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= psy16692
(1149 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4DNU|A Chain A, Crystal Structure Of The W285a Mutant Of Uvb-Resistance
Protein Uvr8
Length = 372
Score = 91.7 bits (226), Expect = 2e-18, Method: Composition-based stats.
Identities = 66/264 (25%), Positives = 124/264 (46%), Gaps = 33/264 (12%)
Query: 6 HSLALNDCGEVFTWGGDTHGQLGLESADKKSQSIPKRVKGLASVSVVQACAGYSHCLVLT 65
H LA+ GEV +WG + +GQLGL D + +P++++ + + AG H
Sbjct: 122 HCLAVTXEGEVQSWGRNQNGQLGL--GDTEDSLVPQKIQAFEGIRIKXVAAGAEH----- 174
Query: 66 STTGLWHSLALNDCGEVFTWGGDTHGQLGLESADKKSQSIPKRVKGLASVSVVQACAGYS 125
+ A+ + G+++ WG +G LGL D+ + +P+RV G+
Sbjct: 175 -------TAAVTEDGDLYGWGWGRYGNLGL--GDRTDRLVPERVTSTGGEKXSXVACGWR 225
Query: 126 HCLVLTSSGVVTC----THKENGCGSDPSQGVQSNLVQDSHTTIT----------SLNSP 171
H + ++ SG + + + G G + L S++ I+ +L S
Sbjct: 226 HTISVSYSGALYTYGWSKYGQLGHGDLEDHLIPHKLEALSNSFISQISGGARHTXALTSD 285
Query: 172 GELYTWGNNEYGQMGINNSNTTVTKPQRVESLVNLPIALIACGANHSFVLSKSVSRLYAF 231
G+LY WG N++GQ+G+ N N P +V + + ++CG H+ +++ + ++A+
Sbjct: 286 GKLYGWGWNKFGQVGVGN-NLDQCSPVQVRFPDDQKVVQVSCGWRHTLAVTER-NNVFAW 343
Query: 232 GIGSAVQLDSPKSVHKT-PQLIHG 254
G G+ QL +SV + P++I
Sbjct: 344 GRGTNGQLGIGESVDRNFPKIIEA 367
Score = 77.8 bits (190), Expect = 3e-14, Method: Composition-based stats.
Identities = 82/318 (25%), Positives = 124/318 (38%), Gaps = 62/318 (19%)
Query: 3 GLWHSLALNDCGEVFTWGGDTHGQLGLESADKKSQSIPKRVKGLASVSVVQACAGYSHCL 62
G HS+AL V +WG GQLG D + + P ++ L +V
Sbjct: 14 GASHSVALLSGDIVCSWGRGEDGQLG--HGDAEDRPSPTQLSALDGHQIV---------- 61
Query: 63 VLTSTTGLWHSLALNDCG-EVFTWGGDTHGQLGLESADKKSQSIPKRVKGLASVSVVQAC 121
+ T G H++A + G EV++WG G+LG ++ +P +K L + + Q
Sbjct: 62 --SVTCGADHTVAYSQSGXEVYSWGWGDFGRLGHGNSSDLFTPLP--IKALHGIRIKQIA 117
Query: 122 AGYSHCLVLTSSGVVTCTHKEN----GCGSDPS----------QGVQSNLVQDSHTTITS 167
G SHCL +T G V + G G +G++ V +
Sbjct: 118 CGDSHCLAVTXEGEVQSWGRNQNGQLGLGDTEDSLVPQKIQAFEGIRIKXVAAGAEHTAA 177
Query: 168 LNSPGELYTWGNNEYGQMGINNSNTTVTKPQRVESLVNLPIALIACGANHSFVLSKSVSR 227
+ G+LY WG YG +G+ + + P+RV S + +ACG H+ +S S
Sbjct: 178 VTEDGDLYGWGWGRYGNLGLGDRTDRLV-PERVTSTGGEKXSXVACGWRHTISVSYS-GA 235
Query: 228 LYAFGIGSAVQLDSPKSVHKTPQLIHGPWIASPVAMTAGEDSLVSHS----GGLVVKKIY 283
LY +G K QL HG ED L+ H + +I
Sbjct: 236 LYTYGWS------------KYGQLGHGDL----------EDHLIPHKLEALSNSFISQIS 273
Query: 284 SGGDHSIVTVTKSSDGVL 301
G H T +SDG L
Sbjct: 274 GGARH---TXALTSDGKL 288
Score = 36.6 bits (83), Expect = 0.094, Method: Composition-based stats.
Identities = 19/46 (41%), Positives = 29/46 (63%), Gaps = 4/46 (8%)
Query: 3 GLWHSLALNDCGEVFTWGGDTHGQLGL-ESADKKSQSIPKRVKGLA 47
G H+LA+ + VF WG T+GQLG+ ES D+ + PK ++ L+
Sbjct: 327 GWRHTLAVTERNNVFAWGRGTNGQLGIGESVDR---NFPKIIEALS 369
>pdb|4DNV|A Chain A, Crystal Structure Of The W285f Mutant Of Uvb-Resistance
Protein Uvr8
pdb|4DNV|B Chain B, Crystal Structure Of The W285f Mutant Of Uvb-Resistance
Protein Uvr8
pdb|4DNV|C Chain C, Crystal Structure Of The W285f Mutant Of Uvb-Resistance
Protein Uvr8
pdb|4DNV|D Chain D, Crystal Structure Of The W285f Mutant Of Uvb-Resistance
Protein Uvr8
Length = 370
Score = 84.7 bits (208), Expect = 3e-16, Method: Compositional matrix adjust.
Identities = 66/262 (25%), Positives = 125/262 (47%), Gaps = 33/262 (12%)
Query: 6 HSLALNDCGEVFTWGGDTHGQLGLESADKKSQSIPKRVKGLASVSVVQACAGYSHCLVLT 65
H LA+ GEV +WG + +GQLGL D + +P++++ + + AG H
Sbjct: 120 HCLAVTMEGEVQSWGRNQNGQLGL--GDTEDSLVPQKIQAFEGIRIKMVAAGAEH----- 172
Query: 66 STTGLWHSLALNDCGEVFTWGGDTHGQLGLESADKKSQSIPKRVKGLASVSVVQACAGYS 125
+ A+ + G+++ WG +G LGL D+ + +P+RV + G+
Sbjct: 173 -------TAAVTEDGDLYGWGWGRYGNLGL--GDRTDRLVPERVTSTGGEKMSMVACGWR 223
Query: 126 HCLVLTSSGVV----TCTHKENGCGSDPSQGVQSNLVQDSHTTIT----------SLNSP 171
H + ++ SG + + + G G + L S++ I+ +L S
Sbjct: 224 HTISVSYSGALYTYGWSKYGQLGHGDLEDHLIPHKLEALSNSFISQISGGFRHTMALTSD 283
Query: 172 GELYTWGNNEYGQMGINNSNTTVTKPQRVESLVNLPIALIACGANHSFVLSKSVSRLYAF 231
G+LY WG N++GQ+G+ N N P +V + + ++CG H+ +++ + ++A+
Sbjct: 284 GKLYGWGWNKFGQVGVGN-NLDQCSPVQVRFPDDQKVVQVSCGWRHTLAVTER-NNVFAW 341
Query: 232 GIGSAVQLDSPKSVHKT-PQLI 252
G G+ QL +SV + P++I
Sbjct: 342 GRGTNGQLGIGESVDRNFPKII 363
Score = 75.1 bits (183), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 66/248 (26%), Positives = 106/248 (42%), Gaps = 31/248 (12%)
Query: 6 HSLALNDCGEVFTWGGDTHGQLGLESADKKSQSIPKRVKGLASVSVVQACAGYSHCLVLT 65
HS+AL V +WG GQLG D + + P ++ L +V G H V
Sbjct: 15 HSVALLSGDIVCSWGRGEDGQLG--HGDAEDRPSPTQLSALDGHQIVSVTCGADHT-VAY 71
Query: 66 STTGLWHSLALNDCGEVFTWGGDTHGQLGLESADKKSQSIPKRVKGLASVSVVQACAGYS 125
S +G+ EV++WG G+LG ++ +P +K L + + Q G S
Sbjct: 72 SQSGM----------EVYSWGWGDFGRLGHGNSSDLFTPLP--IKALHGIRIKQIACGDS 119
Query: 126 HCLVLTSSGVVTCTHKEN----GCGSDPS----------QGVQSNLVQDSHTTITSLNSP 171
HCL +T G V + G G +G++ +V ++
Sbjct: 120 HCLAVTMEGEVQSWGRNQNGQLGLGDTEDSLVPQKIQAFEGIRIKMVAAGAEHTAAVTED 179
Query: 172 GELYTWGNNEYGQMGINNSNTTVTKPQRVESLVNLPIALIACGANHSFVLSKSVSRLYAF 231
G+LY WG YG +G+ + + P+RV S ++++ACG H+ +S S + LY +
Sbjct: 180 GDLYGWGWGRYGNLGLGDRTDRLV-PERVTSTGGEKMSMVACGWRHTISVSYSGA-LYTY 237
Query: 232 GIGSAVQL 239
G QL
Sbjct: 238 GWSKYGQL 245
Score = 47.4 bits (111), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 35/112 (31%), Positives = 55/112 (49%), Gaps = 18/112 (16%)
Query: 3 GLWHSLALNDCGEVFTWGGDTHGQLGLESADKKSQSIPKRVKGLASVSVVQACAGYSHCL 62
G H++AL G+++ WG + GQ+G+ + Q P +V+ VVQ G+ H L
Sbjct: 273 GFRHTMALTSDGKLYGWGWNKFGQVGV--GNNLDQCSPVQVRFPDDQKVVQVSCGWRHTL 330
Query: 63 VLTSTTGLWHSLALNDCGEVFTWGGDTHGQLGL-ESADKKSQSIPKRVKGLA 113
+T VF WG T+GQLG+ ES D+ + PK ++ L+
Sbjct: 331 AVTERN------------NVFAWGRGTNGQLGIGESVDR---NFPKIIEALS 367
>pdb|4DNW|A Chain A, Crystal Structure Of Uvb-Resistance Protein Uvr8
pdb|4DNW|B Chain B, Crystal Structure Of Uvb-Resistance Protein Uvr8
Length = 374
Score = 84.0 bits (206), Expect = 4e-16, Method: Compositional matrix adjust.
