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= 036348
         (72 letters)

Database: pdbaa 
           62,578 sequences; 14,973,337 total letters

Searching..................................................done



>pdb|3A6N|D Chain D, The Nucleosome Containing A Testis-Specific Histone
          Variant, Human H3t
 pdb|3A6N|H Chain H, The Nucleosome Containing A Testis-Specific Histone
          Variant, Human H3t
 pdb|3AFA|D Chain D, The Human Nucleosome Structure
 pdb|3AFA|H Chain H, The Human Nucleosome Structure
 pdb|3AV1|D Chain D, The Human Nucleosome Structure Containing The Histone
          Variant H3.2
 pdb|3AV1|H Chain H, The Human Nucleosome Structure Containing The Histone
          Variant H3.2
 pdb|3AV2|D Chain D, The Human Nucleosome Structure Containing The Histone
          Variant H3.3
 pdb|3AV2|H Chain H, The Human Nucleosome Structure Containing The Histone
          Variant H3.3
 pdb|3AYW|D Chain D, Crystal Structure Of Human Nucleosome Core Particle
          Containing H3k56q Mutation
 pdb|3AYW|H Chain H, Crystal Structure Of Human Nucleosome Core Particle
          Containing H3k56q Mutation
 pdb|3AZE|D Chain D, Crystal Structure Of Human Nucleosome Core Particle
          Containing H3k64q Mutation
 pdb|3AZE|H Chain H, Crystal Structure Of Human Nucleosome Core Particle
          Containing H3k64q Mutation
 pdb|3AZF|D Chain D, Crystal Structure Of Human Nucleosome Core Particle
          Containing H3k79q Mutation
 pdb|3AZF|H Chain H, Crystal Structure Of Human Nucleosome Core Particle
          Containing H3k79q Mutation
 pdb|3AZG|D Chain D, Crystal Structure Of Human Nucleosome Core Particle
          Containing H3k115q Mutation
 pdb|3AZG|H Chain H, Crystal Structure Of Human Nucleosome Core Particle
          Containing H3k115q Mutation
 pdb|3AZH|D Chain D, Crystal Structure Of Human Nucleosome Core Particle
          Containing H3k122q Mutation
 pdb|3AZH|H Chain H, Crystal Structure Of Human Nucleosome Core Particle
          Containing H3k122q Mutation
 pdb|3AZI|D Chain D, Crystal Structure Of Human Nucleosome Core Particle
          Containing H4k31q Mutation
 pdb|3AZI|H Chain H, Crystal Structure Of Human Nucleosome Core Particle
          Containing H4k31q Mutation
 pdb|3AZJ|D Chain D, Crystal Structure Of Human Nucleosome Core Particle
          Containing H4k44q Mutation
 pdb|3AZJ|H Chain H, Crystal Structure Of Human Nucleosome Core Particle
          Containing H4k44q Mutation
 pdb|3AZK|D Chain D, Crystal Structure Of Human Nucleosome Core Particle
          Containing H4k59q Mutation
 pdb|3AZK|H Chain H, Crystal Structure Of Human Nucleosome Core Particle
          Containing H4k59q Mutation
 pdb|3AZL|D Chain D, Crystal Structure Of Human Nucleosome Core Particle
          Containing H4k77q Mutation
 pdb|3AZL|H Chain H, Crystal Structure Of Human Nucleosome Core Particle
          Containing H4k77q Mutation
 pdb|3AZM|D Chain D, Crystal Structure Of Human Nucleosome Core Particle
          Containing H4k79q Mutation
 pdb|3AZM|H Chain H, Crystal Structure Of Human Nucleosome Core Particle
          Containing H4k79q Mutation
 pdb|3AZN|D Chain D, Crystal Structure Of Human Nucleosome Core Particle
          Containing H4k91q Mutation
 pdb|3AZN|H Chain H, Crystal Structure Of Human Nucleosome Core Particle
          Containing H4k91q Mutation
          Length = 129

 Score = 74.3 bits (181), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 31/47 (65%), Positives = 40/47 (85%)

Query: 25 RILNQIYPDIRISSKAMGIMNSFINDIFEKLAWEASRLARYKKKPSI 71
          ++L Q++PD  ISSKAMGIMNSF+NDIFE++A EASRLA Y K+ +I
Sbjct: 47 KVLKQVHPDTGISSKAMGIMNSFVNDIFERIAGEASRLAHYNKRSTI 93


>pdb|2CV5|D Chain D, Crystal Structure Of Human Nucleosome Core Particle
 pdb|2CV5|H Chain H, Crystal Structure Of Human Nucleosome Core Particle
          Length = 126

