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= psy16276
(215 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3AV2|A Chain A, The Human Nucleosome Structure Containing The Histone
Variant H3.3
pdb|3AV2|E Chain E, The Human Nucleosome Structure Containing The Histone
Variant H3.3
Length = 139
Score = 189 bits (480), Expect = 9e-49, Method: Compositional matrix adjust.
Identities = 95/98 (96%), Positives = 95/98 (96%)
Query: 1 MARTKQTARKSTGGKAPRKQLATKAARKSAPSTGGVKKPHRYRPGTVALREIRRYQKSTE 60
MARTKQTARKSTGGKAPRKQLATKAARKSAPSTGGVKKPHRYRPGTVALREIRRYQKSTE
Sbjct: 4 MARTKQTARKSTGGKAPRKQLATKAARKSAPSTGGVKKPHRYRPGTVALREIRRYQKSTE 63
Query: 61 LLIRKLPFQRLVREIAQDFKTDLRFQSAAIGALQYWIE 98
LLIRKLPFQRLVREIAQDFKTDLRFQSAAIGALQ E
Sbjct: 64 LLIRKLPFQRLVREIAQDFKTDLRFQSAAIGALQEASE 101
>pdb|4HGA|B Chain B, Structure Of The Variant Histone H3.3-H4 Heterodimer In
Complex With Its Chaperone Daxx
Length = 136
Score = 189 bits (480), Expect = 1e-48, Method: Compositional matrix adjust.
Identities = 95/98 (96%), Positives = 95/98 (96%)
Query: 1 MARTKQTARKSTGGKAPRKQLATKAARKSAPSTGGVKKPHRYRPGTVALREIRRYQKSTE 60
MARTKQTARKSTGGKAPRKQLATKAARKSAPSTGGVKKPHRYRPGTVALREIRRYQKSTE
Sbjct: 1 MARTKQTARKSTGGKAPRKQLATKAARKSAPSTGGVKKPHRYRPGTVALREIRRYQKSTE 60
Query: 61 LLIRKLPFQRLVREIAQDFKTDLRFQSAAIGALQYWIE 98
LLIRKLPFQRLVREIAQDFKTDLRFQSAAIGALQ E
Sbjct: 61 LLIRKLPFQRLVREIAQDFKTDLRFQSAAIGALQEASE 98
>pdb|4H9N|A Chain A, Complex Structure 1 Of DaxxH3.3(SUB5)H4
pdb|4H9Q|A Chain A, Complex Structure 4 Of Daxx(E225a)H3.3(SUB5)H4
Length = 135
Score = 187 bits (474), Expect = 5e-48, Method: Compositional matrix adjust.
Identities = 94/97 (96%), Positives = 94/97 (96%)
Query: 2 ARTKQTARKSTGGKAPRKQLATKAARKSAPSTGGVKKPHRYRPGTVALREIRRYQKSTEL 61
ARTKQTARKSTGGKAPRKQLATKAARKSAPSTGGVKKPHRYRPGTVALREIRRYQKSTEL
Sbjct: 1 ARTKQTARKSTGGKAPRKQLATKAARKSAPSTGGVKKPHRYRPGTVALREIRRYQKSTEL 60
Query: 62 LIRKLPFQRLVREIAQDFKTDLRFQSAAIGALQYWIE 98
LIRKLPFQRLVREIAQDFKTDLRFQSAAIGALQ E
Sbjct: 61 LIRKLPFQRLVREIAQDFKTDLRFQSAAIGALQEAAE 97
>pdb|1ID3|A Chain A, Crystal Structure Of The Yeast Nucleosome Core Particle
Reveals Fundamental Differences In Inter-Nucleosome
Interactions
pdb|1ID3|E Chain E, Crystal Structure Of The Yeast Nucleosome Core Particle
Reveals Fundamental Differences In Inter-Nucleosome
Interactions
Length = 135
Score = 185 bits (469), Expect = 2e-47, Method: Compositional matrix adjust.
Identities = 90/97 (92%), Positives = 95/97 (97%)
Query: 2 ARTKQTARKSTGGKAPRKQLATKAARKSAPSTGGVKKPHRYRPGTVALREIRRYQKSTEL 61
ARTKQTARKSTGGKAPRKQLA+KAARKSAPSTGGVKKPHRY+PGTVALREIRR+QKSTEL
Sbjct: 1 ARTKQTARKSTGGKAPRKQLASKAARKSAPSTGGVKKPHRYKPGTVALREIRRFQKSTEL 60
Query: 62 LIRKLPFQRLVREIAQDFKTDLRFQSAAIGALQYWIE 98
LIRKLPFQRLVREIAQDFKTDLRFQS+AIGALQ +E
Sbjct: 61 LIRKLPFQRLVREIAQDFKTDLRFQSSAIGALQESVE 97
>pdb|4H9P|A Chain A, Complex Structure 3 Of DaxxH3.3(SUB5,G90A)H4
pdb|4H9R|A Chain A, Complex Structure 5 Of Daxx(E225a)H3.3(SUB5,G90A)H4
Length = 135
Score = 184 bits (468), Expect = 2e-47, Method: Compositional matrix adjust.
Identities = 93/97 (95%), Positives = 93/97 (95%)
Query: 2 ARTKQTARKSTGGKAPRKQLATKAARKSAPSTGGVKKPHRYRPGTVALREIRRYQKSTEL 61
ARTKQTARKSTGGKAPRKQLATKAARKSAPSTGGVKKPHRYRPGTVALREIRRYQKSTEL
Sbjct: 1 ARTKQTARKSTGGKAPRKQLATKAARKSAPSTGGVKKPHRYRPGTVALREIRRYQKSTEL 60
Query: 62 LIRKLPFQRLVREIAQDFKTDLRFQSAAIGALQYWIE 98
LIRKLPFQRLVREIAQDFKTDLRFQSAAI ALQ E
Sbjct: 61 LIRKLPFQRLVREIAQDFKTDLRFQSAAIAALQEAAE 97
>pdb|4H9O|A Chain A, Complex Structure 2 Of DaxxH3.3(SUB5,G90M)H4
Length = 135
Score = 184 bits (466), Expect = 5e-47, Method: Compositional matrix adjust.
Identities = 93/97 (95%), Positives = 93/97 (95%)
Query: 2 ARTKQTARKSTGGKAPRKQLATKAARKSAPSTGGVKKPHRYRPGTVALREIRRYQKSTEL 61
ARTKQTARKSTGGKAPRKQLATKAARKSAPSTGGVKKPHRYRPGTVALREIRRYQKSTEL
Sbjct: 1 ARTKQTARKSTGGKAPRKQLATKAARKSAPSTGGVKKPHRYRPGTVALREIRRYQKSTEL 60
Query: 62 LIRKLPFQRLVREIAQDFKTDLRFQSAAIGALQYWIE 98
LIRKLPFQRLVREIAQDFKTDLRFQSAAI ALQ E
Sbjct: 61 LIRKLPFQRLVREIAQDFKTDLRFQSAAIMALQEAAE 97
>pdb|3LEL|A Chain A, Structural Insight Into The Sequence-Dependence Of
Nucleosom Positioning
pdb|3LEL|E Chain E, Structural Insight Into The Sequence-Dependence Of
Nucleosom Positioning
pdb|3LEL|K Chain K, Structural Insight Into The Sequence-Dependence Of
Nucleosom Positioning
pdb|3LEL|O Chain O, Structural Insight Into The Sequence-Dependence Of
Nucleosom Positioning
Length = 136
Score = 183 bits (464), Expect = 7e-47, Method: Compositional matrix adjust.
Identities = 91/98 (92%), Positives = 94/98 (95%)
Query: 1 MARTKQTARKSTGGKAPRKQLATKAARKSAPSTGGVKKPHRYRPGTVALREIRRYQKSTE 60
MARTKQTARKSTGGKAPRKQLATKAARKSAP+TGGVKKPHRYRPGTVALREIRRYQKSTE
Sbjct: 1 MARTKQTARKSTGGKAPRKQLATKAARKSAPATGGVKKPHRYRPGTVALREIRRYQKSTE 60
Query: 61 LLIRKLPFQRLVREIAQDFKTDLRFQSAAIGALQYWIE 98
LLIRKLPFQRLVREIAQDFKTDLRFQS+A+ ALQ E
Sbjct: 61 LLIRKLPFQRLVREIAQDFKTDLRFQSSAVMALQEASE 98
>pdb|3AZH|A Chain A, Crystal Structure Of Human Nucleosome Core Particle
Containing H3k122q Mutation
pdb|3AZH|E Chain E, Crystal Structure Of Human Nucleosome Core Particle
Containing H3k122q Mutation
Length = 139
Score = 183 bits (464), Expect = 8e-47, Method: Compositional matrix adjust.
Identities = 91/98 (92%), Positives = 94/98 (95%)
Query: 1 MARTKQTARKSTGGKAPRKQLATKAARKSAPSTGGVKKPHRYRPGTVALREIRRYQKSTE 60
MARTKQTARKSTGGKAPRKQLATKAARKSAP+TGGVKKPHRYRPGTVALREIRRYQKSTE
Sbjct: 4 MARTKQTARKSTGGKAPRKQLATKAARKSAPATGGVKKPHRYRPGTVALREIRRYQKSTE 63
Query: 61 LLIRKLPFQRLVREIAQDFKTDLRFQSAAIGALQYWIE 98
LLIRKLPFQRLVREIAQDFKTDLRFQS+A+ ALQ E
Sbjct: 64 LLIRKLPFQRLVREIAQDFKTDLRFQSSAVMALQEACE 101
>pdb|3AZG|A Chain A, Crystal Structure Of Human Nucleosome Core Particle
Containing H3k115q Mutation
pdb|3AZG|E Chain E, Crystal Structure Of Human Nucleosome Core Particle
Containing H3k115q Mutation
Length = 139
Score = 183 bits (464), Expect = 8e-47, Method: Compositional matrix adjust.
Identities = 91/98 (92%), Positives = 94/98 (95%)
Query: 1 MARTKQTARKSTGGKAPRKQLATKAARKSAPSTGGVKKPHRYRPGTVALREIRRYQKSTE 60
MARTKQTARKSTGGKAPRKQLATKAARKSAP+TGGVKKPHRYRPGTVALREIRRYQKSTE
Sbjct: 4 MARTKQTARKSTGGKAPRKQLATKAARKSAPATGGVKKPHRYRPGTVALREIRRYQKSTE 63
Query: 61 LLIRKLPFQRLVREIAQDFKTDLRFQSAAIGALQYWIE 98
LLIRKLPFQRLVREIAQDFKTDLRFQS+A+ ALQ E
Sbjct: 64 LLIRKLPFQRLVREIAQDFKTDLRFQSSAVMALQEACE 101
>pdb|2HIO|C Chain C, Histone Octamer (Chicken), Chromosomal Protein
pdb|1EQZ|C Chain C, X-Ray Structure Of The Nucleosome Core Particle At 2.5 A
Resolution
pdb|1EQZ|G Chain G, X-Ray Structure Of The Nucleosome Core Particle At 2.5 A
Resolution
pdb|1HQ3|C Chain C, Crystal Structure Of The Histone-Core-Octamer In
KclPHOSPHATE
pdb|1HQ3|G Chain G, Crystal Structure Of The Histone-Core-Octamer In
KclPHOSPHATE
pdb|1TZY|C Chain C, Crystal Structure Of The Core-Histone Octamer To 1.90
Angstrom Resolution
pdb|1TZY|G Chain G, Crystal Structure Of The Core-Histone Octamer To 1.90
Angstrom Resolution
pdb|2ARO|C Chain C, Crystal Structure Of The Native Histone Octamer To 2.1
Angstrom Resolution, Crystalised In The Presence Of
S-nitrosoglutathione
pdb|2ARO|G Chain G, Crystal Structure Of The Native Histone Octamer To 2.1
Angstrom Resolution, Crystalised In The Presence Of
S-nitrosoglutathione
pdb|2F8N|A Chain A, 2.9 Angstrom X-Ray Structure Of Hybrid Macroh2a
Nucleosomes
pdb|2F8N|E Chain E, 2.9 Angstrom X-Ray Structure Of Hybrid Macroh2a
Nucleosomes
Length = 136
Score = 183 bits (464), Expect = 8e-47, Method: Compositional matrix adjust.
