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= 042212
(97 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 = 122 bits (307), Expect = 3e-29, Method: Compositional matrix adjust.
Identities = 68/114 (59%), Positives = 74/114 (64%), Gaps = 18/114 (15%)
Query: 1 MPLEQQRLVFADKSL-----LADYNIQKESTLHLVARLRGRMQIFVKTSTGKTITLEVES 55
+P +QQRL+FA K L L+DYNIQKESTLHLV RLRG MQIFVKT TGKTITLEVE
Sbjct: 36 IPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGHMQIFVKTLTGKTITLEVEP 95
Query: 56 SDMIDNASRGSSSPAG-------------NFEDGWTQADYNIQKESTLHFVLRL 96
SD I+N G EDG T +DYNIQKESTLH VLRL
Sbjct: 96 SDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRL 149
Score = 73.2 bits (178), Expect = 4e-14, Method: Compositional matrix adjust.
Identities = 41/73 (56%), Positives = 43/73 (58%), Gaps = 13/73 (17%)
Query: 37 MQIFVKTSTGKTITLEVESSDMIDNASRGSSSPAG-------------NFEDGWTQADYN 83
MQIFVKT TGKTITLEVE SD I+N G EDG T +DYN
Sbjct: 1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 84 IQKESTLHFVLRL 96
IQKESTLH VLRL
Sbjct: 61 IQKESTLHLVLRL 73
Score = 54.7 bits (130), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 27/40 (67%), Positives = 31/40 (77%), Gaps = 5/40 (12%)
Query: 1 MPLEQQRLVFADKSL-----LADYNIQKESTLHLVARLRG 35
+P +QQRL+FA K L L+DYNIQKESTLHLV RLRG
Sbjct: 112 IPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRG 151
>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 = 122 bits (305), Expect = 6e-29, Method: Compositional matrix adjust.
Identities = 68/114 (59%), Positives = 74/114 (64%), Gaps = 18/114 (15%)
Query: 1 MPLEQQRLVFADKSL-----LADYNIQKESTLHLVARLRGRMQIFVKTSTGKTITLEVES 55
+P +QQRL+FA K L L+DYNIQKESTLHLV RLRG MQIFVKT TGKTITLEVE
Sbjct: 36 IPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGGMQIFVKTLTGKTITLEVEP 95
Query: 56 SDMIDNASRGSSSPAG-------------NFEDGWTQADYNIQKESTLHFVLRL 96
SD I+N G EDG T +DYNIQKESTLH VLRL
Sbjct: 96 SDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRL 149
Score = 72.8 bits (177), Expect = 4e-14, Method: Compositional matrix adjust.
Identities = 41/73 (56%), Positives = 43/73 (58%), Gaps = 13/73 (17%)
Query: 37 MQIFVKTSTGKTITLEVESSDMIDNASRGSSSPAG-------------NFEDGWTQADYN 83
MQIFVKT TGKTITLEVE SD I+N G EDG T +DYN
Sbjct: 1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 84 IQKESTLHFVLRL 96
IQKESTLH VLRL
Sbjct: 61 IQKESTLHLVLRL 73
Score = 55.1 bits (131), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 27/40 (67%), Positives = 31/40 (77%), Gaps = 5/40 (12%)
Query: 1 MPLEQQRLVFADKSL-----LADYNIQKESTLHLVARLRG 35
+P +QQRL+FA K L L+DYNIQKESTLHLV RLRG
Sbjct: 112 IPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRG 151
>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 = 122 bits (305), Expect = 6e-29, Method: Compositional matrix adjust.
Identities = 68/114 (59%), Positives = 74/114 (64%), Gaps = 18/114 (15%)
Query: 1 MPLEQQRLVFADKSL-----LADYNIQKESTLHLVARLRGRMQIFVKTSTGKTITLEVES 55
+P +QQRL+FA K L L+DYNIQKESTLHLV RLRG MQIFVKT TGKTITLEVE
Sbjct: 38 IPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGGMQIFVKTLTGKTITLEVEP 97
Query: 56 SDMIDNASRGSSSPAG-------------NFEDGWTQADYNIQKESTLHFVLRL 96
SD I+N G EDG T +DYNIQKESTLH VLRL
Sbjct: 98 SDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRL 151
Score = 74.7 bits (182), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 42/75 (56%), Positives = 44/75 (58%), Gaps = 13/75 (17%)
Query: 35 GRMQIFVKTSTGKTITLEVESSDMIDNASRGSSSPAG-------------NFEDGWTQAD 81
G MQIFVKT TGKTITLEVE SD I+N G EDG T +D
Sbjct: 1 GSMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSD 60
Query: 82 YNIQKESTLHFVLRL 96
YNIQKESTLH VLRL
Sbjct: 61 YNIQKESTLHLVLRL 75
Score = 55.1 bits (131), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 27/40 (67%), Positives = 31/40 (77%), Gaps = 5/40 (12%)
Query: 1 MPLEQQRLVFADKSL-----LADYNIQKESTLHLVARLRG 35
+P +QQRL+FA K L L+DYNIQKESTLHLV RLRG
Sbjct: 114 IPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRG 153
>pdb|2W9N|A Chain A, Crystal Structure Of Linear Di-Ubiquitin
Length = 152
Score = 122 bits (305), Expect = 6e-29, Method: Compositional matrix adjust.
Identities = 68/114 (59%), Positives = 74/114 (64%), Gaps = 18/114 (15%)
Query: 1 MPLEQQRLVFADKSL-----LADYNIQKESTLHLVARLRGRMQIFVKTSTGKTITLEVES 55
+P +QQRL+FA K L L+DYNIQKESTLHLV RLRG MQIFVKT TGKTITLEVE
Sbjct: 36 IPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGGMQIFVKTLTGKTITLEVEP 95
Query: 56 SDMIDNASRGSSSPAG-------------NFEDGWTQADYNIQKESTLHFVLRL 96
SD I+N G EDG T +DYNIQKESTLH VLRL
Sbjct: 96 SDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRL 149
Score = 70.5 bits (171), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 40/72 (55%), Positives = 42/72 (58%), Gaps = 13/72 (18%)
Query: 38 QIFVKTSTGKTITLEVESSDMIDNASRGSSSPAG-------------NFEDGWTQADYNI 84
QIFVKT TGKTITLEVE SD I+N G EDG T +DYNI
Sbjct: 2 QIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNI 61
Query: 85 QKESTLHFVLRL 96
QKESTLH VLRL
Sbjct: 62 QKESTLHLVLRL 73
Score = 55.1 bits (131), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 27/40 (67%), Positives = 31/40 (77%), Gaps = 5/40 (12%)
Query: 1 MPLEQQRLVFADKSL-----LADYNIQKESTLHLVARLRG 35
+P +QQRL+FA K L L+DYNIQKESTLHLV RLRG
Sbjct: 112 IPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRG 151
>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 = 122 bits (305), Expect = 6e-29, Method: Compositional matrix adjust.
Identities = 68/114 (59%), Positives = 74/114 (64%), Gaps = 18/114 (15%)
Query: 1 MPLEQQRLVFADKSL-----LADYNIQKESTLHLVARLRGRMQIFVKTSTGKTITLEVES 55
+P +QQRL+FA K L L+DYNIQKESTLHLV RLRG MQIFVKT TGKTITLEVE
Sbjct: 56 IPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGGMQIFVKTLTGKTITLEVEP 115
Query: 56 SDMIDNASRGSSSPAG-------------NFEDGWTQADYNIQKESTLHFVLRL 96
SD I+N G EDG T +DYNIQKESTLH VLRL
Sbjct: 116 SDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRL 169
Score = 72.8 bits (177), Expect = 5e-14, Method: Compositional matrix adjust.
Identities = 41/73 (56%), Positives = 43/73 (58%), Gaps = 13/73 (17%)
Query: 37 MQIFVKTSTGKTITLEVESSDMIDNASRGSSSPAG-------------NFEDGWTQADYN 83
MQIFVKT TGKTITLEVE SD I+N G EDG T +DYN
Sbjct: 21 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 80
Query: 84 IQKESTLHFVLRL 96
IQKESTLH VLRL
Sbjct: 81 IQKESTLHLVLRL 93
Score = 55.1 bits (131), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 27/40 (67%), Positives = 31/40 (77%), Gaps = 5/40 (12%)
Query: 1 MPLEQQRLVFADKSL-----LADYNIQKESTLHLVARLRG 35
+P +QQRL+FA K L L+DYNIQKESTLHLV RLRG
Sbjct: 132 IPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRG 171
>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 = 77.4 bits (189), Expect = 2e-15, Method: Compositional matrix adjust.
Identities = 43/73 (58%), Positives = 44/73 (60%), Gaps = 13/73 (17%)
Query: 37 MQIFVKTSTGKTITLEVESSDMIDNASRGSSSPAG-------------NFEDGWTQADYN 83
MQIFVKT TGKTITLEVESSD IDN G EDG T +DYN
Sbjct: 1 MQIFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 84 IQKESTLHFVLRL 96
IQKESTLH VLRL
Sbjct: 61 IQKESTLHLVLRL 73
Score = 55.1 bits (131), Expect = 9e-09, Method: Compositional matrix adjust.
Identities = 27/40 (67%), Positives = 31/40 (77%), Gaps = 5/40 (12%)
Query: 1 MPLEQQRLVFADKSL-----LADYNIQKESTLHLVARLRG 35
+P +QQRL+FA K L L+DYNIQKESTLHLV RLRG
Sbjct: 36 IPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRG 75
>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 = 75.9 bits (185), Expect = 5e-15, Method: Compositional matrix adjust.
Identities = 43/73 (58%), Positives = 44/73 (60%), Gaps = 13/73 (17%)
Query: 37 MQIFVKTSTGKTITLEVESSDMIDNASRGSSSPAG-------------NFEDGWTQADYN 83
MQIFVKT TGKTITLEVESSD IDN G EDG T +DYN
Sbjct: 1 MQIFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 84 IQKESTLHFVLRL 96
IQKESTLH VLRL
Sbjct: 61 IQKESTLHLVLRL 73
Score = 55.1 bits (131), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 27/40 (67%), Positives = 31/40 (77%), Gaps = 5/40 (12%)
Query: 1 MPLEQQRLVFADKSL-----LADYNIQKESTLHLVARLRG 35
+P +QQRL+FA K L L+DYNIQKESTLHLV RLRG
Sbjct: 36 IPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRG 75
>pdb|1OTR|B Chain B, Solution Structure Of A Cue-Ubiquitin Complex
pdb|1Q0W|B Chain B, Solution Structure Of Vps27 Amino-Terminal Uim-Ubiquitin
Complex
pdb|1WR1|A Chain A, The Complex Sturcture Of Dsk2p Uba With Ubiquitin
pdb|2G3Q|B Chain B, Solution Structure Of Ede1 Uba-Ubiquitin Complex
pdb|2JT4|B Chain B, Solution Structure Of The Sla1 Sh3-3-Ubiquitin Complex
pdb|3CMM|B Chain B, Crystal Structure Of The Uba1-Ubiquitin Complex
pdb|3CMM|D Chain D, Crystal Structure Of The Uba1-Ubiquitin Complex
pdb|2L00|B Chain B, Solution Structure Of The Non-Covalent Complex Of The
Znf216 A20 Domain With Ubiquitin
Length = 76
Score = 75.9 bits (185), Expect = 5e-15, Method: Compositional matrix adjust.