 Score = 74.3 bits (181), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 31/47 (65%), Positives = 40/47 (85%)

Query: 25 RILNQIYPDIRISSKAMGIMNSFINDIFEKLAWEASRLARYKKKPSI 71
          ++L Q++PD  ISSKAMGIMNSF+NDIFE++A EASRLA Y K+ +I
Sbjct: 44 KVLKQVHPDTGISSKAMGIMNSFVNDIFERIAGEASRLAHYNKRSTI 90


>pdb|2HIO|B Chain B, Histone Octamer (Chicken), Chromosomal Protein
          Length = 125

 Score = 73.9 bits (180), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 31/47 (65%), Positives = 40/47 (85%)

Query: 25 RILNQIYPDIRISSKAMGIMNSFINDIFEKLAWEASRLARYKKKPSI 71
          ++L Q++PD  ISSKAMGIMNSF+NDIFE++A EASRLA Y K+ +I
Sbjct: 43 KVLKQVHPDTGISSKAMGIMNSFVNDIFERIAGEASRLAHYNKRSTI 89


>pdb|1EQZ|B Chain B, X-Ray Structure Of The Nucleosome Core Particle At 2.5 A
          Resolution
 pdb|1EQZ|F Chain F, X-Ray Structure Of The Nucleosome Core Particle At 2.5 A
          Resolution
 pdb|1HQ3|B Chain B, Crystal Structure Of The Histone-Core-Octamer In
          KclPHOSPHATE
 pdb|1HQ3|F Chain F, Crystal Structure Of The Histone-Core-Octamer In
          KclPHOSPHATE
 pdb|1TZY|B Chain B, Crystal Structure Of The Core-Histone Octamer To 1.90
          Angstrom Resolution
 pdb|1TZY|F Chain F, Crystal Structure Of The Core-Histone Octamer To 1.90
          Angstrom Resolution
 pdb|2ARO|B Chain B, Crystal Structure Of The Native Histone Octamer To 2.1
          Angstrom Resolution, Crystalised In The Presence Of
          S-nitrosoglutathione
 pdb|2ARO|F Chain F, Crystal Structure Of The Native Histone Octamer To 2.1
          Angstrom Resolution, Crystalised In The Presence Of
          S-nitrosoglutathione
          Length = 126

 Score = 73.9 bits (180), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 31/47 (65%), Positives = 40/47 (85%)

Query: 25 RILNQIYPDIRISSKAMGIMNSFINDIFEKLAWEASRLARYKKKPSI 71
          ++L Q++PD  ISSKAMGIMNSF+NDIFE++A EASRLA Y K+ +I
Sbjct: 44 KVLKQVHPDTGISSKAMGIMNSFVNDIFERIAGEASRLAHYNKRSTI 90


>pdb|2XQL|B Chain B, Fitting Of The H2a-H2b Histones In The Electron
          Microscopy Map Of The Complex Nucleoplasmin:h2a-H2b
          Histones (1:5).
 pdb|2XQL|D Chain D, Fitting Of The H2a-H2b Histones In The Electron
          Microscopy Map Of The Complex Nucleoplasmin:h2a-H2b
          Histones (1:5).
 pdb|2XQL|F Chain F, Fitting Of The H2a-H2b Histones In The Electron
          Microscopy Map Of The Complex Nucleoplasmin:h2a-H2b
          Histones (1:5).
 pdb|2XQL|H Chain H, Fitting Of The H2a-H2b Histones In The Electron
          Microscopy Map Of The Complex Nucleoplasmin:h2a-H2b
          Histones (1:5).
 pdb|2XQL|J Chain J, Fitting Of The H2a-H2b Histones In The Electron
          Microscopy Map Of The Complex Nucleoplasmin:h2a-H2b
          Histones (1:5)
          Length = 90

 Score = 73.9 bits (180), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 31/47 (65%), Positives = 40/47 (85%)

Query: 25 RILNQIYPDIRISSKAMGIMNSFINDIFEKLAWEASRLARYKKKPSI 71
          ++L Q++PD  ISSKAMGIMNSF+NDIFE++A EASRLA Y K+ +I
Sbjct: 8  KVLKQVHPDTGISSKAMGIMNSFVNDIFERIAGEASRLAHYNKRSTI 54


>pdb|1U35|D Chain D, Crystal Structure Of The Nucleosome Core Particle
          Containing The Histone Domain Of Macroh2a
 pdb|1U35|H Chain H, Crystal Structure Of The Nucleosome Core Particle
          Containing The Histone Domain Of Macroh2a
 pdb|2F8N|D Chain D, 2.9 Angstrom X-Ray Structure Of Hybrid Macroh2a
          Nucleosomes
          Length = 126

