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= psy2752
(99 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1KNA|A Chain A, Chromo Domain Of Hp1 Complexed With Histone H3 Tail
Containing Dimethyllysine 9.
pdb|1KNE|A Chain A, Chromo Domain Of Hp1 Complexed With Histone H3 Tail
Containing Trimethyllysine 9
pdb|1Q3L|A Chain A, Chromodomain Of Hp1 Complexed With Histone H3 Tail
Containing Monomethyllysine 9
Length = 69
Score = 53.5 bits (127), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 21/38 (55%), Positives = 30/38 (78%)
Query: 21 TKEGKVKYFLKWKDYPESDNTWEMAEDLDCDDLIRAFE 58
++G V+Y+LKWK YPE++NTWE +LDC DLI+ +E
Sbjct: 27 VRKGMVEYYLKWKGYPETENTWEPENNLDCQDLIQQYE 64
>pdb|3DM1|A Chain A, Crystal Structure Of The Complex Of Human Chromobox
Homolog 3 (cbx3) With Peptide
pdb|3DM1|C Chain C, Crystal Structure Of The Complex Of Human Chromobox
Homolog 3 (cbx3) With Peptide
pdb|3DM1|E Chain E, Crystal Structure Of The Complex Of Human Chromobox
Homolog 3 (cbx3) With Peptide
pdb|3DM1|G Chain G, Crystal Structure Of The Complex Of Human Chromobox
Homolog 3 (cbx3) With Peptide
Length = 58
Score = 52.0 bits (123), Expect = 7e-08, Method: Compositional matrix adjust.
Identities = 22/34 (64%), Positives = 28/34 (82%)
Query: 24 GKVKYFLKWKDYPESDNTWEMAEDLDCDDLIRAF 57
GKV+YFLKWK + ++DNTWE E+LDC +LI AF
Sbjct: 15 GKVEYFLKWKGFTDADNTWEPEENLDCPELIEAF 48
>pdb|2L11|A Chain A, Solution Nmr Structure Of The Cbx3 In Complex With
H3k9me3 Peptide
Length = 54
Score = 52.0 bits (123), Expect = 9e-08, Method: Compositional matrix adjust.
Identities = 22/34 (64%), Positives = 28/34 (82%)
Query: 24 GKVKYFLKWKDYPESDNTWEMAEDLDCDDLIRAF 57
GKV+YFLKWK + ++DNTWE E+LDC +LI AF
Sbjct: 16 GKVEYFLKWKGFTDADNTWEPEENLDCPELIEAF 49
>pdb|3TZD|A Chain A, Crystal Structure Of The Complex Of Human Chromobox
Homolog 3 (cbx3)
Length = 58
Score = 51.6 bits (122), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 22/34 (64%), Positives = 28/34 (82%)
Query: 24 GKVKYFLKWKDYPESDNTWEMAEDLDCDDLIRAF 57
GKV+YFLKWK + ++DNTWE E+LDC +LI AF
Sbjct: 20 GKVEYFLKWKGFTDADNTWEPEENLDCPELIEAF 53
>pdb|1AP0|A Chain A, Structure Of The Chromatin Binding (Chromo) Domain From
Mouse Modifier Protein 1, Nmr, 26 Structures
pdb|1GUW|A Chain A, Structure Of The Chromodomain From Mouse Hp1beta In
Complex With The Lysine 9-Methyl Histone H3 N-Terminal
Peptide, Nmr, 25 Structures
Length = 73
Score = 50.1 bits (118), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 25/53 (47%), Positives = 34/53 (64%), Gaps = 1/53 (1%)
Query: 17 DKKLTKEGKVKYFLKWKDYPESDNTWEMAEDLDCDDLIRAFEENWAVEQEAKK 69
D+++ K GKV+Y LKWK + + DNTWE E+LDC DLI F ++ E K
Sbjct: 21 DRRVVK-GKVEYLLKWKGFSDEDNTWEPEENLDCPDLIAEFLQSQKTAHETDK 72
>pdb|3F2U|A Chain A, Crystal Structure Of Human Chromobox Homolog 1 (Cbx1)
Length = 55
