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= psy14208
(778 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3DPL|C Chain C, Structural Insights Into Nedd8 Activation Of Cullin-Ring
Ligases: Conformational Control Of Conjugation
Length = 382
Score = 605 bits (1561), Expect = e-173, Method: Compositional matrix adjust.
Identities = 294/380 (77%), Positives = 339/380 (89%), Gaps = 1/380 (0%)
Query: 400 ESKCPELLANYCDMLLRKTPLSKRLTADEIESKLRNVLLVLKYVQNKDVFMRFHKAHLTR 459
ESKCPE LANYCDMLLRKTPLSK+LT++EIE+KL+ VL LKYVQNKDVFMR+HKAHLTR
Sbjct: 3 ESKCPEELANYCDMLLRKTPLSKKLTSEEIEAKLKEVLKKLKYVQNKDVFMRYHKAHLTR 62
Query: 460 RLILDTSADSEKEENMVEWLRDVGMPADYVNKLARMFQDIKVSQDLNYQFKQSYRGSKGS 519
RLILD SADSE EENMVEWLR+VGMPADYVNKLARMFQDIKVS+DLN FK+ ++ +K +
Sbjct: 63 RLILDISADSEIEENMVEWLREVGMPADYVNKLARMFQDIKVSEDLNQAFKEMHKNNKLA 122
Query: 520 I-GDSINIKILNAGAWARGSERVTVSLPLELEDYIPEVEDFYKKKHSGRKLQWYHHMSNG 578
+ DS+NIKILNAGAW+R SE+V VSLP ELED IPEVE+FYKK HSGRKL W+H MSNG
Sbjct: 123 LPADSVNIKILNAGAWSRSSEKVFVSLPTELEDLIPEVEEFYKKNHSGRKLHWHHLMSNG 182
Query: 579 TITFSNEVGKYDLDVTTFQMAVLFAWNERPLDRLSFENLLLATELPDPELRRTLWSLVAF 638
ITF NEVG+YDL+VTTFQ+AVLFAWN+RP +++SFENL LATELPD ELRRTLWSLVAF
Sbjct: 183 IITFKNEVGQYDLEVTTFQLAVLFAWNQRPREKISFENLKLATELPDAELRRTLWSLVAF 242
Query: 639 PKIKRQILLYSEEVQSPKDFTEHTSFWINQEFALVKMGKILKRGKINLIGRLQLSTEKSK 698
PK+KRQ+LLY +V SPKDFTE T F +NQEF+L+K K+ KRGKINLIGRLQL+TE+ +
Sbjct: 243 PKLKRQVLLYEPQVNSPKDFTEGTLFSVNQEFSLIKNAKVQKRGKINLIGRLQLTTERMR 302
Query: 699 EEDNESIVQLRILRVQEAIIKILKMRKRISNAQLQTELVDILKNMFLPSKKMIKEQIEWL 758
EE+NE IVQLRILR QEAII+I+KMRK+ISNAQLQTELV+ILKNMFLP KKMIKEQIEWL
Sbjct: 303 EEENEGIVQLRILRTQEAIIQIMKMRKKISNAQLQTELVEILKNMFLPQKKMIKEQIEWL 362
Query: 759 IEQKYMRRDDDDINVFVYLA 778
IE KY+RRD+ DIN F+Y+A
Sbjct: 363 IEHKYIRRDESDINTFIYMA 382
>pdb|3DQV|C Chain C, Structural Insights Into Nedd8 Activation Of Cullin-Ring
Ligases: Conformational Control Of Conjugation
pdb|3DQV|D Chain D, Structural Insights Into Nedd8 Activation Of Cullin-Ring
Ligases: Conformational Control Of Conjugation
Length = 382
Score = 565 bits (1455), Expect = e-161, Method: Compositional matrix adjust.
