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= 046088
(193 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1F66|C Chain C, 2.6 A Crystal Structure Of A Nucleosome Core Particle
Containing The Variant Histone H2a.Z
pdb|1F66|G Chain G, 2.6 A Crystal Structure Of A Nucleosome Core Particle
Containing The Variant Histone H2a.Z
Length = 128
Score = 195 bits (496), Expect = 1e-50, Method: Compositional matrix adjust.
Identities = 97/104 (93%), Positives = 100/104 (96%)
Query: 86 ISRSSRAGLQFPVGRIHRLLKSRTTAHGRVGATAAVYSAAILEYLTAEVLELAGNASKDL 145
+SRS RAGLQFPVGRIHR LKSRTT+HGRVGATAAVYSAAILEYLTAEVLELAGNASKDL
Sbjct: 18 VSRSQRAGLQFPVGRIHRHLKSRTTSHGRVGATAAVYSAAILEYLTAEVLELAGNASKDL 77
Query: 146 KVKRITPRHLQLAIRGDEELDTLIKGTIAGGGVIPHIHKSLINK 189
KVKRITPRHLQLAIRGDEELD+LIK TIAGGGVIPHIHKSLI K
Sbjct: 78 KVKRITPRHLQLAIRGDEELDSLIKATIAGGGVIPHIHKSLIGK 121
>pdb|2JSS|A Chain A, Nmr Structure Of Chaperone Chz1 Complexed With Histone
H2a.Z-H2b
Length = 192
Score = 148 bits (373), Expect = 2e-36, Method: Compositional matrix adjust.
Identities = 71/92 (77%), Positives = 79/92 (85%)
Query: 91 RAGLQFPVGRIHRLLKSRTTAHGRVGATAAVYSAAILEYLTAEVLELAGNASKDLKVKRI 150
RAGLQFPVGRI R LK T RVG+ AA+Y A+LEYLTAEVLELAGNA+KDLKVKRI
Sbjct: 101 RAGLQFPVGRIKRYLKRHATGRTRVGSKAAIYLTAVLEYLTAEVLELAGNAAKDLKVKRI 160
Query: 151 TPRHLQLAIRGDEELDTLIKGTIAGGGVIPHI 182
TPRHLQLAIRGD+ELD+LI+ TIA GGV+PHI
Sbjct: 161 TPRHLQLAIRGDDELDSLIRATIASGGVLPHI 192
>pdb|1EQZ|A Chain A, X-Ray Structure Of The Nucleosome Core Particle At 2.5 A
Resolution
pdb|1EQZ|E Chain E, X-Ray Structure Of The Nucleosome Core Particle At 2.5 A
Resolution
pdb|1HQ3|A Chain A, Crystal Structure Of The Histone-Core-Octamer In
KclPHOSPHATE
pdb|1HQ3|E Chain E, Crystal Structure Of The Histone-Core-Octamer In
KclPHOSPHATE
pdb|1TZY|A Chain A, Crystal Structure Of The Core-Histone Octamer To 1.90
Angstrom Resolution
pdb|1TZY|E Chain E, Crystal Structure Of The Core-Histone Octamer To 1.90
Angstrom Resolution
pdb|2ARO|A Chain A, Crystal Structure Of The Native Histone Octamer To 2.1
Angstrom Resolution, Crystalised In The Presence Of
S-nitrosoglutathione
pdb|2ARO|E Chain E, Crystal Structure Of The Native Histone Octamer To 2.1
Angstrom Resolution, Crystalised In The Presence Of
S-nitrosoglutathione
Length = 129
Score = 133 bits (334), Expect = 7e-32, Method: Compositional matrix adjust.
Identities = 72/106 (67%), Positives = 83/106 (78%), Gaps = 2/106 (1%)
Query: 87 SRSSRAGLQFPVGRIHRLLKSRTTAHGRVGATAAVYSAAILEYLTAEVLELAGNASKDLK 146
SRSSRAGLQFPVGR+HRLL+ A RVGA A VY AA+LEYLTAE+LELAGNA++D K
Sbjct: 17 SRSSRAGLQFPVGRVHRLLRKGNYAE-RVGAGAPVYLAAVLEYLTAEILELAGNAARDNK 75
Query: 147 VKRITPRHLQLAIRGDEELDTLI-KGTIAGGGVIPHIHKSLINKST 191
RI PRHLQLAIR DEEL+ L+ K TIA GGV+P+I L+ K T
Sbjct: 76 KTRIIPRHLQLAIRNDEELNKLLGKVTIAQGGVLPNIQAVLLPKKT 121
>pdb|2HIO|A Chain A, Histone Octamer (Chicken), Chromosomal Protein
pdb|3C9K|A Chain A, Model Of Histone Octamer Tubular Crystals
pdb|3C9K|E Chain E, Model Of Histone Octamer Tubular Crystals
Length = 128
Score = 132 bits (333), Expect = 8e-32, Method: Compositional matrix adjust.
Identities = 72/106 (67%), Positives = 83/106 (78%), Gaps = 2/106 (1%)
Query: 87 SRSSRAGLQFPVGRIHRLLKSRTTAHGRVGATAAVYSAAILEYLTAEVLELAGNASKDLK 146
SRSSRAGLQFPVGR+HRLL+ A RVGA A VY AA+LEYLTAE+LELAGNA++D K
Sbjct: 16 SRSSRAGLQFPVGRVHRLLRKGNYAE-RVGAGAPVYLAAVLEYLTAEILELAGNAARDNK 74
Query: 147 VKRITPRHLQLAIRGDEELDTLI-KGTIAGGGVIPHIHKSLINKST 191
RI PRHLQLAIR DEEL+ L+ K TIA GGV+P+I L+ K T
Sbjct: 75 KTRIIPRHLQLAIRNDEELNKLLGKVTIAQGGVLPNIQAVLLPKKT 120
>pdb|2NQB|C Chain C, Drosophila Nucleosome Structure
pdb|2NQB|G Chain G, Drosophila Nucleosome Structure
Length = 123
Score = 132 bits (332), Expect = 1e-31, Method: Compositional matrix adjust.
