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= 042214
         (165 letters)

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

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



>pdb|2QGH|A Chain A, Crystal Structure Of Diaminopimelate Decarboxylase From
           Helicobacter Pylori Complexed With L-Lysine
          Length = 425

 Score = 29.3 bits (64), Expect = 1.1,   Method: Compositional matrix adjust.
 Identities = 17/40 (42%), Positives = 23/40 (57%)

Query: 107 AEEADPFGLDEFLTEVEKGGKKALDKVGTGGTMRASAGSS 146
            E +D F  D  L E+E G K A++KVG  G+  AS  +S
Sbjct: 349 CESSDTFLKDAHLPELEPGDKIAIEKVGAYGSSMASQYNS 388


>pdb|3C5Q|A Chain A, Crystal Structure Of Diaminopimelate Decarboxylase (I148l
           Mutant) From Helicobacter Pylori Complexed With L-Lysine
          Length = 425

 Score = 29.3 bits (64), Expect = 1.1,   Method: Compositional matrix adjust.
 Identities = 17/40 (42%), Positives = 23/40 (57%)

Query: 107 AEEADPFGLDEFLTEVEKGGKKALDKVGTGGTMRASAGSS 146
            E +D F  D  L E+E G K A++KVG  G+  AS  +S
Sbjct: 349 CESSDTFLKDAHLPELEPGDKIAIEKVGAYGSSMASQYNS 388


>pdb|3J0K|C Chain C, Orientation Of Rna Polymerase Ii Within The Human
           Vp16-Mediator-Pol Ii-Tfiif Assembly
          Length = 268

 Score = 28.9 bits (63), Expect = 1.5,   Method: Compositional matrix adjust.
 Identities = 19/70 (27%), Positives = 29/70 (41%), Gaps = 6/70 (8%)

Query: 84  DKGFAGSSERSGPRDRPVEFEKEAEEADPFGL----DEFLTEVEKGGKKALDKVGTGG-- 137
           D  +   S +  P+ +  E+E    E DPF      D F   VE  G   +D+V   G  
Sbjct: 190 DYWYEQDSAKEWPQSKNCEYEDPPNEGDPFDYKAQADTFYMNVESVGSIPVDQVVVRGID 249

