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= psy6808
(132 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2EZZ|A Chain A, Solution Structure Of Human Barrier-To-Autointegration
Factor Baf Nmr, Ensemble Of 20 Simulated Annealing
Structures
pdb|2EZZ|B Chain B, Solution Structure Of Human Barrier-To-Autointegration
Factor Baf Nmr, Ensemble Of 20 Simulated Annealing
Structures
pdb|2EZX|A Chain A, Solution Structure Of Human Barrier-To-Autointegration
Factor Baf, Nmr, Regularized Mean Structure
pdb|2EZX|B Chain B, Solution Structure Of Human Barrier-To-Autointegration
Factor Baf, Nmr, Regularized Mean Structure
pdb|2EZY|A Chain A, Solution Structure Of Human Barrier-To-Autointegration
Factor Baf, Nmr, Ensemble Of 20 Simulated Annealing
Structures
pdb|2EZY|B Chain B, Solution Structure Of Human Barrier-To-Autointegration
Factor Baf, Nmr, Ensemble Of 20 Simulated Annealing
Structures
pdb|1QCK|A Chain A, Solution Structure Of Human Barrier-to-autointegration
Factor Baf, Nmr, Regularized Mean Structure Plus 20
Individual Simulated Annealing Structures
pdb|1QCK|B Chain B, Solution Structure Of Human Barrier-to-autointegration
Factor Baf, Nmr, Regularized Mean Structure Plus 20
Individual Simulated Annealing Structures
pdb|2BZF|A Chain A, Structural Basis For Dna Bridging By Barrier-To-
Autointegration Factor (Baf)
pdb|2ODG|A Chain A, Complex Of Barrier-To-Autointegration Factor And
Lem-Domain Of Emerin
pdb|2ODG|B Chain B, Complex Of Barrier-To-Autointegration Factor And
Lem-Domain Of Emerin
Length = 89
Score = 70.9 bits (172), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 30/42 (71%), Positives = 39/42 (92%)
Query: 28 MSTSQKHQNFVSEPMGEKPVTELAGVGDVLGKRLESKGFDKS 69
M+TSQKH++FV+EPMGEKPV LAG+G+VLGK+LE +GFDK+
Sbjct: 1 MTTSQKHRDFVAEPMGEKPVGSLAGIGEVLGKKLEERGFDKA 42
>pdb|1CI4|A Chain A, The Crystal Structure Of Human
Barrier-To-Autointegration Factor (Baf)
pdb|1CI4|B Chain B, The Crystal Structure Of Human
Barrier-To-Autointegration Factor (Baf)
Length = 89
Score = 65.9 bits (159), Expect = 7e-12, Method: Compositional matrix adjust.
Identities = 28/41 (68%), Positives = 37/41 (90%)
Query: 29 STSQKHQNFVSEPMGEKPVTELAGVGDVLGKRLESKGFDKS 69
+TSQKH++FV+EP GEKPV LAG+G+VLGK+LE +GFDK+
Sbjct: 2 TTSQKHRDFVAEPXGEKPVGSLAGIGEVLGKKLEERGFDKA 42
>pdb|3VL1|A Chain A, Crystal Structure Of Yeast Rpn14
pdb|3VL1|B Chain B, Crystal Structure Of Yeast Rpn14
Length = 420
Score = 30.8 bits (68), Expect = 0.24, Method: Composition-based stats.
Identities = 18/56 (32%), Positives = 26/56 (46%), Gaps = 3/56 (5%)
Query: 41 PMGEKPVTELAGVGDVL---GKRLESKGFDKSINPQMFPDPDIEEKVLLFKNPNSL 93
P+GE + E + +V G S GFD SI + DP+ E + F+ P L
Sbjct: 326 PVGEFLINEGTPINNVYFAAGALFVSSGFDTSIKLDIISDPESERPAIEFETPTFL 381
>pdb|3ACP|A Chain A, Crystal Structure Of Yeast Rpn14, A Chaperone Of The 19s
Reg Particle Of The Proteasome
Length = 417
Score = 29.6 bits (65), Expect = 0.51, Method: Compositional matrix adjust.
