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= 036691
(426 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 104 bits (259), Expect = 1e-22, Method: Compositional matrix adjust.
Identities = 62/135 (45%), Positives = 85/135 (62%), Gaps = 3/135 (2%)
Query: 1 MKVKKSEPIKNLKAMIHVKEGISEDICDLFFAGDRLEAGR-LVDYGIRNNSTLHFLHQNL 59
++V+ S+ I+N+KA I KEGI D L FAG +LE GR L DY I+ STLH + +
Sbjct: 15 LEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLR 74
Query: 60 SEMKLFVKIPTNQTATVVEAMPYHTVQNIKTMIQVKEGIQSDQFTLVYDGKLLKEDTATM 119
M++FVK T +T T +E P T++N+K IQ KEGI DQ L++ GK L ED T+
Sbjct: 75 GHMQIFVKTLTGKTIT-LEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQL-EDGRTL 132
Query: 120 TSMNIKSESIIHLVF 134
+ NI+ ES +HLV
Sbjct: 133 SDYNIQKESTLHLVL 147
Score = 100 bits (248), Expect = 2e-21, Method: Compositional matrix adjust.
Identities = 59/147 (40%), Positives = 87/147 (59%), Gaps = 2/147 (1%)
Query: 62 MKLFVKIPTNQTATVVEAMPYHTVQNIKTMIQVKEGIQSDQFTLVYDGKLLKEDTATMTS 121
M++FVK T +T T+ E P T++N+K IQ KEGI DQ L++ GK L ED T++
Sbjct: 1 MQIFVKTLTGKTITL-EVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQL-EDGRTLSD 58
Query: 122 MNIKSESIIHLVFCPKEILSIFVKAATGEIVNLEVKHSFAIRDVKAIXXXXXXXXXXDHI 181
NI+ ES +HLV + + IFVK TG+ + LEV+ S I +VKA
Sbjct: 59 YNIQKESTLHLVLRLRGHMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQR 118
Query: 182 MIYEGKKLEDSKTLAFYDMKDECLLEM 208
+I+ GK+LED +TL+ Y+++ E L +
Sbjct: 119 LIFAGKQLEDGRTLSDYNIQKESTLHL 145
Score = 99.4 bits (246), Expect = 3e-21, Method: Compositional matrix adjust.
Identities = 58/147 (39%), Positives = 83/147 (56%), Gaps = 3/147 (2%)
Query: 213 IQIFVRTPXXXXXXXXXXXXXXXXDVKEIVANIIDLSLGNQDLFYAGTKLEACKTLASYG 272
+QIFV+T +VK + + + Q L +AG +LE +TL+ Y
Sbjct: 1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 273 IKNNYVLDV---LPSPFQIFVKTWGGKTITLDVQPYNTVQDVKVKLFDKLQTPLHLQSIV 329
I+ L + L QIFVKT GKTITL+V+P +T+++VK K+ DK P Q ++
Sbjct: 61 IQKESTLHLVLRLRGHMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLI 120
Query: 330 FAGKRLFENHVLARYNIQKHSTLHMVL 356
FAGK+L + L+ YNIQK STLH+VL
Sbjct: 121 FAGKQLEDGRTLSDYNIQKESTLHLVL 147
Score = 82.4 bits (202), Expect = 5e-16, Method: Compositional matrix adjust.
Identities = 53/147 (36%), Positives = 74/147 (50%), Gaps = 6/147 (4%)
Query: 286 FQIFVKTWGGKTITLDVQPYNTVQDVKVKLFDKLQTPLHLQSIVFAGKRLFENHVLARYN 345
QIFVKT GKTITL+V+P +T+++VK K+ DK P Q ++FAGK+L + L+ YN
Sbjct: 1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 346 IQKHSTLHMVLAPSSRIIEXXXXXXXXXXXXXXXXXEVKEMAKVKFQ------AAVKELL 399
IQK STLH+VL + + E K K Q + L+
Sbjct: 61 IQKESTLHLVLRLRGHMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLI 120
Query: 400 VDQVALQDDRTLADYGMDLSEKVVLVF 426
L+D RTL+DY + + LV
Sbjct: 121 FAGKQLEDGRTLSDYNIQKESTLHLVL 147
>pdb|2W9N|A Chain A, Crystal Structure Of Linear Di-Ubiquitin
Length = 152
Score = 104 bits (259), Expect = 1e-22, Method: Compositional matrix adjust.
Identities = 62/135 (45%), Positives = 85/135 (62%), Gaps = 3/135 (2%)
Query: 1 MKVKKSEPIKNLKAMIHVKEGISEDICDLFFAGDRLEAGR-LVDYGIRNNSTLHFLHQNL 59
++V+ S+ I+N+KA I KEGI D L FAG +LE GR L DY I+ STLH + +
Sbjct: 15 LEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLR 74
Query: 60 SEMKLFVKIPTNQTATVVEAMPYHTVQNIKTMIQVKEGIQSDQFTLVYDGKLLKEDTATM 119
M++FVK T +T T +E P T++N+K IQ KEGI DQ L++ GK L ED T+
Sbjct: 75 GGMQIFVKTLTGKTIT-LEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQL-EDGRTL 132
Query: 120 TSMNIKSESIIHLVF 134
+ NI+ ES +HLV
Sbjct: 133 SDYNIQKESTLHLVL 147
Score = 99.8 bits (247), Expect = 3e-21, Method: Compositional matrix adjust.
Identities = 58/146 (39%), Positives = 82/146 (56%), Gaps = 3/146 (2%)
Query: 214 QIFVRTPXXXXXXXXXXXXXXXXDVKEIVANIIDLSLGNQDLFYAGTKLEACKTLASYGI 273
QIFV+T +VK + + + Q L +AG +LE +TL+ Y I
Sbjct: 2 QIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNI 61
Query: 274 KNNYVLDV---LPSPFQIFVKTWGGKTITLDVQPYNTVQDVKVKLFDKLQTPLHLQSIVF 330
+ L + L QIFVKT GKTITL+V+P +T+++VK K+ DK P Q ++F
Sbjct: 62 QKESTLHLVLRLRGGMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIF 121
Query: 331 AGKRLFENHVLARYNIQKHSTLHMVL 356
AGK+L + L+ YNIQK STLH+VL
Sbjct: 122 AGKQLEDGRTLSDYNIQKESTLHLVL 147
Score = 98.6 bits (244), Expect = 6e-21, Method: Compositional matrix adjust.
Identities = 58/146 (39%), Positives = 86/146 (58%), Gaps = 2/146 (1%)
Query: 63 KLFVKIPTNQTATVVEAMPYHTVQNIKTMIQVKEGIQSDQFTLVYDGKLLKEDTATMTSM 122
++FVK T +T T+ E P T++N+K IQ KEGI DQ L++ GK L ED T++
Sbjct: 2 QIFVKTLTGKTITL-EVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQL-EDGRTLSDY 59
Query: 123 NIKSESIIHLVFCPKEILSIFVKAATGEIVNLEVKHSFAIRDVKAIXXXXXXXXXXDHIM 182
NI+ ES +HLV + + IFVK TG+ + LEV+ S I +VKA +
Sbjct: 60 NIQKESTLHLVLRLRGGMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRL 119
Query: 183 IYEGKKLEDSKTLAFYDMKDECLLEM 208
I+ GK+LED +TL+ Y+++ E L +
Sbjct: 120 IFAGKQLEDGRTLSDYNIQKESTLHL 145
Score = 82.0 bits (201), Expect = 6e-16, Method: Compositional matrix adjust.
Identities = 53/146 (36%), Positives = 74/146 (50%), Gaps = 6/146 (4%)
Query: 287 QIFVKTWGGKTITLDVQPYNTVQDVKVKLFDKLQTPLHLQSIVFAGKRLFENHVLARYNI 346
QIFVKT GKTITL+V+P +T+++VK K+ DK P Q ++FAGK+L + L+ YNI
Sbjct: 2 QIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNI 61
Query: 347 QKHSTLHMVLAPSSRIIEXXXXXXXXXXXXXXXXXEVKEMAKVKFQ------AAVKELLV 400
QK STLH+VL + + E K K Q + L+
Sbjct: 62 QKESTLHLVLRLRGGMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIF 121
Query: 401 DQVALQDDRTLADYGMDLSEKVVLVF 426
L+D RTL+DY + + LV
Sbjct: 122 AGKQLEDGRTLSDYNIQKESTLHLVL 147
>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 = 104 bits (259), Expect = 1e-22, Method: Compositional matrix adjust.
Identities = 62/135 (45%), Positives = 85/135 (62%), Gaps = 3/135 (2%)
Query: 1 MKVKKSEPIKNLKAMIHVKEGISEDICDLFFAGDRLEAGR-LVDYGIRNNSTLHFLHQNL 59
++V+ S+ I+N+KA I KEGI D L FAG +LE GR L DY I+ STLH + +
Sbjct: 17 LEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLR 76
Query: 60 SEMKLFVKIPTNQTATVVEAMPYHTVQNIKTMIQVKEGIQSDQFTLVYDGKLLKEDTATM 119
M++FVK T +T T +E P T++N+K IQ KEGI DQ L++ GK L ED T+
Sbjct: 77 GGMQIFVKTLTGKTIT-LEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQL-EDGRTL 134
Query: 120 TSMNIKSESIIHLVF 134
+ NI+ ES +HLV
Sbjct: 135 SDYNIQKESTLHLVL 149
Score = 102 bits (253), Expect = 5e-22, Method: Compositional matrix adjust.
Identities = 59/149 (39%), Positives = 84/149 (56%), Gaps = 3/149 (2%)
Query: 211 SSIQIFVRTPXXXXXXXXXXXXXXXXDVKEIVANIIDLSLGNQDLFYAGTKLEACKTLAS 270
S+QIFV+T +VK + + + Q L +AG +LE +TL+
Sbjct: 1 GSMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSD 60
Query: 271 YGIKNNYVLDV---LPSPFQIFVKTWGGKTITLDVQPYNTVQDVKVKLFDKLQTPLHLQS 327
Y I+ L + L QIFVKT GKTITL+V+P +T+++VK K+ DK P Q
Sbjct: 61 YNIQKESTLHLVLRLRGGMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQR 120
Query: 328 IVFAGKRLFENHVLARYNIQKHSTLHMVL 356
++FAGK+L + L+ YNIQK STLH+VL
Sbjct: 121 LIFAGKQLEDGRTLSDYNIQKESTLHLVL 149
Score = 100 bits (250), Expect = 1e-21, Method: Compositional matrix adjust.
Identities = 59/147 (40%), Positives = 87/147 (59%), Gaps = 2/147 (1%)
Query: 62 MKLFVKIPTNQTATVVEAMPYHTVQNIKTMIQVKEGIQSDQFTLVYDGKLLKEDTATMTS 121
M++FVK T +T T+ E P T++N+K IQ KEGI DQ L++ GK L ED T++
Sbjct: 3 MQIFVKTLTGKTITL-EVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQL-EDGRTLSD 60
Query: 122 MNIKSESIIHLVFCPKEILSIFVKAATGEIVNLEVKHSFAIRDVKAIXXXXXXXXXXDHI 181
NI+ ES +HLV + + IFVK TG+ + LEV+ S I +VKA
Sbjct: 61 YNIQKESTLHLVLRLRGGMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQR 120
Query: 182 MIYEGKKLEDSKTLAFYDMKDECLLEM 208
+I+ GK+LED +TL+ Y+++ E L +
Sbjct: 121 LIFAGKQLEDGRTLSDYNIQKESTLHL 147
Score = 82.4 bits (202), Expect = 5e-16, Method: Compositional matrix adjust.
Identities = 53/147 (36%), Positives = 74/147 (50%), Gaps = 6/147 (4%)
Query: 286 FQIFVKTWGGKTITLDVQPYNTVQDVKVKLFDKLQTPLHLQSIVFAGKRLFENHVLARYN 345
QIFVKT GKTITL+V+P +T+++VK K+ DK P Q ++FAGK+L + L+ YN
Sbjct: 3 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 62
Query: 346 IQKHSTLHMVLAPSSRIIEXXXXXXXXXXXXXXXXXEVKEMAKVKFQ------AAVKELL 399
IQK STLH+VL + + E K K Q + L+
Sbjct: 63 IQKESTLHLVLRLRGGMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLI 122
Query: 400 VDQVALQDDRTLADYGMDLSEKVVLVF 426
L+D RTL+DY + + LV
Sbjct: 123 FAGKQLEDGRTLSDYNIQKESTLHLVL 149
>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 = 104 bits (259), Expect = 1e-22, Method: Compositional matrix adjust.
Identities = 62/135 (45%), Positives = 85/135 (62%), Gaps = 3/135 (2%)
Query: 1 MKVKKSEPIKNLKAMIHVKEGISEDICDLFFAGDRLEAGR-LVDYGIRNNSTLHFLHQNL 59
++V+ S+ I+N+KA I KEGI D L FAG +LE GR L DY I+ STLH + +
Sbjct: 15 LEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLR 74
Query: 60 SEMKLFVKIPTNQTATVVEAMPYHTVQNIKTMIQVKEGIQSDQFTLVYDGKLLKEDTATM 119
M++FVK T +T T +E P T++N+K IQ KEGI DQ L++ GK L ED T+
Sbjct: 75 GGMQIFVKTLTGKTIT-LEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQL-EDGRTL 132
Query: 120 TSMNIKSESIIHLVF 134
+ NI+ ES +HLV
Sbjct: 133 SDYNIQKESTLHLVL 147
Score = 100 bits (249), Expect = 1e-21, Method: Compositional matrix adjust.
Identities = 59/147 (40%), Positives = 87/147 (59%), Gaps = 2/147 (1%)
Query: 62 MKLFVKIPTNQTATVVEAMPYHTVQNIKTMIQVKEGIQSDQFTLVYDGKLLKEDTATMTS 121
M++FVK T +T T+ E P T++N+K IQ KEGI DQ L++ GK L ED T++
Sbjct: 1 MQIFVKTLTGKTITL-EVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQL-EDGRTLSD 58
Query: 122 MNIKSESIIHLVFCPKEILSIFVKAATGEIVNLEVKHSFAIRDVKAIXXXXXXXXXXDHI 181
NI+ ES +HLV + + IFVK TG+ + LEV+ S I +VKA
Sbjct: 59 YNIQKESTLHLVLRLRGGMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQR 118
Query: 182 MIYEGKKLEDSKTLAFYDMKDECLLEM 208
+I+ GK+LED +TL+ Y+++ E L +
Sbjct: 119 LIFAGKQLEDGRTLSDYNIQKESTLHL 145
Score = 99.8 bits (247), Expect = 2e-21, Method: Compositional matrix adjust.
Identities = 58/147 (39%), Positives = 83/147 (56%), Gaps = 3/147 (2%)
Query: 213 IQIFVRTPXXXXXXXXXXXXXXXXDVKEIVANIIDLSLGNQDLFYAGTKLEACKTLASYG 272
+QIFV+T +VK + + + Q L +AG +LE +TL+ Y
Sbjct: 1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 273 IKNNYVLDV---LPSPFQIFVKTWGGKTITLDVQPYNTVQDVKVKLFDKLQTPLHLQSIV 329
I+ L + L QIFVKT GKTITL+V+P +T+++VK K+ DK P Q ++
Sbjct: 61 IQKESTLHLVLRLRGGMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLI 120
Query: 330 FAGKRLFENHVLARYNIQKHSTLHMVL 356
FAGK+L + L+ YNIQK STLH+VL
Sbjct: 121 FAGKQLEDGRTLSDYNIQKESTLHLVL 147
Score = 82.0 bits (201), Expect = 6e-16, Method: Compositional matrix adjust.
Identities = 53/147 (36%), Positives = 74/147 (50%), Gaps = 6/147 (4%)
Query: 286 FQIFVKTWGGKTITLDVQPYNTVQDVKVKLFDKLQTPLHLQSIVFAGKRLFENHVLARYN 345
QIFVKT GKTITL+V+P +T+++VK K+ DK P Q ++FAGK+L + L+ YN
Sbjct: 1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 346 IQKHSTLHMVLAPSSRIIEXXXXXXXXXXXXXXXXXEVKEMAKVKFQ------AAVKELL 399
IQK STLH+VL + + E K K Q + L+
Sbjct: 61 IQKESTLHLVLRLRGGMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLI 120
Query: 400 VDQVALQDDRTLADYGMDLSEKVVLVF 426
L+D RTL+DY + + LV
Sbjct: 121 FAGKQLEDGRTLSDYNIQKESTLHLVL 147
>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 = 103 bits (258), Expect = 1e-22, Method: Compositional matrix adjust.
Identities = 62/135 (45%), Positives = 85/135 (62%), Gaps = 3/135 (2%)
Query: 1 MKVKKSEPIKNLKAMIHVKEGISEDICDLFFAGDRLEAGR-LVDYGIRNNSTLHFLHQNL 59
++V+ S+ I+N+KA I KEGI D L FAG +LE GR L DY I+ STLH + +
Sbjct: 35 LEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLR 94
Query: 60 SEMKLFVKIPTNQTATVVEAMPYHTVQNIKTMIQVKEGIQSDQFTLVYDGKLLKEDTATM 119
M++FVK T +T T +E P T++N+K IQ KEGI DQ L++ GK L ED T+
Sbjct: 95 GGMQIFVKTLTGKTIT-LEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQL-EDGRTL 152
Query: 120 TSMNIKSESIIHLVF 134
+ NI+ ES +HLV
Sbjct: 153 SDYNIQKESTLHLVL 167
Score = 102 bits (254), Expect = 4e-22, Method: Compositional matrix adjust.
Identities = 60/149 (40%), Positives = 88/149 (59%), Gaps = 2/149 (1%)
Query: 60 SEMKLFVKIPTNQTATVVEAMPYHTVQNIKTMIQVKEGIQSDQFTLVYDGKLLKEDTATM 119
S M++FVK T +T T+ E P T++N+K IQ KEGI DQ L++ GK L ED T+
Sbjct: 19 SHMQIFVKTLTGKTITL-EVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQL-EDGRTL 76
Query: 120 TSMNIKSESIIHLVFCPKEILSIFVKAATGEIVNLEVKHSFAIRDVKAIXXXXXXXXXXD 179
+ NI+ ES +HLV + + IFVK TG+ + LEV+ S I +VKA
Sbjct: 77 SDYNIQKESTLHLVLRLRGGMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQ 136
Query: 180 HIMIYEGKKLEDSKTLAFYDMKDECLLEM 208
+I+ GK+LED +TL+ Y+++ E L +
Sbjct: 137 QRLIFAGKQLEDGRTLSDYNIQKESTLHL 165
Score = 100 bits (250), Expect = 1e-21, Method: Compositional matrix adjust.
Identities = 59/149 (39%), Positives = 84/149 (56%), Gaps = 3/149 (2%)
Query: 211 SSIQIFVRTPXXXXXXXXXXXXXXXXDVKEIVANIIDLSLGNQDLFYAGTKLEACKTLAS 270
S +QIFV+T +VK + + + Q L +AG +LE +TL+
Sbjct: 19 SHMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSD 78
Query: 271 YGIKNNYVLDV---LPSPFQIFVKTWGGKTITLDVQPYNTVQDVKVKLFDKLQTPLHLQS 327
Y I+ L + L QIFVKT GKTITL+V+P +T+++VK K+ DK P Q
Sbjct: 79 YNIQKESTLHLVLRLRGGMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQR 138
Query: 328 IVFAGKRLFENHVLARYNIQKHSTLHMVL 356
++FAGK+L + L+ YNIQK STLH+VL
Sbjct: 139 LIFAGKQLEDGRTLSDYNIQKESTLHLVL 167
Score = 82.4 bits (202), Expect = 4e-16, Method: Compositional matrix adjust.
Identities = 54/149 (36%), Positives = 75/149 (50%), Gaps = 6/149 (4%)
Query: 284 SPFQIFVKTWGGKTITLDVQPYNTVQDVKVKLFDKLQTPLHLQSIVFAGKRLFENHVLAR 343
S QIFVKT GKTITL+V+P +T+++VK K+ DK P Q ++FAGK+L + L+
Sbjct: 19 SHMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSD 78
Query: 344 YNIQKHSTLHMVLAPSSRIIEXXXXXXXXXXXXXXXXXEVKEMAKVKFQ------AAVKE 397
YNIQK STLH+VL + + E K K Q +
Sbjct: 79 YNIQKESTLHLVLRLRGGMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQR 138
Query: 398 LLVDQVALQDDRTLADYGMDLSEKVVLVF 426
L+ L+D RTL+DY + + LV
Sbjct: 139 LIFAGKQLEDGRTLSDYNIQKESTLHLVL 167
>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 = 84.3 bits (207), Expect = 1e-16, Method: Compositional matrix adjust.
Identities = 40/71 (56%), Positives = 53/71 (74%)
Query: 286 FQIFVKTWGGKTITLDVQPYNTVQDVKVKLFDKLQTPLHLQSIVFAGKRLFENHVLARYN 345
QIFVKT GKTITL+V+P +T+++VK K+ DK Q P Q ++FAGK+L + L+ YN
Sbjct: 1 LQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEQIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 346 IQKHSTLHMVL 356
IQK STLH+VL
Sbjct: 61 IQKESTLHLVL 71
Score = 55.8 bits (133), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 32/73 (43%), Positives = 46/73 (63%), Gaps = 2/73 (2%)
Query: 62 MKLFVKIPTNQTATVVEAMPYHTVQNIKTMIQVKEGIQSDQFTLVYDGKLLKEDTATMTS 121
+++FVK T +T T+ E P T++N+K IQ KE I DQ L++ GK L ED T++
Sbjct: 1 LQIFVKTLTGKTITL-EVEPSDTIENVKAKIQDKEQIPPDQQRLIFAGKQL-EDGRTLSD 58
Query: 122 MNIKSESIIHLVF 134
NI+ ES +HLV
Sbjct: 59 YNIQKESTLHLVL 71
Score = 48.9 bits (115), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 26/69 (37%), Positives = 39/69 (56%)
Query: 140 LSIFVKAATGEIVNLEVKHSFAIRDVKAIXXXXXXXXXXDHIMIYEGKKLEDSKTLAFYD 199
L IFVK TG+ + LEV+ S I +VKA +I+ GK+LED +TL+ Y+
Sbjct: 1 LQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEQIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 200 MKDECLLEM 208
++ E L +
Sbjct: 61 IQKESTLHL 69
Score = 48.5 bits (114), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 27/56 (48%), Positives = 36/56 (64%), Gaps = 1/56 (1%)
Query: 1 MKVKKSEPIKNLKAMIHVKEGISEDICDLFFAGDRLEAGR-LVDYGIRNNSTLHFL 55
++V+ S+ I+N+KA I KE I D L FAG +LE GR L DY I+ STLH +
Sbjct: 15 LEVEPSDTIENVKAKIQDKEQIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLV 70
>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 = 82.8 bits (203), Expect = 4e-16, Method: Compositional matrix adjust.
Identities = 39/71 (54%), Positives = 52/71 (73%)
Query: 286 FQIFVKTWGGKTITLDVQPYNTVQDVKVKLFDKLQTPLHLQSIVFAGKRLFENHVLARYN 345
QIFVKT GKTITL+V+P +T+++VK K+ DK P Q ++FAGK+L + L+ YN
Sbjct: 1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 346 IQKHSTLHMVL 356
IQK STLH+VL
Sbjct: 61 IQKESTLHLVL 71
Score = 61.2 bits (147), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 34/73 (46%), Positives = 47/73 (64%), Gaps = 2/73 (2%)
Query: 62 MKLFVKIPTNQTATVVEAMPYHTVQNIKTMIQVKEGIQSDQFTLVYDGKLLKEDTATMTS 121
M++FVK T +T T+ E P T++N+K IQ KEGI DQ L++ GK L ED T++
Sbjct: 1 MQIFVKTLTGKTITL-EVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQL-EDGRTLSD 58
Query: 122 MNIKSESIIHLVF 134
NI+ ES +HLV
Sbjct: 59 YNIQKESTLHLVL 71
Score = 52.0 bits (123), Expect = 7e-07, Method: Compositional matrix adjust.
Identities = 28/56 (50%), Positives = 37/56 (66%), Gaps = 1/56 (1%)
Query: 1 MKVKKSEPIKNLKAMIHVKEGISEDICDLFFAGDRLEAGR-LVDYGIRNNSTLHFL 55
++V+ S+ I+N+KA I KEGI D L FAG +LE GR L DY I+ STLH +
Sbjct: 15 LEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLV 70
Score = 47.8 bits (112), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 25/69 (36%), Positives = 39/69 (56%)
Query: 140 LSIFVKAATGEIVNLEVKHSFAIRDVKAIXXXXXXXXXXDHIMIYEGKKLEDSKTLAFYD 199
+ IFVK TG+ + LEV+ S I +VKA +I+ GK+LED +TL+ Y+
Sbjct: 1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 200 MKDECLLEM 208
++ E L +
Sbjct: 61 IQKESTLHL 69
>pdb|2XK5|B Chain B, Crystal Structure Of K6-Linked Diubiquitin
Length = 76
Score = 81.6 bits (200), Expect = 7e-16, Method: Compositional matrix adjust.
Identities = 39/71 (54%), Positives = 52/71 (73%)
Query: 286 FQIFVKTWGGKTITLDVQPYNTVQDVKVKLFDKLQTPLHLQSIVFAGKRLFENHVLARYN 345
QIFVKT GKTITL+V+P +T+++VK K+ DK P Q ++FAGK+L + L+ YN
Sbjct: 1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPQQQRLIFAGKQLEDGRTLSDYN 60
Query: 346 IQKHSTLHMVL 356
IQK STLH+VL
Sbjct: 61 IQKESTLHLVL 71
Score = 57.8 bits (138), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 33/73 (45%), Positives = 46/73 (63%), Gaps = 2/73 (2%)
Query: 62 MKLFVKIPTNQTATVVEAMPYHTVQNIKTMIQVKEGIQSDQFTLVYDGKLLKEDTATMTS 121
M++FVK T +T T+ E P T++N+K IQ KEGI Q L++ GK L ED T++
Sbjct: 1 MQIFVKTLTGKTITL-EVEPSDTIENVKAKIQDKEGIPPQQQRLIFAGKQL-EDGRTLSD 58
Query: 122 MNIKSESIIHLVF 134
NI+ ES +HLV
Sbjct: 59 YNIQKESTLHLVL 71
Score = 49.3 bits (116), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 27/56 (48%), Positives = 36/56 (64%), Gaps = 1/56 (1%)
Query: 1 MKVKKSEPIKNLKAMIHVKEGISEDICDLFFAGDRLEAGR-LVDYGIRNNSTLHFL 55
++V+ S+ I+N+KA I KEGI L FAG +LE GR L DY I+ STLH +
Sbjct: 15 LEVEPSDTIENVKAKIQDKEGIPPQQQRLIFAGKQLEDGRTLSDYNIQKESTLHLV 70
Score = 48.1 bits (113), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 25/69 (36%), Positives = 39/69 (56%)
Query: 140 LSIFVKAATGEIVNLEVKHSFAIRDVKAIXXXXXXXXXXDHIMIYEGKKLEDSKTLAFYD 199
+ IFVK TG+ + LEV+ S I +VKA +I+ GK+LED +TL+ Y+
Sbjct: 1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPQQQRLIFAGKQLEDGRTLSDYN 60
Query: 200 MKDECLLEM 208
++ E L +
Sbjct: 61 IQKESTLHL 69
>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 = 81.6 bits (200), Expect = 7e-16, Method: Compositional matrix adjust.
