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= psy13186
(170 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1JFI|B Chain B, Crystal Structure Of The Nc2-Tbp-Dna Ternary Complex
Length = 179
Score = 174 bits (440), Expect = 3e-44, Method: Compositional matrix adjust.
Identities = 83/137 (60%), Positives = 107/137 (78%)
Query: 10 SNDDDELILPRASINKIIKEILPNIRVANESRELVMNCCMEFIHLISSEANDICNEQQKK 69
S +DD+L +PRA+INK+IKE LPN+RVAN++RELV+NCC EFIHLISSEAN+ICN+ +KK
Sbjct: 8 SGNDDDLTIPRAAINKMIKETLPNVRVANDARELVVNCCTEFIHLISSEANEICNKSEKK 67
Query: 70 TINAEHVLQALDQLGFGDYKSEAEEVMKDCKIVAANRKKQSNRLENLGIPXXXXXXXXXX 129
TI+ EHV+QAL+ LGFG Y SE +EV+++CK VA R+K S+RLENLGIP
Sbjct: 68 TISPEHVIQALESLGFGSYISEVKEVLQECKTVALKRRKASSRLENLGIPEEELLRQQQE 127
Query: 130 XFAKAREEQAAADLSQW 146
FAKAR++QA +W
Sbjct: 128 LFAKARQQQAELAQQEW 144
>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 = 66.2 bits (160), Expect = 8e-12, Method: Compositional matrix adjust.
Identities = 30/72 (41%), Positives = 50/72 (69%), Gaps = 1/72 (1%)
Query: 18 LPRASINKIIKEILP-NIRVANESRELVMNCCMEFIHLISSEANDICNEQQKKTINAEHV 76
LP A++ +I+K LP N ++A E++E + C EFI I+SEA++ C ++++KT+N E +
Sbjct: 8 LPIANVARIMKLALPENAKIAKEAKECMQECVSEFISFITSEASEKCQQEKRKTVNGEDI 67
Query: 77 LQALDQLGFGDY 88
L A+ LGF +Y
Sbjct: 68 LFAMTSLGFENY 79
>pdb|4AWL|B Chain B, The Nf-y Transcription Factor Is Structurally And
Functionally A Sequence Specific Histone
Length = 94
Score = 65.9 bits (159), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 30/81 (37%), Positives = 54/81 (66%), Gaps = 1/81 (1%)
Query: 9 ISNDDDELILPRASINKIIKEILPNI-RVANESRELVMNCCMEFIHLISSEANDICNEQQ 67
+S + ++ LP A++ +I+K +P ++A +++E V C EFI I+SEA++ C++++
Sbjct: 1 MSFREQDIYLPIANVARIMKNAIPQTGKIAKDAKECVQECVSEFISFITSEASERCHQEK 60
Query: 68 KKTINAEHVLQALDQLGFGDY 88
+KTIN E +L A+ LGF Y
Sbjct: 61 RKTINGEDILFAMSTLGFDSY 81
>pdb|1N1J|A Chain A, Crystal Structure Of The Nf-YbNF-Yc Histone Pair
Length = 93
Score = 65.5 bits (158), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 30/80 (37%), Positives = 53/80 (66%), Gaps = 1/80 (1%)
Query: 10 SNDDDELILPRASINKIIKEILPNI-RVANESRELVMNCCMEFIHLISSEANDICNEQQK 68
S + ++ LP A++ +I+K +P ++A +++E V C EFI I+SEA++ C+++++
Sbjct: 1 SFREQDIYLPIANVARIMKNAIPQTGKIAKDAKECVQECVSEFISFITSEASERCHQEKR 60
Query: 69 KTINAEHVLQALDQLGFGDY 88
KTIN E +L A+ LGF Y
Sbjct: 61 KTINGEDILFAMSTLGFDSY 80
>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 = 42.0 bits (97), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 25/76 (32%), Positives = 43/76 (56%), Gaps = 1/76 (1%)
Query: 14 DELILPRASINKIIKEILP-NIRVANESRELVMNCCMEFIHLISSEANDICNEQQKKTIN 72
++L LP A I ++IKE LP + V+ E+R + F ++S + + ++Q KTI
