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= 011408
(486 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2AYN|A Chain A, Structure Of Usp14, A Proteasome-Associated
Deubiquitinating Enzyme
pdb|2AYN|B Chain B, Structure Of Usp14, A Proteasome-Associated
Deubiquitinating Enzyme
pdb|2AYN|C Chain C, Structure Of Usp14, A Proteasome-Associated
Deubiquitinating Enzyme
pdb|2AYO|A Chain A, Structure Of Usp14 Bound To Ubquitin Aldehyde
Length = 404
Score = 275 bits (703), Expect = 4e-74, Method: Compositional matrix adjust.
Identities = 147/416 (35%), Positives = 223/416 (53%), Gaps = 38/416 (9%)
Query: 90 DLPEEEQVLSLGHSAGLFNLGNTCYMNSTIQCLHSVPELKSALIKYSQSGRSNDVDQSSH 149
D+ EE+ ++ GL NLGNTCYMN+T+QC+ SVPELK AL +Y+ + R++ S+
Sbjct: 1 DMTEEQLASAMELPCGLTNLGNTCYMNATVQCIRSVPELKDALKRYAGALRASGEMASAQ 60
Query: 150 MLTVATSELFNDLDKSVKPVAPMQFWMLLRKKYPQFGQL-HNGTFMQQDAEECWTQLLYT 208
+T A +LF+ +DK+ + P+ L +PQF + G ++QQDA ECW Q++
Sbjct: 61 YITAALRDLFDSMDKTSSSIPPIILLQFLHMAFPQFAEKGEQGQYLQQDANECWIQMMRV 120
Query: 209 LSQSLRSVNASEIPDT----------------VKALFGIDIVSRVHCQXXXXXXXXX--X 250
L Q L ++ + +T + FG++ + + C
Sbjct: 121 LQQKLEAIEDDSVKETDSSSASAATPSKKKSLIDQFFGVEFETTMKCTESEEEEVTKGKE 180
Query: 251 XIYALKCHISHEVNHLHEGLKHGLKSELEKASPALGRSAVYLKESCINGLPRYLTIQFVR 310
L C I+ EV +L GLK L+ E+ K SP L R+A+Y+K S I+ LP YLTIQ VR
Sbjct: 181 NQLQLSCFINQEVKYLFTGLKLRLQEEITKQSPTLQRNALYIKSSKISRLPAYLTIQMVR 240
Query: 311 FFWKRESNQKAKILRKVDYPLELDVYDFCSDDLRKKLDAPRQKLRDXXXXXXXXXXXXXS 370
FF+K + + AK+L+ V +PL LD+Y+ C+ +L++K+ + R K +D
Sbjct: 241 FFYKEKESVNAKVLKDVKFPLMLDMYELCTPELQEKMVSFRSKFKDL------------- 287
Query: 371 SNSKDNDVKMTXXXXXXXXXXXXXXXXXXQDGVTTDTDKETHLTGIYDLVAVLTHKGRSA 430
+ K N T D + ++ G YDL AVLTH+GRS+
Sbjct: 288 EDKKVNQQPNTSDKKSSPQKEVKYEPFSFADDIGSNN------CGYYDLQAVLTHQGRSS 341
Query: 431 DSGHYVAWVKQESGKWIEYDDDNPLPQREEDITKLSGGGDWHMAYICMYKARSISM 486
SGHYV+WVK++ +WI++DDD EDI +LSGGGDWH+AY+ +Y R + +
Sbjct: 342 SSGHYVSWVKRKQDEWIKFDDDKVSIVTPEDILRLSGGGDWHIAYVLLYGPRRVEI 397
>pdb|1VJV|A Chain A, Crystal Structure Of Ubiquitin Carboxyl-terminal Hydrolase
6 (yfr010w) From Saccharomyces Cerevisiae At 1.74 A
Resolution
Length = 415
Score = 182 bits (461), Expect = 5e-46, Method: Compositional matrix adjust.
Identities = 126/409 (30%), Positives = 195/409 (47%), Gaps = 31/409 (7%)
Query: 94 EEQVLSLGH-SAGLFNLGNTCYMNSTIQCLHSVPELKSALIKYSQS-GRSNDVDQSSHM- 150
E+QV G N GNTCY+N+T+Q L+ V +L+ ++ Y+ S G SN Q +
Sbjct: 14 EQQVQQFAQLPVGFKNXGNTCYLNATLQALYRVNDLRDXILNYNPSQGVSNSGAQDEEIH 73
Query: 151 --LTVATSELFNDL-DKSVKPVAPMQFWMLLRKKYPQFGQL--HNGTFMQQDAEECWTQL 205
+ + F +L +KS K V P+ LRK YPQF + G + QQDAEE +TQL
Sbjct: 74 KQIVIEXKRCFENLQNKSFKSVLPVVLLNTLRKCYPQFAERDSQGGFYKQQDAEELFTQL 133
Query: 206 LYTLSQSLRSVNASEIPDTVKALFGIDIVSRVHCQXXXXXXXXXXXIYALKCHISHEVNH 265
++ S V + + + F I + L+CHIS N
Sbjct: 134 FHSXS----IVFGDKFSEDFRIQFKTTIKDTANDNDITVKENESDS--KLQCHISGTTNF 187
Query: 266 LHEGLKHGLKSELEKASPALGRSAVYLKESCINGLPRYLTIQFVRFFWKRESNQKAKILR 325
GL GL ++EK S G +++Y E I+ LP++LT+Q+VRFFWKR +N+K+KILR
Sbjct: 188 XRNGLLEGLNEKIEKRSDLTGANSIYSVEKKISRLPKFLTVQYVRFFWKRSTNKKSKILR 247
Query: 326 KVDYPLELDVYDFCSDDLRKKLDAPRQKLRDXXXXXXXXXXXX-----------XSSNSK 374
KV +P +LDV +D L + A + K+RD SS +
Sbjct: 248 KVVFPFQLDV----ADXLTPEYAAEKVKVRDELRKVEKEKNEKEREIKRRKFDPSSSENV 303
Query: 375 DNDVKMTXXXXXXXXXXXXXXXXXXQDGVTTDTDKETHLTGIYDLVAVLTHKGRSADSGH 434
+ + + +K + + +Y+L+ V+TH+G +++SGH
Sbjct: 304 XTPREQYETQVALNESEKDQWLEEYKKHFPPNLEKGENPSCVYNLIGVITHQGANSESGH 363
Query: 435 YVAWVKQE--SGKWIEYDDDNPLPQREEDITKLSGGGDWHMAYICMYKA 481
Y A+++ E KW +++DD +E I L+GGG+ A I YK
Sbjct: 364 YQAFIRDELDENKWYKFNDDKVSVVEKEKIESLAGGGESDSALILXYKG 412
>pdb|1WGG|A Chain A, Solution Structure Of The N-Terminal Ubiquitin-Like Domain
Of Mouse Ubiquitin Specific Protease 14 (Usp14)
Length = 96
Score = 92.0 bits (227), Expect = 6e-19, Method: Compositional matrix adjust.
Identities = 49/102 (48%), Positives = 62/102 (60%), Gaps = 15/102 (14%)
Query: 4 VSVKWQKEVFSNVEIDTSQTPYVFKCQLYDLTGVPPERQKIMVKGGLLKDDSDWSMLGVK 63
V+VKW KE F VE++T + P VFK QL+ LTGV P RQK+MVKGG LKDD DW + +K
Sbjct: 10 VTVKWGKEKFEGVELNTDEPPMVFKAQLFALTGVQPARQKVMVKGGTLKDD-DWGNIKMK 68
Query: 64 QGQRLMMMGTADEIVKAPEKGPVFVEDLPEEEQVLSLGHSAG 105
G ++MMG+AD LPEE + G S+G
Sbjct: 69 NGMTVLMMGSADA--------------LPEEPSAKTSGPSSG 96
>pdb|2F1Z|A Chain A, Crystal Structure Of Hausp
pdb|2F1Z|B Chain B, Crystal Structure Of Hausp
Length = 522
Score = 67.8 bits (164), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 71/276 (25%), Positives = 115/276 (41%), Gaps = 30/276 (10%)
Query: 78 VKAPEKG---------PVFVE-DLPEEEQVLSLGHSA--GLFNLGNTCYMNSTIQCLHSV 125
V PEKG VFV+ D P S H+ GL N G TCYMNS +Q L
Sbjct: 138 VTDPEKGFIDDDKVTFEVFVQADAPHGVAWDSKKHTGYVGLKNQGATCYMNSLLQTLFFT 197
Query: 126 PELKSALIKYSQSGRSNDVDQSSHMLTVATSELFNDLDKSVKPVAPMQFWMLLRKKYPQF 185
+L+ A+ G D SS + +A +F +L S KPV +K F
Sbjct: 198 NQLRKAVYMMPTEG-----DDSSKSVPLALQRVFYELQHSDKPVG-------TKKLTKSF 245
Query: 186 GQLHNGTFMQQDAEECWTQLLYTLSQSLRSVNASEIPDTVKALFGIDIVSRVHCQXXXXX 245
G +FMQ D +E LL + ++ + + T+ LF +VS + C+
Sbjct: 246 GWETLDSFMQHDVQELCRVLLDNVENKMK---GTCVEGTIPKLFRGKMVSYIQCKEVDYR 302
Query: 246 XXXXXXIYALKCHISHEVNHLHEGLKHGLKSELEKASPA-LGRSAVYLKESCIN--GLPR 302
Y ++ I + N + + +L+ + G + E + LP
Sbjct: 303 SDRREDYYDIQLSIKGKKNIFESFVDYVAVEQLDGDNKYDAGEHGLQEAEKGVKFLTLPP 362
Query: 303 YLTIQFVRFFWKRESNQKAKILRKVDYPLELDVYDF 338
L +Q +RF + +++Q KI + ++P +L + +F
Sbjct: 363 VLHLQLMRFMYDPQTDQNIKINDRFEFPEQLPLDEF 398
Score = 33.5 bits (75), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 23/56 (41%), Positives = 30/56 (53%), Gaps = 3/56 (5%)
Query: 417 YDLVAVLTHKGRSADSGHYVAWVKQES-GKWIEYDDD-NPLPQREEDITKLSGGGD 470
Y L AVL H G + GHYV ++ + GKW ++DDD +EE I GG D
Sbjct: 410 YILHAVLVHSGDNH-GGHYVVYLNPKGDGKWCKFDDDVVSRCTKEEAIEHNYGGHD 464
>pdb|1NBF|A Chain A, Crystal Structure Of A Ubp-Family Deubiquitinating Enzyme
In Isolation And In Complex With Ubiquitin Aldehyde
pdb|1NBF|B Chain B, Crystal Structure Of A Ubp-Family Deubiquitinating Enzyme
In Isolation And In Complex With Ubiquitin Aldehyde
pdb|1NBF|E Chain E, Crystal Structure Of A Ubp-Family Deubiquitinating Enzyme
In Isolation And In Complex With Ubiquitin Aldehyde
Length = 353
Score = 65.9 bits (159), Expect = 5e-11, Method: Compositional matrix adjust.
