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= 036580
(186 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4AWL|B Chain B, The Nf-y Transcription Factor Is Structurally And
Functionally A Sequence Specific Histone
Length = 94
Score = 152 bits (385), Expect = 8e-38, Method: Compositional matrix adjust.
Identities = 68/94 (72%), Positives = 84/94 (89%)
Query: 22 LSPREQDRFLPIANVSRIMKKALPANAKISKDAKETVQECVSEFISFVTGEASDKCQREK 81
+S REQD +LPIANV+RIMK A+P KI+KDAKE VQECVSEFISF+T EAS++C +EK
Sbjct: 1 MSFREQDIYLPIANVARIMKNAIPQTGKIAKDAKECVQECVSEFISFITSEASERCHQEK 60
Query: 82 RKTINGDDLLWAMTTLGFEEYVEPLKVYLQRFRE 115
RKTING+D+L+AM+TLGF+ YVEPLK+YLQ+FRE
Sbjct: 61 RKTINGEDILFAMSTLGFDSYVEPLKLYLQKFRE 94
>pdb|1N1J|A Chain A, Crystal Structure Of The Nf-YbNF-Yc Histone Pair
Length = 93
Score = 152 bits (383), Expect = 2e-37, Method: Compositional matrix adjust.
Identities = 68/93 (73%), Positives = 83/93 (89%)
Query: 23 SPREQDRFLPIANVSRIMKKALPANAKISKDAKETVQECVSEFISFVTGEASDKCQREKR 82
S REQD +LPIANV+RIMK A+P KI+KDAKE VQECVSEFISF+T EAS++C +EKR
Sbjct: 1 SFREQDIYLPIANVARIMKNAIPQTGKIAKDAKECVQECVSEFISFITSEASERCHQEKR 60
Query: 83 KTINGDDLLWAMTTLGFEEYVEPLKVYLQRFRE 115
KTING+D+L+AM+TLGF+ YVEPLK+YLQ+FRE
Sbjct: 61 KTINGEDILFAMSTLGFDSYVEPLKLYLQKFRE 93
>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 = 150 bits (379), Expect = 4e-37, Method: Compositional matrix adjust.
Identities = 66/91 (72%), Positives = 83/91 (91%)
Query: 25 REQDRFLPIANVSRIMKKALPANAKISKDAKETVQECVSEFISFVTGEASDKCQREKRKT 84
+EQDR+LPIANV+RIMK ALP NAKI+K+AKE +QECVSEFISF+T EAS+KCQ+EKRKT
Sbjct: 2 KEQDRWLPIANVARIMKLALPENAKIAKEAKECMQECVSEFISFITSEASEKCQQEKRKT 61
Query: 85 INGDDLLWAMTTLGFEEYVEPLKVYLQRFRE 115
+NG+D+L+AMT+LGFE Y E LK+YL ++RE
Sbjct: 62 VNGEDILFAMTSLGFENYAEALKIYLSKYRE 92
>pdb|1JFI|B Chain B, Crystal Structure Of The Nc2-Tbp-Dna Ternary Complex
Length = 179
Score = 67.8 bits (164), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 29/89 (32%), Positives = 58/89 (65%), Gaps = 1/89 (1%)
Query: 28 DRFLPIANVSRIMKKALPANAKISKDAKETVQECVSEFISFVTGEASDKCQREKRKTING 87
D +P A +++++K+ LP N +++ DA+E V C +EFI ++ EA++ C + ++KTI+
Sbjct: 13 DLTIPRAAINKMIKETLP-NVRVANDARELVVNCCTEFIHLISSEANEICNKSEKKTISP 71
Query: 88 DDLLWAMTTLGFEEYVEPLKVYLQRFREM 116
+ ++ A+ +LGF Y+ +K LQ + +
Sbjct: 72 EHVIQALESLGFGSYISEVKEVLQECKTV 100
>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 = 58.2 bits (139), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 32/90 (35%), Positives = 51/90 (56%)
Query: 25 REQDRFLPIANVSRIMKKALPANAKISKDAKETVQECVSEFISFVTGEASDKCQREKRKT 84
R +D LP A + R++K+ALP +A +SK+A+ + S F FVT ++ ++ KT
Sbjct: 4 RIEDLNLPNAVIGRLIKEALPESASVSKEARAAIARAASVFAIFVTSSSTALAHKQNHKT 63
Query: 85 INGDDLLWAMTTLGFEEYVEPLKVYLQRFR 114
I D+L +T L FE +V L L+ +R
Sbjct: 64 ITAKDILQTLTELDFESFVPSLTQDLEVYR 93
>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 = 32.7 bits (73), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 21/64 (32%), Positives = 34/64 (53%), Gaps = 2/64 (3%)
