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= 038333
(120 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2ZVN|A Chain A, Nemo Cozi Domain Incomplex With Diubiquitin In P212121
Space Group
pdb|2ZVN|G Chain G, Nemo Cozi Domain Incomplex With Diubiquitin In P212121
Space Group
pdb|2ZVN|C Chain C, Nemo Cozi Domain Incomplex With Diubiquitin In P212121
Space Group
pdb|2ZVN|E Chain E, Nemo Cozi Domain Incomplex With Diubiquitin In P212121
Space Group
pdb|2ZVO|A Chain A, Nemo Cozi Domain In Complex With Diubiquitin In C2 Space
Group
pdb|2ZVO|G Chain G, Nemo Cozi Domain In Complex With Diubiquitin In C2 Space
Group
pdb|3AXC|A Chain A, Crystal Structure Of Linear Diubiquitin
Length = 154
Score = 232 bits (591), Expect = 5e-62, Method: Compositional matrix adjust.
Identities = 114/118 (96%), Positives = 117/118 (99%)
Query: 1 GIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGGMQIFVKTLTGKTITLEVE 60
GIPPDQQRLIFAGKQLEDGRTL+DYNIQKESTLHLVLRLRGGMQIFVKTLTGKTITLEVE
Sbjct: 37 GIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGGMQIFVKTLTGKTITLEVE 96
Query: 61 SSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 118
SDTI+NVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTL+DYNIQKESTLHLVLRLRGG
Sbjct: 97 PSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGG 154
Score = 150 bits (378), Expect = 2e-37, Method: Compositional matrix adjust.
Identities = 74/78 (94%), Positives = 76/78 (97%)
Query: 41 GGMQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLAD 100
G MQIFVKTLTGKTITLEVE SDTI+NVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTL+D
Sbjct: 1 GSMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSD 60
Query: 101 YNIQKESTLHLVLRLRGG 118
YNIQKESTLHLVLRLRGG
Sbjct: 61 YNIQKESTLHLVLRLRGG 78
>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 = 232 bits (591), Expect = 5e-62, Method: Compositional matrix adjust.
Identities = 114/118 (96%), Positives = 117/118 (99%)
Query: 1 GIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGGMQIFVKTLTGKTITLEVE 60
GIPPDQQRLIFAGKQLEDGRTL+DYNIQKESTLHLVLRLRGGMQIFVKTLTGKTITLEVE
Sbjct: 35 GIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGGMQIFVKTLTGKTITLEVE 94
Query: 61 SSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 118
SDTI+NVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTL+DYNIQKESTLHLVLRLRGG
Sbjct: 95 PSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGG 152
Score = 147 bits (372), Expect = 1e-36, Method: Compositional matrix adjust.
Identities = 73/76 (96%), Positives = 75/76 (98%)
Query: 43 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 102
MQIFVKTLTGKTITLEVE SDTI+NVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTL+DYN
Sbjct: 1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 103 IQKESTLHLVLRLRGG 118
IQKESTLHLVLRLRGG
Sbjct: 61 IQKESTLHLVLRLRGG 76
>pdb|2W9N|A Chain A, Crystal Structure Of Linear Di-Ubiquitin
Length = 152
Score = 231 bits (590), Expect = 6e-62, Method: Compositional matrix adjust.
Identities = 114/118 (96%), Positives = 117/118 (99%)
Query: 1 GIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGGMQIFVKTLTGKTITLEVE 60
GIPPDQQRLIFAGKQLEDGRTL+DYNIQKESTLHLVLRLRGGMQIFVKTLTGKTITLEVE
Sbjct: 35 GIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGGMQIFVKTLTGKTITLEVE 94
Query: 61 SSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 118
SDTI+NVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTL+DYNIQKESTLHLVLRLRGG
Sbjct: 95 PSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGG 152
Score = 145 bits (366), Expect = 6e-36, Method: Compositional matrix adjust.
Identities = 72/75 (96%), Positives = 74/75 (98%)
Query: 44 QIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNI 103
QIFVKTLTGKTITLEVE SDTI+NVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTL+DYNI
Sbjct: 2 QIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNI 61
Query: 104 QKESTLHLVLRLRGG 118
QKESTLHLVLRLRGG
Sbjct: 62 QKESTLHLVLRLRGG 76
>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 = 231 bits (589), Expect = 8e-62, Method: Compositional matrix adjust.
Identities = 114/118 (96%), Positives = 117/118 (99%)
Query: 1 GIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGGMQIFVKTLTGKTITLEVE 60
GIPPDQQRLIFAGKQLEDGRTL+DYNIQKESTLHLVLRLRGGMQIFVKTLTGKTITLEVE
Sbjct: 55 GIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGGMQIFVKTLTGKTITLEVE 114
Query: 61 SSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 118
SDTI+NVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTL+DYNIQKESTLHLVLRLRGG
Sbjct: 115 PSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGG 172
Score = 147 bits (371), Expect = 1e-36, Method: Compositional matrix adjust.
Identities = 73/76 (96%), Positives = 75/76 (98%)
Query: 43 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 102
MQIFVKTLTGKTITLEVE SDTI+NVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTL+DYN
Sbjct: 21 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 80
Query: 103 IQKESTLHLVLRLRGG 118
IQKESTLHLVLRLRGG
Sbjct: 81 IQKESTLHLVLRLRGG 96
>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 = 227 bits (578), Expect = 1e-60, Method: Compositional matrix adjust.
Identities = 112/117 (95%), Positives = 115/117 (98%)
Query: 1 GIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGGMQIFVKTLTGKTITLEVE 60
GIPPDQQRLIFAGKQLEDGRTL+DYNIQKESTLHLVLRLRG MQIFVKTLTGKTITLEVE
Sbjct: 35 GIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGHMQIFVKTLTGKTITLEVE 94
Query: 61 SSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRG 117
SDTI+NVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTL+DYNIQKESTLHLVLRLRG
Sbjct: 95 PSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRG 151
Score = 145 bits (367), Expect = 5e-36, Method: Compositional matrix adjust.
Identities = 72/75 (96%), Positives = 74/75 (98%)
Query: 43 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 102
MQIFVKTLTGKTITLEVE SDTI+NVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTL+DYN
Sbjct: 1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 103 IQKESTLHLVLRLRG 117
IQKESTLHLVLRLRG
Sbjct: 61 IQKESTLHLVLRLRG 75
>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 = 152 bits (385), Expect = 3e-38, Method: Compositional matrix adjust.
Identities = 74/76 (97%), Positives = 76/76 (100%)
Query: 43 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 102
MQIFVKTLTGKTITLEVESSDTIDNVK+KIQDKEGIPPDQQRLIFAGKQLEDGRTL+DYN
Sbjct: 1 MQIFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 103 IQKESTLHLVLRLRGG 118
IQKESTLHLVLRLRGG
Sbjct: 61 IQKESTLHLVLRLRGG 76
Score = 90.5 bits (223), Expect = 2e-19, Method: Compositional matrix adjust.
Identities = 41/43 (95%), Positives = 43/43 (100%)
Query: 1 GIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGGM 43
GIPPDQQRLIFAGKQLEDGRTL+DYNIQKESTLHLVLRLRGG+
Sbjct: 35 GIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGGI 77
>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 = 152 bits (384), Expect = 5e-38, Method: Compositional matrix adjust.
Identities = 74/76 (97%), Positives = 76/76 (100%)
Query: 43 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 102
MQIFVKTLTGKTITLEVESSDTIDNVK+KIQDKEGIPPDQQRLIFAGKQLEDGRTL+DYN
Sbjct: 1 MQIFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 103 IQKESTLHLVLRLRGG 118
IQKESTLHLVLRLRGG
Sbjct: 61 IQKESTLHLVLRLRGG 76
Score = 89.7 bits (221), Expect = 3e-19, Method: Compositional matrix adjust.
Identities = 41/42 (97%), Positives = 42/42 (100%)
Query: 1 GIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 42
GIPPDQQRLIFAGKQLEDGRTL+DYNIQKESTLHLVLRLRGG
Sbjct: 35 GIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGG 76
>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 = 151 bits (381), Expect = 9e-38, Method: Compositional matrix adjust.
Identities = 74/77 (96%), Positives = 76/77 (98%)
Query: 42 GMQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADY 101
MQIFVKTLTGKTITLEVESSDTIDNVK+KIQDKEGIPPDQQRLIFAGKQLEDGRTL+DY
Sbjct: 3 AMQIFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDY 62
Query: 102 NIQKESTLHLVLRLRGG 118
NIQKESTLHLVLRLRGG
Sbjct: 63 NIQKESTLHLVLRLRGG 79
Score = 89.4 bits (220), Expect = 5e-19, Method: Compositional matrix adjust.
Identities = 41/42 (97%), Positives = 42/42 (100%)
Query: 1 GIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 42
GIPPDQQRLIFAGKQLEDGRTL+DYNIQKESTLHLVLRLRGG
Sbjct: 38 GIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGG 79
>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 = 150 bits (380), Expect = 1e-37, Method: Compositional matrix adjust.
Identities = 74/76 (97%), Positives = 76/76 (100%)
Query: 43 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 102
MQIFVKTLTGKTITLEVESSDTIDNVK+KIQDKEGIPPDQQRLIFAGKQLEDGRTL+DYN
Sbjct: 1 MQIFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 103 IQKESTLHLVLRLRGG 118
IQKESTLHLVLRLRGG
Sbjct: 61 IQKESTLHLVLRLRGG 76
Score = 89.0 bits (219), Expect = 6e-19, Method: Compositional matrix adjust.
Identities = 41/42 (97%), Positives = 42/42 (100%)
Query: 1 GIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 42
GIPPDQQRLIFAGKQLEDGRTL+DYNIQKESTLHLVLRLRGG
Sbjct: 35 GIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGG 76
>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 = 150 bits (379), Expect = 2e-37, Method: Compositional matrix adjust.
Identities = 74/76 (97%), Positives = 76/76 (100%)
Query: 43 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 102
MQIFVKTLTGKTITLEVESSDTIDNVK+KIQDKEGIPPDQQRLIFAGKQLEDGRTL+DYN
Sbjct: 1 MQIFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 103 IQKESTLHLVLRLRGG 118
IQKESTLHLVLRLRGG
Sbjct: 61 IQKESTLHLVLRLRGG 76
Score = 89.0 bits (219), Expect = 7e-19, Method: Compositional matrix adjust.
Identities = 41/42 (97%), Positives = 42/42 (100%)
Query: 1 GIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 42
GIPPDQQRLIFAGKQLEDGRTL+DYNIQKESTLHLVLRLRGG
Sbjct: 35 GIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGG 76
>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 = 150 bits (379), Expect = 2e-37, Method: Compositional matrix adjust.
Identities = 74/76 (97%), Positives = 76/76 (100%)
Query: 43 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 102
MQIFVKTLTGKTITLEVESSDTIDNVK+KIQDKEGIPPDQQRLIFAGKQLEDGRTL+DYN
Sbjct: 21 MQIFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 80
Query: 103 IQKESTLHLVLRLRGG 118
IQKESTLHLVLRLRGG
Sbjct: 81 IQKESTLHLVLRLRGG 96
Score = 88.6 bits (218), Expect = 9e-19, Method: Compositional matrix adjust.
Identities = 41/42 (97%), Positives = 42/42 (100%)
Query: 1 GIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 42
GIPPDQQRLIFAGKQLEDGRTL+DYNIQKESTLHLVLRLRGG
Sbjct: 55 GIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGG 96
>pdb|4AP4|C Chain C, Rnf4 - Ubch5a - Ubiquitin Heterotrimeric Complex
pdb|4AP4|F Chain F, Rnf4 - Ubch5a - Ubiquitin Heterotrimeric Complex
Length = 80
Score = 150 bits (378), Expect = 2e-37, Method: Compositional matrix adjust.
Identities = 74/77 (96%), Positives = 76/77 (98%)
Query: 42 GMQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADY 101
GMQIFVKTLTGKTITLEVE SDTI+NVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTL+DY
Sbjct: 4 GMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDY 63
Query: 102 NIQKESTLHLVLRLRGG 118
NIQKESTLHLVLRLRGG
Sbjct: 64 NIQKESTLHLVLRLRGG 80
Score = 88.6 bits (218), Expect = 8e-19, Method: Compositional matrix adjust.
Identities = 41/42 (97%), Positives = 42/42 (100%)
Query: 1 GIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 42
GIPPDQQRLIFAGKQLEDGRTL+DYNIQKESTLHLVLRLRGG
Sbjct: 39 GIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGG 80
>pdb|4HCN|B Chain B, Crystal Structure Of Burkholderia Pseudomallei Effector
Protein Chbp In Complex With Ubiquitin
Length = 98
Score = 150 bits (378), Expect = 2e-37, Method: Compositional matrix adjust.
Identities = 74/76 (97%), Positives = 76/76 (100%)
Query: 43 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 102
MQIFVKTLTGKTITLEVESSDTIDNVK+KIQDKEGIPPDQQRLIFAGKQLEDGRTL+DYN
Sbjct: 23 MQIFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 82
Query: 103 IQKESTLHLVLRLRGG 118
IQKESTLHLVLRLRGG
Sbjct: 83 IQKESTLHLVLRLRGG 98
Score = 88.2 bits (217), Expect = 1e-18, Method: Compositional matrix adjust.
Identities = 41/42 (97%), Positives = 42/42 (100%)
Query: 1 GIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 42
GIPPDQQRLIFAGKQLEDGRTL+DYNIQKESTLHLVLRLRGG
Sbjct: 57 GIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGG 98
>pdb|3ZF7|SS Chain s, High-resolution Cryo-electron Microscopy Structure Of The
Trypanosoma Brucei Ribosome
Length = 128
Score = 150 bits (378), Expect = 2e-37, Method: Compositional matrix adjust.
Identities = 72/76 (94%), Positives = 75/76 (98%)
Query: 43 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 102
MQIFVKTLTGKTI LEVE+SDTI+NVKAKIQDKEGIPPDQQRLIFAGKQLE+GRTLADYN
Sbjct: 1 MQIFVKTLTGKTIALEVEASDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEEGRTLADYN 60
Query: 103 IQKESTLHLVLRLRGG 118
IQKESTLHLVLRLRGG
Sbjct: 61 IQKESTLHLVLRLRGG 76
Score = 90.5 bits (223), Expect = 2e-19, Method: Compositional matrix adjust.
Identities = 41/43 (95%), Positives = 43/43 (100%)
Query: 1 GIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGGM 43
GIPPDQQRLIFAGKQLE+GRTLADYNIQKESTLHLVLRLRGG+
Sbjct: 35 GIPPDQQRLIFAGKQLEEGRTLADYNIQKESTLHLVLRLRGGV 77
>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 = 150 bits (378), Expect = 2e-37, Method: Compositional matrix adjust.
Identities = 74/77 (96%), Positives = 76/77 (98%)
Query: 42 GMQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADY 101
GMQIFVKTLTGKTITLEVE SDTI+NVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTL+DY
Sbjct: 1 GMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDY 60
Query: 102 NIQKESTLHLVLRLRGG 118
NIQKESTLHLVLRLRGG
Sbjct: 61 NIQKESTLHLVLRLRGG 77
Score = 88.6 bits (218), Expect = 8e-19, Method: Compositional matrix adjust.
Identities = 41/42 (97%), Positives = 42/42 (100%)
Query: 1 GIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 42
GIPPDQQRLIFAGKQLEDGRTL+DYNIQKESTLHLVLRLRGG
Sbjct: 36 GIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGG 77
>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 = 149 bits (377), Expect = 3e-37, Method: Compositional matrix adjust.
Identities = 72/76 (94%), Positives = 76/76 (100%)
Query: 43 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 102
MQIFVKTLTGKTITL+VE+SDTI+NVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTL+DYN
Sbjct: 1 MQIFVKTLTGKTITLDVEASDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 103 IQKESTLHLVLRLRGG 118
IQKESTLHLVLRLRGG
Sbjct: 61 IQKESTLHLVLRLRGG 76
Score = 90.1 bits (222), Expect = 2e-19, Method: Compositional matrix adjust.
Identities = 44/54 (81%), Positives = 47/54 (87%), Gaps = 1/54 (1%)
Query: 1 GIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLR-GGMQIFVKTLTGK 53
GIPPDQQRLIFAGKQLEDGRTL+DYNIQKESTLHLVLRLR GGM+ + L K
Sbjct: 35 GIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGGGMEPTIAALAKK 88
>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 = 149 bits (377), Expect = 3e-37, Method: Compositional matrix adjust.
Identities = 74/78 (94%), Positives = 76/78 (97%)
Query: 41 GGMQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLAD 100
G MQIFVKTLTGKTITLEVE SDTI+NVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTL+D
Sbjct: 4 GSMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSD 63
Query: 101 YNIQKESTLHLVLRLRGG 118
YNIQKESTLHLVLRLRGG
Sbjct: 64 YNIQKESTLHLVLRLRGG 81
Score = 88.6 bits (218), Expect = 8e-19, Method: Compositional matrix adjust.
Identities = 41/42 (97%), Positives = 42/42 (100%)
Query: 1 GIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 42
GIPPDQQRLIFAGKQLEDGRTL+DYNIQKESTLHLVLRLRGG
Sbjct: 40 GIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGG 81
>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 = 149 bits (375), Expect = 5e-37, Method: Compositional matrix adjust.
Identities = 73/76 (96%), Positives = 75/76 (98%)
Query: 43 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 102
MQIFVKTLTGKTITLEVE SDTI+NVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTL+DYN
Sbjct: 1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 103 IQKESTLHLVLRLRGG 118
IQKESTLHLVLRLRGG
Sbjct: 61 IQKESTLHLVLRLRGG 76
Score = 89.4 bits (220), Expect = 5e-19, Method: Compositional matrix adjust.
Identities = 41/42 (97%), Positives = 42/42 (100%)
Query: 1 GIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 42
GIPPDQQRLIFAGKQLEDGRTL+DYNIQKESTLHLVLRLRGG
Sbjct: 35 GIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGG 76
>pdb|2JWZ|A Chain A, Mutations In The Hydrophobic Core Of Ubiquitin
Differentially Affect Its Recognition By Receptor
Proteins
Length = 76
Score = 148 bits (374), Expect = 7e-37, Method: Compositional matrix adjust.
Identities = 73/76 (96%), Positives = 75/76 (98%)
Query: 43 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 102
MQIFVKTLTGKTITLEVESSDTIDNVK+KIQDKEGIPPDQQRLIFAGKQLEDGRTL+DYN
Sbjct: 1 MQIFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 103 IQKESTLHLVLRLRGG 118
IQKESTLH VLRLRGG
Sbjct: 61 IQKESTLHSVLRLRGG 76
Score = 86.7 bits (213), Expect = 3e-18, Method: Compositional matrix adjust.
Identities = 40/42 (95%), Positives = 41/42 (97%)
Query: 1 GIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 42
GIPPDQQRLIFAGKQLEDGRTL+DYNIQKESTLH VLRLRGG
Sbjct: 35 GIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHSVLRLRGG 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 = 148 bits (373), Expect = 9e-37, Method: Compositional matrix adjust.
Identities = 73/77 (94%), Positives = 76/77 (98%)
Query: 43 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 102
MQIFVKTLTGKTITLEVE SDTI+NVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTL+DYN
Sbjct: 4 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 63
Query: 103 IQKESTLHLVLRLRGGE 119
IQKESTLHLVLRLRGG+
Sbjct: 64 IQKESTLHLVLRLRGGD 80
Score = 88.6 bits (218), Expect = 8e-19, Method: Compositional matrix adjust.
Identities = 41/42 (97%), Positives = 42/42 (100%)
Query: 1 GIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 42
GIPPDQQRLIFAGKQLEDGRTL+DYNIQKESTLHLVLRLRGG
Sbjct: 38 GIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGG 79
>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 = 148 bits (373), Expect = 9e-37, Method: Compositional matrix adjust.
Identities = 73/77 (94%), Positives = 76/77 (98%)
Query: 43 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 102
MQIFVKTLTGKTITLEVE SDTI+NVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTL+DYN
Sbjct: 1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 103 IQKESTLHLVLRLRGGE 119
IQKESTLHLVLRLRGG+
Sbjct: 61 IQKESTLHLVLRLRGGD 77
Score = 88.6 bits (218), Expect = 7e-19, Method: Compositional matrix adjust.
Identities = 41/42 (97%), Positives = 42/42 (100%)
Query: 1 GIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 42
GIPPDQQRLIFAGKQLEDGRTL+DYNIQKESTLHLVLRLRGG
Sbjct: 35 GIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGG 76
>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 = 148 bits (373), Expect = 1e-36, Method: Compositional matrix adjust.
Identities = 73/78 (93%), Positives = 76/78 (97%)
Query: 40 RGGMQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLA 99
RG MQIFVKTLTGKTITLEVE SDTI+NVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTL+
Sbjct: 6 RGSMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLS 65
Query: 100 DYNIQKESTLHLVLRLRG 117
+YNIQKESTLHLVLRLRG
Sbjct: 66 EYNIQKESTLHLVLRLRG 83
Score = 84.0 bits (206), Expect = 2e-17, Method: Compositional matrix adjust.
Identities = 39/41 (95%), Positives = 41/41 (100%)
Query: 1 GIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRG 41
GIPPDQQRLIFAGKQLEDGRTL++YNIQKESTLHLVLRLRG
Sbjct: 43 GIPPDQQRLIFAGKQLEDGRTLSEYNIQKESTLHLVLRLRG 83
>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 = 147 bits (372), Expect = 1e-36, Method: Compositional matrix adjust.
Identities = 73/76 (96%), Positives = 75/76 (98%)
Query: 43 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 102
MQIFVKTLTGKTITLEVE SDTI+NVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTL+DYN
Sbjct: 3 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 62
Query: 103 IQKESTLHLVLRLRGG 118
IQKESTLHLVLRLRGG
Sbjct: 63 IQKESTLHLVLRLRGG 78
Score = 88.6 bits (218), Expect = 7e-19, Method: Compositional matrix adjust.
Identities = 41/42 (97%), Positives = 42/42 (100%)
Query: 1 GIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 42
GIPPDQQRLIFAGKQLEDGRTL+DYNIQKESTLHLVLRLRGG
Sbjct: 37 GIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGG 78
>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 = 147 bits (372), Expect = 1e-36, Method: Compositional matrix adjust.
Identities = 73/76 (96%), Positives = 75/76 (98%)
Query: 43 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 102
MQIFVKTLTGKTITLEVE SDTI+NVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTL+DYN
Sbjct: 1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 103 IQKESTLHLVLRLRGG 118
IQKESTLHLVLRLRGG
Sbjct: 61 IQKESTLHLVLRLRGG 76
Score = 89.0 bits (219), Expect = 7e-19, Method: Compositional matrix adjust.