Identities = 59/238 (24%), Positives = 101/238 (42%), Gaps = 18/238 (7%)
Query: 104 AGLFNLGNTCYMNSTIQCLHSVPELKSALIKYSQSGRSNDVDQSSHMLTVATSELFNDLD 163
GL N G TCYMNS +Q L +L+ A+ G D SS + +A +F +L
Sbjct: 7 VGLKNQGATCYMNSLLQTLFFTNQLRKAVYMMPTEG-----DDSSKSVPLALQRVFYELQ 61
Query: 164 KSVKPVAPMQFWMLLRKKYPQFGQLHNGTFMQQDAEECWTQLLYTLSQSLRSVNASEIPD 223
S KPV +K FG +FMQ D +E LL + ++ + +
Sbjct: 62 HSDKPVGT-------KKLTKSFGWETLDSFMQHDVQELCRVLLDNVENKMK---GTCVEG 111
Query: 224 TVKALFGIDIVSRVHCQXXXXXXXXXXXIYALKCHISHEVNHLHEGLKHGLKSELEKASP 283
T+ LF +VS + C+ Y ++ I + N + + +L+ +
Sbjct: 112 TIPKLFRGKMVSYIQCKEVDYRSDRREDYYDIQLSIKGKKNIFESFVDYVAVEQLDGDNK 171
Query: 284 A-LGRSAVYLKESCIN--GLPRYLTIQFVRFFWKRESNQKAKILRKVDYPLELDVYDF 338
G + E + LP L +Q +RF + +++Q KI + ++P +L + +F
Sbjct: 172 YDAGEHGLQEAEKGVKFLTLPPVLHLQLMRFMYDPQTDQNIKINDRFEFPEQLPLDEF 229
Score = 33.9 bits (76), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 23/56 (41%), Positives = 30/56 (53%), Gaps = 3/56 (5%)
Query: 417 YDLVAVLTHKGRSADSGHYVAWVKQES-GKWIEYDDD-NPLPQREEDITKLSGGGD 470
Y L AVL H G + GHYV ++ + GKW ++DDD +EE I GG D
Sbjct: 241 YILHAVLVHSGDNH-GGHYVVYLNPKGDGKWCKFDDDVVSRCTKEEAIEHNYGGHD 295
>pdb|1NB8|A Chain A, Structure Of The Catalytic Domain Of Usp7 (Hausp)
pdb|1NB8|B Chain B, Structure Of The Catalytic Domain Of Usp7 (Hausp)
Length = 353
Score = 57.4 bits (137), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 57/238 (23%), Positives = 96/238 (40%), Gaps = 18/238 (7%)
Query: 104 AGLFNLGNTCYMNSTIQCLHSVPELKSALIKYSQSGRSNDVDQSSHMLTVATSELFNDLD 163
GL N G TCY NS +Q L +L+ A+ G D SS + +A +F +L
Sbjct: 7 VGLKNQGATCYXNSLLQTLFFTNQLRKAVYXXPTEG-----DDSSKSVPLALQRVFYELQ 61
Query: 164 KSVKPVAPMQFWMLLRKKYPQFGQLHNGTFMQQDAEECWTQLLYTLSQSLRSVNASEIPD 223
S KPV +K FG +F Q D +E LL + + + +
Sbjct: 62 HSDKPVG-------TKKLTKSFGWETLDSFXQHDVQELCRVLLDNVENKXK---GTCVEG 111
Query: 224 TVKALFGIDIVSRVHCQXXXXXXXXXXXIYALKCHISHEVNHLHEGLKHGLKSELEKASP 283
T+ LF VS + C+ Y ++ I + N + + +L+ +
Sbjct: 112 TIPKLFRGKXVSYIQCKEVDYRSDRREDYYDIQLSIKGKKNIFESFVDYVAVEQLDGDNK 171
Query: 284 A-LGRSAVYLKESCIN--GLPRYLTIQFVRFFWKRESNQKAKILRKVDYPLELDVYDF 338
G + E + LP L +Q RF + +++Q KI + ++P +L + +F
Sbjct: 172 YDAGEHGLQEAEKGVKFLTLPPVLHLQLXRFXYDPQTDQNIKINDRFEFPEQLPLDEF 229
Score = 33.5 bits (75), Expect = 0.30, Method: Compositional matrix adjust.
Identities = 23/56 (41%), Positives = 30/56 (53%), Gaps = 3/56 (5%)
Query: 417 YDLVAVLTHKGRSADSGHYVAWVKQES-GKWIEYDDD-NPLPQREEDITKLSGGGD 470
Y L AVL H G + GHYV ++ + GKW ++DDD +EE I GG D
Sbjct: 241 YILHAVLVHSGDNH-GGHYVVYLNPKGDGKWCKFDDDVVSRCTKEEAIEHNYGGHD 295
>pdb|3IHP|A Chain A, Covalent Ubiquitin-Usp5 Complex
pdb|3IHP|B Chain B, Covalent Ubiquitin-Usp5 Complex
Length = 854
Score = 53.1 bits (126), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 69/277 (24%), Positives = 114/277 (41%), Gaps = 48/277 (17%)
Query: 105 GLFNLGNTCYMNSTIQCLHSVPELKSALI----KYSQSGRSNDV-DQSSHMLTVATSELF 159
G+ NLGN+CY+NS +Q L S+P+ + + K Q+ ++ D S+ + + L
Sbjct: 346 GIRNLGNSCYLNSVVQVLFSIPDFQRKYVDKLEKIFQNAPTDPTQDFSTQVAKLGHGLLS 405
Query: 160 NDLDKSVKP----------------VAPMQFWMLLRKKYPQFGQLHNGTFMQQDAEECWT 203
+ K V +AP F L+ K +P+F T QQDA+E +
Sbjct: 406 GEYSKPVPESGDGERVPEQKEVQDGIAPRMFKALIGKGHPEF-----STNRQQDAQEFFL 460
Query: 204 QLLYTLSQSLRSVNASEIPDTVKALFGIDIVSRVHCQXXXXXXXXXXXIYALKCHISHEV 263
L+ + ++ RS SE P+ V F + ++ C Y ++ + +
Sbjct: 461 HLINMVERNCRS---SENPNEV---FRFLVEEKIKCLATEKVKYTQRVDYIMQLPVPMDA 514
Query: 264 NHLHEGLKHGL----KSELEK-ASPALGRSAVYLKESCINGLPRYLTIQFVRFFWKRESN 318
E L ++E EK A P L R+ V SC+ Y + V FW
Sbjct: 515 ALNKEELLEYEEKKRQAEEEKMALPELVRAQVPFS-SCLEA---YGAPEQVDDFWSTALQ 570
Query: 319 QKA---KILRKVDYP----LELDVYDFCSDDLRKKLD 348
K+ K R +P +++ + F D + KKLD
Sbjct: 571 AKSVAVKTTRFASFPDYLVIQIKKFTFGLDWVPKKLD 607
Score = 38.9 bits (89), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 17/37 (45%), Positives = 24/37 (64%), Gaps = 1/37 (2%)
Query: 415 GIYDLVAVLTHKGRSADSGHYVAWVKQESGKWIEYDD 451
G Y L A ++H G S GHYV +K+E G+W+ Y+D
Sbjct: 795 GKYQLFAFISHMGTSTMCGHYVCHIKKE-GRWVIYND 830
>pdb|2Y5B|A Chain A, Structure Of Usp21 In Complex With Linear
Diubiquitin-Aldehyde
pdb|2Y5B|E Chain E, Structure Of Usp21 In Complex With Linear
Diubiquitin-Aldehyde
Length = 370
Score = 47.8 bits (112), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 36/112 (32%), Positives = 56/112 (50%), Gaps = 21/112 (18%)
Query: 97 VLSLGHSAGLFNLGNTCYMNSTIQCLHSVPELKSALIK--YSQ----SGRSNDVDQSSHM 150
+L GH GL NLGNTC++N+ +QCL S L+ ++ + Q GR+ +
Sbjct: 11 LLGSGH-VGLRNLGNTCFLNAVLQCLSSTRPLRDFCLRRDFRQEVPGGGRAQE------- 62
Query: 151 LTVATSELFNDL--DKSVKPVAPMQFWMLLRKKYPQFGQLHNGTFMQQDAEE 200
LT A +++ L S + V P +F + +K P F + QQDA+E
Sbjct: 63 LTEAFADVIGALWHPDSCEAVNPTRFRAVFQKYVPSF-----SGYSQQDAQE 109
>pdb|3MTN|A Chain A, Usp21 In Complex With A Ubiquitin-based, Usp21-specific
Inhibitor
pdb|3MTN|C Chain C, Usp21 In Complex With A Ubiquitin-based, Usp21-specific
Inhibitor
Length = 373
Score = 47.4 bits (111), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 38/119 (31%), Positives = 58/119 (48%), Gaps = 21/119 (17%)
Query: 99 SLGHSAGLFNLGNTCYMNSTIQCLHSVPELKSALIK--YSQ----SGRSNDVDQSSHMLT 152
S GH GL NLGNTC++N+ +QCL S L+ ++ + Q GR+ + LT
Sbjct: 19 SSGH-VGLRNLGNTCFLNAVLQCLSSTRPLRDFCLRRDFRQEVPGGGRAQE-------LT 70
Query: 153 VATSELFNDL--DKSVKPVAPMQFWMLLRKKYPQFGQLHNGTFMQQDAEECWTQLLYTL 209
A +++ L S + V P +F + +K P F + QQDA+E L+ L
Sbjct: 71 EAFADVIGALWHPDSCEAVNPTRFRAVFQKYVPSF-----SGYSQQDAQEFLKLLMERL 124
>pdb|3I3T|A Chain A, Crystal Structure Of Covalent Ubiquitin-usp21 Complex
pdb|3I3T|C Chain C, Crystal Structure Of Covalent Ubiquitin-usp21 Complex
pdb|3I3T|E Chain E, Crystal Structure Of Covalent Ubiquitin-usp21 Complex
pdb|3I3T|G Chain G, Crystal Structure Of Covalent Ubiquitin-usp21 Complex
Length = 355
Score = 47.0 bits (110), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 35/108 (32%), Positives = 54/108 (50%), Gaps = 21/108 (19%)
Query: 101 GHSAGLFNLGNTCYMNSTIQCLHSVPELKSALIK--YSQ----SGRSNDVDQSSHMLTVA 154
GH GL NLGNTC++N+ +QCL S L+ ++ + Q GR+ + LT A