Identities = 39/71 (54%), Positives = 52/71 (73%)
Query: 286 FQIFVKTWGGKTITLDVQPYNTVQDVKVKLFDKLQTPLHLQSIVFAGKRLFENHVLARYN 345
QIFVKT GKTITL+V+P +T+++VK K+ DK P Q ++FAGK+L + L+ YN
Sbjct: 6 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 65
Query: 346 IQKHSTLHMVL 356
IQK STLH+VL
Sbjct: 66 IQKESTLHLVL 76
Score = 60.8 bits (146), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 34/75 (45%), Positives = 47/75 (62%), Gaps = 2/75 (2%)
Query: 60 SEMKLFVKIPTNQTATVVEAMPYHTVQNIKTMIQVKEGIQSDQFTLVYDGKLLKEDTATM 119
M++FVK T +T T+ E P T++N+K IQ KEGI DQ L++ GK L ED T+
Sbjct: 4 GSMQIFVKTLTGKTITL-EVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQL-EDGRTL 61
Query: 120 TSMNIKSESIIHLVF 134
+ NI+ ES +HLV
Sbjct: 62 SDYNIQKESTLHLVL 76
Score = 51.2 bits (121), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 28/56 (50%), Positives = 37/56 (66%), Gaps = 1/56 (1%)
Query: 1 MKVKKSEPIKNLKAMIHVKEGISEDICDLFFAGDRLEAGR-LVDYGIRNNSTLHFL 55
++V+ S+ I+N+KA I KEGI D L FAG +LE GR L DY I+ STLH +
Sbjct: 20 LEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLV 75
Score = 47.8 bits (112), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 25/69 (36%), Positives = 39/69 (56%)
Query: 140 LSIFVKAATGEIVNLEVKHSFAIRDVKAIXXXXXXXXXXDHIMIYEGKKLEDSKTLAFYD 199
+ IFVK TG+ + LEV+ S I +VKA +I+ GK+LED +TL+ Y+
Sbjct: 6 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 65
Query: 200 MKDECLLEM 208
++ E L +
Sbjct: 66 IQKESTLHL 74
Score = 30.0 bits (66), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 19/69 (27%), Positives = 30/69 (43%)
Query: 211 SSIQIFVRTPXXXXXXXXXXXXXXXXDVKEIVANIIDLSLGNQDLFYAGTKLEACKTLAS 270
S+QIFV+T +VK + + + Q L +AG +LE +TL+
Sbjct: 4 GSMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSD 63
Query: 271 YGIKNNYVL 279
Y I+ L
Sbjct: 64 YNIQKESTL 72
>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 = 81.6 bits (200), Expect = 7e-16, Method: Compositional matrix adjust.
Identities = 40/73 (54%), Positives = 53/73 (72%)
Query: 284 SPFQIFVKTWGGKTITLDVQPYNTVQDVKVKLFDKLQTPLHLQSIVFAGKRLFENHVLAR 343
S QIFVKT GKTITL+V+P +T+++VK K+ DK P Q ++FAGK+L + L+
Sbjct: 2 SHMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSD 61
Query: 344 YNIQKHSTLHMVL 356
YNIQK STLH+VL
Sbjct: 62 YNIQKESTLHLVL 74
Score = 62.0 bits (149), Expect = 5e-10, Method: Compositional matrix adjust.
Identities = 35/75 (46%), Positives = 48/75 (64%), Gaps = 2/75 (2%)
Query: 60 SEMKLFVKIPTNQTATVVEAMPYHTVQNIKTMIQVKEGIQSDQFTLVYDGKLLKEDTATM 119
S M++FVK T +T T+ E P T++N+K IQ KEGI DQ L++ GK L ED T+
Sbjct: 2 SHMQIFVKTLTGKTITL-EVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQL-EDGRTL 59
Query: 120 TSMNIKSESIIHLVF 134
+ NI+ ES +HLV
Sbjct: 60 SDYNIQKESTLHLVL 74
Score = 51.2 bits (121), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 28/56 (50%), Positives = 37/56 (66%), Gaps = 1/56 (1%)
Query: 1 MKVKKSEPIKNLKAMIHVKEGISEDICDLFFAGDRLEAGR-LVDYGIRNNSTLHFL 55
++V+ S+ I+N+KA I KEGI D L FAG +LE GR L DY I+ STLH +
Sbjct: 18 LEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLV 73
Score = 47.8 bits (112), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 25/69 (36%), Positives = 39/69 (56%)
Query: 140 LSIFVKAATGEIVNLEVKHSFAIRDVKAIXXXXXXXXXXDHIMIYEGKKLEDSKTLAFYD 199
+ IFVK TG+ + LEV+ S I +VKA +I+ GK+LED +TL+ Y+
Sbjct: 4 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 63
Query: 200 MKDECLLEM 208
++ E L +
Sbjct: 64 IQKESTLHL 72
Score = 29.6 bits (65), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 19/69 (27%), Positives = 30/69 (43%)
Query: 211 SSIQIFVRTPXXXXXXXXXXXXXXXXDVKEIVANIIDLSLGNQDLFYAGTKLEACKTLAS 270
S +QIFV+T +VK + + + Q L +AG +LE +TL+
Sbjct: 2 SHMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSD 61
Query: 271 YGIKNNYVL 279
Y I+ L
Sbjct: 62 YNIQKESTL 70
>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 = 81.6 bits (200), Expect = 8e-16, Method: Compositional matrix adjust.
Identities = 39/71 (54%), Positives = 52/71 (73%)
Query: 286 FQIFVKTWGGKTITLDVQPYNTVQDVKVKLFDKLQTPLHLQSIVFAGKRLFENHVLARYN 345
QIFVKT GKTITL+V+P +T+++VK K+ DK P Q ++FAGK+L + L+ YN
Sbjct: 1 LQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEXIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 346 IQKHSTLHMVL 356
IQK STLH+VL
Sbjct: 61 IQKESTLHLVL 71
Score = 55.8 bits (133), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 32/73 (43%), Positives = 46/73 (63%), Gaps = 2/73 (2%)
Query: 62 MKLFVKIPTNQTATVVEAMPYHTVQNIKTMIQVKEGIQSDQFTLVYDGKLLKEDTATMTS 121
+++FVK T +T T+ E P T++N+K IQ KE I DQ L++ GK L ED T++
Sbjct: 1 LQIFVKTLTGKTITL-EVEPSDTIENVKAKIQDKEXIPPDQQRLIFAGKQL-EDGRTLSD 58
Query: 122 MNIKSESIIHLVF 134
NI+ ES +HLV
Sbjct: 59 YNIQKESTLHLVL 71
Score = 48.5 bits (114), Expect = 6e-06, Method: Compositional matrix adjust.
Identities = 27/69 (39%), Positives = 40/69 (57%)
Query: 140 LSIFVKAATGEIVNLEVKHSFAIRDVKAIXXXXXXXXXXDHIMIYEGKKLEDSKTLAFYD 199
L IFVK TG+ + LEV+ S I +VKA +I+ GK+LED +TL+ Y+
Sbjct: 1 LQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEXIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 200 MKDECLLEM 208
++ E L +
Sbjct: 61 IQKESTLHL 69
Score = 48.5 bits (114), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 27/56 (48%), Positives = 36/56 (64%), Gaps = 1/56 (1%)
Query: 1 MKVKKSEPIKNLKAMIHVKEGISEDICDLFFAGDRLEAGR-LVDYGIRNNSTLHFL 55
++V+ S+ I+N+KA I KE I D L FAG +LE GR L DY I+ STLH +
Sbjct: 15 LEVEPSDTIENVKAKIQDKEXIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLV 70
>pdb|4AP4|C Chain C, Rnf4 - Ubch5a - Ubiquitin Heterotrimeric Complex
pdb|4AP4|F Chain F, Rnf4 - Ubch5a - Ubiquitin Heterotrimeric Complex
Length = 80
Score = 81.6 bits (200), Expect = 8e-16, Method: Compositional matrix adjust.
Identities = 39/71 (54%), Positives = 52/71 (73%)
Query: 286 FQIFVKTWGGKTITLDVQPYNTVQDVKVKLFDKLQTPLHLQSIVFAGKRLFENHVLARYN 345
QIFVKT GKTITL+V+P +T+++VK K+ DK P Q ++FAGK+L + L+ YN
Sbjct: 5 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 64
Query: 346 IQKHSTLHMVL 356
IQK STLH+VL
Sbjct: 65 IQKESTLHLVL 75
Score = 60.5 bits (145), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 34/73 (46%), Positives = 47/73 (64%), Gaps = 2/73 (2%)
Query: 62 MKLFVKIPTNQTATVVEAMPYHTVQNIKTMIQVKEGIQSDQFTLVYDGKLLKEDTATMTS 121
M++FVK T +T T+ E P T++N+K IQ KEGI DQ L++ GK L ED T++
Sbjct: 5 MQIFVKTLTGKTITL-EVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQL-EDGRTLSD 62
Query: 122 MNIKSESIIHLVF 134
NI+ ES +HLV
Sbjct: 63 YNIQKESTLHLVL 75
Score = 51.2 bits (121), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 28/56 (50%), Positives = 37/56 (66%), Gaps = 1/56 (1%)
Query: 1 MKVKKSEPIKNLKAMIHVKEGISEDICDLFFAGDRLEAGR-LVDYGIRNNSTLHFL 55
++V+ S+ I+N+KA I KEGI D L FAG +LE GR L DY I+ STLH +
Sbjct: 19 LEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLV 74
Score = 47.4 bits (111), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 25/69 (36%), Positives = 39/69 (56%)
Query: 140 LSIFVKAATGEIVNLEVKHSFAIRDVKAIXXXXXXXXXXDHIMIYEGKKLEDSKTLAFYD 199
+ IFVK TG+ + LEV+ S I +VKA +I+ GK+LED +TL+ Y+
Sbjct: 5 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 64
Query: 200 MKDECLLEM 208
++ E L +
Sbjct: 65 IQKESTLHL 73
>pdb|3ONS|A Chain A, Crystal Structure Of Human Ubiquitin In A New Crystal Form
Length = 72
Score = 81.3 bits (199), Expect = 8e-16, Method: Compositional matrix adjust.
Identities = 39/71 (54%), Positives = 52/71 (73%)
Query: 286 FQIFVKTWGGKTITLDVQPYNTVQDVKVKLFDKLQTPLHLQSIVFAGKRLFENHVLARYN 345
QIFVKT GKTITL+V+P +T+++VK K+ DK P Q ++FAGK+L + L+ YN
Sbjct: 1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 346 IQKHSTLHMVL 356
IQK STLH+VL
Sbjct: 61 IQKESTLHLVL 71
Score = 60.5 bits (145), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 34/73 (46%), Positives = 47/73 (64%), Gaps = 2/73 (2%)
Query: 62 MKLFVKIPTNQTATVVEAMPYHTVQNIKTMIQVKEGIQSDQFTLVYDGKLLKEDTATMTS 121
M++FVK T +T T+ E P T++N+K IQ KEGI DQ L++ GK L ED T++
Sbjct: 1 MQIFVKTLTGKTITL-EVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQL-EDGRTLSD 58
Query: 122 MNIKSESIIHLVF 134
NI+ ES +HLV
Sbjct: 59 YNIQKESTLHLVL 71
Score = 52.4 bits (124), Expect = 5e-07, Method: Compositional matrix adjust.
Identities = 28/56 (50%), Positives = 37/56 (66%), Gaps = 1/56 (1%)
Query: 1 MKVKKSEPIKNLKAMIHVKEGISEDICDLFFAGDRLEAGR-LVDYGIRNNSTLHFL 55
++V+ S+ I+N+KA I KEGI D L FAG +LE GR L DY I+ STLH +
Sbjct: 15 LEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLV 70
Score = 47.8 bits (112), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 25/69 (36%), Positives = 39/69 (56%)
Query: 140 LSIFVKAATGEIVNLEVKHSFAIRDVKAIXXXXXXXXXXDHIMIYEGKKLEDSKTLAFYD 199
+ IFVK TG+ + LEV+ S I +VKA +I+ GK+LED +TL+ Y+
Sbjct: 1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 200 MKDECLLEM 208
++ E L +
Sbjct: 61 IQKESTLHL 69
>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 = 81.3 bits (199), Expect = 8e-16, Method: Compositional matrix adjust.
Identities = 39/71 (54%), Positives = 52/71 (73%)
Query: 286 FQIFVKTWGGKTITLDVQPYNTVQDVKVKLFDKLQTPLHLQSIVFAGKRLFENHVLARYN 345
QIFVKT GKTITL+V+P +T+++VK K+ DK P Q ++FAGK+L + L+ YN
Sbjct: 1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 346 IQKHSTLHMVL 356
IQK STLH+VL
Sbjct: 61 IQKESTLHLVL 71
Score = 60.8 bits (146), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 34/73 (46%), Positives = 47/73 (64%), Gaps = 2/73 (2%)
Query: 62 MKLFVKIPTNQTATVVEAMPYHTVQNIKTMIQVKEGIQSDQFTLVYDGKLLKEDTATMTS 121
M++FVK T +T T+ E P T++N+K IQ KEGI DQ L++ GK L ED T++
Sbjct: 1 MQIFVKTLTGKTITL-EVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQL-EDGRTLSD 58
Query: 122 MNIKSESIIHLVF 134
NI+ ES +HLV
Sbjct: 59 YNIQKESTLHLVL 71
Score = 51.6 bits (122), Expect = 8e-07, Method: Compositional matrix adjust.
Identities = 28/56 (50%), Positives = 37/56 (66%), Gaps = 1/56 (1%)
Query: 1 MKVKKSEPIKNLKAMIHVKEGISEDICDLFFAGDRLEAGR-LVDYGIRNNSTLHFL 55
++V+ S+ I+N+KA I KEGI D L FAG +LE GR L DY I+ STLH +
Sbjct: 15 LEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLV 70
Score = 47.8 bits (112), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 25/69 (36%), Positives = 39/69 (56%)
Query: 140 LSIFVKAATGEIVNLEVKHSFAIRDVKAIXXXXXXXXXXDHIMIYEGKKLEDSKTLAFYD 199
+ IFVK TG+ + LEV+ S I +VKA +I+ GK+LED +TL+ Y+
Sbjct: 1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 200 MKDECLLEM 208
++ E L +
Sbjct: 61 IQKESTLHL 69
>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 = 81.3 bits (199), Expect = 9e-16, Method: Compositional matrix adjust.
Identities = 40/73 (54%), Positives = 53/73 (72%)
Query: 284 SPFQIFVKTWGGKTITLDVQPYNTVQDVKVKLFDKLQTPLHLQSIVFAGKRLFENHVLAR 343
S QIFVKT GKTITL+V+P +T+++VK K+ DK P Q ++FAGK+L + L+
Sbjct: 2 SHMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSD 61
Query: 344 YNIQKHSTLHMVL 356
YNIQK STLH+VL
Sbjct: 62 YNIQKESTLHLVL 74
Score = 62.0 bits (149), Expect = 6e-10, Method: Compositional matrix adjust.
Identities = 35/75 (46%), Positives = 48/75 (64%), Gaps = 2/75 (2%)
Query: 60 SEMKLFVKIPTNQTATVVEAMPYHTVQNIKTMIQVKEGIQSDQFTLVYDGKLLKEDTATM 119
S M++FVK T +T T+ E P T++N+K IQ KEGI DQ L++ GK L ED T+
Sbjct: 2 SHMQIFVKTLTGKTITL-EVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQL-EDGRTL 59
Query: 120 TSMNIKSESIIHLVF 134
+ NI+ ES +HLV
Sbjct: 60 SDYNIQKESTLHLVL 74
Score = 51.2 bits (121), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 28/56 (50%), Positives = 37/56 (66%), Gaps = 1/56 (1%)
Query: 1 MKVKKSEPIKNLKAMIHVKEGISEDICDLFFAGDRLEAGR-LVDYGIRNNSTLHFL 55
++V+ S+ I+N+KA I KEGI D L FAG +LE GR L DY I+ STLH +
Sbjct: 18 LEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLV 73
Score = 47.8 bits (112), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 25/69 (36%), Positives = 39/69 (56%)
Query: 140 LSIFVKAATGEIVNLEVKHSFAIRDVKAIXXXXXXXXXXDHIMIYEGKKLEDSKTLAFYD 199
+ IFVK TG+ + LEV+ S I +VKA +I+ GK+LED +TL+ Y+
Sbjct: 4 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 63
Query: 200 MKDECLLEM 208
++ E L +
Sbjct: 64 IQKESTLHL 72
Score = 29.6 bits (65), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 19/69 (27%), Positives = 30/69 (43%)
Query: 211 SSIQIFVRTPXXXXXXXXXXXXXXXXDVKEIVANIIDLSLGNQDLFYAGTKLEACKTLAS 270
S +QIFV+T +VK + + + Q L +AG +LE +TL+
Sbjct: 2 SHMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSD 61
Query: 271 YGIKNNYVL 279
Y I+ L
Sbjct: 62 YNIQKESTL 70
>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 = 81.3 bits (199), Expect = 9e-16, Method: Compositional matrix adjust.
Identities = 39/71 (54%), Positives = 52/71 (73%)
Query: 286 FQIFVKTWGGKTITLDVQPYNTVQDVKVKLFDKLQTPLHLQSIVFAGKRLFENHVLARYN 345
QIFVKT GKTITL+V+P +T+++VK K+ DK P Q ++FAGK+L + L+ YN
Sbjct: 1 LQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 346 IQKHSTLHMVL 356
IQK STLH+VL
Sbjct: 61 IQKESTLHLVL 71
Score = 59.3 bits (142), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 33/73 (45%), Positives = 47/73 (64%), Gaps = 2/73 (2%)
Query: 62 MKLFVKIPTNQTATVVEAMPYHTVQNIKTMIQVKEGIQSDQFTLVYDGKLLKEDTATMTS 121
+++FVK T +T T+ E P T++N+K IQ KEGI DQ L++ GK L ED T++
Sbjct: 1 LQIFVKTLTGKTITL-EVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQL-EDGRTLSD 58
Query: 122 MNIKSESIIHLVF 134
NI+ ES +HLV
Sbjct: 59 YNIQKESTLHLVL 71
Score = 51.6 bits (122), Expect = 8e-07, Method: Compositional matrix adjust.
Identities = 28/56 (50%), Positives = 37/56 (66%), Gaps = 1/56 (1%)
Query: 1 MKVKKSEPIKNLKAMIHVKEGISEDICDLFFAGDRLEAGR-LVDYGIRNNSTLHFL 55
++V+ S+ I+N+KA I KEGI D L FAG +LE GR L DY I+ STLH +
Sbjct: 15 LEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLV 70
Score = 48.5 bits (114), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 26/69 (37%), Positives = 39/69 (56%)
Query: 140 LSIFVKAATGEIVNLEVKHSFAIRDVKAIXXXXXXXXXXDHIMIYEGKKLEDSKTLAFYD 199
L IFVK TG+ + LEV+ S I +VKA +I+ GK+LED +TL+ Y+
Sbjct: 1 LQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 200 MKDECLLEM 208
++ E L +
Sbjct: 61 IQKESTLHL 69
>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 = 81.3 bits (199), Expect = 9e-16, Method: Compositional matrix adjust.
Identities = 40/73 (54%), Positives = 53/73 (72%)
Query: 284 SPFQIFVKTWGGKTITLDVQPYNTVQDVKVKLFDKLQTPLHLQSIVFAGKRLFENHVLAR 343
S QIFVKT GKTITL+V+P +T+++VK K+ DK P Q ++FAGK+L + L+
Sbjct: 1 SHMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSD 60
Query: 344 YNIQKHSTLHMVL 356
YNIQK STLH+VL
Sbjct: 61 YNIQKESTLHLVL 73
Score = 62.0 bits (149), Expect = 6e-10, Method: Compositional matrix adjust.
Identities = 35/75 (46%), Positives = 48/75 (64%), Gaps = 2/75 (2%)
Query: 60 SEMKLFVKIPTNQTATVVEAMPYHTVQNIKTMIQVKEGIQSDQFTLVYDGKLLKEDTATM 119
S M++FVK T +T T+ E P T++N+K IQ KEGI DQ L++ GK L ED T+
Sbjct: 1 SHMQIFVKTLTGKTITL-EVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQL-EDGRTL 58
Query: 120 TSMNIKSESIIHLVF 134
+ NI+ ES +HLV
Sbjct: 59 SDYNIQKESTLHLVL 73
Score = 51.6 bits (122), Expect = 9e-07, Method: Compositional matrix adjust.
Identities = 28/56 (50%), Positives = 37/56 (66%), Gaps = 1/56 (1%)
Query: 1 MKVKKSEPIKNLKAMIHVKEGISEDICDLFFAGDRLEAGR-LVDYGIRNNSTLHFL 55
++V+ S+ I+N+KA I KEGI D L FAG +LE GR L DY I+ STLH +
Sbjct: 17 LEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLV 72
Score = 47.8 bits (112), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 25/69 (36%), Positives = 39/69 (56%)
Query: 140 LSIFVKAATGEIVNLEVKHSFAIRDVKAIXXXXXXXXXXDHIMIYEGKKLEDSKTLAFYD 199
+ IFVK TG+ + LEV+ S I +VKA +I+ GK+LED +TL+ Y+
Sbjct: 3 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 62
Query: 200 MKDECLLEM 208
++ E L +
Sbjct: 63 IQKESTLHL 71
Score = 30.0 bits (66), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 19/69 (27%), Positives = 30/69 (43%)
Query: 211 SSIQIFVRTPXXXXXXXXXXXXXXXXDVKEIVANIIDLSLGNQDLFYAGTKLEACKTLAS 270
S +QIFV+T +VK + + + Q L +AG +LE +TL+
Sbjct: 1 SHMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSD 60
Query: 271 YGIKNNYVL 279
Y I+ L
Sbjct: 61 YNIQKESTL 69
>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 = 81.3 bits (199), Expect = 9e-16, Method: Compositional matrix adjust.
Identities = 39/71 (54%), Positives = 52/71 (73%)
Query: 286 FQIFVKTWGGKTITLDVQPYNTVQDVKVKLFDKLQTPLHLQSIVFAGKRLFENHVLARYN 345
QIFVKT GKTITL+V+P +T+++VK K+ DK P Q ++FAGK+L + L+ YN
Sbjct: 1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 346 IQKHSTLHMVL 356
IQK STLH+VL
Sbjct: 61 IQKESTLHLVL 71
Score = 60.8 bits (146), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 34/73 (46%), Positives = 47/73 (64%), Gaps = 2/73 (2%)
Query: 62 MKLFVKIPTNQTATVVEAMPYHTVQNIKTMIQVKEGIQSDQFTLVYDGKLLKEDTATMTS 121
M++FVK T +T T+ E P T++N+K IQ KEGI DQ L++ GK L ED T++
Sbjct: 1 MQIFVKTLTGKTITL-EVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQL-EDGRTLSD 58
Query: 122 MNIKSESIIHLVF 134
NI+ ES +HLV
Sbjct: 59 YNIQKESTLHLVL 71
Score = 52.0 bits (123), Expect = 7e-07, Method: Compositional matrix adjust.
Identities = 28/56 (50%), Positives = 37/56 (66%), Gaps = 1/56 (1%)
Query: 1 MKVKKSEPIKNLKAMIHVKEGISEDICDLFFAGDRLEAGR-LVDYGIRNNSTLHFL 55
++V+ S+ I+N+KA I KEGI D L FAG +LE GR L DY I+ STLH +
Sbjct: 15 LEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLV 70
Score = 47.8 bits (112), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 25/69 (36%), Positives = 39/69 (56%)
Query: 140 LSIFVKAATGEIVNLEVKHSFAIRDVKAIXXXXXXXXXXDHIMIYEGKKLEDSKTLAFYD 199
+ IFVK TG+ + LEV+ S I +VKA +I+ GK+LED +TL+ Y+
Sbjct: 1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 200 MKDECLLEM 208
++ E L +
Sbjct: 61 IQKESTLHL 69
>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 = 81.3 bits (199), Expect = 9e-16, Method: Compositional matrix adjust.
Identities = 39/71 (54%), Positives = 52/71 (73%)
Query: 286 FQIFVKTWGGKTITLDVQPYNTVQDVKVKLFDKLQTPLHLQSIVFAGKRLFENHVLARYN 345
QIFVKT GKTITL+V+P +T+++VK K+ DK P Q ++FAGK+L + L+ YN
Sbjct: 2 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 61
Query: 346 IQKHSTLHMVL 356
IQK STLH+VL
Sbjct: 62 IQKESTLHLVL 72
Score = 60.8 bits (146), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 34/73 (46%), Positives = 47/73 (64%), Gaps = 2/73 (2%)
Query: 62 MKLFVKIPTNQTATVVEAMPYHTVQNIKTMIQVKEGIQSDQFTLVYDGKLLKEDTATMTS 121
M++FVK T +T T+ E P T++N+K IQ KEGI DQ L++ GK L ED T++
Sbjct: 2 MQIFVKTLTGKTITL-EVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQL-EDGRTLSD 59
Query: 122 MNIKSESIIHLVF 134
NI+ ES +HLV
Sbjct: 60 YNIQKESTLHLVL 72
Score = 51.2 bits (121), Expect = 9e-07, Method: Compositional matrix adjust.
Identities = 28/56 (50%), Positives = 37/56 (66%), Gaps = 1/56 (1%)
Query: 1 MKVKKSEPIKNLKAMIHVKEGISEDICDLFFAGDRLEAGR-LVDYGIRNNSTLHFL 55
++V+ S+ I+N+KA I KEGI D L FAG +LE GR L DY I+ STLH +
Sbjct: 16 LEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLV 71
Score = 47.8 bits (112), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 25/69 (36%), Positives = 39/69 (56%)
Query: 140 LSIFVKAATGEIVNLEVKHSFAIRDVKAIXXXXXXXXXXDHIMIYEGKKLEDSKTLAFYD 199
+ IFVK TG+ + LEV+ S I +VKA +I+ GK+LED +TL+ Y+
Sbjct: 2 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 61
Query: 200 MKDECLLEM 208
++ E L +
Sbjct: 62 IQKESTLHL 70
>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 = 81.3 bits (199), Expect = 9e-16, Method: Compositional matrix adjust.
Identities = 39/71 (54%), Positives = 52/71 (73%)
Query: 286 FQIFVKTWGGKTITLDVQPYNTVQDVKVKLFDKLQTPLHLQSIVFAGKRLFENHVLARYN 345
QIFVKT GKTITL+V+P +T+++VK K+ DK P Q ++FAGK+L + L+ YN
Sbjct: 1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 346 IQKHSTLHMVL 356
IQK STLH+VL
Sbjct: 61 IQKESTLHLVL 71
Score = 60.8 bits (146), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 34/73 (46%), Positives = 47/73 (64%), Gaps = 2/73 (2%)
Query: 62 MKLFVKIPTNQTATVVEAMPYHTVQNIKTMIQVKEGIQSDQFTLVYDGKLLKEDTATMTS 121
M++FVK T +T T+ E P T++N+K IQ KEGI DQ L++ GK L ED T++
Sbjct: 1 MQIFVKTLTGKTITL-EVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQL-EDGRTLSD 58
Query: 122 MNIKSESIIHLVF 134
NI+ ES +HLV
Sbjct: 59 YNIQKESTLHLVL 71
Score = 51.6 bits (122), Expect = 9e-07, Method: Compositional matrix adjust.
