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= 007773
(590 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2ZVN|A Chain A, Nemo Cozi Domain Incomplex With Diubiquitin In P212121
Space Group
pdb|2ZVN|G Chain G, Nemo Cozi Domain Incomplex With Diubiquitin In P212121
Space Group
pdb|2ZVN|C Chain C, Nemo Cozi Domain Incomplex With Diubiquitin In P212121
Space Group
pdb|2ZVN|E Chain E, Nemo Cozi Domain Incomplex With Diubiquitin In P212121
Space Group
pdb|2ZVO|A Chain A, Nemo Cozi Domain In Complex With Diubiquitin In C2 Space
Group
pdb|2ZVO|G Chain G, Nemo Cozi Domain In Complex With Diubiquitin In C2 Space
Group
pdb|3AXC|A Chain A, Crystal Structure Of Linear Diubiquitin
Length = 154
Score = 80.9 bits (198), Expect = 2e-15, Method: Compositional matrix adjust.
Identities = 53/152 (34%), Positives = 83/152 (54%), Gaps = 4/152 (2%)
Query: 33 SILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRD 91
S+ IF+ ++ G I + V SD+I +VK +IQ G +Q+L+F G++L + + D
Sbjct: 2 SMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRT-LSD 60
Query: 92 YGLADGNVLHLVLRLSDLQAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKN 151
Y + + LHLVLRL I V T+ GK VE + VK +I K E +
Sbjct: 61 YNIQKESTLHLVLRLRGGMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDK--EGIPPDQ 118
Query: 152 QELICDGEELEDQRLITDICKRNEAVIHLLVR 183
Q LI G++LED R ++D + E+ +HL++R
Sbjct: 119 QRLIFAGKQLEDGRTLSDYNIQKESTLHLVLR 150
Score = 47.8 bits (112), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 27/72 (37%), Positives = 43/72 (59%), Gaps = 2/72 (2%)
Query: 36 IFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGL 94
IF+ ++ G I + V SD+I +VK +IQ G +Q+L+F G++L + + DY +
Sbjct: 81 IFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRT-LSDYNI 139
Query: 95 ADGNVLHLVLRL 106
+ LHLVLRL
Sbjct: 140 QKESTLHLVLRL 151
>pdb|2Y5B|B Chain B, Structure Of Usp21 In Complex With Linear
Diubiquitin-Aldehyde
pdb|2Y5B|F Chain F, Structure Of Usp21 In Complex With Linear
Diubiquitin-Aldehyde
Length = 152
Score = 80.1 bits (196), Expect = 3e-15, Method: Compositional matrix adjust.
Identities = 52/149 (34%), Positives = 81/149 (54%), Gaps = 4/149 (2%)
Query: 36 IFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGL 94
IF+ ++ G I + V SD+I +VK +IQ G +Q+L+F G++L + + DY +
Sbjct: 3 IFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRT-LSDYNI 61
Query: 95 ADGNVLHLVLRLSDLQAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQEL 154
+ LHLVLRL I V T+ GK VE + VK +I K E + Q L
Sbjct: 62 QKESTLHLVLRLRGHMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDK--EGIPPDQQRL 119
Query: 155 ICDGEELEDQRLITDICKRNEAVIHLLVR 183
I G++LED R ++D + E+ +HL++R
Sbjct: 120 IFAGKQLEDGRTLSDYNIQKESTLHLVLR 148
Score = 48.1 bits (113), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 27/72 (37%), Positives = 43/72 (59%), Gaps = 2/72 (2%)
Query: 36 IFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGL 94
IF+ ++ G I + V SD+I +VK +IQ G +Q+L+F G++L + + DY +
Sbjct: 79 IFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRT-LSDYNI 137
Query: 95 ADGNVLHLVLRL 106
+ LHLVLRL
Sbjct: 138 QKESTLHLVLRL 149
>pdb|3U30|A Chain A, Crystal Structure Of A Linear-Specific Ubiquitin Fab Bound
To Linear Ubiquitin
pdb|3U30|D Chain D, Crystal Structure Of A Linear-Specific Ubiquitin Fab Bound
To Linear Ubiquitin
Length = 172
Score = 80.1 bits (196), Expect = 3e-15, Method: Compositional matrix adjust.
Identities = 52/149 (34%), Positives = 81/149 (54%), Gaps = 4/149 (2%)
Query: 36 IFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGL 94
IF+ ++ G I + V SD+I +VK +IQ G +Q+L+F G++L + + DY +
Sbjct: 23 IFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRT-LSDYNI 81
Query: 95 ADGNVLHLVLRLSDLQAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQEL 154
+ LHLVLRL I V T+ GK VE + VK +I K E + Q L
Sbjct: 82 QKESTLHLVLRLRGGMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDK--EGIPPDQQRL 139
Query: 155 ICDGEELEDQRLITDICKRNEAVIHLLVR 183
I G++LED R ++D + E+ +HL++R
Sbjct: 140 IFAGKQLEDGRTLSDYNIQKESTLHLVLR 168
Score = 47.4 bits (111), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 27/72 (37%), Positives = 43/72 (59%), Gaps = 2/72 (2%)
Query: 36 IFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGL 94
IF+ ++ G I + V SD+I +VK +IQ G +Q+L+F G++L + + DY +
Sbjct: 99 IFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRT-LSDYNI 157
Query: 95 ADGNVLHLVLRL 106
+ LHLVLRL
Sbjct: 158 QKESTLHLVLRL 169
>pdb|3B08|A Chain A, Crystal Structure Of The Mouse Hoil1-L-Nzf In Complex With
Linear Di- Ubiquitin
pdb|3B08|D Chain D, Crystal Structure Of The Mouse Hoil1-L-Nzf In Complex With
Linear Di- Ubiquitin
pdb|3B08|G Chain G, Crystal Structure Of The Mouse Hoil1-L-Nzf In Complex With
Linear Di- Ubiquitin
pdb|3B08|J Chain J, Crystal Structure Of The Mouse Hoil1-L-Nzf In Complex With
Linear Di- Ubiquitin
pdb|3B0A|A Chain A, Crystal Structure Of The Mouse Hoil1-L-Nzf In Complex With
Linear Di- Ubiquitin
pdb|3B0A|D Chain D, Crystal Structure Of The Mouse Hoil1-L-Nzf In Complex With
Linear Di- Ubiquitin
Length = 152
Score = 79.7 bits (195), Expect = 5e-15, Method: Compositional matrix adjust.
Identities = 52/149 (34%), Positives = 81/149 (54%), Gaps = 4/149 (2%)
Query: 36 IFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGL 94
IF+ ++ G I + V SD+I +VK +IQ G +Q+L+F G++L + + DY +
Sbjct: 3 IFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRT-LSDYNI 61
Query: 95 ADGNVLHLVLRLSDLQAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQEL 154
+ LHLVLRL I V T+ GK VE + VK +I K E + Q L
Sbjct: 62 QKESTLHLVLRLRGGMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDK--EGIPPDQQRL 119
Query: 155 ICDGEELEDQRLITDICKRNEAVIHLLVR 183
I G++LED R ++D + E+ +HL++R
Sbjct: 120 IFAGKQLEDGRTLSDYNIQKESTLHLVLR 148
Score = 47.8 bits (112), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 27/72 (37%), Positives = 43/72 (59%), Gaps = 2/72 (2%)
Query: 36 IFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGL 94
IF+ ++ G I + V SD+I +VK +IQ G +Q+L+F G++L + + DY +
Sbjct: 79 IFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRT-LSDYNI 137
Query: 95 ADGNVLHLVLRL 106
+ LHLVLRL
Sbjct: 138 QKESTLHLVLRL 149
>pdb|2W9N|A Chain A, Crystal Structure Of Linear Di-Ubiquitin
Length = 152
Score = 79.7 bits (195), Expect = 5e-15, Method: Compositional matrix adjust.
Identities = 52/149 (34%), Positives = 81/149 (54%), Gaps = 4/149 (2%)
Query: 36 IFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGL 94
IF+ ++ G I + V SD+I +VK +IQ G +Q+L+F G++L + + DY +
Sbjct: 3 IFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRT-LSDYNI 61
Query: 95 ADGNVLHLVLRLSDLQAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQEL 154
+ LHLVLRL I V T+ GK VE + VK +I K E + Q L
Sbjct: 62 QKESTLHLVLRLRGGMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDK--EGIPPDQQRL 119
Query: 155 ICDGEELEDQRLITDICKRNEAVIHLLVR 183
I G++LED R ++D + E+ +HL++R
Sbjct: 120 IFAGKQLEDGRTLSDYNIQKESTLHLVLR 148
Score = 47.8 bits (112), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 27/72 (37%), Positives = 43/72 (59%), Gaps = 2/72 (2%)
Query: 36 IFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGL 94
IF+ ++ G I + V SD+I +VK +IQ G +Q+L+F G++L + + DY +
Sbjct: 79 IFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRT-LSDYNI 137
Query: 95 ADGNVLHLVLRL 106
+ LHLVLRL
Sbjct: 138 QKESTLHLVLRL 149
>pdb|2GBK|A Chain A, Crystal Structure Of The 9-10 Moad Insertion Mutant Of
Ubiquitin
pdb|2GBK|B Chain B, Crystal Structure Of The 9-10 Moad Insertion Mutant Of
Ubiquitin
pdb|2GBK|C Chain C, Crystal Structure Of The 9-10 Moad Insertion Mutant Of
Ubiquitin
pdb|2GBK|D Chain D, Crystal Structure Of The 9-10 Moad Insertion Mutant Of
Ubiquitin
Length = 83
Score = 50.4 bits (119), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 27/67 (40%), Positives = 40/67 (59%), Gaps = 1/67 (1%)
Query: 40 VGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNV 99
VGG I + V SD+I +VK +IQ G +Q+L+F G++L + + DY + +
Sbjct: 15 VGGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRT-LSDYNIQKEST 73
Query: 100 LHLVLRL 106
LHLVLRL
Sbjct: 74 LHLVLRL 80
Score = 35.8 bits (81), Expect = 0.062, Method: Compositional matrix adjust.
Identities = 23/67 (34%), Positives = 35/67 (52%), Gaps = 2/67 (2%)
Query: 117 VCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEA 176
V GK VE + VK +I K E + Q LI G++LED R ++D + E+
Sbjct: 15 VGGKTITLEVEPSDTIENVKAKIQDK--EGIPPDQQRLIFAGKQLEDGRTLSDYNIQKES 72
Query: 177 VIHLLVR 183
+HL++R
Sbjct: 73 TLHLVLR 79
>pdb|3JVZ|X Chain X, E2~ubiquitin-Hect
pdb|3JVZ|Y Chain Y, E2~ubiquitin-Hect
pdb|3JW0|X Chain X, E2~ubiquitin-Hect
pdb|3JW0|Y Chain Y, E2~ubiquitin-Hect
pdb|4AUQ|C Chain C, Structure Of Birc7-Ubch5b-Ub Complex.
pdb|4AUQ|F Chain F, Structure Of Birc7-Ubch5b-Ub Complex
Length = 81
Score = 49.3 bits (116), Expect = 6e-06, Method: Compositional matrix adjust.
Identities = 29/78 (37%), Positives = 46/78 (58%), Gaps = 2/78 (2%)
Query: 30 SNDSILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSR 88
S S+ IF+ ++ G I + V SD+I +VK +IQ G +Q+L+F G++L +
Sbjct: 2 SGGSMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRT- 60
Query: 89 VRDYGLADGNVLHLVLRL 106
+ DY + + LHLVLRL
Sbjct: 61 LSDYNIQKESTLHLVLRL 78
Score = 40.4 bits (93), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 25/72 (34%), Positives = 38/72 (52%), Gaps = 2/72 (2%)
Query: 112 ITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDIC 171
I V T+ GK VE + VK +I K E + Q LI G++LED R ++D
Sbjct: 8 IFVKTLTGKTITLEVEPSDTIENVKAKIQDK--EGIPPDQQRLIFAGKQLEDGRTLSDYN 65
Query: 172 KRNEAVIHLLVR 183
+ E+ +HL++R
Sbjct: 66 IQKESTLHLVLR 77
>pdb|1ZGU|B Chain B, Solution Structure Of The Human Mms2-Ubiquitin Complex
Length = 76
Score = 48.9 bits (115), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 28/72 (38%), Positives = 43/72 (59%), Gaps = 2/72 (2%)
Query: 36 IFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGL 94
IF+ ++ G I + V SD+I +VK +IQ G +Q+L+F GR+L + + DY +
Sbjct: 3 IFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGRQLEDGRT-LSDYNI 61
Query: 95 ADGNVLHLVLRL 106
+ LHLVLRL
Sbjct: 62 QKESTLHLVLRL 73
Score = 39.3 bits (90), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 25/72 (34%), Positives = 37/72 (51%), Gaps = 2/72 (2%)
Query: 112 ITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDIC 171
I V T+ GK VE + VK +I K E + Q LI G +LED R ++D
Sbjct: 3 IFVKTLTGKTITLEVEPSDTIENVKAKIQDK--EGIPPDQQRLIFAGRQLEDGRTLSDYN 60
Query: 172 KRNEAVIHLLVR 183
+ E+ +HL++R
Sbjct: 61 IQKESTLHLVLR 72
>pdb|3AI5|A Chain A, Crystal Structure Of Yeast Enhanced Green Fluorescent
Protein- Ubiquitin Fusion Protein
Length = 307
Score = 48.5 bits (114), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 28/75 (37%), Positives = 45/75 (60%), Gaps = 2/75 (2%)
Query: 33 SILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRD 91
S+ IF+ ++ G I + V SD+I +VK +IQ G +Q+L+F G++L + + D
Sbjct: 233 SMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRT-LSD 291
Query: 92 YGLADGNVLHLVLRL 106
Y + + LHLVLRL
Sbjct: 292 YNIQKESTLHLVLRL 306
Score = 40.4 bits (93), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 25/72 (34%), Positives = 38/72 (52%), Gaps = 2/72 (2%)
Query: 112 ITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDIC 171
I V T+ GK VE + VK +I K E + Q LI G++LED R ++D
Sbjct: 236 IFVKTLTGKTITLEVEPSDTIENVKAKIQDK--EGIPPDQQRLIFAGKQLEDGRTLSDYN 293
Query: 172 KRNEAVIHLLVR 183
+ E+ +HL++R
Sbjct: 294 IQKESTLHLVLR 305
>pdb|3K9O|B Chain B, The Crystal Structure Of E2-25k And Ubb+1 Complex
Length = 96
Score = 48.5 bits (114), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 27/72 (37%), Positives = 43/72 (59%), Gaps = 2/72 (2%)
Query: 36 IFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGL 94
IF+ ++ G I + V SD+I +VK +IQ G +Q+L+F G++L + + DY +
Sbjct: 4 IFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRT-LSDYNI 62
Query: 95 ADGNVLHLVLRL 106
+ LHLVLRL
Sbjct: 63 QKESTLHLVLRL 74
Score = 42.0 bits (97), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 29/87 (33%), Positives = 45/87 (51%), Gaps = 4/87 (4%)
Query: 112 ITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDIC 171
I V T+ GK VE + VK +I K E + Q LI G++LED R ++D
Sbjct: 4 IFVKTLTGKTITLEVEPSDTIENVKAKIQDK--EGIPPDQQRLIFAGKQLEDGRTLSDYN 61
Query: 172 KRNEAVIHLL--VRKSAKVRAKPVQKD 196
+ E+ +HL+ +R A +R P ++D
Sbjct: 62 IQKESTLHLVLRLRGYADLREDPDRQD 88
>pdb|2XK5|B Chain B, Crystal Structure Of K6-Linked Diubiquitin
Length = 76
Score = 48.5 bits (114), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 27/72 (37%), Positives = 44/72 (61%), Gaps = 2/72 (2%)
Query: 36 IFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGL 94
IF+ ++ G I + V SD+I +VK +IQ G ++Q+L+F G++L + + DY +
Sbjct: 3 IFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPQQQRLIFAGKQLEDGRT-LSDYNI 61
Query: 95 ADGNVLHLVLRL 106
+ LHLVLRL
Sbjct: 62 QKESTLHLVLRL 73
Score = 40.4 bits (93), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 25/72 (34%), Positives = 39/72 (54%), Gaps = 2/72 (2%)
Query: 112 ITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDIC 171
I V T+ GK VE + VK +I K E + + Q LI G++LED R ++D
Sbjct: 3 IFVKTLTGKTITLEVEPSDTIENVKAKIQDK--EGIPPQQQRLIFAGKQLEDGRTLSDYN 60
Query: 172 KRNEAVIHLLVR 183
+ E+ +HL++R
Sbjct: 61 IQKESTLHLVLR 72
>pdb|2O6V|D Chain D, Crystal Structure And Solution Nmr Studies Of Lys48-Linked
Tetraubiquitin At Neutral Ph
pdb|2O6V|H Chain H, Crystal Structure And Solution Nmr Studies Of Lys48-Linked
Tetraubiquitin At Neutral Ph
Length = 76
Score = 48.1 bits (113), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 28/72 (38%), Positives = 43/72 (59%), Gaps = 2/72 (2%)
Query: 36 IFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGL 94
IF+ ++ G I + V SD+I +VK +IQ G +Q+L+F GR+L + + DY +
Sbjct: 3 IFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGRQLEDGRT-LSDYNI 61
Query: 95 ADGNVLHLVLRL 106
+ LHLVLRL
Sbjct: 62 QRESTLHLVLRL 73
Score = 39.3 bits (90), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 25/72 (34%), Positives = 37/72 (51%), Gaps = 2/72 (2%)
Query: 112 ITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDIC 171
I V T+ GK VE + VK +I K E + Q LI G +LED R ++D
Sbjct: 3 IFVKTLTGKTITLEVEPSDTIENVKAKIQDK--EGIPPDQQRLIFAGRQLEDGRTLSDYN 60
Query: 172 KRNEAVIHLLVR 183
+ E+ +HL++R
Sbjct: 61 IQRESTLHLVLR 72
>pdb|2ZCB|A Chain A, Crystal Structure Of Ubiquitin P37aP38A
pdb|2ZCB|B Chain B, Crystal Structure Of Ubiquitin P37aP38A
pdb|2ZCB|C Chain C, Crystal Structure Of Ubiquitin P37aP38A
Length = 76
Score = 48.1 bits (113), Expect = 1e-05, Method: Composition-based stats.