Identities = 43/73 (58%), Positives = 44/73 (60%), Gaps = 13/73 (17%)
Query: 37 MQIFVKTSTGKTITLEVESSDMIDNASRGSSSPAG-------------NFEDGWTQADYN 83
MQIFVKT TGKTITLEVESSD IDN G EDG T +DYN
Sbjct: 1 MQIFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 84 IQKESTLHFVLRL 96
IQKESTLH VLRL
Sbjct: 61 IQKESTLHLVLRL 73
Score = 55.1 bits (131), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 27/40 (67%), Positives = 31/40 (77%), Gaps = 5/40 (12%)
Query: 1 MPLEQQRLVFADKSL-----LADYNIQKESTLHLVARLRG 35
+P +QQRL+FA K L L+DYNIQKESTLHLV RLRG
Sbjct: 36 IPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRG 75
>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 = 75.9 bits (185), Expect = 5e-15, Method: Compositional matrix adjust.
Identities = 43/73 (58%), Positives = 44/73 (60%), Gaps = 13/73 (17%)
Query: 37 MQIFVKTSTGKTITLEVESSDMIDNASRGSSSPAG-------------NFEDGWTQADYN 83
MQIFVKT TGKTITLEVESSD IDN G EDG T +DYN
Sbjct: 4 MQIFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 63
Query: 84 IQKESTLHFVLRL 96
IQKESTLH VLRL
Sbjct: 64 IQKESTLHLVLRL 76
Score = 55.1 bits (131), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 27/40 (67%), Positives = 31/40 (77%), Gaps = 5/40 (12%)
Query: 1 MPLEQQRLVFADKSL-----LADYNIQKESTLHLVARLRG 35
+P +QQRL+FA K L L+DYNIQKESTLHLV RLRG
Sbjct: 39 IPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRG 78
>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 = 75.5 bits (184), Expect = 7e-15, Method: Compositional matrix adjust.
Identities = 43/73 (58%), Positives = 44/73 (60%), Gaps = 13/73 (17%)
Query: 37 MQIFVKTSTGKTITLEVESSDMIDNASRGSSSPAG-------------NFEDGWTQADYN 83
MQIFVKT TGKTITLEVESSD IDN G EDG T +DYN
Sbjct: 21 MQIFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 80
Query: 84 IQKESTLHFVLRL 96
IQKESTLH VLRL
Sbjct: 81 IQKESTLHLVLRL 93
Score = 55.1 bits (131), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 27/40 (67%), Positives = 31/40 (77%), Gaps = 5/40 (12%)
Query: 1 MPLEQQRLVFADKSL-----LADYNIQKESTLHLVARLRG 35
+P +QQRL+FA K L L+DYNIQKESTLHLV RLRG
Sbjct: 56 IPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRG 95
>pdb|4HCN|B Chain B, Crystal Structure Of Burkholderia Pseudomallei Effector
Protein Chbp In Complex With Ubiquitin
Length = 98
Score = 75.5 bits (184), Expect = 7e-15, Method: Compositional matrix adjust.
Identities = 45/78 (57%), Positives = 47/78 (60%), Gaps = 14/78 (17%)
Query: 33 LRGR-MQIFVKTSTGKTITLEVESSDMIDNASRGSSSPAG-------------NFEDGWT 78
+GR MQIFVKT TGKTITLEVESSD IDN G EDG T
Sbjct: 18 FQGRPMQIFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRT 77
Query: 79 QADYNIQKESTLHFVLRL 96
+DYNIQKESTLH VLRL
Sbjct: 78 LSDYNIQKESTLHLVLRL 95
Score = 54.7 bits (130), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 27/40 (67%), Positives = 31/40 (77%), Gaps = 5/40 (12%)
Query: 1 MPLEQQRLVFADKSL-----LADYNIQKESTLHLVARLRG 35
+P +QQRL+FA K L L+DYNIQKESTLHLV RLRG
Sbjct: 58 IPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRG 97
>pdb|1ZW7|A Chain A, Elimination Of The C-Cap In Ubiquitin Structure,
Dynamics And Thermodynamic Consequences
Length = 82
Score = 75.5 bits (184), Expect = 8e-15, Method: Compositional matrix adjust.
Identities = 45/73 (61%), Positives = 49/73 (67%), Gaps = 13/73 (17%)
Query: 37 MQIFVKTSTGKTITLEVESSDMIDNA-SRGSSSP-----------AGN-FEDGWTQADYN 83
MQIFVKT TG TITLEVESSD IDN S+ ++P AG EDG T +DYN
Sbjct: 1 MQIFVKTLTGATITLEVESSDTIDNVKSKIQAAPGIPPDQQELIFAGKQLEDGRTLSDYN 60
Query: 84 IQKESTLHFVLRL 96
IQKESTLH VLRL
Sbjct: 61 IQKESTLHLVLRL 73
Score = 52.8 bits (125), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 26/40 (65%), Positives = 30/40 (75%), Gaps = 5/40 (12%)
Query: 1 MPLEQQRLVFADKSL-----LADYNIQKESTLHLVARLRG 35
+P +QQ L+FA K L L+DYNIQKESTLHLV RLRG
Sbjct: 36 IPPDQQELIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRG 75
>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 = 75.1 bits (183), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 43/73 (58%), Positives = 44/73 (60%), Gaps = 13/73 (17%)
Query: 37 MQIFVKTSTGKTITLEVESSDMIDNASRGSSSPAG-------------NFEDGWTQADYN 83
MQIFVKT TGKTITLEVESSD IDN G EDG T +DYN
Sbjct: 1 MQIFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 84 IQKESTLHFVLRL 96
IQKESTLH VLRL
Sbjct: 61 IQKESTLHLVLRL 73
Score = 55.1 bits (131), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 27/40 (67%), Positives = 31/40 (77%), Gaps = 5/40 (12%)
Query: 1 MPLEQQRLVFADKSL-----LADYNIQKESTLHLVARLRG 35
+P +QQRL+FA K L L+DYNIQKESTLHLV RLRG
Sbjct: 36 IPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRG 75
>pdb|4II2|B Chain B, Crystal Structure Of Ubiquitin Activating Enzyme 1
(uba1) In Complex With The Ub E2 Ubc4, Ubiquitin, And
Atp/mg
Length = 83
Score = 74.7 bits (182), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 44/73 (60%), Positives = 47/73 (64%), Gaps = 13/73 (17%)
Query: 37 MQIFVKTSTGKTITLEVESSDMIDNA-----SRGSSSP-------AG-NFEDGWTQADYN 83
MQIFV+T TG+TITLEVESSD IDN R P AG EDG T ADYN
Sbjct: 8 MQIFVRTLTGRTITLEVESSDTIDNVRARIQDREGIPPDQQRLIFAGRQLEDGRTLADYN 67
Query: 84 IQKESTLHFVLRL 96
IQ+ESTLH VLRL
Sbjct: 68 IQRESTLHLVLRL 80
Score = 53.5 bits (127), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 26/40 (65%), Positives = 31/40 (77%), Gaps = 5/40 (12%)
Query: 1 MPLEQQRLVFADKSL-----LADYNIQKESTLHLVARLRG 35
+P +QQRL+FA + L LADYNIQ+ESTLHLV RLRG
Sbjct: 43 IPPDQQRLIFAGRQLEDGRTLADYNIQRESTLHLVLRLRG 82
>pdb|2JWZ|A Chain A, Mutations In The Hydrophobic Core Of Ubiquitin
Differentially Affect Its Recognition By Receptor
Proteins
Length = 76
Score = 74.3 bits (181), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 43/73 (58%), Positives = 44/73 (60%), Gaps = 13/73 (17%)
Query: 37 MQIFVKTSTGKTITLEVESSDMIDNASRGSSSPAG-------------NFEDGWTQADYN 83
MQIFVKT TGKTITLEVESSD IDN G EDG T +DYN
Sbjct: 1 MQIFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 84 IQKESTLHFVLRL 96
IQKESTLH VLRL
Sbjct: 61 IQKESTLHSVLRL 73
Score = 52.4 bits (124), Expect = 7e-08, Method: Compositional matrix adjust.
Identities = 26/40 (65%), Positives = 30/40 (75%), Gaps = 5/40 (12%)
Query: 1 MPLEQQRLVFADKSL-----LADYNIQKESTLHLVARLRG 35
+P +QQRL+FA K L L+DYNIQKESTLH V RLRG
Sbjct: 36 IPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHSVLRLRG 75
>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 = 73.9 bits (180), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 42/76 (55%), Positives = 45/76 (59%), Gaps = 13/76 (17%)
Query: 34 RGRMQIFVKTSTGKTITLEVESSDMIDNASRGSSSPAG-------------NFEDGWTQA 80
RG MQIFVKT TGKTITLEVE SD I+N G EDG T +
Sbjct: 6 RGSMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLS 65
Query: 81 DYNIQKESTLHFVLRL 96
+YNIQKESTLH VLRL
Sbjct: 66 EYNIQKESTLHLVLRL 81
Score = 52.8 bits (125), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 26/40 (65%), Positives = 31/40 (77%), Gaps = 5/40 (12%)
Query: 1 MPLEQQRLVFADKSL-----LADYNIQKESTLHLVARLRG 35
+P +QQRL+FA K L L++YNIQKESTLHLV RLRG
Sbjct: 44 IPPDQQRLIFAGKQLEDGRTLSEYNIQKESTLHLVLRLRG 83
>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 = 73.6 bits (179), Expect = 3e-14, Method: Compositional matrix adjust.
Identities = 42/75 (56%), Positives = 44/75 (58%), Gaps = 13/75 (17%)
Query: 35 GRMQIFVKTSTGKTITLEVESSDMIDNASRGSSSPAG-------------NFEDGWTQAD 81
G MQIFVKT TGKTITLEVE SD I+N G EDG T +D
Sbjct: 4 GSMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSD 63
Query: 82 YNIQKESTLHFVLRL 96
YNIQKESTLH VLRL
Sbjct: 64 YNIQKESTLHLVLRL 78
Score = 55.1 bits (131), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 27/40 (67%), Positives = 31/40 (77%), Gaps = 5/40 (12%)
Query: 1 MPLEQQRLVFADKSL-----LADYNIQKESTLHLVARLRG 35
+P +QQRL+FA K L L+DYNIQKESTLHLV RLRG
Sbjct: 41 IPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRG 80
>pdb|3AI5|A Chain A, Crystal Structure Of Yeast Enhanced Green Fluorescent
Protein- Ubiquitin Fusion Protein
Length = 307
Score = 73.2 bits (178), Expect = 3e-14, Method: Composition-based stats.
Identities = 43/79 (54%), Positives = 46/79 (58%), Gaps = 13/79 (16%)
Query: 31 ARLRGRMQIFVKTSTGKTITLEVESSDMIDNASRGSSSPAG-------------NFEDGW 77
A + G MQIFVKT TGKTITLEVE SD I+N G EDG
Sbjct: 228 AGITGSMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGR 287
Query: 78 TQADYNIQKESTLHFVLRL 96
T +DYNIQKESTLH VLRL
Sbjct: 288 TLSDYNIQKESTLHLVLRL 306
Score = 50.8 bits (120), Expect = 2e-07, Method: Composition-based stats.
Identities = 26/39 (66%), Positives = 30/39 (76%), Gaps = 5/39 (12%)
Query: 1 MPLEQQRLVFADKSL-----LADYNIQKESTLHLVARLR 34
+P +QQRL+FA K L L+DYNIQKESTLHLV RLR
Sbjct: 269 IPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLR 307
>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 = 73.2 bits (178), Expect = 4e-14, Method: Compositional matrix adjust.