Identities = 66/262 (25%), Positives = 125/262 (47%), Gaps = 33/262 (12%)
Query: 6 HSLALNDCGEVFTWGGDTHGQLGLESADKKSQSIPKRVKGLASVSVVQACAGYSHCLVLT 65
H LA+ GEV +WG + +GQLGL D + +P++++ + + AG H
Sbjct: 120 HCLAVTMEGEVQSWGRNQNGQLGL--GDTEDSLVPQKIQAFEGIRIKMVAAGAEH----- 172
Query: 66 STTGLWHSLALNDCGEVFTWGGDTHGQLGLESADKKSQSIPKRVKGLASVSVVQACAGYS 125
+ A+ + G+++ WG +G LGL D+ + +P+RV + G+
Sbjct: 173 -------TAAVTEDGDLYGWGWGRYGNLGL--GDRTDRLVPERVTSTGGEKMSMVACGWR 223
Query: 126 HCLVLTSSGVV----TCTHKENGCGSDPSQGVQSNLVQDSHTTIT----------SLNSP 171
H + ++ SG + + + G G + L S++ I+ +L S
Sbjct: 224 HTISVSYSGALYTYGWSKYGQLGHGDLEDHLIPHKLEALSNSFISQISGGWRHTMALTSD 283
Query: 172 GELYTWGNNEYGQMGINNSNTTVTKPQRVESLVNLPIALIACGANHSFVLSKSVSRLYAF 231
G+LY WG N++GQ+G+ N N P +V + + ++CG H+ +++ + ++A+
Sbjct: 284 GKLYGWGWNKFGQVGVGN-NLDQCSPVQVRFPDDQKVVQVSCGWRHTLAVTER-NNVFAW 341
Query: 232 GIGSAVQLDSPKSVHKT-PQLI 252
G G+ QL +SV + P++I
Sbjct: 342 GRGTNGQLGIGESVDRNFPKII 363
Score = 74.3 bits (181), Expect = 3e-13, Method: Compositional matrix adjust.
Identities = 66/248 (26%), Positives = 106/248 (42%), Gaps = 31/248 (12%)
Query: 6 HSLALNDCGEVFTWGGDTHGQLGLESADKKSQSIPKRVKGLASVSVVQACAGYSHCLVLT 65
HS+AL V +WG GQLG D + + P ++ L +V G H V
Sbjct: 15 HSVALLSGDIVCSWGRGEDGQLG--HGDAEDRPSPTQLSALDGHQIVSVTCGADHT-VAY 71
Query: 66 STTGLWHSLALNDCGEVFTWGGDTHGQLGLESADKKSQSIPKRVKGLASVSVVQACAGYS 125
S +G+ EV++WG G+LG ++ +P +K L + + Q G S
Sbjct: 72 SQSGM----------EVYSWGWGDFGRLGHGNSSDLFTPLP--IKALHGIRIKQIACGDS 119
Query: 126 HCLVLTSSGVVTCTHKEN----GCGSDPS----------QGVQSNLVQDSHTTITSLNSP 171
HCL +T G V + G G +G++ +V ++
Sbjct: 120 HCLAVTMEGEVQSWGRNQNGQLGLGDTEDSLVPQKIQAFEGIRIKMVAAGAEHTAAVTED 179
Query: 172 GELYTWGNNEYGQMGINNSNTTVTKPQRVESLVNLPIALIACGANHSFVLSKSVSRLYAF 231
G+LY WG YG +G+ + + P+RV S ++++ACG H+ +S S + LY +
Sbjct: 180 GDLYGWGWGRYGNLGLGDRTDRLV-PERVTSTGGEKMSMVACGWRHTISVSYSGA-LYTY 237
Query: 232 GIGSAVQL 239
G QL
Sbjct: 238 GWSKYGQL 245
Score = 32.0 bits (71), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 18/43 (41%), Positives = 28/43 (65%), Gaps = 4/43 (9%)
Query: 6 HSLALNDCGEVFTWGGDTHGQLGL-ESADKKSQSIPKRVKGLA 47
H+LA+ + VF WG T+GQLG+ ES D+ + PK ++ L+
Sbjct: 328 HTLAVTERNNVFAWGRGTNGQLGIGESVDR---NFPKIIEALS 367
>pdb|4D9S|A Chain A, Crystal Structure Of Arabidopsis Thaliana Uvr8 (Uv
Resistance Locus 8)
pdb|4D9S|B Chain B, Crystal Structure Of Arabidopsis Thaliana Uvr8 (Uv
Resistance Locus 8)
Length = 406
Score = 83.6 bits (205), Expect = 6e-16, Method: Compositional matrix adjust.
Identities = 66/262 (25%), Positives = 123/262 (46%), Gaps = 33/262 (12%)
Query: 6 HSLALNDCGEVFTWGGDTHGQLGLESADKKSQSIPKRVKGLASVSVVQACAGYSHCLVLT 65
H LA+ GEV +WG + +GQLGL D + +P++++ + + AG H +T
Sbjct: 132 HCLAVTMEGEVQSWGRNQNGQLGL--GDTEDSLVPQKIQAFEGIRIKMVAAGAEHTAAVT 189
Query: 66 STTGLWHSLALNDCGEVFTWGGDTHGQLGLESADKKSQSIPKRVKGLASVSVVQACAGYS 125
G+++ WG +G LGL D+ + +P+RV + G+
Sbjct: 190 ED------------GDLYGWGWGRYGNLGL--GDRTDRLVPERVTSTGGEKMSMVACGWR 235
Query: 126 HCLVLTSSGVV----TCTHKENGCGSDPSQGVQSNLVQDSHTTIT----------SLNSP 171
H + ++ SG + + + G G + L S++ I+ +L S
Sbjct: 236 HTISVSYSGALYTYGWSKYGQLGHGDLEDHLIPHKLEALSNSFISQISGGWRHTMALTSD 295
Query: 172 GELYTWGNNEYGQMGINNSNTTVTKPQRVESLVNLPIALIACGANHSFVLSKSVSRLYAF 231
G+LY WG N++GQ+G+ N N P +V + + ++CG H+ +++ + ++A+
Sbjct: 296 GKLYGWGWNKFGQVGVGN-NLDQCSPVQVRFPDDQKVVQVSCGWRHTLAVTER-NNVFAW 353
Query: 232 GIGSAVQLDSPKSVHKT-PQLI 252
G G+ QL +SV + P++I
Sbjct: 354 GRGTNGQLGIGESVDRNFPKII 375
Score = 73.9 bits (180), Expect = 4e-13, Method: Compositional matrix adjust.
