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= psy12659
(1051 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2PYO|C Chain C, Drosophila Nucleosome Core
pdb|2PYO|G Chain G, Drosophila Nucleosome Core
Length = 120
Score = 62.8 bits (151), Expect = 1e-09, Method: Composition-based stats.
Identities = 30/46 (65%), Positives = 38/46 (82%)
Query: 892 HKKYRITPRYLLLAIKNDVELSQLLSDVTIAQGGVMPNIQSMKFDK 937
+KK RI PR+L LAI+ND EL++LLS VTIAQGGV+PNIQ++ K
Sbjct: 72 NKKTRIIPRHLQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPK 117
>pdb|2NQB|C Chain C, Drosophila Nucleosome Structure
pdb|2NQB|G Chain G, Drosophila Nucleosome Structure
Length = 123
Score = 62.8 bits (151), Expect = 1e-09, Method: Composition-based stats.
Identities = 30/46 (65%), Positives = 38/46 (82%)
Query: 892 HKKYRITPRYLLLAIKNDVELSQLLSDVTIAQGGVMPNIQSMKFDK 937
+KK RI PR+L LAI+ND EL++LLS VTIAQGGV+PNIQ++ K
Sbjct: 72 NKKTRIIPRHLQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPK 117
>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 = 61.6 bits (148), Expect = 2e-09, Method: Composition-based stats.
Identities = 29/46 (63%), Positives = 37/46 (80%)
Query: 892 HKKYRITPRYLLLAIKNDVELSQLLSDVTIAQGGVMPNIQSMKFDK 937
+KK RI PR+L LAI+ND EL++LL VTIAQGGV+PNIQ++ K
Sbjct: 74 NKKTRIIPRHLQLAIRNDEELNKLLGKVTIAQGGVLPNIQAVLLPK 119
>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 = 61.6 bits (148), Expect = 2e-09, Method: Composition-based stats.
Identities = 29/50 (58%), Positives = 39/50 (78%)
Query: 892 HKKYRITPRYLLLAIKNDVELSQLLSDVTIAQGGVMPNIQSMKFDKTLKT 941
+KK RI PR+L LA++ND EL++LL VTIAQGGV+PNIQS+ K ++
Sbjct: 73 NKKTRIIPRHLQLAVRNDEELNKLLGRVTIAQGGVLPNIQSVLLPKKTES 122
>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 = 61.6 bits (148), Expect = 2e-09, Method: Composition-based stats.
Identities = 29/50 (58%), Positives = 39/50 (78%)
Query: 892 HKKYRITPRYLLLAIKNDVELSQLLSDVTIAQGGVMPNIQSMKFDKTLKT 941
+KK RI PR+L LA++ND EL++LL VTIAQGGV+PNIQS+ K ++
Sbjct: 73 NKKTRIIPRHLQLAVRNDEELNKLLGRVTIAQGGVLPNIQSVLLPKKTES 122
>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 = 61.6 bits (148), Expect = 2e-09, Method: Composition-based stats.
Identities = 29/46 (63%), Positives = 37/46 (80%)
Query: 892 HKKYRITPRYLLLAIKNDVELSQLLSDVTIAQGGVMPNIQSMKFDK 937
+KK RI PR+L LAI+ND EL++LL VTIAQGGV+PNIQ++ K
Sbjct: 73 NKKTRIIPRHLQLAIRNDEELNKLLGKVTIAQGGVLPNIQAVLLPK 118
>pdb|2F8N|K Chain K, 2.9 Angstrom X-Ray Structure Of Hybrid Macroh2a
Nucleosomes
Length = 149
Score = 61.6 bits (148), Expect = 2e-09, Method: Composition-based stats.
Identities = 29/50 (58%), Positives = 39/50 (78%)
Query: 892 HKKYRITPRYLLLAIKNDVELSQLLSDVTIAQGGVMPNIQSMKFDKTLKT 941
+KK RI PR+L LAI+ND EL++LL VTIAQGGV+PNIQ++ K ++
Sbjct: 93 NKKTRIIPRHLQLAIRNDEELNKLLGRVTIAQGGVLPNIQAVLLPKKTES 142
>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 = 61.6 bits (148), Expect = 2e-09, Method: Composition-based stats.
Identities = 29/46 (63%), Positives = 37/46 (80%)
Query: 892 HKKYRITPRYLLLAIKNDVELSQLLSDVTIAQGGVMPNIQSMKFDK 937
+KK RI PR+L LA++ND EL++LL VTIAQGGV+PNIQS+ K
Sbjct: 73 NKKTRIIPRHLQLAVRNDEELNKLLGRVTIAQGGVLPNIQSVLLPK 118
>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 = 61.6 bits (148), Expect = 2e-09, Method: Composition-based stats.
Identities = 29/50 (58%), Positives = 39/50 (78%)
Query: 892 HKKYRITPRYLLLAIKNDVELSQLLSDVTIAQGGVMPNIQSMKFDKTLKT 941
+KK RI PR+L LAI+ND EL++LL VTIAQGGV+PNIQ++ K ++
Sbjct: 77 NKKTRIIPRHLQLAIRNDEELNKLLGRVTIAQGGVLPNIQAVLLPKKTES 126
>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 = 61.2 bits (147), Expect = 3e-09, Method: Composition-based stats.
Identities = 29/46 (63%), Positives = 37/46 (80%)
Query: 892 HKKYRITPRYLLLAIKNDVELSQLLSDVTIAQGGVMPNIQSMKFDK 937
+KK RI PR+L LA++ND EL++LL VTIAQGGV+PNIQS+ K
Sbjct: 70 NKKTRIIPRHLQLAVRNDEELNKLLGRVTIAQGGVLPNIQSVLLPK 115
>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 = 61.2 bits (147), Expect = 3e-09, Method: Composition-based stats.
Identities = 29/50 (58%), Positives = 39/50 (78%)
Query: 892 HKKYRITPRYLLLAIKNDVELSQLLSDVTIAQGGVMPNIQSMKFDKTLKT 941
+KK RI PR+L LA++ND EL++LL VTIAQGGV+PNIQS+ K ++
Sbjct: 73 NKKTRIIPRHLQLAVRNDEELNKLLGRVTIAQGGVLPNIQSVLLPKKTES 122
>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 = 61.2 bits (147), Expect = 3e-09, Method: Composition-based stats.
Identities = 29/50 (58%), Positives = 39/50 (78%)
Query: 892 HKKYRITPRYLLLAIKNDVELSQLLSDVTIAQGGVMPNIQSMKFDKTLKT 941
+KK RI PR+L LA++ND EL++LL VTIAQGGV+PNIQS+ K ++
Sbjct: 73 NKKTRIIPRHLQLAVRNDEELNKLLGRVTIAQGGVLPNIQSVLLPKKTES 122
>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 = 61.2 bits (147), Expect = 3e-09, Method: Composition-based stats.
Identities = 29/50 (58%), Positives = 39/50 (78%)
Query: 892 HKKYRITPRYLLLAIKNDVELSQLLSDVTIAQGGVMPNIQSMKFDKTLKT 941
+KK RI PR+L LAI+ND EL++LL VTIAQGGV+PNIQ++ K ++
Sbjct: 74 NKKTRIIPRHLQLAIRNDEELNKLLGRVTIAQGGVLPNIQAVLLPKKTES 123
>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 = 61.2 bits (147), Expect = 3e-09, Method: Composition-based stats.
Identities = 28/42 (66%), Positives = 36/42 (85%)
Query: 892 HKKYRITPRYLLLAIKNDVELSQLLSDVTIAQGGVMPNIQSM 933
+KK RI PR+L LA++ND EL++LL VTIAQGGV+PNIQS+
Sbjct: 73 NKKTRIIPRHLQLAVRNDEELNKLLGRVTIAQGGVLPNIQSV 114
>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 = 61.2 bits (147), Expect = 3e-09, Method: Composition-based stats.
Identities = 29/46 (63%), Positives = 37/46 (80%)
Query: 892 HKKYRITPRYLLLAIKNDVELSQLLSDVTIAQGGVMPNIQSMKFDK 937
+KK RI PR+L LA++ND EL++LL VTIAQGGV+PNIQS+ K
Sbjct: 60 NKKTRIIPRHLQLAVRNDEELNKLLGRVTIAQGGVLPNIQSVLLPK 105
>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 = 58.5 bits (140), Expect = 2e-08, Method: Composition-based stats.
Identities = 26/40 (65%), Positives = 33/40 (82%)
Query: 892 HKKYRITPRYLLLAIKNDVELSQLLSDVTIAQGGVMPNIQ 931
+KK R+TPR++LLA+ ND EL+QLL VTIA GGV+PNI
Sbjct: 71 NKKGRVTPRHILLAVANDEELNQLLKGVTIASGGVLPNIH 110
>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 = 58.5 bits (140), Expect = 2e-08, Method: Composition-based stats.
Identities = 27/40 (67%), Positives = 34/40 (85%)
Query: 892 HKKYRITPRYLLLAIKNDVELSQLLSDVTIAQGGVMPNIQ 931
+KK RI PR+L LAI+ND EL++LL +VTIAQGGV+PNI
Sbjct: 74 NKKTRIIPRHLQLAIRNDDELNKLLGNVTIAQGGVLPNIH 113
>pdb|1HIO|A Chain A, Histone Octamer (Chicken), Chromosomal Protein, Alpha
Carbons Only
Length = 95
Score = 53.9 bits (128), Expect = 4e-07, Method: Composition-based stats.
