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= psy8269
(386 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1N1J|B Chain B, Crystal Structure Of The Nf-YbNF-Yc Histone Pair
Length = 97
Score = 154 bits (388), Expect = 1e-37, Method: Composition-based stats.
Identities = 74/97 (76%), Positives = 85/97 (87%)
Query: 96 GSVLEVQGALSMLDLKTQALPLARIKKIMKLDDGVKMISAEAPMLFSKAAELFIHELTIR 155
GS +E L++ D + Q LPLARIKKIMKLD+ VKMISAEAP+LF+KAA++FI ELT+R
Sbjct: 1 GSHMEEIRNLTVKDFRVQELPLARIKKIMKLDEDVKMISAEAPVLFAKAAQIFITELTLR 60
Query: 156 AWIHTEDNKRRTLQRNDIAMAITKYDMFDFLIDIVPR 192
AWIHTEDNKRRTLQRNDIAMAITK+D FDFLIDIVPR
Sbjct: 61 AWIHTEDNKRRTLQRNDIAMAITKFDQFDFLIDIVPR 97
>pdb|4AWL|C Chain C, The Nf-y Transcription Factor Is Structurally And
Functionally A Sequence Specific Histone
Length = 94
Score = 152 bits (385), Expect = 3e-37, Method: Composition-based stats.
Identities = 71/88 (80%), Positives = 81/88 (92%)
Query: 105 LSMLDLKTQALPLARIKKIMKLDDGVKMISAEAPMLFSKAAELFIHELTIRAWIHTEDNK 164
L++ D + Q LPLARIKKIMKLD+ VKMISAEAP+LF+KAA++FI ELT+RAWIHTEDNK
Sbjct: 7 LTVKDFRVQELPLARIKKIMKLDEDVKMISAEAPVLFAKAAQIFITELTLRAWIHTEDNK 66
Query: 165 RRTLQRNDIAMAITKYDMFDFLIDIVPR 192
RRTLQRNDIAMAITK+D FDFLIDIVPR
Sbjct: 67 RRTLQRNDIAMAITKFDQFDFLIDIVPR 94
>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 = 129 bits (324), Expect = 3e-30, Method: Compositional matrix adjust.
Identities = 62/84 (73%), Positives = 71/84 (84%)
Query: 109 DLKTQALPLARIKKIMKLDDGVKMISAEAPMLFSKAAELFIHELTIRAWIHTEDNKRRTL 168
D K LPLARIKK+MK D VKMISAEAP+LF+K ++FI ELT+RAWIH EDNKRRTL
Sbjct: 36 DYKIHQLPLARIKKVMKADPEVKMISAEAPILFAKGCDVFITELTMRAWIHAEDNKRRTL 95
Query: 169 QRNDIAMAITKYDMFDFLIDIVPR 192
QR+DIA A++K DMFDFLIDIVPR
Sbjct: 96 QRSDIAAALSKSDMFDFLIDIVPR 119
>pdb|1JFI|A Chain A, Crystal Structure Of The Nc2-Tbp-Dna Ternary Complex
Length = 98
Score = 44.3 bits (103), Expect = 1e-04, Method: Composition-based stats.
Identities = 21/63 (33%), Positives = 36/63 (57%)
Query: 115 LPLARIKKIMKLDDGVKMISAEAPMLFSKAAELFIHELTIRAWIHTEDNKRRTLQRNDIA 174
P ARIKKIM+ D+ + ++A P++ S+A ELF+ L +A T+ +T+ + +
Sbjct: 12 FPPARIKKIMQTDEEIGKVAAAVPVIISRALELFLESLLKKACQVTQSRNAKTMTTSHLK 71
Query: 175 MAI 177
I
Sbjct: 72 QCI 74
>pdb|2BYK|A Chain A, Histone Fold Heterodimer Of The Chromatin Accessibility
Complex
pdb|2BYK|C Chain C, Histone Fold Heterodimer Of The Chromatin Accessibility
Complex
pdb|2BYM|A Chain A, Histone Fold Heterodimer Of The Chromatin Accessibility
Complex
pdb|2BYM|C Chain C, Histone Fold Heterodimer Of The Chromatin Accessibility
Complex
Length = 140
Score = 43.1 bits (100), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 26/82 (31%), Positives = 44/82 (53%), Gaps = 5/82 (6%)
Query: 115 LPLARIKKIMKLDDGVKMISAEAPMLFSKAAELFIHELTIRAWIHTEDNKRR---TLQRN 171
LPL+R++ IMK +I+ E L +K ELF+ L A+ TE+ +R L+
Sbjct: 20 LPLSRVRTIMKSSMDTGLITNEVLFLMTKCTELFVRHLAGAAY--TEEFGQRPGEALKYE 77
Query: 172 DIAMAITKYDMFDFLIDIVPRE 193
++ + K +FL+ IVP++
Sbjct: 78 HLSQVVNKNKNLEFLLQIVPQK 99
>pdb|1F1E|A Chain A, Crystal Structure Of The Histone From Methanopyrus
Kandleri
Length = 154
Score = 32.7 bits (73), Expect = 0.35, Method: Compositional matrix adjust.
Identities = 23/84 (27%), Positives = 44/84 (52%), Gaps = 4/84 (4%)
Query: 95 FGSVLEVQGALSMLDLKTQALPLARIKKIMKLDDGVKMISAEAPMLFSKAAELFIHELTI 154
VL V+G + D + A +++I+K G++ S++A L++K EL
Sbjct: 66 LADVLXVEG---VEDYDGELFGRATVRRILKRA-GIERASSDAVDLYNKLICRATEELGE 121
Query: 155 RAWIHTEDNKRRTLQRNDIAMAIT 178
+A + +++ R+T+Q D+ AIT
Sbjct: 122 KAAEYADEDGRKTVQGEDVEKAIT 145
>pdb|3LB6|D Chain D, The Structure Of Il-13 In Complex With Il-13ralpha2
Length = 380
Score = 28.5 bits (62), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 13/34 (38%), Positives = 21/34 (61%)
Query: 251 EDLGKEQFVGFYLTAGVVASLLSYVHKILVRKPG 284
EDL K+ + F+L G + L+ +V +L+RKP
Sbjct: 334 EDLSKKTLLRFWLPFGFILILVIFVTGLLLRKPN 367
>pdb|3LB6|C Chain C, The Structure Of Il-13 In Complex With Il-13ralpha2
Length = 380
Score = 28.5 bits (62), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 13/34 (38%), Positives = 21/34 (61%)
Query: 251 EDLGKEQFVGFYLTAGVVASLLSYVHKILVRKPG 284
EDL K+ + F+L G + L+ +V +L+RKP
Sbjct: 334 EDLSKKTLLRFWLPFGFILILVIFVTGLLLRKPN 367
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
0.325 0.139 0.429
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 11,393,608
Number of Sequences: 62578
Number of extensions: 460688
Number of successful extensions: 1073
Number of sequences better than 100.0: 19
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 11
Number of HSP's that attempted gapping in prelim test: 1065
Number of HSP's gapped (non-prelim): 19
length of query: 386
length of database: 14,973,337
effective HSP length: 101
effective length of query: 285
effective length of database: 8,652,959
effective search space: 2466093315
effective search space used: 2466093315
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 52 (24.6 bits)