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= psy7993
(300 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2KSN|A Chain A, Solution Structure Of The N-Terminal Domain Of Dc-UbpUBTD2
Length = 137
Score = 159 bits (403), Expect = 1e-39, Method: Compositional matrix adjust.
Identities = 73/108 (67%), Positives = 87/108 (80%)
Query: 20 DNANAPNAGLRKNHPLCHEIIRWKSDVPLTEGQLRSKRDEFWDTAPAFEGRKEIWDALHA 79
+N+ L +N PL E +WKSD P+T+GQLRSKRDEFWDTAPAFEGRKEIWDAL A
Sbjct: 5 ENSEGTGVALGRNQPLKKEKPKWKSDYPMTDGQLRSKRDEFWDTAPAFEGRKEIWDALKA 64
Query: 80 AASAAEGNDFQLAQAILDGANISVPNGFLTESYDELGNKYMVPVYCLS 127
AA A E ND +LAQAI+DGANI++P+G LTE YDELGN+Y +PVYCL+
Sbjct: 65 AAHAFESNDHELAQAIIDGANITLPHGALTECYDELGNRYQLPVYCLA 112
>pdb|1TTN|A Chain A, Solution Structure Of The Ubiquitin-Like Domain Of Human
Dc- Ubp From Dendritic Cells
Length = 106
Score = 67.8 bits (164), Expect = 7e-12, Method: Compositional matrix adjust.
Identities = 36/93 (38%), Positives = 60/93 (64%), Gaps = 4/93 (4%)
Query: 190 SPIEVFDLEEGV--GGQEIALKLRLSNTCQDVRMKVFTQETVAMIKKRLQSLEGIETSKQ 247
S IE D+ E G E L+LRLS T +D+++ V + +TV +K+RL + EG+E Q
Sbjct: 6 SDIETLDIPEPPPNSGYECQLRLRLS-TGKDLKLVVRSTDTVFHMKRRLHAAEGVEPGSQ 64
Query: 248 RWYYGGKLLSDKMKISDIQNLASGFVIQVIINN 280
RW++ G+ L+DKMK +++ + +V+QVI++
Sbjct: 65 RWFFSGRPLTDKMKFEELK-IPKDYVVQVIVSQ 96
>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 = 38.1 bits (87), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 22/87 (25%), Positives = 45/87 (51%), Gaps = 3/87 (3%)
Query: 217 QDVRMKVFTQETVAMIKKRLQSLEGIET---SKQRWYYGGKLLSDKMKISDIQNLASGFV 273
Q ++++ ETV ++K+++++ +G + + Q+ Y GK+LSD + I D + FV
Sbjct: 18 QTFKIRMEPDETVKVLKEKIEAEKGRDAFPVAGQKLIYAGKILSDDVPIRDYRIDEKNFV 77
Query: 274 IQVIINNLAGPKLVPPVESMKSVTSSS 300
+ ++ AG P E+ + S
Sbjct: 78 VVMVTKTKAGQGTSAPPEASPTAAPES 104
>pdb|1BT0|A Chain A, Structure Of Ubiquitin-Like Protein, Rub1
Length = 76
Score = 38.1 bits (87), Expect = 0.006, Method: Composition-based stats.
Identities = 19/64 (29%), Positives = 36/64 (56%), Gaps = 1/64 (1%)
Query: 215 TCQDVRMKVFTQETVAMIKKRLQSLEGIETSKQRWYYGGKLLSDKMKISDIQNLASGFVI 274
T +++ + + +T+ IK+R++ EGI +QR Y GK L+D D N+ G V+
Sbjct: 9 TGKEIEIDIEPTDTIDRIKERVEEKEGIPPVQQRLIYAGKQLADDKTAKDY-NIEGGSVL 67
Query: 275 QVII 278
+++
Sbjct: 68 HLVL 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 = 37.0 bits (84), Expect = 0.014, Method: Composition-based stats.
Identities = 22/68 (32%), Positives = 34/68 (50%), Gaps = 13/68 (19%)
Query: 197 LEEGVGGQEIALKLRLSNTCQDVRMKVFTQETVAMIKKRLQSLEGIETSKQRWYYGGKLL 256
+ E VGG+ I L++ S+T ++V+ K+ Q EGI +QR + GK L
Sbjct: 11 VRELVGGKTITLEVEPSDTIENVKAKI-------------QDKEGIPPDQQRLIFAGKQL 57
Query: 257 SDKMKISD 264
D +SD
Sbjct: 58 EDGRTLSD 65
>pdb|2WYQ|A Chain A, The Crystal Structure Of The Ubiquitin-Like (Ubl) Domain
Of Hhr23a (Human Homologue A Of Rad23)
Length = 85
Score = 36.2 bits (82), Expect = 0.021, Method: Composition-based stats.
Identities = 19/70 (27%), Positives = 39/70 (55%), Gaps = 3/70 (4%)
Query: 217 QDVRMKVFTQETVAMIKKRLQSLEG---IETSKQRWYYGGKLLSDKMKISDIQNLASGFV 273
Q ++++ ETV ++K+++++ +G + Q+ Y GK+LSD + I D + FV
Sbjct: 16 QTFKIRMEPDETVKVLKEKIEAEKGRDAFPVAGQKLIYAGKILSDDVPIRDYRIDEKNFV 75
Query: 274 IQVIINNLAG 283
+ ++ AG
Sbjct: 76 VVMVTKTKAG 85
>pdb|4AP4|C Chain C, Rnf4 - Ubch5a - Ubiquitin Heterotrimeric Complex
pdb|4AP4|F Chain F, Rnf4 - Ubch5a - Ubiquitin Heterotrimeric Complex
Length = 80
Score = 36.2 bits (82), Expect = 0.023, Method: Composition-based stats.
Identities = 20/65 (30%), Positives = 35/65 (53%), Gaps = 3/65 (4%)
Query: 200 GVGGQEIALKLRLSNTCQDVRMKVFTQETVAMIKKRLQSLEGIETSKQRWYYGGKLLSDK 259
G G +I +K + T + + ++V +T+ +K ++Q EGI +QR + GK L D
Sbjct: 1 GAMGMQIFVK---TLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDG 57
Query: 260 MKISD 264
+SD
Sbjct: 58 RTLSD 62
>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 = 36.2 bits (82), Expect = 0.023, Method: Composition-based stats.
Identities = 16/50 (32%), Positives = 29/50 (58%)
Query: 215 TCQDVRMKVFTQETVAMIKKRLQSLEGIETSKQRWYYGGKLLSDKMKISD 264
T + + ++V + +T+ +K ++Q EGI +QR + GK L D +SD
Sbjct: 9 TGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSD 58
>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 = 36.2 bits (82), Expect = 0.023, Method: Composition-based stats.
Identities = 16/50 (32%), Positives = 29/50 (58%)
Query: 215 TCQDVRMKVFTQETVAMIKKRLQSLEGIETSKQRWYYGGKLLSDKMKISD 264
T + + ++V + +T+ +K ++Q EGI +QR + GK L D +SD
Sbjct: 29 TGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSD 78
>pdb|4HCN|B Chain B, Crystal Structure Of Burkholderia Pseudomallei Effector
Protein Chbp In Complex With Ubiquitin
Length = 98
Score = 36.2 bits (82), Expect = 0.025, Method: Composition-based stats.
Identities = 16/50 (32%), Positives = 29/50 (58%)
Query: 215 TCQDVRMKVFTQETVAMIKKRLQSLEGIETSKQRWYYGGKLLSDKMKISD 264
T + + ++V + +T+ +K ++Q EGI +QR + GK L D +SD
Sbjct: 31 TGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSD 80
>pdb|2JWZ|A Chain A, Mutations In The Hydrophobic Core Of Ubiquitin
Differentially Affect Its Recognition By Receptor
Proteins
Length = 76
Score = 36.2 bits (82), Expect = 0.026, Method: Composition-based stats.