Identities = 91/98 (92%), Positives = 94/98 (95%)
Query: 1 MARTKQTARKSTGGKAPRKQLATKAARKSAPSTGGVKKPHRYRPGTVALREIRRYQKSTE 60
MARTKQTARKSTGGKAPRKQLATKAARKSAP+TGGVKKPHRYRPGTVALREIRRYQKSTE
Sbjct: 1 MARTKQTARKSTGGKAPRKQLATKAARKSAPATGGVKKPHRYRPGTVALREIRRYQKSTE 60
Query: 61 LLIRKLPFQRLVREIAQDFKTDLRFQSAAIGALQYWIE 98
LLIRKLPFQRLVREIAQDFKTDLRFQS+A+ ALQ E
Sbjct: 61 LLIRKLPFQRLVREIAQDFKTDLRFQSSAVMALQEASE 98
>pdb|3AFA|A Chain A, The Human Nucleosome Structure
pdb|3AFA|E Chain E, The Human Nucleosome Structure
pdb|3AZI|A Chain A, Crystal Structure Of Human Nucleosome Core Particle
Containing H4k31q Mutation
pdb|3AZI|E Chain E, Crystal Structure Of Human Nucleosome Core Particle
Containing H4k31q Mutation
pdb|3AZJ|A Chain A, Crystal Structure Of Human Nucleosome Core Particle
Containing H4k44q Mutation
pdb|3AZJ|E Chain E, Crystal Structure Of Human Nucleosome Core Particle
Containing H4k44q Mutation
pdb|3AZK|A Chain A, Crystal Structure Of Human Nucleosome Core Particle
Containing H4k59q Mutation
pdb|3AZK|E Chain E, Crystal Structure Of Human Nucleosome Core Particle
Containing H4k59q Mutation
pdb|3AZL|A Chain A, Crystal Structure Of Human Nucleosome Core Particle
Containing H4k77q Mutation
pdb|3AZL|E Chain E, Crystal Structure Of Human Nucleosome Core Particle
Containing H4k77q Mutation
pdb|3AZM|A Chain A, Crystal Structure Of Human Nucleosome Core Particle
Containing H4k79q Mutation
pdb|3AZM|E Chain E, Crystal Structure Of Human Nucleosome Core Particle
Containing H4k79q Mutation
pdb|3AZN|A Chain A, Crystal Structure Of Human Nucleosome Core Particle
Containing H4k91q Mutation
pdb|3AZN|E Chain E, Crystal Structure Of Human Nucleosome Core Particle
Containing H4k91q Mutation
Length = 139
Score = 182 bits (463), Expect = 8e-47, Method: Compositional matrix adjust.
Identities = 91/98 (92%), Positives = 94/98 (95%)
Query: 1 MARTKQTARKSTGGKAPRKQLATKAARKSAPSTGGVKKPHRYRPGTVALREIRRYQKSTE 60
MARTKQTARKSTGGKAPRKQLATKAARKSAP+TGGVKKPHRYRPGTVALREIRRYQKSTE
Sbjct: 4 MARTKQTARKSTGGKAPRKQLATKAARKSAPATGGVKKPHRYRPGTVALREIRRYQKSTE 63
Query: 61 LLIRKLPFQRLVREIAQDFKTDLRFQSAAIGALQYWIE 98
LLIRKLPFQRLVREIAQDFKTDLRFQS+A+ ALQ E
Sbjct: 64 LLIRKLPFQRLVREIAQDFKTDLRFQSSAVMALQEACE 101
>pdb|2CV5|A Chain A, Crystal Structure Of Human Nucleosome Core Particle
pdb|2CV5|E Chain E, Crystal Structure Of Human Nucleosome Core Particle
pdb|1U35|A Chain A, Crystal Structure Of The Nucleosome Core Particle
Containing The Histone Domain Of Macroh2a
pdb|1U35|E Chain E, Crystal Structure Of The Nucleosome Core Particle
Containing The Histone Domain Of Macroh2a
Length = 136
Score = 182 bits (463), Expect = 9e-47, Method: Compositional matrix adjust.
Identities = 91/98 (92%), Positives = 94/98 (95%)
Query: 1 MARTKQTARKSTGGKAPRKQLATKAARKSAPSTGGVKKPHRYRPGTVALREIRRYQKSTE 60
MARTKQTARKSTGGKAPRKQLATKAARKSAP+TGGVKKPHRYRPGTVALREIRRYQKSTE
Sbjct: 1 MARTKQTARKSTGGKAPRKQLATKAARKSAPATGGVKKPHRYRPGTVALREIRRYQKSTE 60
Query: 61 LLIRKLPFQRLVREIAQDFKTDLRFQSAAIGALQYWIE 98
LLIRKLPFQRLVREIAQDFKTDLRFQS+A+ ALQ E
Sbjct: 61 LLIRKLPFQRLVREIAQDFKTDLRFQSSAVMALQEACE 98
>pdb|3AV1|A Chain A, The Human Nucleosome Structure Containing The Histone
Variant H3.2
pdb|3AV1|E Chain E, The Human Nucleosome Structure Containing The Histone
Variant H3.2
Length = 139
Score = 182 bits (463), Expect = 1e-46, Method: Compositional matrix adjust.
Identities = 91/98 (92%), Positives = 94/98 (95%)
Query: 1 MARTKQTARKSTGGKAPRKQLATKAARKSAPSTGGVKKPHRYRPGTVALREIRRYQKSTE 60
MARTKQTARKSTGGKAPRKQLATKAARKSAP+TGGVKKPHRYRPGTVALREIRRYQKSTE
Sbjct: 4 MARTKQTARKSTGGKAPRKQLATKAARKSAPATGGVKKPHRYRPGTVALREIRRYQKSTE 63
Query: 61 LLIRKLPFQRLVREIAQDFKTDLRFQSAAIGALQYWIE 98
LLIRKLPFQRLVREIAQDFKTDLRFQS+A+ ALQ E
Sbjct: 64 LLIRKLPFQRLVREIAQDFKTDLRFQSSAVMALQEASE 101
>pdb|3AZF|A Chain A, Crystal Structure Of Human Nucleosome Core Particle
Containing H3k79q Mutation
pdb|3AZF|E Chain E, Crystal Structure Of Human Nucleosome Core Particle
Containing H3k79q Mutation
Length = 139
Score = 181 bits (460), Expect = 2e-46, Method: Compositional matrix adjust.
Identities = 90/98 (91%), Positives = 94/98 (95%)
Query: 1 MARTKQTARKSTGGKAPRKQLATKAARKSAPSTGGVKKPHRYRPGTVALREIRRYQKSTE 60
MARTKQTARKSTGGKAPRKQLATKAARKSAP+TGGVKKPHRYRPGTVALREIRRYQKSTE
Sbjct: 4 MARTKQTARKSTGGKAPRKQLATKAARKSAPATGGVKKPHRYRPGTVALREIRRYQKSTE 63
Query: 61 LLIRKLPFQRLVREIAQDFKTDLRFQSAAIGALQYWIE 98
LLIRKLPFQRLVREIAQDF+TDLRFQS+A+ ALQ E
Sbjct: 64 LLIRKLPFQRLVREIAQDFQTDLRFQSSAVMALQEACE 101
>pdb|3AZE|A Chain A, Crystal Structure Of Human Nucleosome Core Particle
Containing H3k64q Mutation
pdb|3AZE|E Chain E, Crystal Structure Of Human Nucleosome Core Particle
Containing H3k64q Mutation
Length = 139
Score = 181 bits (460), Expect = 2e-46, Method: Compositional matrix adjust.
Identities = 90/98 (91%), Positives = 94/98 (95%)
Query: 1 MARTKQTARKSTGGKAPRKQLATKAARKSAPSTGGVKKPHRYRPGTVALREIRRYQKSTE 60
MARTKQTARKSTGGKAPRKQLATKAARKSAP+TGGVKKPHRYRPGTVALREIRRYQKSTE
Sbjct: 4 MARTKQTARKSTGGKAPRKQLATKAARKSAPATGGVKKPHRYRPGTVALREIRRYQKSTE 63
Query: 61 LLIRKLPFQRLVREIAQDFKTDLRFQSAAIGALQYWIE 98
LLIR+LPFQRLVREIAQDFKTDLRFQS+A+ ALQ E
Sbjct: 64 LLIRQLPFQRLVREIAQDFKTDLRFQSSAVMALQEACE 101
>pdb|3AYW|A Chain A, Crystal Structure Of Human Nucleosome Core Particle
Containing H3k56q Mutation
pdb|3AYW|E Chain E, Crystal Structure Of Human Nucleosome Core Particle
Containing H3k56q Mutation
Length = 139
Score = 181 bits (460), Expect = 2e-46, Method: Compositional matrix adjust.
Identities = 90/98 (91%), Positives = 94/98 (95%)
Query: 1 MARTKQTARKSTGGKAPRKQLATKAARKSAPSTGGVKKPHRYRPGTVALREIRRYQKSTE 60
MARTKQTARKSTGGKAPRKQLATKAARKSAP+TGGVKKPHRYRPGTVALREIRRYQ+STE
Sbjct: 4 MARTKQTARKSTGGKAPRKQLATKAARKSAPATGGVKKPHRYRPGTVALREIRRYQQSTE 63
Query: 61 LLIRKLPFQRLVREIAQDFKTDLRFQSAAIGALQYWIE 98
LLIRKLPFQRLVREIAQDFKTDLRFQS+A+ ALQ E
Sbjct: 64 LLIRKLPFQRLVREIAQDFKTDLRFQSSAVMALQEACE 101
>pdb|3A6N|A Chain A, The Nucleosome Containing A Testis-Specific Histone
Variant, Human H3t
pdb|3A6N|E Chain E, The Nucleosome Containing A Testis-Specific Histone
Variant, Human H3t
Length = 139
Score = 180 bits (457), Expect = 5e-46, Method: Compositional matrix adjust.
Identities = 89/99 (89%), Positives = 94/99 (94%)
Query: 1 MARTKQTARKSTGGKAPRKQLATKAARKSAPSTGGVKKPHRYRPGTVALREIRRYQKSTE 60
MARTKQTARKSTGGKAPRKQLATK ARKSAP+TGGVKKPHRYRPGTVALREIRRYQKSTE
Sbjct: 4 MARTKQTARKSTGGKAPRKQLATKVARKSAPATGGVKKPHRYRPGTVALREIRRYQKSTE 63
Query: 61 LLIRKLPFQRLVREIAQDFKTDLRFQSAAIGALQYWIEN 99
LLIRKLPFQRL+REIAQDFKTDLRFQS+A+ ALQ E+
Sbjct: 64 LLIRKLPFQRLMREIAQDFKTDLRFQSSAVMALQEACES 102
>pdb|1ZLA|A Chain A, X-Ray Structure Of A Kaposi's Sarcoma Herpesvirus Lana
Peptide Bound To The Nucleosomal Core
pdb|1ZLA|E Chain E, X-Ray Structure Of A Kaposi's Sarcoma Herpesvirus Lana
Peptide Bound To The Nucleosomal Core
Length = 135
Score = 180 bits (457), Expect = 5e-46, Method: Compositional matrix adjust.