Identities = 23/83 (27%), Positives = 38/83 (45%), Gaps = 4/83 (4%)
Query: 41 PMGEKPVTELAGVGDV---LGKRLESKGFDKSINPQMFPDPDIEEKVLLFKNPNSLPIPI 97
P+GE + E + +V G S GFD SI + DP+ E + F+ P L +
Sbjct: 323 PVGEFLINEGTPINNVYFAAGALFVSSGFDTSIKLDIISDPESERPAIEFETPTFL-VSN 381
Query: 98 GVEVLGYTKIKNNKSRYPYLDYG 120
EV + + +++S L+ G
Sbjct: 382 DDEVSQFCYVSDDESNGEVLEVG 404
>pdb|3BQ0|A Chain A, Pre-insertion Binary Complex Of Dbh Dna Polymerase
pdb|3BQ1|A Chain A, Insertion Ternary Complex Of Dbh Dna Polymerase
pdb|3BQ2|A Chain A, Post-Insertion Binary Complex Of Dbh Dna Polymerase
pdb|4HYK|A Chain A, Dbh Ternary Complex (substrates Partially Disordered)
Length = 354
Score = 26.6 bits (57), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 16/58 (27%), Positives = 26/58 (44%), Gaps = 8/58 (13%)
Query: 19 TSPTQELAKMSTSQKHQNF--------VSEPMGEKPVTELAGVGDVLGKRLESKGFDK 68
+P + LAK+ + N V + + E + E+ G+G VL +RL G K
Sbjct: 145 VAPNKILAKIIADKSKPNGLGVIRPTEVQDFLNELDIDEIPGIGSVLARRLNELGIQK 202
>pdb|4F4Y|A Chain A, Y-family Dna Polymerase Chimera Dbh-dpo4-dbh
pdb|4F4Y|B Chain B, Y-family Dna Polymerase Chimera Dbh-dpo4-dbh
Length = 362
Score = 26.6 bits (57), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 16/58 (27%), Positives = 26/58 (44%), Gaps = 8/58 (13%)
Query: 19 TSPTQELAKMSTSQKHQNF--------VSEPMGEKPVTELAGVGDVLGKRLESKGFDK 68
+P + LAK+ + N V + + E + E+ G+G VL +RL G K
Sbjct: 145 VAPNKILAKIIADKSKPNGLGVIRPTEVQDFLNELDIDEIPGIGSVLARRLNELGIQK 202
>pdb|1K1Q|A Chain A, Crystal Structure Of A Dinb Family Error Prone Dna
Polymerase From Sulfolobus Solfataricus
pdb|1K1Q|B Chain B, Crystal Structure Of A Dinb Family Error Prone Dna
Polymerase From Sulfolobus Solfataricus
pdb|1K1S|A Chain A, Crystal Structure Of Dinb From Sulfolobus Solfataricus
Length = 354
Score = 26.6 bits (57), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 16/58 (27%), Positives = 26/58 (44%), Gaps = 8/58 (13%)
Query: 19 TSPTQELAKMSTSQKHQNF--------VSEPMGEKPVTELAGVGDVLGKRLESKGFDK 68
+P + LAK+ + N V + + E + E+ G+G VL +RL G K
Sbjct: 145 VAPNKILAKIIADKSKPNGLGVIRPTEVQDFLNELDIDEIPGIGSVLARRLNELGIQK 202
>pdb|3HDI|A Chain A, Crystal Structure Of Bacillus Halodurans Metallo Peptidase
pdb|3HDI|B Chain B, Crystal Structure Of Bacillus Halodurans Metallo Peptidase
Length = 421
Score = 26.6 bits (57), Expect = 4.5, Method: Composition-based stats.
Identities = 16/52 (30%), Positives = 25/52 (48%), Gaps = 2/52 (3%)
Query: 17 PFTSPTQELAKMSTSQKHQ--NFVSEPMGEKPVTELAGVGDVLGKRLESKGF 66
P P + + K T Q H + P+G+K V L + +VLG + S+ F
Sbjct: 219 PMFLPNRIVRKKETEQAHLCLGYPGLPIGDKDVYALVLLNNVLGGSMSSRLF 270
>pdb|1IM4|A Chain A, Crystal Structure Of A Dinb Homolog (Dbh) Lesion Bypass
Dna Polymerase Catalytic Fragment From Sulfolobus
Solfataricus
Length = 221
Score = 26.2 bits (56), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 16/58 (27%), Positives = 26/58 (44%), Gaps = 8/58 (13%)
Query: 19 TSPTQELAKMSTSQKHQNF--------VSEPMGEKPVTELAGVGDVLGKRLESKGFDK 68
+P + LAK+ + N V + + E + E+ G+G VL +RL G K
Sbjct: 150 VAPNKILAKIIADKSKPNGLGVIRPTEVQDFLNELDIDEIPGIGSVLARRLNELGIQK 207
>pdb|4F50|A Chain A, Y-family Dna Polymerase Chimera Dbh-dbh-dpo4
Length = 361
Score = 25.8 bits (55), Expect = 7.2, Method: Compositional matrix adjust.
