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= 000583
(1407 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 37.4 bits (85), Expect = 0.059, Method: Compositional matrix adjust.
Identities = 15/24 (62%), Positives = 18/24 (75%), Gaps = 1/24 (4%)
Query: 230 CSFCDNGGDLLCCEGRCLRSFHAT 253
C+ C NGGDLLCCE +C + FH T
Sbjct: 10 CAVCQNGGDLLCCE-KCPKVFHLT 32
>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 = 34.3 bits (77), Expect = 0.55, Method: Composition-based stats.
Identities = 12/22 (54%), Positives = 18/22 (81%), Gaps = 1/22 (4%)
Query: 230 CSFCDNGGDLLCCEGRCLRSFH 251
C+ C +GG+L+CC+G 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 = 34.3 bits (77), Expect = 0.55, Method: Composition-based stats.
Identities = 12/22 (54%), Positives = 18/22 (81%), Gaps = 1/22 (4%)
Query: 230 CSFCDNGGDLLCCEGRCLRSFH 251
C+ C +GG+L+CC+G C R+FH
Sbjct: 8 CAVCRDGGELICCDG-CPRAFH 28
>pdb|3O33|A Chain A, Crystal Structure Of Trim24 Phd-Bromo In The Free State
pdb|3O33|B Chain B, Crystal Structure Of Trim24 Phd-Bromo In The Free State
pdb|3O33|C Chain C, Crystal Structure Of Trim24 Phd-Bromo In The Free State
pdb|3O33|D Chain D, Crystal Structure Of Trim24 Phd-Bromo In The Free State
pdb|3O34|A Chain A, Crystal Structure Of Trim24 Phd-Bromo Complexed With
H3(13-32)k23ac Peptide
pdb|3O35|A Chain A, Crystal Structure Of Trim24 Phd-Bromo Complexed With
H3(23-31)k27ac Peptide
pdb|3O35|B Chain B, Crystal Structure Of Trim24 Phd-Bromo Complexed With
H3(23-31)k27ac Peptide
pdb|3O36|A Chain A, Crystal Structure Of Trim24 Phd-Bromo Complexed With
H4(14-19)k16ac Peptide
pdb|3O36|B Chain B, Crystal Structure Of Trim24 Phd-Bromo Complexed With
H4(14-19)k16ac Peptide
pdb|3O37|A Chain A, Crystal Structure Of Trim24 Phd-Bromo Complexed With
H3(1-10)k4 Peptide
pdb|3O37|B Chain B, Crystal Structure Of Trim24 Phd-Bromo Complexed With
H3(1-10)k4 Peptide
pdb|3O37|C Chain C, Crystal Structure Of Trim24 Phd-Bromo Complexed With
H3(1-10)k4 Peptide
pdb|3O37|D Chain D, Crystal Structure Of Trim24 Phd-Bromo Complexed With
H3(1-10)k4 Peptide
Length = 184
Score = 33.5 bits (75), Expect = 0.76, Method: Compositional matrix adjust.
Identities = 13/24 (54%), Positives = 18/24 (75%), Gaps = 1/24 (4%)
Query: 230 CSFCDNGGDLLCCEGRCLRSFHAT 253
C+ C NGG+LLCCE +C + FH +
Sbjct: 7 CAVCQNGGELLCCE-KCPKVFHLS 29
>pdb|1VFH|A Chain A, Crystal Structure Of Alanine Racemase From D-cycloserine
Producing Streptomyces Lavendulae
pdb|1VFS|A Chain A, Crystal Structure Of D-Cycloserine-Bound Form Of Alanine
Racemase From D-Cycloserine-Producing Streptomyces
Lavendulae
pdb|1VFS|B Chain B, Crystal Structure Of D-Cycloserine-Bound Form Of Alanine
Racemase From D-Cycloserine-Producing Streptomyces
Lavendulae
pdb|1VFT|A Chain A, Crystal Structure Of L-Cycloserine-Bound Form Of Alanine
Racemase From D-Cycloserine-Producing Streptomyces
Lavendulae
pdb|1VFT|B Chain B, Crystal Structure Of L-Cycloserine-Bound Form Of Alanine
Racemase From D-Cycloserine-Producing Streptomyces
Lavendulae
Length = 386
Score = 30.8 bits (68), Expect = 6.0, Method: Composition-based stats.
Identities = 16/62 (25%), Positives = 28/62 (45%)
Query: 1192 SPAKVIAKSSLEDHSSKSIDIPSQTGFGSDYQHHEPTRSSSHIGTTYYGTQAGIPNDMGS 1251
+PA++ + ++ +S ++ G G Y HH T S +H+ G GIP +
Sbjct: 240 TPAQLGLRPAMTLRASLALVKTVPAGHGVSYGHHYVTESETHLALVPAGYADGIPRNASG 299
Query: 1252 YG 1253
G
Sbjct: 300 RG 301
>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 = 30.0 bits (66), Expect = 8.9, Method: Compositional matrix adjust.
Identities = 28/106 (26%), Positives = 41/106 (38%), Gaps = 25/106 (23%)
Query: 312 SATCGHFYHPHCVSKLLLRDDEVAADQLAKSIIAGESFTCPLHKCCICKQGENKADSDLQ 371
TCG YH C+ ++A L ++ + CP K C Q ++ D +
Sbjct: 25 CTTCGQHYHGMCL--------DIAVTPLKRA-----GWQCPECKVC---QNCKQSGEDSK 68
Query: 372 FAVCRRCPKAYHRKCLPRKIAFEDKLEEGIITRAWEGLLPNHRILI 417
VC C K YH CL + + + T W+ N RI I
Sbjct: 69 MLVCDTCDKGYHTFCL-------QPVMKSVPTNGWK--CKNCRICI 105
>pdb|3OQ3|B Chain B, Structural Basis Of Type-I Interferon Sequestration By A
Poxvirus Decoy Receptor
Length = 329
Score = 30.0 bits (66), Expect = 9.5, Method: Compositional matrix adjust.
Identities = 22/88 (25%), Positives = 42/88 (47%), Gaps = 5/88 (5%)
Query: 724 DKLHWYVNDGDMIVDFCCGANDFSCLM--KKKLDETGKNCLYKNYDILPAKNDFNFEKRD 781
+ + WY N+ ++I+D + L+ +L+++G+ Y +YD + KND +
Sbjct: 159 NNITWYKNNQELIIDGTKYSQSGQNLIIHNPELEDSGRYDCYVHYDDVRIKNDIVVSRCK 218
Query: 782 WMTVEPKELAPGSRLIMGLNPPFGVKAG 809
+TV P + R + L+P V G
Sbjct: 219 ILTVIPSQ---DHRFKLILDPKINVTIG 243
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
0.316 0.133 0.399
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 41,966,962
Number of Sequences: 62578
Number of extensions: 1799056
Number of successful extensions: 3824
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 3814
Number of HSP's gapped (non-prelim): 17
length of query: 1407
length of database: 14,973,337
effective HSP length: 111
effective length of query: 1296
effective length of database: 8,027,179
effective search space: 10403223984
effective search space used: 10403223984
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: 58 (26.9 bits)