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= 030714
(173 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1N1J|A Chain A, Crystal Structure Of The Nf-YbNF-Yc Histone Pair
Length = 93
Score = 152 bits (383), Expect = 1e-37, Method: Compositional matrix adjust.
Identities = 66/93 (70%), Positives = 82/93 (88%)
Query: 25 GVREQDRYLPIANISRIMKKALPANGKIAKDAKDTVQECVSEFISFITSEASDKCQKEKR 84
REQD YLPIAN++RIMK A+P GKIAKDAK+ VQECVSEFISFITSEAS++C +EKR
Sbjct: 1 SFREQDIYLPIANVARIMKNAIPQTGKIAKDAKECVQECVSEFISFITSEASERCHQEKR 60
Query: 85 KTINGDDLLWAMATLGFEDYIDPLKAYLMRYRE 117
KTING+D+L+AM+TLGF+ Y++PLK YL ++RE
Sbjct: 61 KTINGEDILFAMSTLGFDSYVEPLKLYLQKFRE 93
>pdb|4AWL|B Chain B, The Nf-y Transcription Factor Is Structurally And
Functionally A Sequence Specific Histone
Length = 94
Score = 152 bits (383), Expect = 1e-37, Method: Compositional matrix adjust.
Identities = 66/93 (70%), Positives = 82/93 (88%)
Query: 25 GVREQDRYLPIANISRIMKKALPANGKIAKDAKDTVQECVSEFISFITSEASDKCQKEKR 84
REQD YLPIAN++RIMK A+P GKIAKDAK+ VQECVSEFISFITSEAS++C +EKR
Sbjct: 2 SFREQDIYLPIANVARIMKNAIPQTGKIAKDAKECVQECVSEFISFITSEASERCHQEKR 61
Query: 85 KTINGDDLLWAMATLGFEDYIDPLKAYLMRYRE 117
KTING+D+L+AM+TLGF+ Y++PLK YL ++RE
Sbjct: 62 KTINGEDILFAMSTLGFDSYVEPLKLYLQKFRE 94
>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 = 149 bits (376), Expect = 8e-37, Method: Compositional matrix adjust.
Identities = 65/92 (70%), Positives = 83/92 (90%)
Query: 26 VREQDRYLPIANISRIMKKALPANGKIAKDAKDTVQECVSEFISFITSEASDKCQKEKRK 85
++EQDR+LPIAN++RIMK ALP N KIAK+AK+ +QECVSEFISFITSEAS+KCQ+EKRK
Sbjct: 1 MKEQDRWLPIANVARIMKLALPENAKIAKEAKECMQECVSEFISFITSEASEKCQQEKRK 60
Query: 86 TINGDDLLWAMATLGFEDYIDPLKAYLMRYRE 117
T+NG+D+L+AM +LGFE+Y + LK YL +YRE
Sbjct: 61 TVNGEDILFAMTSLGFENYAEALKIYLSKYRE 92
>pdb|1JFI|B Chain B, Crystal Structure Of The Nc2-Tbp-Dna Ternary Complex
Length = 179
Score = 70.5 bits (171), Expect = 5e-13, Method: Compositional matrix adjust.
Identities = 33/83 (39%), Positives = 56/83 (67%), Gaps = 1/83 (1%)
Query: 30 DRYLPIANISRIMKKALPANGKIAKDAKDTVQECVSEFISFITSEASDKCQKEKRKTING 89
D +P A I++++K+ LP N ++A DA++ V C +EFI I+SEA++ C K ++KTI+
Sbjct: 13 DLTIPRAAINKMIKETLP-NVRVANDARELVVNCCTEFIHLISSEANEICNKSEKKTISP 71
Query: 90 DDLLWAMATLGFEDYIDPLKAYL 112
+ ++ A+ +LGF YI +K L
Sbjct: 72 EHVIQALESLGFGSYISEVKEVL 94
>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 = 57.0 bits (136), Expect = 5e-09, Method: Compositional matrix adjust.
Identities = 31/90 (34%), Positives = 49/90 (54%)
Query: 27 REQDRYLPIANISRIMKKALPANGKIAKDAKDTVQECVSEFISFITSEASDKCQKEKRKT 86
R +D LP A I R++K+ALP + ++K+A+ + S F F+TS ++ K+ KT
Sbjct: 4 RIEDLNLPNAVIGRLIKEALPESASVSKEARAAIARAASVFAIFVTSSSTALAHKQNHKT 63
Query: 87 INGDDLLWAMATLGFEDYIDPLKAYLMRYR 116
I D+L + L FE ++ L L YR
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 = 33.1 bits (74), Expect = 0.089, Method: Compositional matrix adjust.