Identities = 16/50 (32%), Positives = 29/50 (58%)
Query: 215 TCQDVRMKVFTQETVAMIKKRLQSLEGIETSKQRWYYGGKLLSDKMKISD 264
T + + ++V + +T+ +K ++Q EGI +QR + GK L D +SD
Sbjct: 9 TGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSD 58
>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 = 36.2 bits (82), Expect = 0.026, Method: Composition-based stats.
Identities = 16/50 (32%), Positives = 29/50 (58%)
Query: 215 TCQDVRMKVFTQETVAMIKKRLQSLEGIETSKQRWYYGGKLLSDKMKISD 264
T + + ++V + +T+ +K ++Q EGI +QR + GK L D +SD
Sbjct: 12 TGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSD 61
>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 = 35.8 bits (81), Expect = 0.027, Method: Composition-based stats.
Identities = 16/50 (32%), Positives = 28/50 (56%)
Query: 215 TCQDVRMKVFTQETVAMIKKRLQSLEGIETSKQRWYYGGKLLSDKMKISD 264
T + + ++V +T+ +K ++Q EGI +QR + GK L D +SD
Sbjct: 9 TGKTITLEVEPSDTIENVKAKIQDKEGIAADQQRLIFAGKQLEDGRTLSD 58
>pdb|4F8C|B Chain B, Structure Of The Cif:nedd8 Complex - Yersinia
Pseudotuberculosis Cycle Inhibiting Factor In Complex
With Human Nedd8
pdb|4F8C|D Chain D, Structure Of The Cif:nedd8 Complex - Yersinia
Pseudotuberculosis Cycle Inhibiting Factor In Complex
With Human Nedd8
pdb|4FBJ|B Chain B, Structure Of The Cif:nedd8 Complex - Photorhabdus
Luminescens Cycle Inhibiting Factor In Complex With
Human Nedd8
Length = 88
Score = 35.8 bits (81), Expect = 0.034, Method: Composition-based stats.
Identities = 18/64 (28%), Positives = 37/64 (57%), Gaps = 1/64 (1%)
Query: 215 TCQDVRMKVFTQETVAMIKKRLQSLEGIETSKQRWYYGGKLLSDKMKISDIQNLASGFVI 274
T +++ + + + V IK+R++ EGI +QR Y GK ++D+ +D + L G V+
Sbjct: 9 TGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDEKTAADYKILG-GSVL 67
Query: 275 QVII 278
+++
Sbjct: 68 HLVL 71
>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 = 35.8 bits (81), Expect = 0.034, Method: Composition-based stats.
Identities = 19/69 (27%), Positives = 38/69 (55%), Gaps = 1/69 (1%)
Query: 215 TCQDVRMKVFTQETVAMIKKRLQSLEGIETSKQRWYYGGKLLSDKMKISDIQNLASGFVI 274
T +++ + + + V IK+R++ EGI +QR Y GK ++D+ +D + L G V+
Sbjct: 21 TGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDEKTAADYKILG-GSVL 79
Query: 275 QVIINNLAG 283
+++ G
Sbjct: 80 HLVLQLRGG 88
>pdb|4HCP|B Chain B, Crystal Structure Of Burkholderia Pseudomallei Effector
Protein Chbp In Complex With Nedd8
Length = 78
Score = 35.4 bits (80), Expect = 0.035, Method: Composition-based stats.
Identities = 18/64 (28%), Positives = 37/64 (57%), Gaps = 1/64 (1%)
Query: 215 TCQDVRMKVFTQETVAMIKKRLQSLEGIETSKQRWYYGGKLLSDKMKISDIQNLASGFVI 274
T +++ + + + V IK+R++ EGI +QR Y GK ++D+ +D + L G V+
Sbjct: 11 TGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDEKTAADYKILG-GSVL 69
Query: 275 QVII 278
+++
Sbjct: 70 HLVL 73
>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 = 35.4 bits (80), Expect = 0.035, Method: Composition-based stats.
Identities = 18/64 (28%), Positives = 37/64 (57%), Gaps = 1/64 (1%)
Query: 215 TCQDVRMKVFTQETVAMIKKRLQSLEGIETSKQRWYYGGKLLSDKMKISDIQNLASGFVI 274
T +++ + + + V IK+R++ EGI +QR Y GK ++D+ +D + L G V+
Sbjct: 14 TGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDEKTAADYKILG-GSVL 72
Query: 275 QVII 278
+++
Sbjct: 73 HLVL 76
>pdb|1NDD|B Chain B, Structure Of Nedd8
pdb|1NDD|A Chain A, Structure Of Nedd8
pdb|1NDD|C Chain C, Structure Of Nedd8
pdb|1NDD|D Chain D, Structure Of Nedd8
pdb|1R4M|I Chain I, Appbp1-Uba3-Nedd8, An E1-Ubiquitin-Like Protein Complex
pdb|1R4M|J Chain J, Appbp1-Uba3-Nedd8, An E1-Ubiquitin-Like Protein Complex
pdb|1R4M|K Chain K, Appbp1-Uba3-Nedd8, An E1-Ubiquitin-Like Protein Complex
pdb|1R4M|L Chain L, Appbp1-Uba3-Nedd8, An E1-Ubiquitin-Like Protein Complex
pdb|1R4N|I Chain I, Appbp1-Uba3-Nedd8, An E1-Ubiquitin-Like Protein Complex
With Atp
pdb|1R4N|J Chain J, Appbp1-Uba3-Nedd8, An E1-Ubiquitin-Like Protein Complex
With Atp
pdb|1R4N|K Chain K, Appbp1-Uba3-Nedd8, An E1-Ubiquitin-Like Protein Complex
With Atp
pdb|1R4N|L Chain L, Appbp1-Uba3-Nedd8, An E1-Ubiquitin-Like Protein Complex
With Atp
pdb|1XT9|B Chain B, Crystal Structure Of Den1 In Complex With Nedd8
pdb|2KO3|A Chain A, Nedd8 Solution Structure
Length = 76
Score = 35.4 bits (80), Expect = 0.036, Method: Composition-based stats.
Identities = 18/64 (28%), Positives = 37/64 (57%), Gaps = 1/64 (1%)
Query: 215 TCQDVRMKVFTQETVAMIKKRLQSLEGIETSKQRWYYGGKLLSDKMKISDIQNLASGFVI 274
T +++ + + + V IK+R++ EGI +QR Y GK ++D+ +D + L G V+
Sbjct: 9 TGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDEKTAADYKILG-GSVL 67
Query: 275 QVII 278
+++
Sbjct: 68 HLVL 71
>pdb|3GZN|I Chain I, Structure Of Nedd8-Activating Enzyme In Complex With Nedd8
And Mln4924
pdb|3GZN|J Chain J, Structure Of Nedd8-Activating Enzyme In Complex With Nedd8
And Mln4924
Length = 82
Score = 35.4 bits (80), Expect = 0.036, Method: Composition-based stats.
Identities = 18/64 (28%), Positives = 37/64 (57%), Gaps = 1/64 (1%)
Query: 215 TCQDVRMKVFTQETVAMIKKRLQSLEGIETSKQRWYYGGKLLSDKMKISDIQNLASGFVI 274
T +++ + + + V IK+R++ EGI +QR Y GK ++D+ +D + L G V+
Sbjct: 15 TGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDEKTAADYKILG-GSVL 73
Query: 275 QVII 278
+++
Sbjct: 74 HLVL 77
>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 = 35.4 bits (80), Expect = 0.036, Method: Composition-based stats.