Query: 31 LPIANVSRIMKKALPANAKISKDAKETVQECVSEFISFVTGEASDKCQREKRKTINGDDL 90
LPIA + RI+K A ++S DA+ T+ + + E + EA + RKTI +D+
Sbjct: 3 LPIAPIGRIIKDA--GAERVSDDARITLAKILEEMGRDIASEAIKLARHAGRKTIKAEDI 60
Query: 91 LWAM 94
A+
Sbjct: 61 ELAV 64
>pdb|1B6W|A Chain A, Crystal Structure Of The Selenomethionine Variant Of
Histone Hmfb From Methanothermus Fervidus
Length = 69
Score = 32.0 bits (71), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 21/64 (32%), Positives = 34/64 (53%), Gaps = 2/64 (3%)
Query: 31 LPIANVSRIMKKALPANAKISKDAKETVQECVSEFISFVTGEASDKCQREKRKTINGDDL 90
LPIA + RI+K A ++S DA+ T+ + + E + EA + RKTI +D+
Sbjct: 3 LPIAPIGRIIKDA--GAERVSDDARITLAKILEEXGRDIASEAIKLARHAGRKTIKAEDI 60
Query: 91 LWAM 94
A+
Sbjct: 61 ELAV 64
>pdb|1HTA|A Chain A, Crystal Structure Of The Histone Hmfa From
Methanothermus Fervidus
Length = 69
Score = 32.0 bits (71), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 20/63 (31%), Positives = 32/63 (50%), Gaps = 2/63 (3%)
Query: 31 LPIANVSRIMKKALPANAKISKDAKETVQECVSEFISFVTGEASDKCQREKRKTINGDDL 90
LPIA + RI+K A ++S DA+ + + + E + EA + RKTI +D+
Sbjct: 4 LPIAPIGRIIKNA--GAERVSDDARIALAKVLEEMGEEIASEAVKLAKHAGRKTIKAEDI 61
Query: 91 LWA 93
A
Sbjct: 62 ELA 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 = 32.0 bits (71), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 20/63 (31%), Positives = 32/63 (50%), Gaps = 2/63 (3%)
Query: 31 LPIANVSRIMKKALPANAKISKDAKETVQECVSEFISFVTGEASDKCQREKRKTINGDDL 90
LPIA + RI+K A ++S DA+ + + + E + EA + RKTI +D+
Sbjct: 3 LPIAPIGRIIKNA--GAERVSDDARIALAKVLEEMGEEIASEAVKLAKHAGRKTIKAEDI 60
Query: 91 LWA 93
A
Sbjct: 61 ELA 63
>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 = 30.0 bits (66), Expect = 0.84, Method: Compositional matrix adjust.
Identities = 17/72 (23%), Positives = 33/72 (45%)
Query: 50 ISKDAKETVQECVSEFISFVTGEASDKCQREKRKTINGDDLLWAMTTLGFEEYVEPLKVY 109
+++DA + V++C + ++ + Q RKT+ D+ M G PL V
Sbjct: 25 VTRDAYKIVEKCSERYFKQISSDLEAYSQHAGRKTVEMADVELLMRRQGLVTDKMPLHVL 84
Query: 110 LQRFREMEGEKM 121
++R +E K+
Sbjct: 85 VERHLPLEYRKL 96
>pdb|1N1J|B Chain B, Crystal Structure Of The Nf-YbNF-Yc Histone Pair
Length = 97
Score = 29.3 bits (64), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 22/73 (30%), Positives = 38/73 (52%), Gaps = 5/73 (6%)
Query: 31 LPIANVSRIMKKALPANAK-ISKDAKETVQECVSEFISFVTGEASDKCQREKRKTINGDD 89
LP+A + +IMK L + K IS +A + FI+ +T A + KR+T+ +D
Sbjct: 20 LPLARIKKIMK--LDEDVKMISAEAPVLFAKAAQIFITELTLRAWIHTEDNKRRTLQRND 77
Query: 90 LLWAMTTLGFEEY 102
+ AM F+++
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 = 28.9 bits (63), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 22/73 (30%), Positives = 38/73 (52%), Gaps = 5/73 (6%)
Query: 31 LPIANVSRIMKKALPANAK-ISKDAKETVQECVSEFISFVTGEASDKCQREKRKTINGDD 89
LP+A + +IMK L + K IS +A + FI+ +T A + KR+T+ +D
Sbjct: 17 LPLARIKKIMK--LDEDVKMISAEAPVLFAKAAQIFITELTLRAWIHTEDNKRRTLQRND 74
Query: 90 LLWAMTTLGFEEY 102
+ AM F+++
Sbjct: 75 I--AMAITKFDQF 85
