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= 021504
(311 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 = 51.2 bits (121), Expect = 7e-07, Method: Compositional matrix adjust.
Identities = 34/131 (25%), Positives = 60/131 (45%), Gaps = 12/131 (9%)
Query: 172 DGRCLFRAVAHGACLRAGKPAPSVSIQRELADDLRAKVADEFIKRREETEWFIEGDFDLY 231
DG CLFRAVA V +++ + +R D +K + ++ DF Y
Sbjct: 54 DGACLFRAVA-----------DQVYGDQDMHEVVRKHCMDYLMKNADYFSNYVTEDFTTY 102
Query: 232 VSQIRKPHVWGGEPELLMASHVLRMPITVYMHDKDAGGLISIAEY-GQEYGKEKPIRVLY 290
+++ RK + G E+ + + P+ VY + + I + G +++PIRV Y
Sbjct: 103 INRKRKNNCHGNHIEMQAMAEMYNRPVEVYQYSTGTSAVEPINTFHGIHQNEDEPIRVSY 162
Query: 291 HGFGHYDALQN 301
H HY+++ N
Sbjct: 163 HRNIHYNSVVN 173
>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 = 34/131 (25%), Positives = 56/131 (42%), Gaps = 12/131 (9%)
Query: 172 DGRCLFRAVAHGACLRAGKPAPSVSIQRELADDLRAKVADEFIKRREETEWFIEGDFDLY 231
DG CLFRAVA V ++ + +R D K + ++ DF Y
Sbjct: 54 DGACLFRAVA-----------DQVYGDQDXHEVVRKHCXDYLXKNADYFSNYVTEDFTTY 102
Query: 232 VSQIRKPHVWGGEPELLMASHVLRMPITVYMHDKDAGGLISIAEY-GQEYGKEKPIRVLY 290
+++ RK + G E + P+ VY + + I + G +++PIRV Y
Sbjct: 103 INRKRKNNCHGNHIEXQAXAEXYNRPVEVYQYSTGTSAVEPINTFHGIHQNEDEPIRVSY 162
Query: 291 HGFGHYDALQN 301
H HY+++ N
Sbjct: 163 HRNIHYNSVVN 173
>pdb|3PFY|A Chain A, The Catalytic Domain Of Human Otud5
Length = 185
Score = 45.4 bits (106), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 35/130 (26%), Positives = 55/130 (42%), Gaps = 15/130 (11%)
Query: 172 DGRCLFRAVAHGACLRAGKPAPSVSIQRELADDLRAKVADEFIKRREETEWFIEGDFDLY 231
DG CLFRAVA + + R+ D K AD F ++ DF Y
Sbjct: 67 DGACLFRAVAD----QVYGDQDXHEVVRKHCXDYLXKNADYFSN-------YVTEDFTTY 115
Query: 232 VSQIRKPHVWGGEPELLMASHVLRMPITVYMHDKDAGGLISIAEYGQEYGKEKPIRVLYH 291
+++ RK + G E + P+ VY + + +G +++PIRV YH
Sbjct: 116 INRKRKNNCHGNHIEXQAXAEXYNRPVEVYQYSTEPINTF----HGIHQNEDEPIRVSYH 171
Query: 292 GFGHYDALQN 301
HY+++ N
Sbjct: 172 RNIHYNSVVN 181
>pdb|3C0R|A Chain A, Structure Of Ovarian Tumor (Otu) Domain In Complex With
Ubiquitin
pdb|3C0R|C Chain C, Structure Of Ovarian Tumor (Otu) Domain In Complex With
Ubiquitin
Length = 212
Score = 37.0 bits (84), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 35/136 (25%), Positives = 62/136 (45%), Gaps = 20/136 (14%)
Query: 165 SVIGIPGDGRCLFRAVAHGACLRAGKPAPSVSIQRELADDLRAKVADEFIKR-REETEWF 223
SV + D CLF A+A+G +++ DLR V+ E + + +
Sbjct: 21 SVHPVLDDNSCLFHAIAYGI------------FKQDSVRDLREXVSKEVLNNPVKFNDAI 68
Query: 224 IEGDFDLYVSQIRKPHVWGGEPELLMASHVLRMPITVYMHDKDAGGLISIAEYGQEYGKE 283
++ Y I K WGG E+ + S L + +Y+ D DA + I ++ ++ +
Sbjct: 69 LDKPNKDYAQWILKXESWGGAIEIGIISDAL--AVAIYVVDIDA---VKIEKFNED-KFD 122
Query: 284 KPIRVLYHGFGHYDAL 299
I +L++G HYD+L
Sbjct: 123 NYILILFNGI-HYDSL 137
>pdb|3BY4|A Chain A, Structure Of Ovarian Tumor (Otu) Domain In Complex With
Ubiquitin
Length = 212
Score = 37.0 bits (84), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 35/136 (25%), Positives = 62/136 (45%), Gaps = 20/136 (14%)
Query: 165 SVIGIPGDGRCLFRAVAHGACLRAGKPAPSVSIQRELADDLRAKVADEFIKR-REETEWF 223
SV + D CLF A+A+G +++ DLR V+ E + + +
Sbjct: 21 SVHPVLDDNSCLFHAIAYGI------------FKQDSVRDLREMVSKEVLNNPVKFNDAI 68
Query: 224 IEGDFDLYVSQIRKPHVWGGEPELLMASHVLRMPITVYMHDKDAGGLISIAEYGQEYGKE 283
++ Y I K WGG E+ + S L + +Y+ D DA + I ++ ++ +
Sbjct: 69 LDKPNKDYAQWILKMESWGGAIEIGIISDAL--AVAIYVVDIDA---VKIEKFNED-KFD 122
Query: 284 KPIRVLYHGFGHYDAL 299
I +L++G HYD+L