Score = 49.3 bits (116), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 23/41 (56%), Positives = 30/41 (73%), Gaps = 1/41 (2%)
Query: 17 DKKLTKEGKVKYFLKWKDYPESDNTWEMAEDLDCDDLIRAF 57
D+++ K GKV+Y LKWK + + DNTWE E+LDC DLI F
Sbjct: 10 DRRVVK-GKVEYLLKWKGFSDEDNTWEPEENLDCPDLIAEF 49
>pdb|3FDT|A Chain A, Crystal Structure Of The Complex Of Human Chromobox
Homolog 5 (Cbx5) With H3k9(Me)3 Peptide
Length = 59
Score = 45.1 bits (105), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 20/41 (48%), Positives = 29/41 (70%), Gaps = 1/41 (2%)
Query: 17 DKKLTKEGKVKYFLKWKDYPESDNTWEMAEDLDCDDLIRAF 57
D+++ K G+V+Y LKWK + E NTWE ++LDC +LI F
Sbjct: 11 DRRVVK-GQVEYLLKWKGFSEEHNTWEPEKNLDCPELISEF 50
>pdb|2KVM|A Chain A, Solution Structure Of The Cbx7 Chromodomain In Complex
With A H3k27me2 Peptide
Length = 74
Score = 39.3 bits (90), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 18/42 (42%), Positives = 27/42 (64%)
Query: 18 KKLTKEGKVKYFLKWKDYPESDNTWEMAEDLDCDDLIRAFEE 59
KK ++GKV+Y +KWK +P +TWE E + L+ A+EE
Sbjct: 21 KKRVRKGKVEYLVKWKGWPPKYSTWEPEEHILDPRLVMAYEE 62
>pdb|2L12|A Chain A, Solution Nmr Structure Of The Chromobox Protein 7 With
H3k9me3
pdb|2L1B|A Chain A, Solution Nmr Structure Of The Chromobox Protein Cbx7
With H3k27me3
Length = 56
Score = 38.9 bits (89), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 18/42 (42%), Positives = 27/42 (64%)
Query: 18 KKLTKEGKVKYFLKWKDYPESDNTWEMAEDLDCDDLIRAFEE 59
KK ++GKV+Y +KWK +P +TWE E + L+ A+EE
Sbjct: 12 KKRVRKGKVEYLVKWKGWPPKYSTWEPEEHILDPRLVMAYEE 53
>pdb|2K1B|A Chain A, Solution Nmr Structure Of The Chromo Domain Of The
Chromobox Protein Homolog 7
Length = 73
Score = 38.9 bits (89), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 18/42 (42%), Positives = 27/42 (64%)
Query: 18 KKLTKEGKVKYFLKWKDYPESDNTWEMAEDLDCDDLIRAFEE 59
KK ++GKV+Y +KWK +P +TWE E + L+ A+EE
Sbjct: 29 KKRVRKGKVEYLVKWKGWPPKYSTWEPEEHILDPRLVMAYEE 70
>pdb|2DNT|A Chain A, Solution Structure Of Rsgi Ruh-064, A Chromo Domain From
Human Cdna
Length = 78
Score = 38.1 bits (87), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 17/42 (40%), Positives = 27/42 (64%), Gaps = 1/42 (2%)
Query: 17 DKKLTKEGKVKYFLKWKDYPESDNTWEMAEDL-DCDDLIRAF 57
DK+ K+GK +Y ++WK Y D+TWE + L +C++ I F
Sbjct: 21 DKRKNKKGKTEYLVRWKGYDSEDDTWEPEQHLVNCEEYIHDF 62
>pdb|3MTS|A Chain A, Chromo Domain Of Human Histone-lysine
N-methyltransferase Suv39h1
pdb|3MTS|B Chain B, Chromo Domain Of Human Histone-lysine
N-methyltransferase Suv39h1
pdb|3MTS|C Chain C, Chromo Domain Of Human Histone-lysine
N-methyltransferase Suv39h1
Length = 64
Score = 37.4 bits (85), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 12/33 (36%), Positives = 24/33 (72%)
Query: 28 YFLKWKDYPESDNTWEMAEDLDCDDLIRAFEEN 60
Y +KW+ YP+S++TWE ++L C +++ F ++
Sbjct: 18 YLVKWRGYPDSESTWEPRQNLKCVRILKQFHKD 50
>pdb|2K28|A Chain A, Solution Nmr Structure Of The Chromo Domain Of The
Chromobox Protein Homolog 4
Length = 60