Identities = 41/73 (56%), Positives = 43/73 (58%), Gaps = 13/73 (17%)
Query: 37 MQIFVKTSTGKTITLEVESSDMIDNASRGSSSPAG-------------NFEDGWTQADYN 83
MQIFVKT TGKTITLEVE SD I+N G EDG T +DYN
Sbjct: 1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 84 IQKESTLHFVLRL 96
IQKESTLH VLRL
Sbjct: 61 IQKESTLHLVLRL 73
Score = 50.1 bits (118), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 25/38 (65%), Positives = 29/38 (76%), Gaps = 5/38 (13%)
Query: 1 MPLEQQRLVFADKSL-----LADYNIQKESTLHLVARL 33
+P +QQRL+FA K L L+DYNIQKESTLHLV RL
Sbjct: 36 IPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRL 73
>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 = 72.8 bits (177), Expect = 4e-14, Method: Compositional matrix adjust.
Identities = 41/73 (56%), Positives = 43/73 (58%), Gaps = 13/73 (17%)
Query: 37 MQIFVKTSTGKTITLEVESSDMIDNASRGSSSPAG-------------NFEDGWTQADYN 83
MQIFVKT TGKTITLEVE SD I+N G EDG T +DYN
Sbjct: 1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 84 IQKESTLHFVLRL 96
IQKESTLH VLRL
Sbjct: 61 IQKESTLHLVLRL 73
Score = 54.7 bits (130), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 27/40 (67%), Positives = 31/40 (77%), Gaps = 5/40 (12%)
Query: 1 MPLEQQRLVFADKSL-----LADYNIQKESTLHLVARLRG 35
+P +QQRL+FA K L L+DYNIQKESTLHLV RLRG
Sbjct: 36 IPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRG 75
>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 = 72.8 bits (177), Expect = 4e-14, Method: Compositional matrix adjust.
Identities = 41/73 (56%), Positives = 43/73 (58%), Gaps = 13/73 (17%)
Query: 37 MQIFVKTSTGKTITLEVESSDMIDNASRGSSSPAG-------------NFEDGWTQADYN 83
MQIFVKT TGKTITLEVE SD I+N G EDG T +DYN
Sbjct: 1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIAADQQRLIFAGKQLEDGRTLSDYN 60
Query: 84 IQKESTLHFVLRL 96
IQKESTLH VLRL
Sbjct: 61 IQKESTLHLVLRL 73
Score = 52.0 bits (123), Expect = 9e-08, Method: Compositional matrix adjust.
Identities = 26/37 (70%), Positives = 29/37 (78%), Gaps = 5/37 (13%)
Query: 4 EQQRLVFADKSL-----LADYNIQKESTLHLVARLRG 35
+QQRL+FA K L L+DYNIQKESTLHLV RLRG
Sbjct: 39 DQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRG 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 = 72.8 bits (177), Expect = 4e-14, Method: Compositional matrix adjust.
Identities = 41/73 (56%), Positives = 43/73 (58%), Gaps = 13/73 (17%)
Query: 37 MQIFVKTSTGKTITLEVESSDMIDNASRGSSSPAG-------------NFEDGWTQADYN 83
MQIFVKT TGKTITLEVE SD I+N G EDG T +DYN
Sbjct: 1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 84 IQKESTLHFVLRL 96
IQKESTLH VLRL
Sbjct: 61 IQKESTLHLVLRL 73
Score = 54.7 bits (130), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 27/40 (67%), Positives = 31/40 (77%), Gaps = 5/40 (12%)
Query: 1 MPLEQQRLVFADKSL-----LADYNIQKESTLHLVARLRG 35
+P +QQRL+FA K L L+DYNIQKESTLHLV RLRG
Sbjct: 36 IPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRG 75
>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 = 72.8 bits (177), Expect = 5e-14, Method: Compositional matrix adjust.
Identities = 41/73 (56%), Positives = 43/73 (58%), Gaps = 13/73 (17%)
Query: 37 MQIFVKTSTGKTITLEVESSDMIDNASRGSSSPAG-------------NFEDGWTQADYN 83
MQIFVKT TGKTITLEVE SD I+N G EDG T +DYN
Sbjct: 1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 84 IQKESTLHFVLRL 96
IQKESTLH VLRL
Sbjct: 61 IQKESTLHLVLRL 73
Score = 54.7 bits (130), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 27/40 (67%), Positives = 31/40 (77%), Gaps = 5/40 (12%)
Query: 1 MPLEQQRLVFADKSL-----LADYNIQKESTLHLVARLRG 35
+P +QQRL+FA K L L+DYNIQKESTLHLV RLRG
Sbjct: 36 IPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRG 75
>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 = 72.8 bits (177), Expect = 5e-14, Method: Compositional matrix adjust.
Identities = 41/73 (56%), Positives = 43/73 (58%), Gaps = 13/73 (17%)
Query: 37 MQIFVKTSTGKTITLEVESSDMIDNASRGSSSPAG-------------NFEDGWTQADYN 83
MQIFVKT TGKTITLEVE SD I+N G EDG T +DYN
Sbjct: 1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 84 IQKESTLHFVLRL 96
IQKESTLH VLRL
Sbjct: 61 IQKESTLHLVLRL 73
Score = 54.7 bits (130), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 27/40 (67%), Positives = 31/40 (77%), Gaps = 5/40 (12%)
Query: 1 MPLEQQRLVFADKSL-----LADYNIQKESTLHLVARLRG 35
+P +QQRL+FA K L L+DYNIQKESTLHLV RLRG
Sbjct: 36 IPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRG 75
>pdb|2XK5|B Chain B, Crystal Structure Of K6-Linked Diubiquitin
Length = 76
Score = 72.8 bits (177), Expect = 5e-14, Method: Compositional matrix adjust.
Identities = 41/73 (56%), Positives = 43/73 (58%), Gaps = 13/73 (17%)
Query: 37 MQIFVKTSTGKTITLEVESSDMIDNASRGSSSPAG-------------NFEDGWTQADYN 83
MQIFVKT TGKTITLEVE SD I+N G EDG T +DYN
Sbjct: 1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPQQQRLIFAGKQLEDGRTLSDYN 60
Query: 84 IQKESTLHFVLRL 96
IQKESTLH VLRL
Sbjct: 61 IQKESTLHLVLRL 73
Score = 55.1 bits (131), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 27/40 (67%), Positives = 31/40 (77%), Gaps = 5/40 (12%)
Query: 1 MPLEQQRLVFADKSL-----LADYNIQKESTLHLVARLRG 35
+P +QQRL+FA K L L+DYNIQKESTLHLV RLRG
Sbjct: 36 IPPQQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRG 75
>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 = 72.8 bits (177), Expect = 5e-14, Method: Compositional matrix adjust.
Identities = 41/73 (56%), Positives = 43/73 (58%), Gaps = 13/73 (17%)
Query: 37 MQIFVKTSTGKTITLEVESSDMIDNASRGSSSPAG-------------NFEDGWTQADYN 83
MQIFVKT TGKTITLEVE SD I+N G EDG T +DYN
Sbjct: 1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 84 IQKESTLHFVLRL 96
IQKESTLH VLRL
Sbjct: 61 IQKESTLHLVLRL 73
Score = 54.7 bits (130), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 27/40 (67%), Positives = 31/40 (77%), Gaps = 5/40 (12%)
Query: 1 MPLEQQRLVFADKSL-----LADYNIQKESTLHLVARLRG 35
+P +QQRL+FA K L L+DYNIQKESTLHLV RLRG
Sbjct: 36 IPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRG 75
>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 = 72.8 bits (177), Expect = 5e-14, Method: Compositional matrix adjust.
Identities = 40/73 (54%), Positives = 44/73 (60%), Gaps = 13/73 (17%)
Query: 37 MQIFVKTSTGKTITLEVESSDMIDNASRGSSSPAG-------------NFEDGWTQADYN 83
MQIFVKT TGKTITL+VE+SD I+N G EDG T +DYN
Sbjct: 1 MQIFVKTLTGKTITLDVEASDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 84 IQKESTLHFVLRL 96
IQKESTLH VLRL
Sbjct: 61 IQKESTLHLVLRL 73
Score = 55.1 bits (131), Expect = 9e-09, Method: Compositional matrix adjust.
Identities = 27/40 (67%), Positives = 31/40 (77%), Gaps = 5/40 (12%)
Query: 1 MPLEQQRLVFADKSL-----LADYNIQKESTLHLVARLRG 35
+P +QQRL+FA K L L+DYNIQKESTLHLV RLRG
Sbjct: 36 IPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRG 75
>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 = 72.8 bits (177), Expect = 5e-14, Method: Compositional matrix adjust.
Identities = 41/73 (56%), Positives = 43/73 (58%), Gaps = 13/73 (17%)
Query: 37 MQIFVKTSTGKTITLEVESSDMIDNASRGSSSPAG-------------NFEDGWTQADYN 83
MQIFVKT TGKTITLEVE SD I+N G EDG T +DYN
Sbjct: 1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 84 IQKESTLHFVLRL 96
IQKESTLH VLRL
Sbjct: 61 IQKESTLHLVLRL 73
Score = 54.7 bits (130), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 27/40 (67%), Positives = 31/40 (77%), Gaps = 5/40 (12%)
Query: 1 MPLEQQRLVFADKSL-----LADYNIQKESTLHLVARLRG 35
+P +QQRL+FA K L L+DYNIQKESTLHLV RLRG
Sbjct: 36 IPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRG 75
>pdb|1ZGU|B Chain B, Solution Structure Of The Human Mms2-Ubiquitin Complex
Length = 76
Score = 72.4 bits (176), Expect = 5e-14, Method: Compositional matrix adjust.
Identities = 41/73 (56%), Positives = 43/73 (58%), Gaps = 13/73 (17%)
Query: 37 MQIFVKTSTGKTITLEVESSDMIDNASRGSSSPAG-------------NFEDGWTQADYN 83
MQIFVKT TGKTITLEVE SD I+N G EDG T +DYN
Sbjct: 1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGRQLEDGRTLSDYN 60
Query: 84 IQKESTLHFVLRL 96
IQKESTLH VLRL
Sbjct: 61 IQKESTLHLVLRL 73
Score = 53.5 bits (127), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 26/40 (65%), Positives = 31/40 (77%), Gaps = 5/40 (12%)
Query: 1 MPLEQQRLVFADKSL-----LADYNIQKESTLHLVARLRG 35
+P +QQRL+FA + L L+DYNIQKESTLHLV RLRG
Sbjct: 36 IPPDQQRLIFAGRQLEDGRTLSDYNIQKESTLHLVLRLRG 75
>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 = 72.4 bits (176), Expect = 6e-14, Method: Compositional matrix adjust.
Identities = 41/73 (56%), Positives = 43/73 (58%), Gaps = 13/73 (17%)
Query: 37 MQIFVKTSTGKTITLEVESSDMIDNASRGSSSPAG-------------NFEDGWTQADYN 83
MQIFVKT TGKTITLEVE SD I+N G EDG T +DYN
Sbjct: 1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 84 IQKESTLHFVLRL 96
IQKESTLH VLRL
Sbjct: 61 IQKESTLHLVLRL 73
Score = 54.7 bits (130), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 27/40 (67%), Positives = 31/40 (77%), Gaps = 5/40 (12%)
Query: 1 MPLEQQRLVFADKSL-----LADYNIQKESTLHLVARLRG 35
+P +QQRL+FA K L L+DYNIQKESTLHLV RLRG
Sbjct: 36 IPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRG 75
>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 = 72.4 bits (176), Expect = 6e-14, Method: Compositional matrix adjust.
