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= psy3662
(132 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2NQB|C Chain C, Drosophila Nucleosome Structure
pdb|2NQB|G Chain G, Drosophila Nucleosome Structure
Length = 123
Score = 155 bits (392), Expect = 6e-39, Method: Compositional matrix adjust.
Identities = 78/99 (78%), Positives = 81/99 (81%)
Query: 23 LQFPVGRIHRLLRKGNYAERVGAGAPXXXXXXXXXXXXXXXXXXGNAARDNKKTRIIPRH 82
LQFPVGRIHRLLRKGNYAERVGAGAP GNAARDNKKTRIIPRH
Sbjct: 22 LQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRH 81
Query: 83 IQLAIRNDEELNKLLNGVTIAQGGVLPNIQAVLLPKKSE 121
+QLAIRNDEELNKLL+GVTIAQGGVLPNIQAVLLPKK+E
Sbjct: 82 LQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKKTE 120
>pdb|2PYO|C Chain C, Drosophila Nucleosome Core
pdb|2PYO|G Chain G, Drosophila Nucleosome Core
Length = 120
Score = 155 bits (392), Expect = 6e-39, Method: Compositional matrix adjust.
Identities = 78/99 (78%), Positives = 81/99 (81%)
Query: 23 LQFPVGRIHRLLRKGNYAERVGAGAPXXXXXXXXXXXXXXXXXXGNAARDNKKTRIIPRH 82
LQFPVGRIHRLLRKGNYAERVGAGAP GNAARDNKKTRIIPRH
Sbjct: 22 LQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLELAGNAARDNKKTRIIPRH 81
Query: 83 IQLAIRNDEELNKLLNGVTIAQGGVLPNIQAVLLPKKSE 121
+QLAIRNDEELNKLL+GVTIAQGGVLPNIQAVLLPKK+E
Sbjct: 82 LQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKKTE 120
>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 = 153 bits (387), Expect = 3e-38, Method: Compositional matrix adjust.
Identities = 77/105 (73%), Positives = 83/105 (79%)
Query: 23 LQFPVGRIHRLLRKGNYAERVGAGAPXXXXXXXXXXXXXXXXXXGNAARDNKKTRIIPRH 82
LQFPVGR+HRLLRKGNYAERVGAGAP GNAARDNKKTRIIPRH
Sbjct: 24 LQFPVGRVHRLLRKGNYAERVGAGAPVYLAAVLEYLTAEILELAGNAARDNKKTRIIPRH 83
Query: 83 IQLAIRNDEELNKLLNGVTIAQGGVLPNIQAVLLPKKSETAKGKS 127
+QLAIRNDEELNKLL VTIAQGGVLPNIQAVLLPKK+++ K K+
Sbjct: 84 LQLAIRNDEELNKLLGKVTIAQGGVLPNIQAVLLPKKTDSHKAKA 128
>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 = 153 bits (386), Expect = 3e-38, Method: Compositional matrix adjust.
Identities = 76/102 (74%), Positives = 82/102 (80%)
Query: 23 LQFPVGRIHRLLRKGNYAERVGAGAPXXXXXXXXXXXXXXXXXXGNAARDNKKTRIIPRH 82
LQFPVGR+HRLLRKGNYAERVGAGAP GNAARDNKKTRIIPRH
Sbjct: 23 LQFPVGRVHRLLRKGNYAERVGAGAPVYLAAVLEYLTAEILELAGNAARDNKKTRIIPRH 82
Query: 83 IQLAIRNDEELNKLLNGVTIAQGGVLPNIQAVLLPKKSETAK 124
+QLA+RNDEELNKLL VTIAQGGVLPNIQ+VLLPKK+E+AK
Sbjct: 83 LQLAVRNDEELNKLLGRVTIAQGGVLPNIQSVLLPKKTESAK 124
>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 = 153 bits (386), Expect = 3e-38, Method: Compositional matrix adjust.
Identities = 77/105 (73%), Positives = 83/105 (79%)
Query: 23 LQFPVGRIHRLLRKGNYAERVGAGAPXXXXXXXXXXXXXXXXXXGNAARDNKKTRIIPRH 82
LQFPVGR+HRLLRKGNYAERVGAGAP GNAARDNKKTRIIPRH
Sbjct: 23 LQFPVGRVHRLLRKGNYAERVGAGAPVYLAAVLEYLTAEILELAGNAARDNKKTRIIPRH 82
Query: 83 IQLAIRNDEELNKLLNGVTIAQGGVLPNIQAVLLPKKSETAKGKS 127
+QLAIRNDEELNKLL VTIAQGGVLPNIQAVLLPKK+++ K K+
Sbjct: 83 LQLAIRNDEELNKLLGKVTIAQGGVLPNIQAVLLPKKTDSHKAKA 127
>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 = 152 bits (384), Expect = 5e-38, Method: Compositional matrix adjust.
