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= 032408
(141 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4DRA|A Chain A, Crystal Structure Of Mhf Complex
pdb|4DRA|B Chain B, Crystal Structure Of Mhf Complex
pdb|4DRA|C Chain C, Crystal Structure Of Mhf Complex
pdb|4DRA|D Chain D, Crystal Structure Of Mhf Complex
Length = 113
Score = 54.7 bits (130), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 27/53 (50%), Positives = 35/53 (66%)
Query: 47 MEISKPIIACISDLAFKYTEQLAKDLELFAQHAGRKSVRMEDVILSAHRNERL 99
M+ SK IA IS+L F+ E AKDLE+FA+HA R ++ EDV L A R+ L
Sbjct: 46 MQFSKQTIAAISELTFRQCENFAKDLEMFARHAKRTTINTEDVKLLARRSNSL 98
>pdb|3VH5|A Chain A, Crystal Structure Of The Chicken Cenp-T Histone
FoldCENP-WCENP- SCENP-X Heterotetrameric Complex,
Crystal Form I
pdb|3VH6|A Chain A, Crystal Structure Of The Chicken Cenp-T Histone
FoldCENP-WCENP- SCENP-X Heterotetrameric Complex,
Crystal Form Ii
Length = 140
Score = 54.3 bits (129), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 29/74 (39%), Positives = 44/74 (59%)
Query: 26 LRDRFRLSTISIAEAEANQIGMEISKPIIACISDLAFKYTEQLAKDLELFAQHAGRKSVR 85
LR +T ++A+ A G+ SK +A IS++ F+ E A+DLE+FA+HA R ++
Sbjct: 17 LRAAVHYTTGALAQDVAEDKGVLFSKQTVAAISEITFRQAENFARDLEMFARHAKRSTIT 76
Query: 86 MEDVILSAHRNERL 99
EDV L A R+ L
Sbjct: 77 SEDVKLLARRSNSL 90
>pdb|4DRB|A Chain A, The Crystal Structure Of Fancm Bound Mhf Complex
pdb|4DRB|B Chain B, The Crystal Structure Of Fancm Bound Mhf Complex
pdb|4DRB|D Chain D, The Crystal Structure Of Fancm Bound Mhf Complex
pdb|4DRB|E Chain E, The Crystal Structure Of Fancm Bound Mhf Complex
pdb|4DRB|G Chain G, The Crystal Structure Of Fancm Bound Mhf Complex
pdb|4DRB|H Chain H, The Crystal Structure Of Fancm Bound Mhf Complex
Length = 120
Score = 50.8 bits (120), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 26/52 (50%), Positives = 33/52 (63%)
Query: 48 EISKPIIACISDLAFKYTEQLAKDLELFAQHAGRKSVRMEDVILSAHRNERL 99
+ SK IA IS+L F+ E AKDLE FA+HA R ++ EDV L A R+ L
Sbjct: 47 QFSKQTIAAISELTFRQCENFAKDLEXFARHAKRTTINTEDVKLLARRSNSL 98
>pdb|3B0B|B Chain B, Crystal Structure Of The Chicken Cenp-SCENP-X Complex
pdb|3B0B|A Chain A, Crystal Structure Of The Chicken Cenp-SCENP-X Complex
Length = 107
Score = 50.4 bits (119), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 28/74 (37%), Positives = 41/74 (55%)
Query: 26 LRDRFRLSTISIAEAEANQIGMEISKPIIACISDLAFKYTEQLAKDLELFAQHAGRKSVR 85
LR +T + + A G+ SK +A IS++ F+ E A+DLE FA+HA R ++
Sbjct: 17 LRAAVHYTTGCLCQDVAEDKGVLFSKQTVAAISEITFRQCENFARDLEXFARHAKRSTIT 76
Query: 86 MEDVILSAHRNERL 99
EDV L A R+ L
Sbjct: 77 SEDVKLLARRSNSL 90
>pdb|3B0C|T Chain T, Crystal Structure Of The Chicken Cenp-T Histone
FoldCENP-W Complex, Crystal Form I
pdb|3B0D|T Chain T, Crystal Structure Of The Chicken Cenp-T Histone
FoldCENP-W Complex, Crystal Form Ii
pdb|3B0D|B Chain B, Crystal Structure Of The Chicken Cenp-T Histone
FoldCENP-W Complex, Crystal Form Ii
Length = 111
Score = 39.3 bits (90), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 17/34 (50%), Positives = 24/34 (70%)
Query: 63 KYTEQLAKDLELFAQHAGRKSVRMEDVILSAHRN 96
+Y +Q++ DLE ++QHAGRK+V M DV L R
Sbjct: 39 RYFKQISSDLEAYSQHAGRKTVEMADVELLMRRQ 72
>pdb|3VH5|T Chain T, Crystal Structure Of The Chicken Cenp-T Histone
FoldCENP-WCENP- SCENP-X Heterotetrameric Complex,
Crystal Form I
pdb|3VH6|T Chain T, Crystal Structure Of The Chicken Cenp-T Histone
FoldCENP-WCENP- SCENP-X Heterotetrameric Complex,
Crystal Form Ii
Length = 111
Score = 38.9 bits (89), Expect = 9e-04, Method: Compositional matrix adjust.
