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= 017906
(364 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1OQY|A Chain A, Structure Of The Dna Repair Protein Hhr23a
pdb|1QZE|A Chain A, Hhr23a Protein Structure Based On Residual Dipolar
Coupling Data
Length = 368
Score = 96.3 bits (238), Expect = 3e-20, Method: Compositional matrix adjust.
Identities = 76/215 (35%), Positives = 107/215 (49%), Gaps = 55/215 (25%)
Query: 162 AASNLVAGSNLEATVQQILDMGGGSWDRETVIRALRAAYNNPERAVEYLYSGI-----PE 216
AAS LV GS E + +I+ MG ++RE V+ ALRA+YNNP RAVEYL +GI PE
Sbjct: 158 AASTLVTGSEYETMLTEIMSMG---YERERVVAALRASYNNPHRAVEYLLTGIPGSPEPE 214
Query: 217 QTAVPPVARXXXXXXXXXXXXXXXXXXXXXXXXXXXXNANPLDLFPQGLPNMGSNAGAGT 276
+V + P AG
Sbjct: 215 HGSV----------------------------QESQVSEQP----------ATEAAGENP 236
Query: 277 LDFLRNSQQFQALRTMVQANPQILQPMLQELGKQNPHLMRLIQEHQTDFLRLINEP---- 332
L+FLR+ QFQ +R ++Q NP +L +LQ+LG++NP L++ I HQ F++++NEP
Sbjct: 237 LEFLRDQPQFQNMRQVIQQNPALLPALLQQLGQENPQLLQQISRHQEQFIQMLNEPPGEL 296
Query: 333 --VEGGEGNVLGQLASAMPQA--VTVTPEEREAIE 363
+ EG V G + PQ + VTP+E+EAIE
Sbjct: 297 ADISDVEGEV-GAIGEEAPQMNYIQVTPQEKEAIE 330
Score = 58.5 bits (140), Expect = 6e-09, Method: Compositional matrix adjust.
Identities = 26/72 (36%), Positives = 47/72 (65%)
Query: 3 VFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEEN 62
+ +KTL+ F+I ++P++ V +K+ IE +G D +P + Q LI+ GK+L D + +
Sbjct: 10 ITLKTLQQQTFKIRMEPDETVKVLKEKIEAEKGRDAFPVAGQKLIYAGKILSDDVPIRDY 69
Query: 63 KVAENSFVVVML 74
++ E +FVVVM+
Sbjct: 70 RIDEKNFVVVMV 81
>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 = 67.8 bits (164), Expect = 8e-12, Method: Compositional matrix adjust.
Identities = 33/74 (44%), Positives = 52/74 (70%)
Query: 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLE 60
M+V +KTL+ F+I++ PE+ V +K+ IE+ +G D +P + Q LI+ GK+L D T L+
Sbjct: 1 MQVTLKTLQQQTFKIDIDPEETVKALKEKIESEKGKDAFPVAGQKLIYAGKILNDDTALK 60
Query: 61 ENKVAENSFVVVML 74
E K+ E +FVVVM+
Sbjct: 61 EYKIDEKNFVVVMV 74
>pdb|1P1A|A Chain A, Nmr Structure Of Ubiquitin-Like Domain Of Hhr23b
Length = 85
Score = 67.0 bits (162), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 33/74 (44%), Positives = 52/74 (70%)
Query: 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLE 60
M+V +KTL+ F+I++ PE+ V +K+ IE+ +G D +P + Q LI+ GK+L D T L+
Sbjct: 4 MQVTLKTLQQQTFKIDIDPEETVKALKEKIESEKGKDAFPVAGQKLIYAGKILNDDTALK 63
Query: 61 ENKVAENSFVVVML 74
E K+ E +FVVVM+
Sbjct: 64 EYKIDEKNFVVVMV 77
>pdb|1PVE|A Chain A, Solution Structure Of Xpc Binding Domain Of Hhr23b
Length = 72
Score = 63.9 bits (154), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 27/58 (46%), Positives = 45/58 (77%)
Query: 277 LDFLRNSQQFQALRTMVQANPQILQPMLQELGKQNPHLMRLIQEHQTDFLRLINEPVE 334
L+FLRN QFQ +R ++Q NP +L +LQ++G++NP L++ I +HQ F++++NEPV+
Sbjct: 6 LEFLRNQPQFQQMRQIIQQNPSLLPALLQQIGRENPQLLQQISQHQEHFIQMLNEPVQ 63
>pdb|2F4M|B Chain B, The Mouse Pngase-Hr23 Complex Reveals A Complete
Remodulation Of The Protein-Protein Interface Compared
To Its Yeast Orthologs
pdb|2F4O|B Chain B, The Mouse Pngase-Hr23 Complex Reveals A Complete
Remodulation Of The Protein-Protein Interface Compared
To Its Yeast Orthologs
Length = 61
Score = 62.8 bits (151), Expect = 3e-10, Method: Compositional matrix adjust.
Identities = 27/57 (47%), Positives = 44/57 (77%)
Query: 277 LDFLRNSQQFQALRTMVQANPQILQPMLQELGKQNPHLMRLIQEHQTDFLRLINEPV 333
L+FLRN QFQ +R ++Q NP +L +LQ++G++NP L++ I +HQ F++++NEPV
Sbjct: 4 LEFLRNQPQFQQMRQIIQQNPSLLPALLQQIGRENPQLLQQISQHQEHFIQMLNEPV 60
>pdb|1IFY|A Chain A, Solution Structure Of The Internal Uba Domain Of Hhr23a
Length = 49
Score = 59.3 bits (142), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 28/51 (54%), Positives = 36/51 (70%), Gaps = 3/51 (5%)
Query: 165 NLVAGSNLEATVQQILDMGGGSWDRETVIRALRAAYNNPERAVEYLYSGIP 215
LV GS E + +I+ MG ++RE V+ ALRA+YNNP RAVEYL +GIP
Sbjct: 1 TLVTGSEYETMLTEIMSMG---YERERVVAALRASYNNPHRAVEYLLTGIP 48
>pdb|2WYQ|A Chain A, The Crystal Structure Of The Ubiquitin-Like (Ubl) Domain
Of Hhr23a (Human Homologue A Of Rad23)
Length = 85
Score = 55.5 bits (132), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 26/72 (36%), Positives = 47/72 (65%)
Query: 3 VFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEEN 62
+ +KTL+ F+I ++P++ V +K+ IE +G D +P + Q LI+ GK+L D + +
Sbjct: 8 ITLKTLQQQTFKIRMEPDETVKVLKEKIEAEKGRDAFPVAGQKLIYAGKILSDDVPIRDY 67
Query: 63 KVAENSFVVVML 74
++ E +FVVVM+
Sbjct: 68 RIDEKNFVVVMV 79
>pdb|1P98|A Chain A, High-Resolution Nmr Structure Of The Ubl-Domain Of
Hhr23a
pdb|1P9D|U Chain U, High-Resolution Structure Of The Complex Of Hhr23a
Ubiquitin-Like Domain And The C-Terminal Ubiquitin-
Interacting Motif Of Proteasome Subunit S5a
Length = 78
Score = 54.7 bits (130), Expect = 8e-08, Method: Compositional matrix adjust.
Identities = 26/72 (36%), Positives = 47/72 (65%)
Query: 3 VFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEEN 62
+ +KTL+ F+I ++P++ V +K+ IE +G D +P + Q LI+ GK+L D + +
Sbjct: 5 ITLKTLQQQTFKIRMEPDETVKVLKEKIEAEKGRDAFPVAGQKLIYAGKILSDDVPIRDY 64
Query: 63 KVAENSFVVVML 74
++ E +FVVVM+
Sbjct: 65 RIDEKNFVVVMV 76
>pdb|3V6C|B Chain B, Crystal Structure Of Usp2 In Complex With Mutated
Ubiquitin
Length = 91
Score = 53.1 bits (126), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 29/74 (39%), Positives = 44/74 (59%), Gaps = 3/74 (4%)
Query: 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLE 60
M++FV TL GTH +EV+P D + +VK I+ +G P QQ LI GK L+D TL
Sbjct: 18 MQIFVNTLTGTHITLEVEPSDTIENVKAKIQDKEG---IPPDQQRLIFAGKQLEDGRTLS 74
Query: 61 ENKVAENSFVVVML 74
+ + + S + ++L
Sbjct: 75 DYNIQKESTLHLVL 88
>pdb|3V6E|B Chain B, Crystal Structure Of Usp2 And A Mutant Form Of Ubiquitin
Length = 91
Score = 51.2 bits (121), Expect = 9e-07, Method: Compositional matrix adjust.