Identities = 25/68 (36%), Positives = 40/68 (58%), Gaps = 1/68 (1%)
Query: 39 SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGN 98
++ G I + V SD+I +VK +IQ G +Q+L+F G++L + + DY + +
Sbjct: 7 TLTGKTITLEVEPSDTIENVKAKIQDKEGIAADQQRLIFAGKQLEDGRT-LSDYNIQKES 65
Query: 99 VLHLVLRL 106
LHLVLRL
Sbjct: 66 TLHLVLRL 73
Score = 40.4 bits (93), Expect = 0.003, Method: Composition-based stats.
Identities = 25/72 (34%), Positives = 38/72 (52%), Gaps = 2/72 (2%)
Query: 112 ITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDIC 171
I V T+ GK VE + VK +I K E + Q LI G++LED R ++D
Sbjct: 3 IFVKTLTGKTITLEVEPSDTIENVKAKIQDK--EGIAADQQRLIFAGKQLEDGRTLSDYN 60
Query: 172 KRNEAVIHLLVR 183
+ E+ +HL++R
Sbjct: 61 IQKESTLHLVLR 72
>pdb|3ZF7|SS Chain s, High-resolution Cryo-electron Microscopy Structure Of The
Trypanosoma Brucei Ribosome
Length = 128
Score = 48.1 bits (113), Expect = 1e-05, Method: Composition-based stats.
Identities = 25/68 (36%), Positives = 40/68 (58%), Gaps = 1/68 (1%)
Query: 39 SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGN 98
++ G I + V SD+I +VK +IQ G +Q+L+F G++L + + DY + +
Sbjct: 7 TLTGKTIALEVEASDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEEGRT-LADYNIQKES 65
Query: 99 VLHLVLRL 106
LHLVLRL
Sbjct: 66 TLHLVLRL 73
Score = 38.5 bits (88), Expect = 0.010, Method: Composition-based stats.
Identities = 24/72 (33%), Positives = 37/72 (51%), Gaps = 2/72 (2%)
Query: 112 ITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDIC 171
I V T+ GK VE + VK +I K E + Q LI G++LE+ R + D
Sbjct: 3 IFVKTLTGKTIALEVEASDTIENVKAKIQDK--EGIPPDQQRLIFAGKQLEEGRTLADYN 60
Query: 172 KRNEAVIHLLVR 183
+ E+ +HL++R
Sbjct: 61 IQKESTLHLVLR 72
>pdb|3LDZ|F Chain F, Crystal Structure Of Human Stam1 Vhs Domain In Complex
With Ubiquitin
pdb|3LDZ|E Chain E, Crystal Structure Of Human Stam1 Vhs Domain In Complex
With Ubiquitin
pdb|3LDZ|G Chain G, Crystal Structure Of Human Stam1 Vhs Domain In Complex
With Ubiquitin
Length = 73
Score = 48.1 bits (113), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 27/72 (37%), Positives = 43/72 (59%), Gaps = 2/72 (2%)
Query: 36 IFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGL 94
IF+ ++ G I + V SD+I +VK +IQ G +Q+L+F G++L + + DY +
Sbjct: 3 IFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRT-LSDYNI 61
Query: 95 ADGNVLHLVLRL 106
+ LHLVLRL
Sbjct: 62 QKESTLHLVLRL 73
Score = 39.3 bits (90), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 25/72 (34%), Positives = 38/72 (52%), Gaps = 2/72 (2%)
Query: 112 ITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDIC 171
I V T+ GK VE + VK +I K E + Q LI G++LED R ++D
Sbjct: 3 IFVKTLTGKTITLEVEPSDTIENVKAKIQDK--EGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 172 KRNEAVIHLLVR 183
+ E+ +HL++R
Sbjct: 61 IQKESTLHLVLR 72
>pdb|2K6D|B Chain B, Cin85 Sh3-C Domain In Complex With Ubiquitin
pdb|2KJH|B Chain B, Nmr Based Structural Model Of The Ubch8-Ubiquitin Complex
pdb|4DHJ|D Chain D, The Structure Of A Ceotub1 Ubiquitin Aldehyde Ubc13~ub
Complex
pdb|4DHJ|H Chain H, The Structure Of A Ceotub1 Ubiquitin Aldehyde Ubc13~ub
Complex
pdb|4DHZ|E Chain E, The Structure Of HCEOTUB1-Ubiquitin Aldehyde-Ubc13~ub
Length = 76
Score = 47.8 bits (112), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 27/72 (37%), Positives = 43/72 (59%), Gaps = 2/72 (2%)
Query: 36 IFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGL 94
IF+ ++ G I + V SD+I +VK +IQ G +Q+L+F G++L + + DY +
Sbjct: 3 IFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRT-LSDYNI 61
Query: 95 ADGNVLHLVLRL 106
+ LHLVLRL
Sbjct: 62 QKESTLHLVLRL 73
Score = 38.9 bits (89), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 25/72 (34%), Positives = 38/72 (52%), Gaps = 2/72 (2%)
Query: 112 ITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDIC 171
I V T+ GK VE + VK +I K E + Q LI G++LED R ++D
Sbjct: 3 IFVKTLTGKTITLEVEPSDTIENVKAKIQDK--EGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 172 KRNEAVIHLLVR 183
+ E+ +HL++R
Sbjct: 61 IQKESTLHLVLR 72
>pdb|3Q3F|A Chain A, Engineering Domain-Swapped Binding Interfaces By Mutually
Exclusive Folding: Insertion Of Ubiquitin Into Position
103 Of Barnase
Length = 189
Score = 47.8 bits (112), Expect = 2e-05, Method: Composition-based stats.
Identities = 25/68 (36%), Positives = 40/68 (58%), Gaps = 1/68 (1%)
Query: 39 SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGN 98
++ G I + V SD+I +VK +IQ G +Q+L+F G++L + + DY + +
Sbjct: 112 TLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRT-LSDYNIQKES 170
Query: 99 VLHLVLRL 106
LHLVLRL
Sbjct: 171 TLHLVLRL 178
Score = 41.2 bits (95), Expect = 0.002, Method: Composition-based stats.
Identities = 25/72 (34%), Positives = 38/72 (52%), Gaps = 2/72 (2%)
Query: 112 ITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDIC 171
I V T+ GK VE + VK +I K E + Q LI G++LED R ++D
Sbjct: 108 IFVKTLTGKTITLEVEPSDTIENVKAKIQDK--EGIPPDQQRLIFAGKQLEDGRTLSDYN 165
Query: 172 KRNEAVIHLLVR 183
+ E+ +HL++R
Sbjct: 166 IQKESTLHLVLR 177
>pdb|1YX5|B Chain B, Solution Structure Of S5a Uim-1UBIQUITIN COMPLEX
pdb|1YX6|B Chain B, Solution Structure Of S5a Uim-2UBIQUITIN COMPLEX
Length = 98
Score = 47.8 bits (112), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 27/72 (37%), Positives = 43/72 (59%), Gaps = 2/72 (2%)
Query: 36 IFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGL 94
IF+ ++ G I + V SD+I +VK +IQ G +Q+L+F G++L + + DY +
Sbjct: 3 IFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRT-LSDYNI 61
Query: 95 ADGNVLHLVLRL 106
+ LHLVLRL
Sbjct: 62 QKESTLHLVLRL 73
Score = 40.4 bits (93), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 25/72 (34%), Positives = 38/72 (52%), Gaps = 2/72 (2%)
Query: 112 ITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDIC 171
I V T+ GK VE + VK +I K E + Q LI G++LED R ++D
Sbjct: 3 IFVKTLTGKTITLEVEPSDTIENVKAKIQDK--EGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 172 KRNEAVIHLLVR 183
+ E+ +HL++R
Sbjct: 61 IQKESTLHLVLR 72
>pdb|3RUL|A Chain A, New Strategy To Analyze Structures Of Glycopeptide-Target
Complexes
pdb|3RUL|B Chain B, New Strategy To Analyze Structures Of Glycopeptide-Target
Complexes
pdb|3RUL|C Chain C, New Strategy To Analyze Structures Of Glycopeptide-Target
Complexes
pdb|3RUL|D Chain D, New Strategy To Analyze Structures Of Glycopeptide-Target
Complexes
pdb|3VFK|A Chain A, The Structure Of Monodechloro-Teicoplanin In Complex With
Its Ligand, Using Ubiquitin As A Ligand Carrier
Length = 79
Score = 47.8 bits (112), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 27/72 (37%), Positives = 43/72 (59%), Gaps = 2/72 (2%)
Query: 36 IFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGL 94
IF+ ++ G I + V SD+I +VK +IQ G +Q+L+F G++L + + DY +
Sbjct: 3 IFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRT-LSDYNI 61
Query: 95 ADGNVLHLVLRL 106
+ LHLVLRL
Sbjct: 62 QKESTLHLVLRL 73
Score = 39.7 bits (91), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 25/72 (34%), Positives = 38/72 (52%), Gaps = 2/72 (2%)
Query: 112 ITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDIC 171
I V T+ GK VE + VK +I K E + Q LI G++LED R ++D
Sbjct: 3 IFVKTLTGKTITLEVEPSDTIENVKAKIQDK--EGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 172 KRNEAVIHLLVR 183
+ E+ +HL++R
Sbjct: 61 IQKESTLHLVLR 72
>pdb|2ZNV|C Chain C, Crystal Structure Of Human Amsh-Lp Dub Domain In Complex
With Lys63-Linked Ubiquitin Dimer
pdb|2ZNV|F Chain F, Crystal Structure Of Human Amsh-Lp Dub Domain In Complex
With Lys63-Linked Ubiquitin Dimer
pdb|3A1Q|A Chain A, Crystal Structure Of The Mouse Rap80 Uims In Complex With
Lys63-Linked Di-Ubiquitin
pdb|3A1Q|D Chain D, Crystal Structure Of The Mouse Rap80 Uims In Complex With
Lys63-Linked Di-Ubiquitin
pdb|3JSV|B Chain B, Crystal Structure Of Mouse Nemo Cozi In Complex With
Lys63- Linked Di-Ubiquitin
pdb|3A9J|B Chain B, Crystal Structure Of The Mouse Tab2-Nzf In Complex With
Lys63-Linked Di-Ubiquitin
pdb|3A9K|B Chain B, Crystal Structure Of The Mouse Tab3-Nzf In Complex With
Lys63-Linked Di-Ubiquitin
Length = 77
Score = 47.8 bits (112), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 27/72 (37%), Positives = 43/72 (59%), Gaps = 2/72 (2%)
Query: 36 IFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGL 94
IF+ ++ G I + V SD+I +VK +IQ G +Q+L+F G++L + + DY +
Sbjct: 3 IFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRT-LSDYNI 61
Query: 95 ADGNVLHLVLRL 106
+ LHLVLRL
Sbjct: 62 QKESTLHLVLRL 73
Score = 39.7 bits (91), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 25/72 (34%), Positives = 38/72 (52%), Gaps = 2/72 (2%)
Query: 112 ITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDIC 171
I V T+ GK VE + VK +I K E + Q LI G++LED R ++D
Sbjct: 3 IFVKTLTGKTITLEVEPSDTIENVKAKIQDK--EGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 172 KRNEAVIHLLVR 183
+ E+ +HL++R
Sbjct: 61 IQKESTLHLVLR 72
>pdb|2K25|A Chain A, Automated Nmr Structure Of The Ubb By Fapsy
pdb|2KX0|A Chain A, The Solution Structure Of Ubb+1, Frameshift Mutant Of
Ubiquitin B
Length = 103
Score = 47.8 bits (112), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 27/75 (36%), Positives = 45/75 (60%), Gaps = 2/75 (2%)
Query: 33 SILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRD 91
S+ IF+ ++ G I + V SD+I +VK +IQ G +Q+L+F G++L + + +
Sbjct: 8 SMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRT-LSE 66
Query: 92 YGLADGNVLHLVLRL 106
Y + + LHLVLRL
Sbjct: 67 YNIQKESTLHLVLRL 81
Score = 40.4 bits (93), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 28/87 (32%), Positives = 45/87 (51%), Gaps = 4/87 (4%)
Query: 112 ITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDIC 171
I V T+ GK VE + VK +I K E + Q LI G++LED R +++
Sbjct: 11 IFVKTLTGKTITLEVEPSDTIENVKAKIQDK--EGIPPDQQRLIFAGKQLEDGRTLSEYN 68
Query: 172 KRNEAVIHLL--VRKSAKVRAKPVQKD 196
+ E+ +HL+ +R A +R P ++D
Sbjct: 69 IQKESTLHLVLRLRGYADLREDPDRQD 95
>pdb|3DVG|X Chain X, Crystal Structure Of K63-Specific Fab Apu.3a8 Bound To
K63-Linked Di- Ubiquitin
pdb|3DVN|X Chain X, Crystal Structure Of K63-specific Fab Apu2.16 Bound To
K63-linked Di- Ubiquitin
pdb|3DVN|U Chain U, Crystal Structure Of K63-specific Fab Apu2.16 Bound To
K63-linked Di- Ubiquitin
Length = 80
Score = 47.8 bits (112), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 27/72 (37%), Positives = 43/72 (59%), Gaps = 2/72 (2%)
Query: 36 IFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGL 94
IF+ ++ G I + V SD+I +VK +IQ G +Q+L+F G++L + + DY +
Sbjct: 6 IFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRT-LSDYNI 64
Query: 95 ADGNVLHLVLRL 106
+ LHLVLRL
Sbjct: 65 QKESTLHLVLRL 76
Score = 40.0 bits (92), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 25/72 (34%), Positives = 38/72 (52%), Gaps = 2/72 (2%)
Query: 112 ITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDIC 171
I V T+ GK VE + VK +I K E + Q LI G++LED R ++D
Sbjct: 6 IFVKTLTGKTITLEVEPSDTIENVKAKIQDK--EGIPPDQQRLIFAGKQLEDGRTLSDYN 63
Query: 172 KRNEAVIHLLVR 183
+ E+ +HL++R
Sbjct: 64 IQKESTLHLVLR 75
>pdb|3V6C|B Chain B, Crystal Structure Of Usp2 In Complex With Mutated
Ubiquitin
Length = 91
Score = 47.8 bits (112), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 28/75 (37%), Positives = 46/75 (61%), Gaps = 2/75 (2%)
Query: 33 SILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRD 91
S+ IF+ ++ G+ I + V SD+I +VK +IQ G +Q+L+F G++L + + D
Sbjct: 17 SMQIFVNTLTGTHITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRT-LSD 75
Query: 92 YGLADGNVLHLVLRL 106
Y + + LHLVLRL
Sbjct: 76 YNIQKESTLHLVLRL 90
Score = 37.4 bits (85), Expect = 0.021, Method: Compositional matrix adjust.
Identities = 24/72 (33%), Positives = 37/72 (51%), Gaps = 2/72 (2%)
Query: 112 ITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDIC 171
I V T+ G VE + VK +I K E + Q LI G++LED R ++D
Sbjct: 20 IFVNTLTGTHITLEVEPSDTIENVKAKIQDK--EGIPPDQQRLIFAGKQLEDGRTLSDYN 77
Query: 172 KRNEAVIHLLVR 183
+ E+ +HL++R
Sbjct: 78 IQKESTLHLVLR 89
>pdb|3NOB|A Chain A, Structure Of K11-Linked Di-Ubiquitin
pdb|3NOB|B Chain B, Structure Of K11-Linked Di-Ubiquitin
pdb|3NOB|C Chain C, Structure Of K11-Linked Di-Ubiquitin
pdb|3NOB|D Chain D, Structure Of K11-Linked Di-Ubiquitin
pdb|3NOB|E Chain E, Structure Of K11-Linked Di-Ubiquitin
pdb|3NOB|F Chain F, Structure Of K11-Linked Di-Ubiquitin
pdb|3NOB|G Chain G, Structure Of K11-Linked Di-Ubiquitin
pdb|3NOB|H Chain H, Structure Of K11-Linked Di-Ubiquitin
Length = 78
Score = 47.8 bits (112), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 27/72 (37%), Positives = 43/72 (59%), Gaps = 2/72 (2%)
Query: 36 IFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGL 94
IF+ ++ G I + V SD+I +VK +IQ G +Q+L+F G++L + + DY +
Sbjct: 5 IFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRT-LSDYNI 63
Query: 95 ADGNVLHLVLRL 106
+ LHLVLRL
Sbjct: 64 QKESTLHLVLRL 75
Score = 39.7 bits (91), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 25/72 (34%), Positives = 38/72 (52%), Gaps = 2/72 (2%)
Query: 112 ITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDIC 171
I V T+ GK VE + VK +I K E + Q LI G++LED R ++D
Sbjct: 5 IFVKTLTGKTITLEVEPSDTIENVKAKIQDK--EGIPPDQQRLIFAGKQLEDGRTLSDYN 62
Query: 172 KRNEAVIHLLVR 183
+ E+ +HL++R
Sbjct: 63 IQKESTLHLVLR 74
>pdb|1XD3|B Chain B, Crystal Structure Of Uchl3-Ubvme Complex
pdb|1XD3|D Chain D, Crystal Structure Of Uchl3-Ubvme Complex
pdb|2IBI|B Chain B, Covalent Ubiquitin-Usp2 Complex
pdb|2J7Q|B Chain B, Crystal Structure Of The Ubiquitin-Specific Protease
Encoded By Murine Cytomegalovirus Tegument Protein M48
In Complex With A Ubquitin-Based Suicide Substrate
pdb|2J7Q|D Chain D, Crystal Structure Of The Ubiquitin-Specific Protease
Encoded By Murine Cytomegalovirus Tegument Protein M48
In Complex With A Ubquitin-Based Suicide Substrate
pdb|3C0R|B Chain B, Structure Of Ovarian Tumor (Otu) Domain In Complex With
Ubiquitin
pdb|3C0R|D Chain D, Structure Of Ovarian Tumor (Otu) Domain In Complex With
Ubiquitin
pdb|3BY4|B Chain B, Structure Of Ovarian Tumor (Otu) Domain In Complex With
Ubiquitin
pdb|3I3T|B Chain B, Crystal Structure Of Covalent Ubiquitin-usp21 Complex
pdb|3I3T|D Chain D, Crystal Structure Of Covalent Ubiquitin-usp21 Complex
pdb|3I3T|F Chain F, Crystal Structure Of Covalent Ubiquitin-usp21 Complex
pdb|3I3T|H Chain H, Crystal Structure Of Covalent Ubiquitin-usp21 Complex
pdb|3IHP|C Chain C, Covalent Ubiquitin-Usp5 Complex
pdb|3IHP|D Chain D, Covalent Ubiquitin-Usp5 Complex
pdb|3IFW|B Chain B, Crystal Structure Of The S18y Variant Of Ubiquitin Carboxy
T Hydrolase L1 Bound To Ubiquitin Vinylmethylester.