Identities = 71/107 (66%), Positives = 83/107 (77%), Gaps = 2/107 (1%)
Query: 87 SRSSRAGLQFPVGRIHRLLKSRTTAHGRVGATAAVYSAAILEYLTAEVLELAGNASKDLK 146
SRS+RAGLQFPVGRIHRLL+ A RVGA A VY AA++EYL AEVLELAGNA++D K
Sbjct: 15 SRSNRAGLQFPVGRIHRLLRKGNYAE-RVGAGAPVYLAAVMEYLAAEVLELAGNAARDNK 73
Query: 147 VKRITPRHLQLAIRGDEELDTLIKG-TIAGGGVIPHIHKSLINKSTK 192
RI PRHLQLAIR DEEL+ L+ G TIA GGV+P+I L+ K T+
Sbjct: 74 KTRIIPRHLQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKKTE 120
>pdb|2PYO|C Chain C, Drosophila Nucleosome Core
pdb|2PYO|G Chain G, Drosophila Nucleosome Core
Length = 120
Score = 132 bits (332), Expect = 1e-31, Method: Compositional matrix adjust.
Identities = 71/107 (66%), Positives = 83/107 (77%), Gaps = 2/107 (1%)
Query: 87 SRSSRAGLQFPVGRIHRLLKSRTTAHGRVGATAAVYSAAILEYLTAEVLELAGNASKDLK 146
SRS+RAGLQFPVGRIHRLL+ A RVGA A VY AA++EYL AEVLELAGNA++D K
Sbjct: 15 SRSNRAGLQFPVGRIHRLLRKGNYAE-RVGAGAPVYLAAVMEYLAAEVLELAGNAARDNK 73
Query: 147 VKRITPRHLQLAIRGDEELDTLIKG-TIAGGGVIPHIHKSLINKSTK 192
RI PRHLQLAIR DEEL+ L+ G TIA GGV+P+I L+ K T+
Sbjct: 74 KTRIIPRHLQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKKTE 120
>pdb|1ZBB|C Chain C, Structure Of The 4_601_167 Tetranucleosome
pdb|1ZBB|G Chain G, Structure Of The 4_601_167 Tetranucleosome
pdb|1ZBB|CC Chain c, Structure Of The 4_601_167 Tetranucleosome
pdb|1ZBB|GG Chain g, Structure Of The 4_601_167 Tetranucleosome
pdb|2FJ7|C Chain C, Crystal Structure Of Nucleosome Core Particle Containing A
Poly (Da.Dt) Sequence Element
pdb|2FJ7|G Chain G, Crystal Structure Of Nucleosome Core Particle Containing A
Poly (Da.Dt) Sequence Element
pdb|3LJA|C Chain C, Using Soft X-Rays For A Detailed Picture Of Divalent Metal
Binding In The Nucleosome
pdb|3LJA|G Chain G, Using Soft X-Rays For A Detailed Picture Of Divalent Metal
Binding In The Nucleosome
pdb|3KXB|C Chain C, Structural Characterization Of H3k56q Nucleosomes And
Nucleosomal Arrays
pdb|3KXB|G Chain G, Structural Characterization Of H3k56q Nucleosomes And
Nucleosomal Arrays
pdb|3MVD|C Chain C, Crystal Structure Of The Chromatin Factor Rcc1 In Complex
With The Nucleosome Core Particle
pdb|3MVD|G Chain G, Crystal Structure Of The Chromatin Factor Rcc1 In Complex
With The Nucleosome Core Particle
pdb|3TU4|C Chain C, Crystal Structure Of The Sir3 Bah Domain In Complex With A
Nucleosome Core Particle.
pdb|3TU4|G Chain G, Crystal Structure Of The Sir3 Bah Domain In Complex With A
Nucleosome Core Particle.
pdb|3REH|C Chain C, 2.5 Angstrom Crystal Structure Of The Nucleosome Core
Particle Assembled With A 145 Bp Alpha-Satellite Dna
(Ncp145)
pdb|3REH|G Chain G, 2.5 Angstrom Crystal Structure Of The Nucleosome Core
Particle Assembled With A 145 Bp Alpha-Satellite Dna
(Ncp145)
pdb|3REI|C Chain C, 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|G Chain G, 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|C Chain C, 2.55 Angstrom Crystal Structure Of The Nucleosome Core
Particle Assembled With A 146 Bp Alpha-Satellite Dna
(Ncp146b)
pdb|3REJ|G Chain G, 2.55 Angstrom Crystal Structure Of The Nucleosome Core
Particle Assembled With A 146 Bp Alpha-Satellite Dna
(Ncp146b)
pdb|3REK|C Chain C, 2.6 Angstrom Crystal Structure Of The Nucleosome Core
Particle Assembled With A 146 Bp Alpha-Satellite Dna
(Ncp146b) Derivatized With Oxaliplatin
pdb|3REK|G Chain G, 2.6 Angstrom Crystal Structure Of The Nucleosome Core
Particle Assembled With A 146 Bp Alpha-Satellite Dna
(Ncp146b) Derivatized With Oxaliplatin
pdb|3REL|C Chain C, 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|G Chain G, 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|C Chain C, Crystal Structure Of Nucleosome Core Particle Assembled
With A Palindromic Widom '601' Derivative (Ncp-601l)
pdb|3UT9|G Chain G, Crystal Structure Of Nucleosome Core Particle Assembled
With A Palindromic Widom '601' Derivative (Ncp-601l)
pdb|3UTA|C Chain C, Crystal Structure Of Nucleosome Core Particle Assembled
With An Alpha- Satellite Sequence Containing Two Ttaaa
Elements (Ncp-Ta2)
pdb|3UTA|G Chain G, Crystal Structure Of Nucleosome Core Particle Assembled
With An Alpha- Satellite Sequence Containing Two Ttaaa
Elements (Ncp-Ta2)
pdb|3UTB|C Chain C, Crystal Structure Of Nucleosome Core Particle Assembled
With The 146b Alpha-Satellite Sequence (Ncp146b)
pdb|3UTB|G Chain G, Crystal Structure Of Nucleosome Core Particle Assembled
With The 146b Alpha-Satellite Sequence (Ncp146b)
Length = 129
Score = 131 bits (329), Expect = 3e-31, Method: Compositional matrix adjust.