Identities = 41/42 (97%), Positives = 42/42 (100%)
Query: 1 GIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 42
GIPPDQQRLIFAGKQLEDGRTL+DYNIQKESTLHLVLRLRGG
Sbjct: 35 GIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGG 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 = 147 bits (372), Expect = 1e-36, Method: Compositional matrix adjust.
Identities = 73/76 (96%), Positives = 75/76 (98%)
Query: 43 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 102
MQIFVKTLTGKTITLEVE SDTI+NVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTL+DYN
Sbjct: 4 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 63
Query: 103 IQKESTLHLVLRLRGG 118
IQKESTLHLVLRLRGG
Sbjct: 64 IQKESTLHLVLRLRGG 79
Score = 88.6 bits (218), Expect = 8e-19, Method: Compositional matrix adjust.
Identities = 41/42 (97%), Positives = 42/42 (100%)
Query: 1 GIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 42
GIPPDQQRLIFAGKQLEDGRTL+DYNIQKESTLHLVLRLRGG
Sbjct: 38 GIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGG 79
>pdb|3K9O|B Chain B, The Crystal Structure Of E2-25k And Ubb+1 Complex
Length = 96
Score = 147 bits (371), Expect = 1e-36, Method: Compositional matrix adjust.
Identities = 73/76 (96%), Positives = 75/76 (98%)
Query: 42 GMQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADY 101
GMQIFVKTLTGKTITLEVE SDTI+NVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTL+DY
Sbjct: 1 GMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDY 60
Query: 102 NIQKESTLHLVLRLRG 117
NIQKESTLHLVLRLRG
Sbjct: 61 NIQKESTLHLVLRLRG 76
Score = 85.9 bits (211), Expect = 6e-18, Method: Compositional matrix adjust.
Identities = 40/41 (97%), Positives = 41/41 (100%)
Query: 1 GIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRG 41
GIPPDQQRLIFAGKQLEDGRTL+DYNIQKESTLHLVLRLRG
Sbjct: 36 GIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRG 76
>pdb|3Q3F|A Chain A, Engineering Domain-Swapped Binding Interfaces By Mutually
Exclusive Folding: Insertion Of Ubiquitin Into Position
103 Of Barnase
Length = 189
Score = 147 bits (371), Expect = 2e-36, Method: Compositional matrix adjust.
Identities = 73/77 (94%), Positives = 75/77 (97%)
Query: 42 GMQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADY 101
G QIFVKTLTGKTITLEVE SDTI+NVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTL+DY
Sbjct: 105 GGQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDY 164
Query: 102 NIQKESTLHLVLRLRGG 118
NIQKESTLHLVLRLRGG
Sbjct: 165 NIQKESTLHLVLRLRGG 181
Score = 94.4 bits (233), Expect = 2e-20, Method: Compositional matrix adjust.
Identities = 44/48 (91%), Positives = 45/48 (93%)
Query: 1 GIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGGMQIFVK 48
GIPPDQQRLIFAGKQLEDGRTL+DYNIQKESTLHLVLRLRGG Q F K
Sbjct: 140 GIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGGGQTFTK 187
>pdb|2OJR|A Chain A, Structure Of Ubiquitin Solved By Sad Using The Lanthanide-
Binding Tag
Length = 111
Score = 147 bits (371), Expect = 2e-36, Method: Compositional matrix adjust.
Identities = 73/76 (96%), Positives = 75/76 (98%)
Query: 43 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 102
MQIFVKTLTGKTITLEVE SDTI+NVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTL+DYN
Sbjct: 36 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 95
Query: 103 IQKESTLHLVLRLRGG 118
IQKESTLHLVLRLRGG
Sbjct: 96 IQKESTLHLVLRLRGG 111
Score = 88.2 bits (217), Expect = 1e-18, Method: Compositional matrix adjust.
Identities = 41/42 (97%), Positives = 42/42 (100%)
Query: 1 GIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 42
GIPPDQQRLIFAGKQLEDGRTL+DYNIQKESTLHLVLRLRGG
Sbjct: 70 GIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGG 111
>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 = 147 bits (371), Expect = 2e-36, Method: Compositional matrix adjust.
Identities = 73/76 (96%), Positives = 75/76 (98%)
Query: 43 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 102
MQIFVKTLTGKTITLEVE SDTI+NVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTL+DYN
Sbjct: 36 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 95
Query: 103 IQKESTLHLVLRLRGG 118
IQKESTLHLVLRLRGG
Sbjct: 96 IQKESTLHLVLRLRGG 111
Score = 88.6 bits (218), Expect = 8e-19, Method: Compositional matrix adjust.
Identities = 41/42 (97%), Positives = 42/42 (100%)
Query: 1 GIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 42
GIPPDQQRLIFAGKQLEDGRTL+DYNIQKESTLHLVLRLRGG
Sbjct: 70 GIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGG 111
>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 = 147 bits (370), Expect = 2e-36, Method: Compositional matrix adjust.
Identities = 69/76 (90%), Positives = 76/76 (100%)
Query: 43 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 102
MQIFV+TLTG+TITLEVESSDTIDNV+A+IQD+EGIPPDQQRLIFAG+QLEDGRTLADYN
Sbjct: 8 MQIFVRTLTGRTITLEVESSDTIDNVRARIQDREGIPPDQQRLIFAGRQLEDGRTLADYN 67
Query: 103 IQKESTLHLVLRLRGG 118
IQ+ESTLHLVLRLRGG
Sbjct: 68 IQRESTLHLVLRLRGG 83
Score = 87.8 bits (216), Expect = 1e-18, Method: Compositional matrix adjust.
Identities = 40/42 (95%), Positives = 42/42 (100%)
Query: 1 GIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 42
GIPPDQQRLIFAG+QLEDGRTLADYNIQ+ESTLHLVLRLRGG
Sbjct: 42 GIPPDQQRLIFAGRQLEDGRTLADYNIQRESTLHLVLRLRGG 83
>pdb|2KDI|A Chain A, Solution Structure Of A UbiquitinUIM FUSION PROTEIN
Length = 114
Score = 146 bits (369), Expect = 2e-36, Method: Compositional matrix adjust.
Identities = 71/80 (88%), Positives = 75/80 (93%)
Query: 41 GGMQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLAD 100
G QIF KTLTGKTITLEVESSDTIDNVK+KIQDKEGIPPDQQRLI+AGKQLEDGRTL+D
Sbjct: 8 GEFQIFAKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIWAGKQLEDGRTLSD 67
Query: 101 YNIQKESTLHLVLRLRGGEF 120
YNIQ+ESTLHLVLRLRGG
Sbjct: 68 YNIQRESTLHLVLRLRGGSM 87
Score = 87.0 bits (214), Expect = 2e-18, Method: Compositional matrix adjust.
Identities = 39/42 (92%), Positives = 42/42 (100%)
Query: 1 GIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 42
GIPPDQQRLI+AGKQLEDGRTL+DYNIQ+ESTLHLVLRLRGG
Sbjct: 44 GIPPDQQRLIWAGKQLEDGRTLSDYNIQRESTLHLVLRLRGG 85
>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 = 146 bits (369), Expect = 2e-36, Method: Compositional matrix adjust.
Identities = 72/76 (94%), Positives = 75/76 (98%)
Query: 43 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 102
MQIFVKTLTGKTITLEVE SDTI+NVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTL+DYN
Sbjct: 1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 103 IQKESTLHLVLRLRGG 118
IQ+ESTLHLVLRLRGG
Sbjct: 61 IQRESTLHLVLRLRGG 76
Score = 87.4 bits (215), Expect = 2e-18, Method: Compositional matrix adjust.
Identities = 40/42 (95%), Positives = 42/42 (100%)
Query: 1 GIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 42
GIPPDQQRLIFAGKQLEDGRTL+DYNIQ+ESTLHLVLRLRGG
Sbjct: 35 GIPPDQQRLIFAGKQLEDGRTLSDYNIQRESTLHLVLRLRGG 76
>pdb|1ZGU|B Chain B, Solution Structure Of The Human Mms2-Ubiquitin Complex
Length = 76
Score = 146 bits (369), Expect = 2e-36, Method: Compositional matrix adjust.
Identities = 72/76 (94%), Positives = 75/76 (98%)
Query: 43 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 102
MQIFVKTLTGKTITLEVE SDTI+NVKAKIQDKEGIPPDQQRLIFAG+QLEDGRTL+DYN
Sbjct: 1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGRQLEDGRTLSDYN 60
Query: 103 IQKESTLHLVLRLRGG 118
IQKESTLHLVLRLRGG
Sbjct: 61 IQKESTLHLVLRLRGG 76
Score = 87.4 bits (215), Expect = 2e-18, Method: Compositional matrix adjust.
Identities = 40/42 (95%), Positives = 42/42 (100%)
Query: 1 GIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 42
GIPPDQQRLIFAG+QLEDGRTL+DYNIQKESTLHLVLRLRGG
Sbjct: 35 GIPPDQQRLIFAGRQLEDGRTLSDYNIQKESTLHLVLRLRGG 76
>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 = 146 bits (369), Expect = 2e-36, Method: Compositional matrix adjust.
Identities = 72/76 (94%), Positives = 75/76 (98%)
Query: 43 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 102
MQIFVKTLTGKTITLEVE SDTI+NVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTL+DYN
Sbjct: 4 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 63
Query: 103 IQKESTLHLVLRLRGG 118
IQ+ESTLHLVLRLRGG
Sbjct: 64 IQRESTLHLVLRLRGG 79
Score = 87.4 bits (215), Expect = 2e-18, Method: Compositional matrix adjust.
Identities = 40/42 (95%), Positives = 42/42 (100%)
Query: 1 GIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 42
GIPPDQQRLIFAGKQLEDGRTL+DYNIQ+ESTLHLVLRLRGG
Sbjct: 38 GIPPDQQRLIFAGKQLEDGRTLSDYNIQRESTLHLVLRLRGG 79
>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 = 146 bits (368), Expect = 3e-36, Method: Compositional matrix adjust.
Identities = 72/76 (94%), Positives = 75/76 (98%)
Query: 43 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 102
+QIFVKTLTGKTITLEVE SDTI+NVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTL+DYN
Sbjct: 1 LQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 103 IQKESTLHLVLRLRGG 118
IQKESTLHLVLRLRGG
Sbjct: 61 IQKESTLHLVLRLRGG 76
Score = 88.6 bits (218), Expect = 8e-19, Method: Compositional matrix adjust.
Identities = 41/42 (97%), Positives = 42/42 (100%)
Query: 1 GIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 42
GIPPDQQRLIFAGKQLEDGRTL+DYNIQKESTLHLVLRLRGG
Sbjct: 35 GIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGG 76
>pdb|3RUL|A Chain A, New Strategy To Analyze Structures Of Glycopeptide-Target
Complexes
pdb|3RUL|B Chain B, New Strategy To Analyze Structures Of Glycopeptide-Target
Complexes
pdb|3RUL|C Chain C, New Strategy To Analyze Structures Of Glycopeptide-Target
Complexes
pdb|3RUL|D Chain D, New Strategy To Analyze Structures Of Glycopeptide-Target
Complexes
pdb|3VFK|A Chain A, The Structure Of Monodechloro-Teicoplanin In Complex With
Its Ligand, Using Ubiquitin As A Ligand Carrier
Length = 79
Score = 146 bits (368), Expect = 4e-36, Method: Compositional matrix adjust.
Identities = 72/75 (96%), Positives = 74/75 (98%)
Query: 43 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 102
MQIFVKTLTGKTITLEVE SDTI+NVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTL+DYN
Sbjct: 1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 103 IQKESTLHLVLRLRG 117
IQKESTLHLVLRLRG
Sbjct: 61 IQKESTLHLVLRLRG 75
Score = 86.7 bits (213), Expect = 3e-18, Method: Compositional matrix adjust.
Identities = 40/41 (97%), Positives = 41/41 (100%)
Query: 1 GIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRG 41
GIPPDQQRLIFAGKQLEDGRTL+DYNIQKESTLHLVLRLRG
Sbjct: 35 GIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRG 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 = 145 bits (367), Expect = 4e-36, Method: Compositional matrix adjust.
Identities = 72/75 (96%), Positives = 74/75 (98%)
Query: 43 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 102
MQIFVKTLTGKTITLEVE SDTI+NVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTL+DYN
Sbjct: 1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 103 IQKESTLHLVLRLRG 117
IQKESTLHLVLRLRG
Sbjct: 61 IQKESTLHLVLRLRG 75
Score = 86.7 bits (213), Expect = 3e-18, Method: Compositional matrix adjust.
Identities = 40/41 (97%), Positives = 41/41 (100%)
Query: 1 GIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRG 41
GIPPDQQRLIFAGKQLEDGRTL+DYNIQKESTLHLVLRLRG
Sbjct: 35 GIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRG 75
>pdb|3AI5|A Chain A, Crystal Structure Of Yeast Enhanced Green Fluorescent
Protein- Ubiquitin Fusion Protein
Length = 307
Score = 145 bits (367), Expect = 4e-36, Method: Compositional matrix adjust.
Identities = 72/78 (92%), Positives = 75/78 (96%)
Query: 39 LRGGMQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTL 98
+ G MQIFVKTLTGKTITLEVE SDTI+NVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTL
Sbjct: 230 ITGSMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTL 289
Query: 99 ADYNIQKESTLHLVLRLR 116
+DYNIQKESTLHLVLRLR
Sbjct: 290 SDYNIQKESTLHLVLRLR 307
Score = 84.3 bits (207), Expect = 2e-17, Method: Compositional matrix adjust.
Identities = 39/40 (97%), Positives = 40/40 (100%)
Query: 1 GIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLR 40
GIPPDQQRLIFAGKQLEDGRTL+DYNIQKESTLHLVLRLR
Sbjct: 268 GIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLR 307
>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 = 145 bits (367), Expect = 4e-36, Method: Compositional matrix adjust.
Identities = 72/75 (96%), Positives = 74/75 (98%)
Query: 43 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 102
MQIFVKTLTGKTITLEVE SDTI+NVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTL+DYN
Sbjct: 1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 103 IQKESTLHLVLRLRG 117
IQKESTLHLVLRLRG
Sbjct: 61 IQKESTLHLVLRLRG 75
Score = 86.7 bits (213), Expect = 3e-18, Method: Compositional matrix adjust.
Identities = 40/41 (97%), Positives = 41/41 (100%)
Query: 1 GIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRG 41
GIPPDQQRLIFAGKQLEDGRTL+DYNIQKESTLHLVLRLRG
Sbjct: 35 GIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRG 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 = 145 bits (367), Expect = 4e-36, Method: Compositional matrix adjust.
Identities = 72/75 (96%), Positives = 74/75 (98%)
Query: 43 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 102
MQIFVKTLTGKTITLEVE SDTI+NVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTL+DYN
Sbjct: 1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 103 IQKESTLHLVLRLRG 117
IQKESTLHLVLRLRG
Sbjct: 61 IQKESTLHLVLRLRG 75
Score = 86.7 bits (213), Expect = 3e-18, Method: Compositional matrix adjust.
Identities = 40/41 (97%), Positives = 41/41 (100%)
Query: 1 GIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRG 41
GIPPDQQRLIFAGKQLEDGRTL+DYNIQKESTLHLVLRLRG
Sbjct: 35 GIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRG 75
>pdb|2XK5|B Chain B, Crystal Structure Of K6-Linked Diubiquitin
Length = 76
Score = 145 bits (367), Expect = 5e-36, Method: Compositional matrix adjust.
Identities = 72/76 (94%), Positives = 74/76 (97%)
Query: 43 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 102
MQIFVKTLTGKTITLEVE SDTI+NVKAKIQDKEGIPP QQRLIFAGKQLEDGRTL+DYN
Sbjct: 1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPQQQRLIFAGKQLEDGRTLSDYN 60
Query: 103 IQKESTLHLVLRLRGG 118
IQKESTLHLVLRLRGG
Sbjct: 61 IQKESTLHLVLRLRGG 76
Score = 86.3 bits (212), Expect = 4e-18, Method: Compositional matrix adjust.
Identities = 40/42 (95%), Positives = 41/42 (97%)
Query: 1 GIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 42
GIPP QQRLIFAGKQLEDGRTL+DYNIQKESTLHLVLRLRGG
Sbjct: 35 GIPPQQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGG 76
>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 = 145 bits (366), Expect = 5e-36, Method: Compositional matrix adjust.
Identities = 71/76 (93%), Positives = 75/76 (98%)
Query: 43 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 102
MQIFVKTLTGKTITLEVE SDTI+NVKAKIQDKEGIPPDQQRLIFAG+QLEDGRTL+DYN
Sbjct: 1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGRQLEDGRTLSDYN 60
Query: 103 IQKESTLHLVLRLRGG 118
IQ+ESTLHLVLRLRGG
Sbjct: 61 IQRESTLHLVLRLRGG 76
Score = 86.3 bits (212), Expect = 4e-18, Method: Compositional matrix adjust.
Identities = 39/42 (92%), Positives = 42/42 (100%)
Query: 1 GIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 42
GIPPDQQRLIFAG+QLEDGRTL+DYNIQ+ESTLHLVLRLRGG
Sbjct: 35 GIPPDQQRLIFAGRQLEDGRTLSDYNIQRESTLHLVLRLRGG 76
>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 = 145 bits (366), Expect = 6e-36, Method: Compositional matrix adjust.
Identities = 72/75 (96%), Positives = 74/75 (98%)
Query: 44 QIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNI 103
QIFVKTLTGKTITLEVE SDTI+NVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTL+DYNI
Sbjct: 2 QIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNI 61
Query: 104 QKESTLHLVLRLRGG 118
QKESTLHLVLRLRGG
Sbjct: 62 QKESTLHLVLRLRGG 76
Score = 88.6 bits (218), Expect = 8e-19, Method: Compositional matrix adjust.
Identities = 41/42 (97%), Positives = 42/42 (100%)
Query: 1 GIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 42
GIPPDQQRLIFAGKQLEDGRTL+DYNIQKESTLHLVLRLRGG
Sbjct: 35 GIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGG 76
>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 = 144 bits (364), Expect = 9e-36, Method: Compositional matrix adjust.
Identities = 71/76 (93%), Positives = 74/76 (97%)
Query: 43 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 102
MQIFVKTLTGKTITLEVE SDTI+NVKAKIQDKEGIPPDQQRLIFAG QLEDGRTL+DYN
Sbjct: 1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGXQLEDGRTLSDYN 60
Query: 103 IQKESTLHLVLRLRGG 118
IQ+ESTLHLVLRLRGG
Sbjct: 61 IQRESTLHLVLRLRGG 76
Score = 85.5 bits (210), Expect = 7e-18, Method: Compositional matrix adjust.
Identities = 39/42 (92%), Positives = 41/42 (97%)
Query: 1 GIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 42
GIPPDQQRLIFAG QLEDGRTL+DYNIQ+ESTLHLVLRLRGG
Sbjct: 35 GIPPDQQRLIFAGXQLEDGRTLSDYNIQRESTLHLVLRLRGG 76
>pdb|1OGW|A Chain A, Synthetic Ubiquitin With Fluoro-Leu At 50 And 67
Length = 76
Score = 144 bits (362), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 71/76 (93%), Positives = 73/76 (96%)
Query: 43 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 102
MQIFVKTLTGKTITLEVE SDTI+NVKAKIQDKEGIPPDQQRLIFAGKQ EDGRTL+DYN
Sbjct: 1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQXEDGRTLSDYN 60
Query: 103 IQKESTLHLVLRLRGG 118
IQKEST HLVLRLRGG
Sbjct: 61 IQKESTXHLVLRLRGG 76
Score = 84.7 bits (208), Expect = 1e-17, Method: Compositional matrix adjust.
Identities = 39/42 (92%), Positives = 40/42 (95%)
Query: 1 GIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 42
GIPPDQQRLIFAGKQ EDGRTL+DYNIQKEST HLVLRLRGG
Sbjct: 35 GIPPDQQRLIFAGKQXEDGRTLSDYNIQKESTXHLVLRLRGG 76
>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 = 143 bits (361), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 71/76 (93%), Positives = 74/76 (97%)
Query: 43 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 102
+QIFVKTLTGKTITLEVE SDTI+NVKAKIQDKE IPPDQQRLIFAGKQLEDGRTL+DYN
Sbjct: 1 LQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEXIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 103 IQKESTLHLVLRLRGG 118
IQKESTLHLVLRLRGG
Sbjct: 61 IQKESTLHLVLRLRGG 76
Score = 86.7 bits (213), Expect = 3e-18, Method: Compositional matrix adjust.
Identities = 40/41 (97%), Positives = 41/41 (100%)
Query: 2 IPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 42
IPPDQQRLIFAGKQLEDGRTL+DYNIQKESTLHLVLRLRGG
Sbjct: 36 IPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGG 76
>pdb|3V6E|B Chain B, Crystal Structure Of Usp2 And A Mutant Form Of Ubiquitin
Length = 91
Score = 143 bits (361), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 70/77 (90%), Positives = 73/77 (94%)
Query: 40 RGGMQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLA 99
RG MQIFV TL+GK ITLEVE SDTI+NVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTL+
Sbjct: 15 RGSMQIFVNTLSGKHITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLS 74
Query: 100 DYNIQKESTLHLVLRLR 116
DYNIQKESTLHLVLRLR
Sbjct: 75 DYNIQKESTLHLVLRLR 91
Score = 84.3 bits (207), Expect = 1e-17, Method: Compositional matrix adjust.
Identities = 39/40 (97%), Positives = 40/40 (100%)
Query: 1 GIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLR 40
GIPPDQQRLIFAGKQLEDGRTL+DYNIQKESTLHLVLRLR
Sbjct: 52 GIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLR 91
>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 = 143 bits (361), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 71/76 (93%), Positives = 74/76 (97%)
Query: 43 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 102
+QIFVKTLTGKTITLEVE SDTI+NVKAKIQDKE IPPDQQRLIFAGKQLEDGRTL+DYN
Sbjct: 1 LQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEQIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 103 IQKESTLHLVLRLRGG 118
IQKESTLHLVLRLRGG
Sbjct: 61 IQKESTLHLVLRLRGG 76
Score = 86.7 bits (213), Expect = 3e-18, Method: Compositional matrix adjust.
Identities = 40/41 (97%), Positives = 41/41 (100%)
Query: 2 IPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 42
IPPDQQRLIFAGKQLEDGRTL+DYNIQKESTLHLVLRLRGG
Sbjct: 36 IPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGG 76
>pdb|3V6C|B Chain B, Crystal Structure Of Usp2 In Complex With Mutated
Ubiquitin
Length = 91
Score = 142 bits (358), Expect = 5e-35, Method: Compositional matrix adjust.