Identities = 90/97 (92%), Positives = 93/97 (95%)
Query: 2 ARTKQTARKSTGGKAPRKQLATKAARKSAPSTGGVKKPHRYRPGTVALREIRRYQKSTEL 61
ARTKQTARKSTGGKAPRKQLATKAARKSAP+TGGVKKPHRYRPGTVALREIRRYQKSTEL
Sbjct: 1 ARTKQTARKSTGGKAPRKQLATKAARKSAPATGGVKKPHRYRPGTVALREIRRYQKSTEL 60
Query: 62 LIRKLPFQRLVREIAQDFKTDLRFQSAAIGALQYWIE 98
LIRKLPFQRLVREIAQDFKTDLRFQS+A+ ALQ E
Sbjct: 61 LIRKLPFQRLVREIAQDFKTDLRFQSSAVMALQEASE 97
>pdb|1KX3|A Chain A, X-Ray Structure Of The Nucleosome Core Particle, Ncp146,
At 2.0 A Resolution
pdb|1KX3|E Chain E, X-Ray Structure Of The Nucleosome Core Particle, Ncp146,
At 2.0 A Resolution
pdb|1KX4|A Chain A, X-Ray Structure Of The Nucleosome Core Particle,
Ncp146b, At 2.6 A Resolution
pdb|1KX4|E Chain E, X-Ray Structure Of The Nucleosome Core Particle,
Ncp146b, At 2.6 A Resolution
pdb|1KX5|A Chain A, X-ray Structure Of The Nucleosome Core Particle, Ncp147,
At 1.9 A Resolution
pdb|1KX5|E Chain E, X-ray Structure Of The Nucleosome Core Particle, Ncp147,
At 1.9 A Resolution
pdb|1S32|A Chain A, Molecular Recognition Of The Nucleosomal 'supergroove'
pdb|1S32|E Chain E, Molecular Recognition Of The Nucleosomal 'supergroove'
pdb|1ZBB|A Chain A, Structure Of The 4_601_167 Tetranucleosome
pdb|1ZBB|E Chain E, Structure Of The 4_601_167 Tetranucleosome
pdb|1ZBB|AA Chain a, Structure Of The 4_601_167 Tetranucleosome
pdb|1ZBB|EE Chain e, Structure Of The 4_601_167 Tetranucleosome
pdb|2FJ7|A Chain A, Crystal Structure Of Nucleosome Core Particle Containing
A Poly (Da.Dt) Sequence Element
pdb|2FJ7|E Chain E, Crystal Structure Of Nucleosome Core Particle Containing
A Poly (Da.Dt) Sequence Element
pdb|2NZD|A Chain A, Nucleosome Core Particle Containing 145 Bp Of Dna
pdb|2NZD|E Chain E, Nucleosome Core Particle Containing 145 Bp Of Dna
pdb|3B6F|A Chain A, Nucleosome Core Particle Treated With Cisplatin
pdb|3B6F|E Chain E, Nucleosome Core Particle Treated With Cisplatin
pdb|3B6G|A Chain A, Nucleosome Core Particle Treated With Oxaliplatin
pdb|3B6G|E Chain E, Nucleosome Core Particle Treated With Oxaliplatin
pdb|3C1B|A Chain A, The Effect Of H3 K79 Dimethylation And H4 K20
Trimethylation On Nucleosome And Chromatin Structure
pdb|3C1B|E Chain E, The Effect Of H3 K79 Dimethylation And H4 K20
Trimethylation On Nucleosome And Chromatin Structure
pdb|3KUY|A Chain A, Dna Stretching In The Nucleosome Facilitates Alkylation
By An Intercalating Antitumor Agent
pdb|3KUY|E Chain E, Dna Stretching In The Nucleosome Facilitates Alkylation
By An Intercalating Antitumor Agent
pdb|3LJA|A Chain A, Using Soft X-Rays For A Detailed Picture Of Divalent
Metal Binding In The Nucleosome
pdb|3LJA|E Chain E, Using Soft X-Rays For A Detailed Picture Of Divalent
Metal Binding In The Nucleosome
pdb|3MGP|A Chain A, Binding Of Cobalt Ions To The Nucleosome Core Particle
pdb|3MGP|E Chain E, Binding Of Cobalt Ions To The Nucleosome Core Particle
pdb|3MGQ|A Chain A, Binding Of Nickel Ions To The Nucleosome Core Particle
pdb|3MGQ|E Chain E, Binding Of Nickel Ions To The Nucleosome Core Particle
pdb|3MGR|A Chain A, Binding Of Rubidium Ions To The Nucleosome Core Particle
pdb|3MGR|E Chain E, Binding Of Rubidium Ions To The Nucleosome Core Particle
pdb|3MGS|A Chain A, Binding Of Cesium Ions To The Nucleosome Core Particle
pdb|3MGS|E Chain E, Binding Of Cesium Ions To The Nucleosome Core Particle
pdb|3MVD|A Chain A, Crystal Structure Of The Chromatin Factor Rcc1 In
Complex With The Nucleosome Core Particle
pdb|3MVD|E Chain E, Crystal Structure Of The Chromatin Factor Rcc1 In
Complex With The Nucleosome Core Particle
pdb|3LZ0|A Chain A, Crystal Structure Of Nucleosome Core Particle Composed
Of The Widom 601 Dna Sequence (Orientation 1)
pdb|3LZ0|E Chain E, Crystal Structure Of Nucleosome Core Particle Composed
Of The Widom 601 Dna Sequence (Orientation 1)
pdb|3LZ1|A Chain A, Crystal Structure Of Nucleosome Core Particle Composed
Of The Widom 601 Dna Sequence (Orientation 2)
pdb|3LZ1|E Chain E, Crystal Structure Of Nucleosome Core Particle Composed
Of The Widom 601 Dna Sequence (Orientation 2)
pdb|3O62|A Chain A, Nucleosome Core Particle Modified With A Cisplatin
1,3-Cis-{pt(Nh3) 2}2+-D(Gptpg) Intrastrand Cross-Link
pdb|3O62|E Chain E, Nucleosome Core Particle Modified With A Cisplatin
1,3-Cis-{pt(Nh3) 2}2+-D(Gptpg) Intrastrand Cross-Link
pdb|3MNN|A Chain A, A Ruthenium Antitumour Agent Forms Specific Histone
Protein Adducts In The Nucleosome Core
pdb|3MNN|E Chain E, A Ruthenium Antitumour Agent Forms Specific Histone
Protein Adducts In The Nucleosome Core
pdb|3TU4|A Chain A, Crystal Structure Of The Sir3 Bah Domain In Complex With
A Nucleosome Core Particle.
pdb|3TU4|E Chain E, Crystal Structure Of The Sir3 Bah Domain In Complex With
A Nucleosome Core Particle.
pdb|3REH|A Chain A, 2.5 Angstrom Crystal Structure Of The Nucleosome Core
Particle Assembled With A 145 Bp Alpha-Satellite Dna
(Ncp145)
pdb|3REH|E Chain E, 2.5 Angstrom Crystal Structure Of The Nucleosome Core
Particle Assembled With A 145 Bp Alpha-Satellite Dna
(Ncp145)
pdb|3REI|A Chain A, 2.65 Angstrom Crystal Structure Of The Nucleosome Core
Particle Assembled With A 145 Bp Alpha-Satellite Dna
(Ncp145) Derivatized With Triamminechloroplatinum(Ii)
Chloride
pdb|3REI|E Chain E, 2.65 Angstrom Crystal Structure Of The Nucleosome Core
Particle Assembled With A 145 Bp Alpha-Satellite Dna
(Ncp145) Derivatized With Triamminechloroplatinum(Ii)
Chloride
pdb|3REJ|A Chain A, 2.55 Angstrom Crystal Structure Of The Nucleosome Core
Particle Assembled With A 146 Bp Alpha-Satellite Dna
(Ncp146b)
pdb|3REJ|E Chain E, 2.55 Angstrom Crystal Structure Of The Nucleosome Core
Particle Assembled With A 146 Bp Alpha-Satellite Dna
(Ncp146b)
pdb|3REK|A Chain A, 2.6 Angstrom Crystal Structure Of The Nucleosome Core
Particle Assembled With A 146 Bp Alpha-Satellite Dna
(Ncp146b) Derivatized With Oxaliplatin
pdb|3REK|E Chain E, 2.6 Angstrom Crystal Structure Of The Nucleosome Core
Particle Assembled With A 146 Bp Alpha-Satellite Dna
(Ncp146b) Derivatized With Oxaliplatin
pdb|3REL|A Chain A, 2.7 Angstrom Crystal Structure Of The Nucleosome Core
Particle Assembled With A 146 Bp Alpha-Satellite Dna
(Ncp146b) Derivatized With Triamminechloroplatinum(Ii)
Chloride
pdb|3REL|E Chain E, 2.7 Angstrom Crystal Structure Of The Nucleosome Core
Particle Assembled With A 146 Bp Alpha-Satellite Dna
(Ncp146b) Derivatized With Triamminechloroplatinum(Ii)
Chloride
pdb|3UT9|A Chain A, Crystal Structure Of Nucleosome Core Particle Assembled
With A Palindromic Widom '601' Derivative (Ncp-601l)
pdb|3UT9|E Chain E, Crystal Structure Of Nucleosome Core Particle Assembled
With A Palindromic Widom '601' Derivative (Ncp-601l)
pdb|3UTA|A Chain A, Crystal Structure Of Nucleosome Core Particle Assembled
With An Alpha- Satellite Sequence Containing Two Ttaaa
Elements (Ncp-Ta2)
pdb|3UTA|E Chain E, Crystal Structure Of Nucleosome Core Particle Assembled
With An Alpha- Satellite Sequence Containing Two Ttaaa
Elements (Ncp-Ta2)
pdb|3UTB|A Chain A, Crystal Structure Of Nucleosome Core Particle Assembled
With The 146b Alpha-Satellite Sequence (Ncp146b)
pdb|3UTB|E Chain E, Crystal Structure Of Nucleosome Core Particle Assembled
With The 146b Alpha-Satellite Sequence (Ncp146b)
Length = 135
Score = 180 bits (457), Expect = 5e-46, Method: Compositional matrix adjust.
Identities = 90/97 (92%), Positives = 93/97 (95%)
Query: 2 ARTKQTARKSTGGKAPRKQLATKAARKSAPSTGGVKKPHRYRPGTVALREIRRYQKSTEL 61
ARTKQTARKSTGGKAPRKQLATKAARKSAP+TGGVKKPHRYRPGTVALREIRRYQKSTEL
Sbjct: 1 ARTKQTARKSTGGKAPRKQLATKAARKSAPATGGVKKPHRYRPGTVALREIRRYQKSTEL 60
Query: 62 LIRKLPFQRLVREIAQDFKTDLRFQSAAIGALQYWIE 98
LIRKLPFQRLVREIAQDFKTDLRFQS+A+ ALQ E
Sbjct: 61 LIRKLPFQRLVREIAQDFKTDLRFQSSAVMALQEASE 97
>pdb|2IO5|B Chain B, Crystal Structure Of The Cia- Histone H3-H4 Complex
pdb|2NQB|A Chain A, Drosophila Nucleosome Structure
pdb|2NQB|E Chain E, Drosophila Nucleosome Structure
pdb|2PYO|A Chain A, Drosophila Nucleosome Core
pdb|2PYO|E Chain E, Drosophila Nucleosome Core
pdb|3C9K|C Chain C, Model Of Histone Octamer Tubular Crystals
pdb|3C9K|G Chain G, Model Of Histone Octamer Tubular Crystals
Length = 135
Score = 180 bits (457), Expect = 5e-46, Method: Compositional matrix adjust.
Identities = 90/97 (92%), Positives = 93/97 (95%)
Query: 2 ARTKQTARKSTGGKAPRKQLATKAARKSAPSTGGVKKPHRYRPGTVALREIRRYQKSTEL 61
ARTKQTARKSTGGKAPRKQLATKAARKSAP+TGGVKKPHRYRPGTVALREIRRYQKSTEL
Sbjct: 1 ARTKQTARKSTGGKAPRKQLATKAARKSAPATGGVKKPHRYRPGTVALREIRRYQKSTEL 60
Query: 62 LIRKLPFQRLVREIAQDFKTDLRFQSAAIGALQYWIE 98
LIRKLPFQRLVREIAQDFKTDLRFQS+A+ ALQ E
Sbjct: 61 LIRKLPFQRLVREIAQDFKTDLRFQSSAVMALQEASE 97
>pdb|4H9S|A Chain A, Complex Structure 6 Of DaxxH3.3(SUB7)H4
pdb|4H9S|B Chain B, Complex Structure 6 Of DaxxH3.3(SUB7)H4
Length = 135
Score = 180 bits (456), Expect = 5e-46, Method: Compositional matrix adjust.
Identities = 92/97 (94%), Positives = 93/97 (95%)
Query: 2 ARTKQTARKSTGGKAPRKQLATKAARKSAPSTGGVKKPHRYRPGTVALREIRRYQKSTEL 61
ARTKQTARKSTGGKAPRKQLATKAARKSAPSTGGVKKPHRYRPGTVALREIRRYQKSTEL
Sbjct: 1 ARTKQTARKSTGGKAPRKQLATKAARKSAPSTGGVKKPHRYRPGTVALREIRRYQKSTEL 60
Query: 62 LIRKLPFQRLVREIAQDFKTDLRFQSAAIGALQYWIE 98
LIRKLPFQRLVREI QDFKTDLR+QSAAIGALQ E
Sbjct: 61 LIRKLPFQRLVREICQDFKTDLRWQSAAIGALQEAAE 97
>pdb|1F66|A Chain A, 2.6 A Crystal Structure Of A Nucleosome Core Particle
Containing The Variant Histone H2a.Z
pdb|1F66|E Chain E, 2.6 A Crystal Structure Of A Nucleosome Core Particle
Containing The Variant Histone H2a.Z
Length = 136
Score = 179 bits (455), Expect = 7e-46, Method: Compositional matrix adjust.
