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= 034866
         (80 letters)

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

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



>pdb|1WXS|A Chain A, Solution Structure Of Ufm1, A Ubiquitin-Fold Modifier
          Length = 90

 Score =  109 bits (272), Expect = 4e-25,   Method: Compositional matrix adjust.
 Identities = 52/71 (73%), Positives = 61/71 (85%)

Query: 1  MTSRGKVSFKVTLTSDPKLPFKVFSVPEAAPFTVVLKFAAEEFKVPPQTSAIITNDGVGI 60
          + S  KVSFK+TLTSDP+LP+KV SVPE+ PFT VLKFAAEEFKVP  TSAIITNDG+GI
Sbjct: 3  LGSMSKVSFKITLTSDPRLPYKVLSVPESTPFTAVLKFAAEEFKVPAATSAIITNDGIGI 62

Query: 61 NPQQSAGILFI 71
          NP Q+AG +F+
Sbjct: 63 NPAQTAGNVFL 73


>pdb|1J0G|A Chain A, Solution Structure Of Mouse Hypothetical 9.1 Kda
          Protein, A Ubiquitin-Like Fold
          Length = 92

 Score =  108 bits (271), Expect = 5e-25,   Method: Compositional matrix adjust.
 Identities = 51/66 (77%), Positives = 59/66 (89%)

Query: 6  KVSFKVTLTSDPKLPFKVFSVPEAAPFTVVLKFAAEEFKVPPQTSAIITNDGVGINPQQS 65
          KVSFK+TLTSDP+LP+KV SVPE+ PFT VLKFAAEEFKVP  TSAIITNDG+GINP Q+
Sbjct: 10 KVSFKITLTSDPRLPYKVLSVPESTPFTAVLKFAAEEFKVPAATSAIITNDGIGINPAQT 69

Query: 66 AGILFI 71
          AG +F+
Sbjct: 70 AGNVFL 75


>pdb|1L7Y|A Chain A, Solution Nmr Structure Of C. Elegans Protein Zk652.3.
          Northeast Structural Genomics Consortium Target Wr41
          Length = 94

 Score =  108 bits (271), Expect = 5e-25,   Method: Compositional matrix adjust.
 Identities = 53/70 (75%), Positives = 60/70 (85%)

Query: 2  TSRGKVSFKVTLTSDPKLPFKVFSVPEAAPFTVVLKFAAEEFKVPPQTSAIITNDGVGIN 61
          T+  KV+FK+TLTSDPKLPFKV SVPE+ PFT VLKFAAEEFKVP  TSAIITNDGVG+N
Sbjct: 9  TAGSKVTFKITLTSDPKLPFKVLSVPESTPFTAVLKFAAEEFKVPAATSAIITNDGVGVN 68

Query: 62 PQQSAGILFI 71
          P Q AG +F+
Sbjct: 69 PAQPAGNIFL 78


>pdb|1M9Z|A Chain A, Crystal Structure Of Human Tgf-beta Type Ii Receptor
          Ligand Binding Domain
          Length = 111

 Score = 28.5 bits (62), Expect = 1.1,   Method: Compositional matrix adjust.
 Identities = 15/38 (39%), Positives = 22/38 (57%), Gaps = 4/38 (10%)

Query: 12 TLTSDPKLPFKVFSVPEAAPFTVVLKFAAEEFKVPPQT 49
          T+  DPKLP+  F + +AA  T ++K    E K P +T
Sbjct: 51 TVCHDPKLPYHDFILEDAASPTCIMK----EKKKPGET 84


>pdb|3DS8|A Chain A, The Crysatl Structure Of The Gene Lin2722 Products From
           Listeria Innocua
          Length = 254

 Score = 26.9 bits (58), Expect = 2.7,   Method: Compositional matrix adjust.
 Identities = 21/63 (33%), Positives = 28/63 (44%), Gaps = 7/63 (11%)

Query: 1   MTSRGKVSFKVTLTSDPKLPFKVFSVP--EAAP--FTVVLKFAAEEFKVPPQTSAIITND 56
           + S GK+ F+  LT D K P   F     +A P  ++  LK A E+ K           D
Sbjct: 41  VNSEGKIKFEGKLTKDAKRPIIKFGFEQNQATPDDWSKWLKIAXEDLK---SRYGFTQXD 97

Query: 57  GVG 59
           GVG
Sbjct: 98  GVG 100


>pdb|1VCM|A Chain A, Crystal Structure Of T.Th. Hb8 Ctp Synthetase
 pdb|1VCN|A Chain A, Crystal Structure Of T.th. Hb8 Ctp Synthetase Complex With
           Sulfate Anion
          Length = 550

 Score = 26.6 bits (57), Expect = 3.5,   Method: Composition-based stats.
 Identities = 11/23 (47%), Positives = 14/23 (60%)

Query: 40  AEEFKVPPQTSAIITNDGVGINP 62
           +EEFK  P   ++ T  GVGI P
Sbjct: 194 SEEFKTKPTQHSVATLRGVGIQP 216


>pdb|1VCO|A Chain A, Crystal Structure Of T.Th. Hb8 Ctp Synthetase Complex With
           Glutamine
          Length = 550

 Score = 26.6 bits (57), Expect = 3.5,   Method: Composition-based stats.
 Identities = 11/23 (47%), Positives = 14/23 (60%)

Query: 40  AEEFKVPPQTSAIITNDGVGINP 62
           +EEFK  P   ++ T  GVGI P
Sbjct: 194 SEEFKTKPTQHSVATLRGVGIQP 216


  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
   0.322    0.137    0.392 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,089,081
Number of Sequences: 62578
Number of extensions: 60860
Number of successful extensions: 137
Number of sequences better than 100.0: 13
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 130
Number of HSP's gapped (non-prelim): 13
length of query: 80
length of database: 14,973,337
effective HSP length: 49
effective length of query: 31
effective length of database: 11,907,015
effective search space: 369117465
effective search space used: 369117465
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)