Identities = 23/64 (35%), Positives = 35/64 (54%), Gaps = 2/64 (3%)
Query: 33 LPIANISRIMKKALPANGKIAKDAKDTVQECVSEFISFITSEASDKCQKEKRKTINGDDL 92
LPIA I RI+K A +++ DA+ T+ + + E I SEA + RKTI +D+
Sbjct: 3 LPIAPIGRIIKDA--GAERVSDDARITLAKILEEMGRDIASEAIKLARHAGRKTIKAEDI 60
Query: 93 LWAM 96
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 = 32.3 bits (72), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 22/63 (34%), Positives = 33/63 (52%), Gaps = 2/63 (3%)
Query: 33 LPIANISRIMKKALPANGKIAKDAKDTVQECVSEFISFITSEASDKCQKEKRKTINGDDL 92
LPIA I RI+K A +++ DA+ + + + E I SEA + RKTI +D+
Sbjct: 3 LPIAPIGRIIKNA--GAERVSDDARIALAKVLEEMGEEIASEAVKLAKHAGRKTIKAEDI 60
Query: 93 LWA 95
A
Sbjct: 61 ELA 63
>pdb|1HTA|A Chain A, Crystal Structure Of The Histone Hmfa From
Methanothermus Fervidus
Length = 69
Score = 32.3 bits (72), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 22/63 (34%), Positives = 33/63 (52%), Gaps = 2/63 (3%)
Query: 33 LPIANISRIMKKALPANGKIAKDAKDTVQECVSEFISFITSEASDKCQKEKRKTINGDDL 92
LPIA I RI+K A +++ DA+ + + + E I SEA + RKTI +D+
Sbjct: 4 LPIAPIGRIIKNA--GAERVSDDARIALAKVLEEMGEEIASEAVKLAKHAGRKTIKAEDI 61
Query: 93 LWA 95
A
Sbjct: 62 ELA 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 = 0.16, Method: Compositional matrix adjust.
Identities = 23/64 (35%), Positives = 35/64 (54%), Gaps = 2/64 (3%)
Query: 33 LPIANISRIMKKALPANGKIAKDAKDTVQECVSEFISFITSEASDKCQKEKRKTINGDDL 92
LPIA I RI+K A +++ DA+ T+ + + E I SEA + RKTI +D+
Sbjct: 3 LPIAPIGRIIKDA--GAERVSDDARITLAKILEEXGRDIASEAIKLARHAGRKTIKAEDI 60
Query: 93 LWAM 96
A+
Sbjct: 61 ELAV 64
>pdb|3ID5|A Chain A, Crystal Structure Of Sulfolobus Solfataricus CD RNP
ASSEMBLED WITH Nop5, Fibrillarin, L7ae And A Split Half
CD RNA
pdb|3ID5|E Chain E, Crystal Structure Of Sulfolobus Solfataricus CD RNP
ASSEMBLED WITH Nop5, Fibrillarin, L7ae And A Split Half
CD RNA
pdb|3PLA|A Chain A, Crystal Structure Of A Catalytically Active
Substrate-Bound Box CD Rnp From Sulfolobus Solfataricus
pdb|3PLA|B Chain B, Crystal Structure Of A Catalytically Active
Substrate-Bound Box CD Rnp From Sulfolobus Solfataricus
pdb|3PLA|K Chain K, Crystal Structure Of A Catalytically Active
Substrate-Bound Box CD Rnp From Sulfolobus Solfataricus
Length = 388
Score = 30.4 bits (67), Expect = 0.55, Method: Compositional matrix adjust.
Identities = 22/86 (25%), Positives = 40/86 (46%), Gaps = 5/86 (5%)
Query: 32 YLPIANISRIMKKALPANGKIAKDAKDTVQECVSEFISFITSEASDKCQKEKRKTINGDD 91
Y P + +SRI +++LP K+A D K E ++ +F+ + + +++ R D
Sbjct: 83 YEPYSKVSRIFRESLP---KVAIDIKFASNE--EDYYNFLHELSLEYTRRKLRSAAQKRD 137
Query: 92 LLWAMATLGFEDYIDPLKAYLMRYRE 117
LL A +D + + R RE
Sbjct: 138 LLAIQAVRAMDDIDKTINLFSERLRE 163
>pdb|1F1E|A Chain A, Crystal Structure Of The Histone From Methanopyrus
Kandleri
Length = 154
Score = 30.4 bits (67), Expect = 0.56, Method: Compositional matrix adjust.
