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= 010904
         (497 letters)

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

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



>pdb|1PW4|A Chain A, Crystal Structure Of The Glycerol-3-Phosphate Transporter
           From E.Coli
          Length = 451

 Score = 68.9 bits (167), Expect = 6e-12,   Method: Compositional matrix adjust.
 Identities = 90/392 (22%), Positives = 148/392 (37%), Gaps = 33/392 (8%)

Query: 99  SYSVGMYFAGHVGDTIDLRLFLVFGMMGSGLFTIIFGLAYWLSVHLLVYFVGVQIFCGLF 158
           +Y    +  G V D  + R+FL  G++ +    +  G   W +  + V FV +   CG F
Sbjct: 74  AYGFSKFIMGSVSDRSNPRVFLPAGLILAAAVMLFMGFVPWATSSIAVMFV-LLFLCGWF 132

Query: 159 QSIGWPCVVAVLGNWFGKAKRGLIMGVWNSHTSIGNIIGSVLASGVLEFGW--GWSXXXX 216
           Q +GWP     + +W+ + +RG I+ VWN   ++G  I  +L   +L   W   W     
Sbjct: 133 QGMGWPPCGRTMVHWWSQKERGGIVSVWNCAHNVGGGIPPLLF--LLGMAWFNDWHAALY 190

Query: 217 XXXXXXXXXXXXXXXXXRPEDLGFELPGKEVELMNVENGDKVENXXXXXXXXXXXXXXQA 276
                            R       LP  E E  N    D  E                A
Sbjct: 191 MPAFCAILVALFAFAMMRDTPQSCGLPPIE-EYKNDYPDDYNEK---------AEQELTA 240

Query: 277 IGFLEAWKLPR--VAPFAFCLFFSKLVAYTFLYWLPFYIRHTAVAGVHLSHKTAGILSTI 334
                 + LP   +   A    F  L+ Y  L W P Y++       H +   +     +
Sbjct: 241 KQIFMQYVLPNKLLWYIAIANVFVYLLRYGILDWSPTYLKEVK----HFALDKSSWAYFL 296

Query: 335 FDIGGVFGGILAGLISDMI--EARAVTSVAFLLLSIPALVLYRTYGSISMITNIPLMFLS 392
           ++  G+ G +L G +SD +    R  T V F+ L   A ++Y    + +   ++  M + 
Sbjct: 297 YEYAGIPGTLLCGWMSDKVFRGNRGATGVFFMTLVTIATIVYWMNPAGNPTVDMICMIVI 356

Query: 393 GLLVNGPYSLITTAVAADLGTQDLIKGNSRALATVTAIIDGTGSVGAALGP-LLAGY-IS 450
           G L+ GP  LI        G   L     +A  T        G +G ++    + GY + 
Sbjct: 357 GFLIYGPVMLI--------GLHALELAPKKAAGTAAGFTGLFGYLGGSVAASAIVGYTVD 408

Query: 451 TRGWNSVFFMLIVSILFAGMFLIRIVKAEIRE 482
             GW+  F ++I   + A + LI ++  E R 
Sbjct: 409 FFGWDGGFMVMIGGSILAVILLIVVMIGEKRR 440


>pdb|3IOY|A Chain A, Structure Of Putative Short-Chain Dehydrogenase
           (Saro_0793) From Novosphingobium Aromaticivorans
 pdb|3IOY|B Chain B, Structure Of Putative Short-Chain Dehydrogenase
           (Saro_0793) From Novosphingobium Aromaticivorans
          Length = 319

 Score = 28.9 bits (63), Expect = 7.6,   Method: Compositional matrix adjust.
 Identities = 21/65 (32%), Positives = 30/65 (46%), Gaps = 7/65 (10%)

Query: 101 SVGMYFAGHVGDTIDLRLFLVFGMMGSGLFTI----IFGLAYWLSVHLLVYFVGVQIFC- 155
             G    GHV +T  +  FL  G    G++      + GL+  L   LL Y +GV + C 
Sbjct: 138 KAGEQKGGHVVNTASMAAFLAAG--SPGIYNTTKFAVRGLSESLHYSLLKYEIGVSVLCP 195

Query: 156 GLFQS 160
           GL +S
Sbjct: 196 GLVKS 200


>pdb|3B3J|A Chain A, The 2.55 A Crystal Structure Of The Apo Catalytic Domain
           Of Coactivator-Associated Arginine Methyl Transferase
           I(Carm1:28-507, Residues 28-146 And 479-507 Not Ordered)
          Length = 480

 Score = 28.5 bits (62), Expect = 9.9,   Method: Compositional matrix adjust.
 Identities = 28/96 (29%), Positives = 41/96 (42%), Gaps = 14/96 (14%)

Query: 92  LDLAFLTSYSVGMYFAGHVGDTIDLRLFLVFGMMGSGLFTIIFGLAYWLSVHLL-VYFVG 150
           +DL+ L   +V  YF   V DT D+R+     M  S  +T+ F  A    +H + + F  
Sbjct: 295 VDLSALRGAAVDEYFRQPVVDTFDIRIL----MAKSVKYTVNFLEAKEGDLHRIEIPFKF 350

Query: 151 VQIFCGLFQSIGWPCVVAVLGNWFGKAKRGLIMGVW 186
             +  GL   + +         WF  A  G IM VW
Sbjct: 351 HMLHSGLVHGLAF---------WFDVAFIGSIMTVW 377


  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
   0.326    0.142    0.446 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 13,632,932
Number of Sequences: 62578
Number of extensions: 519668
Number of successful extensions: 1298
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 1291
Number of HSP's gapped (non-prelim): 9
length of query: 497
length of database: 14,973,337
effective HSP length: 103
effective length of query: 394
effective length of database: 8,527,803
effective search space: 3359954382
effective search space used: 3359954382
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 53 (25.0 bits)