pdb|3KVF|B Chain B, Crystal Structure Of The I93m Mutant Of Ubiquitin Carboxy
Te Hydrolase L1 Bound To Ubiquitin Vinylmethylester
pdb|3KW5|B Chain B, Crystal Structure Of Ubiquitin Carboxy Terminal Hydrolase
L1 Ubiquitin Vinylmethylester
pdb|3PT2|B Chain B, Structure Of A Viral Otu Domain Protease Bound To
Ubiquitin
pdb|3PRM|B Chain B, Structural Analysis Of A Viral Otu Domain Protease From
The Crimean- Congo Hemorrhagic Fever Virus In Complex
With Human Ubiquitin
pdb|3PRM|D Chain D, Structural Analysis Of A Viral Otu Domain Protease From
The Crimean- Congo Hemorrhagic Fever Virus In Complex
With Human Ubiquitin
pdb|3PRP|B Chain B, Structural Analysis Of A Viral Otu Domain Protease From
The Crimean- Congo Hemorrhagic Fever Virus In Complex
With Human Ubiquitin
pdb|3PRP|D Chain D, Structural Analysis Of A Viral Otu Domain Protease From
The Crimean- Congo Hemorrhagic Fever Virus In Complex
With Human Ubiquitin
pdb|3PHW|B Chain B, Otu Domain Of Crimean Congo Hemorrhagic Fever Virus In
Complex With Ubiquitin
pdb|3PHW|D Chain D, Otu Domain Of Crimean Congo Hemorrhagic Fever Virus In
Complex With Ubiquitin
pdb|3PHW|F Chain F, Otu Domain Of Crimean Congo Hemorrhagic Fever Virus In
Complex With Ubiquitin
pdb|3PHW|H Chain H, Otu Domain Of Crimean Congo Hemorrhagic Fever Virus In
Complex With Ubiquitin
pdb|4HXD|A Chain A, Diversity Of Ubiquitin And Isg15 Specificity Amongst
Nairoviruses Viral Ovarian Tumor Domain Proteases
pdb|4HXD|C Chain C, Diversity Of Ubiquitin And Isg15 Specificity Amongst
Nairoviruses Viral Ovarian Tumor Domain Proteases
Length = 75
Score = 47.8 bits (112), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 27/72 (37%), Positives = 43/72 (59%), Gaps = 2/72 (2%)
Query: 36 IFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGL 94
IF+ ++ G I + V SD+I +VK +IQ G +Q+L+F G++L + + DY +
Sbjct: 3 IFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRT-LSDYNI 61
Query: 95 ADGNVLHLVLRL 106
+ LHLVLRL
Sbjct: 62 QKESTLHLVLRL 73
Score = 39.3 bits (90), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 25/72 (34%), Positives = 38/72 (52%), Gaps = 2/72 (2%)
Query: 112 ITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDIC 171
I V T+ GK VE + VK +I K E + Q LI G++LED R ++D
Sbjct: 3 IFVKTLTGKTITLEVEPSDTIENVKAKIQDK--EGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 172 KRNEAVIHLLVR 183
+ E+ +HL++R
Sbjct: 61 IQKESTLHLVLR 72
>pdb|1CMX|B Chain B, Structural Basis For The Specificity Of Ubiquitin C-
Terminal Hydrolases
pdb|1CMX|D Chain D, Structural Basis For The Specificity Of Ubiquitin C-
Terminal Hydrolases
pdb|1NBF|C Chain C, Crystal Structure Of A Ubp-Family Deubiquitinating Enzyme
In Isolation And In Complex With Ubiquitin Aldehyde
pdb|1NBF|D Chain D, Crystal Structure Of A Ubp-Family Deubiquitinating Enzyme
In Isolation And In Complex With Ubiquitin Aldehyde
pdb|2AYO|B Chain B, Structure Of Usp14 Bound To Ubquitin Aldehyde
pdb|2WDT|B Chain B, Crystal Structure Of Plasmodium Falciparum Uchl3 In
Complex With The Suicide Inhibitor Ubvme
pdb|2WDT|D Chain D, Crystal Structure Of Plasmodium Falciparum Uchl3 In
Complex With The Suicide Inhibitor Ubvme
pdb|3MHS|D Chain D, Structure Of The Saga Ubp8SGF11SUS1SGF73 DUB MODULE BOUND
Ubiquitin Aldehyde
pdb|3O65|B Chain B, Crystal Structure Of A Josephin-Ubiquitin Complex:
Evolutionary Restraints On Ataxin-3 Deubiquitinating
Activity
pdb|3O65|D Chain D, Crystal Structure Of A Josephin-Ubiquitin Complex:
Evolutionary Restraints On Ataxin-3 Deubiquitinating
Activity
pdb|3O65|F Chain F, Crystal Structure Of A Josephin-Ubiquitin Complex:
Evolutionary Restraints On Ataxin-3 Deubiquitinating
Activity
pdb|3O65|H Chain H, Crystal Structure Of A Josephin-Ubiquitin Complex:
Evolutionary Restraints On Ataxin-3 Deubiquitinating
Activity
pdb|3TMP|B Chain B, The Catalytic Domain Of Human Deubiquitinase Duba In
Complex With Ubiquitin Aldehyde
pdb|3TMP|D Chain D, The Catalytic Domain Of Human Deubiquitinase Duba In
Complex With Ubiquitin Aldehyde
pdb|3TMP|F Chain F, The Catalytic Domain Of Human Deubiquitinase Duba In
Complex With Ubiquitin Aldehyde
pdb|3TMP|H Chain H, The Catalytic Domain Of Human Deubiquitinase Duba In
Complex With Ubiquitin Aldehyde
pdb|4DHJ|B Chain B, The Structure Of A Ceotub1 Ubiquitin Aldehyde Ubc13~ub
Complex
pdb|4DHJ|F Chain F, The Structure Of A Ceotub1 Ubiquitin Aldehyde Ubc13~ub
Complex
pdb|4DHJ|J Chain J, The Structure Of A Ceotub1 Ubiquitin Aldehyde Ubc13~ub
Complex
pdb|4DHJ|M Chain M, The Structure Of A Ceotub1 Ubiquitin Aldehyde Ubc13~ub
Complex
pdb|4DHZ|B Chain B, The Structure Of HCEOTUB1-Ubiquitin Aldehyde-Ubc13~ub
pdb|4IUM|B Chain B, Equine Arteritis Virus Papain-like Protease 2 (plp2)
Covalently Bound To Ubiquitin
pdb|3ZNH|B Chain B, Crimean Congo Hemorrhagic Fever Virus Otu Domain In
Complex With Ubiquitin-propargyl
Length = 76
Score = 47.8 bits (112), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 27/72 (37%), Positives = 43/72 (59%), Gaps = 2/72 (2%)
Query: 36 IFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGL 94
IF+ ++ G I + V SD+I +VK +IQ G +Q+L+F G++L + + DY +
Sbjct: 3 IFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRT-LSDYNI 61
Query: 95 ADGNVLHLVLRL 106
+ LHLVLRL
Sbjct: 62 QKESTLHLVLRL 73
Score = 39.3 bits (90), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 25/72 (34%), Positives = 38/72 (52%), Gaps = 2/72 (2%)
Query: 112 ITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDIC 171
I V T+ GK VE + VK +I K E + Q LI G++LED R ++D
Sbjct: 3 IFVKTLTGKTITLEVEPSDTIENVKAKIQDK--EGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 172 KRNEAVIHLLVR 183
+ E+ +HL++R
Sbjct: 61 IQKESTLHLVLR 72
>pdb|1S1Q|B Chain B, Tsg101(Uev) Domain In Complex With Ubiquitin
pdb|1S1Q|D Chain D, Tsg101(Uev) Domain In Complex With Ubiquitin
pdb|1G6J|A Chain A, Structure Of Recombinant Human Ubiquitin In Aot Reverse
Micelles
Length = 76
Score = 47.8 bits (112), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 27/72 (37%), Positives = 43/72 (59%), Gaps = 2/72 (2%)
Query: 36 IFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGL 94
IF+ ++ G I + V SD+I +VK +IQ G +Q+L+F G++L + + DY +
Sbjct: 3 IFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRT-LSDYNI 61
Query: 95 ADGNVLHLVLRL 106
+ LHLVLRL
Sbjct: 62 QKESTLHLVLRL 73
Score = 39.7 bits (91), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 25/72 (34%), Positives = 38/72 (52%), Gaps = 2/72 (2%)
Query: 112 ITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDIC 171
I V T+ GK VE + VK +I K E + Q LI G++LED R ++D
Sbjct: 3 IFVKTLTGKTITLEVEPSDTIENVKAKIQDK--EGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 172 KRNEAVIHLLVR 183
+ E+ +HL++R
Sbjct: 61 IQKESTLHLVLR 72
>pdb|1AAR|A Chain A, Structure Of A Diubiquitin Conjugate And A Model For
Interaction With Ubiquitin Conjugating Enzyme (E2)
pdb|1AAR|B Chain B, Structure Of A Diubiquitin Conjugate And A Model For
Interaction With Ubiquitin Conjugating Enzyme (E2)
pdb|1TBE|A Chain A, Structure Of Tetraubiquitin Shows How Multiubiquitin
Chains Can Be Formed
pdb|1TBE|B Chain B, Structure Of Tetraubiquitin Shows How Multiubiquitin
Chains Can Be Formed
pdb|1F9J|A Chain A, Structure Of A New Crystal Form Of Tetraubiquitin
pdb|1F9J|B Chain B, Structure Of A New Crystal Form Of Tetraubiquitin
pdb|1P3Q|U Chain U, Mechanism Of Ubiquitin Recognition By The Cue Domain Of
Vps9
pdb|1P3Q|V Chain V, Mechanism Of Ubiquitin Recognition By The Cue Domain Of
Vps9
pdb|1UZX|B Chain B, A Complex Of The Vps23 Uev With Ubiquitin
pdb|1YD8|U Chain U, Complex Of Human Gga3 Gat Domain And Ubiquitin
pdb|1YD8|V Chain V, Complex Of Human Gga3 Gat Domain And Ubiquitin
pdb|1WR6|E Chain E, Crystal Structure Of Gga3 Gat Domain In Complex With
Ubiquitin
pdb|1WR6|F Chain F, Crystal Structure Of Gga3 Gat Domain In Complex With
Ubiquitin
pdb|1WR6|G Chain G, Crystal Structure Of Gga3 Gat Domain In Complex With
Ubiquitin
pdb|1WR6|H Chain H, Crystal Structure Of Gga3 Gat Domain In Complex With
Ubiquitin
pdb|1WRD|B Chain B, Crystal Structure Of Tom1 Gat Domain In Complex With
Ubiquitin
pdb|2D3G|A Chain A, Double Sided Ubiquitin Binding Of Hrs-Uim
pdb|2D3G|B Chain B, Double Sided Ubiquitin Binding Of Hrs-Uim
pdb|2C7M|B Chain B, Human Rabex-5 Residues 1-74 In Complex With Ubiquitin
pdb|2C7N|B Chain B, Human Rabex-5 Residues 1-74 In Complex With Ubiquitin
pdb|2C7N|D Chain D, Human Rabex-5 Residues 1-74 In Complex With Ubiquitin
pdb|2C7N|F Chain F, Human Rabex-5 Residues 1-74 In Complex With Ubiquitin
pdb|2C7N|H Chain H, Human Rabex-5 Residues 1-74 In Complex With Ubiquitin
pdb|2C7N|J Chain J, Human Rabex-5 Residues 1-74 In Complex With Ubiquitin
pdb|2C7N|L Chain L, Human Rabex-5 Residues 1-74 In Complex With Ubiquitin
pdb|2FID|A Chain A, Crystal Structure Of A Bovine Rabex-5 Fragment Complexed
With Ubiquitin
pdb|2FIF|A Chain A, Crystal Structure Of A Bovine Rabex-5 Fragment Complexed
With Ubiquitin
pdb|2FIF|C Chain C, Crystal Structure Of A Bovine Rabex-5 Fragment Complexed
With Ubiquitin
pdb|2FIF|E Chain E, Crystal Structure Of A Bovine Rabex-5 Fragment Complexed
With Ubiquitin
pdb|2G45|B Chain B, Co-Crystal Structure Of Znf Ubp Domain From The
Deubiquitinating Enzyme Isopeptidase T (Isot) In Complex
With Ubiquitin
pdb|2G45|E Chain E, Co-Crystal Structure Of Znf Ubp Domain From The
Deubiquitinating Enzyme Isopeptidase T (Isot) In Complex
With Ubiquitin
pdb|2HD5|B Chain B, Usp2 In Complex With Ubiquitin
pdb|2GMI|C Chain C, Mms2UBC13~UBIQUITIN
pdb|2DX5|B Chain B, The Complex Structure Between The Mouse Eap45-Glue Domain
And Ubiquitin
pdb|2HTH|A Chain A, Structural Basis For Ubiquitin Recognition By The Human
Eap45ESCRT-Ii Glue Domain
pdb|2OOB|B Chain B, Crystal Structure Of The Uba Domain From Cbl-B Ubiquitin
Ligase In Complex With Ubiquitin
pdb|2O6V|A Chain A, Crystal Structure And Solution Nmr Studies Of Lys48-Linked
Tetraubiquitin At Neutral Ph
pdb|2O6V|C Chain C, Crystal Structure And Solution Nmr Studies Of Lys48-Linked
Tetraubiquitin At Neutral Ph
pdb|2O6V|E Chain E, Crystal Structure And Solution Nmr Studies Of Lys48-Linked
Tetraubiquitin At Neutral Ph
pdb|2O6V|G Chain G, Crystal Structure And Solution Nmr Studies Of Lys48-Linked
Tetraubiquitin At Neutral Ph
pdb|2PE9|A Chain A, Nmr Based Structure Of The Open Conformation Of Lys48-
Linked Di-Ubiquitin Using Experimental Global Rotational
Diffusion Tensor From Nmr Relaxation Measurements
pdb|2PE9|B Chain B, Nmr Based Structure Of The Open Conformation Of Lys48-
Linked Di-Ubiquitin Using Experimental Global Rotational
Diffusion Tensor From Nmr Relaxation Measurements
pdb|2PEA|A Chain A, Nmr Based Structure Of The Closed Conformation Of Lys48-
Linked Di-Ubiquitin Using Experimental Global Rotational
Diffusion Tensor From Nmr Relaxation Measurements
pdb|2PEA|B Chain B, Nmr Based Structure Of The Closed Conformation Of Lys48-
Linked Di-Ubiquitin Using Experimental Global Rotational
Diffusion Tensor From Nmr Relaxation Measurements
pdb|1UBI|A Chain A, Synthetic Structural And Biological Studies Of The
Ubiquitin System. Part 1
pdb|1UBQ|A Chain A, Structure Of Ubiquitin Refined At 1.8 Angstroms Resolution
pdb|2QHO|A Chain A, Crystal Structure Of The Uba Domain From Edd Ubiquitin
Ligase In Complex With Ubiquitin
pdb|2QHO|C Chain C, Crystal Structure Of The Uba Domain From Edd Ubiquitin
Ligase In Complex With Ubiquitin
pdb|2QHO|E Chain E, Crystal Structure Of The Uba Domain From Edd Ubiquitin
Ligase In Complex With Ubiquitin
pdb|2QHO|G Chain G, Crystal Structure Of The Uba Domain From Edd Ubiquitin
Ligase In Complex With Ubiquitin
pdb|1D3Z|A Chain A, Ubiquitin Nmr Structure
pdb|1FXT|B Chain B, Structure Of A Conjugating Enzyme-Ubiquitin Thiolester
Complex
pdb|1Q5W|B Chain B, Ubiquitin Recognition By Npl4 Zinc-Fingers
pdb|1V80|A Chain A, Solution Structures Of Ubiquitin At 30 Bar And 3 Kbar
pdb|1V81|A Chain A, Solution Structures Of Ubiquitin At 30 Bar And 3 Kbar
pdb|1XQQ|A Chain A, Simultaneous Determination Of Protein Structure And
Dynamics
pdb|2BGF|A Chain A, Nmr Structure Of Lys48-Linked Di-Ubiquitin Using Chemical
Shift Perturbation Data Together With Rdcs And 15n-
Relaxation Data
pdb|2BGF|B Chain B, Nmr Structure Of Lys48-Linked Di-Ubiquitin Using Chemical
Shift Perturbation Data Together With Rdcs And 15n-
Relaxation Data
pdb|2DEN|B Chain B, Solution Structure Of The Ubiquitin-Associated Domain Of
Human Bmsc-Ubp And Its Complex With Ubiquitin
pdb|2FUH|B Chain B, Solution Structure Of The Ubch5cUB NON-Covalent Complex
pdb|2NR2|A Chain A, The Mumo (Minimal Under-Restraining Minimal Over-
Restraining) Method For The Determination Of Native
States Ensembles Of Proteins
pdb|2ZCC|A Chain A, Ubiquitin Crystallized Under High Pressure
pdb|2ZCC|B Chain B, Ubiquitin Crystallized Under High Pressure
pdb|2ZCC|C Chain C, Ubiquitin Crystallized Under High Pressure
pdb|2JF5|A Chain A, Crystal Structure Of Lys63-Linked Di-Ubiquitin
pdb|2JF5|B Chain B, Crystal Structure Of Lys63-Linked Di-Ubiquitin
pdb|2JY6|A Chain A, Solution Structure Of The Complex Of Ubiquitin And
Ubiquilin 1 Uba Domain
pdb|2JZZ|A Chain A, Solid-State Nmr Structure Of Microcrystalline Ubiquitin
pdb|2Z59|B Chain B, Complex Structures Of Mouse Rpn13 (22-130aa) And Ubiquitin
pdb|2K39|A Chain A, Recognition Dynamics Up To Microseconds Revealed From Rdc
Derived Ubiquitin Ensemble In Solution
pdb|2JRI|B Chain B, Solution Structure Of The Josephin Domain Of Ataxin-3 In
Complex With Ubiquitin Molecule.