Identities = 90/98 (91%), Positives = 93/98 (94%)
Query: 1 MARTKQTARKSTGGKAPRKQLATKAARKSAPSTGGVKKPHRYRPGTVALREIRRYQKSTE 60
MARTKQTARKSTGGKAPRKQLATKAARKSAP+TG VKKPHRYRPGTVALREIRRYQKSTE
Sbjct: 1 MARTKQTARKSTGGKAPRKQLATKAARKSAPATGEVKKPHRYRPGTVALREIRRYQKSTE 60
Query: 61 LLIRKLPFQRLVREIAQDFKTDLRFQSAAIGALQYWIE 98
LLIRKLPFQRLVREIAQDFKTDLRFQS+A+ ALQ E
Sbjct: 61 LLIRKLPFQRLVREIAQDFKTDLRFQSSAVMALQEASE 98
>pdb|3C1C|A Chain A, The Effect Of H3 K79 Dimethylation And H4 K20
Trimethylation On Nucleosome And Chromatin Structure
pdb|3C1C|E Chain E, The Effect Of H3 K79 Dimethylation And H4 K20
Trimethylation On Nucleosome And Chromatin Structure
Length = 135
Score = 179 bits (454), Expect = 1e-45, Method: Compositional matrix adjust.
Identities = 89/97 (91%), Positives = 92/97 (94%)
Query: 2 ARTKQTARKSTGGKAPRKQLATKAARKSAPSTGGVKKPHRYRPGTVALREIRRYQKSTEL 61
ARTKQTARKSTGGKAPRKQLATKAARKSAP+TGGVKKPHRYRPGTVALREIRRYQKSTEL
Sbjct: 1 ARTKQTARKSTGGKAPRKQLATKAARKSAPATGGVKKPHRYRPGTVALREIRRYQKSTEL 60
Query: 62 LIRKLPFQRLVREIAQDFKTDLRFQSAAIGALQYWIE 98
LIRKLPFQRLVREIAQDF TDLRFQS+A+ ALQ E
Sbjct: 61 LIRKLPFQRLVREIAQDFXTDLRFQSSAVMALQEASE 97
>pdb|3KXB|A Chain A, Structural Characterization Of H3k56q Nucleosomes And
Nucleosomal Arrays
pdb|3KXB|E Chain E, Structural Characterization Of H3k56q Nucleosomes And
Nucleosomal Arrays
Length = 135
Score = 179 bits (453), Expect = 1e-45, Method: Compositional matrix adjust.
Identities = 89/97 (91%), Positives = 93/97 (95%)
Query: 2 ARTKQTARKSTGGKAPRKQLATKAARKSAPSTGGVKKPHRYRPGTVALREIRRYQKSTEL 61
ARTKQTARKSTGGKAPRKQLATKAARKSAP+TGGVKKPHRYRPGTVALREIRRYQ+STEL
Sbjct: 1 ARTKQTARKSTGGKAPRKQLATKAARKSAPATGGVKKPHRYRPGTVALREIRRYQESTEL 60
Query: 62 LIRKLPFQRLVREIAQDFKTDLRFQSAAIGALQYWIE 98
LIRKLPFQRLVREIAQDFKTDLRFQS+A+ ALQ E
Sbjct: 61 LIRKLPFQRLVREIAQDFKTDLRFQSSAVMALQEASE 97
>pdb|1P34|A Chain A, Crystallographic Studies Of Nucleosome Core Particles
Containing Histone 'sin' Mutants
pdb|1P34|E Chain E, Crystallographic Studies Of Nucleosome Core Particles
Containing Histone 'sin' Mutants
Length = 135
Score = 175 bits (443), Expect = 2e-44, Method: Compositional matrix adjust.
Identities = 88/97 (90%), Positives = 91/97 (93%)
Query: 2 ARTKQTARKSTGGKAPRKQLATKAARKSAPSTGGVKKPHRYRPGTVALREIRRYQKSTEL 61
ARTKQTARKSTGGKAPRKQLATKAARKSAP+TG KKPHRYRPGTVALREIRRYQKSTEL
Sbjct: 1 ARTKQTARKSTGGKAPRKQLATKAARKSAPATGESKKPHRYRPGTVALREIRRYQKSTEL 60
Query: 62 LIRKLPFQRLVREIAQDFKTDLRFQSAAIGALQYWIE 98
LIRKLPFQRLVREIAQDFKTDLRFQS+A+ ALQ E
Sbjct: 61 LIRKLPFQRLVREIAQDFKTDLRFQSSAVMALQEASE 97
>pdb|1P3B|A Chain A, Crystallographic Studies Of Nucleosome Core Particles
Containing Histone 'sin' Mutants
pdb|1P3B|E Chain E, Crystallographic Studies Of Nucleosome Core Particles
Containing Histone 'sin' Mutants
pdb|1P3F|A Chain A, Crystallographic Studies Of Nucleosome Core Particles
Containing Histone 'sin' Mutants
pdb|1P3F|E Chain E, Crystallographic Studies Of Nucleosome Core Particles
Containing Histone 'sin' Mutants
pdb|1P3G|A Chain A, Crystallographic Studies Of Nucleosome Core Particles
Containing Histone 'sin' Mutants
pdb|1P3G|E Chain E, Crystallographic Studies Of Nucleosome Core Particles
Containing Histone 'sin' Mutants
pdb|1P3I|A Chain A, Crystallographic Studies Of Nucleosome Core Particles
Containing Histone 'sin' Mutants
pdb|1P3I|E Chain E, Crystallographic Studies Of Nucleosome Core Particles
Containing Histone 'sin' Mutants
pdb|1P3O|A Chain A, Crystallographic Studies Of Nucleosome Core Particles
Containing Histone 'sin' Mutants
pdb|1P3O|E Chain E, Crystallographic Studies Of Nucleosome Core Particles
Containing Histone 'sin' Mutants
pdb|1P3P|A Chain A, Crystallographic Studies Of Nucleosome Core Particles
Containing Histone 'sin' Mutants
pdb|1P3P|E Chain E, Crystallographic Studies Of Nucleosome Core Particles
Containing Histone 'sin' Mutants
Length = 135
Score = 175 bits (443), Expect = 2e-44, Method: Compositional matrix adjust.
Identities = 88/97 (90%), Positives = 91/97 (93%)
Query: 2 ARTKQTARKSTGGKAPRKQLATKAARKSAPSTGGVKKPHRYRPGTVALREIRRYQKSTEL 61
ARTKQTARKSTGGKAPRKQLATKAARKSAP+TG KKPHRYRPGTVALREIRRYQKSTEL
Sbjct: 1 ARTKQTARKSTGGKAPRKQLATKAARKSAPATGESKKPHRYRPGTVALREIRRYQKSTEL 60
Query: 62 LIRKLPFQRLVREIAQDFKTDLRFQSAAIGALQYWIE 98
LIRKLPFQRLVREIAQDFKTDLRFQS+A+ ALQ E
Sbjct: 61 LIRKLPFQRLVREIAQDFKTDLRFQSSAVMALQEASE 97
>pdb|1P3M|A Chain A, Crystallographic Studies Of Nucleosome Core Particles
Containing Histone 'sin' Mutants
pdb|1P3M|E Chain E, Crystallographic Studies Of Nucleosome Core Particles
Containing Histone 'sin' Mutants
Length = 135
Score = 175 bits (443), Expect = 2e-44, Method: Compositional matrix adjust.
Identities = 88/97 (90%), Positives = 91/97 (93%)
Query: 2 ARTKQTARKSTGGKAPRKQLATKAARKSAPSTGGVKKPHRYRPGTVALREIRRYQKSTEL 61
ARTKQTARKSTGGKAPRKQLATKAARKSAP+TG KKPHRYRPGTVALREIRRYQKSTEL
Sbjct: 1 ARTKQTARKSTGGKAPRKQLATKAARKSAPATGESKKPHRYRPGTVALREIRRYQKSTEL 60
Query: 62 LIRKLPFQRLVREIAQDFKTDLRFQSAAIGALQYWIE 98
LIRKLPFQRLVREIAQDFKTDLRFQS+A+ ALQ E
Sbjct: 61 LIRKLPFQRLVREIAQDFKTDLRFQSSAVMALQEASE 97
>pdb|1P3L|A Chain A, Crystallographic Studies Of Nucleosome Core Particles
Containing Histone 'sin' Mutants
pdb|1P3L|E Chain E, Crystallographic Studies Of Nucleosome Core Particles
Containing Histone 'sin' Mutants
Length = 135
Score = 175 bits (443), Expect = 2e-44, Method: Compositional matrix adjust.
Identities = 88/97 (90%), Positives = 91/97 (93%)
Query: 2 ARTKQTARKSTGGKAPRKQLATKAARKSAPSTGGVKKPHRYRPGTVALREIRRYQKSTEL 61
ARTKQTARKSTGGKAPRKQLATKAARKSAP+TG KKPHRYRPGTVALREIRRYQKSTEL
Sbjct: 1 ARTKQTARKSTGGKAPRKQLATKAARKSAPATGESKKPHRYRPGTVALREIRRYQKSTEL 60
Query: 62 LIRKLPFQRLVREIAQDFKTDLRFQSAAIGALQYWIE 98
LIRKLPFQRLVREIAQDFKTDLRFQS+A+ ALQ E
Sbjct: 61 LIRKLPFQRLVREIAQDFKTDLRFQSSAVMALQEASE 97
>pdb|1P3A|A Chain A, Crystallographic Studies Of Nucleosome Core Particles
Containing Histone 'sin' Mutants
pdb|1P3A|E Chain E, Crystallographic Studies Of Nucleosome Core Particles
Containing Histone 'sin' Mutants
Length = 135
Score = 174 bits (442), Expect = 2e-44, Method: Compositional matrix adjust.
Identities = 88/97 (90%), Positives = 91/97 (93%)
Query: 2 ARTKQTARKSTGGKAPRKQLATKAARKSAPSTGGVKKPHRYRPGTVALREIRRYQKSTEL 61
ARTKQTARKSTGGKAPRKQLATKAARKSAP+TG KKPHRYRPGTVALREIRRYQKSTEL
Sbjct: 1 ARTKQTARKSTGGKAPRKQLATKAARKSAPATGESKKPHRYRPGTVALREIRRYQKSTEL 60
Query: 62 LIRKLPFQRLVREIAQDFKTDLRFQSAAIGALQYWIE 98
LIRKLPFQRLVREIAQDFKTDLRFQS+A+ ALQ E
Sbjct: 61 LIRKLPFQRLVREIAQDFKTDLRFQSSAVMALQEASE 97
>pdb|1P3K|A Chain A, Crystallographic Studies Of Nucleosome Core Particles
Containing Histone 'sin' Mutants
pdb|1P3K|E Chain E, Crystallographic Studies Of Nucleosome Core Particles
Containing Histone 'sin' Mutants
Length = 135
Score = 174 bits (442), Expect = 2e-44, Method: Compositional matrix adjust.
Identities = 88/97 (90%), Positives = 91/97 (93%)
Query: 2 ARTKQTARKSTGGKAPRKQLATKAARKSAPSTGGVKKPHRYRPGTVALREIRRYQKSTEL 61
ARTKQTARKSTGGKAPRKQLATKAARKSAP+TG KKPHRYRPGTVALREIRRYQKSTEL
Sbjct: 1 ARTKQTARKSTGGKAPRKQLATKAARKSAPATGESKKPHRYRPGTVALREIRRYQKSTEL 60
Query: 62 LIRKLPFQRLVREIAQDFKTDLRFQSAAIGALQYWIE 98
LIRKLPFQRLVREIAQDFKTDLRFQS+A+ ALQ E
Sbjct: 61 LIRKLPFQRLVREIAQDFKTDLRFQSSAVMALQEASE 97
>pdb|1M18|A Chain A, Ligand Binding Alters The Structure And Dynamics Of
Nucleosomal Dna
pdb|1M18|E Chain E, Ligand Binding Alters The Structure And Dynamics Of
Nucleosomal Dna
pdb|1M19|A Chain A, Ligand Binding Alters The Structure And Dynamics Of
Nucleosomal Dna
pdb|1M19|E Chain E, Ligand Binding Alters The Structure And Dynamics Of
Nucleosomal Dna
pdb|1M1A|A Chain A, Ligand Binding Alters The Structure And Dynamics Of
Nucleosomal Dna
pdb|1M1A|E Chain E, Ligand Binding Alters The Structure And Dynamics Of
Nucleosomal Dna
Length = 135
Score = 174 bits (442), Expect = 2e-44, Method: Compositional matrix adjust.
