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= 041992
(473 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4GND|A Chain A, Crystal Structure Of Nsd3 Tandem Phd5-C5hch Domains
pdb|4GND|C Chain C, Crystal Structure Of Nsd3 Tandem Phd5-C5hch Domains
pdb|4GNE|A Chain A, Crystal Structure Of Nsd3 Tandem Phd5-C5hch Domains
Complexed With H3 Peptide 1-7
pdb|4GNF|A Chain A, Crystal Structure Of Nsd3 Tandem Phd5-C5hch Domains
Complexed With H3 Peptide 1-15
pdb|4GNG|A Chain A, Crystal Structure Of Nsd3 Tandem Phd5-C5hch Domains
Complexed With H3k9me3 Peptide
pdb|4GNG|D Chain D, Crystal Structure Of Nsd3 Tandem Phd5-C5hch Domains
Complexed With H3k9me3 Peptide
Length = 107
Score = 73.6 bits (179), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 40/94 (42%), Positives = 49/94 (52%), Gaps = 11/94 (11%)
Query: 104 KVKTTARQPPPGRRKTEEEDVCFICFDGGSLVLCDRKGCPKAYHPACIKREESFFRSKAK 163
K+KT +Q ED CF C DGG LV+CD+K CPKAYH C+ + + K
Sbjct: 5 KIKTEPKQ--------MHEDYCFQCGDGGELVMCDKKDCPKAYHLLCLNLTQPPY---GK 53
Query: 164 WNCGWHICSICEKASYYMCYTCTYSLCKGCTKGA 197
W C WH C C A+ C C +S CK KGA
Sbjct: 54 WECPWHQCDECSSAAVSFCEFCPHSFCKDHEKGA 87
>pdb|2DB9|A Chain A, Solution Structure Of The Plus-3 Domain Of Human Kiaa0252
Protein
Length = 149
Score = 42.0 bits (97), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 23/86 (26%), Positives = 48/86 (55%)
Query: 330 NSGRVKGMPLIKGTSKVGKPYKIGDRTADVILEIRNLQKKEVVAIDAISNQEFSEDECSR 389
NS V + I G + K Y++G + L++R+ + V ++ +SNQEF+E E +
Sbjct: 56 NSKPVYRVAEITGVVETAKVYQLGGTRTNKGLQLRHGNDQRVFRLEFVSNQEFTESEFMK 115
Query: 390 LRQSIKCGFIKHLTVGEIQEKAMSLQ 415
++++ ++ T+ EI +K +S++
Sbjct: 116 WKEAMFSAGMQLPTLDEINKKELSIK 141
>pdb|2BZE|A Chain A, Nmr Structure Of Human Rtf1 Plus3 Domain
Length = 153
Score = 42.0 bits (97), Expect = 7e-04, Method: Composition-based stats.
Identities = 23/86 (26%), Positives = 48/86 (55%)
Query: 330 NSGRVKGMPLIKGTSKVGKPYKIGDRTADVILEIRNLQKKEVVAIDAISNQEFSEDECSR 389
NS V + I G + K Y++G + L++R+ + V ++ +SNQEF+E E +
Sbjct: 64 NSKPVYRVAEITGVVETAKVYQLGGTRTNKGLQLRHGNDQRVFRLEFVSNQEFTESEFMK 123
Query: 390 LRQSIKCGFIKHLTVGEIQEKAMSLQ 415
++++ ++ T+ EI +K +S++
Sbjct: 124 WKEAMFSAGMQLPTLDEINKKELSIK 149
>pdb|2L5U|A Chain A, Structure Of The First Phd Finger (Phd1) From Chd4 (Mi2b)
Length = 61
Score = 42.0 bits (97), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 20/54 (37%), Positives = 31/54 (57%), Gaps = 3/54 (5%)
Query: 113 PPGRRKTEEEDVCFICFDGGSLVLCDRKGCPKAYHPACIKREESFFRSKAKWNC 166
P G +T+ +D C +C GG ++LCD CP+AYH C+ + + KW+C
Sbjct: 2 PLGSYETDHQDYCEVCQQGGEIILCDT--CPRAYHMVCLDPDME-KAPEGKWSC 52
>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 = 40.8 bits (94), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 18/38 (47%), Positives = 24/38 (63%), Gaps = 2/38 (5%)
Query: 115 GRRKTEEEDVCFICFDGGSLVLCDRKGCPKAYHPACIK 152
G + ED C +C DGG L+ CD GCP+A+H AC+
Sbjct: 1 GAMAQKNEDECAVCRDGGELICCD--GCPRAFHLACLS 36
>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 = 39.7 bits (91), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 17/34 (50%), Positives = 24/34 (70%), Gaps = 2/34 (5%)
Query: 119 TEEEDVCFICFDGGSLVLCDRKGCPKAYHPACIK 152
++ ED C +C DGG L+ CD GCP+A+H AC+
Sbjct: 2 SKNEDECAVCRDGGELICCD--GCPRAFHLACLS 33
>pdb|3U1U|A Chain A, Crystal Structure Of Rna Polymerase-Associated Protein
Rtf1 Homolog Plus-3 Domain
pdb|3U1U|B Chain B, Crystal Structure Of Rna Polymerase-Associated Protein
Rtf1 Homolog Plus-3 Domain
Length = 137
Score = 39.7 bits (91), Expect = 0.004, Method: Composition-based stats.