Identities = 25/37 (67%), Positives = 31/37 (83%)
Query: 892 HKKYRITPRYLLLAIKNDVELSQLLSDVTIAQGGVMP 928
+KK RI PR+L LAI+ND EL++LL VTIAQGGV+P
Sbjct: 59 NKKTRIIPRHLQLAIRNDEELNKLLGKVTIAQGGVLP 95
>pdb|2WJV|A Chain A, Crystal Structure Of The Complex Between Human Nonsense
Mediated Decay Factors Upf1 And Upf2
pdb|2WJV|B Chain B, Crystal Structure Of The Complex Between Human Nonsense
Mediated Decay Factors Upf1 And Upf2
pdb|2WJY|A Chain A, Crystal Structure Of The Complex Between Human Nonsense
Mediated Decay Factors Upf1 And Upf2 Orthorhombic Form
Length = 800
Score = 47.4 bits (111), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 37/126 (29%), Positives = 71/126 (56%), Gaps = 15/126 (11%)
Query: 181 TQIEAIRAGMQPGLTLVVGPPGTGKTDVAVQIISNLYH--NFPHQRTLIVTHSNQALNQL 238
+Q+ A++ +Q L+L+ GPPGTGKT + I+ +L N P L+ SN A++QL
Sbjct: 360 SQVYAVKTVLQRPLSLIQGPPGTGKTVTSATIVYHLARQGNGP---VLVCAPSNIAVDQL 416
Query: 239 FEKIISLDVDERHLLRL-GHGEEALETEKDF-SRYGRVNYVLAKRLDLLQEVERLQKSLD 296
EKI + ++RL EA+++ F + + ++ + +D + E+++LQ+ D
Sbjct: 417 TEKIHQTGL---KVVRLCAKSREAIDSPVSFLALHNQI-----RNMDSMPELQKLQQLKD 468
Query: 297 VSGDVA 302
+G+++
Sbjct: 469 ETGELS 474
Score = 43.1 bits (100), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 26/67 (38%), Positives = 39/67 (58%), Gaps = 5/67 (7%)
Query: 816 LTFHEIEAIRAGMQPGLTLVVGPPGTGKTDVAVQIISNLYH--NFPHQRTLIVTHSNQAL 873
L ++ A++ +Q L+L+ GPPGTGKT + I+ +L N P L+ SN A+
Sbjct: 357 LNHSQVYAVKTVLQRPLSLIQGPPGTGKTVTSATIVYHLARQGNGP---VLVCAPSNIAV 413
Query: 874 NQLFEKI 880
+QL EKI
Sbjct: 414 DQLTEKI 420
>pdb|2GJK|A Chain A, Structural And Functional Insights Into The Human Upf1
Helicase Core
pdb|2GK6|A Chain A, Structural And Functional Insights Into The Human Upf1
Helicase Core
pdb|2GK6|B Chain B, Structural And Functional Insights Into The Human Upf1
Helicase Core
pdb|2GK7|A Chain A, Structural And Functional Insights Into The Human Upf1
Helicase Core
Length = 624
Score = 47.0 bits (110), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 37/126 (29%), Positives = 71/126 (56%), Gaps = 15/126 (11%)
Query: 181 TQIEAIRAGMQPGLTLVVGPPGTGKTDVAVQIISNLYH--NFPHQRTLIVTHSNQALNQL 238
+Q+ A++ +Q L+L+ GPPGTGKT + I+ +L N P L+ SN A++QL
Sbjct: 184 SQVYAVKTVLQRPLSLIQGPPGTGKTVTSATIVYHLARQGNGP---VLVCAPSNIAVDQL 240
Query: 239 FEKIISLDVDERHLLRL-GHGEEALETEKDF-SRYGRVNYVLAKRLDLLQEVERLQKSLD 296
EKI + ++RL EA+++ F + + ++ + +D + E+++LQ+ D
Sbjct: 241 TEKIHQTGL---KVVRLCAKSREAIDSPVSFLALHNQI-----RNMDSMPELQKLQQLKD 292
Query: 297 VSGDVA 302
+G+++
Sbjct: 293 ETGELS 298
Score = 43.1 bits (100), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 26/67 (38%), Positives = 39/67 (58%), Gaps = 5/67 (7%)
Query: 816 LTFHEIEAIRAGMQPGLTLVVGPPGTGKTDVAVQIISNLYH--NFPHQRTLIVTHSNQAL 873
L ++ A++ +Q L+L+ GPPGTGKT + I+ +L N P L+ SN A+
Sbjct: 181 LNHSQVYAVKTVLQRPLSLIQGPPGTGKTVTSATIVYHLARQGNGP---VLVCAPSNIAV 237
Query: 874 NQLFEKI 880
+QL EKI
Sbjct: 238 DQLTEKI 244
>pdb|2XZO|A Chain A, Upf1 Helicase - Rna Complex
pdb|2XZP|A Chain A, Upf1 Helicase
Length = 623
Score = 47.0 bits (110), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 37/126 (29%), Positives = 71/126 (56%), Gaps = 15/126 (11%)
Query: 181 TQIEAIRAGMQPGLTLVVGPPGTGKTDVAVQIISNLYH--NFPHQRTLIVTHSNQALNQL 238
+Q+ A++ +Q L+L+ GPPGTGKT + I+ +L N P L+ SN A++QL
Sbjct: 183 SQVYAVKTVLQRPLSLIQGPPGTGKTVTSATIVYHLARQGNGP---VLVCAPSNIAVDQL 239
Query: 239 FEKIISLDVDERHLLRL-GHGEEALETEKDF-SRYGRVNYVLAKRLDLLQEVERLQKSLD 296
EKI + ++RL EA+++ F + + ++ + +D + E+++LQ+ D
Sbjct: 240 TEKIHQTGL---KVVRLCAKSREAIDSPVSFLALHNQI-----RNMDSMPELQKLQQLKD 291
Query: 297 VSGDVA 302
+G+++
Sbjct: 292 ETGELS 297
Score = 43.1 bits (100), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 26/67 (38%), Positives = 39/67 (58%), Gaps = 5/67 (7%)
Query: 816 LTFHEIEAIRAGMQPGLTLVVGPPGTGKTDVAVQIISNLYH--NFPHQRTLIVTHSNQAL 873
L ++ A++ +Q L+L+ GPPGTGKT + I+ +L N P L+ SN A+
Sbjct: 180 LNHSQVYAVKTVLQRPLSLIQGPPGTGKTVTSATIVYHLARQGNGP---VLVCAPSNIAV 236
Query: 874 NQLFEKI 880
+QL EKI
Sbjct: 237 DQLTEKI 243
>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 = 46.2 bits (108), Expect = 9e-05, Method: Composition-based stats.
Identities = 22/33 (66%), Positives = 27/33 (81%)
Query: 892 HKKYRITPRYLLLAIKNDVELSQLLSDVTIAQG 924
+KK RI PR+L LAI+ND EL++LL VTIAQG
Sbjct: 59 NKKTRIIPRHLQLAIRNDEELNKLLGKVTIAQG 91
>pdb|4B3F|X Chain X, Crystal Structure Of 1ghmbp2 Helicase
Length = 646
Score = 45.1 bits (105), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 42/123 (34%), Positives = 62/123 (50%), Gaps = 10/123 (8%)
Query: 174 NTIPFTPTQIEAIRAGMQPGLTLVVGPPGTGKTDVAVQIISNLYHNFPHQRTLIVTHSNQ 233
NT T + + A Q L ++ GPPGTGKT V+II L + L SN
Sbjct: 187 NTCLDTSQKEAVLFALSQKELAIIHGPPGTGKTTTVVEII--LQAVKQGLKVLCCAPSNI 244
Query: 234 ALNQLFEKIISLDVDERHLLRLGHGEEALETEKDFSRYGRVNYVLAKRLDLLQEVERLQK 293
A++ L E+ L + ++ +LRLGH LE+ + S ++ VLA R D Q V ++K
Sbjct: 245 AVDNLVER---LALCKQRILRLGHPARLLESIQQHS----LDAVLA-RSDSAQIVADIRK 296
Query: 294 SLD 296
+D
Sbjct: 297 DID 299
Score = 33.9 bits (76), Expect = 0.52, Method: Compositional matrix adjust.
Identities = 20/52 (38%), Positives = 28/52 (53%), Gaps = 2/52 (3%)
Query: 829 QPGLTLVVGPPGTGKTDVAVQIISNLYHNFPHQRTLIVTHSNQALNQLFEKI 880
Q L ++ GPPGTGKT V+II L + L SN A++ L E++
Sbjct: 204 QKELAIIHGPPGTGKTTTVVEII--LQAVKQGLKVLCCAPSNIAVDNLVERL 253
>pdb|4B3G|A Chain A, Crystal Structure Of Ighmbp2 Helicase In Complex With Rna
pdb|4B3G|B Chain B, Crystal Structure Of Ighmbp2 Helicase In Complex With Rna
Length = 646
Score = 45.1 bits (105), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 41/117 (35%), Positives = 62/117 (52%), Gaps = 11/117 (9%)
Query: 181 TQIEAIRAGM-QPGLTLVVGPPGTGKTDVAVQIISNLYHNFPHQRTLIVTHSNQALNQLF 239
+Q EA+ + Q L ++ GPPGTGKT V+II L + L SN A++ L
Sbjct: 193 SQKEAVLFALSQKELAIIHGPPGTGKTTTVVEII--LQAVKQGLKVLCCAPSNIAVDNLV 250
Query: 240 EKIISLDVDERHLLRLGHGEEALETEKDFSRYGRVNYVLAKRLDLLQEVERLQKSLD 296
E+ L + ++ +LRLGH LE+ + S ++ VLA R D Q V ++K +D
Sbjct: 251 ER---LALCKQRILRLGHPARLLESIQQHS----LDAVLA-RSDSAQIVADIRKDID 299
Score = 33.9 bits (76), Expect = 0.52, Method: Compositional matrix adjust.
