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= 033766
(112 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 = 38.5 bits (88), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 22/97 (22%), Positives = 48/97 (49%), Gaps = 2/97 (2%)
Query: 10 EFLLRRAE-TEWFVEGDFDAYVRQMRQPHSWGGEPELLMSSHVLKMPITVYMRDKTSGSL 68
++L++ A+ +V DF Y+ + R+ + G E+ + + P+ VY + ++
Sbjct: 82 DYLMKNADYFSNYVTEDFTTYINRKRKNNCHGNHIEMQAMAEMYNRPVEVYQYSTGTSAV 141
Query: 69 KNLSEY-GQEYGKENPIRVLYHGYGHYDLLRGHDATT 104
+ ++ + G ++ PIRV YH HY+ + + T
Sbjct: 142 EPINTFHGIHQNEDEPIRVSYHRNIHYNSVVNPNKAT 178
>pdb|3TMO|A Chain A, The Catalytic Domain Of Human Deubiquitinase Duba
Length = 184
Score = 35.8 bits (81), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 19/78 (24%), Positives = 37/78 (47%), Gaps = 1/78 (1%)
Query: 21 FVEGDFDAYVRQMRQPHSWGGEPELLMSSHVLKMPITVYMRDKTSGSLKNLSEY-GQEYG 79
+V DF Y+ + R+ + G E + P+ VY + +++ ++ + G
Sbjct: 94 YVTEDFTTYINRKRKNNCHGNHIEXQAXAEXYNRPVEVYQYSTGTSAVEPINTFHGIHQN 153
Query: 80 KENPIRVLYHGYGHYDLL 97
++ PIRV YH HY+ +
Sbjct: 154 EDEPIRVSYHRNIHYNSV 171
>pdb|3PFY|A Chain A, The Catalytic Domain Of Human Otud5
Length = 185
Score = 31.2 bits (69), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 19/77 (24%), Positives = 34/77 (44%), Gaps = 4/77 (5%)
Query: 21 FVEGDFDAYVRQMRQPHSWGGEPELLMSSHVLKMPITVYMRDKTSGSLKNLSEYGQEYGK 80
+V DF Y+ + R+ + G E + P+ VY ++ + +G +
Sbjct: 107 YVTEDFTTYINRKRKNNCHGNHIEXQAXAEXYNRPVEVYQY--STEPINTF--HGIHQNE 162
Query: 81 ENPIRVLYHGYGHYDLL 97
+ PIRV YH HY+ +
Sbjct: 163 DEPIRVSYHRNIHYNSV 179
>pdb|2YZL|A Chain A, Crystal Structure Of Phosphoribosylaminoimidazole-
Succinocarboxamide Synthase With Adp From
Methanocaldococcus Jannaschii
pdb|2Z02|A Chain A, Crystal Structure Of
Phosphoribosylaminoimidazolesuccinocarboxamide Synthase
Wit Atp From Methanocaldococcus Jannaschii
pdb|2Z02|B Chain B, Crystal Structure Of
Phosphoribosylaminoimidazolesuccinocarboxamide Synthase
Wit Atp From Methanocaldococcus Jannaschii
Length = 242
Score = 29.6 bits (65), Expect = 0.49, Method: Compositional matrix adjust.
Identities = 17/52 (32%), Positives = 27/52 (51%), Gaps = 2/52 (3%)
Query: 42 EPELLMSSHVLKMPITVYMRDKTSGSLKNLSEYGQEYGKENPIRVLYHGYGH 93
EP +++ V +PI V +R+ +GSL Y E GKE P ++ Y +
Sbjct: 81 EPRYMIAKKVEIIPIEVIVRNIAAGSL--CRRYPFEEGKELPFPIVQFDYKN 130
>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 = 28.1 bits (61), Expect = 1.2, Method: Composition-based stats.
Identities = 12/26 (46%), Positives = 16/26 (61%)
Query: 69 KNLSEYGQEYGKENPIRVLYHGYGHY 94
+ +SE Q +GKE P + Y G GHY
Sbjct: 337 QTVSERLQAHGKEKPQIICYPGTGHY 362
>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 = 28.1 bits (61), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 21/76 (27%), Positives = 35/76 (46%), Gaps = 7/76 (9%)
Query: 29 YVRQMRQPHSWGGEPELLMSSHVLKMPITVYMRDKTSGSLKNLSEYGQEYGKENPIRVLY 88
Y + + + SWGG E+ + S L + I V D N ++ +N I +L+
Sbjct: 76 YAQWILKXESWGGAIEIGIISDALAVAIYVVDIDAVKIEKFNEDKF------DNYILILF 129
Query: 89 HGYGHYDLLRGHDATT 104
+G HYD L ++ T
Sbjct: 130 NGI-HYDSLTXNEFKT 144
>pdb|3BY4|A Chain A, Structure Of Ovarian Tumor (Otu) Domain In Complex With
Ubiquitin
Length = 212
Score = 27.3 bits (59), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 20/76 (26%), Positives = 40/76 (52%), Gaps = 7/76 (9%)
Query: 29 YVRQMRQPHSWGGEPELLMSSHVLKMPITVYMRDKTSGSLKNLSEYGQEYGKENPIRVLY 88
Y + + + SWGG E+ + S L + +Y+ D + ++ +E ++ +N I +L+
Sbjct: 76 YAQWILKMESWGGAIEIGIISDAL--AVAIYVVDIDAVKIEKFNE--DKF--DNYILILF 129
Query: 89 HGYGHYDLLRGHDATT 104
+G HYD L ++ T
Sbjct: 130 NGI-HYDSLTMNEFKT 144
>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 = 26.6 bits (57), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 18/73 (24%), Positives = 36/73 (49%), Gaps = 4/73 (5%)
Query: 27 DAYVRQMRQPHSWGGEPELLMSSHVLKMPITVYMRDKTSGSLKNLSEYGQEYGK-ENPIR 85
D Y++ + + WGG E M S L+ I +++ + T + ++G G+ +
Sbjct: 86 DEYIKVAMKDNEWGGSLEASMLSKHLQTTIILWVVNSTEQVTAAI-KFGP--GRVSTALN 142
Query: 86 VLYHGYGHYDLLR 98
+++ G H+D LR
Sbjct: 143 LMHVGRTHFDALR 155
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
0.320 0.137 0.421
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,579,217
Number of Sequences: 62578
Number of extensions: 135936
Number of successful extensions: 312
Number of sequences better than 100.0: 12
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 10
Number of HSP's that attempted gapping in prelim test: 307
Number of HSP's gapped (non-prelim): 12
length of query: 112
length of database: 14,973,337
effective HSP length: 76
effective length of query: 36
effective length of database: 10,217,409
effective search space: 367826724
effective search space used: 367826724
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: 45 (21.9 bits)