Identities = 18/64 (28%), Positives = 37/64 (57%), Gaps = 1/64 (1%)
Query: 215 TCQDVRMKVFTQETVAMIKKRLQSLEGIETSKQRWYYGGKLLSDKMKISDIQNLASGFVI 274
T +++ + + + V IK+R++ EGI +QR Y GK ++D+ +D + L G V+
Sbjct: 21 TGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDEKTAADYKILG-GSVL 79
Query: 275 QVII 278
+++
Sbjct: 80 HLVL 83
>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 = 35.4 bits (80), Expect = 0.036, Method: Compositional matrix adjust.
Identities = 20/63 (31%), Positives = 35/63 (55%), Gaps = 3/63 (4%)
Query: 202 GGQEIALKLRLSNTCQDVRMKVFTQETVAMIKKRLQSLEGIETSKQRWYYGGKLLSDKMK 261
GG +I +K + T + + ++V +T+ +K ++Q EGI +QR + GK L D
Sbjct: 95 GGMQIFVK---TLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRT 151
Query: 262 ISD 264
+SD
Sbjct: 152 LSD 154
Score = 35.0 bits (79), Expect = 0.048, Method: Compositional matrix adjust.
Identities = 23/91 (25%), Positives = 44/91 (48%), Gaps = 9/91 (9%)
Query: 215 TCQDVRMKVFTQETVAMIKKRLQSLEGIETSKQRWYYGGKLLSDKMKISD--IQNLASGF 272
T + + ++V +T+ +K ++Q EGI +QR + GK L D +SD IQ ++
Sbjct: 29 TGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLH 88
Query: 273 VI-------QVIINNLAGPKLVPPVESMKSV 296
++ Q+ + L G + VE ++
Sbjct: 89 LVLRLRGGMQIFVKTLTGKTITLEVEPSDTI 119
>pdb|2BKR|B Chain B, Nedd8 Nedp1 Complex
Length = 77
Score = 35.4 bits (80), Expect = 0.037, Method: Composition-based stats.
Identities = 18/64 (28%), Positives = 37/64 (57%), Gaps = 1/64 (1%)
Query: 215 TCQDVRMKVFTQETVAMIKKRLQSLEGIETSKQRWYYGGKLLSDKMKISDIQNLASGFVI 274
T +++ + + + V IK+R++ EGI +QR Y GK ++D+ +D + L G V+
Sbjct: 10 TGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDEKTAADYKILG-GSVL 68
Query: 275 QVII 278
+++
Sbjct: 69 HLVL 72
>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 = 35.4 bits (80), Expect = 0.038, Method: Compositional matrix adjust.
Identities = 16/50 (32%), Positives = 29/50 (58%)
Query: 215 TCQDVRMKVFTQETVAMIKKRLQSLEGIETSKQRWYYGGKLLSDKMKISD 264
T + + ++V + +T+ +K ++Q EGI +QR + GK L D +SD
Sbjct: 9 TGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSD 58
>pdb|2W9N|A Chain A, Crystal Structure Of Linear Di-Ubiquitin
Length = 152
Score = 35.4 bits (80), Expect = 0.042, Method: Compositional matrix adjust.
Identities = 20/63 (31%), Positives = 35/63 (55%), Gaps = 3/63 (4%)
Query: 202 GGQEIALKLRLSNTCQDVRMKVFTQETVAMIKKRLQSLEGIETSKQRWYYGGKLLSDKMK 261
GG +I +K + T + + ++V +T+ +K ++Q EGI +QR + GK L D
Sbjct: 75 GGMQIFVK---TLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRT 131
Query: 262 ISD 264
+SD
Sbjct: 132 LSD 134
Score = 35.0 bits (79), Expect = 0.051, Method: Compositional matrix adjust.
Identities = 23/91 (25%), Positives = 44/91 (48%), Gaps = 9/91 (9%)
Query: 215 TCQDVRMKVFTQETVAMIKKRLQSLEGIETSKQRWYYGGKLLSDKMKISD--IQNLASGF 272
T + + ++V +T+ +K ++Q EGI +QR + GK L D +SD IQ ++
Sbjct: 9 TGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLH 68
Query: 273 VI-------QVIINNLAGPKLVPPVESMKSV 296
++ Q+ + L G + VE ++
Sbjct: 69 LVLRLRGGMQIFVKTLTGKTITLEVEPSDTI 99
>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 = 35.4 bits (80), Expect = 0.042, Method: Compositional matrix adjust.
Identities = 20/63 (31%), Positives = 35/63 (55%), Gaps = 3/63 (4%)
Query: 202 GGQEIALKLRLSNTCQDVRMKVFTQETVAMIKKRLQSLEGIETSKQRWYYGGKLLSDKMK 261
GG +I +K + T + + ++V +T+ +K ++Q EGI +QR + GK L D
Sbjct: 75 GGMQIFVK---TLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRT 131
Query: 262 ISD 264
+SD
Sbjct: 132 LSD 134
Score = 35.0 bits (79), Expect = 0.054, Method: Compositional matrix adjust.
Identities = 23/91 (25%), Positives = 44/91 (48%), Gaps = 9/91 (9%)
Query: 215 TCQDVRMKVFTQETVAMIKKRLQSLEGIETSKQRWYYGGKLLSDKMKISD--IQNLASGF 272
T + + ++V +T+ +K ++Q EGI +QR + GK L D +SD IQ ++
Sbjct: 9 TGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLH 68
Query: 273 VI-------QVIINNLAGPKLVPPVESMKSV 296
++ Q+ + L G + VE ++
Sbjct: 69 LVLRLRGGMQIFVKTLTGKTITLEVEPSDTI 99
>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 = 35.4 bits (80), Expect = 0.043, Method: Composition-based stats.
Identities = 16/50 (32%), Positives = 28/50 (56%)
Query: 215 TCQDVRMKVFTQETVAMIKKRLQSLEGIETSKQRWYYGGKLLSDKMKISD 264
T + + ++V +T+ +K ++Q EGI +QR + GK L D +SD
Sbjct: 10 TGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSD 59
>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 = 35.4 bits (80), Expect = 0.043, Method: Composition-based stats.
Identities = 19/60 (31%), Positives = 33/60 (55%), Gaps = 2/60 (3%)
Query: 215 TCQDVRMKVFTQETVAMIKKRLQSLEGIETSKQRWYYGGKLLSDKMKISD--IQNLASGF 272
T + + ++V +T+ +K ++Q EGI +QR + GK L D +SD IQ ++ F
Sbjct: 12 TGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKWSTLF 71
>pdb|3JVZ|X Chain X, E2~ubiquitin-Hect
pdb|3JVZ|Y Chain Y, E2~ubiquitin-Hect
pdb|3JW0|X Chain X, E2~ubiquitin-Hect
pdb|3JW0|Y Chain Y, E2~ubiquitin-Hect
pdb|4AUQ|C Chain C, Structure Of Birc7-Ubch5b-Ub Complex.
pdb|4AUQ|F Chain F, Structure Of Birc7-Ubch5b-Ub Complex
Length = 81
Score = 35.4 bits (80), Expect = 0.044, Method: Composition-based stats.
Identities = 16/50 (32%), Positives = 28/50 (56%)
Query: 215 TCQDVRMKVFTQETVAMIKKRLQSLEGIETSKQRWYYGGKLLSDKMKISD 264
T + + ++V +T+ +K ++Q EGI +QR + GK L D +SD
Sbjct: 14 TGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSD 63
>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 = 35.4 bits (80), Expect = 0.044, Method: Compositional matrix adjust.
