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: 1097160804-29749-67761599969.BLASTQ1

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



Results of PSI-Blast iteration 1

Taxonomy reports

Legend:
 - means that the alignment score was below the threshold on the previous iteration 
 - means that the alignment was checked on the previous iteration 


Hit list size 
Sequences with E-value BETTER than threshold
Related Structures
                                                                     Score    E
Sequences producing significant alignments:                          (bits) Value


 gi|24987345|pdb|1HN6|A  Chain A, Solution Structure Of Plasmodium...   114   3e-26 


Sequences with E-value WORSE than threshold


 gi|37927674|pdb|1PZ2|B  Chain B, Crystal Structure Of A Transient...    29   1.3   

 gi|37927680|pdb|1PZ3|B  Chain B, Crystal Structure Of A Family 51...    29   1.3   

 gi|13096288|pdb|1HRU|B  Chain B, The Structure Of The Yrdc Gene P...    27   8.5   


Alignments








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

 Score =  114 bits (286), Expect = 3e-26
 Identities = 57/102 (55%), Positives = 80/102 (78%), Gaps = 3/102 (2%)

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 RISNSTCNFYVCNCVEKRAEIKENNQVVIKEEFRDYYENGEE 437
            +SNSTC F+VC CVE+RAE+  NN+VV+KEE++D Y +  E
Sbjct: 61  MVSNSTCRFFVCKCVERRAEVTSNNEVVVKEEYKDEYADIPE 102



>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 = 29.3 bits (64), Expect = 1.3
 Identities = 14/41 (34%), Positives = 23/41 (56%), Gaps = 3/41 (7%)

Query: 264 QKIQQGFRQNNREMIKSAFLPVGAFNSDNFKSKGRGFNWAN 304
           Q  + GFRQ+  E++K   +P+  +   NF S   G+NW +
Sbjct: 46  QADENGFRQDVIELVKELQVPIIRYPGGNFVS---GYNWED 83



>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 = 29.3 bits (64), Expect = 1.3
 Identities = 14/41 (34%), Positives = 23/41 (56%), Gaps = 3/41 (7%)

Query: 264 QKIQQGFRQNNREMIKSAFLPVGAFNSDNFKSKGRGFNWAN 304
           Q  + GFRQ+  E++K   +P+  +   NF S   G+NW +
Sbjct: 46  QADENGFRQDVIELVKELQVPIIRYPGGNFVS---GYNWED 83



>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 = 26.6 bits (57), Expect = 8.5
 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






  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)