 Score = 73.6 bits (179), Expect = 3e-14,   Method: Compositional matrix adjust.
 Identities = 31/47 (65%), Positives = 40/47 (85%)

Query: 25 RILNQIYPDIRISSKAMGIMNSFINDIFEKLAWEASRLARYKKKPSI 71
          ++L Q++PD  ISSKAMGIMNSF+NDIFE++A EASRLA Y K+ +I
Sbjct: 44 KVLKQVHPDTGISSKAMGIMNSFVNDIFERIASEASRLAHYNKRSTI 90


>pdb|1S32|D Chain D, Molecular Recognition Of The Nucleosomal 'supergroove'
 pdb|1S32|H Chain H, Molecular Recognition Of The Nucleosomal 'supergroove'
 pdb|3LJA|D Chain D, Using Soft X-Rays For A Detailed Picture Of Divalent
          Metal Binding In The Nucleosome
 pdb|3LJA|H Chain H, Using Soft X-Rays For A Detailed Picture Of Divalent
          Metal Binding In The Nucleosome
 pdb|3KXB|D Chain D, Structural Characterization Of H3k56q Nucleosomes And
          Nucleosomal Arrays
 pdb|3KXB|H Chain H, Structural Characterization Of H3k56q Nucleosomes And
          Nucleosomal Arrays
 pdb|3MVD|D Chain D, Crystal Structure Of The Chromatin Factor Rcc1 In
          Complex With The Nucleosome Core Particle
 pdb|3MVD|H Chain H, Crystal Structure Of The Chromatin Factor Rcc1 In
          Complex With The Nucleosome Core Particle
 pdb|3O62|D Chain D, Nucleosome Core Particle Modified With A Cisplatin
          1,3-Cis-{pt(Nh3) 2}2+-D(Gptpg) Intrastrand Cross-Link
 pdb|3O62|H Chain H, Nucleosome Core Particle Modified With A Cisplatin
          1,3-Cis-{pt(Nh3) 2}2+-D(Gptpg) Intrastrand Cross-Link
 pdb|3TU4|D Chain D, Crystal Structure Of The Sir3 Bah Domain In Complex With
          A Nucleosome Core Particle.
 pdb|3TU4|H Chain H, Crystal Structure Of The Sir3 Bah Domain In Complex With
          A Nucleosome Core Particle.
 pdb|3REH|D Chain D, 2.5 Angstrom Crystal Structure Of The Nucleosome Core
          Particle Assembled With A 145 Bp Alpha-Satellite Dna
          (Ncp145)
 pdb|3REH|H Chain H, 2.5 Angstrom Crystal Structure Of The Nucleosome Core
          Particle Assembled With A 145 Bp Alpha-Satellite Dna
          (Ncp145)
 pdb|3REI|D Chain D, 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|H Chain H, 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|D Chain D, 2.55 Angstrom Crystal Structure Of The Nucleosome Core
          Particle Assembled With A 146 Bp Alpha-Satellite Dna
          (Ncp146b)
 pdb|3REJ|H Chain H, 2.55 Angstrom Crystal Structure Of The Nucleosome Core
          Particle Assembled With A 146 Bp Alpha-Satellite Dna
          (Ncp146b)
 pdb|3REK|D Chain D, 2.6 Angstrom Crystal Structure Of The Nucleosome Core
          Particle Assembled With A 146 Bp Alpha-Satellite Dna
          (Ncp146b) Derivatized With Oxaliplatin
 pdb|3REK|H Chain H, 2.6 Angstrom Crystal Structure Of The Nucleosome Core
          Particle Assembled With A 146 Bp Alpha-Satellite Dna
          (Ncp146b) Derivatized With Oxaliplatin
 pdb|3REL|D Chain D, 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|H Chain H, 2.7 Angstrom Crystal Structure Of The Nucleosome Core
          Particle Assembled With A 146 Bp Alpha-Satellite Dna
          (Ncp146b) Derivatized With Triamminechloroplatinum(Ii)
          Chloride
          Length = 122

 Score = 71.2 bits (173), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 29/47 (61%), Positives = 39/47 (82%)

Query: 25 RILNQIYPDIRISSKAMGIMNSFINDIFEKLAWEASRLARYKKKPSI 71
          ++L Q++PD  ISSKAM IMNSF+ND+FE++A EASRLA Y K+ +I
Sbjct: 40 KVLKQVHPDTGISSKAMSIMNSFVNDVFERIAGEASRLAHYNKRSTI 86