Score = 35.0 bits (79), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 15/42 (35%), Positives = 27/42 (64%)
Query: 17 DKKLTKEGKVKYFLKWKDYPESDNTWEMAEDLDCDDLIRAFE 58
+KK ++G+V+Y +KW+ + NTWE E++ L+ AF+
Sbjct: 12 EKKRIRKGRVEYLVKWRGWSPKYNTWEPEENILDPRLLIAFQ 53
>pdb|3I8Z|A Chain A, Crystal Structure Of Human Chromobox Homolog 4 (Cbx4)
Length = 55
Score = 35.0 bits (79), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 15/42 (35%), Positives = 27/42 (64%)
Query: 17 DKKLTKEGKVKYFLKWKDYPESDNTWEMAEDLDCDDLIRAFE 58
+KK ++G+V+Y +KW+ + NTWE E++ L+ AF+
Sbjct: 10 EKKRIRKGRVEYLVKWRGWSPKYNTWEPEENILDPRLLIAFQ 51
>pdb|3GV6|A Chain A, Crystal Structure Of Human Chromobox Homolog 6 (Cbx6)
With H3k9 Peptide
Length = 58
Score = 35.0 bits (79), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 15/42 (35%), Positives = 27/42 (64%)
Query: 18 KKLTKEGKVKYFLKWKDYPESDNTWEMAEDLDCDDLIRAFEE 59
K+ ++G+++Y +KWK + +TWE E++ LI AFE+
Sbjct: 11 KRRIRKGRIEYLVKWKGWAIKYSTWEPEENILDSRLIAAFEQ 52
>pdb|3I90|A Chain A, Crystal Structure Of Human Chromobox Homolog 6 (Cbx6)
With H3k27 Peptide
pdb|3I90|B Chain B, Crystal Structure Of Human Chromobox Homolog 6 (Cbx6)
With H3k27 Peptide
Length = 51
Score = 34.7 bits (78), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 15/42 (35%), Positives = 27/42 (64%)
Query: 18 KKLTKEGKVKYFLKWKDYPESDNTWEMAEDLDCDDLIRAFEE 59
K+ ++G+++Y +KWK + +TWE E++ LI AFE+
Sbjct: 10 KRRIRKGRIEYLVKWKGWAIKYSTWEPEENILDSRLIAAFEQ 51
>pdb|3I91|A Chain A, Crystal Structure Of Human Chromobox Homolog 8 (Cbx8)
With H3k9 Peptide
pdb|3I91|B Chain B, Crystal Structure Of Human Chromobox Homolog 8 (Cbx8)
With H3k9 Peptide
Length = 54
Score = 34.7 bits (78), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 15/43 (34%), Positives = 28/43 (65%)
Query: 18 KKLTKEGKVKYFLKWKDYPESDNTWEMAEDLDCDDLIRAFEEN 60
K+ ++G+++Y +KWK + + +TWE E++ L+ AFEE
Sbjct: 11 KRRIRKGRMEYLVKWKGWSQKYSTWEPEENILDARLLAAFEER 53
>pdb|4HAE|A Chain A, Crystal Structure Of The Cdyl2-Chromodomain
Length = 81
Score = 34.3 bits (77), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 16/42 (38%), Positives = 26/42 (61%), Gaps = 1/42 (2%)
Query: 17 DKKLTKEGKVKYFLKWKDYPESDNTWEMAED-LDCDDLIRAF 57
DK+ K+GK +Y ++WK Y +++TWE L C++ I F
Sbjct: 31 DKRKNKKGKWEYLIRWKGYGSTEDTWEPEHHLLHCEEFIDEF 72
>pdb|2DNV|A Chain A, Solution Structure Of Rsgi Ruh-055, A Chromo Domain From
Mus Musculus Cdna
Length = 64
Score = 33.9 bits (76), Expect = 0.024, Method: Compositional matrix adjust.
Identities = 14/43 (32%), Positives = 27/43 (62%)
Query: 18 KKLTKEGKVKYFLKWKDYPESDNTWEMAEDLDCDDLIRAFEEN 60
K+ ++G+++Y +KWK + + +TWE E++ L+ AFE
Sbjct: 18 KRRIRKGRMEYLVKWKGWSQKYSTWEPEENILDARLLAAFESG 60
>pdb|2D9U|A Chain A, Solution Structure Of The Chromo Domain Of Chromobox
Homolog 2 From Human
Length = 74
Score = 32.7 bits (73), Expect = 0.050, Method: Compositional matrix adjust.
