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= psy13691
(103 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 65.9 bits (159), Expect = 6e-12, Method: Compositional matrix adjust.
Identities = 36/91 (39%), Positives = 64/91 (70%), Gaps = 4/91 (4%)
Query: 1 MAESLDDLNLPSAIIQRLIKEALPKDAEGKINVSKDVRLAAGKAASLFILHLTTEALSIA 60
M E ++DLNLP+A+I RLIKEALP+ A +VSK+ R A +AAS+F + +T+ + ++A
Sbjct: 1 MVERIEDLNLPNAVIGRLIKEALPESA----SVSKEARAAIARAASVFAIFVTSSSTALA 56
Query: 61 NEKNRKTLSGVDVIEGVKQIGFEVIIEILGK 91
+++N KT++ D+++ + ++ FE + L +
Sbjct: 57 HKQNHKTITAKDILQTLTELDFESFVPSLTQ 87
>pdb|1N1J|A Chain A, Crystal Structure Of The Nf-YbNF-Yc Histone Pair
Length = 93
Score = 50.8 bits (120), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 28/83 (33%), Positives = 50/83 (60%), Gaps = 4/83 (4%)
Query: 7 DLNLPSAIIQRLIKEALPKDAEGKINVSKDVRLAAGKAASLFILHLTTEALSIANEKNRK 66
D+ LP A + R++K A+P+ GKI +KD + + S FI +T+EA +++ RK
Sbjct: 6 DIYLPIANVARIMKNAIPQT--GKI--AKDAKECVQECVSEFISFITSEASERCHQEKRK 61
Query: 67 TLSGVDVIEGVKQIGFEVIIEIL 89
T++G D++ + +GF+ +E L
Sbjct: 62 TINGEDILFAMSTLGFDSYVEPL 84
>pdb|4AWL|B Chain B, The Nf-y Transcription Factor Is Structurally And
Functionally A Sequence Specific Histone
Length = 94
Score = 50.4 bits (119), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 28/83 (33%), Positives = 50/83 (60%), Gaps = 4/83 (4%)
Query: 7 DLNLPSAIIQRLIKEALPKDAEGKINVSKDVRLAAGKAASLFILHLTTEALSIANEKNRK 66
D+ LP A + R++K A+P+ GKI +KD + + S FI +T+EA +++ RK
Sbjct: 7 DIYLPIANVARIMKNAIPQT--GKI--AKDAKECVQECVSEFISFITSEASERCHQEKRK 62
Query: 67 TLSGVDVIEGVKQIGFEVIIEIL 89
T++G D++ + +GF+ +E L
Sbjct: 63 TINGEDILFAMSTLGFDSYVEPL 85
>pdb|1JFI|B Chain B, Crystal Structure Of The Nc2-Tbp-Dna Ternary Complex
Length = 179
Score = 50.4 bits (119), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 27/77 (35%), Positives = 43/77 (55%), Gaps = 5/77 (6%)
Query: 6 DDLNLPSAIIQRLIKEALPKDAEGKINVSKDVRLAAGKAASLFILHLTTEALSIANEKNR 65
DDL +P A I ++IKE LP + V+ D R + FI +++EA I N+ +
Sbjct: 12 DDLTIPRAAINKMIKETLPN-----VRVANDARELVVNCCTEFIHLISSEANEICNKSEK 66
Query: 66 KTLSGVDVIEGVKQIGF 82
KT+S VI+ ++ +GF
Sbjct: 67 KTISPEHVIQALESLGF 83
>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 = 47.8 bits (112), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 27/84 (32%), Positives = 47/84 (55%), Gaps = 4/84 (4%)
Query: 6 DDLNLPSAIIQRLIKEALPKDAEGKINVSKDVRLAAGKAASLFILHLTTEALSIANEKNR 65
D LP A + R++K ALP++A ++K+ + + S FI +T+EA ++ R
Sbjct: 4 QDRWLPIANVARIMKLALPENA----KIAKEAKECMQECVSEFISFITSEASEKCQQEKR 59
Query: 66 KTLSGVDVIEGVKQIGFEVIIEIL 89
KT++G D++ + +GFE E L
Sbjct: 60 KTVNGEDILFAMTSLGFENYAEAL 83
>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 = 30.8 bits (68), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 22/65 (33%), Positives = 30/65 (46%), Gaps = 6/65 (9%)
