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= 006333
         (650 letters)

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

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



>pdb|3EO7|A Chain A, Crystal Structure Of A Putative Nitroreductase (Ava_2154)
           From Anabaena Variabilis Atcc 29413 At 1.80 A Resolution
          Length = 511

 Score = 65.1 bits (157), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 62/265 (23%), Positives = 103/265 (38%), Gaps = 30/265 (11%)

Query: 72  YHDQTKHSFTKYARGPHGLDWANQPNPFRRYISAPLLPLMHLPNRTDHRTQTPSSLSNYN 131
           YH++TK+     A     LDWA QP PF+ Y     + L        +  +TP      N
Sbjct: 13  YHERTKYDPETIASKSQRLDWAKQPVPFKEYKIGSAIDL------KPYLQETPEVFV--N 64

Query: 132 HDNAPLYSSLFTSLPPPQPLTVSSISQLFYDSLALSAWKTTGYSTWSLRVNPSSGNLHPT 191
             N   +  L               S+L + S  L+A   +  +T  LR  PS+G L+P 
Sbjct: 65  DTNGQWWQRL---------------SRLLFRSYGLTARXPSXGNTVYLRAAPSAGGLYPA 109

Query: 192 EAYIIAPAIESLCDSPFVAHYAPKEHALELRAKIPSRFDLFNNFF-----PKNSFLVGFS 246
           E Y+++     L  SP + +Y  + H+L    +      L    F           +  +
Sbjct: 110 EVYVVSRGTPLL--SPGLYNYQCRTHSLIHYWESDVWQSLQEACFWHPALESTQLAIIVT 167

Query: 247 SIFWREAWKYGERAFRYCNHDVGHXXXXXXXXXXELGWDVKILEGMGYKELKKLMGLDIF 306
           ++F+R AW+Y +RA+R    D GH             +   ++ G   + +  L+ +D  
Sbjct: 168 AVFYRSAWRYEDRAYRRICLDTGHLLGNIELSAAITDYRPHLIGGFIDEAVNDLLYIDPL 227

Query: 307 PEFVIPSKPIKGKIPEIEFEHPDCV 331
            E  I   P+   +   +   P C 
Sbjct: 228 QEGAIAVLPLADLLDIQQNISPGCT 252



 Score = 45.1 bits (105), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 28/91 (30%), Positives = 45/91 (49%), Gaps = 1/91 (1%)

Query: 541 LSCHQDIAGDGCFSLGMVAHFEPTLSNKNVWMYPRLFWETGVLGQVLYLEAHAVGISATG 600
           L   Q++  D    +   +  +  ++     +Y  L  + G LGQ L L A  + +  +G
Sbjct: 421 LCLGQELGRDAAAVIFHTSDLKSAIAQYGDRVYRYLHXDAGHLGQRLNLAAIQLNLGVSG 480

Query: 601 IGCFFDDPVHEVLGLTGSKFQSLYHFTVGGP 631
           IG FFDD V+EVLG+   +   +Y  T+G P
Sbjct: 481 IGGFFDDQVNEVLGIPNDE-AVIYITTLGRP 510



 Score = 35.4 bits (80), Expect = 0.11,   Method: Compositional matrix adjust.
 Identities = 32/140 (22%), Positives = 61/140 (43%), Gaps = 7/140 (5%)

Query: 169 WKTTGYSTWSLRVNPSSGNLHPTEAYIIAPAIESLCDSPFVAHYAPKEHAL-ELRAKIPS 227
           ++   Y   SL  +P   +L+  E +I    ++ L    +  +YAPK   L ++R K   
Sbjct: 358 YQPQNYIDQSLDNSPDYFDLNLIETFIAVCGVQGLEAGCY--YYAPKAQELRQIRFKNFR 415

Query: 228 R---FDLFNNFFPKNSFLVGFSSIFWREAW-KYGERAFRYCNHDVGHXXXXXXXXXXELG 283
           R   F        +++  V F +   + A  +YG+R +RY + D GH          +L 
Sbjct: 416 RELHFLCLGQELGRDAAAVIFHTSDLKSAIAQYGDRVYRYLHXDAGHLGQRLNLAAIQLN 475

Query: 284 WDVKILEGMGYKELKKLMGL 303
             V  + G    ++ +++G+
Sbjct: 476 LGVSGIGGFFDDQVNEVLGI 495


>pdb|1J93|A Chain A, Crystal Structure And Substrate Binding Modeling Of The
           Uroporphyrinogen-Iii Decarboxylase From Nicotiana
           Tabacum: Implications For The Catalytic Mechanism
          Length = 353

 Score = 29.6 bits (65), Expect = 5.2,   Method: Compositional matrix adjust.
 Identities = 17/56 (30%), Positives = 30/56 (53%), Gaps = 5/56 (8%)

Query: 306 FPEFVIPSKPIKGKIPEIEFEHPDCVLVVFPSGATGFDVNYEKLRLLMEEFSALDW 361
           F EF +P   +K  +  ++  HP+  L+++ SG+ G     E+L L   +  +LDW
Sbjct: 225 FEEFSLPY--LKQIVDSVKLTHPNLPLILYASGSGGL---LERLPLTGVDVVSLDW 275


  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
   0.321    0.138    0.436 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 20,772,307
Number of Sequences: 62578
Number of extensions: 903307
Number of successful extensions: 1621
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 1615
Number of HSP's gapped (non-prelim): 7
length of query: 650
length of database: 14,973,337
effective HSP length: 105
effective length of query: 545
effective length of database: 8,402,647
effective search space: 4579442615
effective search space used: 4579442615
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 55 (25.8 bits)