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= 040944
         (188 letters)

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

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



>pdb|4GYI|A Chain A, Crystal Structure Of The Rio2
          Kinase-AdpMG2+-Phosphoaspartate Complex From Chaetomium
          Thermophilum
          Length = 397

 Score = 48.1 bits (113), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 20/33 (60%), Positives = 27/33 (81%)

Query: 1  MKLDVDVLRYLSKDDFKVLTAVETGMRNHEIVP 33
          MKLD   +R+L+ +D++VLTAVE G +NHEIVP
Sbjct: 2  MKLDTRAMRHLTAEDWRVLTAVEMGSKNHEIVP 34



 Score = 31.2 bits (69), Expect = 0.34,   Method: Compositional matrix adjust.
 Identities = 12/24 (50%), Positives = 15/24 (62%)

Query: 41  CFSQALEEHGFPVPSAVDCNRHCI 64
            F +AL E GFPVP  +  +RH I
Sbjct: 165 AFMKALYEEGFPVPEPIAQSRHTI 188


>pdb|4GYG|A Chain A, Crystal Structure Of The Rio2 Kinase From Chaetomium
          Thermophilum
          Length = 397

 Score = 48.1 bits (113), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 20/33 (60%), Positives = 27/33 (81%)

Query: 1  MKLDVDVLRYLSKDDFKVLTAVETGMRNHEIVP 33
          MKLD   +R+L+ +D++VLTAVE G +NHEIVP
Sbjct: 2  MKLDTRAMRHLTAEDWRVLTAVEMGSKNHEIVP 34



 Score = 31.2 bits (69), Expect = 0.34,   Method: Compositional matrix adjust.
 Identities = 12/24 (50%), Positives = 15/24 (62%)

Query: 41  CFSQALEEHGFPVPSAVDCNRHCI 64
            F +AL E GFPVP  +  +RH I
Sbjct: 165 AFMKALYEEGFPVPEPIAQSRHTI 188


>pdb|3MTQ|A Chain A, Crystal Structure Of A Putative
           Phosphoenolpyruvate-Dependen Phosphotransferase System
           (Pts) Permease (Kpn_04802) From K Pneumoniae Subsp.
           Pneumoniae Mgh 78578 At 1.70 A Resolution
 pdb|3MTQ|B Chain B, Crystal Structure Of A Putative
           Phosphoenolpyruvate-Dependen Phosphotransferase System
           (Pts) Permease (Kpn_04802) From K Pneumoniae Subsp.
           Pneumoniae Mgh 78578 At 1.70 A Resolution
          Length = 159

 Score = 30.4 bits (67), Expect = 0.55,   Method: Compositional matrix adjust.
 Identities = 25/90 (27%), Positives = 43/90 (47%), Gaps = 9/90 (10%)

Query: 7   VLRYLSKDDFKVLTAVETGMRNHEIVPFRTRAS-HCFSQALEEHGFPVPSAVDCNRHCID 65
           V R+ ++D+  V+T +  G  N+E V F +R   H  S      G  +P  +D      +
Sbjct: 71  VARFPAQDELIVITDIFAGSVNNEFVRFLSRPHFHLLS------GLNLPLIIDLLISAAE 124

Query: 66  DDEKGVIHKDPALNSKKEGVSEENQQNSEA 95
           D+ + +I +  AL + KE +   NQ  + A
Sbjct: 125 DNTEKLITE--ALTNAKESIQYCNQTIASA 152


>pdb|3QD9|A Chain A, C72sC353S MUTANT OF TRYPANOSOMA BRUCEI QSOX CONTAINING AN
           INTERDOMAIN Disulfide
 pdb|3QD9|B Chain B, C72sC353S MUTANT OF TRYPANOSOMA BRUCEI QSOX CONTAINING AN
           INTERDOMAIN Disulfide
 pdb|3QD9|C Chain C, C72sC353S MUTANT OF TRYPANOSOMA BRUCEI QSOX CONTAINING AN
           INTERDOMAIN Disulfide
 pdb|3QD9|D Chain D, C72sC353S MUTANT OF TRYPANOSOMA BRUCEI QSOX CONTAINING AN
           INTERDOMAIN Disulfide
          Length = 470

 Score = 26.6 bits (57), Expect = 9.8,   Method: Compositional matrix adjust.
 Identities = 18/68 (26%), Positives = 30/68 (44%), Gaps = 3/68 (4%)

Query: 60  NRHCIDDD---EKGVIHKDPALNSKKEGVSEENQQNSEAGRGSEPDRHNASDKVGAIIFC 116
           N+H + DD   E+ +        SK+E V        E+GR  E     A+D  GA    
Sbjct: 152 NKHMVVDDSLKERCIDMHFKLYTSKEELVKRSVSSTDESGRFVETTELYATDIAGAFFSA 211

Query: 117 EYFEIDLL 124
            ++++ L+
Sbjct: 212 MHYDVSLV 219


  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
   0.315    0.133    0.385 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,578,889
Number of Sequences: 62578
Number of extensions: 220381
Number of successful extensions: 438
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 432
Number of HSP's gapped (non-prelim): 10
length of query: 188
length of database: 14,973,337
effective HSP length: 93
effective length of query: 95
effective length of database: 9,153,583
effective search space: 869590385
effective search space used: 869590385
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 48 (23.1 bits)