>pdb|2F8N|H Chain H, 2.9 Angstrom X-Ray Structure Of Hybrid Macroh2a
          Nucleosomes
          Length = 123

 Score = 71.2 bits (173), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 29/47 (61%), Positives = 39/47 (82%)

Query: 25 RILNQIYPDIRISSKAMGIMNSFINDIFEKLAWEASRLARYKKKPSI 71
          ++L Q++PD  ISSKAM IMNSF+ND+FE++A EASRLA Y K+ +I
Sbjct: 41 KVLKQVHPDTGISSKAMSIMNSFVNDVFERIAGEASRLAHYNKRSTI 87


>pdb|3C9K|B Chain B, Model Of Histone Octamer Tubular Crystals
 pdb|3C9K|F Chain F, Model Of Histone Octamer Tubular Crystals
          Length = 125

 Score = 71.2 bits (173), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 30/47 (63%), Positives = 39/47 (82%)

Query: 25 RILNQIYPDIRISSKAMGIMNSFINDIFEKLAWEASRLARYKKKPSI 71
          ++L Q++PD  ISSKAM IMNSF+NDIFE++A EASRLA Y K+ +I
Sbjct: 43 KVLKQVHPDTGISSKAMSIMNSFVNDIFERIAGEASRLAHYNKRSTI 89


>pdb|3C1B|D Chain D, The Effect Of H3 K79 Dimethylation And H4 K20
          Trimethylation On Nucleosome And Chromatin Structure
 pdb|3C1B|H Chain H, The Effect Of H3 K79 Dimethylation And H4 K20
          Trimethylation On Nucleosome And Chromatin Structure
 pdb|3C1C|D Chain D, The Effect Of H3 K79 Dimethylation And H4 K20
          Trimethylation On Nucleosome And Chromatin Structure
 pdb|3C1C|H Chain H, The Effect Of H3 K79 Dimethylation And H4 K20
          Trimethylation On Nucleosome And Chromatin Structure
          Length = 125

 Score = 71.2 bits (173), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 29/47 (61%), Positives = 39/47 (82%)

Query: 25 RILNQIYPDIRISSKAMGIMNSFINDIFEKLAWEASRLARYKKKPSI 71
          ++L Q++PD  ISSKAM IMNSF+ND+FE++A EASRLA Y K+ +I
Sbjct: 43 KVLKQVHPDTGISSKAMSIMNSFVNDVFERIAGEASRLAHYNKRSTI 89


>pdb|1ZLA|D Chain D, X-Ray Structure Of A Kaposi's Sarcoma Herpesvirus Lana
          Peptide Bound To The Nucleosomal Core
 pdb|1ZLA|H Chain H, X-Ray Structure Of A Kaposi's Sarcoma Herpesvirus Lana
          Peptide Bound To The Nucleosomal Core
          Length = 125

 Score = 71.2 bits (173), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 29/47 (61%), Positives = 39/47 (82%)

Query: 25 RILNQIYPDIRISSKAMGIMNSFINDIFEKLAWEASRLARYKKKPSI 71
          ++L Q++PD  ISSKAM IMNSF+ND+FE++A EASRLA Y K+ +I
Sbjct: 43 KVLKQVHPDTGISSKAMSIMNSFVNDVFERIAGEASRLAHYNKRSTI 89