Identities = 66/248 (26%), Positives = 106/248 (42%), Gaps = 31/248 (12%)
Query: 6 HSLALNDCGEVFTWGGDTHGQLGLESADKKSQSIPKRVKGLASVSVVQACAGYSHCLVLT 65
HS+AL V +WG GQLG D + + P ++ L +V G H V
Sbjct: 27 HSVALLSGDIVCSWGRGEDGQLG--HGDAEDRPSPTQLSALDGHQIVSVTCGADHT-VAY 83
Query: 66 STTGLWHSLALNDCGEVFTWGGDTHGQLGLESADKKSQSIPKRVKGLASVSVVQACAGYS 125
S +G+ EV++WG G+LG ++ +P +K L + + Q G S
Sbjct: 84 SQSGM----------EVYSWGWGDFGRLGHGNSSDLFTPLP--IKALHGIRIKQIACGDS 131
Query: 126 HCLVLTSSGVVTCTHKEN----GCGSDPS----------QGVQSNLVQDSHTTITSLNSP 171
HCL +T G V + G G +G++ +V ++
Sbjct: 132 HCLAVTMEGEVQSWGRNQNGQLGLGDTEDSLVPQKIQAFEGIRIKMVAAGAEHTAAVTED 191
Query: 172 GELYTWGNNEYGQMGINNSNTTVTKPQRVESLVNLPIALIACGANHSFVLSKSVSRLYAF 231
G+LY WG YG +G+ + + P+RV S ++++ACG H+ +S S + LY +
Sbjct: 192 GDLYGWGWGRYGNLGLGDRTDRLV-PERVTSTGGEKMSMVACGWRHTISVSYSGA-LYTY 249
Query: 232 GIGSAVQL 239
G QL
Sbjct: 250 GWSKYGQL 257
Score = 32.0 bits (71), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 19/46 (41%), Positives = 29/46 (63%), Gaps = 4/46 (8%)
Query: 3 GLWHSLALNDCGEVFTWGGDTHGQLGL-ESADKKSQSIPKRVKGLA 47
G H+LA+ + VF WG T+GQLG+ ES D+ + PK ++ L+
Sbjct: 337 GWRHTLAVTERNNVFAWGRGTNGQLGIGESVDR---NFPKIIEALS 379
>pdb|3KCI|A Chain A, The Third Rld Domain Of Herc2
Length = 389
Score = 82.8 bits (203), Expect = 1e-15, Method: Compositional matrix adjust.
Identities = 69/233 (29%), Positives = 106/233 (45%), Gaps = 29/233 (12%)
Query: 6 HSLALNDCGEVFTWGGDTHGQLGLESADKKSQSIPKRVKGLASVSVVQACAGYSHCLVLT 65
HS + G+++TWG +G+LG +D + Q PK V+ L VV G
Sbjct: 170 HSACVTAAGDLYTWGKGRYGRLG--HSDSEDQLKPKLVEALQGHRVVDIACG-------- 219
Query: 66 STTGLWHSLALNDCGEVFTWGGDTHGQLGLESADKKSQSIPKRVKGLASVSVVQACAGYS 125
+G +L L D V++WG +G+LG +D +P ++ L + VV+ G
Sbjct: 220 --SGDAQTLCLTDDDTVWSWGDGDYGKLGRGGSD--GCKVPMKIDSLTGLGVVKVECGSQ 275
Query: 126 HCLVLTSSGVVTCTHKEN----GCGSDPS-------QGVQSNLVQDSHTT---ITSLNSP 171
+ LT SG V K + G GSD QG+Q V T
Sbjct: 276 FSVALTKSGAVYTWGKGDYHRLGHGSDDHVRRPRQVQGLQGKKVIAIATGSLHCVCCTED 335
Query: 172 GELYTWGNNEYGQMGINNSNTTVTKPQRVESLVNLPIALIACGANHSFVLSKS 224
GE+YTWG+N+ GQ+G +N + +P+ V +L + +ACG+ H+ S S
Sbjct: 336 GEVYTWGDNDEGQLGDGTTN-AIQRPRLVAALQGKKVNRVACGSAHTLAWSTS 387
Score = 63.2 bits (152), Expect = 9e-10, Method: Compositional matrix adjust.
Identities = 72/313 (23%), Positives = 127/313 (40%), Gaps = 67/313 (21%)
Query: 14 GEVFTWGGDTHGQL-GLESADKKSQSIPKRVKGLASVSVVQACAGYSHCLVLTS------ 66
G ++ WG + GQL G+E A K +P + LA++ VQ G +T+
Sbjct: 20 GTIYGWGHNHRGQLGGIEGAKVK---VPTPCEALATLRPVQLIGGEQTLFAVTADGKLYA 76
Query: 67 ------------------------------------TTGLWHSLALNDCGEVFTWGGDTH 90
+G H LAL+ GEV++WG
Sbjct: 77 TGYGAGGRLGIGGTESVSTPTLLESIQHVFIKKVAVNSGGKHCLALSSEGEVYSWGEAED 136
Query: 91 GQLGLESADKKSQSIPKRVKGLASVSVVQACAGYSHCLVLTSSG-VVTCTHKENG--CGS 147
G+LG ++ P+ ++ L + VV AG +H +T++G + T G S
Sbjct: 137 GKLG--HGNRSPCDRPRVIESLRGIEVVDVAAGGAHSACVTAAGDLYTWGKGRYGRLGHS 194
Query: 148 DPSQGVQSNLVQ--DSHTTITSLNSPGE-----------LYTWGNNEYGQMGINNSNTTV 194
D ++ LV+ H + G+ +++WG+ +YG++G S+
Sbjct: 195 DSEDQLKPKLVEALQGHRVVDIACGSGDAQTLCLTDDDTVWSWGDGDYGKLGRGGSDGCK 254
Query: 195 TKPQRVESLVNLPIALIACGANHSFVLSKSVSRLYAFGIGSAVQLDSPKSVH-KTPQLIH 253
P +++SL L + + CG+ S L+KS + +Y +G G +L H + P+ +
Sbjct: 255 V-PMKIDSLTGLGVVKVECGSQFSVALTKSGA-VYTWGKGDYHRLGHGSDDHVRRPRQVQ 312
Query: 254 GPWIASPVAMTAG 266
G +A+ G
Sbjct: 313 GLQGKKVIAIATG 325
Score = 33.9 bits (76), Expect = 0.57, Method: Compositional matrix adjust.
Identities = 22/68 (32%), Positives = 34/68 (50%), Gaps = 6/68 (8%)
Query: 2 TGLWHSLALNDCGEVFTWGGDTHGQLGLESADKKSQSI--PKRVKGLASVSVVQACAGYS 59
TG H + + GEV+TWG + GQLG D + +I P+ V L V + G +
Sbjct: 324 TGSLHCVCCTEDGEVYTWGDNDEGQLG----DGTTNAIQRPRLVAALQGKKVNRVACGSA 379
Query: 60 HCLVLTST 67
H L +++
Sbjct: 380 HTLAWSTS 387
>pdb|1C4Z|A Chain A, Structure Of E6ap: Insights Into Ubiquitination Pathway
pdb|1C4Z|B Chain B, Structure Of E6ap: Insights Into Ubiquitination Pathway
pdb|1C4Z|C Chain C, Structure Of E6ap: Insights Into Ubiquitination Pathway
pdb|1D5F|A Chain A, Structure Of An E6ap-Ubch7 Complex: Insights Into The
Ubiquitination Pathway
pdb|1D5F|B Chain B, Structure Of An E6ap-Ubch7 Complex: Insights Into The
Ubiquitination Pathway
pdb|1D5F|C Chain C, Structure Of An E6ap-Ubch7 Complex: Insights Into The
Ubiquitination Pathway
Length = 358
Score = 71.2 bits (173), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 38/95 (40%), Positives = 62/95 (65%), Gaps = 2/95 (2%)
Query: 721 GITEYEE-TRSIWFSEDTFEDQNMCFLIGTLCGLAIYNYTIINMPFPLALYKKILDEPIL 779
G+ Y+E T+ WF+ +FE + LIG + GLAIYN I+++ FP+ +Y+K++ +
Sbjct: 71 GMFTYDESTKLFWFNPSSFETEGQFTLIGIVLGLAIYNNCILDVHFPMVVYRKLMGKKGT 130
Query: 780 LQDLKDLSPTLAKSLQDILDYREPDLEDVFGITFR 814
+DL D P L +SL+D+L+Y E ++ED ITF+
Sbjct: 131 FRDLGDSHPVLYQSLKDLLEY-EGNVEDDMMITFQ 164
Score = 69.7 bits (169), Expect = 8e-12, Method: Compositional matrix adjust.