Identities = 69/108 (63%), Positives = 84/108 (77%), Gaps = 2/108 (1%)
Query: 87 SRSSRAGLQFPVGRIHRLLKSRTTAHGRVGATAAVYSAAILEYLTAEVLELAGNASKDLK 146
+RSSRAGLQFPVGR+HRLL+ A RVGA A VY AA+LEYLTAE+LELAGNA++D K
Sbjct: 16 TRSSRAGLQFPVGRVHRLLRKGNYAE-RVGAGAPVYLAAVLEYLTAEILELAGNAARDNK 74
Query: 147 VKRITPRHLQLAIRGDEELDTLI-KGTIAGGGVIPHIHKSLINKSTKD 193
RI PRHLQLA+R DEEL+ L+ + TIA GGV+P+I L+ K T+
Sbjct: 75 KTRIIPRHLQLAVRNDEELNKLLGRVTIAQGGVLPNIQSVLLPKKTES 122
>pdb|3C1B|C Chain C, The Effect Of H3 K79 Dimethylation And H4 K20
Trimethylation On Nucleosome And Chromatin Structure
pdb|3C1B|G Chain G, The Effect Of H3 K79 Dimethylation And H4 K20
Trimethylation On Nucleosome And Chromatin Structure
pdb|3C1C|C Chain C, The Effect Of H3 K79 Dimethylation And H4 K20
Trimethylation On Nucleosome And Chromatin Structure
pdb|3C1C|G Chain G, The Effect Of H3 K79 Dimethylation And H4 K20
Trimethylation On Nucleosome And Chromatin Structure
Length = 129
Score = 131 bits (329), Expect = 3e-31, Method: Compositional matrix adjust.
Identities = 69/108 (63%), Positives = 84/108 (77%), Gaps = 2/108 (1%)
Query: 87 SRSSRAGLQFPVGRIHRLLKSRTTAHGRVGATAAVYSAAILEYLTAEVLELAGNASKDLK 146
+RSSRAGLQFPVGR+HRLL+ A RVGA A VY AA+LEYLTAE+LELAGNA++D K
Sbjct: 16 TRSSRAGLQFPVGRVHRLLRKGNYAE-RVGAGAPVYLAAVLEYLTAEILELAGNAARDNK 74
Query: 147 VKRITPRHLQLAIRGDEELDTLI-KGTIAGGGVIPHIHKSLINKSTKD 193
RI PRHLQLA+R DEEL+ L+ + TIA GGV+P+I L+ K T+
Sbjct: 75 KTRIIPRHLQLAVRNDEELNKLLGRVTIAQGGVLPNIQSVLLPKKTES 122
>pdb|1M18|C Chain C, Ligand Binding Alters The Structure And Dynamics Of
Nucleosomal Dna
pdb|1M18|G Chain G, Ligand Binding Alters The Structure And Dynamics Of
Nucleosomal Dna
pdb|1M19|C Chain C, Ligand Binding Alters The Structure And Dynamics Of
Nucleosomal Dna
pdb|1M19|G Chain G, Ligand Binding Alters The Structure And Dynamics Of
Nucleosomal Dna
pdb|1M1A|C Chain C, Ligand Binding Alters The Structure And Dynamics Of
Nucleosomal Dna
pdb|1M1A|G Chain G, Ligand Binding Alters The Structure And Dynamics Of
Nucleosomal Dna
pdb|1P34|C Chain C, Crystallographic Studies Of Nucleosome Core Particles
Containing Histone 'sin' Mutants
pdb|1P34|G Chain G, Crystallographic Studies Of Nucleosome Core Particles
Containing Histone 'sin' Mutants
pdb|1P3A|C Chain C, Crystallographic Studies Of Nucleosome Core Particles
Containing Histone 'sin' Mutants
pdb|1P3A|G Chain G, Crystallographic Studies Of Nucleosome Core Particles
Containing Histone 'sin' Mutants
pdb|1P3B|C Chain C, Crystallographic Studies Of Nucleosome Core Particles
Containing Histone 'sin' Mutants
pdb|1P3B|G Chain G, Crystallographic Studies Of Nucleosome Core Particles
Containing Histone 'sin' Mutants
pdb|1P3F|C Chain C, Crystallographic Studies Of Nucleosome Core Particles
Containing Histone 'sin' Mutants
pdb|1P3F|G Chain G, Crystallographic Studies Of Nucleosome Core Particles
Containing Histone 'sin' Mutants
pdb|1P3G|C Chain C, Crystallographic Studies Of Nucleosome Core Particles
Containing Histone 'sin' Mutants
pdb|1P3G|G Chain G, Crystallographic Studies Of Nucleosome Core Particles
Containing Histone 'sin' Mutants
pdb|1P3I|C Chain C, Crystallographic Studies Of Nucleosome Core Particles
Containing Histone 'sin' Mutants
pdb|1P3I|G Chain G, Crystallographic Studies Of Nucleosome Core Particles
Containing Histone 'sin' Mutants
pdb|1P3K|C Chain C, Crystallographic Studies Of Nucleosome Core Particles
Containing Histone 'sin' Mutants
pdb|1P3K|G Chain G, Crystallographic Studies Of Nucleosome Core Particles
Containing Histone 'sin' Mutants
pdb|1P3L|C Chain C, Crystallographic Studies Of Nucleosome Core Particles
Containing Histone 'sin' Mutants
pdb|1P3L|G Chain G, Crystallographic Studies Of Nucleosome Core Particles
Containing Histone 'sin' Mutants
pdb|1P3M|C Chain C, Crystallographic Studies Of Nucleosome Core Particles
Containing Histone 'sin' Mutants
pdb|1P3M|G Chain G, Crystallographic Studies Of Nucleosome Core Particles
Containing Histone 'sin' Mutants
pdb|1P3O|C Chain C, Crystallographic Studies Of Nucleosome Core Particles
Containing Histone 'sin' Mutants
pdb|1P3O|G Chain G, Crystallographic Studies Of Nucleosome Core Particles
Containing Histone 'sin' Mutants
pdb|1P3P|C Chain C, Crystallographic Studies Of Nucleosome Core Particles
Containing Histone 'sin' Mutants
pdb|1P3P|G Chain G, Crystallographic Studies Of Nucleosome Core Particles
Containing Histone 'sin' Mutants
Length = 129
Score = 131 bits (329), Expect = 3e-31, Method: Compositional matrix adjust.