Query: 9 NLPSAIIQRLIKEALPKDAEGKINVSKDVRLAAGKAASLFILHLTTEALSIANEKNRKTL 68
LP A I R+IK A G VS D R+A K + +EA+ +A RKT+
Sbjct: 2 ELPIAPIGRIIKNA------GAERVSDDARIALAKVLEEMGEEIASEAVKLAKHAGRKTI 55
Query: 69 SGVDV 73
D+
Sbjct: 56 KAEDI 60
>pdb|1HTA|A Chain A, Crystal Structure Of The Histone Hmfa From
Methanothermus Fervidus
Length = 69
Score = 30.8 bits (68), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 22/65 (33%), Positives = 30/65 (46%), Gaps = 6/65 (9%)
Query: 9 NLPSAIIQRLIKEALPKDAEGKINVSKDVRLAAGKAASLFILHLTTEALSIANEKNRKTL 68
LP A I R+IK A G VS D R+A K + +EA+ +A RKT+
Sbjct: 3 ELPIAPIGRIIKNA------GAERVSDDARIALAKVLEEMGEEIASEAVKLAKHAGRKTI 56
Query: 69 SGVDV 73
D+
Sbjct: 57 KAEDI 61
>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 = 30.8 bits (68), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 21/66 (31%), Positives = 31/66 (46%), Gaps = 6/66 (9%)
Query: 8 LNLPSAIIQRLIKEALPKDAEGKINVSKDVRLAAGKAASLFILHLTTEALSIANEKNRKT 67
+ LP A I R+IK+A G VS D R+ K + +EA+ +A RKT
Sbjct: 1 MELPIAPIGRIIKDA------GAERVSDDARITLAKILEEMGRDIASEAIKLARHAGRKT 54
Query: 68 LSGVDV 73
+ D+
Sbjct: 55 IKAEDI 60
>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 = 30.0 bits (66), Expect = 0.32, Method: Compositional matrix adjust.
Identities = 21/74 (28%), Positives = 37/74 (50%), Gaps = 2/74 (2%)
Query: 19 IKEALPKDAEGKINVSKDVRLAAGKAASLFILHLTTEALSIANEKNRKTLSGVDVIEGV- 77
IK+ + D E K+ +S + + K +FI LT A A + R+TL D+ +
Sbjct: 47 IKKVMKADPEVKM-ISAEAPILFAKGCDVFITELTMRAWIHAEDNKRRTLQRSDIAAALS 105
Query: 78 KQIGFEVIIEILGK 91
K F+ +I+I+ +
Sbjct: 106 KSDMFDFLIDIVPR 119
>pdb|4AWL|C Chain C, The Nf-y Transcription Factor Is Structurally And
Functionally A Sequence Specific Histone
Length = 94
Score = 29.6 bits (65), Expect = 0.41, Method: Compositional matrix adjust.
Identities = 23/83 (27%), Positives = 43/83 (51%), Gaps = 6/83 (7%)
Query: 10 LPSAIIQRLIKEALPKDAEGKINVSKDVRLAAGKAASLFILHLTTEALSIANEKNRKTLS 69
LP A I++++K L +D + +S + + KAA +FI LT A + R+TL
Sbjct: 17 LPLARIKKIMK--LDEDVKM---ISAEAPVLFAKAAQIFITELTLRAWIHTEDNKRRTLQ 71
Query: 70 GVDVIEGVKQIG-FEVIIEILGK 91
D+ + + F+ +I+I+ +
Sbjct: 72 RNDIAMAITKFDQFDFLIDIVPR 94
>pdb|1N1J|B Chain B, Crystal Structure Of The Nf-YbNF-Yc Histone Pair
Length = 97
Score = 29.6 bits (65), Expect = 0.49, Method: Compositional matrix adjust.
Identities = 23/83 (27%), Positives = 43/83 (51%), Gaps = 6/83 (7%)
Query: 10 LPSAIIQRLIKEALPKDAEGKINVSKDVRLAAGKAASLFILHLTTEALSIANEKNRKTLS 69
LP A I++++K L +D + +S + + KAA +FI LT A + R+TL
Sbjct: 20 LPLARIKKIMK--LDEDVKM---ISAEAPVLFAKAAQIFITELTLRAWIHTEDNKRRTLQ 74
Query: 70 GVDVIEGVKQIG-FEVIIEILGK 91
D+ + + F+ +I+I+ +
Sbjct: 75 RNDIAMAITKFDQFDFLIDIVPR 97
>pdb|3O3R|A Chain A, Crystal Structure Of Akr1b14 In Complex With Nadp
pdb|3O3R|B Chain B, Crystal Structure Of Akr1b14 In Complex With Nadp
Length = 316
Score = 29.3 bits (64), Expect = 0.61, Method: Composition-based stats.