Identities = 28/74 (37%), Positives = 43/74 (58%), Gaps = 3/74 (4%)
Query: 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLE 60
M++FV TL G H +EV+P D + +VK I+ +G P QQ LI GK L+D TL
Sbjct: 18 MQIFVNTLSGKHITLEVEPSDTIENVKAKIQDKEG---IPPDQQRLIFAGKQLEDGRTLS 74
Query: 61 ENKVAENSFVVVML 74
+ + + S + ++L
Sbjct: 75 DYNIQKESTLHLVL 88
>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 = 51.2 bits (121), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 29/74 (39%), Positives = 43/74 (58%), Gaps = 3/74 (4%)
Query: 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLE 60
M++FVKTL G +EV+P D + +VK I+ +G P QQ LI GK L+D TL
Sbjct: 9 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEG---IPPDQQRLIFAGKQLEDGRTLS 65
Query: 61 ENKVAENSFVVVML 74
E + + S + ++L
Sbjct: 66 EYNIQKESTLHLVL 79
>pdb|1TP4|A Chain A, Solution Structure Of The Xpc Binding Domain Of Hhr23a
Protein
Length = 97
Score = 51.2 bits (121), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 28/61 (45%), Positives = 44/61 (72%)
Query: 272 AGAGTLDFLRNSQQFQALRTMVQANPQILQPMLQELGKQNPHLMRLIQEHQTDFLRLINE 331
AG L+FLR+ QFQ +R ++Q NP +L +LQ+LG++NP L++ I HQ F++++NE
Sbjct: 7 AGENPLEFLRDQPQFQNMRQVIQQNPALLPALLQQLGQENPQLLQQISRHQEQFIQMLNE 66
Query: 332 P 332
P
Sbjct: 67 P 67
>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 = 49.7 bits (117), Expect = 2e-06, Method: Composition-based stats.
Identities = 28/74 (37%), Positives = 43/74 (58%), Gaps = 3/74 (4%)
Query: 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLE 60
M++FVKTL G +EV+P D + +VK I+ +G P QQ LI GK L+D TL
Sbjct: 36 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEG---IPPDQQRLIFAGKQLEDGRTLS 92
Query: 61 ENKVAENSFVVVML 74
+ + + S + ++L
Sbjct: 93 DYNIQKESTLHLVL 106
>pdb|3K9O|B Chain B, The Crystal Structure Of E2-25k And Ubb+1 Complex
Length = 96
Score = 49.7 bits (117), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 28/74 (37%), Positives = 43/74 (58%), Gaps = 3/74 (4%)
Query: 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLE 60
M++FVKTL G +EV+P D + +VK I+ +G P QQ LI GK L+D TL
Sbjct: 2 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEG---IPPDQQRLIFAGKQLEDGRTLS 58
Query: 61 ENKVAENSFVVVML 74
+ + + S + ++L
Sbjct: 59 DYNIQKESTLHLVL 72
>pdb|2OJR|A Chain A, Structure Of Ubiquitin Solved By Sad Using The Lanthanide-
Binding Tag
Length = 111
Score = 49.3 bits (116), Expect = 3e-06, Method: Composition-based stats.
Identities = 28/74 (37%), Positives = 43/74 (58%), Gaps = 3/74 (4%)
Query: 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLE 60
M++FVKTL G +EV+P D + +VK I+ +G P QQ LI GK L+D TL
Sbjct: 36 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEG---IPPDQQRLIFAGKQLEDGRTLS 92
Query: 61 ENKVAENSFVVVML 74
+ + + S + ++L
Sbjct: 93 DYNIQKESTLHLVL 106
>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 = 49.3 bits (116), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 28/74 (37%), Positives = 43/74 (58%), Gaps = 3/74 (4%)
Query: 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLE 60
M++FVKTL G +EV+P D + +VK I+ +G P QQ LI GK L+D TL
Sbjct: 1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEG---IPPDQQRLIFAGKQLEDGRTLS 57
Query: 61 ENKVAENSFVVVML 74
+ + + S + ++L
Sbjct: 58 DYNIQKESTLHLVL 71
>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 = 48.9 bits (115), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 28/74 (37%), Positives = 43/74 (58%), Gaps = 3/74 (4%)
Query: 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLE 60
M++FVKTL G +EV+P D + +VK I+ +G P QQ LI GK L+D TL
Sbjct: 6 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEG---IPPDQQRLIFAGKQLEDGRTLS 62
Query: 61 ENKVAENSFVVVML 74
+ + + S + ++L
Sbjct: 63 DYNIQKESTLHLVL 76
>pdb|4AP4|C Chain C, Rnf4 - Ubch5a - Ubiquitin Heterotrimeric Complex
pdb|4AP4|F Chain F, Rnf4 - Ubch5a - Ubiquitin Heterotrimeric Complex
Length = 80
Score = 48.9 bits (115), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 28/74 (37%), Positives = 43/74 (58%), Gaps = 3/74 (4%)
Query: 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLE 60
M++FVKTL G +EV+P D + +VK I+ +G P QQ LI GK L+D TL
Sbjct: 5 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEG---IPPDQQRLIFAGKQLEDGRTLS 61
Query: 61 ENKVAENSFVVVML 74
+ + + S + ++L
Sbjct: 62 DYNIQKESTLHLVL 75
>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 = 48.5 bits (114), Expect = 5e-06, Method: Composition-based stats.
Identities = 28/74 (37%), Positives = 43/74 (58%), Gaps = 3/74 (4%)
Query: 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLE 60
M++FVKTL G +EV+P D + +VK I+ +G P QQ LI GK L+D TL
Sbjct: 1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEG---IPPDQQRLIFAGKQLEDGRTLS 57
Query: 61 ENKVAENSFVVVML 74
+ + + S + ++L
Sbjct: 58 DYNIQKESTLHLVL 71
>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 = 48.5 bits (114), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 28/74 (37%), Positives = 43/74 (58%), Gaps = 3/74 (4%)
Query: 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLE 60
M++FVKTL G +EV+P D + +VK I+ +G P QQ LI GK L+D TL
Sbjct: 21 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEG---IPPDQQRLIFAGKQLEDGRTLS 77
Query: 61 ENKVAENSFVVVML 74
+ + + S + ++L
Sbjct: 78 DYNIQKESTLHLVL 91
Score = 48.5 bits (114), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 28/74 (37%), Positives = 43/74 (58%), Gaps = 3/74 (4%)
Query: 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLE 60
M++FVKTL G +EV+P D + +VK I+ +G P QQ LI GK L+D TL
Sbjct: 97 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEG---IPPDQQRLIFAGKQLEDGRTLS 153
Query: 61 ENKVAENSFVVVML 74
+ + + S + ++L
Sbjct: 154 DYNIQKESTLHLVL 167
>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 = 48.5 bits (114), Expect = 6e-06, Method: Compositional matrix adjust.
Identities = 28/74 (37%), Positives = 43/74 (58%), Gaps = 3/74 (4%)
Query: 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLE 60
M++FVKTL G +EV+P D + +VK I+ +G P QQ LI GK L+D TL
Sbjct: 2 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEG---IPPDQQRLIFAGKQLEDGRTLS 58
Query: 61 ENKVAENSFVVVML 74
+ + + S + ++L
Sbjct: 59 DYNIQKESTLHLVL 72
>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 = 48.5 bits (114), Expect = 6e-06, Method: Compositional matrix adjust.
Identities = 28/74 (37%), Positives = 43/74 (58%), Gaps = 3/74 (4%)
Query: 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLE 60
M++FVKTL G +EV+P D + +VK I+ +G P QQ LI GK L+D TL
Sbjct: 4 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEG---IPPDQQRLIFAGKQLEDGRTLS 60
Query: 61 ENKVAENSFVVVML 74
+ + + S + ++L
Sbjct: 61 DYNIQKESTLHLVL 74
>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 = 48.5 bits (114), Expect = 6e-06, Method: Compositional matrix adjust.