Identities = 20/52 (38%), Positives = 28/52 (53%), Gaps = 2/52 (3%)
Query: 829 QPGLTLVVGPPGTGKTDVAVQIISNLYHNFPHQRTLIVTHSNQALNQLFEKI 880
Q L ++ GPPGTGKT V+II L + L SN A++ L E++
Sbjct: 204 QKELAIIHGPPGTGKTTTVVEII--LQAVKQGLKVLCCAPSNIAVDNLVERL 253
>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 = 42.0 bits (97), Expect = 0.002, Method: Composition-based stats.
Identities = 22/39 (56%), Positives = 27/39 (69%), Gaps = 1/39 (2%)
Query: 893 KKYRITPRYLLLAIKNDVELSQLLSDVTIAQGGVMPNIQ 931
K RITPR+L LAI+ D EL L+ TIA GGV+P+I
Sbjct: 78 KVKRITPRHLQLAIRGDEELDSLIK-ATIAGGGVIPHIH 115
>pdb|2JSS|A Chain A, Nmr Structure Of Chaperone Chz1 Complexed With Histone
H2a.Z-H2b
Length = 192
Score = 41.6 bits (96), Expect = 0.002, Method: Composition-based stats.
Identities = 22/38 (57%), Positives = 27/38 (71%), Gaps = 1/38 (2%)
Query: 893 KKYRITPRYLLLAIKNDVELSQLLSDVTIAQGGVMPNI 930
K RITPR+L LAI+ D EL L+ TIA GGV+P+I
Sbjct: 156 KVKRITPRHLQLAIRGDDELDSLIR-ATIASGGVLPHI 192
>pdb|2XZL|A Chain A, Upf1-Rna Complex
Length = 802
Score = 40.8 bits (94), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 26/81 (32%), Positives = 42/81 (51%), Gaps = 5/81 (6%)
Query: 171 PRKNTIP----FTPTQIEAIRAGMQPGLTLVVGPPGTGKTDVAVQIISNLYHNFPHQRTL 226
P++ +IP +Q A+ +Q L+L+ GPPGTGKT + I+ +L R L
Sbjct: 350 PKEFSIPNFAQLNSSQSNAVSHVLQRPLSLIQGPPGTGKTVTSATIVYHL-SKIHKDRIL 408
Query: 227 IVTHSNQALNQLFEKIISLDV 247
+ SN A++ L K+ L +
Sbjct: 409 VCAPSNVAVDHLAAKLRDLGL 429
Score = 39.3 bits (90), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 25/76 (32%), Positives = 40/76 (52%), Gaps = 2/76 (2%)
Query: 811 VPPF-KLTFHEIEAIRAGMQPGLTLVVGPPGTGKTDVAVQIISNLYHNFPHQRTLIVTHS 869
+P F +L + A+ +Q L+L+ GPPGTGKT + I+ +L R L+ S
Sbjct: 355 IPNFAQLNSSQSNAVSHVLQRPLSLIQGPPGTGKTVTSATIVYHL-SKIHKDRILVCAPS 413
Query: 870 NQALNQLFEKIISLDV 885
N A++ L K+ L +
Sbjct: 414 NVAVDHLAAKLRDLGL 429
>pdb|3TMI|A Chain A, Structural Basis For Rna Recognition And Activation Of
Rig-I
Length = 695
Score = 37.0 bits (84), Expect = 0.053, Method: Compositional matrix adjust.
Identities = 28/92 (30%), Positives = 43/92 (46%), Gaps = 5/92 (5%)
Query: 808 TKLVPPFKLTFHEIEAIRAGMQPGLTLVVGPPGTGKTDVAVQIISNLYHNFPH-QRTLIV 866
T L PFK +++E M+ T++ P G GKT V++ I + FP Q+ +V
Sbjct: 5 TNLYSPFKPRNYQLELALPAMKGKNTIICAPTGCGKTFVSLLICEHHLKKFPQGQKGKVV 64
Query: 867 THSNQALNQLFEKIISLDVDERHLLHKKYRIT 898
+NQ +K + ERH YR+T
Sbjct: 65 FFANQIPVYEQQKSVFSKYFERH----GYRVT 92
Score = 33.1 bits (74), Expect = 0.78, Method: Compositional matrix adjust.
Identities = 25/82 (30%), Positives = 38/82 (46%), Gaps = 3/82 (3%)
Query: 177 PFTPT--QIEAIRAGMQPGLTLVVGPPGTGKTDVAVQIISNLYHNFPH-QRTLIVTHSNQ 233
PF P Q+E M+ T++ P G GKT V++ I + FP Q+ +V +NQ
Sbjct: 10 PFKPRNYQLELALPAMKGKNTIICAPTGCGKTFVSLLICEHHLKKFPQGQKGKVVFFANQ 69
Query: 234 ALNQLFEKIISLDVDERHLLRL 255
+K + ERH R+
Sbjct: 70 IPVYEQQKSVFSKYFERHGYRV 91
>pdb|2YKG|A Chain A, Structural Insights Into Rna Recognition By Rig-I
Length = 696
Score = 36.6 bits (83), Expect = 0.083, Method: Compositional matrix adjust.
Identities = 21/65 (32%), Positives = 33/65 (50%), Gaps = 1/65 (1%)
Query: 808 TKLVPPFKLTFHEIEAIRAGMQPGLTLVVGPPGTGKTDVAVQIISNLYHNFPH-QRTLIV 866
T L PFK +++E M+ T++ P G GKT V++ I + FP Q+ +V
Sbjct: 6 TNLYSPFKPRNYQLELALPAMKGKNTIICAPTGCGKTFVSLLICEHHLKKFPQGQKGKVV 65
Query: 867 THSNQ 871
+NQ
Sbjct: 66 FFANQ 70
Score = 33.1 bits (74), Expect = 0.92, Method: Compositional matrix adjust.
Identities = 20/60 (33%), Positives = 30/60 (50%), Gaps = 3/60 (5%)
Query: 177 PFTPT--QIEAIRAGMQPGLTLVVGPPGTGKTDVAVQIISNLYHNFPH-QRTLIVTHSNQ 233
PF P Q+E M+ T++ P G GKT V++ I + FP Q+ +V +NQ
Sbjct: 11 PFKPRNYQLELALPAMKGKNTIICAPTGCGKTFVSLLICEHHLKKFPQGQKGKVVFFANQ 70
>pdb|2C9O|A Chain A, 3d Structure Of The Human Ruvb-Like Helicase Ruvbl1
pdb|2C9O|B Chain B, 3d Structure Of The Human Ruvb-Like Helicase Ruvbl1
pdb|2C9O|C Chain C, 3d Structure Of The Human Ruvb-Like Helicase Ruvbl1
Length = 456
Score = 36.2 bits (82), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 41/146 (28%), Positives = 62/146 (42%), Gaps = 19/146 (13%)
Query: 183 IEAIRAGMQPG-LTLVVGPPGTGKTDVAVQIISNLYHNFP------HQRTLIVTHSNQAL 235
+E I++ G L+ GPPGTGKT +A+ I L P + + L
Sbjct: 53 VELIKSKKMAGRAVLLAGPPGTGKTALALAIAQELGSKVPFCPMVGSEVYSTEIKKTEVL 112
Query: 236 NQLFEKIISLDVDERHLLRLGHGEE--ALETEKDFSRYGR-VNYVL--------AKRLDL 284
+ F + I L + E + G E ETE YG+ +++V+ K+L L
Sbjct: 113 MENFRRAIGLRIKETKEVYEGEVTELTPCETENPMGGYGKTISHVIIGLKTAKGTKQLKL 172
Query: 285 LQEV-ERLQKSLDVSGDVAYTCETAG 309
+ E LQK +GDV Y +G
Sbjct: 173 DPSIFESLQKERVEAGDVIYIEANSG 198
Score = 31.6 bits (70), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 16/40 (40%), Positives = 22/40 (55%), Gaps = 1/40 (2%)
Query: 821 IEAIRAGMQPG-LTLVVGPPGTGKTDVAVQIISNLYHNFP 859
+E I++ G L+ GPPGTGKT +A+ I L P
Sbjct: 53 VELIKSKKMAGRAVLLAGPPGTGKTALALAIAQELGSKVP 92
>pdb|2REC|A Chain A, Reca Hexamer Model, Electron Microscopy
pdb|2REC|B Chain B, Reca Hexamer Model, Electron Microscopy
pdb|2REC|C Chain C, Reca Hexamer Model, Electron Microscopy
pdb|2REC|D Chain D, Reca Hexamer Model, Electron Microscopy
pdb|2REC|E Chain E, Reca Hexamer Model, Electron Microscopy
pdb|2REC|F Chain F, Reca Hexamer Model, Electron Microscopy
Length = 353
Score = 35.8 bits (81), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 21/89 (23%), Positives = 43/89 (48%), Gaps = 3/89 (3%)
Query: 197 VVGPPGTGKTDVAVQIISNLYHNFPHQRTLIVTHSNQALNQLFEKIISLDVDERHLLRLG 256
+ GP +GKT + +Q+I+ +T + AL+ ++ + + +D+D +
Sbjct: 65 IYGPESSGKTTLTLQVIAAAQR---EGKTCAFIDAEHALDPIYARKLGVDIDNLLCSQPD 121
Query: 257 HGEEALETEKDFSRYGRVNYVLAKRLDLL 285
