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= 022282
(300 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3TMP|A Chain A, The Catalytic Domain Of Human Deubiquitinase Duba In
Complex With Ubiquitin Aldehyde
pdb|3TMP|C Chain C, The Catalytic Domain Of Human Deubiquitinase Duba In
Complex With Ubiquitin Aldehyde
pdb|3TMP|E Chain E, The Catalytic Domain Of Human Deubiquitinase Duba In
Complex With Ubiquitin Aldehyde
pdb|3TMP|G Chain G, The Catalytic Domain Of Human Deubiquitinase Duba In
Complex With Ubiquitin Aldehyde
Length = 184
Score = 49.3 bits (116), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 21/78 (26%), Positives = 45/78 (57%)
Query: 217 LVENKVQGDGNCQFRSLSDQLYRSPEHHMFVRQQVVNQLKAHPEIYEGYVPMAYSDYLKK 276
+ +++ DG C FR+++DQ+Y + H VR+ ++ L + + + YV ++ Y+ +
Sbjct: 46 FIIKQMKEDGACLFRAVADQVYGDQDMHEVVRKHCMDYLMKNADYFSNYVTEDFTTYINR 105
Query: 277 MNKSGEWGDHVTLQAAAD 294
K+ G+H+ +QA A+
Sbjct: 106 KRKNNCHGNHIEMQAMAE 123
>pdb|3TMO|A Chain A, The Catalytic Domain Of Human Deubiquitinase Duba
Length = 184
Score = 47.8 bits (112), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 21/70 (30%), Positives = 39/70 (55%)
Query: 225 DGNCQFRSLSDQLYRSPEHHMFVRQQVVNQLKAHPEIYEGYVPMAYSDYLKKMNKSGEWG 284
DG C FR+++DQ+Y + H VR+ + L + + + YV ++ Y+ + K+ G
Sbjct: 54 DGACLFRAVADQVYGDQDXHEVVRKHCXDYLXKNADYFSNYVTEDFTTYINRKRKNNCHG 113
Query: 285 DHVTLQAAAD 294
+H+ QA A+
Sbjct: 114 NHIEXQAXAE 123
>pdb|3PFY|A Chain A, The Catalytic Domain Of Human Otud5
Length = 185
Score = 47.4 bits (111), Expect = 9e-06, Method: Compositional matrix adjust.
Identities = 21/70 (30%), Positives = 39/70 (55%)
Query: 225 DGNCQFRSLSDQLYRSPEHHMFVRQQVVNQLKAHPEIYEGYVPMAYSDYLKKMNKSGEWG 284
DG C FR+++DQ+Y + H VR+ + L + + + YV ++ Y+ + K+ G
Sbjct: 67 DGACLFRAVADQVYGDQDXHEVVRKHCXDYLXKNADYFSNYVTEDFTTYINRKRKNNCHG 126
Query: 285 DHVTLQAAAD 294
+H+ QA A+
Sbjct: 127 NHIEXQAXAE 136
>pdb|3ZNH|A Chain A, Crimean Congo Hemorrhagic Fever Virus Otu Domain In
Complex With Ubiquitin-propargyl
Length = 183
Score = 31.2 bits (69), Expect = 0.81, Method: Compositional matrix adjust.
Identities = 25/87 (28%), Positives = 40/87 (45%), Gaps = 7/87 (8%)
Query: 211 RLQLYDLVENKVQ-GDGNCQFRSLSDQLYRSPEHHMFVRQQVVNQLKAHPEIYE----GY 265
R + D E Q GDGNC + S+++ + H + + + + A E
Sbjct: 22 RFNISDYFEIVRQPGDGNCFYHSIAELTMPNKTDHSYHYIKRLTESAARKYYQEEPEARL 81
Query: 266 VPMAYSDYLKKMNKSGEWGDHVTLQAA 292
V ++ DYLK+M EWG TL+A+
Sbjct: 82 VGLSLEDYLKRMLSDNEWGS--TLEAS 106
>pdb|3PRP|A Chain A, Structural Analysis Of A Viral Otu Domain Protease From
The Crimean- Congo Hemorrhagic Fever Virus In Complex
With Human Ubiquitin
pdb|3PRP|C Chain C, Structural Analysis Of A Viral Otu Domain Protease From
The Crimean- Congo Hemorrhagic Fever Virus In Complex
With Human Ubiquitin
Length = 178
Score = 30.8 bits (68), Expect = 0.88, Method: Compositional matrix adjust.
