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= 023751
         (278 letters)

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

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



>pdb|1YTF|D Chain D, Yeast TfiiaTBPDNA COMPLEX
 pdb|1NH2|D Chain D, Crystal Structure Of A Yeast TfiiaTBPDNA COMPLEX
          Length = 121

 Score = 30.0 bits (66), Expect = 1.5,   Method: Compositional matrix adjust.
 Identities = 22/72 (30%), Positives = 33/72 (45%), Gaps = 4/72 (5%)

Query: 25  NKSRMYEIYGHKITKGRGYYVFTFLDYNCTVEFVRSHFLVKEGVRINGQGDSNPTLSVDQ 84
           N      + G+  T G    V+TF+  NC V    SH    +    NG GDS   +SVD+
Sbjct: 54  NTQSKLTVKGNLDTYGFCDDVWTFIVKNCQVTVEDSHRDASQ----NGSGDSQSVISVDK 109

Query: 85  IDKTANKWKRAD 96
           +   A   K+++
Sbjct: 110 LRIVACNSKKSE 121


>pdb|1RM1|B Chain B, Structure Of A Yeast TfiiaTBPTATA-Box Dna Complex
          Length = 122

 Score = 29.6 bits (65), Expect = 1.7,   Method: Compositional matrix adjust.
 Identities = 22/72 (30%), Positives = 33/72 (45%), Gaps = 4/72 (5%)

Query: 25  NKSRMYEIYGHKITKGRGYYVFTFLDYNCTVEFVRSHFLVKEGVRINGQGDSNPTLSVDQ 84
           N      + G+  T G    V+TF+  NC V    SH    +    NG GDS   +SVD+
Sbjct: 55  NTQSKLTVKGNLDTYGFCDDVWTFIVKNCQVTVEDSHRDASQ----NGSGDSQSVISVDK 110

Query: 85  IDKTANKWKRAD 96
           +   A   K+++
Sbjct: 111 LRIVACNSKKSE 122


>pdb|1WP6|A Chain A, Crystal Structure Of Maltohexaose-producing Amylase From
           Alkalophilic Bacillus Sp.707.
 pdb|1WPC|A Chain A, Crystal Structure Of Maltohexaose-Producing Amylase
           Complexed With Pseudo-Maltononaose
 pdb|2D3L|A Chain A, Crystal Structure Of Maltohexaose-Producing Amylase From
           Bacillus Sp.707 Complexed With Maltopentaose.
 pdb|2D3N|A Chain A, Crystal Structure Of Maltohexaose-Producing Amylase From
           Bacillus Sp.707 Complexed With Maltohexaose
          Length = 485

 Score = 28.9 bits (63), Expect = 3.1,   Method: Compositional matrix adjust.
 Identities = 30/131 (22%), Positives = 57/131 (43%), Gaps = 16/131 (12%)

Query: 105 WWVHGKTARGKNYFKEGDYLYPKFDAVEAYRRALKTWGKWIDDNIKPSKQLVFYRGYSSA 164
           W  H ++A GKN F   ++      A+E Y +    W   + D       +  +    +A
Sbjct: 249 WINHVRSATGKNMFAVAEFWKNDLGAIENYLQKTN-WNHSVFD-------VPLHYNLYNA 300

Query: 165 HFRGGDWDSGGSCNG---ETEPIFSGPFLDSYPLK-MKIVEEVIQEMRNPVILLNVTRLT 220
              GG++D     NG   +  P  +  F+D++  +  + +E  ++E   P+       LT
Sbjct: 301 SKSGGNYDMRNIFNGTVVQRHPSHAVTFVDNHDSQPEEALESFVEEWFKPLAYA----LT 356

Query: 221 NYRKDGHPSIY 231
             R+ G+PS++
Sbjct: 357 LTREQGYPSVF 367


>pdb|2WFJ|A Chain A, Atomic Resolution Crystal Structure Of The Ppiase Domain
           Of Human Cyclophilin G In Complex With Cyclosporin A
          Length = 179

 Score = 28.1 bits (61), Expect = 6.1,   Method: Compositional matrix adjust.
 Identities = 26/100 (26%), Positives = 44/100 (44%), Gaps = 9/100 (9%)

Query: 153 KQLVFYRGYSSAHFRGGDWDSGGSCNGETEPIFSGPFLDSYPLKMKIVEEVIQEMRNPVI 212
           K  +F+R       +GGD+  G    GE+  I+ G F +     +K  +E +  M N   
Sbjct: 63  KSCLFHRVVKDFMVQGGDFSEGNGRGGES--IYGG-FFEDESFAVKHNKEFLLSMANRGK 119

Query: 213 LLN-----VTRLTNYRKDGHPSIYGQNVTDGKKISRRRQD 247
             N     +T       DGH  ++GQ V  G+++ R  ++
Sbjct: 120 DTNGSQFFITTKPTPHLDGHHVVFGQ-VISGQEVVREIEN 158


>pdb|2WFI|A Chain A, Atomic Resolution Crystal Structure Of The Ppiase Domain
           Of Human Cyclophilin G
          Length = 179

 Score = 27.7 bits (60), Expect = 7.8,   Method: Compositional matrix adjust.
 Identities = 26/100 (26%), Positives = 44/100 (44%), Gaps = 9/100 (9%)

Query: 153 KQLVFYRGYSSAHFRGGDWDSGGSCNGETEPIFSGPFLDSYPLKMKIVEEVIQEMRNPVI 212
           K  +F+R       +GGD+  G    GE+  I+ G F +     +K  +E +  M N   
Sbjct: 63  KSXLFHRVVKDFMVQGGDFSEGNGRGGES--IYGG-FFEDESFAVKHNKEFLLSMANRGK 119

Query: 213 LLN-----VTRLTNYRKDGHPSIYGQNVTDGKKISRRRQD 247
             N     +T       DGH  ++GQ V  G+++ R  ++
Sbjct: 120 DTNGSQFFITTKPTPHLDGHHVVFGQ-VISGQEVVREIEN 158


  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
   0.321    0.139    0.443 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,308,671
Number of Sequences: 62578
Number of extensions: 409648
Number of successful extensions: 762
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 761
Number of HSP's gapped (non-prelim): 8
length of query: 278
length of database: 14,973,337
effective HSP length: 98
effective length of query: 180
effective length of database: 8,840,693
effective search space: 1591324740
effective search space used: 1591324740
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 51 (24.3 bits)