Identities = 22/76 (28%), Positives = 40/76 (52%), Gaps = 6/76 (7%)
Query: 33 LPIANISRIMKKALPANGKIAKDAKDTVQECVSEFISFITSEASDKCQKEKRKTINGDDL 92
LP A I RI ++ + ++++DAKDT+ + V ++ + A +KT+ ++
Sbjct: 5 LPKAAIERIFRQGI-GERRLSQDAKDTIYDFVPTXAEYVANAAKSVLDASGKKTLX-EEH 62
Query: 93 LWAMATL----GFEDY 104
L A+A + G EDY
Sbjct: 63 LKALADVLXVEGVEDY 78
>pdb|3DXK|G Chain G, Structure Of Bos Taurus Arp23 COMPLEX WITH BOUND INHIBITOR
Ck0944636
pdb|3DXM|G Chain G, Structure Of Bos Taurus Arp23 COMPLEX WITH BOUND INHIBITOR
Ck0993548
pdb|3RSE|G Chain G, Structural And Biochemical Characterization Of Two Binding
Sites For Nucleation Promoting Factor Wasp-Vca On Arp23
COMPLEX
pdb|3UKR|G Chain G, Crystal Structure Of Bos Taurus Arp2/3 Complex With Bound
Inhibitor Ck-666
pdb|3UKU|G Chain G, Structure Of Arp2/3 Complex With Bound Inhibitor Ck-869
pdb|3ULE|G Chain G, Structure Of Bos Taurus Arp2/3 Complex With Bound
Inhibitor Ck-869 And Atp
Length = 151
Score = 28.9 bits (63), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 38/121 (31%), Positives = 52/121 (42%), Gaps = 14/121 (11%)
Query: 17 GEQSPHAGGVREQDRYLPIANISRIMKKAL---PANGKIAKDAKDTVQECVSE-FISFIT 72
G+ P G E D L N++ ++ AL P N K ++ KD V + ISF
Sbjct: 33 GQAGPDEG---EVDSCLRQGNMTAALQAALKNPPINTK-SQAVKDRAGSIVLKVLISFKA 88
Query: 73 SEASDKCQKEKRKTINGDDLLWAMATLGFEDYIDPLKAYLMRYREGDTKGSARGGDGSAK 132
++ Q + NG DLL GFE D A L+++ E K A GG GS
Sbjct: 89 NDIEKAVQSLDK---NGVDLLMKYIYKGFESPSDNSSAVLLQWHE---KALAAGGVGSIV 142
Query: 133 R 133
R
Sbjct: 143 R 143
>pdb|1BRT|A Chain A, Bromoperoxidase A2 Mutant M99t
Length = 277
Score = 28.9 bits (63), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 11/19 (57%), Positives = 14/19 (73%)
Query: 30 DRYLPIANISRIMKKALPA 48
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 = 1.5, Method: Compositional matrix adjust.
Identities = 11/19 (57%), Positives = 14/19 (73%)
Query: 30 DRYLPIANISRIMKKALPA 48
DR LPI N +R+ KALP+
Sbjct: 228 DRTLPIENTARVFHKALPS 246
>pdb|3ID6|A Chain A, Crystal Structure Of Sulfolobus Solfataricus Nop5 (1-262)
And Fibrillarin Complex
Length = 268
Score = 28.9 bits (63), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 22/86 (25%), Positives = 40/86 (46%), Gaps = 5/86 (5%)
Query: 32 YLPIANISRIMKKALPANGKIAKDAKDTVQECVSEFISFITSEASDKCQKEKRKTINGDD 91
Y P + +SRI +++LP K+A D K E ++ +F+ + + +++ R D
Sbjct: 83 YEPYSKVSRIFRESLP---KVAIDIKFASNE--EDYYNFLHELSLEYTRRKLRSAAQKRD 137
Query: 92 LLWAMATLGFEDYIDPLKAYLMRYRE 117
LL A +D + + R RE
Sbjct: 138 LLAIQAVRAMDDIDKTINLFSERLRE 163
>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 = 28.9 bits (63), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 11/19 (57%), Positives = 14/19 (73%)
Query: 30 DRYLPIANISRIMKKALPA 48
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 = 28.9 bits (63), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 11/19 (57%), Positives = 14/19 (73%)
Query: 30 DRYLPIANISRIMKKALPA 48
DR LPI N +R+ KALP+
Sbjct: 229 DRTLPIENTARVFHKALPS 247
>pdb|1K8K|G Chain G, Crystal Structure Of Arp23 COMPLEX
pdb|1TYQ|G Chain G, Crystal Structure Of Arp23 COMPLEX WITH BOUND ATP AND
Calcium
pdb|1U2V|G Chain G, Crystal Structure Of Arp23 COMPLEX WITH BOUND ADP AND
Calcium
pdb|2P9I|G Chain G, Crystal Structure Of Bovine Arp23 COMPLEX CO-Crystallized
With Adp And Crosslinked With Gluteraldehyde