Identities = 75/102 (73%), Positives = 82/102 (80%)
Query: 23 LQFPVGRIHRLLRKGNYAERVGAGAPXXXXXXXXXXXXXXXXXXGNAARDNKKTRIIPRH 82
LQFPVGR+HRLLRKGNYAERVGAGAP GNAARDNKKTRIIPRH
Sbjct: 23 LQFPVGRVHRLLRKGNYAERVGAGAPVYLAAVLEYLTAEILELAGNAARDNKKTRIIPRH 82
Query: 83 IQLAIRNDEELNKLLNGVTIAQGGVLPNIQAVLLPKKSETAK 124
+QLA+RNDEELNKLL VTIAQGGVLPNIQ+VLLPKK+E++K
Sbjct: 83 LQLAVRNDEELNKLLGRVTIAQGGVLPNIQSVLLPKKTESSK 124
>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 = 152 bits (384), Expect = 6e-38, Method: Compositional matrix adjust.
Identities = 75/102 (73%), Positives = 82/102 (80%)
Query: 23 LQFPVGRIHRLLRKGNYAERVGAGAPXXXXXXXXXXXXXXXXXXGNAARDNKKTRIIPRH 82
LQFPVGR+HRLLRKGNYAERVGAGAP GNAARDNKKTRIIPRH
Sbjct: 23 LQFPVGRVHRLLRKGNYAERVGAGAPVYLAAVLEYLTAEILELAGNAARDNKKTRIIPRH 82
Query: 83 IQLAIRNDEELNKLLNGVTIAQGGVLPNIQAVLLPKKSETAK 124
+QLA+RNDEELNKLL VTIAQGGVLPNIQ+VLLPKK+E++K
Sbjct: 83 LQLAVRNDEELNKLLGRVTIAQGGVLPNIQSVLLPKKTESSK 124
>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 = 151 bits (382), Expect = 9e-38, Method: Compositional matrix adjust.
Identities = 79/107 (73%), Positives = 84/107 (78%), Gaps = 3/107 (2%)
Query: 23 LQFPVGRIHRLLRKGNYAERVGAGAPXXXXXXXXXXXXXXXXXXGNAARDNKKTRIIPRH 82
LQFPVGR+HRLLRKGNY+ERVGAGAP GNAARDNKKTRIIPRH
Sbjct: 27 LQFPVGRVHRLLRKGNYSERVGAGAPVYLAAVLEYLTAEILELAGNAARDNKKTRIIPRH 86
Query: 83 IQLAIRNDEELNKLLNGVTIAQGGVLPNIQAVLLPKKSET---AKGK 126
+QLAIRNDEELNKLL VTIAQGGVLPNIQAVLLPKK+E+ AKGK
Sbjct: 87 LQLAIRNDEELNKLLGRVTIAQGGVLPNIQAVLLPKKTESHHKAKGK 133
>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 = 151 bits (381), Expect = 1e-37, Method: Compositional matrix adjust.
Identities = 79/107 (73%), Positives = 84/107 (78%), Gaps = 3/107 (2%)
Query: 23 LQFPVGRIHRLLRKGNYAERVGAGAPXXXXXXXXXXXXXXXXXXGNAARDNKKTRIIPRH 82
LQFPVGR+HRLLRKGNY+ERVGAGAP GNAARDNKKTRIIPRH
Sbjct: 24 LQFPVGRVHRLLRKGNYSERVGAGAPVYLAAVLEYLTAEILELAGNAARDNKKTRIIPRH 83
Query: 83 IQLAIRNDEELNKLLNGVTIAQGGVLPNIQAVLLPKKSET---AKGK 126
+QLAIRNDEELNKLL VTIAQGGVLPNIQAVLLPKK+E+ AKGK
Sbjct: 84 LQLAIRNDEELNKLLGRVTIAQGGVLPNIQAVLLPKKTESHHKAKGK 130
>pdb|2F8N|K Chain K, 2.9 Angstrom X-Ray Structure Of Hybrid Macroh2a
Nucleosomes
Length = 149
Score = 151 bits (381), Expect = 1e-37, Method: Compositional matrix adjust.