GE+ALE +R G V+ ++ + L
Sbjct: 122 TGEQALEICDALARSGAVDVIVVDSVAAL 150
>pdb|1N03|A Chain A, Model For Active Reca Filament
pdb|1N03|B Chain B, Model For Active Reca Filament
pdb|1N03|C Chain C, Model For Active Reca Filament
pdb|1N03|D Chain D, Model For Active Reca Filament
pdb|1N03|E Chain E, Model For Active Reca Filament
pdb|1N03|F Chain F, Model For Active Reca Filament
pdb|1N03|G Chain G, Model For Active Reca Filament
pdb|1REA|A Chain A, Structure Of The Reca Protein-Adp Complex
pdb|2REB|A Chain A, The Structure Of The E. Coli Reca Protein Monomer And
Polymer
Length = 352
Score = 35.8 bits (81), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 21/89 (23%), Positives = 43/89 (48%), Gaps = 3/89 (3%)
Query: 197 VVGPPGTGKTDVAVQIISNLYHNFPHQRTLIVTHSNQALNQLFEKIISLDVDERHLLRLG 256
+ GP +GKT + +Q+I+ +T + AL+ ++ + + +D+D +
Sbjct: 64 IYGPESSGKTTLTLQVIAAAQR---EGKTCAFIDAEHALDPIYARKLGVDIDNLLCSQPD 120
Query: 257 HGEEALETEKDFSRYGRVNYVLAKRLDLL 285
GE+ALE +R G V+ ++ + L
Sbjct: 121 TGEQALEICDALARSGAVDVIVVDSVAAL 149
>pdb|1U94|A Chain A, Crystal Structure Of E. Coli Reca In A Compressed Helical
Filament Form 2
pdb|1U98|A Chain A, "crystal Structure Of E. Coli Reca In A Compressed Helical
Filament Form3"
pdb|1U99|A Chain A, "crystal Structures Of E. Coli Reca In A Compressed
Helical Filament Form 4"
pdb|1XMS|A Chain A, "e. Coli Reca In Complex With Mnamp-Pnp"
pdb|1XMV|A Chain A, "e. Coli Reca In Complex With Mgadp"
Length = 356
Score = 35.8 bits (81), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 21/89 (23%), Positives = 43/89 (48%), Gaps = 3/89 (3%)
Query: 197 VVGPPGTGKTDVAVQIISNLYHNFPHQRTLIVTHSNQALNQLFEKIISLDVDERHLLRLG 256
+ GP +GKT + +Q+I+ +T + AL+ ++ + + +D+D +
Sbjct: 68 IYGPESSGKTTLTLQVIAAAQR---EGKTCAFIDAEHALDPIYARKLGVDIDNLLCSQPD 124
Query: 257 HGEEALETEKDFSRYGRVNYVLAKRLDLL 285
GE+ALE +R G V+ ++ + L
Sbjct: 125 TGEQALEICDALARSGAVDVIVVDSVAAL 153
>pdb|3CMV|A Chain A, Mechanism Of Homologous Recombination From The Reca-
SsdnaDSDNA STRUCTURES
pdb|3CMV|B Chain B, Mechanism Of Homologous Recombination From The Reca-
SsdnaDSDNA STRUCTURES
pdb|3CMV|C Chain C, Mechanism Of Homologous Recombination From The Reca-
SsdnaDSDNA STRUCTURES
pdb|3CMV|D Chain D, Mechanism Of Homologous Recombination From The Reca-
SsdnaDSDNA STRUCTURES
pdb|3CMV|E Chain E, Mechanism Of Homologous Recombination From The Reca-
SsdnaDSDNA STRUCTURES
pdb|3CMV|F Chain F, Mechanism Of Homologous Recombination From The Reca-
SsdnaDSDNA STRUCTURES
pdb|3CMV|G Chain G, Mechanism Of Homologous Recombination From The Reca-
SsdnaDSDNA STRUCTURES
pdb|3CMV|H Chain H, Mechanism Of Homologous Recombination From The Reca-
SsdnaDSDNA STRUCTURES
Length = 1357
Score = 35.4 bits (80), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 20/82 (24%), Positives = 41/82 (50%), Gaps = 3/82 (3%)
Query: 197 VVGPPGTGKTDVAVQIISNLYHNFPHQRTLIVTHSNQALNQLFEKIISLDVDERHLLRLG 256
+ GP +GKT + +Q+I+ +T + AL+ ++ + + +D+D +
Sbjct: 39 IYGPESSGKTTLTLQVIAAAQR---EGKTCAFIDAEHALDPIYARKLGVDIDNLLCSQPD 95
Query: 257 HGEEALETEKDFSRYGRVNYVL 278
GE+ALE +R G V+ ++
Sbjct: 96 TGEQALEICDALARSGAVDVIV 117
Score = 35.4 bits (80), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 20/82 (24%), Positives = 41/82 (50%), Gaps = 3/82 (3%)
Query: 197 VVGPPGTGKTDVAVQIISNLYHNFPHQRTLIVTHSNQALNQLFEKIISLDVDERHLLRLG 256
+ GP +GKT + +Q+I+ +T + AL+ ++ + + +D+D +
Sbjct: 388 IYGPESSGKTTLTLQVIAAAQR---EGKTCAFIDAEHALDPIYARKLGVDIDNLLCSQPD 444
Query: 257 HGEEALETEKDFSRYGRVNYVL 278
GE+ALE +R G V+ ++
Sbjct: 445 TGEQALEICDALARSGAVDVIV 466
Score = 35.4 bits (80), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 20/82 (24%), Positives = 41/82 (50%), Gaps = 3/82 (3%)
Query: 197 VVGPPGTGKTDVAVQIISNLYHNFPHQRTLIVTHSNQALNQLFEKIISLDVDERHLLRLG 256
+ GP +GKT + +Q+I+ +T + AL+ ++ + + +D+D +
Sbjct: 737 IYGPESSGKTTLTLQVIAAAQR---EGKTCAFIDAEHALDPIYARKLGVDIDNLLCSQPD 793
Query: 257 HGEEALETEKDFSRYGRVNYVL 278
GE+ALE +R G V+ ++
Sbjct: 794 TGEQALEICDALARSGAVDVIV 815
Score = 35.4 bits (80), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 20/82 (24%), Positives = 41/82 (50%), Gaps = 3/82 (3%)
Query: 197 VVGPPGTGKTDVAVQIISNLYHNFPHQRTLIVTHSNQALNQLFEKIISLDVDERHLLRLG 256
+ GP +GKT + +Q+I+ +T + AL+ ++ + + +D+D +
Sbjct: 1087 IYGPESSGKTTLTLQVIAAAQR---EGKTCAFIDAEHALDPIYARKLGVDIDNLLCSQPD 1143
Query: 257 HGEEALETEKDFSRYGRVNYVL 278
GE+ALE +R G V+ ++
Sbjct: 1144 TGEQALEICDALARSGAVDVIV 1165
>pdb|3CMU|A Chain A, Mechanism Of Homologous Recombination From The Reca-
SsdnaDSDNA STRUCTURES
Length = 2050
Score = 35.4 bits (80), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 20/82 (24%), Positives = 41/82 (50%), Gaps = 3/82 (3%)
Query: 197 VVGPPGTGKTDVAVQIISNLYHNFPHQRTLIVTHSNQALNQLFEKIISLDVDERHLLRLG 256
+ GP +GKT + +Q+I+ +T + AL+ ++ + + +D+D +
Sbjct: 39 IYGPESSGKTTLTLQVIAAAQR---EGKTCAFIDAEHALDPIYARKLGVDIDNLLCSQPD 95
Query: 257 HGEEALETEKDFSRYGRVNYVL 278
GE+ALE +R G V+ ++
Sbjct: 96 TGEQALEICDALARSGAVDVIV 117
Score = 35.4 bits (80), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 20/82 (24%), Positives = 41/82 (50%), Gaps = 3/82 (3%)
Query: 197 VVGPPGTGKTDVAVQIISNLYHNFPHQRTLIVTHSNQALNQLFEKIISLDVDERHLLRLG 256
+ GP +GKT + +Q+I+ +T + AL+ ++ + + +D+D +
Sbjct: 388 IYGPESSGKTTLTLQVIAAAQR---EGKTCAFIDAEHALDPIYARKLGVDIDNLLCSQPD 444
Query: 257 HGEEALETEKDFSRYGRVNYVL 278
GE+ALE +R G V+ ++
Sbjct: 445 TGEQALEICDALARSGAVDVIV 466
Score = 35.4 bits (80), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 20/82 (24%), Positives = 41/82 (50%), Gaps = 3/82 (3%)
Query: 197 VVGPPGTGKTDVAVQIISNLYHNFPHQRTLIVTHSNQALNQLFEKIISLDVDERHLLRLG 256