Query: 138 TMRASAGSSM 147
           T++    S +
Sbjct: 250 TLQKKVASIL 259


>pdb|1I3Q|C Chain C, Rna Polymerase Ii Crystal Form I At 3.1 A Resolution
 pdb|1I50|C Chain C, Rna Polymerase Ii Crystal Form Ii At 2.8 A Resolution
 pdb|1I6H|C Chain C, Rna Polymerase Ii Elongation Complex
 pdb|1K83|C Chain C, Crystal Structure Of Yeast Rna Polymerase Ii Complexed
           With The Inhibitor Alpha Amanitin
 pdb|1NIK|C Chain C, Wild Type Rna Polymerase Ii
 pdb|1NT9|C Chain C, Complete 12-Subunit Rna Polymerase Ii
 pdb|1PQV|C Chain C, Rna Polymerase Ii-Tfiis Complex
 pdb|1R5U|C Chain C, Rna Polymerase Ii Tfiib Complex
 pdb|1SFO|C Chain C, Rna Polymerase Ii Strand Separated Elongation Complex
 pdb|1R9S|C Chain C, Rna Polymerase Ii Strand Separated Elongation Complex,
           Matched Nucleotide
 pdb|1R9T|C Chain C, Rna Polymerase Ii Strand Separated Elongation Complex,
           Mismatched Nucleotide
 pdb|1TWA|C Chain C, Rna Polymerase Ii Complexed With Atp
 pdb|1TWC|C Chain C, Rna Polymerase Ii Complexed With Gtp
 pdb|1TWF|C Chain C, Rna Polymerase Ii Complexed With Utp At 2.3 A Resolution
 pdb|1TWG|C Chain C, Rna Polymerase Ii Complexed With Ctp
 pdb|1TWH|C Chain C, Rna Polymerase Ii Complexed With 2'datp
 pdb|1WCM|C Chain C, Complete 12-Subunit Rna Polymerase Ii At 3.8 Ang
 pdb|1Y1W|C Chain C, Complete Rna Polymerase Ii Elongation Complex
 pdb|1Y77|C Chain C, Complete Rna Polymerase Ii Elongation Complex With
           Substrate Analogue Gmpcpp
 pdb|1Y1V|C Chain C, Refined Rna Polymerase Ii-tfiis Complex
 pdb|1Y1Y|C Chain C, Rna Polymerase Ii-Tfiis-DnaRNA COMPLEX
 pdb|2B63|C Chain C, Complete Rna Polymerase Ii-Rna Inhibitor Complex
 pdb|2B8K|C Chain C, 12-Subunit Rna Polymerase Ii
 pdb|2E2H|C Chain C, Rna Polymerase Ii Elongation Complex At 5 Mm Mg2+ With Gtp
 pdb|2E2I|C Chain C, Rna Polymerase Ii Elongation Complex In 5 Mm Mg+2 With 2'-
           Dgtp
 pdb|2E2J|C Chain C, Rna Polymerase Ii Elongation Complex In 5 Mm Mg+2 With
           Gmpcpp
 pdb|2NVQ|C Chain C, Rna Polymerase Ii Elongation Complex In 150 Mm Mg+2 With
           2'dutp
 pdb|2NVT|C Chain C, Rna Polymerase Ii Elongation Complex In 150 Mm Mg+2 With
           Gmpcpp
 pdb|2NVX|C Chain C, Rna Polymerase Ii Elongation Complex In 5 Mm Mg+2 With 2'-
           Dutp
 pdb|2NVY|C Chain C, Rna Polymerase Ii Form Ii In 150 Mm Mn+2
 pdb|2NVZ|C Chain C, Rna Polymerase Ii Elongation Complex With Utp, Updated
           112006
 pdb|2JA5|C Chain C, Cpd Lesion Containing Rna Polymerase Ii Elongation Complex
           A
 pdb|2JA6|C Chain C, Cpd Lesion Containing Rna Polymerase Ii Elongation Complex
           B
 pdb|2JA7|C Chain C, Cpd Lesion Containing Rna Polymerase Ii Elongation Complex
           C
 pdb|2JA7|O Chain O, Cpd Lesion Containing Rna Polymerase Ii Elongation Complex
           C
 pdb|2JA8|C Chain C, Cpd Lesion Containing Rna Polymerase Ii Elongation Complex
           D
 pdb|2YU9|C Chain C, Rna Polymerase Ii Elongation Complex In 150 Mm Mg+2 With
           Utp
 pdb|2R7Z|C Chain C, Cisplatin Lesion Containing Rna Polymerase Ii Elongation
           Complex
 pdb|2R92|C Chain C, Elongation Complex Of Rna Polymerase Ii With Artificial
           Rdrp Scaffold
 pdb|2R93|C Chain C, Elongation Complex Of Rna Polymerase Ii With A Hepatitis
           Delta Virus-Derived Rna Stem Loop
 pdb|2VUM|C Chain C, Alpha-Amanitin Inhibited Complete Rna Polymerase Ii
           Elongation Complex
 pdb|3CQZ|C Chain C, Crystal Structure Of 10 Subunit Rna Polymerase Ii In
           Complex With The Inhibitor Alpha-Amanitin
 pdb|3FKI|C Chain C, 12-Subunit Rna Polymerase Ii Refined With Zn-Sad Data
 pdb|3GTG|C Chain C, Backtracked Rna Polymerase Ii Complex With 12mer Rna
 pdb|3GTJ|C Chain C, Backtracked Rna Polymerase Ii Complex With 13mer Rna
 pdb|3GTK|C Chain C, Backtracked Rna Polymerase Ii Complex With 18mer Rna