Identities = 69/108 (63%), Positives = 84/108 (77%), Gaps = 2/108 (1%)
Query: 87 SRSSRAGLQFPVGRIHRLLKSRTTAHGRVGATAAVYSAAILEYLTAEVLELAGNASKDLK 146
+RSSRAGLQFPVGR+HRLL+ A RVGA A VY AA+LEYLTAE+LELAGNA++D K
Sbjct: 16 TRSSRAGLQFPVGRVHRLLRKGNYAE-RVGAGAPVYLAAVLEYLTAEILELAGNAARDNK 74
Query: 147 VKRITPRHLQLAIRGDEELDTLI-KGTIAGGGVIPHIHKSLINKSTKD 193
RI PRHLQLA+R DEEL+ L+ + TIA GGV+P+I L+ K T+
Sbjct: 75 KTRIIPRHLQLAVRNDEELNKLLGRVTIAQGGVLPNIQSVLLPKKTES 122
>pdb|3KWQ|C Chain C, Structural Characterization Of H3k56q Nucleosomes And
Nucleo Arrays
pdb|3KWQ|G Chain G, Structural Characterization Of H3k56q Nucleosomes And
Nucleo Arrays
Length = 107
Score = 130 bits (327), Expect = 4e-31, Method: Compositional matrix adjust.
Identities = 69/106 (65%), Positives = 83/106 (78%), Gaps = 2/106 (1%)
Query: 87 SRSSRAGLQFPVGRIHRLLKSRTTAHGRVGATAAVYSAAILEYLTAEVLELAGNASKDLK 146
+RSSRAGLQFPVGR+HRLL+ A RVGA A VY AA+LEYLTAE+LELAGNA++D K
Sbjct: 3 TRSSRAGLQFPVGRVHRLLRKGNYAE-RVGAGAPVYLAAVLEYLTAEILELAGNAARDNK 61
Query: 147 VKRITPRHLQLAIRGDEELDTLI-KGTIAGGGVIPHIHKSLINKST 191
RI PRHLQLA+R DEEL+ L+ + TIA GGV+P+I L+ K T
Sbjct: 62 KTRIIPRHLQLAVRNDEELNKLLGRVTIAQGGVLPNIQSVLLPKKT 107
>pdb|2F8N|K Chain K, 2.9 Angstrom X-Ray Structure Of Hybrid Macroh2a
Nucleosomes
Length = 149
Score = 129 bits (325), Expect = 7e-31, Method: Compositional matrix adjust.
Identities = 75/137 (54%), Positives = 92/137 (67%), Gaps = 13/137 (9%)
Query: 58 GKMSGKGAKGLIMGXXXXXXXXXXXXXPISRSSRAGLQFPVGRIHRLLKSRTTAHGRVGA 117
G MSG+G +G +RSSRAGLQFPVGR+HRLL+ + RVGA
Sbjct: 18 GSMSGRGKQG-----------GKARAKAKTRSSRAGLQFPVGRVHRLLRKGNYSE-RVGA 65
Query: 118 TAAVYSAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIRGDEELDTLI-KGTIAGG 176
A VY AA+LEYLTAE+LELAGNA++D K RI PRHLQLAIR DEEL+ L+ + TIA G
Sbjct: 66 GAPVYLAAVLEYLTAEILELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLGRVTIAQG 125
Query: 177 GVIPHIHKSLINKSTKD 193
GV+P+I L+ K T+
Sbjct: 126 GVLPNIQAVLLPKKTES 142
>pdb|2CV5|C Chain C, Crystal Structure Of Human Nucleosome Core Particle
pdb|2CV5|G Chain G, Crystal Structure Of Human Nucleosome Core Particle
Length = 130
Score = 129 bits (324), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 69/108 (63%), Positives = 84/108 (77%), Gaps = 2/108 (1%)
Query: 87 SRSSRAGLQFPVGRIHRLLKSRTTAHGRVGATAAVYSAAILEYLTAEVLELAGNASKDLK 146
+RSSRAGLQFPVGR+HRLL+ + RVGA A VY AA+LEYLTAE+LELAGNA++D K
Sbjct: 17 TRSSRAGLQFPVGRVHRLLRKGNYSE-RVGAGAPVYLAAVLEYLTAEILELAGNAARDNK 75
Query: 147 VKRITPRHLQLAIRGDEELDTLI-KGTIAGGGVIPHIHKSLINKSTKD 193
RI PRHLQLAIR DEEL+ L+ + TIA GGV+P+I L+ K T+
Sbjct: 76 KTRIIPRHLQLAIRNDEELNKLLGRVTIAQGGVLPNIQAVLLPKKTES 123
>pdb|3A6N|C Chain C, The Nucleosome Containing A Testis-Specific Histone
Variant, Human H3t
pdb|3A6N|G Chain G, The Nucleosome Containing A Testis-Specific Histone
Variant, Human H3t
pdb|3AFA|C Chain C, The Human Nucleosome Structure
pdb|3AFA|G Chain G, The Human Nucleosome Structure
pdb|3AV1|C Chain C, The Human Nucleosome Structure Containing The Histone
Variant H3.2
pdb|3AV1|G Chain G, The Human Nucleosome Structure Containing The Histone
Variant H3.2
pdb|3AV2|C Chain C, The Human Nucleosome Structure Containing The Histone
Variant H3.3
