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= 038014
(140 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4G91|B Chain B, Ccaat-Binding Complex From Aspergillus Nidulans
pdb|4G92|B Chain B, Ccaat-Binding Complex From Aspergillus Nidulans With Dna
Length = 92
Score = 145 bits (367), Expect = 6e-36, Method: Compositional matrix adjust.
Identities = 67/92 (72%), Positives = 79/92 (85%)
Query: 32 IKEQDRLLPIANVGRIMKQILPPNAKISKEAKETMQECVSEFISFVTGEASDKCHKEKRK 91
+KEQDR LPIANV RIMK LP NAKI+KEAKE MQECVSEFISF+T EAS+KC +EKRK
Sbjct: 1 MKEQDRWLPIANVARIMKLALPENAKIAKEAKECMQECVSEFISFITSEASEKCQQEKRK 60
Query: 92 TVNGDDICWALATLGFDNYADQLKRYLHRYRE 123
TVNG+DI +A+ +LGF+NYA+ LK YL +YRE
Sbjct: 61 TVNGEDILFAMTSLGFENYAEALKIYLSKYRE 92
>pdb|4AWL|B Chain B, The Nf-y Transcription Factor Is Structurally And
Functionally A Sequence Specific Histone
Length = 94
Score = 133 bits (334), Expect = 3e-32, Method: Compositional matrix adjust.
Identities = 58/92 (63%), Positives = 76/92 (82%)
Query: 32 IKEQDRLLPIANVGRIMKQILPPNAKISKEAKETMQECVSEFISFVTGEASDKCHKEKRK 91
+EQD LPIANV RIMK +P KI+K+AKE +QECVSEFISF+T EAS++CH+EKRK
Sbjct: 3 FREQDIYLPIANVARIMKNAIPQTGKIAKDAKECVQECVSEFISFITSEASERCHQEKRK 62
Query: 92 TVNGDDICWALATLGFDNYADQLKRYLHRYRE 123
T+NG+DI +A++TLGFD+Y + LK YL ++RE
Sbjct: 63 TINGEDILFAMSTLGFDSYVEPLKLYLQKFRE 94
>pdb|1N1J|A Chain A, Crystal Structure Of The Nf-YbNF-Yc Histone Pair
Length = 93
Score = 133 bits (334), Expect = 4e-32, Method: Compositional matrix adjust.
Identities = 58/92 (63%), Positives = 76/92 (82%)
Query: 32 IKEQDRLLPIANVGRIMKQILPPNAKISKEAKETMQECVSEFISFVTGEASDKCHKEKRK 91
+EQD LPIANV RIMK +P KI+K+AKE +QECVSEFISF+T EAS++CH+EKRK
Sbjct: 2 FREQDIYLPIANVARIMKNAIPQTGKIAKDAKECVQECVSEFISFITSEASERCHQEKRK 61
Query: 92 TVNGDDICWALATLGFDNYADQLKRYLHRYRE 123
T+NG+DI +A++TLGFD+Y + LK YL ++RE
Sbjct: 62 TINGEDILFAMSTLGFDSYVEPLKLYLQKFRE 93
>pdb|1JFI|B Chain B, Crystal Structure Of The Nc2-Tbp-Dna Ternary Complex
Length = 179
Score = 67.4 bits (163), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 33/109 (30%), Positives = 65/109 (59%), Gaps = 8/109 (7%)
Query: 20 VGASSGTDQDGVIKEQDRLLPIANVGRIMKQILPPNAKISKEAKETMQECVSEFISFVTG 79
+ +SSG D D I P A + +++K+ LP N +++ +A+E + C +EFI ++
Sbjct: 4 MASSSGNDDDLTI-------PRAAINKMIKETLP-NVRVANDARELVVNCCTEFIHLISS 55
Query: 80 EASDKCHKEKRKTVNGDDICWALATLGFDNYADQLKRYLHRYRELEGER 128
EA++ C+K ++KT++ + + AL +LGF +Y ++K L + + +R
Sbjct: 56 EANEICNKSEKKTISPEHVIQALESLGFGSYISEVKEVLQECKTVALKR 104
>pdb|2BYK|B Chain B, Histone Fold Heterodimer Of The Chromatin Accessibility
Complex
pdb|2BYK|D Chain D, Histone Fold Heterodimer Of The Chromatin Accessibility
Complex
pdb|2BYM|B Chain B, Histone Fold Heterodimer Of The Chromatin Accessibility
Complex
pdb|2BYM|D Chain D, Histone Fold Heterodimer Of The Chromatin Accessibility
Complex
Length = 128
Score = 62.4 bits (150), Expect = 8e-11, Method: Compositional matrix adjust.