Identities = 15/42 (35%), Positives = 24/42 (57%)
Query: 20 KEALPKDAEGKINVSKDVRLAAGKAASLFILHLTTEALSIAN 61
KE LPKD++GK+ +SK L A + + +AL ++N
Sbjct: 120 KEFLPKDSQGKVLMSKSTFLDAWEGMEELVDQGLVKALGVSN 161
>pdb|3QKZ|A Chain A, Crystal Structure Of Mutant His269arg Akr1b14
pdb|3QKZ|B Chain B, Crystal Structure Of Mutant His269arg Akr1b14
Length = 316
Score = 29.3 bits (64), Expect = 0.62, Method: Composition-based stats.
Identities = 15/42 (35%), Positives = 24/42 (57%)
Query: 20 KEALPKDAEGKINVSKDVRLAAGKAASLFILHLTTEALSIAN 61
KE LPKD++GK+ +SK L A + + +AL ++N
Sbjct: 120 KEFLPKDSQGKVLMSKSTFLDAWEGMEELVDQGLVKALGVSN 161
>pdb|1B6W|A Chain A, Crystal Structure Of The Selenomethionine Variant Of
Histone Hmfb From Methanothermus Fervidus
Length = 69
Score = 28.9 bits (63), Expect = 0.83, Method: Compositional matrix adjust.
Identities = 21/65 (32%), Positives = 30/65 (46%), Gaps = 6/65 (9%)
Query: 9 NLPSAIIQRLIKEALPKDAEGKINVSKDVRLAAGKAASLFILHLTTEALSIANEKNRKTL 68
LP A I R+IK+A G VS D R+ K + +EA+ +A RKT+
Sbjct: 2 ELPIAPIGRIIKDA------GAERVSDDARITLAKILEEXGRDIASEAIKLARHAGRKTI 55
Query: 69 SGVDV 73
D+
Sbjct: 56 KAEDI 60
>pdb|1FRB|A Chain A, Fr-1 ProteinNADPHZOPOLRESTAT COMPLEX
Length = 315
Score = 26.6 bits (57), Expect = 3.9, Method: Composition-based stats.
Identities = 14/42 (33%), Positives = 21/42 (50%)
Query: 20 KEALPKDAEGKINVSKDVRLAAGKAASLFILHLTTEALSIAN 61
KE PKD +G+I SK L A + + +AL ++N
Sbjct: 119 KELFPKDDQGRILTSKTTFLEAWEGMEELVDQGLVKALGVSN 160
>pdb|1GEG|A Chain A, Cryatal Structure Analysis Of Meso-2,3-Butanediol
Dehydrogenase
pdb|1GEG|B Chain B, Cryatal Structure Analysis Of Meso-2,3-Butanediol
Dehydrogenase
pdb|1GEG|C Chain C, Cryatal Structure Analysis Of Meso-2,3-Butanediol
Dehydrogenase
pdb|1GEG|D Chain D, Cryatal Structure Analysis Of Meso-2,3-Butanediol
Dehydrogenase
pdb|1GEG|E Chain E, Cryatal Structure Analysis Of Meso-2,3-Butanediol
Dehydrogenase
pdb|1GEG|F Chain F, Cryatal Structure Analysis Of Meso-2,3-Butanediol
Dehydrogenase
pdb|1GEG|G Chain G, Cryatal Structure Analysis Of Meso-2,3-Butanediol
Dehydrogenase
pdb|1GEG|H Chain H, Cryatal Structure Analysis Of Meso-2,3-Butanediol
Dehydrogenase
Length = 256
Score = 25.8 bits (55), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 22/68 (32%), Positives = 33/68 (48%), Gaps = 7/68 (10%)
Query: 13 AIIQRLIKEALP------KDAEGKINVSKDVRLAAGKAASLFILHLTTEALSIANEKNRK 66
AI RL+K+ DA K V+ ++ A G A ++ + + + A E+ RK
Sbjct: 17 AIALRLVKDGFAVAIADYNDATAKA-VASEINQAGGHAVAVKVDVSDRDQVFAAVEQARK 75
Query: 67 TLSGVDVI 74
TL G DVI
Sbjct: 76 TLGGFDVI 83
>pdb|1KZH|A Chain A, Structure Of A Pyrophosphate-dependent Phosphofructokinase
From The Lyme Disease Spirochete Borrelia Burgdorferi
pdb|1KZH|B Chain B, Structure Of A Pyrophosphate-dependent Phosphofructokinase
From The Lyme Disease Spirochete Borrelia Burgdorferi
pdb|2F48|A Chain A, Crystal Structure Of A Novel Fructose 1,6-Bisphosphate And
Alf3 Containing Pyrophosphate-Dependent
Phosphofructo-1-Kinase Complex From Borrelia Burgdorferi
pdb|2F48|B Chain B, Crystal Structure Of A Novel Fructose 1,6-Bisphosphate And
Alf3 Containing Pyrophosphate-Dependent
Phosphofructo-1-Kinase Complex From Borrelia Burgdorferi
Length = 555
Score = 25.8 bits (55), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 13/28 (46%), Positives = 16/28 (57%)