Sbjct: 2 GH-VGLRNLGNTCFLNAVLQCLSSTRPLRDFCLRRDFRQEVPGGGRAQE-------LTEA 53
Query: 155 TSELFNDL--DKSVKPVAPMQFWMLLRKKYPQFGQLHNGTFMQQDAEE 200
+++ L S + V P +F + +K P F + QQDA+E
Sbjct: 54 FADVIGALWHPDSCEAVNPTRFRAVFQKYVPSF-----SGYSQQDAQE 96
>pdb|3V6C|A Chain A, Crystal Structure Of Usp2 In Complex With Mutated
Ubiquitin
pdb|3V6E|A Chain A, Crystal Structure Of Usp2 And A Mutant Form Of Ubiquitin
Length = 367
Score = 46.6 bits (109), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 43/139 (30%), Positives = 63/139 (45%), Gaps = 24/139 (17%)
Query: 104 AGLFNLGNTCYMNSTIQCLHSVPELKSALIKYSQSGRSNDVDQSSHMLTVATSELFNDLD 163
AGL NLGNTC+MNS +QCL + EL+ + Q D+ S+ T E F L
Sbjct: 29 AGLRNLGNTCFMNSILQCLSNTRELRDYCL---QRLYMRDLHHGSNAHTALVEE-FAKLI 84
Query: 164 KSV---KP---VAPMQFWMLLRKKYPQFGQLHNGTFMQQDAEECWTQLLYTLSQSLRSV- 216
+++ P V+P +F +++ P+F + QQDA+E LL L + V
Sbjct: 85 QTIWTSSPNDVVSPSEFKTQIQRYAPRF-----VGYNQQDAQEFLRFLLDGLHNEVNRVT 139
Query: 217 --------NASEIPDTVKA 227
N +PD K
Sbjct: 140 LRPKSNPENLDHLPDDEKG 158
Score = 31.6 bits (70), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 14/49 (28%), Positives = 25/49 (51%), Gaps = 2/49 (4%)
Query: 415 GIYDLVAVLTHKGRSADSGHYVAWVKQE-SGKWIEYDDDNPLPQREEDI 462
+Y+L AV H G + GHY A+ + +G+W ++D + P +
Sbjct: 301 AVYNLYAVSNHSGTTM-GGHYTAYCRSPGTGEWHTFNDSSVTPMSSSQV 348
>pdb|2HD5|A Chain A, Usp2 In Complex With Ubiquitin
Length = 359
Score = 46.6 bits (109), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 39/119 (32%), Positives = 58/119 (48%), Gaps = 15/119 (12%)
Query: 104 AGLFNLGNTCYMNSTIQCLHSVPELKSALIKYSQSGRSNDVDQSSHMLTVATSELFNDLD 163
AGL NLGNTC+MNS +QCL + EL+ + Q D+ S+ T E F L
Sbjct: 10 AGLRNLGNTCFMNSILQCLSNTRELRDYCL---QRLYMRDLHHGSNAHTALVEE-FAKLI 65
Query: 164 KSV---KP---VAPMQFWMLLRKKYPQFGQLHNGTFMQQDAEECWTQLLYTLSQSLRSV 216
+++ P V+P +F +++ P+F + QQDA+E LL L + V
Sbjct: 66 QTIWTSSPNDVVSPSEFKTQIQRYAPRF-----VGYNQQDAQEFLRFLLDGLHNEVNRV 119
Score = 31.6 bits (70), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 14/43 (32%), Positives = 24/43 (55%), Gaps = 2/43 (4%)
Query: 415 GIYDLVAVLTHKGRSADSGHYVAWVKQE-SGKWIEYDDDNPLP 456
+Y+L AV H G + GHY A+ + +G+W ++D + P
Sbjct: 282 AVYNLYAVSNHSGTTM-GGHYTAYCRSPGTGEWHTFNDSSVTP 323
>pdb|2IBI|A Chain A, Covalent Ubiquitin-Usp2 Complex
Length = 374
Score = 46.6 bits (109), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 43/139 (30%), Positives = 63/139 (45%), Gaps = 24/139 (17%)
Query: 104 AGLFNLGNTCYMNSTIQCLHSVPELKSALIKYSQSGRSNDVDQSSHMLTVATSELFNDLD 163
AGL NLGNTC+MNS +QCL + EL+ + Q D+ S+ T E F L
Sbjct: 36 AGLRNLGNTCFMNSILQCLSNTRELRDYCL---QRLYMRDLHHGSNAHTALVEE-FAKLI 91
Query: 164 KSV---KP---VAPMQFWMLLRKKYPQFGQLHNGTFMQQDAEECWTQLLYTLSQSLRSV- 216
+++ P V+P +F +++ P+F + QQDA+E LL L + V
Sbjct: 92 QTIWTSSPNDVVSPSEFKTQIQRYAPRF-----VGYNQQDAQEFLRFLLDGLHNEVNRVT 146
Query: 217 --------NASEIPDTVKA 227
N +PD K
Sbjct: 147 LRPKSNPENLDHLPDDEKG 165
Score = 31.6 bits (70), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 14/49 (28%), Positives = 25/49 (51%), Gaps = 2/49 (4%)
Query: 415 GIYDLVAVLTHKGRSADSGHYVAWVKQE-SGKWIEYDDDNPLPQREEDI 462
+Y+L AV H G + GHY A+ + +G+W ++D + P +
Sbjct: 308 AVYNLYAVSNHSGTTM-GGHYTAYCRSPGTGEWHTFNDSSVTPMSSSQV 355
>pdb|3N3K|A Chain A, The Catalytic Domain Of Usp8 In Complex With A Usp8
Specific Inhibitor
Length = 396
Score = 45.8 bits (107), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 37/122 (30%), Positives = 62/122 (50%), Gaps = 18/122 (14%)
Query: 104 AGLFNLGNTCYMNSTIQCLHSVPELKSALIKYSQSGRSNDVDQSS---HMLTVATSELFN 160
GL NLGNTCYMNS +QCL + P L ++++ +D+++S+ H VA E F
Sbjct: 63 TGLRNLGNTCYMNSILQCLCNAPHLADY---FNRNCYQDDINRSNLLGHKGEVA--EEFG 117
Query: 161 DLDKSV-----KPVAPMQFWMLLRKKYPQFGQLHNGTFMQQDAEECWTQLLYTLSQSLRS 215
+ K++ + ++P F + + K QF + QQD++E L+ L + L
Sbjct: 118 IIMKALWTGQYRYISPKDFKITIGKINDQF-----AGYSQQDSQELLLFLMDGLHEDLNK 172
Query: 216 VN 217
+
Sbjct: 173 AD 174
>pdb|3MHH|A Chain A, Structure Of The Saga Ubp8SGF11SUS1SGF73 DUB MODULE
pdb|3MHS|A Chain A, Structure Of The Saga Ubp8SGF11SUS1SGF73 DUB MODULE BOUND
Ubiquitin Aldehyde
pdb|4FJC|A Chain A, Structure Of The Saga Ubp8SGF11(1-72, Delta-Znf)SUS1SGF73
DUB Module
pdb|4FJC|E Chain E, Structure Of The Saga Ubp8SGF11(1-72, Delta-Znf)SUS1SGF73
DUB Module
Length = 476
Score = 45.8 bits (107), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 20/70 (28%), Positives = 39/70 (55%), Gaps = 8/70 (11%)
Query: 416 IYDLVAVLTHKGRSADSGHYVAWVKQESGKWIEYDDDNPLPQREEDITKLSGGGDWHMAY 475
IY+L+ +++HKG + + GHY+A+ K G+W +++D +E++ K AY
Sbjct: 415 IYELIGIVSHKG-TVNEGHYIAFCKISGGQWFKFNDSMVSSISQEEVLK-------EQAY 466
Query: 476 ICMYKARSIS 485
+ Y R ++
Sbjct: 467 LLFYTIRQVN 476
Score = 33.5 bits (75), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 40/134 (29%), Positives = 57/134 (42%), Gaps = 23/134 (17%)
Query: 104 AGLFNLGNTCYMNSTIQCL--------HSVPELKSALIKYSQSGRSNDVDQSSHMLTVAT 155
+GL N+G+TC+M+S +QCL HS+ ++ S K RS D S L
Sbjct: 142 SGLINMGSTCFMSSILQCLIHNPYFIRHSMSQIHSNNCKV----RSPD-KCFSCALDKIV 196
Query: 156 SELFNDLD------KSVKPVAPMQFWMLLRKKYPQFGQLHNGTFMQQDAEECWTQLLYTL 209
EL+ L+ S F LL + L + QQDA E W ++ +
Sbjct: 197 HELYGALNTKQASSSSTSTNRQTGFIYLLTCAWKINQNL--AGYSQQDAHEFWQFIINQI 254
Query: 210 SQS--LRSVNASEI 221
QS L NA E+
Sbjct: 255 HQSYVLDLPNAKEV 268
>pdb|4FIP|A Chain A, Structure Of The Saga Ubp8(S144n)SGF11(1-72,
Delta-Znf)SUS1SGF73 Dub Module
pdb|4FIP|E Chain E, Structure Of The Saga Ubp8(S144n)SGF11(1-72,
Delta-Znf)SUS1SGF73 Dub Module
pdb|4FK5|A Chain A, Structure Of The Saga Ubp8(S144n)SGF11SUS1SGF73 DUB MODULE
Length = 476
Score = 45.8 bits (107), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 20/70 (28%), Positives = 39/70 (55%), Gaps = 8/70 (11%)
Query: 416 IYDLVAVLTHKGRSADSGHYVAWVKQESGKWIEYDDDNPLPQREEDITKLSGGGDWHMAY 475
IY+L+ +++HKG + + GHY+A+ K G+W +++D +E++ K AY
Sbjct: 415 IYELIGIVSHKG-TVNEGHYIAFCKISGGQWFKFNDSMVSSISQEEVLK-------EQAY 466
Query: 476 ICMYKARSIS 485
+ Y R ++
Sbjct: 467 LLFYTIRQVN 476
Score = 35.8 bits (81), Expect = 0.051, Method: Compositional matrix adjust.