Identities = 13/40 (32%), Positives = 25/40 (62%)
Query: 19 KLTKEGKVKYFLKWKDYPESDNTWEMAEDLDCDDLIRAFE 58
K ++GK++Y +KW+ + N+WE E++ L+ AF+
Sbjct: 19 KRLRKGKLEYLVKWRGWSSKHNSWEPEENILDPRLLLAFQ 58
>pdb|3H91|A Chain A, Crystal Structure Of The Complex Of Human Chromobox
Homolog 2 (Cbx2) And H3k27 Peptide
pdb|3H91|B Chain B, Crystal Structure Of The Complex Of Human Chromobox
Homolog 2 (Cbx2) And H3k27 Peptide
Length = 54
Score = 31.6 bits (70), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 13/40 (32%), Positives = 25/40 (62%)
Query: 19 KLTKEGKVKYFLKWKDYPESDNTWEMAEDLDCDDLIRAFE 58
K ++GK++Y +KW+ + N+WE E++ L+ AF+
Sbjct: 12 KRLRKGKLEYLVKWRGWSSKHNSWEPEENILDPRLLLAFQ 51
>pdb|3QO2|A Chain A, Structural Insights For Mpp8 Chromodomain Interaction
With Histone H3 Lysine 9
pdb|3QO2|B Chain B, Structural Insights For Mpp8 Chromodomain Interaction
With Histone H3 Lysine 9
pdb|3QO2|C Chain C, Structural Insights For Mpp8 Chromodomain Interaction
With Histone H3 Lysine 9
pdb|3QO2|D Chain D, Structural Insights For Mpp8 Chromodomain Interaction
With Histone H3 Lysine 9
Length = 64
Score = 31.6 bits (70), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 17/43 (39%), Positives = 25/43 (58%), Gaps = 1/43 (2%)
Query: 21 TKEGKVKYFLKWKDYPESDNTWEMAEDL-DCDDLIRAFEENWA 62
T+ GKV Y ++WK Y D+TWE L DC +++ F + A
Sbjct: 17 TEGGKVLYKVRWKGYTSDDDTWEPEIHLEDCKEVLLEFRKKIA 59
>pdb|3LWE|A Chain A, The Crystal Structure Of Mpp8
pdb|3LWE|B Chain B, The Crystal Structure Of Mpp8
pdb|3R93|A Chain A, Crystal Structure Of The Chromo Domain Of M-Phase
Phosphoprotein 8 Bound To H3k9me3 Peptide
pdb|3R93|B Chain B, Crystal Structure Of The Chromo Domain Of M-Phase
Phosphoprotein 8 Bound To H3k9me3 Peptide
pdb|3R93|C Chain C, Crystal Structure Of The Chromo Domain Of M-Phase
Phosphoprotein 8 Bound To H3k9me3 Peptide
pdb|3R93|D Chain D, Crystal Structure Of The Chromo Domain Of M-Phase
Phosphoprotein 8 Bound To H3k9me3 Peptide
pdb|3SVM|A Chain A, Human Mpp8 - Human Dnmt3ak47me2 Peptide
Length = 62
Score = 31.6 bits (70), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 17/43 (39%), Positives = 25/43 (58%), Gaps = 1/43 (2%)
Query: 21 TKEGKVKYFLKWKDYPESDNTWEMAEDL-DCDDLIRAFEENWA 62
T+ GKV Y ++WK Y D+TWE L DC +++ F + A
Sbjct: 15 TEGGKVLYKVRWKGYTSDDDTWEPEIHLEDCKEVLLEFRKKIA 57
>pdb|2EE1|A Chain A, Solution Structures Of The Chromo Domain Of Human
Chromodomain Helicase-Dna-Binding Protein 4
Length = 64
Score = 30.8 bits (68), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 13/36 (36%), Positives = 22/36 (61%), Gaps = 1/36 (2%)
Query: 17 DKKLTKEGKVKYFLKWKDYPESDNTWEMAEDLDCDD 52
+ + K+G V Y +KW+D P +WE +ED++ D
Sbjct: 19 NHSVDKKGHVHYLIKWRDLPYDQASWE-SEDVEIQD 53
>pdb|2B2U|C Chain C, Tandem Chromodomains Of Human Chd1 Complexed With
Histone H3 Tail Containing Trimethyllysine 4 And
Dimethylarginine 2
pdb|2B2V|C Chain C, Crystal Structure Analysis Of Human Chd1 Chromodomains 1
And 2 Bound To Histone H3 Resi 1-15 Mek4