Identities = 17/34 (50%), Positives = 24/34 (70%)
Query: 63 KYTEQLAKDLELFAQHAGRKSVRMEDVILSAHRN 96
+Y +Q++ DLE ++QHAGRK+V M DV L R
Sbjct: 39 RYFKQISSDLEAYSQHAGRKTVEMADVELLMRRQ 72
>pdb|1KU5|A Chain A, Crystal Structure Of Recombinant Histone Hpha From
Hyperthermophilic Archaeon Pyrococcus Horikoshii Ot3
pdb|1KU5|B Chain B, Crystal Structure Of Recombinant Histone Hpha From
Hyperthermophilic Archaeon Pyrococcus Horikoshii Ot3
Length = 70
Score = 32.7 bits (73), Expect = 0.067, Method: Compositional matrix adjust.
Identities = 14/29 (48%), Positives = 22/29 (75%)
Query: 64 YTEQLAKDLELFAQHAGRKSVRMEDVILS 92
Y ++AK FA+HAGRK+V++ED+ L+
Sbjct: 39 YAIEIAKKAVEFARHAGRKTVKVEDIKLA 67
>pdb|1I5P|A Chain A, Insecticidal Crystal Protein Cry2aa
Length = 633
Score = 30.0 bits (66), Expect = 0.40, Method: Composition-based stats.
Identities = 18/40 (45%), Positives = 24/40 (60%)
Query: 72 LELFAQHAGRKSVRMEDVILSAHRNERLAATLRSFRNDLK 111
L LFAQ A + DVIL+A AATLR++R+ L+
Sbjct: 174 LPLFAQAANMHLSFIRDVILNADEWGISAATLRTYRDYLR 213
>pdb|3TIX|A Chain A, Crystal Structure Of The Chp1-Tas3 Complex Core
pdb|3TIX|C Chain C, Crystal Structure Of The Chp1-Tas3 Complex Core
Length = 207
Score = 29.6 bits (65), Expect = 0.62, Method: Compositional matrix adjust.
Identities = 19/49 (38%), Positives = 23/49 (46%), Gaps = 7/49 (14%)
Query: 37 IAEAEANQIGMEISKPIIACISDLAFKY-------TEQLAKDLELFAQH 78
I EA QIG S P +ACISD + T L + ELF +H
Sbjct: 122 IIEAHREQIGGLPSLPFLACISDFPENHGTSRRSATVSLERVHELFTEH 170
>pdb|1P3F|B Chain B, Crystallographic Studies Of Nucleosome Core Particles
Containing Histone 'sin' Mutants
pdb|1P3F|F Chain F, Crystallographic Studies Of Nucleosome Core Particles
Containing Histone 'sin' Mutants
Length = 102
Score = 29.3 bits (64), Expect = 0.70, Method: Compositional matrix adjust.
Identities = 18/61 (29%), Positives = 29/61 (47%), Gaps = 11/61 (18%)
Query: 54 IACISDLAFK--------YTEQLAKDLELFAQHAGRKSVRMEDVILSAHRNERLAATLRS 105
+ CIS L ++ + E + +D + +HA RK+V DV+ + R R TL
Sbjct: 43 VKCISGLIYEETRGVLKVFLENVIRDAVTYTEHAKRKTVTAMDVVYALKRQGR---TLYG 99
Query: 106 F 106
F
Sbjct: 100 F 100
>pdb|1TAF|A Chain A, Drosophila Tbp Associated Factors Dtafii42DTAFII62
HETEROTETRAMER
Length = 68
Score = 28.9 bits (63), Expect = 0.91, Method: Compositional matrix adjust.