>pdb|1BRT|A Chain A, Bromoperoxidase A2 Mutant M99t
Length = 277
Score = 28.9 bits (63), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 11/19 (57%), Positives = 14/19 (73%)
Query: 28 DRFLPIANVSRIMKKALPA 46
DR LPI N +R+ KALP+
Sbjct: 228 DRTLPIENTARVFHKALPS 246
>pdb|1BRO|A Chain A, Bromoperoxidase A2
pdb|1BRO|B Chain B, Bromoperoxidase A2
Length = 277
Score = 28.9 bits (63), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 11/19 (57%), Positives = 14/19 (73%)
Query: 28 DRFLPIANVSRIMKKALPA 46
DR LPI N +R+ KALP+
Sbjct: 228 DRTLPIENTARVFHKALPS 246
>pdb|1A7U|A Chain A, Chloroperoxidase T
pdb|1A7U|B Chain B, Chloroperoxidase T
pdb|1A8U|A Chain A, Chloroperoxidase TBENZOATE COMPLEX
pdb|1A8U|B Chain B, Chloroperoxidase TBENZOATE COMPLEX
Length = 277
Score = 28.5 bits (62), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 11/19 (57%), Positives = 14/19 (73%)
Query: 28 DRFLPIANVSRIMKKALPA 46
DR LPI N +R+ KALP+
Sbjct: 228 DRTLPIENTARVFHKALPS 246
>pdb|3VDX|A Chain A, Structure Of A 16 Nm Protein Cage Designed By Fusing
Symmetric Oligomeric Domains
pdb|3VDX|B Chain B, Structure Of A 16 Nm Protein Cage Designed By Fusing
Symmetric Oligomeric Domains
pdb|3VDX|C Chain C, Structure Of A 16 Nm Protein Cage Designed By Fusing
Symmetric Oligomeric Domains
pdb|4D9J|A Chain A, Structure Of A 16 Nm Protein Cage Designed By Fusing
Symmetric Oligomeric Domains
pdb|4D9J|B Chain B, Structure Of A 16 Nm Protein Cage Designed By Fusing
Symmetric Oligomeric Domains
pdb|4D9J|C Chain C, Structure Of A 16 Nm Protein Cage Designed By Fusing
Symmetric Oligomeric Domains
pdb|4D9J|D Chain D, Structure Of A 16 Nm Protein Cage Designed By Fusing
Symmetric Oligomeric Domains
pdb|4D9J|E Chain E, Structure Of A 16 Nm Protein Cage Designed By Fusing
Symmetric Oligomeric Domains
pdb|4D9J|F Chain F, Structure Of A 16 Nm Protein Cage Designed By Fusing
Symmetric Oligomeric Domains
pdb|4D9J|G Chain G, Structure Of A 16 Nm Protein Cage Designed By Fusing
Symmetric Oligomeric Domains
pdb|4D9J|H Chain H, Structure Of A 16 Nm Protein Cage Designed By Fusing
Symmetric Oligomeric Domains
pdb|4D9J|I Chain I, Structure Of A 16 Nm Protein Cage Designed By Fusing
Symmetric Oligomeric Domains
pdb|4D9J|J Chain J, Structure Of A 16 Nm Protein Cage Designed By Fusing
Symmetric Oligomeric Domains
pdb|4D9J|K Chain K, Structure Of A 16 Nm Protein Cage Designed By Fusing
Symmetric Oligomeric Domains
pdb|4D9J|L Chain L, Structure Of A 16 Nm Protein Cage Designed By Fusing
Symmetric Oligomeric Domains
Length = 456
Score = 28.5 bits (62), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 11/19 (57%), Positives = 14/19 (73%)
Query: 28 DRFLPIANVSRIMKKALPA 46
DR LPI N +R+ KALP+
Sbjct: 229 DRTLPIENTARVFHKALPS 247
>pdb|1F1E|A Chain A, Crystal Structure Of The Histone From Methanopyrus
Kandleri
Length = 154
Score = 27.7 bits (60), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 20/75 (26%), Positives = 35/75 (46%), Gaps = 4/75 (5%)
