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= 038708
(331 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2KU3|A Chain A, Solution Structure Of Brd1 Phd1 Finger
Length = 71
Score = 51.6 bits (122), Expect = 6e-07, Method: Composition-based stats.
Identities = 22/56 (39%), Positives = 33/56 (58%), Gaps = 3/56 (5%)
Query: 136 DDGILCAVCQSTDGDSKDPIVFCDGCDLMVHATCYGNPLVKEIPDGDWFCAQCLAA 191
D+ +C++C + + + I+FCD C+L VH CYG P IP+G W C CL +
Sbjct: 14 DEDAVCSICMDGESQNSNVILFCDMCNLAVHQECYGVPY---IPEGQWLCRHCLQS 66
>pdb|2L43|A Chain A, Structural Basis For Histone Code Recognition By
Brpf2-Phd1 Finger
Length = 88
Score = 51.6 bits (122), Expect = 6e-07, Method: Composition-based stats.
Identities = 22/56 (39%), Positives = 33/56 (58%), Gaps = 3/56 (5%)
Query: 136 DDGILCAVCQSTDGDSKDPIVFCDGCDLMVHATCYGNPLVKEIPDGDWFCAQCLAA 191
D+ +C++C + + + I+FCD C+L VH CYG P IP+G W C CL +
Sbjct: 23 DEDAVCSICMDGESQNSNVILFCDMCNLAVHQECYGVPY---IPEGQWLCRHCLQS 75
>pdb|2E6R|A Chain A, Solution Structure Of The Phd Domain In Smcy Protein
Length = 92
Score = 45.4 bits (106), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 25/56 (44%), Positives = 31/56 (55%), Gaps = 3/56 (5%)
Query: 137 DGILCAVCQSTDGDSKDPIVFCDGCDLMVHATCYGNPLVKEIPDGDWFCAQCLAAN 192
D +C VC + GD D ++FCDGCD H C PL EIP G W C +C+ A
Sbjct: 15 DSYICQVC--SRGDEDDKLLFCDGCDDNYHIFCLLPPL-PEIPRGIWRCPKCILAE 67
>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 = 40.0 bits (92), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 23/52 (44%), Positives = 28/52 (53%), Gaps = 6/52 (11%)
Query: 141 CAVCQSTDGDSKDPIVFCDGCDLMVHATCYGNPLVKEIPDGDWFCAQCLAAN 192
CAVC+ DG ++ CDGC H C PL +EIP G W C+ CL A
Sbjct: 11 CAVCR--DGGE---LICCDGCPRAFHLACLSPPL-REIPSGTWRCSSCLQAT 56
>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 = 39.3 bits (90), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 23/52 (44%), Positives = 28/52 (53%), Gaps = 6/52 (11%)
Query: 141 CAVCQSTDGDSKDPIVFCDGCDLMVHATCYGNPLVKEIPDGDWFCAQCLAAN 192
CAVC+ DG ++ CDGC H C PL +EIP G W C+ CL A
Sbjct: 8 CAVCR--DGGE---LICCDGCPRAFHLACLSPPL-REIPSGTWRCSSCLQAT 53
>pdb|2KWJ|A Chain A, Solution Structures Of The Double Phd Fingers Of Human
Transcriptional Protein Dpf3 Bound To A Histone Peptide
Containing Acetylation At Lysine 14
pdb|2KWK|A Chain A, Solution Structures Of The Double Phd Fingers Of Human
Transcriptional Protein Dpf3b Bound To A H3 Peptide Wild
Type
pdb|2KWN|A Chain A, Solution Structure Of The Double Phd (Plant Homeodomain)
Fingers Of Human Transcriptional Protein Dpf3b Bound To
A Histone H4 Peptide Containing Acetylation At Lysine 16
pdb|2KWO|A Chain A, Solution Structure Of The Double Phd (Plant Homeodomain)
Fingers Of Human Transcriptional Protein Dpf3b Bound To
A Histone H4 Peptide Containing N-Terminal Acetylation
At Serine 1
Length = 114
