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= psy14772
(191 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 = 151 bits (381), Expect = 3e-37, Method: Compositional matrix adjust.
Identities = 72/95 (75%), Positives = 83/95 (87%)
Query: 8 HVNRVIQVTELDLKTQALPLARIKKIMKLDDGVKMISAEAPMLFSKAAELFIHELTIRAW 67
H+ + +T D + Q LPLARIKKIMKLD+ VKMISAEAP+LF+KAA++FI ELT+RAW
Sbjct: 3 HMEEIRNLTVKDFRVQELPLARIKKIMKLDEDVKMISAEAPVLFAKAAQIFITELTLRAW 62
Query: 68 IHTEDNKRRTLQRNDIAMAITKYDMFDFLIDIVPR 102
IHTEDNKRRTLQRNDIAMAITK+D FDFLIDIVPR
Sbjct: 63 IHTEDNKRRTLQRNDIAMAITKFDQFDFLIDIVPR 97
>pdb|4AWL|C Chain C, The Nf-y Transcription Factor Is Structurally And
Functionally A Sequence Specific Histone
Length = 94
Score = 149 bits (376), Expect = 9e-37, Method: Compositional matrix adjust.
Identities = 70/84 (83%), Positives = 78/84 (92%)
Query: 19 DLKTQALPLARIKKIMKLDDGVKMISAEAPMLFSKAAELFIHELTIRAWIHTEDNKRRTL 78
D + Q LPLARIKKIMKLD+ VKMISAEAP+LF+KAA++FI ELT+RAWIHTEDNKRRTL
Sbjct: 11 DFRVQELPLARIKKIMKLDEDVKMISAEAPVLFAKAAQIFITELTLRAWIHTEDNKRRTL 70
Query: 79 QRNDIAMAITKYDMFDFLIDIVPR 102
QRNDIAMAITK+D FDFLIDIVPR
Sbjct: 71 QRNDIAMAITKFDQFDFLIDIVPR 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 = 132 bits (333), Expect = 1e-31, Method: Compositional matrix adjust.
Identities = 64/96 (66%), Positives = 76/96 (79%)
Query: 7 EHVNRVIQVTELDLKTQALPLARIKKIMKLDDGVKMISAEAPMLFSKAAELFIHELTIRA 66
+HV ++ D K LPLARIKK+MK D VKMISAEAP+LF+K ++FI ELT+RA
Sbjct: 24 QHVINHLESDNHDYKIHQLPLARIKKVMKADPEVKMISAEAPILFAKGCDVFITELTMRA 83
Query: 67 WIHTEDNKRRTLQRNDIAMAITKYDMFDFLIDIVPR 102
WIH EDNKRRTLQR+DIA A++K DMFDFLIDIVPR
Sbjct: 84 WIHAEDNKRRTLQRSDIAAALSKSDMFDFLIDIVPR 119
>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 = 43.9 bits (102), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 26/82 (31%), Positives = 44/82 (53%), Gaps = 5/82 (6%)
Query: 25 LPLARIKKIMKLDDGVKMISAEAPMLFSKAAELFIHELTIRAWIHTEDNKRR---TLQRN 81
LPL+R++ IMK +I+ E L +K ELF+ L A+ TE+ +R L+
Sbjct: 20 LPLSRVRTIMKSSMDTGLITNEVLFLMTKCTELFVRHLAGAAY--TEEFGQRPGEALKYE 77
Query: 82 DIAMAITKYDMFDFLIDIVPRE 103
++ + K +FL+ IVP++
Sbjct: 78 HLSQVVNKNKNLEFLLQIVPQK 99
>pdb|1JFI|A Chain A, Crystal Structure Of The Nc2-Tbp-Dna Ternary Complex
Length = 98
Score = 42.4 bits (98), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 21/63 (33%), Positives = 36/63 (57%)
Query: 25 LPLARIKKIMKLDDGVKMISAEAPMLFSKAAELFIHELTIRAWIHTEDNKRRTLQRNDIA 84
P ARIKKIM+ D+ + ++A P++ S+A ELF+ L +A T+ +T+ + +
Sbjct: 12 FPPARIKKIMQTDEEIGKVAAAVPVIISRALELFLESLLKKACQVTQSRNAKTMTTSHLK 71
Query: 85 MAI 87
I
Sbjct: 72 QCI 74
>pdb|1F1E|A Chain A, Crystal Structure Of The Histone From Methanopyrus
Kandleri
Length = 154
Score = 30.0 bits (66), Expect = 0.77, Method: Compositional matrix adjust.
Identities = 19/70 (27%), Positives = 38/70 (54%), Gaps = 1/70 (1%)
Query: 19 DLKTQALPLARIKKIMKLDDGVKMISAEAPMLFSKAAELFIHELTIRAWIHTEDNKRRTL 78
D + A +++I+K G++ S++A L++K EL +A + +++ R+T+
Sbjct: 77 DYDGELFGRATVRRILKRA-GIERASSDAVDLYNKLICRATEELGEKAAEYADEDGRKTV 135
Query: 79 QRNDIAMAIT 88
Q D+ AIT
Sbjct: 136 QGEDVEKAIT 145
>pdb|1ID3|C Chain C, Crystal Structure Of The Yeast Nucleosome Core Particle
Reveals Fundamental Differences In Inter-Nucleosome
Interactions
pdb|1ID3|G Chain G, Crystal Structure Of The Yeast Nucleosome Core Particle
Reveals Fundamental Differences In Inter-Nucleosome
Interactions
Length = 131
Score = 28.1 bits (61), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 16/76 (21%), Positives = 34/76 (44%)
Query: 25 LPLARIKKIMKLDDGVKMISAEAPMLFSKAAELFIHELTIRAWIHTEDNKRRTLQRNDIA 84
P+ R+ ++++ + + I + AP+ + E E+ A DNK+ + +
Sbjct: 26 FPVGRVHRLLRRGNYAQRIGSGAPVYLTAVLEYLAAEILELAGNAARDNKKTRIIPRHLQ 85
Query: 85 MAITKYDMFDFLIDIV 100
+AI D + L+ V
Sbjct: 86 LAIRNDDELNKLLGNV 101
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
0.318 0.132 0.369
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,459,809
Number of Sequences: 62578
Number of extensions: 134014
Number of successful extensions: 319
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 312
Number of HSP's gapped (non-prelim): 7
length of query: 191
length of database: 14,973,337
effective HSP length: 93
effective length of query: 98
effective length of database: 9,153,583
effective search space: 897051134
effective search space used: 897051134
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 48 (23.1 bits)