Identities = 41/73 (56%), Positives = 43/73 (58%), Gaps = 13/73 (17%)
Query: 37 MQIFVKTSTGKTITLEVESSDMIDNASRGSSSPAG-------------NFEDGWTQADYN 83
MQIFVKT TGKTITLEVE SD I+N G EDG T +DYN
Sbjct: 3 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 62
Query: 84 IQKESTLHFVLRL 96
IQKESTLH VLRL
Sbjct: 63 IQKESTLHLVLRL 75
Score = 54.7 bits (130), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 27/40 (67%), Positives = 31/40 (77%), Gaps = 5/40 (12%)
Query: 1 MPLEQQRLVFADKSL-----LADYNIQKESTLHLVARLRG 35
+P +QQRL+FA K L L+DYNIQKESTLHLV RLRG
Sbjct: 38 IPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRG 77
>pdb|4AP4|C Chain C, Rnf4 - Ubch5a - Ubiquitin Heterotrimeric Complex
pdb|4AP4|F Chain F, Rnf4 - Ubch5a - Ubiquitin Heterotrimeric Complex
Length = 80
Score = 72.4 bits (176), Expect = 6e-14, Method: Compositional matrix adjust.
Identities = 41/73 (56%), Positives = 43/73 (58%), Gaps = 13/73 (17%)
Query: 37 MQIFVKTSTGKTITLEVESSDMIDNASRGSSSPAG-------------NFEDGWTQADYN 83
MQIFVKT TGKTITLEVE SD I+N G EDG T +DYN
Sbjct: 5 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 64
Query: 84 IQKESTLHFVLRL 96
IQKESTLH VLRL
Sbjct: 65 IQKESTLHLVLRL 77
Score = 55.1 bits (131), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 27/40 (67%), Positives = 31/40 (77%), Gaps = 5/40 (12%)
Query: 1 MPLEQQRLVFADKSL-----LADYNIQKESTLHLVARLRG 35
+P +QQRL+FA K L L+DYNIQKESTLHLV RLRG
Sbjct: 40 IPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRG 79
>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 = 72.4 bits (176), Expect = 6e-14, Method: Compositional matrix adjust.
Identities = 41/73 (56%), Positives = 43/73 (58%), Gaps = 13/73 (17%)
Query: 37 MQIFVKTSTGKTITLEVESSDMIDNASRGSSSPAG-------------NFEDGWTQADYN 83
MQIFVKT TGKTITLEVE SD I+N G EDG T +DYN
Sbjct: 2 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 61
Query: 84 IQKESTLHFVLRL 96
IQKESTLH VLRL
Sbjct: 62 IQKESTLHLVLRL 74
Score = 55.1 bits (131), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 27/40 (67%), Positives = 31/40 (77%), Gaps = 5/40 (12%)
Query: 1 MPLEQQRLVFADKSL-----LADYNIQKESTLHLVARLRG 35
+P +QQRL+FA K L L+DYNIQKESTLHLV RLRG
Sbjct: 37 IPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRG 76
>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 = 72.4 bits (176), Expect = 7e-14, Method: Compositional matrix adjust.
Identities = 41/73 (56%), Positives = 43/73 (58%), Gaps = 13/73 (17%)
Query: 37 MQIFVKTSTGKTITLEVESSDMIDNASRGSSSPAG-------------NFEDGWTQADYN 83
MQIFVKT TGKTITLEVE SD I+N G EDG T +DYN
Sbjct: 4 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 63
Query: 84 IQKESTLHFVLRL 96
IQKESTLH VLRL
Sbjct: 64 IQKESTLHLVLRL 76
Score = 54.7 bits (130), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 27/40 (67%), Positives = 31/40 (77%), Gaps = 5/40 (12%)
Query: 1 MPLEQQRLVFADKSL-----LADYNIQKESTLHLVARLRG 35
+P +QQRL+FA K L L+DYNIQKESTLHLV RLRG
Sbjct: 39 IPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRG 78
>pdb|3K9O|B Chain B, The Crystal Structure Of E2-25k And Ubb+1 Complex
Length = 96
Score = 72.0 bits (175), Expect = 8e-14, Method: Compositional matrix adjust.
Identities = 41/73 (56%), Positives = 43/73 (58%), Gaps = 13/73 (17%)
Query: 37 MQIFVKTSTGKTITLEVESSDMIDNASRGSSSPAG-------------NFEDGWTQADYN 83
MQIFVKT TGKTITLEVE SD I+N G EDG T +DYN
Sbjct: 2 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 61
Query: 84 IQKESTLHFVLRL 96
IQKESTLH VLRL
Sbjct: 62 IQKESTLHLVLRL 74
Score = 54.7 bits (130), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 27/40 (67%), Positives = 31/40 (77%), Gaps = 5/40 (12%)
Query: 1 MPLEQQRLVFADKSL-----LADYNIQKESTLHLVARLRG 35
+P +QQRL+FA K L L+DYNIQKESTLHLV RLRG
Sbjct: 37 IPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRG 76
>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 = 72.0 bits (175), Expect = 8e-14, Method: Compositional matrix adjust.
Identities = 41/73 (56%), Positives = 43/73 (58%), Gaps = 13/73 (17%)
Query: 37 MQIFVKTSTGKTITLEVESSDMIDNASRGSSSPAG-------------NFEDGWTQADYN 83
MQIFVKT TGKTITLEVE SD I+N G EDG T +DYN
Sbjct: 4 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 63
Query: 84 IQKESTLHFVLRL 96
IQKESTLH VLRL
Sbjct: 64 IQKESTLHLVLRL 76
Score = 54.7 bits (130), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 27/40 (67%), Positives = 31/40 (77%), Gaps = 5/40 (12%)
Query: 1 MPLEQQRLVFADKSL-----LADYNIQKESTLHLVARLRG 35
+P +QQRL+FA K L L+DYNIQKESTLHLV RLRG
Sbjct: 39 IPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRG 78
>pdb|2KDI|A Chain A, Solution Structure Of A UbiquitinUIM FUSION PROTEIN
Length = 114
Score = 72.0 bits (175), Expect = 8e-14, Method: Compositional matrix adjust.
Identities = 41/75 (54%), Positives = 43/75 (57%), Gaps = 13/75 (17%)
Query: 35 GRMQIFVKTSTGKTITLEVESSDMIDNASRGSSSPAG-------------NFEDGWTQAD 81
G QIF KT TGKTITLEVESSD IDN G EDG T +D
Sbjct: 8 GEFQIFAKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIWAGKQLEDGRTLSD 67
Query: 82 YNIQKESTLHFVLRL 96
YNIQ+ESTLH VLRL
Sbjct: 68 YNIQRESTLHLVLRL 82
Score = 51.6 bits (122), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 25/40 (62%), Positives = 31/40 (77%), Gaps = 5/40 (12%)
Query: 1 MPLEQQRLVFADKSL-----LADYNIQKESTLHLVARLRG 35
+P +QQRL++A K L L+DYNIQ+ESTLHLV RLRG
Sbjct: 45 IPPDQQRLIWAGKQLEDGRTLSDYNIQRESTLHLVLRLRG 84
>pdb|3ZF7|SS Chain s, High-resolution Cryo-electron Microscopy Structure Of
The Trypanosoma Brucei Ribosome
Length = 128
Score = 72.0 bits (175), Expect = 8e-14, Method: Compositional matrix adjust.
Identities = 40/73 (54%), Positives = 43/73 (58%), Gaps = 13/73 (17%)
Query: 37 MQIFVKTSTGKTITLEVESSDMIDNASRGSSSPAG-------------NFEDGWTQADYN 83
MQIFVKT TGKTI LEVE+SD I+N G E+G T ADYN
Sbjct: 1 MQIFVKTLTGKTIALEVEASDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEEGRTLADYN 60
Query: 84 IQKESTLHFVLRL 96
IQKESTLH VLRL
Sbjct: 61 IQKESTLHLVLRL 73
Score = 56.2 bits (134), Expect = 5e-09, Method: Compositional matrix adjust.
Identities = 28/40 (70%), Positives = 31/40 (77%), Gaps = 5/40 (12%)
Query: 1 MPLEQQRLVFADKSL-----LADYNIQKESTLHLVARLRG 35
+P +QQRL+FA K L LADYNIQKESTLHLV RLRG
Sbjct: 36 IPPDQQRLIFAGKQLEEGRTLADYNIQKESTLHLVLRLRG 75
>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 = 71.6 bits (174), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 40/73 (54%), Positives = 43/73 (58%), Gaps = 13/73 (17%)
Query: 37 MQIFVKTSTGKTITLEVESSDMIDNASRGSSSPAG-------------NFEDGWTQADYN 83
MQIFVKT TGKTITLEVE SD I+N G EDG T +DYN
Sbjct: 1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGRQLEDGRTLSDYN 60
Query: 84 IQKESTLHFVLRL 96
IQ+ESTLH VLRL
Sbjct: 61 IQRESTLHLVLRL 73
Score = 52.4 bits (124), Expect = 6e-08, Method: Compositional matrix adjust.
Identities = 25/40 (62%), Positives = 31/40 (77%), Gaps = 5/40 (12%)
Query: 1 MPLEQQRLVFADKSL-----LADYNIQKESTLHLVARLRG 35
+P +QQRL+FA + L L+DYNIQ+ESTLHLV RLRG
Sbjct: 36 IPPDQQRLIFAGRQLEDGRTLSDYNIQRESTLHLVLRLRG 75
>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 = 71.6 bits (174), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 40/73 (54%), Positives = 43/73 (58%), Gaps = 13/73 (17%)
Query: 37 MQIFVKTSTGKTITLEVESSDMIDNASRGSSSPAG-------------NFEDGWTQADYN 83
MQIFVKT TGKTITLEVE SD I+N G EDG T +DYN
Sbjct: 1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 84 IQKESTLHFVLRL 96
IQ+ESTLH VLRL
Sbjct: 61 IQRESTLHLVLRL 73
Score = 53.5 bits (127), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 26/40 (65%), Positives = 31/40 (77%), Gaps = 5/40 (12%)
Query: 1 MPLEQQRLVFADKSL-----LADYNIQKESTLHLVARLRG 35
+P +QQRL+FA K L L+DYNIQ+ESTLHLV RLRG
Sbjct: 36 IPPDQQRLIFAGKQLEDGRTLSDYNIQRESTLHLVLRLRG 75
>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 = 71.2 bits (173), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 40/73 (54%), Positives = 43/73 (58%), Gaps = 13/73 (17%)
Query: 37 MQIFVKTSTGKTITLEVESSDMIDNASRGSSSPAG-------------NFEDGWTQADYN 83
MQIFVKT TGKTITLEVE SD I+N G EDG T +DYN
Sbjct: 1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGXQLEDGRTLSDYN 60
Query: 84 IQKESTLHFVLRL 96
IQ+ESTLH VLRL
Sbjct: 61 IQRESTLHLVLRL 73
Score = 51.6 bits (122), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 25/40 (62%), Positives = 30/40 (75%), Gaps = 5/40 (12%)
Query: 1 MPLEQQRLVFA-----DKSLLADYNIQKESTLHLVARLRG 35
+P +QQRL+FA D L+DYNIQ+ESTLHLV RLRG
Sbjct: 36 IPPDQQRLIFAGXQLEDGRTLSDYNIQRESTLHLVLRLRG 75
>pdb|3ONS|A Chain A, Crystal Structure Of Human Ubiquitin In A New Crystal
Form
Length = 72
Score = 71.2 bits (173), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 40/72 (55%), Positives = 42/72 (58%), Gaps = 13/72 (18%)
Query: 37 MQIFVKTSTGKTITLEVESSDMIDNASRGSSSPAG-------------NFEDGWTQADYN 83
MQIFVKT TGKTITLEVE SD I+N G EDG T +DYN
Sbjct: 1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 84 IQKESTLHFVLR 95
IQKESTLH VLR
Sbjct: 61 IQKESTLHLVLR 72
Score = 48.5 bits (114), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 24/37 (64%), Positives = 28/37 (75%), Gaps = 5/37 (13%)
Query: 1 MPLEQQRLVFADKSL-----LADYNIQKESTLHLVAR 32
+P +QQRL+FA K L L+DYNIQKESTLHLV R
Sbjct: 36 IPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLR 72
>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 = 71.2 bits (173), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 40/73 (54%), Positives = 43/73 (58%), Gaps = 13/73 (17%)
Query: 37 MQIFVKTSTGKTITLEVESSDMIDNASRGSSSPAG-------------NFEDGWTQADYN 83
+QIFVKT TGKTITLEVE SD I+N G EDG T +DYN
Sbjct: 1 LQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 84 IQKESTLHFVLRL 96
IQKESTLH VLRL
Sbjct: 61 IQKESTLHLVLRL 73
Score = 54.7 bits (130), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 27/40 (67%), Positives = 31/40 (77%), Gaps = 5/40 (12%)
Query: 1 MPLEQQRLVFADKSL-----LADYNIQKESTLHLVARLRG 35
+P +QQRL+FA K L L+DYNIQKESTLHLV RLRG
Sbjct: 36 IPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRG 75
>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 = 71.2 bits (173), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 41/73 (56%), Positives = 43/73 (58%), Gaps = 13/73 (17%)
Query: 37 MQIFVKTSTGKTITLEVESSDMIDNASRGSSSPAG-------------NFEDGWTQADYN 83
MQIFVKT TGKTITLEVE SD I+N G EDG T +DYN
Sbjct: 36 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 95
Query: 84 IQKESTLHFVLRL 96
IQKESTLH VLRL
Sbjct: 96 IQKESTLHLVLRL 108
Score = 55.1 bits (131), Expect = 9e-09, Method: Compositional matrix adjust.