Identities = 25/87 (28%), Positives = 40/87 (45%), Gaps = 7/87 (8%)
Query: 211 RLQLYDLVENKVQ-GDGNCQFRSLSDQLYRSPEHHMFVRQQVVNQLKAHPEIYE----GY 265
R + D E Q GDGNC + S+++ + H + + + + A E
Sbjct: 22 RFNISDYFEIVRQPGDGNCFYHSIAELTMPNKTDHSYHYIKRLTESAARKYYQEEPEARL 81
Query: 266 VPMAYSDYLKKMNKSGEWGDHVTLQAA 292
V ++ DYLK+M EWG TL+A+
Sbjct: 82 VGLSLEDYLKRMLSDNEWGS--TLEAS 106
>pdb|3PHW|A Chain A, Otu Domain Of Crimean Congo Hemorrhagic Fever Virus In
Complex With Ubiquitin
pdb|3PHW|C Chain C, Otu Domain Of Crimean Congo Hemorrhagic Fever Virus In
Complex With Ubiquitin
pdb|3PHW|E Chain E, Otu Domain Of Crimean Congo Hemorrhagic Fever Virus In
Complex With Ubiquitin
pdb|3PHW|G Chain G, Otu Domain Of Crimean Congo Hemorrhagic Fever Virus In
Complex With Ubiquitin
pdb|3PHX|A Chain A, Otu Domain Of Crimean Congo Hemorrhagic Fever Virus In
Complex With Isg15
Length = 185
Score = 30.8 bits (68), Expect = 0.89, Method: Compositional matrix adjust.
Identities = 25/87 (28%), Positives = 40/87 (45%), Gaps = 7/87 (8%)
Query: 211 RLQLYDLVENKVQ-GDGNCQFRSLSDQLYRSPEHHMFVRQQVVNQLKAHPEIYE----GY 265
R + D E Q GDGNC + S+++ + H + + + + A E
Sbjct: 24 RFNISDYFEIVRQPGDGNCFYHSIAELTMPNKTDHSYHYIKRLTESAARKYYQEEPEARL 83
Query: 266 VPMAYSDYLKKMNKSGEWGDHVTLQAA 292
V ++ DYLK+M EWG TL+A+
Sbjct: 84 VGLSLEDYLKRMLSDNEWGS--TLEAS 108
>pdb|3PSE|A Chain A, Structure Of A Viral Otu Domain Protease Bound To
Interferon- Stimulated Gene 15 (Isg15)
Length = 171
Score = 30.8 bits (68), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 25/87 (28%), Positives = 40/87 (45%), Gaps = 7/87 (8%)
Query: 211 RLQLYDLVENKVQ-GDGNCQFRSLSDQLYRSPEHHMFVRQQVVNQLKAHPEIYE----GY 265
R + D E Q GDGNC + S+++ + H + + + + A E
Sbjct: 24 RFNISDYFEIVRQPGDGNCFYHSIAELTMPNKTDHSYHYIKRLTESAARKYYQEEPEARL 83
Query: 266 VPMAYSDYLKKMNKSGEWGDHVTLQAA 292
V ++ DYLK+M EWG TL+A+
Sbjct: 84 VGLSLEDYLKRMLSDNEWGS--TLEAS 108
>pdb|4HXD|B Chain B, Diversity Of Ubiquitin And Isg15 Specificity Amongst
Nairoviruses Viral Ovarian Tumor Domain Proteases
pdb|4HXD|D Chain D, Diversity Of Ubiquitin And Isg15 Specificity Amongst
Nairoviruses Viral Ovarian Tumor Domain Proteases
Length = 174
Score = 30.0 bits (66), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 21/69 (30%), Positives = 34/69 (49%), Gaps = 12/69 (17%)
Query: 224 GDGNCQFRSLSDQLY--RSPEHHMFVRQQVVNQLKAHPEIYEGYVPMAYS------DYLK 275
GDGNC + S+++ + ++P V++ + QL A E+Y P A +Y+K
Sbjct: 35 GDGNCFYHSIAELFFDVKTPSSFRKVKEHL--QLAA--EVYYDTEPEAVGTGISKDEYIK 90
Query: 276 KMNKSGEWG 284
K EWG
Sbjct: 91 VAMKDNEWG 99
>pdb|2BIB|A Chain A, Crystal Structure Of The Complete Modular Teichioic Acid
Phosphorylcholine Esterase Pce (Cbpe) From Streptococcus
Pneumoniae
Length = 547
Score = 29.3 bits (64), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 16/52 (30%), Positives = 25/52 (48%), Gaps = 12/52 (23%)