Identities = 87/97 (89%), Positives = 91/97 (93%)
Query: 2 ARTKQTARKSTGGKAPRKQLATKAARKSAPSTGGVKKPHRYRPGTVALREIRRYQKSTEL 61
ARTKQTARKSTGGKAPRKQL TKAA+K AP+TGGVKKPHRYRPGTVALREIRRYQKSTEL
Sbjct: 1 ARTKQTARKSTGGKAPRKQLVTKAAKKCAPATGGVKKPHRYRPGTVALREIRRYQKSTEL 60
Query: 62 LIRKLPFQRLVREIAQDFKTDLRFQSAAIGALQYWIE 98
LIRKLPFQRLVREIAQDFKTDLRFQS+A+ ALQ E
Sbjct: 61 LIRKLPFQRLVREIAQDFKTDLRFQSSAVMALQEASE 97
>pdb|1AOI|A Chain A, Complex Between Nucleosome Core Particle (H3,H4,H2a,H2b)
And 146 Bp Long Dna Fragment
pdb|1AOI|E Chain E, Complex Between Nucleosome Core Particle (H3,H4,H2a,H2b)
And 146 Bp Long Dna Fragment
Length = 116
Score = 144 bits (364), Expect = 3e-35, Method: Compositional matrix adjust.
Identities = 70/74 (94%), Positives = 73/74 (98%)
Query: 21 LATKAARKSAPSTGGVKKPHRYRPGTVALREIRRYQKSTELLIRKLPFQRLVREIAQDFK 80
LATKAARKSAP+TGGVKKPHRYRPGTVALREIRRYQKSTELLIRKLPFQRLVREIAQDFK
Sbjct: 1 LATKAARKSAPATGGVKKPHRYRPGTVALREIRRYQKSTELLIRKLPFQRLVREIAQDFK 60
Query: 81 TDLRFQSAAIGALQ 94
TDLRFQS+A+ ALQ
Sbjct: 61 TDLRFQSSAVMALQ 74
>pdb|3KWQ|A Chain A, Structural Characterization Of H3k56q Nucleosomes And
Nucleo Arrays
pdb|3KWQ|E Chain E, Structural Characterization Of H3k56q Nucleosomes And
Nucleo Arrays
Length = 98
Score = 110 bits (276), Expect = 4e-25, Method: Compositional matrix adjust.
Identities = 52/56 (92%), Positives = 55/56 (98%)
Query: 39 PHRYRPGTVALREIRRYQKSTELLIRKLPFQRLVREIAQDFKTDLRFQSAAIGALQ 94
PHRYRPGTVALREIRRYQ+STELLIRKLPFQRLVREIAQDFKTDLRFQS+A+ ALQ
Sbjct: 1 PHRYRPGTVALREIRRYQESTELLIRKLPFQRLVREIAQDFKTDLRFQSSAVMALQ 56
>pdb|1HIO|C Chain C, Histone Octamer (Chicken), Chromosomal Protein, Alpha
Carbons Only
Length = 93
Score = 99.8 bits (247), Expect = 1e-21, Method: Compositional matrix adjust.
Identities = 48/51 (94%), Positives = 50/51 (98%)
Query: 44 PGTVALREIRRYQKSTELLIRKLPFQRLVREIAQDFKTDLRFQSAAIGALQ 94
PGTVALREIRRYQKSTELLIRKLPFQRLVREIAQDFKTDLRFQS+A+ ALQ
Sbjct: 1 PGTVALREIRRYQKSTELLIRKLPFQRLVREIAQDFKTDLRFQSSAVMALQ 51
>pdb|2HUE|B Chain B, Structure Of The H3-h4 Chaperone Asf1 Bound To Histones
H3 And H4
Length = 77
Score = 64.3 bits (155), Expect = 5e-11, Method: Compositional matrix adjust.
Identities = 30/33 (90%), Positives = 32/33 (96%)
Query: 62 LIRKLPFQRLVREIAQDFKTDLRFQSAAIGALQ 94
LIRKLPFQRLVREIAQDFKTDLRFQS+A+ ALQ
Sbjct: 3 LIRKLPFQRLVREIAQDFKTDLRFQSSAVMALQ 35
>pdb|4EO5|B Chain B, Yeast Asf1 Bound To H3H4G94P MUTANT
Length = 76
Score = 64.3 bits (155), Expect = 5e-11, Method: Compositional matrix adjust.
Identities = 30/33 (90%), Positives = 32/33 (96%)
Query: 62 LIRKLPFQRLVREIAQDFKTDLRFQSAAIGALQ 94
LIRKLPFQRLVREIAQDFKTDLRFQS+A+ ALQ
Sbjct: 2 LIRKLPFQRLVREIAQDFKTDLRFQSSAVMALQ 34
>pdb|2YFV|A Chain A, The Heterotrimeric Complex Of Kluyveromyces Lactis Scm3,
Cse4 And H4
Length = 100
Score = 63.5 bits (153), Expect = 8e-11, Method: Compositional matrix adjust.
Identities = 32/57 (56%), Positives = 43/57 (75%), Gaps = 3/57 (5%)
Query: 41 RYRPGTVALREIRRYQKSTELLIRKLPFQRLVREIAQDFKTD---LRFQSAAIGALQ 94
RY+P +AL EIR+YQ+ST+LLI ++PF RLV+E+ F T+ LR+QS AI ALQ
Sbjct: 6 RYKPTDLALAEIRKYQRSTDLLISRMPFARLVKEVTDQFTTESEPLRWQSMAIMALQ 62
>pdb|4FT4|P Chain P, Crystal Structure Of Zea Mays Zmet2 In Complex
H3(1-32)k9me2 Peptide And Sah
pdb|4FT4|Q Chain Q, Crystal Structure Of Zea Mays Zmet2 In Complex
H3(1-32)k9me2 Peptide And Sah
Length = 32
Score = 57.4 bits (137), Expect = 6e-09, Method: Compositional matrix adjust.
Identities = 30/32 (93%), Positives = 31/32 (96%)
Query: 2 ARTKQTARKSTGGKAPRKQLATKAARKSAPST 33
ARTKQTAR STGGKAPRKQLATKAARKSAP+T
Sbjct: 1 ARTKQTARXSTGGKAPRKQLATKAARKSAPAT 32
>pdb|2YFW|A Chain A, Heterotetramer Structure Of Kluyveromyces Lactis Cse4,H4
pdb|2YFW|C Chain C, Heterotetramer Structure Of Kluyveromyces Lactis Cse4,H4
pdb|2YFW|E Chain E, Heterotetramer Structure Of Kluyveromyces Lactis Cse4,H4
pdb|2YFW|G Chain G, Heterotetramer Structure Of Kluyveromyces Lactis Cse4,H4
Length = 92
Score = 55.8 bits (133), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 29/50 (58%), Positives = 38/50 (76%), Gaps = 3/50 (6%)
Query: 48 ALREIRRYQKSTELLIRKLPFQRLVREIAQDFKTD---LRFQSAAIGALQ 94
AL EIR+YQ+ST+LLI ++PF RLV+E+ F T+ LR+QS AI ALQ
Sbjct: 1 ALAEIRKYQRSTDLLISRMPFARLVKEVTDQFTTESEPLRWQSMAIMALQ 50
>pdb|4HSU|C Chain C, Crystal Structure Of Lsd2-npac With H3(1-26)in Space
Group P21
Length = 30
Score = 55.1 bits (131), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 29/30 (96%), Positives = 29/30 (96%)
Query: 2 ARTKQTARKSTGGKAPRKQLATKAARKSAP 31
ART QTARKSTGGKAPRKQLATKAARKSAP
Sbjct: 1 ARTMQTARKSTGGKAPRKQLATKAARKSAP 30
>pdb|3N9P|B Chain B, Cekdm7a From C.Elegans, Complex With H3k4me3k27me2
Peptide And Nog
pdb|3N9P|C Chain C, Cekdm7a From C.Elegans, Complex With H3k4me3k27me2
Peptide And Nog
Length = 32
Score = 54.3 bits (129), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 28/32 (87%), Positives = 30/32 (93%)
Query: 2 ARTKQTARKSTGGKAPRKQLATKAARKSAPST 33
ART QTARKSTGGKAPRKQLATKAAR SAP++
Sbjct: 1 ARTXQTARKSTGGKAPRKQLATKAARXSAPAS 32
>pdb|3N9N|B Chain B, Cekdm7a From C.Elegans, Complex With H3k4me3k9me2
Peptide And Nog
pdb|3N9N|C Chain C, Cekdm7a From C.Elegans, Complex With H3k4me3k9me2
Peptide And Nog
Length = 32
Score = 54.3 bits (129), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 28/32 (87%), Positives = 30/32 (93%)
Query: 2 ARTKQTARKSTGGKAPRKQLATKAARKSAPST 33
ART QTAR STGGKAPRKQLATKAARKSAP++
Sbjct: 1 ARTXQTARXSTGGKAPRKQLATKAARKSAPAS 32
>pdb|3R45|A Chain A, Structure Of A Cenp-A-Histone H4 Heterodimer In Complex
With Chaperone Hjurp
Length = 156
Score = 52.4 bits (124), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 41/97 (42%), Positives = 52/97 (53%), Gaps = 9/97 (9%)
Query: 9 RKSTGGKAPRKQLATKAAR----KSAPSTGGVKKPH-RYRPGTVALREIRRYQKSTELLI 63
R+S +APR++ + + PS G H R R G L+EIR+ QKST LLI
Sbjct: 21 RRSRKPEAPRRRSPSPTPTPGPSRRGPSLGASSHQHSRRRQGW--LKEIRKLQKSTHLLI 78
Query: 64 RKLPFQRLVREIAQDF--KTDLRFQSAAIGALQYWIE 98
RKLPF RL REI F D +Q+ A+ ALQ E
Sbjct: 79 RKLPFSRLAREICVKFTRGVDFNWQAQALLALQEAAE 115
>pdb|3AN2|A Chain A, The Structure Of The Centromeric Nucleosome Containing
Cenp-A
pdb|3AN2|E Chain E, The Structure Of The Centromeric Nucleosome Containing
Cenp-A
Length = 143
Score = 52.4 bits (124), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 35/70 (50%), Positives = 41/70 (58%), Gaps = 5/70 (7%)
Query: 28 KSAPSTGGVKKPH-RYRPGTVALREIRRYQKSTELLIRKLPFQRLVREIAQDF--KTDLR 84
+ PS G H R R G L+EIR+ QKST LLIRKLPF RL REI F D
Sbjct: 31 RRGPSLGASSHQHSRRRQGW--LKEIRKLQKSTHLLIRKLPFSRLAREICVKFTRGVDFN 88
Query: 85 FQSAAIGALQ 94
+Q+ A+ ALQ
Sbjct: 89 WQAQALLALQ 98
>pdb|3NQU|A Chain A, Crystal Structure Of Partially Trypsinized (Cenp-AH4)2
HETEROTETRAMER
Length = 140
Score = 52.4 bits (124), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 35/70 (50%), Positives = 41/70 (58%), Gaps = 5/70 (7%)
Query: 28 KSAPSTGGVKKPH-RYRPGTVALREIRRYQKSTELLIRKLPFQRLVREIAQDF--KTDLR 84
+ PS G H R R G L+EIR+ QKST LLIRKLPF RL REI F D
Sbjct: 28 RRGPSLGASSHQHSRRRQGW--LKEIRKLQKSTHLLIRKLPFSRLAREICVKFTRGVDFN 85
Query: 85 FQSAAIGALQ 94
+Q+ A+ ALQ
Sbjct: 86 WQAQALLALQ 95
>pdb|4GU0|E Chain E, Crystal Structure Of Lsd2 With H3
pdb|4GU0|F Chain F, Crystal Structure Of Lsd2 With H3
Length = 26
Score = 48.1 bits (113), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 25/26 (96%), Positives = 25/26 (96%)
Query: 2 ARTKQTARKSTGGKAPRKQLATKAAR 27
ART QTARKSTGGKAPRKQLATKAAR
Sbjct: 1 ARTMQTARKSTGGKAPRKQLATKAAR 26
>pdb|3U5P|I Chain I, Crystal Structure Of The Complex Of Trim33 Phd-Bromo And
H3(1-28) K9me3k14ack18ack23ac Histone Peptide
pdb|3U5P|J Chain J, Crystal Structure Of The Complex Of Trim33 Phd-Bromo And
H3(1-28) K9me3k14ack18ack23ac Histone Peptide
pdb|3U5P|K Chain K, Crystal Structure Of The Complex Of Trim33 Phd-Bromo And
H3(1-28) K9me3k14ack18ack23ac Histone Peptide
pdb|3U5P|L Chain L, Crystal Structure Of The Complex Of Trim33 Phd-Bromo And
H3(1-28) K9me3k14ack18ack23ac Histone Peptide
pdb|3U5P|M Chain M, Crystal Structure Of The Complex Of Trim33 Phd-Bromo And
H3(1-28) K9me3k14ack18ack23ac Histone Peptide
pdb|3U5P|N Chain N, Crystal Structure Of The Complex Of Trim33 Phd-Bromo And
H3(1-28) K9me3k14ack18ack23ac Histone Peptide
pdb|3U5P|O Chain O, Crystal Structure Of The Complex Of Trim33 Phd-Bromo And
H3(1-28) K9me3k14ack18ack23ac Histone Peptide
pdb|3U5P|P Chain P, Crystal Structure Of The Complex Of Trim33 Phd-Bromo And
H3(1-28) K9me3k14ack18ack23ac Histone Peptide
Length = 28
Score = 45.8 bits (107), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 24/28 (85%), Positives = 24/28 (85%)
Query: 2 ARTKQTARKSTGGKAPRKQLATKAARKS 29
ARTKQTAR STGG APR QLAT AARKS
Sbjct: 1 ARTKQTARXSTGGXAPRXQLATXAARKS 28
>pdb|3KV4|B Chain B, Structure Of Phf8 In Complex With Histone H3
Length = 24
Score = 43.1 bits (100), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 22/24 (91%), Positives = 22/24 (91%)
Query: 2 ARTKQTARKSTGGKAPRKQLATKA 25
ART QTAR STGGKAPRKQLATKA
Sbjct: 1 ARTXQTARXSTGGKAPRKQLATKA 24
>pdb|3A1B|A Chain A, Crystal Structure Of The Dnmt3a Add Domain In Complex
With Histone H3
Length = 159
Score = 42.7 bits (99), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 20/20 (100%), Positives = 20/20 (100%)
Query: 2 ARTKQTARKSTGGKAPRKQL 21
ARTKQTARKSTGGKAPRKQL
Sbjct: 1 ARTKQTARKSTGGKAPRKQL 20
>pdb|2L5A|A Chain A, Structural Basis For Recognition Of Centromere Specific
Histone H3 Variant By Nonhistone Scm3
Length = 235
Score = 42.4 bits (98), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 22/37 (59%), Positives = 27/37 (72%), Gaps = 3/37 (8%)
Query: 61 LLIRKLPFQRLVREIAQDFKT---DLRFQSAAIGALQ 94
LLI K+PF RLV+E+ +F T DLR+QS AI ALQ
Sbjct: 10 LLISKIPFARLVKEVTDEFTTKDQDLRWQSMAIMALQ 46
>pdb|2X4W|B Chain B, Molecular Basis Of Histone H3k36me3 Recognition By The
Pwwp Domain Of Brpf1.