Identities = 27/40 (67%), Positives = 31/40 (77%), Gaps = 5/40 (12%)
Query: 1 MPLEQQRLVFADKSL-----LADYNIQKESTLHLVARLRG 35
+P +QQRL+FA K L L+DYNIQKESTLHLV RLRG
Sbjct: 71 IPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRG 110
>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 = 71.2 bits (173), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 40/73 (54%), Positives = 43/73 (58%), Gaps = 13/73 (17%)
Query: 37 MQIFVKTSTGKTITLEVESSDMIDNASRGSSSPAG-------------NFEDGWTQADYN 83
MQIFVKT TGKTITLEVE SD I+N G EDG T +DYN
Sbjct: 4 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 63
Query: 84 IQKESTLHFVLRL 96
IQ+ESTLH VLRL
Sbjct: 64 IQRESTLHLVLRL 76
Score = 53.5 bits (127), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 26/40 (65%), Positives = 31/40 (77%), Gaps = 5/40 (12%)
Query: 1 MPLEQQRLVFADKSL-----LADYNIQKESTLHLVARLRG 35
+P +QQRL+FA K L L+DYNIQ+ESTLHLV RLRG
Sbjct: 39 IPPDQQRLIFAGKQLEDGRTLSDYNIQRESTLHLVLRLRG 78
>pdb|3V6E|B Chain B, Crystal Structure Of Usp2 And A Mutant Form Of Ubiquitin
Length = 91
Score = 70.5 bits (171), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 40/76 (52%), Positives = 43/76 (56%), Gaps = 13/76 (17%)
Query: 34 RGRMQIFVKTSTGKTITLEVESSDMIDNASRGSSSPAG-------------NFEDGWTQA 80
RG MQIFV T +GK ITLEVE SD I+N G EDG T +
Sbjct: 15 RGSMQIFVNTLSGKHITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLS 74
Query: 81 DYNIQKESTLHFVLRL 96
DYNIQKESTLH VLRL
Sbjct: 75 DYNIQKESTLHLVLRL 90
Score = 52.0 bits (123), Expect = 8e-08, Method: Compositional matrix adjust.
Identities = 26/39 (66%), Positives = 30/39 (76%), Gaps = 5/39 (12%)
Query: 1 MPLEQQRLVFADKSL-----LADYNIQKESTLHLVARLR 34
+P +QQRL+FA K L L+DYNIQKESTLHLV RLR
Sbjct: 53 IPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLR 91
>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 = 70.5 bits (171), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 40/70 (57%), Positives = 41/70 (58%), Gaps = 13/70 (18%)
Query: 37 MQIFVKTSTGKTITLEVESSDMIDNASRGSSSPAG-------------NFEDGWTQADYN 83
MQIFVKT TGKTITLEVESSD IDN G EDG T +DYN
Sbjct: 1 MQIFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 84 IQKESTLHFV 93
IQKESTLH V
Sbjct: 61 IQKESTLHLV 70
Score = 47.0 bits (110), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 23/35 (65%), Positives = 27/35 (77%), Gaps = 5/35 (14%)
Query: 1 MPLEQQRLVFADKSL-----LADYNIQKESTLHLV 30
+P +QQRL+FA K L L+DYNIQKESTLHLV
Sbjct: 36 IPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLV 70
>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 = 70.5 bits (171), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 42/73 (57%), Positives = 46/73 (63%), Gaps = 13/73 (17%)
Query: 37 MQIFVKTSTGKTITLEVESSDMIDNAS-----RGSSSP-------AGN-FEDGWTQADYN 83
+QIFVKT TGKTITLEVE SD I+N + P AG EDG T +DYN
Sbjct: 1 LQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEQIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 84 IQKESTLHFVLRL 96
IQKESTLH VLRL
Sbjct: 61 IQKESTLHLVLRL 73
Score = 54.7 bits (130), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 27/40 (67%), Positives = 31/40 (77%), Gaps = 5/40 (12%)
Query: 1 MPLEQQRLVFADKSL-----LADYNIQKESTLHLVARLRG 35
+P +QQRL+FA K L L+DYNIQKESTLHLV RLRG
Sbjct: 36 IPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRG 75
>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 = 70.5 bits (171), Expect = 3e-13, Method: Compositional matrix adjust.
Identities = 42/73 (57%), Positives = 46/73 (63%), Gaps = 13/73 (17%)
Query: 37 MQIFVKTSTGKTITLEVESSDMIDNAS-----RGSSSP-------AGN-FEDGWTQADYN 83
+QIFVKT TGKTITLEVE SD I+N + P AG EDG T +DYN
Sbjct: 1 LQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEXIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 84 IQKESTLHFVLRL 96
IQKESTLH VLRL
Sbjct: 61 IQKESTLHLVLRL 73
Score = 54.7 bits (130), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 27/40 (67%), Positives = 31/40 (77%), Gaps = 5/40 (12%)
Query: 1 MPLEQQRLVFADKSL-----LADYNIQKESTLHLVARLRG 35
+P +QQRL+FA K L L+DYNIQKESTLHLV RLRG
Sbjct: 36 IPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRG 75
>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 = 70.1 bits (170), Expect = 3e-13, Method: Compositional matrix adjust.
Identities = 40/72 (55%), Positives = 42/72 (58%), Gaps = 13/72 (18%)
Query: 38 QIFVKTSTGKTITLEVESSDMIDNASRGSSSPAG-------------NFEDGWTQADYNI 84
QIFVKT TGKTITLEVE SD I+N G EDG T +DYNI
Sbjct: 2 QIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNI 61
Query: 85 QKESTLHFVLRL 96
QKESTLH VLRL
Sbjct: 62 QKESTLHLVLRL 73
Score = 54.7 bits (130), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 27/40 (67%), Positives = 31/40 (77%), Gaps = 5/40 (12%)
Query: 1 MPLEQQRLVFADKSL-----LADYNIQKESTLHLVARLRG 35
+P +QQRL+FA K L L+DYNIQKESTLHLV RLRG
Sbjct: 36 IPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRG 75
>pdb|2GBR|A Chain A, Crystal Structure Of The 35-36 Moad Insertion Mutant Of
Ubiquitin
pdb|2GBR|B Chain B, Crystal Structure Of The 35-36 Moad Insertion Mutant Of
Ubiquitin
pdb|2GBR|C Chain C, Crystal Structure Of The 35-36 Moad Insertion Mutant Of
Ubiquitin
Length = 81
Score = 70.1 bits (170), Expect = 3e-13, Method: Compositional matrix adjust.
Identities = 41/78 (52%), Positives = 44/78 (56%), Gaps = 18/78 (23%)
Query: 37 MQIFVKTSTGKTITLEVESSDMIDNASRGSSSPAGNF------------------EDGWT 78
MQIFVKT TGKTITLEVE SD I+N G + EDG T
Sbjct: 1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGRWALAIPPDQQRLIFAGKQLEDGRT 60
Query: 79 QADYNIQKESTLHFVLRL 96
+DYNIQKESTLH VLRL
Sbjct: 61 LSDYNIQKESTLHLVLRL 78
Score = 54.3 bits (129), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 27/40 (67%), Positives = 31/40 (77%), Gaps = 5/40 (12%)
Query: 1 MPLEQQRLVFADKSL-----LADYNIQKESTLHLVARLRG 35
+P +QQRL+FA K L L+DYNIQKESTLHLV RLRG
Sbjct: 41 IPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRG 80
>pdb|2OJR|A Chain A, Structure Of Ubiquitin Solved By Sad Using The Lanthanide-
Binding Tag
Length = 111
Score = 70.1 bits (170), Expect = 3e-13, Method: Compositional matrix adjust.
Identities = 41/73 (56%), Positives = 43/73 (58%), Gaps = 13/73 (17%)
Query: 37 MQIFVKTSTGKTITLEVESSDMIDNASRGSSSPAG-------------NFEDGWTQADYN 83
MQIFVKT TGKTITLEVE SD I+N G EDG T +DYN
Sbjct: 36 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 95
Query: 84 IQKESTLHFVLRL 96
IQKESTLH VLRL
Sbjct: 96 IQKESTLHLVLRL 108
Score = 54.7 bits (130), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 27/40 (67%), Positives = 31/40 (77%), Gaps = 5/40 (12%)
Query: 1 MPLEQQRLVFADKSL-----LADYNIQKESTLHLVARLRG 35
+P +QQRL+FA K L L+DYNIQKESTLHLV RLRG
Sbjct: 71 IPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRG 110
>pdb|3V6C|B Chain B, Crystal Structure Of Usp2 In Complex With Mutated
Ubiquitin
Length = 91
Score = 69.7 bits (169), Expect = 4e-13, Method: Compositional matrix adjust.
Identities = 40/76 (52%), Positives = 42/76 (55%), Gaps = 13/76 (17%)
Query: 34 RGRMQIFVKTSTGKTITLEVESSDMIDNASRGSSSPAG-------------NFEDGWTQA 80
RG MQIFV T TG ITLEVE SD I+N G EDG T +
Sbjct: 15 RGSMQIFVNTLTGTHITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLS 74
Query: 81 DYNIQKESTLHFVLRL 96
DYNIQKESTLH VLRL
Sbjct: 75 DYNIQKESTLHLVLRL 90
Score = 52.4 bits (124), Expect = 7e-08, Method: Compositional matrix adjust.
Identities = 26/39 (66%), Positives = 30/39 (76%), Gaps = 5/39 (12%)
Query: 1 MPLEQQRLVFADKSL-----LADYNIQKESTLHLVARLR 34
+P +QQRL+FA K L L+DYNIQKESTLHLV RLR
Sbjct: 53 IPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLR 91
>pdb|1OGW|A Chain A, Synthetic Ubiquitin With Fluoro-Leu At 50 And 67
Length = 76
Score = 69.3 bits (168), Expect = 6e-13, Method: Compositional matrix adjust.
