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= 034276
         (99 letters)

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

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



>pdb|1XO3|A Chain A, Solution Structure Of Ubiquitin Like Protein From Mus
           Musculus
          Length = 101

 Score =  100 bits (249), Expect = 2e-22,   Method: Compositional matrix adjust.
 Identities = 47/84 (55%), Positives = 64/84 (76%), Gaps = 2/84 (2%)

Query: 16  DSVKVHNVDVVPPKGSEKLIMKDLLSWVGTNLIKERPEMFMKGDSVRPGVLVLVNDCDWE 75
           D VK H V +  P   E   +++LL W+  NL+KERPE+F++GDSVRPG+LVL+ND DWE
Sbjct: 20  DGVKKHQVAL--PGQEEPWDIRNLLVWIKKNLLKERPELFIQGDSVRPGILVLINDADWE 77

Query: 76  LSGQLDTTLEEKDVVVFISTLHGG 99
           L G+LD  L+++D ++FISTLHGG
Sbjct: 78  LLGELDYQLQDQDSILFISTLHGG 101


>pdb|1WGK|A Chain A, Solution Structure Of Mouse Hypothetical Protein
           2900073h19rik
          Length = 114

 Score =  100 bits (249), Expect = 2e-22,   Method: Compositional matrix adjust.
 Identities = 47/84 (55%), Positives = 64/84 (76%), Gaps = 2/84 (2%)

Query: 16  DSVKVHNVDVVPPKGSEKLIMKDLLSWVGTNLIKERPEMFMKGDSVRPGVLVLVNDCDWE 75
           D VK H V +  P   E   +++LL W+  NL+KERPE+F++GDSVRPG+LVL+ND DWE
Sbjct: 27  DGVKKHQVAL--PGQEEPWDIRNLLVWIKKNLLKERPELFIQGDSVRPGILVLINDADWE 84

Query: 76  LSGQLDTTLEEKDVVVFISTLHGG 99
           L G+LD  L+++D ++FISTLHGG
Sbjct: 85  LLGELDYQLQDQDSILFISTLHGG 108


>pdb|2K9X|A Chain A, Solution Structure Of Urm1 From Trypanosoma Brucei
          Length = 110

 Score = 69.7 bits (169), Expect = 3e-13,   Method: Compositional matrix adjust.
 Identities = 36/79 (45%), Positives = 51/79 (64%), Gaps = 5/79 (6%)

Query: 23  VDVVPPKGSEKLIMKDLLSWVGTNLIKERPEMFM--KGDSVRPGVLVLVNDCDWELSGQL 80
           +D V P G+    +  L+  + TN +KERP++ +   G ++RPG+LVLVN CD E+ G +
Sbjct: 27  LDGVVPTGTN---LNGLVQLLKTNYVKERPDLLVDQTGQTLRPGILVLVNSCDAEVVGGM 83

Query: 81  DTTLEEKDVVVFISTLHGG 99
           D  L + D V FISTLHGG
Sbjct: 84  DYVLNDGDTVEFISTLHGG 102


>pdb|2AX5|A Chain A, Solution Structure Of Urm1 From Saccharomyces Cerevisiae
          Length = 107

 Score = 63.5 bits (153), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 25/46 (54%), Positives = 36/46 (78%)

Query: 54 MFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEEKDVVVFISTLHGG 99
          +F++ DS+RPG++ L+ND DWEL G+ D  LE+ D++ F STLHGG
Sbjct: 54 IFIEDDSIRPGIITLINDTDWELEGEKDYILEDGDIISFTSTLHGG 99


>pdb|2QJL|A Chain A, Crystal Structure Of Urm1
 pdb|2PKO|A Chain A, Crystal Structure Of Yeast Urm1 At 1.8 A Resolution
          Length = 99

 Score = 63.5 bits (153), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 25/46 (54%), Positives = 36/46 (78%)

Query: 54 MFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEEKDVVVFISTLHGG 99
          +F++ DS+RPG++ L+ND DWEL G+ D  LE+ D++ F STLHGG
Sbjct: 54 IFIEDDSIRPGIITLINDTDWELEGEKDYILEDGDIISFTSTLHGG 99


>pdb|4DVJ|A Chain A, Crystal Structure Of A Putative Zinc-Dependent Alcohol
           Dehydrogenase Protein From Rhizobium Etli Cfn 42
 pdb|4DVJ|B Chain B, Crystal Structure Of A Putative Zinc-Dependent Alcohol
           Dehydrogenase Protein From Rhizobium Etli Cfn 42
          Length = 363

 Score = 27.7 bits (60), Expect = 1.7,   Method: Composition-based stats.
 Identities = 25/80 (31%), Positives = 40/80 (50%), Gaps = 11/80 (13%)

Query: 17  SVKVHNVDV-----VPPKGSE-KLIMKD---LLSWVGTNLIKERP--EMFMKGDSVRPGV 65
           +V V+ VD       PP G++ K+I  D   ++S VG ++   RP  E+F  G  +RPG 
Sbjct: 61  AVSVNPVDYKVRRSTPPDGTDWKVIGYDAAGIVSAVGPDVTLFRPGDEVFYAGSIIRPGT 120

Query: 66  LVLVNDCDWELSGQLDTTLE 85
               +  D  + G+   TL+
Sbjct: 121 NAEFHLVDERIVGRKPKTLD 140


  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
   0.318    0.138    0.416 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,676,016
Number of Sequences: 62578
Number of extensions: 91033
Number of successful extensions: 202
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 196
Number of HSP's gapped (non-prelim): 6
length of query: 99
length of database: 14,973,337
effective HSP length: 65
effective length of query: 34
effective length of database: 10,905,767
effective search space: 370796078
effective search space used: 370796078
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 45 (21.9 bits)