Identities = 28/74 (37%), Positives = 43/74 (58%), Gaps = 3/74 (4%)
Query: 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLE 60
M++FVKTL G +EV+P D + +VK I+ +G P QQ LI GK L+D TL
Sbjct: 4 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEG---IPPDQQRLIFAGKQLEDGRTLS 60
Query: 61 ENKVAENSFVVVML 74
+ + + S + ++L
Sbjct: 61 DYNIQKESTLHLVL 74
>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 = 48.5 bits (114), Expect = 6e-06, Method: Compositional matrix adjust.
Identities = 28/74 (37%), Positives = 42/74 (56%), Gaps = 3/74 (4%)
Query: 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLE 60
M++FVKTL G +EV+P D + +VK I+ +G P QQ LI GK L+D TL
Sbjct: 4 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEG---IPPDQQRLIFAGKQLEDGRTLS 60
Query: 61 ENKVAENSFVVVML 74
+ + S + ++L
Sbjct: 61 DYNIQRESTLHLVL 74
>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 = 48.5 bits (114), Expect = 6e-06, Method: Compositional matrix adjust.
Identities = 28/74 (37%), Positives = 42/74 (56%), Gaps = 3/74 (4%)
Query: 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLE 60
M++FVKTL G +EV+P D + +VK I+ +G P QQ LI GK L+D TL
Sbjct: 1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEG---IPPDQQRLIFAGKQLEDGRTLS 57
Query: 61 ENKVAENSFVVVML 74
+ + S + ++L
Sbjct: 58 DYNIQRESTLHLVL 71
>pdb|2W9N|A Chain A, Crystal Structure Of Linear Di-Ubiquitin
Length = 152
Score = 48.5 bits (114), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 28/74 (37%), Positives = 43/74 (58%), Gaps = 3/74 (4%)
Query: 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLE 60
M++FVKTL G +EV+P D + +VK I+ +G P QQ LI GK L+D TL
Sbjct: 77 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEG---IPPDQQRLIFAGKQLEDGRTLS 133
Query: 61 ENKVAENSFVVVML 74
+ + + S + ++L
Sbjct: 134 DYNIQKESTLHLVL 147
Score = 45.8 bits (107), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 27/73 (36%), Positives = 42/73 (57%), Gaps = 3/73 (4%)
Query: 2 KVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEE 61
++FVKTL G +EV+P D + +VK I+ +G P QQ LI GK L+D TL +
Sbjct: 2 QIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEG---IPPDQQRLIFAGKQLEDGRTLSD 58
Query: 62 NKVAENSFVVVML 74
+ + S + ++L
Sbjct: 59 YNIQKESTLHLVL 71
>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 = 48.5 bits (114), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 28/74 (37%), Positives = 43/74 (58%), Gaps = 3/74 (4%)
Query: 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLE 60
M++FVKTL G +EV+P D + +VK I+ +G P QQ LI GK L+D TL
Sbjct: 1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEG---IPPDQQRLIFAGKQLEDGRTLS 57
Query: 61 ENKVAENSFVVVML 74
+ + + S + ++L
Sbjct: 58 DYNIQKESTLHLVL 71
>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 = 48.1 bits (113), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 28/74 (37%), Positives = 43/74 (58%), Gaps = 3/74 (4%)
Query: 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLE 60
M++FVKTL G +EV+P D + +VK I+ +G P QQ LI GK L+D TL
Sbjct: 1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEG---IPPDQQRLIFAGKQLEDGRTLS 57
Query: 61 ENKVAENSFVVVML 74
+ + + S + ++L
Sbjct: 58 DYNIQKESTLHLVL 71
>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 = 48.1 bits (113), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 28/74 (37%), Positives = 43/74 (58%), Gaps = 3/74 (4%)
Query: 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLE 60
M++FVKTL G +EV+P D + +VK I+ +G P QQ LI GK L+D TL
Sbjct: 3 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEG---IPPDQQRLIFAGKQLEDGRTLS 59
Query: 61 ENKVAENSFVVVML 74
+ + + S + ++L
Sbjct: 60 DYNIQKESTLHLVL 73
Score = 48.1 bits (113), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 28/74 (37%), Positives = 43/74 (58%), Gaps = 3/74 (4%)
Query: 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLE 60
M++FVKTL G +EV+P D + +VK I+ +G P QQ LI GK L+D TL
Sbjct: 79 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEG---IPPDQQRLIFAGKQLEDGRTLS 135
Query: 61 ENKVAENSFVVVML 74
+ + + S + ++L
Sbjct: 136 DYNIQKESTLHLVL 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 = 48.1 bits (113), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 28/74 (37%), Positives = 43/74 (58%), Gaps = 3/74 (4%)
Query: 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLE 60
M++FVKTL G +EV+P D + +VK I+ +G P QQ LI GK L+D TL
Sbjct: 1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEG---IPPDQQRLIFAGKQLEDGRTLS 57
Query: 61 ENKVAENSFVVVML 74
+ + + S + ++L
Sbjct: 58 DYNIQKESTLHLVL 71
Score = 48.1 bits (113), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 28/74 (37%), Positives = 43/74 (58%), Gaps = 3/74 (4%)
Query: 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLE 60
M++FVKTL G +EV+P D + +VK I+ +G P QQ LI GK L+D TL
Sbjct: 77 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEG---IPPDQQRLIFAGKQLEDGRTLS 133
Query: 61 ENKVAENSFVVVML 74
+ + + S + ++L
Sbjct: 134 DYNIQKESTLHLVL 147
>pdb|2XK5|B Chain B, Crystal Structure Of K6-Linked Diubiquitin
Length = 76
Score = 48.1 bits (113), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 28/74 (37%), Positives = 43/74 (58%), Gaps = 3/74 (4%)
Query: 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLE 60
M++FVKTL G +EV+P D + +VK I+ +G P QQ LI GK L+D TL
Sbjct: 1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEG---IPPQQQRLIFAGKQLEDGRTLS 57
Query: 61 ENKVAENSFVVVML 74
+ + + S + ++L
Sbjct: 58 DYNIQKESTLHLVL 71
>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 = 48.1 bits (113), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 28/74 (37%), Positives = 43/74 (58%), Gaps = 3/74 (4%)
Query: 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLE 60
M++FVKTL G +EV+P D + +VK I+ +G P QQ LI GK L+D TL
Sbjct: 3 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEG---IPPDQQRLIFAGKQLEDGRTLS 59
Query: 61 ENKVAENSFVVVML 74
+ + + S + ++L
Sbjct: 60 DYNIQKESTLHLVL 73
>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 = 48.1 bits (113), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 28/74 (37%), Positives = 43/74 (58%), Gaps = 3/74 (4%)
Query: 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLE 60
M++FVKTL G +EV+P D + +VK I+ +G P QQ LI GK L+D TL
Sbjct: 1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEG---IPPDQQRLIFAGKQLEDGRTLS 57
Query: 61 ENKVAENSFVVVML 74
+ + + S + ++L
Sbjct: 58 DYNIQKESTLHLVL 71
>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 = 48.1 bits (113), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 28/74 (37%), Positives = 43/74 (58%), Gaps = 3/74 (4%)
Query: 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLE 60
M++FVKTL G +EV+P D + +VK I+ +G P QQ LI GK L+D TL
Sbjct: 1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEG---IPPDQQRLIFAGKQLEDGRTLS 57
Query: 61 ENKVAENSFVVVML 74
+ + + S + ++L
Sbjct: 58 DYNIQKESTLHLVL 71
>pdb|4I6L|B Chain B, Crystal Structure Of Otub1 In Complex With Ubiquitin
Variant
Length = 76
Score = 48.1 bits (113), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 27/74 (36%), Positives = 43/74 (58%), Gaps = 3/74 (4%)
Query: 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLE 60
M++FVKTL G +EV+P D + +VK I+ +G P QQ L+ K L+D TL
Sbjct: 3 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEG---IPPDQQKLLFARKQLEDGRTLS 59
Query: 61 ENKVAENSFVVVML 74
+ + + SF+ ++L
Sbjct: 60 DYNIHKESFLYLVL 73
>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 = 48.1 bits (113), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 28/76 (36%), Positives = 44/76 (57%), Gaps = 2/76 (2%)
Query: 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQG--SDVYPASQQMLIHQGKVLKDVTT 58
M++FVKTL G +EV+P D + +VK I+ +G + P QQ LI GK L+D T
Sbjct: 1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGRWALAIPPDQQRLIFAGKQLEDGRT 60
Query: 59 LEENKVAENSFVVVML 74
L + + + S + ++L
Sbjct: 61 LSDYNIQKESTLHLVL 76
>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 = 48.1 bits (113), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 28/74 (37%), Positives = 43/74 (58%), Gaps = 3/74 (4%)
Query: 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLE 60
M++FVKTL G +EV+P D + +VK I+ +G P QQ LI GK L+D TL
Sbjct: 1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEG---IPPDQQRLIFAGKQLEDGRTLS 57
Query: 61 ENKVAENSFVVVML 74
+ + + S + ++L
Sbjct: 58 DYNIQKESTLHLVL 71
>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 = 48.1 bits (113), Expect = 9e-06, Method: Compositional matrix adjust.