Query: 8 LNLPSAIIQRLIKEALPKDAEGKINVSK 35
L+LP I LIK L +D G NVS+
Sbjct: 364 LSLPLFIQFELIKSILERDPHGNFNVSR 391
>pdb|3PEH|A Chain A, Crystal Structure Of The N-Terminal Domain Of An Hsp90
From Plasmodium Falciparum, Pfl1070c In The Presence Of
A Thienopyrimidine Derivative
pdb|3PEH|B Chain B, Crystal Structure Of The N-Terminal Domain Of An Hsp90
From Plasmodium Falciparum, Pfl1070c In The Presence Of
A Thienopyrimidine Derivative
pdb|3PEJ|A Chain A, Crystal Structure Of The N-Terminal Domain Of An Hsp90
From Plasmodium Falciparum, Pfl1070c In The Presence Of
Macbecin
pdb|3PEJ|B Chain B, Crystal Structure Of The N-Terminal Domain Of An Hsp90
From Plasmodium Falciparum, Pfl1070c In The Presence Of
Macbecin
Length = 281
Score = 25.8 bits (55), Expect = 6.8, Method: Compositional matrix adjust.
Identities = 13/37 (35%), Positives = 20/37 (54%)
Query: 27 AEGKINVSKDVRLAAGKAASLFILHLTTEALSIANEK 63
A+ K + KD R A K + LHL +A ++ N+K
Sbjct: 173 ADAKFTIYKDPRGATLKRGTRISLHLKEDATNLLNDK 209
>pdb|1YFR|A Chain A, Crystal Structure Of Alanyl-Trna Synthetase In Complex
With Atp And Magnesium
pdb|1YFR|B Chain B, Crystal Structure Of Alanyl-Trna Synthetase In Complex
With Atp And Magnesium
pdb|1YFS|A Chain A, The Crystal Structure Of Alanyl-Trna Synthetase In Complex
With L-Alanine
pdb|1YFS|B Chain B, The Crystal Structure Of Alanyl-Trna Synthetase In Complex
With L-Alanine
pdb|1YFT|A Chain A, The Crystal Structure Of The Catalytic Fragment Of Alanyl-
Trna Synthetase In Complex Wtih Glycine
pdb|1YGB|A Chain A, Crystal Structure Of The Catalytic Fragment Of Alanyl-Trna
Synthetase In Complex With L-Serine
Length = 465
Score = 25.4 bits (54), Expect = 9.6, Method: Composition-based stats.
Identities = 13/30 (43%), Positives = 16/30 (53%)
Query: 55 EALSIANEKNRKTLSGVDVIEGVKQIGFEV 84
E + A E+ RKTLSG +V GF V
Sbjct: 366 EVIQKALEEGRKTLSGKEVFTAYDTYGFPV 395
>pdb|1RIQ|A Chain A, The Crystal Structure Of The Catalytic Fragment Of The
Alanyl-Trna Synthetase
Length = 465
Score = 25.4 bits (54), Expect = 9.6, Method: Composition-based stats.
Identities = 13/30 (43%), Positives = 16/30 (53%)
Query: 55 EALSIANEKNRKTLSGVDVIEGVKQIGFEV 84
E + A E+ RKTLSG +V GF V
Sbjct: 366 EVIQKALEEGRKTLSGKEVFTAYDTYGFPV 395
>pdb|3HTZ|A Chain A, Crystal Structure Of The Catalytic Fragment Of Alanyl-Trna
Synthetase In Complex With L-Serine: Re-Refined
Length = 464
Score = 25.4 bits (54), Expect = 9.6, Method: Composition-based stats.
Identities = 13/30 (43%), Positives = 16/30 (53%)
Query: 55 EALSIANEKNRKTLSGVDVIEGVKQIGFEV 84
E + A E+ RKTLSG +V GF V
Sbjct: 365 EVIQKALEEGRKTLSGKEVFTAYDTYGFPV 394
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
0.314 0.132 0.338
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,489,846
Number of Sequences: 62578
Number of extensions: 77913
Number of successful extensions: 200
Number of sequences better than 100.0: 31
Number of HSP's better than 100.0 without gapping: 22
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 176
Number of HSP's gapped (non-prelim): 31
length of query: 103
length of database: 14,973,337
effective HSP length: 68
effective length of query: 35
effective length of database: 10,718,033
effective search space: 375131155
effective search space used: 375131155
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: 45 (21.9 bits)