+ GP +GKT + +Q+I+ +T + AL+ ++ + + +D+D +
Sbjct: 737 IYGPESSGKTTLTLQVIAAAQR---EGKTCAFIDAEHALDPIYARKLGVDIDNLLCSQPD 793
Query: 257 HGEEALETEKDFSRYGRVNYVL 278
GE+ALE +R G V+ ++
Sbjct: 794 TGEQALEICDALARSGAVDVIV 815
Score = 35.4 bits (80), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 20/82 (24%), Positives = 41/82 (50%), Gaps = 3/82 (3%)
Query: 197 VVGPPGTGKTDVAVQIISNLYHNFPHQRTLIVTHSNQALNQLFEKIISLDVDERHLLRLG 256
+ GP +GKT + +Q+I+ +T + AL+ ++ + + +D+D +
Sbjct: 1086 IYGPESSGKTTLTLQVIAAAQR---EGKTCAFIDAEHALDPIYARKLGVDIDNLLCSQPD 1142
Query: 257 HGEEALETEKDFSRYGRVNYVL 278
GE+ALE +R G V+ ++
Sbjct: 1143 TGEQALEICDALARSGAVDVIV 1164
Score = 35.4 bits (80), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 20/82 (24%), Positives = 41/82 (50%), Gaps = 3/82 (3%)
Query: 197 VVGPPGTGKTDVAVQIISNLYHNFPHQRTLIVTHSNQALNQLFEKIISLDVDERHLLRLG 256
+ GP +GKT + +Q+I+ +T + AL+ ++ + + +D+D +
Sbjct: 1432 IYGPESSGKTTLTLQVIAAAQR---EGKTCAFIDAEHALDPIYARKLGVDIDNLLCSQPD 1488
Query: 257 HGEEALETEKDFSRYGRVNYVL 278
GE+ALE +R G V+ ++
Sbjct: 1489 TGEQALEICDALARSGAVDVIV 1510
Score = 35.4 bits (80), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 20/82 (24%), Positives = 41/82 (50%), Gaps = 3/82 (3%)
Query: 197 VVGPPGTGKTDVAVQIISNLYHNFPHQRTLIVTHSNQALNQLFEKIISLDVDERHLLRLG 256
+ GP +GKT + +Q+I+ +T + AL+ ++ + + +D+D +
Sbjct: 1780 IYGPESSGKTTLTLQVIAAAQR---EGKTCAFIDAEHALDPIYARKLGVDIDNLLCSQPD 1836
Query: 257 HGEEALETEKDFSRYGRVNYVL 278
GE+ALE +R G V+ ++
Sbjct: 1837 TGEQALEICDALARSGAVDVIV 1858
>pdb|3CMT|A Chain A, Mechanism Of Homologous Recombination From The Reca-
SsdnaDSDNA STRUCTURES
pdb|3CMT|D Chain D, Mechanism Of Homologous Recombination From The Reca-
SsdnaDSDNA STRUCTURES
pdb|3CMW|A Chain A, Mechanism Of Homologous Recombination From The Reca-
SsdnaDSDNA STRUCTURES
pdb|3CMW|C Chain C, Mechanism Of Homologous Recombination From The Reca-
SsdnaDSDNA STRUCTURES
pdb|3CMX|A Chain A, Mechanism Of Homologous Recombination From The Reca-
SsdnaDSDNA STRUCTURES
pdb|3CMX|D Chain D, Mechanism Of Homologous Recombination From The Reca-
SsdnaDSDNA STRUCTURES
Length = 1706
Score = 35.4 bits (80), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 20/82 (24%), Positives = 41/82 (50%), Gaps = 3/82 (3%)
Query: 197 VVGPPGTGKTDVAVQIISNLYHNFPHQRTLIVTHSNQALNQLFEKIISLDVDERHLLRLG 256
+ GP +GKT + +Q+I+ +T + AL+ ++ + + +D+D +
Sbjct: 39 IYGPESSGKTTLTLQVIAAAQR---EGKTCAFIDAEHALDPIYARKLGVDIDNLLCSQPD 95
Query: 257 HGEEALETEKDFSRYGRVNYVL 278
GE+ALE +R G V+ ++
Sbjct: 96 TGEQALEICDALARSGAVDVIV 117
Score = 35.4 bits (80), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 20/82 (24%), Positives = 41/82 (50%), Gaps = 3/82 (3%)
Query: 197 VVGPPGTGKTDVAVQIISNLYHNFPHQRTLIVTHSNQALNQLFEKIISLDVDERHLLRLG 256
+ GP +GKT + +Q+I+ +T + AL+ ++ + + +D+D +
Sbjct: 388 IYGPESSGKTTLTLQVIAAAQR---EGKTCAFIDAEHALDPIYARKLGVDIDNLLCSQPD 444
Query: 257 HGEEALETEKDFSRYGRVNYVL 278
GE+ALE +R G V+ ++
Sbjct: 445 TGEQALEICDALARSGAVDVIV 466
Score = 35.4 bits (80), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 20/82 (24%), Positives = 41/82 (50%), Gaps = 3/82 (3%)
Query: 197 VVGPPGTGKTDVAVQIISNLYHNFPHQRTLIVTHSNQALNQLFEKIISLDVDERHLLRLG 256
+ GP +GKT + +Q+I+ +T + AL+ ++ + + +D+D +
Sbjct: 737 IYGPESSGKTTLTLQVIAAAQR---EGKTCAFIDAEHALDPIYARKLGVDIDNLLCSQPD 793
Query: 257 HGEEALETEKDFSRYGRVNYVL 278
GE+ALE +R G V+ ++
Sbjct: 794 TGEQALEICDALARSGAVDVIV 815
Score = 35.4 bits (80), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 20/82 (24%), Positives = 41/82 (50%), Gaps = 3/82 (3%)
Query: 197 VVGPPGTGKTDVAVQIISNLYHNFPHQRTLIVTHSNQALNQLFEKIISLDVDERHLLRLG 256
+ GP +GKT + +Q+I+ +T + AL+ ++ + + +D+D +
Sbjct: 1087 IYGPESSGKTTLTLQVIAAAQR---EGKTCAFIDAEHALDPIYARKLGVDIDNLLCSQPD 1143
Query: 257 HGEEALETEKDFSRYGRVNYVL 278
GE+ALE +R G V+ ++
Sbjct: 1144 TGEQALEICDALARSGAVDVIV 1165
Score = 35.4 bits (80), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 20/82 (24%), Positives = 41/82 (50%), Gaps = 3/82 (3%)
Query: 197 VVGPPGTGKTDVAVQIISNLYHNFPHQRTLIVTHSNQALNQLFEKIISLDVDERHLLRLG 256
+ GP +GKT + +Q+I+ +T + AL+ ++ + + +D+D +
Sbjct: 1436 IYGPESSGKTTLTLQVIAAAQR---EGKTCAFIDAEHALDPIYARKLGVDIDNLLCSQPD 1492
Query: 257 HGEEALETEKDFSRYGRVNYVL 278
GE+ALE +R G V+ ++
Sbjct: 1493 TGEQALEICDALARSGAVDVIV 1514
>pdb|2X8A|A Chain A, Human Nuclear Valosin Containing Protein Like (Nvl), C-
Terminal Aaa-Atpase Domain
Length = 274
Score = 33.9 bits (76), Expect = 0.43, Method: Compositional matrix adjust.
Identities = 21/67 (31%), Positives = 34/67 (50%), Gaps = 6/67 (8%)
Query: 180 PTQIEAIRAGMQPGLTLVVGPPGTGKTDVAVQIISNLYHNF-----PHQRTLIVTHSNQA 234
P Q +A+ + P L+ GPPG GKT +A + + NF P + V S +A
Sbjct: 33 PDQFKAL-GLVTPAGVLLAGPPGCGKTLLAKAVANESGLNFISVKGPELLNMYVGESERA 91
Query: 235 LNQLFEK 241
+ Q+F++
Sbjct: 92 VRQVFQR 98
Score = 33.5 bits (75), Expect = 0.60, Method: Compositional matrix adjust.
Identities = 18/55 (32%), Positives = 28/55 (50%), Gaps = 5/55 (9%)
Query: 830 PGLTLVVGPPGTGKTDVAVQIISNLYHNF-----PHQRTLIVTHSNQALNQLFEK 879
P L+ GPPG GKT +A + + NF P + V S +A+ Q+F++
Sbjct: 44 PAGVLLAGPPGCGKTLLAKAVANESGLNFISVKGPELLNMYVGESERAVRQVFQR 98
>pdb|4AY2|A Chain A, Capturing 5' Tri-Phosphorylated Rna Duplex By Rig-I
Length = 687
Score = 33.9 bits (76), Expect = 0.52, Method: Compositional matrix adjust.
Identities = 19/60 (31%), Positives = 31/60 (51%), Gaps = 1/60 (1%)
Query: 813 PFKLTFHEIEAIRAGMQPGLTLVVGPPGTGKTDVAVQIISNLYHNFPH-QRTLIVTHSNQ 871
PFK +++E M+ T++ P G GKT V++ I + FP Q+ +V +NQ
Sbjct: 2 PFKPRNYQLELALPAMKGKNTIICAPTGCGKTFVSLLICEHHLKKFPQGQKGKVVFFANQ 61
Score = 32.7 bits (73), Expect = 0.99, Method: Compositional matrix adjust.
