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= 012827
         (455 letters)

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

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



>pdb|1Z2I|A Chain A, Crystal Structure Of Agrobacterium Tumefaciens Malate
           Dehydrogenase, New York Structural Genomics Consortium
 pdb|1Z2I|B Chain B, Crystal Structure Of Agrobacterium Tumefaciens Malate
           Dehydrogenase, New York Structural Genomics Consortium
 pdb|1Z2I|C Chain C, Crystal Structure Of Agrobacterium Tumefaciens Malate
           Dehydrogenase, New York Structural Genomics Consortium
 pdb|1Z2I|D Chain D, Crystal Structure Of Agrobacterium Tumefaciens Malate
           Dehydrogenase, New York Structural Genomics Consortium
          Length = 358

 Score = 30.8 bits (68), Expect = 1.5,   Method: Compositional matrix adjust.
 Identities = 17/56 (30%), Positives = 29/56 (51%), Gaps = 5/56 (8%)

Query: 164 EDGEVQFHPSAPIDV-----ENSPSVVAINVSPIEYGHVLLIPRVLECLPQRIDRD 214
            DG ++FH + PI V     ++ P ++ +  S + Y  VLL   + + LPQ +  D
Sbjct: 156 HDGAMRFHGTNPIAVGVPAADDMPWLLDMATSAVPYNRVLLYRSLGQQLPQGVASD 211


>pdb|3KSV|A Chain A, Hypothetical Protein From Leishmania Major
          Length = 149

 Score = 30.0 bits (66), Expect = 2.9,   Method: Compositional matrix adjust.
 Identities = 26/82 (31%), Positives = 42/82 (51%), Gaps = 11/82 (13%)

Query: 179 ENSPSVVAINVSPIEYGHVLLIPR-VLECLPQRIDRDS----FLLALYMAAEAGNPYFRL 233
           E S ++  ++++P+  GH+L+IP+    CL +    D+     LLA    A AG P   +
Sbjct: 30  ETSKALAFMDINPLSRGHMLVIPKEHASCLHELGMEDAADVGVLLAKASRAVAG-PDGSM 88

Query: 234 GYNSL---GAFA--TINHLHFQ 250
            YN L   G+ A   + H+HF 
Sbjct: 89  QYNVLQNNGSLAHQEVPHVHFH 110


>pdb|2Z87|A Chain A, Crystal Structure Of Chondroitin Polymerase From
           Escherichia Coli Strain K4 (K4cp) Complexed With Udp-
           Galnac And Udp
 pdb|2Z87|B Chain B, Crystal Structure Of Chondroitin Polymerase From
           Escherichia Coli Strain K4 (K4cp) Complexed With Udp-
           Galnac And Udp
          Length = 624

 Score = 28.9 bits (63), Expect = 5.8,   Method: Compositional matrix adjust.
 Identities = 17/57 (29%), Positives = 30/57 (52%), Gaps = 5/57 (8%)

Query: 276 KISELLNYPVRGLVFEGGNSLEDLSN-----TVSDACICLQENNIPYNVLIADCGKR 327
           K  EL +YP + L+ +G + +    N      ++ AC+C Q+    Y V++AD G +
Sbjct: 77  KRKELDDYPRKQLIIDGLSIVIPTYNRAKILAITLACLCNQKTIYDYEVIVADDGSK 133


>pdb|2Z86|A Chain A, Crystal Structure Of Chondroitin Polymerase From
           Escherichia Coli Strain K4 (K4cp) Complexed With
           Udp-Glcua And Udp
 pdb|2Z86|B Chain B, Crystal Structure Of Chondroitin Polymerase From
           Escherichia Coli Strain K4 (K4cp) Complexed With
           Udp-Glcua And Udp
 pdb|2Z86|C Chain C, Crystal Structure Of Chondroitin Polymerase From
           Escherichia Coli Strain K4 (K4cp) Complexed With
           Udp-Glcua And Udp
 pdb|2Z86|D Chain D, Crystal Structure Of Chondroitin Polymerase From
           Escherichia Coli Strain K4 (K4cp) Complexed With
           Udp-Glcua And Udp
          Length = 625

 Score = 28.9 bits (63), Expect = 5.8,   Method: Compositional matrix adjust.
 Identities = 17/57 (29%), Positives = 30/57 (52%), Gaps = 5/57 (8%)

Query: 276 KISELLNYPVRGLVFEGGNSLEDLSN-----TVSDACICLQENNIPYNVLIADCGKR 327
           K  EL +YP + L+ +G + +    N      ++ AC+C Q+    Y V++AD G +
Sbjct: 78  KRKELDDYPRKQLIIDGLSIVIPTYNRAKILAITLACLCNQKTIYDYEVIVADDGSK 134


  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
   0.319    0.137    0.408 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 13,607,858
Number of Sequences: 62578
Number of extensions: 574062
Number of successful extensions: 1218
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 1218
Number of HSP's gapped (non-prelim): 5
length of query: 455
length of database: 14,973,337
effective HSP length: 102
effective length of query: 353
effective length of database: 8,590,381
effective search space: 3032404493
effective search space used: 3032404493
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 53 (25.0 bits)