Identities = 70/77 (90%), Positives = 72/77 (93%)
Query: 40 RGGMQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLA 99
RG MQIFV TLTG ITLEVE SDTI+NVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTL+
Sbjct: 15 RGSMQIFVNTLTGTHITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLS 74
Query: 100 DYNIQKESTLHLVLRLR 116
DYNIQKESTLHLVLRLR
Sbjct: 75 DYNIQKESTLHLVLRLR 91
Score = 84.3 bits (207), Expect = 1e-17, Method: Compositional matrix adjust.
Identities = 39/40 (97%), Positives = 40/40 (100%)
Query: 1 GIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLR 40
GIPPDQQRLIFAGKQLEDGRTL+DYNIQKESTLHLVLRLR
Sbjct: 52 GIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLR 91
>pdb|2ZCB|A Chain A, Crystal Structure Of Ubiquitin P37aP38A
pdb|2ZCB|B Chain B, Crystal Structure Of Ubiquitin P37aP38A
pdb|2ZCB|C Chain C, Crystal Structure Of Ubiquitin P37aP38A
Length = 76
Score = 142 bits (358), Expect = 5e-35, Method: Compositional matrix adjust.
Identities = 71/76 (93%), Positives = 73/76 (96%)
Query: 43 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 102
MQIFVKTLTGKTITLEVE SDTI+NVKAKIQDKEGI DQQRLIFAGKQLEDGRTL+DYN
Sbjct: 1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIAADQQRLIFAGKQLEDGRTLSDYN 60
Query: 103 IQKESTLHLVLRLRGG 118
IQKESTLHLVLRLRGG
Sbjct: 61 IQKESTLHLVLRLRGG 76
Score = 83.2 bits (204), Expect = 3e-17, Method: Compositional matrix adjust.
Identities = 39/42 (92%), Positives = 40/42 (95%)
Query: 1 GIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 42
GI DQQRLIFAGKQLEDGRTL+DYNIQKESTLHLVLRLRGG
Sbjct: 35 GIAADQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGG 76
>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 = 142 bits (358), Expect = 5e-35, Method: Compositional matrix adjust.
Identities = 73/81 (90%), Positives = 75/81 (92%), Gaps = 5/81 (6%)
Query: 43 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEG-----IPPDQQRLIFAGKQLEDGRT 97
MQIFVKTLTGKTITLEVE SDTI+NVKAKIQDKEG IPPDQQRLIFAGKQLEDGRT
Sbjct: 1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGRWALAIPPDQQRLIFAGKQLEDGRT 60
Query: 98 LADYNIQKESTLHLVLRLRGG 118
L+DYNIQKESTLHLVLRLRGG
Sbjct: 61 LSDYNIQKESTLHLVLRLRGG 81
Score = 87.0 bits (214), Expect = 3e-18, Method: Compositional matrix adjust.
Identities = 40/42 (95%), Positives = 41/42 (97%)
Query: 1 GIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 42
IPPDQQRLIFAGKQLEDGRTL+DYNIQKESTLHLVLRLRGG
Sbjct: 40 AIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGG 81
>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 = 141 bits (356), Expect = 7e-35, Method: Compositional matrix adjust.
Identities = 70/73 (95%), Positives = 72/73 (98%)
Query: 43 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 102
MQIFVKTLTGKTITLEVE SDTI+NVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTL+DYN
Sbjct: 1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 103 IQKESTLHLVLRL 115
IQKESTLHLVLRL
Sbjct: 61 IQKESTLHLVLRL 73
Score = 82.4 bits (202), Expect = 5e-17, Method: Compositional matrix adjust.
Identities = 38/39 (97%), Positives = 39/39 (100%)
Query: 1 GIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRL 39
GIPPDQQRLIFAGKQLEDGRTL+DYNIQKESTLHLVLRL
Sbjct: 35 GIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRL 73
>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 = 141 bits (355), Expect = 1e-34, Method: Compositional matrix adjust.
Identities = 72/76 (94%), Positives = 74/76 (97%), Gaps = 1/76 (1%)
Query: 43 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 102
MQIFVKTLTGKTITLEVE SDTI+NVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTL+DYN
Sbjct: 1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 103 IQK-ESTLHLVLRLRG 117
IQK ESTLHLVLRLRG
Sbjct: 61 IQKRESTLHLVLRLRG 76
Score = 82.0 bits (201), Expect = 7e-17, Method: Compositional matrix adjust.
Identities = 40/42 (95%), Positives = 41/42 (97%), Gaps = 1/42 (2%)
Query: 1 GIPPDQQRLIFAGKQLEDGRTLADYNIQK-ESTLHLVLRLRG 41
GIPPDQQRLIFAGKQLEDGRTL+DYNIQK ESTLHLVLRLRG
Sbjct: 35 GIPPDQQRLIFAGKQLEDGRTLSDYNIQKRESTLHLVLRLRG 76
>pdb|1UD7|A Chain A, Solution Structure Of The Designed Hydrophobic Core Mutant
Of Ubiquitin, 1d7
Length = 76
Score = 141 bits (355), Expect = 1e-34, Method: Compositional matrix adjust.
Identities = 66/76 (86%), Positives = 74/76 (97%)
Query: 43 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 102
MQ+F+KTLTGKT+T+EVE SDT++N KAKIQDKEGIPPDQQRLIFAGKQLEDGRTL+DYN
Sbjct: 1 MQVFLKTLTGKTVTIEVEPSDTVENFKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 103 IQKESTLHLVLRLRGG 118
IQKEST+HLVLRLRGG
Sbjct: 61 IQKESTIHLVLRLRGG 76
Score = 87.8 bits (216), Expect = 1e-18, Method: Compositional matrix adjust.
Identities = 40/42 (95%), Positives = 42/42 (100%)
Query: 1 GIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 42
GIPPDQQRLIFAGKQLEDGRTL+DYNIQKEST+HLVLRLRGG
Sbjct: 35 GIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTIHLVLRLRGG 76
>pdb|1SIF|A Chain A, Crystal Structure Of A Multiple Hydrophobic Core Mutant Of
Ubiquitin
Length = 88
Score = 140 bits (354), Expect = 1e-34, Method: Compositional matrix adjust.
Identities = 67/77 (87%), Positives = 75/77 (97%)
Query: 42 GMQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADY 101
G+Q+F+KTLTGKT T+E+E SDTI+N+KAKIQDKEGIPPDQQRLIFAGKQLEDGRTL+DY
Sbjct: 9 GLQLFIKTLTGKTFTVEMEPSDTIENLKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDY 68
Query: 102 NIQKESTLHLVLRLRGG 118
NIQKESTLHLVLRLRGG
Sbjct: 69 NIQKESTLHLVLRLRGG 85
Score = 87.8 bits (216), Expect = 1e-18, Method: Compositional matrix adjust.
Identities = 41/42 (97%), Positives = 42/42 (100%)
Query: 1 GIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 42
GIPPDQQRLIFAGKQLEDGRTL+DYNIQKESTLHLVLRLRGG
Sbjct: 44 GIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGG 85
>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 = 140 bits (354), Expect = 1e-34, Method: Compositional matrix adjust.
Identities = 73/83 (87%), Positives = 75/83 (90%), Gaps = 7/83 (8%)
Query: 43 MQIFVKTLT-------GKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDG 95
MQIFVKTLT GKTITLEVE SDTI+NVKAKIQDKEGIPPDQQRLIFAGKQLEDG
Sbjct: 1 MQIFVKTLTQVRELVGGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDG 60
Query: 96 RTLADYNIQKESTLHLVLRLRGG 118
RTL+DYNIQKESTLHLVLRLRGG
Sbjct: 61 RTLSDYNIQKESTLHLVLRLRGG 83
Score = 88.6 bits (218), Expect = 8e-19, Method: Compositional matrix adjust.
Identities = 41/42 (97%), Positives = 42/42 (100%)
Query: 1 GIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 42
GIPPDQQRLIFAGKQLEDGRTL+DYNIQKESTLHLVLRLRGG
Sbjct: 42 GIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGG 83
>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 = 140 bits (353), Expect = 2e-34, Method: Compositional matrix adjust.
Identities = 68/70 (97%), Positives = 70/70 (100%)
Query: 43 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 102
MQIFVKTLTGKTITLEVESSDTIDNVK+KIQDKEGIPPDQQRLIFAGKQLEDGRTL+DYN
Sbjct: 1 MQIFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 103 IQKESTLHLV 112
IQKESTLHLV
Sbjct: 61 IQKESTLHLV 70
Score = 78.2 bits (191), Expect = 1e-15, Method: Compositional matrix adjust.
Identities = 35/36 (97%), Positives = 36/36 (100%)
Query: 1 GIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLV 36
GIPPDQQRLIFAGKQLEDGRTL+DYNIQKESTLHLV
Sbjct: 35 GIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLV 70
>pdb|3ONS|A Chain A, Crystal Structure Of Human Ubiquitin In A New Crystal Form
Length = 72
Score = 140 bits (352), Expect = 2e-34, Method: Compositional matrix adjust.
Identities = 69/72 (95%), Positives = 71/72 (98%)
Query: 43 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 102
MQIFVKTLTGKTITLEVE SDTI+NVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTL+DYN
Sbjct: 1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 103 IQKESTLHLVLR 114
IQKESTLHLVLR
Sbjct: 61 IQKESTLHLVLR 72
Score = 80.9 bits (198), Expect = 2e-16, Method: Compositional matrix adjust.
Identities = 37/38 (97%), Positives = 38/38 (100%)
Query: 1 GIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLR 38
GIPPDQQRLIFAGKQLEDGRTL+DYNIQKESTLHLVLR
Sbjct: 35 GIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLR 72
>pdb|1ZW7|A Chain A, Elimination Of The C-Cap In Ubiquitin Structure, Dynamics
And Thermodynamic Consequences
Length = 82
Score = 140 bits (352), Expect = 3e-34, Method: Compositional matrix adjust.
Identities = 69/76 (90%), Positives = 71/76 (93%)
Query: 43 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 102
MQIFVKTLTG TITLEVESSDTIDNVK+KIQ GIPPDQQ LIFAGKQLEDGRTL+DYN
Sbjct: 1 MQIFVKTLTGATITLEVESSDTIDNVKSKIQAAPGIPPDQQELIFAGKQLEDGRTLSDYN 60
Query: 103 IQKESTLHLVLRLRGG 118
IQKESTLHLVLRLRGG
Sbjct: 61 IQKESTLHLVLRLRGG 76
Score = 87.0 bits (214), Expect = 2e-18, Method: Compositional matrix adjust.
Identities = 40/42 (95%), Positives = 41/42 (97%)
Query: 1 GIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 42
GIPPDQQ LIFAGKQLEDGRTL+DYNIQKESTLHLVLRLRGG
Sbjct: 35 GIPPDQQELIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGG 76
>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 = 139 bits (351), Expect = 3e-34, Method: Compositional matrix adjust.
Identities = 67/77 (87%), Positives = 74/77 (96%)
Query: 42 GMQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADY 101
MQIFVKTLTGKTITLEVE +D+ID +KAKIQ+KEGIPPDQQRLIFAGKQLE+G+TL+DY
Sbjct: 3 AMQIFVKTLTGKTITLEVEPNDSIDAIKAKIQEKEGIPPDQQRLIFAGKQLEEGKTLSDY 62
Query: 102 NIQKESTLHLVLRLRGG 118
NIQKESTLHLVLRLRGG
Sbjct: 63 NIQKESTLHLVLRLRGG 79
Score = 86.3 bits (212), Expect = 4e-18, Method: Compositional matrix adjust.
Identities = 39/42 (92%), Positives = 42/42 (100%)
Query: 1 GIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 42
GIPPDQQRLIFAGKQLE+G+TL+DYNIQKESTLHLVLRLRGG
Sbjct: 38 GIPPDQQRLIFAGKQLEEGKTLSDYNIQKESTLHLVLRLRGG 79
>pdb|1C3T|A Chain A, Rotamer Strain As A Determinant Of Protein Structural
Specificity
Length = 76
Score = 139 bits (351), Expect = 3e-34, Method: Compositional matrix adjust.
Identities = 65/76 (85%), Positives = 75/76 (98%)
Query: 43 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 102
MQ+FVKTLTGKT+T+E+E SDT++N+KAKIQDKEGIPPDQQRLIFAGKQLEDGRTL+DYN
Sbjct: 1 MQLFVKTLTGKTLTVELEPSDTVENLKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 60
Query: 103 IQKESTLHLVLRLRGG 118
+QKEST+HLVLRLRGG
Sbjct: 61 LQKESTIHLVLRLRGG 76
Score = 86.7 bits (213), Expect = 3e-18, Method: Compositional matrix adjust.
Identities = 39/42 (92%), Positives = 42/42 (100%)
Query: 1 GIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 42
GIPPDQQRLIFAGKQLEDGRTL+DYN+QKEST+HLVLRLRGG
Sbjct: 35 GIPPDQQRLIFAGKQLEDGRTLSDYNLQKESTIHLVLRLRGG 76
>pdb|2GBJ|A Chain A, Crystal Structure Of The 9-10 8 Glycine Insertion Mutant
Of Ubiquitin.
pdb|2GBJ|B Chain B, Crystal Structure Of The 9-10 8 Glycine Insertion Mutant
Of Ubiquitin
Length = 84
Score = 137 bits (346), Expect = 1e-33, Method: Compositional matrix adjust.
Identities = 73/84 (86%), Positives = 75/84 (89%), Gaps = 8/84 (9%)
Query: 43 MQIFVKTLTG--------KTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLED 94
MQIFVKTLTG KTITLEVE SDTI+NVKAKIQDKEGIPPDQQRLIFAGKQLED
Sbjct: 1 MQIFVKTLTGGGGGGGGGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLED 60
Query: 95 GRTLADYNIQKESTLHLVLRLRGG 118
GRTL+DYNIQKESTLHLVLRLRGG
Sbjct: 61 GRTLSDYNIQKESTLHLVLRLRGG 84
Score = 89.0 bits (219), Expect = 6e-19, Method: Compositional matrix adjust.
Identities = 41/42 (97%), Positives = 42/42 (100%)
Query: 1 GIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 42
GIPPDQQRLIFAGKQLEDGRTL+DYNIQKESTLHLVLRLRGG
Sbjct: 43 GIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGG 84
>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 = 137 bits (346), Expect = 1e-33, Method: Compositional matrix adjust.
Identities = 73/84 (86%), Positives = 75/84 (89%), Gaps = 8/84 (9%)
Query: 43 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEG--------IPPDQQRLIFAGKQLED 94
MQIFVKTLTGKTITLEVE SDTI+NVKAKIQDKEG IPPDQQRLIFAGKQLED
Sbjct: 1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGGGGGGGGGIPPDQQRLIFAGKQLED 60
Query: 95 GRTLADYNIQKESTLHLVLRLRGG 118
GRTL+DYNIQKESTLHLVLRLRGG
Sbjct: 61 GRTLSDYNIQKESTLHLVLRLRGG 84
Score = 86.7 bits (213), Expect = 3e-18, Method: Compositional matrix adjust.
Identities = 40/41 (97%), Positives = 41/41 (100%)
Query: 2 IPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 42
IPPDQQRLIFAGKQLEDGRTL+DYNIQKESTLHLVLRLRGG
Sbjct: 44 IPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGG 84
>pdb|4HJK|A Chain A, U7ub7 Disulfide Variant
Length = 77
Score = 135 bits (340), Expect = 7e-33, Method: Compositional matrix adjust.
Identities = 67/77 (87%), Positives = 69/77 (89%)
Query: 42 GMQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADY 101
MQIFVK LTGKT TLEVE SDTI+NVKAKIQDK G PPDQQRLIFAGKQLEDGRTL+DY
Sbjct: 1 AMQIFVKCLTGKTNTLEVEPSDTIENVKAKIQDKIGYPPDQQRLIFAGKQLEDGRTLSDY 60
Query: 102 NIQKESTLHLVLRLRGG 118
NIQKESTLH V RLRGG
Sbjct: 61 NIQKESTLHCVRRLRGG 77
Score = 83.2 bits (204), Expect = 4e-17, Method: Compositional matrix adjust.
Identities = 38/42 (90%), Positives = 39/42 (92%)
Query: 1 GIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 42
G PPDQQRLIFAGKQLEDGRTL+DYNIQKESTLH V RLRGG
Sbjct: 36 GYPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHCVRRLRGG 77
>pdb|4I6L|B Chain B, Crystal Structure Of Otub1 In Complex With Ubiquitin
Variant
Length = 76
Score = 134 bits (337), Expect = 1e-32, Method: Compositional matrix adjust.
Identities = 66/76 (86%), Positives = 71/76 (93%)
Query: 41 GGMQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLAD 100
G MQIFVKTLTGKTITLEVE SDTI+NVKAKIQDKEGIPPDQQ+L+FA KQLEDGRTL+D
Sbjct: 1 GSMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQKLLFARKQLEDGRTLSD 60
Query: 101 YNIQKESTLHLVLRLR 116
YNI KES L+LVLRLR
Sbjct: 61 YNIHKESFLYLVLRLR 76
Score = 72.4 bits (176), Expect = 7e-14, Method: Compositional matrix adjust.
Identities = 33/40 (82%), Positives = 37/40 (92%)
Query: 1 GIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLR 40
GIPPDQQ+L+FA KQLEDGRTL+DYNI KES L+LVLRLR
Sbjct: 37 GIPPDQQKLLFARKQLEDGRTLSDYNIHKESFLYLVLRLR 76
>pdb|2JVC|A Chain A, Nmr Solution Structure Of Ubiquitin Like Protein
Length = 82
Score = 129 bits (324), Expect = 4e-31, Method: Compositional matrix adjust.
Identities = 61/78 (78%), Positives = 69/78 (88%)
Query: 41 GGMQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLAD 100
G MQIFVKTLTGKTIT++V+ +DT+ VKAKI DKEGIPPDQQRLIF GKQLED ++D
Sbjct: 4 GSMQIFVKTLTGKTITIDVDHADTVGAVKAKIYDKEGIPPDQQRLIFGGKQLEDSNAMSD 63
Query: 101 YNIQKESTLHLVLRLRGG 118
YN+QKESTLHLVLRLRGG
Sbjct: 64 YNVQKESTLHLVLRLRGG 81
Score = 79.7 bits (195), Expect = 3e-16, Method: Compositional matrix adjust.
Identities = 35/43 (81%), Positives = 39/43 (90%)
Query: 1 GIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGGM 43
GIPPDQQRLIF GKQLED ++DYN+QKESTLHLVLRLRGG+
Sbjct: 40 GIPPDQQRLIFGGKQLEDSNAMSDYNVQKESTLHLVLRLRGGV 82
>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 = 127 bits (319), Expect = 2e-30, Method: Compositional matrix adjust.
Identities = 63/67 (94%), Positives = 65/67 (97%)
Query: 43 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 102
MQIFVKTLTGKTITLEVE SDTI+NVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTL+DYN
Sbjct: 4 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 63
Query: 103 IQKESTL 109
IQK STL
Sbjct: 64 IQKWSTL 70
Score = 68.2 bits (165), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 31/33 (93%), Positives = 32/33 (96%)
Query: 1 GIPPDQQRLIFAGKQLEDGRTLADYNIQKESTL 33
GIPPDQQRLIFAGKQLEDGRTL+DYNIQK STL
Sbjct: 38 GIPPDQQRLIFAGKQLEDGRTLSDYNIQKWSTL 70
>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 = 127 bits (318), Expect = 2e-30, Method: Compositional matrix adjust.
Identities = 65/78 (83%), Positives = 68/78 (87%)
Query: 41 GGMQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLAD 100
G MQIFVK TGKT TLEVE SDTI+NVKAKIQDK GIPPDQQ LIFAGK+LEDGRTL+D
Sbjct: 1 GSMQIFVKFRTGKTYTLEVEPSDTIENVKAKIQDKLGIPPDQQWLIFAGKRLEDGRTLSD 60
Query: 101 YNIQKESTLHLVLRLRGG 118
YNIQKESTL V RLRGG
Sbjct: 61 YNIQKESTLRGVRRLRGG 78
Score = 75.5 bits (184), Expect = 7e-15, Method: Compositional matrix adjust.
Identities = 36/42 (85%), Positives = 38/42 (90%)
Query: 1 GIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 42
GIPPDQQ LIFAGK+LEDGRTL+DYNIQKESTL V RLRGG
Sbjct: 37 GIPPDQQWLIFAGKRLEDGRTLSDYNIQKESTLRGVRRLRGG 78
>pdb|3N3K|B Chain B, The Catalytic Domain Of Usp8 In Complex With A Usp8
Specific Inhibitor
Length = 85
Score = 112 bits (279), Expect = 7e-26, Method: Compositional matrix adjust.
Identities = 54/66 (81%), Positives = 58/66 (87%)
Query: 43 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 102
M+I VKTL G+TI LEVE SDTI+NVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTL+DYN
Sbjct: 4 MRIVVKTLMGRTIILEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN 63
Query: 103 IQKEST 108
I S
Sbjct: 64 IHNHSA 69
Score = 62.4 bits (150), Expect = 7e-11, Method: Compositional matrix adjust.
Identities = 27/32 (84%), Positives = 28/32 (87%)
Query: 1 GIPPDQQRLIFAGKQLEDGRTLADYNIQKEST 32
GIPPDQQRLIFAGKQLEDGRTL+DYNI S
Sbjct: 38 GIPPDQQRLIFAGKQLEDGRTLSDYNIHNHSA 69
>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 = 101 bits (251), Expect = 1e-22, Method: Compositional matrix adjust.
Identities = 50/53 (94%), Positives = 51/53 (96%)
Query: 41 GGMQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLE 93
G MQIFVKTLTGKTITLEVE SDTI+NVKAKIQDKEGIPPDQQRLIFAGKQLE
Sbjct: 1 GSMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLE 53
Score = 39.7 bits (91), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 17/17 (100%), Positives = 17/17 (100%)
Query: 1 GIPPDQQRLIFAGKQLE 17
GIPPDQQRLIFAGKQLE
Sbjct: 37 GIPPDQQRLIFAGKQLE 53
>pdb|1BT0|A Chain A, Structure Of Ubiquitin-Like Protein, Rub1
Length = 76
Score = 99.4 bits (246), Expect = 5e-22, Method: Compositional matrix adjust.