Query: 199 DEEISDHQRMLDRLQLYD------------LVENKVQGDGNCQFRSLSDQLY 238
D I++ +R+ D L YD +++N QGD + QF + QLY
Sbjct: 113 DSRITNSERLWDNLYGYDKVLQTATETGVSVIQNITQGDAHFQFGDMDIQLY 164
>pdb|1WRA|A Chain A, Crystal Structure Of Phosphorylcholine Esterase Domain Of
The Virulence Factor Choline Binding Protein E From
Streptococcus Pneumoniae
pdb|1WRA|B Chain B, Crystal Structure Of Phosphorylcholine Esterase Domain Of
The Virulence Factor Choline Binding Protein E From
Streptococcus Pneumoniae
Length = 308
Score = 28.9 bits (63), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 16/52 (30%), Positives = 25/52 (48%), Gaps = 12/52 (23%)
Query: 199 DEEISDHQRMLDRLQLYD------------LVENKVQGDGNCQFRSLSDQLY 238
D I++ +R+ D L YD +++N QGD + QF + QLY
Sbjct: 112 DSRITNSERLWDNLYGYDKVLQTATETGVSVIQNITQGDAHFQFGDMDIQLY 163
>pdb|3PT2|A Chain A, Structure Of A Viral Otu Domain Protease Bound To
Ubiquitin
Length = 187
Score = 28.5 bits (62), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 24/87 (27%), Positives = 39/87 (44%), Gaps = 7/87 (8%)
Query: 211 RLQLYDLVENKVQ-GDGNCQFRSLSDQLYRSPEHHMFVRQQVVNQLKAHPEIYE----GY 265
R + D E Q GDGNC + S+++ + H + + + + A E
Sbjct: 25 RFNISDYFEIVRQPGDGNCFYHSIAELTXPNKTDHSYHYIKRLTESAARKYYQEEPEARL 84
Query: 266 VPMAYSDYLKKMNKSGEWGDHVTLQAA 292
V ++ DYLK+ EWG TL+A+
Sbjct: 85 VGLSLEDYLKRXLSDNEWGS--TLEAS 109
>pdb|3PRM|A Chain A, Structural Analysis Of A Viral Otu Domain Protease From
The Crimean- Congo Hemorrhagic Fever Virus In Complex
With Human Ubiquitin
pdb|3PRM|C Chain C, Structural Analysis Of A Viral Otu Domain Protease From
The Crimean- Congo Hemorrhagic Fever Virus In Complex
With Human Ubiquitin
Length = 178
Score = 28.5 bits (62), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 24/87 (27%), Positives = 39/87 (44%), Gaps = 7/87 (8%)
Query: 211 RLQLYDLVENKVQ-GDGNCQFRSLSDQLYRSPEHHMFVRQQVVNQLKAHPEIYE----GY 265
R + D E Q GDGNC + S+++ + H + + + + A E
Sbjct: 22 RFNISDYFEIVRQPGDGNCFYHSIAELTXPNKTDHSYHYIKRLTESAARKYYQEEPEARL 81
Query: 266 VPMAYSDYLKKMNKSGEWGDHVTLQAA 292
V ++ DYLK+ EWG TL+A+
Sbjct: 82 VGLSLEDYLKRXLSDNEWGS--TLEAS 106
>pdb|2ZBK|B Chain B, Crystal Structure Of An Intact Type Ii Dna Topoisomerase:
Insights Into Dna Transfer Mechanisms
pdb|2ZBK|D Chain D, Crystal Structure Of An Intact Type Ii Dna Topoisomerase:
Insights Into Dna Transfer Mechanisms
pdb|2ZBK|F Chain F, Crystal Structure Of An Intact Type Ii Dna Topoisomerase:
Insights Into Dna Transfer Mechanisms
pdb|2ZBK|H Chain H, Crystal Structure Of An Intact Type Ii Dna Topoisomerase:
Insights Into Dna Transfer Mechanisms
Length = 530
Score = 28.1 bits (61), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 11/36 (30%), Positives = 20/36 (55%)
Query: 185 VPHIPKINGDIPSPDEEISDHQRMLDRLQLYDLVEN 220
V + P++ IP P +E+ H +DR ++ L+ N