Identities = 79/107 (73%), Positives = 84/107 (78%), Gaps = 3/107 (2%)
Query: 23 LQFPVGRIHRLLRKGNYAERVGAGAPXXXXXXXXXXXXXXXXXXGNAARDNKKTRIIPRH 82
LQFPVGR+HRLLRKGNY+ERVGAGAP GNAARDNKKTRIIPRH
Sbjct: 43 LQFPVGRVHRLLRKGNYSERVGAGAPVYLAAVLEYLTAEILELAGNAARDNKKTRIIPRH 102
Query: 83 IQLAIRNDEELNKLLNGVTIAQGGVLPNIQAVLLPKKSET---AKGK 126
+QLAIRNDEELNKLL VTIAQGGVLPNIQAVLLPKK+E+ AKGK
Sbjct: 103 LQLAIRNDEELNKLLGRVTIAQGGVLPNIQAVLLPKKTESHHKAKGK 149
>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 = 148 bits (374), Expect = 8e-37, Method: Compositional matrix adjust.
Identities = 73/102 (71%), Positives = 80/102 (78%)
Query: 23 LQFPVGRIHRLLRKGNYAERVGAGAPXXXXXXXXXXXXXXXXXXGNAARDNKKTRIIPRH 82
LQFPVGR+HRLLRKGNYAERVGAGAP GN RDNKKTRIIPRH
Sbjct: 23 LQFPVGRVHRLLRKGNYAERVGAGAPVYLAAVLEYLTAEILELAGNWERDNKKTRIIPRH 82
Query: 83 IQLAIRNDEELNKLLNGVTIAQGGVLPNIQAVLLPKKSETAK 124
+QLA+RNDEELNKLL VTIAQGGVLPNIQ+VLLPKK+E++K
Sbjct: 83 LQLAVRNDEELNKLLGRVTIAQGGVLPNIQSVLLPKKTESSK 124
>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 = 147 bits (370), Expect = 2e-36, Method: Compositional matrix adjust.
Identities = 73/98 (74%), Positives = 78/98 (79%)
Query: 23 LQFPVGRIHRLLRKGNYAERVGAGAPXXXXXXXXXXXXXXXXXXGNAARDNKKTRIIPRH 82
LQFPVGR+HRLLRKGNYAERVGAGAP GNAARDNKKTRIIPRH
Sbjct: 10 LQFPVGRVHRLLRKGNYAERVGAGAPVYLAAVLEYLTAEILELAGNAARDNKKTRIIPRH 69
Query: 83 IQLAIRNDEELNKLLNGVTIAQGGVLPNIQAVLLPKKS 120
+QLA+RNDEELNKLL VTIAQGGVLPNIQ+VLLPKK+
Sbjct: 70 LQLAVRNDEELNKLLGRVTIAQGGVLPNIQSVLLPKKT 107
>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 = 145 bits (367), Expect = 5e-36, Method: Compositional matrix adjust.
Identities = 73/97 (75%), Positives = 77/97 (79%)
Query: 23 LQFPVGRIHRLLRKGNYAERVGAGAPXXXXXXXXXXXXXXXXXXGNAARDNKKTRIIPRH 82
LQFPVGR+HRLLRKGNYAERVGAGAP GNAARDNKKTRIIPRH
Sbjct: 23 LQFPVGRVHRLLRKGNYAERVGAGAPVYLAAVLEYLTAEILELAGNAARDNKKTRIIPRH 82
Query: 83 IQLAIRNDEELNKLLNGVTIAQGGVLPNIQAVLLPKK 119
+QLA+RNDEELNKLL VTIAQGGVLPNIQ+VLLPKK
Sbjct: 83 LQLAVRNDEELNKLLGRVTIAQGGVLPNIQSVLLPKK 119
>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 = 145 bits (367), Expect = 5e-36, Method: Compositional matrix adjust.