Identities = 48/76 (63%), Positives = 60/76 (78%)
Query: 43 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 102
M I VKTLTGK I +++E +DTID +K ++++KEGIPP QQRLI+AGKQL D +T DYN
Sbjct: 1 MLIKVKTLTGKEIEIDIEPTDTIDRIKERVEEKEGIPPVQQRLIYAGKQLADDKTAKDYN 60
Query: 103 IQKESTLHLVLRLRGG 118
I+ S LHLVL LRGG
Sbjct: 61 IEGGSVLHLVLALRGG 76
Score = 63.5 bits (153), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 30/42 (71%), Positives = 33/42 (78%)
Query: 1 GIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 42
GIPP QQRLI+AGKQL D +T DYNI+ S LHLVL LRGG
Sbjct: 35 GIPPVQQRLIYAGKQLADDKTAKDYNIEGGSVLHLVLALRGG 76
>pdb|3DBH|I Chain I, Structural Dissection Of A Gating Mechanism Preventing
Misactivation Of Ubiquitin By Nedd8's E1 (Appbp1-
Uba3arg190ala-Nedd8ala72arg)
pdb|3DBH|J Chain J, Structural Dissection Of A Gating Mechanism Preventing
Misactivation Of Ubiquitin By Nedd8's E1 (Appbp1-
Uba3arg190ala-Nedd8ala72arg)
pdb|3DBH|K Chain K, Structural Dissection Of A Gating Mechanism Preventing
Misactivation Of Ubiquitin By Nedd8's E1 (Appbp1-
Uba3arg190ala-Nedd8ala72arg)
pdb|3DBH|L Chain L, Structural Dissection Of A Gating Mechanism Preventing
Misactivation Of Ubiquitin By Nedd8's E1 (Appbp1-
Uba3arg190ala-Nedd8ala72arg)
pdb|3DBR|I Chain I, Structural Dissection Of A Gating Mechanism Preventing
Misactivation Of Ubiquitin By Nedd8's E1 (Appbp1-
Uba3arg190gln-Nedd8ala72arg)
pdb|3DBR|J Chain J, Structural Dissection Of A Gating Mechanism Preventing
Misactivation Of Ubiquitin By Nedd8's E1 (Appbp1-
Uba3arg190gln-Nedd8ala72arg)
pdb|3DBR|K Chain K, Structural Dissection Of A Gating Mechanism Preventing
Misactivation Of Ubiquitin By Nedd8's E1 (Appbp1-
Uba3arg190gln-Nedd8ala72arg)
pdb|3DBR|L Chain L, Structural Dissection Of A Gating Mechanism Preventing
Misactivation Of Ubiquitin By Nedd8's E1 (Appbp1-
Uba3arg190gln-Nedd8ala72arg)
Length = 88
Score = 96.7 bits (239), Expect = 3e-21, Method: Compositional matrix adjust.
Identities = 45/78 (57%), Positives = 60/78 (76%)
Query: 41 GGMQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLAD 100
G M I VKTLTGK I +++E +D ++ +K ++++KEGIPP QQRLI++GKQ+ D +T AD
Sbjct: 11 GSMLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDEKTAAD 70
Query: 101 YNIQKESTLHLVLRLRGG 118
Y I S LHLVLRLRGG
Sbjct: 71 YKILGGSVLHLVLRLRGG 88
Score = 63.2 bits (152), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 29/42 (69%), Positives = 33/42 (78%)
Query: 1 GIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 42
GIPP QQRLI++GKQ+ D +T ADY I S LHLVLRLRGG
Sbjct: 47 GIPPQQQRLIYSGKQMNDEKTAADYKILGGSVLHLVLRLRGG 88
>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 = 94.7 bits (234), Expect = 1e-20, Method: Compositional matrix adjust.
Identities = 44/78 (56%), Positives = 60/78 (76%)
Query: 41 GGMQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLAD 100
G M I VKTLTGK I +++E +D ++ +K ++++KEGIPP QQRLI++GKQ+ D +T AD
Sbjct: 11 GSMLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDEKTAAD 70
Query: 101 YNIQKESTLHLVLRLRGG 118
Y I S LHLVL+LRGG
Sbjct: 71 YKILGGSVLHLVLQLRGG 88
Score = 61.2 bits (147), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 28/42 (66%), Positives = 33/42 (78%)
Query: 1 GIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 42
GIPP QQRLI++GKQ+ D +T ADY I S LHLVL+LRGG
Sbjct: 47 GIPPQQQRLIYSGKQMNDEKTAADYKILGGSVLHLVLQLRGG 88
>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 = 94.0 bits (232), Expect = 2e-20, Method: Compositional matrix adjust.
Identities = 44/78 (56%), Positives = 59/78 (75%)
Query: 41 GGMQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLAD 100
G M I VKTLTGK I +++E +D ++ +K ++++KEGIPP QQRLI++GKQ+ D +T AD
Sbjct: 4 GSMLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDEKTAAD 63
Query: 101 YNIQKESTLHLVLRLRGG 118
Y I S LHLVL LRGG
Sbjct: 64 YKILGGSVLHLVLALRGG 81
Score = 60.5 bits (145), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 28/42 (66%), Positives = 32/42 (76%)
Query: 1 GIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 42
GIPP QQRLI++GKQ+ D +T ADY I S LHLVL LRGG
Sbjct: 40 GIPPQQQRLIYSGKQMNDEKTAADYKILGGSVLHLVLALRGG 81
>pdb|4HCP|B Chain B, Crystal Structure Of Burkholderia Pseudomallei Effector
Protein Chbp In Complex With Nedd8
Length = 78
Score = 92.8 bits (229), Expect = 5e-20, Method: Compositional matrix adjust.
Identities = 43/78 (55%), Positives = 58/78 (74%)
Query: 41 GGMQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLAD 100
M I VKTLTGK I +++E +D ++ +K ++++KEGIPP QQRLI++GKQ+ D +T AD
Sbjct: 1 AAMLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDEKTAAD 60
Query: 101 YNIQKESTLHLVLRLRGG 118
Y I S LHLVL LRGG
Sbjct: 61 YKILGGSVLHLVLALRGG 78
Score = 60.8 bits (146), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 28/42 (66%), Positives = 32/42 (76%)
Query: 1 GIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 42
GIPP QQRLI++GKQ+ D +T ADY I S LHLVL LRGG
Sbjct: 37 GIPPQQQRLIYSGKQMNDEKTAADYKILGGSVLHLVLALRGG 78
>pdb|2BKR|B Chain B, Nedd8 Nedp1 Complex
Length = 77
Score = 92.0 bits (227), Expect = 7e-20, Method: Compositional matrix adjust.
Identities = 43/76 (56%), Positives = 58/76 (76%)
Query: 43 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 102
M I VKTLTGK I +++E +D ++ +K ++++KEGIPP QQRLI++GKQ+ D +T ADY
Sbjct: 2 MLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDEKTAADYK 61
Query: 103 IQKESTLHLVLRLRGG 118
I S LHLVL LRGG
Sbjct: 62 ILGGSVLHLVLALRGG 77
Score = 60.8 bits (146), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 28/42 (66%), Positives = 32/42 (76%)
Query: 1 GIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 42
GIPP QQRLI++GKQ+ D +T ADY I S LHLVL LRGG
Sbjct: 36 GIPPQQQRLIYSGKQMNDEKTAADYKILGGSVLHLVLALRGG 77
>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 = 92.0 bits (227), Expect = 7e-20, Method: Compositional matrix adjust.
Identities = 43/76 (56%), Positives = 58/76 (76%)
Query: 43 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 102
M I VKTLTGK I +++E +D ++ +K ++++KEGIPP QQRLI++GKQ+ D +T ADY
Sbjct: 1 MLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDEKTAADYK 60
Query: 103 IQKESTLHLVLRLRGG 118
I S LHLVL LRGG
Sbjct: 61 ILGGSVLHLVLALRGG 76
Score = 60.5 bits (145), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 28/42 (66%), Positives = 32/42 (76%)
Query: 1 GIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 42
GIPP QQRLI++GKQ+ D +T ADY I S LHLVL LRGG
Sbjct: 35 GIPPQQQRLIYSGKQMNDEKTAADYKILGGSVLHLVLALRGG 76
>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 = 92.0 bits (227), Expect = 7e-20, Method: Compositional matrix adjust.
Identities = 43/76 (56%), Positives = 58/76 (76%)
Query: 43 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 102
M I VKTLTGK I +++E +D ++ +K ++++KEGIPP QQRLI++GKQ+ D +T ADY
Sbjct: 1 MLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDEKTAADYK 60
Query: 103 IQKESTLHLVLRLRGG 118
I S LHLVL LRGG
Sbjct: 61 ILGGSVLHLVLALRGG 76
Score = 60.5 bits (145), Expect = 3e-10, Method: Compositional matrix adjust.
Identities = 28/42 (66%), Positives = 32/42 (76%)
Query: 1 GIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 42
GIPP QQRLI++GKQ+ D +T ADY I S LHLVL LRGG
Sbjct: 35 GIPPQQQRLIYSGKQMNDEKTAADYKILGGSVLHLVLALRGG 76
>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 = 92.0 bits (227), Expect = 7e-20, Method: Compositional matrix adjust.
Identities = 43/76 (56%), Positives = 58/76 (76%)
Query: 43 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 102
M I VKTLTGK I +++E +D ++ +K ++++KEGIPP QQRLI++GKQ+ D +T ADY
Sbjct: 7 MLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDEKTAADYK 66
Query: 103 IQKESTLHLVLRLRGG 118
I S LHLVL LRGG
Sbjct: 67 ILGGSVLHLVLALRGG 82
Score = 60.5 bits (145), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 28/42 (66%), Positives = 32/42 (76%)
Query: 1 GIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 42
GIPP QQRLI++GKQ+ D +T ADY I S LHLVL LRGG
Sbjct: 41 GIPPQQQRLIYSGKQMNDEKTAADYKILGGSVLHLVLALRGG 82
>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 = 90.5 bits (223), Expect = 2e-19, Method: Compositional matrix adjust.
Identities = 43/78 (55%), Positives = 57/78 (73%)
Query: 41 GGMQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLAD 100
G I VKTLTGK I +++E +D ++ +K ++++KEGIPP QQRLI++GKQ D +T AD
Sbjct: 4 GSXLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQXNDEKTAAD 63
Query: 101 YNIQKESTLHLVLRLRGG 118
Y I S LHLVL LRGG
Sbjct: 64 YKIXGGSVLHLVLALRGG 81
Score = 60.1 bits (144), Expect = 3e-10, Method: Compositional matrix adjust.
Identities = 28/42 (66%), Positives = 31/42 (73%)
Query: 1 GIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 42
GIPP QQRLI++GKQ D +T ADY I S LHLVL LRGG
Sbjct: 40 GIPPQQQRLIYSGKQXNDEKTAADYKIXGGSVLHLVLALRGG 81
>pdb|2DZI|A Chain A, 2dziSOLUTION STRUCTURE OF THE N-Terminal Ubiquitin-Like
Domain In Human Ubiquitin-Like Protein 4a (Gdx)
Length = 81
Score = 63.9 bits (154), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 30/73 (41%), Positives = 47/73 (64%)
Query: 42 GMQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADY 101
GMQ+ VK L G+ +L+V + + +K + +K +P QQRL+F GK L DG+ L+DY
Sbjct: 7 GMQLTVKALQGRECSLQVPEDELVSTLKQLVSEKLNVPVRQQRLLFKGKALADGKRLSDY 66
Query: 102 NIQKESTLHLVLR 114
+I S L+LV++
Sbjct: 67 SIGPNSKLNLVVK 79
Score = 43.5 bits (101), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 19/37 (51%), Positives = 27/37 (72%)
Query: 2 IPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLR 38
+P QQRL+F GK L DG+ L+DY+I S L+LV++
Sbjct: 43 VPVRQQRLLFKGKALADGKRLSDYSIGPNSKLNLVVK 79
>pdb|3SDL|C Chain C, Crystal Structure Of Human Isg15 In Complex With Ns1
N-Terminal Region From Influenza B Virus, Northeast
Structural Genomics Consortium Target Ids Hx6481,
Hr2873, And Or2
pdb|3SDL|D Chain D, Crystal Structure Of Human Isg15 In Complex With Ns1
N-Terminal Region From Influenza B Virus, Northeast
Structural Genomics Consortium Target Ids Hx6481,
Hr2873, And Or2
Length = 164
Score = 58.9 bits (141), Expect = 7e-10, Method: Compositional matrix adjust.
Identities = 42/121 (34%), Positives = 65/121 (53%), Gaps = 3/121 (2%)
Query: 1 GIPPDQQRLIF--AGKQLEDGRTLADYNIQKESTLHLVL-RLRGGMQIFVKTLTGKTITL 57
G+ QQRL +G L+D LA + ST+ LV+ + + I V+ G++ T
Sbjct: 44 GVHAFQQRLAVHPSGVALQDRVPLASQGLGPGSTVLLVVDKCDEPLSILVRNNKGRSSTY 103
Query: 58 EVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRG 117
EV + T+ ++K ++ EG+ D L F GK LED L +Y ++ ST+ + LRLRG
Sbjct: 104 EVRLTQTVAHLKQQVSGLEGVQDDLFWLTFEGKPLEDQLPLGEYGLKPLSTVFMNLRLRG 163
Query: 118 G 118
G
Sbjct: 164 G 164
>pdb|3R66|C Chain C, Crystal Structure Of Human Isg15 In Complex With Ns1
N-Terminal Region From Influenza Virus B, Northeast
Structural Genomics Consortium Target Ids Hx6481,
Hr2873, And Or2
pdb|3R66|D Chain D, Crystal Structure Of Human Isg15 In Complex With Ns1
N-Terminal Region From Influenza Virus B, Northeast
Structural Genomics Consortium Target Ids Hx6481,
Hr2873, And Or2
Length = 164
Score = 58.2 bits (139), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 42/121 (34%), Positives = 65/121 (53%), Gaps = 3/121 (2%)
Query: 1 GIPPDQQRLIF--AGKQLEDGRTLADYNIQKESTLHLVL-RLRGGMQIFVKTLTGKTITL 57
G+ QQRL +G L+D LA + ST+ LV+ + + I V+ G++ T
Sbjct: 44 GVHAFQQRLAVHPSGVALQDRVPLASQGLGPGSTVLLVVDKXDEPLSILVRNNKGRSSTY 103
Query: 58 EVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRG 117
EV + T+ ++K ++ EG+ D L F GK LED L +Y ++ ST+ + LRLRG
Sbjct: 104 EVRLTQTVAHLKQQVSGLEGVQDDLFWLTFEGKPLEDQLPLGEYGLKPLSTVFMNLRLRG 163
Query: 118 G 118
G
Sbjct: 164 G 164
>pdb|3RT3|B Chain B, Complex Of Influenza Virus Protein With Host Anti-Viral
Factor
Length = 159
Score = 57.8 bits (138), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 42/121 (34%), Positives = 65/121 (53%), Gaps = 3/121 (2%)
Query: 1 GIPPDQQRLIF--AGKQLEDGRTLADYNIQKESTLHLVL-RLRGGMQIFVKTLTGKTITL 57
G+ QQRL +G L+D LA + ST+ LV+ + + I V+ G++ T
Sbjct: 37 GVHAFQQRLAVHPSGVALQDRVPLASQGLGPGSTVLLVVDKSDEPLSILVRNNKGRSSTY 96
Query: 58 EVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRG 117
EV + T+ ++K ++ EG+ D L F GK LED L +Y ++ ST+ + LRLRG
Sbjct: 97 EVRLTQTVAHLKQQVSGLEGVQDDLFWLTFEGKPLEDQLPLGEYGLKPLSTVFMNLRLRG 156
Query: 118 G 118
G
Sbjct: 157 G 157
>pdb|2KNB|A Chain A, Solution Nmr Structure Of The Parkin Ubl Domain In Complex
With The Endophilin-A1 Sh3 Domain
Length = 81
Score = 56.6 bits (135), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 25/74 (33%), Positives = 49/74 (66%)
Query: 41 GGMQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLAD 100
G M +FV+ + +EV+S +I +K + ++G+P DQ R+IFAGK+L++ T+ +
Sbjct: 4 GSMIVFVRFNSSYGFPVEVDSDTSIFQLKEVVAKRQGVPADQLRVIFAGKELQNHLTVQN 63
Query: 101 YNIQKESTLHLVLR 114
+++++S +H+V R
Sbjct: 64 CDLEQQSIVHIVQR 77
Score = 41.2 bits (95), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 16/38 (42%), Positives = 30/38 (78%)
Query: 1 GIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLR 38
G+P DQ R+IFAGK+L++ T+ + +++++S +H+V R
Sbjct: 40 GVPADQLRVIFAGKELQNHLTVQNCDLEQQSIVHIVQR 77
>pdb|2ZEQ|A Chain A, Crystal Structure Of Ubiquitin-Like Domain Of Murine
Parkin
pdb|1MG8|A Chain A, Nmr Structure Of Ubiquitin-Like Domain In Murine Parkin
Length = 78
Score = 56.6 bits (135), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 26/75 (34%), Positives = 49/75 (65%)
Query: 42 GMQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADY 101
GM +FV+ + +EV+S +I +K + ++G+P DQ R+IFAGK+L + T+ +
Sbjct: 2 GMIVFVRFNSSYGFPVEVDSDTSILQLKEVVAKRQGVPADQLRVIFAGKELPNHLTVQNC 61
Query: 102 NIQKESTLHLVLRLR 116
+++++S +H+V R R
Sbjct: 62 DLEQQSIVHIVQRPR 76
Score = 41.2 bits (95), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 17/40 (42%), Positives = 30/40 (75%)
Query: 1 GIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLR 40
G+P DQ R+IFAGK+L + T+ + +++++S +H+V R R
Sbjct: 37 GVPADQLRVIFAGKELPNHLTVQNCDLEQQSIVHIVQRPR 76
>pdb|1IYF|A Chain A, Solution Structure Of Ubiquitin-Like Domain Of Human
Parkin
Length = 81
Score = 55.8 bits (133), Expect = 5e-09, Method: Compositional matrix adjust.
Identities = 25/74 (33%), Positives = 47/74 (63%)
Query: 41 GGMQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLAD 100
G M +FV+ + +EV+S +I +K + ++G+P DQ R+IFAGK+L + T+ +
Sbjct: 4 GSMIVFVRFNSSHGFPVEVDSDTSIFQLKEVVAKRQGVPADQLRVIFAGKELRNDWTVQN 63
Query: 101 YNIQKESTLHLVLR 114
++ ++S +H+V R
Sbjct: 64 CDLDQQSIVHIVQR 77
Score = 40.0 bits (92), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 16/38 (42%), Positives = 28/38 (73%)
Query: 1 GIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLR 38
G+P DQ R+IFAGK+L + T+ + ++ ++S +H+V R
Sbjct: 40 GVPADQLRVIFAGKELRNDWTVQNCDLDQQSIVHIVQR 77
>pdb|3PSE|B Chain B, Structure Of A Viral Otu Domain Protease Bound To
Interferon- Stimulated Gene 15 (Isg15)
Length = 156
Score = 55.5 bits (132), Expect = 7e-09, Method: Compositional matrix adjust.
Identities = 41/120 (34%), Positives = 64/120 (53%), Gaps = 3/120 (2%)
Query: 1 GIPPDQQRLIF--AGKQLEDGRTLADYNIQKESTLHLVL-RLRGGMQIFVKTLTGKTITL 57
G+ QQRL +G L+D LA + ST+ LV+ + + I V+ G++ T
Sbjct: 37 GVHAFQQRLAVHPSGVALQDRVPLASQGLGPGSTVLLVVDKSDEPLNILVRNNKGRSSTY 96
Query: 58 EVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRG 117
EV + T+ ++K ++ EG+ D L F GK LED L +Y ++ ST+ + LRLRG
Sbjct: 97 EVRLTQTVAHLKQQVSGLEGVQDDLFWLTFEGKPLEDQLPLGEYGLKPLSTVFMNLRLRG 156
>pdb|2L7R|A Chain A, Solution Nmr Structure Of N-Terminal Ubiquitin-Like Domain
Of Fubi, A Ribosomal Protein S30 Precursor From Homo
Sapiens. Northeast Structural Genomics Consortium (Nesg)
Target Hr6166
Length = 93
Score = 55.1 bits (131), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 29/79 (36%), Positives = 44/79 (55%), Gaps = 2/79 (2%)
Query: 40 RGGMQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLA 99
RG MQ+FV+ + T EV +T+ +KA + EGI P+ Q ++ AG LED TL
Sbjct: 17 RGSMQLFVRAQ--ELHTFEVTGQETVAQIKAHVASLEGIAPEDQVVLLAGAPLEDEATLG 74
Query: 100 DYNIQKESTLHLVLRLRGG 118
++ +TL + R+ GG
Sbjct: 75 QCGVEALTTLEVAGRMLGG 93
>pdb|3B1L|X Chain X, Crystal Structure Of Parkin Ubiquitin-Like Domain R33q
Mutant
Length = 76
Score = 53.5 bits (127), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 25/74 (33%), Positives = 48/74 (64%)
Query: 43 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 102
M +FV+ + +EV+S +I +K + ++G+P DQ R+IFAGK+L + T+ + +
Sbjct: 1 MIVFVRFNSSYGFPVEVDSDTSILQLKEVVAKQQGVPADQLRVIFAGKELPNHLTVQNCD 60
Query: 103 IQKESTLHLVLRLR 116
++++S +H+V R R
Sbjct: 61 LEQQSIVHIVQRPR 74
Score = 41.2 bits (95), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 17/40 (42%), Positives = 30/40 (75%)
Query: 1 GIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLR 40
G+P DQ R+IFAGK+L + T+ + +++++S +H+V R R
Sbjct: 35 GVPADQLRVIFAGKELPNHLTVQNCDLEQQSIVHIVQRPR 74
>pdb|1Z2M|A Chain A, Crystal Structure Of Isg15, The Interferon-Induced
Ubiquitin Cross Reactive Protein
Length = 155
Score = 53.1 bits (126), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 40/119 (33%), Positives = 63/119 (52%), Gaps = 3/119 (2%)
Query: 1 GIPPDQQRLIF--AGKQLEDGRTLADYNIQKESTLHLVL-RLRGGMQIFVKTLTGKTITL 57
G+ QQRL +G L+D LA + ST+ LV+ + + I V+ G++ T
Sbjct: 37 GVHAFQQRLAVHPSGVALQDRVPLASQGLGPGSTVLLVVDKSDEPLSILVRNNKGRSSTY 96
Query: 58 EVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLR 116
EV + T+ ++K ++ EG+ D L F GK LED L +Y ++ ST+ + LRLR
Sbjct: 97 EVRLTQTVAHLKQQVSGLEGVQDDLFWLTFEGKPLEDQLPLGEYGLKPLSTVFMNLRLR 155
>pdb|2FAZ|A Chain A, Ubiquitin-Like Domain Of Human Nuclear Zinc Finger Protein
Np95
pdb|2FAZ|B Chain B, Ubiquitin-Like Domain Of Human Nuclear Zinc Finger Protein
Np95
Length = 78
Score = 52.4 bits (124), Expect = 6e-08, Method: Compositional matrix adjust.