Identities = 23/86 (26%), Positives = 46/86 (53%)
Query: 330 NSGRVKGMPLIKGTSKVGKPYKIGDRTADVILEIRNLQKKEVVAIDAISNQEFSEDECSR 389
NS V + I G + K Y++G + L++R+ + V ++ +SNQEF+E E +
Sbjct: 50 NSKPVYRVAEITGVVETAKVYQLGGTRTNKGLQLRHGNDQRVFRLEFVSNQEFTESEFXK 109
Query: 390 LRQSIKCGFIKHLTVGEIQEKAMSLQ 415
+++ + T+ EI +K +S++
Sbjct: 110 WKEAXFSAGXQLPTLDEINKKELSIK 135
>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 = 0.28, Method: Compositional matrix adjust.
Identities = 20/57 (35%), Positives = 29/57 (50%), Gaps = 8/57 (14%)
Query: 122 EDVCFICFDGGSLVLCDRKGCPKAYHPACIKREESFFRSKAKWNCGWHICSICEKAS 178
ED C +C +GG L+ C++ CPK +H +C + F S G IC+ C S
Sbjct: 4 EDWCAVCQNGGELLCCEK--CPKVFHLSCHVPTLTNFPS------GEWICTFCRDLS 52
>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 = 31.6 bits (70), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 13/29 (44%), Positives = 19/29 (65%), Gaps = 2/29 (6%)
Query: 122 EDVCFICFDGGSLVLCDRKGCPKAYHPAC 150
ED C +C +GG L+ C++ CPK +H C
Sbjct: 7 EDWCAVCQNGGDLLCCEK--CPKVFHLTC 33
>pdb|1MM3|A Chain A, Solution Structure Of The 2nd Phd Domain From Mi2b With C-
Terminal Loop Replaced By Corresponding Loop From Wstf
Length = 61
Score = 31.2 bits (69), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 16/44 (36%), Positives = 23/44 (52%), Gaps = 3/44 (6%)
Query: 123 DVCFICFDGGSLVLCDRKGCPKAYHPACIKREESFFRSKAKWNC 166
+ C +C DGG L+ CD CP +YH C+ R + +W C
Sbjct: 10 EFCRVCKDGGELLCCDT--CPSSYHIHCL-RPALYEVPDGEWQC 50
>pdb|1MM2|A Chain A, Solution Structure Of The 2nd Phd Domain From Mi2b
pdb|2L75|A Chain A, Solution Structure Of Chd4-Phd2 In Complex With H3k9me3
Length = 61
Score = 28.5 bits (62), Expect = 7.8, Method: Compositional matrix adjust.
Identities = 13/30 (43%), Positives = 18/30 (60%), Gaps = 2/30 (6%)
Query: 123 DVCFICFDGGSLVLCDRKGCPKAYHPACIK 152
+ C +C DGG L+ CD CP +YH C+
Sbjct: 10 EFCRVCKDGGELLCCDT--CPSSYHIHCLN 37
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 0.136 0.426
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 14,790,329
Number of Sequences: 62578
Number of extensions: 636534
Number of successful extensions: 1255
Number of sequences better than 100.0: 19
Number of HSP's better than 100.0 without gapping: 9
Number of HSP's successfully gapped in prelim test: 10
Number of HSP's that attempted gapping in prelim test: 1242
Number of HSP's gapped (non-prelim): 19
length of query: 473
length of database: 14,973,337
effective HSP length: 102
effective length of query: 371
effective length of database: 8,590,381
effective search space: 3187031351
effective search space used: 3187031351
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: 53 (25.0 bits)