pdb|3AV2|G Chain G, The Human Nucleosome Structure Containing The Histone
Variant H3.3
pdb|3AN2|C Chain C, The Structure Of The Centromeric Nucleosome Containing
Cenp-A
pdb|3AN2|G Chain G, The Structure Of The Centromeric Nucleosome Containing
Cenp-A
pdb|3AYW|C Chain C, Crystal Structure Of Human Nucleosome Core Particle
Containing H3k56q Mutation
pdb|3AYW|G Chain G, Crystal Structure Of Human Nucleosome Core Particle
Containing H3k56q Mutation
pdb|3AZE|C Chain C, Crystal Structure Of Human Nucleosome Core Particle
Containing H3k64q Mutation
pdb|3AZE|G Chain G, Crystal Structure Of Human Nucleosome Core Particle
Containing H3k64q Mutation
pdb|3AZF|C Chain C, Crystal Structure Of Human Nucleosome Core Particle
Containing H3k79q Mutation
pdb|3AZF|G Chain G, Crystal Structure Of Human Nucleosome Core Particle
Containing H3k79q Mutation
pdb|3AZG|C Chain C, Crystal Structure Of Human Nucleosome Core Particle
Containing H3k115q Mutation
pdb|3AZG|G Chain G, Crystal Structure Of Human Nucleosome Core Particle
Containing H3k115q Mutation
pdb|3AZH|C Chain C, Crystal Structure Of Human Nucleosome Core Particle
Containing H3k122q Mutation
pdb|3AZH|G Chain G, Crystal Structure Of Human Nucleosome Core Particle
Containing H3k122q Mutation
pdb|3AZI|C Chain C, Crystal Structure Of Human Nucleosome Core Particle
Containing H4k31q Mutation
pdb|3AZI|G Chain G, Crystal Structure Of Human Nucleosome Core Particle
Containing H4k31q Mutation
pdb|3AZJ|C Chain C, Crystal Structure Of Human Nucleosome Core Particle
Containing H4k44q Mutation
pdb|3AZJ|G Chain G, Crystal Structure Of Human Nucleosome Core Particle
Containing H4k44q Mutation
pdb|3AZK|C Chain C, Crystal Structure Of Human Nucleosome Core Particle
Containing H4k59q Mutation
pdb|3AZK|G Chain G, Crystal Structure Of Human Nucleosome Core Particle
Containing H4k59q Mutation
pdb|3AZL|C Chain C, Crystal Structure Of Human Nucleosome Core Particle
Containing H4k77q Mutation
pdb|3AZL|G Chain G, Crystal Structure Of Human Nucleosome Core Particle
Containing H4k77q Mutation
pdb|3AZM|C Chain C, Crystal Structure Of Human Nucleosome Core Particle
Containing H4k79q Mutation
pdb|3AZM|G Chain G, Crystal Structure Of Human Nucleosome Core Particle
Containing H4k79q Mutation
pdb|3AZN|C Chain C, Crystal Structure Of Human Nucleosome Core Particle
Containing H4k91q Mutation
pdb|3AZN|G Chain G, Crystal Structure Of Human Nucleosome Core Particle
Containing H4k91q Mutation
Length = 133
Score = 129 bits (323), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 69/108 (63%), Positives = 84/108 (77%), Gaps = 2/108 (1%)
Query: 87 SRSSRAGLQFPVGRIHRLLKSRTTAHGRVGATAAVYSAAILEYLTAEVLELAGNASKDLK 146
+RSSRAGLQFPVGR+HRLL+ + RVGA A VY AA+LEYLTAE+LELAGNA++D K
Sbjct: 20 TRSSRAGLQFPVGRVHRLLRKGNYSE-RVGAGAPVYLAAVLEYLTAEILELAGNAARDNK 78
Query: 147 VKRITPRHLQLAIRGDEELDTLI-KGTIAGGGVIPHIHKSLINKSTKD 193
RI PRHLQLAIR DEEL+ L+ + TIA GGV+P+I L+ K T+
Sbjct: 79 KTRIIPRHLQLAIRNDEELNKLLGRVTIAQGGVLPNIQAVLLPKKTES 126
>pdb|1ZLA|C Chain C, X-Ray Structure Of A Kaposi's Sarcoma Herpesvirus Lana
Peptide Bound To The Nucleosomal Core
pdb|1ZLA|G Chain G, X-Ray Structure Of A Kaposi's Sarcoma Herpesvirus Lana
Peptide Bound To The Nucleosomal Core