pdb|2JRI|C Chain C, Solution Structure Of The Josephin Domain Of Ataxin-3 In
Complex With Ubiquitin Molecule.
pdb|3EFU|A Chain A, X-Ray Structure Of Human Ubiquitin-Hg(Ii) Adduct
pdb|3EEC|A Chain A, X-Ray Structure Of Human Ubiquitin Cd(Ii) Adduct
pdb|3EEC|B Chain B, X-Ray Structure Of Human Ubiquitin Cd(Ii) Adduct
pdb|3EHV|A Chain A, X-Ray Structure Of Human Ubiquitin Zn(Ii) Adduct
pdb|3EHV|B Chain B, X-Ray Structure Of Human Ubiquitin Zn(Ii) Adduct
pdb|3EHV|C Chain C, X-Ray Structure Of Human Ubiquitin Zn(Ii) Adduct
pdb|2K8B|A Chain A, Solution Structure Of Plaa Family Ubiquitin Binding Domain
(Pfuc) Cis Isomer In Complex With Ubiquitin
pdb|2K8C|A Chain A, Solution Structure Of Plaa Family Ubiquitin Binding Domain
(Pfuc) Trans Isomer In Complex With Ubiquitin
pdb|3H1U|A Chain A, Structure Of Ubiquitin In Complex With Cd Ions
pdb|3H1U|B Chain B, Structure Of Ubiquitin In Complex With Cd Ions
pdb|3HM3|A Chain A, The Structure And Conformation Of Lys-63 Linked
Tetra-Ubiquitin
pdb|3HM3|B Chain B, The Structure And Conformation Of Lys-63 Linked
Tetra-Ubiquitin
pdb|3HM3|C Chain C, The Structure And Conformation Of Lys-63 Linked
Tetra-Ubiquitin
pdb|3HM3|D Chain D, The Structure And Conformation Of Lys-63 Linked
Tetra-Ubiquitin
pdb|2KDE|B Chain B, Nmr Structure Of Major S5a (196-306):k48 Linked
Diubiquitin Species
pdb|2KDE|C Chain C, Nmr Structure Of Major S5a (196-306):k48 Linked
Diubiquitin Species
pdb|2KDF|B Chain B, Nmr Structure Of Minor S5a (196-306):k48 Linked
Diubiquitin Species
pdb|2KDF|C Chain C, Nmr Structure Of Minor S5a (196-306):k48 Linked
Diubiquitin Species
pdb|3H7P|B Chain B, Crystal Structure Of K63-Linked Di-Ubiquitin
pdb|2KLG|A Chain A, Pere Nmr Structure Of Ubiquitin
pdb|2KN5|A Chain A, A Correspondence Between Solution-State Dynamics Of An
Individual Protein And The Sequence And Conformational
Diversity Of Its Family
pdb|2WWZ|A Chain A, Tab2 Nzf Domain In Complex With Lys63-Linked Di-Ubiquitin,
P212121
pdb|2WWZ|B Chain B, Tab2 Nzf Domain In Complex With Lys63-Linked Di-Ubiquitin,
P212121
pdb|2WX0|A Chain A, Tab2 Nzf Domain In Complex With Lys63-Linked Di-Ubiquitin,
P21
pdb|2WX0|B Chain B, Tab2 Nzf Domain In Complex With Lys63-Linked Di-Ubiquitin,
P21
pdb|2WX0|E Chain E, Tab2 Nzf Domain In Complex With Lys63-Linked Di-Ubiquitin,
P21
pdb|2WX0|F Chain F, Tab2 Nzf Domain In Complex With Lys63-Linked Di-Ubiquitin,
P21
pdb|2WX1|A Chain A, Tab2 Nzf Domain In Complex With Lys63-Linked
Tri-Ubiquitin, P212121
pdb|2WX1|B Chain B, Tab2 Nzf Domain In Complex With Lys63-Linked
Tri-Ubiquitin, P212121
pdb|3A33|B Chain B, Ubch5b~ubiquitin Conjugate
pdb|3M3J|A Chain A, A New Crystal Form Of Lys48-Linked Diubiquitin
pdb|3M3J|B Chain B, A New Crystal Form Of Lys48-Linked Diubiquitin
pdb|3M3J|C Chain C, A New Crystal Form Of Lys48-Linked Diubiquitin
pdb|3M3J|D Chain D, A New Crystal Form Of Lys48-Linked Diubiquitin
pdb|3M3J|E Chain E, A New Crystal Form Of Lys48-Linked Diubiquitin
pdb|3M3J|F Chain F, A New Crystal Form Of Lys48-Linked Diubiquitin
pdb|3NHE|B Chain B, High Resolution Structure (1.26a) Of Usp2a In Complex With
Ubiquitin
pdb|2XEW|A Chain A, Crystal Structure Of K11-Linked Diubiquitin
pdb|2XEW|B Chain B, Crystal Structure Of K11-Linked Diubiquitin
pdb|2XEW|C Chain C, Crystal Structure Of K11-Linked Diubiquitin
pdb|2XEW|D Chain D, Crystal Structure Of K11-Linked Diubiquitin
pdb|2XEW|E Chain E, Crystal Structure Of K11-Linked Diubiquitin
pdb|2XEW|F Chain F, Crystal Structure Of K11-Linked Diubiquitin
pdb|2XEW|G Chain G, Crystal Structure Of K11-Linked Diubiquitin
pdb|2XEW|H Chain H, Crystal Structure Of K11-Linked Diubiquitin
pdb|2XEW|I Chain I, Crystal Structure Of K11-Linked Diubiquitin
pdb|2XEW|J Chain J, Crystal Structure Of K11-Linked Diubiquitin
pdb|2XEW|K Chain K, Crystal Structure Of K11-Linked Diubiquitin
pdb|2XEW|L Chain L, Crystal Structure Of K11-Linked Diubiquitin
pdb|2XK5|A Chain A, Crystal Structure Of K6-Linked Diubiquitin
pdb|3ALB|A Chain A, Cyclic Lys48-Linked Tetraubiquitin
pdb|3ALB|B Chain B, Cyclic Lys48-Linked Tetraubiquitin
pdb|3ALB|C Chain C, Cyclic Lys48-Linked Tetraubiquitin
pdb|3ALB|D Chain D, Cyclic Lys48-Linked Tetraubiquitin
pdb|3OFI|C Chain C, Crystal Structure Of Human Insulin-Degrading Enzyme In
Complex With Ubiquitin
pdb|3OFI|D Chain D, Crystal Structure Of Human Insulin-Degrading Enzyme In
Complex With Ubiquitin
pdb|2KWU|B Chain B, Solution Structure Of Ubm2 Of Murine Polymerase Iota In
Complex With Ubiquitin
pdb|2KWV|B Chain B, Solution Structure Of Ubm1 Of Murine Polymerase Iota In
Complex With Ubiquitin
pdb|2KTF|A Chain A, Solution Nmr Structure Of Human Polymerase Iota Ubm2 In
Complex With Ubiquitin
pdb|2L0F|A Chain A, Solution Nmr Structure Of Human Polymerase Iota Ubm2
(P692a Mutant) In Complex With Ubiquitin
pdb|2L0T|A Chain A, Solution Structure Of The Complex Of Ubiquitin And The Vhs
Domain Of Stam2
pdb|3N30|A Chain A, Crystal Structure Of Cubic Zn3-Hub (Human Ubiquitin)
Adduct
pdb|3N30|B Chain B, Crystal Structure Of Cubic Zn3-Hub (Human Ubiquitin)
Adduct
pdb|3N32|A Chain A, The Crystal Structure Of Human Ubiquitin Adduct With
Zeise's Salt
pdb|2L3Z|A Chain A, Proton-Detected 4d Dream Solid-State Nmr Structure Of
Ubiquitin
pdb|3PHD|E Chain E, Crystal Structure Of Human Hdac6 In Complex With Ubiquitin
pdb|3PHD|F Chain F, Crystal Structure Of Human Hdac6 In Complex With Ubiquitin
pdb|3PHD|G Chain G, Crystal Structure Of Human Hdac6 In Complex With Ubiquitin
pdb|3PHD|H Chain H, Crystal Structure Of Human Hdac6 In Complex With Ubiquitin
pdb|2XBB|C Chain C, Nedd4 Hect:ub Complex
pdb|2XBB|D Chain D, Nedd4 Hect:ub Complex
pdb|2KOX|A Chain A, Nmr Residual Dipolar Couplings Identify Long Range
Correlated Motions In The Backbone Of The Protein
Ubiquitin
pdb|2RR9|A Chain A, The Solution Structure Of The K63-Ub2:tuims Complex
pdb|2RR9|B Chain B, The Solution Structure Of The K63-Ub2:tuims Complex
pdb|3NS8|A Chain A, Crystal Structure Of An Open Conformation Of Lys48-Linked
Diubiquitin At Ph 7.5
pdb|3NS8|B Chain B, Crystal Structure Of An Open Conformation Of Lys48-Linked
Diubiquitin At Ph 7.5
pdb|3AUL|A Chain A, Crystal Structure Of Wild-Type Lys48-Linked Diubiquitin In
An Open Conformation
pdb|3AUL|B Chain B, Crystal Structure Of Wild-Type Lys48-Linked Diubiquitin In
An Open Conformation
pdb|4DDG|I Chain I, Crystal Structure Of Human Otub1UBCH5B~UBUB
pdb|4DDG|E Chain E, Crystal Structure Of Human Otub1UBCH5B~UBUB
pdb|4DDG|F Chain F, Crystal Structure Of Human Otub1UBCH5B~UBUB
pdb|4DDG|O Chain O, Crystal Structure Of Human Otub1UBCH5B~UBUB
pdb|4DDG|P Chain P, Crystal Structure Of Human Otub1UBCH5B~UBUB
pdb|4DDI|G Chain G, Crystal Structure Of Human Otub1UBCH5B~UBUB
pdb|4DDI|H Chain H, Crystal Structure Of Human Otub1UBCH5B~UBUB
pdb|4DDI|I Chain I, Crystal Structure Of Human Otub1UBCH5B~UBUB
pdb|3UGB|B Chain B, Ubch5c~ubiquitin Conjugate
pdb|3TBL|D Chain D, Structure Of Mono-Ubiquitinated Pcna: Implications For Dna
Polymerase Switching And Okazaki Fragment Maturation
pdb|3TBL|E Chain E, Structure Of Mono-Ubiquitinated Pcna: Implications For Dna
Polymerase Switching And Okazaki Fragment Maturation
pdb|4DDG|D Chain D, Crystal Structure Of Human Otub1UBCH5B~UBUB
pdb|4DDG|G Chain G, Crystal Structure Of Human Otub1UBCH5B~UBUB
pdb|4DDG|H Chain H, Crystal Structure Of Human Otub1UBCH5B~UBUB
pdb|4DDG|M Chain M, Crystal Structure Of Human Otub1UBCH5B~UBUB
pdb|4DDG|N Chain N, Crystal Structure Of Human Otub1UBCH5B~UBUB
pdb|4DDG|Q Chain Q, Crystal Structure Of Human Otub1UBCH5B~UBUB
pdb|4DDG|R Chain R, Crystal Structure Of Human Otub1UBCH5B~UBUB
pdb|4DDI|D Chain D, Crystal Structure Of Human Otub1UBCH5B~UBUB
pdb|4DDI|E Chain E, Crystal Structure Of Human Otub1UBCH5B~UBUB
pdb|4DDI|F Chain F, Crystal Structure Of Human Otub1UBCH5B~UBUB
pdb|2LJ5|A Chain A, Description Of The Structural Fluctuations Of Proteins
From Structure- Based Calculations Of Residual Dipolar
Couplings
pdb|3VHT|C Chain C, Crystal Structure Of Gfp-Wrnip1 Ubz Domain Fusion Protein
In Complex With Ubiquitin
pdb|2LVO|A Chain A, Structure Of The Gp78cue Domain Bound To Monubiquitin
pdb|2LVP|A Chain A, Gp78cue Domain Bound To The Distal Ubiquitin Of K48-Linked
Diubiquitin
pdb|2LVP|B Chain B, Gp78cue Domain Bound To The Distal Ubiquitin Of K48-Linked
Diubiquitin
pdb|2LVQ|A Chain A, Gp78cue Domain Bound To The Proximal Ubiquitin Of
K48-Linked Diubiquitin
pdb|2LVQ|B Chain B, Gp78cue Domain Bound To The Proximal Ubiquitin Of
K48-Linked Diubiquitin
pdb|3VUW|A Chain A, Crystal Structure Of A20 Zf7 In Complex With Linear
Ubiquitin, Form I
pdb|3VUW|B Chain B, Crystal Structure Of A20 Zf7 In Complex With Linear
Ubiquitin, Form I
pdb|3VUW|C Chain C, Crystal Structure Of A20 Zf7 In Complex With Linear
Ubiquitin, Form I
pdb|3VUX|A Chain A, Crystal Structure Of A20 Zf7 In Complex With Linear
Ubiquitin, Form Ii
pdb|3VUX|B Chain B, Crystal Structure Of A20 Zf7 In Complex With Linear
Ubiquitin, Form Ii
pdb|3VUX|C Chain C, Crystal Structure Of A20 Zf7 In Complex With Linear
Ubiquitin, Form Ii
pdb|3VUY|A Chain A, Crystal Structure Of A20 Zf7 In Complex With Linear
Tetraubiquitin
pdb|3VUY|C Chain C, Crystal Structure Of A20 Zf7 In Complex With Linear
Tetraubiquitin
pdb|3VUY|B Chain B, Crystal Structure Of A20 Zf7 In Complex With Linear
Tetraubiquitin
Length = 76
Score = 47.8 bits (112), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 27/72 (37%), Positives = 43/72 (59%), Gaps = 2/72 (2%)
Query: 36 IFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGL 94
IF+ ++ G I + V SD+I +VK +IQ G +Q+L+F G++L + + DY +
Sbjct: 3 IFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRT-LSDYNI 61
Query: 95 ADGNVLHLVLRL 106
+ LHLVLRL
Sbjct: 62 QKESTLHLVLRL 73
Score = 39.7 bits (91), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 25/72 (34%), Positives = 38/72 (52%), Gaps = 2/72 (2%)
Query: 112 ITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDIC 171
I V T+ GK VE + VK +I K E + Q LI G++LED R ++D
Sbjct: 3 IFVKTLTGKTITLEVEPSDTIENVKAKIQDK--EGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 172 KRNEAVIHLLVR 183
+ E+ +HL++R
Sbjct: 61 IQKESTLHLVLR 72
>pdb|3OLM|D Chain D, Structure And Function Of A Ubiquitin Binding Site Within
The Catalytic Domain Of A Hect Ubiquitin Ligase
Length = 79
Score = 47.8 bits (112), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 27/77 (35%), Positives = 47/77 (61%), Gaps = 2/77 (2%)
Query: 31 NDSILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRV 89
++++ IF+ ++ G I + V SD+I +VK +IQ G +Q+L+F G++L + +
Sbjct: 1 SNAMQIFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRT-L 59
Query: 90 RDYGLADGNVLHLVLRL 106
DY + + LHLVLRL
Sbjct: 60 SDYNIQKESTLHLVLRL 76
Score = 42.0 bits (97), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 26/77 (33%), Positives = 40/77 (51%), Gaps = 2/77 (2%)
Query: 107 SDLQAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRL 166
S+ I V T+ GK VE + VK +I K E + Q LI G++LED R
Sbjct: 1 SNAMQIFVKTLTGKTITLEVESSDTIDNVKSKIQDK--EGIPPDQQRLIFAGKQLEDGRT 58
Query: 167 ITDICKRNEAVIHLLVR 183
++D + E+ +HL++R
Sbjct: 59 LSDYNIQKESTLHLVLR 75
>pdb|1YIW|A Chain A, X-Ray Crystal Structure Of A Chemically Synthesized
Ubiquitin
pdb|1YIW|B Chain B, X-Ray Crystal Structure Of A Chemically Synthesized
Ubiquitin
pdb|1YIW|C Chain C, X-Ray Crystal Structure Of A Chemically Synthesized
Ubiquitin
pdb|2FCQ|A Chain A, X-Ray Crystal Structure Of A Chemically Synthesized
Ubiquitin With A Cubic Space Group
pdb|2FCQ|B Chain B, X-Ray Crystal Structure Of A Chemically Synthesized
Ubiquitin With A Cubic Space Group
Length = 76
Score = 47.4 bits (111), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 27/72 (37%), Positives = 43/72 (59%), Gaps = 2/72 (2%)
Query: 36 IFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGL 94
IF+ ++ G I + V SD+I +VK +IQ G +Q+L+F G++L + + DY +
Sbjct: 3 IFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRT-LSDYNI 61
Query: 95 ADGNVLHLVLRL 106
+ LHLVLRL
Sbjct: 62 QKESTLHLVLRL 73
Score = 39.7 bits (91), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 25/72 (34%), Positives = 38/72 (52%), Gaps = 2/72 (2%)
Query: 112 ITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDIC 171
I V T+ GK VE + VK +I K E + Q LI G++LED R ++D
Sbjct: 3 IFVKTLTGKTITLEVEPSDTIENVKAKIQDK--EGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 172 KRNEAVIHLLVR 183
+ E+ +HL++R
Sbjct: 61 IQKESTLHLVLR 72
>pdb|2LD9|A Chain A, Backbone Structure Of Ubiquitin Determined Using Backbone
Amide Noes And Backbone N-H And N-C Rdcs
Length = 77
Score = 47.4 bits (111), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 27/72 (37%), Positives = 43/72 (59%), Gaps = 2/72 (2%)
Query: 36 IFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGL 94
IF+ ++ G I + V SD+I +VK +IQ G +Q+L+F G++L + + DY +
Sbjct: 4 IFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRT-LSDYNI 62
Query: 95 ADGNVLHLVLRL 106
+ LHLVLRL
Sbjct: 63 QKESTLHLVLRL 74
Score = 39.7 bits (91), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 25/72 (34%), Positives = 38/72 (52%), Gaps = 2/72 (2%)
Query: 112 ITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDIC 171
I V T+ GK VE + VK +I K E + Q LI G++LED R ++D
Sbjct: 4 IFVKTLTGKTITLEVEPSDTIENVKAKIQDK--EGIPPDQQRLIFAGKQLEDGRTLSDYN 61
Query: 172 KRNEAVIHLLVR 183
+ E+ +HL++R
Sbjct: 62 IQKESTLHLVLR 73
>pdb|2KHW|B Chain B, Solution Structure Of The Human Polymerase Iota Ubm2-
Ubiquitin Complex
pdb|3K9P|B Chain B, The Crystal Structure Of E2-25k And Ubiquitin Complex
pdb|3OJ3|A Chain A, Crystal Structure Of The A20 Znf4 And Ubiquitin Complex
pdb|3OJ3|B Chain B, Crystal Structure Of The A20 Znf4 And Ubiquitin Complex
pdb|3OJ3|C Chain C, Crystal Structure Of The A20 Znf4 And Ubiquitin Complex
pdb|3OJ3|D Chain D, Crystal Structure Of The A20 Znf4 And Ubiquitin Complex
pdb|3OJ3|E Chain E, Crystal Structure Of The A20 Znf4 And Ubiquitin Complex
pdb|3OJ3|F Chain F, Crystal Structure Of The A20 Znf4 And Ubiquitin Complex
pdb|3OJ3|G Chain G, Crystal Structure Of The A20 Znf4 And Ubiquitin Complex
pdb|3OJ3|H Chain H, Crystal Structure Of The A20 Znf4 And Ubiquitin Complex
pdb|3OJ4|B Chain B, Crystal Structure Of The A20 Znf4, Ubiquitin And Ubch5a
Complex
pdb|3OJ4|E Chain E, Crystal Structure Of The A20 Znf4, Ubiquitin And Ubch5a
Complex
pdb|3PTF|C Chain C, X-Ray Structure Of The Non-Covalent Complex Between Ubch5a
And Ubiquitin
pdb|3PTF|D Chain D, X-Ray Structure Of The Non-Covalent Complex Between Ubch5a
And Ubiquitin
Length = 79
Score = 47.4 bits (111), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 27/72 (37%), Positives = 43/72 (59%), Gaps = 2/72 (2%)
Query: 36 IFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGL 94
IF+ ++ G I + V SD+I +VK +IQ G +Q+L+F G++L + + DY +
Sbjct: 6 IFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRT-LSDYNI 64
Query: 95 ADGNVLHLVLRL 106
+ LHLVLRL
Sbjct: 65 QKESTLHLVLRL 76
Score = 40.0 bits (92), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 25/72 (34%), Positives = 38/72 (52%), Gaps = 2/72 (2%)
Query: 112 ITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDIC 171
I V T+ GK VE + VK +I K E + Q LI G++LED R ++D
Sbjct: 6 IFVKTLTGKTITLEVEPSDTIENVKAKIQDK--EGIPPDQQRLIFAGKQLEDGRTLSDYN 63
Query: 172 KRNEAVIHLLVR 183
+ E+ +HL++R
Sbjct: 64 IQKESTLHLVLR 75
>pdb|4II2|B Chain B, Crystal Structure Of Ubiquitin Activating Enzyme 1 (uba1)
In Complex With The Ub E2 Ubc4, Ubiquitin, And Atp/mg
Length = 83
Score = 47.4 bits (111), Expect = 2e-05, Method: Composition-based stats.