Sbjct: 6 EDLNLPNAVIGRLIKEALPESASVSKEARAAIARAASVFAIFVTSSSTALAHKQNHKTIT 65
Query: 73 AEHVLQALDQLGFGDY 88
A+ +LQ L +L F +
Sbjct: 66 AKDILQTLTELDFESF 81
>pdb|3VH5|W Chain W, Crystal Structure Of The Chicken Cenp-T Histone
FoldCENP-WCENP- SCENP-X Heterotetrameric Complex,
Crystal Form I
pdb|3VH6|W Chain W, Crystal Structure Of The Chicken Cenp-T Histone
FoldCENP-WCENP- SCENP-X Heterotetrameric Complex,
Crystal Form Ii
Length = 77
Score = 41.6 bits (96), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 21/62 (33%), Positives = 35/62 (56%)
Query: 18 LPRASINKIIKEILPNIRVANESRELVMNCCMEFIHLISSEANDICNEQQKKTINAEHVL 77
+PR ++ KIIK+ P++R+A + LV + F+H ++ EA E + K I EH +
Sbjct: 6 VPRGTLRKIIKKHKPHLRLAANTDLLVHLSFLLFLHRLAEEARTNAFENKSKIIKPEHTI 65
Query: 78 QA 79
A
Sbjct: 66 AA 67
>pdb|3B0C|W Chain W, Crystal Structure Of The Chicken Cenp-T Histone
FoldCENP-W Complex, Crystal Form I
Length = 76
Score = 41.6 bits (96), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 21/62 (33%), Positives = 35/62 (56%)
Query: 18 LPRASINKIIKEILPNIRVANESRELVMNCCMEFIHLISSEANDICNEQQKKTINAEHVL 77
+PR ++ KIIK+ P++R+A + LV + F+H ++ EA E + K I EH +
Sbjct: 5 VPRGTLRKIIKKHKPHLRLAANTDLLVHLSFLLFLHRLAEEARTNAFENKSKIIKPEHTI 64
Query: 78 QA 79
A
Sbjct: 65 AA 66
>pdb|3B0D|W Chain W, Crystal Structure Of The Chicken Cenp-T Histone
FoldCENP-W Complex, Crystal Form Ii
pdb|3B0D|C Chain C, Crystal Structure Of The Chicken Cenp-T Histone
FoldCENP-W Complex, Crystal Form Ii
Length = 76
Score = 39.3 bits (90), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 21/62 (33%), Positives = 35/62 (56%)
Query: 18 LPRASINKIIKEILPNIRVANESRELVMNCCMEFIHLISSEANDICNEQQKKTINAEHVL 77
+PR ++ KIIK+ P++R+A + LV + F+H ++ EA E + K I EH +
Sbjct: 5 VPRGTLRKIIKKHKPHLRLAANTDLLVHLSFLLFLHRLAEEARTNAFENKCKIIKPEHTI 64
Query: 78 QA 79
A
Sbjct: 65 AA 66
>pdb|1F1E|A Chain A, Crystal Structure Of The Histone From Methanopyrus
Kandleri
Length = 154
Score = 35.0 bits (79), Expect = 0.021, Method: Compositional matrix adjust.
Identities = 18/77 (23%), Positives = 39/77 (50%), Gaps = 3/77 (3%)
Query: 18 LPRASINKIIKEILPNIRVANESRELVMNCCMEFIHLISSEANDICNEQQKKTINAEHVL 77
LP+A+I +I ++ + R++ ++++ + + +++ A + + KKT+ EH+
Sbjct: 5 LPKAAIERIFRQGIGERRLSQDAKDTIYDFVPTXAEYVANAAKSVLDASGKKTLXEEHLK 64
Query: 78 QALDQL---GFGDYKSE 91
D L G DY E
Sbjct: 65 ALADVLXVEGVEDYDGE 81
>pdb|1BFM|A Chain A, Histone B From Methanothermus Fervidus
pdb|1BFM|B Chain B, Histone B From Methanothermus Fervidus
pdb|1A7W|A Chain A, Crystal Structure Of The Histone Hmfb From
Methanothermus Fervidus
Length = 69
Score = 29.6 bits (65), Expect = 0.75, Method: Compositional matrix adjust.