Identities = 16/58 (27%), Positives = 26/58 (44%), Gaps = 8/58 (13%)
Query: 19 TSPTQELAKMSTSQKHQNF--------VSEPMGEKPVTELAGVGDVLGKRLESKGFDK 68
+P + LAK+ + N V + + E + E+ G+G VL +RL G K
Sbjct: 145 VAPNKILAKIIADKSKPNGLGVIRPTEVQDFLNELDIDEIPGIGSVLARRLNELGIQK 202
>pdb|4F4W|A Chain A, Y-family Dna Polymerase Chimera Dbh-dpo4-dpo4 #1
pdb|4F4W|B Chain B, Y-family Dna Polymerase Chimera Dbh-dpo4-dpo4 #1
pdb|4F4X|A Chain A, Y-family Dna Polymerase Chimera Dbh-dpo4-dpo4 #2
Length = 361
Score = 25.8 bits (55), Expect = 7.5, Method: Compositional matrix adjust.
Identities = 16/58 (27%), Positives = 26/58 (44%), Gaps = 8/58 (13%)
Query: 19 TSPTQELAKMSTSQKHQNF--------VSEPMGEKPVTELAGVGDVLGKRLESKGFDK 68
+P + LAK+ + N V + + E + E+ G+G VL +RL G K
Sbjct: 145 VAPNKILAKIIADKSKPNGLGVIRPTEVQDFLNELDIDEIPGIGSVLARRLNELGIQK 202
>pdb|2AD1|A Chain A, Human Sulfotransferase Sult1c2
pdb|2GWH|A Chain A, Human Sulfotranferase Sult1c2 In Complex With Pap And
Pentachlorophenol
pdb|2GWH|B Chain B, Human Sulfotranferase Sult1c2 In Complex With Pap And
Pentachlorophenol
Length = 298
Score = 25.8 bits (55), Expect = 7.6, Method: Compositional matrix adjust.
Identities = 11/36 (30%), Positives = 20/36 (55%)
Query: 40 EPMGEKPVTELAGVGDVLGKRLESKGFDKSINPQMF 75
E M + P E+ + + +GK+L+ K DK ++ F
Sbjct: 197 EDMKKNPKHEIQKLAEFIGKKLDDKVLDKIVHYTSF 232
>pdb|1OBB|A Chain A, Alpha-Glucosidase A, Agla, From Thermotoga Maritima In
Complex With Maltose And Nad+
pdb|1OBB|B Chain B, Alpha-Glucosidase A, Agla, From Thermotoga Maritima In
Complex With Maltose And Nad+
Length = 480
Score = 25.4 bits (54), Expect = 8.4, Method: Composition-based stats.
Identities = 14/40 (35%), Positives = 23/40 (57%), Gaps = 4/40 (10%)
Query: 38 VSEPMGEKPVTELAGVGDVLGKRLESKGF----DKSINPQ 73
V++ + E P L+ +G VLGK L K F +K ++P+
Sbjct: 310 VAKFIKENPSVRLSDLGSVLGKDLSEKQFVLEVEKILDPE 349
>pdb|3K1Q|I Chain I, Backbone Model Of An Aquareovirus Virion By Cryo-Electron
Microscopy And Bioinformatics
pdb|3K1Q|J Chain J, Backbone Model Of An Aquareovirus Virion By Cryo-Electron
Microscopy And Bioinformatics
pdb|3K1Q|K Chain K, Backbone Model Of An Aquareovirus Virion By Cryo-Electron
Microscopy And Bioinformatics
pdb|3K1Q|O Chain O, Backbone Model Of An Aquareovirus Virion By Cryo-Electron
Microscopy And Bioinformatics
pdb|3K1Q|P Chain P, Backbone Model Of An Aquareovirus Virion By Cryo-Electron
Microscopy And Bioinformatics
pdb|3K1Q|Q Chain Q, Backbone Model Of An Aquareovirus Virion By Cryo-Electron
Microscopy And Bioinformatics
pdb|3K1Q|U Chain U, Backbone Model Of An Aquareovirus Virion By Cryo-Electron
Microscopy And Bioinformatics
pdb|3K1Q|V Chain V, Backbone Model Of An Aquareovirus Virion By Cryo-Electron
Microscopy And Bioinformatics
pdb|3K1Q|W Chain W, Backbone Model Of An Aquareovirus Virion By Cryo-Electron
Microscopy And Bioinformatics
pdb|3K1Q|X Chain X, Backbone Model Of An Aquareovirus Virion By Cryo-Electron
Microscopy And Bioinformatics
Length = 639
Score = 25.4 bits (54), Expect = 8.7, Method: Composition-based stats.