Identities = 26/68 (38%), Positives = 40/68 (58%), Gaps = 1/68 (1%)
Query: 39 SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGN 98
++ G I + V SD+I +V+ RIQ G +Q+L+F GR+L + + DY + +
Sbjct: 14 TLTGRTITLEVESSDTIDNVRARIQDREGIPPDQQRLIFAGRQLEDGRT-LADYNIQRES 72
Query: 99 VLHLVLRL 106
LHLVLRL
Sbjct: 73 TLHLVLRL 80
Score = 38.1 bits (87), Expect = 0.013, Method: Composition-based stats.
Identities = 23/72 (31%), Positives = 37/72 (51%), Gaps = 2/72 (2%)
Query: 112 ITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDIC 171
I V T+ G+ VE + V+ +I + RE + Q LI G +LED R + D
Sbjct: 10 IFVRTLTGRTITLEVESSDTIDNVRARI--QDREGIPPDQQRLIFAGRQLEDGRTLADYN 67
Query: 172 KRNEAVIHLLVR 183
+ E+ +HL++R
Sbjct: 68 IQRESTLHLVLR 79
>pdb|3V6E|B Chain B, Crystal Structure Of Usp2 And A Mutant Form Of Ubiquitin
Length = 91
Score = 47.4 bits (111), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 28/75 (37%), Positives = 45/75 (60%), Gaps = 2/75 (2%)
Query: 33 SILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRD 91
S+ IF+ ++ G I + V SD+I +VK +IQ G +Q+L+F G++L + + D
Sbjct: 17 SMQIFVNTLSGKHITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRT-LSD 75
Query: 92 YGLADGNVLHLVLRL 106
Y + + LHLVLRL
Sbjct: 76 YNIQKESTLHLVLRL 90
Score = 39.7 bits (91), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 25/72 (34%), Positives = 38/72 (52%), Gaps = 2/72 (2%)
Query: 112 ITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDIC 171
I V T+ GK VE + VK +I K E + Q LI G++LED R ++D
Sbjct: 20 IFVNTLSGKHITLEVEPSDTIENVKAKIQDK--EGIPPDQQRLIFAGKQLEDGRTLSDYN 77
Query: 172 KRNEAVIHLLVR 183
+ E+ +HL++R
Sbjct: 78 IQKESTLHLVLR 89
>pdb|4AP4|C Chain C, Rnf4 - Ubch5a - Ubiquitin Heterotrimeric Complex
pdb|4AP4|F Chain F, Rnf4 - Ubch5a - Ubiquitin Heterotrimeric Complex
Length = 80
Score = 47.0 bits (110), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 27/72 (37%), Positives = 43/72 (59%), Gaps = 2/72 (2%)
Query: 36 IFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGL 94
IF+ ++ G I + V SD+I +VK +IQ G +Q+L+F G++L + + DY +
Sbjct: 7 IFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRT-LSDYNI 65
Query: 95 ADGNVLHLVLRL 106
+ LHLVLRL
Sbjct: 66 QKESTLHLVLRL 77
Score = 40.0 bits (92), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 25/72 (34%), Positives = 38/72 (52%), Gaps = 2/72 (2%)
Query: 112 ITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDIC 171
I V T+ GK VE + VK +I K E + Q LI G++LED R ++D
Sbjct: 7 IFVKTLTGKTITLEVEPSDTIENVKAKIQDK--EGIPPDQQRLIFAGKQLEDGRTLSDYN 64
Query: 172 KRNEAVIHLLVR 183
+ E+ +HL++R
Sbjct: 65 IQKESTLHLVLR 76
>pdb|2ZNV|B Chain B, Crystal Structure Of Human Amsh-Lp Dub Domain In Complex
With Lys63-Linked Ubiquitin Dimer
pdb|2ZNV|E Chain E, Crystal Structure Of Human Amsh-Lp Dub Domain In Complex
With Lys63-Linked Ubiquitin Dimer
pdb|3A1Q|B Chain B, Crystal Structure Of The Mouse Rap80 Uims In Complex With
Lys63-Linked Di-Ubiquitin
pdb|3A1Q|E Chain E, Crystal Structure Of The Mouse Rap80 Uims In Complex With
Lys63-Linked Di-Ubiquitin
pdb|3H7P|A Chain A, Crystal Structure Of K63-Linked Di-Ubiquitin
pdb|3JSV|A Chain A, Crystal Structure Of Mouse Nemo Cozi In Complex With
Lys63- Linked Di-Ubiquitin
pdb|3A9J|A Chain A, Crystal Structure Of The Mouse Tab2-Nzf In Complex With
Lys63-Linked Di-Ubiquitin
pdb|3A9K|A Chain A, Crystal Structure Of The Mouse Tab3-Nzf In Complex With
Lys63-Linked Di-Ubiquitin
Length = 76
Score = 47.0 bits (110), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 27/72 (37%), Positives = 43/72 (59%), Gaps = 2/72 (2%)
Query: 36 IFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGL 94
IF+ ++ G I + V SD+I +VK +IQ G +Q+L+F G++L + + DY +
Sbjct: 3 IFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRT-LSDYNI 61
Query: 95 ADGNVLHLVLRL 106
+ LHLVLRL
Sbjct: 62 QRESTLHLVLRL 73
Score = 39.3 bits (90), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 25/72 (34%), Positives = 38/72 (52%), Gaps = 2/72 (2%)
Query: 112 ITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDIC 171
I V T+ GK VE + VK +I K E + Q LI G++LED R ++D
Sbjct: 3 IFVKTLTGKTITLEVEPSDTIENVKAKIQDK--EGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 172 KRNEAVIHLLVR 183
+ E+ +HL++R
Sbjct: 61 IQRESTLHLVLR 72
>pdb|3DVG|Y Chain Y, Crystal Structure Of K63-Specific Fab Apu.3a8 Bound To
K63-Linked Di- Ubiquitin
pdb|3DVN|Y Chain Y, Crystal Structure Of K63-specific Fab Apu2.16 Bound To
K63-linked Di- Ubiquitin
pdb|3DVN|V Chain V, Crystal Structure Of K63-specific Fab Apu2.16 Bound To
K63-linked Di- Ubiquitin
Length = 79
Score = 47.0 bits (110), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 27/72 (37%), Positives = 43/72 (59%), Gaps = 2/72 (2%)
Query: 36 IFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGL 94
IF+ ++ G I + V SD+I +VK +IQ G +Q+L+F G++L + + DY +
Sbjct: 6 IFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRT-LSDYNI 64
Query: 95 ADGNVLHLVLRL 106
+ LHLVLRL
Sbjct: 65 QRESTLHLVLRL 76
Score = 39.7 bits (91), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 25/72 (34%), Positives = 38/72 (52%), Gaps = 2/72 (2%)
Query: 112 ITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDIC 171
I V T+ GK VE + VK +I K E + Q LI G++LED R ++D
Sbjct: 6 IFVKTLTGKTITLEVEPSDTIENVKAKIQDK--EGIPPDQQRLIFAGKQLEDGRTLSDYN 63
Query: 172 KRNEAVIHLLVR 183
+ E+ +HL++R
Sbjct: 64 IQRESTLHLVLR 75
>pdb|1OTR|B Chain B, Solution Structure Of A Cue-Ubiquitin Complex
pdb|1Q0W|B Chain B, Solution Structure Of Vps27 Amino-Terminal Uim-Ubiquitin
Complex
pdb|1WR1|A Chain A, The Complex Sturcture Of Dsk2p Uba With Ubiquitin
pdb|2G3Q|B Chain B, Solution Structure Of Ede1 Uba-Ubiquitin Complex
pdb|2JT4|B Chain B, Solution Structure Of The Sla1 Sh3-3-Ubiquitin Complex
pdb|3CMM|B Chain B, Crystal Structure Of The Uba1-Ubiquitin Complex
pdb|3CMM|D Chain D, Crystal Structure Of The Uba1-Ubiquitin Complex
pdb|2L00|B Chain B, Solution Structure Of The Non-Covalent Complex Of The
Znf216 A20 Domain With Ubiquitin
Length = 76
Score = 47.0 bits (110), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 27/72 (37%), Positives = 43/72 (59%), Gaps = 2/72 (2%)
Query: 36 IFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGL 94
IF+ ++ G I + V SD+I +VK +IQ G +Q+L+F G++L + + DY +
Sbjct: 3 IFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRT-LSDYNI 61
Query: 95 ADGNVLHLVLRL 106
+ LHLVLRL
Sbjct: 62 QKESTLHLVLRL 73
Score = 40.8 bits (94), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 25/72 (34%), Positives = 38/72 (52%), Gaps = 2/72 (2%)
Query: 112 ITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDIC 171
I V T+ GK VE + VK +I K E + Q LI G++LED R ++D
Sbjct: 3 IFVKTLTGKTITLEVESSDTIDNVKSKIQDK--EGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 172 KRNEAVIHLLVR 183
+ E+ +HL++R
Sbjct: 61 IQKESTLHLVLR 72
>pdb|4GSW|A Chain A, Crystal Structure Of Ubiquitin From Entamoeba Histolytica
To 2.15 Angstrom
pdb|4GSW|B Chain B, Crystal Structure Of Ubiquitin From Entamoeba Histolytica
To 2.15 Angstrom
pdb|4GU2|A Chain A, Crystal Structure Of Ubiquitin From Entamoeba Histolytica
To 1.35 Angstrom
Length = 80
Score = 47.0 bits (110), Expect = 3e-05, Method: Composition-based stats.
Identities = 26/77 (33%), Positives = 43/77 (55%), Gaps = 1/77 (1%)
Query: 30 SNDSILIFLSVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRV 89
SN + ++ G I + V +DSI ++K +IQ G +Q+L+F G++L + +
Sbjct: 1 SNAMQIFVKTLTGKTITLEVEPNDSIDAIKAKIQEKEGIPPDQQRLIFAGKQLEEGKT-L 59
Query: 90 RDYGLADGNVLHLVLRL 106
DY + + LHLVLRL
Sbjct: 60 SDYNIQKESTLHLVLRL 76
Score = 38.5 bits (88), Expect = 0.011, Method: Composition-based stats.
Identities = 23/77 (29%), Positives = 42/77 (54%), Gaps = 2/77 (2%)
Query: 107 SDLQAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRL 166
S+ I V T+ GK VE ++ +K +I +K E + Q LI G++LE+ +
Sbjct: 1 SNAMQIFVKTLTGKTITLEVEPNDSIDAIKAKIQEK--EGIPPDQQRLIFAGKQLEEGKT 58
Query: 167 ITDICKRNEAVIHLLVR 183
++D + E+ +HL++R
Sbjct: 59 LSDYNIQKESTLHLVLR 75
>pdb|2OJR|A Chain A, Structure Of Ubiquitin Solved By Sad Using The Lanthanide-
Binding Tag
Length = 111
Score = 46.6 bits (109), Expect = 3e-05, Method: Composition-based stats.
Identities = 25/68 (36%), Positives = 40/68 (58%), Gaps = 1/68 (1%)
Query: 39 SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGN 98
++ G I + V SD+I +VK +IQ G +Q+L+F G++L + + DY + +
Sbjct: 42 TLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRT-LSDYNIQKES 100
Query: 99 VLHLVLRL 106
LHLVLRL
Sbjct: 101 TLHLVLRL 108
Score = 40.0 bits (92), Expect = 0.004, Method: Composition-based stats.
Identities = 25/72 (34%), Positives = 38/72 (52%), Gaps = 2/72 (2%)
Query: 112 ITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDIC 171
I V T+ GK VE + VK +I K E + Q LI G++LED R ++D
Sbjct: 38 IFVKTLTGKTITLEVEPSDTIENVKAKIQDK--EGIPPDQQRLIFAGKQLEDGRTLSDYN 95
Query: 172 KRNEAVIHLLVR 183
+ E+ +HL++R
Sbjct: 96 IQKESTLHLVLR 107
>pdb|3U5E|MM Chain m, The Structure Of The Eukaryotic Ribosome At 3.0 A
Resolution. This Entry Contains Proteins Of The 60s
Subunit, Ribosome A
pdb|3U5I|MM Chain m, The Structure Of The Eukaryotic Ribosome At 3.0 A
Resolution. This Entry Contains Proteins Of The 60s
Subunit, Ribosome B
pdb|4B6A|MM Chain m, Cryo-Em Structure Of The 60s Ribosomal Subunit In Complex
With Arx1 And Rei1
Length = 128
Score = 46.6 bits (109), Expect = 4e-05, Method: Composition-based stats.
Identities = 25/68 (36%), Positives = 40/68 (58%), Gaps = 1/68 (1%)
Query: 39 SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGN 98
++ G I + V SD+I +VK +IQ G +Q+L+F G++L + + DY + +
Sbjct: 7 TLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRT-LSDYNIQKES 65
Query: 99 VLHLVLRL 106
LHLVLRL
Sbjct: 66 TLHLVLRL 73
Score = 41.6 bits (96), Expect = 0.001, Method: Composition-based stats.
Identities = 25/72 (34%), Positives = 38/72 (52%), Gaps = 2/72 (2%)
Query: 112 ITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDIC 171
I V T+ GK VE + VK +I K E + Q LI G++LED R ++D
Sbjct: 3 IFVKTLTGKTITLEVESSDTIDNVKSKIQDK--EGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 172 KRNEAVIHLLVR 183
+ E+ +HL++R
Sbjct: 61 IQKESTLHLVLR 72
>pdb|4A18|K Chain K, T.Thermophila 60s Ribosomal Subunit In Complex With
Initiation Factor 6. This File Contains 26s Rrna And
Proteins Of Molecule 1
pdb|4A1B|K Chain K, T.Thermophila 60s Ribosomal Subunit In Complex With
Initiation Factor 6. This File Contains 26s Rrna And
Proteins Of Molecule 3.
pdb|4A1D|K Chain K, T.Thermophila 60s Ribosomal Subunit In Complex With
Initiation Factor 6. This File Contains 26s Rrna And
Proteins Of Molecule 4.
pdb|4A19|K Chain K, T.Thermophila 60s Ribosomal Subunit In Complex With
Initiation Factor 6. This File Contains 26s Rrna And
Proteins Of Molecule 2.
pdb|4ADX|5 Chain 5, The Cryo-Em Structure Of The Archaeal 50s Ribosomal
Subunit In Complex With Initiation Factor 6
Length = 129
Score = 46.6 bits (109), Expect = 4e-05, Method: Composition-based stats.