Identities = 10/40 (25%), Positives = 25/40 (62%)
Query: 53 IIACISDLAFKYTEQLAKDLELFAQHAGRKSVRMEDVILS 92
++ + + F+Y + D +++A HA +K++ ++DV L+
Sbjct: 23 VVNQLLEFTFRYVTSILDDAKVYANHARKKTIDLDDVRLA 62
>pdb|3V9R|A Chain A, Crystal Structure Of Saccharomyces Cerevisiae Mhf
Complex
pdb|3V9R|C Chain C, Crystal Structure Of Saccharomyces Cerevisiae Mhf
Complex
Length = 90
Score = 28.9 bits (63), Expect = 0.92, Method: Compositional matrix adjust.
Identities = 14/39 (35%), Positives = 21/39 (53%)
Query: 53 IIACISDLAFKYTEQLAKDLELFAQHAGRKSVRMEDVIL 91
I + +LA+ + DL+ FA+HAGR V D+ L
Sbjct: 37 FINSLLELAYLQLGEXGSDLQAFARHAGRGVVNKSDLXL 75
>pdb|1BFM|A Chain A, Histone B From Methanothermus Fervidus
pdb|1BFM|B Chain B, Histone B From Methanothermus Fervidus
pdb|1A7W|A Chain A, Crystal Structure Of The Histone Hmfb From
Methanothermus Fervidus
Length = 69
Score = 28.5 bits (62), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 13/37 (35%), Positives = 23/37 (62%), Gaps = 4/37 (10%)
Query: 63 KYTEQLAKDLE----LFAQHAGRKSVRMEDVILSAHR 95
K E++ +D+ A+HAGRK+++ ED+ L+ R
Sbjct: 30 KILEEMGRDIASEAIKLARHAGRKTIKAEDIELAVRR 66
>pdb|2HIO|D Chain D, Histone Octamer (Chicken), Chromosomal Protein
Length = 103
Score = 27.7 bits (60), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 15/43 (34%), Positives = 23/43 (53%), Gaps = 3/43 (6%)
Query: 64 YTEQLAKDLELFAQHAGRKSVRMEDVILSAHRNERLAATLRSF 106
+ E + +D + +HA RK+V DV+ + R ER TL F
Sbjct: 62 FLENVIRDAVTYTEHAKRKTVTAMDVVYALKRQER---TLYGF 101
>pdb|1B67|A Chain A, Crystal Structure Of The Histone Hmfa From
Methanothermus Fervidus
pdb|1B67|B Chain B, Crystal Structure Of The Histone Hmfa From
Methanothermus Fervidus
Length = 68
Score = 27.7 bits (60), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 11/27 (40%), Positives = 20/27 (74%)
Query: 66 EQLAKDLELFAQHAGRKSVRMEDVILS 92
E++A + A+HAGRK+++ ED+ L+
Sbjct: 37 EEIASEAVKLAKHAGRKTIKAEDIELA 63
>pdb|1HTA|A Chain A, Crystal Structure Of The Histone Hmfa From
Methanothermus Fervidus
Length = 69
Score = 27.7 bits (60), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 11/27 (40%), Positives = 20/27 (74%)
Query: 66 EQLAKDLELFAQHAGRKSVRMEDVILS 92
E++A + A+HAGRK+++ ED+ L+
Sbjct: 38 EEIASEAVKLAKHAGRKTIKAEDIELA 64
>pdb|1B6W|A Chain A, Crystal Structure Of The Selenomethionine Variant Of
Histone Hmfb From Methanothermus Fervidus
Length = 69
Score = 27.3 bits (59), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 10/21 (47%), Positives = 16/21 (76%)
Query: 75 FAQHAGRKSVRMEDVILSAHR 95
A+HAGRK+++ ED+ L+ R
Sbjct: 46 LARHAGRKTIKAEDIELAVRR 66
>pdb|2L5A|A Chain A, Structural Basis For Recognition Of Centromere Specific
Histone H3 Variant By Nonhistone Scm3
Length = 235