Score = 38.5 bits (88), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 20/48 (41%), Positives = 27/48 (56%), Gaps = 3/48 (6%)
Query: 141 CAVCQSTDGDSKDPIVFCDGCDLMVHATCYGNPLVKEIPDGDWFCAQC 188
C +C +++ D D ++FCD CD H C NP V E P+G W C C
Sbjct: 61 CILCGTSEND--DQLLFCDDCDRGYHMYCL-NPPVAEPPEGSWSCHLC 105
>pdb|2LQ6|A Chain A, Solution Structure Of Brd1 Phd2 Finger
Length = 87
Score = 37.7 bits (86), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 23/73 (31%), Positives = 35/73 (47%), Gaps = 8/73 (10%)
Query: 245 KVPKTRREKRCYICKSKR-GCSVECSEPKCCLSFHVTCGLSEDLCIEY---REGKKGGAV 300
+P R + CY+CK K G S++C + C +FHVTC L ++ +E GG
Sbjct: 10 NIPPARWKLTCYLCKQKGVGASIQCHKANCYTAFHVTCAQKAGLYMKMEPVKELTGGGTT 69
Query: 301 VA----GFCKDHT 309
+ +C HT
Sbjct: 70 FSVRKTAYCDVHT 82
>pdb|2YT5|A Chain A, Solution Structure Of The Phd Domain Of Metal-Response
Element-Binding Transcription Factor 2
Length = 66
Score = 36.6 bits (83), Expect = 0.020, Method: Compositional matrix adjust.
Identities = 17/59 (28%), Positives = 27/59 (45%), Gaps = 2/59 (3%)
Query: 140 LCAVCQSTDGDSKDPIVFCDGCDLMVHATCYGNPLVKEIPDGD--WFCAQCLAANDENR 196
+C +CQ ++ + +V CD C H C+ + + D D W C QC+ A R
Sbjct: 8 VCTICQEEYSEAPNEMVICDKCGQGYHQLCHTPHIDSSVIDSDEKWLCRQCVFATTTKR 66
>pdb|3V43|A Chain A, Crystal Structure Of Moz
Length = 112
Score = 36.6 bits (83), Expect = 0.021, Method: Compositional matrix adjust.
Identities = 20/52 (38%), Positives = 25/52 (48%), Gaps = 3/52 (5%)
Query: 139 ILCAVCQST--DGDSKDPIVFCDGCDLMVHATCYGNPLVKEIPDGDWFCAQC 188
I C C S G + D ++FCD CD H C PL + +P G W C C
Sbjct: 59 IECKTCSSCRDQGKNADNMLFCDSCDRGFHMECCDPPLTR-MPKGMWICQIC 109
>pdb|2LN0|A Chain A, Structure Of Moz
Length = 110
Score = 36.6 bits (83), Expect = 0.022, Method: Compositional matrix adjust.
Identities = 20/52 (38%), Positives = 25/52 (48%), Gaps = 3/52 (5%)
Query: 139 ILCAVCQST--DGDSKDPIVFCDGCDLMVHATCYGNPLVKEIPDGDWFCAQC 188
I C C S G + D ++FCD CD H C PL + +P G W C C
Sbjct: 57 IECKTCSSCRDQGKNADNMLFCDSCDRGFHMECCDPPLTR-MPKGMWICQIC 107
>pdb|1F62|A Chain A, Wstf-Phd
Length = 51
Score = 36.2 bits (82), Expect = 0.023, Method: Compositional matrix adjust.
Identities = 19/52 (36%), Positives = 26/52 (50%), Gaps = 3/52 (5%)
Query: 141 CAVCQSTDGDSKDPIVFCDGCDLMVHATCYGNPLVKEIPDGDWFCAQCLAAN 192
C VC+ D K ++ CD C+ H C P + E+PDG+W C C A
Sbjct: 3 CKVCRKKGEDDK--LILCDECNKAFHLFCL-RPALYEVPDGEWQCPACQPAT 51
>pdb|4GY5|A Chain A, Crystal Structure Of The Tandem Tudor Domain And Plant
Homeodomain Of Uhrf1 With Histone H3k9me3
pdb|4GY5|B Chain B, Crystal Structure Of The Tandem Tudor Domain And Plant
Homeodomain Of Uhrf1 With Histone H3k9me3
pdb|4GY5|C Chain C, Crystal Structure Of The Tandem Tudor Domain And Plant
Homeodomain Of Uhrf1 With Histone H3k9me3
pdb|4GY5|D Chain D, Crystal Structure Of The Tandem Tudor Domain And Plant
Homeodomain Of Uhrf1 With Histone H3k9me3
Length = 241
Score = 32.3 bits (72), Expect = 0.35, Method: Compositional matrix adjust.