Identities = 25/68 (36%), Positives = 40/68 (58%), Gaps = 1/68 (1%)
Query: 39 SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGN 98
++ G I + V SD+I +VK +IQ G +Q+L+F G++L + + DY + +
Sbjct: 7 TLTGKTITLDVEASDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRT-LSDYNIQKES 65
Query: 99 VLHLVLRL 106
LHLVLRL
Sbjct: 66 TLHLVLRL 73
Score = 40.0 bits (92), Expect = 0.003, Method: Composition-based stats.
Identities = 25/72 (34%), Positives = 38/72 (52%), Gaps = 2/72 (2%)
Query: 112 ITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDIC 171
I V T+ GK VE + VK +I K E + Q LI G++LED R ++D
Sbjct: 3 IFVKTLTGKTITLDVEASDTIENVKAKIQDK--EGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 172 KRNEAVIHLLVR 183
+ E+ +HL++R
Sbjct: 61 IQKESTLHLVLR 72
>pdb|3ONS|A Chain A, Crystal Structure Of Human Ubiquitin In A New Crystal Form
Length = 72
Score = 46.6 bits (109), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 26/71 (36%), Positives = 42/71 (59%), Gaps = 2/71 (2%)
Query: 36 IFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGL 94
IF+ ++ G I + V SD+I +VK +IQ G +Q+L+F G++L + + DY +
Sbjct: 3 IFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRT-LSDYNI 61
Query: 95 ADGNVLHLVLR 105
+ LHLVLR
Sbjct: 62 QKESTLHLVLR 72
Score = 39.3 bits (90), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 25/72 (34%), Positives = 38/72 (52%), Gaps = 2/72 (2%)
Query: 112 ITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDIC 171
I V T+ GK VE + VK +I K E + Q LI G++LED R ++D
Sbjct: 3 IFVKTLTGKTITLEVEPSDTIENVKAKIQDK--EGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 172 KRNEAVIHLLVR 183
+ E+ +HL++R
Sbjct: 61 IQKESTLHLVLR 72
>pdb|2JVC|A Chain A, Nmr Solution Structure Of Ubiquitin Like Protein
Length = 82
Score = 46.6 bits (109), Expect = 4e-05, Method: Composition-based stats.
Identities = 27/75 (36%), Positives = 46/75 (61%), Gaps = 2/75 (2%)
Query: 33 SILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRD 91
S+ IF+ ++ G I + V +D++ +VK +I G +Q+L+F G++L SN+ + D
Sbjct: 5 SMQIFVKTLTGKTITIDVDHADTVGAVKAKIYDKEGIPPDQQRLIFGGKQLEDSNA-MSD 63
Query: 92 YGLADGNVLHLVLRL 106
Y + + LHLVLRL
Sbjct: 64 YNVQKESTLHLVLRL 78
Score = 40.8 bits (94), Expect = 0.002, Method: Composition-based stats.
Identities = 25/72 (34%), Positives = 38/72 (52%), Gaps = 2/72 (2%)
Query: 112 ITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDIC 171
I V T+ GK V+ VG VK +I K E + Q LI G++LED ++D
Sbjct: 8 IFVKTLTGKTITIDVDHADTVGAVKAKIYDK--EGIPPDQQRLIFGGKQLEDSNAMSDYN 65
Query: 172 KRNEAVIHLLVR 183
+ E+ +HL++R
Sbjct: 66 VQKESTLHLVLR 77
>pdb|4II3|B Chain B, Crystal Structure Of S. Pombe Ubiquitin Activating Enzyme
1 (uba1) In Complex With Ubiquitin And Atp/mg
pdb|4II3|D Chain D, Crystal Structure Of S. Pombe Ubiquitin Activating Enzyme
1 (uba1) In Complex With Ubiquitin And Atp/mg
Length = 96
Score = 46.6 bits (109), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 27/72 (37%), Positives = 43/72 (59%), Gaps = 2/72 (2%)
Query: 36 IFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGL 94
IF+ ++ G I + V SD+I +VK +IQ G +Q+L+F G++L + + DY +
Sbjct: 23 IFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRT-LSDYNI 81
Query: 95 ADGNVLHLVLRL 106
+ LHLVLRL
Sbjct: 82 QKESTLHLVLRL 93
Score = 43.5 bits (101), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 30/82 (36%), Positives = 44/82 (53%), Gaps = 3/82 (3%)
Query: 102 LVLRLSDLQAITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEEL 161
LV R S +Q I V T+ GK VE + VK +I K E + Q LI G++L
Sbjct: 14 LVPRGSHMQ-IFVKTLTGKTITLEVESSDTIDNVKSKIQDK--EGIPPDQQRLIFAGKQL 70
Query: 162 EDQRLITDICKRNEAVIHLLVR 183
ED R ++D + E+ +HL++R
Sbjct: 71 EDGRTLSDYNIQKESTLHLVLR 92
>pdb|4HCN|B Chain B, Crystal Structure Of Burkholderia Pseudomallei Effector
Protein Chbp In Complex With Ubiquitin
Length = 98
Score = 46.2 bits (108), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 27/72 (37%), Positives = 43/72 (59%), Gaps = 2/72 (2%)
Query: 36 IFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGL 94
IF+ ++ G I + V SD+I +VK +IQ G +Q+L+F G++L + + DY +
Sbjct: 25 IFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRT-LSDYNI 83
Query: 95 ADGNVLHLVLRL 106
+ LHLVLRL
Sbjct: 84 QKESTLHLVLRL 95
Score = 41.6 bits (96), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 25/72 (34%), Positives = 38/72 (52%), Gaps = 2/72 (2%)
Query: 112 ITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDIC 171
I V T+ GK VE + VK +I K E + Q LI G++LED R ++D
Sbjct: 25 IFVKTLTGKTITLEVESSDTIDNVKSKIQDK--EGIPPDQQRLIFAGKQLEDGRTLSDYN 82
Query: 172 KRNEAVIHLLVR 183
+ E+ +HL++R
Sbjct: 83 IQKESTLHLVLR 94
>pdb|3U5G|FF Chain f, The Structure Of The Eukaryotic Ribosome At 3.0 A
Resolution. This Entry Contains Proteins Of The 40s
Subunit, Ribosome B
Length = 152
Score = 46.2 bits (108), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 27/72 (37%), Positives = 43/72 (59%), Gaps = 2/72 (2%)
Query: 36 IFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGL 94
IF+ ++ G I + V SD+I +VK +IQ G +Q+L+F G++L + + DY +
Sbjct: 3 IFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRT-LSDYNI 61
Query: 95 ADGNVLHLVLRL 106
+ LHLVLRL
Sbjct: 62 QKESTLHLVLRL 73
Score = 38.9 bits (89), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 25/72 (34%), Positives = 38/72 (52%), Gaps = 2/72 (2%)
Query: 112 ITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDIC 171
I V T+ GK VE + VK +I K E + Q LI G++LED R ++D
Sbjct: 3 IFVKTLTGKTITLEVESSDTIDNVKSKIQDK--EGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 172 KRNEAVIHLLVR 183
+ E+ +HL++R
Sbjct: 61 IQKESTLHLVLR 72
>pdb|1ZW7|A Chain A, Elimination Of The C-Cap In Ubiquitin Structure, Dynamics
And Thermodynamic Consequences
Length = 82
Score = 46.2 bits (108), Expect = 5e-05, Method: Composition-based stats.
Identities = 25/68 (36%), Positives = 42/68 (61%), Gaps = 1/68 (1%)
Query: 39 SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGN 98
++ G+ I + V SD+I +VK +IQ+ G +Q+L+F G++L + + DY + +
Sbjct: 7 TLTGATITLEVESSDTIDNVKSKIQAAPGIPPDQQELIFAGKQLEDGRT-LSDYNIQKES 65
Query: 99 VLHLVLRL 106
LHLVLRL
Sbjct: 66 TLHLVLRL 73
Score = 37.4 bits (85), Expect = 0.022, Method: Composition-based stats.
Identities = 23/72 (31%), Positives = 37/72 (51%), Gaps = 2/72 (2%)
Query: 112 ITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDIC 171
I V T+ G VE + VK +I + + QELI G++LED R ++D
Sbjct: 3 IFVKTLTGATITLEVESSDTIDNVKSKI--QAAPGIPPDQQELIFAGKQLEDGRTLSDYN 60
Query: 172 KRNEAVIHLLVR 183
+ E+ +HL++R
Sbjct: 61 IQKESTLHLVLR 72
>pdb|3VDZ|A Chain A, Tailoring Encodable Lanthanide-Binding Tags As Mri
Contrast Agents: Xq-Dse3-Ubiquitin At 2.4 Angstroms
pdb|3VDZ|B Chain B, Tailoring Encodable Lanthanide-Binding Tags As Mri
Contrast Agents: Xq-Dse3-Ubiquitin At 2.4 Angstroms
Length = 111
Score = 46.2 bits (108), Expect = 6e-05, Method: Composition-based stats.
Identities = 25/68 (36%), Positives = 40/68 (58%), Gaps = 1/68 (1%)
Query: 39 SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGN 98
++ G I + V SD+I +VK +IQ G +Q+L+F G++L + + DY + +
Sbjct: 42 TLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRT-LSDYNIQKES 100
Query: 99 VLHLVLRL 106
LHLVLRL
Sbjct: 101 TLHLVLRL 108
Score = 39.7 bits (91), Expect = 0.005, Method: Composition-based stats.
Identities = 25/72 (34%), Positives = 38/72 (52%), Gaps = 2/72 (2%)
Query: 112 ITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDIC 171
I V T+ GK VE + VK +I K E + Q LI G++LED R ++D
Sbjct: 38 IFVKTLTGKTITLEVEPSDTIENVKAKIQDK--EGIPPDQQRLIFAGKQLEDGRTLSDYN 95
Query: 172 KRNEAVIHLLVR 183
+ E+ +HL++R
Sbjct: 96 IQKESTLHLVLR 107
>pdb|3L0W|B Chain B, Structure Of Split Monoubiquitinated Pcna With Ubiquitin
In Position Two
pdb|3L10|B Chain B, Structure Of Split Monoubiquitinated Pcna With Ubiquitin
In Position One
Length = 169
Score = 45.8 bits (107), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 25/68 (36%), Positives = 40/68 (58%), Gaps = 1/68 (1%)
Query: 39 SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGN 98
++ G I + V SD+I +VK +IQ G +Q+L+F G++L + + DY + +
Sbjct: 7 TLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRT-LSDYNIQKES 65
Query: 99 VLHLVLRL 106
LHLVLRL
Sbjct: 66 TLHLVLRL 73
Score = 42.4 bits (98), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 25/72 (34%), Positives = 38/72 (52%), Gaps = 2/72 (2%)
Query: 112 ITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDIC 171
I V T+ GK VE + VK +I K E + Q LI G++LED R ++D
Sbjct: 3 IFVKTLTGKTITLEVESSDTIDNVKSKIQDK--EGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 172 KRNEAVIHLLVR 183
+ E+ +HL++R
Sbjct: 61 IQKESTLHLVLR 72
>pdb|2O6V|B Chain B, Crystal Structure And Solution Nmr Studies Of Lys48-Linked
Tetraubiquitin At Neutral Ph
pdb|2O6V|F Chain F, Crystal Structure And Solution Nmr Studies Of Lys48-Linked
Tetraubiquitin At Neutral Ph
Length = 76
Score = 45.8 bits (107), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 27/72 (37%), Positives = 42/72 (58%), Gaps = 2/72 (2%)
Query: 36 IFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGL 94
IF+ ++ G I + V SD+I +VK +IQ G +Q+L+F G +L + + DY +
Sbjct: 3 IFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGXQLEDGRT-LSDYNI 61
Query: 95 ADGNVLHLVLRL 106
+ LHLVLRL
Sbjct: 62 QRESTLHLVLRL 73
Score = 38.9 bits (89), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 25/72 (34%), Positives = 37/72 (51%), Gaps = 2/72 (2%)
Query: 112 ITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDIC 171
I V T+ GK VE + VK +I K E + Q LI G +LED R ++D
Sbjct: 3 IFVKTLTGKTITLEVEPSDTIENVKAKIQDK--EGIPPDQQRLIFAGXQLEDGRTLSDYN 60
Query: 172 KRNEAVIHLLVR 183
+ E+ +HL++R
Sbjct: 61 IQRESTLHLVLR 72
>pdb|2KDI|A Chain A, Solution Structure Of A UbiquitinUIM FUSION PROTEIN
Length = 114
Score = 45.4 bits (106), Expect = 9e-05, Method: Compositional matrix adjust.
Identities = 31/98 (31%), Positives = 50/98 (51%), Gaps = 4/98 (4%)
Query: 39 SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGN 98
++ G I + V SD+I +VK +IQ G +Q+L++ G++L + + DY + +
Sbjct: 16 TLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIWAGKQLEDGRT-LSDYNIQRES 74
Query: 99 VLHLVLRL---SDLQAITVTTVCGKVFEFHVERGRNVG 133
LHLVLRL S A + K E ++ RN G
Sbjct: 75 TLHLVLRLRGGSMGGAADEEELIRKAIELSLKESRNSG 112
Score = 40.4 bits (93), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 24/72 (33%), Positives = 37/72 (51%), Gaps = 2/72 (2%)
Query: 112 ITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDIC 171
I T+ GK VE + VK +I K E + Q LI G++LED R ++D
Sbjct: 12 IFAKTLTGKTITLEVESSDTIDNVKSKIQDK--EGIPPDQQRLIWAGKQLEDGRTLSDYN 69
Query: 172 KRNEAVIHLLVR 183
+ E+ +HL++R
Sbjct: 70 IQRESTLHLVLR 81
>pdb|2FCS|A Chain A, X-Ray Crystal Structure Of A Chemically Synthesized
[l-Gln35]ubiquitin With A Cubic Space Group
pdb|2FCS|B Chain B, X-Ray Crystal Structure Of A Chemically Synthesized
[l-Gln35]ubiquitin With A Cubic Space Group
Length = 76
Score = 44.7 bits (104), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 26/72 (36%), Positives = 42/72 (58%), Gaps = 2/72 (2%)
Query: 36 IFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGL 94
IF+ ++ G I + V SD+I +VK +IQ +Q+L+F G++L + + DY +
Sbjct: 3 IFVKTLTGKTITLEVEPSDTIENVKAKIQDKEQIPPDQQRLIFAGKQLEDGRT-LSDYNI 61
Query: 95 ADGNVLHLVLRL 106
+ LHLVLRL
Sbjct: 62 QKESTLHLVLRL 73
Score = 39.3 bits (90), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 25/72 (34%), Positives = 38/72 (52%), Gaps = 2/72 (2%)
Query: 112 ITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDIC 171
I V T+ GK VE + VK +I K E + Q LI G++LED R ++D
Sbjct: 3 IFVKTLTGKTITLEVEPSDTIENVKAKIQDK--EQIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 172 KRNEAVIHLLVR 183
+ E+ +HL++R
Sbjct: 61 IQKESTLHLVLR 72
>pdb|1YJ1|A Chain A, X-Ray Crystal Structure Of A Chemically Synthesized
[d-Gln35]ubiquitin
pdb|1YJ1|B Chain B, X-Ray Crystal Structure Of A Chemically Synthesized
[d-Gln35]ubiquitin
pdb|1YJ1|C Chain C, X-Ray Crystal Structure Of A Chemically Synthesized
[d-Gln35]ubiquitin
pdb|2FCM|A Chain A, X-Ray Crystal Structure Of A Chemically Synthesized
[d-Gln35]ubiquitin With A Cubic Space Group
pdb|2FCM|B Chain B, X-Ray Crystal Structure Of A Chemically Synthesized
[d-Gln35]ubiquitin With A Cubic Space Group
pdb|2FCN|A Chain A, X-Ray Crystal Structure Of A Chemically Synthesized
[d-Val35]ubiquitin With A Cubic Space Group
pdb|2FCN|B Chain B, X-Ray Crystal Structure Of A Chemically Synthesized
[d-Val35]ubiquitin With A Cubic Space Group
Length = 76
Score = 44.7 bits (104), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 26/72 (36%), Positives = 42/72 (58%), Gaps = 2/72 (2%)
Query: 36 IFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGL 94
IF+ ++ G I + V SD+I +VK +IQ +Q+L+F G++L + + DY +
Sbjct: 3 IFVKTLTGKTITLEVEPSDTIENVKAKIQDKEXIPPDQQRLIFAGKQLEDGRT-LSDYNI 61
Query: 95 ADGNVLHLVLRL 106
+ LHLVLRL
Sbjct: 62 QKESTLHLVLRL 73
Score = 40.0 bits (92), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 25/72 (34%), Positives = 38/72 (52%), Gaps = 2/72 (2%)
Query: 112 ITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDIC 171
I V T+ GK VE + VK +I K E + Q LI G++LED R ++D
Sbjct: 3 IFVKTLTGKTITLEVEPSDTIENVKAKIQDK--EXIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 172 KRNEAVIHLLVR 183
+ E+ +HL++R
Sbjct: 61 IQKESTLHLVLR 72
>pdb|2GBJ|A Chain A, Crystal Structure Of The 9-10 8 Glycine Insertion Mutant
Of Ubiquitin.
pdb|2GBJ|B Chain B, Crystal Structure Of The 9-10 8 Glycine Insertion Mutant
Of Ubiquitin
Length = 84
Score = 44.7 bits (104), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 24/63 (38%), Positives = 37/63 (58%), Gaps = 1/63 (1%)
Query: 44 VIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLV 103
I + V SD+I +VK +IQ G +Q+L+F G++L + + DY + + LHLV
Sbjct: 20 TITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRT-LSDYNIQKESTLHLV 78
Query: 104 LRL 106
LRL
Sbjct: 79 LRL 81
Score = 32.7 bits (73), Expect = 0.57, Method: Compositional matrix adjust.
