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= psy3995
(67 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1HKS|A Chain A, Solution Structure Of The Dna-Binding Domain Of
Drosophila Heat Shock Transcription Factor
pdb|1HKT|A Chain A, Solution Structure Of The Dna-Binding Domain Of
Drosophila Heat Shock Transcription Factor
Length = 106
Score = 96.3 bits (238), Expect = 4e-21, Method: Compositional matrix adjust.
Identities = 43/62 (69%), Positives = 54/62 (87%)
Query: 6 TNVAAFLGKLWRMVEDPETNDLISWSENGQSFLIRNQSKFAKELLPRYYKHNNMASFIRQ 65
+ V AFL KLWR+V+D +TN LI W+++GQSF+I+NQ++FAKELLP YKHNNMASFIRQ
Sbjct: 2 SGVPAFLAKLWRLVDDADTNRLICWTKDGQSFVIQNQAQFAKELLPLNYKHNNMASFIRQ 61
Query: 66 LN 67
LN
Sbjct: 62 LN 63
>pdb|2LDU|A Chain A, Solution Nmr Structure Of Heat Shock Factor Protein 1
Dna Binding Domain From Homo Sapiens, Northeast
Structural Genomics Consortium Target Hr3023c
Length = 125
Score = 92.0 bits (227), Expect = 7e-20, Method: Compositional matrix adjust.
Identities = 39/62 (62%), Positives = 51/62 (82%)
Query: 6 TNVAAFLGKLWRMVEDPETNDLISWSENGQSFLIRNQSKFAKELLPRYYKHNNMASFIRQ 65
+NV AFL KLW +V DP+T+ LI WS +G SF + +Q +FAKE+LP+Y+KHNNMASF+RQ
Sbjct: 15 SNVPAFLTKLWTLVSDPDTDALICWSPSGNSFHVFDQGQFAKEVLPKYFKHNNMASFVRQ 74
Query: 66 LN 67
LN
Sbjct: 75 LN 76
>pdb|3HTS|B Chain B, Heat Shock Transcription FactorDNA COMPLEX
Length = 102
Score = 72.0 bits (175), Expect = 8e-14, Method: Compositional matrix adjust.
Identities = 32/67 (47%), Positives = 46/67 (68%), Gaps = 1/67 (1%)
Query: 2 AEVGTNV-AAFLGKLWRMVEDPETNDLISWSENGQSFLIRNQSKFAKELLPRYYKHNNMA 60
A VG+ AF+ KLW MV D I WS +G+S ++ N+ +F +E+LP+Y+KH+N A
Sbjct: 5 ASVGSMARPAFVNKLWSMVNDKSNEKFIHWSTSGESIVVPNRERFVQEVLPKYFKHSNFA 64
Query: 61 SFIRQLN 67
SF+RQLN
Sbjct: 65 SFVRQLN 71
>pdb|1FYM|A Chain A, Serendipitous Crystal Structure Containing The Heat
Shock Transcription Factor's Dna Binding Domain And
Cognate Dna In A Tail-To-Tail Orientation
pdb|1FYM|B Chain B, Serendipitous Crystal Structure Containing The Heat
Shock Transcription Factor's Dna Binding Domain And
Cognate Dna In A Tail-To-Tail Orientation
pdb|2HTS|A Chain A, Crystal Structure Of The Dna Binding Domain Of The Heat
Shock Transcription Factor
pdb|3HSF|A Chain A, Heat Shock Transcription Factor (Hsf)
Length = 92
Score = 71.2 bits (173), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 29/58 (50%), Positives = 42/58 (72%)
Query: 10 AFLGKLWRMVEDPETNDLISWSENGQSFLIRNQSKFAKELLPRYYKHNNMASFIRQLN 67
AF+ KLW MV D I WS +G+S ++ N+ +F +E+LP+Y+KH+N ASF+RQLN
Sbjct: 4 AFVNKLWSMVNDKSNEKFIHWSTSGESIVVPNRERFVQEVLPKYFKHSNFASFVRQLN 61
>pdb|1FBU|A Chain A, Heat Shock Transcription Factor Dna Binding Domain
pdb|1FBU|B Chain B, Heat Shock Transcription Factor Dna Binding Domain
Length = 90
Score = 71.2 bits (173), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 29/58 (50%), Positives = 42/58 (72%)
Query: 10 AFLGKLWRMVEDPETNDLISWSENGQSFLIRNQSKFAKELLPRYYKHNNMASFIRQLN 67
AF+ KLW MV D I WS +G+S ++ N+ +F +E+LP+Y+KH+N ASF+RQLN
Sbjct: 2 AFVNKLWSMVNDKSNEKFIHWSTSGESIVVPNRERFVQEVLPKYFKHSNFASFVRQLN 59
>pdb|1FYK|A Chain A, Serendipitous Crystal Structure Containing The Heat
Shock Transcription Factor's Dna Binding Domain And
Cognate Dna That Is Translationally Disordered
pdb|1FYL|A Chain A, Serendipitous Crystal Structure Containing The Heat
Shock Transcription Factor's Dna Binding Domain And
Cognate Dna In A Head-To-Head Orientation
pdb|1FYL|B Chain B, Serendipitous Crystal Structure Containing The Heat
Shock Transcription Factor's Dna Binding Domain And
Cognate Dna In A Head-To-Head Orientation
Length = 92
Score = 68.9 bits (167), Expect = 7e-13, Method: Compositional matrix adjust.