Length = 129
Score = 129 bits (323), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 68/108 (62%), Positives = 82/108 (75%), Gaps = 2/108 (1%)
Query: 87 SRSSRAGLQFPVGRIHRLLKSRTTAHGRVGATAAVYSAAILEYLTAEVLELAGNASKDLK 146
+RSSRAGLQFPVGR+HRLL+ A RVGA A VY AA+LEYLTAE+LELAGN +D K
Sbjct: 16 TRSSRAGLQFPVGRVHRLLRKGNYAE-RVGAGAPVYLAAVLEYLTAEILELAGNWERDNK 74
Query: 147 VKRITPRHLQLAIRGDEELDTLI-KGTIAGGGVIPHIHKSLINKSTKD 193
RI PRHLQLA+R DEEL+ L+ + TIA GGV+P+I L+ K T+
Sbjct: 75 KTRIIPRHLQLAVRNDEELNKLLGRVTIAQGGVLPNIQSVLLPKKTES 122
>pdb|1AOI|C Chain C, Complex Between Nucleosome Core Particle (H3,H4,H2a,H2b)
And 146 Bp Long Dna Fragment
pdb|1AOI|G Chain G, Complex Between Nucleosome Core Particle (H3,H4,H2a,H2b)
And 146 Bp Long Dna Fragment
Length = 116
Score = 129 bits (323), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 68/104 (65%), Positives = 82/104 (78%), Gaps = 2/104 (1%)
Query: 87 SRSSRAGLQFPVGRIHRLLKSRTTAHGRVGATAAVYSAAILEYLTAEVLELAGNASKDLK 146
+RSSRAGLQFPVGR+HRLL+ A RVGA A VY AA+LEYLTAE+LELAGNA++D K
Sbjct: 13 TRSSRAGLQFPVGRVHRLLRKGNYAE-RVGAGAPVYLAAVLEYLTAEILELAGNAARDNK 71
Query: 147 VKRITPRHLQLAIRGDEELDTLI-KGTIAGGGVIPHIHKSLINK 189
RI PRHLQLA+R DEEL+ L+ + TIA GGV+P+I L+ K
Sbjct: 72 KTRIIPRHLQLAVRNDEELNKLLGRVTIAQGGVLPNIQSVLLPK 115
>pdb|1S32|C Chain C, Molecular Recognition Of The Nucleosomal 'supergroove'
pdb|1S32|G Chain G, Molecular Recognition Of The Nucleosomal 'supergroove'
pdb|2NZD|C Chain C, Nucleosome Core Particle Containing 145 Bp Of Dna
pdb|2NZD|G Chain G, Nucleosome Core Particle Containing 145 Bp Of Dna
pdb|3KUY|C Chain C, Dna Stretching In The Nucleosome Facilitates Alkylation By
An Intercalating Antitumor Agent
pdb|3KUY|G Chain G, Dna Stretching In The Nucleosome Facilitates Alkylation By
An Intercalating Antitumor Agent
pdb|3MGP|C Chain C, Binding Of Cobalt Ions To The Nucleosome Core Particle
pdb|3MGP|G Chain G, Binding Of Cobalt Ions To The Nucleosome Core Particle
pdb|3MGQ|C Chain C, Binding Of Nickel Ions To The Nucleosome Core Particle
pdb|3MGQ|G Chain G, Binding Of Nickel Ions To The Nucleosome Core Particle
pdb|3MGR|C Chain C, Binding Of Rubidium Ions To The Nucleosome Core Particle
pdb|3MGR|G Chain G, Binding Of Rubidium Ions To The Nucleosome Core Particle
pdb|3MGS|C Chain C, Binding Of Cesium Ions To The Nucleosome Core Particle
pdb|3MGS|G Chain G, Binding Of Cesium Ions To The Nucleosome Core Particle
pdb|3LZ0|C Chain C, Crystal Structure Of Nucleosome Core Particle Composed Of
The Widom 601 Dna Sequence (Orientation 1)
pdb|3LZ0|G Chain G, Crystal Structure Of Nucleosome Core Particle Composed Of
The Widom 601 Dna Sequence (Orientation 1)
pdb|3LZ1|C Chain C, Crystal Structure Of Nucleosome Core Particle Composed Of
The Widom 601 Dna Sequence (Orientation 2)
pdb|3LZ1|G Chain G, Crystal Structure Of Nucleosome Core Particle Composed Of
The Widom 601 Dna Sequence (Orientation 2)
pdb|3MNN|C Chain C, A Ruthenium Antitumour Agent Forms Specific Histone
Protein Adducts In The Nucleosome Core
pdb|3MNN|G Chain G, A Ruthenium Antitumour Agent Forms Specific Histone
Protein Adducts In The Nucleosome Core
Length = 119
Score = 128 bits (322), Expect = 2e-30, Method: Compositional matrix adjust.
