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= 024610
         (265 letters)

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

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



>pdb|2DO8|A Chain A, Solution Structure Of Upf0301 Protein Hd_1794
          Length = 188

 Score = 31.2 bits (69), Expect = 0.55,   Method: Compositional matrix adjust.
 Identities = 18/78 (23%), Positives = 39/78 (50%), Gaps = 1/78 (1%)

Query: 100 DLDVSYSDRTTLKLPVCSSGDVANA-DKAAIPKVSLVCLTFRASSQAMVDSWSSPFFEAF 158
           D + ++S + T  + + +SGDV ++      P+  +VCL         ++   +  +   
Sbjct: 91  DHEFTHSYKVTDDITLTTSGDVLDSFGTQTAPEKFIVCLGCSTWKPHQLEQEIAQNYWLL 150

Query: 159 SDSKNVHLYEVSFIDSWL 176
           S++ N  L+E S++D W+
Sbjct: 151 SEANNQTLFETSYLDRWV 168


>pdb|4DDG|A Chain A, Crystal Structure Of Human Otub1UBCH5B~UBUB
 pdb|4DDG|B Chain B, Crystal Structure Of Human Otub1UBCH5B~UBUB
 pdb|4DDG|C Chain C, Crystal Structure Of Human Otub1UBCH5B~UBUB
 pdb|4DDG|J Chain J, Crystal Structure Of Human Otub1UBCH5B~UBUB
 pdb|4DDG|K Chain K, Crystal Structure Of Human Otub1UBCH5B~UBUB
 pdb|4DDG|L Chain L, Crystal Structure Of Human Otub1UBCH5B~UBUB
 pdb|4DDI|A Chain A, Crystal Structure Of Human Otub1UBCH5B~UBUB
 pdb|4DDI|B Chain B, Crystal Structure Of Human Otub1UBCH5B~UBUB
 pdb|4DDI|C Chain C, Crystal Structure Of Human Otub1UBCH5B~UBUB
          Length = 399

 Score = 28.5 bits (62), Expect = 4.0,   Method: Compositional matrix adjust.
 Identities = 29/145 (20%), Positives = 60/145 (41%), Gaps = 8/145 (5%)

Query: 81  KIATANKIIIPALAAVKFPDLDV---SYSDRTTLK---LPVCSSGDVANADKAAIPKVSL 134
           K+A   +I  P + +     LD+    +S   T+    L +CS     N D   +P+++ 
Sbjct: 68  KVAFTTRIYHPNINSNGSISLDILRSQWSPALTISKVLLSICSLLCDPNPDDPLVPEIAR 127

Query: 135 VCLTFRASSQAMVDSWSSPFFEAFSDSKNVHLYEVSFIDSWLLCRSPI--KRILLKIMRK 192
           +  T R     +   W+  +    S      + +   I   +  ++P+  +R+ L ++ K
Sbjct: 128 IYKTDREKYNRIAREWTQKYAMGGSAYDEAIMAQQDRIQQEIAVQNPLVSERLELSVLYK 187

Query: 193 SKDAGENVLQRQIVYSFGDHYYFRK 217
                +N+ Q++I      + Y RK
Sbjct: 188 EYAEDDNIYQQKIKDLHKKYSYIRK 212


>pdb|3C4Q|A Chain A, Structure Of The Retaining Glycosyltransferase Msha : The
           First Step In Mycothiol Biosynthesis. Organism :
           Corynebacterium Glutamicum- Complex With Udp
 pdb|3C4Q|B Chain B, Structure Of The Retaining Glycosyltransferase Msha : The
           First Step In Mycothiol Biosynthesis. Organism :
           Corynebacterium Glutamicum- Complex With Udp
 pdb|3C4V|A Chain A, Structure Of The Retaining Glycosyltransferase Msha:the
           First Step In Mycothiol Biosynthesis. Organism:
           Corynebacterium Glutamicum : Complex With Udp And
           1l-Ins-1- P.
 pdb|3C4V|B Chain B, Structure Of The Retaining Glycosyltransferase Msha:the
           First Step In Mycothiol Biosynthesis. Organism:
           Corynebacterium Glutamicum : Complex With Udp And
           1l-Ins-1- P
          Length = 426

 Score = 28.1 bits (61), Expect = 4.9,   Method: Compositional matrix adjust.
 Identities = 26/105 (24%), Positives = 44/105 (41%), Gaps = 11/105 (10%)

Query: 20  QLLTHEHKLFPQHYAQKSSTRFLDIYQLGNKQAVEKERARLADEMNRGYFADVAELKKHG 79
           Q L H +   P   +  S    +++Y  GN +A E+ R  L   ++    A V  L+   
Sbjct: 177 QDLMHHYDADPDRISVVSPGADVELYSPGNDRATERSRRELGIPLHTKVVAFVGRLQPFK 236

Query: 80  GKIATANKIIIPALAAVKFPDLDVSYSDRTTLKLPVCSSGDVANA 124
           G      +++I A+AA+   D D        L++ +C      NA
Sbjct: 237 GP-----QVLIKAVAALFDRDPD------RNLRVIICGGPSGPNA 270


>pdb|3C48|A Chain A, Structure Of The Retaining Glycosyltransferase Msha: The
           First Step In Mycothiol Biosynthesis. Organism:
           Corynebacterium Glutamicum- Apo (Open) Structure.
 pdb|3C48|B Chain B, Structure Of The Retaining Glycosyltransferase Msha: The
           First Step In Mycothiol Biosynthesis. Organism:
           Corynebacterium Glutamicum- Apo (Open) Structure
          Length = 438

 Score = 28.1 bits (61), Expect = 5.6,   Method: Compositional matrix adjust.
 Identities = 26/105 (24%), Positives = 44/105 (41%), Gaps = 11/105 (10%)

Query: 20  QLLTHEHKLFPQHYAQKSSTRFLDIYQLGNKQAVEKERARLADEMNRGYFADVAELKKHG 79
           Q L H +   P   +  S    +++Y  GN +A E+ R  L   ++    A V  L+   
Sbjct: 197 QDLMHHYDADPDRISVVSPGADVELYSPGNDRATERSRRELGIPLHTKVVAFVGRLQPFK 256

Query: 80  GKIATANKIIIPALAAVKFPDLDVSYSDRTTLKLPVCSSGDVANA 124
           G      +++I A+AA+   D D        L++ +C      NA
Sbjct: 257 GP-----QVLIKAVAALFDRDPD------RNLRVIICGGPSGPNA 290


  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    0.136    0.400 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,120,358
Number of Sequences: 62578
Number of extensions: 276653
Number of successful extensions: 681
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 680
Number of HSP's gapped (non-prelim): 5
length of query: 265
length of database: 14,973,337
effective HSP length: 97
effective length of query: 168
effective length of database: 8,903,271
effective search space: 1495749528
effective search space used: 1495749528
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: 50 (23.9 bits)