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= 014630
         (421 letters)

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

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



>pdb|3THT|A Chain A, Crystal Structure And Rna Binding Properties Of The
           RrmALKB DOMAINS In Human Abh8, An Enzyme Catalyzing Trna
           Hypermodification, Northeast Structural Genomics
           Consortium Target Hr5601b
 pdb|3THT|B Chain B, Crystal Structure And Rna Binding Properties Of The
           RrmALKB DOMAINS In Human Abh8, An Enzyme Catalyzing Trna
           Hypermodification, Northeast Structural Genomics
           Consortium Target Hr5601b
 pdb|3THT|C Chain C, Crystal Structure And Rna Binding Properties Of The
           RrmALKB DOMAINS In Human Abh8, An Enzyme Catalyzing Trna
           Hypermodification, Northeast Structural Genomics
           Consortium Target Hr5601b
 pdb|3THT|D Chain D, Crystal Structure And Rna Binding Properties Of The
           RrmALKB DOMAINS In Human Abh8, An Enzyme Catalyzing Trna
           Hypermodification, Northeast Structural Genomics
           Consortium Target Hr5601b
          Length = 345

 Score = 39.7 bits (91), Expect = 0.003,   Method: Compositional matrix adjust.
 Identities = 30/98 (30%), Positives = 42/98 (42%), Gaps = 19/98 (19%)

Query: 248 PDSCIVNIYEEGDCIPPHIDNHD-FVRPFCTVSFLSECNIVFGSNLKVVGAGEFAGSIPI 306
           PD   +N YE G  IP HID H  F     ++S  SE  + F     +        ++P+
Sbjct: 197 PDQMTINQYEPGQGIPAHIDTHSAFEDEIVSLSLGSEIVMDFKHPDGI--------AVPV 248

Query: 307 ALPVGSVLVLNGNAADVAKHCVPAVPTKRISITFRKMD 344
            LP  S+LV+ G +  +  H           IT RK D
Sbjct: 249 MLPRRSLLVMTGESRYLWTH----------GITCRKFD 276


>pdb|3THP|A Chain A, Crystal Structure And Rna Binding Properties Of The
           RrmALKB DOMAINS In Human Abh8, An Enzyme Catalyzing Trna
           Hypermodification, Northeast Structural Genomics
           Consortium Target Hr5601b
          Length = 345

 Score = 37.0 bits (84), Expect = 0.019,   Method: Compositional matrix adjust.
 Identities = 30/98 (30%), Positives = 40/98 (40%), Gaps = 19/98 (19%)

Query: 248 PDSCIVNIYEEGDCIPPHIDNHD-FVRPFCTVSFLSECNIVFGSNLKVVGAGEFAGSIPI 306
           PD   +N YE G  IP HID H  F     ++S  SE    F     +        ++P+
Sbjct: 197 PDQXTINQYEPGQGIPAHIDTHSAFEDEIVSLSLGSEIVXDFKHPDGI--------AVPV 248

Query: 307 ALPVGSVLVLNGNAADVAKHCVPAVPTKRISITFRKMD 344
            LP  S+LV  G +  +  H           IT RK D
Sbjct: 249 XLPRRSLLVXTGESRYLWTH----------GITCRKFD 276


>pdb|3GEM|A Chain A, Crystal Structure Of Short-Chain Dehydrogenase From
           Pseudomonas Syringae
 pdb|3GEM|B Chain B, Crystal Structure Of Short-Chain Dehydrogenase From
           Pseudomonas Syringae
 pdb|3GEM|C Chain C, Crystal Structure Of Short-Chain Dehydrogenase From
           Pseudomonas Syringae
 pdb|3GEM|D Chain D, Crystal Structure Of Short-Chain Dehydrogenase From
           Pseudomonas Syringae
          Length = 260

 Score = 31.2 bits (69), Expect = 1.3,   Method: Compositional matrix adjust.
 Identities = 23/79 (29%), Positives = 36/79 (45%), Gaps = 7/79 (8%)

Query: 146 LELH-EGIFSAAEQKRIVDFVHTLNEMGTKGELKEKTYSAPKKWMRGKGRITIQFGCCYN 204
           + LH E + +A+E   + D VH  +++  KG  K   Y A K    G   +T+ F   + 
Sbjct: 136 INLHCEPLLTASE---VADIVHISDDVTRKGSSKHIAYCATKA---GLESLTLSFAARFA 189

Query: 205 YATDKNGNPPGILQNEPVD 223
                NG  P +L  +P D
Sbjct: 190 PLVKVNGIAPALLXFQPKD 208


>pdb|4HG6|B Chain B, Structure Of A Cellulose Synthase - Cellulose
           Translocation Intermediate
          Length = 707

 Score = 28.5 bits (62), Expect = 7.9,   Method: Compositional matrix adjust.
 Identities = 17/39 (43%), Positives = 22/39 (56%), Gaps = 4/39 (10%)

Query: 35  GSEPDQEASASSG----LAFESHLAETPSPRMSWADMAQ 69
           G+ PDQ   AS+G    +   + L   PSPRM  ADMA+
Sbjct: 405 GNPPDQPCPASAGDLMQVLSSTDLEVPPSPRMQMADMAR 443


  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
   0.318    0.135    0.420 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 13,160,954
Number of Sequences: 62578
Number of extensions: 549012
Number of successful extensions: 1042
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 1040
Number of HSP's gapped (non-prelim): 6
length of query: 421
length of database: 14,973,337
effective HSP length: 101
effective length of query: 320
effective length of database: 8,652,959
effective search space: 2768946880
effective search space used: 2768946880
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 53 (25.0 bits)