Identities = 18/52 (34%), Positives = 25/52 (48%), Gaps = 3/52 (5%)
Query: 140 LCAVCQ-STDGDSKDP--IVFCDGCDLMVHATCYGNPLVKEIPDGDWFCAQC 188
LC VC G +DP + CD CD+ H C PL + +W+C +C
Sbjct: 187 LCRVCACHLCGGRQDPDKQLMCDECDMAFHIYCLDPPLSSVPSEDEWYCPEC 238
>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 = 32.3 bits (72), Expect = 0.37, Method: Compositional matrix adjust.
Identities = 19/49 (38%), Positives = 26/49 (53%), Gaps = 6/49 (12%)
Query: 140 LCAVCQSTDGDSKDPIVFCDGCDLMVHATCYGNPLVKEIPDGDWFCAQC 188
C VC+ DG ++ CD C H C NP + EIP+G+W C +C
Sbjct: 11 FCRVCK--DGGE---LLCCDTCPSSYHIHCL-NPPLPEIPNGEWLCPRC 53
>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 = 32.3 bits (72), Expect = 0.38, Method: Compositional matrix adjust.
Identities = 19/48 (39%), Positives = 26/48 (54%), Gaps = 6/48 (12%)
Query: 141 CAVCQSTDGDSKDPIVFCDGCDLMVHATCYGNPLVKEIPDGDWFCAQC 188
CAVCQ+ GD ++ C+ C + H TC+ P + P GDW C C
Sbjct: 10 CAVCQNG-GD----LLCCEKCPKVFHLTCHV-PTLLSFPSGDWICTFC 51
>pdb|3ASK|A Chain A, Structure Of Uhrf1 In Complex With Histone Tail
pdb|3ASK|B Chain B, Structure Of Uhrf1 In Complex With Histone Tail
pdb|3ASK|C Chain C, Structure Of Uhrf1 In Complex With Histone Tail
pdb|3ASK|D Chain D, Structure Of Uhrf1 In Complex With Histone Tail
Length = 226
Score = 32.3 bits (72), Expect = 0.40, Method: Compositional matrix adjust.
Identities = 18/52 (34%), Positives = 25/52 (48%), Gaps = 3/52 (5%)
Query: 140 LCAVCQ-STDGDSKDP--IVFCDGCDLMVHATCYGNPLVKEIPDGDWFCAQC 188
LC VC G +DP + CD CD+ H C PL + +W+C +C
Sbjct: 171 LCRVCACHLCGGRQDPDKQLMCDECDMAFHIYCLDPPLSSVPSEDEWYCPEC 222
>pdb|2PUY|A Chain A, Crystal Structure Of The Bhc80 Phd Finger
pdb|2PUY|B Chain B, Crystal Structure Of The Bhc80 Phd Finger
Length = 60
Score = 32.0 bits (71), Expect = 0.49, Method: Compositional matrix adjust.
Identities = 17/49 (34%), Positives = 24/49 (48%), Gaps = 6/49 (12%)
Query: 140 LCAVCQSTDGDSKDPIVFCDGCDLMVHATCYGNPLVKEIPDGDWFCAQC 188
C+VC+ + ++ CD C + H C PL K IP G W C +C
Sbjct: 7 FCSVCRKSGQ-----LLMCDTCSRVYHLDCLDPPL-KTIPKGMWICPRC 49
>pdb|2YQL|A Chain A, Solution Structure Of The Phd Domain In Phd Finger Protein
21a
Length = 56
Score = 31.6 bits (70), Expect = 0.69, Method: Compositional matrix adjust.