Identities = 28/56 (50%), Positives = 37/56 (66%), Gaps = 1/56 (1%)
Query: 1 MKVKKSEPIKNLKAMIHVKEGISEDICDLFFAGDRLEAGR-LVDYGIRNNSTLHFL 55
++V+ S+ I+N+KA I KEGI D L FAG +LE GR L DY I+ STLH +
Sbjct: 15 LEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLV 70
Score = 47.4 bits (111), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 25/69 (36%), Positives = 39/69 (56%)
Query: 140 LSIFVKAATGEIVNLEVKHSFAIRDVKAIXXXXXXXXXXDHIMIYEGKKLEDSKTLAFYD 199
+ IFVK TG+ + LEV+ S I +VKA +I+ GK+LED +TL+ Y+
Sbjct: 1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 200 MKDECLLEM 208
++ E L +
Sbjct: 61 IQKESTLHL 69
>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 = 81.3 bits (199), Expect = 9e-16, Method: Compositional matrix adjust.
Identities = 39/71 (54%), Positives = 52/71 (73%)
Query: 286 FQIFVKTWGGKTITLDVQPYNTVQDVKVKLFDKLQTPLHLQSIVFAGKRLFENHVLARYN 345
QIFVKT GKTITL+V+P +T+++VK K+ DK P Q ++FAGK+L + L+ YN
Sbjct: 1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 346 IQKHSTLHMVL 356
IQK STLH+VL
Sbjct: 61 IQKESTLHLVL 71
Score = 60.8 bits (146), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 34/73 (46%), Positives = 47/73 (64%), Gaps = 2/73 (2%)
Query: 62 MKLFVKIPTNQTATVVEAMPYHTVQNIKTMIQVKEGIQSDQFTLVYDGKLLKEDTATMTS 121
M++FVK T +T T+ E P T++N+K IQ KEGI DQ L++ GK L ED T++
Sbjct: 1 MQIFVKTLTGKTITL-EVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQL-EDGRTLSD 58
Query: 122 MNIKSESIIHLVF 134
NI+ ES +HLV
Sbjct: 59 YNIQKESTLHLVL 71
Score = 51.6 bits (122), Expect = 8e-07, Method: Compositional matrix adjust.
Identities = 28/56 (50%), Positives = 37/56 (66%), Gaps = 1/56 (1%)
Query: 1 MKVKKSEPIKNLKAMIHVKEGISEDICDLFFAGDRLEAGR-LVDYGIRNNSTLHFL 55
++V+ S+ I+N+KA I KEGI D L FAG +LE GR L DY I+ STLH +
Sbjct: 15 LEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLV 70
Score = 47.8 bits (112), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 25/69 (36%), Positives = 39/69 (56%)
Query: 140 LSIFVKAATGEIVNLEVKHSFAIRDVKAIXXXXXXXXXXDHIMIYEGKKLEDSKTLAFYD 199
+ IFVK TG+ + LEV+ S I +VKA +I+ GK+LED +TL+ Y+
Sbjct: 1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 200 MKDECLLEM 208
++ E L +
Sbjct: 61 IQKESTLHL 69
>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 = 81.3 bits (199), Expect = 1e-15, Method: Compositional matrix adjust.
Identities = 39/71 (54%), Positives = 52/71 (73%)
Query: 286 FQIFVKTWGGKTITLDVQPYNTVQDVKVKLFDKLQTPLHLQSIVFAGKRLFENHVLARYN 345
QIFVKT GKTITL+V+P +T+++VK K+ DK P Q ++FAGK+L + L+ YN
Sbjct: 1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 346 IQKHSTLHMVL 356
IQK STLH+VL
Sbjct: 61 IQKESTLHLVL 71
Score = 60.5 bits (145), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 34/73 (46%), Positives = 47/73 (64%), Gaps = 2/73 (2%)
Query: 62 MKLFVKIPTNQTATVVEAMPYHTVQNIKTMIQVKEGIQSDQFTLVYDGKLLKEDTATMTS 121
M++FVK T +T T+ E P T++N+K IQ KEGI DQ L++ GK L ED T++
Sbjct: 1 MQIFVKTLTGKTITL-EVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQL-EDGRTLSD 58
Query: 122 MNIKSESIIHLVF 134
NI+ ES +HLV
Sbjct: 59 YNIQKESTLHLVL 71
Score = 52.0 bits (123), Expect = 7e-07, Method: Compositional matrix adjust.
Identities = 28/56 (50%), Positives = 37/56 (66%), Gaps = 1/56 (1%)
Query: 1 MKVKKSEPIKNLKAMIHVKEGISEDICDLFFAGDRLEAGR-LVDYGIRNNSTLHFL 55
++V+ S+ I+N+KA I KEGI D L FAG +LE GR L DY I+ STLH +
Sbjct: 15 LEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLV 70
Score = 47.8 bits (112), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 25/69 (36%), Positives = 39/69 (56%)
Query: 140 LSIFVKAATGEIVNLEVKHSFAIRDVKAIXXXXXXXXXXDHIMIYEGKKLEDSKTLAFYD 199
+ IFVK TG+ + LEV+ S I +VKA +I+ GK+LED +TL+ Y+
Sbjct: 1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 200 MKDECLLEM 208
++ E L +
Sbjct: 61 IQKESTLHL 69
>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 = 81.3 bits (199), Expect = 1e-15, Method: Compositional matrix adjust.
Identities = 39/71 (54%), Positives = 52/71 (73%)
Query: 286 FQIFVKTWGGKTITLDVQPYNTVQDVKVKLFDKLQTPLHLQSIVFAGKRLFENHVLARYN 345
QIFVKT GKTITL+V+P +T+++VK K+ DK P Q ++FAGK+L + L+ YN
Sbjct: 1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 346 IQKHSTLHMVL 356
IQK STLH+VL
Sbjct: 61 IQKESTLHLVL 71
Score = 60.5 bits (145), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 34/73 (46%), Positives = 47/73 (64%), Gaps = 2/73 (2%)
Query: 62 MKLFVKIPTNQTATVVEAMPYHTVQNIKTMIQVKEGIQSDQFTLVYDGKLLKEDTATMTS 121
M++FVK T +T T+ E P T++N+K IQ KEGI DQ L++ GK L ED T++
Sbjct: 1 MQIFVKTLTGKTITL-EVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQL-EDGRTLSD 58
Query: 122 MNIKSESIIHLVF 134
NI+ ES +HLV
Sbjct: 59 YNIQKESTLHLVL 71
Score = 52.0 bits (123), Expect = 7e-07, Method: Compositional matrix adjust.
Identities = 28/56 (50%), Positives = 37/56 (66%), Gaps = 1/56 (1%)
Query: 1 MKVKKSEPIKNLKAMIHVKEGISEDICDLFFAGDRLEAGR-LVDYGIRNNSTLHFL 55
++V+ S+ I+N+KA I KEGI D L FAG +LE GR L DY I+ STLH +
Sbjct: 15 LEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLV 70
Score = 47.8 bits (112), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 25/69 (36%), Positives = 39/69 (56%)
Query: 140 LSIFVKAATGEIVNLEVKHSFAIRDVKAIXXXXXXXXXXDHIMIYEGKKLEDSKTLAFYD 199
+ IFVK TG+ + LEV+ S I +VKA +I+ GK+LED +TL+ Y+
Sbjct: 1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 200 MKDECLLEM 208
++ E L +
Sbjct: 61 IQKESTLHL 69
>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 = 81.3 bits (199), Expect = 1e-15, Method: Compositional matrix adjust.
Identities = 39/70 (55%), Positives = 52/70 (74%)
Query: 287 QIFVKTWGGKTITLDVQPYNTVQDVKVKLFDKLQTPLHLQSIVFAGKRLFENHVLARYNI 346
QIFVKT GKTITL+V+P +T+++VK K+ DK P Q ++FAGK+L + L+ YNI
Sbjct: 2 QIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNI 61
Query: 347 QKHSTLHMVL 356
QK STLH+VL
Sbjct: 62 QKESTLHLVL 71
Score = 58.5 bits (140), Expect = 7e-09, Method: Compositional matrix adjust.
Identities = 33/72 (45%), Positives = 46/72 (63%), Gaps = 2/72 (2%)
Query: 63 KLFVKIPTNQTATVVEAMPYHTVQNIKTMIQVKEGIQSDQFTLVYDGKLLKEDTATMTSM 122
++FVK T +T T+ E P T++N+K IQ KEGI DQ L++ GK L ED T++
Sbjct: 2 QIFVKTLTGKTITL-EVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQL-EDGRTLSDY 59
Query: 123 NIKSESIIHLVF 134
NI+ ES +HLV
Sbjct: 60 NIQKESTLHLVL 71
Score = 51.6 bits (122), Expect = 8e-07, Method: Compositional matrix adjust.
Identities = 28/56 (50%), Positives = 37/56 (66%), Gaps = 1/56 (1%)
Query: 1 MKVKKSEPIKNLKAMIHVKEGISEDICDLFFAGDRLEAGR-LVDYGIRNNSTLHFL 55
++V+ S+ I+N+KA I KEGI D L FAG +LE GR L DY I+ STLH +
Sbjct: 15 LEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLV 70
Score = 47.0 bits (110), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 25/67 (37%), Positives = 38/67 (56%)
Query: 142 IFVKAATGEIVNLEVKHSFAIRDVKAIXXXXXXXXXXDHIMIYEGKKLEDSKTLAFYDMK 201
IFVK TG+ + LEV+ S I +VKA +I+ GK+LED +TL+ Y+++
Sbjct: 3 IFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQ 62
Query: 202 DECLLEM 208
E L +
Sbjct: 63 KESTLHL 69
>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 = 81.3 bits (199), Expect = 1e-15, Method: Compositional matrix adjust.
Identities = 39/71 (54%), Positives = 52/71 (73%)
Query: 286 FQIFVKTWGGKTITLDVQPYNTVQDVKVKLFDKLQTPLHLQSIVFAGKRLFENHVLARYN 345
QIFVKT GKTITL+V+P +T+++VK K+ DK P Q ++FAGK+L + L+ YN
Sbjct: 1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 346 IQKHSTLHMVL 356
IQK STLH+VL
Sbjct: 61 IQKESTLHLVL 71
Score = 60.1 bits (144), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 34/73 (46%), Positives = 47/73 (64%), Gaps = 2/73 (2%)
Query: 62 MKLFVKIPTNQTATVVEAMPYHTVQNIKTMIQVKEGIQSDQFTLVYDGKLLKEDTATMTS 121
M++FVK T +T T+ E P T++N+K IQ KEGI DQ L++ GK L ED T++
Sbjct: 1 MQIFVKTLTGKTITL-EVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQL-EDGRTLSD 58
Query: 122 MNIKSESIIHLVF 134
NI+ ES +HLV
Sbjct: 59 YNIQKESTLHLVL 71
Score = 52.0 bits (123), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 28/56 (50%), Positives = 37/56 (66%), Gaps = 1/56 (1%)
Query: 1 MKVKKSEPIKNLKAMIHVKEGISEDICDLFFAGDRLEAGR-LVDYGIRNNSTLHFL 55
++V+ S+ I+N+KA I KEGI D L FAG +LE GR L DY I+ STLH +
Sbjct: 15 LEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLV 70
Score = 47.8 bits (112), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 25/69 (36%), Positives = 39/69 (56%)
Query: 140 LSIFVKAATGEIVNLEVKHSFAIRDVKAIXXXXXXXXXXDHIMIYEGKKLEDSKTLAFYD 199
+ IFVK TG+ + LEV+ S I +VKA +I+ GK+LED +TL+ Y+
Sbjct: 1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 200 MKDECLLEM 208
++ E L +
Sbjct: 61 IQKESTLHL 69
>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 = 80.5 bits (197), Expect = 2e-15, Method: Compositional matrix adjust.
Identities = 39/73 (53%), Positives = 53/73 (72%)
Query: 284 SPFQIFVKTWGGKTITLDVQPYNTVQDVKVKLFDKLQTPLHLQSIVFAGKRLFENHVLAR 343
S QIFVKT GKTITL+V+P +T+++VK K+ DK P Q ++FAGK+L + L+
Sbjct: 2 SHMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSD 61
Query: 344 YNIQKHSTLHMVL 356
YNIQ+ STLH+VL
Sbjct: 62 YNIQRESTLHLVL 74
Score = 62.0 bits (149), Expect = 6e-10, Method: Compositional matrix adjust.
Identities = 35/75 (46%), Positives = 48/75 (64%), Gaps = 2/75 (2%)
Query: 60 SEMKLFVKIPTNQTATVVEAMPYHTVQNIKTMIQVKEGIQSDQFTLVYDGKLLKEDTATM 119
S M++FVK T +T T+ E P T++N+K IQ KEGI DQ L++ GK L ED T+
Sbjct: 2 SHMQIFVKTLTGKTITL-EVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQL-EDGRTL 59
Query: 120 TSMNIKSESIIHLVF 134
+ NI+ ES +HLV
Sbjct: 60 SDYNIQRESTLHLVL 74
Score = 51.2 bits (121), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 28/56 (50%), Positives = 37/56 (66%), Gaps = 1/56 (1%)
Query: 1 MKVKKSEPIKNLKAMIHVKEGISEDICDLFFAGDRLEAGR-LVDYGIRNNSTLHFL 55
++V+ S+ I+N+KA I KEGI D L FAG +LE GR L DY I+ STLH +
Sbjct: 18 LEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQRESTLHLV 73
Score = 47.4 bits (111), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 25/69 (36%), Positives = 39/69 (56%)
Query: 140 LSIFVKAATGEIVNLEVKHSFAIRDVKAIXXXXXXXXXXDHIMIYEGKKLEDSKTLAFYD 199
+ IFVK TG+ + LEV+ S I +VKA +I+ GK+LED +TL+ Y+
Sbjct: 4 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 63
Query: 200 MKDECLLEM 208
++ E L +
Sbjct: 64 IQRESTLHL 72
Score = 29.6 bits (65), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 19/69 (27%), Positives = 30/69 (43%)
Query: 211 SSIQIFVRTPXXXXXXXXXXXXXXXXDVKEIVANIIDLSLGNQDLFYAGTKLEACKTLAS 270
S +QIFV+T +VK + + + Q L +AG +LE +TL+
Sbjct: 2 SHMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSD 61
Query: 271 YGIKNNYVL 279
Y I+ L
Sbjct: 62 YNIQRESTL 70
>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 = 80.5 bits (197), Expect = 2e-15, Method: Compositional matrix adjust.
Identities = 38/71 (53%), Positives = 52/71 (73%)
Query: 286 FQIFVKTWGGKTITLDVQPYNTVQDVKVKLFDKLQTPLHLQSIVFAGKRLFENHVLARYN 345
QIFVKT GKTITL+V+P +T+++VK K+ DK P Q ++FAGK+L + L+ YN
Sbjct: 1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 346 IQKHSTLHMVL 356
IQ+ STLH+VL
Sbjct: 61 IQRESTLHLVL 71
Score = 60.8 bits (146), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 34/73 (46%), Positives = 47/73 (64%), Gaps = 2/73 (2%)
Query: 62 MKLFVKIPTNQTATVVEAMPYHTVQNIKTMIQVKEGIQSDQFTLVYDGKLLKEDTATMTS 121
M++FVK T +T T+ E P T++N+K IQ KEGI DQ L++ GK L ED T++
Sbjct: 1 MQIFVKTLTGKTITL-EVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQL-EDGRTLSD 58
Query: 122 MNIKSESIIHLVF 134
NI+ ES +HLV
Sbjct: 59 YNIQRESTLHLVL 71
Score = 51.6 bits (122), Expect = 8e-07, Method: Compositional matrix adjust.
Identities = 28/56 (50%), Positives = 37/56 (66%), Gaps = 1/56 (1%)
Query: 1 MKVKKSEPIKNLKAMIHVKEGISEDICDLFFAGDRLEAGR-LVDYGIRNNSTLHFL 55
++V+ S+ I+N+KA I KEGI D L FAG +LE GR L DY I+ STLH +
Sbjct: 15 LEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQRESTLHLV 70
Score = 47.8 bits (112), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 25/69 (36%), Positives = 39/69 (56%)
Query: 140 LSIFVKAATGEIVNLEVKHSFAIRDVKAIXXXXXXXXXXDHIMIYEGKKLEDSKTLAFYD 199
+ IFVK TG+ + LEV+ S I +VKA +I+ GK+LED +TL+ Y+
Sbjct: 1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 200 MKDECLLEM 208
++ E L +
Sbjct: 61 IQRESTLHL 69
>pdb|1ZGU|B Chain B, Solution Structure Of The Human Mms2-Ubiquitin Complex
Length = 76
Score = 80.5 bits (197), Expect = 2e-15, Method: Compositional matrix adjust.
Identities = 38/71 (53%), Positives = 52/71 (73%)
Query: 286 FQIFVKTWGGKTITLDVQPYNTVQDVKVKLFDKLQTPLHLQSIVFAGKRLFENHVLARYN 345
QIFVKT GKTITL+V+P +T+++VK K+ DK P Q ++FAG++L + L+ YN
Sbjct: 1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGRQLEDGRTLSDYN 60
Query: 346 IQKHSTLHMVL 356
IQK STLH+VL
Sbjct: 61 IQKESTLHLVL 71
Score = 60.1 bits (144), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 33/73 (45%), Positives = 47/73 (64%), Gaps = 2/73 (2%)
Query: 62 MKLFVKIPTNQTATVVEAMPYHTVQNIKTMIQVKEGIQSDQFTLVYDGKLLKEDTATMTS 121
M++FVK T +T T+ E P T++N+K IQ KEGI DQ L++ G+ L ED T++
Sbjct: 1 MQIFVKTLTGKTITL-EVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGRQL-EDGRTLSD 58
Query: 122 MNIKSESIIHLVF 134
NI+ ES +HLV
Sbjct: 59 YNIQKESTLHLVL 71
Score = 51.2 bits (121), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 28/56 (50%), Positives = 37/56 (66%), Gaps = 1/56 (1%)
Query: 1 MKVKKSEPIKNLKAMIHVKEGISEDICDLFFAGDRLEAGR-LVDYGIRNNSTLHFL 55
++V+ S+ I+N+KA I KEGI D L FAG +LE GR L DY I+ STLH +
Sbjct: 15 LEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGRQLEDGRTLSDYNIQKESTLHLV 70
Score = 47.0 bits (110), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 24/69 (34%), Positives = 39/69 (56%)
Query: 140 LSIFVKAATGEIVNLEVKHSFAIRDVKAIXXXXXXXXXXDHIMIYEGKKLEDSKTLAFYD 199
+ IFVK TG+ + LEV+ S I +VKA +I+ G++LED +TL+ Y+
Sbjct: 1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGRQLEDGRTLSDYN 60
Query: 200 MKDECLLEM 208
++ E L +
Sbjct: 61 IQKESTLHL 69
>pdb|2OJR|A Chain A, Structure Of Ubiquitin Solved By Sad Using The Lanthanide-
Binding Tag
Length = 111
Score = 80.1 bits (196), Expect = 2e-15, Method: Composition-based stats.
Identities = 39/70 (55%), Positives = 52/70 (74%)
Query: 287 QIFVKTWGGKTITLDVQPYNTVQDVKVKLFDKLQTPLHLQSIVFAGKRLFENHVLARYNI 346
QIFVKT GKTITL+V+P +T+++VK K+ DK P Q ++FAGK+L + L+ YNI
Sbjct: 37 QIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNI 96
Query: 347 QKHSTLHMVL 356
QK STLH+VL
Sbjct: 97 QKESTLHLVL 106
Score = 61.6 bits (148), Expect = 8e-10, Method: Composition-based stats.
Identities = 35/76 (46%), Positives = 48/76 (63%), Gaps = 2/76 (2%)
Query: 59 LSEMKLFVKIPTNQTATVVEAMPYHTVQNIKTMIQVKEGIQSDQFTLVYDGKLLKEDTAT 118
L M++FVK T +T T+ E P T++N+K IQ KEGI DQ L++ GK L ED T
Sbjct: 33 LLAMQIFVKTLTGKTITL-EVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQL-EDGRT 90
Query: 119 MTSMNIKSESIIHLVF 134
++ NI+ ES +HLV
Sbjct: 91 LSDYNIQKESTLHLVL 106
Score = 50.8 bits (120), Expect = 1e-06, Method: Composition-based stats.
Identities = 28/56 (50%), Positives = 37/56 (66%), Gaps = 1/56 (1%)
Query: 1 MKVKKSEPIKNLKAMIHVKEGISEDICDLFFAGDRLEAGR-LVDYGIRNNSTLHFL 55
++V+ S+ I+N+KA I KEGI D L FAG +LE GR L DY I+ STLH +
Sbjct: 50 LEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLV 105
Score = 47.4 bits (111), Expect = 2e-05, Method: Composition-based stats.
Identities = 25/69 (36%), Positives = 39/69 (56%)
Query: 140 LSIFVKAATGEIVNLEVKHSFAIRDVKAIXXXXXXXXXXDHIMIYEGKKLEDSKTLAFYD 199
+ IFVK TG+ + LEV+ S I +VKA +I+ GK+LED +TL+ Y+
Sbjct: 36 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 95
Query: 200 MKDECLLEM 208
++ E L +
Sbjct: 96 IQKESTLHL 104
>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 = 80.1 bits (196), Expect = 2e-15, Method: Composition-based stats.
Identities = 39/70 (55%), Positives = 52/70 (74%)
Query: 287 QIFVKTWGGKTITLDVQPYNTVQDVKVKLFDKLQTPLHLQSIVFAGKRLFENHVLARYNI 346
QIFVKT GKTITL+V+P +T+++VK K+ DK P Q ++FAGK+L + L+ YNI
Sbjct: 10 QIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSEYNI 69
Query: 347 QKHSTLHMVL 356
QK STLH+VL
Sbjct: 70 QKESTLHLVL 79
Score = 60.5 bits (145), Expect = 2e-09, Method: Composition-based stats.
Identities = 34/73 (46%), Positives = 47/73 (64%), Gaps = 2/73 (2%)
Query: 62 MKLFVKIPTNQTATVVEAMPYHTVQNIKTMIQVKEGIQSDQFTLVYDGKLLKEDTATMTS 121
M++FVK T +T T+ E P T++N+K IQ KEGI DQ L++ GK L ED T++
Sbjct: 9 MQIFVKTLTGKTITL-EVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQL-EDGRTLSE 66
Query: 122 MNIKSESIIHLVF 134
NI+ ES +HLV
Sbjct: 67 YNIQKESTLHLVL 79
Score = 48.9 bits (115), Expect = 6e-06, Method: Composition-based stats.
Identities = 26/73 (35%), Positives = 41/73 (56%)
Query: 136 PKEILSIFVKAATGEIVNLEVKHSFAIRDVKAIXXXXXXXXXXDHIMIYEGKKLEDSKTL 195
P+ + IFVK TG+ + LEV+ S I +VKA +I+ GK+LED +TL
Sbjct: 5 PRGSMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTL 64
Query: 196 AFYDMKDECLLEM 208
+ Y+++ E L +
Sbjct: 65 SEYNIQKESTLHL 77
Score = 48.5 bits (114), Expect = 7e-06, Method: Composition-based stats.
Identities = 27/56 (48%), Positives = 37/56 (66%), Gaps = 1/56 (1%)
Query: 1 MKVKKSEPIKNLKAMIHVKEGISEDICDLFFAGDRLEAGR-LVDYGIRNNSTLHFL 55
++V+ S+ I+N+KA I KEGI D L FAG +LE GR L +Y I+ STLH +
Sbjct: 23 LEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSEYNIQKESTLHLV 78
Score = 30.4 bits (67), Expect = 2.1, Method: Composition-based stats.
Identities = 19/71 (26%), Positives = 32/71 (45%)
Query: 212 SIQIFVRTPXXXXXXXXXXXXXXXXDVKEIVANIIDLSLGNQDLFYAGTKLEACKTLASY 271
S+QIFV+T +VK + + + Q L +AG +LE +TL+ Y
Sbjct: 8 SMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSEY 67
Query: 272 GIKNNYVLDVL 282
I+ L ++
Sbjct: 68 NIQKESTLHLV 78
>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 = 79.7 bits (195), Expect = 3e-15, Method: Compositional matrix adjust.
Identities = 39/70 (55%), Positives = 52/70 (74%)
Query: 287 QIFVKTWGGKTITLDVQPYNTVQDVKVKLFDKLQTPLHLQSIVFAGKRLFENHVLARYNI 346
QIFVKT GKTITL+V+P +T+++VK K+ DK P Q ++FAGK+L + L+ YNI
Sbjct: 107 QIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNI 166
Query: 347 QKHSTLHMVL 356
QK STLH+VL
Sbjct: 167 QKESTLHLVL 176
Score = 58.9 bits (141), Expect = 5e-09, Method: Compositional matrix adjust.
Identities = 35/83 (42%), Positives = 49/83 (59%), Gaps = 2/83 (2%)
Query: 63 KLFVKIPTNQTATVVEAMPYHTVQNIKTMIQVKEGIQSDQFTLVYDGKLLKEDTATMTSM 122
++FVK T +T T+ E P T++N+K IQ KEGI DQ L++ GK L ED T++
Sbjct: 107 QIFVKTLTGKTITL-EVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQL-EDGRTLSDY 164
Query: 123 NIKSESIIHLVFCPKEILSIFVK 145
NI+ ES +HLV + F K
Sbjct: 165 NIQKESTLHLVLRLRGGGQTFTK 187
Score = 52.8 bits (125), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 31/69 (44%), Positives = 42/69 (60%), Gaps = 1/69 (1%)
Query: 1 MKVKKSEPIKNLKAMIHVKEGISEDICDLFFAGDRLEAGR-LVDYGIRNNSTLHFLHQNL 59
++V+ S+ I+N+KA I KEGI D L FAG +LE GR L DY I+ STLH + +
Sbjct: 120 LEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLR 179
Query: 60 SEMKLFVKI 68
+ F KI
Sbjct: 180 GGGQTFTKI 188
Score = 46.6 bits (109), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 25/67 (37%), Positives = 38/67 (56%)
Query: 142 IFVKAATGEIVNLEVKHSFAIRDVKAIXXXXXXXXXXDHIMIYEGKKLEDSKTLAFYDMK 201
IFVK TG+ + LEV+ S I +VKA +I+ GK+LED +TL+ Y+++
Sbjct: 108 IFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQ 167
Query: 202 DECLLEM 208
E L +
Sbjct: 168 KESTLHL 174
>pdb|3AI5|A Chain A, Crystal Structure Of Yeast Enhanced Green Fluorescent
Protein- Ubiquitin Fusion Protein
Length = 307
Score = 79.3 bits (194), Expect = 4e-15, Method: Compositional matrix adjust.