Identities = 20/60 (33%), Positives = 30/60 (50%), Gaps = 3/60 (5%)
Query: 177 PFTPT--QIEAIRAGMQPGLTLVVGPPGTGKTDVAVQIISNLYHNFPH-QRTLIVTHSNQ 233
PF P Q+E M+ T++ P G GKT V++ I + FP Q+ +V +NQ
Sbjct: 2 PFKPRNYQLELALPAMKGKNTIICAPTGCGKTFVSLLICEHHLKKFPQGQKGKVVFFANQ 61
>pdb|1IQP|A Chain A, Crystal Structure Of The Clamp Loader Small Subunit From
Pyrococcus Furiosus
pdb|1IQP|B Chain B, Crystal Structure Of The Clamp Loader Small Subunit From
Pyrococcus Furiosus
pdb|1IQP|C Chain C, Crystal Structure Of The Clamp Loader Small Subunit From
Pyrococcus Furiosus
pdb|1IQP|D Chain D, Crystal Structure Of The Clamp Loader Small Subunit From
Pyrococcus Furiosus
pdb|1IQP|E Chain E, Crystal Structure Of The Clamp Loader Small Subunit From
Pyrococcus Furiosus
pdb|1IQP|F Chain F, Crystal Structure Of The Clamp Loader Small Subunit From
Pyrococcus Furiosus
Length = 327
Score = 32.7 bits (73), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 18/58 (31%), Positives = 29/58 (50%), Gaps = 2/58 (3%)
Query: 186 IRAGMQPGLTLVVGPPGTGKTDVAVQIISNLY-HNFPHQRTLIVTHSNQALNQLFEKI 242
++ G P L L GPPG GKT A+ + L+ N+ H + + +N + EK+
Sbjct: 41 VKTGSMPHL-LFAGPPGVGKTTAALALARELFGENWRHNFLELNASDERGINVIREKV 97
Score = 32.7 bits (73), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 18/58 (31%), Positives = 29/58 (50%), Gaps = 2/58 (3%)
Query: 824 IRAGMQPGLTLVVGPPGTGKTDVAVQIISNLY-HNFPHQRTLIVTHSNQALNQLFEKI 880
++ G P L L GPPG GKT A+ + L+ N+ H + + +N + EK+
Sbjct: 41 VKTGSMPHL-LFAGPPGVGKTTAALALARELFGENWRHNFLELNASDERGINVIREKV 97
>pdb|3CF0|A Chain A, Structure Of D2 Subdomain Of P97VCP IN COMPLEX WITH ADP
pdb|3CF0|B Chain B, Structure Of D2 Subdomain Of P97VCP IN COMPLEX WITH ADP
pdb|3CF0|C Chain C, Structure Of D2 Subdomain Of P97VCP IN COMPLEX WITH ADP
pdb|3CF0|D Chain D, Structure Of D2 Subdomain Of P97VCP IN COMPLEX WITH ADP
pdb|3CF0|E Chain E, Structure Of D2 Subdomain Of P97VCP IN COMPLEX WITH ADP
pdb|3CF0|F Chain F, Structure Of D2 Subdomain Of P97VCP IN COMPLEX WITH ADP
pdb|3CF0|G Chain G, Structure Of D2 Subdomain Of P97VCP IN COMPLEX WITH ADP
pdb|3CF0|H Chain H, Structure Of D2 Subdomain Of P97VCP IN COMPLEX WITH ADP
pdb|3CF0|I Chain I, Structure Of D2 Subdomain Of P97VCP IN COMPLEX WITH ADP
pdb|3CF0|J Chain J, Structure Of D2 Subdomain Of P97VCP IN COMPLEX WITH ADP
pdb|3CF0|K Chain K, Structure Of D2 Subdomain Of P97VCP IN COMPLEX WITH ADP
pdb|3CF0|L Chain L, Structure Of D2 Subdomain Of P97VCP IN COMPLEX WITH ADP
pdb|3CF0|M Chain M, Structure Of D2 Subdomain Of P97VCP IN COMPLEX WITH ADP
pdb|3CF0|N Chain N, Structure Of D2 Subdomain Of P97VCP IN COMPLEX WITH ADP
Length = 301
Score = 32.0 bits (71), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 21/67 (31%), Positives = 31/67 (46%), Gaps = 6/67 (8%)
Query: 819 HEIEAIRAGMQPGL-TLVVGPPGTGKTDVAVQIISNLYHNF-----PHQRTLIVTHSNQA 872
H + ++ GM P L GPPG GKT +A I + NF P T+ S
Sbjct: 37 HPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQANFISIKGPELLTMWFGESEAN 96
Query: 873 LNQLFEK 879
+ ++F+K
Sbjct: 97 VREIFDK 103
Score = 31.6 bits (70), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 20/62 (32%), Positives = 29/62 (46%), Gaps = 6/62 (9%)
Query: 186 IRAGMQPGL-TLVVGPPGTGKTDVAVQIISNLYHNF-----PHQRTLIVTHSNQALNQLF 239
++ GM P L GPPG GKT +A I + NF P T+ S + ++F
Sbjct: 42 LKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQANFISIKGPELLTMWFGESEANVREIF 101
Query: 240 EK 241
+K
Sbjct: 102 DK 103
>pdb|1IN7|A Chain A, Thermotoga Maritima Ruvb R170a
Length = 334
Score = 31.2 bits (69), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 31/105 (29%), Positives = 47/105 (44%), Gaps = 14/105 (13%)
Query: 834 LVVGPPGTGKTDVAVQIISNLYHNF--PHQRTLIVTHSNQALNQLFEKIISLDVDERHLL 891
L+ GPPG GKT +A I S L N L+ A+ E+ L +DE H L
Sbjct: 55 LLAGPPGLGKTTLAHIIASELQTNIHVTSGPVLVKQGDMAAILTSLERGDVLFIDEIHRL 114
Query: 892 HKKYRITPRYLLLAIKNDVELSQLLSDVTIAQGGVMPNIQSMKFD 936
+K LL + D ++ D+ I +G P+ +S++ D
Sbjct: 115 NKAV----EELLYSAIEDFQI-----DIMIGKG---PSAKSIRID 147
>pdb|1IN8|A Chain A, Thermotoga Maritima Ruvb T158v
Length = 334
Score = 31.2 bits (69), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 31/106 (29%), Positives = 47/106 (44%), Gaps = 14/106 (13%)
Query: 833 TLVVGPPGTGKTDVAVQIISNLYHNF--PHQRTLIVTHSNQALNQLFEKIISLDVDERHL 890
L+ GPPG GKT +A I S L N L+ A+ E+ L +DE H
Sbjct: 54 VLLAGPPGLGKTTLAHIIASELQTNIHVTSGPVLVKQGDMAAILTSLERGDVLFIDEIHR 113
Query: 891 LHKKYRITPRYLLLAIKNDVELSQLLSDVTIAQGGVMPNIQSMKFD 936
L+K LL + D ++ D+ I +G P+ +S++ D
Sbjct: 114 LNKAV----EELLYSAIEDFQI-----DIMIGKG---PSAKSIRID 147
>pdb|1IN5|A Chain A, Thermogota Maritima Ruvb A156s Mutant
Length = 334
Score = 31.2 bits (69), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 31/105 (29%), Positives = 47/105 (44%), Gaps = 14/105 (13%)
Query: 834 LVVGPPGTGKTDVAVQIISNLYHNF--PHQRTLIVTHSNQALNQLFEKIISLDVDERHLL 891
L+ GPPG GKT +A I S L N L+ A+ E+ L +DE H L
Sbjct: 55 LLAGPPGLGKTTLAHIIASELQTNIHVTSGPVLVKQGDMAAILTSLERGDVLFIDEIHRL 114
Query: 892 HKKYRITPRYLLLAIKNDVELSQLLSDVTIAQGGVMPNIQSMKFD 936
+K LL + D ++ D+ I +G P+ +S++ D
Sbjct: 115 NKAV----EELLYSAIEDFQI-----DIMIGKG---PSAKSIRID 147
>pdb|1IN4|A Chain A, Thermotoga Maritima Ruvb Holliday Junction Branch
Migration Motor
Length = 334
Score = 31.2 bits (69), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 31/105 (29%), Positives = 47/105 (44%), Gaps = 14/105 (13%)
Query: 834 LVVGPPGTGKTDVAVQIISNLYHNF--PHQRTLIVTHSNQALNQLFEKIISLDVDERHLL 891
L+ GPPG GKT +A I S L N L+ A+ E+ L +DE H L
Sbjct: 55 LLAGPPGLGKTTLAHIIASELQTNIHVTSGPVLVKQGDMAAILTSLERGDVLFIDEIHRL 114
Query: 892 HKKYRITPRYLLLAIKNDVELSQLLSDVTIAQGGVMPNIQSMKFD 936
+K LL + D ++ D+ I +G P+ +S++ D
Sbjct: 115 NKAV----EELLYSAIEDFQI-----DIMIGKG---PSAKSIRID 147
>pdb|1J7K|A Chain A, Thermotoga Maritima Ruvb P216g Mutant
Length = 334
Score = 31.2 bits (69), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 31/105 (29%), Positives = 47/105 (44%), Gaps = 14/105 (13%)
Query: 834 LVVGPPGTGKTDVAVQIISNLYHNF--PHQRTLIVTHSNQALNQLFEKIISLDVDERHLL 891
L+ GPPG GKT +A I S L N L+ A+ E+ L +DE H L
Sbjct: 55 LLAGPPGLGKTTLAHIIASELQTNIHVTSGPVLVKQGDMAAILTSLERGDVLFIDEIHRL 114
Query: 892 HKKYRITPRYLLLAIKNDVELSQLLSDVTIAQGGVMPNIQSMKFD 936
+K LL + D ++ D+ I +G P+ +S++ D
Sbjct: 115 NKAV----EELLYSAIEDFQI-----DIMIGKG---PSAKSIRID 147
>pdb|3BWN|A Chain A, L-Tryptophan Aminotransferase
pdb|3BWN|B Chain B, L-Tryptophan Aminotransferase
pdb|3BWN|D Chain D, L-Tryptophan Aminotransferase
pdb|3BWN|E Chain E, L-Tryptophan Aminotransferase
pdb|3BWN|F Chain F, L-Tryptophan Aminotransferase
Length = 391
Score = 31.2 bits (69), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 43/190 (22%), Positives = 74/190 (38%), Gaps = 39/190 (20%)
Query: 177 PFTPTQIEA---IRAGM-------------QPGLTLVVGPPGTGKT----------DVAV 210
PF T +E +R+GM P + LV P T D
Sbjct: 127 PFYSTYVEETTYVRSGMYKWEGDAWGFDKKGPYIELVTSPNNPDGTIRETVVNRPDDDEA 186
