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= 001516
         (1062 letters)

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

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



>pdb|2LQ6|A Chain A, Solution Structure Of Brd1 Phd2 Finger
          Length = 87

 Score = 46.6 bits (109), Expect = 8e-05,   Method: Composition-based stats.
 Identities = 24/63 (38%), Positives = 36/63 (57%), Gaps = 9/63 (14%)

Query: 830 CCICRHKH-GICIKCNYGNCQTTFHPTCARSAGFYLNVKS----TGG----NFQHKAYCE 880
           C +C+ K  G  I+C+  NC T FH TCA+ AG Y+ ++     TGG    + +  AYC+
Sbjct: 20  CYLCKQKGVGASIQCHKANCYTAFHVTCAQKAGLYMKMEPVKELTGGGTTFSVRKTAYCD 79

Query: 881 KHS 883
            H+
Sbjct: 80  VHT 82



 Score = 37.7 bits (86), Expect = 0.030,   Method: Composition-based stats.
 Identities = 17/41 (41%), Positives = 24/41 (58%), Gaps = 1/41 (2%)

Query: 50 IKETRMKLVCNICRVK-CGACVRCSHGTCRTSFHPICAREA 89
          I   R KL C +C+ K  GA ++C    C T+FH  CA++A
Sbjct: 11 IPPARWKLTCYLCKQKGVGASIQCHKANCYTAFHVTCAQKA 51


>pdb|3TSP|A Chain A, Crystal Structure Of E. Coli Hypf
 pdb|3TSU|A Chain A, Crystal Structure Of E. Coli Hypf With Amp-Pnp And Carbamoyl
            Phosphate
 pdb|3TTC|A Chain A, Crystal Structure Of E. Coli Hypf With Adp And Carbamoyl
            Phosphate
 pdb|3TTF|A Chain A, Crystal Structure Of E. Coli Hypf With Amp And Carbamoyl
            Phosphate
          Length = 657

 Score = 32.7 bits (73), Expect = 1.2,   Method: Compositional matrix adjust.
 Identities = 18/51 (35%), Positives = 26/51 (50%), Gaps = 1/51 (1%)

Query: 958  PPDVSSESATTSLKGHTDSFKSCS-EAFQRSDDVTVDSAASVKNRIKVYVP 1007
            PP +S+E A   L+G  D F   + +  QR DD  V  +  +  R + YVP
Sbjct: 240  PPAISNEQALEDLQGIADGFLIHNRDIVQRMDDSVVRESGEMLRRSRGYVP 290


>pdb|3TSQ|A Chain A, Crystal Structure Of E. Coli Hypf With Atp And Carbamoyl
            Phosphate
 pdb|3TTD|A Chain A, Crystal Structure Of E. Coli Hypf With Amp-Cpp And Carbamoyl
            Phosphate
          Length = 658

 Score = 32.3 bits (72), Expect = 1.3,   Method: Compositional matrix adjust.
 Identities = 18/51 (35%), Positives = 26/51 (50%), Gaps = 1/51 (1%)

Query: 958  PPDVSSESATTSLKGHTDSFKSCS-EAFQRSDDVTVDSAASVKNRIKVYVP 1007
            PP +S+E A   L+G  D F   + +  QR DD  V  +  +  R + YVP
Sbjct: 240  PPAISNEQALEDLQGIADGFLIHNRDIVQRMDDSVVRESGEMLRRSRGYVP 290


>pdb|2DB6|A Chain A, Solution Structure Of Rsgi Ruh-051, A C1 Domain Of Stac3
           From Human Cdna
          Length = 74

 Score = 30.4 bits (67), Expect = 5.4,   Method: Compositional matrix adjust.
 Identities = 19/66 (28%), Positives = 30/66 (45%), Gaps = 7/66 (10%)

Query: 683 PRILSDKNSDSLQSVSDFSKEHPRSCDICRRSETILNPI-LICSGCKVAVHLDC--YRNA 739
           P++++DK         D   + P+ CD+C R   + N   L C  CK  +H  C  Y   
Sbjct: 10  PKLVNDK----PHKFKDHFFKKPKFCDVCARMIVLNNKFGLRCKNCKTNIHEHCQSYVEM 65

Query: 740 KESTGP 745
           +  +GP
Sbjct: 66  QRCSGP 71


>pdb|2KU3|A Chain A, Solution Structure Of Brd1 Phd1 Finger
          Length = 71

 Score = 30.0 bits (66), Expect = 7.2,   Method: Composition-based stats.
 Identities = 16/40 (40%), Positives = 19/40 (47%), Gaps = 1/40 (2%)

Query: 708 CDICRRSETI-LNPILICSGCKVAVHLDCYRNAKESTGPW 746
           C IC   E+   N IL C  C +AVH +CY       G W
Sbjct: 19  CSICMDGESQNSNVILFCDMCNLAVHQECYGVPYIPEGQW 58


  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
   0.316    0.131    0.394 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 29,229,148
Number of Sequences: 62578
Number of extensions: 1126065
Number of successful extensions: 2021
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: 2016
Number of HSP's gapped (non-prelim): 9
length of query: 1062
length of database: 14,973,337
effective HSP length: 109
effective length of query: 953
effective length of database: 8,152,335
effective search space: 7769175255
effective search space used: 7769175255
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 57 (26.6 bits)