pdb|2P9K|G Chain G, Crystal Structure Of Bovine Arp23 COMPLEX CO-Crystallized
With Atp And Crosslinked With Glutaraldehyde
pdb|2P9L|G Chain G, Crystal Structure Of Bovine Arp23 COMPLEX
pdb|2P9N|G Chain G, Crystal Structure Of Bovine Arp23 COMPLEX CO-Crystallized
With Adp
pdb|2P9P|G Chain G, Crystal Structure Of Bovine Arp23 COMPLEX CO-Crystallized
With Adp
pdb|2P9S|G Chain G, Structure Of Bovine Arp23 COMPLEX CO-Crystallized With
AtpMG2+
pdb|2P9U|G Chain G, Crystal Structure Of Bovine Arp23 COMPLEX CO-Crystallized
With Amp-Pnp And Calcium
Length = 151
Score = 28.5 bits (62), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 38/121 (31%), Positives = 52/121 (42%), Gaps = 14/121 (11%)
Query: 17 GEQSPHAGGVREQDRYLPIANISRIMKKAL---PANGKIAKDAKDTVQECVSE-FISFIT 72
G+ P G E D L N++ ++ AL P N K ++ KD V + ISF
Sbjct: 33 GQAGPDEG---EVDSCLRQGNMTAALQAALKNPPINTK-SQAVKDRAGSIVLKVLISFKA 88
Query: 73 SEASDKCQKEKRKTINGDDLLWAMATLGFEDYIDPLKAYLMRYREGDTKGSARGGDGSAK 132
++ Q + NG DLL GFE D A L+++ E K A GG GS
Sbjct: 89 NDIEKAVQSLDK---NGVDLLMKYIYKGFESPSDNSSAVLLQWHE---KALAAGGVGSIV 142
Query: 133 R 133
R
Sbjct: 143 R 143
>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 = 28.5 bits (62), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 20/73 (27%), Positives = 36/73 (49%), Gaps = 1/73 (1%)
Query: 33 LPIANISRIMKKALPANGKIAKDAKDTVQECVSEFISFITSEASDKCQKEKRKTINGDDL 92
LP+A I ++MK A P I+ +A + FI+ +T A + KR+T+ D+
Sbjct: 42 LPLARIKKVMK-ADPEVKMISAEAPILFAKGCDVFITELTMRAWIHAEDNKRRTLQRSDI 100
Query: 93 LWAMATLGFEDYI 105
A++ D++
Sbjct: 101 AAALSKSDMFDFL 113
>pdb|1N1J|B Chain B, Crystal Structure Of The Nf-YbNF-Yc Histone Pair
Length = 97
Score = 28.5 bits (62), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 23/73 (31%), Positives = 38/73 (52%), Gaps = 5/73 (6%)
Query: 33 LPIANISRIMKKALPANGK-IAKDAKDTVQECVSEFISFITSEASDKCQKEKRKTINGDD 91
LP+A I +IMK L + K I+ +A + FI+ +T A + KR+T+ +D
Sbjct: 20 LPLARIKKIMK--LDEDVKMISAEAPVLFAKAAQIFITELTLRAWIHTEDNKRRTLQRND 77
Query: 92 LLWAMATLGFEDY 104
+ AMA 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 = 27.7 bits (60), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 23/73 (31%), Positives = 38/73 (52%), Gaps = 5/73 (6%)
Query: 33 LPIANISRIMKKALPANGK-IAKDAKDTVQECVSEFISFITSEASDKCQKEKRKTINGDD 91
LP+A I +IMK L + K I+ +A + FI+ +T A + KR+T+ +D
Sbjct: 17 LPLARIKKIMK--LDEDVKMISAEAPVLFAKAAQIFITELTLRAWIHTEDNKRRTLQRND 74
Query: 92 LLWAMATLGFEDY 104
+ AMA F+ +
Sbjct: 75 I--AMAITKFDQF 85
>pdb|1VU0|U Chain U, Structure-Function Analysis Of Receptor-Binding In
Adeno-Associated Virus Serotype 6 (Aav-6)
pdb|1VU0|V Chain V, Structure-Function Analysis Of Receptor-Binding In
Adeno-Associated Virus Serotype 6 (Aav-6)
pdb|1VU0|W Chain W, Structure-Function Analysis Of Receptor-Binding In
Adeno-Associated Virus Serotype 6 (Aav-6)
pdb|1VU0|X Chain X, Structure-Function Analysis Of Receptor-Binding In
Adeno-Associated Virus Serotype 6 (Aav-6)
pdb|1VU0|Y Chain Y, Structure-Function Analysis Of Receptor-Binding In
Adeno-Associated Virus Serotype 6 (Aav-6)
pdb|1VU0|Z Chain Z, Structure-Function Analysis Of Receptor-Binding In
Adeno-Associated Virus Serotype 6 (Aav-6)
pdb|1VU0|AA Chain a, Structure-Function Analysis Of Receptor-Binding In
Adeno-Associated Virus Serotype 6 (Aav-6)