Identities = 20/63 (31%), Positives = 35/63 (55%), Gaps = 3/63 (4%)
Query: 202 GGQEIALKLRLSNTCQDVRMKVFTQETVAMIKKRLQSLEGIETSKQRWYYGGKLLSDKMK 261
GG +I +K + T + + ++V +T+ +K ++Q EGI +QR + GK L D
Sbjct: 77 GGMQIFVK---TLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRT 133
Query: 262 ISD 264
+SD
Sbjct: 134 LSD 136
Score = 35.0 bits (79), Expect = 0.051, Method: Compositional matrix adjust.
Identities = 23/91 (25%), Positives = 44/91 (48%), Gaps = 9/91 (9%)
Query: 215 TCQDVRMKVFTQETVAMIKKRLQSLEGIETSKQRWYYGGKLLSDKMKISD--IQNLASGF 272
T + + ++V +T+ +K ++Q EGI +QR + GK L D +SD IQ ++
Sbjct: 11 TGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLH 70
Query: 273 VI-------QVIINNLAGPKLVPPVESMKSV 296
++ Q+ + L G + VE ++
Sbjct: 71 LVLRLRGGMQIFVKTLTGKTITLEVEPSDTI 101
>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 = 35.4 bits (80), Expect = 0.044, Method: Composition-based stats.
Identities = 16/50 (32%), Positives = 28/50 (56%)
Query: 215 TCQDVRMKVFTQETVAMIKKRLQSLEGIETSKQRWYYGGKLLSDKMKISD 264
T + + ++V +T+ +K ++Q EGI +QR + GK L D +SD
Sbjct: 9 TGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSD 58
>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 = 35.4 bits (80), Expect = 0.044, Method: Composition-based stats.
Identities = 16/50 (32%), Positives = 28/50 (56%)
Query: 215 TCQDVRMKVFTQETVAMIKKRLQSLEGIETSKQRWYYGGKLLSDKMKISD 264
T + + ++V +T+ +K ++Q EGI +QR + GK L D +SD
Sbjct: 9 TGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSD 58
>pdb|2XK5|B Chain B, Crystal Structure Of K6-Linked Diubiquitin
Length = 76
Score = 35.0 bits (79), Expect = 0.045, Method: Composition-based stats.
Identities = 16/50 (32%), Positives = 28/50 (56%)
Query: 215 TCQDVRMKVFTQETVAMIKKRLQSLEGIETSKQRWYYGGKLLSDKMKISD 264
T + + ++V +T+ +K ++Q EGI +QR + GK L D +SD
Sbjct: 9 TGKTITLEVEPSDTIENVKAKIQDKEGIPPQQQRLIFAGKQLEDGRTLSD 58
>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 = 35.0 bits (79), Expect = 0.045, Method: Composition-based stats.
Identities = 16/50 (32%), Positives = 28/50 (56%)
Query: 215 TCQDVRMKVFTQETVAMIKKRLQSLEGIETSKQRWYYGGKLLSDKMKISD 264
T + + ++V +T+ +K ++Q EGI +QR + GK L D +SD
Sbjct: 9 TGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSD 58
>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 = 35.0 bits (79), Expect = 0.045, Method: Composition-based stats.
Identities = 16/50 (32%), Positives = 28/50 (56%)
Query: 215 TCQDVRMKVFTQETVAMIKKRLQSLEGIETSKQRWYYGGKLLSDKMKISD 264
T + + ++V +T+ +K ++Q EGI +QR + GK L D +SD
Sbjct: 9 TGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSD 58
>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 = 35.0 bits (79), Expect = 0.045, Method: Composition-based stats.
Identities = 16/50 (32%), Positives = 28/50 (56%)
Query: 215 TCQDVRMKVFTQETVAMIKKRLQSLEGIETSKQRWYYGGKLLSDKMKISD 264
T + + ++V +T+ +K ++Q EGI +QR + GK L D +SD
Sbjct: 9 TGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSD 58
>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 = 35.0 bits (79), Expect = 0.047, Method: Composition-based stats.
Identities = 16/50 (32%), Positives = 28/50 (56%)
Query: 215 TCQDVRMKVFTQETVAMIKKRLQSLEGIETSKQRWYYGGKLLSDKMKISD 264
T + + ++V +T+ +K ++Q EGI +QR + GK L D +SD
Sbjct: 12 TGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSD 61
>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 = 35.0 bits (79), Expect = 0.047, Method: Composition-based stats.
Identities = 16/50 (32%), Positives = 28/50 (56%)
Query: 215 TCQDVRMKVFTQETVAMIKKRLQSLEGIETSKQRWYYGGKLLSDKMKISD 264
T + + ++V +T+ +K ++Q EGI +QR + GK L D +SD
Sbjct: 12 TGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSD 61
>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 = 35.0 bits (79), Expect = 0.047, Method: Composition-based stats.
Identities = 16/50 (32%), Positives = 28/50 (56%)
Query: 215 TCQDVRMKVFTQETVAMIKKRLQSLEGIETSKQRWYYGGKLLSDKMKISD 264
T + + ++V +T+ +K ++Q EGI +QR + GK L D +SD
Sbjct: 12 TGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSD 61
>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 = 35.0 bits (79), Expect = 0.047, Method: Composition-based stats.
Identities = 16/50 (32%), Positives = 28/50 (56%)
Query: 215 TCQDVRMKVFTQETVAMIKKRLQSLEGIETSKQRWYYGGKLLSDKMKISD 264
T + + ++V +T+ +K ++Q EGI +QR + GK L D +SD
Sbjct: 9 TGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSD 58
>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 = 35.0 bits (79), Expect = 0.047, Method: Composition-based stats.
Identities = 16/50 (32%), Positives = 28/50 (56%)
Query: 215 TCQDVRMKVFTQETVAMIKKRLQSLEGIETSKQRWYYGGKLLSDKMKISD 264
T + + ++V +T+ +K ++Q EGI +QR + GK L D +SD
Sbjct: 9 TGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSD 58
>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 = 35.0 bits (79), Expect = 0.047, Method: Composition-based stats.
Identities = 16/50 (32%), Positives = 28/50 (56%)
Query: 215 TCQDVRMKVFTQETVAMIKKRLQSLEGIETSKQRWYYGGKLLSDKMKISD 264
T + + ++V +T+ +K ++Q EGI +QR + GK L D +SD
Sbjct: 9 TGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSD 58
>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 = 35.0 bits (79), Expect = 0.047, Method: Composition-based stats.
Identities = 16/50 (32%), Positives = 28/50 (56%)
Query: 215 TCQDVRMKVFTQETVAMIKKRLQSLEGIETSKQRWYYGGKLLSDKMKISD 264
T + + ++V +T+ +K ++Q EGI +QR + GK L D +SD
Sbjct: 9 TGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSD 58
>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 = 35.0 bits (79), Expect = 0.048, Method: Composition-based stats.
Identities = 16/50 (32%), Positives = 28/50 (56%)
Query: 215 TCQDVRMKVFTQETVAMIKKRLQSLEGIETSKQRWYYGGKLLSDKMKISD 264
T + + ++V +T+ +K ++Q EGI +QR + GK L D +SD
Sbjct: 9 TGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSD 58
>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 = 35.0 bits (79), Expect = 0.048, Method: Composition-based stats.
Identities = 16/50 (32%), Positives = 28/50 (56%)
Query: 215 TCQDVRMKVFTQETVAMIKKRLQSLEGIETSKQRWYYGGKLLSDKMKISD 264
T + + ++V +T+ +K ++Q EGI +QR + GK L D +SD
Sbjct: 11 TGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSD 60
>pdb|3ONS|A Chain A, Crystal Structure Of Human Ubiquitin In A New Crystal Form
Length = 72
Score = 35.0 bits (79), Expect = 0.048, Method: Composition-based stats.
