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= 032293
(143 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 = 53.9 bits (128), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 32/90 (35%), Positives = 51/90 (56%), Gaps = 5/90 (5%)
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 NAEDVLKAIEEIDFTEFVDPLRDSLDEFRQ 102
N ED+L A+ + F +V+PL+ L +FR+
Sbjct: 65 NGEDILFAMSTLGFDSYVEPLKLYLQKFRE 94
>pdb|1N1J|A Chain A, Crystal Structure Of The Nf-YbNF-Yc Histone Pair
Length = 93
Score = 53.9 bits (128), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 32/90 (35%), Positives = 51/90 (56%), Gaps = 5/90 (5%)
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 NAEDVLKAIEEIDFTEFVDPLRDSLDEFRQ 102
N ED+L A+ + F +V+PL+ L +FR+
Sbjct: 64 NGEDILFAMSTLGFDSYVEPLKLYLQKFRE 93
>pdb|1JFI|B Chain B, Crystal Structure Of The Nc2-Tbp-Dna Ternary Complex
Length = 179
Score = 52.0 bits (123), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 27/100 (27%), Positives = 55/100 (55%), Gaps = 6/100 (6%)
Query: 13 LPKTIVRRVVKDKLHNCSPDTDISVHKDALLAFCESARIFIHYLSATANDICKESKRQTI 72
+P+ + +++K+ L N + V DA FIH +S+ AN+IC +S+++TI
Sbjct: 16 IPRAAINKMIKETLPN------VRVANDARELVVNCCTEFIHLISSEANEICNKSEKKTI 69
Query: 73 NAEDVLKAIEEIDFTEFVDPLRDSLDEFRQKNAGKRAGTS 112
+ E V++A+E + F ++ +++ L E + +R +S
Sbjct: 70 SPEHVIQALESLGFGSYISEVKEVLQECKTVALKRRKASS 109
>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 = 45.8 bits (107), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 26/90 (28%), Positives = 51/90 (56%), Gaps = 5/90 (5%)
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 NAEDVLKAIEEIDFTEFVDPLRDSLDEFRQ 102
N ED+L A+ + F + + L+ L ++R+
Sbjct: 63 NGEDILFAMTSLGFENYAEALKIYLSKYRE 92
>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 = 43.5 bits (101), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 25/89 (28%), Positives = 50/89 (56%), Gaps = 5/89 (5%)
Query: 13 LPKTIVRRVVKDKLHNCSPDTDISVHKDALLAFCESARIFIHYLSATANDICKESKRQTI 72
LP ++ R++K+ L + SV K+A A +A +F ++++++ + + +TI
Sbjct: 10 LPNAVIGRLIKEALPESA-----SVSKEARAAIARAASVFAIFVTSSSTALAHKQNHKTI 64
Query: 73 NAEDVLKAIEEIDFTEFVDPLRDSLDEFR 101
A+D+L+ + E+DF FV L L+ +R
Sbjct: 65 TAKDILQTLTELDFESFVPSLTQDLEVYR 93
>pdb|1N1J|B Chain B, Crystal Structure Of The Nf-YbNF-Yc Histone Pair
Length = 97
Score = 30.8 bits (68), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 22/82 (26%), Positives = 45/82 (54%), Gaps = 8/82 (9%)
Query: 10 AEELPKTIVRRVVKDKLHNCSPDTDI-SVHKDALLAFCESARIFIHYLSATANDICKESK 68
+ELP +++++K D D+ + +A + F ++A+IFI L+ A +++K
Sbjct: 17 VQELPLARIKKIMK-------LDEDVKMISAEAPVLFAKAAQIFITELTLRAWIHTEDNK 69
Query: 69 RQTINAEDVLKAIEEIDFTEFV 90
R+T+ D+ AI + D +F+
Sbjct: 70 RRTLQRNDIAMAITKFDQFDFL 91
>pdb|4AWL|C Chain C, The Nf-y Transcription Factor Is Structurally And
Functionally A Sequence Specific Histone
Length = 94
Score = 30.4 bits (67), Expect = 0.35, Method: Compositional matrix adjust.
Identities = 22/82 (26%), Positives = 45/82 (54%), Gaps = 8/82 (9%)
Query: 10 AEELPKTIVRRVVKDKLHNCSPDTDI-SVHKDALLAFCESARIFIHYLSATANDICKESK 68
+ELP +++++K D D+ + +A + F ++A+IFI L+ A +++K
Sbjct: 14 VQELPLARIKKIMK-------LDEDVKMISAEAPVLFAKAAQIFITELTLRAWIHTEDNK 66
Query: 69 RQTINAEDVLKAIEEIDFTEFV 90
R+T+ D+ AI + D +F+
Sbjct: 67 RRTLQRNDIAMAITKFDQFDFL 88
>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 = 26.9 bits (58), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 18/80 (22%), Positives = 41/80 (51%), Gaps = 6/80 (7%)
Query: 11 EELPKTIVRRVVKDKLHNCSPDTDISVHKDALLAFCESARIFIHYLSATANDICKESKRQ 70
+LP +++V+K P+ + + +A + F + +FI L+ A +++KR+
Sbjct: 40 HQLPLARIKKVMK-----ADPEVKM-ISAEAPILFAKGCDVFITELTMRAWIHAEDNKRR 93
Query: 71 TINAEDVLKAIEEIDFTEFV 90
T+ D+ A+ + D +F+
Sbjct: 94 TLQRSDIAAALSKSDMFDFL 113
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
0.312 0.128 0.355
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,466,395
Number of Sequences: 62578
Number of extensions: 109317
Number of successful extensions: 294
Number of sequences better than 100.0: 12
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 286
Number of HSP's gapped (non-prelim): 12
length of query: 143
length of database: 14,973,337
effective HSP length: 89
effective length of query: 54
effective length of database: 9,403,895
effective search space: 507810330
effective search space used: 507810330
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 46 (22.3 bits)