Sbjct: 212 VTYYPRLTNKIPKPPQEVKPHPYGVDREEIKILINN 247
>pdb|1MX0|A Chain A, Structure Of Topoisomerase Subunit
pdb|1MX0|B Chain B, Structure Of Topoisomerase Subunit
pdb|1MX0|C Chain C, Structure Of Topoisomerase Subunit
pdb|1MX0|D Chain D, Structure Of Topoisomerase Subunit
pdb|1MX0|E Chain E, Structure Of Topoisomerase Subunit
pdb|1MX0|F Chain F, Structure Of Topoisomerase Subunit
Length = 472
Score = 28.1 bits (61), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 11/36 (30%), Positives = 20/36 (55%)
Query: 185 VPHIPKINGDIPSPDEEISDHQRMLDRLQLYDLVEN 220
V + P++ IP P +E+ H +DR ++ L+ N
Sbjct: 214 VTYYPRLTNKIPKPPQEVKPHPYGVDREEIKILINN 249
>pdb|1MU5|A Chain A, Structure Of Topoisomerase Subunit
Length = 471
Score = 28.1 bits (61), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 11/36 (30%), Positives = 20/36 (55%)
Query: 185 VPHIPKINGDIPSPDEEISDHQRMLDRLQLYDLVEN 220
V + P++ IP P +E+ H +DR ++ L+ N
Sbjct: 213 VTYYPRLTNKIPKPPQEVKPHPYGVDREEIKILINN 248
>pdb|1Z59|A Chain A, Topoisomerase Vi-B, Adp-Bound Monomer Form
pdb|1Z5C|A Chain A, Topoisomerase Vi-B, Adp Pi Bound Dimer Form
pdb|1Z5C|B Chain B, Topoisomerase Vi-B, Adp Pi Bound Dimer Form
Length = 469
Score = 28.1 bits (61), Expect = 5.9, Method: Compositional matrix adjust.
Identities = 11/36 (30%), Positives = 20/36 (55%)
Query: 185 VPHIPKINGDIPSPDEEISDHQRMLDRLQLYDLVEN 220
V + P++ IP P +E+ H +DR ++ L+ N
Sbjct: 211 VTYYPRLTNKIPKPPQEVKPHPYGVDREEIKILINN 246
>pdb|1Z5A|A Chain A, Topoisomerase Vi-B, Adp-Bound Dimer Form
pdb|1Z5A|B Chain B, Topoisomerase Vi-B, Adp-Bound Dimer Form
pdb|1Z5B|A Chain A, Topoisomerase Vi-B, Adp Alf4- Bound Dimer Form
pdb|1Z5B|B Chain B, Topoisomerase Vi-B, Adp Alf4- Bound Dimer Form
pdb|2HKJ|A Chain A, Topoisomerase Vi-B Bound To Radicicol
Length = 469
Score = 28.1 bits (61), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 11/36 (30%), Positives = 20/36 (55%)
Query: 185 VPHIPKINGDIPSPDEEISDHQRMLDRLQLYDLVEN 220
V + P++ IP P +E+ H +DR ++ L+ N
Sbjct: 211 VTYYPRLTNKIPKPPQEVKPHPYGVDREEIKILINN 246
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 0.373
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,437,404
Number of Sequences: 62578
Number of extensions: 400185
Number of successful extensions: 855
Number of sequences better than 100.0: 32
Number of HSP's better than 100.0 without gapping: 9
Number of HSP's successfully gapped in prelim test: 23
Number of HSP's that attempted gapping in prelim test: 838
Number of HSP's gapped (non-prelim): 35
length of query: 300
length of database: 14,973,337
effective HSP length: 98
effective length of query: 202
effective length of database: 8,840,693
effective search space: 1785819986
effective search space used: 1785819986
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: 51 (24.3 bits)