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= 004523
(747 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2YSM|A Chain A, Solution Structure Of The First And Second Phd Domain From
MyeloidLYMPHOID OR MIXED-Lineage Leukemia Protein 3
Homolog
Length = 111
Score = 33.5 bits (75), Expect = 0.50, Method: Compositional matrix adjust.
Identities = 23/75 (30%), Positives = 32/75 (42%), Gaps = 16/75 (21%)
Query: 173 ATCGQFYHPECVSKLLHPDNESLAEELRERIAAGESFTCPVHKCFVCQQSEDMNVEDLQL 232
TCGQ YH C+ + P + + CP +C VCQ + ED ++
Sbjct: 26 TTCGQHYHGMCLDIAVTPLKRA-------------GWQCP--ECKVCQNCKQSG-EDSKM 69
Query: 233 AICRRCPKAYHRKCL 247
+C C K YH CL
Sbjct: 70 LVCDTCDKGYHTFCL 84
>pdb|1XWH|A Chain A, Nmr Structure Of The First Phd Finger Of Autoimmune
Regulator Protein (Aire1): Insights Into Apeced
pdb|2KE1|A Chain A, Molecular Basis Of Non-Modified Histone H3 Tail
Recognition By The First Phd Finger Of Autoimmune
Regulator
Length = 66
Score = 32.7 bits (73), Expect = 0.69, Method: Composition-based stats.
Identities = 13/22 (59%), Positives = 17/22 (77%), Gaps = 1/22 (4%)
Query: 90 CAICDDGGDVTFCDGRCLRSFH 111
CA+C DGG++ CDG C R+FH
Sbjct: 11 CAVCRDGGELICCDG-CPRAFH 31
>pdb|2KFT|A Chain A, Nmr Solution Structure Of The First Phd Finger Domain Of
Human Autoimmune Regulator (Aire) In Complex With
Histone H3(1-20cys) Peptide
Length = 56
Score = 31.6 bits (70), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 13/22 (59%), Positives = 17/22 (77%), Gaps = 1/22 (4%)
Query: 90 CAICDDGGDVTFCDGRCLRSFH 111
CA+C DGG++ CDG C R+FH
Sbjct: 8 CAVCRDGGELICCDG-CPRAFH 28
>pdb|3U5M|A Chain A, Crystal Structure Of Trim33 Phd-Bromo In The Free State
pdb|3U5M|B Chain B, Crystal Structure Of Trim33 Phd-Bromo In The Free State
pdb|3U5M|C Chain C, Crystal Structure Of Trim33 Phd-Bromo In The Free State
pdb|3U5M|D Chain D, Crystal Structure Of Trim33 Phd-Bromo In The Free State
pdb|3U5M|E Chain E, Crystal Structure Of Trim33 Phd-Bromo In The Free State
pdb|3U5M|F Chain F, Crystal Structure Of Trim33 Phd-Bromo In The Free State
pdb|3U5M|G Chain G, Crystal Structure Of Trim33 Phd-Bromo In The Free State
pdb|3U5M|H Chain H, Crystal Structure Of Trim33 Phd-Bromo In The Free State
pdb|3U5M|I Chain I, Crystal Structure Of Trim33 Phd-Bromo In The Free State
pdb|3U5M|J Chain J, Crystal Structure Of Trim33 Phd-Bromo In The Free State
pdb|3U5M|K Chain K, Crystal Structure Of Trim33 Phd-Bromo In The Free State
pdb|3U5M|L Chain L, Crystal Structure Of Trim33 Phd-Bromo In The Free State
pdb|3U5N|A Chain A, Crystal Structure Of The Complex Of Trim33 Phd-Bromo And
H3(1-20) K9me3k14ac Histone Peptide
pdb|3U5N|B Chain B, Crystal Structure Of The Complex Of Trim33 Phd-Bromo And
H3(1-20) K9me3k14ac Histone Peptide
pdb|3U5O|A Chain A, Crystal Structure Of The Complex Of Trim33 Phd-Bromo And
H3(1-22) K9me3k14ack18ac Histone Peptide
pdb|3U5O|B Chain B, Crystal Structure Of The Complex Of Trim33 Phd-Bromo And
H3(1-22) K9me3k14ack18ac Histone Peptide
pdb|3U5O|C Chain C, Crystal Structure Of The Complex Of Trim33 Phd-Bromo And
H3(1-22) K9me3k14ack18ac Histone Peptide
pdb|3U5O|D Chain D, Crystal Structure Of The Complex Of Trim33 Phd-Bromo And
H3(1-22) K9me3k14ack18ac Histone Peptide
pdb|3U5O|E Chain E, Crystal Structure Of The Complex Of Trim33 Phd-Bromo And
H3(1-22) K9me3k14ack18ac Histone Peptide