Identities = 20/59 (33%), Positives = 31/59 (52%), Gaps = 1/59 (1%)
Query: 18 LPRASINKIIKEILPNIRVANESRELVMNCCMEFIHLISSEANDICNEQQKKTINAEHV 76
LP A I +IIK+ RV++++R + E I+SEA + +KTI AE +
Sbjct: 3 LPIAPIGRIIKDAGAE-RVSDDARITLAKILEEMGRDIASEAIKLARHAGRKTIKAEDI 60
>pdb|1B6W|A Chain A, Crystal Structure Of The Selenomethionine Variant Of
Histone Hmfb From Methanothermus Fervidus
Length = 69
Score = 29.3 bits (64), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 20/59 (33%), Positives = 31/59 (52%), Gaps = 1/59 (1%)
Query: 18 LPRASINKIIKEILPNIRVANESRELVMNCCMEFIHLISSEANDICNEQQKKTINAEHV 76
LP A I +IIK+ RV++++R + E I+SEA + +KTI AE +
Sbjct: 3 LPIAPIGRIIKDAGAE-RVSDDARITLAKILEEXGRDIASEAIKLARHAGRKTIKAEDI 60
>pdb|1B67|A Chain A, Crystal Structure Of The Histone Hmfa From
Methanothermus Fervidus
pdb|1B67|B Chain B, Crystal Structure Of The Histone Hmfa From
Methanothermus Fervidus
Length = 68
Score = 29.3 bits (64), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 20/59 (33%), Positives = 30/59 (50%), Gaps = 1/59 (1%)
Query: 18 LPRASINKIIKEILPNIRVANESRELVMNCCMEFIHLISSEANDICNEQQKKTINAEHV 76
LP A I +IIK RV++++R + E I+SEA + +KTI AE +
Sbjct: 3 LPIAPIGRIIKNAGAE-RVSDDARIALAKVLEEMGEEIASEAVKLAKHAGRKTIKAEDI 60
>pdb|1HTA|A Chain A, Crystal Structure Of The Histone Hmfa From
Methanothermus Fervidus
Length = 69
Score = 29.3 bits (64), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 20/59 (33%), Positives = 30/59 (50%), Gaps = 1/59 (1%)
Query: 18 LPRASINKIIKEILPNIRVANESRELVMNCCMEFIHLISSEANDICNEQQKKTINAEHV 76
LP A I +IIK RV++++R + E I+SEA + +KTI AE +
Sbjct: 4 LPIAPIGRIIKNAGAE-RVSDDARIALAKVLEEMGEEIASEAVKLAKHAGRKTIKAEDI 61
>pdb|3ZEN|D Chain D, Cryo-em Structure Of The Mycobacterial Fatty Acid Synthase
pdb|3ZEN|E Chain E, Cryo-em Structure Of The Mycobacterial Fatty Acid Synthase
pdb|3ZEN|F Chain F, Cryo-em Structure Of The Mycobacterial Fatty Acid Synthase
pdb|4B3Y|A Chain A, Cryo-em Structure Of The Mycobacterial Fatty Acid Synthase
pdb|4B3Y|B Chain B, Cryo-em Structure Of The Mycobacterial Fatty Acid Synthase
pdb|4B3Y|C Chain C, Cryo-em Structure Of The Mycobacterial Fatty Acid Synthase
Length = 3089
Score = 27.3 bits (59), Expect = 3.9, Method: Composition-based stats.
Identities = 28/112 (25%), Positives = 51/112 (45%), Gaps = 12/112 (10%)
Query: 17 ILPRASINKIIKEILPNIRVANESRELVMNCCMEFIHLISSEANDICNEQQK----KTIN 72
+L RA N I++E+LPN+ VA + + +H + + A + ++ K
Sbjct: 2700 LLGRAKPNDILQEVLPNV-VAAHVMQSYVGGYGAMVHPVGACATAAVSVEEGVDKIKLGK 2758
Query: 73 AEHVLQ-ALDQL------GFGDYKSEAEEVMKDCKIVAANRKKQSNRLENLG 117
A+ V+ D L GFGD + A+ M K ++ ++ ++N LG
Sbjct: 2759 ADLVIAGGFDDLTLEAIIGFGDMAATADTEMMRAKGISDSKFSRANDRRRLG 2810
>pdb|2ABK|A Chain A, Refinement Of The Native Structure Of Endonuclease Iii To
A Resolution Of 1.85 Angstrom
Length = 211
Score = 26.6 bits (57), Expect = 7.1, Method: Compositional matrix adjust.
Identities = 17/60 (28%), Positives = 30/60 (50%), Gaps = 11/60 (18%)
Query: 54 LISSEANDI-CNEQQKKTINAEHVLQALDQLG----------FGDYKSEAEEVMKDCKIV 102
L+S++A D+ N+ K + A+ +LG G Y S+AE ++K C+I+
Sbjct: 37 LLSAQATDVSVNKATAKLYPVANTPAAMLELGVEGVKTYIKTIGLYNSKAENIIKTCRIL 96
>pdb|3C7K|A Chain A, Molecular Architecture Of Galphao And The Structural Basis
For Rgs16-Mediated Deactivation
pdb|3C7K|C Chain C, Molecular Architecture Of Galphao And The Structural Basis
For Rgs16-Mediated Deactivation
Length = 333
Score = 26.6 bits (57), Expect = 7.3, Method: Compositional matrix adjust.
Identities = 8/26 (30%), Positives = 20/26 (76%)
Query: 72 NAEHVLQALDQLGFGDYKSEAEEVMK 97
+A++ L +LD++G GDY+ +++++
Sbjct: 131 SAKYYLDSLDRIGAGDYQPTEQDILR 156
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
0.315 0.131 0.365
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,552,859
Number of Sequences: 62578
Number of extensions: 106593
Number of successful extensions: 308
Number of sequences better than 100.0: 20
Number of HSP's better than 100.0 without gapping: 10
Number of HSP's successfully gapped in prelim test: 10
Number of HSP's that attempted gapping in prelim test: 296
Number of HSP's gapped (non-prelim): 20
length of query: 170
length of database: 14,973,337
effective HSP length: 92
effective length of query: 78
effective length of database: 9,216,161
effective search space: 718860558
effective search space used: 718860558
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 48 (23.1 bits)