 pdb|3GTL|C Chain C, Backtracked Rna Polymerase Ii Complex With 13mer With G<>u
           Mismatch
 pdb|3GTM|C Chain C, Co-Complex Of Backtracked Rna Polymerase Ii With Tfiis
 pdb|3GTO|C Chain C, Backtracked Rna Polymerase Ii Complex With 15mer Rna
 pdb|3GTP|C Chain C, Backtracked Rna Polymerase Ii Complex With 24mer Rna
 pdb|3GTQ|C Chain C, Backtracked Rna Polymerase Ii Complex Induced By Damage
 pdb|3H3V|D Chain D, Yeast Rnap Ii Containing Poly(A)-Signal Sequence In The
           Active Site
 pdb|3HOU|C Chain C, Complete Rna Polymerase Ii Elongation Complex I With A T-U
           Mismatch
 pdb|3HOU|O Chain O, Complete Rna Polymerase Ii Elongation Complex I With A T-U
           Mismatch
 pdb|3HOV|C Chain C, Complete Rna Polymerase Ii Elongation Complex Ii
 pdb|3K1F|C Chain C, Crystal Structure Of Rna Polymerase Ii In Complex With
           Tfiib
 pdb|3K7A|C Chain C, Crystal Structure Of An Rna Polymerase Ii-Tfiib Complex
 pdb|3M3Y|C Chain C, Rna Polymerase Ii Elongation Complex C
 pdb|3M4O|C Chain C, Rna Polymerase Ii Elongation Complex B
 pdb|3PO2|C Chain C, Arrested Rna Polymerase Ii Elongation Complex
 pdb|3PO3|C Chain C, Arrested Rna Polymerase Ii Reactivation Intermediate
 pdb|3QT1|C Chain C, Rna Polymerase Ii Variant Containing A Chimeric Rpb9-C11
           Subunit
 pdb|3RZD|C Chain C, Rna Polymerase Ii Initiation Complex With A 5-Nt Rna
 pdb|3RZO|C Chain C, Rna Polymerase Ii Initiation Complex With A 4-Nt Rna
 pdb|3S14|C Chain C, Rna Polymerase Ii Initiation Complex With A 6-Nt Rna
 pdb|3S15|C Chain C, Rna Polymerase Ii Initiation Complex With A 7-Nt Rna
 pdb|3S16|C Chain C, Rna Polymerase Ii Initiation Complex With An 8-Nt Rna
 pdb|3S17|C Chain C, Rna Polymerase Ii Initiation Complex With A 9-Nt Rna
 pdb|3S1M|C Chain C, Rna Polymerase Ii Initiation Complex With A 5-Nt Rna
           (Variant 1)
 pdb|3S1N|C Chain C, Rna Polymerase Ii Initiation Complex With A 5-Nt Rna
           (Variant 2)
 pdb|3S1Q|C Chain C, Rna Polymerase Ii Initiation Complex With A 5-Nt 3'-Deoxy
           Rna Soaked With Atp
 pdb|3S1R|C Chain C, Rna Polymerase Ii Initiation Complex With A 5-Nt 3'-Deoxy
           Rna Soaked With Gtp
 pdb|3S2D|C Chain C, Rna Polymerase Ii Initiation Complex With A 5-Nt Rna
           Containing A 5br- U
 pdb|3S2H|C Chain C, Rna Polymerase Ii Initiation Complex With A 6-Nt Rna
           Containing A 2[prime]-Iodo Atp
 pdb|4A3C|C Chain C, Rna Polymerase Ii Initial Transcribing Complex With A 5nt
           Dna-Rna Hybrid
 pdb|4A3B|C Chain C, Rna Polymerase Ii Initial Transcribing Complex With A 4nt
           Dna-Rna Hybrid
 pdb|4A3D|C Chain C, Rna Polymerase Ii Initial Transcribing Complex With A 6nt
           Dna-Rna Hybrid
 pdb|4A3E|C Chain C, Rna Polymerase Ii Initial Transcribing Complex With A 5nt
           Dna-Rna Hybrid And Soaked With Ampcpp
 pdb|4A3F|C Chain C, Rna Polymerase Ii Initial Transcribing Complex With A 6nt
           Dna-Rna Hybrid And Soaked With Ampcpp
 pdb|4A3J|C Chain C, Rna Polymerase Ii Initial Transcribing Complex With A 2nt
           Dna-Rna Hybrid And Soaked With Gmpcpp
 pdb|4A3K|C Chain C, Rna Polymerase Ii Initial Transcribing Complex With A 7nt
           Dna-Rna Hybrid
 pdb|4A3L|C Chain C, Rna Polymerase Ii Initial Transcribing Complex With A 7nt
           Dna-Rna Hybrid And Soaked With Ampcpp
 pdb|4A3M|C Chain C, Rna Polymerase Ii Initial Transcribing Complex With A 4nt
           Dna-Rna Hybrid And Soaked With Ampcpp
 pdb|4A3G|C Chain C, Rna Polymerase Ii Initial Transcribing Complex With A 2nt
           Dna-Rna Hybrid
 pdb|4A3I|C Chain C, Rna Polymerase Ii Binary Complex With Dna
 pdb|4A93|C Chain C, Rna Polymerase Ii Elongation Complex Containing A Cpd
           Lesion
 pdb|4BBR|C Chain C, Structure Of Rna Polymerase Ii-tfiib Complex
 pdb|4BBS|C Chain C, Structure Of An Initially Transcribing Rna Polymerase Ii-
           Tfiib Complex
          Length = 318