>pdb|1P34|D Chain D, Crystallographic Studies Of Nucleosome Core Particles
          Containing Histone 'sin' Mutants
 pdb|1P34|H Chain H, Crystallographic Studies Of Nucleosome Core Particles
          Containing Histone 'sin' Mutants
 pdb|1P3A|D Chain D, Crystallographic Studies Of Nucleosome Core Particles
          Containing Histone 'sin' Mutants
 pdb|1P3A|H Chain H, Crystallographic Studies Of Nucleosome Core Particles
          Containing Histone 'sin' Mutants
 pdb|1P3B|D Chain D, Crystallographic Studies Of Nucleosome Core Particles
          Containing Histone 'sin' Mutants
 pdb|1P3B|H Chain H, Crystallographic Studies Of Nucleosome Core Particles
          Containing Histone 'sin' Mutants
 pdb|1P3F|D Chain D, Crystallographic Studies Of Nucleosome Core Particles
          Containing Histone 'sin' Mutants
 pdb|1P3F|H Chain H, Crystallographic Studies Of Nucleosome Core Particles
          Containing Histone 'sin' Mutants
 pdb|1P3G|D Chain D, Crystallographic Studies Of Nucleosome Core Particles
          Containing Histone 'sin' Mutants
 pdb|1P3G|H Chain H, Crystallographic Studies Of Nucleosome Core Particles
          Containing Histone 'sin' Mutants
 pdb|1P3I|D Chain D, Crystallographic Studies Of Nucleosome Core Particles
          Containing Histone 'sin' Mutants
 pdb|1P3I|H Chain H, Crystallographic Studies Of Nucleosome Core Particles
          Containing Histone 'sin' Mutants
 pdb|1P3K|D Chain D, Crystallographic Studies Of Nucleosome Core Particles
          Containing Histone 'sin' Mutants
 pdb|1P3K|H Chain H, Crystallographic Studies Of Nucleosome Core Particles
          Containing Histone 'sin' Mutants
 pdb|1P3L|D Chain D, Crystallographic Studies Of Nucleosome Core Particles
          Containing Histone 'sin' Mutants
 pdb|1P3L|H Chain H, Crystallographic Studies Of Nucleosome Core Particles
          Containing Histone 'sin' Mutants
 pdb|1P3M|D Chain D, Crystallographic Studies Of Nucleosome Core Particles
          Containing Histone 'sin' Mutants
 pdb|1P3M|H Chain H, Crystallographic Studies Of Nucleosome Core Particles
          Containing Histone 'sin' Mutants
 pdb|1P3O|D Chain D, Crystallographic Studies Of Nucleosome Core Particles
          Containing Histone 'sin' Mutants
 pdb|1P3O|H Chain H, Crystallographic Studies Of Nucleosome Core Particles
          Containing Histone 'sin' Mutants
 pdb|1P3P|D Chain D, Crystallographic Studies Of Nucleosome Core Particles
          Containing Histone 'sin' Mutants
 pdb|1P3P|H Chain H, Crystallographic Studies Of Nucleosome Core Particles
          Containing Histone 'sin' Mutants
          Length = 125

 Score = 70.9 bits (172), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 29/47 (61%), Positives = 39/47 (82%)

Query: 25 RILNQIYPDIRISSKAMGIMNSFINDIFEKLAWEASRLARYKKKPSI 71
          ++L Q++PD  ISSKAM IMNSF+ND+FE++A EASRLA Y K+ +I
Sbjct: 43 KVLKQVHPDTGISSKAMSIMNSFVNDVFERIAGEASRLAHYNKRSTI 89


