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= 027973
(216 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3KQI|A Chain A, Crystal Structure Of Phf2 Phd Domain Complexed With
H3k4me3 Peptide
Length = 75
Score = 58.9 bits (141), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 24/64 (37%), Positives = 38/64 (59%), Gaps = 1/64 (1%)
Query: 138 VAVYCKCEMPYNPDDLMVQCEGCSDWFHPNCINMTAEEAKRLDHFFCESCS-TEGQKKLQ 196
V VYC C +PY+ M++C+ C DWFH +C+ + EEA +D + C +C T G+ L+
Sbjct: 9 VPVYCVCRLPYDVTRFMIECDACKDWFHGSCVGVEEEEAPDIDIYHCPNCEKTHGKSTLK 68
Query: 197 NSQA 200
+
Sbjct: 69 KKRT 72
>pdb|3KV4|A Chain A, Structure Of Phf8 In Complex With Histone H3
Length = 447
Score = 57.8 bits (138), Expect = 5e-09, Method: Compositional matrix adjust.
Identities = 20/52 (38%), Positives = 32/52 (61%)
Query: 138 VAVYCKCEMPYNPDDLMVQCEGCSDWFHPNCINMTAEEAKRLDHFFCESCST 189
V VYC C +PY+ M++C+ C DWFH +C+ + E+A +D + C +C
Sbjct: 4 VPVYCLCRLPYDVTRFMIECDMCQDWFHGSCVGVEEEKAADIDLYHCPNCEV 55
>pdb|1WEP|A Chain A, Solution Structure Of Phd Domain In Phf8
Length = 79
Score = 56.2 bits (134), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 24/60 (40%), Positives = 33/60 (55%)
Query: 128 SSSGAFNPDRVAVYCKCEMPYNPDDLMVQCEGCSDWFHPNCINMTAEEAKRLDHFFCESC 187
SSG+ V VYC C PYN + M++C C DWFH +C+ + E A +D + C C
Sbjct: 1 GSSGSSGMALVPVYCLCRQPYNVNHFMIECGLCQDWFHGSCVGIEEENAVDIDIYHCPDC 60
>pdb|3KV5|D Chain D, Structure Of Kiaa1718, Human Jumonji Demethylase, In
Complex With N-Oxalylglycine
pdb|3KV5|A Chain A, Structure Of Kiaa1718, Human Jumonji Demethylase, In
Complex With N-Oxalylglycine
pdb|3KV6|A Chain A, Structure Of Kiaa1718, Human Jumonji Demethylase, In
Complex With Alpha-Ketoglutarate
pdb|3KV6|D Chain D, Structure Of Kiaa1718, Human Jumonji Demethylase, In
Complex With Alpha-Ketoglutarate
Length = 488
Score = 54.7 bits (130), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 21/67 (31%), Positives = 34/67 (50%)
Query: 140 VYCKCEMPYNPDDLMVQCEGCSDWFHPNCINMTAEEAKRLDHFFCESCSTEGQKKLQNSQ 199
VYC C PY+ + M++C+ C DWFH +C+ + A +D + C +C+ L +
Sbjct: 38 VYCVCRQPYDVNRFMIECDICKDWFHGSCVGVEEHHAVDIDLYHCPNCAVLHGSSLMKKR 97
Query: 200 ANGRHSD 206
N D
Sbjct: 98 RNWHRHD 104
>pdb|1W4S|A Chain A, Crystal Structure Of The Proximal Bah Domain Of Polybromo
Length = 174
Score = 53.9 bits (128), Expect = 6e-08, Method: Compositional matrix adjust.