Identities = 28/74 (37%), Positives = 43/74 (58%), Gaps = 3/74 (4%)
Query: 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLE 60
M++FVKTL G +EV+P D + +VK I+ +G P QQ LI GK L+D TL
Sbjct: 1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEG---IPPDQQRLIFAGKQLEDGRTLS 57
Query: 61 ENKVAENSFVVVML 74
+ + + S + ++L
Sbjct: 58 DYNIQKESTLHLVL 71
Score = 48.1 bits (113), Expect = 9e-06, Method: Compositional matrix adjust.
Identities = 28/74 (37%), Positives = 43/74 (58%), Gaps = 3/74 (4%)
Query: 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLE 60
M++FVKTL G +EV+P D + +VK I+ +G P QQ LI GK L+D TL
Sbjct: 77 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEG---IPPDQQRLIFAGKQLEDGRTLS 133
Query: 61 ENKVAENSFVVVML 74
+ + + S + ++L
Sbjct: 134 DYNIQKESTLHLVL 147
>pdb|3ONS|A Chain A, Crystal Structure Of Human Ubiquitin In A New Crystal
Form
Length = 72
Score = 47.8 bits (112), Expect = 9e-06, Method: Compositional matrix adjust.
Identities = 28/74 (37%), Positives = 43/74 (58%), Gaps = 3/74 (4%)
Query: 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLE 60
M++FVKTL G +EV+P D + +VK I+ +G P QQ LI GK L+D TL
Sbjct: 1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEG---IPPDQQRLIFAGKQLEDGRTLS 57
Query: 61 ENKVAENSFVVVML 74
+ + + S + ++L
Sbjct: 58 DYNIQKESTLHLVL 71
>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 = 47.8 bits (112), Expect = 9e-06, Method: Compositional matrix adjust.
Identities = 28/74 (37%), Positives = 43/74 (58%), Gaps = 3/74 (4%)
Query: 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLE 60
M++FVKTL G +EV+P D + +VK I+ +G P QQ LI GK L+D TL
Sbjct: 1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEG---IPPDQQRLIFAGKQLEDGRTLS 57
Query: 61 ENKVAENSFVVVML 74
+ + + S + ++L
Sbjct: 58 DYNIQKESTLHLVL 71
>pdb|3AI5|A Chain A, Crystal Structure Of Yeast Enhanced Green Fluorescent
Protein- Ubiquitin Fusion Protein
Length = 307
Score = 47.8 bits (112), Expect = 9e-06, Method: Compositional matrix adjust.
Identities = 28/74 (37%), Positives = 43/74 (58%), Gaps = 3/74 (4%)
Query: 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLE 60
M++FVKTL G +EV+P D + +VK I+ +G P QQ LI GK L+D TL
Sbjct: 234 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEG---IPPDQQRLIFAGKQLEDGRTLS 290
Query: 61 ENKVAENSFVVVML 74
+ + + S + ++L
Sbjct: 291 DYNIQKESTLHLVL 304
>pdb|1ZGU|B Chain B, Solution Structure Of The Human Mms2-Ubiquitin Complex
Length = 76
Score = 47.8 bits (112), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 27/74 (36%), Positives = 43/74 (58%), Gaps = 3/74 (4%)
Query: 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLE 60
M++FVKTL G +EV+P D + +VK I+ +G P QQ LI G+ L+D TL
Sbjct: 1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEG---IPPDQQRLIFAGRQLEDGRTLS 57
Query: 61 ENKVAENSFVVVML 74
+ + + S + ++L
Sbjct: 58 DYNIQKESTLHLVL 71
>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 = 47.8 bits (112), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 27/74 (36%), Positives = 42/74 (56%), Gaps = 3/74 (4%)
Query: 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLE 60
M++FVKTL G +EV+P D + +VK I+ +G P QQ LI G+ L+D TL
Sbjct: 1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEG---IPPDQQRLIFAGRQLEDGRTLS 57
Query: 61 ENKVAENSFVVVML 74
+ + S + ++L
Sbjct: 58 DYNIQRESTLHLVL 71
>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 = 47.8 bits (112), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 28/74 (37%), Positives = 43/74 (58%), Gaps = 3/74 (4%)
Query: 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLE 60
M++FVKTL G +EV+P D + +VK I+ +G A QQ LI GK L+D TL
Sbjct: 1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEG---IAADQQRLIFAGKQLEDGRTLS 57
Query: 61 ENKVAENSFVVVML 74
+ + + S + ++L
Sbjct: 58 DYNIQKESTLHLVL 71
>pdb|1UD7|A Chain A, Solution Structure Of The Designed Hydrophobic Core
Mutant Of Ubiquitin, 1d7
Length = 76
Score = 47.4 bits (111), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 29/74 (39%), Positives = 42/74 (56%), Gaps = 3/74 (4%)
Query: 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLE 60
M+VF+KTL G IEV+P D V + K I+ +G P QQ LI GK L+D TL
Sbjct: 1 MQVFLKTLTGKTVTIEVEPSDTVENFKAKIQDKEG---IPPDQQRLIFAGKQLEDGRTLS 57
Query: 61 ENKVAENSFVVVML 74
+ + + S + ++L
Sbjct: 58 DYNIQKESTIHLVL 71
>pdb|4HJK|A Chain A, U7ub7 Disulfide Variant
Length = 77
Score = 47.4 bits (111), Expect = 1e-05, Method: Composition-based stats.
Identities = 27/68 (39%), Positives = 38/68 (55%), Gaps = 3/68 (4%)
Query: 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLE 60
M++FVK L G +EV+P D + +VK I+ G YP QQ LI GK L+D TL
Sbjct: 2 MQIFVKCLTGKTNTLEVEPSDTIENVKAKIQDKIG---YPPDQQRLIFAGKQLEDGRTLS 58
Query: 61 ENKVAENS 68
+ + + S
Sbjct: 59 DYNIQKES 66
>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 = 47.4 bits (111), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 27/74 (36%), Positives = 42/74 (56%), Gaps = 3/74 (4%)
Query: 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLE 60
M + VKTL G EI+++P DKV +K+ +E +G P QQ LI+ GK + D T
Sbjct: 13 MLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEG---IPPQQQRLIYSGKQMNDEKTAA 69
Query: 61 ENKVAENSFVVVML 74
+ K+ S + ++L
Sbjct: 70 DYKILGGSVLHLVL 83
>pdb|1SIF|A Chain A, Crystal Structure Of A Multiple Hydrophobic Core Mutant
Of Ubiquitin
Length = 88
Score = 47.4 bits (111), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 25/74 (33%), Positives = 44/74 (59%), Gaps = 3/74 (4%)
Query: 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLE 60
+++F+KTL G F +E++P D + ++K I+ +G P QQ LI GK L+D TL
Sbjct: 10 LQLFIKTLTGKTFTVEMEPSDTIENLKAKIQDKEG---IPPDQQRLIFAGKQLEDGRTLS 66
Query: 61 ENKVAENSFVVVML 74
+ + + S + ++L
Sbjct: 67 DYNIQKESTLHLVL 80
>pdb|3MTN|B Chain B, Usp21 In Complex With A Ubiquitin-based, Usp21-specific
Inhibitor
pdb|3MTN|D Chain D, Usp21 In Complex With A Ubiquitin-based, Usp21-specific
Inhibitor
Length = 85
Score = 47.4 bits (111), Expect = 1e-05, Method: Composition-based stats.