Identities = 32/88 (36%), Positives = 49/88 (55%)
Query: 35 QDRLLPIANVGRIMKQILPPNAKISKEAKETMQECVSEFISFVTGEASDKCHKEKRKTVN 94
+D LP A +GR++K+ LP +A +SKEA+ + S F FVT ++ HK+ KT+
Sbjct: 6 EDLNLPNAVIGRLIKEALPESASVSKEARAAIARAASVFAIFVTSSSTALAHKQNHKTIT 65
Query: 95 GDDICWALATLGFDNYADQLKRYLHRYR 122
DI L L F+++ L + L YR
Sbjct: 66 AKDILQTLTELDFESFVPSLTQDLEVYR 93
>pdb|1N1J|B Chain B, Crystal Structure Of The Nf-YbNF-Yc Histone Pair
Length = 97
Score = 33.1 bits (74), Expect = 0.049, Method: Compositional matrix adjust.
Identities = 25/73 (34%), Positives = 37/73 (50%), Gaps = 5/73 (6%)
Query: 39 LPIANVGRIMKQILPPNAK-ISKEAKETMQECVSEFISFVTGEASDKCHKEKRKTVNGDD 97
LP+A + +IMK L + K IS EA + FI+ +T A KR+T+ +D
Sbjct: 20 LPLARIKKIMK--LDEDVKMISAEAPVLFAKAAQIFITELTLRAWIHTEDNKRRTLQRND 77
Query: 98 ICWALATLGFDNY 110
I A+A FD +
Sbjct: 78 I--AMAITKFDQF 88
>pdb|4AWL|C Chain C, The Nf-y Transcription Factor Is Structurally And
Functionally A Sequence Specific Histone
Length = 94
Score = 33.1 bits (74), Expect = 0.051, Method: Compositional matrix adjust.
Identities = 25/73 (34%), Positives = 37/73 (50%), Gaps = 5/73 (6%)
Query: 39 LPIANVGRIMKQILPPNAK-ISKEAKETMQECVSEFISFVTGEASDKCHKEKRKTVNGDD 97
LP+A + +IMK L + K IS EA + FI+ +T A KR+T+ +D
Sbjct: 17 LPLARIKKIMK--LDEDVKMISAEAPVLFAKAAQIFITELTLRAWIHTEDNKRRTLQRND 74
Query: 98 ICWALATLGFDNY 110
I A+A FD +
Sbjct: 75 I--AMAITKFDQF 85
>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 = 33.1 bits (74), Expect = 0.051, Method: Compositional matrix adjust.
Identities = 20/64 (31%), Positives = 33/64 (51%), Gaps = 2/64 (3%)
Query: 39 LPIANVGRIMKQILPPNAKISKEAKETMQECVSEFISFVTGEASDKCHKEKRKTVNGDDI 98
LPIA +GRI+K ++S +A+ T+ + + E + EA RKT+ +DI
Sbjct: 3 LPIAPIGRIIKD--AGAERVSDDARITLAKILEEMGRDIASEAIKLARHAGRKTIKAEDI 60
Query: 99 CWAL 102
A+
Sbjct: 61 ELAV 64
>pdb|4B9W|A Chain A, Structure Of Extended Tudor Domain Td3 From Mouse Tdrd1 In
Complex With Mili Peptide Containing Dimethylarginine
45.
pdb|4B9W|B Chain B, Structure Of Extended Tudor Domain Td3 From Mouse Tdrd1 In
Complex With Mili Peptide Containing Dimethylarginine 45
Length = 201
Score = 32.7 bits (73), Expect = 0.062, Method: Compositional matrix adjust.