Identities = 16/50 (32%), Positives = 28/50 (56%)
Query: 215 TCQDVRMKVFTQETVAMIKKRLQSLEGIETSKQRWYYGGKLLSDKMKISD 264
T + + ++V +T+ +K ++Q EGI +QR + GK L D +SD
Sbjct: 9 TGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSD 58
>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 = 35.0 bits (79), Expect = 0.049, Method: Composition-based stats.
Identities = 16/50 (32%), Positives = 28/50 (56%)
Query: 215 TCQDVRMKVFTQETVAMIKKRLQSLEGIETSKQRWYYGGKLLSDKMKISD 264
T + + ++V +T+ +K ++Q EGI +QR + GK L D +SD
Sbjct: 9 TGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSD 58
>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 = 35.0 bits (79), Expect = 0.052, Method: Compositional matrix adjust.
Identities = 23/91 (25%), Positives = 44/91 (48%), Gaps = 9/91 (9%)
Query: 215 TCQDVRMKVFTQETVAMIKKRLQSLEGIETSKQRWYYGGKLLSDKMKISD--IQNLASGF 272
T + + ++V +T+ +K ++Q EGI +QR + GK L D +SD IQ ++
Sbjct: 9 TGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLH 68
Query: 273 VI-------QVIINNLAGPKLVPPVESMKSV 296
++ Q+ + L G + VE ++
Sbjct: 69 LVLRLRGHMQIFVKTLTGKTITLEVEPSDTI 99
Score = 33.5 bits (75), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 16/50 (32%), Positives = 28/50 (56%)
Query: 215 TCQDVRMKVFTQETVAMIKKRLQSLEGIETSKQRWYYGGKLLSDKMKISD 264
T + + ++V +T+ +K ++Q EGI +QR + GK L D +SD
Sbjct: 85 TGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSD 134
>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 = 35.0 bits (79), Expect = 0.053, Method: Compositional matrix adjust.
Identities = 21/81 (25%), Positives = 44/81 (54%), Gaps = 2/81 (2%)
Query: 215 TCQDVRMKVFTQETVAMIKKRLQSLEGIETSKQRWYYGGKLLSDKMKISDIQNLASGFVI 274
T + + ++V + +T+ +K ++Q EGI +QR + GK L D +SD N+ +
Sbjct: 9 TGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDY-NIQKESTL 67
Query: 275 QVIINNLAGPKLVPPVESMKS 295
+++ L G + P ++++ S
Sbjct: 68 HLVL-RLRGGIIEPSLKALAS 87
>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 = 35.0 bits (79), Expect = 0.055, Method: Composition-based stats.
Identities = 16/50 (32%), Positives = 28/50 (56%)
Query: 215 TCQDVRMKVFTQETVAMIKKRLQSLEGIETSKQRWYYGGKLLSDKMKISD 264
T + + ++V +T+ +K ++Q EGI +QR + GK L D +SD
Sbjct: 9 TGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSD 58
>pdb|3AI5|A Chain A, Crystal Structure Of Yeast Enhanced Green Fluorescent
Protein- Ubiquitin Fusion Protein
Length = 307
Score = 35.0 bits (79), Expect = 0.055, Method: Compositional matrix adjust.
Identities = 16/50 (32%), Positives = 28/50 (56%)
Query: 215 TCQDVRMKVFTQETVAMIKKRLQSLEGIETSKQRWYYGGKLLSDKMKISD 264
T + + ++V +T+ +K ++Q EGI +QR + GK L D +SD
Sbjct: 242 TGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSD 291
>pdb|3K9O|B Chain B, The Crystal Structure Of E2-25k And Ubb+1 Complex
Length = 96
Score = 34.7 bits (78), Expect = 0.059, Method: Composition-based stats.
Identities = 16/50 (32%), Positives = 28/50 (56%)
Query: 215 TCQDVRMKVFTQETVAMIKKRLQSLEGIETSKQRWYYGGKLLSDKMKISD 264
T + + ++V +T+ +K ++Q EGI +QR + GK L D +SD
Sbjct: 10 TGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSD 59
>pdb|1UD7|A Chain A, Solution Structure Of The Designed Hydrophobic Core Mutant
Of Ubiquitin, 1d7
Length = 76
Score = 34.7 bits (78), Expect = 0.060, Method: Composition-based stats.
Identities = 18/50 (36%), Positives = 27/50 (54%)
Query: 215 TCQDVRMKVFTQETVAMIKKRLQSLEGIETSKQRWYYGGKLLSDKMKISD 264
T + V ++V +TV K ++Q EGI +QR + GK L D +SD
Sbjct: 9 TGKTVTIEVEPSDTVENFKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSD 58
>pdb|2JVC|A Chain A, Nmr Solution Structure Of Ubiquitin Like Protein
Length = 82
Score = 34.7 bits (78), Expect = 0.067, Method: Composition-based stats.
Identities = 17/50 (34%), Positives = 27/50 (54%)
Query: 215 TCQDVRMKVFTQETVAMIKKRLQSLEGIETSKQRWYYGGKLLSDKMKISD 264
T + + + V +TV +K ++ EGI +QR +GGK L D +SD
Sbjct: 14 TGKTITIDVDHADTVGAVKAKIYDKEGIPPDQQRLIFGGKQLEDSNAMSD 63
>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 = 34.3 bits (77), Expect = 0.076, Method: Composition-based stats.
Identities = 21/79 (26%), Positives = 45/79 (56%), Gaps = 3/79 (3%)
Query: 200 GVGGQEIALKLRLSNTCQDVRMKVFTQETVAMIKKRLQSLEGIETSKQRWYYGGKLLSDK 259
G GG + +K++ + T +++ + + + V IK+R++ EGI +QR Y GK +D+
Sbjct: 1 GSGGSXL-IKVK-TLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQXNDE 58
Query: 260 MKISDIQNLASGFVIQVII 278
+D + + G V+ +++
Sbjct: 59 KTAADYK-IXGGSVLHLVL 76
>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 = 34.3 bits (77), Expect = 0.077, Method: Compositional matrix adjust.
Identities = 16/50 (32%), Positives = 28/50 (56%)
Query: 215 TCQDVRMKVFTQETVAMIKKRLQSLEGIETSKQRWYYGGKLLSDKMKISD 264
T + + ++V +T+ +K ++Q EGI +QR + GK L D +SD
Sbjct: 44 TGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSD 93
>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 = 34.3 bits (77), Expect = 0.081, Method: Compositional matrix adjust.
Identities = 16/50 (32%), Positives = 29/50 (58%)
Query: 215 TCQDVRMKVFTQETVAMIKKRLQSLEGIETSKQRWYYGGKLLSDKMKISD 264
T + + ++V + +T+ +K ++Q EGI +QR + GK L D +SD
Sbjct: 9 TGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSD 58
>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 = 34.3 bits (77), Expect = 0.084, Method: Composition-based stats.
Identities = 14/50 (28%), Positives = 29/50 (58%)
Query: 215 TCQDVRMKVFTQETVAMIKKRLQSLEGIETSKQRWYYGGKLLSDKMKISD 264
T + + ++V + +T+ ++ R+Q EGI +QR + G+ L D ++D
Sbjct: 16 TGRTITLEVESSDTIDNVRARIQDREGIPPDQQRLIFAGRQLEDGRTLAD 65
>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 = 34.3 bits (77), Expect = 0.084, Method: Compositional matrix adjust.
Identities = 16/50 (32%), Positives = 29/50 (58%)
Query: 215 TCQDVRMKVFTQETVAMIKKRLQSLEGIETSKQRWYYGGKLLSDKMKISD 264
T + + ++V + +T+ +K ++Q EGI +QR + GK L D +SD
Sbjct: 9 TGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSD 58
>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 = 34.3 bits (77), Expect = 0.085, Method: Composition-based stats.