Identities = 27/68 (39%), Positives = 39/68 (57%), Gaps = 3/68 (4%)
Query: 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLE 60
M++FVKTL G +EV+P D + +VK I+ +G P QQ LI GK L+D TL
Sbjct: 4 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEG---IPPDQQRLIFAGKQLEDGRTLS 60
Query: 61 ENKVAENS 68
+ + + S
Sbjct: 61 DYNIQKWS 68
>pdb|1YIW|A Chain A, X-Ray Crystal Structure Of A Chemically Synthesized
Ubiquitin
pdb|1YIW|B Chain B, X-Ray Crystal Structure Of A Chemically Synthesized
Ubiquitin
pdb|1YIW|C Chain C, X-Ray Crystal Structure Of A Chemically Synthesized
Ubiquitin
pdb|2FCQ|A Chain A, X-Ray Crystal Structure Of A Chemically Synthesized
Ubiquitin With A Cubic Space Group
pdb|2FCQ|B Chain B, X-Ray Crystal Structure Of A Chemically Synthesized
Ubiquitin With A Cubic Space Group
Length = 76
Score = 47.0 bits (110), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 27/74 (36%), Positives = 43/74 (58%), Gaps = 3/74 (4%)
Query: 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLE 60
+++FVKTL G +EV+P D + +VK I+ +G P QQ LI GK L+D TL
Sbjct: 1 LQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEG---IPPDQQRLIFAGKQLEDGRTLS 57
Query: 61 ENKVAENSFVVVML 74
+ + + S + ++L
Sbjct: 58 DYNIQKESTLHLVL 71
>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 = 47.0 bits (110), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 27/74 (36%), Positives = 42/74 (56%), Gaps = 3/74 (4%)
Query: 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLE 60
M + VKTL G EI+++P DKV +K+ +E +G P QQ LI+ GK + D T
Sbjct: 6 MLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEG---IPPQQQRLIYSGKQMNDEKTAA 62
Query: 61 ENKVAENSFVVVML 74
+ K+ S + ++L
Sbjct: 63 DYKILGGSVLHLVL 76
>pdb|3Q3F|A Chain A, Engineering Domain-Swapped Binding Interfaces By Mutually
Exclusive Folding: Insertion Of Ubiquitin Into Position
103 Of Barnase
Length = 189
Score = 47.0 bits (110), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 27/73 (36%), Positives = 42/73 (57%), Gaps = 3/73 (4%)
Query: 2 KVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEE 61
++FVKTL G +EV+P D + +VK I+ +G P QQ LI GK L+D TL +
Sbjct: 107 QIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEG---IPPDQQRLIFAGKQLEDGRTLSD 163
Query: 62 NKVAENSFVVVML 74
+ + S + ++L
Sbjct: 164 YNIQKESTLHLVL 176
>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 = 46.6 bits (109), Expect = 2e-05, Method: Composition-based stats.
Identities = 27/74 (36%), Positives = 42/74 (56%), Gaps = 3/74 (4%)
Query: 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLE 60
M + VKTL G EI+++P DKV +K+ +E +G P QQ LI+ GK + D T
Sbjct: 13 MLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEG---IPPQQQRLIYSGKQMNDEKTAA 69
Query: 61 ENKVAENSFVVVML 74
+ K+ S + ++L
Sbjct: 70 DYKILGGSVLHLVL 83
>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 = 46.6 bits (109), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 27/74 (36%), Positives = 42/74 (56%), Gaps = 3/74 (4%)
Query: 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLE 60
M + VKTL G EI+++P DKV +K+ +E +G P QQ LI+ GK + D T
Sbjct: 1 MLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEG---IPPQQQRLIYSGKQMNDEKTAA 57
Query: 61 ENKVAENSFVVVML 74
+ K+ S + ++L
Sbjct: 58 DYKILGGSVLHLVL 71
>pdb|4HCP|B Chain B, Crystal Structure Of Burkholderia Pseudomallei Effector
Protein Chbp In Complex With Nedd8
Length = 78
Score = 46.6 bits (109), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 27/74 (36%), Positives = 42/74 (56%), Gaps = 3/74 (4%)
Query: 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLE 60
M + VKTL G EI+++P DKV +K+ +E +G P QQ LI+ GK + D T
Sbjct: 3 MLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEG---IPPQQQRLIYSGKQMNDEKTAA 59
Query: 61 ENKVAENSFVVVML 74
+ K+ S + ++L
Sbjct: 60 DYKILGGSVLHLVL 73
>pdb|1C3T|A Chain A, Rotamer Strain As A Determinant Of Protein Structural
Specificity
Length = 76
Score = 46.6 bits (109), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 27/74 (36%), Positives = 43/74 (58%), Gaps = 3/74 (4%)
Query: 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLE 60
M++FVKTL G +E++P D V ++K I+ +G P QQ LI GK L+D TL
Sbjct: 1 MQLFVKTLTGKTLTVELEPSDTVENLKAKIQDKEG---IPPDQQRLIFAGKQLEDGRTLS 57
Query: 61 ENKVAENSFVVVML 74
+ + + S + ++L
Sbjct: 58 DYNLQKESTIHLVL 71
>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 = 46.6 bits (109), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 27/74 (36%), Positives = 42/74 (56%), Gaps = 3/74 (4%)
Query: 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLE 60
+++FVKTL G +EV+P D + +VK I Q + P QQ LI GK L+D TL
Sbjct: 1 LQIFVKTLTGKTITLEVEPSDTIENVKAKI---QDKEXIPPDQQRLIFAGKQLEDGRTLS 57
Query: 61 ENKVAENSFVVVML 74
+ + + S + ++L
Sbjct: 58 DYNIQKESTLHLVL 71
>pdb|2BKR|B Chain B, Nedd8 Nedp1 Complex
Length = 77
Score = 46.6 bits (109), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 27/74 (36%), Positives = 42/74 (56%), Gaps = 3/74 (4%)
Query: 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLE 60
M + VKTL G EI+++P DKV +K+ +E +G P QQ LI+ GK + D T
Sbjct: 2 MLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEG---IPPQQQRLIYSGKQMNDEKTAA 58
Query: 61 ENKVAENSFVVVML 74
+ K+ S + ++L
Sbjct: 59 DYKILGGSVLHLVL 72
>pdb|4HCN|B Chain B, Crystal Structure Of Burkholderia Pseudomallei Effector
Protein Chbp In Complex With Ubiquitin
Length = 98
Score = 46.2 bits (108), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 27/74 (36%), Positives = 42/74 (56%), Gaps = 3/74 (4%)
Query: 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLE 60
M++FVKTL G +EV+ D + +VK I+ +G P QQ LI GK L+D TL
Sbjct: 23 MQIFVKTLTGKTITLEVESSDTIDNVKSKIQDKEG---IPPDQQRLIFAGKQLEDGRTLS 79
Query: 61 ENKVAENSFVVVML 74
+ + + S + ++L
Sbjct: 80 DYNIQKESTLHLVL 93
>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 = 46.2 bits (108), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 27/74 (36%), Positives = 41/74 (55%), Gaps = 3/74 (4%)
Query: 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLE 60
M++FVKTL G +EV+P D + +VK I+ +G P QQ LI G L+D TL
Sbjct: 1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEG---IPPDQQRLIFAGXQLEDGRTLS 57
Query: 61 ENKVAENSFVVVML 74
+ + S + ++L
Sbjct: 58 DYNIQRESTLHLVL 71
>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 = 46.2 bits (108), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 27/74 (36%), Positives = 42/74 (56%), Gaps = 3/74 (4%)
Query: 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLE 60
M + VKTL G EI+++P DKV +K+ +E +G P QQ LI+ GK + D T
Sbjct: 1 MLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEG---IPPQQQRLIYSGKQMNDEKTAA 57
Query: 61 ENKVAENSFVVVML 74
+ K+ S + ++L
Sbjct: 58 DYKILGGSVLHLVL 71
>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 = 46.2 bits (108), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 27/74 (36%), Positives = 42/74 (56%), Gaps = 3/74 (4%)
Query: 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLE 60
M + VKTL G EI+++P DKV +K+ +E +G P QQ LI+ GK + D T
Sbjct: 7 MLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEG---IPPQQQRLIYSGKQMNDEKTAA 63
Query: 61 ENKVAENSFVVVML 74
+ K+ S + ++L
Sbjct: 64 DYKILGGSVLHLVL 77
>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 = 46.2 bits (108), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 26/64 (40%), Positives = 37/64 (57%), Gaps = 3/64 (4%)
Query: 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLE 60
M++FVKTL G +EV+P D + +VK I+ +G P QQ LI GK L+D TL
Sbjct: 1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEG---IPPDQQRLIFAGKQLEDGRTLS 57
Query: 61 ENKV 64
+ +
Sbjct: 58 DYNI 61
>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 = 46.2 bits (108), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 27/73 (36%), Positives = 42/73 (57%), Gaps = 3/73 (4%)
Query: 2 KVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEE 61
++FVKTL G +EV+P D + +VK I+ +G P QQ LI GK L+D TL +
Sbjct: 2 QIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEG---IPPDQQRLIFAGKQLEDGRTLSD 58
Query: 62 NKVAENSFVVVML 74
+ + S + ++L
Sbjct: 59 YNIQKESTLHLVL 71
>pdb|3U5E|MM Chain m, The Structure Of The Eukaryotic Ribosome At 3.0 A
Resolution. This Entry Contains Proteins Of The 60s
Subunit, Ribosome A
pdb|3U5I|MM Chain m, The Structure Of The Eukaryotic Ribosome At 3.0 A
Resolution. This Entry Contains Proteins Of The 60s
Subunit, Ribosome B
pdb|4B6A|MM Chain m, Cryo-Em Structure Of The 60s Ribosomal Subunit In
Complex With Arx1 And Rei1
Length = 128
Score = 46.2 bits (108), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 27/74 (36%), Positives = 42/74 (56%), Gaps = 3/74 (4%)
Query: 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLE 60
M++FVKTL G +EV+ D + +VK I+ +G P QQ LI GK L+D TL
Sbjct: 1 MQIFVKTLTGKTITLEVESSDTIDNVKSKIQDKEG---IPPDQQRLIFAGKQLEDGRTLS 57
Query: 61 ENKVAENSFVVVML 74
+ + + S + ++L
Sbjct: 58 DYNIQKESTLHLVL 71
>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 = 45.8 bits (107), Expect = 3e-05, Method: Composition-based stats.