Identities = 39/70 (55%), Positives = 52/70 (74%)
Query: 287 QIFVKTWGGKTITLDVQPYNTVQDVKVKLFDKLQTPLHLQSIVFAGKRLFENHVLARYNI 346
QIFVKT GKTITL+V+P +T+++VK K+ DK P Q ++FAGK+L + L+ YNI
Sbjct: 235 QIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNI 294
Query: 347 QKHSTLHMVL 356
QK STLH+VL
Sbjct: 295 QKESTLHLVL 304
Score = 60.1 bits (144), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 34/75 (45%), Positives = 47/75 (62%), Gaps = 2/75 (2%)
Query: 60 SEMKLFVKIPTNQTATVVEAMPYHTVQNIKTMIQVKEGIQSDQFTLVYDGKLLKEDTATM 119
M++FVK T +T T+ E P T++N+K IQ KEGI DQ L++ GK L ED T+
Sbjct: 232 GSMQIFVKTLTGKTITL-EVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQL-EDGRTL 289
Query: 120 TSMNIKSESIIHLVF 134
+ NI+ ES +HLV
Sbjct: 290 SDYNIQKESTLHLVL 304
Score = 50.4 bits (119), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 28/56 (50%), Positives = 37/56 (66%), Gaps = 1/56 (1%)
Query: 1 MKVKKSEPIKNLKAMIHVKEGISEDICDLFFAGDRLEAGR-LVDYGIRNNSTLHFL 55
++V+ S+ I+N+KA I KEGI D L FAG +LE GR L DY I+ STLH +
Sbjct: 248 LEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLV 303
Score = 49.3 bits (116), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 49/193 (25%), Positives = 87/193 (45%), Gaps = 20/193 (10%)
Query: 31 FAGD----RLEAGRLVDYGIRNNSTLHFLHQNLSEMKLFVKIPTNQTATVVEAMPYHTVQ 86
F GD R+E + +D+ N H L N + +++ + V H ++
Sbjct: 115 FEGDTLVNRIEL-KGIDFKEDGNILGHKLEYNYNSHNVYIMADKQKNGIKVNFKIRHNIE 173
Query: 87 NIKTMIQVKEGIQSDQFTLVYDGKLLKEDTATMTSM-------NIKSESIIHLVFCPKEI 139
+ +Q+ + Q Q T + DG +L D +++ N K + ++ L F
Sbjct: 174 D--GSVQLADHYQ--QNTPIGDGPVLLPDNHYLSTQSALSKDPNEKRDHMVLLEFVTAAG 229
Query: 140 LS----IFVKAATGEIVNLEVKHSFAIRDVKAIXXXXXXXXXXDHIMIYEGKKLEDSKTL 195
++ IFVK TG+ + LEV+ S I +VKA +I+ GK+LED +TL
Sbjct: 230 ITGSMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTL 289
Query: 196 AFYDMKDECLLEM 208
+ Y+++ E L +
Sbjct: 290 SDYNIQKESTLHL 302
Score = 29.6 bits (65), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 19/69 (27%), Positives = 30/69 (43%)
Query: 211 SSIQIFVRTPXXXXXXXXXXXXXXXXDVKEIVANIIDLSLGNQDLFYAGTKLEACKTLAS 270
S+QIFV+T +VK + + + Q L +AG +LE +TL+
Sbjct: 232 GSMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSD 291
Query: 271 YGIKNNYVL 279
Y I+ L
Sbjct: 292 YNIQKESTL 300
>pdb|4HCN|B Chain B, Crystal Structure Of Burkholderia Pseudomallei Effector
Protein Chbp In Complex With Ubiquitin
Length = 98
Score = 79.0 bits (193), Expect = 5e-15, Method: Compositional matrix adjust.
Identities = 39/72 (54%), Positives = 51/72 (70%)
Query: 285 PFQIFVKTWGGKTITLDVQPYNTVQDVKVKLFDKLQTPLHLQSIVFAGKRLFENHVLARY 344
P QIFVKT GKTITL+V+ +T+ +VK K+ DK P Q ++FAGK+L + L+ Y
Sbjct: 22 PMQIFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDY 81
Query: 345 NIQKHSTLHMVL 356
NIQK STLH+VL
Sbjct: 82 NIQKESTLHLVL 93
Score = 56.6 bits (135), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 33/73 (45%), Positives = 46/73 (63%), Gaps = 2/73 (2%)
Query: 62 MKLFVKIPTNQTATVVEAMPYHTVQNIKTMIQVKEGIQSDQFTLVYDGKLLKEDTATMTS 121
M++FVK T +T T+ E T+ N+K+ IQ KEGI DQ L++ GK L ED T++
Sbjct: 23 MQIFVKTLTGKTITL-EVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQL-EDGRTLSD 80
Query: 122 MNIKSESIIHLVF 134
NI+ ES +HLV
Sbjct: 81 YNIQKESTLHLVL 93
Score = 49.3 bits (116), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 27/56 (48%), Positives = 36/56 (64%), Gaps = 1/56 (1%)
Query: 1 MKVKKSEPIKNLKAMIHVKEGISEDICDLFFAGDRLEAGR-LVDYGIRNNSTLHFL 55
++V+ S+ I N+K+ I KEGI D L FAG +LE GR L DY I+ STLH +
Sbjct: 37 LEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLV 92
Score = 46.2 bits (108), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 24/69 (34%), Positives = 39/69 (56%)
Query: 140 LSIFVKAATGEIVNLEVKHSFAIRDVKAIXXXXXXXXXXDHIMIYEGKKLEDSKTLAFYD 199
+ IFVK TG+ + LEV+ S I +VK+ +I+ GK+LED +TL+ Y+
Sbjct: 23 MQIFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 82
Query: 200 MKDECLLEM 208
++ E L +
Sbjct: 83 IQKESTLHL 91
>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 = 79.0 bits (193), Expect = 5e-15, Method: Compositional matrix adjust.
Identities = 38/71 (53%), Positives = 51/71 (71%)
Query: 286 FQIFVKTWGGKTITLDVQPYNTVQDVKVKLFDKLQTPLHLQSIVFAGKRLFENHVLARYN 345
QIFVKT GKTITL+V+P +T+++VK K+ DK Q ++FAGK+L + L+ YN
Sbjct: 1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIAADQQRLIFAGKQLEDGRTLSDYN 60
Query: 346 IQKHSTLHMVL 356
IQK STLH+VL
Sbjct: 61 IQKESTLHLVL 71
Score = 62.0 bits (149), Expect = 6e-10, Method: Compositional matrix adjust.
Identities = 34/73 (46%), Positives = 48/73 (65%), Gaps = 2/73 (2%)
Query: 62 MKLFVKIPTNQTATVVEAMPYHTVQNIKTMIQVKEGIQSDQFTLVYDGKLLKEDTATMTS 121
M++FVK T +T T+ E P T++N+K IQ KEGI +DQ L++ GK L ED T++
Sbjct: 1 MQIFVKTLTGKTITL-EVEPSDTIENVKAKIQDKEGIAADQQRLIFAGKQL-EDGRTLSD 58
Query: 122 MNIKSESIIHLVF 134
NI+ ES +HLV
Sbjct: 59 YNIQKESTLHLVL 71
Score = 52.4 bits (124), Expect = 5e-07, Method: Compositional matrix adjust.
Identities = 28/56 (50%), Positives = 38/56 (67%), Gaps = 1/56 (1%)
Query: 1 MKVKKSEPIKNLKAMIHVKEGISEDICDLFFAGDRLEAGR-LVDYGIRNNSTLHFL 55
++V+ S+ I+N+KA I KEGI+ D L FAG +LE GR L DY I+ STLH +
Sbjct: 15 LEVEPSDTIENVKAKIQDKEGIAADQQRLIFAGKQLEDGRTLSDYNIQKESTLHLV 70
Score = 47.8 bits (112), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 25/69 (36%), Positives = 39/69 (56%)
Query: 140 LSIFVKAATGEIVNLEVKHSFAIRDVKAIXXXXXXXXXXDHIMIYEGKKLEDSKTLAFYD 199
+ IFVK TG+ + LEV+ S I +VKA +I+ GK+LED +TL+ Y+
Sbjct: 1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIAADQQRLIFAGKQLEDGRTLSDYN 60
Query: 200 MKDECLLEM 208
++ E L +
Sbjct: 61 IQKESTLHL 69
Score = 29.3 bits (64), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 18/67 (26%), Positives = 30/67 (44%)
Query: 213 IQIFVRTPXXXXXXXXXXXXXXXXDVKEIVANIIDLSLGNQDLFYAGTKLEACKTLASYG 272
+QIFV+T +VK + + ++ Q L +AG +LE +TL+ Y
Sbjct: 1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIAADQQRLIFAGKQLEDGRTLSDYN 60
Query: 273 IKNNYVL 279
I+ L
Sbjct: 61 IQKESTL 67
>pdb|3K9O|B Chain B, The Crystal Structure Of E2-25k And Ubb+1 Complex
Length = 96
Score = 78.6 bits (192), Expect = 6e-15, Method: Composition-based stats.
Identities = 39/70 (55%), Positives = 52/70 (74%)
Query: 287 QIFVKTWGGKTITLDVQPYNTVQDVKVKLFDKLQTPLHLQSIVFAGKRLFENHVLARYNI 346
QIFVKT GKTITL+V+P +T+++VK K+ DK P Q ++FAGK+L + L+ YNI
Sbjct: 3 QIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNI 62
Query: 347 QKHSTLHMVL 356
QK STLH+VL
Sbjct: 63 QKESTLHLVL 72
Score = 60.1 bits (144), Expect = 2e-09, Method: Composition-based stats.
Identities = 34/73 (46%), Positives = 47/73 (64%), Gaps = 2/73 (2%)
Query: 62 MKLFVKIPTNQTATVVEAMPYHTVQNIKTMIQVKEGIQSDQFTLVYDGKLLKEDTATMTS 121
M++FVK T +T T+ E P T++N+K IQ KEGI DQ L++ GK L ED T++
Sbjct: 2 MQIFVKTLTGKTITL-EVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQL-EDGRTLSD 59
Query: 122 MNIKSESIIHLVF 134
NI+ ES +HLV
Sbjct: 60 YNIQKESTLHLVL 72
Score = 49.7 bits (117), Expect = 3e-06, Method: Composition-based stats.
Identities = 28/56 (50%), Positives = 37/56 (66%), Gaps = 1/56 (1%)
Query: 1 MKVKKSEPIKNLKAMIHVKEGISEDICDLFFAGDRLEAGR-LVDYGIRNNSTLHFL 55
++V+ S+ I+N+KA I KEGI D L FAG +LE GR L DY I+ STLH +
Sbjct: 16 LEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLV 71
Score = 46.2 bits (108), Expect = 3e-05, Method: Composition-based stats.
Identities = 25/69 (36%), Positives = 39/69 (56%)
Query: 140 LSIFVKAATGEIVNLEVKHSFAIRDVKAIXXXXXXXXXXDHIMIYEGKKLEDSKTLAFYD 199
+ IFVK TG+ + LEV+ S I +VKA +I+ GK+LED +TL+ Y+
Sbjct: 2 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 61
Query: 200 MKDECLLEM 208
++ E L +
Sbjct: 62 IQKESTLHL 70
>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 = 78.6 bits (192), Expect = 7e-15, Method: Composition-based stats.
Identities = 39/70 (55%), Positives = 52/70 (74%)
Query: 287 QIFVKTWGGKTITLDVQPYNTVQDVKVKLFDKLQTPLHLQSIVFAGKRLFENHVLARYNI 346
QIFVKT GKTITL+V+P +T+++VK K+ DK P Q ++FAGK+L + L+ YNI
Sbjct: 37 QIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNI 96
Query: 347 QKHSTLHMVL 356
QK STLH+VL
Sbjct: 97 QKESTLHLVL 106
Score = 60.1 bits (144), Expect = 2e-09, Method: Composition-based stats.
Identities = 35/76 (46%), Positives = 48/76 (63%), Gaps = 2/76 (2%)
Query: 59 LSEMKLFVKIPTNQTATVVEAMPYHTVQNIKTMIQVKEGIQSDQFTLVYDGKLLKEDTAT 118
L M++FVK T +T T+ E P T++N+K IQ KEGI DQ L++ GK L ED T
Sbjct: 33 LLAMQIFVKTLTGKTITL-EVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQL-EDGRT 90
Query: 119 MTSMNIKSESIIHLVF 134
++ NI+ ES +HLV
Sbjct: 91 LSDYNIQKESTLHLVL 106
Score = 49.7 bits (117), Expect = 3e-06, Method: Composition-based stats.
Identities = 28/56 (50%), Positives = 37/56 (66%), Gaps = 1/56 (1%)
Query: 1 MKVKKSEPIKNLKAMIHVKEGISEDICDLFFAGDRLEAGR-LVDYGIRNNSTLHFL 55
++V+ S+ I+N+KA I KEGI D L FAG +LE GR L DY I+ STLH +
Sbjct: 50 LEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLV 105
Score = 46.2 bits (108), Expect = 3e-05, Method: Composition-based stats.
Identities = 25/69 (36%), Positives = 39/69 (56%)
Query: 140 LSIFVKAATGEIVNLEVKHSFAIRDVKAIXXXXXXXXXXDHIMIYEGKKLEDSKTLAFYD 199
+ IFVK TG+ + LEV+ S I +VKA +I+ GK+LED +TL+ Y+
Sbjct: 36 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 95
Query: 200 MKDECLLEM 208
++ E L +
Sbjct: 96 IQKESTLHL 104
>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 = 78.2 bits (191), Expect = 8e-15, Method: Compositional matrix adjust.
Identities = 37/71 (52%), Positives = 51/71 (71%)
Query: 286 FQIFVKTWGGKTITLDVQPYNTVQDVKVKLFDKLQTPLHLQSIVFAGKRLFENHVLARYN 345
QIFVKT GKTITL+V+P +T+++VK K+ DK P Q ++FAG +L + L+ YN
Sbjct: 1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGXQLEDGRTLSDYN 60
Query: 346 IQKHSTLHMVL 356
IQ+ STLH+VL
Sbjct: 61 IQRESTLHLVL 71
Score = 58.5 bits (140), Expect = 7e-09, Method: Compositional matrix adjust.
Identities = 33/73 (45%), Positives = 46/73 (63%), Gaps = 2/73 (2%)
Query: 62 MKLFVKIPTNQTATVVEAMPYHTVQNIKTMIQVKEGIQSDQFTLVYDGKLLKEDTATMTS 121
M++FVK T +T T+ E P T++N+K IQ KEGI DQ L++ G L ED T++
Sbjct: 1 MQIFVKTLTGKTITL-EVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGXQL-EDGRTLSD 58
Query: 122 MNIKSESIIHLVF 134
NI+ ES +HLV
Sbjct: 59 YNIQRESTLHLVL 71
Score = 51.6 bits (122), Expect = 9e-07, Method: Compositional matrix adjust.
Identities = 28/56 (50%), Positives = 37/56 (66%), Gaps = 1/56 (1%)
Query: 1 MKVKKSEPIKNLKAMIHVKEGISEDICDLFFAGDRLEAGR-LVDYGIRNNSTLHFL 55
++V+ S+ I+N+KA I KEGI D L FAG +LE GR L DY I+ STLH +
Sbjct: 15 LEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGXQLEDGRTLSDYNIQRESTLHLV 70
Score = 45.4 bits (106), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 24/69 (34%), Positives = 38/69 (55%)
Query: 140 LSIFVKAATGEIVNLEVKHSFAIRDVKAIXXXXXXXXXXDHIMIYEGKKLEDSKTLAFYD 199
+ IFVK TG+ + LEV+ S I +VKA +I+ G +LED +TL+ Y+
Sbjct: 1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGXQLEDGRTLSDYN 60
Query: 200 MKDECLLEM 208
++ E L +
Sbjct: 61 IQRESTLHL 69
>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 = 78.2 bits (191), Expect = 8e-15, Method: Composition-based stats.
Identities = 39/70 (55%), Positives = 51/70 (72%)
Query: 287 QIFVKTWGGKTITLDVQPYNTVQDVKVKLFDKLQTPLHLQSIVFAGKRLFENHVLARYNI 346
QIFVKT GKTITLDV+ +T+++VK K+ DK P Q ++FAGK+L + L+ YNI
Sbjct: 2 QIFVKTLTGKTITLDVEASDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNI 61
Query: 347 QKHSTLHMVL 356
QK STLH+VL
Sbjct: 62 QKESTLHLVL 71
Score = 57.0 bits (136), Expect = 2e-08, Method: Composition-based stats.
Identities = 35/74 (47%), Positives = 48/74 (64%), Gaps = 4/74 (5%)
Query: 62 MKLFVKIPTNQTATV-VEAMPYHTVQNIKTMIQVKEGIQSDQFTLVYDGKLLKEDTATMT 120
M++FVK T +T T+ VEA T++N+K IQ KEGI DQ L++ GK L ED T++
Sbjct: 1 MQIFVKTLTGKTITLDVEAS--DTIENVKAKIQDKEGIPPDQQRLIFAGKQL-EDGRTLS 57
Query: 121 SMNIKSESIIHLVF 134
NI+ ES +HLV
Sbjct: 58 DYNIQKESTLHLVL 71
Score = 50.1 bits (118), Expect = 3e-06, Method: Composition-based stats.
Identities = 28/56 (50%), Positives = 36/56 (64%), Gaps = 1/56 (1%)
Query: 1 MKVKKSEPIKNLKAMIHVKEGISEDICDLFFAGDRLEAGR-LVDYGIRNNSTLHFL 55
+ V+ S+ I+N+KA I KEGI D L FAG +LE GR L DY I+ STLH +
Sbjct: 15 LDVEASDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLV 70
Score = 45.8 bits (107), Expect = 5e-05, Method: Composition-based stats.
Identities = 24/69 (34%), Positives = 39/69 (56%)
Query: 140 LSIFVKAATGEIVNLEVKHSFAIRDVKAIXXXXXXXXXXDHIMIYEGKKLEDSKTLAFYD 199
+ IFVK TG+ + L+V+ S I +VKA +I+ GK+LED +TL+ Y+
Sbjct: 1 MQIFVKTLTGKTITLDVEASDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 200 MKDECLLEM 208
++ E L +
Sbjct: 61 IQKESTLHL 69
>pdb|3ZF7|SS Chain s, High-resolution Cryo-electron Microscopy Structure Of The
Trypanosoma Brucei Ribosome
Length = 128
Score = 78.2 bits (191), Expect = 8e-15, Method: Composition-based stats.
Identities = 40/78 (51%), Positives = 53/78 (67%)
Query: 287 QIFVKTWGGKTITLDVQPYNTVQDVKVKLFDKLQTPLHLQSIVFAGKRLFENHVLARYNI 346
QIFVKT GKTI L+V+ +T+++VK K+ DK P Q ++FAGK+L E LA YNI
Sbjct: 2 QIFVKTLTGKTIALEVEASDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEEGRTLADYNI 61
Query: 347 QKHSTLHMVLAPSSRIIE 364
QK STLH+VL ++E
Sbjct: 62 QKESTLHLVLRLRGGVME 79
Score = 53.9 bits (128), Expect = 1e-07, Method: Composition-based stats.
Identities = 31/73 (42%), Positives = 44/73 (60%), Gaps = 2/73 (2%)
Query: 62 MKLFVKIPTNQTATVVEAMPYHTVQNIKTMIQVKEGIQSDQFTLVYDGKLLKEDTATMTS 121
M++FVK T +T +E T++N+K IQ KEGI DQ L++ GK L E+ T+
Sbjct: 1 MQIFVKTLTGKT-IALEVEASDTIENVKAKIQDKEGIPPDQQRLIFAGKQL-EEGRTLAD 58
Query: 122 MNIKSESIIHLVF 134
NI+ ES +HLV
Sbjct: 59 YNIQKESTLHLVL 71
Score = 52.0 bits (123), Expect = 6e-07, Method: Composition-based stats.
Identities = 28/56 (50%), Positives = 37/56 (66%), Gaps = 1/56 (1%)
Query: 1 MKVKKSEPIKNLKAMIHVKEGISEDICDLFFAGDRLEAGR-LVDYGIRNNSTLHFL 55
++V+ S+ I+N+KA I KEGI D L FAG +LE GR L DY I+ STLH +
Sbjct: 15 LEVEASDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEEGRTLADYNIQKESTLHLV 70
Score = 46.2 bits (108), Expect = 3e-05, Method: Composition-based stats.
Identities = 25/69 (36%), Positives = 39/69 (56%)
Query: 140 LSIFVKAATGEIVNLEVKHSFAIRDVKAIXXXXXXXXXXDHIMIYEGKKLEDSKTLAFYD 199
+ IFVK TG+ + LEV+ S I +VKA +I+ GK+LE+ +TLA Y+
Sbjct: 1 MQIFVKTLTGKTIALEVEASDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEEGRTLADYN 60
Query: 200 MKDECLLEM 208
++ E L +
Sbjct: 61 IQKESTLHL 69
Score = 30.8 bits (68), Expect = 1.4, Method: Composition-based stats.
Identities = 19/70 (27%), Positives = 31/70 (44%)
Query: 213 IQIFVRTPXXXXXXXXXXXXXXXXDVKEIVANIIDLSLGNQDLFYAGTKLEACKTLASYG 272
+QIFV+T +VK + + + Q L +AG +LE +TLA Y
Sbjct: 1 MQIFVKTLTGKTIALEVEASDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEEGRTLADYN 60
Query: 273 IKNNYVLDVL 282
I+ L ++
Sbjct: 61 IQKESTLHLV 70
>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 = 77.8 bits (190), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 40/78 (51%), Positives = 53/78 (67%), Gaps = 7/78 (8%)
Query: 286 FQIFVKTW-------GGKTITLDVQPYNTVQDVKVKLFDKLQTPLHLQSIVFAGKRLFEN 338
QIFVKT GGKTITL+V+P +T+++VK K+ DK P Q ++FAGK+L +
Sbjct: 1 MQIFVKTLTQVRELVGGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDG 60
Query: 339 HVLARYNIQKHSTLHMVL 356
L+ YNIQK STLH+VL
Sbjct: 61 RTLSDYNIQKESTLHLVL 78
Score = 54.3 bits (129), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 33/79 (41%), Positives = 45/79 (56%), Gaps = 7/79 (8%)
Query: 62 MKLFVKIPTNQTATV------VEAMPYHTVQNIKTMIQVKEGIQSDQFTLVYDGKLLKED 115
M++FVK T V +E P T++N+K IQ KEGI DQ L++ GK L ED
Sbjct: 1 MQIFVKTLTQVRELVGGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQL-ED 59
Query: 116 TATMTSMNIKSESIIHLVF 134
T++ NI+ ES +HLV
Sbjct: 60 GRTLSDYNIQKESTLHLVL 78
Score = 51.6 bits (122), Expect = 8e-07, Method: Compositional matrix adjust.
Identities = 28/56 (50%), Positives = 37/56 (66%), Gaps = 1/56 (1%)
Query: 1 MKVKKSEPIKNLKAMIHVKEGISEDICDLFFAGDRLEAGR-LVDYGIRNNSTLHFL 55
++V+ S+ I+N+KA I KEGI D L FAG +LE GR L DY I+ STLH +
Sbjct: 22 LEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLV 77
Score = 40.8 bits (94), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 25/76 (32%), Positives = 39/76 (51%), Gaps = 7/76 (9%)
Query: 140 LSIFVKAAT-------GEIVNLEVKHSFAIRDVKAIXXXXXXXXXXDHIMIYEGKKLEDS 192
+ IFVK T G+ + LEV+ S I +VKA +I+ GK+LED
Sbjct: 1 MQIFVKTLTQVRELVGGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDG 60
Query: 193 KTLAFYDMKDECLLEM 208
+TL+ Y+++ E L +
Sbjct: 61 RTLSDYNIQKESTLHL 76
>pdb|3V6E|B Chain B, Crystal Structure Of Usp2 And A Mutant Form Of Ubiquitin
Length = 91
Score = 77.4 bits (189), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 37/71 (52%), Positives = 50/71 (70%)
Query: 286 FQIFVKTWGGKTITLDVQPYNTVQDVKVKLFDKLQTPLHLQSIVFAGKRLFENHVLARYN 345
QIFV T GK ITL+V+P +T+++VK K+ DK P Q ++FAGK+L + L+ YN
Sbjct: 18 MQIFVNTLSGKHITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 77
Query: 346 IQKHSTLHMVL 356
IQK STLH+VL
Sbjct: 78 IQKESTLHLVL 88
Score = 55.1 bits (131), Expect = 8e-08, Method: Compositional matrix adjust.
Identities = 31/73 (42%), Positives = 45/73 (61%), Gaps = 2/73 (2%)
Query: 62 MKLFVKIPTNQTATVVEAMPYHTVQNIKTMIQVKEGIQSDQFTLVYDGKLLKEDTATMTS 121
M++FV + + T+ E P T++N+K IQ KEGI DQ L++ GK L ED T++
Sbjct: 18 MQIFVNTLSGKHITL-EVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQL-EDGRTLSD 75
Query: 122 MNIKSESIIHLVF 134
NI+ ES +HLV
Sbjct: 76 YNIQKESTLHLVL 88
Score = 51.6 bits (122), Expect = 9e-07, Method: Compositional matrix adjust.
Identities = 28/56 (50%), Positives = 37/56 (66%), Gaps = 1/56 (1%)
Query: 1 MKVKKSEPIKNLKAMIHVKEGISEDICDLFFAGDRLEAGR-LVDYGIRNNSTLHFL 55
++V+ S+ I+N+KA I KEGI D L FAG +LE GR L DY I+ STLH +
Sbjct: 32 LEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLV 87
Score = 46.6 bits (109), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 24/75 (32%), Positives = 40/75 (53%)
Query: 134 FCPKEILSIFVKAATGEIVNLEVKHSFAIRDVKAIXXXXXXXXXXDHIMIYEGKKLEDSK 193
P+ + IFV +G+ + LEV+ S I +VKA +I+ GK+LED +
Sbjct: 12 LVPRGSMQIFVNTLSGKHITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGR 71
Query: 194 TLAFYDMKDECLLEM 208
TL+ Y+++ E L +
Sbjct: 72 TLSDYNIQKESTLHL 86
>pdb|1OGW|A Chain A, Synthetic Ubiquitin With Fluoro-Leu At 50 And 67
Length = 76
Score = 77.4 bits (189), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 37/71 (52%), Positives = 50/71 (70%)
Query: 286 FQIFVKTWGGKTITLDVQPYNTVQDVKVKLFDKLQTPLHLQSIVFAGKRLFENHVLARYN 345
QIFVKT GKTITL+V+P +T+++VK K+ DK P Q ++FAGK+ + L+ YN
Sbjct: 1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQXEDGRTLSDYN 60
Query: 346 IQKHSTLHMVL 356
IQK ST H+VL
Sbjct: 61 IQKESTXHLVL 71
Score = 57.8 bits (138), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 33/73 (45%), Positives = 45/73 (61%), Gaps = 2/73 (2%)
Query: 62 MKLFVKIPTNQTATVVEAMPYHTVQNIKTMIQVKEGIQSDQFTLVYDGKLLKEDTATMTS 121
M++FVK T +T T+ E P T++N+K IQ KEGI DQ L++ GK ED T++
Sbjct: 1 MQIFVKTLTGKTITL-EVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQX-EDGRTLSD 58
Query: 122 MNIKSESIIHLVF 134
NI+ ES HLV
Sbjct: 59 YNIQKESTXHLVL 71
Score = 47.8 bits (112), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 26/56 (46%), Positives = 35/56 (62%), Gaps = 1/56 (1%)
Query: 1 MKVKKSEPIKNLKAMIHVKEGISEDICDLFFAGDRLEAGR-LVDYGIRNNSTLHFL 55
++V+ S+ I+N+KA I KEGI D L FAG + E GR L DY I+ ST H +
Sbjct: 15 LEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQXEDGRTLSDYNIQKESTXHLV 70
Score = 44.3 bits (103), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 23/65 (35%), Positives = 36/65 (55%)
Query: 140 LSIFVKAATGEIVNLEVKHSFAIRDVKAIXXXXXXXXXXDHIMIYEGKKLEDSKTLAFYD 199
+ IFVK TG+ + LEV+ S I +VKA +I+ GK+ ED +TL+ Y+
Sbjct: 1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQXEDGRTLSDYN 60
Query: 200 MKDEC 204
++ E
Sbjct: 61 IQKES 65
>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 = 77.0 bits (188), Expect = 2e-14, Method: Composition-based stats.