Query: 211 QIISNLYHNFPHQRTLIVTHSNQALNQLFEKIISLDVDERHLLRLGHGEEALETEKDFSR 270
++I + + +PH + + + F KI R+G AL +K+ ++
Sbjct: 187 KVIHDFAYYWPHYTPITRRQDHDIMLFTFSKITG-----HAGSRIGW---ALVKDKEVAK 238
Query: 271 YGRVNYVLAKRLDLLQEVE-RLQKSLDVSGDVAYTCETAGHFFLY---QVLARWEKFLAT 326
V Y++ + + +E + R K L+V + + + +FF Y + RWEK
Sbjct: 239 -KMVEYIIVNSIGVSKESQVRTAKILNVLKETCKSESESENFFKYGREMMKNRWEKLREV 297
Query: 327 VRPSDGKTVP 336
V+ SD T+P
Sbjct: 298 VKESDAFTLP 307
>pdb|3CF1|A Chain A, Structure Of P97VCP IN COMPLEX WITH ADPADP.ALFX
pdb|3CF1|B Chain B, Structure Of P97VCP IN COMPLEX WITH ADPADP.ALFX
pdb|3CF1|C Chain C, Structure Of P97VCP IN COMPLEX WITH ADPADP.ALFX
pdb|3CF2|A Chain A, Structure Of P97VCP IN COMPLEX WITH ADPAMP-Pnp
pdb|3CF2|B Chain B, Structure Of P97VCP IN COMPLEX WITH ADPAMP-Pnp
pdb|3CF2|C Chain C, Structure Of P97VCP IN COMPLEX WITH ADPAMP-Pnp
pdb|3CF2|D Chain D, Structure Of P97VCP IN COMPLEX WITH ADPAMP-Pnp
pdb|3CF3|A Chain A, Structure Of P97VCP IN COMPLEX WITH ADP
pdb|3CF3|B Chain B, Structure Of P97VCP IN COMPLEX WITH ADP
pdb|3CF3|C Chain C, Structure Of P97VCP IN COMPLEX WITH ADP
Length = 806
Score = 31.2 bits (69), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 21/67 (31%), Positives = 31/67 (46%), Gaps = 6/67 (8%)
Query: 819 HEIEAIRAGMQPGL-TLVVGPPGTGKTDVAVQIISNLYHNF-----PHQRTLIVTHSNQA 872
H + ++ GM P L GPPG GKT +A I + NF P T+ S
Sbjct: 499 HPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQANFISIKGPELLTMWFGESEAN 558
Query: 873 LNQLFEK 879
+ ++F+K
Sbjct: 559 VREIFDK 565
Score = 30.8 bits (68), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 20/62 (32%), Positives = 29/62 (46%), Gaps = 6/62 (9%)
Query: 186 IRAGMQPGL-TLVVGPPGTGKTDVAVQIISNLYHNF-----PHQRTLIVTHSNQALNQLF 239
++ GM P L GPPG GKT +A I + NF P T+ S + ++F
Sbjct: 504 LKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQANFISIKGPELLTMWFGESEANVREIF 563
Query: 240 EK 241
+K
Sbjct: 564 DK 565
>pdb|1XP8|A Chain A, "deinococcus Radiodurans Reca In Complex With Atp-Gamma-S"
Length = 366
Score = 31.2 bits (69), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 20/81 (24%), Positives = 40/81 (49%), Gaps = 3/81 (3%)
Query: 194 LTLVVGPPGTGKTDVAVQIISNLYHNFPHQRTLIVTHSNQALNQLFEKIISLDVDERHLL 253
+T + GP GKT +A+ I++ T + AL+ ++ + + ++ DE +
Sbjct: 76 ITEIYGPESGGKTTLALAIVAQAQK---AGGTCAFIDAEHALDPVYARALGVNTDELLVS 132
Query: 254 RLGHGEEALETEKDFSRYGRV 274
+ +GE+ALE + R G +
Sbjct: 133 QPDNGEQALEIMELLVRSGAI 153
>pdb|1R7R|A Chain A, The Crystal Structure Of Murine P97VCP AT 3.6A
Length = 816
Score = 31.2 bits (69), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 21/67 (31%), Positives = 31/67 (46%), Gaps = 6/67 (8%)
Query: 819 HEIEAIRAGMQPGL-TLVVGPPGTGKTDVAVQIISNLYHNF-----PHQRTLIVTHSNQA 872
H + ++ GM P L GPPG GKT +A I + NF P T+ S
Sbjct: 499 HPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQANFISIKGPELLTMWFGESEAN 558
Query: 873 LNQLFEK 879
+ ++F+K
Sbjct: 559 VREIFDK 565
Score = 30.8 bits (68), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 20/62 (32%), Positives = 29/62 (46%), Gaps = 6/62 (9%)
Query: 186 IRAGMQPGL-TLVVGPPGTGKTDVAVQIISNLYHNF-----PHQRTLIVTHSNQALNQLF 239
++ GM P L GPPG GKT +A I + NF P T+ S + ++F
Sbjct: 504 LKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQANFISIKGPELLTMWFGESEANVREIF 563
Query: 240 EK 241
+K
Sbjct: 564 DK 565
>pdb|2XSZ|A Chain A, The Dodecameric Human Ruvbl1:ruvbl2 Complex With Truncated
Domains Ii
pdb|2XSZ|B Chain B, The Dodecameric Human Ruvbl1:ruvbl2 Complex With Truncated
Domains Ii
pdb|2XSZ|C Chain C, The Dodecameric Human Ruvbl1:ruvbl2 Complex With Truncated
Domains Ii
Length = 367
Score = 30.8 bits (68), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 16/40 (40%), Positives = 22/40 (55%), Gaps = 1/40 (2%)
Query: 183 IEAIRAGMQPG-LTLVVGPPGTGKTDVAVQIISNLYHNFP 221
+E I++ G L+ GPPGTGKT +A+ I L P
Sbjct: 67 VELIKSKKXAGRAVLLAGPPGTGKTALALAIAQELGSKVP 106
Score = 30.8 bits (68), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 16/40 (40%), Positives = 22/40 (55%), Gaps = 1/40 (2%)
Query: 821 IEAIRAGMQPG-LTLVVGPPGTGKTDVAVQIISNLYHNFP 859
+E I++ G L+ GPPGTGKT +A+ I L P
Sbjct: 67 VELIKSKKXAGRAVLLAGPPGTGKTALALAIAQELGSKVP 106
>pdb|2CE7|A Chain A, Edta Treated
pdb|2CE7|B Chain B, Edta Treated
pdb|2CE7|C Chain C, Edta Treated
pdb|2CE7|D Chain D, Edta Treated
pdb|2CE7|E Chain E, Edta Treated
pdb|2CE7|F Chain F, Edta Treated
pdb|2CEA|A Chain A, Cell Division Protein Ftsh
pdb|2CEA|B Chain B, Cell Division Protein Ftsh
pdb|2CEA|C Chain C, Cell Division Protein Ftsh
pdb|2CEA|D Chain D, Cell Division Protein Ftsh
pdb|2CEA|E Chain E, Cell Division Protein Ftsh
pdb|2CEA|F Chain F, Cell Division Protein Ftsh
Length = 476
Score = 30.8 bits (68), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 18/43 (41%), Positives = 24/43 (55%), Gaps = 1/43 (2%)
Query: 180 PTQIEAIRAGMQPGLTLVVGPPGTGKTDVAVQIISNLYHNFPH 222
P++ I A M G+ L+VGPPGTGKT +A + F H
Sbjct: 38 PSKFNRIGARMPKGI-LLVGPPGTGKTLLARAVAGEANVPFFH 79
>pdb|4B4T|L Chain L, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 437
Score = 30.8 bits (68), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 15/35 (42%), Positives = 22/35 (62%), Gaps = 1/35 (2%)
Query: 187 RAGMQP-GLTLVVGPPGTGKTDVAVQIISNLYHNF 220
R G++P L+ GPPGTGKT +A + + + NF
Sbjct: 209 RVGIKPPKGVLLYGPPGTGKTLLAKAVAATIGANF 243
Score = 30.8 bits (68), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 15/35 (42%), Positives = 22/35 (62%), Gaps = 1/35 (2%)
Query: 825 RAGMQP-GLTLVVGPPGTGKTDVAVQIISNLYHNF 858
R G++P L+ GPPGTGKT +A + + + NF
Sbjct: 209 RVGIKPPKGVLLYGPPGTGKTLLAKAVAATIGANF 243
>pdb|2JG8|A Chain A, Crystallographic Structure Of Human C1q Globular Heads
Complexed To Phosphatidyl-Serine
pdb|2JG8|D Chain D, Crystallographic Structure Of Human C1q Globular Heads
Complexed To Phosphatidyl-Serine
pdb|2JG9|A Chain A, Crystallographic Structure Of Human C1q Globular Heads
(P1)
pdb|2JG9|D Chain D, Crystallographic Structure Of Human C1q Globular Heads
(P1)
pdb|2WNU|A Chain A, Complex Between C1q Globular Heads And Heparan Sulfate
pdb|2WNU|D Chain D, Complex Between C1q Globular Heads And Heparan Sulfate
pdb|2WNV|A Chain A, Complex Between C1q Globular Heads And Deoxyribose
pdb|2WNV|D Chain D, Complex Between C1q Globular Heads And Deoxyribose
Length = 134
Score = 30.4 bits (67), Expect = 4.8, Method: Composition-based stats.
Identities = 21/78 (26%), Positives = 39/78 (50%), Gaps = 10/78 (12%)
Query: 303 YTCETAGHF-FLYQVLARWEKFLATVRPSDGKTVPVKTIKTEFPFHGFFENAPKPLFKEK 361
+ C G++ F +QVL++WE L+ V S G+ ++ GF + K LF+
Sbjct: 40 FVCTVPGYYYFTFQVLSQWEICLSIVSSSRGQ------VRRSL---GFCDTTNKGLFQVV 90
Query: 362 SYETDMEIAEGCFRYIEK 379
S +++ +G ++EK
Sbjct: 91 SGGMVLQLQQGDQVWVEK 108
>pdb|1PK6|A Chain A, Globular Head Of The Complement System Protein C1q
Length = 133
Score = 30.4 bits (67), Expect = 4.9, Method: Composition-based stats.