Identities = 17/49 (34%), Positives = 24/49 (48%), Gaps = 6/49 (12%)
Query: 140 LCAVCQSTDGDSKDPIVFCDGCDLMVHATCYGNPLVKEIPDGDWFCAQC 188
C+VC+ + ++ CD C + H C PL K IP G W C +C
Sbjct: 11 FCSVCRKSG-----QLLMCDTCSRVYHLDCLDPPL-KTIPKGMWICPRC 53
>pdb|3T6R|A Chain A, Structure Of Uhrf1 In Complex With Unmodified H3
N-Terminal Tail
pdb|3T6R|B Chain B, Structure Of Uhrf1 In Complex With Unmodified H3
N-Terminal Tail
Length = 72
Score = 31.2 bits (69), Expect = 0.83, Method: Compositional matrix adjust.
Identities = 19/56 (33%), Positives = 26/56 (46%), Gaps = 3/56 (5%)
Query: 136 DDGILCAVCQ-STDGDSKDP--IVFCDGCDLMVHATCYGNPLVKEIPDGDWFCAQC 188
D LC VC G +DP + CD CD+ H C PL + +W+C +C
Sbjct: 16 DVNRLCRVCACHLCGGRQDPDKQLMCDECDMAFHIYCLDPPLSSVPSEDEWYCPEC 71
>pdb|3ZVY|A Chain A, Phd Finger Of Human Uhrf1 In Complex With Unmodified
Histone H3 N-Terminal Tail
pdb|3ZVY|B Chain B, Phd Finger Of Human Uhrf1 In Complex With Unmodified
Histone H3 N-Terminal Tail
Length = 72
Score = 31.2 bits (69), Expect = 0.85, Method: Compositional matrix adjust.
Identities = 19/56 (33%), Positives = 26/56 (46%), Gaps = 3/56 (5%)
Query: 136 DDGILCAVCQ-STDGDSKDP--IVFCDGCDLMVHATCYGNPLVKEIPDGDWFCAQC 188
D LC VC G +DP + CD CD+ H C PL + +W+C +C
Sbjct: 13 DVNRLCRVCACHLCGGRQDPDKQLMCDECDMAFHIYCLDPPLSSVPSEDEWYCPEC 68
>pdb|3SHB|A Chain A, Crystal Structure Of Phd Domain Of Uhrf1
Length = 77
Score = 31.2 bits (69), Expect = 0.89, Method: Compositional matrix adjust.
Identities = 18/52 (34%), Positives = 25/52 (48%), Gaps = 3/52 (5%)
Query: 140 LCAVCQ-STDGDSKDP--IVFCDGCDLMVHATCYGNPLVKEIPDGDWFCAQC 188
LC VC G +DP + CD CD+ H C PL + +W+C +C
Sbjct: 23 LCRVCACHLCGGRQDPDKQLMCDECDMAFHIYCLDPPLSSVPSEDEWYCPEC 74
>pdb|1X4I|A Chain A, Solution Structure Of Phd Domain In Inhibitor Of Growth
Protein 3 (Ing3)
Length = 70
Score = 30.8 bits (68), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 16/41 (39%), Positives = 20/41 (48%)
Query: 151 SKDPIVFCDGCDLMVHATCYGNPLVKEIPDGDWFCAQCLAA 191
S +V CD D + YG + E P G W+C QC AA
Sbjct: 15 SYGEMVGCDNQDCPIEWFHYGCVGLTEAPKGKWYCPQCTAA 55
>pdb|2LGG|A Chain A, Structure Of Phd Domain Of Uhrf1 In Complex With H3
Peptide
pdb|2LGK|A Chain A, Nmr Structure Of Uhrf1 Phd Domains In A Complex With
Histone H3 Peptide
pdb|2LGL|A Chain A, Nmr Structure Of The Uhrf1 Phd Domain
Length = 69
Score = 30.8 bits (68), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 18/52 (34%), Positives = 25/52 (48%), Gaps = 3/52 (5%)
Query: 140 LCAVCQ-STDGDSKDP--IVFCDGCDLMVHATCYGNPLVKEIPDGDWFCAQC 188
LC VC G +DP + CD CD+ H C PL + +W+C +C
Sbjct: 15 LCRVCACHLCGGRQDPDKQLMCDECDMAFHIYCLDPPLSSVPSEDEWYCPEC 66
>pdb|3SOU|A Chain A, Structure Of Uhrf1 Phd Finger In Complex With Histone H3
1-9 Peptide