Score = 26.6 bits (57), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 24/85 (28%), Positives = 41/85 (48%), Gaps = 8/85 (9%)
Query: 23 TEILRDRFRLSTISIAEAEANQIGME-ISKPIIACISDLAFKYTEQLAKDLELFAQHAGR 81
T +LRD +S E + ++ G++ IS I + + + E + +D + +HA R
Sbjct: 156 TSVLRDIIDISD----EEDGDKGGVKRISGLIYEEVRAVLKSFLESVIRDSVTYTEHAKR 211
Query: 82 KSVRMEDVILSAHRNERLAATLRSF 106
K+V DV+ + R R TL F
Sbjct: 212 KTVTSLDVVYALKRQGR---TLYGF 233
>pdb|2YFW|B Chain B, Heterotetramer Structure Of Kluyveromyces Lactis Cse4,H4
pdb|2YFW|D Chain D, Heterotetramer Structure Of Kluyveromyces Lactis Cse4,H4
pdb|2YFW|F Chain F, Heterotetramer Structure Of Kluyveromyces Lactis Cse4,H4
pdb|2YFW|H Chain H, Heterotetramer Structure Of Kluyveromyces Lactis Cse4,H4
Length = 103
Score = 26.6 bits (57), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 24/84 (28%), Positives = 40/84 (47%), Gaps = 4/84 (4%)
Query: 24 EILRDRFRLSTISIAEAEANQIGME-ISKPIIACISDLAFKYTEQLAKDLELFAQHAGRK 82
+ILRD + T A + G++ IS I + ++ + E + +D + +HA RK
Sbjct: 21 KILRDNIQGITKPAIRRLARRGGVKRISGLIYEEVRNVLKTFLESVIRDAVTYTEHAKRK 80
Query: 83 SVRMEDVILSAHRNERLAATLRSF 106
+V DV+ + R R TL F
Sbjct: 81 TVTSLDVVYALKRQGR---TLYGF 101
>pdb|4EO5|C Chain C, Yeast Asf1 Bound To H3H4G94P MUTANT
Length = 83
Score = 26.2 bits (56), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 14/43 (32%), Positives = 22/43 (51%), Gaps = 3/43 (6%)
Query: 64 YTEQLAKDLELFAQHAGRKSVRMEDVILSAHRNERLAATLRSF 106
+ E + +D + +HA RK+V DV+ + R R TL F
Sbjct: 42 FLENVIRDAVTYTEHAKRKTVTAMDVVYALKRQPR---TLYGF 81
>pdb|2HUE|C Chain C, Structure Of The H3-h4 Chaperone Asf1 Bound To Histones H3
And H4
pdb|3NQJ|B Chain B, Crystal Structure Of (Cenp-AH4)2 HETEROTETRAMER
Length = 84
Score = 25.8 bits (55), Expect = 7.9, Method: Compositional matrix adjust.
Identities = 14/43 (32%), Positives = 22/43 (51%), Gaps = 3/43 (6%)
Query: 64 YTEQLAKDLELFAQHAGRKSVRMEDVILSAHRNERLAATLRSF 106
+ E + +D + +HA RK+V DV+ + R R TL F
Sbjct: 43 FLENVIRDAVTYTEHAKRKTVTAMDVVYALKRQGR---TLYGF 82
>pdb|3KWQ|B Chain B, Structural Characterization Of H3k56q Nucleosomes And
Nucleo Arrays
pdb|3KWQ|F Chain F, Structural Characterization Of H3k56q Nucleosomes And
Nucleo Arrays
pdb|4H9S|C Chain C, Complex Structure 6 Of DaxxH3.3(SUB7)H4
pdb|4H9S|D Chain D, Complex Structure 6 Of DaxxH3.3(SUB7)H4
Length = 83
Score = 25.8 bits (55), Expect = 8.0, Method: Compositional matrix adjust.
Identities = 14/43 (32%), Positives = 22/43 (51%), Gaps = 3/43 (6%)
Query: 64 YTEQLAKDLELFAQHAGRKSVRMEDVILSAHRNERLAATLRSF 106
+ E + +D + +HA RK+V DV+ + R R TL F
Sbjct: 42 FLENVIRDAVTYTEHAKRKTVTAMDVVYALKRQGR---TLYGF 81
>pdb|1HIO|D Chain D, Histone Octamer (Chicken), Chromosomal Protein, Alpha
Carbons Only
Length = 76
Score = 25.8 bits (55), Expect = 8.8, Method: Compositional matrix adjust.
