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= 009617
         (531 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 =  155 bits (392), Expect = 5e-38,   Method: Compositional matrix adjust.
 Identities = 131/487 (26%), Positives = 217/487 (44%), Gaps = 59/487 (12%)

Query: 94  QAKKSSGVVLPFVGVACLGAILFGYHLGVVNGALEYL------AKDLGIAENTVLQGWIV 147
             + +S  +     VA LG +LFGY   V++G +E L       ++L  +    L G+ V
Sbjct: 2   NTQYNSSYIFSITLVATLGGLLFGYDTAVISGTVESLNTVFVAPQNLSESAANSLLGFCV 61

Query: 148 SSLLAGATVGSFTGGSLADKFGRTRTFQLDAVPLAAGAFLCA------------------ 189
           +S L G  +G   GG  +++FGR  + ++ AV         A                  
Sbjct: 62  ASALIGCIIGGALGGYCSNRFGRRDSLKIAAVLFFISGVGSAWPELGFTSINPDNTVPVY 121

Query: 190 TAQSVQTMIIGRVLXXXXXXXXXXXVPLYISEISPTEIRGALGSVNQLFICVG--IXXXX 247
            A  V   +I R++            P+YI+E++P  IRG L S NQ  I  G  +    
Sbjct: 122 LAGYVPEFVIYRIIGGIGVGLASMLSPMYIAELAPAHIRGKLVSFNQFAIIFGQLLVYCV 181

Query: 248 XXXXXXXXXXXW-----WRTMFGLAAIPSILLALGMGLSPESPRWLFQQGKKSEAEKSIQ 302
                      W     WR MF    IP++L  + +   PESPRWL  +GK+ +AE  ++
Sbjct: 182 NYFIARSGDASWLNTDGWRYMFASECIPALLFLMLLYTVPESPRWLMSRGKQEQAEGILR 241

Query: 303 TLYGKERVSEVMLDLTNAGQGSAEPEAGWFDLFSSRYWKVVSVGAALFLFQQLAGINAVV 362
            + G    ++ + ++ ++         G   +F      V+ +G  L +FQQ  GIN V+
Sbjct: 242 KIMGNTLATQAVQEIKHS-LDHGRKTGGRLLMFGV---GVIVIGVMLSIFQQFVGINVVL 297

Query: 363 YYSTSVFRSVGIESDVA--ASALVGAANV------------FGRKNLLTFSFTGXXXXXX 408
           YY+  VF+++G  +D+A   + +VG  N+            FGRK L      G      
Sbjct: 298 YYAPEVFKTLGASTDIALLQTIIVGVINLTFTVLAIMTVDKFGRKPLQIIGALGMAIGMF 357

Query: 409 XXXXXFTWKVLAPYSGTLAVLGTVLYVLSFSXXXXXXXXXXXXEIFASRIRAKAVALSLG 468
                F  +  AP  G +A+L  + YV +F+            EIF + IR KA+A+++ 
Sbjct: 358 SLGTAFYTQ--AP--GIVALLSMLFYVAAFAMSWGPVCWVLLSEIFPNAIRGKALAIAVA 413

Query: 469 MHWISNFVIGLYF-LSVVNKFGISTVYLGFA-----TVCLLAVLYIAVNVVETKGRSLEE 522
             W++N+ +   F +   N + ++  + GF+      + +LA L++   V ETKG++LEE
Sbjct: 414 AQWLANYFVSWTFPMMDKNSWLVAHFHNGFSYWIYGCMGVLAALFMWKFVPETKGKTLEE 473

Query: 523 IERALNP 529
           +E    P
Sbjct: 474 LEALWEP 480


>pdb|1T3I|A Chain A, Structure Of Slr0077SUFS, THE ESSENTIAL CYSTEINE
           Desulfurase From Synechocystis Pcc 6803
 pdb|1T3I|B Chain B, Structure Of Slr0077SUFS, THE ESSENTIAL CYSTEINE
           Desulfurase From Synechocystis Pcc 6803
          Length = 420

 Score = 28.9 bits (63), Expect = 7.3,   Method: Compositional matrix adjust.
 Identities = 19/51 (37%), Positives = 24/51 (47%), Gaps = 3/51 (5%)

Query: 287 WLFQQGKKSEAEKSIQTLYGKERVSEVMLDLTNAGQGSAEPEAGWFDLFSS 337
           WL   G K  A   I  LYGKE + E M      G+  AE    +FD F++
Sbjct: 224 WLVASGHKMCAPTGIGFLYGKEEILEAMPPFFGGGEMIAE---VFFDHFTT 271


  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
   0.323    0.135    0.397 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,075,891
Number of Sequences: 62578
Number of extensions: 407885
Number of successful extensions: 905
Number of sequences better than 100.0: 3
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 896
Number of HSP's gapped (non-prelim): 3
length of query: 531
length of database: 14,973,337
effective HSP length: 103
effective length of query: 428
effective length of database: 8,527,803
effective search space: 3649899684
effective search space used: 3649899684
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 54 (25.4 bits)