pdb|2B2W|C Chain C, Tandem Chromodomains Of Human Chd1 Complexed With
Histone H3 Tail Containing Trimethyllysine 4
pdb|2B2Y|C Chain C, Tandem Chromodomains Of Human Chd1
Length = 115
Score = 30.4 bits (67), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 11/25 (44%), Positives = 16/25 (64%)
Query: 24 GKVKYFLKWKDYPESDNTWEMAEDL 48
G+++Y +KWK + NTWE E L
Sbjct: 56 GEIQYLIKWKGWSHIHNTWETEETL 80
>pdb|2B2T|C Chain C, Tandem Chromodomains Of Human Chd1 Complexed With
Histone H3 Tail Containing Trimethyllysine 4 And
Phosphothreonine 3
Length = 115
Score = 30.4 bits (67), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 11/25 (44%), Positives = 16/25 (64%)
Query: 24 GKVKYFLKWKDYPESDNTWEMAEDL 48
G+++Y +KWK + NTWE E L
Sbjct: 56 GEIQYLIKWKGWSHIHNTWETEETL 80
>pdb|2B2T|A Chain A, Tandem Chromodomains Of Human Chd1 Complexed With
Histone H3 Tail Containing Trimethyllysine 4 And
Phosphothreonine 3
pdb|2B2T|B Chain B, Tandem Chromodomains Of Human Chd1 Complexed With
Histone H3 Tail Containing Trimethyllysine 4 And
Phosphothreonine 3
Length = 187
Score = 30.0 bits (66), Expect = 0.33, Method: Compositional matrix adjust.
Identities = 11/25 (44%), Positives = 16/25 (64%)
Query: 24 GKVKYFLKWKDYPESDNTWEMAEDL 48
G+++Y +KWK + NTWE E L
Sbjct: 56 GEIQYLIKWKGWSHIHNTWETEETL 80
>pdb|2B2U|A Chain A, Tandem Chromodomains Of Human Chd1 Complexed With
Histone H3 Tail Containing Trimethyllysine 4 And
Dimethylarginine 2
pdb|2B2U|B Chain B, Tandem Chromodomains Of Human Chd1 Complexed With
Histone H3 Tail Containing Trimethyllysine 4 And
Dimethylarginine 2
pdb|2B2V|A Chain A, Crystal Structure Analysis Of Human Chd1 Chromodomains 1
And 2 Bound To Histone H3 Resi 1-15 Mek4
pdb|2B2V|B Chain B, Crystal Structure Analysis Of Human Chd1 Chromodomains 1
And 2 Bound To Histone H3 Resi 1-15 Mek4
pdb|2B2W|A Chain A, Tandem Chromodomains Of Human Chd1 Complexed With
Histone H3 Tail Containing Trimethyllysine 4
pdb|2B2W|B Chain B, Tandem Chromodomains Of Human Chd1 Complexed With
Histone H3 Tail Containing Trimethyllysine 4
pdb|2B2Y|A Chain A, Tandem Chromodomains Of Human Chd1
pdb|2B2Y|B Chain B, Tandem Chromodomains Of Human Chd1
Length = 187
Score = 30.0 bits (66), Expect = 0.33, Method: Compositional matrix adjust.
Identities = 11/25 (44%), Positives = 16/25 (64%)
Query: 24 GKVKYFLKWKDYPESDNTWEMAEDL 48
G+++Y +KWK + NTWE E L
Sbjct: 56 GEIQYLIKWKGWSHIHNTWETEETL 80
>pdb|1G6Z|A Chain A, Solution Structure Of The Clr4 Chromo Domain
Length = 70
Score = 30.0 bits (66), Expect = 0.38, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 24/40 (60%), Gaps = 2/40 (5%)
Query: 17 DKKLTKEGKVK-YFLKWKDYPESDNTWEMAEDLD-CDDLI 54
D+KL + G VK Y ++W +Y +TWE E+L C ++
Sbjct: 16 DEKLDRNGAVKLYRIRWLNYSSRSDTWEPPENLSGCSAVL 55
>pdb|3G7L|A Chain A, Chromodomain Of Chp1 In Complex With Histone H3k9me3
Peptide
Length = 61
Score = 29.6 bits (65), Expect = 0.46, Method: Compositional matrix adjust.