Identities = 27/74 (36%), Positives = 42/74 (56%), Gaps = 3/74 (4%)
Query: 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLE 60
M++FVKTL G +EV+ D + +VK I+ +G P QQ LI GK L+D TL
Sbjct: 21 MQIFVKTLTGKTITLEVESSDTIDNVKSKIQDKEG---IPPDQQRLIFAGKQLEDGRTLS 77
Query: 61 ENKVAENSFVVVML 74
+ + + S + ++L
Sbjct: 78 DYNIQKESTLHLVL 91
>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 = 45.8 bits (107), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 27/74 (36%), Positives = 42/74 (56%), Gaps = 3/74 (4%)
Query: 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLE 60
M++FVKTL G +EV+ D + +VK I+ +G P QQ LI GK L+D TL
Sbjct: 4 MQIFVKTLTGKTITLEVESSDTIDNVKSKIQDKEG---IPPDQQRLIFAGKQLEDGRTLS 60
Query: 61 ENKVAENSFVVVML 74
+ + + S + ++L
Sbjct: 61 DYNIQKESTLHLVL 74
>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 = 45.8 bits (107), Expect = 4e-05, Method: Composition-based stats.
Identities = 27/74 (36%), Positives = 42/74 (56%), Gaps = 3/74 (4%)
Query: 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLE 60
M++FVKTL G +EV+ D + +VK I+ +G P QQ LI GK L+D TL
Sbjct: 1 MQIFVKTLTGKTITLEVESSDTIDNVKSKIQDKEG---IPPDQQRLIFAGKQLEDGRTLS 57
Query: 61 ENKVAENSFVVVML 74
+ + + S + ++L
Sbjct: 58 DYNIQKESTLHLVL 71
>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 = 45.8 bits (107), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 27/74 (36%), Positives = 42/74 (56%), Gaps = 3/74 (4%)
Query: 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLE 60
+++FVKTL G +EV+P D + +VK I Q + P QQ LI GK L+D TL
Sbjct: 1 LQIFVKTLTGKTITLEVEPSDTIENVKAKI---QDKEQIPPDQQRLIFAGKQLEDGRTLS 57
Query: 61 ENKVAENSFVVVML 74
+ + + S + ++L
Sbjct: 58 DYNIQKESTLHLVL 71
>pdb|1ZW7|A Chain A, Elimination Of The C-Cap In Ubiquitin Structure,
Dynamics And Thermodynamic Consequences
Length = 82
Score = 45.8 bits (107), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 27/74 (36%), Positives = 41/74 (55%), Gaps = 3/74 (4%)
Query: 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLE 60
M++FVKTL G +EV+ D + +VK I+ G P QQ LI GK L+D TL
Sbjct: 1 MQIFVKTLTGATITLEVESSDTIDNVKSKIQAAPG---IPPDQQELIFAGKQLEDGRTLS 57
Query: 61 ENKVAENSFVVVML 74
+ + + S + ++L
Sbjct: 58 DYNIQKESTLHLVL 71
>pdb|3L0W|B Chain B, Structure Of Split Monoubiquitinated Pcna With Ubiquitin
In Position Two
pdb|3L10|B Chain B, Structure Of Split Monoubiquitinated Pcna With Ubiquitin
In Position One
Length = 169
Score = 45.4 bits (106), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 27/74 (36%), Positives = 42/74 (56%), Gaps = 3/74 (4%)
Query: 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLE 60
M++FVKTL G +EV+ D + +VK I+ +G P QQ LI GK L+D TL
Sbjct: 1 MQIFVKTLTGKTITLEVESSDTIDNVKSKIQDKEG---IPPDQQRLIFAGKQLEDGRTLS 57
Query: 61 ENKVAENSFVVVML 74
+ + + S + ++L
Sbjct: 58 DYNIQKESTLHLVL 71
>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 = 45.4 bits (106), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 27/74 (36%), Positives = 42/74 (56%), Gaps = 3/74 (4%)
Query: 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLE 60
M++FVKTL G +EV+ D + +VK I+ +G P QQ LI GK L+D TL
Sbjct: 1 MQIFVKTLTGKTITLEVESSDTIDNVKSKIQDKEG---IPPDQQRLIFAGKQLEDGRTLS 57
Query: 61 ENKVAENSFVVVML 74
+ + + S + ++L
Sbjct: 58 DYNIQKESTLHLVL 71
>pdb|1OGW|A Chain A, Synthetic Ubiquitin With Fluoro-Leu At 50 And 67
Length = 76
Score = 45.4 bits (106), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 27/74 (36%), Positives = 41/74 (55%), Gaps = 3/74 (4%)
Query: 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLE 60
M++FVKTL G +EV+P D + +VK I+ +G P QQ LI GK +D TL
Sbjct: 1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEG---IPPDQQRLIFAGKQXEDGRTLS 57
Query: 61 ENKVAENSFVVVML 74
+ + + S ++L
Sbjct: 58 DYNIQKESTXHLVL 71
>pdb|2JWZ|A Chain A, Mutations In The Hydrophobic Core Of Ubiquitin
Differentially Affect Its Recognition By Receptor
Proteins
Length = 76
Score = 45.4 bits (106), Expect = 5e-05, Method: Composition-based stats.
Identities = 26/68 (38%), Positives = 38/68 (55%), Gaps = 3/68 (4%)
Query: 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLE 60
M++FVKTL G +EV+ D + +VK I+ +G P QQ LI GK L+D TL
Sbjct: 1 MQIFVKTLTGKTITLEVESSDTIDNVKSKIQDKEG---IPPDQQRLIFAGKQLEDGRTLS 57
Query: 61 ENKVAENS 68
+ + + S
Sbjct: 58 DYNIQKES 65
>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 = 45.1 bits (105), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 26/74 (35%), Positives = 42/74 (56%), Gaps = 3/74 (4%)
Query: 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLE 60
M++FVKTL G +EV+P D + +K I+ +G P QQ LI GK L++ TL
Sbjct: 4 MQIFVKTLTGKTITLEVEPNDSIDAIKAKIQEKEG---IPPDQQRLIFAGKQLEEGKTLS 60
Query: 61 ENKVAENSFVVVML 74
+ + + S + ++L
Sbjct: 61 DYNIQKESTLHLVL 74
>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 = 44.3 bits (103), Expect = 1e-04, Method: Composition-based stats.