 Score = 28.5 bits (62), Expect = 1.7,   Method: Compositional matrix adjust.
 Identities = 19/70 (27%), Positives = 29/70 (41%), Gaps = 6/70 (8%)

Query: 84  DKGFAGSSERSGPRDRPVEFEKEAEEADPFGL----DEFLTEVEKGGKKALDKVGTGG-- 137
           D  +   S +  P+ +  E+E    E DPF      D F   VE  G   +D+V   G  
Sbjct: 190 DYWYEQDSAKEWPQSKNCEYEDPPNEGDPFDYKAQADTFYMNVESVGSIPVDQVVVRGID 249

Query: 138 TMRASAGSSM 147
           T++    S +
Sbjct: 250 TLQKKVASIL 259


>pdb|3I4M|C Chain C, 8-oxoguanine Containing Rna Polymerase Ii Elongation
           Complex D
 pdb|3I4N|C Chain C, 8-oxoguanine Containing Rna Polymerase Ii Elongation
           Complex E
          Length = 324

 Score = 28.5 bits (62), Expect = 1.7,   Method: Compositional matrix adjust.
 Identities = 19/70 (27%), Positives = 29/70 (41%), Gaps = 6/70 (8%)

Query: 84  DKGFAGSSERSGPRDRPVEFEKEAEEADPFGL----DEFLTEVEKGGKKALDKVGTGG-- 137
           D  +   S +  P+ +  E+E    E DPF      D F   VE  G   +D+V   G  
Sbjct: 196 DYWYEQDSAKEWPQSKNCEYEDPPNEGDPFDYKAQADTFYMNVESVGSIPVDQVVVRGID 255

Query: 138 TMRASAGSSM 147
           T++    S +
Sbjct: 256 TLQKKVASIL 265


>pdb|3UG3|A Chain A, Crystal Structure Of Alpha-L-Arabinofuranosidase From
           Thermotoga Maritima Ligand Free Form
 pdb|3UG3|B Chain B, Crystal Structure Of Alpha-L-Arabinofuranosidase From
           Thermotoga Maritima Ligand Free Form
 pdb|3UG3|C Chain C, Crystal Structure Of Alpha-L-Arabinofuranosidase From
           Thermotoga Maritima Ligand Free Form
 pdb|3UG3|D Chain D, Crystal Structure Of Alpha-L-Arabinofuranosidase From
           Thermotoga Maritima Ligand Free Form
 pdb|3UG3|E Chain E, Crystal Structure Of Alpha-L-Arabinofuranosidase From
           Thermotoga Maritima Ligand Free Form
 pdb|3UG3|F Chain F, Crystal Structure Of Alpha-L-Arabinofuranosidase From
           Thermotoga Maritima Ligand Free Form
 pdb|3UG4|A Chain A, Crystal Structure Of Alpha-L-Arabinofuranosidase From
           Thermotoga Maritima Arabinose Complex
 pdb|3UG4|B Chain B, Crystal Structure Of Alpha-L-Arabinofuranosidase From
           Thermotoga Maritima Arabinose Complex
 pdb|3UG4|C Chain C, Crystal Structure Of Alpha-L-Arabinofuranosidase From
           Thermotoga Maritima Arabinose Complex
 pdb|3UG4|D Chain D, Crystal Structure Of Alpha-L-Arabinofuranosidase From
           Thermotoga Maritima Arabinose Complex
 pdb|3UG4|E Chain E, Crystal Structure Of Alpha-L-Arabinofuranosidase From
           Thermotoga Maritima Arabinose Complex
 pdb|3UG4|F Chain F, Crystal Structure Of Alpha-L-Arabinofuranosidase From
           Thermotoga Maritima Arabinose Complex
 pdb|3UG5|A Chain A, Crystal Structure Of Alpha-L-Arabinofuranosidase From
           Thermotoga Maritima Xylose Complex
 pdb|3UG5|B Chain B, Crystal Structure Of Alpha-L-Arabinofuranosidase From
           Thermotoga Maritima Xylose Complex
 pdb|3UG5|C Chain C, Crystal Structure Of Alpha-L-Arabinofuranosidase From
           Thermotoga Maritima Xylose Complex
 pdb|3UG5|D Chain D, Crystal Structure Of Alpha-L-Arabinofuranosidase From
           Thermotoga Maritima Xylose Complex
 pdb|3UG5|E Chain E, Crystal Structure Of Alpha-L-Arabinofuranosidase From
           Thermotoga Maritima Xylose Complex
 pdb|3UG5|F Chain F, Crystal Structure Of Alpha-L-Arabinofuranosidase From
           Thermotoga Maritima Xylose Complex
          Length = 504