pdb|2X4X|B Chain B, Molecular Basis Of Histone H3k36me3 Recognition By The
Pwwp Domain Of Brpf1.
pdb|2X4X|D Chain D, Molecular Basis Of Histone H3k36me3 Recognition By The
Pwwp Domain Of Brpf1.
pdb|2X4X|F Chain F, Molecular Basis Of Histone H3k36me3 Recognition By The
Pwwp Domain Of Brpf1.
pdb|2X4X|H Chain H, Molecular Basis Of Histone H3k36me3 Recognition By The
Pwwp Domain Of Brpf1.
pdb|2X4Y|B Chain B, Molecular Basis Of Histone H3k36me3 Recognition By The
Pwwp Domain Of Brpf1.
pdb|2X4Y|D Chain D, Molecular Basis Of Histone H3k36me3 Recognition By The
Pwwp Domain Of Brpf1.
pdb|2X4Y|F Chain F, Molecular Basis Of Histone H3k36me3 Recognition By The
Pwwp Domain Of Brpf1.
pdb|2X4Y|H Chain H, Molecular Basis Of Histone H3k36me3 Recognition By The
Pwwp Domain Of Brpf1.
pdb|2X4Y|J Chain J, Molecular Basis Of Histone H3k36me3 Recognition By The
Pwwp Domain Of Brpf1.
pdb|2X4Y|L Chain L, Molecular Basis Of Histone H3k36me3 Recognition By The
Pwwp Domain Of Brpf1.
pdb|2X4Y|N Chain N, Molecular Basis Of Histone H3k36me3 Recognition By The
Pwwp Domain Of Brpf1.
pdb|2X4Y|P Chain P, Molecular Basis Of Histone H3k36me3 Recognition By The
Pwwp Domain Of Brpf1
Length = 21
Score = 42.0 bits (97), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 19/21 (90%), Positives = 20/21 (95%)
Query: 23 TKAARKSAPSTGGVKKPHRYR 43
TKAARKSAP+TGGV KPHRYR
Sbjct: 1 TKAARKSAPATGGVXKPHRYR 21
>pdb|2P5B|I Chain I, The Complex Structure Of Jmjd2a And Trimethylated H3k36
Peptide
pdb|2P5B|J Chain J, The Complex Structure Of Jmjd2a And Trimethylated H3k36
Peptide
pdb|2PXJ|I Chain I, The Complex Structure Of Jmjd2a And Monomethylated H3k36
Peptide
pdb|2PXJ|J Chain J, The Complex Structure Of Jmjd2a And Monomethylated H3k36
Peptide
Length = 22
Score = 41.2 bits (95), Expect = 5e-04, Method: Composition-based stats.
Identities = 19/21 (90%), Positives = 20/21 (95%)
Query: 27 RKSAPSTGGVKKPHRYRPGTV 47
RKSAP+TGGV KPHRYRPGTV
Sbjct: 1 RKSAPATGGVXKPHRYRPGTV 21
>pdb|3AVR|B Chain B, Catalytic Fragment Of UtxKDM6A BOUND WITH HISTONE
H3K27ME3 PEPTIDE, N-Oxyalylglycine, And Ni(Ii)
Length = 22
Score = 40.8 bits (94), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 20/22 (90%), Positives = 21/22 (95%)
Query: 18 RKQLATKAARKSAPSTGGVKKP 39
RKQLATKAAR SAP+TGGVKKP
Sbjct: 1 RKQLATKAARXSAPATGGVKKP 22
>pdb|2KFT|B Chain B, Nmr Solution Structure Of The First Phd Finger Domain Of
Human Autoimmune Regulator (Aire) In Complex With
Histone H3(1-20cys) Peptide
Length = 21
Score = 40.8 bits (94), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 20/20 (100%), Positives = 20/20 (100%)
Query: 2 ARTKQTARKSTGGKAPRKQL 21
ARTKQTARKSTGGKAPRKQL
Sbjct: 1 ARTKQTARKSTGGKAPRKQL 20
>pdb|2KWK|B Chain B, Solution Structures Of The Double Phd Fingers Of Human
Transcriptional Protein Dpf3b Bound To A H3 Peptide
Wild Type
Length = 20
Score = 40.8 bits (94), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 20/20 (100%), Positives = 20/20 (100%)
Query: 2 ARTKQTARKSTGGKAPRKQL 21
ARTKQTARKSTGGKAPRKQL
Sbjct: 1 ARTKQTARKSTGGKAPRKQL 20
>pdb|2LY8|A Chain A, The Budding Yeast Chaperone Scm3 Recognizes The
Partially Unfolded Dimer Of The Centromere-specific
Cse4/h4 Histone Variant
Length = 121
Score = 40.4 bits (93), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 21/36 (58%), Positives = 26/36 (72%), Gaps = 3/36 (8%)
Query: 62 LIRKLPFQRLVREIAQDFKT---DLRFQSAAIGALQ 94
LI K+PF RLV+E+ +F T DLR+QS AI ALQ
Sbjct: 1 LISKIPFARLVKEVTDEFTTKDQDLRWQSMAIMALQ 36
>pdb|2UXN|E Chain E, Structural Basis Of Histone Demethylation By Lsd1
Revealed By Suicide Inactivation
Length = 21
Score = 40.4 bits (93), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 20/21 (95%), Positives = 20/21 (95%)
Query: 2 ARTKQTARKSTGGKAPRKQLA 22
ART QTARKSTGGKAPRKQLA
Sbjct: 1 ARTXQTARKSTGGKAPRKQLA 21
>pdb|2V1D|C Chain C, Structural Basis Of Lsd1-Corest Selectivity In Histone
H3 Recognition
pdb|4GUR|C Chain C, Crystal Structure Of Lsd2-npac With H3 In Space Group
P21
pdb|4GUS|C Chain C, Crystal Structure Of Lsd2-npac With H3 In Space Group
P3221
Length = 21
Score = 40.0 bits (92), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 20/21 (95%), Positives = 20/21 (95%)
Query: 2 ARTKQTARKSTGGKAPRKQLA 22
ART QTARKSTGGKAPRKQLA
Sbjct: 1 ARTMQTARKSTGGKAPRKQLA 21
>pdb|2R10|A Chain A, Structure Of An Acetylated Rsc4 Tandem Bromodomain
Histone Chimera
pdb|2R10|B Chain B, Structure Of An Acetylated Rsc4 Tandem Bromodomain
Histone Chimera
Length = 361
Score = 39.7 bits (91), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 20/39 (51%), Positives = 22/39 (56%)
Query: 7 TARKSTGGKAPRKQLATKAARKSAPSTGGVKKPHRYRPG 45
TARKSTGG APRK RK A GG + +Y PG
Sbjct: 7 TARKSTGGXAPRKGGMVVKKRKLATEAGGSDERPKYLPG 45
>pdb|1M1D|B Chain B, Tetrahymena Gcn5 With Bound Bisubstrate Analog Inhibitor
pdb|1M1D|D Chain D, Tetrahymena Gcn5 With Bound Bisubstrate Analog Inhibitor
pdb|2KTB|A Chain A, Solution Structure Of The Second Bromodomain Of Human
Polybr Complex With An Acetylated Peptide From Histone
3
pdb|2KWJ|B Chain B, Solution Structures Of The Double Phd Fingers Of Human
Transcriptional Protein Dpf3 Bound To A Histone Peptide
Containing Acetylation At Lysine 14
Length = 20
Score = 38.9 bits (89), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 19/20 (95%), Positives = 19/20 (95%)
Query: 2 ARTKQTARKSTGGKAPRKQL 21
ARTKQTARKSTGG APRKQL
Sbjct: 1 ARTKQTARKSTGGXAPRKQL 20
>pdb|2YBA|C Chain C, Crystal Structure Of Nurf55 In Complex With Histone H3
pdb|2YBA|D Chain D, Crystal Structure Of Nurf55 In Complex With Histone H3
Length = 19
Score = 38.9 bits (89), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 19/19 (100%), Positives = 19/19 (100%)
Query: 2 ARTKQTARKSTGGKAPRKQ 20
ARTKQTARKSTGGKAPRKQ
Sbjct: 1 ARTKQTARKSTGGKAPRKQ 19
>pdb|2G46|C Chain C, Structure Of Vset In Complex With Mek27 H3 Pept. And
Cofactor Product Sah
pdb|2G46|D Chain D, Structure Of Vset In Complex With Mek27 H3 Pept. And
Cofactor Product Sah
Length = 21
Score = 38.9 bits (89), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 19/21 (90%), Positives = 20/21 (95%)
Query: 14 GKAPRKQLATKAARKSAPSTG 34
GKAPRKQLATKAAR SAP+TG
Sbjct: 1 GKAPRKQLATKAARXSAPATG 21
>pdb|4FWF|E Chain E, Complex Structure Of Lsd2/aof1/kdm1b With H3k4 Mimic
Length = 20
Score = 38.5 bits (88), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 19/20 (95%), Positives = 19/20 (95%)
Query: 2 ARTKQTARKSTGGKAPRKQL 21
ART QTARKSTGGKAPRKQL
Sbjct: 1 ARTMQTARKSTGGKAPRKQL 20
>pdb|3U5O|I Chain I, Crystal Structure Of The Complex Of Trim33 Phd-Bromo And
H3(1-22) K9me3k14ack18ac Histone Peptide
pdb|3U5O|J Chain J, Crystal Structure Of The Complex Of Trim33 Phd-Bromo And
H3(1-22) K9me3k14ack18ac Histone Peptide
pdb|3U5O|K Chain K, Crystal Structure Of The Complex Of Trim33 Phd-Bromo And
H3(1-22) K9me3k14ack18ac Histone Peptide
pdb|3U5O|L Chain L, Crystal Structure Of The Complex Of Trim33 Phd-Bromo And
H3(1-22) K9me3k14ack18ac Histone Peptide
pdb|3U5O|M Chain M, Crystal Structure Of The Complex Of Trim33 Phd-Bromo And
H3(1-22) K9me3k14ack18ac Histone Peptide
pdb|3U5O|N Chain N, Crystal Structure Of The Complex Of Trim33 Phd-Bromo And
H3(1-22) K9me3k14ack18ac Histone Peptide
pdb|3U5O|O Chain O, Crystal Structure Of The Complex Of Trim33 Phd-Bromo And
H3(1-22) K9me3k14ack18ac Histone Peptide
pdb|3U5O|P Chain P, Crystal Structure Of The Complex Of Trim33 Phd-Bromo And
H3(1-22) K9me3k14ack18ac Histone Peptide
Length = 22
Score = 38.5 bits (88), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 19/22 (86%), Positives = 19/22 (86%)
Query: 2 ARTKQTARKSTGGKAPRKQLAT 23
ARTKQTAR STGG APR QLAT
Sbjct: 1 ARTKQTARXSTGGXAPRXQLAT 22
>pdb|1PU9|B Chain B, Crystal Structure Of Tetrahymena Gcn5 With Bound
Coenzyme A And A 19-Residue Histone H3 Peptide
Length = 19
Score = 37.7 bits (86), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 18/19 (94%), Positives = 19/19 (100%)
Query: 6 QTARKSTGGKAPRKQLATK 24
QTARKSTGGKAPRKQLA+K
