Gaps = 7/64 (10%)

Query: 197 YGVILLTSELNSEEARCGSTLLLLEHAQDASLYVNVFITSLAELPGLLLSAVIVDRVGRK 256
           Y +I+LT++L+S + +   T       ++  + +N  I    +LP   LSA+  +  G+K
Sbjct: 149 YSIIMLTTDLHSPQVKNKMT-------KEQYIKMNRGINDSKDLPEEYLSAIYNEIAGKK 201

Query: 257 ISMA 260
           ISM 
Sbjct: 202 ISMK 205


>pdb|1PW4|A Chain A, Crystal Structure Of The Glycerol-3-Phosphate Transporter
           From E.Coli
          Length = 451

 Score = 30.0 bits (66), Expect = 2.3,   Method: Compositional matrix adjust.
 Identities = 38/171 (22%), Positives = 66/171 (38%), Gaps = 22/171 (12%)

Query: 177 ELIRTTLLLWFLFFGNSFVY---YGVILLTSELNSEEARCGSTLLLLEHAQDASLYVNVF 233
           + +    LLW++   N FVY   YG++  +     E         +   A D S +   F
Sbjct: 246 QYVLPNKLLWYIAIANVFVYLLRYGILDWSPTYLKE---------VKHFALDKSSWA-YF 295

Query: 234 ITSLAELPGLLLSAVIVDRVGRK-------ISMAIMSXXXXXXXXXXXXHQPVTLTTVLL 286
           +   A +PG LL   + D+V R          M +++            +  V +  +++
Sbjct: 296 LYEYAGIPGTLLCGWMSDKVFRGNRGATGVFFMTLVTIATIVYWMNPAGNPTVDMICMIV 355

Query: 287 FGARMFANGTFAVACVYAPEVYPTSLRATGAGIASAVGRIGGMVCPLVSVG 337
            G  ++  G   +  ++A E+ P     T AG     G +GG V     VG
Sbjct: 356 IGFLIY--GPVMLIGLHALELAPKKAAGTAAGFTGLFGYLGGSVAASAIVG 404


>pdb|1UWG|H Chain H, Molecular Mechanism Of Enantioselective Proton Transfer To
           Carbon In Catalytic Antibody 14d9
 pdb|1UWG|Y Chain Y, Molecular Mechanism Of Enantioselective Proton Transfer To
           Carbon In Catalytic Antibody 14d9
          Length = 225

 Score = 29.3 bits (64), Expect = 3.9,   Method: Compositional matrix adjust.
 Identities = 14/38 (36%), Positives = 23/38 (60%)

Query: 161 TVNKSGSSSFLMLLSTELIRTTLLLWFLFFGNSFVYYG 198
           TV+KS S++F+ L S     + +    +F+GN F Y+G
Sbjct: 71  TVDKSSSTAFMHLNSLTSEDSAVYYCAIFYGNFFDYWG 108


  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    0.137    0.409 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,307,537
Number of Sequences: 62578
Number of extensions: 334762
Number of successful extensions: 800
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 796
Number of HSP's gapped (non-prelim): 7
length of query: 375
length of database: 14,973,337
effective HSP length: 100
effective length of query: 275
effective length of database: 8,715,537
effective search space: 2396772675
effective search space used: 2396772675
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: 52 (24.6 bits)