Identities = 41/110 (37%), Positives = 59/110 (53%), Gaps = 15/110 (13%)
Query: 983 LNQYLEVEVSRDNIVEDTIREL---AQYTTNDFKKPLKVNDTSPIYLAPQVKFRGEEAED 1039
LN YL ++V RD+I++D + L A D KK L V+F GE+ D
Sbjct: 2 LNPYLRLKVRRDHIIDDALVRLEMIAMENPADLKKQL------------YVEFEGEQGVD 49
Query: 1040 AGGVRREFLMLLLKEILDPKYGMFKEYEETRSIWFSEDTFEDQNMYFLIG 1089
GGV +EF L+++EI +P GMF E T+ WF+ +FE + + LIG
Sbjct: 50 EGGVSKEFFQLVVEEIFNPDIGMFTYDESTKLFWFNPSSFETEGQFTLIG 99
>pdb|3OF7|A Chain A, The Crystal Structure Of Prp20p From Saccharomyces
Cerevisiae And Its Binding Properties To Gsp1p And
Histones
Length = 473
Score = 68.2 bits (165), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 79/303 (26%), Positives = 127/303 (41%), Gaps = 52/303 (17%)
Query: 3 GLWHSLALNDCGEVFTWGGDTHGQLGLESADKKSQ---------------------SIPK 41
G H+LAL++ V++WG + G LG ++++ K Q S P
Sbjct: 75 GGMHTLALDEESNVWSWGCNDVGALGRDTSNAKEQLKDMDADDSSDDEDGDLNELESTPA 134
Query: 42 RVKGLASVSVVQACAGYSHCLV-LTSTTGLWHSLALNDCGEVFTWGG--DTHGQLGLESA 98
++ + + + H +V L +T + S AL GEV+ WG G LG
Sbjct: 135 KIPRESFPPLAEG-----HKVVQLAATDNM--SCALFSNGEVYAWGTFRCNEGILGFYQD 187
Query: 99 DKKSQSIPKRVKGLASVSVVQACAGYSHCLVLTSSGVVTC--THKENGCGS--------- 147
K Q P +V + ++VQ G H L L G+V ++N G
Sbjct: 188 KIKIQKTPWKVPTFSKYNIVQLAPGKDHILFLDEEGMVFAWGNGQQNQLGRKVMERFRLK 247
Query: 148 --DPSQ-GVQS-NLVQDSHTTITSLNSPGELYTWGNNEYGQMGINNS---NTTVTKPQRV 200
DP G++ + +L +L +WG N++GQ G++ VTKP+R+
Sbjct: 248 TLDPRPFGLRHVKYIASGENHCFALTKDNKLVSWGLNQFGQCGVSEDVEDGALVTKPKRL 307
Query: 201 ESLVNLPIALIACGANHSFVLSKSVSRLYAFGIGSAVQLDSPKS--VHKTPQLIHGPWIA 258
N+ I IA G +HS +LS+ LY+ G ++ PK T + +HG A
Sbjct: 308 ALPDNVVIRSIAAGEHHSLILSQD-GDLYSCGRLDMFEVGIPKDNLPEYTYKDVHGKARA 366
Query: 259 SPV 261
P+
Sbjct: 367 VPL 369
Score = 48.5 bits (114), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 55/244 (22%), Positives = 93/244 (38%), Gaps = 45/244 (18%)
Query: 6 HSLALNDCGEVFTWGGDTHGQLGLESADK-KSQSIPKRVKGLASVSVVQACAGYSHCLVL 64
H L L++ G VF WG QLG + ++ + +++ R GL V + +G +HC L
Sbjct: 215 HILFLDEEGMVFAWGNGQQNQLGRKVMERFRLKTLDPRPFGLRHVKYI--ASGENHCFAL 272
Query: 65 TSTTGLWHSLALNDCGEVFTWGGDTHGQLGL--ESADKKSQSIPKRVKGLASVSVVQACA 122
T L +WG + GQ G+ + D + PKR+ +V + A
Sbjct: 273 TKDNKL------------VSWGLNQFGQCGVSEDVEDGALVTKPKRLALPDNVVIRSIAA 320
Query: 123 GYSHCLVLTSSG-VVTCTHKENGCGSDPSQGVQSNLVQDSHTTITSLNSPGEL------- 174
G H L+L+ G + +C + P + +D H ++ P +L
Sbjct: 321 GEHHSLILSQDGDLYSCGRLDMFEVGIPKDNLPEYTYKDVHGKARAVPLPTKLNNVPKFK 380
Query: 175 ------------------YTWGNNEYGQMGINNSNTTVTKPQRVESLV--NLPIALIACG 214
Y+WG E +G+ P R+++ + I L+ CG
Sbjct: 381 SVAAGSHHSVAVAQNGIAYSWGFGETYAVGLGPFEDDTEVPTRIKNTATQDHNIILVGCG 440
Query: 215 ANHS 218
S
Sbjct: 441 GQFS 444
Score = 42.4 bits (98), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 72/338 (21%), Positives = 128/338 (37%), Gaps = 84/338 (24%)
Query: 15 EVFTWGGDTHGQLGLESADKKSQSIPKRVKGLASVSVVQACAGYSHCLVLTSTTGLWHSL 74
++F WG + +LGL K + R+ + +++ G H+L
Sbjct: 30 DIFCWGTGSMCELGLGPLAKNKEVKRPRLNPFLPRDEAK---------IISFAVGGMHTL 80
Query: 75 ALNDCGEVFTWGGDTHGQLGLESADKKSQ------------------------------S 104
AL++ V++WG + G LG ++++ K Q S
Sbjct: 81 ALDEESNVWSWGCNDVGALGRDTSNAKEQLKDMDADDSSDDEDGDLNELESTPAKIPRES 140
Query: 105 IPKRVKGLASVSVVQ----ACAGYSHCLVLTSSGVVTCTHKENGCGSDPSQGVQS----- 155
P +G V + +CA +S+ V + G C G D + ++
Sbjct: 141 FPPLAEGHKVVQLAATDNMSCALFSNGEVY-AWGTFRCNEGILGFYQDKIKIQKTPWKVP 199
Query: 156 -----NLVQ--DSHTTITSLNSPGELYTWGNNEYGQMGINNSNTTVTKPQRVESLVNLPI 208
N+VQ I L+ G ++ WGN + Q+G V + R+++L P
Sbjct: 200 TFSKYNIVQLAPGKDHILFLDEEGMVFAWGNGQQNQLG-----RKVMERFRLKTLDPRPF 254
Query: 209 AL-----IACGANHSFVLSKSVSRLYAFGIGSAVQLDSPKSVHKTPQLIHGPWIASPVAM 263
L IA G NH F L+K ++L ++G+ Q + V G + P +
Sbjct: 255 GLRHVKYIASGENHCFALTKD-NKLVSWGLNQFGQCGVSEDVED------GALVTKPKRL 307
Query: 264 TAGEDSLVSHSGGLVVKKIYSGGDHSIVTVTKSSDGVL 301
++ +V++ I +G HS++ S DG L
Sbjct: 308 ALPDN--------VVIRSIAAGEHHSLIL---SQDGDL 334
>pdb|1ZVD|A Chain A, Regulation Of Smurf2 Ubiquitin Ligase Activity By Anchoring
The E2 To The Hect Domain
Length = 380
Score = 56.2 bits (134), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 31/76 (40%), Positives = 43/76 (56%), Gaps = 12/76 (15%)
Query: 989 VEVSRDNIVEDTIRELAQYTTNDFKKPLKVNDTSPIYLAPQVKFRGEEAEDAGGVRREFL 1048
+EVSR+ I E++ R++ + D K L +KFRGEE D GGV RE+L
Sbjct: 27 IEVSREEIFEESYRQVXKXRPKDLWKRL------------XIKFRGEEGLDYGGVAREWL 74
Query: 1049 MLLLKEILDPKYGMFK 1064
LL E L+P YG+F+
Sbjct: 75 YLLSHEXLNPYYGLFQ 90
>pdb|1A12|A Chain A, Regulator Of Chromosome Condensation (Rcc1) Of Human
pdb|1A12|B Chain B, Regulator Of Chromosome Condensation (Rcc1) Of Human
pdb|1A12|C Chain C, Regulator Of Chromosome Condensation (Rcc1) Of Human
Length = 413
Score = 55.5 bits (132), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 66/258 (25%), Positives = 106/258 (41%), Gaps = 73/258 (28%)
Query: 2 TGLWHSLALNDCGEVFTWGGDTHGQLGLESADKKSQSIPKRVKGLASVSVVQACAGYSHC 61
G H++ L+ G+V+++G + G LG +++ + S+ +P +V+ VVQ AG SH
Sbjct: 66 AGGMHTVCLSKSGQVYSFGCNDEGALGRDTSVEGSEMVPGKVE--LQEKVVQVSAGDSH- 122
Query: 62 LVLTSTTGLWHSLALNDCGEVFTWGG--DTHGQLGLESADKKSQSIPKRVKGLASVSVVQ 119
+ AL D G VF WG D +G +GL KKS +P +V+ V VV+
Sbjct: 123 -----------TAALTDDGRVFLWGSFRDNNGVIGLLEPMKKSM-VPVQVQ--LDVPVVK 168
Query: 120 ACAGYSHCLVLTSSGVVTCTHKENGCGSDPSQGVQSNLVQDSHTTITSLNSPGELYTWGN 179
+G H ++LT+ G +LYT G
Sbjct: 169 VASGNDHLVMLTADG--------------------------------------DLYTLGC 190
Query: 180 NEYGQMG-INNSNTTVTKPQRVESLVNLPIALIA--------------CGANHSFVLSKS 224
E GQ+G + Q +E L+ ++ CGA +F +S
Sbjct: 191 GEQGQLGRVPELFANRGGRQGLERLLVPKCVMLKSRGSRGHVRFQDAFCGAYFTFAISHE 250
Query: 225 VSRLYAFGIGSAVQLDSP 242
+Y FG+ + QL +P
Sbjct: 251 -GHVYGFGLSNYHQLGTP 267
Score = 37.4 bits (85), Expect = 0.043, Method: Compositional matrix adjust.