Identities = 18/45 (40%), Positives = 21/45 (46%)
Query: 26 TDQDGVIKEQDRLLPIANVGRIMKQILPPNAKISKEAKETMQECV 70
TDQ I Q LLP + + I PPN +KEA Q CV
Sbjct: 111 TDQLQAILPQFLLLPFQGMQCWLVDIQPPNKHWTKEATARFQACV 155
>pdb|4B9X|A Chain A, Structure Of Extended Tudor Domain Td3 From Mouse Tdrd1
Length = 226
Score = 32.7 bits (73), Expect = 0.074, Method: Compositional matrix adjust.
Identities = 18/45 (40%), Positives = 21/45 (46%)
Query: 26 TDQDGVIKEQDRLLPIANVGRIMKQILPPNAKISKEAKETMQECV 70
TDQ I Q LLP + + I PPN +KEA Q CV
Sbjct: 111 TDQLQAILPQFLLLPFQGMQCWLVDIQPPNKHWTKEATARFQACV 155
>pdb|1B6W|A Chain A, Crystal Structure Of The Selenomethionine Variant Of
Histone Hmfb From Methanothermus Fervidus
Length = 69
Score = 32.3 bits (72), Expect = 0.093, Method: Compositional matrix adjust.
Identities = 20/64 (31%), Positives = 33/64 (51%), Gaps = 2/64 (3%)
Query: 39 LPIANVGRIMKQILPPNAKISKEAKETMQECVSEFISFVTGEASDKCHKEKRKTVNGDDI 98
LPIA +GRI+K ++S +A+ T+ + + E + EA RKT+ +DI
Sbjct: 3 LPIAPIGRIIKD--AGAERVSDDARITLAKILEEXGRDIASEAIKLARHAGRKTIKAEDI 60
Query: 99 CWAL 102
A+
Sbjct: 61 ELAV 64
>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 = 31.2 bits (69), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 21/66 (31%), Positives = 33/66 (50%), Gaps = 8/66 (12%)
Query: 39 LPIANVGRIMKQILPPNA---KISKEAKETMQECVSEFISFVTGEASDKCHKEKRKTVNG 95
LPIA +GRI+K NA ++S +A+ + + + E + EA RKT+
Sbjct: 3 LPIAPIGRIIK-----NAGAERVSDDARIALAKVLEEMGEEIASEAVKLAKHAGRKTIKA 57
Query: 96 DDICWA 101
+DI A
Sbjct: 58 EDIELA 63
>pdb|1HTA|A Chain A, Crystal Structure Of The Histone Hmfa From Methanothermus
Fervidus
Length = 69
Score = 31.2 bits (69), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 21/66 (31%), Positives = 33/66 (50%), Gaps = 8/66 (12%)
Query: 39 LPIANVGRIMKQILPPNA---KISKEAKETMQECVSEFISFVTGEASDKCHKEKRKTVNG 95
LPIA +GRI+K NA ++S +A+ + + + E + EA RKT+
Sbjct: 4 LPIAPIGRIIK-----NAGAERVSDDARIALAKVLEEMGEEIASEAVKLAKHAGRKTIKA 58
Query: 96 DDICWA 101
+DI A
Sbjct: 59 EDIELA 64
>pdb|4G91|C Chain C, Ccaat-Binding Complex From Aspergillus Nidulans
pdb|4G92|C Chain C, Ccaat-Binding Complex From Aspergillus Nidulans With Dna
Length = 119
Score = 30.4 bits (67), Expect = 0.37, Method: Compositional matrix adjust.
Identities = 25/79 (31%), Positives = 37/79 (46%), Gaps = 2/79 (2%)
Query: 39 LPIANVGRIMKQILPPNAKISKEAKETMQECVSEFISFVTGEASDKCHKEKRKTVNGDDI 98
LP+A + ++MK P IS EA + FI+ +T A KR+T+ DI
Sbjct: 42 LPLARIKKVMKAD-PEVKMISAEAPILFAKGCDVFITELTMRAWIHAEDNKRRTLQRSDI 100
Query: 99 CWALA-TLGFDNYADQLKR 116
AL+ + FD D + R
Sbjct: 101 AAALSKSDMFDFLIDIVPR 119
>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 = 29.3 bits (64), Expect = 0.74, Method: Compositional matrix adjust.