Identities = 285/380 (75%), Positives = 328/380 (86%), Gaps = 1/380 (0%)
Query: 400 ESKCPELLANYCDMLLRKTPLSKRLTADEIESKLRNVLLVLKYVQNKDVFMRFHKAHLTR 459
ESKCPE LANYCD LLRKTPLSK+LT++EIE+KL+ VL LKYVQNKDVF R+HKAHLTR
Sbjct: 3 ESKCPEELANYCDXLLRKTPLSKKLTSEEIEAKLKEVLKKLKYVQNKDVFXRYHKAHLTR 62
Query: 460 RLILDTSADSEKEENMVEWLRDVGMPADYVNKLARMFQDIKVSQDLNYQFKQSYRGSKGS 519
RLILD SADSE EEN VEWLR+VG PADYVNKLAR FQDIKVS+DLN FK+ ++ +K +
Sbjct: 63 RLILDISADSEIEENXVEWLREVGXPADYVNKLARXFQDIKVSEDLNQAFKEXHKNNKLA 122
Query: 520 I-GDSINIKILNAGAWARGSERVTVSLPLELEDYIPEVEDFYKKKHSGRKLQWYHHMSNG 578
+ DS+NIKILNAGAW+R SE+V VSLP ELED IPEVE+FYKK HSGRKL W+H SNG
Sbjct: 123 LPADSVNIKILNAGAWSRSSEKVFVSLPTELEDLIPEVEEFYKKNHSGRKLHWHHLXSNG 182
Query: 579 TITFSNEVGKYDLDVTTFQMAVLFAWNERPLDRLSFENLLLATELPDPELRRTLWSLVAF 638
ITF NEVG+YDL+VTTFQ+AVLFAWN+RP +++SFENL LATELPD ELRRTLWSLVAF
Sbjct: 183 IITFKNEVGQYDLEVTTFQLAVLFAWNQRPREKISFENLKLATELPDAELRRTLWSLVAF 242
Query: 639 PKIKRQILLYSEEVQSPKDFTEHTSFWINQEFALVKMGKILKRGKINLIGRLQLSTEKSK 698
PK+KRQ+LLY +V SPKDFTE T F +NQEF+L+K K+ KRGKINLIGRLQL+TE+ +
Sbjct: 243 PKLKRQVLLYEPQVNSPKDFTEGTLFSVNQEFSLIKNAKVQKRGKINLIGRLQLTTERXR 302
Query: 699 EEDNESIVQLRILRVQEAIIKILKMRKRISNAQLQTELVDILKNMFLPSKKMIKEQIEWL 758
EE+NE IVQLRILR QEAII+I K RK+ISNAQLQTELV+ILKN FLP KK IKEQIEWL
Sbjct: 303 EEENEGIVQLRILRTQEAIIQIXKXRKKISNAQLQTELVEILKNXFLPQKKXIKEQIEWL 362
Query: 759 IEQKYMRRDDDDINVFVYLA 778
IE KY+RRD+ DIN F+Y A
Sbjct: 363 IEHKYIRRDESDINTFIYXA 382
>pdb|2WZK|A Chain A, Structure Of The Cul5 N-Terminal Domain At 2.05a
Resolution
Length = 391
Score = 494 bits (1271), Expect = e-139, Method: Compositional matrix adjust.