Identities = 37/129 (28%), Positives = 59/129 (45%), Gaps = 17/129 (13%)
Query: 3 GLWHSLALNDCGEVFTWGGDTHGQLGL-ESADKKSQSIPKRVKGLASVSVVQACAGYSHC 61
G H++ ++ G+ ++ G +G+LGL E A++KS IP + L +VS V AC
Sbjct: 294 GQHHTVCMDSEGKAYSLGRAEYGRLGLGEGAEEKS--IPTLISRLPAVSSV-AC------ 344
Query: 62 LVLTSTTGLWHSLALNDCGEVFTWGGDTHGQLGLESADKKSQSIPKRVKGLASVSVVQAC 121
G A+ G VF WG T+ QLG + + K L + V+
Sbjct: 345 -------GASVGYAVTKDGRVFAWGMGTNYQLGTGQDEDAWSPVEMMGKQLENRVVLSVS 397
Query: 122 AGYSHCLVL 130
+G H ++L
Sbjct: 398 SGGQHTVLL 406
Score = 35.0 bits (79), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 28/97 (28%), Positives = 47/97 (48%), Gaps = 9/97 (9%)
Query: 154 QSNLVQDSHTTITSLNSPGELYTWGNNEYGQMGINNSNTTVTKPQRVESLVNLP--IALI 211
+S V+ SH + ++ PG + T G + GQ+G+ + KP +LV++P +
Sbjct: 11 KSKKVKVSHRSHST--EPGLVLTLGQGDVGQLGLGENVMERKKP----ALVSIPEDVVQA 64
Query: 212 ACGANHSFVLSKSVSRLYAFGIGSAVQLDSPKSVHKT 248
G H+ LSKS ++Y+FG L SV +
Sbjct: 65 EAGGMHTVCLSKS-GQVYSFGCNDEGALGRDTSVEGS 100
>pdb|1I2M|B Chain B, Ran-Rcc1-So4 Complex
pdb|1I2M|D Chain D, Ran-Rcc1-So4 Complex
Length = 402
Score = 55.5 bits (132), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 66/258 (25%), Positives = 106/258 (41%), Gaps = 73/258 (28%)
Query: 2 TGLWHSLALNDCGEVFTWGGDTHGQLGLESADKKSQSIPKRVKGLASVSVVQACAGYSHC 61
G H++ L+ G+V+++G + G LG +++ + S+ +P +V+ VVQ AG SH
Sbjct: 55 AGGMHTVCLSKSGQVYSFGCNDEGALGRDTSVEGSEMVPGKVE--LQEKVVQVSAGDSH- 111
Query: 62 LVLTSTTGLWHSLALNDCGEVFTWGG--DTHGQLGLESADKKSQSIPKRVKGLASVSVVQ 119
+ AL D G VF WG D +G +GL KKS +P +V+ V VV+
Sbjct: 112 -----------TAALTDDGRVFLWGSFRDNNGVIGLLEPMKKSM-VPVQVQ--LDVPVVK 157
Query: 120 ACAGYSHCLVLTSSGVVTCTHKENGCGSDPSQGVQSNLVQDSHTTITSLNSPGELYTWGN 179
+G H ++LT+ G +LYT G
Sbjct: 158 VASGNDHLVMLTADG--------------------------------------DLYTLGC 179
Query: 180 NEYGQMG-INNSNTTVTKPQRVESLVNLPIALIA--------------CGANHSFVLSKS 224
E GQ+G + Q +E L+ ++ CGA +F +S
Sbjct: 180 GEQGQLGRVPELFANRGGRQGLERLLVPKCVMLKSRGSRGHVRFQDAFCGAYFTFAISHE 239
Query: 225 VSRLYAFGIGSAVQLDSP 242
+Y FG+ + QL +P
Sbjct: 240 -GHVYGFGLSNYHQLGTP 256
Score = 37.4 bits (85), Expect = 0.054, Method: Compositional matrix adjust.
Identities = 37/129 (28%), Positives = 59/129 (45%), Gaps = 17/129 (13%)
Query: 3 GLWHSLALNDCGEVFTWGGDTHGQLGL-ESADKKSQSIPKRVKGLASVSVVQACAGYSHC 61
G H++ ++ G+ ++ G +G+LGL E A++KS IP + L +VS V AC
Sbjct: 283 GQHHTVCMDSEGKAYSLGRAEYGRLGLGEGAEEKS--IPTLISRLPAVSSV-AC------ 333
Query: 62 LVLTSTTGLWHSLALNDCGEVFTWGGDTHGQLGLESADKKSQSIPKRVKGLASVSVVQAC 121
G A+ G VF WG T+ QLG + + K L + V+
Sbjct: 334 -------GASVGYAVTKDGRVFAWGMGTNYQLGTGQDEDAWSPVEMMGKQLENRVVLSVS 386
Query: 122 AGYSHCLVL 130
+G H ++L
Sbjct: 387 SGGQHTVLL 395
Score = 34.7 bits (78), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 28/96 (29%), Positives = 46/96 (47%), Gaps = 9/96 (9%)
Query: 155 SNLVQDSHTTITSLNSPGELYTWGNNEYGQMGINNSNTTVTKPQRVESLVNLP--IALIA 212
S V+ SH + ++ PG + T G + GQ+G+ + KP +LV++P +
Sbjct: 1 SKKVKVSHRSHST--EPGLVLTLGQGDVGQLGLGENVMERKKP----ALVSIPEDVVQAE 54
Query: 213 CGANHSFVLSKSVSRLYAFGIGSAVQLDSPKSVHKT 248
G H+ LSKS ++Y+FG L SV +
Sbjct: 55 AGGMHTVCLSKS-GQVYSFGCNDEGALGRDTSVEGS 89
>pdb|3H1D|A Chain A, Structure Of The Huwe1 Hect Domain
Length = 405
Score = 53.9 bits (128), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 29/104 (27%), Positives = 53/104 (50%), Gaps = 12/104 (11%)
Query: 961 QMEHAMNQTNFYLFLQTFNPHTLNQYLEVEVSRDNIVEDTIRELAQYTTNDFKKPLKVND 1020
M+ + + F L+ + + + V V RD++ ED+ REL + + + K L
Sbjct: 22 HMDFDVKRKYFRQELERLDEGLRKEDMAVHVRRDHVFEDSYRELHRKSPEEMKNRL---- 77
Query: 1021 TSPIYLAPQVKFRGEEAEDAGGVRREFLMLLLKEILDPKYGMFK 1064
+ F GEE +DAGG+ RE+ M++ +E+ +P Y +F+
Sbjct: 78 --------YIVFEGEEGQDAGGLLREWYMIISREMFNPMYALFR 113
>pdb|3G1N|A Chain A, Catalytic Domain Of The Human E3 Ubiquitin-Protein Ligase
Huwe1
pdb|3G1N|B Chain B, Catalytic Domain Of The Human E3 Ubiquitin-Protein Ligase
Huwe1
Length = 388
Score = 53.5 bits (127), Expect = 7e-07, Method: Compositional matrix adjust.