Identities = 40/73 (54%), Positives = 42/73 (57%), Gaps = 13/73 (17%)
Query: 37 MQIFVKTSTGKTITLEVESSDMIDNASRGSSSPAG-------------NFEDGWTQADYN 83
MQIFVKT TGKTITLEVE SD I+N G EDG T +DYN
Sbjct: 1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQXEDGRTLSDYN 60
Query: 84 IQKESTLHFVLRL 96
IQKEST H VLRL
Sbjct: 61 IQKESTXHLVLRL 73
Score = 50.8 bits (120), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 25/40 (62%), Positives = 29/40 (72%), Gaps = 5/40 (12%)
Query: 1 MPLEQQRLVFA-----DKSLLADYNIQKESTLHLVARLRG 35
+P +QQRL+FA D L+DYNIQKEST HLV RLRG
Sbjct: 36 IPPDQQRLIFAGKQXEDGRTLSDYNIQKESTXHLVLRLRG 75
>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 = 68.2 bits (165), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 41/74 (55%), Positives = 43/74 (58%), Gaps = 14/74 (18%)
Query: 37 MQIFVKTSTGKTITLEVESSDMIDNASRGSSSPAG-------------NFEDGWTQADYN 83
MQIFVKT TGKTITLEVE SD I+N G EDG T +DYN
Sbjct: 1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 84 IQK-ESTLHFVLRL 96
IQK ESTLH VLRL
Sbjct: 61 IQKRESTLHLVLRL 74
Score = 50.1 bits (118), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 27/41 (65%), Positives = 31/41 (75%), Gaps = 6/41 (14%)
Query: 1 MPLEQQRLVFADKSL-----LADYNIQK-ESTLHLVARLRG 35
+P +QQRL+FA K L L+DYNIQK ESTLHLV RLRG
Sbjct: 36 IPPDQQRLIFAGKQLEDGRTLSDYNIQKRESTLHLVLRLRG 76
>pdb|4I6L|B Chain B, Crystal Structure Of Otub1 In Complex With Ubiquitin
Variant
Length = 76
Score = 67.8 bits (164), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 39/75 (52%), Positives = 42/75 (56%), Gaps = 13/75 (17%)
Query: 35 GRMQIFVKTSTGKTITLEVESSDMIDNASRGSSSPAG-------------NFEDGWTQAD 81
G MQIFVKT TGKTITLEVE SD I+N G EDG T +D
Sbjct: 1 GSMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQKLLFARKQLEDGRTLSD 60
Query: 82 YNIQKESTLHFVLRL 96
YNI KES L+ VLRL
Sbjct: 61 YNIHKESFLYLVLRL 75
Score = 42.4 bits (98), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 22/39 (56%), Positives = 28/39 (71%), Gaps = 5/39 (12%)
Query: 1 MPLEQQRLVFADKSL-----LADYNIQKESTLHLVARLR 34
+P +QQ+L+FA K L L+DYNI KES L+LV RLR
Sbjct: 38 IPPDQQKLLFARKQLEDGRTLSDYNIHKESFLYLVLRLR 76
>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 = 67.8 bits (164), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 42/81 (51%), Positives = 44/81 (54%), Gaps = 21/81 (25%)
Query: 37 MQIFVKTSTGKTITLEVESSDMIDNASRGSSSP--------------------AGN-FED 75
MQIFVKT TGKTITLEVE SD I+N AG ED
Sbjct: 1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGGGGGGGGGIPPDQQRLIFAGKQLED 60
Query: 76 GWTQADYNIQKESTLHFVLRL 96
G T +DYNIQKESTLH VLRL
Sbjct: 61 GRTLSDYNIQKESTLHLVLRL 81
Score = 54.7 bits (130), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 27/40 (67%), Positives = 31/40 (77%), Gaps = 5/40 (12%)
Query: 1 MPLEQQRLVFADKSL-----LADYNIQKESTLHLVARLRG 35
+P +QQRL+FA K L L+DYNIQKESTLHLV RLRG
Sbjct: 44 IPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRG 83
>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 = 67.4 bits (163), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 39/73 (53%), Positives = 42/73 (57%), Gaps = 13/73 (17%)
Query: 37 MQIFVKTSTGKTITLEVESSDMIDNASRGSSSPAG-------------NFEDGWTQADYN 83
MQIFVKT TGKTITLEVE +D ID G E+G T +DYN
Sbjct: 4 MQIFVKTLTGKTITLEVEPNDSIDAIKAKIQEKEGIPPDQQRLIFAGKQLEEGKTLSDYN 63
Query: 84 IQKESTLHFVLRL 96
IQKESTLH VLRL
Sbjct: 64 IQKESTLHLVLRL 76
Score = 55.1 bits (131), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 27/40 (67%), Positives = 31/40 (77%), Gaps = 5/40 (12%)
Query: 1 MPLEQQRLVFADKSL-----LADYNIQKESTLHLVARLRG 35
+P +QQRL+FA K L L+DYNIQKESTLHLV RLRG
Sbjct: 39 IPPDQQRLIFAGKQLEEGKTLSDYNIQKESTLHLVLRLRG 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 = 67.4 bits (163), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 40/72 (55%), Positives = 42/72 (58%), Gaps = 13/72 (18%)
Query: 38 QIFVKTSTGKTITLEVESSDMIDNASRGSSSPAG-------------NFEDGWTQADYNI 84
QIFVKT TGKTITLEVE SD I+N G EDG T +DYNI
Sbjct: 107 QIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNI 166
Query: 85 QKESTLHFVLRL 96
QKESTLH VLRL
Sbjct: 167 QKESTLHLVLRL 178
Score = 59.7 bits (143), Expect = 4e-10, Method: Compositional matrix adjust.
Identities = 30/47 (63%), Positives = 34/47 (72%), Gaps = 5/47 (10%)
Query: 1 MPLEQQRLVFADKSL-----LADYNIQKESTLHLVARLRGRMQIFVK 42
+P +QQRL+FA K L L+DYNIQKESTLHLV RLRG Q F K
Sbjct: 141 IPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGGGQTFTK 187
>pdb|1UD7|A Chain A, Solution Structure Of The Designed Hydrophobic Core
Mutant Of Ubiquitin, 1d7
Length = 76
Score = 66.2 bits (160), Expect = 4e-12, Method: Compositional matrix adjust.
Identities = 35/73 (47%), Positives = 43/73 (58%), Gaps = 13/73 (17%)
Query: 37 MQIFVKTSTGKTITLEVESSDMIDNASRGSSSPAG-------------NFEDGWTQADYN 83
MQ+F+KT TGKT+T+EVE SD ++N G EDG T +DYN
Sbjct: 1 MQVFLKTLTGKTVTIEVEPSDTVENFKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 84 IQKESTLHFVLRL 96
IQKEST+H VLRL
Sbjct: 61 IQKESTIHLVLRL 73
Score = 53.9 bits (128), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 26/40 (65%), Positives = 31/40 (77%), Gaps = 5/40 (12%)
Query: 1 MPLEQQRLVFADKSL-----LADYNIQKESTLHLVARLRG 35
+P +QQRL+FA K L L+DYNIQKEST+HLV RLRG
Sbjct: 36 IPPDQQRLIFAGKQLEDGRTLSDYNIQKESTIHLVLRLRG 75
>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 = 65.9 bits (159), Expect = 5e-12, Method: Compositional matrix adjust.
Identities = 41/80 (51%), Positives = 43/80 (53%), Gaps = 20/80 (25%)
Query: 37 MQIFVKTST-------GKTITLEVESSDMIDNASRGSSSPAG-------------NFEDG 76
MQIFVKT T GKTITLEVE SD I+N G EDG
Sbjct: 1 MQIFVKTLTQVRELVGGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDG 60
Query: 77 WTQADYNIQKESTLHFVLRL 96
T +DYNIQKESTLH VLRL
Sbjct: 61 RTLSDYNIQKESTLHLVLRL 80
Score = 54.7 bits (130), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 27/40 (67%), Positives = 31/40 (77%), Gaps = 5/40 (12%)
Query: 1 MPLEQQRLVFADKSL-----LADYNIQKESTLHLVARLRG 35
+P +QQRL+FA K L L+DYNIQKESTLHLV RLRG
Sbjct: 43 IPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRG 82
>pdb|1C3T|A Chain A, Rotamer Strain As A Determinant Of Protein Structural
Specificity
Length = 76
Score = 64.7 bits (156), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 34/73 (46%), Positives = 43/73 (58%), Gaps = 13/73 (17%)
Query: 37 MQIFVKTSTGKTITLEVESSDMIDNASRGSSSPAG-------------NFEDGWTQADYN 83
MQ+FVKT TGKT+T+E+E SD ++N G EDG T +DYN
Sbjct: 1 MQLFVKTLTGKTLTVELEPSDTVENLKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 84 IQKESTLHFVLRL 96
+QKEST+H VLRL
Sbjct: 61 LQKESTIHLVLRL 73
Score = 52.4 bits (124), Expect = 6e-08, Method: Compositional matrix adjust.
Identities = 25/40 (62%), Positives = 31/40 (77%), Gaps = 5/40 (12%)
Query: 1 MPLEQQRLVFADKSL-----LADYNIQKESTLHLVARLRG 35
+P +QQRL+FA K L L+DYN+QKEST+HLV RLRG
Sbjct: 36 IPPDQQRLIFAGKQLEDGRTLSDYNLQKESTIHLVLRLRG 75
>pdb|4HJK|A Chain A, U7ub7 Disulfide Variant
Length = 77
Score = 64.3 bits (155), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 38/73 (52%), Positives = 40/73 (54%), Gaps = 13/73 (17%)
Query: 37 MQIFVKTSTGKTITLEVESSDMIDNASRGSSSPAG-------------NFEDGWTQADYN 83
MQIFVK TGKT TLEVE SD I+N G EDG T +DYN
Sbjct: 2 MQIFVKCLTGKTNTLEVEPSDTIENVKAKIQDKIGYPPDQQRLIFAGKQLEDGRTLSDYN 61
Query: 84 IQKESTLHFVLRL 96
IQKESTLH V RL
Sbjct: 62 IQKESTLHCVRRL 74
Score = 52.8 bits (125), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 26/39 (66%), Positives = 29/39 (74%), Gaps = 5/39 (12%)
Query: 2 PLEQQRLVFADKSL-----LADYNIQKESTLHLVARLRG 35
P +QQRL+FA K L L+DYNIQKESTLH V RLRG
Sbjct: 38 PPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHCVRRLRG 76
>pdb|1SIF|A Chain A, Crystal Structure Of A Multiple Hydrophobic Core Mutant
Of Ubiquitin
Length = 88
Score = 63.9 bits (154), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 35/73 (47%), Positives = 42/73 (57%), Gaps = 13/73 (17%)
Query: 37 MQIFVKTSTGKTITLEVESSDMIDNASRGSSSPAG-------------NFEDGWTQADYN 83
+Q+F+KT TGKT T+E+E SD I+N G EDG T +DYN
Sbjct: 10 LQLFIKTLTGKTFTVEMEPSDTIENLKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 69
Query: 84 IQKESTLHFVLRL 96
IQKESTLH VLRL
Sbjct: 70 IQKESTLHLVLRL 82
Score = 54.3 bits (129), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 27/40 (67%), Positives = 31/40 (77%), Gaps = 5/40 (12%)
Query: 1 MPLEQQRLVFADKSL-----LADYNIQKESTLHLVARLRG 35
+P +QQRL+FA K L L+DYNIQKESTLHLV RLRG
Sbjct: 45 IPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRG 84
>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 = 62.4 bits (150), Expect = 7e-11, Method: Compositional matrix adjust.