pdb|3SOU|B Chain B, Structure Of Uhrf1 Phd Finger In Complex With Histone H3
1-9 Peptide
pdb|3SOW|A Chain A, Structure Of Uhrf1 Phd Finger In Complex With Histone
H3k4me3 1-9 Peptide
pdb|3SOW|B Chain B, Structure Of Uhrf1 Phd Finger In Complex With Histone
H3k4me3 1-9 Peptide
pdb|3SOX|A Chain A, Structure Of Uhrf1 Phd Finger In The Free Form
pdb|3SOX|B Chain B, Structure Of Uhrf1 Phd Finger In The Free Form
pdb|3ASL|A Chain A, Structure Of Uhrf1 In Complex With Histone Tail
Length = 70
Score = 30.8 bits (68), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 18/52 (34%), Positives = 25/52 (48%), Gaps = 3/52 (5%)
Query: 140 LCAVCQ-STDGDSKDP--IVFCDGCDLMVHATCYGNPLVKEIPDGDWFCAQC 188
LC VC G +DP + CD CD+ H C PL + +W+C +C
Sbjct: 15 LCRVCACHLCGGRQDPDKQLMCDECDMAFHIYCLDPPLSSVPSEDEWYCPEC 66
>pdb|2RO1|A Chain A, Nmr Solution Structures Of Human Kap1 Phd
Finger-Bromodomain
Length = 189
Score = 30.4 bits (67), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 17/56 (30%), Positives = 28/56 (50%), Gaps = 6/56 (10%)
Query: 138 GILCAVCQSTDGDSKDPIVFCDGCDLMVHATCYGNPLVKEIPDGDWFCAQCLAAND 193
+C VCQ GD +V C+ C+ H C+ P ++++P +W C+ C D
Sbjct: 2 ATICRVCQKP-GD----LVMCNQCEFCFHLDCHL-PALQDVPGEEWSCSLCHVLPD 51
>pdb|3ZVZ|B Chain B, Phd Finger Of Human Uhrf1
Length = 57
Score = 30.0 bits (66), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 14/42 (33%), Positives = 21/42 (50%), Gaps = 2/42 (4%)
Query: 149 GDSKDP--IVFCDGCDLMVHATCYGNPLVKEIPDGDWFCAQC 188
G +DP + CD CD+ H C PL + +W+C +C
Sbjct: 12 GGRQDPDKQLMCDECDMAFHIYCLDPPLSSVPSEDEWYCPEC 53
>pdb|1FP0|A Chain A, Solution Structure Of The Phd Domain From The Kap-1
Corepressor
Length = 88
Score = 29.6 bits (65), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 17/53 (32%), Positives = 28/53 (52%), Gaps = 6/53 (11%)
Query: 136 DDGILCAVCQSTDGDSKDPIVFCDGCDLMVHATCYGNPLVKEIPDGDWFCAQC 188
D +C VCQ GD +V C+ C+ H C+ P ++++P +W C+ C
Sbjct: 23 DSATICRVCQKP-GD----LVMCNQCEFCFHLDCHL-PALQDVPGEEWSCSLC 69
>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 = 29.6 bits (65), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 15/48 (31%), Positives = 24/48 (50%), Gaps = 6/48 (12%)
Query: 141 CAVCQSTDGDSKDPIVFCDGCDLMVHATCYGNPLVKEIPDGDWFCAQC 188
CAVCQ+ ++ C+ C + H +C+ P + P G+W C C
Sbjct: 7 CAVCQNGGE-----LLCCEKCPKVFHLSCHV-PTLTNFPSGEWICTFC 48
>pdb|2L5U|A Chain A, Structure Of The First Phd Finger (Phd1) From Chd4 (Mi2b)
Length = 61
Score = 29.6 bits (65), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 17/53 (32%), Positives = 23/53 (43%), Gaps = 6/53 (11%)
Query: 136 DDGILCAVCQSTDGDSKDPIVFCDGCDLMVHATCYGNPLVKEIPDGDWFCAQC 188
D C VCQ I+ CD C H C +P +++ P+G W C C
Sbjct: 9 DHQDYCEVCQQGG-----EIILCDTCPRAYHMVCL-DPDMEKAPEGKWSCPHC 55