Identities = 26/78 (33%), Positives = 44/78 (56%), Gaps = 12/78 (15%)
Query: 987 LEVEVSRDNIVEDTIRELAQYTTNDFKKPLKVNDTSPIYLAPQVKFRGEEAEDAGGVRRE 1046
+ V V RD++ ED+ REL + + + K L + F GEE +DAGG+ RE
Sbjct: 31 MAVHVRRDHVFEDSYRELHRKSPEEMKNRL------------YIVFEGEEGQDAGGLLRE 78
Query: 1047 FLMLLLKEILDPKYGMFK 1064
+ M++ +E+ +P Y +F+
Sbjct: 79 WYMIISREMFNPMYALFR 96
>pdb|3OLM|A Chain A, Structure And Function Of A Ubiquitin Binding Site Within
The Catalytic Domain Of A Hect Ubiquitin Ligase
Length = 429
Score = 52.4 bits (124), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 30/76 (39%), Positives = 40/76 (52%), Gaps = 12/76 (15%)
Query: 989 VEVSRDNIVEDTIRELAQYTTNDFKKPLKVNDTSPIYLAPQVKFRGEEAEDAGGVRREFL 1048
++V R NI ED +E+ + T D KK L +KF GEE D GGV REF
Sbjct: 77 IKVRRKNIFEDAYQEIMRQTPEDLKKRL------------MIKFDGEEGLDYGGVSREFF 124
Query: 1049 MLLLKEILDPKYGMFK 1064
LL E+ +P Y +F+
Sbjct: 125 FLLSHEMFNPFYCLFE 140
Score = 35.8 bits (81), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 21/72 (29%), Positives = 39/72 (54%), Gaps = 3/72 (4%)
Query: 742 NMCFLIGTLCGLAIYNYTIINMPFPLALYKKILDEPILLQDLKDLSPTLAKSLQDILDYR 801
N IG + GL +++ ++ F ALYK +L + ++LQD++ + + SL +L
Sbjct: 163 NYFKFIGRVVGLGVFHRRFLDAFFVGALYKMMLRKKVVLQDMEGVDAEVYNSLNWML--- 219
Query: 802 EPDLEDVFGITF 813
E ++ V +TF
Sbjct: 220 ENSIDGVLDLTF 231
>pdb|1JTD|B Chain B, Crystal Structure Of Beta-Lactamase Inhibitor Protein-Ii
In Complex With Tem-1 Beta-Lactamase
Length = 273
Score = 50.8 bits (120), Expect = 4e-06, Method: Composition-based stats.
Identities = 67/256 (26%), Positives = 100/256 (39%), Gaps = 60/256 (23%)
Query: 3 GLWHSLALNDCGEVFTWGGDTHGQLGLESADKKSQSIPKRVKGLASVSVVQACAGYSHCL 62
G +H LAL G+V WG + +GQL + +A + S V A A
Sbjct: 34 GYFHGLALKG-GKVLGWGANLNGQLTMPAATQ---------------SGVDAIAA----- 72
Query: 63 VLTSTTGLWHSLALNDCGEVFTWGGDTHGQLGLESADKKSQSIPKRVKGLASVSVVQACA 122
G +HSLAL D GEV WGG+ GQ ++P + A A
Sbjct: 73 ------GNYHSLALKD-GEVIAWGGNEDGQ----------TTVPAEARSGVDAIAAGAWA 115
Query: 123 GYSHCLVLTSSGVVTCTHKENGCGSDPSQGVQSNLVQDSHTTITSLN-SPGELYTWGNNE 181
Y+ L V+ +G + P++ QS + T+L G + WG+N
Sbjct: 116 SYA----LKDGKVIAWGDDSDGQTTVPAEA-QSGVTALDGGVYTALAVKNGGVIAWGDNY 170
Query: 182 YGQMGINNSNTTVTKPQRVESLVNLPIALIACGANHSFVLSKSVSRLYAFGIGSAVQLDS 241
+GQ TTV P +S V+ +A G HS L ++ A+G Q
Sbjct: 171 FGQ-------TTV--PAEAQSGVD----DVAGGIFHSLALKD--GKVIAWGDNRYKQTTV 215
Query: 242 P-KSVHKTPQLIHGPW 256
P +++ + G W
Sbjct: 216 PTEALSGVSAIASGEW 231
>pdb|3QHY|B Chain B, Structural, Thermodynamic And Kinetic Analysis Of The
Picomolar Binding Affinity Interaction Of The
Beta-Lactamase Inhibitor Protein- Ii (Blip-Ii) With
Class A Beta-Lactamases
pdb|3QI0|A Chain A, Structural, Thermodynamic And Kinetic Analysis Of The
Picomolar Binding Affinity Interaction Of The
Beta-Lactamase Inhibitor Protein- Ii (Blip-Ii) With
Class A Beta-Lactamases
pdb|3QI0|B Chain B, Structural, Thermodynamic And Kinetic Analysis Of The
Picomolar Binding Affinity Interaction Of The
Beta-Lactamase Inhibitor Protein- Ii (Blip-Ii) With
Class A Beta-Lactamases
pdb|3QI0|C Chain C, Structural, Thermodynamic And Kinetic Analysis Of The
Picomolar Binding Affinity Interaction Of The
Beta-Lactamase Inhibitor Protein- Ii (Blip-Ii) With
Class A Beta-Lactamases
pdb|3QI0|D Chain D, Structural, Thermodynamic And Kinetic Analysis Of The
Picomolar Binding Affinity Interaction Of The
Beta-Lactamase Inhibitor Protein- Ii (Blip-Ii) With
Class A Beta-Lactamases
pdb|3QI0|E Chain E, Structural, Thermodynamic And Kinetic Analysis Of The
Picomolar Binding Affinity Interaction Of The
Beta-Lactamase Inhibitor Protein- Ii (Blip-Ii) With
Class A Beta-Lactamases
pdb|3QI0|F Chain F, Structural, Thermodynamic And Kinetic Analysis Of The
Picomolar Binding Affinity Interaction Of The
Beta-Lactamase Inhibitor Protein- Ii (Blip-Ii) With
Class A Beta-Lactamases
Length = 282
Score = 50.8 bits (120), Expect = 4e-06, Method: Composition-based stats.
Identities = 67/256 (26%), Positives = 100/256 (39%), Gaps = 60/256 (23%)
Query: 3 GLWHSLALNDCGEVFTWGGDTHGQLGLESADKKSQSIPKRVKGLASVSVVQACAGYSHCL 62
G +H LAL G+V WG + +GQL + +A + S V A A
Sbjct: 32 GYFHGLALKG-GKVLGWGANLNGQLTMPAATQ---------------SGVDAIAA----- 70
Query: 63 VLTSTTGLWHSLALNDCGEVFTWGGDTHGQLGLESADKKSQSIPKRVKGLASVSVVQACA 122
G +HSLAL D GEV WGG+ GQ ++P + A A
Sbjct: 71 ------GNYHSLALKD-GEVIAWGGNEDGQ----------TTVPAEARSGVDAIAAGAWA 113
Query: 123 GYSHCLVLTSSGVVTCTHKENGCGSDPSQGVQSNLVQDSHTTITSLN-SPGELYTWGNNE 181
Y+ L V+ +G + P++ QS + T+L G + WG+N
Sbjct: 114 SYA----LKDGKVIAWGDDSDGQTTVPAEA-QSGVTALDGGVYTALAVKNGGVIAWGDNY 168
Query: 182 YGQMGINNSNTTVTKPQRVESLVNLPIALIACGANHSFVLSKSVSRLYAFGIGSAVQLDS 241
+GQ TTV P +S V+ +A G HS L ++ A+G Q
Sbjct: 169 FGQ-------TTV--PAEAQSGVD----DVAGGIFHSLALKD--GKVIAWGDNRYKQTTV 213
Query: 242 P-KSVHKTPQLIHGPW 256
P +++ + G W
Sbjct: 214 PTEALSGVSAIASGEW 229
>pdb|3MVD|K Chain K, Crystal Structure Of The Chromatin Factor Rcc1 In Complex