Identities = 41/78 (52%), Positives = 53/78 (67%)
Query: 287 QIFVKTWGGKTITLDVQPYNTVQDVKVKLFDKLQTPLHLQSIVFAGKRLFENHVLARYNI 346
QIFVKT GKTITL+V+ +T+ +VK K+ DK P Q ++FAGK+L + L+ YNI
Sbjct: 2 QIFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNI 61
Query: 347 QKHSTLHMVLAPSSRIIE 364
QK STLH+VL IIE
Sbjct: 62 QKESTLHLVLRLRGGIIE 79
Score = 57.0 bits (136), Expect = 2e-08, Method: Composition-based stats.
Identities = 33/73 (45%), Positives = 46/73 (63%), Gaps = 2/73 (2%)
Query: 62 MKLFVKIPTNQTATVVEAMPYHTVQNIKTMIQVKEGIQSDQFTLVYDGKLLKEDTATMTS 121
M++FVK T +T T+ E T+ N+K+ IQ KEGI DQ L++ GK L ED T++
Sbjct: 1 MQIFVKTLTGKTITL-EVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQL-EDGRTLSD 58
Query: 122 MNIKSESIIHLVF 134
NI+ ES +HLV
Sbjct: 59 YNIQKESTLHLVL 71
Score = 48.9 bits (115), Expect = 5e-06, Method: Composition-based stats.
Identities = 27/56 (48%), Positives = 36/56 (64%), Gaps = 1/56 (1%)
Query: 1 MKVKKSEPIKNLKAMIHVKEGISEDICDLFFAGDRLEAGR-LVDYGIRNNSTLHFL 55
++V+ S+ I N+K+ I KEGI D L FAG +LE GR L DY I+ STLH +
Sbjct: 15 LEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLV 70
Score = 45.4 bits (106), Expect = 5e-05, Method: Composition-based stats.
Identities = 24/69 (34%), Positives = 39/69 (56%)
Query: 140 LSIFVKAATGEIVNLEVKHSFAIRDVKAIXXXXXXXXXXDHIMIYEGKKLEDSKTLAFYD 199
+ IFVK TG+ + LEV+ S I +VK+ +I+ GK+LED +TL+ Y+
Sbjct: 1 MQIFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 200 MKDECLLEM 208
++ E L +
Sbjct: 61 IQKESTLHL 69
>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 = 77.0 bits (188), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 39/72 (54%), Positives = 52/72 (72%), Gaps = 1/72 (1%)
Query: 286 FQIFVKTWGGKTITLDVQPYNTVQDVKVKLFDKLQTPLHLQSIVFAGKRLFENHVLARYN 345
QIFVKT GKTITL+V+P +T+++VK K+ DK P Q ++FAGK+L + L+ YN
Sbjct: 1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 346 IQKH-STLHMVL 356
IQK STLH+VL
Sbjct: 61 IQKRESTLHLVL 72
Score = 57.4 bits (137), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 35/74 (47%), Positives = 47/74 (63%), Gaps = 3/74 (4%)
Query: 62 MKLFVKIPTNQTATVVEAMPYHTVQNIKTMIQVKEGIQSDQFTLVYDGKLLKEDTATMTS 121
M++FVK T +T T+ E P T++N+K IQ KEGI DQ L++ GK L ED T++
Sbjct: 1 MQIFVKTLTGKTITL-EVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQL-EDGRTLSD 58
Query: 122 MNI-KSESIIHLVF 134
NI K ES +HLV
Sbjct: 59 YNIQKRESTLHLVL 72
Score = 47.8 bits (112), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 28/57 (49%), Positives = 37/57 (64%), Gaps = 2/57 (3%)
Query: 1 MKVKKSEPIKNLKAMIHVKEGISEDICDLFFAGDRLEAGR-LVDYGI-RNNSTLHFL 55
++V+ S+ I+N+KA I KEGI D L FAG +LE GR L DY I + STLH +
Sbjct: 15 LEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKRESTLHLV 71
Score = 44.7 bits (104), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 23/62 (37%), Positives = 36/62 (58%)
Query: 140 LSIFVKAATGEIVNLEVKHSFAIRDVKAIXXXXXXXXXXDHIMIYEGKKLEDSKTLAFYD 199
+ IFVK TG+ + LEV+ S I +VKA +I+ GK+LED +TL+ Y+
Sbjct: 1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 200 MK 201
++
Sbjct: 61 IQ 62
>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 = 76.6 bits (187), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 38/71 (53%), Positives = 50/71 (70%)
Query: 286 FQIFVKTWGGKTITLDVQPYNTVQDVKVKLFDKLQTPLHLQSIVFAGKRLFENHVLARYN 345
QIFVKT GKTITL+V+ +T+ +VK K+ DK P Q ++FAGK+L + L+ YN
Sbjct: 4 MQIFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 63
Query: 346 IQKHSTLHMVL 356
IQK STLH+VL
Sbjct: 64 IQKESTLHLVL 74
Score = 57.0 bits (136), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 33/73 (45%), Positives = 46/73 (63%), Gaps = 2/73 (2%)
Query: 62 MKLFVKIPTNQTATVVEAMPYHTVQNIKTMIQVKEGIQSDQFTLVYDGKLLKEDTATMTS 121
M++FVK T +T T+ E T+ N+K+ IQ KEGI DQ L++ GK L ED T++
Sbjct: 4 MQIFVKTLTGKTITL-EVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQL-EDGRTLSD 61
Query: 122 MNIKSESIIHLVF 134
NI+ ES +HLV
Sbjct: 62 YNIQKESTLHLVL 74
Score = 50.1 bits (118), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 27/56 (48%), Positives = 36/56 (64%), Gaps = 1/56 (1%)
Query: 1 MKVKKSEPIKNLKAMIHVKEGISEDICDLFFAGDRLEAGR-LVDYGIRNNSTLHFL 55
++V+ S+ I N+K+ I KEGI D L FAG +LE GR L DY I+ STLH +
Sbjct: 18 LEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLV 73
Score = 46.2 bits (108), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 24/69 (34%), Positives = 39/69 (56%)
Query: 140 LSIFVKAATGEIVNLEVKHSFAIRDVKAIXXXXXXXXXXDHIMIYEGKKLEDSKTLAFYD 199
+ IFVK TG+ + LEV+ S I +VK+ +I+ GK+LED +TL+ Y+
Sbjct: 4 MQIFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 63
Query: 200 MKDECLLEM 208
++ E L +
Sbjct: 64 IQKESTLHL 72
Score = 29.3 bits (64), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 18/69 (26%), Positives = 31/69 (44%)
Query: 211 SSIQIFVRTPXXXXXXXXXXXXXXXXDVKEIVANIIDLSLGNQDLFYAGTKLEACKTLAS 270
+++QIFV+T +VK + + + Q L +AG +LE +TL+
Sbjct: 2 NAMQIFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSD 61
Query: 271 YGIKNNYVL 279
Y I+ L
Sbjct: 62 YNIQKESTL 70
>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 = 76.6 bits (187), Expect = 3e-14, Method: Compositional matrix adjust.
Identities = 37/71 (52%), Positives = 50/71 (70%)
Query: 286 FQIFVKTWGGKTITLDVQPYNTVQDVKVKLFDKLQTPLHLQSIVFAGKRLFENHVLARYN 345
QIFVKT GKTITL+V+P +++ +K K+ +K P Q ++FAGK+L E L+ YN
Sbjct: 4 MQIFVKTLTGKTITLEVEPNDSIDAIKAKIQEKEGIPPDQQRLIFAGKQLEEGKTLSDYN 63
Query: 346 IQKHSTLHMVL 356
IQK STLH+VL
Sbjct: 64 IQKESTLHLVL 74
Score = 54.3 bits (129), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 32/73 (43%), Positives = 45/73 (61%), Gaps = 2/73 (2%)
Query: 62 MKLFVKIPTNQTATVVEAMPYHTVQNIKTMIQVKEGIQSDQFTLVYDGKLLKEDTATMTS 121
M++FVK T +T T+ E P ++ IK IQ KEGI DQ L++ GK L E+ T++
Sbjct: 4 MQIFVKTLTGKTITL-EVEPNDSIDAIKAKIQEKEGIPPDQQRLIFAGKQL-EEGKTLSD 61
Query: 122 MNIKSESIIHLVF 134
NI+ ES +HLV
Sbjct: 62 YNIQKESTLHLVL 74
Score = 45.8 bits (107), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 25/56 (44%), Positives = 35/56 (62%), Gaps = 1/56 (1%)
Query: 1 MKVKKSEPIKNLKAMIHVKEGISEDICDLFFAGDRLEAGR-LVDYGIRNNSTLHFL 55
++V+ ++ I +KA I KEGI D L FAG +LE G+ L DY I+ STLH +
Sbjct: 18 LEVEPNDSIDAIKAKIQEKEGIPPDQQRLIFAGKQLEEGKTLSDYNIQKESTLHLV 73
Score = 43.1 bits (100), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 23/69 (33%), Positives = 39/69 (56%)
Query: 140 LSIFVKAATGEIVNLEVKHSFAIRDVKAIXXXXXXXXXXDHIMIYEGKKLEDSKTLAFYD 199
+ IFVK TG+ + LEV+ + +I +KA +I+ GK+LE+ KTL+ Y+
Sbjct: 4 MQIFVKTLTGKTITLEVEPNDSIDAIKAKIQEKEGIPPDQQRLIFAGKQLEEGKTLSDYN 63
Query: 200 MKDECLLEM 208
++ E L +
Sbjct: 64 IQKESTLHL 72
>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 = 76.3 bits (186), Expect = 3e-14, Method: Compositional matrix adjust.
Identities = 39/73 (53%), Positives = 51/73 (69%)
Query: 284 SPFQIFVKTWGGKTITLDVQPYNTVQDVKVKLFDKLQTPLHLQSIVFAGKRLFENHVLAR 343
S QIFVKT GKTITL+V+ +T+ +VK K+ DK P Q ++FAGK+L + L+
Sbjct: 19 SHMQIFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSD 78
Query: 344 YNIQKHSTLHMVL 356
YNIQK STLH+VL
Sbjct: 79 YNIQKESTLHLVL 91
Score = 58.2 bits (139), Expect = 9e-09, Method: Compositional matrix adjust.
Identities = 34/75 (45%), Positives = 47/75 (62%), Gaps = 2/75 (2%)
Query: 60 SEMKLFVKIPTNQTATVVEAMPYHTVQNIKTMIQVKEGIQSDQFTLVYDGKLLKEDTATM 119
S M++FVK T +T T+ E T+ N+K+ IQ KEGI DQ L++ GK L ED T+
Sbjct: 19 SHMQIFVKTLTGKTITL-EVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQL-EDGRTL 76
Query: 120 TSMNIKSESIIHLVF 134
+ NI+ ES +HLV
Sbjct: 77 SDYNIQKESTLHLVL 91
Score = 49.3 bits (116), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 27/56 (48%), Positives = 36/56 (64%), Gaps = 1/56 (1%)
Query: 1 MKVKKSEPIKNLKAMIHVKEGISEDICDLFFAGDRLEAGR-LVDYGIRNNSTLHFL 55
++V+ S+ I N+K+ I KEGI D L FAG +LE GR L DY I+ STLH +
Sbjct: 35 LEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLV 90
Score = 46.2 bits (108), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 24/69 (34%), Positives = 39/69 (56%)
Query: 140 LSIFVKAATGEIVNLEVKHSFAIRDVKAIXXXXXXXXXXDHIMIYEGKKLEDSKTLAFYD 199
+ IFVK TG+ + LEV+ S I +VK+ +I+ GK+LED +TL+ Y+
Sbjct: 21 MQIFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 80
Query: 200 MKDECLLEM 208
++ E L +
Sbjct: 81 IQKESTLHL 89
Score = 29.6 bits (65), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 19/69 (27%), Positives = 30/69 (43%)
Query: 211 SSIQIFVRTPXXXXXXXXXXXXXXXXDVKEIVANIIDLSLGNQDLFYAGTKLEACKTLAS 270
S +QIFV+T +VK + + + Q L +AG +LE +TL+
Sbjct: 19 SHMQIFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSD 78
Query: 271 YGIKNNYVL 279
Y I+ L
Sbjct: 79 YNIQKESTL 87
>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 = 76.3 bits (186), Expect = 3e-14, Method: Compositional matrix adjust.
Identities = 38/71 (53%), Positives = 50/71 (70%)
Query: 286 FQIFVKTWGGKTITLDVQPYNTVQDVKVKLFDKLQTPLHLQSIVFAGKRLFENHVLARYN 345
QIFVKT GKTITL+V+ +T+ +VK K+ DK P Q ++FAGK+L + L+ YN
Sbjct: 1 MQIFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 346 IQKHSTLHMVL 356
IQK STLH+VL
Sbjct: 61 IQKESTLHLVL 71
Score = 57.0 bits (136), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 33/73 (45%), Positives = 46/73 (63%), Gaps = 2/73 (2%)
Query: 62 MKLFVKIPTNQTATVVEAMPYHTVQNIKTMIQVKEGIQSDQFTLVYDGKLLKEDTATMTS 121
M++FVK T +T T+ E T+ N+K+ IQ KEGI DQ L++ GK L ED T++
Sbjct: 1 MQIFVKTLTGKTITL-EVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQL-EDGRTLSD 58
Query: 122 MNIKSESIIHLVF 134
NI+ ES +HLV
Sbjct: 59 YNIQKESTLHLVL 71
Score = 50.1 bits (118), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 27/56 (48%), Positives = 36/56 (64%), Gaps = 1/56 (1%)
Query: 1 MKVKKSEPIKNLKAMIHVKEGISEDICDLFFAGDRLEAGR-LVDYGIRNNSTLHFL 55
++V+ S+ I N+K+ I KEGI D L FAG +LE GR L DY I+ STLH +
Sbjct: 15 LEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLV 70
Score = 46.2 bits (108), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 24/69 (34%), Positives = 39/69 (56%)
Query: 140 LSIFVKAATGEIVNLEVKHSFAIRDVKAIXXXXXXXXXXDHIMIYEGKKLEDSKTLAFYD 199
+ IFVK TG+ + LEV+ S I +VK+ +I+ GK+LED +TL+ Y+
Sbjct: 1 MQIFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 200 MKDECLLEM 208
++ E L +
Sbjct: 61 IQKESTLHL 69
>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 = 75.9 bits (185), Expect = 4e-14, Method: Compositional matrix adjust.
Identities = 38/70 (54%), Positives = 50/70 (71%)
Query: 287 QIFVKTWGGKTITLDVQPYNTVQDVKVKLFDKLQTPLHLQSIVFAGKRLFENHVLARYNI 346
QIFVKT GKTITL+V+ +T+ +VK K+ DK P Q ++FAGK+L + L+ YNI
Sbjct: 2 QIFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNI 61
Query: 347 QKHSTLHMVL 356
QK STLH+VL
Sbjct: 62 QKESTLHLVL 71
Score = 57.0 bits (136), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 33/73 (45%), Positives = 46/73 (63%), Gaps = 2/73 (2%)
Query: 62 MKLFVKIPTNQTATVVEAMPYHTVQNIKTMIQVKEGIQSDQFTLVYDGKLLKEDTATMTS 121
M++FVK T +T T+ E T+ N+K+ IQ KEGI DQ L++ GK L ED T++
Sbjct: 1 MQIFVKTLTGKTITL-EVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQL-EDGRTLSD 58
Query: 122 MNIKSESIIHLVF 134
NI+ ES +HLV
Sbjct: 59 YNIQKESTLHLVL 71
Score = 48.9 bits (115), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 27/56 (48%), Positives = 36/56 (64%), Gaps = 1/56 (1%)
Query: 1 MKVKKSEPIKNLKAMIHVKEGISEDICDLFFAGDRLEAGR-LVDYGIRNNSTLHFL 55
++V+ S+ I N+K+ I KEGI D L FAG +LE GR L DY I+ STLH +
Sbjct: 15 LEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLV 70
Score = 45.4 bits (106), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 24/69 (34%), Positives = 39/69 (56%)
Query: 140 LSIFVKAATGEIVNLEVKHSFAIRDVKAIXXXXXXXXXXDHIMIYEGKKLEDSKTLAFYD 199
+ IFVK TG+ + LEV+ S I +VK+ +I+ GK+LED +TL+ Y+
Sbjct: 1 MQIFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 200 MKDECLLEM 208
++ E L +
Sbjct: 61 IQKESTLHL 69
Score = 30.8 bits (68), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 22/86 (25%), Positives = 39/86 (45%), Gaps = 5/86 (5%)
Query: 213 IQIFVRTPXXXXXXXXXXXXXXXXDVKEIVANIIDLSLGNQDLFYAGTKLEACKTLASYG 272
+QIFV+T +VK + + + Q L +AG +LE +TL+ Y
Sbjct: 1 MQIFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 273 IKNNYVLDVLPSPFQIFVKTWGGKTI 298
I+ L ++ + ++ GG+TI
Sbjct: 61 IQKESTLHLV-----LRLRGGGGETI 81
>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 = 75.9 bits (185), Expect = 4e-14, Method: Composition-based stats.
Identities = 37/70 (52%), Positives = 52/70 (74%)
Query: 287 QIFVKTWGGKTITLDVQPYNTVQDVKVKLFDKLQTPLHLQSIVFAGKRLFENHVLARYNI 346
QIFVKT GKTITL+V+P +T+++VK K+ DK P Q ++FAG++L + L+ YNI
Sbjct: 2 QIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGRQLEDGRTLSDYNI 61
Query: 347 QKHSTLHMVL 356
Q+ STLH+VL
Sbjct: 62 QRESTLHLVL 71
Score = 58.2 bits (139), Expect = 9e-09, Method: Composition-based stats.
Identities = 33/73 (45%), Positives = 47/73 (64%), Gaps = 2/73 (2%)
Query: 62 MKLFVKIPTNQTATVVEAMPYHTVQNIKTMIQVKEGIQSDQFTLVYDGKLLKEDTATMTS 121
M++FVK T +T T+ E P T++N+K IQ KEGI DQ L++ G+ L ED T++
Sbjct: 1 MQIFVKTLTGKTITL-EVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGRQL-EDGRTLSD 58
Query: 122 MNIKSESIIHLVF 134
NI+ ES +HLV
Sbjct: 59 YNIQRESTLHLVL 71
Score = 48.9 bits (115), Expect = 6e-06, Method: Composition-based stats.
Identities = 28/56 (50%), Positives = 37/56 (66%), Gaps = 1/56 (1%)
Query: 1 MKVKKSEPIKNLKAMIHVKEGISEDICDLFFAGDRLEAGR-LVDYGIRNNSTLHFL 55
++V+ S+ I+N+KA I KEGI D L FAG +LE GR L DY I+ STLH +
Sbjct: 15 LEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGRQLEDGRTLSDYNIQRESTLHLV 70
Score = 44.7 bits (104), Expect = 1e-04, Method: Composition-based stats.
Identities = 24/69 (34%), Positives = 39/69 (56%)
Query: 140 LSIFVKAATGEIVNLEVKHSFAIRDVKAIXXXXXXXXXXDHIMIYEGKKLEDSKTLAFYD 199
+ IFVK TG+ + LEV+ S I +VKA +I+ G++LED +TL+ Y+
Sbjct: 1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGRQLEDGRTLSDYN 60
Query: 200 MKDECLLEM 208
++ E L +
Sbjct: 61 IQRESTLHL 69
>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 = 75.5 bits (184), Expect = 5e-14, Method: Compositional matrix adjust.
Identities = 38/71 (53%), Positives = 50/71 (70%)
Query: 286 FQIFVKTWGGKTITLDVQPYNTVQDVKVKLFDKLQTPLHLQSIVFAGKRLFENHVLARYN 345
QIFVKT GKTITL+V+ +T+ +VK K+ DK P Q ++FAGK+L + L+ YN
Sbjct: 1 MQIFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 346 IQKHSTLHMVL 356
IQK STLH+VL
Sbjct: 61 IQKESTLHLVL 71
Score = 57.4 bits (137), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 33/73 (45%), Positives = 46/73 (63%), Gaps = 2/73 (2%)
Query: 62 MKLFVKIPTNQTATVVEAMPYHTVQNIKTMIQVKEGIQSDQFTLVYDGKLLKEDTATMTS 121
M++FVK T +T T+ E T+ N+K+ IQ KEGI DQ L++ GK L ED T++
Sbjct: 1 MQIFVKTLTGKTITL-EVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQL-EDGRTLSD 58
Query: 122 MNIKSESIIHLVF 134
NI+ ES +HLV
Sbjct: 59 YNIQKESTLHLVL 71
Score = 48.1 bits (113), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 27/56 (48%), Positives = 36/56 (64%), Gaps = 1/56 (1%)
Query: 1 MKVKKSEPIKNLKAMIHVKEGISEDICDLFFAGDRLEAGR-LVDYGIRNNSTLHFL 55
++V+ S+ I N+K+ I KEGI D L FAG +LE GR L DY I+ STLH +
Sbjct: 15 LEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLV 70
Score = 44.7 bits (104), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 24/69 (34%), Positives = 39/69 (56%)
Query: 140 LSIFVKAATGEIVNLEVKHSFAIRDVKAIXXXXXXXXXXDHIMIYEGKKLEDSKTLAFYD 199
+ IFVK TG+ + LEV+ S I +VK+ +I+ GK+LED +TL+ Y+
Sbjct: 1 MQIFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 200 MKDECLLEM 208
++ E L +
Sbjct: 61 IQKESTLHL 69
>pdb|4HJK|A Chain A, U7ub7 Disulfide Variant
Length = 77
Score = 75.5 bits (184), Expect = 6e-14, Method: Compositional matrix adjust.
Identities = 36/70 (51%), Positives = 49/70 (70%)
Query: 286 FQIFVKTWGGKTITLDVQPYNTVQDVKVKLFDKLQTPLHLQSIVFAGKRLFENHVLARYN 345
QIFVK GKT TL+V+P +T+++VK K+ DK+ P Q ++FAGK+L + L+ YN
Sbjct: 2 MQIFVKCLTGKTNTLEVEPSDTIENVKAKIQDKIGYPPDQQRLIFAGKQLEDGRTLSDYN 61
Query: 346 IQKHSTLHMV 355
IQK STLH V
Sbjct: 62 IQKESTLHCV 71
Score = 53.5 bits (127), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 31/72 (43%), Positives = 44/72 (61%), Gaps = 2/72 (2%)
Query: 62 MKLFVKIPTNQTATVVEAMPYHTVQNIKTMIQVKEGIQSDQFTLVYDGKLLKEDTATMTS 121
M++FVK T +T T+ E P T++N+K IQ K G DQ L++ GK L ED T++
Sbjct: 2 MQIFVKCLTGKTNTL-EVEPSDTIENVKAKIQDKIGYPPDQQRLIFAGKQL-EDGRTLSD 59
Query: 122 MNIKSESIIHLV 133
NI+ ES +H V
Sbjct: 60 YNIQKESTLHCV 71
Score = 44.7 bits (104), Expect = 9e-05, Method: Compositional matrix adjust.
Identities = 26/58 (44%), Positives = 36/58 (62%), Gaps = 1/58 (1%)
Query: 1 MKVKKSEPIKNLKAMIHVKEGISEDICDLFFAGDRLEAGR-LVDYGIRNNSTLHFLHQ 57
++V+ S+ I+N+KA I K G D L FAG +LE GR L DY I+ STLH + +
Sbjct: 16 LEVEPSDTIENVKAKIQDKIGYPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHCVRR 73
Score = 44.7 bits (104), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 25/67 (37%), Positives = 37/67 (55%)
Query: 140 LSIFVKAATGEIVNLEVKHSFAIRDVKAIXXXXXXXXXXDHIMIYEGKKLEDSKTLAFYD 199
+ IFVK TG+ LEV+ S I +VKA +I+ GK+LED +TL+ Y+
Sbjct: 2 MQIFVKCLTGKTNTLEVEPSDTIENVKAKIQDKIGYPPDQQRLIFAGKQLEDGRTLSDYN 61
Query: 200 MKDECLL 206
++ E L
Sbjct: 62 IQKESTL 68
>pdb|2JWZ|A Chain A, Mutations In The Hydrophobic Core Of Ubiquitin
Differentially Affect Its Recognition By Receptor
Proteins
Length = 76
Score = 75.5 bits (184), Expect = 6e-14, Method: Compositional matrix adjust.
Identities = 38/71 (53%), Positives = 49/71 (69%)
Query: 286 FQIFVKTWGGKTITLDVQPYNTVQDVKVKLFDKLQTPLHLQSIVFAGKRLFENHVLARYN 345
QIFVKT GKTITL+V+ +T+ +VK K+ DK P Q ++FAGK+L + L+ YN
Sbjct: 1 MQIFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 346 IQKHSTLHMVL 356
IQK STLH VL
Sbjct: 61 IQKESTLHSVL 71
Score = 54.3 bits (129), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 32/73 (43%), Positives = 45/73 (61%), Gaps = 2/73 (2%)
Query: 62 MKLFVKIPTNQTATVVEAMPYHTVQNIKTMIQVKEGIQSDQFTLVYDGKLLKEDTATMTS 121
M++FVK T +T T+ E T+ N+K+ IQ KEGI DQ L++ GK L ED T++
Sbjct: 1 MQIFVKTLTGKTITL-EVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQL-EDGRTLSD 58
Query: 122 MNIKSESIIHLVF 134
NI+ ES +H V
Sbjct: 59 YNIQKESTLHSVL 71
Score = 49.3 bits (116), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 27/54 (50%), Positives = 35/54 (64%), Gaps = 1/54 (1%)
Query: 1 MKVKKSEPIKNLKAMIHVKEGISEDICDLFFAGDRLEAGR-LVDYGIRNNSTLH 53
++V+ S+ I N+K+ I KEGI D L FAG +LE GR L DY I+ STLH
Sbjct: 15 LEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLH 68
Score = 45.8 bits (107), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 24/67 (35%), Positives = 38/67 (56%)
Query: 140 LSIFVKAATGEIVNLEVKHSFAIRDVKAIXXXXXXXXXXDHIMIYEGKKLEDSKTLAFYD 199
+ IFVK TG+ + LEV+ S I +VK+ +I+ GK+LED +TL+ Y+
Sbjct: 1 MQIFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 200 MKDECLL 206
++ E L
Sbjct: 61 IQKESTL 67
>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 = 75.1 bits (183), Expect = 7e-14, Method: Composition-based stats.