pdb|1VU0|BB Chain b, Structure-Function Analysis Of Receptor-Binding In
Adeno-Associated Virus Serotype 6 (Aav-6)
pdb|1VU0|CC Chain c, Structure-Function Analysis Of Receptor-Binding In
Adeno-Associated Virus Serotype 6 (Aav-6)
pdb|1VU0|DD Chain d, Structure-Function Analysis Of Receptor-Binding In
Adeno-Associated Virus Serotype 6 (Aav-6)
pdb|1VU0|EE Chain e, Structure-Function Analysis Of Receptor-Binding In
Adeno-Associated Virus Serotype 6 (Aav-6)
pdb|1VU0|FF Chain f, Structure-Function Analysis Of Receptor-Binding In
Adeno-Associated Virus Serotype 6 (Aav-6)
pdb|1VU0|GG Chain g, Structure-Function Analysis Of Receptor-Binding In
Adeno-Associated Virus Serotype 6 (Aav-6)
pdb|1VU0|HH Chain h, Structure-Function Analysis Of Receptor-Binding In
Adeno-Associated Virus Serotype 6 (Aav-6)
pdb|1VU0|II Chain i, Structure-Function Analysis Of Receptor-Binding In
Adeno-Associated Virus Serotype 6 (Aav-6)
pdb|1VU0|JJ Chain j, Structure-Function Analysis Of Receptor-Binding In
Adeno-Associated Virus Serotype 6 (Aav-6)
pdb|1VU0|KK Chain k, Structure-Function Analysis Of Receptor-Binding In
Adeno-Associated Virus Serotype 6 (Aav-6)
pdb|1VU0|LL Chain l, Structure-Function Analysis Of Receptor-Binding In
Adeno-Associated Virus Serotype 6 (Aav-6)
pdb|1VU0|MM Chain m, Structure-Function Analysis Of Receptor-Binding In
Adeno-Associated Virus Serotype 6 (Aav-6)
pdb|1VU0|NN Chain n, Structure-Function Analysis Of Receptor-Binding In
Adeno-Associated Virus Serotype 6 (Aav-6)
pdb|1VU1|OO Chain o, Structure-Function Analysis Of Receptor-Binding In
Adeno-Associated Virus Serotype 6 (Aav-6)
pdb|1VU1|PP Chain p, Structure-Function Analysis Of Receptor-Binding In
Adeno-Associated Virus Serotype 6 (Aav-6)
pdb|1VU1|QQ Chain q, Structure-Function Analysis Of Receptor-Binding In
Adeno-Associated Virus Serotype 6 (Aav-6)
pdb|1VU1|RR Chain r, Structure-Function Analysis Of Receptor-Binding In
Adeno-Associated Virus Serotype 6 (Aav-6)
pdb|1VU1|SS Chain s, Structure-Function Analysis Of Receptor-Binding In
Adeno-Associated Virus Serotype 6 (Aav-6)
pdb|1VU1|TT Chain t, Structure-Function Analysis Of Receptor-Binding In
Adeno-Associated Virus Serotype 6 (Aav-6)
pdb|1VU1|UU Chain u, Structure-Function Analysis Of Receptor-Binding In
Adeno-Associated Virus Serotype 6 (Aav-6)
pdb|1VU1|VV Chain v, Structure-Function Analysis Of Receptor-Binding In
Adeno-Associated Virus Serotype 6 (Aav-6)
pdb|1VU1|WW Chain w, Structure-Function Analysis Of Receptor-Binding In
Adeno-Associated Virus Serotype 6 (Aav-6)
pdb|1VU1|XX Chain x, Structure-Function Analysis Of Receptor-Binding In
Adeno-Associated Virus Serotype 6 (Aav-6)
pdb|1VU1|YY Chain y, Structure-Function Analysis Of Receptor-Binding In
Adeno-Associated Virus Serotype 6 (Aav-6)
pdb|1VU1|ZZ Chain z, Structure-Function Analysis Of Receptor-Binding In
Adeno-Associated Virus Serotype 6 (Aav-6)
pdb|1VU1|0 Chain 0, Structure-Function Analysis Of Receptor-Binding In
Adeno-Associated Virus Serotype 6 (Aav-6)
pdb|1VU1|1 Chain 1, Structure-Function Analysis Of Receptor-Binding In
Adeno-Associated Virus Serotype 6 (Aav-6)
pdb|1VU1|2 Chain 2, Structure-Function Analysis Of Receptor-Binding In
Adeno-Associated Virus Serotype 6 (Aav-6)
pdb|1VU1|3 Chain 3, Structure-Function Analysis Of Receptor-Binding In