With The Nucleosome Core Particle
pdb|3MVD|L Chain L, Crystal Structure Of The Chromatin Factor Rcc1 In Complex
With The Nucleosome Core Particle
Length = 423
Score = 47.8 bits (112), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 37/137 (27%), Positives = 67/137 (48%), Gaps = 20/137 (14%)
Query: 2 TGLWHSLALNDCGEVFTWGGDTHGQLGLESADKKSQSIPKRVKGLASVSVVQACAGYSHC 61
G H+L L G+++++G + G LG ++++ S+S P + G + C
Sbjct: 82 AGGMHNLVLTKSGDIYSFGCNDEGALGRDTSEDGSESKPDLID----------LPGKALC 131
Query: 62 LVLTSTTGLWHSLALNDCGEVFTWGG--DTHGQLGLESADKKSQSIPKRVKGLASVSVVQ 119
+ + G HS L + G VF WG D+HG +GL + D ++ ++G S+
Sbjct: 132 I----SAGDSHSACLLEDGRVFAWGSFRDSHGNMGL-TIDGNKRTPIDLMEGTVCCSIA- 185
Query: 120 ACAGYSHCLVLTSSGVV 136
+G H ++LT++G V
Sbjct: 186 --SGADHLVILTTAGKV 200
Score = 39.7 bits (91), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 65/265 (24%), Positives = 105/265 (39%), Gaps = 47/265 (17%)
Query: 2 TGLWHSLALNDCGEVFTWGG--DTHGQLGLESADKKSQSIPKRVKGLASVSVVQACAGYS 59
G HS L + G VF WG D+HG +GL + D ++ ++G S+ +G
Sbjct: 134 AGDSHSACLLEDGRVFAWGSFRDSHGNMGL-TIDGNKRTPIDLMEGTVCCSIA---SGAD 189
Query: 60 HCLVLTSTTGLWHSLALNDCGEVFTWGGDTHGQLGLESAD--------------KKSQSI 105
H ++LT+ G+VFT G GQLG S + +Q I
Sbjct: 190 HLVILTTA------------GKVFTVGCAEQGQLGRLSERSISGEGRRGKRDLLRPTQLI 237
Query: 106 PKRVKGLASVSVVQACA--GYSHCLVLTSSGV---VTCTHKENGCG------SDPSQGVQ 154
R K ++ C S V+ ++G+ H+ G + ++
Sbjct: 238 ITRAKPFEAIWATNYCTFMRESQTQVIWATGLNNFKQLAHETKGKEFALTPIKTELKDIR 297
Query: 155 SNLVQDSHTTITSLNSPGELYTWGNNEYGQMGINNSNTTVTKPQRVESLVNLPIALIACG 214
HT I L + + G EYG++G+ + V KP V+ L I + CG
Sbjct: 298 HIAGGQHHTVI--LTTDLKCSVVGRPEYGRLGLGDVKDVVEKPTIVKKLTE-KIVSVGCG 354
Query: 215 ANHSFVLSKSVSRLYAFGIGSAVQL 239
S+ ++ +LY++G G QL
Sbjct: 355 EVCSYAVTID-GKLYSWGSGVNNQL 378
Score = 35.8 bits (81), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 35/159 (22%), Positives = 70/159 (44%), Gaps = 16/159 (10%)
Query: 67 TTGLWHSLALNDCGEVFTWGGDTHGQLGLESADKKSQSIPKRVKGLASVSVVQACAGYSH 126
+ G H+L L G+++++G + G LG ++++ S+S P + + A +S
Sbjct: 81 SAGGMHNLVLTKSGDIYSFGCNDEGALGRDTSEDGSESKPDLIDLPGKALCISAGDSHSA 140
Query: 127 CLVLTSS----GVVTCTHKENGCGSDPSQGVQSNLVQDS----------HTTITSLNSPG 172
CL+ G +H G D ++ +L++ + H I L + G
Sbjct: 141 CLLEDGRVFAWGSFRDSHGNMGLTIDGNKRTPIDLMEGTVCCSIASGADHLVI--LTTAG 198
Query: 173 ELYTWGNNEYGQMGINNSNTTVTKPQRVESLVNLPIALI 211
+++T G E GQ+G + + + +R + + P LI
Sbjct: 199 KVFTVGCAEQGQLGRLSERSISGEGRRGKRDLLRPTQLI 237
>pdb|1ND7|A Chain A, Conformational Flexibility Underlies Ubiquitin Ligation
Mediated By The Wwp1 Hect Domain E3 Ligase
Length = 374
Score = 47.4 bits (111), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 26/84 (30%), Positives = 44/84 (52%), Gaps = 12/84 (14%)
Query: 981 HTLNQYLEVEVSRDNIVEDTIRELAQYTTNDFKKPLKVNDTSPIYLAPQVKFRGEEAEDA 1040
+ L ++++ VSR + ED+ +++ D ++ L V FRGEE D
Sbjct: 18 NALPSHVKINVSRQTLFEDSFQQIMALKPYDLRRRL------------YVIFRGEEGLDY 65
Query: 1041 GGVRREFLMLLLKEILDPKYGMFK 1064
GG+ RE+ LL E+L+P Y +F+
Sbjct: 66 GGLAREWFFLLSHEVLNPMYCLFE 89
Score = 33.1 bits (74), Expect = 0.83, Method: Compositional matrix adjust.
Identities = 17/56 (30%), Positives = 30/56 (53%), Gaps = 1/56 (1%)
Query: 744 CFLIGTLCGLAIYNYTIINMPFPLALYKKILDEPILLQDLKDLSPTLAKSLQDILD 799
CF IG +A+++ I+ F L YK++L + + ++DL+ + SL I D
Sbjct: 115 CF-IGRFIAMALFHGKFIDTGFSLPFYKRMLSKKLTIKDLESIDTEFYNSLIWIRD 169
>pdb|3TUG|A Chain A, Crystal Structure Of The Hect Domain Of Itch E3 Ubiquitin
Ligase
Length = 398
Score = 45.4 bits (106), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 24/83 (28%), Positives = 44/83 (53%), Gaps = 12/83 (14%)
Query: 982 TLNQYLEVEVSRDNIVEDTIRELAQYTTNDFKKPLKVNDTSPIYLAPQVKFRGEEAEDAG 1041
+ Q++++ V+R + ED+ +++ ++ D ++ L V F GEE D G
Sbjct: 38 AMPQHIKITVTRKTLFEDSFQQIMSFSPQDLRRRL------------WVIFPGEEGLDYG 85
Query: 1042 GVRREFLMLLLKEILDPKYGMFK 1064
GV RE+ LL E+ +P Y +F+
Sbjct: 86 GVAREWFFLLSHEVSNPMYCLFE 108
Score = 41.2 bits (95), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 22/68 (32%), Positives = 37/68 (54%), Gaps = 2/68 (2%)
Query: 746 LIGTLCGLAIYNYTIINMPFPLALYKKILDEPILLQDLKDLSPTLAKSLQDILD--YREP 803
IG +A+++ I+ F L YK+IL++P+ L+DL+ + P SL + + E
Sbjct: 135 FIGRFIAMALFHGKFIDTGFSLPFYKRILNKPVGLKDLESIDPEFYNSLIWVKENNIEEC 194
Query: 804 DLEDVFGI 811
DLE F +
Sbjct: 195 DLEMYFSV 202
>pdb|2XBB|A Chain A, Nedd4 Hect:ub Complex
pdb|2XBB|B Chain B, Nedd4 Hect:ub Complex
pdb|2XBF|A Chain A, Nedd4 Hect Structure
Length = 386
Score = 44.7 bits (104), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 27/83 (32%), Positives = 42/83 (50%), Gaps = 12/83 (14%)
Query: 987 LEVEVSRDNIVEDTIRELAQYTTNDFKKPLKVNDTSPIYLAPQVKFRGEEAEDAGGVRRE 1046
E+++ R ++ED+ R + DF K ++F GE+ D GGV RE
Sbjct: 29 FEMKLRRATVLEDSYRRIMGVKRADFLKA-----------RLWIEFDGEKGLDYGGVARE 77
Query: 1047 FLMLLLKEILDPKYGMFKEYEET 1069
+ L+ KE+ +P YG+F EY T
Sbjct: 78 WFFLISKEMFNPYYGLF-EYSAT 99
Score = 37.4 bits (85), Expect = 0.051, Method: Compositional matrix adjust.