Identities = 26/70 (37%), Positives = 39/70 (55%), Gaps = 3/70 (4%)
Query: 5 VKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKV 64
VKTL G EI+++P DKV +K+ +E +G P QQ LI+ GK D T + K+
Sbjct: 10 VKTLTGKEIEIDIEPTDKVERIKERVEEKEG---IPPQQQRLIYSGKQXNDEKTAADYKI 66
Query: 65 AENSFVVVML 74
S + ++L
Sbjct: 67 XGGSVLHLVL 76
>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 = 44.3 bits (103), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 26/68 (38%), Positives = 38/68 (55%), Gaps = 3/68 (4%)
Query: 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLE 60
M++FVKTL G +EV+ D + +VK I+ +G P QQ LI GK L+D TL
Sbjct: 1 MQIFVKTLTGKTITLEVESSDTIDNVKSKIQDKEG---IPPDQQRLIFAGKQLEDGRTLS 57
Query: 61 ENKVAENS 68
+ + + S
Sbjct: 58 DYNIQKES 65
>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 = 44.3 bits (103), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 26/74 (35%), Positives = 42/74 (56%), Gaps = 3/74 (4%)
Query: 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLE 60
M++FVKTL G ++V+ D + +VK I+ +G P QQ LI GK L+D TL
Sbjct: 1 MQIFVKTLTGKTITLDVEASDTIENVKAKIQDKEG---IPPDQQRLIFAGKQLEDGRTLS 57
Query: 61 ENKVAENSFVVVML 74
+ + + S + ++L
Sbjct: 58 DYNIQKESTLHLVL 71
>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 = 44.3 bits (103), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 24/74 (32%), Positives = 41/74 (55%), Gaps = 3/74 (4%)
Query: 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLE 60
M++FV+TL G +EV+ D + +V+ I+ +G P QQ LI G+ L+D TL
Sbjct: 8 MQIFVRTLTGRTITLEVESSDTIDNVRARIQDREG---IPPDQQRLIFAGRQLEDGRTLA 64
Query: 61 ENKVAENSFVVVML 74
+ + S + ++L
Sbjct: 65 DYNIQRESTLHLVL 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 = 43.9 bits (102), Expect = 1e-04, Method: Composition-based stats.
Identities = 25/68 (36%), Positives = 37/68 (54%), Gaps = 3/68 (4%)
Query: 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLE 60
M++FVK G + +EV+P D + +VK I+ G P QQ LI GK L+D TL
Sbjct: 3 MQIFVKFRTGKTYTLEVEPSDTIENVKAKIQDKLG---IPPDQQWLIFAGKRLEDGRTLS 59
Query: 61 ENKVAENS 68
+ + + S
Sbjct: 60 DYNIQKES 67
>pdb|3N3K|B Chain B, The Catalytic Domain Of Usp8 In Complex With A Usp8
Specific Inhibitor
Length = 85
Score = 43.9 bits (102), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 26/68 (38%), Positives = 38/68 (55%), Gaps = 3/68 (4%)
Query: 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLE 60
M++ VKTL G +EV+P D + +VK I+ +G P QQ LI GK L+D TL
Sbjct: 4 MRIVVKTLMGRTIILEVEPSDTIENVKAKIQDKEG---IPPDQQRLIFAGKQLEDGRTLS 60
Query: 61 ENKVAENS 68
+ + +S
Sbjct: 61 DYNIHNHS 68
>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 = 43.1 bits (100), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 28/79 (35%), Positives = 43/79 (54%), Gaps = 5/79 (6%)
Query: 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQ-----GSDVYPASQQMLIHQGKVLKD 55
M++FVKTL G +EV+P D + +VK I+ + G P QQ LI GK L+D
Sbjct: 1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGGGGGGGGGIPPDQQRLIFAGKQLED 60
Query: 56 VTTLEENKVAENSFVVVML 74
TL + + + S + ++L
Sbjct: 61 GRTLSDYNIQKESTLHLVL 79
>pdb|3ZF7|SS Chain s, High-resolution Cryo-electron Microscopy Structure Of
The Trypanosoma Brucei Ribosome
Length = 128
Score = 42.7 bits (99), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 26/74 (35%), Positives = 42/74 (56%), Gaps = 3/74 (4%)
Query: 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLE 60
M++FVKTL G +EV+ D + +VK I+ +G P QQ LI GK L++ TL
Sbjct: 1 MQIFVKTLTGKTIALEVEASDTIENVKAKIQDKEG---IPPDQQRLIFAGKQLEEGRTLA 57
Query: 61 ENKVAENSFVVVML 74
+ + + S + ++L
Sbjct: 58 DYNIQKESTLHLVL 71
>pdb|1BT0|A Chain A, Structure Of Ubiquitin-Like Protein, Rub1
Length = 76
Score = 42.7 bits (99), Expect = 3e-04, Method: Composition-based stats.
Identities = 25/74 (33%), Positives = 41/74 (55%), Gaps = 3/74 (4%)
Query: 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLE 60
M + VKTL G EI+++P D + +K+ +E +G P QQ LI+ GK L D T +
Sbjct: 1 MLIKVKTLTGKEIEIDIEPTDTIDRIKERVEEKEG---IPPVQQRLIYAGKQLADDKTAK 57
Query: 61 ENKVAENSFVVVML 74
+ + S + ++L
Sbjct: 58 DYNIEGGSVLHLVL 71
>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 = 41.6 bits (96), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 23/53 (43%), Positives = 31/53 (58%), Gaps = 3/53 (5%)
Query: 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVL 53
M++FVKTL G +EV+P D + +VK I+ +G P QQ LI GK L
Sbjct: 3 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEG---IPPDQQRLIFAGKQL 52
>pdb|2KDI|A Chain A, Solution Structure Of A UbiquitinUIM FUSION PROTEIN
Length = 114
Score = 41.6 bits (96), Expect = 8e-04, Method: Composition-based stats.
Identities = 25/73 (34%), Positives = 39/73 (53%), Gaps = 3/73 (4%)
Query: 2 KVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEE 61
++F KTL G +EV+ D + +VK I+ +G P QQ LI GK L+D TL +
Sbjct: 11 QIFAKTLTGKTITLEVESSDTIDNVKSKIQDKEG---IPPDQQRLIWAGKQLEDGRTLSD 67
Query: 62 NKVAENSFVVVML 74
+ S + ++L
Sbjct: 68 YNIQRESTLHLVL 80
>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 = 41.2 bits (95), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 28/81 (34%), Positives = 43/81 (53%), Gaps = 10/81 (12%)
Query: 1 MKVFVKTLK-------GTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVL 53
M++FVKTL G +EV+P D + +VK I+ +G P QQ LI GK L
Sbjct: 1 MQIFVKTLTQVRELVGGKTITLEVEPSDTIENVKAKIQDKEG---IPPDQQRLIFAGKQL 57
Query: 54 KDVTTLEENKVAENSFVVVML 74
+D TL + + + S + ++L
Sbjct: 58 EDGRTLSDYNIQKESTLHLVL 78
>pdb|2JVC|A Chain A, Nmr Solution Structure Of Ubiquitin Like Protein
Length = 82
Score = 40.4 bits (93), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 27/74 (36%), Positives = 38/74 (51%), Gaps = 3/74 (4%)
Query: 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLE 60
M++FVKTL G I+V D V VK I +G P QQ LI GK L+D +
Sbjct: 6 MQIFVKTLTGKTITIDVDHADTVGAVKAKIYDKEG---IPPDQQRLIFGGKQLEDSNAMS 62
Query: 61 ENKVAENSFVVVML 74
+ V + S + ++L
Sbjct: 63 DYNVQKESTLHLVL 76
>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 = 38.1 bits (87), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 28/82 (34%), Positives = 43/82 (52%), Gaps = 11/82 (13%)
Query: 1 MKVFVKTLKGTH--------FEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKV 52
M++FVKTL G +EV+P D + +VK I+ +G P QQ LI GK
Sbjct: 1 MQIFVKTLTGGGGGGGGGKTITLEVEPSDTIENVKAKIQDKEG---IPPDQQRLIFAGKQ 57
Query: 53 LKDVTTLEENKVAENSFVVVML 74
L+D TL + + + S + ++L
Sbjct: 58 LEDGRTLSDYNIQKESTLHLVL 79
>pdb|3IHP|A Chain A, Covalent Ubiquitin-Usp5 Complex
pdb|3IHP|B Chain B, Covalent Ubiquitin-Usp5 Complex
Length = 854
Score = 35.0 bits (79), Expect = 0.072, Method: Compositional matrix adjust.