Identities = 15/48 (31%), Positives = 27/48 (56%)
Query: 217 QDVRMKVFTQETVAMIKKRLQSLEGIETSKQRWYYGGKLLSDKMKISD 264
+ + ++V +T+ +K ++Q EGI +QR + GK L D +SD
Sbjct: 19 KTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSD 66
>pdb|2OJR|A Chain A, Structure Of Ubiquitin Solved By Sad Using The Lanthanide-
Binding Tag
Length = 111
Score = 34.3 bits (77), Expect = 0.088, Method: Compositional matrix adjust.
Identities = 16/50 (32%), Positives = 28/50 (56%)
Query: 215 TCQDVRMKVFTQETVAMIKKRLQSLEGIETSKQRWYYGGKLLSDKMKISD 264
T + + ++V +T+ +K ++Q EGI +QR + GK L D +SD
Sbjct: 44 TGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSD 93
>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 = 34.3 bits (77), Expect = 0.088, Method: Composition-based stats.
Identities = 15/50 (30%), Positives = 28/50 (56%)
Query: 215 TCQDVRMKVFTQETVAMIKKRLQSLEGIETSKQRWYYGGKLLSDKMKISD 264
T + + ++V +T+ +K ++Q EGI +QR + G+ L D +SD
Sbjct: 9 TGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGRQLEDGRTLSD 58
>pdb|1ZGU|B Chain B, Solution Structure Of The Human Mms2-Ubiquitin Complex
Length = 76
Score = 34.3 bits (77), Expect = 0.089, Method: Composition-based stats.
Identities = 15/50 (30%), Positives = 28/50 (56%)
Query: 215 TCQDVRMKVFTQETVAMIKKRLQSLEGIETSKQRWYYGGKLLSDKMKISD 264
T + + ++V +T+ +K ++Q EGI +QR + G+ L D +SD
Sbjct: 9 TGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGRQLEDGRTLSD 58
>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 = 34.3 bits (77), Expect = 0.092, Method: Compositional matrix adjust.
Identities = 20/79 (25%), Positives = 40/79 (50%), Gaps = 2/79 (2%)
Query: 215 TCQDVRMKVFTQETVAMIKKRLQSLEGIETSKQRWYYGGKLLSDKMKISDIQNLASGFVI 274
T + + + V +T+ +K ++Q EGI +QR + GK L D +SD N+ +
Sbjct: 9 TGKTITLDVEASDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDY-NIQKESTL 67
Query: 275 QVIINNLAGPKLVPPVESM 293
+++ L G + P + ++
Sbjct: 68 HLVL-RLRGGGMEPTIAAL 85
>pdb|3V6C|B Chain B, Crystal Structure Of Usp2 In Complex With Mutated
Ubiquitin
Length = 91
Score = 34.3 bits (77), Expect = 0.095, Method: Composition-based stats.
Identities = 16/50 (32%), Positives = 27/50 (54%)
Query: 215 TCQDVRMKVFTQETVAMIKKRLQSLEGIETSKQRWYYGGKLLSDKMKISD 264
T + ++V +T+ +K ++Q EGI +QR + GK L D +SD
Sbjct: 26 TGTHITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSD 75
>pdb|3V6E|B Chain B, Crystal Structure Of Usp2 And A Mutant Form Of Ubiquitin
Length = 91
Score = 33.9 bits (76), Expect = 0.11, Method: Composition-based stats.
Identities = 15/48 (31%), Positives = 27/48 (56%)
Query: 217 QDVRMKVFTQETVAMIKKRLQSLEGIETSKQRWYYGGKLLSDKMKISD 264
+ + ++V +T+ +K ++Q EGI +QR + GK L D +SD
Sbjct: 28 KHITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSD 75
>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 = 33.9 bits (76), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 20/71 (28%), Positives = 35/71 (49%), Gaps = 4/71 (5%)
Query: 194 VFDLEEGVGGQEIALKLRLSNTCQDVRMKVFTQETVAMIKKRLQSLEGIETSKQRWYYGG 253
++ + GGQ L T + + ++V +T+ +K ++Q EGI +QR + G
Sbjct: 97 IYKTTDHYGGQIFVKTL----TGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAG 152
Query: 254 KLLSDKMKISD 264
K L D +SD
Sbjct: 153 KQLEDGRTLSD 163
>pdb|2KDI|A Chain A, Solution Structure Of A UbiquitinUIM FUSION PROTEIN
Length = 114
Score = 33.9 bits (76), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 16/50 (32%), Positives = 29/50 (58%)
Query: 215 TCQDVRMKVFTQETVAMIKKRLQSLEGIETSKQRWYYGGKLLSDKMKISD 264
T + + ++V + +T+ +K ++Q EGI +QR + GK L D +SD
Sbjct: 18 TGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIWAGKQLEDGRTLSD 67
>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 = 33.9 bits (76), Expect = 0.12, Method: Composition-based stats.
Identities = 17/64 (26%), Positives = 37/64 (57%), Gaps = 3/64 (4%)
Query: 217 QDVRMKVFTQETVAMIKKRLQSLEG---IETSKQRWYYGGKLLSDKMKISDIQNLASGFV 273
Q ++++ ETV ++K+++++ +G + Q+ Y GK+LSD + I D + FV
Sbjct: 13 QTFKIRMEPDETVKVLKEKIEAEKGRDAFPVAGQKLIYAGKILSDDVPIRDYRIDEKNFV 72
Query: 274 IQVI 277
+ ++
Sbjct: 73 VVMV 76
>pdb|3N3K|B Chain B, The Catalytic Domain Of Usp8 In Complex With A Usp8
Specific Inhibitor
Length = 85
Score = 33.5 bits (75), Expect = 0.15, Method: Composition-based stats.
Identities = 15/44 (34%), Positives = 25/44 (56%)
Query: 221 MKVFTQETVAMIKKRLQSLEGIETSKQRWYYGGKLLSDKMKISD 264
++V +T+ +K ++Q EGI +QR + GK L D +SD
Sbjct: 18 LEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSD 61
>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 = 33.5 bits (75), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 15/50 (30%), Positives = 28/50 (56%)
Query: 215 TCQDVRMKVFTQETVAMIKKRLQSLEGIETSKQRWYYGGKLLSDKMKISD 264
T + + ++V +T+ +K ++Q EGI +QR + GK L D +S+
Sbjct: 17 TGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSE 66
>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 = 33.1 bits (74), Expect = 0.18, Method: Composition-based stats.
Identities = 15/50 (30%), Positives = 27/50 (54%)
Query: 215 TCQDVRMKVFTQETVAMIKKRLQSLEGIETSKQRWYYGGKLLSDKMKISD 264
T + + ++V +T+ +K ++Q EGI +QR + G L D +SD
Sbjct: 9 TGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGXQLEDGRTLSD 58
>pdb|1C3T|A Chain A, Rotamer Strain As A Determinant Of Protein Structural
Specificity
Length = 76
Score = 33.1 bits (74), Expect = 0.20, Method: Composition-based stats.
Identities = 18/52 (34%), Positives = 28/52 (53%), Gaps = 1/52 (1%)
Query: 227 ETVAMIKKRLQSLEGIETSKQRWYYGGKLLSDKMKISDIQNLASGFVIQVII 278
+TV +K ++Q EGI +QR + GK L D +SD NL I +++
Sbjct: 21 DTVENLKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDY-NLQKESTIHLVL 71
>pdb|1OGW|A Chain A, Synthetic Ubiquitin With Fluoro-Leu At 50 And 67
Length = 76
Score = 33.1 bits (74), Expect = 0.20, Method: Composition-based stats.