Identities = 14/43 (32%), Positives = 22/43 (51%), Gaps = 3/43 (6%)
Query: 64 YTEQLAKDLELFAQHAGRKSVRMEDVILSAHRNERLAATLRSF 106
+ E + +D + +HA RK+V DV+ + R R TL F
Sbjct: 35 FLENVIRDAVTYTEHAKRKTVTAMDVVYALKRQGR---TLYGF 74
>pdb|1P3G|B Chain B, Crystallographic Studies Of Nucleosome Core Particles
Containing Histone 'sin' Mutants
pdb|1P3G|F Chain F, Crystallographic Studies Of Nucleosome Core Particles
Containing Histone 'sin' Mutants
Length = 102
Score = 25.8 bits (55), Expect = 9.2, Method: Compositional matrix adjust.
Identities = 24/84 (28%), Positives = 38/84 (45%), Gaps = 4/84 (4%)
Query: 24 EILRDRFRLSTISIAEAEANQIGM-EISKPIIACISDLAFKYTEQLAKDLELFAQHAGRK 82
++LRD + T A + G+ EIS I + + E + +D + +HA RK
Sbjct: 20 KVLRDNIQGITKPAIRRLARRGGVKEISGLIYEETRGVLKVFLENVIRDAVTYTEHAKRK 79
Query: 83 SVRMEDVILSAHRNERLAATLRSF 106
+V DV+ + R R TL F
Sbjct: 80 TVTAMDVVYALKRQGR---TLYGF 100
>pdb|3AZN|B Chain B, Crystal Structure Of Human Nucleosome Core Particle
Containing H4k91q Mutation
pdb|3AZN|F Chain F, Crystal Structure Of Human Nucleosome Core Particle
Containing H4k91q Mutation
Length = 106
Score = 25.8 bits (55), Expect = 9.5, Method: Compositional matrix adjust.
Identities = 14/43 (32%), Positives = 22/43 (51%), Gaps = 3/43 (6%)
Query: 64 YTEQLAKDLELFAQHAGRKSVRMEDVILSAHRNERLAATLRSF 106
+ E + +D + +HA RK+V DV+ + R R TL F
Sbjct: 65 FLENVIRDAVTYTEHAKRKTVTAMDVVYALQRQGR---TLYGF 104
>pdb|1P3B|B Chain B, Crystallographic Studies Of Nucleosome Core Particles
Containing Histone 'sin' Mutants
pdb|1P3B|F Chain F, Crystallographic Studies Of Nucleosome Core Particles
Containing Histone 'sin' Mutants
Length = 102
Score = 25.4 bits (54), Expect = 9.8, Method: Compositional matrix adjust.
Identities = 14/43 (32%), Positives = 22/43 (51%), Gaps = 3/43 (6%)
Query: 64 YTEQLAKDLELFAQHAGRKSVRMEDVILSAHRNERLAATLRSF 106
+ E + +D + +HA RK+V DV+ + R R TL F
Sbjct: 61 FLENVIRDAVTYTEHAKRKTVTAMDVVYALKRQGR---TLYGF 100
>pdb|2NQB|B Chain B, Drosophila Nucleosome Structure
pdb|2NQB|F Chain F, Drosophila Nucleosome Structure
Length = 103
Score = 25.4 bits (54), Expect = 9.9, Method: Compositional matrix adjust.
Identities = 14/43 (32%), Positives = 22/43 (51%), Gaps = 3/43 (6%)
Query: 64 YTEQLAKDLELFAQHAGRKSVRMEDVILSAHRNERLAATLRSF 106
+ E + +D + +HA RK+V DV+ + R R TL F
Sbjct: 62 FLENVIRDAVTYTEHAKRKTVTAMDVVYALKRQGR---TLYGF 101
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.315 0.129 0.340
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,880,493
Number of Sequences: 62578
Number of extensions: 84519
Number of successful extensions: 257
Number of sequences better than 100.0: 44
Number of HSP's better than 100.0 without gapping: 40
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 217
Number of HSP's gapped (non-prelim): 44
length of query: 141
length of database: 14,973,337
effective HSP length: 89
effective length of query: 52
effective length of database: 9,403,895
effective search space: 489002540
effective search space used: 489002540
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 46 (22.3 bits)