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= 032845
         (132 letters)

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

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



>pdb|4AWL|B Chain B, The Nf-y Transcription Factor Is Structurally And
          Functionally A Sequence Specific Histone
          Length = 94

 Score = 49.7 bits (117), Expect = 5e-07,   Method: Compositional matrix adjust.
 Identities = 29/82 (35%), Positives = 46/82 (56%), Gaps = 5/82 (6%)

Query: 13 LPKTIVRRVVKDKLHNCSPDTDISVHKDALLAFCESARIFIHYLSATANDICKESKRQTI 72
          LP   V R++K    N  P T   + KDA     E    FI ++++ A++ C + KR+TI
Sbjct: 10 LPIANVARIMK----NAIPQTG-KIAKDAKECVQECVSEFISFITSEASERCHQEKRKTI 64

Query: 73 NAEDVLKAIEEIDFTEFVDPLR 94
          N ED+L A+  + F  +V+PL+
Sbjct: 65 NGEDILFAMSTLGFDSYVEPLK 86


>pdb|1N1J|A Chain A, Crystal Structure Of The Nf-YbNF-Yc Histone Pair
          Length = 93

 Score = 49.7 bits (117), Expect = 5e-07,   Method: Compositional matrix adjust.
 Identities = 29/82 (35%), Positives = 46/82 (56%), Gaps = 5/82 (6%)

Query: 13 LPKTIVRRVVKDKLHNCSPDTDISVHKDALLAFCESARIFIHYLSATANDICKESKRQTI 72
          LP   V R++K    N  P T   + KDA     E    FI ++++ A++ C + KR+TI
Sbjct: 9  LPIANVARIMK----NAIPQTG-KIAKDAKECVQECVSEFISFITSEASERCHQEKRKTI 63

Query: 73 NAEDVLKAIEEIDFTEFVDPLR 94
          N ED+L A+  + F  +V+PL+
Sbjct: 64 NGEDILFAMSTLGFDSYVEPLK 85


>pdb|1JFI|B Chain B, Crystal Structure Of The Nc2-Tbp-Dna Ternary Complex
          Length = 179

 Score = 49.3 bits (116), Expect = 6e-07,   Method: Compositional matrix adjust.
 Identities = 26/94 (27%), Positives = 53/94 (56%), Gaps = 6/94 (6%)

Query: 13  LPKTIVRRVVKDKLHNCSPDTDISVHKDALLAFCESARIFIHYLSATANDICKESKRQTI 72
           +P+  + +++K+ L N      + V  DA          FIH +S+ AN+IC +S+++TI
Sbjct: 16  IPRAAINKMIKETLPN------VRVANDARELVVNCCTEFIHLISSEANEICNKSEKKTI 69

Query: 73  NAEDVLKAIEEIDFTEFVDPLRDSLDAKQIVSQK 106
           + E V++A+E + F  ++  +++ L   + V+ K
Sbjct: 70  SPEHVIQALESLGFGSYISEVKEVLQECKTVALK 103


>pdb|4G91|B Chain B, Ccaat-Binding Complex From Aspergillus Nidulans
 pdb|4G92|B Chain B, Ccaat-Binding Complex From Aspergillus Nidulans With Dna
          Length = 92

 Score = 42.4 bits (98), Expect = 7e-05,   Method: Compositional matrix adjust.
 Identities = 24/82 (29%), Positives = 46/82 (56%), Gaps = 5/82 (6%)

Query: 13 LPKTIVRRVVKDKLHNCSPDTDISVHKDALLAFCESARIFIHYLSATANDICKESKRQTI 72
          LP   V R++K  L    P+ +  + K+A     E    FI ++++ A++ C++ KR+T+
Sbjct: 8  LPIANVARIMKLAL----PE-NAKIAKEAKECMQECVSEFISFITSEASEKCQQEKRKTV 62

Query: 73 NAEDVLKAIEEIDFTEFVDPLR 94
          N ED+L A+  + F  + + L+
Sbjct: 63 NGEDILFAMTSLGFENYAEALK 84


>pdb|2BYK|B Chain B, Histone Fold Heterodimer Of The Chromatin Accessibility
          Complex
 pdb|2BYK|D Chain D, Histone Fold Heterodimer Of The Chromatin Accessibility
          Complex
 pdb|2BYM|B Chain B, Histone Fold Heterodimer Of The Chromatin Accessibility
          Complex
 pdb|2BYM|D Chain D, Histone Fold Heterodimer Of The Chromatin Accessibility
          Complex
          Length = 128

 Score = 41.2 bits (95), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 24/86 (27%), Positives = 48/86 (55%), Gaps = 5/86 (5%)

Query: 13 LPKTIVRRVVKDKLHNCSPDTDISVHKDALLAFCESARIFIHYLSATANDICKESKRQTI 72
          LP  ++ R++K+ L   +     SV K+A  A   +A +F  ++++++  +  +   +TI
Sbjct: 10 LPNAVIGRLIKEALPESA-----SVSKEARAAIARAASVFAIFVTSSSTALAHKQNHKTI 64