Identities = 41/134 (30%), Positives = 57/134 (42%), Gaps = 23/134 (17%)
Query: 104 AGLFNLGNTCYMNSTIQCL--------HSVPELKSALIKYSQSGRSNDVDQSSHMLTVAT 155
+GL N+GNTC+M+S +QCL HS+ ++ S K RS D S L
Sbjct: 142 SGLINMGNTCFMSSILQCLIHNPYFIRHSMSQIHSNNCKV----RSPD-KCFSCALDKIV 196
Query: 156 SELFNDLD------KSVKPVAPMQFWMLLRKKYPQFGQLHNGTFMQQDAEECWTQLLYTL 209
EL+ L+ S F LL + L + QQDA E W ++ +
Sbjct: 197 HELYGALNTKQASSSSTSTNRQTGFIYLLTCAWKINQNL--AGYSQQDAHEFWQFIINQI 254
Query: 210 SQS--LRSVNASEI 221
QS L NA E+
Sbjct: 255 HQSYVLDLPNAKEV 268
>pdb|3M99|A Chain A, Structure Of The Ubp8-Sgf11-Sgf73-Sus1 Saga Dub Module
Length = 471
Score = 45.4 bits (106), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 20/70 (28%), Positives = 39/70 (55%), Gaps = 8/70 (11%)
Query: 416 IYDLVAVLTHKGRSADSGHYVAWVKQESGKWIEYDDDNPLPQREEDITKLSGGGDWHMAY 475
IY+L+ +++HKG + + GHY+A+ K G+W +++D +E++ K AY
Sbjct: 410 IYELIGIVSHKG-TVNEGHYIAFCKISGGQWFKFNDSMVSSISQEEVLK-------EQAY 461
Query: 476 ICMYKARSIS 485
+ Y R ++
Sbjct: 462 LLFYTIRQVN 471
Score = 33.5 bits (75), Expect = 0.29, Method: Compositional matrix adjust.
Identities = 40/134 (29%), Positives = 57/134 (42%), Gaps = 23/134 (17%)
Query: 104 AGLFNLGNTCYMNSTIQCL--------HSVPELKSALIKYSQSGRSNDVDQSSHMLTVAT 155
+GL N+G+TC+M+S +QCL HS+ ++ S K RS D S L
Sbjct: 137 SGLINMGSTCFMSSILQCLIHNPYFIRHSMSQIHSNNCKV----RSPDKCFSC-ALDKIV 191
Query: 156 SELFNDLD------KSVKPVAPMQFWMLLRKKYPQFGQLHNGTFMQQDAEECWTQLLYTL 209
EL+ L+ S F LL + L + QQDA E W ++ +
Sbjct: 192 HELYGALNTKQASSSSTSTNRQTGFIYLLTCAWKINQNL--AGYSQQDAHEFWQFIINQI 249
Query: 210 SQS--LRSVNASEI 221
QS L NA E+
Sbjct: 250 HQSYVLDLPNAKEV 263
>pdb|2LGD|A Chain A, The High Resolution Structure Of Ubiquitin Like Domain
Of Ublcp1
Length = 83
Score = 44.7 bits (104), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 29/78 (37%), Positives = 41/78 (52%), Gaps = 3/78 (3%)
Query: 2 LTVSVKWQKEVFSNVEIDTSQTPYVFKCQLYDLTGVPPERQKIM---VKGGLLKDDSDWS 58
L + VKW + +S + T K L LTGV PERQK++ VKG ++D
Sbjct: 5 LPIIVKWGGQEYSVTTLSEDDTVLDLKQFLKTLTGVLPERQKLLGLKVKGKPAENDVKLG 64
Query: 59 MLGVKQGQRLMMMGTADE 76
L +K ++MMMGT +E
Sbjct: 65 ALKLKPNTKIMMMGTREE 82
>pdb|2GFO|A Chain A, Structure Of The Catalytic Domain Of Human Ubiquitin
Carboxyl-terminal Hydrolase 8
Length = 396
Score = 43.9 bits (102), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 33/105 (31%), Positives = 55/105 (52%), Gaps = 18/105 (17%)
Query: 104 AGLFNLGNTCYMNSTIQCLHSVPELKSALIKYSQSGRSNDVDQSS---HMLTVATSELFN 160
GL NLGNTCY NS +QCL + P L ++++ +D+++S+ H VA E F
Sbjct: 63 TGLRNLGNTCYXNSILQCLCNAPHLADY---FNRNCYQDDINRSNLLGHKGEVA--EEFG 117
Query: 161 DLDKSV-----KPVAPMQFWMLLRKKYPQFGQLHNGTFMQQDAEE 200
+ K++ + ++P F + + K QF + QQD++E
Sbjct: 118 IIXKALWTGQYRYISPKDFKITIGKINDQF-----AGYSQQDSQE 157
>pdb|2KX3|A Chain A, The Solution Structure Of The Mutant Of Ubl Domain Of
Ublcp1, I5m
Length = 81
Score = 43.5 bits (101), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 29/78 (37%), Positives = 41/78 (52%), Gaps = 3/78 (3%)
Query: 2 LTVSVKWQKEVFSNVEIDTSQTPYVFKCQLYDLTGVPPERQKIM---VKGGLLKDDSDWS 58
L + VKW + +S + T K L LTGV PERQK++ VKG ++D
Sbjct: 3 LPMIVKWGGQEYSVTTLSEDDTVLDLKQFLKTLTGVLPERQKLLGLKVKGKPAENDVKLG 62
Query: 59 MLGVKQGQRLMMMGTADE 76
L +K ++MMMGT +E
Sbjct: 63 ALKLKPNTKIMMMGTREE 80
>pdb|2Y6E|A Chain A, Ubiquitin Specific Protease 4 Is Inhibited By Its
Ubiquitin- Like Domain
pdb|2Y6E|B Chain B, Ubiquitin Specific Protease 4 Is Inhibited By Its
Ubiquitin- Like Domain
pdb|2Y6E|C Chain C, Ubiquitin Specific Protease 4 Is Inhibited By Its
Ubiquitin- Like Domain
pdb|2Y6E|D Chain D, Ubiquitin Specific Protease 4 Is Inhibited By Its
Ubiquitin- Like Domain
pdb|2Y6E|E Chain E, Ubiquitin Specific Protease 4 Is Inhibited By Its
Ubiquitin- Like Domain
pdb|2Y6E|F Chain F, Ubiquitin Specific Protease 4 Is Inhibited By Its
Ubiquitin- Like Domain
Length = 367
Score = 43.1 bits (100), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 41/137 (29%), Positives = 59/137 (43%), Gaps = 19/137 (13%)
Query: 104 AGLFNLGNTCYMNSTIQCLHSVPELKSALIK---YSQSGRSNDVDQSSHMLTVATSELFN 160
GL NLGNT +MNS +QCL + L +K ++ R N + + A +EL
Sbjct: 9 CGLGNLGNTXFMNSALQCLSNTAPLTDYFLKDEYEAEINRDNPLGMKGE-IAEAYAELIK 67
Query: 161 DL-DKSVKPVAPMQFWMLLRKKYPQFGQLHNGTFMQQDAEECWTQLLYTLSQSLRSV--- 216
+ VAP F + + PQF + QQD++E LL L + L V
Sbjct: 68 QMWSGRDAHVAPRMFKTQVGRFAPQF-----SGYQQQDSQELLAFLLDGLHEDLNRVKKK 122
Query: 217 ------NASEIPDTVKA 227
+A+ PD V A
Sbjct: 123 PYLELKDANGRPDAVVA 139
Score = 40.8 bits (94), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 25/69 (36%), Positives = 37/69 (53%), Gaps = 11/69 (15%)
Query: 416 IYDLVAVLTHKGRSADSGHYVAWVKQE-SGKWIEYDDDN-PLPQREEDITKLSGGGDWHM 473
+YDL+AV H G + GHY A+ K + +GKW +DD N L ++ +TK
Sbjct: 299 VYDLIAVSNHYG-AMGVGHYTAYAKNKLNGKWYYFDDSNVSLASEDQIVTK--------A 349
Query: 474 AYICMYKAR 482
AY+ Y+ R
Sbjct: 350 AYVLFYQRR 358
>pdb|3NHE|A Chain A, High Resolution Structure (1.26a) Of Usp2a In Complex With
Ubiquitin
Length = 348
Score = 42.4 bits (98), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 42/139 (30%), Positives = 62/139 (44%), Gaps = 24/139 (17%)
Query: 104 AGLFNLGNTCYMNSTIQCLHSVPELKSALIKYSQSGRSNDVDQSSHMLTVATSELFNDLD 163
AGL NLGNT +MNS +QCL + EL+ + Q D+ S+ T E F L
Sbjct: 10 AGLRNLGNTXFMNSILQCLSNTRELRDYCL---QRLYMRDLHHGSNAHTALVEE-FAKLI 65
Query: 164 KSV---KP---VAPMQFWMLLRKKYPQFGQLHNGTFMQQDAEECWTQLLYTLSQSLRSV- 216
+++ P V+P +F +++ P+F + QQDA+E LL L + V
Sbjct: 66 QTIWTSSPNDVVSPSEFKTQIQRYAPRF-----VGYNQQDAQEFLRFLLDGLHNEVNRVT 120
Query: 217 --------NASEIPDTVKA 227
N +PD K
Sbjct: 121 LRPKSNPENLDHLPDDEKG 139