Identities = 30/76 (39%), Positives = 48/76 (63%), Gaps = 2/76 (2%)
Query: 41 GGMQIFVKTLTGK-TITLEVESSDT-IDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTL 98
G M I V+T+ G+ T T++ S T ++ ++ KIQ+ + P QRL + GKQ+EDG TL
Sbjct: 1 GSMWIQVRTMDGRQTHTVDSLSRLTKVEELRRKIQELFHVEPGLQRLFYRGKQMEDGHTL 60
Query: 99 ADYNIQKESTLHLVLR 114
DY ++ T+ L++R
Sbjct: 61 FDYEVRLNDTIQLLVR 76
Score = 40.8 bits (94), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 17/37 (45%), Positives = 25/37 (67%)
Query: 2 IPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLR 38
+ P QRL + GKQ+EDG TL DY ++ T+ L++R
Sbjct: 40 VEPGLQRLFYRGKQMEDGHTLFDYEVRLNDTIQLLVR 76
>pdb|2HJ8|A Chain A, Solution Nmr Structure Of The C-Terminal Domain Of The
Interferon Alpha-Inducible Isg15 Protein From Homo
Sapiens. Northeast Structural Genomics Target Hr2873b
Length = 88
Score = 52.0 bits (123), Expect = 8e-08, Method: Compositional matrix adjust.
Identities = 28/76 (36%), Positives = 44/76 (57%)
Query: 43 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 102
+ I V+ G++ T EV + T+ ++K ++ EG+ D L F GK LED L +Y
Sbjct: 5 LSILVRNNKGRSSTYEVRLTQTVAHLKQQVSGLEGVQDDLFWLTFEGKPLEDQLPLGEYG 64
Query: 103 IQKESTLHLVLRLRGG 118
++ ST+ + LRLRGG
Sbjct: 65 LKPLSTVFMNLRLRGG 80
Score = 37.0 bits (84), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 19/44 (43%), Positives = 27/44 (61%)
Query: 1 GIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGGMQ 44
G+ D L F GK LED L +Y ++ ST+ + LRLRGG++
Sbjct: 39 GVQDDLFWLTFEGKPLEDQLPLGEYGLKPLSTVFMNLRLRGGLE 82
>pdb|1WY8|A Chain A, Solution Structure Of The N-Terminal Ubiquitin-Like Domain
In Human Np95ICBP90-Like Ring Finger Protein (Nirf)
Length = 89
Score = 51.2 bits (121), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 29/75 (38%), Positives = 46/75 (61%), Gaps = 2/75 (2%)
Query: 42 GMQIFVKTLTG-KTITLE-VESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLA 99
GM I V+T+ G KT T+E V TI+ ++ ++ + P+ QRL + GKQLE+G TL
Sbjct: 7 GMWIQVRTIDGSKTCTIEDVSRKATIEELRERVWALFDVRPECQRLFYRGKQLENGYTLF 66
Query: 100 DYNIQKESTLHLVLR 114
DY++ + L++R
Sbjct: 67 DYDVGLNDIIQLLVR 81
Score = 38.1 bits (87), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 16/37 (43%), Positives = 25/37 (67%)
Query: 2 IPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLR 38
+ P+ QRL + GKQLE+G TL DY++ + L++R
Sbjct: 45 VRPECQRLFYRGKQLENGYTLFDYDVGLNDIIQLLVR 81
>pdb|3PHX|B Chain B, Otu Domain Of Crimean Congo Hemorrhagic Fever Virus In
Complex With Isg15
Length = 79
Score = 50.1 bits (118), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 27/75 (36%), Positives = 43/75 (57%)
Query: 43 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 102
+ I V+ G++ T EV + T+ ++K ++ EG+ D L F GK LED L +Y
Sbjct: 5 LSILVRNNKGRSSTYEVRLTQTVAHLKQQVSGLEGVQDDLFWLTFEGKPLEDQLPLGEYG 64
Query: 103 IQKESTLHLVLRLRG 117
++ ST+ + LRLRG
Sbjct: 65 LKPLSTVFMNLRLRG 79
Score = 33.5 bits (75), Expect = 0.031, Method: Compositional matrix adjust.
Identities = 18/41 (43%), Positives = 24/41 (58%)
Query: 1 GIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRG 41
G+ D L F GK LED L +Y ++ ST+ + LRLRG
Sbjct: 39 GVQDDLFWLTFEGKPLEDQLPLGEYGLKPLSTVFMNLRLRG 79
>pdb|3M63|B Chain B, Crystal Structure Of Ufd2 In Complex With The
Ubiquitin-Like (Ubl) Domain Of Dsk2
Length = 101
Score = 49.3 bits (116), Expect = 5e-07, Method: Compositional matrix adjust.
Identities = 29/92 (31%), Positives = 48/92 (52%), Gaps = 5/92 (5%)
Query: 22 LADYNIQKESTLHLVLRLRGGMQIFVKTLTGK-TITLEVESSDTIDNVKAKIQDKEGIPP 80
++DY+I L+ +G M + + +G+ + V T+ K I GIP
Sbjct: 10 MSDYDIPTTENLYF----QGAMSLNIHIKSGQDKWEVNVAPESTVLQFKEAINKANGIPV 65
Query: 81 DQQRLIFAGKQLEDGRTLADYNIQKESTLHLV 112
QRLI++GK L+D +T+ Y+IQ ++HLV
Sbjct: 66 ANQRLIYSGKILKDDQTVESYHIQDGHSVHLV 97
Score = 40.0 bits (92), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 18/36 (50%), Positives = 26/36 (72%)
Query: 1 GIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLV 36
GIP QRLI++GK L+D +T+ Y+IQ ++HLV
Sbjct: 62 GIPVANQRLIYSGKILKDDQTVESYHIQDGHSVHLV 97
>pdb|1WH3|A Chain A, Solution Structure Of C-Terminal Ubiquitin Like Domain Of
Human 2'-5'-Oligoadenylate Synthetase-Like Protain (P59
Oasl)
Length = 87
Score = 48.9 bits (115), Expect = 8e-07, Method: Compositional matrix adjust.
Identities = 26/70 (37%), Positives = 40/70 (57%)
Query: 42 GMQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADY 101
G+Q+FVK G + + + I +K +I+D++G+P QQ+L F G+ L+D L Y
Sbjct: 7 GIQVFVKNPDGGSYAYAINPNSFILGLKQQIEDQQGLPKKQQQLEFQGQVLQDWLGLGIY 66
Query: 102 NIQKESTLHL 111
IQ TL L
Sbjct: 67 GIQDSDTLIL 76
Score = 28.9 bits (63), Expect = 0.77, Method: Compositional matrix adjust.
Identities = 16/35 (45%), Positives = 20/35 (57%)
Query: 1 GIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHL 35
G+P QQ+L F G+ L+D L Y IQ TL L
Sbjct: 42 GLPKKQQQLEFQGQVLQDWLGLGIYGIQDSDTLIL 76
>pdb|1WX9|A Chain A, Solution Structure Of The N-Terminal Ubiquitin-Like Domain
In The Human Bat3 Protein
Length = 86
Score = 48.5 bits (114), Expect = 9e-07, Method: Compositional matrix adjust.
Identities = 27/77 (35%), Positives = 43/77 (55%), Gaps = 1/77 (1%)
Query: 42 GMQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADY 101
G+++ VKTL +T T V + + K I IP ++QRLI+ G+ L+D + L +Y
Sbjct: 7 GLEVLVKTLDSQTRTFIVGAQMNVKEFKEHIAASVSIPSEKQRLIYQGRVLQDDKKLQEY 66
Query: 102 NIQKESTLHLVLRLRGG 118
N+ + +HLV R G
Sbjct: 67 NVGGK-VIHLVERAPSG 82
Score = 35.8 bits (81), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 17/41 (41%), Positives = 27/41 (65%), Gaps = 1/41 (2%)
Query: 2 IPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 42
IP ++QRLI+ G+ L+D + L +YN+ + +HLV R G
Sbjct: 43 IPSEKQRLIYQGRVLQDDKKLQEYNVGGK-VIHLVERAPSG 82
>pdb|1ZKH|A Chain A, Solution Structure Of A Human Ubiquitin-Like Domain In
Sf3a1
Length = 86
Score = 48.5 bits (114), Expect = 9e-07, Method: Compositional matrix adjust.
Identities = 21/68 (30%), Positives = 39/68 (57%)
Query: 50 LTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTL 109
L G+ + + +D + +K KI + G+P +Q+L + G ++D +LA YN+ + +
Sbjct: 19 LNGQVLVFTLPLTDQVSVIKVKIHEATGMPAGKQKLQYEGIFIKDSNSLAYYNMANGAVI 78
Query: 110 HLVLRLRG 117
HL L+ RG
Sbjct: 79 HLALKERG 86
Score = 36.6 bits (83), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 15/41 (36%), Positives = 26/41 (63%)
Query: 1 GIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRG 41
G+P +Q+L + G ++D +LA YN+ + +HL L+ RG
Sbjct: 46 GMPAGKQKLQYEGIFIKDSNSLAYYNMANGAVIHLALKERG 86
>pdb|1WE7|A Chain A, Solution Structure Of Ubiquitin-Like Domain In Sf3a120
Length = 115
Score = 47.0 bits (110), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 21/69 (30%), Positives = 39/69 (56%)
Query: 50 LTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTL 109
L G+ + + +D + +K KI + G+P +Q+L + G ++D +LA YN+ + +
Sbjct: 43 LNGQGLVFTLPLTDQVSVIKVKIHEATGMPAGKQKLQYEGIFIKDSNSLAYYNMASGAVI 102
Query: 110 HLVLRLRGG 118
HL L+ R G
Sbjct: 103 HLALKERSG 111
Score = 36.2 bits (82), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 15/42 (35%), Positives = 26/42 (61%)
Query: 1 GIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 42
G+P +Q+L + G ++D +LA YN+ + +HL L+ R G
Sbjct: 70 GMPAGKQKLQYEGIFIKDSNSLAYYNMASGAVIHLALKERSG 111
>pdb|4DWF|A Chain A, Crystal Structure Of A Hla-B Associated Transcript 3
(Bat3) From Homo Sapiens At 1.80 A Resolution
pdb|4DWF|B Chain B, Crystal Structure Of A Hla-B Associated Transcript 3
(Bat3) From Homo Sapiens At 1.80 A Resolution
Length = 90
Score = 45.8 bits (107), Expect = 6e-06, Method: Compositional matrix adjust.
Identities = 25/72 (34%), Positives = 41/72 (56%), Gaps = 1/72 (1%)
Query: 43 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 102
+++ VKTL +T T V + + K I IP ++QRLI+ G+ L+D + L +YN
Sbjct: 6 LEVLVKTLDSQTRTFIVGAQXNVKEFKEHIAASVSIPSEKQRLIYQGRVLQDDKKLQEYN 65
Query: 103 IQKESTLHLVLR 114
+ + +HLV R
Sbjct: 66 VGGK-VIHLVER 76
Score = 34.3 bits (77), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 16/37 (43%), Positives = 26/37 (70%), Gaps = 1/37 (2%)
Query: 2 IPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLR 38
IP ++QRLI+ G+ L+D + L +YN+ + +HLV R
Sbjct: 41 IPSEKQRLIYQGRVLQDDKKLQEYNVGGK-VIHLVER 76
>pdb|4EEW|A Chain A, Crystal Structure Of The Ubl Domain Of Bag6
pdb|4EEW|B Chain B, Crystal Structure Of The Ubl Domain Of Bag6
Length = 88
Score = 45.1 bits (105), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 25/73 (34%), Positives = 41/73 (56%), Gaps = 1/73 (1%)
Query: 42 GMQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADY 101
+++ VKTL +T T V + + K I IP ++QRLI+ G+ L+D + L +Y
Sbjct: 17 SLEVLVKTLDSQTRTFIVGAQMNVKEFKEHIAASVSIPSEKQRLIYQGRVLQDDKKLQEY 76
Query: 102 NIQKESTLHLVLR 114
N+ + +HLV R
Sbjct: 77 NVGGK-VIHLVER 88
Score = 34.7 bits (78), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 16/38 (42%), Positives = 26/38 (68%), Gaps = 1/38 (2%)
Query: 1 GIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLR 38
IP ++QRLI+ G+ L+D + L +YN+ + +HLV R
Sbjct: 52 SIPSEKQRLIYQGRVLQDDKKLQEYNVGGK-VIHLVER 88
>pdb|1TTN|A Chain A, Solution Structure Of The Ubiquitin-Like Domain Of Human
Dc- Ubp From Dendritic Cells
Length = 106
Score = 44.3 bits (103), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 21/71 (29%), Positives = 40/71 (56%)
Query: 43 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 102
Q+ ++ TGK + L V S+DT+ ++K ++ EG+ P QR F+G+ L D +
Sbjct: 24 CQLRLRLSTGKDLKLVVRSTDTVFHMKRRLHAAEGVEPGSQRWFFSGRPLTDKMKFEELK 83
Query: 103 IQKESTLHLVL 113
I K+ + +++
Sbjct: 84 IPKDYVVQVIV 94
>pdb|2BWE|S Chain S, The Crystal Structure Of The Complex Between The Uba And
Ubl Domains Of Dsk2
pdb|2BWE|T Chain T, The Crystal Structure Of The Complex Between The Uba And
Ubl Domains Of Dsk2
pdb|2BWE|U Chain U, The Crystal Structure Of The Complex Between The Uba And
Ubl Domains Of Dsk2
pdb|2BWF|A Chain A, Crystal Sturcture Of The Ubl Domain Of Dsk2 From S.
Cerevisiae
pdb|2BWF|B Chain B, Crystal Sturcture Of The Ubl Domain Of Dsk2 From S.
Cerevisiae
Length = 77
Score = 43.5 bits (101), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 22/56 (39%), Positives = 32/56 (57%)
Query: 57 LEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLV 112
+ V T+ K I GIP QRLI++GK L+D +T+ Y+IQ ++HLV
Sbjct: 18 VNVAPESTVLQFKEAINKANGIPVANQRLIYSGKILKDDQTVESYHIQDGHSVHLV 73
Score = 40.4 bits (93), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 18/36 (50%), Positives = 26/36 (72%)
Query: 1 GIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLV 36
GIP QRLI++GK L+D +T+ Y+IQ ++HLV
Sbjct: 38 GIPVANQRLIYSGKILKDDQTVESYHIQDGHSVHLV 73
>pdb|1P1A|A Chain A, Nmr Structure Of Ubiquitin-Like Domain Of Hhr23b
Length = 85
Score = 42.7 bits (99), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 23/64 (35%), Positives = 39/64 (60%), Gaps = 3/64 (4%)
Query: 43 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEG---IPPDQQRLIFAGKQLEDGRTLA 99
MQ+ +KTL +T ++++ +T+ +K KI+ ++G P Q+LI+AGK L D L
Sbjct: 4 MQVTLKTLQQQTFKIDIDPEETVKALKEKIESEKGKDAFPVAGQKLIYAGKILNDDTALK 63
Query: 100 DYNI 103
+Y I
Sbjct: 64 EYKI 67
Score = 26.9 bits (58), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 12/27 (44%), Positives = 15/27 (55%)
Query: 1 GIPPDQQRLIFAGKQLEDGRTLADYNI 27
P Q+LI+AGK L D L +Y I
Sbjct: 41 AFPVAGQKLIYAGKILNDDTALKEYKI 67
>pdb|1UEL|A Chain A, Solution Structure Of Ubiquitin-Like Domain Of Hhr23b
Complexed With Ubiquitin-Interacting Motif Of Proteasome
Subunit S5a
Length = 95
Score = 42.4 bits (98), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 23/64 (35%), Positives = 38/64 (59%), Gaps = 3/64 (4%)
Query: 43 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQD---KEGIPPDQQRLIFAGKQLEDGRTLA 99
MQ+ +KTL +T ++++ +T+ +K KI+ K+ P Q+LI+AGK L D L
Sbjct: 1 MQVTLKTLQQQTFKIDIDPEETVKALKEKIESEKGKDAFPVAGQKLIYAGKILNDDTALK 60
Query: 100 DYNI 103
+Y I
Sbjct: 61 EYKI 64
Score = 26.6 bits (57), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 12/27 (44%), Positives = 15/27 (55%)
Query: 1 GIPPDQQRLIFAGKQLEDGRTLADYNI 27
P Q+LI+AGK L D L +Y I
Sbjct: 38 AFPVAGQKLIYAGKILNDDTALKEYKI 64
>pdb|2WYQ|A Chain A, The Crystal Structure Of The Ubiquitin-Like (Ubl) Domain
Of Hhr23a (Human Homologue A Of Rad23)
Length = 85
Score = 40.0 bits (92), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 26/81 (32%), Positives = 45/81 (55%), Gaps = 4/81 (4%)
Query: 42 GMQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEG---IPPDQQRLIFAGKQLEDGRTL 98
+ I +KTL +T + +E +T+ +K KI+ ++G P Q+LI+AGK L D +
Sbjct: 5 AVTITLKTLQQQTFKIRMEPDETVKVLKEKIEAEKGRDAFPVAGQKLIYAGKILSDDVPI 64
Query: 99 ADYNI-QKESTLHLVLRLRGG 118
DY I +K + +V + + G
Sbjct: 65 RDYRIDEKNFVVVMVTKTKAG 85
Score = 28.5 bits (62), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 15/43 (34%), Positives = 23/43 (53%), Gaps = 1/43 (2%)
Query: 1 GIPPDQQRLIFAGKQLEDGRTLADYNI-QKESTLHLVLRLRGG 42
P Q+LI+AGK L D + DY I +K + +V + + G
Sbjct: 43 AFPVAGQKLIYAGKILSDDVPIRDYRIDEKNFVVVMVTKTKAG 85
>pdb|3ZEY|9 Chain 9, High-resolution Cryo-electron Microscopy Structure Of The
Trypanosoma Brucei Ribosome
Length = 153
Score = 39.7 bits (91), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 22/72 (30%), Positives = 40/72 (55%), Gaps = 5/72 (6%)
Query: 43 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQL-EDGRTLADY 101
MQ+F+++ TG T +E ++DT+ ++A K G F G L E+ TLA+
Sbjct: 1 MQLFLRSATGATSVVEASAADTVGTLRA----KAGFDDTSSIFFFGGFCLREESATLAEC 56
Query: 102 NIQKESTLHLVL 113
+Q+ ST+ +++
Sbjct: 57 GLQQGSTVQVMI 68
>pdb|1OQY|A Chain A, Structure Of The Dna Repair Protein Hhr23a
pdb|1QZE|A Chain A, Hhr23a Protein Structure Based On Residual Dipolar
Coupling Data
Length = 368
Score = 39.3 bits (90), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 26/83 (31%), Positives = 46/83 (55%), Gaps = 4/83 (4%)
Query: 41 GGMQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEG---IPPDQQRLIFAGKQLEDGRT 97
+ I +KTL +T + +E +T+ +K KI+ ++G P Q+LI+AGK L D
Sbjct: 6 SAVTITLKTLQQQTFKIRMEPDETVKVLKEKIEAEKGRDAFPVAGQKLIYAGKILSDDVP 65
Query: 98 LADYNI-QKESTLHLVLRLRGGE 119
+ DY I +K + +V + + G+
Sbjct: 66 IRDYRIDEKNFVVVMVTKTKAGQ 88
Score = 27.7 bits (60), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 17/57 (29%), Positives = 26/57 (45%), Gaps = 1/57 (1%)
Query: 7 QRLIFAGKQLEDGRTLADYNI-QKESTLHLVLRLRGGMQIFVKTLTGKTITLEVESS 62
Q+LI+AGK L D + DY I +K + +V + + G T E +S
Sbjct: 51 QKLIYAGKILSDDVPIRDYRIDEKNFVVVMVTKTKAGQGTSAPPEASPTAAPESSTS 107
>pdb|1YQB|A Chain A, Human Ubiquilin 3
Length = 100
Score = 39.3 bits (90), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 26/72 (36%), Positives = 40/72 (55%), Gaps = 1/72 (1%)
Query: 43 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 102
+++ VKT K V + TI +K +I + PDQ LIFAGK L+D +LA
Sbjct: 23 IKVTVKTPKDKE-DFSVTDTCTIQQLKEEISQRFKAHPDQLVLIFAGKILKDPDSLAQCG 81
Query: 103 IQKESTLHLVLR 114
++ T+HLV++
Sbjct: 82 VRDGLTVHLVIK 93
Score = 35.0 bits (79), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 17/35 (48%), Positives = 24/35 (68%)
Query: 4 PDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLR 38
PDQ LIFAGK L+D +LA ++ T+HLV++
Sbjct: 59 PDQLVLIFAGKILKDPDSLAQCGVRDGLTVHLVIK 93
>pdb|1WX7|A Chain A, Solution Structure Of The N-Terminal Ubiquitin-Like Domain
In The Human Ubiquilin 3 (Ubqln3)
Length = 106
Score = 38.9 bits (89), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 26/72 (36%), Positives = 40/72 (55%), Gaps = 1/72 (1%)
Query: 43 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 102
+++ VKT K V + TI +K +I + PDQ LIFAGK L+D +LA
Sbjct: 18 IKVTVKTPKDKE-DFSVTDTCTIQQLKEEISQRFKAHPDQLVLIFAGKILKDPDSLAQCG 76
Query: 103 IQKESTLHLVLR 114
++ T+HLV++
Sbjct: 77 VRDGLTVHLVIK 88
Score = 35.0 bits (79), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 17/35 (48%), Positives = 24/35 (68%)
Query: 4 PDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLR 38
PDQ LIFAGK L+D +LA ++ T+HLV++
Sbjct: 54 PDQLVLIFAGKILKDPDSLAQCGVRDGLTVHLVIK 88
>pdb|1P98|A Chain A, High-Resolution Nmr Structure Of The Ubl-Domain Of Hhr23a
pdb|1P9D|U Chain U, High-Resolution Structure Of The Complex Of Hhr23a
Ubiquitin-Like Domain And The C-Terminal Ubiquitin-
Interacting Motif Of Proteasome Subunit S5a
Length = 78
Score = 38.1 bits (87), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 23/75 (30%), Positives = 44/75 (58%), Gaps = 3/75 (4%)
Query: 42 GMQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEG---IPPDQQRLIFAGKQLEDGRTL 98
+ I +KTL +T + +E +T+ +K KI+ ++G P Q+LI+AGK L D +
Sbjct: 2 AVTITLKTLQQQTFKIRMEPDETVKVLKEKIEAEKGRDAFPVAGQKLIYAGKILSDDVPI 61
Query: 99 ADYNIQKESTLHLVL 113
DY I +++ + +++
Sbjct: 62 RDYRIDEKNFVVVMV 76
Score = 26.6 bits (57), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 12/37 (32%), Positives = 22/37 (59%)
Query: 1 GIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVL 37
P Q+LI+AGK L D + DY I +++ + +++
Sbjct: 40 AFPVAGQKLIYAGKILSDDVPIRDYRIDEKNFVVVMV 76
>pdb|2KD0|A Chain A, Nmr Solution Structure Of O64736 Protein From Arabidopsis
Thaliana. Northeast Structural Genomics Consortium Mega
Target Ar3445a
Length = 85
Score = 37.0 bits (84), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 20/61 (32%), Positives = 34/61 (55%)
Query: 52 GKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHL 111
GK+I L V T+ ++K+++Q + P Q+LIF GK L + TL ++ + L L
Sbjct: 21 GKSIPLSVSPDCTVKDLKSQLQPITNVLPRGQKLIFKGKVLVETSTLKQSDVGSGAKLML 80
Query: 112 V 112
+
Sbjct: 81 M 81
>pdb|2KLC|A Chain A, Nmr Solution Structure Of Human Ubiquitin-Like Domain Of
Ubiquilin 1, Northeast Structural Genomics Consortium
(Nesg) Target Ht5a
Length = 101
Score = 36.2 bits (82), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 25/72 (34%), Positives = 38/72 (52%), Gaps = 1/72 (1%)
Query: 43 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN 102
M++ VKT K V + ++ K +I + DQ LIFAGK L+D TL+ +
Sbjct: 26 MKVTVKTPKEKE-EFAVPENSSVQQFKEEISKRFKSHTDQLVLIFAGKILKDQDTLSQHG 84
Query: 103 IQKESTLHLVLR 114
I T+HLV++
Sbjct: 85 IHDGLTVHLVIK 96
Score = 33.1 bits (74), Expect = 0.046, Method: Compositional matrix adjust.