Identities = 21/64 (32%), Positives = 33/64 (51%), Gaps = 2/64 (3%)
Query: 120 KVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEAVIH 179
K VE + VK +I K E + Q LI G++LED R ++D + E+ +H
Sbjct: 19 KTITLEVEPSDTIENVKAKIQDK--EGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLH 76
Query: 180 LLVR 183
L++R
Sbjct: 77 LVLR 80
>pdb|2JWZ|A Chain A, Mutations In The Hydrophobic Core Of Ubiquitin
Differentially Affect Its Recognition By Receptor
Proteins
Length = 76
Score = 44.3 bits (103), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 26/72 (36%), Positives = 42/72 (58%), Gaps = 2/72 (2%)
Query: 36 IFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGL 94
IF+ ++ G I + V SD+I +VK +IQ G +Q+L+F G++L + + DY +
Sbjct: 3 IFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRT-LSDYNI 61
Query: 95 ADGNVLHLVLRL 106
+ LH VLRL
Sbjct: 62 QKESTLHSVLRL 73
>pdb|1BT0|A Chain A, Structure Of Ubiquitin-Like Protein, Rub1
Length = 76
Score = 44.3 bits (103), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 22/68 (32%), Positives = 41/68 (60%), Gaps = 1/68 (1%)
Query: 39 SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGN 98
++ G I + + +D+I +K R++ G +Q+L++ G++LA + +DY + G+
Sbjct: 7 TLTGKEIEIDIEPTDTIDRIKERVEEKEGIPPVQQRLIYAGKQLA-DDKTAKDYNIEGGS 65
Query: 99 VLHLVLRL 106
VLHLVL L
Sbjct: 66 VLHLVLAL 73
>pdb|1OGW|A Chain A, Synthetic Ubiquitin With Fluoro-Leu At 50 And 67
Length = 76
Score = 43.9 bits (102), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 25/72 (34%), Positives = 41/72 (56%), Gaps = 2/72 (2%)
Query: 36 IFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGL 94
IF+ ++ G I + V SD+I +VK +IQ G +Q+L+F G++ + + DY +
Sbjct: 3 IFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQXEDGRT-LSDYNI 61
Query: 95 ADGNVLHLVLRL 106
+ HLVLRL
Sbjct: 62 QKESTXHLVLRL 73
>pdb|1UD7|A Chain A, Solution Structure Of The Designed Hydrophobic Core Mutant
Of Ubiquitin, 1d7
Length = 76
Score = 43.5 bits (101), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 23/72 (31%), Positives = 42/72 (58%), Gaps = 2/72 (2%)
Query: 36 IFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGL 94
+FL ++ G + + V SD++ + K +IQ G +Q+L+F G++L + + DY +
Sbjct: 3 VFLKTLTGKTVTIEVEPSDTVENFKAKIQDKEGIPPDQQRLIFAGKQLEDGRT-LSDYNI 61
Query: 95 ADGNVLHLVLRL 106
+ +HLVLRL
Sbjct: 62 QKESTIHLVLRL 73
Score = 37.0 bits (84), Expect = 0.033, Method: Compositional matrix adjust.
Identities = 24/68 (35%), Positives = 35/68 (51%), Gaps = 2/68 (2%)
Query: 116 TVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNE 175
T+ GK VE V K +I K E + Q LI G++LED R ++D + E
Sbjct: 7 TLTGKTVTIEVEPSDTVENFKAKIQDK--EGIPPDQQRLIFAGKQLEDGRTLSDYNIQKE 64
Query: 176 AVIHLLVR 183
+ IHL++R
Sbjct: 65 STIHLVLR 72
>pdb|1C3T|A Chain A, Rotamer Strain As A Determinant Of Protein Structural
Specificity
Length = 76
Score = 43.1 bits (100), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 22/72 (30%), Positives = 41/72 (56%), Gaps = 1/72 (1%)
Query: 35 LIFLSVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGL 94
L ++ G + + + SD++ ++K +IQ G +Q+L+F G++L + + DY L
Sbjct: 3 LFVKTLTGKTLTVELEPSDTVENLKAKIQDKEGIPPDQQRLIFAGKQLEDGRT-LSDYNL 61
Query: 95 ADGNVLHLVLRL 106
+ +HLVLRL
Sbjct: 62 QKESTIHLVLRL 73
Score = 38.1 bits (87), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 24/70 (34%), Positives = 37/70 (52%), Gaps = 2/70 (2%)
Query: 114 VTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKR 173
V T+ GK +E V +K +I K E + Q LI G++LED R ++D +
Sbjct: 5 VKTLTGKTLTVELEPSDTVENLKAKIQDK--EGIPPDQQRLIFAGKQLEDGRTLSDYNLQ 62
Query: 174 NEAVIHLLVR 183
E+ IHL++R
Sbjct: 63 KESTIHLVLR 72
>pdb|3H7S|A Chain A, Crystal Structures Of K63-Linked Di- And Tri-Ubiquitin
Reveal A Highly Extended Chain Architecture
pdb|3H7S|B Chain B, Crystal Structures Of K63-Linked Di- And Tri-Ubiquitin
Reveal A Highly Extended Chain Architecture
Length = 76
Score = 43.1 bits (100), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 27/73 (36%), Positives = 43/73 (58%), Gaps = 3/73 (4%)
Query: 36 IFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGL 94
IF+ ++ G I + V SD+I +VK +IQ G +Q+L+F G++L + + DY +
Sbjct: 3 IFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRT-LSDYNI 61
Query: 95 ADG-NVLHLVLRL 106
+ LHLVLRL
Sbjct: 62 QKRESTLHLVLRL 74
>pdb|3DBH|I Chain I, Structural Dissection Of A Gating Mechanism Preventing
Misactivation Of Ubiquitin By Nedd8's E1 (Appbp1-
Uba3arg190ala-Nedd8ala72arg)
pdb|3DBH|J Chain J, Structural Dissection Of A Gating Mechanism Preventing
Misactivation Of Ubiquitin By Nedd8's E1 (Appbp1-
Uba3arg190ala-Nedd8ala72arg)
pdb|3DBH|K Chain K, Structural Dissection Of A Gating Mechanism Preventing
Misactivation Of Ubiquitin By Nedd8's E1 (Appbp1-
Uba3arg190ala-Nedd8ala72arg)
pdb|3DBH|L Chain L, Structural Dissection Of A Gating Mechanism Preventing
Misactivation Of Ubiquitin By Nedd8's E1 (Appbp1-
Uba3arg190ala-Nedd8ala72arg)
pdb|3DBR|I Chain I, Structural Dissection Of A Gating Mechanism Preventing
Misactivation Of Ubiquitin By Nedd8's E1 (Appbp1-
Uba3arg190gln-Nedd8ala72arg)
pdb|3DBR|J Chain J, Structural Dissection Of A Gating Mechanism Preventing
Misactivation Of Ubiquitin By Nedd8's E1 (Appbp1-
Uba3arg190gln-Nedd8ala72arg)
pdb|3DBR|K Chain K, Structural Dissection Of A Gating Mechanism Preventing
Misactivation Of Ubiquitin By Nedd8's E1 (Appbp1-
Uba3arg190gln-Nedd8ala72arg)
pdb|3DBR|L Chain L, Structural Dissection Of A Gating Mechanism Preventing
Misactivation Of Ubiquitin By Nedd8's E1 (Appbp1-
Uba3arg190gln-Nedd8ala72arg)
Length = 88
Score = 42.7 bits (99), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 24/78 (30%), Positives = 46/78 (58%), Gaps = 2/78 (2%)
Query: 30 SNDSILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSR 88
S S+LI + ++ G I + + +D + +K R++ G ++Q+L++ G+++ +
Sbjct: 9 SGGSMLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDEKTA 68
Query: 89 VRDYGLADGNVLHLVLRL 106
DY + G+VLHLVLRL
Sbjct: 69 A-DYKILGGSVLHLVLRL 85
>pdb|4I6L|B Chain B, Crystal Structure Of Otub1 In Complex With Ubiquitin
Variant
Length = 76
Score = 42.4 bits (98), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 27/75 (36%), Positives = 44/75 (58%), Gaps = 2/75 (2%)
Query: 33 SILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRD 91
S+ IF+ ++ G I + V SD+I +VK +IQ G +QKL+F ++L + + D
Sbjct: 2 SMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQKLLFARKQLEDGRT-LSD 60
Query: 92 YGLADGNVLHLVLRL 106
Y + + L+LVLRL
Sbjct: 61 YNIHKESFLYLVLRL 75
>pdb|2GBR|A Chain A, Crystal Structure Of The 35-36 Moad Insertion Mutant Of
Ubiquitin
pdb|2GBR|B Chain B, Crystal Structure Of The 35-36 Moad Insertion Mutant Of
Ubiquitin
pdb|2GBR|C Chain C, Crystal Structure Of The 35-36 Moad Insertion Mutant Of
Ubiquitin
Length = 81
Score = 42.4 bits (98), Expect = 8e-04, Method: Composition-based stats.
Identities = 25/73 (34%), Positives = 41/73 (56%), Gaps = 6/73 (8%)
Query: 39 SVGGSVIPMRVMESDSIASVKLRIQSYNGFFV-----KKQKLVFEGRELARSNSRVRDYG 93
++ G I + V SD+I +VK +IQ G + +Q+L+F G++L + + DY
Sbjct: 7 TLTGKTITLEVEPSDTIENVKAKIQDKEGRWALAIPPDQQRLIFAGKQLEDGRT-LSDYN 65
Query: 94 LADGNVLHLVLRL 106
+ + LHLVLRL
Sbjct: 66 IQKESTLHLVLRL 78
Score = 38.9 bits (89), Expect = 0.009, Method: Composition-based stats.
Identities = 26/75 (34%), Positives = 41/75 (54%), Gaps = 3/75 (4%)
Query: 112 ITVTTVCGKVFEFHVERGRNVGYVKQQIA-KKGREFVDL--KNQELICDGEELEDQRLIT 168
I V T+ GK VE + VK +I K+GR + + Q LI G++LED R ++
Sbjct: 3 IFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGRWALAIPPDQQRLIFAGKQLEDGRTLS 62
Query: 169 DICKRNEAVIHLLVR 183
D + E+ +HL++R
Sbjct: 63 DYNIQKESTLHLVLR 77
>pdb|1SIF|A Chain A, Crystal Structure Of A Multiple Hydrophobic Core Mutant Of
Ubiquitin
Length = 88
Score = 42.0 bits (97), Expect = 9e-04, Method: Composition-based stats.
Identities = 23/72 (31%), Positives = 40/72 (55%), Gaps = 1/72 (1%)
Query: 35 LIFLSVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGL 94
L ++ G + + SD+I ++K +IQ G +Q+L+F G++L + + DY +
Sbjct: 12 LFIKTLTGKTFTVEMEPSDTIENLKAKIQDKEGIPPDQQRLIFAGKQLEDGRT-LSDYNI 70
Query: 95 ADGNVLHLVLRL 106
+ LHLVLRL
Sbjct: 71 QKESTLHLVLRL 82
Score = 38.1 bits (87), Expect = 0.015, Method: Composition-based stats.
Identities = 22/70 (31%), Positives = 38/70 (54%), Gaps = 2/70 (2%)
Query: 114 VTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKR 173
+ T+ GK F +E + +K +I K E + Q LI G++LED R ++D +
Sbjct: 14 IKTLTGKTFTVEMEPSDTIENLKAKIQDK--EGIPPDQQRLIFAGKQLEDGRTLSDYNIQ 71
Query: 174 NEAVIHLLVR 183
E+ +HL++R
Sbjct: 72 KESTLHLVLR 81
>pdb|3U5C|FF Chain f, The Structure Of The Eukaryotic Ribosome At 3.0 A
Resolution. This Entry Contains Proteins Of The 40s
Subunit, Ribosome A
Length = 152
Score = 41.2 bits (95), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 24/69 (34%), Positives = 40/69 (57%), Gaps = 2/69 (2%)
Query: 36 IFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGL 94
IF+ ++ G I + V SD+I +VK +IQ G +Q+L+F G++L + + DY +
Sbjct: 3 IFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRT-LSDYNI 61
Query: 95 ADGNVLHLV 103
+ LHLV
Sbjct: 62 QKESTLHLV 70
Score = 36.6 bits (83), Expect = 0.045, Method: Compositional matrix adjust.
Identities = 24/70 (34%), Positives = 36/70 (51%), Gaps = 2/70 (2%)
Query: 112 ITVTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDIC 171
I V T+ GK VE + VK +I K E + Q LI G++LED R ++D
Sbjct: 3 IFVKTLTGKTITLEVESSDTIDNVKSKIQDK--EGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 172 KRNEAVIHLL 181
+ E+ +HL+
Sbjct: 61 IQKESTLHLV 70
>pdb|3DBL|I Chain I, Structural Dissection Of A Gating Mechanism Preventing
Misactivation Of Ubiquitin By Nedd8's E1 (Appbp1-
Uba3arg190wt-Nedd8ala72gln)
pdb|3DBL|J Chain J, Structural Dissection Of A Gating Mechanism Preventing
Misactivation Of Ubiquitin By Nedd8's E1 (Appbp1-
Uba3arg190wt-Nedd8ala72gln)
pdb|3DBL|K Chain K, Structural Dissection Of A Gating Mechanism Preventing
Misactivation Of Ubiquitin By Nedd8's E1 (Appbp1-
Uba3arg190wt-Nedd8ala72gln)
pdb|3DBL|L Chain L, Structural Dissection Of A Gating Mechanism Preventing
Misactivation Of Ubiquitin By Nedd8's E1 (Appbp1-
Uba3arg190wt-Nedd8ala72gln)
Length = 88
Score = 40.8 bits (94), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 23/78 (29%), Positives = 46/78 (58%), Gaps = 2/78 (2%)
Query: 30 SNDSILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSR 88
S S+LI + ++ G I + + +D + +K R++ G ++Q+L++ G+++ +
Sbjct: 9 SGGSMLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDEKTA 68
Query: 89 VRDYGLADGNVLHLVLRL 106
DY + G+VLHLVL+L
Sbjct: 69 A-DYKILGGSVLHLVLQL 85
>pdb|1ZKH|A Chain A, Solution Structure Of A Human Ubiquitin-Like Domain In
Sf3a1
Length = 86
Score = 40.4 bits (93), Expect = 0.003, Method: Composition-based stats.