Score = 31.6 bits (70), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 14/43 (32%), Positives = 24/43 (55%), Gaps = 2/43 (4%)
Query: 415 GIYDLVAVLTHKGRSADSGHYVAWVKQE-SGKWIEYDDDNPLP 456
+Y+L AV H G + GHY A+ + +G+W ++D + P
Sbjct: 282 AVYNLYAVSNHSGTTM-GGHYTAYCRSPGTGEWHTFNDSSVTP 323
>pdb|1V5T|A Chain A, Solution Structure Of The Ubiquitin-Like Domain From
Mouse Hypothetical 8430435i17rik Protein
Length = 90
Score = 42.4 bits (98), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 28/77 (36%), Positives = 40/77 (51%), Gaps = 3/77 (3%)
Query: 2 LTVSVKWQKEVFSNVEIDTSQTPYVFKCQLYDLTGVPPERQKIM---VKGGLLKDDSDWS 58
L + VKW + +S + T K L LTGV PERQK++ VKG ++D
Sbjct: 8 LPIIVKWGGQEYSVTTLSEDDTVLDLKQFLKTLTGVLPERQKLLGLKVKGKPAENDVKLG 67
Query: 59 MLGVKQGQRLMMMGTAD 75
L +K ++MMMGT +
Sbjct: 68 ALKLKPNTKIMMMGTRE 84
>pdb|1V86|A Chain A, Solution Structure Of The Ubiquitin Domain From Mouse
D7wsu128e Protein
Length = 95
Score = 37.7 bits (86), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 20/70 (28%), Positives = 38/70 (54%), Gaps = 4/70 (5%)
Query: 15 NVEIDTSQTPYVFKCQLYDLTGVPPERQKIMVKGGLLKDDSDWSMLGVKQGQRLMMMGTA 74
+V++ T K +++ +TG+PP QK+M K GL+ +D + V G ++M++G+
Sbjct: 30 DVKVPLDSTGSELKQKIHSITGLPPAMQKVMYK-GLVPEDKTLREIKVTSGAKIMVVGST 88
Query: 75 DEIVKAPEKG 84
+ P G
Sbjct: 89 ---ISGPSSG 95
>pdb|3SHQ|A Chain A, Crystal Structure Of Ublcp1
Length = 320
Score = 35.8 bits (81), Expect = 0.050, Method: Compositional matrix adjust.
Identities = 28/97 (28%), Positives = 50/97 (51%), Gaps = 8/97 (8%)
Query: 16 VEIDTSQTPYVFKCQLYDLTGVPPERQKIM---VKGGLLKDDSDWSMLGVKQGQRLMMMG 72
V++ T V + +++ T V PERQK++ KG D+ S L +K +LMM+G
Sbjct: 19 VDLTDQDTVEVLRHEIFRKTQVRPERQKLLNLKYKGKTAADNVKISALELKPNFKLMMVG 78
Query: 73 TADEIVK----APEKGPVFVEDLPE-EEQVLSLGHSA 104
+ + ++ P+ V+D + +E+ S+ HSA
Sbjct: 79 STEADIEDACSLPDNIGEVVDDFDDADEREESVAHSA 115
>pdb|2JVC|A Chain A, Nmr Solution Structure Of Ubiquitin Like Protein
Length = 82
Score = 34.3 bits (77), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 13/44 (29%), Positives = 27/44 (61%)
Query: 15 NVEIDTSQTPYVFKCQLYDLTGVPPERQKIMVKGGLLKDDSDWS 58
+++D + T K ++YD G+PP++Q+++ G L+D + S
Sbjct: 19 TIDVDHADTVGAVKAKIYDKEGIPPDQQRLIFGGKQLEDSNAMS 62
>pdb|1UD7|A Chain A, Solution Structure Of The Designed Hydrophobic Core
Mutant Of Ubiquitin, 1d7
Length = 76
Score = 33.5 bits (75), Expect = 0.27, Method: Composition-based stats.
Identities = 13/38 (34%), Positives = 25/38 (65%)
Query: 16 VEIDTSQTPYVFKCQLYDLTGVPPERQKIMVKGGLLKD 53
+E++ S T FK ++ D G+PP++Q+++ G L+D
Sbjct: 15 IEVEPSDTVENFKAKIQDKEGIPPDQQRLIFAGKQLED 52
>pdb|1WXV|A Chain A, Solution Structure Of The Ubiquitin Domain Of Bcl-2
Binding Athanogene-1
Length = 92
Score = 32.3 bits (72), Expect = 0.57, Method: Compositional matrix adjust.
Identities = 16/41 (39%), Positives = 28/41 (68%), Gaps = 1/41 (2%)
Query: 33 DLTGVPPERQKIMVKGGLLKD-DSDWSMLGVKQGQRLMMMG 72
++ GVP QK++ KG LK+ ++ S LG++ G R+M++G
Sbjct: 43 EVIGVPQSFQKLIFKGKSLKEMETPLSALGIQDGCRVMLIG 83
>pdb|1PDU|A Chain A, Ligand-Binding Domain Of Drosophila Orphan Nuclear
Receptor Dhr38
pdb|1PDU|B Chain B, Ligand-Binding Domain Of Drosophila Orphan Nuclear
Receptor Dhr38
Length = 244
Score = 31.6 bits (70), Expect = 0.90, Method: Compositional matrix adjust.
Identities = 24/94 (25%), Positives = 46/94 (48%), Gaps = 14/94 (14%)
Query: 69 MMMGTADEIVKAPEKGPVFVEDLPEEEQVLSLGHSAGLFNL----------GNTCYMNST 118
++ + D I + EK P + + LPE++++L S LF L + N T
Sbjct: 55 LLTSSVDVIKQFAEKIPGYFDLLPEDQELLFQSASLELFVLRLAYRARIDDTKLIFCNGT 114
Query: 119 I----QCLHSVPELKSALIKYSQSGRSNDVDQSS 148
+ QCL S E + ++++S+S + ++D S+
Sbjct: 115 VLHRTQCLRSFGEWLNDIMEFSRSLHNLEIDISA 148
>pdb|1SIF|A Chain A, Crystal Structure Of A Multiple Hydrophobic Core Mutant
Of Ubiquitin
Length = 88
Score = 31.6 bits (70), Expect = 1.1, Method: Composition-based stats.
Identities = 15/56 (26%), Positives = 31/56 (55%)
Query: 16 VEIDTSQTPYVFKCQLYDLTGVPPERQKIMVKGGLLKDDSDWSMLGVKQGQRLMMM 71
VE++ S T K ++ D G+PP++Q+++ G L+D S +++ L ++
Sbjct: 24 VEMEPSDTIENLKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLV 79
>pdb|1C3T|A Chain A, Rotamer Strain As A Determinant Of Protein Structural
Specificity
Length = 76
Score = 31.2 bits (69), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 15/48 (31%), Positives = 29/48 (60%), Gaps = 3/48 (6%)
Query: 15 NVEIDTSQTPYVFKCQLYDLTGVPPERQKIMVKGGLLKDD---SDWSM 59
VE++ S T K ++ D G+PP++Q+++ G L+D SD+++
Sbjct: 14 TVELEPSDTVENLKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNL 61
>pdb|2KD0|A Chain A, Nmr Solution Structure Of O64736 Protein From
Arabidopsis Thaliana. Northeast Structural Genomics
Consortium Mega Target Ar3445a
Length = 85
Score = 31.2 bits (69), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 17/47 (36%), Positives = 25/47 (53%)
Query: 27 FKCQLYDLTGVPPERQKIMVKGGLLKDDSDWSMLGVKQGQRLMMMGT 73
K QL +T V P QK++ KG +L + S V G +LM+M +
Sbjct: 37 LKSQLQPITNVLPRGQKLIFKGKVLVETSTLKQSDVGSGAKLMLMAS 83
>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 = 30.8 bits (68), Expect = 1.8, Method: Composition-based stats.
Identities = 14/56 (25%), Positives = 32/56 (57%)
Query: 16 VEIDTSQTPYVFKCQLYDLTGVPPERQKIMVKGGLLKDDSDWSMLGVKQGQRLMMM 71
+E+++S T K ++ D G+PP++Q+++ G L+D S +++ L ++
Sbjct: 15 LEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLV 70
>pdb|4AP4|C Chain C, Rnf4 - Ubch5a - Ubiquitin Heterotrimeric Complex
pdb|4AP4|F Chain F, Rnf4 - Ubch5a - Ubiquitin Heterotrimeric Complex
Length = 80
Score = 30.4 bits (67), Expect = 2.1, Method: Composition-based stats.