Identities = 17/34 (50%), Positives = 23/34 (67%)
Query: 5 DQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLR 38
DQ LIFAGK L+D TL+ + I T+HLV++
Sbjct: 63 DQLVLIFAGKILKDQDTLSQHGIHDGLTVHLVIK 96
>pdb|1WE6|A Chain A, Solution Structure Of Ubiquitin-Like Domain In Splicing
Factor Aal91182
Length = 111
Score = 35.4 bits (80), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 23/68 (33%), Positives = 38/68 (55%), Gaps = 1/68 (1%)
Query: 52 GKTITLEVES-SDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLH 110
G+ + + V+S S+ + ++K KI + IP ++Q+L L+D +LA YN+ L
Sbjct: 40 GQFMEITVQSLSENVGSLKEKIAGEIQIPANKQKLSGKAGFLKDNMSLAHYNVGAGEILT 99
Query: 111 LVLRLRGG 118
L LR R G
Sbjct: 100 LSLRERSG 107
Score = 30.0 bits (66), Expect = 0.39, Method: Compositional matrix adjust.
Identities = 16/41 (39%), Positives = 22/41 (53%)
Query: 2 IPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 42
IP ++Q+L L+D +LA YN+ L L LR R G
Sbjct: 67 IPANKQKLSGKAGFLKDNMSLAHYNVGAGEILTLSLRERSG 107
>pdb|2KK8|A Chain A, Nmr Solution Structure Of A Putative Uncharacterized
Protein Obtained From Arabidopsis Thaliana: Northeast
Structural Genomics Consortium Target Ar3449a
Length = 84
Score = 35.0 bits (79), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 19/47 (40%), Positives = 27/47 (57%)
Query: 43 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAG 89
M+ V+ L G + LEV+ DT+ VK KI+ + IP +Q LI G
Sbjct: 11 MKFLVENLNGSSFELEVDYRDTLLVVKQKIERSQHIPVSKQTLIVDG 57
>pdb|1X1M|A Chain A, Solution Structure Of The N-Terminal Ubiquitin-Like Domain
In Mouse Ubiquitin-Like Protein Sb132
Length = 107
Score = 33.5 bits (75), Expect = 0.031, Method: Compositional matrix adjust.
Identities = 19/52 (36%), Positives = 32/52 (61%), Gaps = 3/52 (5%)
Query: 68 VKAKIQDKEGIP-PDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 118
+ K+Q E +P P+ LI+ G++L+D +TL Y IQ ST+H++ + G
Sbjct: 54 IAGKLQ--ESVPDPELIDLIYCGRKLKDDQTLDFYGIQPGSTVHVLRKSWSG 103
Score = 32.0 bits (71), Expect = 0.086, Method: Compositional matrix adjust.
Identities = 15/39 (38%), Positives = 25/39 (64%)
Query: 4 PDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 42
P+ LI+ G++L+D +TL Y IQ ST+H++ + G
Sbjct: 65 PELIDLIYCGRKLKDDQTLDFYGIQPGSTVHVLRKSWSG 103
>pdb|1E0Q|A Chain A, Mutant Peptide From The First N-Terminal 17 Amino-Acid
Of Ubiquitin
Length = 17
Score = 32.7 bits (73), Expect = 0.059, Method: Compositional matrix adjust.
Identities = 16/17 (94%), Positives = 16/17 (94%)
Query: 43 MQIFVKTLTGKTITLEV 59
MQIFVKTL GKTITLEV
Sbjct: 1 MQIFVKTLDGKTITLEV 17
>pdb|1WGD|A Chain A, Solution Structure Of The Ubl-Domain Of Herp
Length = 93
Score = 32.7 bits (73), Expect = 0.060, Method: Compositional matrix adjust.
Identities = 25/83 (30%), Positives = 43/83 (51%), Gaps = 6/83 (7%)
Query: 42 GMQIFVKTLTGKTITLEV--ESSDTIDNVKAKIQD--KEGIPPDQQRLIFAGKQLEDGRT 97
G+ + VK+ + LE+ + ++ ++KA + E P+ QRLI++GK L D +
Sbjct: 7 GVTLLVKSPNQRHRDLELSGDRGWSVGHLKAHLSRVYPERPRPEDQRLIYSGKLLLDHQC 66
Query: 98 LADY--NIQKESTLHLVLRLRGG 118
L D +K LHLV ++ G
Sbjct: 67 LRDLLPKQEKRHVLHLVCNVKSG 89
Score = 31.2 bits (69), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 17/41 (41%), Positives = 24/41 (58%), Gaps = 2/41 (4%)
Query: 4 PDQQRLIFAGKQLEDGRTLADY--NIQKESTLHLVLRLRGG 42
P+ QRLI++GK L D + L D +K LHLV ++ G
Sbjct: 49 PEDQRLIYSGKLLLDHQCLRDLLPKQEKRHVLHLVCNVKSG 89
>pdb|3QPQ|L Chain L, Crystal Structure Of Anti-Tlr3 Antibody C1068 Fab
pdb|3QPQ|E Chain E, Crystal Structure Of Anti-Tlr3 Antibody C1068 Fab
pdb|3QPQ|C Chain C, Crystal Structure Of Anti-Tlr3 Antibody C1068 Fab
pdb|3QPQ|I Chain I, Crystal Structure Of Anti-Tlr3 Antibody C1068 Fab
pdb|3ULU|E Chain E, Structure Of Quaternary Complex Of Human Tlr3ecd With
Three Fabs (Form1)
pdb|3ULV|E Chain E, Structure Of Quaternary Complex Of Human Tlr3ecd With
Three Fabs (Form2)
Length = 215
Score = 32.3 bits (72), Expect = 0.067, Method: Compositional matrix adjust.
Identities = 17/44 (38%), Positives = 24/44 (54%), Gaps = 2/44 (4%)
Query: 52 GKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDG 95
G+T+T+ +S I N A Q K+G P Q L++ K L DG
Sbjct: 16 GETVTITCRASGNIHNYLAWYQQKQGKSP--QLLVYNAKTLADG 57
>pdb|1JGL|L Chain L, Crystal Structure Of Immunoglobulin Fab Fragment
Complexed With 17-Beta-Estradiol
pdb|1JHK|L Chain L, Crystal Structure Of The Anti-Estradiol Antibody 57-2
Length = 214
Score = 32.3 bits (72), Expect = 0.068, Method: Compositional matrix adjust.
Identities = 17/44 (38%), Positives = 24/44 (54%), Gaps = 2/44 (4%)
Query: 52 GKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDG 95
G+T+T+ +S I N A Q K+G P Q L++ K L DG
Sbjct: 16 GETVTITCRASGNIHNYLAWYQQKQGKSP--QLLVYNAKTLADG 57
>pdb|1WEJ|L Chain L, Igg1 Fab Fragment (Of E8 Antibody) Complexed With Horse
Cytochrome C At 1.8 A Resolution
pdb|1QBL|L Chain L, Fab E8 (Fabe8a) X-Ray Structure At 2.26 Angstrom
Resolution
pdb|1QBM|L Chain L, Fab E8b Antibody, X-Ray Structure At 2.37 Angstroms
Resolution
Length = 214
Score = 32.3 bits (72), Expect = 0.071, Method: Compositional matrix adjust.
Identities = 17/44 (38%), Positives = 24/44 (54%), Gaps = 2/44 (4%)
Query: 52 GKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDG 95
G+T+T+ +S I N A Q K+G P Q L++ K L DG
Sbjct: 16 GETVTITCRASGNIHNYLAWYQQKQGKSP--QLLVYNAKTLADG 57
>pdb|1J8C|A Chain A, Solution Structure Of The Ubiquitin-Like Domain Of Hplic-2
Length = 125
Score = 32.0 bits (71), Expect = 0.094, Method: Compositional matrix adjust.
Identities = 17/34 (50%), Positives = 22/34 (64%)
Query: 5 DQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLR 38
DQ LIFAGK L+D TL + I T+HLV++
Sbjct: 70 DQLVLIFAGKILKDQDTLIQHGIHDGLTVHLVIK 103
Score = 32.0 bits (71), Expect = 0.094, Method: Compositional matrix adjust.
Identities = 17/34 (50%), Positives = 22/34 (64%)
Query: 81 DQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLR 114
DQ LIFAGK L+D TL + I T+HLV++
Sbjct: 70 DQLVLIFAGKILKDQDTLIQHGIHDGLTVHLVIK 103
>pdb|3M62|B Chain B, Crystal Structure Of Ufd2 In Complex With The
Ubiquitin-Like (Ubl) Domain Of Rad23
Length = 106
Score = 32.0 bits (71), Expect = 0.094, Method: Compositional matrix adjust.
Identities = 16/57 (28%), Positives = 32/57 (56%)
Query: 48 KTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQ 104
K + + L++E S+TI K K+ Q +LI++GK L+D +T+++ ++
Sbjct: 7 KNFKKEKVPLDLEPSNTILETKTKLAQSISCEESQIKLIYSGKVLQDSKTVSECGLK 63
>pdb|3CXD|L Chain L, Crystal Structure Of Anti-Osteopontin Antibody 23c3 In
Complex With Its Epitope Peptide
pdb|3DSF|L Chain L, Crystal Structure Of Anti-Osteopontin Antibody 23c3 In
Complex With W43a Mutated Epitope Peptide
Length = 213
Score = 31.6 bits (70), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 16/44 (36%), Positives = 25/44 (56%), Gaps = 2/44 (4%)
Query: 52 GKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDG 95
G+T+T+ +S+ I + A Q K+G P Q L++A L DG
Sbjct: 16 GETVTITCRASENIYSFLAWYQQKQGKSP--QLLVYAATNLADG 57
>pdb|3RZF|A Chain A, Crystal Structure Of Inhibitor Of Kappab Kinase Beta
(I4122)
Length = 677
Score = 31.2 bits (69), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 17/58 (29%), Positives = 31/58 (53%), Gaps = 1/58 (1%)
Query: 47 VKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFA-GKQLEDGRTLADYNI 103
+ ++G+ T V ++ + N+K+ +Q GIP ++Q L+ A G L + L Y I
Sbjct: 317 MNMVSGRVHTYPVTENENLQNLKSWLQQDTGIPEEEQELLQASGLALNSAQPLTQYVI 374
>pdb|3QA8|A Chain A, Crystal Structure Of Inhibitor Of Kappa B Kinase Beta
pdb|3QA8|B Chain B, Crystal Structure Of Inhibitor Of Kappa B Kinase Beta
pdb|3QA8|C Chain C, Crystal Structure Of Inhibitor Of Kappa B Kinase Beta
pdb|3QA8|D Chain D, Crystal Structure Of Inhibitor Of Kappa B Kinase Beta
pdb|3QA8|E Chain E, Crystal Structure Of Inhibitor Of Kappa B Kinase Beta
pdb|3QA8|F Chain F, Crystal Structure Of Inhibitor Of Kappa B Kinase Beta
pdb|3QA8|G Chain G, Crystal Structure Of Inhibitor Of Kappa B Kinase Beta
pdb|3QA8|H Chain H, Crystal Structure Of Inhibitor Of Kappa B Kinase Beta
Length = 676
Score = 31.2 bits (69), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 17/58 (29%), Positives = 31/58 (53%), Gaps = 1/58 (1%)
Query: 47 VKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFA-GKQLEDGRTLADYNI 103
+ ++G+ T V ++ + N+K+ +Q GIP ++Q L+ A G L + L Y I
Sbjct: 316 MNMVSGRVHTYPVTENENLQNLKSWLQQDTGIPEEEQELLQASGLALNSAQPLTQYVI 373
>pdb|1JNL|L Chain L, Crystal Structure Of Fab-Estradiol Complexes
pdb|1JNN|L Chain L, Crystal Structure Of Fab-Estradiol Complexes
Length = 211
Score = 31.2 bits (69), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 18/47 (38%), Positives = 25/47 (53%), Gaps = 2/47 (4%)
Query: 52 GKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTL 98
G+T+T+ +S I N A Q K+G P Q L++ K L DG L
Sbjct: 16 GETVTITCRASGNIYNYLAWYQQKQGKSP--QLLVYNAKTLVDGVPL 60
>pdb|1KIR|A Chain A, Fv Mutant Y(A 50)s (Vl Domain) Of Mouse Monoclonal
Antibody D1.3 Complexed With Hen Egg White Lysozyme
Length = 107
Score = 31.2 bits (69), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 16/44 (36%), Positives = 24/44 (54%), Gaps = 2/44 (4%)
Query: 52 GKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDG 95
G+T+T+ +S I N A Q K+G P Q L+++ L DG
Sbjct: 16 GETVTITCRASGNIHNYLAWYQQKQGKSP--QLLVYSTTTLADG 57
>pdb|1BBJ|L Chain L, Crystal Structure Of A Chimeric Fab' Fragment Of An
Antibody Binding Tumour Cells
pdb|1BBJ|A Chain A, Crystal Structure Of A Chimeric Fab' Fragment Of An
Antibody Binding Tumour Cells
Length = 211
Score = 30.4 bits (67), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 16/44 (36%), Positives = 25/44 (56%), Gaps = 2/44 (4%)
Query: 52 GKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDG 95
G+T+T+ +S+ I + A Q K+G P Q L++A L DG
Sbjct: 16 GETVTITCRASENIYSNLAWYQQKQGKSP--QLLVYAATNLADG 57
>pdb|1A7P|L Chain L, Fv Fragment Of Mouse Monoclonal Antibody D1.3 (BalbC,
IGG1, K) Engineered Mutant Pro95l->ser On Variant Chain
L Glu81- >asp And Chain H Leu312->val
Length = 107
Score = 30.4 bits (67), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 16/44 (36%), Positives = 23/44 (52%), Gaps = 2/44 (4%)
Query: 52 GKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDG 95
G+T+T+ +S I N A Q K+G P Q L++ L DG
Sbjct: 16 GETVTITCRASGNIHNYLAWYQQKQGKSP--QLLVYYTTTLADG 57
>pdb|1VFA|A Chain A, Bound Water Molecules And Conformational Stabilization
Help Mediate An Antigen-Antibody Association
pdb|1DVF|A Chain A, Idiotopic Antibody D1.3 Fv Fragment-Antiidiotopic
Antibody E5.2 Fv Fragment Complex
Length = 108
Score = 30.4 bits (67), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 16/44 (36%), Positives = 23/44 (52%), Gaps = 2/44 (4%)
Query: 52 GKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDG 95
G+T+T+ +S I N A Q K+G P Q L++ L DG
Sbjct: 16 GETVTITCRASGNIHNYLAWYQQKQGKSP--QLLVYYTTTLADG 57
>pdb|1KIP|A Chain A, Fv Mutant Y(B 32)a (Vh Domain) Of Mouse Monoclonal
Antibody D1.3 Complexed With Hen Egg White Lysozyme
pdb|1KIQ|A Chain A, Fv Mutant Y(B 101)f (Vh Domain) Of Mouse Monoclonal
Antibody D1.3 Complexed With Hen Egg White Lysozyme
pdb|1A2Y|A Chain A, Hen Egg White Lysozyme, D18a Mutant, In Complex With
Mouse Monoclonal Antibody D1.3
pdb|1VFB|A Chain A, Bound Water Molecules And Conformational Stabilization
Help Mediate An Antigen-Antibody Association
Length = 107
Score = 30.4 bits (67), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 16/44 (36%), Positives = 23/44 (52%), Gaps = 2/44 (4%)
Query: 52 GKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDG 95
G+T+T+ +S I N A Q K+G P Q L++ L DG
Sbjct: 16 GETVTITCRASGNIHNYLAWYQQKQGKSP--QLLVYYTTTLADG 57
>pdb|1A7N|L Chain L, Fv Fragment Of Mouse Monoclonal Antibody D1.3 (BalbC,
IGG1, K) Variant For Chain L Glu81->asp And Chain H
Leu312->val
pdb|1A7R|L Chain L, Fv Fragment Of Mouse Monoclonal Antibody D1.3 (BalbC,
IGG1, K) Variant Chain L Glu81->asp
Length = 107
Score = 30.4 bits (67), Expect = 0.29, Method: Compositional matrix adjust.
Identities = 16/44 (36%), Positives = 23/44 (52%), Gaps = 2/44 (4%)
Query: 52 GKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDG 95
G+T+T+ +S I N A Q K+G P Q L++ L DG
Sbjct: 16 GETVTITCRASGNIHNYLAWYQQKQGKSP--QLLVYYTTTLADG 57
>pdb|1G7J|A Chain A, Crystal Structure Of Hen Egg White Lysozyme (Hel)
Complexed With The Mutant Anti-Hel Monoclonal Antibody
D1.3 (Vlw92h)
Length = 107
Score = 30.4 bits (67), Expect = 0.29, Method: Compositional matrix adjust.
Identities = 16/44 (36%), Positives = 23/44 (52%), Gaps = 2/44 (4%)
Query: 52 GKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDG 95
G+T+T+ +S I N A Q K+G P Q L++ L DG
Sbjct: 16 GETVTITCRASGNIHNYLAWYQQKQGKSP--QLLVYYTTTLADG 57
>pdb|1G7I|A Chain A, Crystal Structure Of Hen Egg White Lysozyme (Hel)
Complexed With The Mutant Anti-Hel Monoclonal Antibody
D1.3 (Vlw92f)
Length = 107
Score = 30.4 bits (67), Expect = 0.30, Method: Compositional matrix adjust.
Identities = 16/44 (36%), Positives = 23/44 (52%), Gaps = 2/44 (4%)
Query: 52 GKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDG 95
G+T+T+ +S I N A Q K+G P Q L++ L DG
Sbjct: 16 GETVTITCRASGNIHNYLAWYQQKQGKSP--QLLVYYTTTLADG 57
>pdb|1A7O|L Chain L, Fv Fragment Of Mouse Monoclonal Antibody D1.3 (BalbC,
IGG1, K) R96l Deletion Mutant On Variant For Chain L
Glu81->asp And Chain H Leu312->val
Length = 106
Score = 30.0 bits (66), Expect = 0.30, Method: Compositional matrix adjust.
Identities = 16/44 (36%), Positives = 23/44 (52%), Gaps = 2/44 (4%)
Query: 52 GKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDG 95
G+T+T+ +S I N A Q K+G P Q L++ L DG
Sbjct: 16 GETVTITCRASGNIHNYLAWYQQKQGKSP--QLLVYYTTTLADG 57
>pdb|1G7M|A Chain A, Crystal Structure Of Hen Egg White Lysozyme (Hel)
Complexed With The Mutant Anti-Hel Monoclonal Antibody
D1.3 (Vlw92v)
Length = 107
Score = 30.0 bits (66), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 16/44 (36%), Positives = 23/44 (52%), Gaps = 2/44 (4%)
Query: 52 GKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDG 95
G+T+T+ +S I N A Q K+G P Q L++ L DG
Sbjct: 16 GETVTITCRASGNIHNYLAWYQQKQGKSP--QLLVYYTTTLADG 57
>pdb|1G7H|A Chain A, Crystal Structure Of Hen Egg White Lysozyme (Hel)
Complexed With The Mutant Anti-Hel Monoclonal Antibody
D1.3(Vlw92a)
Length = 107
Score = 30.0 bits (66), Expect = 0.32, Method: Compositional matrix adjust.
Identities = 16/44 (36%), Positives = 23/44 (52%), Gaps = 2/44 (4%)
Query: 52 GKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDG 95
G+T+T+ +S I N A Q K+G P Q L++ L DG
Sbjct: 16 GETVTITCRASGNIHNYLAWYQQKQGKSP--QLLVYYTTTLADG 57
>pdb|1G7L|A Chain A, Crystal Structure Of Hen Egg White Lysozyme (Hel)
Complexed With The Mutant Anti-Hel Monoclonal Antibody
D1.3 (Vlw92s)
Length = 107
Score = 30.0 bits (66), Expect = 0.33, Method: Compositional matrix adjust.
Identities = 16/44 (36%), Positives = 23/44 (52%), Gaps = 2/44 (4%)
Query: 52 GKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDG 95
G+T+T+ +S I N A Q K+G P Q L++ L DG
Sbjct: 16 GETVTITCRASGNIHNYLAWYQQKQGKSP--QLLVYYTTTLADG 57
>pdb|1Z5S|B Chain B, Crystal Structure Of A Complex Between Ubc9, Sumo-1,
Rangap1 And Nup358RANBP2
pdb|2IO2|B Chain B, Crystal Structure Of Human Senp2 In Complex With
Rangap1-sumo-1
Length = 82
Score = 29.6 bits (65), Expect = 0.41, Method: Compositional matrix adjust.
Identities = 13/64 (20%), Positives = 32/64 (50%)
Query: 55 ITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLR 114
I +V+ + + +K ++G+P + R +F G+++ D T + +++E + +
Sbjct: 19 IHFKVKMTTHLKKLKESYCQRQGVPMNSLRFLFEGQRIADNHTPKELGMEEEDVIEVYQE 78
Query: 115 LRGG 118
GG
Sbjct: 79 QTGG 82
Score = 25.8 bits (55), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 10/42 (23%), Positives = 22/42 (52%)
Query: 1 GIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 42
G+P + R +F G+++ D T + +++E + + GG
Sbjct: 41 GVPMNSLRFLFEGQRIADNHTPKELGMEEEDVIEVYQEQTGG 82
>pdb|2BF8|B Chain B, Crystal Structure Of Sumo Modified Ubiquitin Conjugating
Enzyme E2-25k
Length = 77
Score = 29.6 bits (65), Expect = 0.41, Method: Compositional matrix adjust.