Identities = 244/389 (62%), Positives = 295/389 (75%), Gaps = 11/389 (2%)
Query: 1 MLKDKGTQTFEDKWPSMRPIVLKLLQQEPVSQNEWQNLFYAVHVVCLWDEKGPSKIVDAL 60
+LK+KG+ FEDKW M PIVLKLL+QE V++ +W +LF VH VCLWD+KG SKI AL
Sbjct: 6 LLKNKGSLQFEDKWDFMHPIVLKLLRQESVTKQQWFDLFSDVHAVCLWDDKGSSKIHQAL 65
Query: 61 KEDIMNFIRHAQQRVLAHEEDQALLKAYIQEWSKFLAQCSYLPTPFRQLETSLVNKSVST 120
KEDI+ FI+ AQ RVL+H++D ALLKAYI EW KF QC LP PF QLE +L+ K S
Sbjct: 66 KEDILEFIKQAQARVLSHQDDTALLKAYIVEWRKFFTQCDILPKPFCQLEVTLLGKQSSN 125
Query: 121 SLTNNNNKQKISAEESTVRVLMLDSWNQSIFNDIKQRLQDSAMKLVQSERNGEAFDSQLV 180
+N E+S VR LMLD+WN+SIF++IK RLQDSAMKLV +ER GEAFDSQLV
Sbjct: 126 KKSN--------MEDSIVRKLMLDTWNESIFSNIKNRLQDSAMKLVHAERLGEAFDSQLV 177
Query: 181 IGVRESYVNLCSNPEDKLQIYREHFEKAYIAATESFYTVKAAEFLQNNGVESYMKYADAK 240
IGVRESYVNLCSNPEDKLQIYR++FEKAY+ +TE FY +A +LQ NGV++YMKYADAK
Sbjct: 178 IGVRESYVNLCSNPEDKLQIYRDNFEKAYLDSTERFYRTQAPSYLQQNGVQNYMKYADAK 237
Query: 241 LHEEELRACKYLES---SSSVQLLTDCCVTVLVSSFKNTILAECPKMIXXXXXXXXXXXX 297
L EEE RA +YLE+ +SV+ L +CCV LV+SFK TILAEC MI
Sbjct: 238 LKEEEKRALRYLETRRECNSVEALMECCVNALVTSFKETILAECQGMIKRNETEKLHLMF 297
Query: 298 XXXDRIKDGITPMLQDLEAHIVNAGLADMIASADIITQDSEKYVERLLELFNQFSKLVKD 357
D++ +GI PML+DLE HI++AGLADM+A+A+ IT DSEKY E+L LFN+FSKLVK+
Sbjct: 298 SLMDKVPNGIEPMLKDLEEHIISAGLADMVAAAETITTDSEKYREQLDTLFNRFSKLVKE 357
Query: 358 AFKDDPRFLTARDKAYKNVVNDTTVFKLE 386
AF+DDPRFLTARDKAYK VVND T+FK E
Sbjct: 358 AFQDDPRFLTARDKAYKAVVNDATIFKAE 386
>pdb|1U6G|A Chain A, Crystal Structure Of The Cand1-Cul1-Roc1 Complex
Length = 776
Score = 319 bits (818), Expect = 3e-87, Method: Compositional matrix adjust.
Identities = 223/711 (31%), Positives = 368/711 (51%), Gaps = 59/711 (8%)
Query: 81 DQALLKAYIQEW------SKFL-AQCSYLPTPFRQLETSLVNKSVSTSLTNNNNKQKISA 133
D+++LK Y Q+W SK L C+YL + + E K +
Sbjct: 112 DESVLKFYTQQWEDYRFSSKVLNGICAYLNRHWVRRECDEGRKGIYE------------- 158
Query: 134 EESTVRVLMLDSWNQSIFNDIKQRLQDSAMKLVQSERNGEAFDSQLVIGVRESYVNLCSN 193
+ L L +W +F + +++ ++ +KL++ ERNGE +++L+ GV +SYV L N
Sbjct: 159 ----IYSLALVTWRDCLFRPLNKQVTNAVLKLIEKERNGETINTRLISGVVQSYVELGLN 214
Query: 194 PEDK------LQIYREHFEKAYIAATESFYTVKAAEFLQNNGVESYMKYADAKLHEEELR 247