Sbjct: 1 QTARKSTGGKAPRKQLASK 19
>pdb|2B2W|D Chain D, Tandem Chromodomains Of Human Chd1 Complexed With
Histone H3 Tail Containing Trimethyllysine 4
Length = 20
Score = 37.0 bits (84), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 18/19 (94%), Positives = 18/19 (94%)
Query: 2 ARTKQTARKSTGGKAPRKQ 20
ART QTARKSTGGKAPRKQ
Sbjct: 1 ARTXQTARKSTGGKAPRKQ 19
>pdb|3U5N|C Chain C, Crystal Structure Of The Complex Of Trim33 Phd-Bromo And
H3(1-20) K9me3k14ac Histone Peptide
pdb|3U5N|D Chain D, Crystal Structure Of The Complex Of Trim33 Phd-Bromo And
H3(1-20) K9me3k14ac Histone Peptide
Length = 20
Score = 37.0 bits (84), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 18/20 (90%), Positives = 18/20 (90%)
Query: 2 ARTKQTARKSTGGKAPRKQL 21
ARTKQTAR STGG APRKQL
Sbjct: 1 ARTKQTARXSTGGXAPRKQL 20
>pdb|2K3Y|A Chain A, Solution Structure Of Eaf3 Chromo Barrel Domain Bound To
Histone H3 With A Dimethyllysine Analog H3k36me2
Length = 136
Score = 36.6 bits (83), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 18/29 (62%), Positives = 22/29 (75%), Gaps = 1/29 (3%)
Query: 16 APRKQLATKAAR-KSAPSTGGVKKPHRYR 43
A +K+LA +A SAP+TGGV KPHRYR
Sbjct: 108 AMKKRLANEAGSTGSAPATGGVXKPHRYR 136
>pdb|3O34|B Chain B, Crystal Structure Of Trim24 Phd-Bromo Complexed With
H3(13-32)k23ac Peptide
Length = 22
Score = 36.6 bits (83), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 18/20 (90%), Positives = 19/20 (95%)
Query: 14 GKAPRKQLATKAARKSAPST 33
GKAPRKQLAT AARKSAP+T
Sbjct: 1 GKAPRKQLATXAARKSAPAT 20
>pdb|1PUA|B Chain B, Crystal Structure Of Tetrahymena Gcn5 With Bound
Coenzyme A And A Phosphorylated, 19-Residue Histone H3
Peptide
Length = 19
Score = 35.8 bits (81), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 17/19 (89%), Positives = 18/19 (94%)
Query: 6 QTARKSTGGKAPRKQLATK 24
QTARK TGGKAPRKQLA+K
Sbjct: 1 QTARKXTGGKAPRKQLASK 19
>pdb|2B2T|D Chain D, Tandem Chromodomains Of Human Chd1 Complexed With
Histone H3 Tail Containing Trimethyllysine 4 And
Phosphothreonine 3
Length = 20
Score = 35.0 bits (79), Expect = 0.031, Method: Compositional matrix adjust.
Identities = 17/19 (89%), Positives = 17/19 (89%)
Query: 2 ARTKQTARKSTGGKAPRKQ 20
AR QTARKSTGGKAPRKQ
Sbjct: 1 ARXXQTARKSTGGKAPRKQ 19
>pdb|3V43|Q Chain Q, Crystal Structure Of Moz
Length = 18
Score = 35.0 bits (79), Expect = 0.033, Method: Compositional matrix adjust.
Identities = 17/18 (94%), Positives = 17/18 (94%)
Query: 2 ARTKQTARKSTGGKAPRK 19
ARTKQTARKSTGG APRK
Sbjct: 1 ARTKQTARKSTGGXAPRK 18
>pdb|3NQJ|A Chain A, Crystal Structure Of (Cenp-AH4)2 HETEROTETRAMER
Length = 82
Score = 34.7 bits (78), Expect = 0.044, Method: Compositional matrix adjust.
Identities = 20/36 (55%), Positives = 23/36 (63%), Gaps = 2/36 (5%)
Query: 61 LLIRKLPFQRLVREIAQDF--KTDLRFQSAAIGALQ 94
LLIRKLPF RL REI F D +Q+ A+ ALQ
Sbjct: 2 LLIRKLPFSRLAREICVKFTRGVDFNWQAQALLALQ 37
>pdb|1PDQ|B Chain B, Polycomb Chromodomain Complexed With The Histone H3 Tail
Containing Trimethyllysine 27
Length = 18
Score = 33.5 bits (75), Expect = 0.092, Method: Compositional matrix adjust.
Identities = 17/18 (94%), Positives = 17/18 (94%)
Query: 16 APRKQLATKAARKSAPST 33
APRKQLATKAAR SAPST
Sbjct: 1 APRKQLATKAARXSAPST 18
>pdb|2RSN|B Chain B, Solution Structure Of The Chromodomain Of Chp1 In
Complex With H3k9me3 Peptide
Length = 18
Score = 33.5 bits (75), Expect = 0.095, Method: Compositional matrix adjust.
Identities = 16/17 (94%), Positives = 16/17 (94%)
Query: 2 ARTKQTARKSTGGKAPR 18
ARTKQTAR STGGKAPR
Sbjct: 1 ARTKQTARXSTGGKAPR 17
>pdb|3N9O|C Chain C, Cekdm7a From C.Elegans, Complex With H3k4me3 Peptide,
H3k9me2 Peptide And Nog
pdb|4GY5|E Chain E, Crystal Structure Of The Tandem Tudor Domain And Plant
Homeodomain Of Uhrf1 With Histone H3k9me3
pdb|4GY5|F Chain F, Crystal Structure Of The Tandem Tudor Domain And Plant
Homeodomain Of Uhrf1 With Histone H3k9me3
Length = 17
Score = 33.5 bits (75), Expect = 0.095, Method: Compositional matrix adjust.
Identities = 16/17 (94%), Positives = 16/17 (94%)
Query: 2 ARTKQTARKSTGGKAPR 18
ARTKQTAR STGGKAPR
Sbjct: 1 ARTKQTARXSTGGKAPR 17
>pdb|2VPG|P Chain P, Decoding Of Methylated Histone H3 Tail By The Pygo-Bcl9
Wnt Signaling Complex
pdb|2VPG|R Chain R, Decoding Of Methylated Histone H3 Tail By The Pygo-Bcl9
Wnt Signaling Complex
Length = 18
Score = 32.3 bits (72), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 16/18 (88%), Positives = 16/18 (88%)
Query: 2 ARTKQTARKSTGGKAPRK 19
A T QTARKSTGGKAPRK
Sbjct: 1 AXTXQTARKSTGGKAPRK 18
>pdb|2Q8D|F Chain F, Crystal Structure Of Jmj2d2a In Ternary Complex With
Histone H3-K36me2 And Succinate
pdb|2Q8D|G Chain G, Crystal Structure Of Jmj2d2a In Ternary Complex With
Histone H3-K36me2 And Succinate
pdb|2Q8E|F Chain F, Specificity And Mechanism Of Jmjd2a, A Trimethyllysine-
Specific Histone Demethylase
pdb|2Q8E|G Chain G, Specificity And Mechanism Of Jmjd2a, A Trimethyllysine-
Specific Histone Demethylase
Length = 16
Score = 31.6 bits (70), Expect = 0.38, Method: Composition-based stats.
Identities = 14/16 (87%), Positives = 15/16 (93%)
Query: 27 RKSAPSTGGVKKPHRY 42
RKSAP+TGGV KPHRY
Sbjct: 1 RKSAPATGGVXKPHRY 16
>pdb|2X0L|C Chain C, Crystal Structure Of A Neuro-Specific Splicing Variant
Of Human Histone Lysine Demethylase Lsd1
Length = 16
Score = 31.6 bits (70), Expect = 0.38, Method: Compositional matrix adjust.
Identities = 15/16 (93%), Positives = 15/16 (93%)
Query: 2 ARTKQTARKSTGGKAP 17
ART QTARKSTGGKAP
Sbjct: 1 ARTMQTARKSTGGKAP 16
>pdb|4A7J|B Chain B, Symmetric Dimethylation Of H3 Arginine 2 Is A Novel
Histone Mark That Supports Euchromatin Maintenance
Length = 16
Score = 31.2 bits (69), Expect = 0.42, Method: Compositional matrix adjust.
Identities = 15/16 (93%), Positives = 15/16 (93%)
Query: 1 MARTKQTARKSTGGKA 16
MA TKQTARKSTGGKA
Sbjct: 1 MAXTKQTARKSTGGKA 16
>pdb|1PEG|P Chain P, Structural Basis For The Product Specificity Of Histone
Lysine Methyltransferases
pdb|1PEG|Q Chain Q, Structural Basis For The Product Specificity Of Histone
Lysine Methyltransferases
pdb|2CO0|B Chain B, Wdr5 And Unmodified Histone H3 Complex At 2.25 Angstrom
pdb|2CO0|D Chain D, Wdr5 And Unmodified Histone H3 Complex At 2.25 Angstrom
pdb|3QLC|C Chain C, Complex Structure Of Atrx Add Domain Bound To Unmodified
H3 1-15 Peptide
pdb|3QLC|D Chain D, Complex Structure Of Atrx Add Domain Bound To Unmodified
H3 1-15 Peptide
pdb|4GNF|C Chain C, Crystal Structure Of Nsd3 Tandem Phd5-C5hch Domains
Complexed With H3 Peptide 1-15
Length = 15
Score = 31.2 bits (69), Expect = 0.46, Method: Compositional matrix adjust.
Identities = 15/15 (100%), Positives = 15/15 (100%)
Query: 2 ARTKQTARKSTGGKA 16
ARTKQTARKSTGGKA
Sbjct: 1 ARTKQTARKSTGGKA 15
>pdb|4EYU|A Chain A, The Free Structure Of The Mouse C-Terminal Domain Of Kdm6b
pdb|4EYU|B Chain B, The Free Structure Of The Mouse C-Terminal Domain Of Kdm6b
pdb|4EZ4|A Chain A, Free Kdm6b Structure
pdb|4EZ4|B Chain B, Free Kdm6b Structure
pdb|4EZH|A Chain A, The Crystal Structure Of Kdm6b Bound With H3k27me3 Peptide
pdb|4EZH|B Chain B, The Crystal Structure Of Kdm6b Bound With H3k27me3 Peptide
Length = 486
Score = 30.8 bits (68), Expect = 0.55, Method: Compositional matrix adjust.
Identities = 20/52 (38%), Positives = 31/52 (59%), Gaps = 3/52 (5%)
Query: 23 TKAARKSAPSTGG--VKKPHRYRPGT-VALREIRRYQKSTELLIRKLPFQRL 71
TKAARKSAP+TGG H + GT + L + +R++ + L++ F R+
Sbjct: 148 TKAARKSAPATGGGSSGSHHIIKFGTNIDLSDAKRWKPQLQELLKLPAFMRV 199
>pdb|3N9Q|C Chain C, Cekdm7a From C.Elegans, Complex With H3k4me3 Peptide,
H3k27me2 Peptide And Nog
Length = 17
Score = 30.4 bits (67), Expect = 0.67, Method: Compositional matrix adjust.
Identities = 14/17 (82%), Positives = 16/17 (94%)
Query: 20 QLATKAARKSAPSTGGV 36
QLATKAAR SAP++GGV
Sbjct: 1 QLATKAARXSAPASGGV 17
>pdb|2KVM|B Chain B, Solution Structure Of The Cbx7 Chromodomain In Complex
With A H3k27me2 Peptide
Length = 16
Score = 30.0 bits (66), Expect = 0.93, Method: Compositional matrix adjust.