>pdb|1KX3|D Chain D, X-Ray Structure Of The Nucleosome Core Particle, Ncp146,
          At 2.0 A Resolution
 pdb|1KX3|H Chain H, X-Ray Structure Of The Nucleosome Core Particle, Ncp146,
          At 2.0 A Resolution
 pdb|1KX4|D Chain D, X-Ray Structure Of The Nucleosome Core Particle,
          Ncp146b, At 2.6 A Resolution
 pdb|1KX4|H Chain H, X-Ray Structure Of The Nucleosome Core Particle,
          Ncp146b, At 2.6 A Resolution
 pdb|1KX5|D Chain D, X-ray Structure Of The Nucleosome Core Particle, Ncp147,
          At 1.9 A Resolution
 pdb|1KX5|H Chain H, X-ray Structure Of The Nucleosome Core Particle, Ncp147,
          At 1.9 A Resolution
 pdb|1M18|D Chain D, Ligand Binding Alters The Structure And Dynamics Of
          Nucleosomal Dna
 pdb|1M18|H Chain H, Ligand Binding Alters The Structure And Dynamics Of
          Nucleosomal Dna
 pdb|1M19|D Chain D, Ligand Binding Alters The Structure And Dynamics Of
          Nucleosomal Dna
 pdb|1M19|H Chain H, Ligand Binding Alters The Structure And Dynamics Of
          Nucleosomal Dna
 pdb|1M1A|D Chain D, Ligand Binding Alters The Structure And Dynamics Of
          Nucleosomal Dna
 pdb|1M1A|H Chain H, Ligand Binding Alters The Structure And Dynamics Of
          Nucleosomal Dna
 pdb|1ZBB|D Chain D, Structure Of The 4_601_167 Tetranucleosome
 pdb|1ZBB|H Chain H, Structure Of The 4_601_167 Tetranucleosome
 pdb|1ZBB|DD Chain d, Structure Of The 4_601_167 Tetranucleosome
 pdb|1ZBB|HH Chain h, Structure Of The 4_601_167 Tetranucleosome
 pdb|2FJ7|D Chain D, Crystal Structure Of Nucleosome Core Particle Containing
          A Poly (Da.Dt) Sequence Element
 pdb|2FJ7|H Chain H, Crystal Structure Of Nucleosome Core Particle Containing
          A Poly (Da.Dt) Sequence Element
 pdb|2NZD|D Chain D, Nucleosome Core Particle Containing 145 Bp Of Dna
 pdb|2NZD|H Chain H, Nucleosome Core Particle Containing 145 Bp Of Dna
 pdb|3B6F|D Chain D, Nucleosome Core Particle Treated With Cisplatin
 pdb|3B6F|H Chain H, Nucleosome Core Particle Treated With Cisplatin
 pdb|3B6G|D Chain D, Nucleosome Core Particle Treated With Oxaliplatin
 pdb|3B6G|H Chain H, Nucleosome Core Particle Treated With Oxaliplatin
 pdb|3KUY|D Chain D, Dna Stretching In The Nucleosome Facilitates Alkylation
          By An Intercalating Antitumor Agent
 pdb|3KUY|H Chain H, Dna Stretching In The Nucleosome Facilitates Alkylation
          By An Intercalating Antitumor Agent
 pdb|3LEL|D Chain D, Structural Insight Into The Sequence-Dependence Of
          Nucleosom Positioning
 pdb|3LEL|H Chain H, Structural Insight Into The Sequence-Dependence Of
          Nucleosom Positioning
 pdb|3LEL|N Chain N, Structural Insight Into The Sequence-Dependence Of
          Nucleosom Positioning
 pdb|3LEL|R Chain R, Structural Insight Into The Sequence-Dependence Of
          Nucleosom Positioning
 pdb|3MGP|D Chain D, Binding Of Cobalt Ions To The Nucleosome Core Particle
 pdb|3MGP|H Chain H, Binding Of Cobalt Ions To The Nucleosome Core Particle
 pdb|3MGQ|D Chain D, Binding Of Nickel Ions To The Nucleosome Core Particle
 pdb|3MGQ|H Chain H, Binding Of Nickel Ions To The Nucleosome Core Particle
 pdb|3MGR|D Chain D, Binding Of Rubidium Ions To The Nucleosome Core Particle
 pdb|3MGR|H Chain H, Binding Of Rubidium Ions To The Nucleosome Core Particle
 pdb|3MGS|D Chain D, Binding Of Cesium Ions To The Nucleosome Core Particle
 pdb|3MGS|H Chain H, Binding Of Cesium Ions To The Nucleosome Core Particle
 pdb|3LZ0|D Chain D, Crystal Structure Of Nucleosome Core Particle Composed
          Of The Widom 601 Dna Sequence (Orientation 1)
 pdb|3LZ0|H Chain H, Crystal Structure Of Nucleosome Core Particle Composed
          Of The Widom 601 Dna Sequence (Orientation 1)
 pdb|3LZ1|D Chain D, Crystal Structure Of Nucleosome Core Particle Composed
          Of The Widom 601 Dna Sequence (Orientation 2)
 pdb|3LZ1|H Chain H, Crystal Structure Of Nucleosome Core Particle Composed
          Of The Widom 601 Dna Sequence (Orientation 2)
 pdb|3MNN|D Chain D, A Ruthenium Antitumour Agent Forms Specific Histone
          Protein Adducts In The Nucleosome Core
 pdb|3MNN|H Chain H, A Ruthenium Antitumour Agent Forms Specific Histone
          Protein Adducts In The Nucleosome Core
 pdb|3UT9|D Chain D, Crystal Structure Of Nucleosome Core Particle Assembled
          With A Palindromic Widom '601' Derivative (Ncp-601l)
 pdb|3UT9|H Chain H, Crystal Structure Of Nucleosome Core Particle Assembled
          With A Palindromic Widom '601' Derivative (Ncp-601l)
 pdb|3UTA|D Chain D, Crystal Structure Of Nucleosome Core Particle Assembled
          With An Alpha- Satellite Sequence Containing Two Ttaaa
          Elements (Ncp-Ta2)
 pdb|3UTA|H Chain H, Crystal Structure Of Nucleosome Core Particle Assembled
          With An Alpha- Satellite Sequence Containing Two Ttaaa
          Elements (Ncp-Ta2)
 pdb|3UTB|D Chain D, Crystal Structure Of Nucleosome Core Particle Assembled
          With The 146b Alpha-Satellite Sequence (Ncp146b)
 pdb|3UTB|H Chain H, Crystal Structure Of Nucleosome Core Particle Assembled
          With The 146b Alpha-Satellite Sequence (Ncp146b)
          Length = 125

 Score = 70.9 bits (172), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 29/47 (61%), Positives = 39/47 (82%)

