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= 019035
         (347 letters)

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

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



>pdb|1Y6F|A Chain A, Alpha-Glucosyltransferase In Complex With Udp-Glucose And
           Dna Containing An Abasic Site
 pdb|1Y6F|B Chain B, Alpha-Glucosyltransferase In Complex With Udp-Glucose And
           Dna Containing An Abasic Site
 pdb|1Y6G|A Chain A, Alpha-Glucosyltransferase In Complex With Udp And A 13_mer
           Dna Containing A Hmu Base At 2.8 A Resolution
 pdb|1Y6G|B Chain B, Alpha-Glucosyltransferase In Complex With Udp And A 13_mer
           Dna Containing A Hmu Base At 2.8 A Resolution
 pdb|1YA6|A Chain A, Alpha-glucosyltransferase In Complex With Udp And A 13-mer
           Dna Containing A Central A:g Mismatch
 pdb|1YA6|B Chain B, Alpha-glucosyltransferase In Complex With Udp And A 13-mer
           Dna Containing A Central A:g Mismatch
          Length = 403

 Score = 34.3 bits (77), Expect = 0.095,   Method: Compositional matrix adjust.
 Identities = 26/83 (31%), Positives = 37/83 (44%), Gaps = 10/83 (12%)

Query: 101 IALVLLGCGLV-FSLIA---FVKGGPTLVLAAIAKSGFTAAFSLIFVSEIGDKTFFIAAL 156
           +A  L GCG+  FSL     F+K G  + L       FT        S    K+F I  +
Sbjct: 10  MARGLEGCGVTKFSLEQRDWFIKNGHEVTLVYAKDKSFTR------TSSHDHKSFSIPVI 63

Query: 157 LAMQYEKVLVLLGSMAALALMTV 179
           LA +Y+K L L+     L + +V
Sbjct: 64  LAKEYDKALKLVNDCDILIINSV 86


>pdb|2C9O|A Chain A, 3d Structure Of The Human Ruvb-Like Helicase Ruvbl1
 pdb|2C9O|B Chain B, 3d Structure Of The Human Ruvb-Like Helicase Ruvbl1
 pdb|2C9O|C Chain C, 3d Structure Of The Human Ruvb-Like Helicase Ruvbl1
          Length = 456

 Score = 29.6 bits (65), Expect = 2.3,   Method: Compositional matrix adjust.
 Identities = 32/125 (25%), Positives = 52/125 (41%), Gaps = 11/125 (8%)

Query: 108 CGLVFSLIAFVK-GGPTLVLAAIAKSGFTAAFSLIFVSEIGDKTFFI----AALLAMQYE 162
           CG++  LI   K  G  ++LA    +G TA  +L    E+G K  F     + + + + +
Sbjct: 49  CGVIVELIKSKKMAGRAVLLAGPPGTGKTA-LALAIAQELGSKVPFCPMVGSEVYSTEIK 107

Query: 163 KVLVLLGSMA---ALALMTVLSVVIGIIFHSVPSQFQTTLPIGEYAAVTLLMFFGLKSIK 219
           K  VL+ +      L +     V  G +    P   +T  P+G Y      +  GLK+ K
Sbjct: 108 KTEVLMENFRRAIGLRIKETKEVYEGEVTELTPC--ETENPMGGYGKTISHVIIGLKTAK 165

Query: 220 DAWDL 224
               L
Sbjct: 166 GTKQL 170


>pdb|1TEL|A Chain A, Crystal Structure Of A Rubisco-Like Protein From
           Chlorobium Tepidum
 pdb|1TEL|B Chain B, Crystal Structure Of A Rubisco-Like Protein From
           Chlorobium Tepidum
          Length = 435

 Score = 28.1 bits (61), Expect = 7.6,   Method: Compositional matrix adjust.
 Identities = 20/55 (36%), Positives = 26/55 (47%), Gaps = 8/55 (14%)

Query: 169 GSMAALALMTVLSVVIGIIFHSVPSQFQTTLPIGEYAAVTLLMFFGLKSIKDAWD 223
           GS +AL L TV   V  + F  VP +     P+G  A        G KSI+ AW+
Sbjct: 358 GSDSALTLQTVYEKVGNVDFGFVPGRGVFGHPMGPKA--------GAKSIRQAWE 404


>pdb|1YKW|A Chain A, Crystal Structure Of A Novel Rubisco-Like Protein From The
           Green Sulfur Bacterium Chlorobium Tepidum
 pdb|1YKW|B Chain B, Crystal Structure Of A Novel Rubisco-Like Protein From The
           Green Sulfur Bacterium Chlorobium Tepidum
          Length = 435

 Score = 28.1 bits (61), Expect = 7.7,   Method: Compositional matrix adjust.
 Identities = 20/55 (36%), Positives = 26/55 (47%), Gaps = 8/55 (14%)

Query: 169 GSMAALALMTVLSVVIGIIFHSVPSQFQTTLPIGEYAAVTLLMFFGLKSIKDAWD 223
           GS +AL L TV   V  + F  VP +     P+G  A        G KSI+ AW+
Sbjct: 358 GSDSALTLQTVYEKVGNVDFGFVPGRGVFGHPMGPKA--------GAKSIRQAWE 404


  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
   0.323    0.137    0.395 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,557,691
Number of Sequences: 62578
Number of extensions: 243670
Number of successful extensions: 444
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 442
Number of HSP's gapped (non-prelim): 6
length of query: 347
length of database: 14,973,337
effective HSP length: 100
effective length of query: 247
effective length of database: 8,715,537
effective search space: 2152737639
effective search space used: 2152737639
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 52 (24.6 bits)