+D L +Y+E FE ++A TE FYT ++ EFLQ N V YMK A+A+L EE+ R
Sbjct: 215 EDDAFAKGPTLTVYKESFESQFLADTERFYTRESTEFLQQNPVTEYMKKAEARLLEEQRR 274
Query: 248 ACKYLESSSSVQLLTDCCVTVLVSSFKNTILAECPKMIXXXXXXXXXXXXXXXDRIKDGI 307
YL S+ +L C VL+ E ++ RI+DG+
Sbjct: 275 VQVYLHESTQDELARK-CEQVLIEKHLEIFHTEFQNLLDADKNEDLGRMYNLVSRIQDGL 333
Query: 308 TPMLQDLEAHIVNAGLADMIASADIITQDSEKYVERLLELFNQFSKLVKDAFKDDPRFLT 367
+ + LE HI N GLA + + D + YV+ +L++ +++ LV AF +D F+
Sbjct: 334 GELKKLLETHIHNQGLAAIEKCGEAALNDPKMYVQTVLDVHKKYNALVMSAFNNDAGFVA 393
Query: 368 ARDKAYKNVVNDTTVFKLELPTKQCTGIKTLPESKCPELLANYCDMLLRKTPLSKRLTAD 427
A DKA +N+ V K+ + SK PELLA YCD LL+K+ SK
Sbjct: 394 ALDKACGRFINNNAVTKMAQSS-----------SKSPELLARYCDSLLKKS--SKNPEEA 440
Query: 428 EIESKLRNVLLVLKYVQNKDVFMRFHKAHLTRRLILDTSADSEKEENMVEWLRDVGMPAD 487
E+E L V++V KY+++KDVF +F+ L +RL+ SA + E +M+ L+ +
Sbjct: 441 ELEDTLNQVMVVFKYIEDKDVFQKFYAKMLAKRLVHQNSASDDAEASMISKLKQ-ACGFE 499
Query: 488 YVNKLARMFQDIKVSQDLNYQFKQSYRGSKGSIGDSINIKILNAGAWARGSERVTVSLPL 547
Y +KL RMFQDI VS+DLN QFK+ S+ + +I++L++G+W + T +LP
Sbjct: 500 YTSKLQRMFQDIGVSKDLNEQFKKHLTNSE-PLDLDFSIQVLSSGSWP-FQQSCTFALPS 557
Query: 548 ELEDYIPEVEDFYKKKHSGRKLQWYHHMSNGTITFSNEVGKYDLDVTTFQMAVLFAWNER 607
ELE FY +HSGRKL W + +S G + + +Y L +TFQMA+L +N
Sbjct: 558 ELERSYQRFTAFYASRHSGRKLTWLYQLSKGELVTNCFKNRYTLQASTFQMAILLQYNTE 617
Query: 608 PLDRLSFENLLLATELPDPELRRTLWSLVAFPKIKRQILLYSEEVQSPKDFTEHTSFWIN 667
D + + L +T++ L + L L +K ++L+ +E + + I
Sbjct: 618 --DAYTVQQLTDSTQIKMDILAQVLQIL-----LKSKLLVLEDENANVDEVELKPDTLIK 670
Query: 668 QEFALVKMGKILKRGKINLIGRLQLSTEKSKEEDNESIVQLRILRVQEAIIKILKMRKRI 727
+ +G K+ ++N+ ++ ++ +E +++I + R L +Q AI++I+KMRK +
Sbjct: 671 -----LYLGYKNKKLRVNINVPMKTEQKQEQETTHKNIEEDRKLLIQAAIVRIMKMRKVL 725
Query: 728 SNAQLQTELVDILKNMFLPSKKMIKEQIEWLIEQKYMRRDDDDINVFVYLA 778
+ QL E++ L + F P +IK+ I+ LIE++Y+ R D + + + YLA
Sbjct: 726 KHQQLLGEVLTQLSSRFKPRVPVIKKCIDILIEKEYLERVDGEKDTYSYLA 776
>pdb|1LDJ|A Chain A, Structure Of The Cul1-rbx1-skp1-f Boxskp2 Scf Ubiquitin
Ligase Complex
Length = 760
Score = 319 bits (818), Expect = 4e-87, Method: Compositional matrix adjust.