Identities = 18/64 (28%), Positives = 35/64 (54%), Gaps = 2/64 (3%)
Query: 39 LPIANVGRIMKQILPPNAKISKEAKETMQECVSEFISFVTGEASDKCHKEKRKTVNGDDI 98
LPIA V R++++ ++S++A + + E + E+ + +A + RKTV +DI
Sbjct: 7 LPIAPVDRLIRK--AGAERVSEQAAKVLAEYLEEYAIEIAKKAVEFARHAGRKTVKVEDI 64
Query: 99 CWAL 102
A+
Sbjct: 65 KLAI 68
>pdb|2AVW|A Chain A, Crystal Structure Of Monoclinic Form Of Streptococcus
Mac-1
pdb|2AVW|B Chain B, Crystal Structure Of Monoclinic Form Of Streptococcus
Mac-1
pdb|2AVW|C Chain C, Crystal Structure Of Monoclinic Form Of Streptococcus
Mac-1
pdb|2AVW|D Chain D, Crystal Structure Of Monoclinic Form Of Streptococcus
Mac-1
pdb|2AVW|E Chain E, Crystal Structure Of Monoclinic Form Of Streptococcus
Mac-1
pdb|2AVW|F Chain F, Crystal Structure Of Monoclinic Form Of Streptococcus
Mac-1
Length = 311
Score = 28.1 bits (61), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 18/40 (45%), Positives = 21/40 (52%), Gaps = 7/40 (17%)
Query: 91 KTVNG-DDICWALATLG------FDNYADQLKRYLHRYRE 123
KT NG DD+ AT G FD DQ+KRYL + E
Sbjct: 56 KTFNGKDDLLAGAATAGNMLHWWFDQNKDQIKRYLEEHPE 95
>pdb|1Y08|A Chain A, Structure Of The Streptococcal Endopeptidase Ides, A Novel
Cysteine Proteinase With Strict Specificity For Igg
Length = 323
Score = 28.1 bits (61), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 18/40 (45%), Positives = 21/40 (52%), Gaps = 7/40 (17%)
Query: 91 KTVNG-DDICWALATLG------FDNYADQLKRYLHRYRE 123
KT NG DD+ AT G FD DQ+KRYL + E
Sbjct: 68 KTFNGKDDLLSGAATAGNMLHWWFDQNKDQIKRYLEEHPE 107
>pdb|2AU1|A Chain A, Crystal Structure Of Group A Streptococcus Mac-1
Orthorhombic Form
Length = 292
Score = 27.7 bits (60), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 18/40 (45%), Positives = 21/40 (52%), Gaps = 7/40 (17%)
Query: 91 KTVNG-DDICWALATLG------FDNYADQLKRYLHRYRE 123
KT NG DD+ AT G FD DQ+KRYL + E
Sbjct: 37 KTFNGKDDLLCGAATAGNMLHWWFDQNKDQIKRYLEEHPE 76
>pdb|2YEQ|A Chain A, Structure Of Phod
pdb|2YEQ|B Chain B, Structure Of Phod
Length = 527
Score = 26.6 bits (57), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 16/49 (32%), Positives = 26/49 (53%), Gaps = 1/49 (2%)
Query: 14 NSYNFTVGASSGTDQDGVIKEQDRLLP-IANVGRIMKQILPPNAKISKE 61
+SY FT+G +SG + RL P N G + KQ +P +++K+
Sbjct: 5 SSYPFTLGVASGDPLSDSVVLWTRLAPDPLNGGGMPKQAVPVKWEVAKD 53
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 0.132 0.383
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,823,791
Number of Sequences: 62578
Number of extensions: 139372
Number of successful extensions: 239
Number of sequences better than 100.0: 21
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 14
Number of HSP's that attempted gapping in prelim test: 232
Number of HSP's gapped (non-prelim): 21
length of query: 140
length of database: 14,973,337
effective HSP length: 89
effective length of query: 51
effective length of database: 9,403,895
effective search space: 479598645
effective search space used: 479598645
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 46 (22.3 bits)