Identities = 13/43 (30%), Positives = 19/43 (44%), Gaps = 6/43 (13%)
Query: 2 LTSPTHWCNSTVHFWPFTSPTQELAKMSTSQKHQNFVSEPMGE 44
LT P + N +H +P P K+ +Q H P+GE
Sbjct: 192 LTYPNEFYNVAIHRYPALKPGNPDTKLPDAQAH------PLGE 228
>pdb|3IYL|A Chain A, Atomic Cryoem Structure Of A Nonenveloped Virus Suggests
How Penetration Protein Is Primed For Cell Entry
pdb|3IYL|B Chain B, Atomic Cryoem Structure Of A Nonenveloped Virus Suggests
How Penetration Protein Is Primed For Cell Entry
pdb|3IYL|C Chain C, Atomic Cryoem Structure Of A Nonenveloped Virus Suggests
How Penetration Protein Is Primed For Cell Entry
pdb|3IYL|D Chain D, Atomic Cryoem Structure Of A Nonenveloped Virus Suggests
How Penetration Protein Is Primed For Cell Entry
pdb|3IYL|E Chain E, Atomic Cryoem Structure Of A Nonenveloped Virus Suggests
How Penetration Protein Is Primed For Cell Entry
pdb|3IYL|F Chain F, Atomic Cryoem Structure Of A Nonenveloped Virus Suggests
How Penetration Protein Is Primed For Cell Entry
pdb|3IYL|G Chain G, Atomic Cryoem Structure Of A Nonenveloped Virus Suggests
How Penetration Protein Is Primed For Cell Entry
pdb|3IYL|H Chain H, Atomic Cryoem Structure Of A Nonenveloped Virus Suggests
How Penetration Protein Is Primed For Cell Entry
pdb|3IYL|I Chain I, Atomic Cryoem Structure Of A Nonenveloped Virus Suggests
How Penetration Protein Is Primed For Cell Entry
pdb|3IYL|J Chain J, Atomic Cryoem Structure Of A Nonenveloped Virus Suggests
How Penetration Protein Is Primed For Cell Entry
pdb|3IYL|K Chain K, Atomic Cryoem Structure Of A Nonenveloped Virus Suggests
How Penetration Protein Is Primed For Cell Entry
pdb|3IYL|L Chain L, Atomic Cryoem Structure Of A Nonenveloped Virus Suggests
How Penetration Protein Is Primed For Cell Entry
pdb|3IYL|M Chain M, Atomic Cryoem Structure Of A Nonenveloped Virus Suggests
How Penetration Protein Is Primed For Cell Entry
pdb|3IYL|N Chain N, Atomic Cryoem Structure Of A Nonenveloped Virus Suggests
How Penetration Protein Is Primed For Cell Entry
pdb|3IYL|O Chain O, Atomic Cryoem Structure Of A Nonenveloped Virus Suggests
How Penetration Protein Is Primed For Cell Entry
pdb|3IYL|P Chain P, Atomic Cryoem Structure Of A Nonenveloped Virus Suggests
How Penetration Protein Is Primed For Cell Entry
pdb|3IYL|Q Chain Q, Atomic Cryoem Structure Of A Nonenveloped Virus Suggests
How Penetration Protein Is Primed For Cell Entry
pdb|3IYL|R Chain R, Atomic Cryoem Structure Of A Nonenveloped Virus Suggests
How Penetration Protein Is Primed For Cell Entry
pdb|3IYL|S Chain S, Atomic Cryoem Structure Of A Nonenveloped Virus Suggests
How Penetration Protein Is Primed For Cell Entry
pdb|3IYL|T Chain T, Atomic Cryoem Structure Of A Nonenveloped Virus Suggests
How Penetration Protein Is Primed For Cell Entry
Length = 648
Score = 25.4 bits (54), Expect = 8.7, Method: Composition-based stats.
Identities = 13/43 (30%), Positives = 19/43 (44%), Gaps = 6/43 (13%)
Query: 2 LTSPTHWCNSTVHFWPFTSPTQELAKMSTSQKHQNFVSEPMGE 44
LT P + N +H +P P K+ +Q H P+GE
Sbjct: 201 LTYPNEFYNVAIHRYPALKPGNPDTKLPDAQAH------PLGE 237
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 0.134 0.422
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,354,914
Number of Sequences: 62578
Number of extensions: 176452
Number of successful extensions: 312
Number of sequences better than 100.0: 16
Number of HSP's better than 100.0 without gapping: 12
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 300
Number of HSP's gapped (non-prelim): 16
length of query: 132
length of database: 14,973,337
effective HSP length: 88
effective length of query: 44
effective length of database: 9,466,473
effective search space: 416524812
effective search space used: 416524812
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)