Identities = 13/64 (20%), Positives = 32/64 (50%)
Query: 55 ITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLR 114
I +V+ + + +K ++G+P + R +F G+++ D T + +++E + +
Sbjct: 14 IHFKVKMTTHLKKLKESYCQRQGVPMNSLRFLFEGQRIADNHTPKELGMEEEDVIEVYQE 73
Query: 115 LRGG 118
GG
Sbjct: 74 QTGG 77
Score = 25.8 bits (55), Expect = 5.9, Method: Compositional matrix adjust.
Identities = 10/42 (23%), Positives = 22/42 (52%)
Query: 1 GIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 42
G+P + R +F G+++ D T + +++E + + GG
Sbjct: 36 GVPMNSLRFLFEGQRIADNHTPKELGMEEEDVIEVYQEQTGG 77
>pdb|2UYZ|B Chain B, Non-Covalent Complex Between Ubc9 And Sumo1
pdb|2VRR|B Chain B, Structure Of Sumo Modified Ubc9
Length = 79
Score = 29.6 bits (65), Expect = 0.41, Method: Compositional matrix adjust.
Identities = 13/64 (20%), Positives = 32/64 (50%)
Query: 55 ITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLR 114
I +V+ + + +K ++G+P + R +F G+++ D T + +++E + +
Sbjct: 16 IHFKVKMTTHLKKLKESYCQRQGVPMNSLRFLFEGQRIADNHTPKELGMEEEDVIEVYQE 75
Query: 115 LRGG 118
GG
Sbjct: 76 QTGG 79
Score = 26.2 bits (56), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 10/42 (23%), Positives = 22/42 (52%)
Query: 1 GIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 42
G+P + R +F G+++ D T + +++E + + GG
Sbjct: 38 GVPMNSLRFLFEGQRIADNHTPKELGMEEEDVIEVYQEQTGG 79
>pdb|2IY1|B Chain B, Senp1 (Mutant) Full Length Sumo1
pdb|2IY1|D Chain D, Senp1 (Mutant) Full Length Sumo1
Length = 83
Score = 29.6 bits (65), Expect = 0.45, Method: Compositional matrix adjust.
Identities = 13/64 (20%), Positives = 32/64 (50%)
Query: 55 ITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLR 114
I +V+ + + +K ++G+P + R +F G+++ D T + +++E + +
Sbjct: 15 IHFKVKMTTHLKKLKESYCQRQGVPMNSLRFLFEGQRIADNHTPKELGMEEEDVIEVYQE 74
Query: 115 LRGG 118
GG
Sbjct: 75 QTGG 78
Score = 26.2 bits (56), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 10/42 (23%), Positives = 22/42 (52%)
Query: 1 GIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 42
G+P + R +F G+++ D T + +++E + + GG
Sbjct: 37 GVPMNSLRFLFEGQRIADNHTPKELGMEEEDVIEVYQEQTGG 78
>pdb|1TGZ|B Chain B, Structure Of Human Senp2 In Complex With Sumo-1
pdb|3UIP|B Chain B, Complex Between Human Rangap1-Sumo1, Ubc9 And The Ir1
Domain From Ranbp2 Containing Ir2 Motif Ii
Length = 80
Score = 29.6 bits (65), Expect = 0.45, Method: Compositional matrix adjust.
Identities = 13/64 (20%), Positives = 32/64 (50%)
Query: 55 ITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLR 114
I +V+ + + +K ++G+P + R +F G+++ D T + +++E + +
Sbjct: 17 IHFKVKMTTHLKKLKESYCQRQGVPMNSLRFLFEGQRIADNHTPKELGMEEEDVIEVYQE 76
Query: 115 LRGG 118
GG
Sbjct: 77 QTGG 80
Score = 25.8 bits (55), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 10/42 (23%), Positives = 22/42 (52%)
Query: 1 GIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 42
G+P + R +F G+++ D T + +++E + + GG
Sbjct: 39 GVPMNSLRFLFEGQRIADNHTPKELGMEEEDVIEVYQEQTGG 80
>pdb|2G4D|B Chain B, Crystal Structure Of Human Senp1 Mutant (C603s) In Complex
With Sumo-1
pdb|2G4D|D Chain D, Crystal Structure Of Human Senp1 Mutant (C603s) In Complex
With Sumo-1
pdb|2LAS|A Chain A, Molecular Determinants Of Paralogue-Specific Sumo-Sim
Recognition
Length = 78
Score = 29.6 bits (65), Expect = 0.46, Method: Compositional matrix adjust.
Identities = 13/64 (20%), Positives = 32/64 (50%)
Query: 55 ITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLR 114
I +V+ + + +K ++G+P + R +F G+++ D T + +++E + +
Sbjct: 15 IHFKVKMTTHLKKLKESYCQRQGVPMNSLRFLFEGQRIADNHTPKELGMEEEDVIEVYQE 74
Query: 115 LRGG 118
GG
Sbjct: 75 QTGG 78
Score = 25.8 bits (55), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 10/42 (23%), Positives = 22/42 (52%)
Query: 1 GIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 42
G+P + R +F G+++ D T + +++E + + GG
Sbjct: 37 GVPMNSLRFLFEGQRIADNHTPKELGMEEEDVIEVYQEQTGG 78
>pdb|2IY0|B Chain B, Senp1 (Mutant) Sumo1 Rangap
Length = 82
Score = 29.6 bits (65), Expect = 0.46, Method: Compositional matrix adjust.
Identities = 13/64 (20%), Positives = 32/64 (50%)
Query: 55 ITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLR 114
I +V+ + + +K ++G+P + R +F G+++ D T + +++E + +
Sbjct: 15 IHFKVKMTTHLKKLKESYCQRQGVPMNSLRFLFEGQRIADNHTPKELGMEEEDVIEVYQE 74
Query: 115 LRGG 118
GG
Sbjct: 75 QTGG 78
Score = 26.2 bits (56), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 10/42 (23%), Positives = 22/42 (52%)
Query: 1 GIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 42
G+P + R +F G+++ D T + +++E + + GG
Sbjct: 37 GVPMNSLRFLFEGQRIADNHTPKELGMEEEDVIEVYQEQTGG 78
>pdb|1M94|A Chain A, Solution Structure Of The Yeast Ubiquitin-Like Modifier
Protein Hub1
Length = 93
Score = 29.6 bits (65), Expect = 0.48, Method: Compositional matrix adjust.
Identities = 19/77 (24%), Positives = 38/77 (49%)
Query: 35 LVLRLRGGMQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLED 94
LV R +++ V GK + ++ + D++ + K + + G P++ L G L+D
Sbjct: 14 LVPRGSHMIEVVVNDRLGKKVRVKCLAEDSVGDFKKVLSLQIGTQPNKIVLQKGGSVLKD 73
Query: 95 GRTLADYNIQKESTLHL 111
+L DY + ++ L L
Sbjct: 74 HISLEDYEVHDQTNLEL 90
>pdb|1F6L|L Chain L, Variable Light Chain Dimer Of Anti-Ferritin Antibody
Length = 114
Score = 29.3 bits (64), Expect = 0.51, Method: Compositional matrix adjust.
Identities = 15/44 (34%), Positives = 25/44 (56%), Gaps = 2/44 (4%)
Query: 52 GKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDG 95
G+T+T+ +S+ I + A Q K+G P Q L++ K L +G
Sbjct: 16 GETVTITCRASENIYSYLAWYQQKQGKSP--QLLVYNAKTLAEG 57
>pdb|1FDL|L Chain L, Crystallographic Refinement Of The Three-Dimensional
Structure Of The Fab D1.3-Lysozyme Complex At 2.5-
Angstroms Resolution
Length = 214
Score = 29.3 bits (64), Expect = 0.52, Method: Compositional matrix adjust.
Identities = 16/44 (36%), Positives = 23/44 (52%), Gaps = 2/44 (4%)
Query: 52 GKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDG 95
G+T+T+ +S I N A Q K+G P Q L++ L DG
Sbjct: 16 GETVTITCRASGNIHNYLAWYQQKQGKSP--QLLVYYTTTLADG 57
>pdb|1CIC|C Chain C, Idiotope-Anti-Idiotope Fab-Fab Complex; D1.3-E225
Length = 214
Score = 29.3 bits (64), Expect = 0.53, Method: Compositional matrix adjust.
Identities = 16/44 (36%), Positives = 23/44 (52%), Gaps = 2/44 (4%)
Query: 52 GKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDG 95
G+T+T+ +S I N A Q K+G P Q L++ L DG
Sbjct: 16 GETVTITCRASGNIHNYLAWYQQKQGKSP--QLLVYYTTTLADG 57
>pdb|3VKG|A Chain A, X-Ray Structure Of An Mtbd Truncation Mutant Of Dynein
Motor Domain
pdb|3VKG|B Chain B, X-Ray Structure Of An Mtbd Truncation Mutant Of Dynein
Motor Domain
Length = 3245
Score = 29.3 bits (64), Expect = 0.57, Method: Compositional matrix adjust.
Identities = 19/60 (31%), Positives = 33/60 (55%), Gaps = 4/60 (6%)
Query: 27 IQKESTLHLVLRLRGGMQIFVKTLTGKTITLEV--ESSDTIDNVK--AKIQDKEGIPPDQ 82
++K LH +L + G+ + + GKT + EV E+ + +DN+K A + D + I DQ
Sbjct: 893 VEKILQLHQILNINHGVMMVGPSGGGKTTSWEVYLEAIEQVDNIKSEAHVMDPKAITKDQ 952
>pdb|3VKH|A Chain A, X-Ray Structure Of A Functional Full-Length Dynein Motor
Domain
pdb|3VKH|B Chain B, X-Ray Structure Of A Functional Full-Length Dynein Motor
Domain
Length = 3367
Score = 29.3 bits (64), Expect = 0.57, Method: Compositional matrix adjust.
Identities = 19/60 (31%), Positives = 33/60 (55%), Gaps = 4/60 (6%)
Query: 27 IQKESTLHLVLRLRGGMQIFVKTLTGKTITLEV--ESSDTIDNVK--AKIQDKEGIPPDQ 82
++K LH +L + G+ + + GKT + EV E+ + +DN+K A + D + I DQ
Sbjct: 893 VEKILQLHQILNINHGVMMVGPSGGGKTTSWEVYLEAIEQVDNIKSEAHVMDPKAITKDQ 952
>pdb|3RZW|C Chain C, Crystal Structure Of The Monobody Ysmb-9 Bound To Human
Sumo1
pdb|3RZW|D Chain D, Crystal Structure Of The Monobody Ysmb-9 Bound To Human
Sumo1
Length = 99
Score = 29.3 bits (64), Expect = 0.64, Method: Compositional matrix adjust.
Identities = 13/64 (20%), Positives = 32/64 (50%)
Query: 55 ITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLR 114
I +V+ + + +K ++G+P + R +F G+++ D T + +++E + +
Sbjct: 36 IHFKVKMTTHLKKLKESYAQRQGVPMNSLRFLFEGQRIADNHTPKELGMEEEDVIEVYQE 95
Query: 115 LRGG 118
GG
Sbjct: 96 QTGG 99
Score = 25.8 bits (55), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 10/42 (23%), Positives = 22/42 (52%)
Query: 1 GIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 42
G+P + R +F G+++ D T + +++E + + GG
Sbjct: 58 GVPMNSLRFLFEGQRIADNHTPKELGMEEEDVIEVYQEQTGG 99
>pdb|1I8M|L Chain L, Crystal Structure Of A Recombinant Anti-Single-Stranded
Dna Antibody Fragment Complexed With Dt5
pdb|1I8M|A Chain A, Crystal Structure Of A Recombinant Anti-Single-Stranded
Dna Antibody Fragment Complexed With Dt5
pdb|1P7K|L Chain L, Crystal Structure Of An Anti-Ssdna Antigen-Binding
Fragment (Fab) Bound To
4-(2-Hydroxyethyl)piperazine-1-Ethanesulfonic Acid
(Hepes)
pdb|1P7K|A Chain A, Crystal Structure Of An Anti-Ssdna Antigen-Binding
Fragment (Fab) Bound To
4-(2-Hydroxyethyl)piperazine-1-Ethanesulfonic Acid
(Hepes)
pdb|1XF2|L Chain L, Structure Of Fab Dna-1 Complexed With Dt3
pdb|1XF2|A Chain A, Structure Of Fab Dna-1 Complexed With Dt3
pdb|1XF3|L Chain L, Structure Of Ligand-Free Fab Dna-1 In Space Group P65
pdb|1XF3|A Chain A, Structure Of Ligand-Free Fab Dna-1 In Space Group P65
pdb|1XF4|L Chain L, Structure Of Ligand-Free Fab Dna-1 In Space Group P321
Solved From Crystals With Perfect Hemihedral Twinning
pdb|1XF4|A Chain A, Structure Of Ligand-Free Fab Dna-1 In Space Group P321
Solved From Crystals With Perfect Hemihedral Twinning
pdb|2FR4|L Chain L, Structure Of Fab Dna-1 Complexed With A Stem-loop Dna
Ligand
pdb|2FR4|A Chain A, Structure Of Fab Dna-1 Complexed With A Stem-loop Dna
Ligand
Length = 214
Score = 28.9 bits (63), Expect = 0.71, Method: Compositional matrix adjust.
Identities = 15/44 (34%), Positives = 25/44 (56%), Gaps = 2/44 (4%)
Query: 52 GKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDG 95
G+T+T+ +S+ I + A Q K+G P Q L++ K L +G
Sbjct: 16 GETVTITCRASENIYSYLAWYQQKQGKSP--QLLVYNAKTLAEG 57
>pdb|2KQS|A Chain A, Phosphorylation Of Sumo-Interacting Motif By Ck2 Enhances
Daxx Sumo Binding Activity
Length = 99
Score = 28.9 bits (63), Expect = 0.73, Method: Compositional matrix adjust.
Identities = 13/64 (20%), Positives = 32/64 (50%)
Query: 55 ITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLR 114
I +V+ + + +K ++G+P + R +F G+++ D T + +++E + +
Sbjct: 36 IHFKVKMTTHLKKLKESYCQRQGVPMNSLRFLFEGQRIADNHTPKELGMEEEDVIEVYQE 95
Query: 115 LRGG 118
GG
Sbjct: 96 QTGG 99
Score = 26.2 bits (56), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 10/42 (23%), Positives = 22/42 (52%)
Query: 1 GIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 42
G+P + R +F G+++ D T + +++E + + GG
Sbjct: 58 GVPMNSLRFLFEGQRIADNHTPKELGMEEEDVIEVYQEQTGG 99
>pdb|1A5R|A Chain A, Structure Determination Of The Small Ubiquitin-Related
Modifier Sumo-1, Nmr, 10 Structures
Length = 103
Score = 28.9 bits (63), Expect = 0.73, Method: Compositional matrix adjust.
Identities = 13/64 (20%), Positives = 32/64 (50%)
Query: 55 ITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLR 114
I +V+ + + +K ++G+P + R +F G+++ D T + +++E + +
Sbjct: 36 IHFKVKMTTHLKKLKESYCQRQGVPMNSLRFLFEGQRIADNHTPKELGMEEEDVIEVYQE 95
Query: 115 LRGG 118
GG
Sbjct: 96 QTGG 99
Score = 26.2 bits (56), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 10/42 (23%), Positives = 22/42 (52%)
Query: 1 GIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 42
G+P + R +F G+++ D T + +++E + + GG
Sbjct: 58 GVPMNSLRFLFEGQRIADNHTPKELGMEEEDVIEVYQEQTGG 99
>pdb|3PLU|A Chain A, Structure Of Hub-1 Protein In Complex With Snu66 Peptide
(Hindi)
pdb|3PLU|B Chain B, Structure Of Hub-1 Protein In Complex With Snu66 Peptide
(Hindi)
pdb|3PLV|A Chain A, Structure Of Hub-1 Protein In Complex With Snu66 Peptide
(hindii)
Length = 93
Score = 28.9 bits (63), Expect = 0.75, Method: Compositional matrix adjust.
Identities = 19/77 (24%), Positives = 37/77 (48%)
Query: 35 LVLRLRGGMQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLED 94
LV R +++ V GK + ++ D++ + K + + G P++ L G L+D
Sbjct: 14 LVPRGSHMIEVVVNDRLGKKVRVKCLGEDSVGDFKKVLSLQIGTQPNKIVLQKGGSVLKD 73
Query: 95 GRTLADYNIQKESTLHL 111
+L DY + ++ L L
Sbjct: 74 HISLEDYEVHDQTNLEL 90
>pdb|1Y8R|C Chain C, Sumo E1 Activating Enzyme Sae1-Sae2-Sumo1-Mg-Atp Complex
pdb|1Y8R|F Chain F, Sumo E1 Activating Enzyme Sae1-Sae2-Sumo1-Mg-Atp Complex
pdb|1WYW|B Chain B, Crystal Structure Of Sumo1-Conjugated Thymine Dna
Glycosylase
pdb|2PE6|B Chain B, Non-Covalent Complex Between Human Sumo-1 And Human Ubc9
pdb|2ASQ|A Chain A, Solution Structure Of Sumo-1 In Complex With A
Sumo-Binding Motif (Sbm)
Length = 97
Score = 28.9 bits (63), Expect = 0.77, Method: Compositional matrix adjust.
Identities = 13/64 (20%), Positives = 32/64 (50%)
Query: 55 ITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLR 114
I +V+ + + +K ++G+P + R +F G+++ D T + +++E + +
Sbjct: 34 IHFKVKMTTHLKKLKESYCQRQGVPMNSLRFLFEGQRIADNHTPKELGMEEEDVIEVYQE 93
Query: 115 LRGG 118
GG
Sbjct: 94 QTGG 97
Score = 26.2 bits (56), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 10/42 (23%), Positives = 22/42 (52%)
Query: 1 GIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 42
G+P + R +F G+++ D T + +++E + + GG
Sbjct: 56 GVPMNSLRFLFEGQRIADNHTPKELGMEEEDVIEVYQEQTGG 97
>pdb|3L5W|L Chain L, Crystal Structure Of The Complex Between Il-13 And C836
Fab
pdb|3L5W|A Chain A, Crystal Structure Of The Complex Between Il-13 And C836
Fab
pdb|3L7E|L Chain L, Crystal Structure Of Anti-Il-13 Antibody C836
pdb|3L7E|A Chain A, Crystal Structure Of Anti-Il-13 Antibody C836
Length = 214
Score = 28.9 bits (63), Expect = 0.82, Method: Compositional matrix adjust.
Identities = 16/50 (32%), Positives = 26/50 (52%), Gaps = 2/50 (4%)
Query: 46 FVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDG 95
++ G+TITL +S +I A Q+K G + LI++G L+ G
Sbjct: 10 YLAASPGETITLNCRASKSISKYLAWYQEKPG--KTNKLLIYSGSTLQSG 57
>pdb|3KYC|D Chain D, Human Sumo E1 Complex With A Sumo1-Amp Mimic
Length = 97
Score = 28.9 bits (63), Expect = 0.83, Method: Compositional matrix adjust.
Identities = 13/64 (20%), Positives = 32/64 (50%)
Query: 55 ITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLR 114
I +V+ + + +K ++G+P + R +F G+++ D T + +++E + +
Sbjct: 34 IHFKVKMTTHLKKLKESYCQRQGVPMNSLRFLFEGQRIADNHTPKELGMEEEDVIEVYQE 93
Query: 115 LRGG 118
GG
Sbjct: 94 QCGG 97
Score = 25.8 bits (55), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 10/42 (23%), Positives = 22/42 (52%)
Query: 1 GIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 42
G+P + R +F G+++ D T + +++E + + GG
Sbjct: 56 GVPMNSLRFLFEGQRIADNHTPKELGMEEEDVIEVYQEQCGG 97
>pdb|1QLE|L Chain L, Cryo-structure Of The Paracoccus Denitrificans
Four-subunit Cytochrome C Oxidase In The Completely
Oxidized State Complexed With An Antibody Fv Fragment
Length = 108
Score = 28.5 bits (62), Expect = 0.94, Method: Compositional matrix adjust.