Identities = 41/81 (50%), Positives = 43/81 (53%), Gaps = 21/81 (25%)
Query: 37 MQIFVKTSTG--------KTITLEVESSDMIDNASRGSSSPAG-------------NFED 75
MQIFVKT TG KTITLEVE SD I+N G ED
Sbjct: 1 MQIFVKTLTGGGGGGGGGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLED 60
Query: 76 GWTQADYNIQKESTLHFVLRL 96
G T +DYNIQKESTLH VLRL
Sbjct: 61 GRTLSDYNIQKESTLHLVLRL 81
Score = 54.7 bits (130), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 27/40 (67%), Positives = 31/40 (77%), Gaps = 5/40 (12%)
Query: 1 MPLEQQRLVFADKSL-----LADYNIQKESTLHLVARLRG 35
+P +QQRL+FA K L L+DYNIQKESTLHLV RLRG
Sbjct: 44 IPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRG 83
>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 = 60.8 bits (146), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 38/75 (50%), Positives = 40/75 (53%), Gaps = 13/75 (17%)
Query: 35 GRMQIFVKTSTGKTITLEVESSDMIDNASRGSSSPAG-------------NFEDGWTQAD 81
G MQIFVK TGKT TLEVE SD I+N G EDG T +D
Sbjct: 1 GSMQIFVKFRTGKTYTLEVEPSDTIENVKAKIQDKLGIPPDQQWLIFAGKRLEDGRTLSD 60
Query: 82 YNIQKESTLHFVLRL 96
YNIQKESTL V RL
Sbjct: 61 YNIQKESTLRGVRRL 75
Score = 45.1 bits (105), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 24/40 (60%), Positives = 28/40 (70%), Gaps = 5/40 (12%)
Query: 1 MPLEQQRLVFADKSL-----LADYNIQKESTLHLVARLRG 35
+P +QQ L+FA K L L+DYNIQKESTL V RLRG
Sbjct: 38 IPPDQQWLIFAGKRLEDGRTLSDYNIQKESTLRGVRRLRG 77
>pdb|2JVC|A Chain A, Nmr Solution Structure Of Ubiquitin Like Protein
Length = 82
Score = 58.5 bits (140), Expect = 9e-10, Method: Compositional matrix adjust.
Identities = 33/75 (44%), Positives = 40/75 (53%), Gaps = 13/75 (17%)
Query: 35 GRMQIFVKTSTGKTITLEVESSDMIDNASRGSSSPAG-------------NFEDGWTQAD 81
G MQIFVKT TGKTIT++V+ +D + G ED +D
Sbjct: 4 GSMQIFVKTLTGKTITIDVDHADTVGAVKAKIYDKEGIPPDQQRLIFGGKQLEDSNAMSD 63
Query: 82 YNIQKESTLHFVLRL 96
YN+QKESTLH VLRL
Sbjct: 64 YNVQKESTLHLVLRL 78
Score = 52.4 bits (124), Expect = 7e-08, Method: Compositional matrix adjust.
Identities = 24/40 (60%), Positives = 30/40 (75%), Gaps = 5/40 (12%)
Query: 1 MPLEQQRLVFADKSL-----LADYNIQKESTLHLVARLRG 35
+P +QQRL+F K L ++DYN+QKESTLHLV RLRG
Sbjct: 41 IPPDQQRLIFGGKQLEDSNAMSDYNVQKESTLHLVLRLRG 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 = 56.6 bits (135), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 35/67 (52%), Positives = 37/67 (55%), Gaps = 13/67 (19%)
Query: 37 MQIFVKTSTGKTITLEVESSDMIDNASRGSSSPAG-------------NFEDGWTQADYN 83
MQIFVKT TGKTITLEVE SD I+N G EDG T +DYN
Sbjct: 4 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 63
Query: 84 IQKESTL 90
IQK STL
Sbjct: 64 IQKWSTL 70
Score = 37.0 bits (84), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 19/32 (59%), Positives = 23/32 (71%), Gaps = 5/32 (15%)
Query: 1 MPLEQQRLVFADKSL-----LADYNIQKESTL 27
+P +QQRL+FA K L L+DYNIQK STL
Sbjct: 39 IPPDQQRLIFAGKQLEDGRTLSDYNIQKWSTL 70
>pdb|1GJZ|A Chain A, Solution Structure Of A Dimeric N-Terminal Fragment Of
Human Ubiquitin
pdb|1GJZ|B Chain B, Solution Structure Of A Dimeric N-Terminal Fragment Of
Human Ubiquitin
Length = 53
Score = 46.2 bits (108), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 22/28 (78%), Positives = 23/28 (82%)
Query: 35 GRMQIFVKTSTGKTITLEVESSDMIDNA 62
G MQIFVKT TGKTITLEVE SD I+N
Sbjct: 1 GSMQIFVKTLTGKTITLEVEPSDTIENV 28
>pdb|3N3K|B Chain B, The Catalytic Domain Of Usp8 In Complex With A Usp8
Specific Inhibitor
Length = 85
Score = 42.0 bits (97), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 26/65 (40%), Positives = 30/65 (46%), Gaps = 13/65 (20%)
Query: 37 MQIFVKTSTGKTITLEVESSDMIDNASRGSSSPAG-------------NFEDGWTQADYN 83
M+I VKT G+TI LEVE SD I+N G EDG T +DYN
Sbjct: 4 MRIVVKTLMGRTIILEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 63
Query: 84 IQKES 88
I S
Sbjct: 64 IHNHS 68
Score = 31.2 bits (69), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 15/30 (50%), Positives = 19/30 (63%), Gaps = 5/30 (16%)
Query: 1 MPLEQQRLVFADKSL-----LADYNIQKES 25
+P +QQRL+FA K L L+DYNI S
Sbjct: 39 IPPDQQRLIFAGKQLEDGRTLSDYNIHNHS 68
>pdb|1BT0|A Chain A, Structure Of Ubiquitin-Like Protein, Rub1
Length = 76
Score = 40.0 bits (92), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 26/73 (35%), Positives = 31/73 (42%), Gaps = 13/73 (17%)
Query: 37 MQIFVKTSTGKTITLEVESSDMIDNASRGSSSPAG-------------NFEDGWTQADYN 83
M I VKT TGK I +++E +D ID G D T DYN
Sbjct: 1 MLIKVKTLTGKEIEIDIEPTDTIDRIKERVEEKEGIPPVQQRLIYAGKQLADDKTAKDYN 60
Query: 84 IQKESTLHFVLRL 96
I+ S LH VL L
Sbjct: 61 IEGGSVLHLVLAL 73
Score = 37.7 bits (86), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 20/40 (50%), Positives = 24/40 (60%), Gaps = 5/40 (12%)
Query: 1 MPLEQQRLVFADKSLL-----ADYNIQKESTLHLVARLRG 35
+P QQRL++A K L DYNI+ S LHLV LRG
Sbjct: 36 IPPVQQRLIYAGKQLADDKTAKDYNIEGGSVLHLVLALRG 75
>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 = 38.9 bits (89), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 26/75 (34%), Positives = 32/75 (42%), Gaps = 13/75 (17%)
Query: 35 GRMQIFVKTSTGKTITLEVESSDMIDNASRGSSSPAG-------------NFEDGWTQAD 81
G M I VKT TGK I +++E +D ++ G D T AD
Sbjct: 11 GSMLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDEKTAAD 70
Query: 82 YNIQKESTLHFVLRL 96
Y I S LH VLRL
Sbjct: 71 YKILGGSVLHLVLRL 85
Score = 38.5 bits (88), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 19/40 (47%), Positives = 25/40 (62%), Gaps = 5/40 (12%)
Query: 1 MPLEQQRLVFADKSL-----LADYNIQKESTLHLVARLRG 35
+P +QQRL+++ K + ADY I S LHLV RLRG
Sbjct: 48 IPPQQQRLIYSGKQMNDEKTAADYKILGGSVLHLVLRLRG 87
>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 = 36.6 bits (83), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 25/75 (33%), Positives = 32/75 (42%), Gaps = 13/75 (17%)
Query: 35 GRMQIFVKTSTGKTITLEVESSDMIDNASRGSSSPAG-------------NFEDGWTQAD 81
G M I VKT TGK I +++E +D ++ G D T AD
Sbjct: 11 GSMLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDEKTAAD 70
Query: 82 YNIQKESTLHFVLRL 96
Y I S LH VL+L
Sbjct: 71 YKILGGSVLHLVLQL 85
Score = 36.6 bits (83), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 18/40 (45%), Positives = 25/40 (62%), Gaps = 5/40 (12%)
Query: 1 MPLEQQRLVFADKSL-----LADYNIQKESTLHLVARLRG 35
+P +QQRL+++ K + ADY I S LHLV +LRG
Sbjct: 48 IPPQQQRLIYSGKQMNDEKTAADYKILGGSVLHLVLQLRG 87
>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 = 36.2 bits (82), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 18/40 (45%), Positives = 24/40 (60%), Gaps = 5/40 (12%)
Query: 1 MPLEQQRLVFA-----DKSLLADYNIQKESTLHLVARLRG 35
+P +QQRL+++ D+ ADY I S LHLV LRG
Sbjct: 41 IPPQQQRLIYSGKQXNDEKTAADYKIXGGSVLHLVLALRG 80
Score = 33.1 bits (74), Expect = 0.039, Method: Compositional matrix adjust.