Identities = 14/56 (25%), Positives = 31/56 (55%)
Query: 16 VEIDTSQTPYVFKCQLYDLTGVPPERQKIMVKGGLLKDDSDWSMLGVKQGQRLMMM 71
+E++ S T K ++ D G+PP++Q+++ G L+D S +++ L ++
Sbjct: 19 LEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLV 74
>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 = 30.4 bits (67), Expect = 2.2, Method: Composition-based stats.
Identities = 14/56 (25%), Positives = 31/56 (55%)
Query: 16 VEIDTSQTPYVFKCQLYDLTGVPPERQKIMVKGGLLKDDSDWSMLGVKQGQRLMMM 71
+E++ S T K ++ D G+PP++Q+++ G L+D S +++ L ++
Sbjct: 20 LEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLV 75
>pdb|3V6C|B Chain B, Crystal Structure Of Usp2 In Complex With Mutated
Ubiquitin
Length = 91
Score = 30.4 bits (67), Expect = 2.3, Method: Composition-based stats.
Identities = 14/56 (25%), Positives = 31/56 (55%)
Query: 16 VEIDTSQTPYVFKCQLYDLTGVPPERQKIMVKGGLLKDDSDWSMLGVKQGQRLMMM 71
+E++ S T K ++ D G+PP++Q+++ G L+D S +++ L ++
Sbjct: 32 LEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLV 87
>pdb|2OJR|A Chain A, Structure Of Ubiquitin Solved By Sad Using The Lanthanide-
Binding Tag
Length = 111
Score = 30.4 bits (67), Expect = 2.3, Method: Composition-based stats.
Identities = 14/56 (25%), Positives = 31/56 (55%)
Query: 16 VEIDTSQTPYVFKCQLYDLTGVPPERQKIMVKGGLLKDDSDWSMLGVKQGQRLMMM 71
+E++ S T K ++ D G+PP++Q+++ G L+D S +++ L ++
Sbjct: 50 LEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLV 105
>pdb|2XK5|B Chain B, Crystal Structure Of K6-Linked Diubiquitin
Length = 76
Score = 30.4 bits (67), Expect = 2.3, Method: Composition-based stats.
Identities = 14/56 (25%), Positives = 31/56 (55%)
Query: 16 VEIDTSQTPYVFKCQLYDLTGVPPERQKIMVKGGLLKDDSDWSMLGVKQGQRLMMM 71
+E++ S T K ++ D G+PP++Q+++ G L+D S +++ L ++
Sbjct: 15 LEVEPSDTIENVKAKIQDKEGIPPQQQRLIFAGKQLEDGRTLSDYNIQKESTLHLV 70
>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 = 30.4 bits (67), Expect = 2.3, Method: Composition-based stats.
Identities = 14/56 (25%), Positives = 31/56 (55%)
Query: 16 VEIDTSQTPYVFKCQLYDLTGVPPERQKIMVKGGLLKDDSDWSMLGVKQGQRLMMM 71
+E++ S T K ++ D G+PP++Q+++ G L+D S +++ L ++
Sbjct: 16 LEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLV 71
>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 = 30.4 bits (67), Expect = 2.3, Method: Composition-based stats.
Identities = 14/56 (25%), Positives = 31/56 (55%)
Query: 16 VEIDTSQTPYVFKCQLYDLTGVPPERQKIMVKGGLLKDDSDWSMLGVKQGQRLMMM 71
+E++ S T K ++ D G+PP++Q+++ G L+D S +++ L ++
Sbjct: 22 LEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLV 77
>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 = 30.4 bits (67), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 14/56 (25%), Positives = 32/56 (57%)
Query: 16 VEIDTSQTPYVFKCQLYDLTGVPPERQKIMVKGGLLKDDSDWSMLGVKQGQRLMMM 71
+E+++S T K ++ D G+PP++Q+++ G L+D S +++ L ++
Sbjct: 15 LEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLV 70
>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 = 30.4 bits (67), Expect = 2.4, Method: Composition-based stats.
Identities = 14/56 (25%), Positives = 31/56 (55%)
Query: 16 VEIDTSQTPYVFKCQLYDLTGVPPERQKIMVKGGLLKDDSDWSMLGVKQGQRLMMM 71
+E++ S T K ++ D G+PP++Q+++ G L+D S +++ L ++
Sbjct: 15 LEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGXQLEDGRTLSDYNIQRESTLHLV 70
>pdb|1YIW|A Chain A, X-Ray Crystal Structure Of A Chemically Synthesized
Ubiquitin
pdb|1YIW|B Chain B, X-Ray Crystal Structure Of A Chemically Synthesized
Ubiquitin
pdb|1YIW|C Chain C, X-Ray Crystal Structure Of A Chemically Synthesized
Ubiquitin
pdb|2FCQ|A Chain A, X-Ray Crystal Structure Of A Chemically Synthesized
Ubiquitin With A Cubic Space Group
pdb|2FCQ|B Chain B, X-Ray Crystal Structure Of A Chemically Synthesized
Ubiquitin With A Cubic Space Group
Length = 76
Score = 30.4 bits (67), Expect = 2.4, Method: Composition-based stats.
Identities = 14/56 (25%), Positives = 31/56 (55%)
Query: 16 VEIDTSQTPYVFKCQLYDLTGVPPERQKIMVKGGLLKDDSDWSMLGVKQGQRLMMM 71
+E++ S T K ++ D G+PP++Q+++ G L+D S +++ L ++
Sbjct: 15 LEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLV 70
>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 = 30.4 bits (67), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 14/57 (24%), Positives = 31/57 (54%)
Query: 15 NVEIDTSQTPYVFKCQLYDLTGVPPERQKIMVKGGLLKDDSDWSMLGVKQGQRLMMM 71
+E++ S T K ++ D G+PP++Q+++ G L+D S +++ L ++
Sbjct: 22 TLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSEYNIQKESTLHLV 78
>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 = 30.4 bits (67), Expect = 2.5, Method: Composition-based stats.
Identities = 14/56 (25%), Positives = 31/56 (55%)
Query: 16 VEIDTSQTPYVFKCQLYDLTGVPPERQKIMVKGGLLKDDSDWSMLGVKQGQRLMMM 71
+E++ S T K ++ D G+PP++Q+++ G L+D S +++ L ++
Sbjct: 17 LEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLV 72
Score = 30.4 bits (67), Expect = 2.5, Method: Composition-based stats.
Identities = 14/56 (25%), Positives = 31/56 (55%)
Query: 16 VEIDTSQTPYVFKCQLYDLTGVPPERQKIMVKGGLLKDDSDWSMLGVKQGQRLMMM 71
+E++ S T K ++ D G+PP++Q+++ G L+D S +++ L ++
Sbjct: 93 LEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLV 148
>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 = 30.4 bits (67), Expect = 2.5, Method: Composition-based stats.
Identities = 14/56 (25%), Positives = 31/56 (55%)
Query: 16 VEIDTSQTPYVFKCQLYDLTGVPPERQKIMVKGGLLKDDSDWSMLGVKQGQRLMMM 71
+E++ S T K ++ D G+PP++Q+++ G L+D S +++ L ++
Sbjct: 15 LEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQRESTLHLV 70
>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 = 30.4 bits (67), Expect = 2.5, Method: Composition-based stats.
Identities = 14/56 (25%), Positives = 31/56 (55%)
Query: 16 VEIDTSQTPYVFKCQLYDLTGVPPERQKIMVKGGLLKDDSDWSMLGVKQGQRLMMM 71
+E++ S T K ++ D G+PP++Q+++ G L+D S +++ L ++
Sbjct: 15 LEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLV 70
>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 = 30.4 bits (67), Expect = 2.5, Method: Composition-based stats.
Identities = 14/56 (25%), Positives = 31/56 (55%)
Query: 16 VEIDTSQTPYVFKCQLYDLTGVPPERQKIMVKGGLLKDDSDWSMLGVKQGQRLMMM 71
+E++ S T K ++ D G+PP++Q+++ G L+D S +++ L ++
Sbjct: 15 LEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLV 70
>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 = 30.4 bits (67), Expect = 2.5, Method: Composition-based stats.
Identities = 14/56 (25%), Positives = 31/56 (55%)
Query: 16 VEIDTSQTPYVFKCQLYDLTGVPPERQKIMVKGGLLKDDSDWSMLGVKQGQRLMMM 71
+E++ S T K ++ D G+PP++Q+++ G L+D S +++ L ++
Sbjct: 15 LEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLV 70
Score = 30.4 bits (67), Expect = 2.5, Method: Composition-based stats.
Identities = 14/56 (25%), Positives = 31/56 (55%)
Query: 16 VEIDTSQTPYVFKCQLYDLTGVPPERQKIMVKGGLLKDDSDWSMLGVKQGQRLMMM 71
+E++ S T K ++ D G+PP++Q+++ G L+D S +++ L ++
Sbjct: 91 LEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLV 146
>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 = 30.4 bits (67), Expect = 2.5, Method: Composition-based stats.
Identities = 14/56 (25%), Positives = 31/56 (55%)
Query: 16 VEIDTSQTPYVFKCQLYDLTGVPPERQKIMVKGGLLKDDSDWSMLGVKQGQRLMMM 71
+E++ S T K ++ D G+PP++Q+++ G L+D S +++ L ++
Sbjct: 18 LEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLV 73
>pdb|2W9N|A Chain A, Crystal Structure Of Linear Di-Ubiquitin
Length = 152
Score = 30.4 bits (67), Expect = 2.5, Method: Composition-based stats.
Identities = 14/56 (25%), Positives = 31/56 (55%)
Query: 16 VEIDTSQTPYVFKCQLYDLTGVPPERQKIMVKGGLLKDDSDWSMLGVKQGQRLMMM 71
+E++ S T K ++ D G+PP++Q+++ G L+D S +++ L ++
Sbjct: 15 LEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLV 70
Score = 30.4 bits (67), Expect = 2.5, Method: Composition-based stats.