Identities = 15/44 (34%), Positives = 25/44 (56%), Gaps = 2/44 (4%)
Query: 52 GKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDG 95
G+T+T+ +S+ I + A Q K+G P Q L++ K L +G
Sbjct: 16 GETVTITCRASENIYSYLAWYQQKQGKSP--QFLVYNAKTLGEG 57
>pdb|1ZAN|L Chain L, Crystal Structure Of Anti-Ngf Ad11 Fab
Length = 214
Score = 28.5 bits (62), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 17/44 (38%), Positives = 23/44 (52%), Gaps = 2/44 (4%)
Query: 52 GKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDG 95
G+T+T+E +S+ I N A Q K G P Q LI+ L G
Sbjct: 16 GETVTIECRASEDIYNALAWYQQKPGKSP--QLLIYNTDTLHTG 57
>pdb|1AR1|D Chain D, Structure At 2.7 Angstrom Resolution Of The Paracoccus
Denitrificans Two-Subunit Cytochrome C Oxidase
Complexed With An Antibody Fv Fragment
pdb|1MQK|L Chain L, Crystal Structure Of The Unliganded Fv-Fragment Of The
Anti- Cytochrome C Oxidase Antibody 7e2
pdb|3EHB|D Chain D, A D-Pathway Mutation Decouples The Paracoccus
Denitrificans Cytochrome C Oxidase By Altering The Side
Chain Orientation Of A Distant, Conserved Glutamate
pdb|3HB3|D Chain D, High Resolution Crystal Structure Of Paracoccus
Denitrificans Cytochrome C Oxidase
Length = 120
Score = 28.5 bits (62), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 15/44 (34%), Positives = 25/44 (56%), Gaps = 2/44 (4%)
Query: 52 GKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDG 95
G+T+T+ +S+ I + A Q K+G P Q L++ K L +G
Sbjct: 16 GETVTITCRASENIYSYLAWYQQKQGKSP--QFLVYNAKTLGEG 57
>pdb|1VCB|A Chain A, The Vhl-Elonginc-Elonginb Structure
pdb|1VCB|D Chain D, The Vhl-Elonginc-Elonginb Structure
pdb|1VCB|G Chain G, The Vhl-Elonginc-Elonginb Structure
pdb|1VCB|J Chain J, The Vhl-Elonginc-Elonginb Structure
pdb|1LM8|B Chain B, Structure Of A Hif-1a-Pvhl-Elonginb-Elonginc Complex
pdb|1LQB|A Chain A, Crystal Structure Of A Hydroxylated Hif-1 Alpha Peptide
Bound To The PvhlELONGIN-CELONGIN-B Complex
pdb|2C9W|B Chain B, Crystal Structure Of Socs-2 In Complex With Elongin-B And
Elongin-C At 1.9a Resolution
pdb|2IZV|B Chain B, Crystal Structure Of Socs-4 In Complex With Elongin-B And
Elongin-C At 2.55a Resolution
pdb|3DCG|A Chain A, Crystal Structure Of The Hiv Vif Bc-Box In Complex With
Human Elonginb And Elonginc
pdb|3DCG|C Chain C, Crystal Structure Of The Hiv Vif Bc-Box In Complex With
Human Elonginb And Elonginc
pdb|2JZ3|B Chain B, Socs Box Elonginbc Ternary Complex
pdb|3ZRC|A Chain A, Pvhl54-213-Elob-Eloc Complex
(4r)-4-Hydroxy-1-[(3-Methylisoxazol-5-
Yl)acetyl]-N-[4-(1,3-Oxazol-5-Yl)benzyl]-L-Prolinamide
Bound
pdb|3ZRC|D Chain D, Pvhl54-213-Elob-Eloc Complex
(4r)-4-Hydroxy-1-[(3-Methylisoxazol-5-
Yl)acetyl]-N-[4-(1,3-Oxazol-5-Yl)benzyl]-L-Prolinamide
Bound
pdb|3ZRC|G Chain G, Pvhl54-213-Elob-Eloc Complex
(4r)-4-Hydroxy-1-[(3-Methylisoxazol-5-
Yl)acetyl]-N-[4-(1,3-Oxazol-5-Yl)benzyl]-L-Prolinamide
Bound
pdb|3ZRC|J Chain J, Pvhl54-213-Elob-Eloc Complex
(4r)-4-Hydroxy-1-[(3-Methylisoxazol-5-
Yl)acetyl]-N-[4-(1,3-Oxazol-5-Yl)benzyl]-L-Prolinamide
Bound
pdb|3ZRF|A Chain A, Pvhl54-213-Elob-Eloc Complex_apo
pdb|3ZRF|D Chain D, Pvhl54-213-Elob-Eloc Complex_apo
pdb|3ZRF|G Chain G, Pvhl54-213-Elob-Eloc Complex_apo
pdb|3ZRF|J Chain J, Pvhl54-213-Elob-Eloc Complex_apo
pdb|3ZTC|A Chain A, Pvhl54-213-Elob-Eloc Complex _
(2s,4r)-N-((1,1'-Biphenyl)-4-
Ylmethyl)-4-Hydroxy-1-(2-(3-Methylisoxazol-5-Yl)acetyl)
Pyrrolidine-2-Carboxamide
pdb|3ZTC|D Chain D, Pvhl54-213-Elob-Eloc Complex _
(2s,4r)-N-((1,1'-Biphenyl)-4-
Ylmethyl)-4-Hydroxy-1-(2-(3-Methylisoxazol-5-Yl)acetyl)
Pyrrolidine-2-Carboxamide
pdb|3ZTC|G Chain G, Pvhl54-213-Elob-Eloc Complex _
(2s,4r)-N-((1,1'-Biphenyl)-4-
Ylmethyl)-4-Hydroxy-1-(2-(3-Methylisoxazol-5-Yl)acetyl)
Pyrrolidine-2-Carboxamide
pdb|3ZTC|J Chain J, Pvhl54-213-Elob-Eloc Complex _
(2s,4r)-N-((1,1'-Biphenyl)-4-
Ylmethyl)-4-Hydroxy-1-(2-(3-Methylisoxazol-5-Yl)acetyl)
Pyrrolidine-2-Carboxamide
pdb|3ZTD|A Chain A, Pvhl54-213-Elob-Eloc Complex _ Methyl
4-(((2s,4r)-4-Hydroxy-
1-(2-(3-Methylisoxazol-5-Yl)acetyl)pyrrolidine-2-
Carboxamido)methyl)benzoate
pdb|3ZTD|D Chain D, Pvhl54-213-Elob-Eloc Complex _ Methyl
4-(((2s,4r)-4-Hydroxy-
1-(2-(3-Methylisoxazol-5-Yl)acetyl)pyrrolidine-2-
Carboxamido)methyl)benzoate
pdb|3ZTD|G Chain G, Pvhl54-213-Elob-Eloc Complex _ Methyl
4-(((2s,4r)-4-Hydroxy-
1-(2-(3-Methylisoxazol-5-Yl)acetyl)pyrrolidine-2-
Carboxamido)methyl)benzoate
pdb|3ZTD|J Chain J, Pvhl54-213-Elob-Eloc Complex _ Methyl
4-(((2s,4r)-4-Hydroxy-
1-(2-(3-Methylisoxazol-5-Yl)acetyl)pyrrolidine-2-
Carboxamido)methyl)benzoate
pdb|3ZUN|A Chain A, Pvhl54-213-Elob-Eloc Complex_(2s,4r)-4-Hydroxy-1-(2-(3-
Methylisoxazol-5-Yl)acetyl)-N-(4-
Nitrobenzyl)pyrrolidine-2- Carboxamide Bound
pdb|3ZUN|D Chain D, Pvhl54-213-Elob-Eloc Complex_(2s,4r)-4-Hydroxy-1-(2-(3-
Methylisoxazol-5-Yl)acetyl)-N-(4-
Nitrobenzyl)pyrrolidine-2- Carboxamide Bound
pdb|3ZUN|G Chain G, Pvhl54-213-Elob-Eloc Complex_(2s,4r)-4-Hydroxy-1-(2-(3-
Methylisoxazol-5-Yl)acetyl)-N-(4-
Nitrobenzyl)pyrrolidine-2- Carboxamide Bound
pdb|3ZUN|J Chain J, Pvhl54-213-Elob-Eloc Complex_(2s,4r)-4-Hydroxy-1-(2-(3-
Methylisoxazol-5-Yl)acetyl)-N-(4-
Nitrobenzyl)pyrrolidine-2- Carboxamide Bound
pdb|4B95|A Chain A, Pvhl-Elob-Elob-Elocc
Complex_(2s,4r)-1-(2-Chlorophenyl)carbonyl-N-[
(4-Chlorophenyl)methyl]-4-Oxidanyl-Pyrrolidine-2-
Carboxamide Bound
pdb|4B95|D Chain D, Pvhl-Elob-Elob-Elocc
Complex_(2s,4r)-1-(2-Chlorophenyl)carbonyl-N-[
(4-Chlorophenyl)methyl]-4-Oxidanyl-Pyrrolidine-2-
Carboxamide Bound
pdb|4B95|G Chain G, Pvhl-Elob-Elob-Elocc
Complex_(2s,4r)-1-(2-Chlorophenyl)carbonyl-N-[
(4-Chlorophenyl)methyl]-4-Oxidanyl-Pyrrolidine-2-
Carboxamide Bound
pdb|4B95|J Chain J, Pvhl-Elob-Elob-Elocc
Complex_(2s,4r)-1-(2-Chlorophenyl)carbonyl-N-[
(4-Chlorophenyl)methyl]-4-Oxidanyl-Pyrrolidine-2-
Carboxamide Bound
pdb|4AJY|B Chain B, Von Hippel-Lindau Protein-Elonginb-Elonginc Complex, Bound
To Hif1- Alpha Peptide
pdb|3ZKJ|C Chain C, Crystal Structure Of Ankyrin Repeat And Socs
Box-containing Protein 9 (asb9) In Complex With Elonginb
And Elonginc
pdb|3ZKJ|F Chain F, Crystal Structure Of Ankyrin Repeat And Socs
Box-containing Protein 9 (asb9) In Complex With Elonginb
And Elonginc
Length = 118
Score = 28.5 bits (62), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 26/83 (31%), Positives = 40/83 (48%), Gaps = 14/83 (16%)
Query: 43 MQIFVKTLTGKT-ITLEVESSDTIDNVKAKIQDKEGI---PPDQQRLIFAGKQLEDGRTL 98
M +F+ KT I + + S T+ +K + EGI PPD+QRL + L+DG+TL
Sbjct: 1 MDVFLMIRRHKTTIFTDAKESSTVFELKRIV---EGILKRPPDEQRLYKDDQLLDDGKTL 57
Query: 99 ADYNI-------QKESTLHLVLR 114
+ Q +T+ L R
Sbjct: 58 GECGFTSQTARPQAPATVGLAFR 80
Score = 26.2 bits (56), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 15/43 (34%), Positives = 22/43 (51%), Gaps = 7/43 (16%)
Query: 3 PPDQQRLIFAGKQLEDGRTLADYNI-------QKESTLHLVLR 38
PPD+QRL + L+DG+TL + Q +T+ L R
Sbjct: 38 PPDEQRLYKDDQLLDDGKTLGECGFTSQTARPQAPATVGLAFR 80
>pdb|1WX8|A Chain A, Solution Structure Of The N-Terminal Ubiquitin-Like
Domain In The 4931431f19rik Protein
Length = 96
Score = 28.1 bits (61), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 16/38 (42%), Positives = 21/38 (55%)
Query: 5 DQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 42
D+ LIF GK L D L+ I ST+H+V+R G
Sbjct: 55 DRLVLIFTGKILRDQDILSQRGILDGSTVHVVVRSHSG 92
Score = 28.1 bits (61), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 16/38 (42%), Positives = 21/38 (55%)
Query: 81 DQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 118
D+ LIF GK L D L+ I ST+H+V+R G
Sbjct: 55 DRLVLIFTGKILRDQDILSQRGILDGSTVHVVVRSHSG 92
>pdb|4B9K|A Chain A, Pvhl-Elob-Eloc
Complex_(2s,4r)-1-(3-Amino-2-Methylbenzoyl)-4-
Hydroxy-N-(4-(4-Methylthiazol-5-Yl)benzyl)
Pyrrolidine-2-Carboxamide Bound
pdb|4B9K|D Chain D, Pvhl-Elob-Eloc
Complex_(2s,4r)-1-(3-Amino-2-Methylbenzoyl)-4-
Hydroxy-N-(4-(4-Methylthiazol-5-Yl)benzyl)
Pyrrolidine-2-Carboxamide Bound
pdb|4B9K|G Chain G, Pvhl-Elob-Eloc
Complex_(2s,4r)-1-(3-Amino-2-Methylbenzoyl)-4-
Hydroxy-N-(4-(4-Methylthiazol-5-Yl)benzyl)
Pyrrolidine-2-Carboxamide Bound
pdb|4B9K|J Chain J, Pvhl-Elob-Eloc
Complex_(2s,4r)-1-(3-Amino-2-Methylbenzoyl)-4-
Hydroxy-N-(4-(4-Methylthiazol-5-Yl)benzyl)
Pyrrolidine-2-Carboxamide Bound
pdb|4AWJ|A Chain A, Pvhl:elob:eloc Complex, In Complex With Capped
Hydroxyproline
pdb|4AWJ|D Chain D, Pvhl:elob:eloc Complex, In Complex With Capped
Hydroxyproline
pdb|4AWJ|G Chain G, Pvhl:elob:eloc Complex, In Complex With Capped
Hydroxyproline
pdb|4AWJ|J Chain J, Pvhl:elob:eloc Complex, In Complex With Capped
Hydroxyproline
Length = 104
Score = 28.1 bits (61), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 23/80 (28%), Positives = 38/80 (47%), Gaps = 8/80 (10%)
Query: 43 MQIFVKTLTGKT-ITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADY 101
M +F+ KT I + + S T+ +K ++ PPD+QRL + L+DG+TL +
Sbjct: 1 MDVFLMIRRHKTTIFTDAKESSTVFELKRIVEGILKRPPDEQRLYKDDQLLDDGKTLGEX 60
Query: 102 NI-------QKESTLHLVLR 114
Q +T+ L R
Sbjct: 61 GFTSQTARPQAPATVGLAFR 80
Score = 25.8 bits (55), Expect = 6.5, Method: Compositional matrix adjust.
Identities = 15/43 (34%), Positives = 22/43 (51%), Gaps = 7/43 (16%)
Query: 3 PPDQQRLIFAGKQLEDGRTLADYNI-------QKESTLHLVLR 38
PPD+QRL + L+DG+TL + Q +T+ L R
Sbjct: 38 PPDEQRLYKDDQLLDDGKTLGEXGFTSQTARPQAPATVGLAFR 80
>pdb|2X7L|L Chain L, Implications Of The Hiv-1 Rev Dimer Structure At 3.2a
Resolution For Multimeric Binding To The Rev Response
Element
pdb|2X7L|B Chain B, Implications Of The Hiv-1 Rev Dimer Structure At 3.2a
Resolution For Multimeric Binding To The Rev Response
Element
pdb|2X7L|D Chain D, Implications Of The Hiv-1 Rev Dimer Structure At 3.2a
Resolution For Multimeric Binding To The Rev Response
Element
pdb|2X7L|K Chain K, Implications Of The Hiv-1 Rev Dimer Structure At 3.2a
Resolution For Multimeric Binding To The Rev Response
Element
pdb|2X7L|F Chain F, Implications Of The Hiv-1 Rev Dimer Structure At 3.2a
Resolution For Multimeric Binding To The Rev Response
Element
pdb|2X7L|I Chain I, Implications Of The Hiv-1 Rev Dimer Structure At 3.2a
Resolution For Multimeric Binding To The Rev Response
Element
Length = 217
Score = 27.7 bits (60), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 14/44 (31%), Positives = 24/44 (54%), Gaps = 2/44 (4%)
Query: 52 GKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDG 95
G T+T++ ++S +I + + Q K G PP + LI+ L G
Sbjct: 16 GGTVTIKCQASQSISSWLSWYQQKPGQPP--KLLIYDASNLASG 57
>pdb|3FMG|L Chain L, Structure Of Rotavirus Outer Capsid Protein Vp7 Trimer
In Co A Neutralizing Fab
Length = 211
Score = 27.7 bits (60), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 15/44 (34%), Positives = 24/44 (54%), Gaps = 2/44 (4%)
Query: 52 GKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDG 95
G+T+T+ S+ I + A Q K+G P Q L++ K L +G
Sbjct: 16 GETVTITCRPSENIYSYLAWYQQKQGKSP--QLLVYKAKTLPEG 57
>pdb|1JHL|L Chain L, Three-Dimensional Structure Of A Heteroclitic Antigen-
Antibody Cross-Reaction Complex
Length = 108
Score = 27.3 bits (59), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 15/44 (34%), Positives = 23/44 (52%), Gaps = 2/44 (4%)
Query: 52 GKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDG 95
G+TIT+ +S +I A Q+K G LI++G L+ G
Sbjct: 16 GETITINCRASKSISKSLAWYQEKPG--KTNNLLIYSGSTLQSG 57
>pdb|3KYD|D Chain D, Human Sumo E1~sumo1-amp Tetrahedral Intermediate Mimic
Length = 115
Score = 27.3 bits (59), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 11/57 (19%), Positives = 30/57 (52%)
Query: 55 ITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHL 111
I +V+ + + +K ++G+P + R +F G+++ D T + +++E + +
Sbjct: 53 IHFKVKMTTHLKKLKESYCQRQGVPMNSLRFLFEGQRIADNHTPKELGMEEEDVIEV 109
>pdb|3V7A|G Chain G, Structural Basis For Broad Detection Of Genogroup Ii
Noroviruses By A Monoclonal Antibody That Binds To A
Site Occluded In The Viral Particle
pdb|3V7A|H Chain H, Structural Basis For Broad Detection Of Genogroup Ii
Noroviruses By A Monoclonal Antibody That Binds To A
Site Occluded In The Viral Particle
Length = 215
Score = 26.9 bits (58), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 15/44 (34%), Positives = 25/44 (56%), Gaps = 2/44 (4%)
Query: 52 GKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDG 95
G+T+T+ +S+ I + A Q K+G P Q L++ K L +G
Sbjct: 16 GETVTITCRASENIYSYLAWYQQKQGKSP--QLLVYNVKTLAEG 57
>pdb|1KB5|L Chain L, Murine T-Cell Receptor Variable DomainFAB COMPLEX
Length = 214
Score = 26.9 bits (58), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 15/44 (34%), Positives = 24/44 (54%), Gaps = 2/44 (4%)
Query: 52 GKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDG 95
G+T+T+ +S I + A Q K+G P Q L++ K L +G
Sbjct: 16 GETVTITCRASKNIYSYLAWYQQKQGKSP--QLLVYNAKTLGEG 57
>pdb|2XZM|9 Chain 9, Crystal Structure Of The Eukaryotic 40s Ribosomal
Subunit In Complex With Initiation Factor 1. This File
Contains The 40s Subunit And Initiation Factor For
Molecule 1
pdb|2XZN|9 Chain 9, Crystal Structure Of The Eukaryotic 40s Ribosomal
Subunit In Complex With Initiation Factor 1. This File
Contains The 40s Subunit And Initiation Factor For
Molecule 2
Length = 189
Score = 26.9 bits (58), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 15/47 (31%), Positives = 25/47 (53%)
Query: 43 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAG 89
MQ+ VKTL G+T +E ++ ++K++I G D L+ G
Sbjct: 1 MQVQVKTLEGETKIYTLEQGTSVLDLKSQISQDMGFEIDMMTLVNNG 47
>pdb|2J88|L Chain L, Hyaluronidase In Complex With A Monoclonal Igg Fab
Fragment
Length = 213
Score = 26.9 bits (58), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 14/44 (31%), Positives = 24/44 (54%), Gaps = 2/44 (4%)
Query: 52 GKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDG 95
G+T+T+ +S+ I + Q K+G P Q L++ K L +G
Sbjct: 16 GETVTITCRASENIYSYLTWYQQKQGKSP--QLLVYNAKTLAEG 57
>pdb|4AEH|L Chain L, Crystal Structure Of The Anti-Aahi Fab9c2 Antibody
Length = 214
Score = 26.9 bits (58), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 15/44 (34%), Positives = 23/44 (52%), Gaps = 2/44 (4%)
Query: 52 GKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDG 95
G+T+T+ +S+ I A Q K+G P Q L++A L G
Sbjct: 16 GETVTITCRASENIYRNLAWYQQKQGKSP--QLLVYAATNLAAG 57
>pdb|3RKD|L Chain L, Hepatitis E Virus E2s Domain (Genotype I) In Complex
With A Neutralizing Antibody
pdb|3RKD|C Chain C, Hepatitis E Virus E2s Domain (Genotype I) In Complex
With A Neutralizing Antibody
Length = 214
Score = 26.9 bits (58), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 14/44 (31%), Positives = 25/44 (56%), Gaps = 2/44 (4%)
Query: 52 GKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDG 95
G+T+T+ +S+ I + A Q K+G P Q L+++ L +G
Sbjct: 16 GETVTITCRASEIIYSNLAWYQQKQGKSP--QLLVYSATNLAEG 57
>pdb|2FNJ|B Chain B, Crystal Structure Of A B30.2SPRY DOMAIN-Containing Protein
Gustavus In Complex With Elongin B And Elongin C
Length = 118
Score = 26.6 bits (57), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 25/83 (30%), Positives = 40/83 (48%), Gaps = 14/83 (16%)
Query: 43 MQIFVKTLTGKT-ITLEVESSDTIDNVKAKIQDKEGI---PPDQQRLIFAGKQLEDGRTL 98
M +F+ KT I + + S T+ +K + EGI PP++QRL + L+DG+TL
Sbjct: 1 MDVFLMIRRHKTTIFTDAKESSTVFELKRIV---EGILKRPPEEQRLYKDDQLLDDGKTL 57
Query: 99 ADYNI-------QKESTLHLVLR 114
+ Q +T+ L R
Sbjct: 58 GECGFTSQTARPQAPATVGLAFR 80
>pdb|1OLR|A Chain A, The Humicola Grisea Cel12a Enzyme Structure At 1.2 A
Resolution
pdb|1UU4|A Chain A, X-Ray Crystal Structure Of The Catalytic Domain Of
Humicola Grisea Cel12a In Complex With Cellobiose
pdb|1UU5|A Chain A, X-Ray Crystal Structure Of The Catalytic Domain Of
Humicola Grisea Cel12a Soaked With Cellotetraose
pdb|1UU6|A Chain A, X-Ray Crystal Structure Of The Catalytic Domain Of
Humicola Grisea Cel12a In Complex With A Soaked
Cellopentaose
pdb|1W2U|A Chain A, X-Ray Crystal Structure Of The Catalytic Domain Of
Humicola Grisea Cel12a In Complex With A Soaked Thio
Cellotetraose
Length = 224
Score = 25.8 bits (55), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 10/38 (26%), Positives = 21/38 (55%)
Query: 70 AKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKES 107
+ + +G P + + + GKQ++ GR ++D N + S
Sbjct: 49 STAWEWQGAPDNVKSYPYVGKQIQRGRKISDINSMRTS 86
>pdb|3M6K|A Chain A, Crystal Structure Of N-Terminal 44 Kda Fragment Of
Topoisomerase V In The Presence Of Guanidium
Hydrochloride
pdb|3M6K|B Chain B, Crystal Structure Of N-Terminal 44 Kda Fragment Of
Topoisomerase V In The Presence Of Guanidium
Hydrochloride
pdb|3M6Z|A Chain A, Crystal Structure Of An N-Terminal 44 Kda Fragment Of
Topoisomerase V In The Presence Of Guanidium
Hydrochloride
pdb|3M6Z|B Chain B, Crystal Structure Of An N-Terminal 44 Kda Fragment Of
Topoisomerase V In The Presence Of Guanidium
Hydrochloride
pdb|3M7D|A Chain A, Crystal Structure Of An N-Terminal 44 Kda Fragment Of
Topoisomerase V In The Presence Of Dioxane
Length = 380
Score = 25.4 bits (54), Expect = 9.4, Method: Composition-based stats.
Identities = 18/80 (22%), Positives = 37/80 (46%), Gaps = 9/80 (11%)
Query: 6 QQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGGMQIFV----KTLTGKTITLEVES 61
+QR++ +L+D Y I+++ L L G + + +TL L +E
Sbjct: 291 EQRIVECALKLQD-----RYGIREDVALCLARAFDGSISMIATTPYRTLKDVCPDLTLEE 345
Query: 62 SDTIDNVKAKIQDKEGIPPD 81
+ +++ A + D+ G+ PD
Sbjct: 346 AKSVNRTLATLIDEHGLSPD 365
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
0.318 0.139 0.383
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,365,099
Number of Sequences: 62578
Number of extensions: 115709
Number of successful extensions: 739
Number of sequences better than 100.0: 195
Number of HSP's better than 100.0 without gapping: 147
Number of HSP's successfully gapped in prelim test: 48
Number of HSP's that attempted gapping in prelim test: 437
Number of HSP's gapped (non-prelim): 328
length of query: 120
length of database: 14,973,337
effective HSP length: 82
effective length of query: 38
effective length of database: 9,841,941
effective search space: 373993758
effective search space used: 373993758
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)