Adeno-Associated Virus Serotype 6 (Aav-6)
pdb|1VU1|4 Chain 4, Structure-Function Analysis Of Receptor-Binding In
Adeno-Associated Virus Serotype 6 (Aav-6)
pdb|1VU1|5 Chain 5, Structure-Function Analysis Of Receptor-Binding In
Adeno-Associated Virus Serotype 6 (Aav-6)
pdb|1VU1|6 Chain 6, Structure-Function Analysis Of Receptor-Binding In
Adeno-Associated Virus Serotype 6 (Aav-6)
pdb|1VU1|7 Chain 7, Structure-Function Analysis Of Receptor-Binding In
Adeno-Associated Virus Serotype 6 (Aav-6)
pdb|3TSX|A Chain A, Structure-Function Analysis Of Receptor-Binding In
Adeno-Associated Virus Serotype 6 (Aav-6)
pdb|3TSX|B Chain B, Structure-Function Analysis Of Receptor-Binding In
Adeno-Associated Virus Serotype 6 (Aav-6)
pdb|3TSX|C Chain C, Structure-Function Analysis Of Receptor-Binding In
Adeno-Associated Virus Serotype 6 (Aav-6)
pdb|3TSX|D Chain D, Structure-Function Analysis Of Receptor-Binding In
Adeno-Associated Virus Serotype 6 (Aav-6)
pdb|3TSX|E Chain E, Structure-Function Analysis Of Receptor-Binding In
Adeno-Associated Virus Serotype 6 (Aav-6)
pdb|3TSX|F Chain F, Structure-Function Analysis Of Receptor-Binding In
Adeno-Associated Virus Serotype 6 (Aav-6)
pdb|3TSX|G Chain G, Structure-Function Analysis Of Receptor-Binding In
Adeno-Associated Virus Serotype 6 (Aav-6)
pdb|3TSX|H Chain H, Structure-Function Analysis Of Receptor-Binding In
Adeno-Associated Virus Serotype 6 (Aav-6)
pdb|3TSX|I Chain I, Structure-Function Analysis Of Receptor-Binding In
Adeno-Associated Virus Serotype 6 (Aav-6)
pdb|3TSX|J Chain J, Structure-Function Analysis Of Receptor-Binding In
Adeno-Associated Virus Serotype 6 (Aav-6)
pdb|3TSX|K Chain K, Structure-Function Analysis Of Receptor-Binding In
Adeno-Associated Virus Serotype 6 (Aav-6)
pdb|3TSX|L Chain L, Structure-Function Analysis Of Receptor-Binding In
Adeno-Associated Virus Serotype 6 (Aav-6)
pdb|3TSX|M Chain M, Structure-Function Analysis Of Receptor-Binding In
Adeno-Associated Virus Serotype 6 (Aav-6)
pdb|3TSX|N Chain N, Structure-Function Analysis Of Receptor-Binding In
Adeno-Associated Virus Serotype 6 (Aav-6)
pdb|3TSX|O Chain O, Structure-Function Analysis Of Receptor-Binding In
Adeno-Associated Virus Serotype 6 (Aav-6)
pdb|3TSX|P Chain P, Structure-Function Analysis Of Receptor-Binding In
Adeno-Associated Virus Serotype 6 (Aav-6)
pdb|3TSX|Q Chain Q, Structure-Function Analysis Of Receptor-Binding In
Adeno-Associated Virus Serotype 6 (Aav-6)
pdb|3TSX|R Chain R, Structure-Function Analysis Of Receptor-Binding In
Adeno-Associated Virus Serotype 6 (Aav-6)
pdb|3TSX|S Chain S, Structure-Function Analysis Of Receptor-Binding In
Adeno-Associated Virus Serotype 6 (Aav-6)
pdb|3TSX|T Chain T, Structure-Function Analysis Of Receptor-Binding In
Adeno-Associated Virus Serotype 6 (Aav-6)
Length = 520
Score = 27.7 bits (60), Expect = 3.4, Method: Composition-based stats.
Identities = 16/39 (41%), Positives = 19/39 (48%), Gaps = 3/39 (7%)
Query: 136 IGALPG---QNAQYALQGPLNYANPHAQGQHMIVPSMQG 171
+GALPG Q+ LQGP+ PH G P M G
Sbjct: 383 MGALPGMVWQDRDVYLQGPIWAKIPHTDGHFHPSPLMGG 421
>pdb|3OAH|A Chain A, Structural Characterization Of The Dual Glycan Binding
Adeno- Associated Virus Serotype 6
Length = 534
Score = 27.3 bits (59), Expect = 3.9, Method: Composition-based stats.
