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= psy6410
         (169 letters)

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

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



>pdb|3VA1|A Chain A, Crystal Structure Of The Mammalian Mdc1 Fha Domain
 pdb|3VA1|B Chain B, Crystal Structure Of The Mammalian Mdc1 Fha Domain
 pdb|3VA4|A Chain A, Crystal Structure Of The Mammalian Mdc1 Fha Domain
           Complexed With Chk2 Pthr68 Peptide
 pdb|3VA4|B Chain B, Crystal Structure Of The Mammalian Mdc1 Fha Domain
           Complexed With Chk2 Pthr68 Peptide
          Length = 132

 Score = 29.6 bits (65), Expect = 0.94,   Method: Compositional matrix adjust.
 Identities = 17/59 (28%), Positives = 26/59 (44%), Gaps = 3/59 (5%)

Query: 73  TYGPYENVPPYTKANITIHYENNS---PFLVVTRLVRQIEVSHWEHIHLKHDGAKLKGT 128
           T+GP  + P Y   N+     + S   PF  +++    IE+S W    +  D   L GT
Sbjct: 33  THGPERDFPLYLGKNVVGRSPDCSVALPFPSISKQHAVIEISAWNKAPILQDCGSLNGT 91


>pdb|1JHJ|A Chain A, Crystal Structure Of The Apc10DOC1 SUBUNIT OF THE HUMAN
           Anaphase-Promoting Complex
          Length = 171

 Score = 28.5 bits (62), Expect = 1.9,   Method: Compositional matrix adjust.
 Identities = 19/64 (29%), Positives = 29/64 (45%)

Query: 66  TQVEQTITYGPYENVPPYTKANITIHYENNSPFLVVTRLVRQIEVSHWEHIHLKHDGAKL 125
           T V+    Y  Y++   YT + I++   NN   L   R +  +E S W H+ L  +  K 
Sbjct: 71  TTVKTLCIYADYKSDESYTPSKISVRVGNNFHNLQEIRQLELVEPSGWIHVPLTDNHKKP 130

Query: 126 KGTF 129
             TF
Sbjct: 131 TRTF 134


>pdb|3NRO|A Chain A, Crystal Structure Of Putative Transcriptional Factor
           Lmo1026 From Listeria Monocytogenes (Fragment 52-321),
           Northeast Structural Genomics Consortium Target Lmr194
 pdb|3NRO|B Chain B, Crystal Structure Of Putative Transcriptional Factor
           Lmo1026 From Listeria Monocytogenes (Fragment 52-321),
           Northeast Structural Genomics Consortium Target Lmr194
          Length = 279

 Score = 28.1 bits (61), Expect = 2.8,   Method: Compositional matrix adjust.
 Identities = 30/145 (20%), Positives = 56/145 (38%), Gaps = 31/145 (21%)

Query: 24  ANITIHYENNSP---FLVVTRLVRQIEVSHWGTLNIESFTSVMPTTQVEQTITYGPYENV 80
             I   Y N  P      V +L   + V ++ ++N E F  ++                +
Sbjct: 75  GKINASYSNGGPSGTVSAVEKLXPGVPVDYFISINXEGFKDLVDAVG-----------GI 123

Query: 81  PPYTKANITIHYENNSPFLVVTRLVRQIEVSHWEHIHLKHDGAKLKGTFSRYDYQRD--- 137
             Y   ++T   E NS F+     +   E    +++ ++H+  +  G F R D QRD   
Sbjct: 124 TVYNDIDLT---EVNSKFVKGNITLNGTEA--LQYVRIRHEDPR--GDFGRQDRQRDVII 176

Query: 138 -------SAHGIKSFKTILPAAASD 155
                  S+ G+ +F++I  A   +
Sbjct: 177 GIANKVISSSGVSNFESIXKAVGDN 201


>pdb|2X4L|A Chain A, Crystal Structure Of Dese, A Ferric-Siderophore Receptor
           Protein From Streptomyces Coelicolor
          Length = 325

 Score = 27.7 bits (60), Expect = 3.1,   Method: Compositional matrix adjust.
 Identities = 16/61 (26%), Positives = 29/61 (47%), Gaps = 5/61 (8%)

Query: 49  SHWGTLNIESFTSVMPTTQVEQTI-TYGPYENVPPYTKANITIHYENNSPFLVVTRLVRQ 107
           + WG LN+E + S+ P   +  T  T G   +VP  +K  +       +P + ++   RQ
Sbjct: 96  NEWGKLNVEKYASLAPEVLITTTFDTAGTLWSVPEESKDKVA----KLAPSVAISVFDRQ 151

Query: 108 I 108
           +
Sbjct: 152 L 152


>pdb|2ICI|A Chain A, Crystal Structure Of Streptococcal Pyrogenic Exotoxin I
          Length = 227

 Score = 26.2 bits (56), Expect = 9.0,   Method: Compositional matrix adjust.
 Identities = 18/57 (31%), Positives = 28/57 (49%), Gaps = 8/57 (14%)

Query: 47 EVSHWGTLNIESFTSVMPTTQVEQTITYGP-------YENVPPYTKANITIHYENNS 96
          E S  G +N+ +  S    T+V+  I  GP       Y+N+ PY  ++I +  E NS
Sbjct: 2  EXSSVGVINLRNXYSTYDPTEVKGKINEGPPFSGSLFYKNI-PYGNSSIELKVEXNS 57


  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
   0.317    0.133    0.400 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,325,729
Number of Sequences: 62578
Number of extensions: 208990
Number of successful extensions: 532
Number of sequences better than 100.0: 15
Number of HSP's better than 100.0 without gapping: 11
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 515
Number of HSP's gapped (non-prelim): 21
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 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 48 (23.1 bits)