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= 039237
         (98 letters)

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

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



>pdb|3GG2|A Chain A, Crystal Structure Of Udp-Glucose 6-Dehydrogenase From
           Porphyromonas Gingivalis Bound To Product
           Udp-Glucuronate
 pdb|3GG2|B Chain B, Crystal Structure Of Udp-Glucose 6-Dehydrogenase From
           Porphyromonas Gingivalis Bound To Product
           Udp-Glucuronate
 pdb|3GG2|C Chain C, Crystal Structure Of Udp-Glucose 6-Dehydrogenase From
           Porphyromonas Gingivalis Bound To Product
           Udp-Glucuronate
 pdb|3GG2|D Chain D, Crystal Structure Of Udp-Glucose 6-Dehydrogenase From
           Porphyromonas Gingivalis Bound To Product
           Udp-Glucuronate
          Length = 450

 Score = 27.3 bits (59), Expect = 2.3,   Method: Composition-based stats.
 Identities = 14/28 (50%), Positives = 18/28 (64%)

Query: 68  QAAEDSGSRICGLEAVEEDNEIQVQVNF 95
           + AED+G R+  LEAVE  NE Q  + F
Sbjct: 278 RTAEDNGYRMEVLEAVERVNEKQKSILF 305


>pdb|3HDX|A Chain A, Crystal Structure Of Susd Superfamily Protein
           (Np_809182.1) From Bacteroides Thetaiotaomicron Vpi-5482
           At 1.50 A Resolution
          Length = 478

 Score = 26.2 bits (56), Expect = 5.3,   Method: Composition-based stats.
 Identities = 13/37 (35%), Positives = 17/37 (45%)

Query: 52  KYLNLAAFVSQEDHHHQAAEDSGSRICGLEAVEEDNE 88
           KY ++A   S+    +  A   GSRI G      DNE
Sbjct: 233 KYTSIADLTSETGLFYSNASVKGSRILGFNFAHNDNE 269


>pdb|1WEV|A Chain A, Solution Structure Of Phd Domain In Protein Np_082203
          Length = 88

 Score = 26.2 bits (56), Expect = 5.4,   Method: Compositional matrix adjust.
 Identities = 10/21 (47%), Positives = 14/21 (66%)

Query: 1  MGSGERLVACGTCKNLIHEEC 21
          + SG +LV C  C NL H++C
Sbjct: 27 VASGNQLVECQECHNLYHQDC 47


>pdb|3QR5|A Chain A, Structure Of The First Domain Of A Cardiac Ryanodine
          Receptor Mutant With Exon 3 Deleted
 pdb|3QR5|B Chain B, Structure Of The First Domain Of A Cardiac Ryanodine
          Receptor Mutant With Exon 3 Deleted
          Length = 185

 Score = 25.4 bits (54), Expect = 8.4,   Method: Compositional matrix adjust.
 Identities = 15/47 (31%), Positives = 24/47 (51%), Gaps = 1/47 (2%)

Query: 47 RTDQDKYLNLAAFVSQEDHHH-QAAEDSGSRICGLEAVEEDNEIQVQ 92
          RTD +  L   A + +E      AAE  G+R+C LE+     ++ V+
Sbjct: 18 RTDDEVVLQCTATIHKEQQKLCLAAEGFGNRLCFLESTSNSKQVDVE 64


>pdb|3R2N|A Chain A, Crystal Structure Of Cytidine Deaminase From Mycobacterium
           Leprae
 pdb|3R2N|B Chain B, Crystal Structure Of Cytidine Deaminase From Mycobacterium
           Leprae
 pdb|3R2N|C Chain C, Crystal Structure Of Cytidine Deaminase From Mycobacterium
           Leprae
 pdb|3R2N|D Chain D, Crystal Structure Of Cytidine Deaminase From Mycobacterium
           Leprae
          Length = 138

 Score = 25.0 bits (53), Expect = 9.9,   Method: Compositional matrix adjust.
 Identities = 8/18 (44%), Positives = 14/18 (77%)

Query: 2   GSGERLVACGTCKNLIHE 19
           G+G+ L+ CG C+ L++E
Sbjct: 85  GNGDSLMPCGRCRQLLYE 102


  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
   0.320    0.132    0.430 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,096,673
Number of Sequences: 62578
Number of extensions: 104629
Number of successful extensions: 314
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 310
Number of HSP's gapped (non-prelim): 7
length of query: 98
length of database: 14,973,337
effective HSP length: 64
effective length of query: 34
effective length of database: 10,968,345
effective search space: 372923730
effective search space used: 372923730
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)