pdb|3U5O|F Chain F, Crystal Structure Of The Complex Of Trim33 Phd-Bromo And
H3(1-22) K9me3k14ack18ac Histone Peptide
pdb|3U5O|G Chain G, Crystal Structure Of The Complex Of Trim33 Phd-Bromo And
H3(1-22) K9me3k14ack18ac Histone Peptide
pdb|3U5O|H Chain H, Crystal Structure Of The Complex Of Trim33 Phd-Bromo And
H3(1-22) K9me3k14ack18ac Histone Peptide
pdb|3U5P|A Chain A, Crystal Structure Of The Complex Of Trim33 Phd-Bromo And
H3(1-28) K9me3k14ack18ack23ac Histone Peptide
pdb|3U5P|B Chain B, Crystal Structure Of The Complex Of Trim33 Phd-Bromo And
H3(1-28) K9me3k14ack18ack23ac Histone Peptide
pdb|3U5P|C Chain C, Crystal Structure Of The Complex Of Trim33 Phd-Bromo And
H3(1-28) K9me3k14ack18ack23ac Histone Peptide
pdb|3U5P|D Chain D, Crystal Structure Of The Complex Of Trim33 Phd-Bromo And
H3(1-28) K9me3k14ack18ack23ac Histone Peptide
pdb|3U5P|E Chain E, Crystal Structure Of The Complex Of Trim33 Phd-Bromo And
H3(1-28) K9me3k14ack18ack23ac Histone Peptide
pdb|3U5P|F Chain F, Crystal Structure Of The Complex Of Trim33 Phd-Bromo And
H3(1-28) K9me3k14ack18ack23ac Histone Peptide
pdb|3U5P|G Chain G, Crystal Structure Of The Complex Of Trim33 Phd-Bromo And
H3(1-28) K9me3k14ack18ack23ac Histone Peptide
pdb|3U5P|H Chain H, Crystal Structure Of The Complex Of Trim33 Phd-Bromo And
H3(1-28) K9me3k14ack18ack23ac Histone Peptide
Length = 207
Score = 31.2 bits (69), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 16/43 (37%), Positives = 21/43 (48%), Gaps = 8/43 (18%)
Query: 216 CFVCQQSEDMNVEDLQLAICRRCPKAYHRKC-LPTEITFSDAD 257
C VCQ D L C +CPK +H C +PT ++F D
Sbjct: 10 CAVCQNGGD-------LLCCEKCPKVFHLTCHVPTLLSFPSGD 45
>pdb|1ES0|A Chain A, Crystal Structure Of The Murine Class Ii Allele I-A(G7)
Complexed With The Glutamic Acid Decarboxylase (Gad65)
Peptide 207-220
pdb|3CUP|A Chain A, Crystal Structure Of The Mhc Class Ii Molecule I-Ag7 In
Complex With The Peptide Gad221-235
pdb|3MBE|A Chain A, Tcr 21.30 In Complex With Mhc Class Ii I-Ag7hel(11-27)
pdb|3MBE|E Chain E, Tcr 21.30 In Complex With Mhc Class Ii I-Ag7hel(11-27)
Length = 190
Score = 31.2 bits (69), Expect = 2.3, Method: Composition-based stats.
Identities = 11/30 (36%), Positives = 18/30 (60%)
Query: 699 YLPGSLDVHDNQLEQWNCKPPPLYLWSRAD 728
++P D++D ++E W + P L WS AD
Sbjct: 157 FIPSDDDIYDCKVEHWGLEEPVLKHWSSAD 186
>pdb|2L5U|A Chain A, Structure Of The First Phd Finger (Phd1) From Chd4 (Mi2b)
Length = 61
Score = 28.9 bits (63), Expect = 9.9, Method: Composition-based stats.
Identities = 13/36 (36%), Positives = 19/36 (52%), Gaps = 7/36 (19%)
Query: 216 CFVCQQSEDMNVEDLQLAICRRCPKAYHRKCLPTEI 251
C VCQQ ++ +C CP+AYH CL ++
Sbjct: 14 CEVCQQGG-------EIILCDTCPRAYHMVCLDPDM 42
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 0.134 0.411
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 22,735,016
Number of Sequences: 62578
Number of extensions: 953212
Number of successful extensions: 2045
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 2035
Number of HSP's gapped (non-prelim): 17
length of query: 747
length of database: 14,973,337
effective HSP length: 106
effective length of query: 641
effective length of database: 8,340,069
effective search space: 5345984229
effective search space used: 5345984229
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: 55 (25.8 bits)