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= 035983
         (109 letters)

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

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



>pdb|3N74|A Chain A, Crystal Structure Of 3-Ketoacyl-(Acyl-Carrier-Protein)
           Reduc Brucella Melitensis
 pdb|3N74|B Chain B, Crystal Structure Of 3-Ketoacyl-(Acyl-Carrier-Protein)
           Reduc Brucella Melitensis
 pdb|3N74|C Chain C, Crystal Structure Of 3-Ketoacyl-(Acyl-Carrier-Protein)
           Reduc Brucella Melitensis
 pdb|3N74|D Chain D, Crystal Structure Of 3-Ketoacyl-(Acyl-Carrier-Protein)
           Reduc Brucella Melitensis
          Length = 261

 Score = 28.1 bits (61), Expect = 1.2,   Method: Compositional matrix adjust.
 Identities = 20/64 (31%), Positives = 33/64 (51%), Gaps = 12/64 (18%)

Query: 24  TVMLKESAKEIRKRFEESRHVTSPTEIQRLL--DEAREASRFI----STMIVQAKLNERG 77
           T  + E ++EIRK+F +S        + RLL  D+  EA+ F+    ++MI    L+  G
Sbjct: 199 TTFMGEDSEEIRKKFRDS------IPMGRLLKPDDLAEAAAFLCSPQASMITGVALDVDG 252

Query: 78  GYEV 81
           G  +
Sbjct: 253 GRSI 256


>pdb|3UKM|A Chain A, Crystal Structure Of The Human Two Pore Domain Potassium
          Ion Channel K2p1 (Twik-1)
 pdb|3UKM|B Chain B, Crystal Structure Of The Human Two Pore Domain Potassium
          Ion Channel K2p1 (Twik-1)
 pdb|3UKM|C Chain C, Crystal Structure Of The Human Two Pore Domain Potassium
          Ion Channel K2p1 (Twik-1)
 pdb|3UKM|D Chain D, Crystal Structure Of The Human Two Pore Domain Potassium
          Ion Channel K2p1 (Twik-1)
          Length = 280

 Score = 26.6 bits (57), Expect = 3.5,   Method: Compositional matrix adjust.
 Identities = 12/54 (22%), Positives = 29/54 (53%)

Query: 26 MLKESAKEIRKRFEESRHVTSPTEIQRLLDEAREASRFISTMIVQAKLNERGGY 79
          +L++  +++++RF E     S  ++++ L    EAS +  +++ QA  N    +
Sbjct: 41 LLRQELRKLKRRFLEEHECLSEQQLEQFLGRVLEASNYGVSVLSQASGNWNWDF 94


>pdb|3CBN|A Chain A, Crystal Structure Of A Conserved Protein (Mth639) From
           Methanobacterium Thermoautotrophicum
          Length = 151

 Score = 25.8 bits (55), Expect = 6.6,   Method: Compositional matrix adjust.
 Identities = 20/59 (33%), Positives = 29/59 (49%), Gaps = 8/59 (13%)

Query: 45  TSPTEIQRLLDEAREASRFISTMIVQAKLNERGGYEVKPTQEHAGATLDIPSEEILRKS 103
           T P E +R +  ARE+S      +V+  L    GY+      H   TLD P++ + RKS
Sbjct: 52  TLPDEXKRAI--ARESS------LVRVILRTENGYDEIRGYGHPELTLDHPTDIVCRKS 102


>pdb|3TU3|B Chain B, 1.92 Angstrom Resolution Crystal Structure Of The
           Full-Length Spcu In Complex With Full-Length Exou From
           The Type Iii Secretion System Of Pseudomonas Aeruginosa
          Length = 711

 Score = 25.4 bits (54), Expect = 8.2,   Method: Compositional matrix adjust.
 Identities = 10/23 (43%), Positives = 16/23 (69%)

Query: 34  IRKRFEESRHVTSPTEIQRLLDE 56
           +R+  E+ RH TSP EI + L++
Sbjct: 655 LRRAEEQLRHATSPAEINQALND 677


>pdb|2L69|A Chain A, Solution Nmr Structure Of De Novo Designed Protein, P-Loop
           Ntpase Fold, Northeast Structural Genomics Consortium
           Target Or28
          Length = 134

 Score = 25.4 bits (54), Expect = 8.3,   Method: Compositional matrix adjust.
 Identities = 12/29 (41%), Positives = 21/29 (72%)

Query: 27  LKESAKEIRKRFEESRHVTSPTEIQRLLD 55
           L+E ++E+R+R  E R VTSP + ++ L+
Sbjct: 90  LEEFSREVRRRGFEVRTVTSPDDFKKSLE 118


>pdb|4AKX|B Chain B, Structure Of The Heterodimeric Complex Exou-Spcu From The
           Type Iii Secretion System (T3ss) Of Pseudomonas
           Aeruginosa
          Length = 660

 Score = 25.4 bits (54), Expect = 9.4,   Method: Compositional matrix adjust.
 Identities = 10/23 (43%), Positives = 16/23 (69%)

Query: 34  IRKRFEESRHVTSPTEIQRLLDE 56
           +R+  E+ RH TSP EI + L++
Sbjct: 604 LRRAEEQLRHATSPAEINQALND 626


>pdb|4EEW|A Chain A, Crystal Structure Of The Ubl Domain Of Bag6
 pdb|4EEW|B Chain B, Crystal Structure Of The Ubl Domain Of Bag6
          Length = 88

 Score = 25.4 bits (54), Expect = 9.5,   Method: Compositional matrix adjust.
 Identities = 14/32 (43%), Positives = 19/32 (59%), Gaps = 6/32 (18%)

Query: 66 TMIVQAKLNERGGYEVKPTQEHAGATLDIPSE 97
          T IV A++N      VK  +EH  A++ IPSE
Sbjct: 31 TFIVGAQMN------VKEFKEHIAASVSIPSE 56


  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    0.128    0.335 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,722,656
Number of Sequences: 62578
Number of extensions: 84620
Number of successful extensions: 312
Number of sequences better than 100.0: 20
Number of HSP's better than 100.0 without gapping: 16
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 296
Number of HSP's gapped (non-prelim): 20
length of query: 109
length of database: 14,973,337
effective HSP length: 73
effective length of query: 36
effective length of database: 10,405,143
effective search space: 374585148
effective search space used: 374585148
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 45 (21.9 bits)