Identities = 21/78 (26%), Positives = 39/78 (50%), Gaps = 10/78 (12%)
Query: 303 YTCETAGHF-FLYQVLARWEKFLATVRPSDGKTVPVKTIKTEFPFHGFFENAPKPLFKEK 361
+ C G++ F +QVL++WE L+ V S G+ ++ GF + K LF+
Sbjct: 40 FVCTVPGYYYFTFQVLSQWEICLSIVSSSRGQ------VRRSL---GFCDTTNKGLFQVV 90
Query: 362 SYETDMEIAEGCFRYIEK 379
S +++ +G ++EK
Sbjct: 91 SGGMVLQLQQGDQVWVEK 108
>pdb|1G18|A Chain A, Reca-Adp-Alf4 Complex
pdb|1G19|A Chain A, Structure Of Reca Protein
pdb|1MO3|A Chain A, Reca-Adp Complex
pdb|1MO4|A Chain A, Reca-Atp-Gamma-S Complex
pdb|1MO5|A Chain A, Reca-Atp-Gamma-S-Mg Complex
pdb|1MO6|A Chain A, Reca-datp-mg Complex
Length = 350
Score = 30.4 bits (67), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 22/82 (26%), Positives = 38/82 (46%), Gaps = 3/82 (3%)
Query: 197 VVGPPGTGKTDVAVQIISNLYHNFPHQRTLIVTHSNQALNQLFEKIISLDVDERHLLRLG 256
+ GP +GKT VA+ ++N + H AL+ + K + +D D + +
Sbjct: 65 IYGPESSGKTTVALHAVANAQAAGGVAAFIDAEH---ALDPDYAKKLGVDTDSLLVSQPD 121
Query: 257 HGEEALETEKDFSRYGRVNYVL 278
GE+ALE R G ++ V+
Sbjct: 122 TGEQALEIADMLIRSGALDIVV 143
>pdb|1UBC|A Chain A, Structure Of Reca Protein
pdb|1UBE|A Chain A, Msreca-Adp Complex
pdb|1UBF|A Chain A, Msreca-Atpgs Complex
pdb|1UBG|A Chain A, Msreca-Datp Complex
pdb|2G88|A Chain A, Msreca-datp Complex
pdb|2ODN|A Chain A, Msreca-Datp Complex
pdb|2ODW|A Chain A, Msreca-Atp-Gama-S Complex
pdb|2OE2|A Chain A, Msreca-Native-Low Humidity 95%
pdb|2OEP|A Chain A, Msreca-adp-complex
pdb|2OES|A Chain A, Msreca-Native-Ssb
pdb|2OFO|A Chain A, Msreca-native
pdb|2ZR7|A Chain A, Msreca Native Form Ii'
pdb|2ZRM|A Chain A, Msreca Datp Form Iv
pdb|2ZRN|A Chain A, Msreca Form Iv
pdb|2ZRO|A Chain A, Msreca Adp Form Iv
pdb|2ZRP|A Chain A, Msreca Datp Form Ii'
Length = 349
Score = 30.4 bits (67), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 21/82 (25%), Positives = 38/82 (46%), Gaps = 3/82 (3%)
Query: 197 VVGPPGTGKTDVAVQIISNLYHNFPHQRTLIVTHSNQALNQLFEKIISLDVDERHLLRLG 256
+ GP +GKT VA+ ++N + H AL+ + K + +D D + +
Sbjct: 66 IYGPESSGKTTVALHAVANAQAAGGIAAFIDAEH---ALDPEYAKKLGVDTDSLLVSQPD 122
Query: 257 HGEEALETEKDFSRYGRVNYVL 278
GE+ALE R G ++ ++
Sbjct: 123 TGEQALEIADMLVRSGALDIIV 144
>pdb|2ZR0|A Chain A, Msreca-Q196e Mutant
pdb|2ZR9|A Chain A, Msreca Q196e Datp Form Iv
pdb|2ZRA|A Chain A, Msreca Q196e Atpgs
pdb|2ZRB|A Chain A, Msreca Q196e Form Ii'
Length = 349
Score = 30.4 bits (67), Expect = 5.9, Method: Compositional matrix adjust.
Identities = 21/82 (25%), Positives = 38/82 (46%), Gaps = 3/82 (3%)
Query: 197 VVGPPGTGKTDVAVQIISNLYHNFPHQRTLIVTHSNQALNQLFEKIISLDVDERHLLRLG 256
+ GP +GKT VA+ ++N + H AL+ + K + +D D + +
Sbjct: 66 IYGPESSGKTTVALHAVANAQAAGGIAAFIDAEH---ALDPEYAKKLGVDTDSLLVSQPD 122
Query: 257 HGEEALETEKDFSRYGRVNYVL 278
GE+ALE R G ++ ++
Sbjct: 123 TGEQALEIADMLVRSGALDIIV 144
>pdb|2ZRH|A Chain A, Msreca Q196a Form Iv
pdb|2ZRI|A Chain A, Msreca Q196a Adp Form Iv
pdb|2ZRJ|A Chain A, Msreca Q196a Atpgs Form Iv
pdb|2ZRK|A Chain A, Msreca Q196a Datp Form Iv
pdb|2ZRL|A Chain A, Msreca Q196a Datp Form Ii'
Length = 349
Score = 30.4 bits (67), Expect = 5.9, Method: Compositional matrix adjust.
Identities = 21/82 (25%), Positives = 38/82 (46%), Gaps = 3/82 (3%)
Query: 197 VVGPPGTGKTDVAVQIISNLYHNFPHQRTLIVTHSNQALNQLFEKIISLDVDERHLLRLG 256
+ GP +GKT VA+ ++N + H AL+ + K + +D D + +
Sbjct: 66 IYGPESSGKTTVALHAVANAQAAGGIAAFIDAEH---ALDPEYAKKLGVDTDSLLVSQPD 122
Query: 257 HGEEALETEKDFSRYGRVNYVL 278
GE+ALE R G ++ ++
Sbjct: 123 TGEQALEIADMLVRSGALDIIV 144
>pdb|2ZRC|A Chain A, Msreca Q196n Form Iv
pdb|2ZRD|A Chain A, Msreca Q196n Adp Form Iv
pdb|2ZRE|A Chain A, Msreca Q196n Atpgs Form Iv
pdb|2ZRF|A Chain A, Msreca Q196n Datp Form Iv
pdb|2ZRG|A Chain A, Msreca Q196n Datp Form Ii'
Length = 349
Score = 30.4 bits (67), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 21/82 (25%), Positives = 38/82 (46%), Gaps = 3/82 (3%)
Query: 197 VVGPPGTGKTDVAVQIISNLYHNFPHQRTLIVTHSNQALNQLFEKIISLDVDERHLLRLG 256
+ GP +GKT VA+ ++N + H AL+ + K + +D D + +
Sbjct: 66 IYGPESSGKTTVALHAVANAQAAGGIAAFIDAEH---ALDPEYAKKLGVDTDSLLVSQPD 122
Query: 257 HGEEALETEKDFSRYGRVNYVL 278
GE+ALE R G ++ ++
Sbjct: 123 TGEQALEIADMLVRSGALDIIV 144
>pdb|1IN6|A Chain A, Thermotoga Maritima Ruvb K64r Mutant
Length = 334
Score = 30.0 bits (66), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 30/105 (28%), Positives = 47/105 (44%), Gaps = 14/105 (13%)
Query: 834 LVVGPPGTGKTDVAVQIISNLYHNF--PHQRTLIVTHSNQALNQLFEKIISLDVDERHLL 891
L+ GPPG G+T +A I S L N L+ A+ E+ L +DE H L
Sbjct: 55 LLAGPPGLGRTTLAHIIASELQTNIHVTSGPVLVKQGDMAAILTSLERGDVLFIDEIHRL 114
Query: 892 HKKYRITPRYLLLAIKNDVELSQLLSDVTIAQGGVMPNIQSMKFD 936
+K LL + D ++ D+ I +G P+ +S++ D
Sbjct: 115 NKAV----EELLYSAIEDFQI-----DIMIGKG---PSAKSIRID 147
>pdb|3VKG|A Chain A, X-Ray Structure Of An Mtbd Truncation Mutant Of Dynein Motor
Domain
pdb|3VKG|B Chain B, X-Ray Structure Of An Mtbd Truncation Mutant Of Dynein Motor
Domain
Length = 3245
Score = 29.6 bits (65), Expect = 8.1, Method: Compositional matrix adjust.
Identities = 20/75 (26%), Positives = 37/75 (49%), Gaps = 5/75 (6%)
Query: 774 NEIATMDFNDTF--LNMDHLRSSFPQAEIRV-KTDNPTKLVPPFKLTFHEIEAIRAGMQP 830
N I +D++ + N ++ P E+ K +P ++P T H ++ + A +
Sbjct: 1245 NTIPLLDYSVSIDDANWSLWKNKVPSVEVETHKVASPDVVIPTVDTTRH-VDVLHAWLSE 1303
Query: 831 GLTLVV-GPPGTGKT 844
L++ GPPG+GKT
Sbjct: 1304 HRPLILCGPPGSGKT 1318
>pdb|3VKH|A Chain A, X-Ray Structure Of A Functional Full-Length Dynein Motor
Domain
pdb|3VKH|B Chain B, X-Ray Structure Of A Functional Full-Length Dynein Motor
Domain
Length = 3367
Score = 29.6 bits (65), Expect = 8.4, Method: Compositional matrix adjust.
Identities = 20/75 (26%), Positives = 37/75 (49%), Gaps = 5/75 (6%)
Query: 774 NEIATMDFNDTF--LNMDHLRSSFPQAEIRV-KTDNPTKLVPPFKLTFHEIEAIRAGMQP 830
N I +D++ + N ++ P E+ K +P ++P T H ++ + A +
Sbjct: 1245 NTIPLLDYSVSIDDANWSLWKNKVPSVEVETHKVASPDVVIPTVDTTRH-VDVLHAWLSE 1303
Query: 831 GLTLVV-GPPGTGKT 844
L++ GPPG+GKT
Sbjct: 1304 HRPLILCGPPGSGKT 1318
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
0.321 0.137 0.407
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 30,372,180
Number of Sequences: 62578
Number of extensions: 1262358
Number of successful extensions: 3704
Number of sequences better than 100.0: 65
Number of HSP's better than 100.0 without gapping: 28
Number of HSP's successfully gapped in prelim test: 37
Number of HSP's that attempted gapping in prelim test: 3580
Number of HSP's gapped (non-prelim): 147
length of query: 1051
length of database: 14,973,337
effective HSP length: 109
effective length of query: 942
effective length of database: 8,152,335
effective search space: 7679499570
effective search space used: 7679499570
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 57 (26.6 bits)