Sbjct: 123 NYILILFNGI-HYDSL 137
>pdb|1S5U|A Chain A, Crystal Structure Of Hypothetical Protein Ec709 From
Escherichia Coli
pdb|1S5U|B Chain B, Crystal Structure Of Hypothetical Protein Ec709 From
Escherichia Coli
pdb|1S5U|C Chain C, Crystal Structure Of Hypothetical Protein Ec709 From
Escherichia Coli
pdb|1S5U|D Chain D, Crystal Structure Of Hypothetical Protein Ec709 From
Escherichia Coli
pdb|1S5U|E Chain E, Crystal Structure Of Hypothetical Protein Ec709 From
Escherichia Coli
pdb|1S5U|F Chain F, Crystal Structure Of Hypothetical Protein Ec709 From
Escherichia Coli
pdb|1S5U|G Chain G, Crystal Structure Of Hypothetical Protein Ec709 From
Escherichia Coli
pdb|1S5U|H Chain H, Crystal Structure Of Hypothetical Protein Ec709 From
Escherichia Coli
Length = 138
Score = 33.5 bits (75), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 15/47 (31%), Positives = 24/47 (51%)
Query: 249 MASHVLRMPITVYMHDKDAGGLISIAEYGQEYGKEKPIRVLYHGFGH 295
M + + R P+ VY D DAGG++ A Y Y + + + +H F
Sbjct: 3 MNTTLFRWPVRVYYEDTDAGGVVYHASYVAFYERARTEMLRHHHFSQ 49
>pdb|3K2I|A Chain A, Human Acyl-Coenzyme A Thioesterase 4
pdb|3K2I|B Chain B, Human Acyl-Coenzyme A Thioesterase 4
Length = 422
Score = 28.5 bits (62), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 12/25 (48%), Positives = 17/25 (68%)
Query: 272 SIAEYGQEYGKEKPIRVLYHGFGHY 296
+++E Q +GKEKP + Y G GHY
Sbjct: 338 TVSERLQAHGKEKPQIICYPGTGHY 362
>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 = 27.7 bits (60), Expect = 7.4, Method: Compositional matrix adjust.
Identities = 32/138 (23%), Positives = 58/138 (42%), Gaps = 11/138 (7%)
Query: 164 YSVIGIPGDGRCLFRAVAHGACLRAGKPAPSVSIQRELADDLRAKVADEFIKRREETEWF 223
+ VI PGDG C + ++A P+ ++ L ++A E E
Sbjct: 28 FEVIRQPGDGNCFYHSIAE-LFFDVKTPSSFRKVKEHL------QLAAEVYYDTEPEAVG 80
Query: 224 IEGDFDLYVSQIRKPHVWGGEPELLMASHVLRMPITVYMHDKDAGGLISIAEYGQEYGK- 282
D Y+ K + WGG E M S L+ I +++ + +I ++G G+
Sbjct: 81 TGISKDEYIKVAMKDNEWGGSLEASMLSKHLQTTIILWVVNSTEQVTAAI-KFGP--GRV 137
Query: 283 EKPIRVLYHGFGHYDALQ 300
+ +++ G H+DAL+
Sbjct: 138 STALNLMHVGRTHFDALR 155
>pdb|2OYO|A Chain A, Crystal Structure Of Uncharacterized Peroxidase-Related
Protein (Yp_604910.1) From Deinococcus Geothermalis Dsm
11300 At 1.51 A Resolution
pdb|2OYO|B Chain B, Crystal Structure Of Uncharacterized Peroxidase-Related
Protein (Yp_604910.1) From Deinococcus Geothermalis Dsm
11300 At 1.51 A Resolution
Length = 196
Score = 27.7 bits (60), Expect = 8.0, Method: Compositional matrix adjust.
Identities = 17/41 (41%), Positives = 24/41 (58%), Gaps = 4/41 (9%)
Query: 167 IGIPGDGRCLFRAVAHGACLRA--GKP--APSVSIQRELAD 203
+ + G RCL+ AV+HGA LR G P A +V++ AD
Sbjct: 83 VVVSGVNRCLYCAVSHGAALREFLGDPQKADAVAVNWRHAD 123
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
0.321 0.138 0.430
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,106,603
Number of Sequences: 62578
Number of extensions: 359499
Number of successful extensions: 802
Number of sequences better than 100.0: 13
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 10
Number of HSP's that attempted gapping in prelim test: 793
Number of HSP's gapped (non-prelim): 13
length of query: 311
length of database: 14,973,337
effective HSP length: 99
effective length of query: 212
effective length of database: 8,778,115
effective search space: 1860960380
effective search space used: 1860960380
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 51 (24.3 bits)