Identities = 14/56 (25%), Positives = 31/56 (55%)
Query: 16 VEIDTSQTPYVFKCQLYDLTGVPPERQKIMVKGGLLKDDSDWSMLGVKQGQRLMMM 71
+E++ S T K ++ D G+PP++Q+++ G L+D S +++ L ++
Sbjct: 91 LEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLV 146
>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 = 30.4 bits (67), Expect = 2.5, Method: Composition-based stats.
Identities = 14/56 (25%), Positives = 31/56 (55%)
Query: 16 VEIDTSQTPYVFKCQLYDLTGVPPERQKIMVKGGLLKDDSDWSMLGVKQGQRLMMM 71
+E++ S T K ++ D G+PP++Q+++ G L+D S +++ L ++
Sbjct: 18 LEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQRESTLHLV 73
>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 = 30.4 bits (67), Expect = 2.5, Method: Composition-based stats.
Identities = 14/56 (25%), Positives = 31/56 (55%)
Query: 16 VEIDTSQTPYVFKCQLYDLTGVPPERQKIMVKGGLLKDDSDWSMLGVKQGQRLMMM 71
+E++ S T K ++ D G+PP++Q+++ G L+D S +++ L ++
Sbjct: 15 LEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLV 70
>pdb|3VDZ|A Chain A, Tailoring Encodable Lanthanide-Binding Tags As Mri
Contrast Agents: Xq-Dse3-Ubiquitin At 2.4 Angstroms
pdb|3VDZ|B Chain B, Tailoring Encodable Lanthanide-Binding Tags As Mri
Contrast Agents: Xq-Dse3-Ubiquitin At 2.4 Angstroms
Length = 111
Score = 30.4 bits (67), Expect = 2.5, Method: Composition-based stats.
Identities = 14/56 (25%), Positives = 31/56 (55%)
Query: 16 VEIDTSQTPYVFKCQLYDLTGVPPERQKIMVKGGLLKDDSDWSMLGVKQGQRLMMM 71
+E++ S T K ++ D G+PP++Q+++ G L+D S +++ L ++
Sbjct: 50 LEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLV 105
>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 = 30.4 bits (67), Expect = 2.5, Method: Composition-based stats.
Identities = 14/56 (25%), Positives = 31/56 (55%)
Query: 16 VEIDTSQTPYVFKCQLYDLTGVPPERQKIMVKGGLLKDDSDWSMLGVKQGQRLMMM 71
+E++ S T K ++ D G+PP++Q+++ G L+D S +++ L ++
Sbjct: 15 LEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLV 70
>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 = 30.4 bits (67), Expect = 2.6, Method: Composition-based stats.
Identities = 14/56 (25%), Positives = 31/56 (55%)
Query: 16 VEIDTSQTPYVFKCQLYDLTGVPPERQKIMVKGGLLKDDSDWSMLGVKQGQRLMMM 71
+E++ S T K ++ D G+PP++Q+++ G L+D S +++ L ++
Sbjct: 15 LEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLV 70
>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 = 30.4 bits (67), Expect = 2.6, Method: Composition-based stats.
Identities = 14/56 (25%), Positives = 31/56 (55%)
Query: 16 VEIDTSQTPYVFKCQLYDLTGVPPERQKIMVKGGLLKDDSDWSMLGVKQGQRLMMM 71
+E++ S T K ++ D G+PP++Q+++ G L+D S +++ L ++
Sbjct: 15 LEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLV 70
>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 = 30.4 bits (67), Expect = 2.6, Method: Composition-based stats.
Identities = 14/56 (25%), Positives = 31/56 (55%)
Query: 16 VEIDTSQTPYVFKCQLYDLTGVPPERQKIMVKGGLLKDDSDWSMLGVKQGQRLMMM 71
+E++ S T K ++ D G+PP++Q+++ G L+D S +++ L ++
Sbjct: 15 LEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLV 70
>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 = 30.4 bits (67), Expect = 2.6, Method: Composition-based stats.
Identities = 14/56 (25%), Positives = 31/56 (55%)
Query: 16 VEIDTSQTPYVFKCQLYDLTGVPPERQKIMVKGGLLKDDSDWSMLGVKQGQRLMMM 71
+E++ S T K ++ D G+PP++Q+++ G L+D S +++ L ++
Sbjct: 23 LEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLV 78
>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 = 30.0 bits (66), Expect = 2.6, Method: Composition-based stats.
Identities = 14/56 (25%), Positives = 31/56 (55%)
Query: 16 VEIDTSQTPYVFKCQLYDLTGVPPERQKIMVKGGLLKDDSDWSMLGVKQGQRLMMM 71
+E++ S T K ++ D G+PP++Q+++ G L+D S +++ L ++
Sbjct: 15 LEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLV 70
Score = 30.0 bits (66), Expect = 2.6, Method: Composition-based stats.
Identities = 14/56 (25%), Positives = 31/56 (55%)
Query: 16 VEIDTSQTPYVFKCQLYDLTGVPPERQKIMVKGGLLKDDSDWSMLGVKQGQRLMMM 71
+E++ S T K ++ D G+PP++Q+++ G L+D S +++ L ++
Sbjct: 91 LEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLV 146
>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 = 30.0 bits (66), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 14/47 (29%), Positives = 30/47 (63%), Gaps = 3/47 (6%)
Query: 16 VEIDTSQTPYVFKCQLYDLTGVPPERQKIMVKGGLLKDD---SDWSM 59
+E+++S T K ++ D G+PP++Q+++ G L+D SD+++
Sbjct: 18 LEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNI 64
>pdb|3AI5|A Chain A, Crystal Structure Of Yeast Enhanced Green Fluorescent
Protein- Ubiquitin Fusion Protein
Length = 307
Score = 30.0 bits (66), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 14/56 (25%), Positives = 31/56 (55%)
Query: 16 VEIDTSQTPYVFKCQLYDLTGVPPERQKIMVKGGLLKDDSDWSMLGVKQGQRLMMM 71
+E++ S T K ++ D G+PP++Q+++ G L+D S +++ L ++
Sbjct: 248 LEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLV 303
>pdb|2KDI|A Chain A, Solution Structure Of A UbiquitinUIM FUSION PROTEIN
Length = 114
Score = 30.0 bits (66), Expect = 2.7, Method: Composition-based stats.
Identities = 19/70 (27%), Positives = 35/70 (50%), Gaps = 9/70 (12%)
Query: 16 VEIDTSQTPYVFKCQLYDLTGVPPERQKIMVKGGLLKDDSDWSMLGVKQGQRL------- 68
+E+++S T K ++ D G+PP++Q+++ G L+D S +++ L
Sbjct: 24 LEVESSDTIDNVKSKIQDKEGIPPDQQRLIWAGKQLEDGRTLSDYNIQRESTLHLVLRLR 83
Query: 69 --MMMGTADE 76
M G ADE
Sbjct: 84 GGSMGGAADE 93
>pdb|3V6E|B Chain B, Crystal Structure Of Usp2 And A Mutant Form Of Ubiquitin
Length = 91
Score = 30.0 bits (66), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 13/43 (30%), Positives = 25/43 (58%)
Query: 16 VEIDTSQTPYVFKCQLYDLTGVPPERQKIMVKGGLLKDDSDWS 58
+E++ S T K ++ D G+PP++Q+++ G L+D S
Sbjct: 32 LEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLS 74
>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 = 30.0 bits (66), Expect = 2.9, Method: Composition-based stats.
Identities = 14/56 (25%), Positives = 31/56 (55%)
Query: 16 VEIDTSQTPYVFKCQLYDLTGVPPERQKIMVKGGLLKDDSDWSMLGVKQGQRLMMM 71
+E++ S T K ++ D G+PP++Q+++ G L+D S +++ L ++
Sbjct: 15 LEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLV 70
>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 = 30.0 bits (66), Expect = 2.9, Method: Composition-based stats.
Identities = 14/56 (25%), Positives = 31/56 (55%)
Query: 16 VEIDTSQTPYVFKCQLYDLTGVPPERQKIMVKGGLLKDDSDWSMLGVKQGQRLMMM 71
+E++ S T K ++ D G+PP++Q+++ G L+D S +++ L ++
Sbjct: 15 LEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLV 70
>pdb|3ONS|A Chain A, Crystal Structure Of Human Ubiquitin In A New Crystal
Form
Length = 72
Score = 30.0 bits (66), Expect = 2.9, Method: Composition-based stats.
Identities = 14/56 (25%), Positives = 31/56 (55%)
Query: 16 VEIDTSQTPYVFKCQLYDLTGVPPERQKIMVKGGLLKDDSDWSMLGVKQGQRLMMM 71
+E++ S T K ++ D G+PP++Q+++ G L+D S +++ L ++
Sbjct: 15 LEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLV 70
>pdb|1ZGU|B Chain B, Solution Structure Of The Human Mms2-Ubiquitin Complex
Length = 76
Score = 30.0 bits (66), Expect = 2.9, Method: Composition-based stats.
Identities = 14/56 (25%), Positives = 31/56 (55%)
Query: 16 VEIDTSQTPYVFKCQLYDLTGVPPERQKIMVKGGLLKDDSDWSMLGVKQGQRLMMM 71
+E++ S T K ++ D G+PP++Q+++ G L+D S +++ L ++
Sbjct: 15 LEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGRQLEDGRTLSDYNIQKESTLHLV 70
>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 = 30.0 bits (66), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 14/56 (25%), Positives = 32/56 (57%)
Query: 16 VEIDTSQTPYVFKCQLYDLTGVPPERQKIMVKGGLLKDDSDWSMLGVKQGQRLMMM 71
+E+++S T K ++ D G+PP++Q+++ G L+D S +++ L ++
Sbjct: 15 LEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLV 70
>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 = 30.0 bits (66), Expect = 3.0, Method: Composition-based stats.