Query: 31 LPIANVSRIMKKALPANAKISKDAKETVQECVSEFISFVTGEASDKCQREKRKTINGDDL 90
LP A + RI ++ + ++S+DAK+T+ + V +V A +KT+ + L
Sbjct: 5 LPKAAIERIFRQGI-GERRLSQDAKDTIYDFVPTXAEYVANAAKSVLDASGKKTLXEEHL 63
Query: 91 LWAMTTL---GFEEY 102
L G E+Y
Sbjct: 64 KALADVLXVEGVEDY 78
>pdb|2BYK|A Chain A, Histone Fold Heterodimer Of The Chromatin Accessibility
Complex
pdb|2BYK|C Chain C, Histone Fold Heterodimer Of The Chromatin Accessibility
Complex
pdb|2BYM|A Chain A, Histone Fold Heterodimer Of The Chromatin Accessibility
Complex
pdb|2BYM|C Chain C, Histone Fold Heterodimer Of The Chromatin Accessibility
Complex
Length = 140
Score = 27.3 bits (59), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 24/97 (24%), Positives = 44/97 (45%), Gaps = 5/97 (5%)
Query: 24 PREQDRFLPIANVSRIMKKALPANAKISKDAKETVQECVSEFISFVTGEASDK--CQR-- 79
P + FLP++ V IMK ++ I+ + + +C F+ + G A + QR
Sbjct: 13 PPTAETFLPLSRVRTIMKSSM-DTGLITNEVLFLMTKCTELFVRHLAGAAYTEEFGQRPG 71
Query: 80 EKRKTINGDDLLWAMTTLGFEEYVEPLKVYLQRFREM 116
E K + ++ L F + P K+ + +F+EM
Sbjct: 72 EALKYEHLSQVVNKNKNLEFLLQIVPQKIRVHQFQEM 108
>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 = 26.9 bits (58), Expect = 6.5, Method: Compositional matrix adjust.
Identities = 18/60 (30%), Positives = 30/60 (50%), Gaps = 1/60 (1%)
Query: 31 LPIANVSRIMKKALPANAKISKDAKETVQECVSEFISFVTGEASDKCQREKRKTINGDDL 90
LP+A + ++MK A P IS +A + FI+ +T A + KR+T+ D+
Sbjct: 42 LPLARIKKVMK-ADPEVKMISAEAPILFAKGCDVFITELTMRAWIHAEDNKRRTLQRSDI 100
>pdb|3C5W|A Chain A, Complex Between Pp2a-Specific Methylesterase Pme-1 And
Pp2a Core Enzyme
Length = 232
Score = 26.9 bits (58), Expect = 7.2, Method: Compositional matrix adjust.
Identities = 11/37 (29%), Positives = 23/37 (62%)
Query: 36 VSRIMKKALPANAKISKDAKETVQECVSEFISFVTGE 72
V R+ + LPA ++++DAK V+ + E++ + G+
Sbjct: 40 VERLSQSLLPAIVELAEDAKWRVRLAIIEYMPLLAGQ 76
>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 = 26.6 bits (57), Expect = 8.9, Method: Compositional matrix adjust.
Identities = 16/72 (22%), Positives = 32/72 (44%)
Query: 50 ISKDAKETVQECVSEFISFVTGEASDKCQREKRKTINGDDLLWAMTTLGFEEYVEPLKVY 109
+++DA + V++ + ++ + Q RKT+ D+ M G PL V
Sbjct: 25 VTRDAYKIVEKASERYFKQISSDLEAYSQHAGRKTVEMADVELLMRRQGLVTDKMPLHVL 84
Query: 110 LQRFREMEGEKM 121
++R +E K+
Sbjct: 85 VERHLPLEYRKL 96
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
0.312 0.131 0.376
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,070,730
Number of Sequences: 62578
Number of extensions: 164126
Number of successful extensions: 354
Number of sequences better than 100.0: 21
Number of HSP's better than 100.0 without gapping: 12
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 341
Number of HSP's gapped (non-prelim): 22
length of query: 186
length of database: 14,973,337
effective HSP length: 93
effective length of query: 93
effective length of database: 9,153,583
effective search space: 851283219
effective search space used: 851283219
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 48 (23.1 bits)