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= 001959
         (991 letters)

Database: pdbaa 
           62,578 sequences; 14,973,337 total letters

Searching..................................................done



>pdb|2OLS|A Chain A, The Crystal Structure Of The Phosphoenolpyruvate Synthase
           From Neisseria Meningitidis
          Length = 794

 Score = 40.4 bits (93), Expect = 0.005,   Method: Compositional matrix adjust.
 Identities = 77/349 (22%), Positives = 138/349 (39%), Gaps = 71/349 (20%)

Query: 683 ELVGAKSRNIAYLKGKVP-SWIGIPTSVALPFGVFEKVLSDNINQAVAEKLQILKQKLGE 741
           E VG K+ ++  +  ++    + +P   A     +   L+ N    ++E++     KL  
Sbjct: 18  ERVGGKNASLGEMISQLTEKGVRVPGGFATTAEAYRAFLAHN---GLSERISAALAKLDV 74

Query: 742 EDHSAL----REIRETVLQMKAPNQLVQEL--------------------KTEMKSSGMP 777
           ED + L    +EIR+ +L    P QL  E+                    ++   +  +P
Sbjct: 75  EDVAELARVGKEIRQWILDTPFPEQLDAEIEAAWNKMVADAGGADISVAVRSSATAEDLP 134

Query: 778 WPGDEGEQR-------WEQAWMAIKKVWASKWNERAFFSTRRVKLDHEYLCMAVLVQEII 830
                G+Q         +    A+  V+AS +N+RA         +H+ + ++  VQ ++
Sbjct: 135 DASFAGQQETFLNINGLDNVKEAMHHVFASLYNDRAISYRVHKGFEHDIVALSAGVQRMV 194

Query: 831 NADYAF--VIHTTNPSSGDSSEIYAEVVKGLGETLV-GAYPGRALSFVCKKNDLKY--PR 885
            +D     V+ T +  SG    ++     GLGE +V GA       F   K  LK   P 
Sbjct: 195 RSDSGASGVMFTLDTESGYDQVVFVTSSYGLGENVVQGAV--NPDEFYVFKPTLKAGKPA 252

Query: 886 VLGYPSKPIGLFIRRSIIFRSDSNGEDLEGYAGAGLYDSVPMDEAEKVVLDYSSDRLITD 945
           +L    K +G    + I       G+ +           VP ++  +  +   +D  IT+
Sbjct: 253 IL---RKTMGSKHIKMIFTDKAEAGKSVTNV-------DVPEEDRNRFSI---TDEEITE 299

Query: 946 GHFQQSILSSIARAGCEIEELFGSAQDIE----GVVRDGKIYVVQTRPQ 990
                     +A     IE+ +G   DIE    G+  DGK+Y++Q RP+
Sbjct: 300 ----------LAHYALTIEKHYGRPMDIEWGRDGL--DGKLYILQARPE 336


>pdb|2F1N|A Chain A, Structure Of Cdtb, The Biologically Active Subunit Of
           Cytolethal Distending Toxin
          Length = 262

 Score = 37.0 bits (84), Expect = 0.049,   Method: Composition-based stats.
 Identities = 33/119 (27%), Positives = 55/119 (46%), Gaps = 13/119 (10%)

Query: 133 MATRQLIWNKNYNVKPREIS---KAQDRLTDLLQNVYISNPECREIVRMILSTVGRGGEG 189
           +  R+LIWN + N +P+++     A D L   +    +SN    E+   +LS V +GG  
Sbjct: 75  IPVRELIWNLSTNSRPQQVYIYFSAVDALGGRVNLALVSNRRADEV--FVLSPVRQGGRP 132

Query: 190 DVGQRIRDEIL----VIQRNNNCKGGMMEEWHQKLHNNTSPDDVIICQALIDYIKSDFD 244
            +G RI ++       I   NN    ++EE +    ++  P    + QAL   I  DF+
Sbjct: 133 LLGIRIGNDAFFTAHAIAMRNNDAPALVEEVYNFFRDSRDP----VHQALNWMILGDFN 187


>pdb|2FNA|A Chain A, Crystal Structure Of An Archaeal Aaa+ Atpase (Sso1545)
           From Sulfolobus Solfataricus P2 At 2.00 A Resolution
 pdb|2FNA|B Chain B, Crystal Structure Of An Archaeal Aaa+ Atpase (Sso1545)
           From Sulfolobus Solfataricus P2 At 2.00 A Resolution
          Length = 357

 Score = 33.9 bits (76), Expect = 0.49,   Method: Compositional matrix adjust.
 Identities = 27/86 (31%), Positives = 44/86 (51%), Gaps = 6/86 (6%)

Query: 295 KAVHSGADLESAITNCLGYRSEGQGFMVGVQINPIPNLPSGFPELLQFVSEHVEDRNVEA 354
           K +     L + IT  LG R  G+  ++ + IN + NLP  + +L +F     E+RN  +
Sbjct: 20  KEIEKLKGLRAPITLVLGLRRTGKSSIIKIGINEL-NLPYIYLDLRKF-----EERNYIS 73

Query: 355 LLEGLLEARQEIRPLLFKHNDRLKDL 380
             + LLE ++EI  L+ +    LK L
Sbjct: 74  YKDFLLELQKEINKLVKRLPSLLKAL 99


  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
   0.317    0.134    0.390 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 29,038,886
Number of Sequences: 62578
Number of extensions: 1228811
Number of successful extensions: 3202
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 3201
Number of HSP's gapped (non-prelim): 10
length of query: 991
length of database: 14,973,337
effective HSP length: 108
effective length of query: 883
effective length of database: 8,214,913
effective search space: 7253768179
effective search space used: 7253768179
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: 56 (26.2 bits)