 Score = 28.5 bits (62), Expect = 1.8,   Method: Composition-based stats.
 Identities = 18/49 (36%), Positives = 27/49 (55%), Gaps = 4/49 (8%)

Query: 95  GPRD-RPVEFEK--EAEEADPFGLDEFLTEVEKGGKKALDKVGTG-GTM 139
           GP+D RPV F+   + EE + FG DEF+    + G +    +  G GT+
Sbjct: 103 GPKDQRPVRFDLAWQQEETNRFGTDEFIEYCREIGAEPYISINMGTGTL 151


>pdb|3HOW|C Chain C, Complete Rna Polymerase Ii Elongation Complex Iii With A
           T-U Mismatch And A Frayed Rna 3'-Uridine
 pdb|3HOX|C Chain C, Complete Rna Polymerase Ii Elongation Complex V
 pdb|3HOY|C Chain C, Complete Rna Polymerase Ii Elongation Complex Vi
 pdb|3HOZ|C Chain C, Complete Rna Polymerase Ii Elongation Complex Iv With A
           T-U Mismatch And A Frayed Rna 3'-Guanine
          Length = 347

 Score = 28.5 bits (62), Expect = 1.9,   Method: Compositional matrix adjust.
 Identities = 19/70 (27%), Positives = 29/70 (41%), Gaps = 6/70 (8%)

Query: 84  DKGFAGSSERSGPRDRPVEFEKEAEEADPFGL----DEFLTEVEKGGKKALDKVGTGG-- 137
           D  +   S +  P+ +  E+E    E DPF      D F   VE  G   +D+V   G  
Sbjct: 219 DYWYEQDSAKEWPQSKNCEYEDPPNEGDPFDYKAQADTFYMNVESVGSIPVDQVVVRGID 278

Query: 138 TMRASAGSSM 147
           T++    S +
Sbjct: 279 TLQKKVASIL 288


>pdb|4ATW|A Chain A, The Crystal Structure Of Arabinofuranosidase
 pdb|4ATW|B Chain B, The Crystal Structure Of Arabinofuranosidase
 pdb|4ATW|C Chain C, The Crystal Structure Of Arabinofuranosidase
 pdb|4ATW|D Chain D, The Crystal Structure Of Arabinofuranosidase
 pdb|4ATW|E Chain E, The Crystal Structure Of Arabinofuranosidase
 pdb|4ATW|F Chain F, The Crystal Structure Of Arabinofuranosidase
          Length = 482

 Score = 27.7 bits (60), Expect = 3.3,   Method: Compositional matrix adjust.
 Identities = 18/49 (36%), Positives = 27/49 (55%), Gaps = 4/49 (8%)

Query: 95  GPRD-RPVEFE--KEAEEADPFGLDEFLTEVEKGGKKALDKVGTG-GTM 139
           GP+D RPV F+   + EE + FG DEF+    + G +    +  G GT+
Sbjct: 83  GPKDQRPVRFDLAWQQEETNRFGTDEFIEYCREIGAEPYISINMGTGTL 131


>pdb|1K1X|A Chain A, Crystal Structure Of 4-Alpha-Glucanotransferase From
           Thermococcus Litoralis
 pdb|1K1X|B Chain B, Crystal Structure Of 4-Alpha-Glucanotransferase From
           Thermococcus Litoralis
 pdb|1K1Y|A Chain A, Crystal Structure Of Thermococcus Litoralis
           4-Alpha-Glucanotransferase Complexed With Acarbose
 pdb|1K1Y|B Chain B, Crystal Structure Of Thermococcus Litoralis
           4-Alpha-Glucanotransferase Complexed With Acarbose
          Length = 659

 Score = 27.7 bits (60), Expect = 3.5,   Method: Composition-based stats.
 Identities = 13/31 (41%), Positives = 20/31 (64%), Gaps = 1/31 (3%)

Query: 98  DRPVEFE-KEAEEADPFGLDEFLTEVEKGGK 127
           ++P EFE KE E  DP+G+ +   E++K  K
Sbjct: 585 EKPEEFEAKEFEVNDPYGIGKVRIELDKAAK 615


