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= 040762
         (195 letters)

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

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



>pdb|3QDN|A Chain A, Putative Thioredoxin Protein From Salmonella Typhimurium
 pdb|3QDN|B Chain B, Putative Thioredoxin Protein From Salmonella Typhimurium
          Length = 287

 Score = 32.0 bits (71), Expect = 0.21,   Method: Compositional matrix adjust.
 Identities = 30/124 (24%), Positives = 49/124 (39%), Gaps = 11/124 (8%)

Query: 26  QLHLVKAQTARAF---IPKEFKLVEAFGYTLGGFFLASYEDSPAGVFDELVVIAGIVWNP 82
           Q+ L +++ A A    IP + +     G       L    D+P     E+  +   V + 
Sbjct: 161 QIALNRSEEAEAVLKTIPLQDQDTRYQGLVAQIELLKQAADTP-----EIQQLQQQVADN 215

Query: 83  PTSCAWAARVLVNSDQACDHGRKHVGLPSQVARFSKRITAVQGQPKGKFNGFLSMMGLGA 142
           P   A A ++ +   Q    GR    L    +   K +TA +GQ +  F   L+ +G G 
Sbjct: 216 PQDAALATQLALQLHQV---GRNEEALELLFSHLRKDLTAAEGQTRKTFQEILAALGTGD 272

Query: 143 TLCS 146
            L S
Sbjct: 273 ALAS 276


>pdb|2UY1|B Chain B, Crystal Structure Of Cstf-77
          Length = 493

 Score = 29.6 bits (65), Expect = 1.1,   Method: Compositional matrix adjust.
 Identities = 23/79 (29%), Positives = 37/79 (46%), Gaps = 6/79 (7%)

Query: 8   CTSGYGKPPWIFKGRALYQLHLVKAQTARAFIPKEFKLVEAFGYTLGGFFLASYEDSPAG 67
             S +G+  W      L+ L++   +  R    K+FKL E + +TLG F   +Y DS  G
Sbjct: 33  LESLFGRCLWKSYNLDLWMLYI---EYVRKVSQKKFKLFEVYEFTLGQF--ENYWDS-YG 86

Query: 68  VFDELVVIAGIVWNPPTSC 86
           +F E +   G + +  T  
Sbjct: 87  LFKEYIEELGKIEDEQTRI 105


>pdb|2WA1|A Chain A, Structure Of The Methyltransferase Domain From Modoc
           Virus, A Flavivirus With No Known Vector (Nkv)
 pdb|2WA1|B Chain B, Structure Of The Methyltransferase Domain From Modoc
           Virus, A Flavivirus With No Known Vector (Nkv)
 pdb|2WA2|A Chain A, Structure Of The Methyltransferase Domain From Modoc
           Virus, A Flavivirus With No Known Vector (Nkv)
 pdb|2WA2|B Chain B, Structure Of The Methyltransferase Domain From Modoc
           Virus, A Flavivirus With No Known Vector (Nkv)
          Length = 276

 Score = 28.5 bits (62), Expect = 2.5,   Method: Compositional matrix adjust.
 Identities = 24/94 (25%), Positives = 42/94 (44%), Gaps = 1/94 (1%)

Query: 1   MEIEGPKCTSGYGKPPWIFKGRALYQLHLVKAQTARAFIPKEFKLVEAFGYTLGGFFLAS 60
           +E++G     G G+  W +   +   +  VKA T      ++ +LVE FG+ L   F + 
Sbjct: 80  VELKGTVVDLGCGRGSWSYYAASQPNVREVKAYTLGTSGHEKPRLVETFGWNL-ITFKSK 138

Query: 61  YEDSPAGVFDELVVIAGIVWNPPTSCAWAARVLV 94
            + +    F    V+  I  + PT+   A+R L 
Sbjct: 139 VDVTKMEPFQADTVLCDIGESNPTAAVEASRTLT 172


>pdb|1K1D|A Chain A, Crystal Structure Of D-Hydantoinase
 pdb|1K1D|B Chain B, Crystal Structure Of D-Hydantoinase
 pdb|1K1D|C Chain C, Crystal Structure Of D-Hydantoinase
 pdb|1K1D|D Chain D, Crystal Structure Of D-Hydantoinase
 pdb|1K1D|E Chain E, Crystal Structure Of D-Hydantoinase
 pdb|1K1D|F Chain F, Crystal Structure Of D-Hydantoinase
 pdb|1K1D|G Chain G, Crystal Structure Of D-Hydantoinase
 pdb|1K1D|H Chain H, Crystal Structure Of D-Hydantoinase
          Length = 460

 Score = 26.9 bits (58), Expect = 7.0,   Method: Compositional matrix adjust.
 Identities = 22/78 (28%), Positives = 33/78 (42%), Gaps = 8/78 (10%)

Query: 21  GRALYQLHLVKAQTARAFIPKEFKLVEAFGYTLGGFFL--ASYEDSPAGVFDELVVIAGI 78
           G  LY +H+  AQ          K ++ +G T   + +   SY + P   F+     A  
Sbjct: 232 GSQLYVVHVTCAQAVEKIAEARNKGLDVWGETCPQYLVLDQSYLEKPN--FEG----AKY 285

Query: 79  VWNPPTSCAWAARVLVNS 96
           VW+PP    W   VL N+
Sbjct: 286 VWSPPLREKWHQEVLWNA 303


  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    0.139    0.442 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,909,978
Number of Sequences: 62578
Number of extensions: 224278
Number of successful extensions: 355
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 352
Number of HSP's gapped (non-prelim): 5
length of query: 195
length of database: 14,973,337
effective HSP length: 94
effective length of query: 101
effective length of database: 9,091,005
effective search space: 918191505
effective search space used: 918191505
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: 49 (23.5 bits)