Identities = 40/75 (53%), Positives = 53/75 (70%), Gaps = 5/75 (6%)
Query: 287 QIFVKTWGGKTITLDVQPYNTVQDVKVKLFDK-----LQTPLHLQSIVFAGKRLFENHVL 341
QIFVKT GKTITL+V+P +T+++VK K+ DK L P Q ++FAGK+L + L
Sbjct: 2 QIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGRWALAIPPDQQRLIFAGKQLEDGRTL 61
Query: 342 ARYNIQKHSTLHMVL 356
+ YNIQK STLH+VL
Sbjct: 62 SDYNIQKESTLHLVL 76
Score = 53.5 bits (127), Expect = 2e-07, Method: Composition-based stats.
Identities = 34/78 (43%), Positives = 47/78 (60%), Gaps = 7/78 (8%)
Query: 62 MKLFVKIPTNQTATVVEAMPYHTVQNIKTMIQVKEG-----IQSDQFTLVYDGKLLKEDT 116
M++FVK T +T T+ E P T++N+K IQ KEG I DQ L++ GK L ED
Sbjct: 1 MQIFVKTLTGKTITL-EVEPSDTIENVKAKIQDKEGRWALAIPPDQQRLIFAGKQL-EDG 58
Query: 117 ATMTSMNIKSESIIHLVF 134
T++ NI+ ES +HLV
Sbjct: 59 RTLSDYNIQKESTLHLVL 76
Score = 43.5 bits (101), Expect = 3e-04, Method: Composition-based stats.
Identities = 28/61 (45%), Positives = 37/61 (60%), Gaps = 6/61 (9%)
Query: 1 MKVKKSEPIKNLKAMIHVKEG-----ISEDICDLFFAGDRLEAGR-LVDYGIRNNSTLHF 54
++V+ S+ I+N+KA I KEG I D L FAG +LE GR L DY I+ STLH
Sbjct: 15 LEVEPSDTIENVKAKIQDKEGRWALAIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHL 74
Query: 55 L 55
+
Sbjct: 75 V 75
Score = 40.4 bits (93), Expect = 0.002, Method: Composition-based stats.
Identities = 25/74 (33%), Positives = 39/74 (52%), Gaps = 5/74 (6%)
Query: 140 LSIFVKAATGEIVNLEVKHSFAIRDVKAIXXXXX-----XXXXXDHIMIYEGKKLEDSKT 194
+ IFVK TG+ + LEV+ S I +VKA +I+ GK+LED +T
Sbjct: 1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGRWALAIPPDQQRLIFAGKQLEDGRT 60
Query: 195 LAFYDMKDECLLEM 208
L+ Y+++ E L +
Sbjct: 61 LSDYNIQKESTLHL 74
>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 = 75.1 bits (183), Expect = 8e-14, Method: Compositional matrix adjust.
Identities = 39/79 (49%), Positives = 52/79 (65%), Gaps = 8/79 (10%)
Query: 286 FQIFVKTWGGKTITLDVQPYNTVQDVKVKLFDK--------LQTPLHLQSIVFAGKRLFE 337
QIFVKT GKTITL+V+P +T+++VK K+ DK P Q ++FAGK+L +
Sbjct: 1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGGGGGGGGGIPPDQQRLIFAGKQLED 60
Query: 338 NHVLARYNIQKHSTLHMVL 356
L+ YNIQK STLH+VL
Sbjct: 61 GRTLSDYNIQKESTLHLVL 79
Score = 49.7 bits (117), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 34/81 (41%), Positives = 47/81 (58%), Gaps = 10/81 (12%)
Query: 62 MKLFVKIPTNQTATVVEAMPYHTVQNIKTMIQVKE--------GIQSDQFTLVYDGKLLK 113
M++FVK T +T T+ E P T++N+K IQ KE GI DQ L++ GK L
Sbjct: 1 MQIFVKTLTGKTITL-EVEPSDTIENVKAKIQDKEGGGGGGGGGIPPDQQRLIFAGKQL- 58
Query: 114 EDTATMTSMNIKSESIIHLVF 134
ED T++ NI+ ES +HLV
Sbjct: 59 EDGRTLSDYNIQKESTLHLVL 79
Score = 41.2 bits (95), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 25/77 (32%), Positives = 39/77 (50%), Gaps = 8/77 (10%)
Query: 140 LSIFVKAATGEIVNLEVKHSFAIRDVKA--------IXXXXXXXXXXDHIMIYEGKKLED 191
+ IFVK TG+ + LEV+ S I +VKA +I+ GK+LED
Sbjct: 1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGGGGGGGGGIPPDQQRLIFAGKQLED 60
Query: 192 SKTLAFYDMKDECLLEM 208
+TL+ Y+++ E L +
Sbjct: 61 GRTLSDYNIQKESTLHL 77
Score = 41.2 bits (95), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 28/64 (43%), Positives = 37/64 (57%), Gaps = 9/64 (14%)
Query: 1 MKVKKSEPIKNLKAMIHVKE--------GISEDICDLFFAGDRLEAGR-LVDYGIRNNST 51
++V+ S+ I+N+KA I KE GI D L FAG +LE GR L DY I+ ST
Sbjct: 15 LEVEPSDTIENVKAKIQDKEGGGGGGGGGIPPDQQRLIFAGKQLEDGRTLSDYNIQKEST 74
Query: 52 LHFL 55
LH +
Sbjct: 75 LHLV 78
>pdb|1UD7|A Chain A, Solution Structure Of The Designed Hydrophobic Core Mutant
Of Ubiquitin, 1d7
Length = 76
Score = 74.7 bits (182), Expect = 8e-14, Method: Compositional matrix adjust.
Identities = 34/71 (47%), Positives = 51/71 (71%)
Query: 286 FQIFVKTWGGKTITLDVQPYNTVQDVKVKLFDKLQTPLHLQSIVFAGKRLFENHVLARYN 345
Q+F+KT GKT+T++V+P +TV++ K K+ DK P Q ++FAGK+L + L+ YN
Sbjct: 1 MQVFLKTLTGKTVTIEVEPSDTVENFKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 346 IQKHSTLHMVL 356
IQK ST+H+VL
Sbjct: 61 IQKESTIHLVL 71
Score = 60.5 bits (145), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 35/73 (47%), Positives = 46/73 (63%), Gaps = 2/73 (2%)
Query: 62 MKLFVKIPTNQTATVVEAMPYHTVQNIKTMIQVKEGIQSDQFTLVYDGKLLKEDTATMTS 121
M++F+K T +T T+ E P TV+N K IQ KEGI DQ L++ GK L ED T++
Sbjct: 1 MQVFLKTLTGKTVTI-EVEPSDTVENFKAKIQDKEGIPPDQQRLIFAGKQL-EDGRTLSD 58
Query: 122 MNIKSESIIHLVF 134
NI+ ES IHLV
Sbjct: 59 YNIQKESTIHLVL 71
Score = 49.3 bits (116), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 26/56 (46%), Positives = 36/56 (64%), Gaps = 1/56 (1%)
Query: 1 MKVKKSEPIKNLKAMIHVKEGISEDICDLFFAGDRLEAGR-LVDYGIRNNSTLHFL 55
++V+ S+ ++N KA I KEGI D L FAG +LE GR L DY I+ ST+H +
Sbjct: 15 IEVEPSDTVENFKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTIHLV 70
Score = 41.6 bits (96), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 20/69 (28%), Positives = 38/69 (55%)
Query: 140 LSIFVKAATGEIVNLEVKHSFAIRDVKAIXXXXXXXXXXDHIMIYEGKKLEDSKTLAFYD 199
+ +F+K TG+ V +EV+ S + + KA +I+ GK+LED +TL+ Y+
Sbjct: 1 MQVFLKTLTGKTVTIEVEPSDTVENFKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 200 MKDECLLEM 208
++ E + +
Sbjct: 61 IQKESTIHL 69
>pdb|2JVC|A Chain A, Nmr Solution Structure Of Ubiquitin Like Protein
Length = 82
Score = 74.7 bits (182), Expect = 9e-14, Method: Compositional matrix adjust.
Identities = 36/71 (50%), Positives = 50/71 (70%)
Query: 286 FQIFVKTWGGKTITLDVQPYNTVQDVKVKLFDKLQTPLHLQSIVFAGKRLFENHVLARYN 345
QIFVKT GKTIT+DV +TV VK K++DK P Q ++F GK+L +++ ++ YN
Sbjct: 6 MQIFVKTLTGKTITIDVDHADTVGAVKAKIYDKEGIPPDQQRLIFGGKQLEDSNAMSDYN 65
Query: 346 IQKHSTLHMVL 356
+QK STLH+VL
Sbjct: 66 VQKESTLHLVL 76
Score = 50.8 bits (120), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 31/76 (40%), Positives = 44/76 (57%), Gaps = 2/76 (2%)
Query: 59 LSEMKLFVKIPTNQTATVVEAMPYHTVQNIKTMIQVKEGIQSDQFTLVYDGKLLKEDTAT 118
L M++FVK T +T T+ + TV +K I KEGI DQ L++ GK L ED+
Sbjct: 3 LGSMQIFVKTLTGKTITI-DVDHADTVGAVKAKIYDKEGIPPDQQRLIFGGKQL-EDSNA 60
Query: 119 MTSMNIKSESIIHLVF 134
M+ N++ ES +HLV
Sbjct: 61 MSDYNVQKESTLHLVL 76
Score = 42.0 bits (97), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 22/73 (30%), Positives = 38/73 (52%)
Query: 136 PKEILSIFVKAATGEIVNLEVKHSFAIRDVKAIXXXXXXXXXXDHIMIYEGKKLEDSKTL 195
P + IFVK TG+ + ++V H+ + VKA +I+ GK+LEDS +
Sbjct: 2 PLGSMQIFVKTLTGKTITIDVDHADTVGAVKAKIYDKEGIPPDQQRLIFGGKQLEDSNAM 61
Query: 196 AFYDMKDECLLEM 208
+ Y+++ E L +
Sbjct: 62 SDYNVQKESTLHL 74
Score = 36.6 bits (83), Expect = 0.024, Method: Compositional matrix adjust.
Identities = 20/54 (37%), Positives = 31/54 (57%), Gaps = 1/54 (1%)
Query: 3 VKKSEPIKNLKAMIHVKEGISEDICDLFFAGDRLE-AGRLVDYGIRNNSTLHFL 55
V ++ + +KA I+ KEGI D L F G +LE + + DY ++ STLH +
Sbjct: 22 VDHADTVGAVKAKIYDKEGIPPDQQRLIFGGKQLEDSNAMSDYNVQKESTLHLV 75
>pdb|3V6C|B Chain B, Crystal Structure Of Usp2 In Complex With Mutated
Ubiquitin
Length = 91
Score = 74.3 bits (181), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 36/71 (50%), Positives = 49/71 (69%)
Query: 286 FQIFVKTWGGKTITLDVQPYNTVQDVKVKLFDKLQTPLHLQSIVFAGKRLFENHVLARYN 345
QIFV T G ITL+V+P +T+++VK K+ DK P Q ++FAGK+L + L+ YN
Sbjct: 18 MQIFVNTLTGTHITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 77
Query: 346 IQKHSTLHMVL 356
IQK STLH+VL
Sbjct: 78 IQKESTLHLVL 88
Score = 55.8 bits (133), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 32/73 (43%), Positives = 44/73 (60%), Gaps = 2/73 (2%)
Query: 62 MKLFVKIPTNQTATVVEAMPYHTVQNIKTMIQVKEGIQSDQFTLVYDGKLLKEDTATMTS 121
M++FV T T +E P T++N+K IQ KEGI DQ L++ GK L ED T++
Sbjct: 18 MQIFVNTLTG-THITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQL-EDGRTLSD 75
Query: 122 MNIKSESIIHLVF 134
NI+ ES +HLV
Sbjct: 76 YNIQKESTLHLVL 88
Score = 51.6 bits (122), Expect = 8e-07, Method: Compositional matrix adjust.
Identities = 28/56 (50%), Positives = 37/56 (66%), Gaps = 1/56 (1%)
Query: 1 MKVKKSEPIKNLKAMIHVKEGISEDICDLFFAGDRLEAGR-LVDYGIRNNSTLHFL 55
++V+ S+ I+N+KA I KEGI D L FAG +LE GR L DY I+ STLH +
Sbjct: 32 LEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLV 87
Score = 47.4 bits (111), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 25/75 (33%), Positives = 39/75 (52%)
Query: 134 FCPKEILSIFVKAATGEIVNLEVKHSFAIRDVKAIXXXXXXXXXXDHIMIYEGKKLEDSK 193
P+ + IFV TG + LEV+ S I +VKA +I+ GK+LED +
Sbjct: 12 LVPRGSMQIFVNTLTGTHITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGR 71
Query: 194 TLAFYDMKDECLLEM 208
TL+ Y+++ E L +
Sbjct: 72 TLSDYNIQKESTLHL 86
>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 = 73.9 bits (180), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 37/70 (52%), Positives = 49/70 (70%)
Query: 286 FQIFVKTWGGKTITLDVQPYNTVQDVKVKLFDKLQTPLHLQSIVFAGKRLFENHVLARYN 345
QIFVKT GKTITL+V+ +T+ +VK K+ DK P Q ++FAGK+L + L+ YN
Sbjct: 1 MQIFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 346 IQKHSTLHMV 355
IQK STLH+V
Sbjct: 61 IQKESTLHLV 70
Score = 56.6 bits (135), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 33/72 (45%), Positives = 46/72 (63%), Gaps = 2/72 (2%)
Query: 62 MKLFVKIPTNQTATVVEAMPYHTVQNIKTMIQVKEGIQSDQFTLVYDGKLLKEDTATMTS 121
M++FVK T +T T+ E T+ N+K+ IQ KEGI DQ L++ GK L ED T++
Sbjct: 1 MQIFVKTLTGKTITL-EVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQL-EDGRTLSD 58
Query: 122 MNIKSESIIHLV 133
NI+ ES +HLV
Sbjct: 59 YNIQKESTLHLV 70
Score = 48.9 bits (115), Expect = 6e-06, Method: Compositional matrix adjust.
Identities = 27/56 (48%), Positives = 36/56 (64%), Gaps = 1/56 (1%)
Query: 1 MKVKKSEPIKNLKAMIHVKEGISEDICDLFFAGDRLEAGR-LVDYGIRNNSTLHFL 55
++V+ S+ I N+K+ I KEGI D L FAG +LE GR L DY I+ STLH +
Sbjct: 15 LEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLV 70
Score = 44.7 bits (104), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 24/69 (34%), Positives = 39/69 (56%)
Query: 140 LSIFVKAATGEIVNLEVKHSFAIRDVKAIXXXXXXXXXXDHIMIYEGKKLEDSKTLAFYD 199
+ IFVK TG+ + LEV+ S I +VK+ +I+ GK+LED +TL+ Y+
Sbjct: 1 MQIFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 200 MKDECLLEM 208
++ E L +
Sbjct: 61 IQKESTLHL 69
>pdb|1SIF|A Chain A, Crystal Structure Of A Multiple Hydrophobic Core Mutant Of
Ubiquitin
Length = 88
Score = 73.9 bits (180), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 33/71 (46%), Positives = 51/71 (71%)
Query: 286 FQIFVKTWGGKTITLDVQPYNTVQDVKVKLFDKLQTPLHLQSIVFAGKRLFENHVLARYN 345
Q+F+KT GKT T++++P +T++++K K+ DK P Q ++FAGK+L + L+ YN
Sbjct: 10 LQLFIKTLTGKTFTVEMEPSDTIENLKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 69
Query: 346 IQKHSTLHMVL 356
IQK STLH+VL
Sbjct: 70 IQKESTLHLVL 80
Score = 61.2 bits (147), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 35/76 (46%), Positives = 48/76 (63%), Gaps = 2/76 (2%)
Query: 59 LSEMKLFVKIPTNQTATVVEAMPYHTVQNIKTMIQVKEGIQSDQFTLVYDGKLLKEDTAT 118
L ++LF+K T +T TV E P T++N+K IQ KEGI DQ L++ GK L ED T
Sbjct: 7 LQGLQLFIKTLTGKTFTV-EMEPSDTIENLKAKIQDKEGIPPDQQRLIFAGKQL-EDGRT 64
Query: 119 MTSMNIKSESIIHLVF 134
++ NI+ ES +HLV
Sbjct: 65 LSDYNIQKESTLHLVL 80
Score = 50.4 bits (119), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 28/56 (50%), Positives = 37/56 (66%), Gaps = 1/56 (1%)
Query: 1 MKVKKSEPIKNLKAMIHVKEGISEDICDLFFAGDRLEAGR-LVDYGIRNNSTLHFL 55
++++ S+ I+NLKA I KEGI D L FAG +LE GR L DY I+ STLH +
Sbjct: 24 VEMEPSDTIENLKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLV 79
Score = 41.6 bits (96), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 21/69 (30%), Positives = 38/69 (55%)
Query: 140 LSIFVKAATGEIVNLEVKHSFAIRDVKAIXXXXXXXXXXDHIMIYEGKKLEDSKTLAFYD 199
L +F+K TG+ +E++ S I ++KA +I+ GK+LED +TL+ Y+
Sbjct: 10 LQLFIKTLTGKTFTVEMEPSDTIENLKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 69
Query: 200 MKDECLLEM 208
++ E L +
Sbjct: 70 IQKESTLHL 78
>pdb|1C3T|A Chain A, Rotamer Strain As A Determinant Of Protein Structural
Specificity
Length = 76
Score = 73.6 bits (179), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 33/71 (46%), Positives = 52/71 (73%)
Query: 286 FQIFVKTWGGKTITLDVQPYNTVQDVKVKLFDKLQTPLHLQSIVFAGKRLFENHVLARYN 345
Q+FVKT GKT+T++++P +TV+++K K+ DK P Q ++FAGK+L + L+ YN
Sbjct: 1 MQLFVKTLTGKTLTVELEPSDTVENLKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 346 IQKHSTLHMVL 356
+QK ST+H+VL
Sbjct: 61 LQKESTIHLVL 71
Score = 62.8 bits (151), Expect = 3e-10, Method: Compositional matrix adjust.
Identities = 37/73 (50%), Positives = 47/73 (64%), Gaps = 2/73 (2%)
Query: 62 MKLFVKIPTNQTATVVEAMPYHTVQNIKTMIQVKEGIQSDQFTLVYDGKLLKEDTATMTS 121
M+LFVK T +T TV E P TV+N+K IQ KEGI DQ L++ GK L ED T++
Sbjct: 1 MQLFVKTLTGKTLTV-ELEPSDTVENLKAKIQDKEGIPPDQQRLIFAGKQL-EDGRTLSD 58
Query: 122 MNIKSESIIHLVF 134
N++ ES IHLV
Sbjct: 59 YNLQKESTIHLVL 71
Score = 48.5 bits (114), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 25/56 (44%), Positives = 37/56 (66%), Gaps = 1/56 (1%)
Query: 1 MKVKKSEPIKNLKAMIHVKEGISEDICDLFFAGDRLEAGR-LVDYGIRNNSTLHFL 55
++++ S+ ++NLKA I KEGI D L FAG +LE GR L DY ++ ST+H +
Sbjct: 15 VELEPSDTVENLKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNLQKESTIHLV 70
Score = 40.8 bits (94), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 19/69 (27%), Positives = 39/69 (56%)
Query: 140 LSIFVKAATGEIVNLEVKHSFAIRDVKAIXXXXXXXXXXDHIMIYEGKKLEDSKTLAFYD 199
+ +FVK TG+ + +E++ S + ++KA +I+ GK+LED +TL+ Y+
Sbjct: 1 MQLFVKTLTGKTLTVELEPSDTVENLKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 200 MKDECLLEM 208
++ E + +
Sbjct: 61 LQKESTIHL 69
>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 = 72.8 bits (177), Expect = 3e-13, Method: Compositional matrix adjust.
Identities = 37/69 (53%), Positives = 49/69 (71%)
Query: 284 SPFQIFVKTWGGKTITLDVQPYNTVQDVKVKLFDKLQTPLHLQSIVFAGKRLFENHVLAR 343
S QIFVKT GKTITL+V+P +T+++VK K+ DK P Q ++FAGK+L + L+
Sbjct: 2 SHMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSD 61
Query: 344 YNIQKHSTL 352
YNIQK STL
Sbjct: 62 YNIQKWSTL 70
Score = 52.0 bits (123), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 31/71 (43%), Positives = 44/71 (61%), Gaps = 2/71 (2%)
Query: 60 SEMKLFVKIPTNQTATVVEAMPYHTVQNIKTMIQVKEGIQSDQFTLVYDGKLLKEDTATM 119
S M++FVK T +T T+ E P T++N+K IQ KEGI DQ L++ GK L ED T+
Sbjct: 2 SHMQIFVKTLTGKTITL-EVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQL-EDGRTL 59
Query: 120 TSMNIKSESII 130
+ NI+ S +
Sbjct: 60 SDYNIQKWSTL 70
Score = 47.0 bits (110), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 27/53 (50%), Positives = 35/53 (66%), Gaps = 1/53 (1%)
Query: 1 MKVKKSEPIKNLKAMIHVKEGISEDICDLFFAGDRLEAGR-LVDYGIRNNSTL 52
++V+ S+ I+N+KA I KEGI D L FAG +LE GR L DY I+ STL
Sbjct: 18 LEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKWSTL 70
Score = 44.7 bits (104), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 24/67 (35%), Positives = 37/67 (55%)
Query: 140 LSIFVKAATGEIVNLEVKHSFAIRDVKAIXXXXXXXXXXDHIMIYEGKKLEDSKTLAFYD 199
+ IFVK TG+ + LEV+ S I +VKA +I+ GK+LED +TL+ Y+
Sbjct: 4 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 63
Query: 200 MKDECLL 206
++ L
Sbjct: 64 IQKWSTL 70
>pdb|2KDI|A Chain A, Solution Structure Of A UbiquitinUIM FUSION PROTEIN
Length = 114
Score = 72.4 bits (176), Expect = 4e-13, Method: Composition-based stats.
Identities = 36/71 (50%), Positives = 50/71 (70%)
Query: 286 FQIFVKTWGGKTITLDVQPYNTVQDVKVKLFDKLQTPLHLQSIVFAGKRLFENHVLARYN 345
FQIF KT GKTITL+V+ +T+ +VK K+ DK P Q +++AGK+L + L+ YN
Sbjct: 10 FQIFAKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIWAGKQLEDGRTLSDYN 69
Query: 346 IQKHSTLHMVL 356
IQ+ STLH+VL
Sbjct: 70 IQRESTLHLVL 80
Score = 54.7 bits (130), Expect = 9e-08, Method: Composition-based stats.
Identities = 32/74 (43%), Positives = 45/74 (60%), Gaps = 2/74 (2%)
Query: 61 EMKLFVKIPTNQTATVVEAMPYHTVQNIKTMIQVKEGIQSDQFTLVYDGKLLKEDTATMT 120
E ++F K T +T T+ E T+ N+K+ IQ KEGI DQ L++ GK L ED T++
Sbjct: 9 EFQIFAKTLTGKTITL-EVESSDTIDNVKSKIQDKEGIPPDQQRLIWAGKQL-EDGRTLS 66
Query: 121 SMNIKSESIIHLVF 134
NI+ ES +HLV
Sbjct: 67 DYNIQRESTLHLVL 80
Score = 46.6 bits (109), Expect = 2e-05, Method: Composition-based stats.
Identities = 26/56 (46%), Positives = 36/56 (64%), Gaps = 1/56 (1%)
Query: 1 MKVKKSEPIKNLKAMIHVKEGISEDICDLFFAGDRLEAGR-LVDYGIRNNSTLHFL 55
++V+ S+ I N+K+ I KEGI D L +AG +LE GR L DY I+ STLH +
Sbjct: 24 LEVESSDTIDNVKSKIQDKEGIPPDQQRLIWAGKQLEDGRTLSDYNIQRESTLHLV 79
Score = 42.7 bits (99), Expect = 4e-04, Method: Composition-based stats.
Identities = 23/69 (33%), Positives = 37/69 (53%)
Query: 140 LSIFVKAATGEIVNLEVKHSFAIRDVKAIXXXXXXXXXXDHIMIYEGKKLEDSKTLAFYD 199
IF K TG+ + LEV+ S I +VK+ +I+ GK+LED +TL+ Y+
Sbjct: 10 FQIFAKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIWAGKQLEDGRTLSDYN 69
Query: 200 MKDECLLEM 208
++ E L +
Sbjct: 70 IQRESTLHL 78
>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 = 72.4 bits (176), Expect = 4e-13, Method: Composition-based stats.
Identities = 37/69 (53%), Positives = 48/69 (69%)
Query: 287 QIFVKTWGGKTITLDVQPYNTVQDVKVKLFDKLQTPLHLQSIVFAGKRLFENHVLARYNI 346
QIFVK GKT TL+V+P +T+++VK K+ DKL P Q ++FAGKRL + L+ YNI
Sbjct: 4 QIFVKFRTGKTYTLEVEPSDTIENVKAKIQDKLGIPPDQQWLIFAGKRLEDGRTLSDYNI 63
Query: 347 QKHSTLHMV 355
QK STL V
Sbjct: 64 QKESTLRGV 72
Score = 45.1 bits (105), Expect = 8e-05, Method: Composition-based stats.
Identities = 27/53 (50%), Positives = 34/53 (64%), Gaps = 1/53 (1%)
Query: 1 MKVKKSEPIKNLKAMIHVKEGISEDICDLFFAGDRLEAGR-LVDYGIRNNSTL 52
++V+ S+ I+N+KA I K GI D L FAG RLE GR L DY I+ STL
Sbjct: 17 LEVEPSDTIENVKAKIQDKLGIPPDQQWLIFAGKRLEDGRTLSDYNIQKESTL 69
Score = 44.7 bits (104), Expect = 9e-05, Method: Composition-based stats.
Identities = 25/67 (37%), Positives = 37/67 (55%)
Query: 140 LSIFVKAATGEIVNLEVKHSFAIRDVKAIXXXXXXXXXXDHIMIYEGKKLEDSKTLAFYD 199
+ IFVK TG+ LEV+ S I +VKA +I+ GK+LED +TL+ Y+
Sbjct: 3 MQIFVKFRTGKTYTLEVEPSDTIENVKAKIQDKLGIPPDQQWLIFAGKRLEDGRTLSDYN 62
Query: 200 MKDECLL 206
++ E L
Sbjct: 63 IQKESTL 69
>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 = 70.5 bits (171), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 39/79 (49%), Positives = 52/79 (65%), Gaps = 8/79 (10%)
Query: 286 FQIFVKTWGG--------KTITLDVQPYNTVQDVKVKLFDKLQTPLHLQSIVFAGKRLFE 337
QIFVKT G KTITL+V+P +T+++VK K+ DK P Q ++FAGK+L +
Sbjct: 1 MQIFVKTLTGGGGGGGGGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLED 60
Query: 338 NHVLARYNIQKHSTLHMVL 356
L+ YNIQK STLH+VL
Sbjct: 61 GRTLSDYNIQKESTLHLVL 79
Score = 53.1 bits (126), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 32/80 (40%), Positives = 44/80 (55%), Gaps = 8/80 (10%)
Query: 62 MKLFVKIPTNQTAT-------VVEAMPYHTVQNIKTMIQVKEGIQSDQFTLVYDGKLLKE 114
M++FVK T +E P T++N+K IQ KEGI DQ L++ GK L E
Sbjct: 1 MQIFVKTLTGGGGGGGGGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQL-E 59
Query: 115 DTATMTSMNIKSESIIHLVF 134
D T++ NI+ ES +HLV
Sbjct: 60 DGRTLSDYNIQKESTLHLVL 79
Score = 52.0 bits (123), Expect = 7e-07, Method: Compositional matrix adjust.