Identities = 73/97 (75%), Positives = 77/97 (79%)
Query: 23 LQFPVGRIHRLLRKGNYAERVGAGAPXXXXXXXXXXXXXXXXXXGNAARDNKKTRIIPRH 82
LQFPVGR+HRLLRKGNYAERVGAGAP GNAARDNKKTRIIPRH
Sbjct: 20 LQFPVGRVHRLLRKGNYAERVGAGAPVYLAAVLEYLTAEILELAGNAARDNKKTRIIPRH 79
Query: 83 IQLAIRNDEELNKLLNGVTIAQGGVLPNIQAVLLPKK 119
+QLA+RNDEELNKLL VTIAQGGVLPNIQ+VLLPKK
Sbjct: 80 LQLAVRNDEELNKLLGRVTIAQGGVLPNIQSVLLPKK 116
>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 = 142 bits (358), Expect = 5e-35, Method: Compositional matrix adjust.
Identities = 71/95 (74%), Positives = 75/95 (78%)
Query: 23 LQFPVGRIHRLLRKGNYAERVGAGAPXXXXXXXXXXXXXXXXXXGNAARDNKKTRIIPRH 82
LQFPVGR+HRLLRKGNYAERVGAGAP GNAARDNKKTRIIPRH
Sbjct: 23 LQFPVGRVHRLLRKGNYAERVGAGAPVYLAAVLEYLTAEILELAGNAARDNKKTRIIPRH 82
Query: 83 IQLAIRNDEELNKLLNGVTIAQGGVLPNIQAVLLP 117
+QLA+RNDEELNKLL VTIAQGGVLPNIQ+VLLP
Sbjct: 83 LQLAVRNDEELNKLLGRVTIAQGGVLPNIQSVLLP 117
>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 = 139 bits (349), Expect = 6e-34, Method: Compositional matrix adjust.
Identities = 72/109 (66%), Positives = 79/109 (72%), Gaps = 2/109 (1%)
Query: 23 LQFPVGRIHRLLRKGNYAERVGAGAPXXXXXXXXXXXXXXXXXXGNAARDNKKTRIIPRH 82
L FPVGR+HRLLR+GNYA+R+G+GAP GNAARDNKKTRIIPRH
Sbjct: 24 LTFPVGRVHRLLRRGNYAQRIGSGAPVYLTAVLEYLAAEILELAGNAARDNKKTRIIPRH 83
Query: 83 IQLAIRNDEELNKLLNGVTIAQGGVLPNIQAVLLPKKSETAKGKSNSQE 131
+QLAIRND+ELNKLL VTIAQGGVLPNI LLPKKS AK SQE
Sbjct: 84 LQLAIRNDDELNKLLGNVTIAQGGVLPNIHQNLLPKKS--AKATKASQE 130
>pdb|1HIO|A Chain A, Histone Octamer (Chicken), Chromosomal Protein, Alpha
Carbons Only
Length = 95
Score = 129 bits (324), Expect = 4e-31, Method: Compositional matrix adjust.
Identities = 65/87 (74%), Positives = 67/87 (77%)
Query: 23 LQFPVGRIHRLLRKGNYAERVGAGAPXXXXXXXXXXXXXXXXXXGNAARDNKKTRIIPRH 82
LQFPVGR+HRLLRKGNYAERVGAGAP GNAARDNKKTRIIPRH
Sbjct: 9 LQFPVGRVHRLLRKGNYAERVGAGAPVYLAAVLEYLTAEILELAGNAARDNKKTRIIPRH 68
Query: 83 IQLAIRNDEELNKLLNGVTIAQGGVLP 109
+QLAIRNDEELNKLL VTIAQGGVLP
Sbjct: 69 LQLAIRNDEELNKLLGKVTIAQGGVLP 95
>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 = 121 bits (304), Expect = 1e-28, Method: Compositional matrix adjust.
Identities = 61/83 (73%), Positives = 63/83 (75%)
Query: 23 LQFPVGRIHRLLRKGNYAERVGAGAPXXXXXXXXXXXXXXXXXXGNAARDNKKTRIIPRH 82
LQFPVGR+HRLLRKGNYAERVGAGAP GNAARDNKKTRIIPRH
Sbjct: 9 LQFPVGRVHRLLRKGNYAERVGAGAPVYLAAVLEYLTAEILELAGNAARDNKKTRIIPRH 68
Query: 83 IQLAIRNDEELNKLLNGVTIAQG 105
+QLAIRNDEELNKLL VTIAQG
Sbjct: 69 LQLAIRNDEELNKLLGKVTIAQG 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 = 99.4 bits (246), Expect = 5e-22, Method: Compositional matrix adjust.