Identities = 15/16 (93%), Positives = 15/16 (93%)
Query: 16 APRKQLATKAARKSAP 31
APRKQLATKAAR SAP
Sbjct: 1 APRKQLATKAARXSAP 16
>pdb|3Q33|D Chain D, Structure Of The Rtt109-AccoaVPS75 COMPLEX AND
IMPLICATIONS FOR Chaperone-Mediated Histone Acetylation
Length = 15
Score = 29.6 bits (65), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 14/14 (100%), Positives = 14/14 (100%)
Query: 2 ARTKQTARKSTGGK 15
ARTKQTARKSTGGK
Sbjct: 1 ARTKQTARKSTGGK 14
>pdb|1GUW|B Chain B, Structure Of The Chromodomain From Mouse Hp1beta In
Complex With The Lysine 9-Methyl Histone H3 N-Terminal
Peptide, Nmr, 25 Structures
Length = 18
Score = 29.3 bits (64), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 14/16 (87%), Positives = 14/16 (87%)
Query: 2 ARTKQTARKSTGGKAP 17
ART QTAR STGGKAP
Sbjct: 1 ARTXQTARXSTGGKAP 16
>pdb|2B2V|D Chain D, Crystal Structure Analysis Of Human Chd1 Chromodomains 1
And 2 Bound To Histone H3 Resi 1-15 Mek4
Length = 16
Score = 29.3 bits (64), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 14/15 (93%), Positives = 14/15 (93%)
Query: 2 ARTKQTARKSTGGKA 16
ART QTARKSTGGKA
Sbjct: 1 ARTXQTARKSTGGKA 15
>pdb|1KNA|P Chain P, Chromo Domain Of Hp1 Complexed With Histone H3 Tail
Containing Dimethyllysine 9.
pdb|1KNE|P Chain P, Chromo Domain Of Hp1 Complexed With Histone H3 Tail
Containing Trimethyllysine 9
pdb|1Q3L|P Chain P, Chromodomain Of Hp1 Complexed With Histone H3 Tail
Containing Monomethyllysine 9.
pdb|3G7L|P Chain P, Chromodomain Of Chp1 In Complex With Histone H3k9me3
Peptide
Length = 16
Score = 29.3 bits (64), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 14/15 (93%), Positives = 14/15 (93%)
Query: 2 ARTKQTARKSTGGKA 16
ARTKQTAR STGGKA
Sbjct: 1 ARTKQTARXSTGGKA 15
>pdb|2Q8C|F Chain F, Crystal Structure Of Jmjd2a In Ternary Complex With An
Histone H3k9me3 Peptide And 2-Oxoglutarate
pdb|2Q8C|G Chain G, Crystal Structure Of Jmjd2a In Ternary Complex With An
Histone H3k9me3 Peptide And 2-Oxoglutarate
pdb|3B95|P Chain P, Euhmt1 (Glp) Ankyrin Repeat Domain (Structure 2)
pdb|2RNW|B Chain B, The Structural Basis For Site-Specific Lysine-Acetylated
Histone Recognition By The Bromodomains Of The Human
Transcriptional Co-Activators Pcaf And Cbp
pdb|3FDT|T Chain T, Crystal Structure Of The Complex Of Human Chromobox
Homolog 5 (Cbx5) With H3k9(Me)3 Peptide
pdb|3GV6|B Chain B, Crystal Structure Of Human Chromobox Homolog 6 (Cbx6)
With H3k9 Peptide
pdb|2L11|B Chain B, Solution Nmr Structure Of The Cbx3 In Complex With
H3k9me3 Peptide
pdb|2L12|B Chain B, Solution Nmr Structure Of The Chromobox Protein 7 With
H3k9me3
pdb|3QO2|P Chain P, Structural Insights For Mpp8 Chromodomain Interaction
With Histone H3 Lysine 9
pdb|3QO2|Q Chain Q, Structural Insights For Mpp8 Chromodomain Interaction
With Histone H3 Lysine 9
pdb|3QO2|R Chain R, Structural Insights For Mpp8 Chromodomain Interaction
With Histone H3 Lysine 9
pdb|3QO2|S Chain S, Structural Insights For Mpp8 Chromodomain Interaction
With Histone H3 Lysine 9
pdb|3R93|E Chain E, Crystal Structure Of The Chromo Domain Of M-Phase
Phosphoprotein 8 Bound To H3k9me3 Peptide
pdb|3R93|F Chain F, Crystal Structure Of The Chromo Domain Of M-Phase
Phosphoprotein 8 Bound To H3k9me3 Peptide
pdb|3R93|G Chain G, Crystal Structure Of The Chromo Domain Of M-Phase
Phosphoprotein 8 Bound To H3k9me3 Peptide
pdb|3R93|H Chain H, Crystal Structure Of The Chromo Domain Of M-Phase
Phosphoprotein 8 Bound To H3k9me3 Peptide
pdb|2LBM|C Chain C, Solution Structure Of The Add Domain Of Atrx Complexed
With Histone Tail H3 1-15 K9me3
pdb|3QL9|C Chain C, Monoclinic Complex Structure Of Atrx Add Bound To
Histone H3k9me3 Peptide
pdb|3QLA|C Chain C, Hexagonal Complex Structure Of Atrx Add Bound To H3k9me3
Peptide
pdb|3QLA|F Chain F, Hexagonal Complex Structure Of Atrx Add Bound To H3k9me3
Peptide
pdb|4FT2|P Chain P, Crystal Structure Of Zea Mays Zmet2 In Complex
H3(1-15)k9me2 Peptide And Sah
pdb|4GNG|B Chain B, Crystal Structure Of Nsd3 Tandem Phd5-C5hch Domains
Complexed With H3k9me3 Peptide
pdb|4GNG|F Chain F, Crystal Structure Of Nsd3 Tandem Phd5-C5hch Domains
Complexed With H3k9me3 Peptide
Length = 15
Score = 29.3 bits (64), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 14/15 (93%), Positives = 14/15 (93%)
Query: 2 ARTKQTARKSTGGKA 16
ARTKQTAR STGGKA
Sbjct: 1 ARTKQTARXSTGGKA 15
>pdb|2F6J|P Chain P, Crystal Structure Of Phd Finger-Linker-Bromodomain
Fragment Of Human Bptf In The H3(1-15)k4me3 Bound State
pdb|2FSA|P Chain P, Crystal Structure Of Phd Finger-Linker-Bromodomain
Fragment Of Human Bptf In The H3(1-15)k4me2 Bound State
pdb|2FUU|B Chain B, Nmr Solution Structure Of The Phd Domain From The Human
Bptf In Complex With H3(1-15)k4me3 Peptide
pdb|3N9L|B Chain B, Cekdm7a From C.Elegans, Complex With H3k4me3 Peptide And
Nog
pdb|3N9O|B Chain B, Cekdm7a From C.Elegans, Complex With H3k4me3 Peptide,
H3k9me2 Peptide And Nog
pdb|3N9Q|B Chain B, Cekdm7a From C.Elegans, Complex With H3k4me3 Peptide,
H3k27me2 Peptide And Nog
Length = 15
Score = 29.3 bits (64), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 14/15 (93%), Positives = 14/15 (93%)
Query: 2 ARTKQTARKSTGGKA 16
ART QTARKSTGGKA
Sbjct: 1 ARTXQTARKSTGGKA 15
>pdb|3UIG|P Chain P, Crystal Structure Of Human Survivin In Complex With T3
Phosphorylated H3(1-15) Peptide
pdb|3UIG|Q Chain Q, Crystal Structure Of Human Survivin In Complex With T3
Phosphorylated H3(1-15) Peptide
Length = 15
Score = 28.9 bits (63), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 14/15 (93%), Positives = 14/15 (93%)
Query: 2 ARTKQTARKSTGGKA 16
AR KQTARKSTGGKA
Sbjct: 1 ARXKQTARKSTGGKA 15
>pdb|3H91|C Chain C, Crystal Structure Of The Complex Of Human Chromobox
Homolog 2 (Cbx2) And H3k27 Peptide
pdb|3H91|D Chain D, Crystal Structure Of The Complex Of Human Chromobox
Homolog 2 (Cbx2) And H3k27 Peptide
pdb|2L1B|B Chain B, Solution Nmr Structure Of The Chromobox Protein Cbx7
With H3k27me3
Length = 15
Score = 27.7 bits (60), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 13/15 (86%), Positives = 14/15 (93%)
Query: 20 QLATKAARKSAPSTG 34
QLATKAAR SAP+TG
Sbjct: 1 QLATKAARXSAPATG 15
>pdb|3TGX|A Chain A, Il-21:il21r Complex
pdb|3TGX|C Chain C, Il-21:il21r Complex
pdb|3TGX|E Chain E, Il-21:il21r Complex
pdb|3TGX|G Chain G, Il-21:il21r Complex
pdb|3TGX|I Chain I, Il-21:il21r Complex
pdb|3TGX|K Chain K, Il-21:il21r Complex
pdb|3TGX|M Chain M, Il-21:il21r Complex
pdb|3TGX|O Chain O, Il-21:il21r Complex
Length = 219
Score = 27.3 bits (59), Expect = 6.7, Method: Compositional matrix adjust.
Identities = 14/33 (42%), Positives = 18/33 (54%), Gaps = 1/33 (3%)
Query: 121 WLDYLKTPTCALSMPNVSPLCPKTFSWPDVSEE 153
+ DYL+T C L M N+ P T +W D EE
Sbjct: 7 YTDYLQTVICILEMWNLHP-STLTLTWQDQYEE 38
>pdb|2FRX|A Chain A, Crystal Structure Of Yebu, A M5c Rna Methyltransferase
From E.Coli
pdb|2FRX|B Chain B, Crystal Structure Of Yebu, A M5c Rna Methyltransferase
From E.Coli
pdb|2FRX|C Chain C, Crystal Structure Of Yebu, A M5c Rna Methyltransferase
From E.Coli
pdb|2FRX|D Chain D, Crystal Structure Of Yebu, A M5c Rna Methyltransferase
From E.Coli
Length = 479
Score = 27.3 bits (59), Expect = 7.0, Method: Compositional matrix adjust.
Identities = 19/68 (27%), Positives = 33/68 (48%), Gaps = 1/68 (1%)
Query: 50 REIRRYQKSTELLIRKLPFQRLVREIAQDFKTDLRFQSAAIGALQYWIENSGQFDLNPSS 109
+E+ + E LI K+ F RL ++A+ R+Q A+ AL +N F+L P
Sbjct: 362 KELWLFPVGIEALIGKVRFSRLGIKLAETHNKGYRWQHEAVIALAS-PDNXNAFELTPQE 420
Query: 110 SLKIKKHR 117
+ + + R
Sbjct: 421 AEEWYRGR 428
>pdb|2CPH|A Chain A, Solution Structure Of The C-Terminal Rna Recognition
Motif Of Hypothetical Rna-Binding Protein Rbm19
Length = 107
Score = 26.9 bits (58), Expect = 7.4, Method: Compositional matrix adjust.
Identities = 11/31 (35%), Positives = 21/31 (67%)
Query: 51 EIRRYQKSTELLIRKLPFQRLVREIAQDFKT 81
++ + Q ++++L+R +PFQ REI + F T
Sbjct: 8 QVPKKQTTSKILVRNIPFQANQREIRELFST 38
>pdb|2B2U|D Chain D, Tandem Chromodomains Of Human Chd1 Complexed With
Histone H3 Tail Containing Trimethyllysine 4 And
Dimethylarginine 2
Length = 16
Score = 26.9 bits (58), Expect = 9.2, Method: Compositional matrix adjust.
Identities = 13/15 (86%), Positives = 13/15 (86%)
Query: 2 ARTKQTARKSTGGKA 16
A T QTARKSTGGKA
Sbjct: 1 AXTXQTARKSTGGKA 15
>pdb|2RNX|B Chain B, The Structural Basis For Site-Specific Lysine-Acetylated
Histone Recognition By The Bromodomains Of The Human
Transcriptional Co-Activators Pcaf And Cbp
Length = 13
Score = 26.6 bits (57), Expect = 9.9, Method: Composition-based stats.
Identities = 10/12 (83%), Positives = 11/12 (91%)
Query: 32 STGGVKKPHRYR 43
STGGV KPHRY+
Sbjct: 1 STGGVXKPHRYK 12
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
0.317 0.132 0.402
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,584,565
Number of Sequences: 62578
Number of extensions: 257595
Number of successful extensions: 625
Number of sequences better than 100.0: 109
Number of HSP's better than 100.0 without gapping: 106
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 516
Number of HSP's gapped (non-prelim): 110
length of query: 215
length of database: 14,973,337
effective HSP length: 95
effective length of query: 120
effective length of database: 9,028,427
effective search space: 1083411240
effective search space used: 1083411240
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)