Query: 25 RILNQIYPDIRISSKAMGIMNSFINDIFEKLAWEASRLARYKKKPSI 71
          ++L Q++PD  ISSKAM IMNSF+ND+FE++A EASRLA Y K+ +I
Sbjct: 43 KVLKQVHPDTGISSKAMSIMNSFVNDVFERIAGEASRLAHYNKRSTI 89


>pdb|1F66|D Chain D, 2.6 A Crystal Structure Of A Nucleosome Core Particle
          Containing The Variant Histone H2a.Z
 pdb|1F66|H Chain H, 2.6 A Crystal Structure Of A Nucleosome Core Particle
          Containing The Variant Histone H2a.Z
          Length = 126

 Score = 70.9 bits (172), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 29/47 (61%), Positives = 39/47 (82%)

Query: 25 RILNQIYPDIRISSKAMGIMNSFINDIFEKLAWEASRLARYKKKPSI 71
          ++L Q++PD  ISSKAM IMNSF+ND+FE++A EASRLA Y K+ +I
Sbjct: 44 KVLKQVHPDTGISSKAMSIMNSFVNDVFERIAGEASRLAHYNKRSTI 90


>pdb|1AOI|D Chain D, Complex Between Nucleosome Core Particle (H3,H4,H2a,H2b)
          And 146 Bp Long Dna Fragment
 pdb|1AOI|H Chain H, Complex Between Nucleosome Core Particle (H3,H4,H2a,H2b)
          And 146 Bp Long Dna Fragment
          Length = 99

 Score = 70.9 bits (172), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 29/47 (61%), Positives = 39/47 (82%)

Query: 25 RILNQIYPDIRISSKAMGIMNSFINDIFEKLAWEASRLARYKKKPSI 71
          ++L Q++PD  ISSKAM IMNSF+ND+FE++A EASRLA Y K+ +I
Sbjct: 17 KVLKQVHPDTGISSKAMSIMNSFVNDVFERIAGEASRLAHYNKRSTI 63


>pdb|3KWQ|D Chain D, Structural Characterization Of H3k56q Nucleosomes And
          Nucleo Arrays
 pdb|3KWQ|H Chain H, Structural Characterization Of H3k56q Nucleosomes And
          Nucleo Arrays
          Length = 93

 Score = 70.5 bits (171), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 29/47 (61%), Positives = 39/47 (82%)

Query: 25 RILNQIYPDIRISSKAMGIMNSFINDIFEKLAWEASRLARYKKKPSI 71
          ++L Q++PD  ISSKAM IMNSF+ND+FE++A EASRLA Y K+ +I
Sbjct: 11 KVLKQVHPDTGISSKAMSIMNSFVNDVFERIAGEASRLAHYNKRSTI 57


>pdb|2PYO|D Chain D, Drosophila Nucleosome Core
 pdb|2PYO|H Chain H, Drosophila Nucleosome Core
          Length = 122

 Score = 70.5 bits (171), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 30/47 (63%), Positives = 39/47 (82%)

Query: 25 RILNQIYPDIRISSKAMGIMNSFINDIFEKLAWEASRLARYKKKPSI 71
          ++L Q++PD  ISSKAM IMNSF+NDIFE++A EASRLA Y K+ +I
Sbjct: 40 KVLKQVHPDTGISSKAMSIMNSFVNDIFERIAAEASRLAHYNKRSTI 86


>pdb|2NQB|D Chain D, Drosophila Nucleosome Structure
 pdb|2NQB|H Chain H, Drosophila Nucleosome Structure
          Length = 123

 Score = 69.7 bits (169), Expect = 4e-13,   Method: Compositional matrix adjust.
 Identities = 30/46 (65%), Positives = 38/46 (82%)

Query: 26 ILNQIYPDIRISSKAMGIMNSFINDIFEKLAWEASRLARYKKKPSI 71
          +L Q++PD  ISSKAM IMNSF+NDIFE++A EASRLA Y K+ +I
Sbjct: 42 VLKQVHPDTGISSKAMSIMNSFVNDIFERIAAEASRLAHYNKRSTI 87


>pdb|3AN2|D Chain D, The Structure Of The Centromeric Nucleosome Containing
          Cenp-A
 pdb|3AN2|H Chain H, The Structure Of The Centromeric Nucleosome Containing
          Cenp-A
          Length = 129

 Score = 69.3 bits (168), Expect = 6e-13,   Method: Compositional matrix adjust.
 Identities = 29/47 (61%), Positives = 38/47 (80%)

Query: 25 RILNQIYPDIRISSKAMGIMNSFINDIFEKLAWEASRLARYKKKPSI 71
          ++L Q++PD  ISSKA GI NSF+NDIFE++A EASRLA Y K+ +I
Sbjct: 47 KVLKQVHPDTGISSKAXGIXNSFVNDIFERIAGEASRLAHYNKRSTI 93