Identities = 36/131 (27%), Positives = 62/131 (47%), Gaps = 4/131 (3%)
Query: 26 GDCVLMRPSEPSKPSYVAKIERIESDARGANVKVHVRWYYRPEESIGGRRQFHGSKEVFL 85
GD V + P+E + ++ IER+ D+ G ++ W+YRP E+ + KEVF
Sbjct: 30 GDYVYVEPAEANLQPHIVCIERLWEDSAGEK-WLYGCWFYRPNETFHLATRKFLEKEVFK 88
Query: 86 SDHHDIQSADTIEGKCTVHSFKSYTKL---DAVGNDDFFCRFEYNSSSGAFNPDRVAVYC 142
SD+++ I GKC V K Y KL + D + C Y++ + +F ++
Sbjct: 89 SDYYNKVPVSKILGKCVVMFVKEYFKLCPENFRDEDVYVCESRYSAKTKSFKKIKLWTMP 148
Query: 143 KCEMPYNPDDL 153
+ + P D+
Sbjct: 149 VSSVRFVPRDV 159
>pdb|2F6J|A Chain A, Crystal Structure Of Phd Finger-Linker-Bromodomain
Fragment Of Human Bptf In The H3(1-15)k4me3 Bound State
pdb|2F6J|B Chain B, Crystal Structure Of Phd Finger-Linker-Bromodomain
Fragment Of Human Bptf In The H3(1-15)k4me3 Bound State
pdb|2F6J|C Chain C, Crystal Structure Of Phd Finger-Linker-Bromodomain
Fragment Of Human Bptf In The H3(1-15)k4me3 Bound State
pdb|2F6N|A Chain A, Crystal Structure Of Phd Finger-Linker-Bromodomain
Fragment Of Human Bptf In The Free Form
pdb|2F6N|B Chain B, Crystal Structure Of Phd Finger-Linker-Bromodomain
Fragment Of Human Bptf In The Free Form
pdb|2FSA|A Chain A, Crystal Structure Of Phd Finger-Linker-Bromodomain
Fragment Of Human Bptf In The H3(1-15)k4me2 Bound State
pdb|2FSA|B Chain B, Crystal Structure Of Phd Finger-Linker-Bromodomain
Fragment Of Human Bptf In The H3(1-15)k4me2 Bound State
pdb|2FSA|C Chain C, Crystal Structure Of Phd Finger-Linker-Bromodomain
Fragment Of Human Bptf In The H3(1-15)k4me2 Bound State
Length = 174
Score = 48.1 bits (113), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 15/50 (30%), Positives = 28/50 (56%)
Query: 140 VYCKCEMPYNPDDLMVQCEGCSDWFHPNCINMTAEEAKRLDHFFCESCST 189
+YC C+ PY+ + C+ C +W+H C+ + EA+ +D + C C +
Sbjct: 9 LYCICKTPYDESKFYIGCDRCQNWYHGRCVGILQSEAELIDEYVCPQCQS 58
>pdb|3QZV|A Chain A, Crystal Structure Of Bptf Phd-Linker-Bromo In Complex With
Histone H4k12ac Peptide
Length = 174
Score = 48.1 bits (113), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 18/52 (34%), Positives = 30/52 (57%), Gaps = 1/52 (1%)
Query: 140 VYCKCEMPYNPDDLMVQCEGCSDWFHPNCINMTAEEAKRLDHFFCESC-STE 190
+YC C+ PY+ + C+ C +W+H C+ + EA+ +D + C C STE
Sbjct: 9 LYCICKTPYDESKFYIGCDRCQNWYHGRCVGILQSEAELIDEYVCPQCQSTE 60
>pdb|2FUI|A Chain A, Nmr Solution Structure Of Phd Finger Fragment Of Human
Bptf In Free State
pdb|2FUU|A Chain A, Nmr Solution Structure Of The Phd Domain From The Human
Bptf In Complex With H3(1-15)k4me3 Peptide
Length = 62
Score = 46.6 bits (109), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 18/52 (34%), Positives = 30/52 (57%), Gaps = 1/52 (1%)
Query: 140 VYCKCEMPYNPDDLMVQCEGCSDWFHPNCINMTAEEAKRLDHFFCESC-STE 190
+YC C+ PY+ + C+ C +W+H C+ + EA+ +D + C C STE
Sbjct: 9 LYCICKTPYDESKFYIGCDRCQNWYHGRCVGILQSEAELIDEYVCPQCQSTE 60
>pdb|2RI7|A Chain A, Crystal Structure Of Phd Finger-Linker-Bromodomain Y17e
Mutant From Human Bptf In The H3(1-9)k4me2 Bound State
Length = 174
Score = 44.3 bits (103), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 17/52 (32%), Positives = 29/52 (55%), Gaps = 1/52 (1%)
Query: 140 VYCKCEMPYNPDDLMVQCEGCSDWFHPNCINMTAEEAKRLDHFFCESC-STE 190
