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= 045654
         (137 letters)

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

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



>pdb|3BU8|A Chain A, Crystal Structure Of Trf2 Trfh Domain And Tin2 Peptide
           Complex
 pdb|3BU8|B Chain B, Crystal Structure Of Trf2 Trfh Domain And Tin2 Peptide
           Complex
          Length = 235

 Score = 30.8 bits (68), Expect = 0.25,   Method: Compositional matrix adjust.
 Identities = 19/68 (27%), Positives = 31/68 (45%), Gaps = 1/68 (1%)

Query: 43  GIANWVLSFFAHKVFVAFNSTTECFSRKDKCVACGNPVR-LSLMTYVSKVVARLNFFSRV 101
            +  WVL F+ H+   AF  +     R+ + +     VR L     VS+++  +   SR+
Sbjct: 10  AVNRWVLKFYFHEALRAFRGSRYGDFRQIRDIMQALLVRPLGKEHTVSRLLRVMQCLSRI 69

Query: 102 EEGGRGKC 109
           EEG    C
Sbjct: 70  EEGENLDC 77


>pdb|1H6P|A Chain A, Dimeristion Domain From Human Trf2
 pdb|1H6P|B Chain B, Dimeristion Domain From Human Trf2
          Length = 203

 Score = 30.4 bits (67), Expect = 0.33,   Method: Compositional matrix adjust.
 Identities = 19/69 (27%), Positives = 31/69 (44%), Gaps = 1/69 (1%)

Query: 42  PGIANWVLSFFAHKVFVAFNSTTECFSRKDKCVACGNPVR-LSLMTYVSKVVARLNFFSR 100
             +  WVL F+ H+   AF  +     R+ + +     VR L     VS+++  +   SR
Sbjct: 8   EAVNRWVLKFYFHEALRAFRGSRYGDFRQIRDIMQALLVRPLGKEHTVSRLLRVMQCLSR 67

Query: 101 VEEGGRGKC 109
           +EEG    C
Sbjct: 68  IEEGENLDC 76


>pdb|3BUA|A Chain A, Crystal Structure Of Trf2 Trfh Domain And Apollo Peptide
           Complex
 pdb|3BUA|B Chain B, Crystal Structure Of Trf2 Trfh Domain And Apollo Peptide
           Complex
 pdb|3BUA|C Chain C, Crystal Structure Of Trf2 Trfh Domain And Apollo Peptide
           Complex
 pdb|3BUA|D Chain D, Crystal Structure Of Trf2 Trfh Domain And Apollo Peptide
           Complex
          Length = 204

 Score = 30.4 bits (67), Expect = 0.33,   Method: Compositional matrix adjust.
 Identities = 19/69 (27%), Positives = 31/69 (44%), Gaps = 1/69 (1%)

Query: 42  PGIANWVLSFFAHKVFVAFNSTTECFSRKDKCVACGNPVR-LSLMTYVSKVVARLNFFSR 100
             +  WVL F+ H+   AF  +     R+ + +     VR L     VS+++  +   SR
Sbjct: 9   EAVNRWVLKFYFHEALRAFRGSRYGDFRQIRDIMQALLVRPLGKEHTVSRLLRVMQCLSR 68

Query: 101 VEEGGRGKC 109
           +EEG    C
Sbjct: 69  IEEGENLDC 77


>pdb|3S2U|A Chain A, Crystal Structure Of The Pseudomonas Aeruginosa
           Murg:udp-Glcnac Substrate Complex
          Length = 365

 Score = 29.3 bits (64), Expect = 0.68,   Method: Compositional matrix adjust.
 Identities = 19/46 (41%), Positives = 23/46 (50%), Gaps = 3/46 (6%)

Query: 39  DQVPGIANWVLSFFAHKVFVAFNSTTECFSRKDKCVACGNPVRLSL 84
           + V G AN  L+  A +V  AF  T   F   DK +  GNPVR  L
Sbjct: 124 NAVAGTANRSLAPIARRVCEAFPDT---FPASDKRLTTGNPVRGEL 166


>pdb|3M4R|A Chain A, Structure Of The N-Terminal Class Ii Aldolase Domain Of A
           Conserved Protein From Thermoplasma Acidophilum
          Length = 222

 Score = 27.7 bits (60), Expect = 2.2,   Method: Compositional matrix adjust.
 Identities = 12/24 (50%), Positives = 15/24 (62%)

Query: 108 KCEDGMLLEKHNLLIIWPTGIEAF 131
           K  DG++L KH LL    TG EA+
Sbjct: 178 KGIDGIVLRKHGLLTFGDTGKEAY 201


  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
   0.324    0.139    0.437 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,127,125
Number of Sequences: 62578
Number of extensions: 152417
Number of successful extensions: 370
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: 369
Number of HSP's gapped (non-prelim): 5
length of query: 137
length of database: 14,973,337
effective HSP length: 89
effective length of query: 48
effective length of database: 9,403,895
effective search space: 451386960
effective search space used: 451386960
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 46 (22.3 bits)