Identities = 12/30 (40%), Positives = 19/30 (63%)
Query: 19 KLTKEGKVKYFLKWKDYPESDNTWEMAEDL 48
++ K G +Y++KW Y DNTWE ++L
Sbjct: 17 RVNKNGINEYYIKWAGYDWYDNTWEPEQNL 46
>pdb|2EPB|A Chain A, Solution Structure Of Chromo Domain 2 In Chromodomain-
Helicase-Dna-Binding Protein 6
Length = 68
Score = 29.6 bits (65), Expect = 0.50, Method: Compositional matrix adjust.
Identities = 12/29 (41%), Positives = 17/29 (58%)
Query: 21 TKEGKVKYFLKWKDYPESDNTWEMAEDLD 49
T E Y +KW P ++TWE+ ED+D
Sbjct: 28 TGEEVTHYLVKWCSLPYEESTWELEEDVD 56
>pdb|2RSN|A Chain A, Solution Structure Of The Chromodomain Of Chp1 In
Complex With H3k9me3 Peptide
Length = 75
Score = 29.6 bits (65), Expect = 0.50, Method: Compositional matrix adjust.
Identities = 12/30 (40%), Positives = 19/30 (63%)
Query: 19 KLTKEGKVKYFLKWKDYPESDNTWEMAEDL 48
++ K G +Y++KW Y DNTWE ++L
Sbjct: 31 RVNKNGINEYYIKWAGYDWYDNTWEPEQNL 60
>pdb|2OTD|A Chain A, The Crystal Structure Of The Glycerophosphodiester
Phosphodiesterase From Shigella Flexneri 2a
pdb|2OTD|B Chain B, The Crystal Structure Of The Glycerophosphodiester
Phosphodiesterase From Shigella Flexneri 2a
pdb|2OTD|C Chain C, The Crystal Structure Of The Glycerophosphodiester
Phosphodiesterase From Shigella Flexneri 2a
pdb|2OTD|D Chain D, The Crystal Structure Of The Glycerophosphodiester
Phosphodiesterase From Shigella Flexneri 2a
Length = 247
Score = 28.9 bits (63), Expect = 0.70, Method: Compositional matrix adjust.
Identities = 19/63 (30%), Positives = 32/63 (50%), Gaps = 5/63 (7%)
Query: 17 DKKLTKEGKVKYFLKWKDYPESDNTWEMAEDLDCDDLIRAFEENWAVEQEAKKKAGEPTE 76
D KL+K+G++ + L + + N W +A +L+ DL+R +W +K GEP
Sbjct: 41 DAKLSKDGEI-FLLHDDNLERTSNGWGVAGELNWQDLLRVDAGSW----YSKAFKGEPLP 95
Query: 77 SLE 79
L
Sbjct: 96 LLS 98
>pdb|1PFB|A Chain A, Structural Basis For Specific Binding Of Polycomb
Chromodomain To Histone H3 Methylated At K27
Length = 55
Score = 28.9 bits (63), Expect = 0.85, Method: Compositional matrix adjust.
Identities = 15/42 (35%), Positives = 25/42 (59%)
Query: 18 KKLTKEGKVKYFLKWKDYPESDNTWEMAEDLDCDDLIRAFEE 59
+K K+G V+Y +KWK + + NTWE ++ LI +E+
Sbjct: 11 QKRVKKGVVEYRVKWKGWNQRYNTWEPEVNILDRRLIDIYEQ 52
>pdb|1PDQ|A Chain A, Polycomb Chromodomain Complexed With The Histone H3 Tail
Containing Trimethyllysine 27
Length = 72
Score = 28.5 bits (62), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 15/42 (35%), Positives = 25/42 (59%)
Query: 18 KKLTKEGKVKYFLKWKDYPESDNTWEMAEDLDCDDLIRAFEE 59
+K K+G V+Y +KWK + + NTWE ++ LI +E+
Sbjct: 28 QKRVKKGVVEYRVKWKGWNQRYNTWEPEVNILDRRLIDIYEQ 69
>pdb|3KUP|A Chain A, Crystal Structure Of The Cbx3 Chromo Shadow Domain
pdb|3KUP|B Chain B, Crystal Structure Of The Cbx3 Chromo Shadow Domain
pdb|3KUP|C Chain C, Crystal Structure Of The Cbx3 Chromo Shadow Domain
pdb|3KUP|D Chain D, Crystal Structure Of The Cbx3 Chromo Shadow Domain
Length = 65
Score = 28.1 bits (61), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 11/36 (30%), Positives = 20/36 (55%)
Query: 24 GKVKYFLKWKDYPESDNTWEMAEDLDCDDLIRAFEE 59