Identities = 68/104 (65%), Positives = 82/104 (78%), Gaps = 2/104 (1%)
Query: 87 SRSSRAGLQFPVGRIHRLLKSRTTAHGRVGATAAVYSAAILEYLTAEVLELAGNASKDLK 146
+RSSRAGLQFPVGR+HRLL+ A RVGA A VY AA+LEYLTAE+LELAGNA++D K
Sbjct: 16 TRSSRAGLQFPVGRVHRLLRKGNYAE-RVGAGAPVYLAAVLEYLTAEILELAGNAARDNK 74
Query: 147 VKRITPRHLQLAIRGDEELDTLI-KGTIAGGGVIPHIHKSLINK 189
RI PRHLQLA+R DEEL+ L+ + TIA GGV+P+I L+ K
Sbjct: 75 KTRIIPRHLQLAVRNDEELNKLLGRVTIAQGGVLPNIQSVLLPK 118
>pdb|1KX3|C Chain C, X-Ray Structure Of The Nucleosome Core Particle, Ncp146,
At 2.0 A Resolution
pdb|1KX3|G Chain G, X-Ray Structure Of The Nucleosome Core Particle, Ncp146,
At 2.0 A Resolution
pdb|1KX4|C Chain C, X-Ray Structure Of The Nucleosome Core Particle, Ncp146b,
At 2.6 A Resolution
pdb|1KX4|G Chain G, X-Ray Structure Of The Nucleosome Core Particle, Ncp146b,
At 2.6 A Resolution
pdb|1KX5|C Chain C, X-ray Structure Of The Nucleosome Core Particle, Ncp147,
At 1.9 A Resolution
pdb|1KX5|G Chain G, X-ray Structure Of The Nucleosome Core Particle, Ncp147,
At 1.9 A Resolution
pdb|3B6F|C Chain C, Nucleosome Core Particle Treated With Cisplatin
pdb|3B6F|G Chain G, Nucleosome Core Particle Treated With Cisplatin
pdb|3B6G|C Chain C, Nucleosome Core Particle Treated With Oxaliplatin
pdb|3B6G|G Chain G, Nucleosome Core Particle Treated With Oxaliplatin
pdb|3LEL|C Chain C, Structural Insight Into The Sequence-Dependence Of
Nucleosom Positioning
pdb|3LEL|G Chain G, Structural Insight Into The Sequence-Dependence Of
Nucleosom Positioning
pdb|3LEL|M Chain M, Structural Insight Into The Sequence-Dependence Of
Nucleosom Positioning
pdb|3LEL|Q Chain Q, Structural Insight Into The Sequence-Dependence Of
Nucleosom Positioning
pdb|3O62|C Chain C, Nucleosome Core Particle Modified With A Cisplatin
1,3-Cis-{pt(Nh3) 2}2+-D(Gptpg) Intrastrand Cross-Link
pdb|3O62|G Chain G, Nucleosome Core Particle Modified With A Cisplatin
1,3-Cis-{pt(Nh3) 2}2+-D(Gptpg) Intrastrand Cross-Link
Length = 128
Score = 127 bits (320), Expect = 3e-30, Method: Compositional matrix adjust.
Identities = 67/102 (65%), Positives = 81/102 (79%), Gaps = 2/102 (1%)
Query: 87 SRSSRAGLQFPVGRIHRLLKSRTTAHGRVGATAAVYSAAILEYLTAEVLELAGNASKDLK 146
+RSSRAGLQFPVGR+HRLL+ A RVGA A VY AA+LEYLTAE+LELAGNA++D K
Sbjct: 16 TRSSRAGLQFPVGRVHRLLRKGNYAE-RVGAGAPVYLAAVLEYLTAEILELAGNAARDNK 74
Query: 147 VKRITPRHLQLAIRGDEELDTLI-KGTIAGGGVIPHIHKSLI 187
RI PRHLQLA+R DEEL+ L+ + TIA GGV+P+I L+
Sbjct: 75 KTRIIPRHLQLAVRNDEELNKLLGRVTIAQGGVLPNIQSVLL 116
>pdb|1HIO|A Chain A, Histone Octamer (Chicken), Chromosomal Protein, Alpha
Carbons Only
Length = 95
Score = 126 bits (316), Expect = 8e-30, Method: Compositional matrix adjust.
Identities = 68/95 (71%), Positives = 77/95 (81%), Gaps = 2/95 (2%)
Query: 87 SRSSRAGLQFPVGRIHRLLKSRTTAHGRVGATAAVYSAAILEYLTAEVLELAGNASKDLK 146
SRSSRAGLQFPVGR+HRLL+ A RVGA A VY AA+LEYLTAE+LELAGNA++D K
Sbjct: 2 SRSSRAGLQFPVGRVHRLLRKGNYAE-RVGAGAPVYLAAVLEYLTAEILELAGNAARDNK 60
Query: 147 VKRITPRHLQLAIRGDEELDTLI-KGTIAGGGVIP 180
RI PRHLQLAIR DEEL+ L+ K TIA GGV+P
Sbjct: 61 KTRIIPRHLQLAIRNDEELNKLLGKVTIAQGGVLP 95
>pdb|1ID3|C Chain C, Crystal Structure Of The Yeast Nucleosome Core Particle
Reveals Fundamental Differences In Inter-Nucleosome
Interactions
pdb|1ID3|G Chain G, Crystal Structure Of The Yeast Nucleosome Core Particle
Reveals Fundamental Differences In Inter-Nucleosome
Interactions
Length = 131
Score = 123 bits (308), Expect = 7e-29, Method: Compositional matrix adjust.
Identities = 63/106 (59%), Positives = 82/106 (77%), Gaps = 2/106 (1%)
Query: 87 SRSSRAGLQFPVGRIHRLLKSRTTAHGRVGATAAVYSAAILEYLTAEVLELAGNASKDLK 146
SRS++AGL FPVGR+HRLL+ A R+G+ A VY A+LEYL AE+LELAGNA++D K
Sbjct: 17 SRSAKAGLTFPVGRVHRLLRRGNYAQ-RIGSGAPVYLTAVLEYLAAEILELAGNAARDNK 75
Query: 147 VKRITPRHLQLAIRGDEELDTLIKG-TIAGGGVIPHIHKSLINKST 191
RI PRHLQLAIR D+EL+ L+ TIA GGV+P+IH++L+ K +
Sbjct: 76 KTRIIPRHLQLAIRNDDELNKLLGNVTIAQGGVLPNIHQNLLPKKS 121
>pdb|2XQL|A Chain A, Fitting Of The H2a-H2b Histones In The Electron Microscopy
Map Of The Complex Nucleoplasmin:h2a-H2b Histones (1:5).
pdb|2XQL|C Chain C, Fitting Of The H2a-H2b Histones In The Electron Microscopy
Map Of The Complex Nucleoplasmin:h2a-H2b Histones (1:5).
pdb|2XQL|E Chain E, Fitting Of The H2a-H2b Histones In The Electron Microscopy
Map Of The Complex Nucleoplasmin:h2a-H2b Histones (1:5).
pdb|2XQL|G Chain G, Fitting Of The H2a-H2b Histones In The Electron Microscopy
Map Of The Complex Nucleoplasmin:h2a-H2b Histones (1:5).
pdb|2XQL|I Chain I, Fitting Of The H2a-H2b Histones In The Electron Microscopy
Map Of The Complex Nucleoplasmin:h2a-H2b Histones (1:5)
Length = 91
Score = 119 bits (298), Expect = 1e-27, Method: Compositional matrix adjust.
