BLASTP 2.2.9 [May-01-2004]

Reference:
Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schäffer, 
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.

RID: 1097159796-929-158047702198.BLASTQ4

Query= 
         (445 letters)


Database: PDB protein database 
           18,695 sequences; 4,163,319 total letters

 
If you have any problems or questions with the results of this search 
please refer to the BLAST FAQs

Taxonomy reports

Related Structures

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|24987345|pdb|1HN6|A  Chain A, Solution Structure Of Plasm...   129   7e-31 
gi|37927680|pdb|1PZ3|B  Chain B, Crystal Structure Of A Fami...    29   1.7   
gi|37927674|pdb|1PZ2|B  Chain B, Crystal Structure Of A Tran...    29   1.7   
gi|13096288|pdb|1HRU|B  Chain B, The Structure Of The Yrdc G...    27   6.6   
gi|27065714|pdb|1MQS|B  Chain B, Crystal Structure Of Sly1p ...    27   8.6   

Alignments


>gi|24987345|pdb|1HN6|A   Chain A, Solution Structure Of Plasmodium Falciparum Apical
           Membrane Antigen 1 (Residues 436-545)
          Length = 110

 Score =  129 bits (325), Expect = 7e-31
 Identities = 56/97 (57%), Positives = 78/97 (80%), Gaps = 3/97 (3%)

Query: 339 EVDLEFPCSIYKDEIEREIKKQSRNMNLYSVDGE---RIVLPRIFISNDKESIKCPCEPE 395
           EV+  FPCS+YKDEI +EI+++S+ + L   D E   +I+ PRIFIS+DK+S+KCPC+PE
Sbjct: 1   EVENNFPCSLYKDEIMKEIERESKRIKLNDNDDEGNKKIIAPRIFISDDKDSLKCPCDPE 60

Query: 396 RISNSTCNFYVCNCVEKRAEIKENNQVVIKEEFRDYY 432
            +SNSTC F+VC CVE+RAE+  NN+VV+KEE++D Y
Sbjct: 61  MVSNSTCRFFVCKCVERRAEVTSNNEVVVKEEYKDEY 97



>gi|37927680|pdb|1PZ3|B   Chain B, Crystal Structure Of A Family 51 (Gh51) Alpha-L-
           Arabinofuranosidase From Geobacillus Stearothermophilus
           T6
 gi|37927679|pdb|1PZ3|A   Chain A, Crystal Structure Of A Family 51 (Gh51) Alpha-L-
           Arabinofuranosidase From Geobacillus Stearothermophilus
           T6
          Length = 502

 Score = 28.9 bits (63), Expect = 1.7
 Identities = 14/39 (35%), Positives = 22/39 (56%), Gaps = 3/39 (7%)

Query: 264 QKIQQGFRQNNREMIKSAFLPVGAFNSDNFKSKGRGFNW 302
           Q  + GFRQ+  E++K   +P+  +   NF S   G+NW
Sbjct: 46  QADENGFRQDVIELVKELQVPIIRYPGGNFVS---GYNW 81



>gi|37927674|pdb|1PZ2|B   Chain B, Crystal Structure Of A Transient Covalent Reaction
           Intermediate Of A Family 51 Alpha-L-Arabinofuranosidase
 gi|37927673|pdb|1PZ2|A   Chain A, Crystal Structure Of A Transient Covalent Reaction
           Intermediate Of A Family 51 Alpha-L-Arabinofuranosidase
 gi|37928069|pdb|1QW9|B   Chain B, Crystal Structure Of A Family 51 Alpha-L-
           Arabinofuranosidase In Complex With 4-Nitrophenyl-Ara
 gi|37928068|pdb|1QW9|A   Chain A, Crystal Structure Of A Family 51 Alpha-L-
           Arabinofuranosidase In Complex With 4-Nitrophenyl-Ara
 gi|37928065|pdb|1QW8|B   Chain B, Crystal Structure Of A Family 51 Alpha-L-
           Arabinofuranosidase In Complex With Ara-Alpha(1,3)-Xyl
 gi|37928064|pdb|1QW8|A   Chain A, Crystal Structure Of A Family 51 Alpha-L-
           Arabinofuranosidase In Complex With Ara-Alpha(1,3)-Xyl
          Length = 502

 Score = 28.9 bits (63), Expect = 1.7
 Identities = 14/39 (35%), Positives = 22/39 (56%), Gaps = 3/39 (7%)

Query: 264 QKIQQGFRQNNREMIKSAFLPVGAFNSDNFKSKGRGFNW 302
           Q  + GFRQ+  E++K   +P+  +   NF S   G+NW
Sbjct: 46  QADENGFRQDVIELVKELQVPIIRYPGGNFVS---GYNW 81



>gi|13096288|pdb|1HRU|B   Chain B, The Structure Of The Yrdc Gene Product From E.Coli
 gi|13096287|pdb|1HRU|A   Chain A, The Structure Of The Yrdc Gene Product From E.Coli
          Length = 188

 Score = 26.9 bits (58), Expect = 6.6
 Identities = 13/36 (36%), Positives = 20/36 (55%)

Query: 52  CPVFGKGIVIENSDVSFLRPVATGDQKLKDGGFAFP 87
           C  +GK +V  ++++S L P  T D+     G AFP
Sbjct: 128 CQAYGKPLVSTSANLSGLPPCRTVDEVRAQFGAAFP 163



>gi|27065714|pdb|1MQS|B   Chain B, Crystal Structure Of Sly1p In Complex With An N-Terminal
           Peptide Of Sed5p
          Length = 50

 Score = 26.6 bits (57), Expect = 8.6
 Identities = 8/34 (23%), Positives = 21/34 (61%)

Query: 246 GASASDQPTQYEEEMTDYQKIQQGFRQNNREMIK 279
           G +  D+ +++++ +  Y+K  + FR+  RE ++
Sbjct: 5   GMNIKDRTSEFQQSVLSYKKRNKNFREQQRERLQ 38






  Database: PDB protein database
    Posted date:  Oct 7, 2004 12:08 AM
  Number of letters in database: 4,163,319
  Number of sequences in database:  18,695
  
Lambda     K      H
   0.317    0.133    0.402 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 1,933,018
Number of Sequences: 18695
Number of extensions: 83146
Number of successful extensions: 214
Number of sequences better than 10.0: 2
Number of HSP's better than 10.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 211
Number of HSP's gapped (non-prelim): 2
length of query: 445
length of database: 4,163,319
effective HSP length: 93
effective length of query: 352
effective length of database: 2,424,684
effective search space: 853488768
effective search space used: 853488768
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 57 (26.6 bits)