G++ + +KWKD E+D ++ C ++ AF E
Sbjct: 26 GELMFLMKWKDSDEADLVLAKEANMKCPQIVIAFYE 61
>pdb|3I3C|A Chain A, Crystal Structural Of Cbx5 Chromo Shadow Domain
pdb|3I3C|B Chain B, Crystal Structural Of Cbx5 Chromo Shadow Domain
pdb|3I3C|C Chain C, Crystal Structural Of Cbx5 Chromo Shadow Domain
pdb|3I3C|D Chain D, Crystal Structural Of Cbx5 Chromo Shadow Domain
Length = 75
Score = 26.9 bits (58), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 11/36 (30%), Positives = 19/36 (52%)
Query: 24 GKVKYFLKWKDYPESDNTWEMAEDLDCDDLIRAFEE 59
G + + +KWKD E+D ++ C ++ AF E
Sbjct: 36 GDLMFLMKWKDTDEADLVLAKEANVKCPQIVIAFYE 71
>pdb|4FSX|A Chain A, Crystal Structure Of Se-Substituted Zea Mays Zmet2 In
Complex With Sah
pdb|4FSX|B Chain B, Crystal Structure Of Se-Substituted Zea Mays Zmet2 In
Complex With Sah
Length = 784
Score = 26.2 bits (56), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 12/39 (30%), Positives = 23/39 (58%), Gaps = 1/39 (2%)
Query: 22 KEGKVKYFLKWKDYPESDNTWEMAEDL-DCDDLIRAFEE 59
+E + + ++W+ Y ++TWE ++L DC IR F +
Sbjct: 328 RENGIYFKVQWEGYGPEEDTWEPIDNLSDCPQKIREFVQ 366
>pdb|4FT2|A Chain A, Crystal Structure Of Zea Mays Zmet2 In Complex
H3(1-15)k9me2 Peptide And Sah
pdb|4FT2|B Chain B, Crystal Structure Of Zea Mays Zmet2 In Complex
H3(1-15)k9me2 Peptide And Sah
pdb|4FT4|B Chain B, Crystal Structure Of Zea Mays Zmet2 In Complex
H3(1-32)k9me2 Peptide And Sah
pdb|4FT4|A Chain A, Crystal Structure Of Zea Mays Zmet2 In Complex
H3(1-32)k9me2 Peptide And Sah
Length = 784
Score = 26.2 bits (56), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 12/39 (30%), Positives = 23/39 (58%), Gaps = 1/39 (2%)
Query: 22 KEGKVKYFLKWKDYPESDNTWEMAEDL-DCDDLIRAFEE 59
+E + + ++W+ Y ++TWE ++L DC IR F +
Sbjct: 328 RENGIYFKVQWEGYGPEEDTWEPIDNLSDCPQKIREFVQ 366
>pdb|2DUW|A Chain A, Solution Structure Of Putative Coa-Binding Protein Of
Klebsiella Pneumoniae
Length = 145
Score = 25.4 bits (54), Expect = 8.5, Method: Compositional matrix adjust.
Identities = 16/44 (36%), Positives = 23/44 (52%), Gaps = 1/44 (2%)
Query: 43 EMAEDLDCDDLIRAFEENWAVEQEAKKKAGEPTESLETGVSDEE 86
++ E +D D+ R E W V QEA G T L+ GV +E+
Sbjct: 66 DVPEKVDMVDVFRNSEAAWGVAQEA-IAIGAKTLWLQLGVINEQ 108
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
0.307 0.127 0.374
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,895,013
Number of Sequences: 62578
Number of extensions: 107387
Number of successful extensions: 193
Number of sequences better than 100.0: 48
Number of HSP's better than 100.0 without gapping: 38
Number of HSP's successfully gapped in prelim test: 10
Number of HSP's that attempted gapping in prelim test: 153
Number of HSP's gapped (non-prelim): 50
length of query: 99
length of database: 14,973,337
effective HSP length: 65
effective length of query: 34
effective length of database: 10,905,767
effective search space: 370796078
effective search space used: 370796078
T: 11
A: 40
X1: 16 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 43 (22.0 bits)
S2: 45 (21.9 bits)