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= 041621
         (452 letters)

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

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



>pdb|2NTY|A Chain A, Rop4-Gdp-Prone8
 pdb|2NTY|B Chain B, Rop4-Gdp-Prone8
 pdb|2WBL|A Chain A, Three-Dimensional Structure Of A Binary Rop-Prone Complex
 pdb|2WBL|B Chain B, Three-Dimensional Structure Of A Binary Rop-Prone Complex
          Length = 365

 Score =  314 bits (805), Expect = 5e-86,   Method: Compositional matrix adjust.
 Identities = 167/371 (45%), Positives = 233/371 (62%), Gaps = 50/371 (13%)

Query: 104 ESMDLELELMKERFAKLLLGEDMSGSGKGVCTAVTISNAITNLYATVFGQNLRLAPLKPE 163
           E    ++E+MK+RFAKLLLGEDMSG GKGV +A+ +SNAITNL A++FG+  +L P+  +
Sbjct: 5   ERQQADMEMMKDRFAKLLLGEDMSGGGKGVSSALALSNAITNLAASIFGEQTKLQPMPQD 64

Query: 164 KKALWKREMDCLLSVCDYIVEFVSESQNLRDG---------------------REVE--- 199
           ++A WK+E+D LLSV D+IVEFV   Q  +DG                     R+++   
Sbjct: 65  RQARWKKEIDWLLSVTDHIVEFVPSQQTSKDGVCTEIMVTRQRGDLLMNIPALRKLDAML 124

Query: 200 -DILESFQD-TEFWY----AEQGXXXXXXXXXXXXXXVIVQRKEEKWWLPVPCVPPGGLS 253
            D L++F+   EFWY    +E+G                  R  +KWWLP   VPPGGLS
Sbjct: 125 IDTLDNFRGHNEFWYVSRDSEEGQQARN------------DRTNDKWWLPPVKVPPGGLS 172

Query: 254 EKSRKHLRHKRDCANQIHKAAMAINSTILAEMEIPDSYMANLPKSGKACLGDFIYRYMYT 313
           E SR+ L  ++D   Q+ KAAMAIN+ +L+EMEIP+SY+ +LPK+G+A LGD IY+ + T
Sbjct: 173 EPSRRMLYFQKDSVTQVQKAAMAINAQVLSEMEIPESYIDSLPKNGRASLGDSIYKSI-T 231

Query: 314 TEKFSPDHLLDCLSIASEHEALELADHVEASMYTWRRKACMSHSKSSWDMVKDLMSETDR 373
            E F P+  L  L +++EH+ L+L + +EAS+  W+RK     +KSSW     L      
Sbjct: 232 EEWFDPEQFLAMLDMSTEHKVLDLKNRIEASVVIWKRKLHTKDTKSSWGSAVSL------ 285

Query: 374 SDKNHLLAARAESLLFYLKQRYPELAQTSLDTCKIQCNQDVGQAVLESYSRVLEGLAFNT 433
            +K  L   RAE++L  LKQ++P L Q+SLD  KIQ N+DVGQAVLESYSR+LE LA+  
Sbjct: 286 -EKRELFEERAETILVLLKQKFPGLPQSSLDISKIQFNKDVGQAVLESYSRILESLAYTV 344

Query: 434 VAWVEDVLFVD 444
           ++ +EDVL+ D
Sbjct: 345 MSRIEDVLYTD 355


>pdb|2NTX|A Chain A, Prone8
 pdb|2NTX|B Chain B, Prone8
          Length = 365

 Score =  281 bits (720), Expect = 4e-76,   Method: Compositional matrix adjust.
 Identities = 163/371 (43%), Positives = 224/371 (60%), Gaps = 50/371 (13%)

Query: 104 ESMDLELELMKERFAKLLLGEDMSGSGKGVCTAVTISNAITNLYATVFGQNLRLAPLKPE 163
           E    + E  K+RFAKLLLGED SG GKGV +A+ +SNAITNL A++FG+  +L P   +
Sbjct: 5   ERQQADXEXXKDRFAKLLLGEDXSGGGKGVSSALALSNAITNLAASIFGEQTKLQPXPQD 64

Query: 164 KKALWKREMDCLLSVCDYIVEFVSESQNLRDG---------------------REVE--- 199
           ++A WK+E+D LLSV D+IVEFV   Q  +DG                     R+++   
Sbjct: 65  RQARWKKEIDWLLSVTDHIVEFVPSQQTSKDGVCTEIXVTRQRGDLLXNIPALRKLDAXL 124

Query: 200 -DILESFQD-TEFWY----AEQGXXXXXXXXXXXXXXVIVQRKEEKWWLPVPCVPPGGLS 253
            D L++F+   EFWY    +E+G                  R  +KWWLP   VPPGGLS
Sbjct: 125 IDTLDNFRGHNEFWYVSRDSEEGQQARN------------DRTNDKWWLPPVKVPPGGLS 172

Query: 254 EKSRKHLRHKRDCANQIHKAAMAINSTILAEMEIPDSYMANLPKSGKACLGDFIYRYMYT 313
           E SR+ L  ++D   Q+ KAA AIN+ +L+E EIP+SY+ +LPK+G+A LGD IY+ + T
Sbjct: 173 EPSRRXLYFQKDSVTQVQKAAXAINAQVLSEXEIPESYIDSLPKNGRASLGDSIYKSI-T 231

Query: 314 TEKFSPDHLLDCLSIASEHEALELADHVEASMYTWRRKACMSHSKSSWDMVKDLMSETDR 373
            E F P+  L  L  ++EH+ L+L + +EAS+  W+RK     +KSSW     L      
Sbjct: 232 EEWFDPEQFLAXLDXSTEHKVLDLKNRIEASVVIWKRKLHTKDTKSSWGSAVSL------ 285

Query: 374 SDKNHLLAARAESLLFYLKQRYPELAQTSLDTCKIQCNQDVGQAVLESYSRVLEGLAFNT 433
            +K  L   RAE++L  LKQ++P L Q+SLD  KIQ N+DVGQAVLESYSR+LE LA+  
Sbjct: 286 -EKRELFEERAETILVLLKQKFPGLPQSSLDISKIQFNKDVGQAVLESYSRILESLAYTV 344

Query: 434 VAWVEDVLFVD 444
            + +EDVL+ D
Sbjct: 345 XSRIEDVLYTD 355


  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
   0.315    0.129    0.381 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,599,967
Number of Sequences: 62578
Number of extensions: 479071
Number of successful extensions: 1199
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 1189
Number of HSP's gapped (non-prelim): 7
length of query: 452
length of database: 14,973,337
effective HSP length: 102
effective length of query: 350
effective length of database: 8,590,381
effective search space: 3006633350
effective search space used: 3006633350
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: 53 (25.0 bits)