Identities = 28/56 (50%), Positives = 37/56 (66%), Gaps = 1/56 (1%)
Query: 1 MKVKKSEPIKNLKAMIHVKEGISEDICDLFFAGDRLEAGR-LVDYGIRNNSTLHFL 55
++V+ S+ I+N+KA I KEGI D L FAG +LE GR L DY I+ STLH +
Sbjct: 23 LEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLV 78
Score = 37.0 bits (84), Expect = 0.022, Method: Compositional matrix adjust.
Identities = 25/77 (32%), Positives = 39/77 (50%), Gaps = 8/77 (10%)
Query: 140 LSIFVKAATG--------EIVNLEVKHSFAIRDVKAIXXXXXXXXXXDHIMIYEGKKLED 191
+ IFVK TG + + LEV+ S I +VKA +I+ GK+LED
Sbjct: 1 MQIFVKTLTGGGGGGGGGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLED 60
Query: 192 SKTLAFYDMKDECLLEM 208
+TL+ Y+++ E L +
Sbjct: 61 GRTLSDYNIQKESTLHL 77
>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 = 70.1 bits (170), Expect = 2e-12, Method: Composition-based stats.
Identities = 32/70 (45%), Positives = 50/70 (71%)
Query: 287 QIFVKTWGGKTITLDVQPYNTVQDVKVKLFDKLQTPLHLQSIVFAGKRLFENHVLARYNI 346
QIFV+T G+TITL+V+ +T+ +V+ ++ D+ P Q ++FAG++L + LA YNI
Sbjct: 9 QIFVRTLTGRTITLEVESSDTIDNVRARIQDREGIPPDQQRLIFAGRQLEDGRTLADYNI 68
Query: 347 QKHSTLHMVL 356
Q+ STLH+VL
Sbjct: 69 QRESTLHLVL 78
Score = 52.0 bits (123), Expect = 6e-07, Method: Composition-based stats.
Identities = 29/73 (39%), Positives = 44/73 (60%), Gaps = 2/73 (2%)
Query: 62 MKLFVKIPTNQTATVVEAMPYHTVQNIKTMIQVKEGIQSDQFTLVYDGKLLKEDTATMTS 121
M++FV+ T +T T+ E T+ N++ IQ +EGI DQ L++ G+ L ED T+
Sbjct: 8 MQIFVRTLTGRTITL-EVESSDTIDNVRARIQDREGIPPDQQRLIFAGRQL-EDGRTLAD 65
Query: 122 MNIKSESIIHLVF 134
NI+ ES +HLV
Sbjct: 66 YNIQRESTLHLVL 78
Score = 48.5 bits (114), Expect = 7e-06, Method: Composition-based stats.
Identities = 26/56 (46%), Positives = 36/56 (64%), Gaps = 1/56 (1%)
Query: 1 MKVKKSEPIKNLKAMIHVKEGISEDICDLFFAGDRLEAGR-LVDYGIRNNSTLHFL 55
++V+ S+ I N++A I +EGI D L FAG +LE GR L DY I+ STLH +
Sbjct: 22 LEVESSDTIDNVRARIQDREGIPPDQQRLIFAGRQLEDGRTLADYNIQRESTLHLV 77
Score = 44.3 bits (103), Expect = 1e-04, Method: Composition-based stats.
Identities = 23/69 (33%), Positives = 38/69 (55%)
Query: 140 LSIFVKAATGEIVNLEVKHSFAIRDVKAIXXXXXXXXXXDHIMIYEGKKLEDSKTLAFYD 199
+ IFV+ TG + LEV+ S I +V+A +I+ G++LED +TLA Y+
Sbjct: 8 MQIFVRTLTGRTITLEVESSDTIDNVRARIQDREGIPPDQQRLIFAGRQLEDGRTLADYN 67
Query: 200 MKDECLLEM 208
++ E L +
Sbjct: 68 IQRESTLHL 76
Score = 30.0 bits (66), Expect = 2.6, Method: Composition-based stats.
Identities = 19/70 (27%), Positives = 31/70 (44%)
Query: 213 IQIFVRTPXXXXXXXXXXXXXXXXDVKEIVANIIDLSLGNQDLFYAGTKLEACKTLASYG 272
+QIFVRT +V+ + + + Q L +AG +LE +TLA Y
Sbjct: 8 MQIFVRTLTGRTITLEVESSDTIDNVRARIQDREGIPPDQQRLIFAGRQLEDGRTLADYN 67
Query: 273 IKNNYVLDVL 282
I+ L ++
Sbjct: 68 IQRESTLHLV 77
>pdb|1ZW7|A Chain A, Elimination Of The C-Cap In Ubiquitin Structure, Dynamics
And Thermodynamic Consequences
Length = 82
Score = 69.3 bits (168), Expect = 4e-12, Method: Compositional matrix adjust.
Identities = 35/71 (49%), Positives = 47/71 (66%)
Query: 286 FQIFVKTWGGKTITLDVQPYNTVQDVKVKLFDKLQTPLHLQSIVFAGKRLFENHVLARYN 345
QIFVKT G TITL+V+ +T+ +VK K+ P Q ++FAGK+L + L+ YN
Sbjct: 1 MQIFVKTLTGATITLEVESSDTIDNVKSKIQAAPGIPPDQQELIFAGKQLEDGRTLSDYN 60
Query: 346 IQKHSTLHMVL 356
IQK STLH+VL
Sbjct: 61 IQKESTLHLVL 71
Score = 52.4 bits (124), Expect = 5e-07, Method: Compositional matrix adjust.
Identities = 31/73 (42%), Positives = 43/73 (58%), Gaps = 2/73 (2%)
Query: 62 MKLFVKIPTNQTATVVEAMPYHTVQNIKTMIQVKEGIQSDQFTLVYDGKLLKEDTATMTS 121
M++FVK T T T+ E T+ N+K+ IQ GI DQ L++ GK L ED T++
Sbjct: 1 MQIFVKTLTGATITL-EVESSDTIDNVKSKIQAAPGIPPDQQELIFAGKQL-EDGRTLSD 58
Query: 122 MNIKSESIIHLVF 134
NI+ ES +HLV
Sbjct: 59 YNIQKESTLHLVL 71
Score = 48.1 bits (113), Expect = 9e-06, Method: Compositional matrix adjust.
Identities = 25/56 (44%), Positives = 35/56 (62%), Gaps = 1/56 (1%)
Query: 1 MKVKKSEPIKNLKAMIHVKEGISEDICDLFFAGDRLEAGR-LVDYGIRNNSTLHFL 55
++V+ S+ I N+K+ I GI D +L FAG +LE GR L DY I+ STLH +
Sbjct: 15 LEVESSDTIDNVKSKIQAAPGIPPDQQELIFAGKQLEDGRTLSDYNIQKESTLHLV 70
Score = 45.8 bits (107), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 24/69 (34%), Positives = 38/69 (55%)
Query: 140 LSIFVKAATGEIVNLEVKHSFAIRDVKAIXXXXXXXXXXDHIMIYEGKKLEDSKTLAFYD 199
+ IFVK TG + LEV+ S I +VK+ +I+ GK+LED +TL+ Y+
Sbjct: 1 MQIFVKTLTGATITLEVESSDTIDNVKSKIQAAPGIPPDQQELIFAGKQLEDGRTLSDYN 60
Query: 200 MKDECLLEM 208
++ E L +
Sbjct: 61 IQKESTLHL 69
Score = 29.6 bits (65), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 18/67 (26%), Positives = 29/67 (43%)
Query: 213 IQIFVRTPXXXXXXXXXXXXXXXXDVKEIVANIIDLSLGNQDLFYAGTKLEACKTLASYG 272
+QIFV+T +VK + + Q+L +AG +LE +TL+ Y
Sbjct: 1 MQIFVKTLTGATITLEVESSDTIDNVKSKIQAAPGIPPDQQELIFAGKQLEDGRTLSDYN 60
Query: 273 IKNNYVL 279
I+ L
Sbjct: 61 IQKESTL 67
>pdb|4I6L|B Chain B, Crystal Structure Of Otub1 In Complex With Ubiquitin
Variant
Length = 76
Score = 68.9 bits (167), Expect = 5e-12, Method: Compositional matrix adjust.
Identities = 35/70 (50%), Positives = 49/70 (70%)
Query: 287 QIFVKTWGGKTITLDVQPYNTVQDVKVKLFDKLQTPLHLQSIVFAGKRLFENHVLARYNI 346
QIFVKT GKTITL+V+P +T+++VK K+ DK P Q ++FA K+L + L+ YNI
Sbjct: 4 QIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQKLLFARKQLEDGRTLSDYNI 63
Query: 347 QKHSTLHMVL 356
K S L++VL
Sbjct: 64 HKESFLYLVL 73
Score = 53.1 bits (126), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 32/73 (43%), Positives = 45/73 (61%), Gaps = 2/73 (2%)
Query: 62 MKLFVKIPTNQTATVVEAMPYHTVQNIKTMIQVKEGIQSDQFTLVYDGKLLKEDTATMTS 121
M++FVK T +T T+ E P T++N+K IQ KEGI DQ L++ K L ED T++
Sbjct: 3 MQIFVKTLTGKTITL-EVEPSDTIENVKAKIQDKEGIPPDQQKLLFARKQL-EDGRTLSD 60
Query: 122 MNIKSESIIHLVF 134
NI ES ++LV
Sbjct: 61 YNIHKESFLYLVL 73
Score = 42.4 bits (98), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 25/56 (44%), Positives = 34/56 (60%), Gaps = 1/56 (1%)
Query: 1 MKVKKSEPIKNLKAMIHVKEGISEDICDLFFAGDRLEAGR-LVDYGIRNNSTLHFL 55
++V+ S+ I+N+KA I KEGI D L FA +LE GR L DY I S L+ +
Sbjct: 17 LEVEPSDTIENVKAKIQDKEGIPPDQQKLLFARKQLEDGRTLSDYNIHKESFLYLV 72
Score = 41.6 bits (96), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 23/67 (34%), Positives = 36/67 (53%)
Query: 140 LSIFVKAATGEIVNLEVKHSFAIRDVKAIXXXXXXXXXXDHIMIYEGKKLEDSKTLAFYD 199
+ IFVK TG+ + LEV+ S I +VKA +++ K+LED +TL+ Y+
Sbjct: 3 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQKLLFARKQLEDGRTLSDYN 62
Query: 200 MKDECLL 206
+ E L
Sbjct: 63 IHKESFL 69
>pdb|3N3K|B Chain B, The Catalytic Domain Of Usp8 In Complex With A Usp8
Specific Inhibitor
Length = 85
Score = 62.4 bits (150), Expect = 5e-10, Method: Compositional matrix adjust.
Identities = 30/67 (44%), Positives = 44/67 (65%)
Query: 284 SPFQIFVKTWGGKTITLDVQPYNTVQDVKVKLFDKLQTPLHLQSIVFAGKRLFENHVLAR 343
S +I VKT G+TI L+V+P +T+++VK K+ DK P Q ++FAGK+L + L+
Sbjct: 2 SHMRIVVKTLMGRTIILEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSD 61
Query: 344 YNIQKHS 350
YNI HS
Sbjct: 62 YNIHNHS 68
Score = 47.4 bits (111), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 28/69 (40%), Positives = 41/69 (59%), Gaps = 2/69 (2%)
Query: 60 SEMKLFVKIPTNQTATVVEAMPYHTVQNIKTMIQVKEGIQSDQFTLVYDGKLLKEDTATM 119
S M++ VK +T ++E P T++N+K IQ KEGI DQ L++ GK L ED T+
Sbjct: 2 SHMRIVVKTLMGRT-IILEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQL-EDGRTL 59
Query: 120 TSMNIKSES 128
+ NI + S
Sbjct: 60 SDYNIHNHS 68
Score = 46.2 bits (108), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 26/51 (50%), Positives = 34/51 (66%), Gaps = 1/51 (1%)
Query: 1 MKVKKSEPIKNLKAMIHVKEGISEDICDLFFAGDRLEAGR-LVDYGIRNNS 50
++V+ S+ I+N+KA I KEGI D L FAG +LE GR L DY I N+S
Sbjct: 18 LEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIHNHS 68
Score = 36.6 bits (83), Expect = 0.030, Method: Compositional matrix adjust.
Identities = 21/65 (32%), Positives = 33/65 (50%)
Query: 140 LSIFVKAATGEIVNLEVKHSFAIRDVKAIXXXXXXXXXXDHIMIYEGKKLEDSKTLAFYD 199
+ I VK G + LEV+ S I +VKA +I+ GK+LED +TL+ Y+
Sbjct: 4 MRIVVKTLMGRTIILEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 63
Query: 200 MKDEC 204
+ +
Sbjct: 64 IHNHS 68
>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 = 57.0 bits (136), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 27/50 (54%), Positives = 37/50 (74%)
Query: 286 FQIFVKTWGGKTITLDVQPYNTVQDVKVKLFDKLQTPLHLQSIVFAGKRL 335
QIFVKT GKTITL+V+P +T+++VK K+ DK P Q ++FAGK+L
Sbjct: 3 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQL 52
Score = 44.3 bits (103), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 24/52 (46%), Positives = 34/52 (65%), Gaps = 1/52 (1%)
Query: 62 MKLFVKIPTNQTATVVEAMPYHTVQNIKTMIQVKEGIQSDQFTLVYDGKLLK 113
M++FVK T +T T+ E P T++N+K IQ KEGI DQ L++ GK L+
Sbjct: 3 MQIFVKTLTGKTITL-EVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLE 53
Score = 35.4 bits (80), Expect = 0.059, Method: Compositional matrix adjust.
Identities = 18/37 (48%), Positives = 25/37 (67%)
Query: 1 MKVKKSEPIKNLKAMIHVKEGISEDICDLFFAGDRLE 37
++V+ S+ I+N+KA I KEGI D L FAG +LE
Sbjct: 17 LEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLE 53
Score = 34.3 bits (77), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 19/51 (37%), Positives = 27/51 (52%)
Query: 140 LSIFVKAATGEIVNLEVKHSFAIRDVKAIXXXXXXXXXXDHIMIYEGKKLE 190
+ IFVK TG+ + LEV+ S I +VKA +I+ GK+LE
Sbjct: 3 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLE 53
>pdb|1BT0|A Chain A, Structure Of Ubiquitin-Like Protein, Rub1
Length = 76
Score = 56.6 bits (135), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 27/70 (38%), Positives = 44/70 (62%)
Query: 288 IFVKTWGGKTITLDVQPYNTVQDVKVKLFDKLQTPLHLQSIVFAGKRLFENHVLARYNIQ 347
I VKT GK I +D++P +T+ +K ++ +K P Q +++AGK+L ++ YNI+
Sbjct: 3 IKVKTLTGKEIEIDIEPTDTIDRIKERVEEKEGIPPVQQRLIYAGKQLADDKTAKDYNIE 62
Query: 348 KHSTLHMVLA 357
S LH+VLA
Sbjct: 63 GGSVLHLVLA 72
Score = 40.8 bits (94), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 22/55 (40%), Positives = 30/55 (54%), Gaps = 1/55 (1%)
Query: 81 PYHTVQNIKTMIQVKEGIQSDQFTLVYDGKLLKEDTATMTSMNIKSESIIHLVFC 135
P T+ IK ++ KEGI Q L+Y GK L +D T NI+ S++HLV
Sbjct: 19 PTDTIDRIKERVEEKEGIPPVQQRLIYAGKQLADD-KTAKDYNIEGGSVLHLVLA 72
>pdb|4HCP|B Chain B, Crystal Structure Of Burkholderia Pseudomallei Effector
Protein Chbp In Complex With Nedd8
Length = 78
Score = 52.0 bits (123), Expect = 5e-07, Method: Compositional matrix adjust.
Identities = 25/70 (35%), Positives = 42/70 (60%)
Query: 288 IFVKTWGGKTITLDVQPYNTVQDVKVKLFDKLQTPLHLQSIVFAGKRLFENHVLARYNIQ 347
I VKT GK I +D++P + V+ +K ++ +K P Q ++++GK++ + A Y I
Sbjct: 5 IKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDEKTAADYKIL 64
Query: 348 KHSTLHMVLA 357
S LH+VLA
Sbjct: 65 GGSVLHLVLA 74
Score = 37.4 bits (85), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 20/55 (36%), Positives = 27/55 (49%), Gaps = 1/55 (1%)
Query: 81 PYHTVQNIKTMIQVKEGIQSDQFTLVYDGKLLKEDTATMTSMNIKSESIIHLVFC 135
P V+ IK ++ KEGI Q L+Y GK + D T I S++HLV
Sbjct: 21 PTDKVERIKERVEEKEGIPPQQQRLIYSGKQMN-DEKTAADYKILGGSVLHLVLA 74
>pdb|2BKR|B Chain B, Nedd8 Nedp1 Complex
Length = 77
Score = 52.0 bits (123), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 25/70 (35%), Positives = 42/70 (60%)
Query: 288 IFVKTWGGKTITLDVQPYNTVQDVKVKLFDKLQTPLHLQSIVFAGKRLFENHVLARYNIQ 347
I VKT GK I +D++P + V+ +K ++ +K P Q ++++GK++ + A Y I
Sbjct: 4 IKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDEKTAADYKIL 63
Query: 348 KHSTLHMVLA 357
S LH+VLA
Sbjct: 64 GGSVLHLVLA 73
Score = 37.0 bits (84), Expect = 0.020, Method: Compositional matrix adjust.
Identities = 20/55 (36%), Positives = 27/55 (49%), Gaps = 1/55 (1%)
Query: 81 PYHTVQNIKTMIQVKEGIQSDQFTLVYDGKLLKEDTATMTSMNIKSESIIHLVFC 135
P V+ IK ++ KEGI Q L+Y GK + D T I S++HLV
Sbjct: 20 PTDKVERIKERVEEKEGIPPQQQRLIYSGKQMN-DEKTAADYKILGGSVLHLVLA 73
>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 = 52.0 bits (123), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 25/70 (35%), Positives = 42/70 (60%)
Query: 288 IFVKTWGGKTITLDVQPYNTVQDVKVKLFDKLQTPLHLQSIVFAGKRLFENHVLARYNIQ 347
I VKT GK I +D++P + V+ +K ++ +K P Q ++++GK++ + A Y I
Sbjct: 3 IKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDEKTAADYKIL 62
Query: 348 KHSTLHMVLA 357
S LH+VLA
Sbjct: 63 GGSVLHLVLA 72
Score = 37.0 bits (84), Expect = 0.020, Method: Compositional matrix adjust.
Identities = 20/55 (36%), Positives = 27/55 (49%), Gaps = 1/55 (1%)
Query: 81 PYHTVQNIKTMIQVKEGIQSDQFTLVYDGKLLKEDTATMTSMNIKSESIIHLVFC 135
P V+ IK ++ KEGI Q L+Y GK + D T I S++HLV
Sbjct: 19 PTDKVERIKERVEEKEGIPPQQQRLIYSGKQMN-DEKTAADYKILGGSVLHLVLA 72
>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 = 52.0 bits (123), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 25/70 (35%), Positives = 42/70 (60%)
Query: 288 IFVKTWGGKTITLDVQPYNTVQDVKVKLFDKLQTPLHLQSIVFAGKRLFENHVLARYNIQ 347
I VKT GK I +D++P + V+ +K ++ +K P Q ++++GK++ + A Y I
Sbjct: 9 IKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDEKTAADYKIL 68
Query: 348 KHSTLHMVLA 357
S LH+VLA
Sbjct: 69 GGSVLHLVLA 78
Score = 37.0 bits (84), Expect = 0.020, Method: Compositional matrix adjust.
Identities = 20/55 (36%), Positives = 27/55 (49%), Gaps = 1/55 (1%)
Query: 81 PYHTVQNIKTMIQVKEGIQSDQFTLVYDGKLLKEDTATMTSMNIKSESIIHLVFC 135
P V+ IK ++ KEGI Q L+Y GK + D T I S++HLV
Sbjct: 25 PTDKVERIKERVEEKEGIPPQQQRLIYSGKQMN-DEKTAADYKILGGSVLHLVLA 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 = 52.0 bits (123), Expect = 7e-07, Method: Compositional matrix adjust.
Identities = 25/70 (35%), Positives = 42/70 (60%)
Query: 288 IFVKTWGGKTITLDVQPYNTVQDVKVKLFDKLQTPLHLQSIVFAGKRLFENHVLARYNIQ 347
I VKT GK I +D++P + V+ +K ++ +K P Q ++++GK++ + A Y I
Sbjct: 3 IKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDEKTAADYKIL 62
Query: 348 KHSTLHMVLA 357
S LH+VLA
Sbjct: 63 GGSVLHLVLA 72
Score = 37.4 bits (85), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 20/55 (36%), Positives = 27/55 (49%), Gaps = 1/55 (1%)
Query: 81 PYHTVQNIKTMIQVKEGIQSDQFTLVYDGKLLKEDTATMTSMNIKSESIIHLVFC 135
P V+ IK ++ KEGI Q L+Y GK + D T I S++HLV
Sbjct: 19 PTDKVERIKERVEEKEGIPPQQQRLIYSGKQMN-DEKTAADYKILGGSVLHLVLA 72
>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 = 48.9 bits (115), Expect = 5e-06, Method: Composition-based stats.
Identities = 25/70 (35%), Positives = 42/70 (60%)
Query: 288 IFVKTWGGKTITLDVQPYNTVQDVKVKLFDKLQTPLHLQSIVFAGKRLFENHVLARYNIQ 347
I VKT GK I +D++P + V+ +K ++ +K P Q ++++GK++ + A Y I
Sbjct: 8 IKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDEKTAADYKIL 67
Query: 348 KHSTLHMVLA 357
S LH+VLA
Sbjct: 68 GGSVLHLVLA 77
Score = 35.0 bits (79), Expect = 0.075, Method: Composition-based stats.
Identities = 20/58 (34%), Positives = 29/58 (50%), Gaps = 1/58 (1%)
Query: 77 VEAMPYHTVQNIKTMIQVKEGIQSDQFTLVYDGKLLKEDTATMTSMNIKSESIIHLVF 134
++ P V+ IK ++ KEGI Q L+Y GK + D T I S++HLV
Sbjct: 20 IDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMN-DEKTAADYKILGGSVLHLVL 76
>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 = 48.9 bits (115), Expect = 6e-06, Method: Composition-based stats.
Identities = 25/70 (35%), Positives = 41/70 (58%)
Query: 288 IFVKTWGGKTITLDVQPYNTVQDVKVKLFDKLQTPLHLQSIVFAGKRLFENHVLARYNIQ 347
I VKT GK I +D++P + V+ +K ++ +K P Q ++++GK+ + A Y I
Sbjct: 8 IKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQXNDEKTAADYKIX 67
Query: 348 KHSTLHMVLA 357
S LH+VLA
Sbjct: 68 GGSVLHLVLA 77
Score = 35.4 bits (80), Expect = 0.064, Method: Composition-based stats.
Identities = 20/58 (34%), Positives = 28/58 (48%), Gaps = 1/58 (1%)
Query: 77 VEAMPYHTVQNIKTMIQVKEGIQSDQFTLVYDGKLLKEDTATMTSMNIKSESIIHLVF 134
++ P V+ IK ++ KEGI Q L+Y GK D T I S++HLV
Sbjct: 20 IDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGK-QXNDEKTAADYKIXGGSVLHLVL 76
>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 = 48.1 bits (113), Expect = 9e-06, Method: Composition-based stats.
Identities = 24/69 (34%), Positives = 41/69 (59%)
Query: 288 IFVKTWGGKTITLDVQPYNTVQDVKVKLFDKLQTPLHLQSIVFAGKRLFENHVLARYNIQ 347
I VKT GK I +D++P + V+ +K ++ +K P Q ++++GK++ + A Y I
Sbjct: 15 IKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDEKTAADYKIL 74
Query: 348 KHSTLHMVL 356
S LH+VL
Sbjct: 75 GGSVLHLVL 83
Score = 35.8 bits (81), Expect = 0.049, Method: Composition-based stats.
Identities = 20/58 (34%), Positives = 29/58 (50%), Gaps = 1/58 (1%)
Query: 77 VEAMPYHTVQNIKTMIQVKEGIQSDQFTLVYDGKLLKEDTATMTSMNIKSESIIHLVF 134
++ P V+ IK ++ KEGI Q L+Y GK + D T I S++HLV
Sbjct: 27 IDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMN-DEKTAADYKILGGSVLHLVL 83
>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 = 48.1 bits (113), Expect = 9e-06, Method: Composition-based stats.
Identities = 24/69 (34%), Positives = 41/69 (59%)
Query: 288 IFVKTWGGKTITLDVQPYNTVQDVKVKLFDKLQTPLHLQSIVFAGKRLFENHVLARYNIQ 347
I VKT GK I +D++P + V+ +K ++ +K P Q ++++GK++ + A Y I
Sbjct: 15 IKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDEKTAADYKIL 74
Query: 348 KHSTLHMVL 356
S LH+VL
Sbjct: 75 GGSVLHLVL 83
Score = 35.4 bits (80), Expect = 0.054, Method: Composition-based stats.
Identities = 20/58 (34%), Positives = 29/58 (50%), Gaps = 1/58 (1%)
Query: 77 VEAMPYHTVQNIKTMIQVKEGIQSDQFTLVYDGKLLKEDTATMTSMNIKSESIIHLVF 134
++ P V+ IK ++ KEGI Q L+Y GK + D T I S++HLV
Sbjct: 27 IDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMN-DEKTAADYKILGGSVLHLVL 83
>pdb|2DZI|A Chain A, 2dziSOLUTION STRUCTURE OF THE N-Terminal Ubiquitin-Like
Domain In Human Ubiquitin-Like Protein 4a (Gdx)
Length = 81
Score = 41.2 bits (95), Expect = 0.001, Method: Composition-based stats.