Identities = 52/95 (54%), Positives = 60/95 (63%)
Query: 25 FPVGRIHRLLRKGNYAERVGAGAPXXXXXXXXXXXXXXXXXXGNAARDNKKTRIIPRHIQ 84
FPVGR+ R ++KG+ R+G GAP NAARDNKK R+ PRHI
Sbjct: 23 FPVGRMLRYIKKGHPKYRIGVGAPVYMAAVLEYLTAEILELAVNAARDNKKGRVTPRHIL 82
Query: 85 LAIRNDEELNKLLNGVTIAQGGVLPNIQAVLLPKK 119
LA+ NDEELN+LL GVTIA GGVLPNI LL KK
Sbjct: 83 LAVANDEELNQLLKGVTIASGGVLPNIHPELLAKK 117
>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 = 81.6 bits (200), Expect = 1e-16, Method: Compositional matrix adjust.
Identities = 47/100 (47%), Positives = 58/100 (58%), Gaps = 2/100 (2%)
Query: 23 LQFPVGRIHRLLRKGNYAE-RVGAGAPXXXXXXXXXXXXXXXXXXGNAARDNKKTRIIPR 81
LQFPVGRIHR L+ + RVGA A GNA++D K RI PR
Sbjct: 26 LQFPVGRIHRHLKSRTTSHGRVGATAAVYSAAILEYLTAEVLELAGNASKDLKVKRITPR 85
Query: 82 HIQLAIRNDEELNKLLNGVTIAQGGVLPNIQAVLLPKKSE 121
H+QLAIR DEEL+ L+ TIA GGV+P+I L+ KK +
Sbjct: 86 HLQLAIRGDEELDSLIK-ATIAGGGVIPHIHKSLIGKKGQ 124
>pdb|2JSS|A Chain A, Nmr Structure Of Chaperone Chz1 Complexed With Histone
H2a.Z-H2b
Length = 192
Score = 75.1 bits (183), Expect = 9e-15, Method: Compositional matrix adjust.
Identities = 44/90 (48%), Positives = 51/90 (56%), Gaps = 2/90 (2%)
Query: 23 LQFPVGRIHRLL-RKGNYAERVGAGAPXXXXXXXXXXXXXXXXXXGNAARDNKKTRIIPR 81
LQFPVGRI R L R RVG+ A GNAA+D K RI PR
Sbjct: 104 LQFPVGRIKRYLKRHATGRTRVGSKAAIYLTAVLEYLTAEVLELAGNAAKDLKVKRITPR 163
Query: 82 HIQLAIRNDEELNKLLNGVTIAQGGVLPNI 111
H+QLAIR D+EL+ L+ TIA GGVLP+I
Sbjct: 164 HLQLAIRGDDELDSLIRA-TIASGGVLPHI 192
>pdb|4EDU|T Chain T, The Mbt Repeats Of Human Scml2 In A Complex With Histone
H2a Peptide
Length = 16
Score = 33.1 bits (74), Expect = 0.042, Method: Compositional matrix adjust.
Identities = 14/16 (87%), Positives = 15/16 (93%)
Query: 30 IHRLLRKGNYAERVGA 45
+HRLLR GNYAERVGA
Sbjct: 1 VHRLLRXGNYAERVGA 16
>pdb|1YXM|A Chain A, Crystal Structure Of Peroxisomal Trans 2-Enoyl Coa
Reductase
pdb|1YXM|B Chain B, Crystal Structure Of Peroxisomal Trans 2-Enoyl Coa
Reductase
pdb|1YXM|C Chain C, Crystal Structure Of Peroxisomal Trans 2-Enoyl Coa
Reductase
pdb|1YXM|D Chain D, Crystal Structure Of Peroxisomal Trans 2-Enoyl Coa
Reductase
Length = 303
Score = 28.1 bits (61), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 13/25 (52%), Positives = 18/25 (72%), Gaps = 2/25 (8%)
Query: 73 NKKTRIIPRHIQLAIRNDEELNKLL 97
K+ R+IP IQ IRN+EE+N L+
Sbjct: 69 TKQARVIP--IQCNIRNEEEVNNLV 91
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
0.315 0.135 0.376
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,612,518
Number of Sequences: 62578
Number of extensions: 75097
Number of successful extensions: 126
Number of sequences better than 100.0: 23
Number of HSP's better than 100.0 without gapping: 22
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 80
Number of HSP's gapped (non-prelim): 24
length of query: 132
length of database: 14,973,337
effective HSP length: 88
effective length of query: 44
effective length of database: 9,466,473
effective search space: 416524812
effective search space used: 416524812
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 46 (22.3 bits)