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= psy17234
         (170 letters)

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

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



>pdb|1WJK|A Chain A, Solution Structure Of Hypothetical Protein C330018d20rik
           From Mus Musculus
          Length = 100

 Score = 72.4 bits (176), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 38/71 (53%), Positives = 48/71 (67%), Gaps = 2/71 (2%)

Query: 67  PMLNLFTKDPCPLCDELKLELTPYLDRVHLEEVYLT-PE-SYWYKLYRYEIPVLFLGGRF 124
           P+L LFTK PCPLCDE K  L PY DR  L+EV +T PE S WY+ Y+++IPV  L G+F
Sbjct: 17  PVLTLFTKAPCPLCDEAKEVLQPYKDRFILQEVDITLPENSTWYERYKFDIPVFHLNGQF 76

Query: 125 VCRNRFNAQIL 135
           +  +R N   L
Sbjct: 77  LMMHRVNTSKL 87


>pdb|4AGS|A Chain A, Leishmania Tdr1 - A Unique Trimeric Glutathione
           Transferase
 pdb|4AGS|B Chain B, Leishmania Tdr1 - A Unique Trimeric Glutathione
           Transferase
 pdb|4AGS|C Chain C, Leishmania Tdr1 - A Unique Trimeric Glutathione
           Transferase
          Length = 471

 Score = 28.5 bits (62), Expect = 1.8,   Method: Compositional matrix adjust.
 Identities = 19/52 (36%), Positives = 24/52 (46%), Gaps = 6/52 (11%)

Query: 70  NLFTKDPCPLCDELKLELTPYLDRVHLEEVYLTPESYWYKLY--RYEIPVLF 119
           NLF    CP  D  +L       + H+ EV L P+  WYK    R  +P LF
Sbjct: 258 NLF----CPFVDRARLASELRKFQXHIVEVPLHPQPEWYKYINPRDTVPALF 305


>pdb|1NM3|A Chain A, Crystal Structure Of Heamophilus Influenza Hybrid-prx5
 pdb|1NM3|B Chain B, Crystal Structure Of Heamophilus Influenza Hybrid-prx5
          Length = 241

 Score = 27.7 bits (60), Expect = 2.9,   Method: Compositional matrix adjust.
 Identities = 17/66 (25%), Positives = 33/66 (50%), Gaps = 6/66 (9%)

Query: 64  QRKPMLNLFTKDPCPLCDELKLELTPYLDRVHLEEVYLTPESYWYKL----YRYEIPVLF 119
           Q +  +++FTK  CP C + K  L  +   +  EE+ L  ++    +     R  +P +F
Sbjct: 167 QVQESISIFTKPGCPFCAKAKQLL--HDKGLSFEEIILGHDATIVSVRAVSGRTTVPQVF 224

Query: 120 LGGRFV 125
           +GG+ +
Sbjct: 225 IGGKHI 230


>pdb|3V3E|B Chain B, Crystal Structure Of The Human Nur77 Ligand-Binding Domain
 pdb|3V3E|A Chain A, Crystal Structure Of The Human Nur77 Ligand-Binding Domain
 pdb|3V3Q|A Chain A, Crystal Structure Of Human Nur77 Ligand-Binding Domain In
           Complex With Ethyl 2-[2,3,4
           Trimethoxy-6(1-Octanoyl)phenyl]acetate
 pdb|3V3Q|B Chain B, Crystal Structure Of Human Nur77 Ligand-Binding Domain In
           Complex With Ethyl 2-[2,3,4
           Trimethoxy-6(1-Octanoyl)phenyl]acetate
          Length = 257

 Score = 26.9 bits (58), Expect = 5.3,   Method: Compositional matrix adjust.
 Identities = 20/72 (27%), Positives = 32/72 (44%), Gaps = 3/72 (4%)

Query: 24  NLFTKDLKAHQKGIVVYNTPESTMSVLLEKLPVKSNFITSQRKPMLNLFTKD---PCPLC 80
           N     LK H   +     P S +S LL KLP      T   + +  L  +D   P P+ 
Sbjct: 180 NRIASCLKEHVAAVAGEPQPASCLSRLLGKLPELRTLCTQGLQRIFYLKLEDLVPPPPII 239

Query: 81  DELKLELTPYLD 92
           D++ ++  P+L+
Sbjct: 240 DKIFMDTLPFLE 251


>pdb|4G9I|A Chain A, Crystal Structure Of T.Kodakarensis Hypf
 pdb|4G9I|B Chain B, Crystal Structure Of T.Kodakarensis Hypf
 pdb|4G9I|C Chain C, Crystal Structure Of T.Kodakarensis Hypf
 pdb|4G9I|D Chain D, Crystal Structure Of T.Kodakarensis Hypf
 pdb|4G9I|E Chain E, Crystal Structure Of T.Kodakarensis Hypf
 pdb|4G9I|F Chain F, Crystal Structure Of T.Kodakarensis Hypf
          Length = 772

 Score = 26.9 bits (58), Expect = 5.7,   Method: Composition-based stats.
 Identities = 11/29 (37%), Positives = 18/29 (62%)

Query: 55  PVKSNFITSQRKPMLNLFTKDPCPLCDEL 83
           P +   +TS R+P++ L  K+P PL + L
Sbjct: 268 PEEEEELTSYRRPIITLRKKEPFPLPENL 296


  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
   0.323    0.136    0.406 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,720,466
Number of Sequences: 62578
Number of extensions: 180658
Number of successful extensions: 288
Number of sequences better than 100.0: 15
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 12
Number of HSP's that attempted gapping in prelim test: 283
Number of HSP's gapped (non-prelim): 15
length of query: 170
length of database: 14,973,337
effective HSP length: 92
effective length of query: 78
effective length of database: 9,216,161
effective search space: 718860558
effective search space used: 718860558
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 48 (23.1 bits)