Identities = 20/60 (33%), Positives = 34/60 (56%), Gaps = 3/60 (5%)
Query: 160 GQAASNLVAGSNLEATVQQILDMGGGSWDRETVIRALRAAYNNPERAVEYLYSGIPEQTA 219
G +++ A E V I+ MG + R+ ++ALRA N+ ERAV++++S I + A
Sbjct: 708 GPGSTSAAADPPPEDCVTTIVSMG---FSRDQALKALRATNNSLERAVDWIFSHIDDLDA 764
>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 = 33.9 bits (76), Expect = 0.15, Method: Composition-based stats.
Identities = 20/55 (36%), Positives = 29/55 (52%), Gaps = 3/55 (5%)
Query: 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKD 55
++VFVK G + + P + +K+ IE QG P QQ L QG+VL+D
Sbjct: 8 IQVFVKNPDGGSYAYAINPNSFILGLKQQIEDQQG---LPKKQQQLEFQGQVLQD 59
>pdb|3M63|B Chain B, Crystal Structure Of Ufd2 In Complex With The
Ubiquitin-Like (Ubl) Domain Of Dsk2
Length = 101
Score = 33.9 bits (76), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 20/58 (34%), Positives = 29/58 (50%), Gaps = 3/58 (5%)
Query: 13 FEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFV 70
+E+ V PE V K+ I G P + Q LI+ GK+LKD T+E + + V
Sbjct: 40 WEVNVAPESTVLQFKEAINKANG---IPVANQRLIYSGKILKDDQTVESYHIQDGHSV 94
>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 = 33.5 bits (75), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 20/58 (34%), Positives = 29/58 (50%), Gaps = 3/58 (5%)
Query: 13 FEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLEENKVAENSFV 70
+E+ V PE V K+ I G P + Q LI+ GK+LKD T+E + + V
Sbjct: 16 WEVNVAPESTVLQFKEAINKANG---IPVANQRLIYSGKILKDDQTVESYHIQDGHSV 70
>pdb|2DAK|A Chain A, Solution Structure Of The Second Uba Domain In The Human
Ubiquitin Specific Protease 5 (Isopeptidase 5)
Length = 63
Score = 32.7 bits (73), Expect = 0.33, Method: Composition-based stats.
Identities = 18/47 (38%), Positives = 29/47 (61%), Gaps = 3/47 (6%)
Query: 173 EATVQQILDMGGGSWDRETVIRALRAAYNNPERAVEYLYSGIPEQTA 219
E V I+ MG + R+ ++ALRA N+ ERAV++++S I + A
Sbjct: 10 EDCVTTIVSMG---FSRDQALKALRATNNSLERAVDWIFSHIDDLDA 53
>pdb|4DWF|A Chain A, Crystal Structure Of A Hla-B Associated Transcript 3
(Bat3) From Homo Sapiens At 1.80 A Resolution
pdb|4DWF|B Chain B, Crystal Structure Of A Hla-B Associated Transcript 3
(Bat3) From Homo Sapiens At 1.80 A Resolution
Length = 90
Score = 32.0 bits (71), Expect = 0.56, Method: Compositional matrix adjust.
Identities = 22/65 (33%), Positives = 34/65 (52%), Gaps = 3/65 (4%)
Query: 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLE 60
++V VKTL V + V + K++I S P+ +Q LI+QG+VL+D L+
Sbjct: 6 LEVLVKTLDSQTRTFIVGAQXNVKEFKEHIA---ASVSIPSEKQRLIYQGRVLQDDKKLQ 62
Query: 61 ENKVA 65
E V
Sbjct: 63 EYNVG 67
>pdb|1WX9|A Chain A, Solution Structure Of The N-Terminal Ubiquitin-Like
Domain In The Human Bat3 Protein
Length = 86
Score = 31.2 bits (69), Expect = 0.93, Method: Compositional matrix adjust.
Identities = 22/65 (33%), Positives = 34/65 (52%), Gaps = 3/65 (4%)
Query: 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLE 60
++V VKTL V + V + K++I S P+ +Q LI+QG+VL+D L+
Sbjct: 8 LEVLVKTLDSQTRTFIVGAQMNVKEFKEHIAA---SVSIPSEKQRLIYQGRVLQDDKKLQ 64
Query: 61 ENKVA 65
E V
Sbjct: 65 EYNVG 69
>pdb|2QSF|X Chain X, Crystal Structure Of The Rad4-Rad23 Complex
pdb|2QSG|X Chain X, Crystal Structure Of Rad4-Rad23 Bound To A Uv-Damaged Dna
pdb|2QSH|X Chain X, Crystal Structure Of Rad4-Rad23 Bound To A Mismatch Dna
Length = 171
Score = 30.8 bits (68), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 25/98 (25%), Positives = 45/98 (45%), Gaps = 23/98 (23%)
Query: 288 ALRTMVQANPQILQPMLQELGKQNPH---------------LMRLIQEHQTDFLRLINEP 332
+LR +V NP+ L P+L+ + + P L+ + ++ D + ++
Sbjct: 37 SLRQVVSGNPEALAPLLENISARYPQLREHIMANPEVFVSMLLEAVGDNMQDVMEGADDM 96
Query: 333 VEGGEGNVLGQLASA-MPQA-------VTVTPEEREAI 362
VEG + V G+ A+A + Q V TPE+ +AI
Sbjct: 97 VEGEDIEVTGEAAAAGLGQGEGEGSFQVDYTPEDDQAI 134
>pdb|2LBC|A Chain A, Solution Structure Of Tandem Uba Of Usp13
Length = 126
Score = 30.8 bits (68), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 17/40 (42%), Positives = 24/40 (60%), Gaps = 3/40 (7%)
Query: 173 EATVQQILDMGGGSWDRETVIRALRAAYNNPERAVEYLYS 212
E V I MG + R I+ALRA NN ERA+++++S
Sbjct: 79 EEIVAIITSMG---FQRNQAIQALRATNNNLERALDWIFS 115
>pdb|4EEW|A Chain A, Crystal Structure Of The Ubl Domain Of Bag6
pdb|4EEW|B Chain B, Crystal Structure Of The Ubl Domain Of Bag6
Length = 88
Score = 30.4 bits (67), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 22/65 (33%), Positives = 34/65 (52%), Gaps = 3/65 (4%)
Query: 1 MKVFVKTLKGTHFEIEVKPEDKVSDVKKNIETVQGSDVYPASQQMLIHQGKVLKDVTTLE 60
++V VKTL V + V + K++I S P+ +Q LI+QG+VL+D L+
Sbjct: 18 LEVLVKTLDSQTRTFIVGAQMNVKEFKEHI---AASVSIPSEKQRLIYQGRVLQDDKKLQ 74
Query: 61 ENKVA 65
E V
Sbjct: 75 EYNVG 79
>pdb|1X3Z|B Chain B, Structure Of A Peptide:n-Glycanase-Rad23 Complex
Length = 72
Score = 29.6 bits (65), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 14/50 (28%), Positives = 26/50 (52%)
Query: 284 QQFQALRTMVQANPQILQPMLQELGKQNPHLMRLIQEHQTDFLRLINEPV 333
+ +LR +V NP+ L P+L+ + + P L I + F+ ++ E V
Sbjct: 23 EDLLSLRQVVSGNPEALAPLLENISARYPQLREHIMANPEVFVSMLLEAV 72
>pdb|1X3W|B Chain B, Structure Of A Peptide:n-Glycanase-Rad23 Complex
Length = 72
Score = 28.5 bits (62), Expect = 5.9, Method: Compositional matrix adjust.
Identities = 14/50 (28%), Positives = 25/50 (50%)
Query: 284 QQFQALRTMVQANPQILQPMLQELGKQNPHLMRLIQEHQTDFLRLINEPV 333
+ +LR +V NP+ L P+L+ + + P L I + F+ + E V
Sbjct: 23 EDLLSLRQVVSGNPEALAPLLENISARYPQLREHIXANPEVFVSXLLEAV 72
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
0.313 0.131 0.365
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,240,892
Number of Sequences: 62578
Number of extensions: 239316
Number of successful extensions: 653
Number of sequences better than 100.0: 105
Number of HSP's better than 100.0 without gapping: 100
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 542
Number of HSP's gapped (non-prelim): 112
length of query: 364
length of database: 14,973,337
effective HSP length: 100
effective length of query: 264
effective length of database: 8,715,537
effective search space: 2300901768
effective search space used: 2300901768
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 52 (24.6 bits)