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= psy7155
         (169 letters)

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

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



>pdb|1DP7|P Chain P, Cocrystal Structure Of Rfx-Dbd In Complex With Its Cognate
           X-Box Binding Site
          Length = 76

 Score = 93.6 bits (231), Expect = 5e-20,   Method: Compositional matrix adjust.
 Identities = 41/52 (78%), Positives = 47/52 (90%)

Query: 88  TVQWLIDNYETAEGVSLPRSSLFNHYIRHCAENKLDAVNAASFGKLIRSVFI 139
           TVQWL+DNYETAEGVSLPRS+L+NHY+ H  E KL+ VNAASFGKLIRSVF+
Sbjct: 1   TVQWLLDNYETAEGVSLPRSTLYNHYLLHSQEQKLEPVNAASFGKLIRSVFM 52


>pdb|3HWR|A Chain A, Crystal Structure Of PaneAPBA FAMILY KETOPANTOATE
           REDUCTASE (Yp_299159.1) From Ralstonia Eutropha Jmp134
           At 2.15 A Resolution
 pdb|3HWR|B Chain B, Crystal Structure Of PaneAPBA FAMILY KETOPANTOATE
           REDUCTASE (Yp_299159.1) From Ralstonia Eutropha Jmp134
           At 2.15 A Resolution
          Length = 318

 Score = 27.7 bits (60), Expect = 3.1,   Method: Compositional matrix adjust.
 Identities = 11/31 (35%), Positives = 18/31 (58%)

Query: 106 RSSLFNHYIRHCAENKLDAVNAASFGKLIRS 136
           R +L+   I +CA N L A+    +G+L+R 
Sbjct: 191 RGALWAKLILNCAYNALSAITQLPYGRLVRG 221


>pdb|2GO1|A Chain A, Nad-Dependent Formate Dehydrogenase From Pseudomonas
          Sp.101
          Length = 401

 Score = 27.3 bits (59), Expect = 4.3,   Method: Compositional matrix adjust.
 Identities = 11/36 (30%), Positives = 22/36 (61%), Gaps = 2/36 (5%)

Query: 8  PAQLIGNVNGTYLIQQTVEPTEHATIIATTASRDSP 43
          P QL+G+V+G   +++ +E   H  ++  T+ +D P
Sbjct: 47 PGQLLGSVSGELGLRKYLESNGHTLVV--TSDKDGP 80


>pdb|2GUG|A Chain A, Nad-dependent Formate Dehydrogenase From Pseudomonas
          Sp.101 In Complex With Formate
 pdb|2GUG|B Chain B, Nad-dependent Formate Dehydrogenase From Pseudomonas
          Sp.101 In Complex With Formate
 pdb|2GUG|C Chain C, Nad-dependent Formate Dehydrogenase From Pseudomonas
          Sp.101 In Complex With Formate
 pdb|2GUG|D Chain D, Nad-dependent Formate Dehydrogenase From Pseudomonas
          Sp.101 In Complex With Formate
          Length = 401

 Score = 27.3 bits (59), Expect = 4.4,   Method: Compositional matrix adjust.
 Identities = 11/36 (30%), Positives = 22/36 (61%), Gaps = 2/36 (5%)

Query: 8  PAQLIGNVNGTYLIQQTVEPTEHATIIATTASRDSP 43
          P QL+G+V+G   +++ +E   H  ++  T+ +D P
Sbjct: 47 PGQLLGSVSGELGLRKYLESNGHTLVV--TSDKDGP 80


>pdb|2NAC|A Chain A, High Resolution Structures Of Holo And Apo Formate
          Dehydrogenase
 pdb|2NAC|B Chain B, High Resolution Structures Of Holo And Apo Formate
          Dehydrogenase
 pdb|2NAD|A Chain A, High Resolution Structures Of Holo And Apo Formate
          Dehydrogenase
 pdb|2NAD|B Chain B, High Resolution Structures Of Holo And Apo Formate
          Dehydrogenase
          Length = 393

 Score = 27.3 bits (59), Expect = 4.6,   Method: Compositional matrix adjust.
 Identities = 11/36 (30%), Positives = 22/36 (61%), Gaps = 2/36 (5%)

Query: 8  PAQLIGNVNGTYLIQQTVEPTEHATIIATTASRDSP 43
          P QL+G+V+G   +++ +E   H  ++  T+ +D P
Sbjct: 46 PGQLLGSVSGELGLRKYLESNGHTLVV--TSDKDGP 79


>pdb|4A8E|A Chain A, The Structure Of A Dimeric Xer Recombinase From Archaea
          Length = 292

 Score = 26.6 bits (57), Expect = 6.5,   Method: Compositional matrix adjust.
 Identities = 14/41 (34%), Positives = 19/41 (46%)

Query: 83  KISPATVQWLIDNYETAEGVSLPRSSLFNHYIRHCAENKLD 123
           K+SP TV  L+  Y    GV L    L + +  H  E  +D
Sbjct: 202 KLSPKTVWRLVKKYGRKAGVELTPHQLRHSFATHMLERGID 242


  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
   0.313    0.125    0.355 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,166,013
Number of Sequences: 62578
Number of extensions: 148774
Number of successful extensions: 256
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 253
Number of HSP's gapped (non-prelim): 8
length of query: 169
length of database: 14,973,337
effective HSP length: 92
effective length of query: 77
effective length of database: 9,216,161
effective search space: 709644397
effective search space used: 709644397
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 48 (23.1 bits)