>pdb|3S2C|A Chain A, Structure Of The Thermostable Gh51
           Alpha-L-Arabinofuranosidase From Thermotoga Petrophila
           Rku-1
 pdb|3S2C|B Chain B, Structure Of The Thermostable Gh51
           Alpha-L-Arabinofuranosidase From Thermotoga Petrophila
           Rku-1
 pdb|3S2C|C Chain C, Structure Of The Thermostable Gh51
           Alpha-L-Arabinofuranosidase From Thermotoga Petrophila
           Rku-1
 pdb|3S2C|D Chain D, Structure Of The Thermostable Gh51
           Alpha-L-Arabinofuranosidase From Thermotoga Petrophila
           Rku-1
 pdb|3S2C|E Chain E, Structure Of The Thermostable Gh51
           Alpha-L-Arabinofuranosidase From Thermotoga Petrophila
           Rku-1
 pdb|3S2C|F Chain F, Structure Of The Thermostable Gh51
           Alpha-L-Arabinofuranosidase From Thermotoga Petrophila
           Rku-1
 pdb|3S2C|G Chain G, Structure Of The Thermostable Gh51
           Alpha-L-Arabinofuranosidase From Thermotoga Petrophila
           Rku-1
 pdb|3S2C|H Chain H, Structure Of The Thermostable Gh51
           Alpha-L-Arabinofuranosidase From Thermotoga Petrophila
           Rku-1
 pdb|3S2C|I Chain I, Structure Of The Thermostable Gh51
           Alpha-L-Arabinofuranosidase From Thermotoga Petrophila
           Rku-1
 pdb|3S2C|J Chain J, Structure Of The Thermostable Gh51
           Alpha-L-Arabinofuranosidase From Thermotoga Petrophila
           Rku-1
 pdb|3S2C|K Chain K, Structure Of The Thermostable Gh51
           Alpha-L-Arabinofuranosidase From Thermotoga Petrophila
           Rku-1
 pdb|3S2C|L Chain L, Structure Of The Thermostable Gh51
           Alpha-L-Arabinofuranosidase From Thermotoga Petrophila
           Rku-1
          Length = 484

 Score = 27.3 bits (59), Expect = 3.6,   Method: Compositional matrix adjust.
 Identities = 18/49 (36%), Positives = 27/49 (55%), Gaps = 4/49 (8%)

Query: 95  GPRD-RPVEFE--KEAEEADPFGLDEFLTEVEKGGKKALDKVGTG-GTM 139
           GP+D RPV F+   + EE + FG DEF+    + G +    +  G GT+
Sbjct: 83  GPKDQRPVRFDLAWQQEETNRFGTDEFIEYCREIGAEPYISINMGTGTL 131


>pdb|1K1W|A Chain A, Crystal Structure Of 4-Alpha-Glucanotransferase From
           Thermococcus Litoralis
          Length = 659

 Score = 27.3 bits (59), Expect = 3.7,   Method: Composition-based stats.
 Identities = 13/31 (41%), Positives = 20/31 (64%), Gaps = 1/31 (3%)

Query: 98  DRPVEFE-KEAEEADPFGLDEFLTEVEKGGK 127
           ++P EFE KE E  DP+G+ +   E++K  K
Sbjct: 585 EKPEEFEAKEFEVNDPYGIGKVRIELDKAAK 615


>pdb|4FGM|A Chain A, Crystal Structure Of The Aminopeptidase N Family Protein
           Q5qty1 From Idiomarina Loihiensis. Northeast Structural
           Genomics Consortium Target Ilr60
          Length = 597

 Score = 26.6 bits (57), Expect = 6.6,   Method: Composition-based stats.
 Identities = 18/65 (27%), Positives = 26/65 (40%), Gaps = 1/65 (1%)

Query: 19  FNQEKGMD-SGFATDDQYNVYDKGLFTAQPTLSTLYRPKKDADDDMYGGNADEQMEKIMK 77
            NQ  G+D S F  D  YN     L           + +   DD+  GG A EQ  ++  
Sbjct: 428 LNQYPGIDISDFLKDALYNKESLSLVELLQNFGVXVQKQVPVDDNSVGGKASEQPARVNF 487

Query: 78  TDRFK 82
             ++K
Sbjct: 488 GAKYK 492


  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
   0.311    0.133    0.378 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,694,887
Number of Sequences: 62578
Number of extensions: 257949
Number of successful extensions: 397
Number of sequences better than 100.0: 13
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 11
Number of HSP's that attempted gapping in prelim test: 395
Number of HSP's gapped (non-prelim): 13
length of query: 165
length of database: 14,973,337
effective HSP length: 91
effective length of query: 74
effective length of database: 9,278,739
effective search space: 686626686
effective search space used: 686626686
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 47 (22.7 bits)