>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 = 29.6 bits (65), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 13/34 (38%), Positives = 19/34 (55%), Gaps = 1/34 (2%)
Query: 155 IVFCDGCDLMVHATCYGNPLVKEIPDGDWFCAQC 188
++ CD C H C P + E+PDG+W C +C
Sbjct: 21 LLCCDTCPSSYHIHCL-RPALYEVPDGEWQCPRC 53
>pdb|3UNB|N Chain N, Mouse Constitutive 20s Proteasome In Complex With Pr-957
pdb|3UNB|BB Chain b, Mouse Constitutive 20s Proteasome In Complex With Pr-957
pdb|3UNB|PP Chain p, Mouse Constitutive 20s Proteasome In Complex With Pr-957
pdb|3UNB|4 Chain 4, Mouse Constitutive 20s Proteasome In Complex With Pr-957
pdb|3UNE|N Chain N, Mouse Constitutive 20s Proteasome
pdb|3UNE|BB Chain b, Mouse Constitutive 20s Proteasome
pdb|3UNE|PP Chain p, Mouse Constitutive 20s Proteasome
pdb|3UNE|4 Chain 4, Mouse Constitutive 20s Proteasome
Length = 205
Score = 29.3 bits (64), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 13/40 (32%), Positives = 21/40 (52%), Gaps = 3/40 (7%)
Query: 265 SVECSEPKCCLSFHVTCGLSEDLCIEYREGKKGGAVVAGF 304
S+E +EP H L +++C YRE G ++AG+
Sbjct: 67 SIELNEPPLV---HTAASLFKEMCYRYREDLMAGIIIAGW 103
>pdb|1IRU|H Chain H, Crystal Structure Of The Mammalian 20s Proteasome At 2.75
A Resolution
pdb|1IRU|V Chain V, Crystal Structure Of The Mammalian 20s Proteasome At 2.75
A Resolution
Length = 205
Score = 28.9 bits (63), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 13/40 (32%), Positives = 21/40 (52%), Gaps = 3/40 (7%)
Query: 265 SVECSEPKCCLSFHVTCGLSEDLCIEYREGKKGGAVVAGF 304
S+E +EP H L +++C YRE G ++AG+
Sbjct: 67 SIELNEPPLV---HTAASLFKEMCYRYREDLMAGIIIAGW 103
>pdb|3A8N|A Chain A, Crystal Structure Of The Tiam1 Phccex Domain
Length = 279
Score = 28.9 bits (63), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 12/31 (38%), Positives = 18/31 (58%)
Query: 218 WAHVVCAVLVPEVFFEDPEGREGIDCSKVPK 248
W H ++ +FF + +GR GID + VPK
Sbjct: 39 WKHYWVSLKGCTLFFYETDGRSGIDHNSVPK 69
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
0.321 0.139 0.465
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,146,524
Number of Sequences: 62578
Number of extensions: 421400
Number of successful extensions: 756
Number of sequences better than 100.0: 37
Number of HSP's better than 100.0 without gapping: 22
Number of HSP's successfully gapped in prelim test: 15
Number of HSP's that attempted gapping in prelim test: 710
Number of HSP's gapped (non-prelim): 52
length of query: 331
length of database: 14,973,337
effective HSP length: 99
effective length of query: 232
effective length of database: 8,778,115
effective search space: 2036522680
effective search space used: 2036522680
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 52 (24.6 bits)