Identities = 14/56 (25%), Positives = 31/56 (55%)
Query: 16 VEIDTSQTPYVFKCQLYDLTGVPPERQKIMVKGGLLKDDSDWSMLGVKQGQRLMMM 71
+E++ S T K ++ D G+PP++Q+++ G L+D S +++ L ++
Sbjct: 15 LEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGRQLEDGRTLSDYNIQRESTLHLV 70
>pdb|2JWZ|A Chain A, Mutations In The Hydrophobic Core Of Ubiquitin
Differentially Affect Its Recognition By Receptor
Proteins
Length = 76
Score = 30.0 bits (66), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 14/48 (29%), Positives = 30/48 (62%), Gaps = 3/48 (6%)
Query: 15 NVEIDTSQTPYVFKCQLYDLTGVPPERQKIMVKGGLLKDD---SDWSM 59
+E+++S T K ++ D G+PP++Q+++ G L+D SD+++
Sbjct: 14 TLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNI 61
>pdb|3K9O|B Chain B, The Crystal Structure Of E2-25k And Ubb+1 Complex
Length = 96
Score = 30.0 bits (66), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 14/57 (24%), Positives = 31/57 (54%)
Query: 15 NVEIDTSQTPYVFKCQLYDLTGVPPERQKIMVKGGLLKDDSDWSMLGVKQGQRLMMM 71
+E++ S T K ++ D G+PP++Q+++ G L+D S +++ L ++
Sbjct: 15 TLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLV 71
>pdb|3NOB|A Chain A, Structure Of K11-Linked Di-Ubiquitin
pdb|3NOB|B Chain B, Structure Of K11-Linked Di-Ubiquitin
pdb|3NOB|C Chain C, Structure Of K11-Linked Di-Ubiquitin
pdb|3NOB|D Chain D, Structure Of K11-Linked Di-Ubiquitin
pdb|3NOB|E Chain E, Structure Of K11-Linked Di-Ubiquitin
pdb|3NOB|F Chain F, Structure Of K11-Linked Di-Ubiquitin
pdb|3NOB|G Chain G, Structure Of K11-Linked Di-Ubiquitin
pdb|3NOB|H Chain H, Structure Of K11-Linked Di-Ubiquitin
Length = 78
Score = 30.0 bits (66), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 13/44 (29%), Positives = 25/44 (56%)
Query: 15 NVEIDTSQTPYVFKCQLYDLTGVPPERQKIMVKGGLLKDDSDWS 58
+E++ S T K ++ D G+PP++Q+++ G L+D S
Sbjct: 16 TLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLS 59
>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 = 30.0 bits (66), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 13/44 (29%), Positives = 26/44 (59%)
Query: 15 NVEIDTSQTPYVFKCQLYDLTGVPPERQKIMVKGGLLKDDSDWS 58
+E+++S T K ++ D G+PP++Q+++ G L+D S
Sbjct: 34 TLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLS 77
>pdb|3N3K|B Chain B, The Catalytic Domain Of Usp8 In Complex With A Usp8
Specific Inhibitor
Length = 85
Score = 30.0 bits (66), Expect = 3.3, Method: Composition-based stats.
Identities = 12/38 (31%), Positives = 24/38 (63%)
Query: 16 VEIDTSQTPYVFKCQLYDLTGVPPERQKIMVKGGLLKD 53
+E++ S T K ++ D G+PP++Q+++ G L+D
Sbjct: 18 LEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLED 55
>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 = 29.6 bits (65), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 13/44 (29%), Positives = 26/44 (59%)
Query: 15 NVEIDTSQTPYVFKCQLYDLTGVPPERQKIMVKGGLLKDDSDWS 58
+E+++S T K ++ D G+PP++Q+++ G L+D S
Sbjct: 14 TLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLS 57
>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 = 29.6 bits (65), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 13/44 (29%), Positives = 25/44 (56%)
Query: 15 NVEIDTSQTPYVFKCQLYDLTGVPPERQKIMVKGGLLKDDSDWS 58
+E++ S T K ++ D G+PP++Q+++ G L+D S
Sbjct: 17 TLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLS 60
>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 = 29.6 bits (65), Expect = 3.6, Method: Composition-based stats.
Identities = 11/38 (28%), Positives = 25/38 (65%)
Query: 16 VEIDTSQTPYVFKCQLYDLTGVPPERQKIMVKGGLLKD 53
+E+++S T + ++ D G+PP++Q+++ G L+D
Sbjct: 22 LEVESSDTIDNVRARIQDREGIPPDQQRLIFAGRQLED 59
>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 = 29.6 bits (65), Expect = 3.7, Method: Composition-based stats.
Identities = 12/38 (31%), Positives = 24/38 (63%)
Query: 16 VEIDTSQTPYVFKCQLYDLTGVPPERQKIMVKGGLLKD 53
+E++ S T K ++ D G+PP++Q+++ G L+D
Sbjct: 15 LEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLED 52
>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 = 29.6 bits (65), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 13/44 (29%), Positives = 25/44 (56%)
Query: 15 NVEIDTSQTPYVFKCQLYDLTGVPPERQKIMVKGGLLKDDSDWS 58
+E++ S T K ++ D G+PP++Q+++ G L+D S
Sbjct: 34 TLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLS 77
Score = 29.6 bits (65), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 13/44 (29%), Positives = 25/44 (56%)
Query: 15 NVEIDTSQTPYVFKCQLYDLTGVPPERQKIMVKGGLLKDDSDWS 58
+E++ S T K ++ D G+PP++Q+++ G L+D S
Sbjct: 110 TLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLS 153
>pdb|4HCN|B Chain B, Crystal Structure Of Burkholderia Pseudomallei Effector
Protein Chbp In Complex With Ubiquitin
Length = 98
Score = 29.6 bits (65), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 13/43 (30%), Positives = 26/43 (60%)
Query: 16 VEIDTSQTPYVFKCQLYDLTGVPPERQKIMVKGGLLKDDSDWS 58
+E+++S T K ++ D G+PP++Q+++ G L+D S
Sbjct: 37 LEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLS 79
>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 = 29.6 bits (65), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 12/38 (31%), Positives = 24/38 (63%)
Query: 16 VEIDTSQTPYVFKCQLYDLTGVPPERQKIMVKGGLLKD 53
+E++ S T K ++ D G+PP++Q+++ G L+D
Sbjct: 120 LEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLED 157
>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 = 29.6 bits (65), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 18/76 (23%), Positives = 38/76 (50%), Gaps = 4/76 (5%)
Query: 15 NVEIDTSQTPYVFKCQLYDLTGVPPERQKIMVKGGLLKDDSDWSMLGVKQGQRLMMM--- 71
+E+++S T K ++ D G+PP++Q+++ G L+D S +++ L ++
Sbjct: 14 TLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRL 73
Query: 72 -GTADEIVKAPEKGPV 86
G E +K G +
Sbjct: 74 RGGGGETIKFVADGDI 89
>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 = 29.6 bits (65), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 12/39 (30%), Positives = 24/39 (61%)
Query: 15 NVEIDTSQTPYVFKCQLYDLTGVPPERQKIMVKGGLLKD 53
+E++ S T K ++ D G+PP++Q+++ G L+D
Sbjct: 17 TLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLED 55
>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 = 29.6 bits (65), Expect = 4.3, Method: Composition-based stats.
Identities = 13/56 (23%), Positives = 31/56 (55%)
Query: 16 VEIDTSQTPYVFKCQLYDLTGVPPERQKIMVKGGLLKDDSDWSMLGVKQGQRLMMM 71
++++ S T K ++ D G+PP++Q+++ G L+D S +++ L ++
Sbjct: 15 LDVEASDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLV 70
>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 = 29.3 bits (64), Expect = 5.0, Method: Composition-based stats.
Identities = 15/56 (26%), Positives = 27/56 (48%)
Query: 17 EIDTSQTPYVFKCQLYDLTGVPPERQKIMVKGGLLKDDSDWSMLGVKQGQRLMMMG 72
E+ +T K + L G+ PE Q +++ G L+D++ GV+ L + G
Sbjct: 33 EVTGQETVAQIKAHVASLEGIAPEDQVVLLAGAPLEDEATLGQCGVEALTTLEVAG 88
>pdb|2VHF|A Chain A, Structure Of The Cyld Usp Domain
pdb|2VHF|B Chain B, Structure Of The Cyld Usp Domain
Length = 374
Score = 29.3 bits (64), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 18/66 (27%), Positives = 34/66 (51%), Gaps = 4/66 (6%)
Query: 98 LSLGHSAGLFNLGNTCYMNSTIQCLHSVPE-LKSALIKYSQSGRSNDVDQSSHMLTVATS 156
+ +G G+ N+CY++ST+ CL + L + L++ + NDV+ S + +
Sbjct: 4 IMIGKKKGIQGHYNSCYLDSTLFCLFAFSSVLDTVLLRPKE---KNDVEYYSETQELLRT 60
Query: 157 ELFNDL 162
E+ N L
Sbjct: 61 EIVNPL 66
>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 = 28.9 bits (63), Expect = 6.1, Method: Composition-based stats.
Identities = 16/67 (23%), Positives = 34/67 (50%)
Query: 2 LTVSVKWQKEVFSNVEIDTSQTPYVFKCQLYDLTGVPPERQKIMVKGGLLKDDSDWSMLG 61
+ + VK++ +E++ S T K ++ D G+PP++Q ++ G L+D S
Sbjct: 3 MQIFVKFRTGKTYTLEVEPSDTIENVKAKIQDKLGIPPDQQWLIFAGKRLEDGRTLSDYN 62
Query: 62 VKQGQRL 68
+++ L
Sbjct: 63 IQKESTL 69
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
0.317 0.133 0.399
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 13,504,510
Number of Sequences: 62578
Number of extensions: 542376
Number of successful extensions: 1775
Number of sequences better than 100.0: 94
Number of HSP's better than 100.0 without gapping: 89
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 1646
Number of HSP's gapped (non-prelim): 118
length of query: 486
length of database: 14,973,337
effective HSP length: 103
effective length of query: 383
effective length of database: 8,527,803
effective search space: 3266148549
effective search space used: 3266148549
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 53 (25.0 bits)