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= 025332
         (254 letters)

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

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



>pdb|3QN3|A Chain A, Phosphopyruvate Hydratase From Campylobacter Jejuni.
 pdb|3QN3|B Chain B, Phosphopyruvate Hydratase From Campylobacter Jejuni.
 pdb|3QN3|C Chain C, Phosphopyruvate Hydratase From Campylobacter Jejuni.
 pdb|3QN3|D Chain D, Phosphopyruvate Hydratase From Campylobacter Jejuni
          Length = 417

 Score = 28.9 bits (63), Expect = 3.1,   Method: Compositional matrix adjust.
 Identities = 11/27 (40%), Positives = 17/27 (62%)

Query: 183 RERKYHQQNTAYELNALSTQWRELCAK 209
           ++ KYH +  A+   AL  ++ ELCAK
Sbjct: 250 KDGKYHMEGKAFSSEALIERYVELCAK 276


>pdb|1TU1|A Chain A, Crystal Structure Of Protein Of Unknown Function Pa94 From
           Pseudomonas Aeruginosa, Putative Regulator
 pdb|1TU1|B Chain B, Crystal Structure Of Protein Of Unknown Function Pa94 From
           Pseudomonas Aeruginosa, Putative Regulator
          Length = 148

 Score = 28.5 bits (62), Expect = 3.5,   Method: Compositional matrix adjust.
 Identities = 16/30 (53%), Positives = 19/30 (63%), Gaps = 3/30 (10%)

Query: 97  PAVLDTTRYQLEILPANKRNDESAWKQALQ 126
           PAVL TT   L   PA+  + E AWKQA+Q
Sbjct: 111 PAVLITT---LTTTPADLPHHEPAWKQAMQ 137


>pdb|1MDA|L Chain L, Crystal Structure Of An Electron-Transfer Complex Between
           Methylamine Dehydrogenase And Amicyanin
 pdb|1MDA|M Chain M, Crystal Structure Of An Electron-Transfer Complex Between
           Methylamine Dehydrogenase And Amicyanin
          Length = 121

 Score = 28.5 bits (62), Expect = 4.2,   Method: Compositional matrix adjust.
 Identities = 12/42 (28%), Positives = 19/42 (45%)

Query: 197 NALSTQWRELCAKNIEIQAACANIESHIEELRKEAAESGWNL 238
           N   T +R+ C  N+  + AC N E  +    K+A +  W  
Sbjct: 62  NKYITAYRDCCGYNVSGRCACLNTEGELPVYNKDANDIIWCF 103


>pdb|1S94|A Chain A, Crystal Structure Of The Habc Domain Of Neuronal Syntaxin
           From The Squid Loligo Pealei
 pdb|1S94|B Chain B, Crystal Structure Of The Habc Domain Of Neuronal Syntaxin
           From The Squid Loligo Pealei
          Length = 180

 Score = 27.7 bits (60), Expect = 6.5,   Method: Compositional matrix adjust.
 Identities = 16/69 (23%), Positives = 35/69 (50%), Gaps = 2/69 (2%)

Query: 149 GPEVWRQHNQRLEALLLGMQRLAQEQNEKIEAV--NRERKYHQQNTAYELNALSTQWREL 206
            P+   Q  + LE L+  ++R A +   K++ +  N E++ H   ++ +L    TQ+  +
Sbjct: 72  APQTDDQMKEELEELMTDIKRTANKVRGKLKTIELNIEQEEHSNKSSADLRIRKTQYSTI 131

Query: 207 CAKNIEIQA 215
             K +E+ +
Sbjct: 132 SRKFVEVMS 140


>pdb|4ATM|A Chain A, Crystal Structure Of The Bar Domain Of Human Amphiphysin,
           Isoform 1 At 1.8 Angstrom Resolution Featuring Increased
           Order At The N-Terminus
          Length = 243

 Score = 27.7 bits (60), Expect = 6.5,   Method: Compositional matrix adjust.
 Identities = 15/34 (44%), Positives = 22/34 (64%), Gaps = 3/34 (8%)

Query: 101 DTTRYQLEILPANKRNDESAWKQA---LQKAQRL 131
           D+ R+ LE L ++KR DES   +A    QKAQ++
Sbjct: 147 DSARHHLEALQSSKRKDESRISKAEEEFQKAQKV 180


>pdb|3SOG|A Chain A, Crystal Structure Of The Bar Domain Of Human Amphiphysin,
           Isoform 1
          Length = 205

 Score = 27.7 bits (60), Expect = 6.8,   Method: Compositional matrix adjust.
 Identities = 15/34 (44%), Positives = 22/34 (64%), Gaps = 3/34 (8%)

Query: 101 DTTRYQLEILPANKRNDESAWKQA---LQKAQRL 131
           D+ R+ LE L ++KR DES   +A    QKAQ++
Sbjct: 115 DSARHHLEALQSSKRKDESRISKAEEEFQKAQKV 148


  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
   0.314    0.129    0.372 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,312,237
Number of Sequences: 62578
Number of extensions: 273493
Number of successful extensions: 696
Number of sequences better than 100.0: 20
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 14
Number of HSP's that attempted gapping in prelim test: 688
Number of HSP's gapped (non-prelim): 24
length of query: 254
length of database: 14,973,337
effective HSP length: 97
effective length of query: 157
effective length of database: 8,903,271
effective search space: 1397813547
effective search space used: 1397813547
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: 50 (23.9 bits)