+YC C+ P + + C+ C +W+H C+ + EA+ +D + C C STE
Sbjct: 9 LYCICKTPEDESKFYIGCDRCQNWYHGRCVGILQSEAELIDEYVCPQCQSTE 60
>pdb|1WEM|A Chain A, Solution Structure Of Phd Domain In Death Inducer-
Obliterator 1(Dio-1)
Length = 76
Score = 39.7 bits (91), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 17/58 (29%), Positives = 32/58 (55%), Gaps = 5/58 (8%)
Query: 136 DRVAVYCKCEMPYNPDDLMVQCEGCSDWFHPNCINMTAEEAKRLDH----FFCESCST 189
D A+YC C P+N + M+ C+ C +WFH +C+ ++ + L+ + C +C+
Sbjct: 13 DPNALYCICRQPHN-NRFMICCDRCEEWFHGDCVGISEARGRLLERNGEDYICPNCTI 69
>pdb|1WE9|A Chain A, Solution Structure Of Phd Domain In Nucleic Acid Binding
Protein-like Np_197993
Length = 64
Score = 37.4 bits (85), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 15/47 (31%), Positives = 24/47 (51%)
Query: 144 CEMPYNPDDLMVQCEGCSDWFHPNCINMTAEEAKRLDHFFCESCSTE 190
C Y D+ + C+ C WFH C+ +T A+ + + C SCS +
Sbjct: 12 CGESYAADEFWICCDLCEMWFHGKCVKITPARAEHIKQYKCPSCSNK 58
>pdb|3PTA|A Chain A, Crystal Structure Of Human Dnmt1(646-1600) In Complex With
Dna
Length = 956
Score = 36.6 bits (83), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 22/84 (26%), Positives = 40/84 (47%), Gaps = 3/84 (3%)
Query: 20 SKTIKPGDCVLMRPSEPSKPSYVAKIERIESDARGANVKVHVRWYYRPEESIGGRRQFHG 79
++T++ GDCV + P + SKP Y+A++ + D+ + H W+ +++ G
Sbjct: 110 AETLEVGDCVSVIPDDSSKPLYLARVTALWEDSSNGQM-FHAHWFCAGTDTVLGATS--D 166
Query: 80 SKEVFLSDHHDIQSADTIEGKCTV 103
E+FL D + I K V
Sbjct: 167 PLELFLVDECEDMQLSYIHSKVKV 190
Score = 28.1 bits (61), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 20/84 (23%), Positives = 38/84 (45%), Gaps = 6/84 (7%)
Query: 56 NVKVHVRWYYRPEES-IGGRRQFHGS-KEVFLSDHHDIQSADTIEGKCTVHSFKSYTKLD 113
++K+ V +YRPE + +H ++ SD + ++G+CTV + +
Sbjct: 369 DIKIRVNKFYRPENTHKSTPASYHADINLLYWSDEEAVVDFKAVQGRCTVEYGEDLPECV 428
Query: 114 AV----GNDDFFCRFEYNSSSGAF 133
V G + F+ YN+ S +F
Sbjct: 429 QVYSMGGPNRFYFLEAYNAKSKSF 452
>pdb|3SWR|A Chain A, Structure Of Human Dnmt1 (601-1600) In Complex With
Sinefungin
Length = 1002
Score = 36.6 bits (83), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 22/84 (26%), Positives = 40/84 (47%), Gaps = 3/84 (3%)
Query: 20 SKTIKPGDCVLMRPSEPSKPSYVAKIERIESDARGANVKVHVRWYYRPEESIGGRRQFHG 79
++T++ GDCV + P + SKP Y+A++ + D+ + H W+ +++ G
Sbjct: 156 AETLEVGDCVSVIPDDSSKPLYLARVTALWEDSSNGQM-FHAHWFCAGTDTVLGATS--D 212
Query: 80 SKEVFLSDHHDIQSADTIEGKCTV 103
E+FL D + I K V
Sbjct: 213 PLELFLVDECEDMQLSYIHSKVKV 236
Score = 28.1 bits (61), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 20/85 (23%), Positives = 38/85 (44%), Gaps = 6/85 (7%)
Query: 55 ANVKVHVRWYYRPEES-IGGRRQFHGS-KEVFLSDHHDIQSADTIEGKCTVHSFKSYTKL 112
++K+ V +YRPE + +H ++ SD + ++G+CTV + +
Sbjct: 414 TDIKIRVNKFYRPENTHKSTPASYHADINLLYWSDEEAVVDFKAVQGRCTVEYGEDLPEC 473
Query: 113 DAV----GNDDFFCRFEYNSSSGAF 133
V G + F+ YN+ S +F
Sbjct: 474 VQVYSMGGPNRFYFLEAYNAKSKSF 498
>pdb|2K16|A Chain A, Solution Structure Of The Free Taf3 Phd Domain
pdb|2K17|A Chain A, Solution Structure Of The Taf3 Phd Domain In Complex With
A H3k4me3 Peptide
Length = 75
Score = 34.3 bits (77), Expect = 0.060, Method: Compositional matrix adjust.