Identities = 65/91 (71%), Positives = 73/91 (80%), Gaps = 2/91 (2%)
Query: 87 SRSSRAGLQFPVGRIHRLLKSRTTAHGRVGATAAVYSAAILEYLTAEVLELAGNASKDLK 146
SRSSRAGLQFPVGR+HRLL+ A RVGA A VY AA+LEYLTAE+LELAGNA++D K
Sbjct: 2 SRSSRAGLQFPVGRVHRLLRKGNYAE-RVGAGAPVYLAAVLEYLTAEILELAGNAARDNK 60
Query: 147 VKRITPRHLQLAIRGDEELDTLI-KGTIAGG 176
RI PRHLQLAIR DEEL+ L+ K TIA G
Sbjct: 61 KTRIIPRHLQLAIRNDEELNKLLGKVTIAQG 91
>pdb|1U35|C Chain C, Crystal Structure Of The Nucleosome Core Particle
Containing The Histone Domain Of Macroh2a
pdb|1U35|G Chain G, Crystal Structure Of The Nucleosome Core Particle
Containing The Histone Domain Of Macroh2a
pdb|2F8N|G Chain G, 2.9 Angstrom X-Ray Structure Of Hybrid Macroh2a
Nucleosomes
Length = 120
Score = 111 bits (277), Expect = 3e-25, Method: Compositional matrix adjust.
Identities = 59/104 (56%), Positives = 78/104 (75%), Gaps = 2/104 (1%)
Query: 87 SRSSRAGLQFPVGRIHRLLKSRTTAHGRVGATAAVYSAAILEYLTAEVLELAGNASKDLK 146
SRS++AG+ FPVGR+ R +K + R+G A VY AA+LEYLTAE+LELA NA++D K
Sbjct: 14 SRSAKAGVIFPVGRMLRYIKKGHPKY-RIGVGAPVYMAAVLEYLTAEILELAVNAARDNK 72
Query: 147 VKRITPRHLQLAIRGDEELDTLIKG-TIAGGGVIPHIHKSLINK 189
R+TPRH+ LA+ DEEL+ L+KG TIA GGV+P+IH L+ K
Sbjct: 73 KGRVTPRHILLAVANDEELNQLLKGVTIASGGVLPNIHPELLAK 116
>pdb|1Q9C|A Chain A, Crystal Structure Of The Histone Domain Of Son Of
Sevenless
pdb|1Q9C|B Chain B, Crystal Structure Of The Histone Domain Of Son Of
Sevenless
pdb|1Q9C|C Chain C, Crystal Structure Of The Histone Domain Of Son Of
Sevenless
pdb|1Q9C|D Chain D, Crystal Structure Of The Histone Domain Of Son Of
Sevenless
pdb|1Q9C|E Chain E, Crystal Structure Of The Histone Domain Of Son Of
Sevenless
pdb|1Q9C|F Chain F, Crystal Structure Of The Histone Domain Of Son Of
Sevenless
pdb|1Q9C|G Chain G, Crystal Structure Of The Histone Domain Of Son Of
Sevenless
pdb|1Q9C|H Chain H, Crystal Structure Of The Histone Domain Of Son Of
Sevenless
pdb|1Q9C|I Chain I, Crystal Structure Of The Histone Domain Of Son Of
Sevenless
Length = 191
Score = 50.4 bits (119), Expect = 7e-07, Method: Compositional matrix adjust.
Identities = 27/92 (29%), Positives = 49/92 (53%), Gaps = 2/92 (2%)
Query: 88 RSSRAGLQFPVGRIHRLLKSRTTAHGRVGATAAVYSAAILEYLTAEVLELAGNASKDLKV 147
R R L PV +IH LLK ++ +VY A+LEY++A++L+LAGN ++++
Sbjct: 97 RKRRNPLSLPVEKIHPLLKE--VLGYKIDHQVSVYIVAVLEYISADILKLAGNYVRNIRH 154
Query: 148 KRITPRHLQLAIRGDEELDTLIKGTIAGGGVI 179
IT + +++A D+ L + ++
Sbjct: 155 YEITKQDIKVAXCADKVLXDXFHQDVEDINIL 186
>pdb|3KSY|A Chain A, Crystal Structure Of The Histone Domain, Dh-Ph Unit, And
Catalytic Unit Of The Ras Activator Son Of Sevenless
(Sos)
Length = 1049
Score = 48.9 bits (115), Expect = 2e-06, Method: Composition-based stats.
Identities = 26/78 (33%), Positives = 46/78 (58%), Gaps = 2/78 (2%)
Query: 88 RSSRAGLQFPVGRIHRLLKSRTTAHGRVGATAAVYSAAILEYLTAEVLELAGNASKDLKV 147
R R L PV +IH LLK ++ +VY A+LEY++A++L+L GN ++++
Sbjct: 97 RKRRNPLSLPVEKIHPLLKE--VLGYKIDHQVSVYIVAVLEYISADILKLVGNYVRNIRH 154
Query: 148 KRITPRHLQLAIRGDEEL 165
IT + +++A+ D+ L
Sbjct: 155 YEITKQDIKVAMCADKVL 172
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 0.136 0.384
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,267,457
Number of Sequences: 62578
Number of extensions: 128179
Number of successful extensions: 306
Number of sequences better than 100.0: 24
Number of HSP's better than 100.0 without gapping: 24
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 244
Number of HSP's gapped (non-prelim): 24
length of query: 193
length of database: 14,973,337
effective HSP length: 93
effective length of query: 100
effective length of database: 9,153,583
effective search space: 915358300
effective search space used: 915358300
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)