Identities = 24/75 (32%), Positives = 30/75 (40%), Gaps = 13/75 (17%)
Query: 35 GRMQIFVKTSTGKTITLEVESSDMIDNASRGSSSPAG-------------NFEDGWTQAD 81
G I VKT TGK I +++E +D ++ G D T AD
Sbjct: 4 GSXLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQXNDEKTAAD 63
Query: 82 YNIQKESTLHFVLRL 96
Y I S LH VL L
Sbjct: 64 YKIXGGSVLHLVLAL 78
>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 = 36.2 bits (82), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 25/75 (33%), Positives = 31/75 (41%), Gaps = 13/75 (17%)
Query: 35 GRMQIFVKTSTGKTITLEVESSDMIDNASRGSSSPAG-------------NFEDGWTQAD 81
G M I VKT TGK I +++E +D ++ G D T AD
Sbjct: 4 GSMLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDEKTAAD 63
Query: 82 YNIQKESTLHFVLRL 96
Y I S LH VL L
Sbjct: 64 YKILGGSVLHLVLAL 78
Score = 35.4 bits (80), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 18/40 (45%), Positives = 24/40 (60%), Gaps = 5/40 (12%)
Query: 1 MPLEQQRLVFADKSL-----LADYNIQKESTLHLVARLRG 35
+P +QQRL+++ K + ADY I S LHLV LRG
Sbjct: 41 IPPQQQRLIYSGKQMNDEKTAADYKILGGSVLHLVLALRG 80
>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 = 35.0 bits (79), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 24/73 (32%), Positives = 30/73 (41%), Gaps = 13/73 (17%)
Query: 37 MQIFVKTSTGKTITLEVESSDMIDNASRGSSSPAG-------------NFEDGWTQADYN 83
M I VKT TGK I +++E +D ++ G D T ADY
Sbjct: 1 MLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDEKTAADYK 60
Query: 84 IQKESTLHFVLRL 96
I S LH VL L
Sbjct: 61 ILGGSVLHLVLAL 73
Score = 35.0 bits (79), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 18/40 (45%), Positives = 24/40 (60%), Gaps = 5/40 (12%)
Query: 1 MPLEQQRLVFADKSL-----LADYNIQKESTLHLVARLRG 35
+P +QQRL+++ K + ADY I S LHLV LRG
Sbjct: 36 IPPQQQRLIYSGKQMNDEKTAADYKILGGSVLHLVLALRG 75
>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 = 35.0 bits (79), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 24/73 (32%), Positives = 30/73 (41%), Gaps = 13/73 (17%)
Query: 37 MQIFVKTSTGKTITLEVESSDMIDNASRGSSSPAG-------------NFEDGWTQADYN 83
M I VKT TGK I +++E +D ++ G D T ADY
Sbjct: 7 MLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDEKTAADYK 66
Query: 84 IQKESTLHFVLRL 96
I S LH VL L
Sbjct: 67 ILGGSVLHLVLAL 79
Score = 35.0 bits (79), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 18/40 (45%), Positives = 24/40 (60%), Gaps = 5/40 (12%)
Query: 1 MPLEQQRLVFADKSL-----LADYNIQKESTLHLVARLRG 35
+P +QQRL+++ K + ADY I S LHLV LRG
Sbjct: 42 IPPQQQRLIYSGKQMNDEKTAADYKILGGSVLHLVLALRG 81
>pdb|4HCP|B Chain B, Crystal Structure Of Burkholderia Pseudomallei Effector
Protein Chbp In Complex With Nedd8
Length = 78
Score = 35.0 bits (79), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 24/73 (32%), Positives = 30/73 (41%), Gaps = 13/73 (17%)
Query: 37 MQIFVKTSTGKTITLEVESSDMIDNASRGSSSPAG-------------NFEDGWTQADYN 83
M I VKT TGK I +++E +D ++ G D T ADY
Sbjct: 3 MLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDEKTAADYK 62
Query: 84 IQKESTLHFVLRL 96
I S LH VL L
Sbjct: 63 ILGGSVLHLVLAL 75
Score = 35.0 bits (79), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 18/40 (45%), Positives = 24/40 (60%), Gaps = 5/40 (12%)
Query: 1 MPLEQQRLVFADKSL-----LADYNIQKESTLHLVARLRG 35
+P +QQRL+++ K + ADY I S LHLV LRG
Sbjct: 38 IPPQQQRLIYSGKQMNDEKTAADYKILGGSVLHLVLALRG 77
>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 = 35.0 bits (79), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 24/73 (32%), Positives = 30/73 (41%), Gaps = 13/73 (17%)
Query: 37 MQIFVKTSTGKTITLEVESSDMIDNASRGSSSPAG-------------NFEDGWTQADYN 83
M I VKT TGK I +++E +D ++ G D T ADY
Sbjct: 1 MLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDEKTAADYK 60
Query: 84 IQKESTLHFVLRL 96
I S LH VL L
Sbjct: 61 ILGGSVLHLVLAL 73
Score = 35.0 bits (79), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 18/40 (45%), Positives = 24/40 (60%), Gaps = 5/40 (12%)
Query: 1 MPLEQQRLVFADKSL-----LADYNIQKESTLHLVARLRG 35
+P +QQRL+++ K + ADY I S LHLV LRG
Sbjct: 36 IPPQQQRLIYSGKQMNDEKTAADYKILGGSVLHLVLALRG 75
>pdb|2BKR|B Chain B, Nedd8 Nedp1 Complex
Length = 77
Score = 35.0 bits (79), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 18/40 (45%), Positives = 24/40 (60%), Gaps = 5/40 (12%)
Query: 1 MPLEQQRLVFADKSL-----LADYNIQKESTLHLVARLRG 35
+P +QQRL+++ K + ADY I S LHLV LRG
Sbjct: 37 IPPQQQRLIYSGKQMNDEKTAADYKILGGSVLHLVLALRG 76
Score = 35.0 bits (79), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 24/73 (32%), Positives = 30/73 (41%), Gaps = 13/73 (17%)
Query: 37 MQIFVKTSTGKTITLEVESSDMIDNASRGSSSPAG-------------NFEDGWTQADYN 83
M I VKT TGK I +++E +D ++ G D T ADY
Sbjct: 2 MLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDEKTAADYK 61
Query: 84 IQKESTLHFVLRL 96
I S LH VL L
Sbjct: 62 ILGGSVLHLVLAL 74
>pdb|2DZI|A Chain A, 2dziSOLUTION STRUCTURE OF THE N-Terminal Ubiquitin-Like
Domain In Human Ubiquitin-Like Protein 4a (Gdx)
Length = 81
Score = 32.0 bits (71), Expect = 0.091, Method: Compositional matrix adjust.
Identities = 16/37 (43%), Positives = 24/37 (64%), Gaps = 5/37 (13%)
Query: 1 MPLEQQRLVFADKSL-----LADYNIQKESTLHLVAR 32
+P+ QQRL+F K+L L+DY+I S L+LV +
Sbjct: 43 VPVRQQRLLFKGKALADGKRLSDYSIGPNSKLNLVVK 79
>pdb|1E0Q|A Chain A, Mutant Peptide From The First N-Terminal 17 Amino-Acid
Of Ubiquitin
Length = 17
Score = 30.4 bits (67), Expect = 0.29, Method: Composition-based stats.
Identities = 15/17 (88%), Positives = 15/17 (88%)
Query: 37 MQIFVKTSTGKTITLEV 53
MQIFVKT GKTITLEV
Sbjct: 1 MQIFVKTLDGKTITLEV 17
>pdb|4A9A|C Chain C, Structure Of Rbg1 In Complex With Tma46 Dfrp Domain
pdb|4A9A|D Chain D, Structure Of Rbg1 In Complex With Tma46 Dfrp Domain
Length = 142
Score = 27.7 bits (60), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 17/65 (26%), Positives = 33/65 (50%), Gaps = 10/65 (15%)
Query: 28 HLVARLRGRMQIFVK-TSTGKTITL---------EVESSDMIDNASRGSSSPAGNFEDGW 77
H++A++ ++ K TG+ I L E +++DM D+ ++GS+ F D
Sbjct: 50 HVIAKINAEKKLSSKRKPTGREIILKMSAENKSFETDNADMPDDVTQGSAWDLTEFTDAL 109
Query: 78 TQADY 82
+AD+
Sbjct: 110 KKADH 114
>pdb|2R7C|A Chain A, Crystallographic And Biochemical Analysis Of Rotavirus
Nsp2 With Nucleotides Reveals An Ndp Kinase Like
Activity
Length = 317
Score = 26.9 bits (58), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 22/84 (26%), Positives = 36/84 (42%), Gaps = 1/84 (1%)
Query: 1 MPLEQQRLVFADKSLLADYNIQKESTLHLVARLRGRMQIFVKTSTGKTITLEVESSDMID 60
MP+ Q + +L D I LVA LR + F + GK V+ S + +
Sbjct: 177 MPILDQNFIEYKVTLNEDKPISDVHVKELVAELRWQYNKFAVITHGKGXYRIVKYSSVAN 236
Query: 61 NASRGSSSPAGNFEDGWTQADYNI 84
+A R ++ N + G D+N+
Sbjct: 237 HADRVYATFKSNVKTG-VNNDFNL 259
>pdb|2R7J|A Chain A, Crystal Structure Of Rotavirus Non Structural Protein Nsp2
With H225a Mutation
pdb|2R7P|A Chain A, Crystal Structure Of H225a Nsp2 And Amppnp Complex
pdb|2R8F|A Chain A, Crystal Structure Of H225a Nsp2 And Atp-Gs Complex
Length = 317
Score = 26.9 bits (58), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 22/84 (26%), Positives = 36/84 (42%), Gaps = 1/84 (1%)
Query: 1 MPLEQQRLVFADKSLLADYNIQKESTLHLVARLRGRMQIFVKTSTGKTITLEVESSDMID 60
MP+ Q + +L D I LVA LR + F + GK V+ S + +
Sbjct: 177 MPILDQNFIEYKVTLNEDKPISDVHVKELVAELRWQYNKFAVITHGKGAYRIVKYSSVAN 236
Query: 61 NASRGSSSPAGNFEDGWTQADYNI 84
+A R ++ N + G D+N+
Sbjct: 237 HADRVYATFKSNVKTG-VNNDFNL 259
>pdb|3CE1|A Chain A, Crystal Structure Of The CuZN SUPEROXIDE DISMUTASE FROM
Cryptococcus Liquefaciens Strain N6
Length = 168
Score = 26.2 bits (56), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 21/73 (28%), Positives = 33/73 (45%), Gaps = 6/73 (8%)
Query: 25 STLHLVARLRGRMQI-----FVKTSTGKTITLEVESSDMIDNASRG-SSSPAGNFEDGWT 78
ST+ +A L+G + F + S+G +T+ E +M NA RG G+ +G T
Sbjct: 3 STIKAIAVLKGDSPVQGVITFTQESSGGPVTVSGEIKNMDANAQRGFHVHQFGDNSNGCT 62
Query: 79 QADYNIQKESTLH 91
A + T H
Sbjct: 63 SAGPHFNPTGTNH 75
>pdb|3ZEY|9 Chain 9, High-resolution Cryo-electron Microscopy Structure Of
The Trypanosoma Brucei Ribosome
Length = 153
Score = 25.8 bits (55), Expect = 7.3, Method: Compositional matrix adjust.
Identities = 18/68 (26%), Positives = 35/68 (51%), Gaps = 10/68 (14%)
Query: 37 MQIFVKTSTGKTITLEVESSDMIDN--ASRGSSSPA-----GNF---EDGWTQADYNIQK 86
MQ+F++++TG T +E ++D + A G + G F E+ T A+ +Q+
Sbjct: 1 MQLFLRSATGATSVVEASAADTVGTLRAKAGFDDTSSIFFFGGFCLREESATLAECGLQQ 60
Query: 87 ESTLHFVL 94
ST+ ++
Sbjct: 61 GSTVQVMI 68
>pdb|4IC1|A Chain A, Crystal Structure Of Sso0001
pdb|4IC1|B Chain B, Crystal Structure Of Sso0001
pdb|4IC1|C Chain C, Crystal Structure Of Sso0001
pdb|4IC1|D Chain D, Crystal Structure Of Sso0001
pdb|4IC1|F Chain F, Crystal Structure Of Sso0001
pdb|4IC1|G Chain G, Crystal Structure Of Sso0001
pdb|4IC1|H Chain H, Crystal Structure Of Sso0001
pdb|4IC1|I Chain I, Crystal Structure Of Sso0001
pdb|4IC1|J Chain J, Crystal Structure Of Sso0001
pdb|4IC1|K Chain K, Crystal Structure Of Sso0001
Length = 206
Score = 25.8 bits (55), Expect = 7.4, Method: Compositional matrix adjust.
Identities = 8/27 (29%), Positives = 18/27 (66%)
Query: 30 VARLRGRMQIFVKTSTGKTITLEVESS 56
V +++GR ++ GK+I +E+++S
Sbjct: 95 VYKIKGRADAIIRNDNGKSIVIEIKTS 121
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
0.315 0.129 0.354
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,454,785
Number of Sequences: 62578
Number of extensions: 76057
Number of successful extensions: 482
Number of sequences better than 100.0: 90
Number of HSP's better than 100.0 without gapping: 82
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 154
Number of HSP's gapped (non-prelim): 175
length of query: 97
length of database: 14,973,337
effective HSP length: 63
effective length of query: 34
effective length of database: 11,030,923
effective search space: 375051382
effective search space used: 375051382
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 45 (21.9 bits)