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= 035093
         (73 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 = 95.1 bits (235), Expect = 8e-21,   Method: Compositional matrix adjust.
 Identities = 40/64 (62%), Positives = 56/64 (87%)

Query: 10  MKDLLSWVGTNLIKERPEMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEEKDVVVFIST 69
           +++LL W+  NL+KERPE+F++GDSVRPG+LVL+ND DWEL G+LD  L+++D ++FIST
Sbjct: 38  IRNLLVWIKKNLLKERPELFIQGDSVRPGILVLINDADWELLGELDYQLQDQDSILFIST 97

Query: 70  LHGG 73
           LHGG
Sbjct: 98  LHGG 101


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

 Score = 94.7 bits (234), Expect = 1e-20,   Method: Compositional matrix adjust.
 Identities = 40/64 (62%), Positives = 56/64 (87%)

Query: 10  MKDLLSWVGTNLIKERPEMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEEKDVVVFIST 69
           +++LL W+  NL+KERPE+F++GDSVRPG+LVL+ND DWEL G+LD  L+++D ++FIST
Sbjct: 45  IRNLLVWIKKNLLKERPELFIQGDSVRPGILVLINDADWELLGELDYQLQDQDSILFIST 104

Query: 70  LHGG 73
           LHGG
Sbjct: 105 LHGG 108


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

 Score = 68.2 bits (165), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 32/66 (48%), Positives = 45/66 (68%), Gaps = 2/66 (3%)

Query: 10  MKDLLSWVGTNLIKERPEMFM--KGDSVRPGVLVLVNDCDWELSGQLDTTLEEKDVVVFI 67
           +  L+  + TN +KERP++ +   G ++RPG+LVLVN CD E+ G +D  L + D V FI
Sbjct: 37  LNGLVQLLKTNYVKERPDLLVDQTGQTLRPGILVLVNSCDAEVVGGMDYVLNDGDTVEFI 96

Query: 68  STLHGG 73
           STLHGG
Sbjct: 97  STLHGG 102


>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 = 28/64 (43%), Positives = 44/64 (68%), Gaps = 2/64 (3%)

Query: 12 DLLSWVGTNLIKERPE--MFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEEKDVVVFIST 69
          DL+  + + +I    +  +F++ DS+RPG++ L+ND DWEL G+ D  LE+ D++ F ST
Sbjct: 36 DLIDHIVSTMINNPNDVSIFIEDDSIRPGIITLINDTDWELEGEKDYILEDGDIISFTST 95

Query: 70 LHGG 73
          LHGG
Sbjct: 96 LHGG 99


>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 = 28/64 (43%), Positives = 44/64 (68%), Gaps = 2/64 (3%)

Query: 12 DLLSWVGTNLIKERPE--MFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEEKDVVVFIST 69
          DL+  + + +I    +  +F++ DS+RPG++ L+ND DWEL G+ D  LE+ D++ F ST
Sbjct: 36 DLIDHIVSTMINNPNDVSIFIEDDSIRPGIITLINDTDWELEGEKDYILEDGDIISFTST 95

Query: 70 LHGG 73
          LHGG
Sbjct: 96 LHGG 99


  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    0.140    0.419 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,111,157
Number of Sequences: 62578
Number of extensions: 65675
Number of successful extensions: 165
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 159
Number of HSP's gapped (non-prelim): 5
length of query: 73
length of database: 14,973,337
effective HSP length: 43
effective length of query: 30
effective length of database: 12,282,483
effective search space: 368474490
effective search space used: 368474490
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: 45 (21.9 bits)