Identities = 15/46 (32%), Positives = 26/46 (56%), Gaps = 3/46 (6%)
Query: 150 PDD--LMVQCEGCSDWFHPNCINMTAEEAKRLDHFFCESCSTEGQK 193
PDD M+ C+ C DW+H C+ + A + + +FC C+ + +K
Sbjct: 27 PDDGSPMIGCDDCDDWYHWPCVGIMAAPPEEM-QWFCPKCANKIKK 71
>pdb|3PT6|A Chain A, Crystal Structure Of Mouse Dnmt1(650-1602) In Complex With
Dna
pdb|3PT6|B Chain B, Crystal Structure Of Mouse Dnmt1(650-1602) In Complex With
Dna
Length = 954
Score = 33.9 bits (76), Expect = 0.068, Method: Compositional matrix adjust.
Identities = 15/53 (28%), Positives = 29/53 (54%), Gaps = 1/53 (1%)
Query: 21 KTIKPGDCVLMRPSEPSKPSYVAKIERIESDARGANVKVHVRWYYRPEESIGG 73
+ ++ GDCV + P + SKP Y+A++ + D G + H W+ +++ G
Sbjct: 110 EMLEVGDCVSVIPDDSSKPLYLARVTALWEDKNG-QMMFHAHWFCAGTDTVLG 161
>pdb|3PT9|A Chain A, Crystal Structure Of Mouse Dnmt1(731-1602) In The Free
State
pdb|4DA4|A Chain A, Structure Of Mouse Dnmt1 (731-1602) Bound To
Hemimethylated Cpg Dna
pdb|4DA4|B Chain B, Structure Of Mouse Dnmt1 (731-1602) Bound To
Hemimethylated Cpg Dna
Length = 873
Score = 33.9 bits (76), Expect = 0.072, Method: Compositional matrix adjust.
Identities = 15/53 (28%), Positives = 29/53 (54%), Gaps = 1/53 (1%)
Query: 21 KTIKPGDCVLMRPSEPSKPSYVAKIERIESDARGANVKVHVRWYYRPEESIGG 73
+ ++ GDCV + P + SKP Y+A++ + D G + H W+ +++ G
Sbjct: 29 EMLEVGDCVSVIPDDSSKPLYLARVTALWEDKNG-QMMFHAHWFCAGTDTVLG 80
>pdb|3AV4|A Chain A, Crystal Structure Of Mouse Dna Methyltransferase 1
pdb|3AV5|A Chain A, Crystal Structure Of Mouse Dna Methyltransferase 1 With
Adohcy
pdb|3AV6|A Chain A, Crystal Structure Of Mouse Dna Methyltransferase 1 With
Adomet
Length = 1330
Score = 33.9 bits (76), Expect = 0.072, Method: Compositional matrix adjust.
Identities = 15/53 (28%), Positives = 29/53 (54%), Gaps = 1/53 (1%)
Query: 21 KTIKPGDCVLMRPSEPSKPSYVAKIERIESDARGANVKVHVRWYYRPEESIGG 73
+ ++ GDCV + P + SKP Y+A++ + D G + H W+ +++ G
Sbjct: 468 EMLEVGDCVSVIPDDSSKPLYLARVTALWEDKNG-QMMFHAHWFCAGTDTVLG 519
>pdb|1WEE|A Chain A, Solution Structure Of Phd Domain In Phd Finger Family
Protein
Length = 72
Score = 33.1 bits (74), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 14/41 (34%), Positives = 20/41 (48%)
Query: 136 DRVAVYCKCEMPYNPDDLMVQCEGCSDWFHPNCINMTAEEA 176
D V CKC + + M+ C+GC W H CI + +A
Sbjct: 13 DNWKVDCKCGTKDDDGERMLACDGCGVWHHTRCIGINNADA 53
>pdb|2LV9|A Chain A, Solution Nmr Structure Of The Phd Domain Of Human Mll5,
Northeast Structural Genomics Consortium Target Hr6512a
Length = 98
Score = 30.0 bits (66), Expect = 0.98, Method: Compositional matrix adjust.