Identities = 15/50 (30%), Positives = 27/50 (54%)
Query: 215 TCQDVRMKVFTQETVAMIKKRLQSLEGIETSKQRWYYGGKLLSDKMKISD 264
T + + ++V +T+ +K ++Q EGI +QR + GK D +SD
Sbjct: 9 TGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQXEDGRTLSD 58
>pdb|1SIF|A Chain A, Crystal Structure Of A Multiple Hydrophobic Core Mutant Of
Ubiquitin
Length = 88
Score = 33.1 bits (74), Expect = 0.21, Method: Composition-based stats.
Identities = 18/48 (37%), Positives = 25/48 (52%), Gaps = 5/48 (10%)
Query: 222 KVFTQE-----TVAMIKKRLQSLEGIETSKQRWYYGGKLLSDKMKISD 264
K FT E T+ +K ++Q EGI +QR + GK L D +SD
Sbjct: 20 KTFTVEMEPSDTIENLKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSD 67
>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 = 32.7 bits (73), Expect = 0.24, Method: Composition-based stats.
Identities = 15/50 (30%), Positives = 28/50 (56%)
Query: 215 TCQDVRMKVFTQETVAMIKKRLQSLEGIETSKQRWYYGGKLLSDKMKISD 264
T + + ++V +++ IK ++Q EGI +QR + GK L + +SD
Sbjct: 12 TGKTITLEVEPNDSIDAIKAKIQEKEGIPPDQQRLIFAGKQLEEGKTLSD 61
>pdb|1WE7|A Chain A, Solution Structure Of Ubiquitin-Like Domain In Sf3a120
Length = 115
Score = 32.7 bits (73), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 23/88 (26%), Positives = 43/88 (48%), Gaps = 10/88 (11%)
Query: 206 IALKLRLSNTCQDVRMK------VFT---QETVAMIKKRLQSLEGIETSKQRWYYGGKLL 256
+++K+++ N K VFT + V++IK ++ G+ KQ+ Y G +
Sbjct: 26 VSIKVQVPNMQDKTEWKLNGQGLVFTLPLTDQVSVIKVKIHEATGMPAGKQKLQYEGIFI 85
Query: 257 SDKMKISDIQNLASGFVIQVIINNLAGP 284
D ++ N+ASG VI + + +GP
Sbjct: 86 KDSNSLA-YYNMASGAVIHLALKERSGP 112
>pdb|3ZF7|SS Chain s, High-resolution Cryo-electron Microscopy Structure Of The
Trypanosoma Brucei Ribosome
Length = 128
Score = 32.3 bits (72), Expect = 0.33, Method: Compositional matrix adjust.
Identities = 19/79 (24%), Positives = 42/79 (53%), Gaps = 2/79 (2%)
Query: 215 TCQDVRMKVFTQETVAMIKKRLQSLEGIETSKQRWYYGGKLLSDKMKISDIQNLASGFVI 274
T + + ++V +T+ +K ++Q EGI +QR + GK L + ++D N+ +
Sbjct: 9 TGKTIALEVEASDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEEGRTLADY-NIQKESTL 67
Query: 275 QVIINNLAGPKLVPPVESM 293
+++ L G + P +E++
Sbjct: 68 HLVL-RLRGGVMEPTLEAL 85
>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 = 32.0 bits (71), Expect = 0.38, Method: Composition-based stats.
Identities = 15/50 (30%), Positives = 27/50 (54%)
Query: 215 TCQDVRMKVFTQETVAMIKKRLQSLEGIETSKQRWYYGGKLLSDKMKISD 264
T + + ++V +T+ +K ++Q E I +QR + GK L D +SD
Sbjct: 9 TGKTITLEVEPSDTIENVKAKIQDKEXIPPDQQRLIFAGKQLEDGRTLSD 58
>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 = 32.0 bits (71), Expect = 0.40, Method: Composition-based stats.
Identities = 15/50 (30%), Positives = 27/50 (54%)
Query: 215 TCQDVRMKVFTQETVAMIKKRLQSLEGIETSKQRWYYGGKLLSDKMKISD 264
T + + ++V +T+ +K ++Q E I +QR + GK L D +SD
Sbjct: 9 TGKTITLEVEPSDTIENVKAKIQDKEQIPPDQQRLIFAGKQLEDGRTLSD 58
>pdb|1ZW7|A Chain A, Elimination Of The C-Cap In Ubiquitin Structure, Dynamics
And Thermodynamic Consequences
Length = 82
Score = 31.6 bits (70), Expect = 0.63, Method: Composition-based stats.
Identities = 14/50 (28%), Positives = 27/50 (54%)
Query: 215 TCQDVRMKVFTQETVAMIKKRLQSLEGIETSKQRWYYGGKLLSDKMKISD 264
T + ++V + +T+ +K ++Q+ GI +Q + GK L D +SD
Sbjct: 9 TGATITLEVESSDTIDNVKSKIQAAPGIPPDQQELIFAGKQLEDGRTLSD 58
>pdb|4I6L|B Chain B, Crystal Structure Of Otub1 In Complex With Ubiquitin
Variant
Length = 76
Score = 30.4 bits (67), Expect = 1.1, Method: Composition-based stats.
Identities = 16/63 (25%), Positives = 31/63 (49%)
Query: 215 TCQDVRMKVFTQETVAMIKKRLQSLEGIETSKQRWYYGGKLLSDKMKISDIQNLASGFVI 274
T + + ++V +T+ +K ++Q EGI +Q+ + K L D +SD F+
Sbjct: 11 TGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQKLLFARKQLEDGRTLSDYNIHKESFLY 70
Query: 275 QVI 277
V+
Sbjct: 71 LVL 73
>pdb|1V86|A Chain A, Solution Structure Of The Ubiquitin Domain From Mouse
D7wsu128e Protein
Length = 95
Score = 30.4 bits (67), Expect = 1.2, Method: Composition-based stats.
Identities = 23/79 (29%), Positives = 44/79 (55%), Gaps = 4/79 (5%)
Query: 206 IALKLRLSNTCQDVRMKVFTQETVAMIKKRLQSLEGIETSKQRWYYGGKLLSDKMKISDI 265
+ LK+ + T DV KV T + +K+++ S+ G+ + Q+ Y G + DK + +I
Sbjct: 18 VDLKIIWNKTKHDV--KVPLDSTGSELKQKIHSITGLPPAMQKVMYKGLVPEDK-TLREI 74
Query: 266 QNLASGFVIQVIINNLAGP 284
+ + SG I V+ + ++GP
Sbjct: 75 K-VTSGAKIMVVGSTISGP 92
>pdb|1P1A|A Chain A, Nmr Structure Of Ubiquitin-Like Domain Of Hhr23b
Length = 85
Score = 30.0 bits (66), Expect = 1.4, Method: Composition-based stats.
Identities = 15/64 (23%), Positives = 36/64 (56%), Gaps = 3/64 (4%)
Query: 217 QDVRMKVFTQETVAMIKKRLQSLEGIET---SKQRWYYGGKLLSDKMKISDIQNLASGFV 273
Q ++ + +ETV +K++++S +G + + Q+ Y GK+L+D + + + FV
Sbjct: 14 QTFKIDIDPEETVKALKEKIESEKGKDAFPVAGQKLIYAGKILNDDTALKEYKIDEKNFV 73
Query: 274 IQVI 277
+ ++
Sbjct: 74 VVMV 77
>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 = 30.0 bits (66), Expect = 1.5, Method: Composition-based stats.