Identities = 16/39 (41%), Positives = 19/39 (48%), Gaps = 3/39 (7%)
Query: 136 IGALPG---QNAQYALQGPLNYANPHAQGQHMIVPSMQG 171
+GALPG Q+ LQGP+ PH G P M G
Sbjct: 397 MGALPGMVWQDRDVYLQGPIWAKIPHTDGHFHPSPLMGG 435
>pdb|4FH1|A Chain A, S. Cerevisiae Ubc13-N79a
Length = 153
Score = 27.3 bits (59), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 16/53 (30%), Positives = 26/53 (49%), Gaps = 9/53 (16%)
Query: 16 GGEQSPHAGGVREQDRYLP---------IANISRIMKKALPANGKIAKDAKDT 59
G EQSP+ G+ E + YLP + +++I A+ G+I+ D T
Sbjct: 41 GPEQSPYEDGIFELELYLPDDYPMEAPKVRFLTKIYHPAIDRLGRISLDVLKT 93
>pdb|2QA0|A Chain A, Structure Of Adeno-Associated Virus Serotype 8
pdb|3RA2|A Chain A, Structural Studies Of Aav8 Capsid Transitions Associated
With Endosomal Trafficking
pdb|3RA4|A Chain A, Structural Studies Of Aav8 Capsid Transitions Associated
With Endosomal Trafficking
pdb|3RA8|A Chain A, Structural Studies Of Aav8 Capsid Transitions Associated
With Endosomal Trafficking
pdb|3RA9|A Chain A, Structural Studies Of Aav8 Capsid Transitions Associated
With Endosomal Trafficking
pdb|3RAA|A Chain A, Structural Studies Of Aav8 Capsid Transitions Associated
With Endosomal Trafficking
Length = 519
Score = 26.9 bits (58), Expect = 5.9, Method: Compositional matrix adjust.
Identities = 17/38 (44%), Positives = 18/38 (47%), Gaps = 3/38 (7%)
Query: 137 GALPG---QNAQYALQGPLNYANPHAQGQHMIVPSMQG 171
GALPG QN LQGP+ PH G P M G
Sbjct: 383 GALPGMVWQNRDVYLQGPIWAKIPHTDGNFHPSPLMGG 420
>pdb|3J1Q|A Chain A, Structure Of Aav-Dj, A Retargeted Gene Therapy Vector:
Cryo-Electron Microscopy At 4.5a Resolution
Length = 737
Score = 26.6 bits (57), Expect = 7.3, Method: Compositional matrix adjust.
Identities = 17/45 (37%), Positives = 21/45 (46%), Gaps = 3/45 (6%)
Query: 130 SAKRDTIGALPG---QNAQYALQGPLNYANPHAQGQHMIVPSMQG 171
+A +T G LPG Q+ LQGP+ PH G P M G
Sbjct: 594 TADVNTQGVLPGMVWQDRDVYLQGPIWAKIPHTDGHFHPSPLMGG 638
>pdb|1LP3|A Chain A, The Atomic Structure Of Adeno-Associated Virus (Aav-2), A
Vector For Human Gene Therapy
pdb|3J1S|A Chain A, Structure Of Adeno-Associated Virus-2 In Complex With
Neutralizing Monoclonal Antibody A20
Length = 519
Score = 26.6 bits (57), Expect = 8.6, Method: Compositional matrix adjust.
Identities = 17/46 (36%), Positives = 21/46 (45%), Gaps = 3/46 (6%)
Query: 129 GSAKRDTIGALPG---QNAQYALQGPLNYANPHAQGQHMIVPSMQG 171
+A +T G LPG Q+ LQGP+ PH G P M G
Sbjct: 375 ATADVNTQGVLPGMVWQDRDVYLQGPIWAKIPHTDGHFHPSPLMGG 420
>pdb|3NG9|A Chain A, Structure To Function Correlations For Adeno-Associated
Virus Serotype 1
pdb|3NG9|B Chain B, Structure To Function Correlations For Adeno-Associated
Virus Serotype 1
pdb|3NG9|C Chain C, Structure To Function Correlations For Adeno-Associated
Virus Serotype 1
pdb|3NG9|D Chain D, Structure To Function Correlations For Adeno-Associated
Virus Serotype 1
pdb|3NG9|E Chain E, Structure To Function Correlations For Adeno-Associated
Virus Serotype 1
pdb|3NG9|F Chain F, Structure To Function Correlations For Adeno-Associated
Virus Serotype 1
pdb|3NG9|G Chain G, Structure To Function Correlations For Adeno-Associated
Virus Serotype 1
pdb|3NG9|H Chain H, Structure To Function Correlations For Adeno-Associated
Virus Serotype 1
pdb|3NG9|I Chain I, Structure To Function Correlations For Adeno-Associated
Virus Serotype 1
pdb|3NG9|J Chain J, Structure To Function Correlations For Adeno-Associated
Virus Serotype 1
Length = 736
Score = 26.2 bits (56), Expect = 8.8, Method: Compositional matrix adjust.