Identities = 17/61 (27%), Positives = 28/61 (45%), Gaps = 5/61 (8%)
Query: 127 NSSSGAFNPDRVAVYCKCEMPYNPDDLMVQCEGCSDWFHPNCINMTAEEAKRLDHFFCES 186
S G++ D C C ++ D M+ C+ CS W H +C+ + + D + CE
Sbjct: 18 GSEDGSYGTD--VTRCICGFTHD-DGYMICCDKCSVWQHIDCMGIDRQHIP--DTYLCER 72
Query: 187 C 187
C
Sbjct: 73 C 73
>pdb|2KGG|A Chain A, Solution Structure Of Jarid1a C-Terminal Phd Finger
pdb|2KGI|A Chain A, Solution Structure Of Jarid1a C-Terminal Phd Finger In
Complex With H3(1-9)k4me3
pdb|3GL6|A Chain A, Crystal Structure Of Jarid1a-Phd3 Complexed With H3(1-9)
K4me3 Peptide
Length = 52
Score = 29.6 bits (65), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 16/47 (34%), Positives = 26/47 (55%), Gaps = 2/47 (4%)
Query: 143 KCEMPYNPDDLMVQCEG-CSDWFHPNCINMTAEEAKRLDHFFCESCS 188
C+ P VQC+G C +WFH C+ ++ E A+ D + C +C+
Sbjct: 7 NCQRPCKDKVDWVQCDGGCDEWFHQVCVGVSPEMAENED-YICINCA 52
>pdb|3N9L|A Chain A, Cekdm7a From C.Elegans, Complex With H3k4me3 Peptide And
Nog
pdb|3N9M|A Chain A, Cekdm7a From C.Elegans, Alone
pdb|3N9M|C Chain C, Cekdm7a From C.Elegans, Alone
pdb|3N9N|A Chain A, Cekdm7a From C.Elegans, Complex With H3k4me3k9me2 Peptide
And Nog
pdb|3N9O|A Chain A, Cekdm7a From C.Elegans, Complex With H3k4me3 Peptide,
H3k9me2 Peptide And Nog
pdb|3N9P|A Chain A, Cekdm7a From C.Elegans, Complex With H3k4me3k27me2 Peptide
And Nog
pdb|3N9Q|A Chain A, Cekdm7a From C.Elegans, Complex With H3k4me3 Peptide,
H3k27me2 Peptide And Nog
pdb|3PUQ|A Chain A, Cekdm7a From C.Elegans, Complex With Alpha-Kg
pdb|3PUQ|C Chain C, Cekdm7a From C.Elegans, Complex With Alpha-Kg
pdb|3PUR|A Chain A, Cekdm7a From C.Elegans, Complex With D-2-Hg
pdb|3PUR|C Chain C, Cekdm7a From C.Elegans, Complex With D-2-Hg
Length = 528
Score = 28.9 bits (63), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 10/33 (30%), Positives = 15/33 (45%)
Query: 155 VQCEGCSDWFHPNCINMTAEEAKRLDHFFCESC 187
+ C+ C W+H C + E + FFC C
Sbjct: 59 IGCDSCQTWYHFLCSGLEQFEYYLYEKFFCPKC 91
>pdb|1ZLP|A Chain A, Petal Death Protein Psr132 With Cysteine-Linked
Glutaraldehyde Forming A Thiohemiacetal Adduct
pdb|1ZLP|B Chain B, Petal Death Protein Psr132 With Cysteine-Linked
Glutaraldehyde Forming A Thiohemiacetal Adduct
Length = 318
Score = 28.1 bits (61), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 16/48 (33%), Positives = 23/48 (47%), Gaps = 4/48 (8%)
Query: 79 GSKEVFLSDHHDIQSADTIEGKCTV----HSFKSYTKLDAVGNDDFFC 122
G+K VFL D + + GK V H+ K +A+G+ DFF
Sbjct: 129 GAKGVFLEDQVWPKKCGHMRGKAVVPAEEHALKIAAAREAIGDSDFFL 176
>pdb|2K1J|A Chain A, Plan Homeodomain Finger Of Tumour Supressor Ing4
Length = 63
Score = 26.9 bits (58), Expect = 8.9, Method: Compositional matrix adjust.
Identities = 16/44 (36%), Positives = 25/44 (56%), Gaps = 6/44 (13%)
Query: 154 MVQCEG--CS-DWFHPNCINMTAEEAKRLDHFFCESCSTEGQKK 194
M+ C+ CS +WFH C+ +T + + +FC CS E +KK
Sbjct: 23 MIGCDNPDCSIEWFHFACVGLTTKPRGK---WFCPRCSQERKKK 63
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 0.411
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,811,468
Number of Sequences: 62578
Number of extensions: 276124
Number of successful extensions: 624
Number of sequences better than 100.0: 45
Number of HSP's better than 100.0 without gapping: 24
Number of HSP's successfully gapped in prelim test: 21
Number of HSP's that attempted gapping in prelim test: 592
Number of HSP's gapped (non-prelim): 50
length of query: 216
length of database: 14,973,337
effective HSP length: 95
effective length of query: 121
effective length of database: 9,028,427
effective search space: 1092439667
effective search space used: 1092439667
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: 49 (23.5 bits)