Identities = 24/75 (32%), Positives = 40/75 (53%)
Query: 284 SPFQIFVKTWGGKTITLDVQPYNTVQDVKVKLFDKLQTPLHLQSIVFAGKRLFENHVLAR 343
S Q+ VK G+ +L V V +K + +KL P+ Q ++F GK L + L+
Sbjct: 6 SGMQLTVKALQGRECSLQVPEDELVSTLKQLVSEKLNVPVRQQRLLFKGKALADGKRLSD 65
Query: 344 YNIQKHSTLHMVLAP 358
Y+I +S L++V+ P
Sbjct: 66 YSIGPNSKLNLVVKP 80
>pdb|3M63|B Chain B, Crystal Structure Of Ufd2 In Complex With The
Ubiquitin-Like (Ubl) Domain Of Dsk2
Length = 101
Score = 39.7 bits (91), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 30/93 (32%), Positives = 41/93 (44%), Gaps = 5/93 (5%)
Query: 41 LVDYGIRNNSTLHFLHQNLSEMKLFVKIPTNQTATVVEAMPYHTVQNIKTMIQVKEGIQS 100
+ DY I L+F M L + I + Q V P TV K I GI
Sbjct: 10 MSDYDIPTTENLYFQ----GAMSLNIHIKSGQDKWEVNVAPESTVLQFKEAINKANGIPV 65
Query: 101 DQFTLVYDGKLLKEDTATMTSMNIKSESIIHLV 133
L+Y GK+LK+D T+ S +I+ +HLV
Sbjct: 66 ANQRLIYSGKILKDDQ-TVESYHIQDGHSVHLV 97
Score = 29.6 bits (65), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 18/70 (25%), Positives = 36/70 (51%), Gaps = 1/70 (1%)
Query: 286 FQIFVKTWGGKTITLDVQPYNTVQDVKVKLFDKLQTPLHLQSIVFAGKRLFENHVLARYN 345
I +K+ G ++V P +TV K + P+ Q ++++GK L ++ + Y+
Sbjct: 29 LNIHIKS-GQDKWEVNVAPESTVLQFKEAINKANGIPVANQRLIYSGKILKDDQTVESYH 87
Query: 346 IQKHSTLHMV 355
IQ ++H+V
Sbjct: 88 IQDGHSVHLV 97
>pdb|1WIA|A Chain A, Solution Structure Of Mouse Hypothetical Ubiquitin-Like
Protein Bab25500
Length = 95
Score = 37.7 bits (86), Expect = 0.011, Method: Composition-based stats.
Identities = 21/61 (34%), Positives = 34/61 (55%), Gaps = 3/61 (4%)
Query: 71 NQTATVVEAMPYHTVQNIKTMIQVKEGIQSDQFTLVYDGKLLKEDTATMTSMNIKSESII 130
N T + A P TV +K+ + G Q Q L+Y G+LL++ T++S+NI + +I
Sbjct: 16 NDTEELAVARPEDTVGTLKS--KYFPG-QESQMKLIYQGRLLQDPARTLSSLNITNNCVI 72
Query: 131 H 131
H
Sbjct: 73 H 73
>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 = 37.4 bits (85), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 25/73 (34%), Positives = 35/73 (47%), Gaps = 1/73 (1%)
Query: 61 EMKLFVKIPTNQTATVVEAMPYHTVQNIKTMIQVKEGIQSDQFTLVYDGKLLKEDTATMT 120
+M L + I + Q V P TV K I GI L+Y GK+LK+D T+
Sbjct: 2 DMSLNIHIKSGQDKWEVNVAPESTVLQFKEAINKANGIPVANQRLIYSGKILKDDQ-TVE 60
Query: 121 SMNIKSESIIHLV 133
S +I+ +HLV
Sbjct: 61 SYHIQDGHSVHLV 73
Score = 29.6 bits (65), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 18/70 (25%), Positives = 36/70 (51%), Gaps = 1/70 (1%)
Query: 286 FQIFVKTWGGKTITLDVQPYNTVQDVKVKLFDKLQTPLHLQSIVFAGKRLFENHVLARYN 345
I +K+ G ++V P +TV K + P+ Q ++++GK L ++ + Y+
Sbjct: 5 LNIHIKS-GQDKWEVNVAPESTVLQFKEAINKANGIPVANQRLIYSGKILKDDQTVESYH 63
Query: 346 IQKHSTLHMV 355
IQ ++H+V
Sbjct: 64 IQDGHSVHLV 73
>pdb|2KD0|A Chain A, Nmr Solution Structure Of O64736 Protein From Arabidopsis
Thaliana. Northeast Structural Genomics Consortium Mega
Target Ar3445a
Length = 85
Score = 35.8 bits (81), Expect = 0.043, Method: Compositional matrix adjust.
Identities = 20/63 (31%), Positives = 33/63 (52%)
Query: 293 WGGKTITLDVQPYNTVQDVKVKLFDKLQTPLHLQSIVFAGKRLFENHVLARYNIQKHSTL 352
+GGK+I L V P TV+D+K +L Q ++F GK L E L + ++ + L
Sbjct: 19 FGGKSIPLSVSPDCTVKDLKSQLQPITNVLPRGQKLIFKGKVLVETSTLKQSDVGSGAKL 78
Query: 353 HMV 355
++
Sbjct: 79 MLM 81
>pdb|1P1A|A Chain A, Nmr Structure Of Ubiquitin-Like Domain Of Hhr23b
Length = 85
Score = 35.4 bits (80), Expect = 0.062, Method: Compositional matrix adjust.
Identities = 25/81 (30%), Positives = 43/81 (53%), Gaps = 4/81 (4%)
Query: 284 SPFQIFVKTWGGKTITLDVQPYNTVQDVKVKLFD---KLQTPLHLQSIVFAGKRLFENHV 340
S Q+ +KT +T +D+ P TV+ +K K+ K P+ Q +++AGK L ++
Sbjct: 2 SHMQVTLKTLQQQTFKIDIDPEETVKALKEKIESEKGKDAFPVAGQKLIYAGKILNDDTA 61
Query: 341 LARYNI-QKHSTLHMVLAPSS 360
L Y I +K+ + MV P +
Sbjct: 62 LKEYKIDEKNFVVVMVTKPKA 82
>pdb|1UEL|A Chain A, Solution Structure Of Ubiquitin-Like Domain Of Hhr23b
Complexed With Ubiquitin-Interacting Motif Of Proteasome
Subunit S5a
Length = 95
Score = 35.4 bits (80), Expect = 0.067, Method: Compositional matrix adjust.
Identities = 24/79 (30%), Positives = 42/79 (53%), Gaps = 4/79 (5%)
Query: 286 FQIFVKTWGGKTITLDVQPYNTVQDVKVKLFD---KLQTPLHLQSIVFAGKRLFENHVLA 342
Q+ +KT +T +D+ P TV+ +K K+ K P+ Q +++AGK L ++ L
Sbjct: 1 MQVTLKTLQQQTFKIDIDPEETVKALKEKIESEKGKDAFPVAGQKLIYAGKILNDDTALK 60
Query: 343 RYNI-QKHSTLHMVLAPSS 360
Y I +K+ + MV P +
Sbjct: 61 EYKIDEKNFVVVMVTKPKA 79
>pdb|1IYF|A Chain A, Solution Structure Of Ubiquitin-Like Domain Of Human
Parkin
Length = 81
Score = 35.0 bits (79), Expect = 0.082, Method: Composition-based stats.
Identities = 20/78 (25%), Positives = 44/78 (56%), Gaps = 2/78 (2%)
Query: 59 LSEMKLFVKIPTNQTATVVEAMPYHTVQNIKTMIQVKEGIQSDQFTLVYDGKLLKEDTAT 118
L M +FV+ ++ VE ++ +K ++ ++G+ +DQ +++ GK L+ D T
Sbjct: 3 LGSMIVFVRFNSSH-GFPVEVDSDTSIFQLKEVVAKRQGVPADQLRVIFAGKELRNDW-T 60
Query: 119 MTSMNIKSESIIHLVFCP 136
+ + ++ +SI+H+V P
Sbjct: 61 VQNCDLDQQSIVHIVQRP 78
>pdb|2KNB|A Chain A, Solution Nmr Structure Of The Parkin Ubl Domain In Complex
With The Endophilin-A1 Sh3 Domain
Length = 81
Score = 32.3 bits (72), Expect = 0.58, Method: Composition-based stats.
Identities = 19/79 (24%), Positives = 45/79 (56%), Gaps = 2/79 (2%)
Query: 59 LSEMKLFVKIPTNQTATVVEAMPYHTVQNIKTMIQVKEGIQSDQFTLVYDGKLLKEDTAT 118
L M +FV+ + VE ++ +K ++ ++G+ +DQ +++ GK L ++ T
Sbjct: 3 LGSMIVFVRF-NSSYGFPVEVDSDTSIFQLKEVVAKRQGVPADQLRVIFAGKEL-QNHLT 60
Query: 119 MTSMNIKSESIIHLVFCPK 137
+ + +++ +SI+H+V P+
Sbjct: 61 VQNCDLEQQSIVHIVQRPQ 79
>pdb|2YPD|A Chain A, Crystal Structure Of The Jumonji Domain Of Human Jumonji
Domain Containing 1c Protein
pdb|2YPD|B Chain B, Crystal Structure Of The Jumonji Domain Of Human Jumonji
Domain Containing 1c Protein
Length = 392
Score = 32.0 bits (71), Expect = 0.63, Method: Compositional matrix adjust.
Identities = 26/102 (25%), Positives = 42/102 (41%), Gaps = 21/102 (20%)
Query: 30 FFAGDRLEAGRLVDYGIRNNSTLHFLHQNLSEMKLFVKIPTNQTATVVEAMPYHTVQNIK 89
++ +L L +YG+R + + FL A V+ A H VQN
Sbjct: 274 WYVNKKLRQRLLEEYGVRTCTLIQFL----------------GDAIVLPAGALHQVQNFH 317
Query: 90 TMIQVKEGIQS-----DQFTLVYDGKLLKEDTATMTSMNIKS 126
+ IQV E S + F L + +LLKE+ + +K+
Sbjct: 318 SCIQVTEDFVSPEHLVESFHLTQELRLLKEEINYDDKLQVKN 359
>pdb|3ZEY|9 Chain 9, High-resolution Cryo-electron Microscopy Structure Of The
Trypanosoma Brucei Ribosome
Length = 153
Score = 32.0 bits (71), Expect = 0.70, Method: Compositional matrix adjust.
Identities = 19/72 (26%), Positives = 35/72 (48%), Gaps = 5/72 (6%)
Query: 62 MKLFVKIPTNQTATVVEAMPYHTVQNIKTMIQVKEGIQSDQFTLVYDGKLLKEDTATMTS 121
M+LF++ T T +VVEA TV ++ K G + G L+E++AT+
Sbjct: 1 MQLFLRSATGAT-SVVEASAADTVGTLR----AKAGFDDTSSIFFFGGFCLREESATLAE 55
Query: 122 MNIKSESIIHLV 133
++ S + ++
Sbjct: 56 CGLQQGSTVQVM 67
>pdb|3SDL|C Chain C, Crystal Structure Of Human Isg15 In Complex With Ns1
N-Terminal Region From Influenza B Virus, Northeast
Structural Genomics Consortium Target Ids Hx6481,
Hr2873, And Or2
pdb|3SDL|D Chain D, Crystal Structure Of Human Isg15 In Complex With Ns1
N-Terminal Region From Influenza B Virus, Northeast
Structural Genomics Consortium Target Ids Hx6481,
Hr2873, And Or2
Length = 164
Score = 31.6 bits (70), Expect = 0.91, Method: Compositional matrix adjust.
Identities = 31/117 (26%), Positives = 48/117 (41%), Gaps = 4/117 (3%)
Query: 88 IKTMIQVKEGIQSDQFTL-VYDGKLLKEDTATMTSMNIKSESIIHLVF--CPKEILSIFV 144
+K I K G+ + Q L V+ + +D + S + S + LV C E LSI V
Sbjct: 35 LKAQITQKIGVHAFQQRLAVHPSGVALQDRVPLASQGLGPGSTVLLVVDKC-DEPLSILV 93
Query: 145 KAATGEIVNLEVKHSFAIRDVKAIXXXXXXXXXXDHIMIYEGKKLEDSKTLAFYDMK 201
+ G EV+ + + +K + +EGK LED L Y +K
Sbjct: 94 RNNKGRSSTYEVRLTQTVAHLKQQVSGLEGVQDDLFWLTFEGKPLEDQLPLGEYGLK 150
Score = 29.6 bits (65), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 16/50 (32%), Positives = 26/50 (52%), Gaps = 1/50 (2%)
Query: 83 HTVQNIKTMIQVKEGIQSDQFTLVYDGKLLKEDTATMTSMNIKSESIIHL 132
TV ++K + EG+Q D F L ++GK L ED + +K S + +
Sbjct: 109 QTVAHLKQQVSGLEGVQDDLFWLTFEGKPL-EDQLPLGEYGLKPLSTVFM 157
>pdb|2ZEQ|A Chain A, Crystal Structure Of Ubiquitin-Like Domain Of Murine
Parkin
pdb|1MG8|A Chain A, Nmr Structure Of Ubiquitin-Like Domain In Murine Parkin
Length = 78
Score = 31.2 bits (69), Expect = 1.1, Method: Composition-based stats.
Identities = 13/54 (24%), Positives = 35/54 (64%), Gaps = 1/54 (1%)
Query: 84 TVQNIKTMIQVKEGIQSDQFTLVYDGKLLKEDTATMTSMNIKSESIIHLVFCPK 137
++ +K ++ ++G+ +DQ +++ GK L + T+ + +++ +SI+H+V P+
Sbjct: 24 SILQLKEVVAKRQGVPADQLRVIFAGKELP-NHLTVQNCDLEQQSIVHIVQRPR 76
>pdb|2KLC|A Chain A, Nmr Solution Structure Of Human Ubiquitin-Like Domain Of
Ubiquilin 1, Northeast Structural Genomics Consortium
(Nesg) Target Ht5a
Length = 101
Score = 30.8 bits (68), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 23/72 (31%), Positives = 34/72 (47%), Gaps = 3/72 (4%)
Query: 62 MKLFVKIPTNQTATVVEAMPYHTVQNIKTMIQVKEGIQSDQFTLVYDGKLLKEDTATMTS 121
MK+ VK P + V +VQ K I + +DQ L++ GK+LK D T++
Sbjct: 26 MKVTVKTPKEKEEFAVPENS--SVQQFKEEISKRFKSHTDQLVLIFAGKILK-DQDTLSQ 82
Query: 122 MNIKSESIIHLV 133
I +HLV
Sbjct: 83 HGIHDGLTVHLV 94
>pdb|3B1L|X Chain X, Crystal Structure Of Parkin Ubiquitin-Like Domain R33q
Mutant
Length = 76
Score = 30.8 bits (68), Expect = 1.7, Method: Composition-based stats.
Identities = 13/54 (24%), Positives = 35/54 (64%), Gaps = 1/54 (1%)
Query: 84 TVQNIKTMIQVKEGIQSDQFTLVYDGKLLKEDTATMTSMNIKSESIIHLVFCPK 137
++ +K ++ ++G+ +DQ +++ GK L + T+ + +++ +SI+H+V P+
Sbjct: 22 SILQLKEVVAKQQGVPADQLRVIFAGKELP-NHLTVQNCDLEQQSIVHIVQRPR 74
>pdb|1Z2M|A Chain A, Crystal Structure Of Isg15, The Interferon-Induced
Ubiquitin Cross Reactive Protein
Length = 155
Score = 30.4 bits (67), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 30/116 (25%), Positives = 47/116 (40%), Gaps = 2/116 (1%)
Query: 88 IKTMIQVKEGIQSDQFTL-VYDGKLLKEDTATMTSMNIKSESIIHLVF-CPKEILSIFVK 145
+K I K G+ + Q L V+ + +D + S + S + LV E LSI V+
Sbjct: 28 LKAQITQKIGVHAFQQRLAVHPSGVALQDRVPLASQGLGPGSTVLLVVDKSDEPLSILVR 87
Query: 146 AATGEIVNLEVKHSFAIRDVKAIXXXXXXXXXXDHIMIYEGKKLEDSKTLAFYDMK 201
G EV+ + + +K + +EGK LED L Y +K
Sbjct: 88 NNKGRSSTYEVRLTQTVAHLKQQVSGLEGVQDDLFWLTFEGKPLEDQLPLGEYGLK 143
Score = 29.6 bits (65), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 16/50 (32%), Positives = 26/50 (52%), Gaps = 1/50 (2%)
Query: 83 HTVQNIKTMIQVKEGIQSDQFTLVYDGKLLKEDTATMTSMNIKSESIIHL 132
TV ++K + EG+Q D F L ++GK L ED + +K S + +
Sbjct: 102 QTVAHLKQQVSGLEGVQDDLFWLTFEGKPL-EDQLPLGEYGLKPLSTVFM 150
>pdb|3RT3|B Chain B, Complex Of Influenza Virus Protein With Host Anti-Viral
Factor
Length = 159
Score = 30.4 bits (67), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 30/116 (25%), Positives = 47/116 (40%), Gaps = 2/116 (1%)
Query: 88 IKTMIQVKEGIQSDQFTL-VYDGKLLKEDTATMTSMNIKSESIIHLVF-CPKEILSIFVK 145
+K I K G+ + Q L V+ + +D + S + S + LV E LSI V+
Sbjct: 28 LKAQITQKIGVHAFQQRLAVHPSGVALQDRVPLASQGLGPGSTVLLVVDKSDEPLSILVR 87
Query: 146 AATGEIVNLEVKHSFAIRDVKAIXXXXXXXXXXDHIMIYEGKKLEDSKTLAFYDMK 201
G EV+ + + +K + +EGK LED L Y +K
Sbjct: 88 NNKGRSSTYEVRLTQTVAHLKQQVSGLEGVQDDLFWLTFEGKPLEDQLPLGEYGLK 143
Score = 29.6 bits (65), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 16/50 (32%), Positives = 26/50 (52%), Gaps = 1/50 (2%)
Query: 83 HTVQNIKTMIQVKEGIQSDQFTLVYDGKLLKEDTATMTSMNIKSESIIHL 132
TV ++K + EG+Q D F L ++GK L ED + +K S + +
Sbjct: 102 QTVAHLKQQVSGLEGVQDDLFWLTFEGKPL-EDQLPLGEYGLKPLSTVFM 150
>pdb|1WH3|A Chain A, Solution Structure Of C-Terminal Ubiquitin Like Domain Of
Human 2'-5'-Oligoadenylate Synthetase-Like Protain (P59
Oasl)
Length = 87
Score = 30.4 bits (67), Expect = 1.9, Method: Composition-based stats.
Identities = 20/69 (28%), Positives = 32/69 (46%)
Query: 284 SPFQIFVKTWGGKTITLDVQPYNTVQDVKVKLFDKLQTPLHLQSIVFAGKRLFENHVLAR 343
S Q+FVK G + + P + + +K ++ D+ P Q + F G+ L + L
Sbjct: 6 SGIQVFVKNPDGGSYAYAINPNSFILGLKQQIEDQQGLPKKQQQLEFQGQVLQDWLGLGI 65
Query: 344 YNIQKHSTL 352
Y IQ TL
Sbjct: 66 YGIQDSDTL 74
>pdb|1J8C|A Chain A, Solution Structure Of The Ubiquitin-Like Domain Of Hplic-2
Length = 125
Score = 30.4 bits (67), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 23/72 (31%), Positives = 34/72 (47%), Gaps = 3/72 (4%)
Query: 62 MKLFVKIPTNQTATVVEAMPYHTVQNIKTMIQVKEGIQSDQFTLVYDGKLLKEDTATMTS 121
+K+ VK P + V +VQ K I + Q+DQ L++ GK+LK D T+
Sbjct: 33 IKVTVKTPKEKEEFAVPE--NSSVQQFKEAISKRFKSQTDQLVLIFAGKILK-DQDTLIQ 89
Query: 122 MNIKSESIIHLV 133
I +HLV
Sbjct: 90 HGIHDGLTVHLV 101
>pdb|3R66|C Chain C, Crystal Structure Of Human Isg15 In Complex With Ns1
N-Terminal Region From Influenza Virus B, Northeast
Structural Genomics Consortium Target Ids Hx6481,
Hr2873, And Or2
pdb|3R66|D Chain D, Crystal Structure Of Human Isg15 In Complex With Ns1
N-Terminal Region From Influenza Virus B, Northeast
Structural Genomics Consortium Target Ids Hx6481,
Hr2873, And Or2
Length = 164
Score = 30.0 bits (66), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 30/116 (25%), Positives = 47/116 (40%), Gaps = 2/116 (1%)
Query: 88 IKTMIQVKEGIQSDQFTL-VYDGKLLKEDTATMTSMNIKSESIIHLVFCPK-EILSIFVK 145
+K I K G+ + Q L V+ + +D + S + S + LV E LSI V+
Sbjct: 35 LKAQITQKIGVHAFQQRLAVHPSGVALQDRVPLASQGLGPGSTVLLVVDKXDEPLSILVR 94
Query: 146 AATGEIVNLEVKHSFAIRDVKAIXXXXXXXXXXDHIMIYEGKKLEDSKTLAFYDMK 201
G EV+ + + +K + +EGK LED L Y +K
Sbjct: 95 NNKGRSSTYEVRLTQTVAHLKQQVSGLEGVQDDLFWLTFEGKPLEDQLPLGEYGLK 150
Score = 29.6 bits (65), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 16/50 (32%), Positives = 26/50 (52%), Gaps = 1/50 (2%)
Query: 83 HTVQNIKTMIQVKEGIQSDQFTLVYDGKLLKEDTATMTSMNIKSESIIHL 132
TV ++K + EG+Q D F L ++GK L ED + +K S + +
Sbjct: 109 QTVAHLKQQVSGLEGVQDDLFWLTFEGKPL-EDQLPLGEYGLKPLSTVFM 157
>pdb|1WX7|A Chain A, Solution Structure Of The N-Terminal Ubiquitin-Like Domain
In The Human Ubiquilin 3 (Ubqln3)
Length = 106
Score = 30.0 bits (66), Expect = 2.7, Method: Composition-based stats.
Identities = 20/72 (27%), Positives = 35/72 (48%), Gaps = 3/72 (4%)
Query: 62 MKLFVKIPTNQTATVVEAMPYHTVQNIKTMIQVKEGIQSDQFTLVYDGKLLKEDTATMTS 121
+K+ VK P ++ V T+Q +K I + DQ L++ GK+LK D ++
Sbjct: 18 IKVTVKTPKDKEDFSVTDTC--TIQQLKEEISQRFKAHPDQLVLIFAGKILK-DPDSLAQ 74
Query: 122 MNIKSESIIHLV 133
++ +HLV
Sbjct: 75 CGVRDGLTVHLV 86
>pdb|1YQB|A Chain A, Human Ubiquilin 3
Length = 100
Score = 29.6 bits (65), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 15/51 (29%), Positives = 26/51 (50%), Gaps = 1/51 (1%)
Query: 84 TVQNIKTMIQVKEGIQSDQFTLVYDGKLLKEDTATMTSMNIKSESIIHLVF 134
T+Q +K I + DQ L++ GK+LK D ++ ++ +HLV
Sbjct: 43 TIQQLKEEISQRFKAHPDQLVLIFAGKILK-DPDSLAQCGVRDGLTVHLVI 92
>pdb|3PSE|B Chain B, Structure Of A Viral Otu Domain Protease Bound To
Interferon- Stimulated Gene 15 (Isg15)
Length = 156
Score = 29.6 bits (65), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 16/50 (32%), Positives = 26/50 (52%), Gaps = 1/50 (2%)
Query: 83 HTVQNIKTMIQVKEGIQSDQFTLVYDGKLLKEDTATMTSMNIKSESIIHL 132
TV ++K + EG+Q D F L ++GK L ED + +K S + +
Sbjct: 102 QTVAHLKQQVSGLEGVQDDLFWLTFEGKPL-EDQLPLGEYGLKPLSTVFM 150
Score = 29.3 bits (64), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 29/116 (25%), Positives = 47/116 (40%), Gaps = 2/116 (1%)
Query: 88 IKTMIQVKEGIQSDQFTL-VYDGKLLKEDTATMTSMNIKSESIIHLVF-CPKEILSIFVK 145
+K I K G+ + Q L V+ + +D + S + S + LV E L+I V+
Sbjct: 28 LKAQITQKIGVHAFQQRLAVHPSGVALQDRVPLASQGLGPGSTVLLVVDKSDEPLNILVR 87
Query: 146 AATGEIVNLEVKHSFAIRDVKAIXXXXXXXXXXDHIMIYEGKKLEDSKTLAFYDMK 201
G EV+ + + +K + +EGK LED L Y +K
Sbjct: 88 NNKGRSSTYEVRLTQTVAHLKQQVSGLEGVQDDLFWLTFEGKPLEDQLPLGEYGLK 143
>pdb|2HJ8|A Chain A, Solution Nmr Structure Of The C-Terminal Domain Of The
Interferon Alpha-Inducible Isg15 Protein From Homo
Sapiens. Northeast Structural Genomics Target Hr2873b
Length = 88
Score = 29.3 bits (64), Expect = 4.9, Method: Composition-based stats.
Identities = 17/59 (28%), Positives = 29/59 (49%), Gaps = 1/59 (1%)
Query: 74 ATVVEAMPYHTVQNIKTMIQVKEGIQSDQFTLVYDGKLLKEDTATMTSMNIKSESIIHL 132
++ E TV ++K + EG+Q D F L ++GK L ED + +K S + +
Sbjct: 16 SSTYEVRLTQTVAHLKQQVSGLEGVQDDLFWLTFEGKPL-EDQLPLGEYGLKPLSTVFM 73
>pdb|3PHX|B Chain B, Otu Domain Of Crimean Congo Hemorrhagic Fever Virus In
Complex With Isg15
Length = 79
Score = 28.9 bits (63), Expect = 5.0, Method: Composition-based stats.
Identities = 17/59 (28%), Positives = 29/59 (49%), Gaps = 1/59 (1%)
Query: 74 ATVVEAMPYHTVQNIKTMIQVKEGIQSDQFTLVYDGKLLKEDTATMTSMNIKSESIIHL 132
++ E TV ++K + EG+Q D F L ++GK L ED + +K S + +
Sbjct: 16 SSTYEVRLTQTVAHLKQQVSGLEGVQDDLFWLTFEGKPL-EDQLPLGEYGLKPLSTVFM 73
>pdb|1WY8|A Chain A, Solution Structure Of The N-Terminal Ubiquitin-Like Domain
In Human Np95ICBP90-Like Ring Finger Protein (Nirf)
Length = 89
Score = 28.5 bits (62), Expect = 7.5, Method: Composition-based stats.
Identities = 15/68 (22%), Positives = 35/68 (51%), Gaps = 1/68 (1%)
Query: 294 GGKTITL-DVQPYNTVQDVKVKLFDKLQTPLHLQSIVFAGKRLFENHVLARYNIQKHSTL 352
G KT T+ DV T+++++ +++ Q + + GK+L + L Y++ + +
Sbjct: 17 GSKTCTIEDVSRKATIEELRERVWALFDVRPECQRLFYRGKQLENGYTLFDYDVGLNDII 76
Query: 353 HMVLAPSS 360
+++ P S
Sbjct: 77 QLLVRPDS 84
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.321 0.136 0.381
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,063,442
Number of Sequences: 62578
Number of extensions: 355572
Number of successful extensions: 1600
Number of sequences better than 100.0: 115
Number of HSP's better than 100.0 without gapping: 98
Number of HSP's successfully gapped in prelim test: 17
Number of HSP's that attempted gapping in prelim test: 869
Number of HSP's gapped (non-prelim): 517
length of query: 426
length of database: 14,973,337
effective HSP length: 102
effective length of query: 324
effective length of database: 8,590,381
effective search space: 2783283444
effective search space used: 2783283444
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 53 (25.0 bits)