Identities = 22/66 (33%), Positives = 38/66 (57%), Gaps = 1/66 (1%)
Query: 40 VGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNV 99
+ G V+ + +D ++ +K++I G KQKL +EG + SNS + Y +A+G V
Sbjct: 19 LNGQVLVFTLPLTDQVSVIKVKIHEATGMPAGKQKLQYEGIFIKDSNS-LAYYNMANGAV 77
Query: 100 LHLVLR 105
+HL L+
Sbjct: 78 IHLALK 83
>pdb|2NVU|I Chain I, Structure Of Appbp1-Uba3~nedd8-Nedd8-Mgatp-Ubc12(C111a), A
Trapped Ubiquitin-Like Protein Activation Complex
pdb|2NVU|J Chain J, Structure Of Appbp1-Uba3~nedd8-Nedd8-Mgatp-Ubc12(C111a), A
Trapped Ubiquitin-Like Protein Activation Complex
Length = 81
Score = 40.4 bits (93), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 23/78 (29%), Positives = 45/78 (57%), Gaps = 2/78 (2%)
Query: 30 SNDSILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSR 88
S S+LI + ++ G I + + +D + +K R++ G ++Q+L++ G+++ +
Sbjct: 2 SGGSMLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDEKTA 61
Query: 89 VRDYGLADGNVLHLVLRL 106
DY + G+VLHLVL L
Sbjct: 62 A-DYKILGGSVLHLVLAL 78
>pdb|4HJK|A Chain A, U7ub7 Disulfide Variant
Length = 77
Score = 40.0 bits (92), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 24/75 (32%), Positives = 42/75 (56%), Gaps = 2/75 (2%)
Query: 33 SILIFLS-VGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRD 91
++ IF+ + G + V SD+I +VK +IQ G+ +Q+L+F G++L + + D
Sbjct: 1 AMQIFVKCLTGKTNTLEVEPSDTIENVKAKIQDKIGYPPDQQRLIFAGKQLEDGRT-LSD 59
Query: 92 YGLADGNVLHLVLRL 106
Y + + LH V RL
Sbjct: 60 YNIQKESTLHCVRRL 74
>pdb|2BKR|B Chain B, Nedd8 Nedp1 Complex
Length = 77
Score = 39.7 bits (91), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 22/75 (29%), Positives = 44/75 (58%), Gaps = 2/75 (2%)
Query: 33 SILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRD 91
S+LI + ++ G I + + +D + +K R++ G ++Q+L++ G+++ + D
Sbjct: 1 SMLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDEKTAA-D 59
Query: 92 YGLADGNVLHLVLRL 106
Y + G+VLHLVL L
Sbjct: 60 YKILGGSVLHLVLAL 74
>pdb|1NDD|B Chain B, Structure Of Nedd8
pdb|1NDD|A Chain A, Structure Of Nedd8
pdb|1NDD|C Chain C, Structure Of Nedd8
pdb|1NDD|D Chain D, Structure Of Nedd8
pdb|1R4M|I Chain I, Appbp1-Uba3-Nedd8, An E1-Ubiquitin-Like Protein Complex
pdb|1R4M|J Chain J, Appbp1-Uba3-Nedd8, An E1-Ubiquitin-Like Protein Complex
pdb|1R4M|K Chain K, Appbp1-Uba3-Nedd8, An E1-Ubiquitin-Like Protein Complex
pdb|1R4M|L Chain L, Appbp1-Uba3-Nedd8, An E1-Ubiquitin-Like Protein Complex
pdb|1R4N|I Chain I, Appbp1-Uba3-Nedd8, An E1-Ubiquitin-Like Protein Complex
With Atp
pdb|1R4N|J Chain J, Appbp1-Uba3-Nedd8, An E1-Ubiquitin-Like Protein Complex
With Atp
pdb|1R4N|K Chain K, Appbp1-Uba3-Nedd8, An E1-Ubiquitin-Like Protein Complex
With Atp
pdb|1R4N|L Chain L, Appbp1-Uba3-Nedd8, An E1-Ubiquitin-Like Protein Complex
With Atp
pdb|1XT9|B Chain B, Crystal Structure Of Den1 In Complex With Nedd8
pdb|2KO3|A Chain A, Nedd8 Solution Structure
Length = 76
Score = 39.3 bits (90), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 19/68 (27%), Positives = 39/68 (57%), Gaps = 1/68 (1%)
Query: 39 SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGN 98
++ G I + + +D + +K R++ G ++Q+L++ G+++ + DY + G+
Sbjct: 7 TLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDEKTAA-DYKILGGS 65
Query: 99 VLHLVLRL 106
VLHLVL L
Sbjct: 66 VLHLVLAL 73
>pdb|3GZN|I Chain I, Structure Of Nedd8-Activating Enzyme In Complex With Nedd8
And Mln4924
pdb|3GZN|J Chain J, Structure Of Nedd8-Activating Enzyme In Complex With Nedd8
And Mln4924
Length = 82
Score = 39.3 bits (90), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 19/68 (27%), Positives = 39/68 (57%), Gaps = 1/68 (1%)
Query: 39 SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGN 98
++ G I + + +D + +K R++ G ++Q+L++ G+++ + DY + G+
Sbjct: 13 TLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDEKTAA-DYKILGGS 71
Query: 99 VLHLVLRL 106
VLHLVL L
Sbjct: 72 VLHLVLAL 79
>pdb|4HCP|B Chain B, Crystal Structure Of Burkholderia Pseudomallei Effector
Protein Chbp In Complex With Nedd8
Length = 78
Score = 39.3 bits (90), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 19/68 (27%), Positives = 39/68 (57%), Gaps = 1/68 (1%)
Query: 39 SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGN 98
++ G I + + +D + +K R++ G ++Q+L++ G+++ + DY + G+
Sbjct: 9 TLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDEKTAA-DYKILGGS 67
Query: 99 VLHLVLRL 106
VLHLVL L
Sbjct: 68 VLHLVLAL 75
>pdb|3DQV|A Chain A, Structural Insights Into Nedd8 Activation Of Cullin-Ring
Ligases: Conformational Control Of Conjugation
pdb|3DQV|B Chain B, Structural Insights Into Nedd8 Activation Of Cullin-Ring
Ligases: Conformational Control Of Conjugation
Length = 81
Score = 38.9 bits (89), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 23/78 (29%), Positives = 42/78 (53%), Gaps = 2/78 (2%)
Query: 30 SNDSILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSR 88
S S LI + ++ G I + + +D + +K R++ G ++Q+L++ G++
Sbjct: 2 SGGSXLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQ-XNDEKT 60
Query: 89 VRDYGLADGNVLHLVLRL 106
DY + G+VLHLVL L
Sbjct: 61 AADYKIXGGSVLHLVLAL 78
>pdb|4F8C|B Chain B, Structure Of The Cif:nedd8 Complex - Yersinia
Pseudotuberculosis Cycle Inhibiting Factor In Complex
With Human Nedd8
pdb|4F8C|D Chain D, Structure Of The Cif:nedd8 Complex - Yersinia
Pseudotuberculosis Cycle Inhibiting Factor In Complex
With Human Nedd8
pdb|4FBJ|B Chain B, Structure Of The Cif:nedd8 Complex - Photorhabdus
Luminescens Cycle Inhibiting Factor In Complex With
Human Nedd8
Length = 88
Score = 38.9 bits (89), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 19/68 (27%), Positives = 39/68 (57%), Gaps = 1/68 (1%)
Query: 39 SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGN 98
++ G I + + +D + +K R++ G ++Q+L++ G+++ + DY + G+
Sbjct: 7 TLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDEKTAA-DYKILGGS 65
Query: 99 VLHLVLRL 106
VLHLVL L
Sbjct: 66 VLHLVLAL 73
>pdb|1WE7|A Chain A, Solution Structure Of Ubiquitin-Like Domain In Sf3a120
Length = 115
Score = 38.9 bits (89), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 20/54 (37%), Positives = 32/54 (59%), Gaps = 1/54 (1%)
Query: 52 SDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLR 105
+D ++ +K++I G KQKL +EG + SNS + Y +A G V+HL L+
Sbjct: 55 TDQVSVIKVKIHEATGMPAGKQKLQYEGIFIKDSNS-LAYYNMASGAVIHLALK 107
>pdb|2GBM|A Chain A, Crystal Structure Of The 35-36 8 Glycine Insertion Mutant
Of Ubiquitin
pdb|2GBM|B Chain B, Crystal Structure Of The 35-36 8 Glycine Insertion Mutant
Of Ubiquitin
pdb|2GBM|C Chain C, Crystal Structure Of The 35-36 8 Glycine Insertion Mutant
Of Ubiquitin
pdb|2GBM|D Chain D, Crystal Structure Of The 35-36 8 Glycine Insertion Mutant
Of Ubiquitin
pdb|2GBN|A Chain A, Crystal Structure Of The 35-36 8 Glycine Insertion Mutant
Of Ubiquitin
Length = 84
Score = 38.5 bits (88), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 27/80 (33%), Positives = 43/80 (53%), Gaps = 10/80 (12%)
Query: 36 IFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVK--------KQKLVFEGRELARSN 86
IF+ ++ G I + V SD+I +VK +IQ G +Q+L+F G++L
Sbjct: 3 IFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGGGGGGGGGIPPDQQRLIFAGKQLEDGR 62
Query: 87 SRVRDYGLADGNVLHLVLRL 106
+ + DY + + LHLVLRL
Sbjct: 63 T-LSDYNIQKESTLHLVLRL 81
Score = 35.4 bits (80), Expect = 0.095, Method: Compositional matrix adjust.
Identities = 25/78 (32%), Positives = 38/78 (48%), Gaps = 6/78 (7%)
Query: 112 ITVTTVCGKVFEFHVERGRNVGYVKQQIAKK------GREFVDLKNQELICDGEELEDQR 165
I V T+ GK VE + VK +I K G + Q LI G++LED R
Sbjct: 3 IFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGGGGGGGGGIPPDQQRLIFAGKQLEDGR 62
Query: 166 LITDICKRNEAVIHLLVR 183
++D + E+ +HL++R
Sbjct: 63 TLSDYNIQKESTLHLVLR 80
>pdb|3MTN|B Chain B, Usp21 In Complex With A Ubiquitin-based, Usp21-specific
Inhibitor
pdb|3MTN|D Chain D, Usp21 In Complex With A Ubiquitin-based, Usp21-specific
Inhibitor
Length = 85
Score = 35.4 bits (80), Expect = 0.093, Method: Composition-based stats.
Identities = 19/62 (30%), Positives = 34/62 (54%), Gaps = 1/62 (1%)
Query: 39 SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGN 98
++ G I + V SD+I +VK +IQ G +Q+L+F G++L + + DY + +
Sbjct: 10 TLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRT-LSDYNIQKWS 68
Query: 99 VL 100
L
Sbjct: 69 TL 70
>pdb|1GJZ|A Chain A, Solution Structure Of A Dimeric N-Terminal Fragment Of
Human Ubiquitin
pdb|1GJZ|B Chain B, Solution Structure Of A Dimeric N-Terminal Fragment Of
Human Ubiquitin
Length = 53
Score = 35.0 bits (79), Expect = 0.12, Method: Composition-based stats.
Identities = 19/51 (37%), Positives = 32/51 (62%), Gaps = 1/51 (1%)
Query: 33 SILIFL-SVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGREL 82
S+ IF+ ++ G I + V SD+I +VK +IQ G +Q+L+F G++L
Sbjct: 2 SMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQL 52
>pdb|3N3K|B Chain B, The Catalytic Domain Of Usp8 In Complex With A Usp8
Specific Inhibitor
Length = 85
Score = 34.7 bits (78), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 18/60 (30%), Positives = 34/60 (56%), Gaps = 1/60 (1%)
Query: 35 LIFLSVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGL 94
++ ++ G I + V SD+I +VK +IQ G +Q+L+F G++L + + DY +
Sbjct: 6 IVVKTLMGRTIILEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRT-LSDYNI 64
>pdb|3M63|B Chain B, Crystal Structure Of Ufd2 In Complex With The
Ubiquitin-Like (Ubl) Domain Of Dsk2
Length = 101
Score = 32.7 bits (73), Expect = 0.63, Method: Composition-based stats.
Identities = 20/71 (28%), Positives = 34/71 (47%), Gaps = 1/71 (1%)
Query: 33 SILIFLSVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDY 92
S+ I + G + V ++ K I NG V Q+L++ G+ L + + V Y
Sbjct: 28 SLNIHIKSGQDKWEVNVAPESTVLQFKEAINKANGIPVANQRLIYSGKIL-KDDQTVESY 86
Query: 93 GLADGNVLHLV 103
+ DG+ +HLV
Sbjct: 87 HIQDGHSVHLV 97
>pdb|1O5Z|A Chain A, Crystal Structure Of Folylpolyglutamate Synthase (Tm0166)
From Thermotoga Maritima At 2.10 A Resolution
Length = 442
Score = 32.3 bits (72), Expect = 0.69, Method: Compositional matrix adjust.
Identities = 22/111 (19%), Positives = 51/111 (45%), Gaps = 13/111 (11%)
Query: 114 VTTVCGKVFEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKR 173
V +C + + + +GY +QIA + + + L+ + E +++ D+ ++
Sbjct: 168 VFPLCSTIVTVDRDHEKTLGYTIEQIAWEKSGIIK-ERVPLVTGERKREALKVMEDVARK 226
Query: 174 NEAVIHLLVRKSAKVRAKPVQKDFEVSIEATELNEKGADVVGEHQFETLFM 224
+ +++ + KDF V +++ +L+E D GE+ FE L +
Sbjct: 227 KSSRMYV------------IDKDFSVKVKSLKLHENRFDYCGENTFEDLVL 265
>pdb|2BWE|S Chain S, The Crystal Structure Of The Complex Between The Uba And
Ubl Domains Of Dsk2
pdb|2BWE|T Chain T, The Crystal Structure Of The Complex Between The Uba And
Ubl Domains Of Dsk2
pdb|2BWE|U Chain U, The Crystal Structure Of The Complex Between The Uba And
Ubl Domains Of Dsk2
pdb|2BWF|A Chain A, Crystal Sturcture Of The Ubl Domain Of Dsk2 From S.
Cerevisiae
pdb|2BWF|B Chain B, Crystal Sturcture Of The Ubl Domain Of Dsk2 From S.
Cerevisiae
Length = 77
Score = 32.3 bits (72), Expect = 0.69, Method: Composition-based stats.
Identities = 20/71 (28%), Positives = 34/71 (47%), Gaps = 1/71 (1%)
Query: 33 SILIFLSVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDY 92
S+ I + G + V ++ K I NG V Q+L++ G+ L + + V Y
Sbjct: 4 SLNIHIKSGQDKWEVNVAPESTVLQFKEAINKANGIPVANQRLIYSGKIL-KDDQTVESY 62
Query: 93 GLADGNVLHLV 103
+ DG+ +HLV
Sbjct: 63 HIQDGHSVHLV 73
>pdb|4HK2|A Chain A, U7ub25.2540
pdb|4HK2|B Chain B, U7ub25.2540
pdb|4HK2|C Chain C, U7ub25.2540
pdb|4HK2|D Chain D, U7ub25.2540
Length = 78
Score = 31.6 bits (70), Expect = 1.2, Method: Composition-based stats.
Identities = 21/65 (32%), Positives = 32/65 (49%), Gaps = 1/65 (1%)
Query: 42 GSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLH 101
G + V SD+I +VK +IQ G +Q L+F G+ L + + DY + + L
Sbjct: 12 GKTYTLEVEPSDTIENVKAKIQDKLGIPPDQQWLIFAGKRLEDGRT-LSDYNIQKESTLR 70
Query: 102 LVLRL 106
V RL
Sbjct: 71 GVRRL 75
>pdb|2KD0|A Chain A, Nmr Solution Structure Of O64736 Protein From
Arabidopsis Thaliana. Northeast Structural Genomics
Consortium Mega Target Ar3445a
Length = 85
Score = 31.6 bits (70), Expect = 1.4, Method: Composition-based stats.
Identities = 14/55 (25%), Positives = 30/55 (54%)
Query: 33 SILIFLSVGGSVIPMRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNS 87
+I + + GG IP+ V ++ +K ++Q + QKL+F+G+ L +++
Sbjct: 12 TIKLTVKFGGKSIPLSVSPDCTVKDLKSQLQPITNVLPRGQKLIFKGKVLVETST 66
>pdb|2DZI|A Chain A, 2dziSOLUTION STRUCTURE OF THE N-Terminal Ubiquitin-Like
Domain In Human Ubiquitin-Like Protein 4a (Gdx)
Length = 81
Score = 30.4 bits (67), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 16/59 (27%), Positives = 36/59 (61%), Gaps = 1/59 (1%)
Query: 47 MRVMESDSIASVKLRIQSYNGFFVKKQKLVFEGRELARSNSRVRDYGLADGNVLHLVLR 105
++V E + ++++K + V++Q+L+F+G+ LA R+ DY + + L+LV++
Sbjct: 22 LQVPEDELVSTLKQLVSEKLNVPVRQQRLLFKGKALA-DGKRLSDYSIGPNSKLNLVVK 79
>pdb|3QMZ|A Chain A, Crystal Structure Of The Cytoplasmic Dynein Heavy Chain
Motor Domain
pdb|3QMZ|B Chain B, Crystal Structure Of The Cytoplasmic Dynein Heavy Chain
Motor Domain
Length = 2486
Score = 30.4 bits (67), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 21/71 (29%), Positives = 31/71 (43%), Gaps = 20/71 (28%)
Query: 443 GQIKLVPIDHGYCLPYSFEDCTFDW----------------LYWPQARQPYSPETINYIN 486
+ +LVP HG+ Y F DC F + + W Q R + TI Y
Sbjct: 2335 ARTRLVP--HGFSKKYYFNDCDFQFASVYLENVLATNSTNNIPWAQVRDHIA--TIVYGG 2390
Query: 487 ALDAEKDIELL 497
+D EKD+E++
Sbjct: 2391 KIDEEKDLEVV 2401
>pdb|1WGD|A Chain A, Solution Structure Of The Ubl-Domain Of Herp
Length = 93
Score = 30.4 bits (67), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 18/62 (29%), Positives = 34/62 (54%), Gaps = 2/62 (3%)
Query: 122 FEFHVERGRNVGYVKQQIAKKGREFVDLKNQELICDGEELEDQRLITDICKRNEA--VIH 179
E +RG +VG++K +++ E ++Q LI G+ L D + + D+ + E V+H
Sbjct: 22 LELSGDRGWSVGHLKAHLSRVYPERPRPEDQRLIYSGKLLLDHQCLRDLLPKQEKRHVLH 81
Query: 180 LL 181
L+
Sbjct: 82 LV 83
>pdb|4AI6|A Chain A, Dynein Motor Domain - Adp Complex
pdb|4AI6|B Chain B, Dynein Motor Domain - Adp Complex
pdb|4AKG|A Chain A, Dynein Motor Domain - Atp Complex
pdb|4AKG|B Chain B, Dynein Motor Domain - Atp Complex
pdb|4AKH|A Chain A, Dynein Motor Domain - Amppnp Complex
pdb|4AKH|B Chain B, Dynein Motor Domain - Amppnp Complex
pdb|4AKI|A Chain A, Dynein Motor Domain - Luac Derivative
pdb|4AKI|B Chain B, Dynein Motor Domain - Luac Derivative
Length = 2695
Score = 30.4 bits (67), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 21/71 (29%), Positives = 31/71 (43%), Gaps = 20/71 (28%)
Query: 443 GQIKLVPIDHGYCLPYSFEDCTFDW----------------LYWPQARQPYSPETINYIN 486
+ +LVP HG+ Y F DC F + + W Q R + TI Y
Sbjct: 2544 ARTRLVP--HGFSKKYYFNDCDFQFASVYLENVLATNSTNNIPWAQVRDHIA--TIVYGG 2599
Query: 487 ALDAEKDIELL 497
+D EKD+E++
Sbjct: 2600 KIDEEKDLEVV 2610
>pdb|3NZ0|A Chain A, Non-Phosphorylated Tyk2 Kinase With Cmp6
Length = 302
Score = 29.3 bits (64), Expect = 7.2, Method: Compositional matrix adjust.
Identities = 24/106 (22%), Positives = 43/106 (40%), Gaps = 15/106 (14%)
Query: 307 VNNPRGLPISVDGEGLKKGTRAGEGALREVAAYILDHPRDATYSLHDEERGFAGVPPTVM 366
+ +P P LKK GEG +V+ Y D D T + V
Sbjct: 1 MGSPASDPTVFHKRYLKKIRDLGEGHFGKVSLYCYDPTNDGTGEM-------------VA 47
Query: 367 VRCLHK--GFNHPNGYKHDLENVKIGSLQMFVENVGSCEEMGPRAF 410
V+ L G H +G+K +++ ++ + ++ G CE+ G ++
Sbjct: 48 VKALKADCGPQHRSGWKQEIDILRTLYHEHIIKYKGCCEDQGEKSL 93
>pdb|3NYX|A Chain A, Non-Phosphorylated Tyk2 Jh1 Domain With
Quinoline-Thiadiazole- Thiophene Inhibitor
Length = 302
Score = 28.9 bits (63), Expect = 7.6, Method: Compositional matrix adjust.
Identities = 24/106 (22%), Positives = 43/106 (40%), Gaps = 15/106 (14%)
Query: 307 VNNPRGLPISVDGEGLKKGTRAGEGALREVAAYILDHPRDATYSLHDEERGFAGVPPTVM 366
+ +P P LKK GEG +V+ Y D D T + V
Sbjct: 1 MGSPASDPTVFHKRYLKKIRDLGEGHFGKVSLYCYDPTNDGTGEM-------------VA 47
Query: 367 VRCLHK--GFNHPNGYKHDLENVKIGSLQMFVENVGSCEEMGPRAF 410
V+ L G H +G+K +++ ++ + ++ G CE+ G ++
Sbjct: 48 VKALKADCGPQHRSGWKQEIDILRTLYHEHIIKYKGCCEDQGEKSL 93
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
0.319 0.138 0.404
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 17,803,485
Number of Sequences: 62578
Number of extensions: 764134
Number of successful extensions: 1862
Number of sequences better than 100.0: 96
Number of HSP's better than 100.0 without gapping: 74
Number of HSP's successfully gapped in prelim test: 22
Number of HSP's that attempted gapping in prelim test: 1643
Number of HSP's gapped (non-prelim): 159
length of query: 590
length of database: 14,973,337
effective HSP length: 104
effective length of query: 486
effective length of database: 8,465,225
effective search space: 4114099350
effective search space used: 4114099350
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 54 (25.4 bits)