Identities = 28/58 (48%), Positives = 41/58 (70%)
Query: 10 AFLGKLWRMVEDPETNDLISWSENGQSFLIRNQSKFAKELLPRYYKHNNMASFIRQLN 67
AF+ KLW V D I WS +G+S ++ N+ +F +E+LP+Y+KH+N ASF+RQLN
Sbjct: 4 AFVNKLWSXVNDKSNEKFIHWSTSGESIVVPNRERFVQEVLPKYFKHSNFASFVRQLN 61
>pdb|1FBS|A Chain A, Heat Shock Transcription Factor Dna Binding Domain
Containing The P237a Mutation
pdb|1FBS|B Chain B, Heat Shock Transcription Factor Dna Binding Domain
Containing The P237a Mutation
Length = 90
Score = 68.2 bits (165), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 28/58 (48%), Positives = 41/58 (70%)
Query: 10 AFLGKLWRMVEDPETNDLISWSENGQSFLIRNQSKFAKELLPRYYKHNNMASFIRQLN 67
AF+ KLW MV D I WS +G+S ++ N+ +F +E+L +Y+KH+N ASF+RQLN
Sbjct: 2 AFVNKLWSMVNDKSNEKFIHWSTSGESIVVPNRERFVQEVLAKYFKHSNFASFVRQLN 59
>pdb|1FBQ|A Chain A, Heat Shock Transcription Factor Dna Binding Domain
Containing The P237k Mutation
pdb|1FBQ|B Chain B, Heat Shock Transcription Factor Dna Binding Domain
Containing The P237k Mutation
Length = 90
Score = 67.8 bits (164), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 28/58 (48%), Positives = 41/58 (70%)
Query: 10 AFLGKLWRMVEDPETNDLISWSENGQSFLIRNQSKFAKELLPRYYKHNNMASFIRQLN 67
AF+ KLW MV D I WS +G+S ++ N+ +F +E+L +Y+KH+N ASF+RQLN
Sbjct: 2 AFVNKLWSMVNDKSNEKFIHWSTSGESIVVPNRERFVQEVLKKYFKHSNFASFVRQLN 59
>pdb|2LCG|A Chain A, Solution Nmr Structure Of Protein Rmet_5065 From
Ralstonia Metallidurans, Northeast Structural Genomics
Consortium Target Crr115
Length = 142
Score = 26.6 bits (57), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 13/27 (48%), Positives = 16/27 (59%), Gaps = 2/27 (7%)
Query: 4 VGTNVAAFLGKLWRMVEDPETNDLISW 30
V T VAA +GK+WR PE D+ W
Sbjct: 5 VETTVAAPVGKVWRAYTTPE--DIKQW 29
>pdb|1QHM|A Chain A, Escherichia Coli Pyruvate Formate Lyase Large Domain
pdb|1QHM|B Chain B, Escherichia Coli Pyruvate Formate Lyase Large Domain
Length = 624
Score = 26.2 bits (56), Expect = 5.3, Method: Composition-based stats.
Identities = 18/46 (39%), Positives = 21/46 (45%), Gaps = 4/46 (8%)
Query: 4 VGTNVAAFLGKLWRMVEDPETNDLISWSENGQSFLIRNQSKFAKEL 49
V N FL L+ M PE N I WSE L N KFA ++
Sbjct: 349 VTKNSFRFLNTLYTMGPSPEPNMTILWSEK----LPLNFKKFAAKV 390
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
0.319 0.132 0.394
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,108,237
Number of Sequences: 62578
Number of extensions: 69708
Number of successful extensions: 194
Number of sequences better than 100.0: 14
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 186
Number of HSP's gapped (non-prelim): 14
length of query: 67
length of database: 14,973,337
effective HSP length: 38
effective length of query: 29
effective length of database: 12,595,373
effective search space: 365265817
effective search space used: 365265817
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 45 (21.9 bits)