Query: 73 NAEDVLKAIEEIDFTEFVDPLRDSLD 98
           A+D+L+ + E+DF  FV  L   L+
Sbjct: 65 TAKDILQTLTELDFESFVPSLTQDLE 90


>pdb|1N1J|B Chain B, Crystal Structure Of The Nf-YbNF-Yc Histone Pair
          Length = 97

 Score = 32.0 bits (71), Expect = 0.11,   Method: Compositional matrix adjust.
 Identities = 22/81 (27%), Positives = 45/81 (55%), Gaps = 8/81 (9%)

Query: 11 EELPKTIVRRVVKDKLHNCSPDTDIS-VHKDALLAFCESARIFIHYLSATANDICKESKR 69
          +ELP   +++++K        D D+  +  +A + F ++A+IFI  L+  A    +++KR
Sbjct: 18 QELPLARIKKIMK-------LDEDVKMISAEAPVLFAKAAQIFITELTLRAWIHTEDNKR 70

Query: 70 QTINAEDVLKAIEEIDFTEFV 90
          +T+   D+  AI + D  +F+
Sbjct: 71 RTLQRNDIAMAITKFDQFDFL 91


>pdb|4AWL|C Chain C, The Nf-y Transcription Factor Is Structurally And
          Functionally A Sequence Specific Histone
          Length = 94

 Score = 31.6 bits (70), Expect = 0.14,   Method: Compositional matrix adjust.
 Identities = 22/81 (27%), Positives = 45/81 (55%), Gaps = 8/81 (9%)

Query: 11 EELPKTIVRRVVKDKLHNCSPDTDIS-VHKDALLAFCESARIFIHYLSATANDICKESKR 69
          +ELP   +++++K        D D+  +  +A + F ++A+IFI  L+  A    +++KR
Sbjct: 15 QELPLARIKKIMK-------LDEDVKMISAEAPVLFAKAAQIFITELTLRAWIHTEDNKR 67

Query: 70 QTINAEDVLKAIEEIDFTEFV 90
          +T+   D+  AI + D  +F+
Sbjct: 68 RTLQRNDIAMAITKFDQFDFL 88


>pdb|2P9B|A Chain A, Crystal Structure Of Putative Prolidase From
           Bifidobacterium Longum
          Length = 458

 Score = 28.9 bits (63), Expect = 0.97,   Method: Composition-based stats.
 Identities = 11/21 (52%), Positives = 16/21 (76%)

Query: 93  LRDSLDAKQIVSQKVVASNPL 113
           LRD +DA QI+  +++AS PL
Sbjct: 145 LRDQIDAGQILGPRILASGPL 165


>pdb|4G91|C Chain C, Ccaat-Binding Complex From Aspergillus Nidulans
 pdb|4G92|C Chain C, Ccaat-Binding Complex From Aspergillus Nidulans With Dna
          Length = 119

 Score = 28.1 bits (61), Expect = 1.6,   Method: Compositional matrix adjust.
 Identities = 18/79 (22%), Positives = 41/79 (51%), Gaps = 6/79 (7%)

Query: 12  ELPKTIVRRVVKDKLHNCSPDTDISVHKDALLAFCESARIFIHYLSATANDICKESKRQT 71
           +LP   +++V+K       P+  + +  +A + F +   +FI  L+  A    +++KR+T
Sbjct: 41  QLPLARIKKVMK-----ADPEVKM-ISAEAPILFAKGCDVFITELTMRAWIHAEDNKRRT 94

Query: 72  INAEDVLKAIEEIDFTEFV 90
           +   D+  A+ + D  +F+
Sbjct: 95  LQRSDIAAALSKSDMFDFL 113


>pdb|4G5E|A Chain A, 2,4,6-Trichlorophenol 4-Monooxygenase
 pdb|4G5E|B Chain B, 2,4,6-Trichlorophenol 4-Monooxygenase
 pdb|4G5E|C Chain C, 2,4,6-Trichlorophenol 4-Monooxygenase
 pdb|4G5E|D Chain D, 2,4,6-Trichlorophenol 4-Monooxygenase
          Length = 517

 Score = 25.4 bits (54), Expect = 8.6,   Method: Composition-based stats.
 Identities = 17/43 (39%), Positives = 21/43 (48%), Gaps = 1/43 (2%)

Query: 70  QTINAEDVLKAIEEIDFTEFVDPLRDSLDAKQIVSQKVVASNP 112
           QTI AE  +KA   +DF  F     D   A Q V  ++  SNP
Sbjct: 123 QTIGAEGKVKAKNIVDFVNFAKK-HDLNCAPQFVDPQMDRSNP 164


  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    0.395 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,505,556
Number of Sequences: 62578
Number of extensions: 115665
Number of successful extensions: 722
Number of sequences better than 100.0: 16
Number of HSP's better than 100.0 without gapping: 12
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 710
Number of HSP's gapped (non-prelim): 16
length of query: 132
length of database: 14,973,337
effective HSP length: 88
effective length of query: 44
effective length of database: 9,466,473
effective search space: 416524812
effective search space used: 416524812
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 46 (22.3 bits)