Identities = 18/63 (28%), Positives = 30/63 (47%), Gaps = 3/63 (4%)
Query: 202 GGQEIALKLRLSNTCQDVRMKVFTQETVAMIKKRLQSLEGIETSKQRWYYGGKLLSDKMK 261
G +I +K R T ++V +T+ +K ++Q GI +Q + GK L D
Sbjct: 1 GSMQIFVKFRTGKT---YTLEVEPSDTIENVKAKIQDKLGIPPDQQWLIFAGKRLEDGRT 57
Query: 262 ISD 264
+SD
Sbjct: 58 LSD 60
>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 = 30.0 bits (66), Expect = 1.7, Method: Composition-based stats.
Identities = 15/64 (23%), Positives = 36/64 (56%), Gaps = 3/64 (4%)
Query: 217 QDVRMKVFTQETVAMIKKRLQSLEGIET---SKQRWYYGGKLLSDKMKISDIQNLASGFV 273
Q ++ + +ETV +K++++S +G + + Q+ Y GK+L+D + + + FV
Sbjct: 11 QTFKIDIDPEETVKALKEKIESEKGKDAFPVAGQKLIYAGKILNDDTALKEYKIDEKNFV 70
Query: 274 IQVI 277
+ ++
Sbjct: 71 VVMV 74
>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 = 29.6 bits (65), Expect = 1.9, Method: Composition-based stats.
Identities = 17/38 (44%), Positives = 20/38 (52%)
Query: 222 KVFTQETVAMIKKRLQSLEGIETSKQRWYYGGKLLSDK 259
+V QETVA IK + SLEGI Q G L D+
Sbjct: 33 EVTGQETVAQIKAHVASLEGIAPEDQVVLLAGAPLEDE 70
>pdb|1GJZ|A Chain A, Solution Structure Of A Dimeric N-Terminal Fragment Of
Human Ubiquitin
pdb|1GJZ|B Chain B, Solution Structure Of A Dimeric N-Terminal Fragment Of
Human Ubiquitin
Length = 53
Score = 29.6 bits (65), Expect = 2.2, Method: Composition-based stats.
Identities = 13/42 (30%), Positives = 24/42 (57%)
Query: 215 TCQDVRMKVFTQETVAMIKKRLQSLEGIETSKQRWYYGGKLL 256
T + + ++V +T+ +K ++Q EGI +QR + GK L
Sbjct: 11 TGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQL 52
>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 = 29.3 bits (64), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 14/58 (24%), Positives = 27/58 (46%)
Query: 205 EIALKLRLSNTCQDVRMKVFTQETVAMIKKRLQSLEGIETSKQRWYYGGKLLSDKMKI 262
+++L + + + + V + TV K+ + GI + QR Y GK+L D +
Sbjct: 2 DMSLNIHIKSGQDKWEVNVAPESTVLQFKEAINKANGIPVANQRLIYSGKILKDDQTV 59
>pdb|3M63|B Chain B, Crystal Structure Of Ufd2 In Complex With The
Ubiquitin-Like (Ubl) Domain Of Dsk2
Length = 101
Score = 29.3 bits (64), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 14/57 (24%), Positives = 26/57 (45%)
Query: 206 IALKLRLSNTCQDVRMKVFTQETVAMIKKRLQSLEGIETSKQRWYYGGKLLSDKMKI 262
++L + + + + V + TV K+ + GI + QR Y GK+L D +
Sbjct: 27 MSLNIHIKSGQDKWEVNVAPESTVLQFKEAINKANGIPVANQRLIYSGKILKDDQTV 83
>pdb|1WX9|A Chain A, Solution Structure Of The N-Terminal Ubiquitin-Like Domain
In The Human Bat3 Protein
Length = 86
Score = 28.9 bits (63), Expect = 3.3, Method: Composition-based stats.
Identities = 24/85 (28%), Positives = 38/85 (44%), Gaps = 5/85 (5%)
Query: 200 GVGGQEIALKLRLSNTCQDVRMKVFTQETVAMIKKRLQSLEGIETSKQRWYYGGKLLSDK 259
G G E+ +K S T + V Q V K+ + + I + KQR Y G++L D
Sbjct: 4 GSSGLEVLVKTLDSQTRTFI---VGAQMNVKEFKEHIAASVSIPSEKQRLIYQGRVLQDD 60
Query: 260 MKISDIQNLASGFVIQVIINNLAGP 284
K+ + G VI ++ +GP
Sbjct: 61 KKLQEYN--VGGKVIHLVERAPSGP 83
>pdb|4HJK|A Chain A, U7ub7 Disulfide Variant
Length = 77
Score = 28.1 bits (61), Expect = 6.7, Method: Composition-based stats.
Identities = 13/44 (29%), Positives = 23/44 (52%)
Query: 221 MKVFTQETVAMIKKRLQSLEGIETSKQRWYYGGKLLSDKMKISD 264
++V +T+ +K ++Q G +QR + GK L D +SD
Sbjct: 16 LEVEPSDTIENVKAKIQDKIGYPPDQQRLIFAGKQLEDGRTLSD 59
>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 = 27.7 bits (60), Expect = 7.6, Method: Composition-based stats.
Identities = 17/62 (27%), Positives = 29/62 (46%), Gaps = 5/62 (8%)
Query: 203 GQEIALKLRLSNTCQDVRMKVFTQETVAMIKKRLQSLEGIETSKQRWYYGGKLLSDKMKI 262
G+ I L++ S+T ++V+ K+ +E I +QR + GK L D +
Sbjct: 10 GKTITLEVEPSDTIENVKAKIQDKEGGGGGGGGG-----IPPDQQRLIFAGKQLEDGRTL 64
Query: 263 SD 264
SD
Sbjct: 65 SD 66
>pdb|1ZKH|A Chain A, Solution Structure Of A Human Ubiquitin-Like Domain In
Sf3a1
Length = 86
Score = 27.7 bits (60), Expect = 8.8, Method: Composition-based stats.
Identities = 17/59 (28%), Positives = 31/59 (52%), Gaps = 4/59 (6%)
Query: 223 VFT---QETVAMIKKRLQSLEGIETSKQRWYYGGKLLSDKMKISDIQNLASGFVIQVII 278
VFT + V++IK ++ G+ KQ+ Y G + D ++ N+A+G VI + +
Sbjct: 25 VFTLPLTDQVSVIKVKIHEATGMPAGKQKLQYEGIFIKDSNSLA-YYNMANGAVIHLAL 82
>pdb|3HOL|A Chain A, The Structure Of Intact Ap-Tbpb (N And C Lobes)
Length = 509
Score = 27.3 bits (59), Expect = 9.3, Method: Compositional matrix adjust.
Identities = 22/58 (37%), Positives = 30/58 (51%), Gaps = 5/58 (8%)
Query: 82 SAAEGNDFQLAQA-ILDGANISVP-NGFLTESYDELGNKYMVPVYC---LSYLKFLLL 134
S +E N+F A I+DG I + +GF + E+ K MV V C L Y+KF L
Sbjct: 287 SISELNNFGDASVLIIDGKKIKLAGSGFTNKHTIEINGKTMVAVACCSNLEYMKFGQL 344
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
0.319 0.135 0.408
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,134,261
Number of Sequences: 62578
Number of extensions: 383538
Number of successful extensions: 911
Number of sequences better than 100.0: 98
Number of HSP's better than 100.0 without gapping: 84
Number of HSP's successfully gapped in prelim test: 14
Number of HSP's that attempted gapping in prelim test: 820
Number of HSP's gapped (non-prelim): 104
length of query: 300
length of database: 14,973,337
effective HSP length: 98
effective length of query: 202
effective length of database: 8,840,693
effective search space: 1785819986
effective search space used: 1785819986
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 51 (24.3 bits)