Identities = 16/39 (41%), Positives = 19/39 (48%), Gaps = 3/39 (7%)
Query: 136 IGALPG---QNAQYALQGPLNYANPHAQGQHMIVPSMQG 171
+GALPG Q+ LQGP+ PH G P M G
Sbjct: 599 MGALPGMVWQDRDVYLQGPIWAKIPHTDGHFHPSPLMGG 637
>pdb|3SHM|A Chain A, Structure-Function Analysis Of Receptor Binding In
Adeno-Associated Virus Serotype 6 (Aav-6)
pdb|3SHM|B Chain B, Structure-Function Analysis Of Receptor Binding In
Adeno-Associated Virus Serotype 6 (Aav-6)
pdb|3SHM|C Chain C, Structure-Function Analysis Of Receptor Binding In
Adeno-Associated Virus Serotype 6 (Aav-6)
pdb|3SHM|D Chain D, Structure-Function Analysis Of Receptor Binding In
Adeno-Associated Virus Serotype 6 (Aav-6)
pdb|3SHM|E Chain E, Structure-Function Analysis Of Receptor Binding In
Adeno-Associated Virus Serotype 6 (Aav-6)
pdb|3SHM|F Chain F, Structure-Function Analysis Of Receptor Binding In
Adeno-Associated Virus Serotype 6 (Aav-6)
pdb|3SHM|G Chain G, Structure-Function Analysis Of Receptor Binding In
Adeno-Associated Virus Serotype 6 (Aav-6)
pdb|3SHM|H Chain H, Structure-Function Analysis Of Receptor Binding In
Adeno-Associated Virus Serotype 6 (Aav-6)
pdb|3SHM|I Chain I, Structure-Function Analysis Of Receptor Binding In
Adeno-Associated Virus Serotype 6 (Aav-6)
pdb|3SHM|J Chain J, Structure-Function Analysis Of Receptor Binding In
Adeno-Associated Virus Serotype 6 (Aav-6)
pdb|3SHM|K Chain K, Structure-Function Analysis Of Receptor Binding In
Adeno-Associated Virus Serotype 6 (Aav-6)
pdb|3SHM|L Chain L, Structure-Function Analysis Of Receptor Binding In
Adeno-Associated Virus Serotype 6 (Aav-6)
pdb|3SHM|M Chain M, Structure-Function Analysis Of Receptor Binding In
Adeno-Associated Virus Serotype 6 (Aav-6)
pdb|3SHM|N Chain N, Structure-Function Analysis Of Receptor Binding In
Adeno-Associated Virus Serotype 6 (Aav-6)
pdb|3SHM|O Chain O, Structure-Function Analysis Of Receptor Binding In
Adeno-Associated Virus Serotype 6 (Aav-6)
pdb|3SHM|P Chain P, Structure-Function Analysis Of Receptor Binding In
Adeno-Associated Virus Serotype 6 (Aav-6)
pdb|3SHM|Q Chain Q, Structure-Function Analysis Of Receptor Binding In
Adeno-Associated Virus Serotype 6 (Aav-6)
pdb|3SHM|R Chain R, Structure-Function Analysis Of Receptor Binding In
Adeno-Associated Virus Serotype 6 (Aav-6)
pdb|3SHM|S Chain S, Structure-Function Analysis Of Receptor Binding In
Adeno-Associated Virus Serotype 6 (Aav-6)
pdb|3SHM|T Chain T, Structure-Function Analysis Of Receptor Binding In
Adeno-Associated Virus Serotype 6 (Aav-6)
Length = 516
Score = 26.2 bits (56), Expect = 9.5, Method: Compositional matrix adjust.
Identities = 16/40 (40%), Positives = 19/40 (47%), Gaps = 3/40 (7%)
Query: 135 TIGALPG---QNAQYALQGPLNYANPHAQGQHMIVPSMQG 171
+GALPG Q+ LQGP+ PH G P M G
Sbjct: 378 VMGALPGMVWQDRDVYLQGPIWAKIPHTDGHFHPSPLMGG 417
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 0.130 0.379
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,579,290
Number of Sequences: 62578
Number of extensions: 222714
Number of successful extensions: 380
Number of sequences better than 100.0: 37
Number of HSP's better than 100.0 without gapping: 14
Number of HSP's successfully gapped in prelim test: 23
Number of HSP's that attempted gapping in prelim test: 365
Number of HSP's gapped (non-prelim): 38
length of query: 173
length of database: 14,973,337
effective HSP length: 92
effective length of query: 81
effective length of database: 9,216,161
effective search space: 746509041
effective search space used: 746509041
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 48 (23.1 bits)