Identities = 25/74 (33%), Positives = 40/74 (54%), Gaps = 7/74 (9%)
Query: 746 LIGTLCGLAIYNYTIINMPFPLALYKKILDEPILLQDLKDLSPTLAKSLQDIL--DYREP 803
IG + G+A+Y+ +++ F YK +L +PI L D++ + SL+ IL D E
Sbjct: 123 FIGRVAGMAVYHGKLLDGFFIRPFYKMMLHKPITLHDMESVDSEYYNSLRWILENDPTEL 182
Query: 804 DL-----EDVFGIT 812
DL E++FG T
Sbjct: 183 DLRFIIDEELFGQT 196
>pdb|3JW0|C Chain C, E2~ubiquitin-Hect
pdb|3JW0|D Chain D, E2~ubiquitin-Hect
Length = 385
Score = 43.9 bits (102), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 31/107 (28%), Positives = 47/107 (43%), Gaps = 12/107 (11%)
Query: 963 EHAMNQTNFYLFLQTFNPHTLNQYLEVEVSRDNIVEDTIRELAQYTTNDFKKPLKVNDTS 1022
E Q Y + P + E+++ R+NI E++ R + D K
Sbjct: 4 EFEFKQKYDYFRKKLKKPADIPNRFEMKLHRNNIFEESYRRIMSVKRPDVLKA------- 56
Query: 1023 PIYLAPQVKFRGEEAEDAGGVRREFLMLLLKEILDPKYGMFKEYEET 1069
++F E+ D GGV RE+ LL KE+ +P YG+F EY T
Sbjct: 57 ----RLWIEFESEKGLDYGGVAREWFFLLSKEMFNPYYGLF-EYSAT 98
Score = 32.3 bits (72), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 20/70 (28%), Positives = 37/70 (52%)
Query: 746 LIGTLCGLAIYNYTIINMPFPLALYKKILDEPILLQDLKDLSPTLAKSLQDILDYREPDL 805
IG + GLA+++ +++ F YK +L + I L D++ + SL+ IL+ +L
Sbjct: 122 FIGRVAGLAVFHGKLLDGFFIRPFYKMMLGKQITLNDMESVDSEYYNSLKWILENDPTEL 181
Query: 806 EDVFGITFRN 815
+ +F I N
Sbjct: 182 DLMFCIDEEN 191
>pdb|3JVZ|C Chain C, E2~ubiquitin-Hect
pdb|3JVZ|D Chain D, E2~ubiquitin-Hect
Length = 385
Score = 43.9 bits (102), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 31/107 (28%), Positives = 47/107 (43%), Gaps = 12/107 (11%)
Query: 963 EHAMNQTNFYLFLQTFNPHTLNQYLEVEVSRDNIVEDTIRELAQYTTNDFKKPLKVNDTS 1022
E Q Y + P + E+++ R+NI E++ R + D K
Sbjct: 4 EFEFKQKYDYFRKKLKKPADIPNRFEMKLHRNNIFEESYRRIMSVKRPDVLKA------- 56
Query: 1023 PIYLAPQVKFRGEEAEDAGGVRREFLMLLLKEILDPKYGMFKEYEET 1069
++F E+ D GGV RE+ LL KE+ +P YG+F EY T
Sbjct: 57 ----RLWIEFESEKGLDYGGVAREWFFLLSKEMFNPYYGLF-EYSAT 98
Score = 32.3 bits (72), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 20/70 (28%), Positives = 37/70 (52%)
Query: 746 LIGTLCGLAIYNYTIINMPFPLALYKKILDEPILLQDLKDLSPTLAKSLQDILDYREPDL 805
IG + GLA+++ +++ F YK +L + I L D++ + SL+ IL+ +L
Sbjct: 122 FIGRVAGLAVFHGKLLDGFFIRPFYKMMLGKQITLNDMESVDSEYYNSLKWILENDPTEL 181
Query: 806 EDVFGITFRN 815
+ +F I N
Sbjct: 182 DLMFCIDEEN 191
>pdb|2ONI|A Chain A, Catalytic Domain Of The Human Nedd4-Like E3 Ligase
Length = 392
Score = 42.4 bits (98), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 31/110 (28%), Positives = 45/110 (40%), Gaps = 12/110 (10%)
Query: 960 IQMEHAMNQTNFYLFLQTFNPHTLNQYLEVEVSRDNIVEDTIRELAQYTTNDFKKPLKVN 1019
Q Q Y + P + E ++ R+NI E++ R + D K
Sbjct: 16 FQGSREFKQKYDYFRKKLKKPADIPNRFEXKLHRNNIFEESYRRIXSVKRPDVLKA---- 71
Query: 1020 DTSPIYLAPQVKFRGEEAEDAGGVRREFLMLLLKEILDPKYGMFKEYEET 1069
++F E+ D GGV RE+ LL KE +P YG+F EY T
Sbjct: 72 -------RLWIEFESEKGLDYGGVAREWFFLLSKEXFNPYYGLF-EYSAT 113
Score = 30.4 bits (67), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 24/76 (31%), Positives = 38/76 (50%), Gaps = 7/76 (9%)
Query: 746 LIGTLCGLAIYNYTIINMPFPLALYKKILDEPILLQDLKDLSPTLAKSLQDIL--DYREP 803
IG + GLA+++ +++ F YK L + I L D + + SL+ IL D E
Sbjct: 137 FIGRVAGLAVFHGKLLDGFFIRPFYKXXLGKQITLNDXESVDSEYYNSLKWILENDPTEL 196
Query: 804 DL-----EDVFGITFR 814
DL E+ FG T++
Sbjct: 197 DLXFCIDEENFGQTYQ 212
>pdb|1W9C|A Chain A, Proteolytic Fragment Of Crm1 Spanning Six C-Terminal Heat
Repeats
pdb|1W9C|B Chain B, Proteolytic Fragment Of Crm1 Spanning Six C-Terminal Heat
Repeats
Length = 321
Score = 33.9 bits (76), Expect = 0.57, Method: Compositional matrix adjust.
Identities = 20/60 (33%), Positives = 35/60 (58%), Gaps = 1/60 (1%)
Query: 942 PFIFDAKAKTTLLEMDQRIQMEHAMNQTNFYLFLQTFNPHTLNQYLEVEVSRDNIVEDTI 1001
P IFDA + TL +++ + E+ ++TNF+L LQ N H +L + ++ +V D+I
Sbjct: 114 PQIFDAVFECTLNMINKDFE-EYPEHRTNFFLLLQAVNSHCFPAFLAIPPTQFKLVLDSI 172
>pdb|3GJX|A Chain A, Crystal Structure Of The Nuclear Export Complex Crm1-
Snurportin1-Rangtp
pdb|3GJX|D Chain D, Crystal Structure Of The Nuclear Export Complex Crm1-
Snurportin1-Rangtp
pdb|3NBY|A Chain A, Crystal Structure Of The Pki Nes-Crm1-Rangtp Nuclear Export
Complex
pdb|3NBY|D Chain D, Crystal Structure Of The Pki Nes-Crm1-Rangtp Nuclear Export
Complex
pdb|3NBZ|A Chain A, Crystal Structure Of The Hiv-1 Rev Nes-Crm1-Rangtp Nuclear
Export Complex (Crystal I)
pdb|3NBZ|D Chain D, Crystal Structure Of The Hiv-1 Rev Nes-Crm1-Rangtp Nuclear
Export Complex (Crystal I)
pdb|3NC0|A Chain A, Crystal Structure Of The Hiv-1 Rev Nes-Crm1-Rangtp Nuclear
Export Complex (Crystal Ii)
pdb|3NC0|D Chain D, Crystal Structure Of The Hiv-1 Rev Nes-Crm1-Rangtp Nuclear
Export Complex (Crystal Ii)
pdb|3NC1|A Chain A, Crystal Structure Of The Crm1-Rangtp Complex
Length = 1073
Score = 33.5 bits (75), Expect = 0.72, Method: Compositional matrix adjust.
Identities = 20/60 (33%), Positives = 35/60 (58%), Gaps = 1/60 (1%)
Query: 942 PFIFDAKAKTTLLEMDQRIQMEHAMNQTNFYLFLQTFNPHTLNQYLEVEVSRDNIVEDTI 1001
P IFDA + TL +++ + E+ ++TNF+L LQ N H +L + ++ +V D+I
Sbjct: 822 PQIFDAVFECTLNMINKDFE-EYPEHRTNFFLLLQAVNSHCFPAFLAIPPAQFKLVLDSI 880
>pdb|3GB8|A Chain A, Crystal Structure Of Crm1SNURPORTIN-1 Complex
Length = 1071
Score = 33.5 bits (75), Expect = 0.80, Method: Compositional matrix adjust.
Identities = 20/60 (33%), Positives = 35/60 (58%), Gaps = 1/60 (1%)
Query: 942 PFIFDAKAKTTLLEMDQRIQMEHAMNQTNFYLFLQTFNPHTLNQYLEVEVSRDNIVEDTI 1001
P IFDA + TL +++ + E+ ++TNF+L LQ N H +L + ++ +V D+I
Sbjct: 820 PQIFDAVFECTLNMINKDFE-EYPEHRTNFFLLLQAVNSHCFPAFLAIPPTQFKLVLDSI 878
>pdb|3NVN|A Chain A, Molecular Mechanism Of Guidance Cue Recognition
Length = 389
Score = 31.2 bits (69), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 15/46 (32%), Positives = 24/46 (52%), Gaps = 7/46 (15%)
Query: 172 GELYTWGNNEYGQMGINNSNTTVTKPQRVESLVNLPIALIACGANH 217
G +YT+ NNE + G+ N+N +T +VE + CG N+
Sbjct: 32 GAVYTFSNNELNKTGLTNNNNYITTSIKVED-------TLVCGTNN 70
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
0.322 0.138 0.425
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 34,486,150
Number of Sequences: 62578
Number of extensions: 1444578
Number of successful extensions: 2806
Number of sequences better than 100.0: 26
Number of HSP's better than 100.0 without gapping: 22
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 2611
Number of HSP's gapped (non-prelim): 86
length of query: 1149
length of database: 14,973,337
effective HSP length: 109
effective length of query: 1040
effective length of database: 8,152,335
effective search space: 8478428400
effective search space used: 8478428400
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 57 (26.6 bits)