>pdb|1HIO|B Chain B, Histone Octamer (Chicken), Chromosomal Protein, Alpha
          Carbons Only
          Length = 90

 Score = 68.2 bits (165), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 29/47 (61%), Positives = 38/47 (80%)

Query: 25 RILNQIYPDIRISSKAMGIMNSFINDIFEKLAWEASRLARYKKKPSI 71
          ++L Q++PD  ISSKAMG MNSF+NDIFE++A  ASRLA Y K+ +I
Sbjct: 8  KVLKQVHPDTGISSKAMGSMNSFVNDIFERIAGLASRLAHYNKRSTI 54


>pdb|1ID3|D Chain D, Crystal Structure Of The Yeast Nucleosome Core Particle
          Reveals Fundamental Differences In Inter-Nucleosome
          Interactions
 pdb|1ID3|H Chain H, Crystal Structure Of The Yeast Nucleosome Core Particle
          Reveals Fundamental Differences In Inter-Nucleosome
          Interactions
          Length = 130

 Score = 65.1 bits (157), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 27/47 (57%), Positives = 37/47 (78%)

Query: 25 RILNQIYPDIRISSKAMGIMNSFINDIFEKLAWEASRLARYKKKPSI 71
          ++L Q +PD  IS K+M I+NSF+NDIFE++A EAS+LA Y KK +I
Sbjct: 46 KVLKQTHPDTGISQKSMSILNSFVNDIFERIATEASKLAAYNKKSTI 92


>pdb|2JSS|A Chain A, Nmr Structure Of Chaperone Chz1 Complexed With Histone
          H2a.Z-H2b
          Length = 192

 Score = 63.5 bits (153), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 27/47 (57%), Positives = 37/47 (78%)

Query: 25 RILNQIYPDIRISSKAMGIMNSFINDIFEKLAWEASRLARYKKKPSI 71
          ++L Q +PD  IS K+M I+NSF+NDIFE++A EAS+LA Y KK +I
Sbjct: 11 KVLKQTHPDTGISQKSMSILNSFVNDIFERIATEASKLAAYNKKSTI 57


>pdb|2DDU|A Chain A, Crystal Structure Of The Third Repeat Domain Of Reelin
          Length = 387

 Score = 28.1 bits (61), Expect = 1.3,   Method: Composition-based stats.
 Identities = 16/34 (47%), Positives = 19/34 (55%), Gaps = 2/34 (5%)

Query: 10  VGKKSQRKTPLATRKRILNQIYPDIRISSKAMGI 43
           +GK+  R  PL TR   L Q Y  I+I SK  GI
Sbjct: 270 LGKREARTVPLDTRNIRLVQFY--IQIGSKTSGI 301


>pdb|1G5G|A Chain A, Fragment Of Fusion Protein From Newcastle Disease Virus
 pdb|1G5G|B Chain B, Fragment Of Fusion Protein From Newcastle Disease Virus
 pdb|1G5G|C Chain C, Fragment Of Fusion Protein From Newcastle Disease Virus
 pdb|1G5G|D Chain D, Fragment Of Fusion Protein From Newcastle Disease Virus
 pdb|1G5G|E Chain E, Fragment Of Fusion Protein From Newcastle Disease Virus
 pdb|1G5G|F Chain F, Fragment Of Fusion Protein From Newcastle Disease Virus
          Length = 481

 Score = 26.6 bits (57), Expect = 4.0,   Method: Composition-based stats.
 Identities = 15/57 (26%), Positives = 26/57 (45%)

Query: 2   ALAEKNPKVGKKSQRKTPLATRKRILNQIYPDIRISSKAMGIMNSFINDIFEKLAWE 58
           AL + N       + K  +A     ++++   +   + A+G M  F+ND F K A E
Sbjct: 109 ALIQANQNAANILRLKESIAATNEAVHEVTNGLSQLAVAVGKMQQFVNDQFNKTAQE 165


  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
   0.318    0.131    0.368 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 1,858,923
Number of Sequences: 62578
Number of extensions: 49936
Number of successful extensions: 103
Number of sequences better than 100.0: 25
Number of HSP's better than 100.0 without gapping: 24
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 79
Number of HSP's gapped (non-prelim): 25
length of query: 72
length of database: 14,973,337
effective HSP length: 42
effective length of query: 30
effective length of database: 12,345,061
effective search space: 370351830
effective search space used: 370351830
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: 45 (21.9 bits)