Identities = 223/711 (31%), Positives = 368/711 (51%), Gaps = 59/711 (8%)
Query: 81 DQALLKAYIQEW------SKFL-AQCSYLPTPFRQLETSLVNKSVSTSLTNNNNKQKISA 133
D+++LK Y Q+W SK L C+YL + + E K +
Sbjct: 96 DESVLKFYTQQWEDYRFSSKVLNGICAYLNRHWVRRECDEGRKGIYE------------- 142
Query: 134 EESTVRVLMLDSWNQSIFNDIKQRLQDSAMKLVQSERNGEAFDSQLVIGVRESYVNLCSN 193
+ L L +W +F + +++ ++ +KL++ ERNGE +++L+ GV +SYV L N
Sbjct: 143 ----IYSLALVTWRDCLFRPLNKQVTNAVLKLIEKERNGETINTRLISGVVQSYVELGLN 198
Query: 194 PEDK------LQIYREHFEKAYIAATESFYTVKAAEFLQNNGVESYMKYADAKLHEEELR 247
+D L +Y+E FE ++A TE FYT ++ EFLQ N V YMK A+A+L EE+ R
Sbjct: 199 EDDAFAKGPTLTVYKESFESQFLADTERFYTRESTEFLQQNPVTEYMKKAEARLLEEQRR 258
Query: 248 ACKYLESSSSVQLLTDCCVTVLVSSFKNTILAECPKMIXXXXXXXXXXXXXXXDRIKDGI 307
YL S+ +L C VL+ E ++ RI+DG+
Sbjct: 259 VQVYLHESTQDELARK-CEQVLIEKHLEIFHTEFQNLLDADKNEDLGRMYNLVSRIQDGL 317
Query: 308 TPMLQDLEAHIVNAGLADMIASADIITQDSEKYVERLLELFNQFSKLVKDAFKDDPRFLT 367
+ + LE HI N GLA + + D + YV+ +L++ +++ LV AF +D F+
Sbjct: 318 GELKKLLETHIHNQGLAAIEKCGEAALNDPKMYVQTVLDVHKKYNALVMSAFNNDAGFVA 377
Query: 368 ARDKAYKNVVNDTTVFKLELPTKQCTGIKTLPESKCPELLANYCDMLLRKTPLSKRLTAD 427
A DKA +N+ V K+ + SK PELLA YCD LL+K+ SK
Sbjct: 378 ALDKACGRFINNNAVTKMAQSS-----------SKSPELLARYCDSLLKKS--SKNPEEA 424
Query: 428 EIESKLRNVLLVLKYVQNKDVFMRFHKAHLTRRLILDTSADSEKEENMVEWLRDVGMPAD 487
E+E L V++V KY+++KDVF +F+ L +RL+ SA + E +M+ L+ +
Sbjct: 425 ELEDTLNQVMVVFKYIEDKDVFQKFYAKMLAKRLVHQNSASDDAEASMISKLKQ-ACGFE 483
Query: 488 YVNKLARMFQDIKVSQDLNYQFKQSYRGSKGSIGDSINIKILNAGAWARGSERVTVSLPL 547
Y +KL RMFQDI VS+DLN QFK+ S+ + +I++L++G+W + T +LP
Sbjct: 484 YTSKLQRMFQDIGVSKDLNEQFKKHLTNSE-PLDLDFSIQVLSSGSWP-FQQSCTFALPS 541
Query: 548 ELEDYIPEVEDFYKKKHSGRKLQWYHHMSNGTITFSNEVGKYDLDVTTFQMAVLFAWNER 607
ELE FY +HSGRKL W + +S G + + +Y L +TFQMA+L +N
Sbjct: 542 ELERSYQRFTAFYASRHSGRKLTWLYQLSKGELVTNCFKNRYTLQASTFQMAILLQYNTE 601
Query: 608 PLDRLSFENLLLATELPDPELRRTLWSLVAFPKIKRQILLYSEEVQSPKDFTEHTSFWIN 667
D + + L +T++ L + L L +K ++L+ +E + + I
Sbjct: 602 --DAYTVQQLTDSTQIKMDILAQVLQIL-----LKSKLLVLEDENANVDEVELKPDTLIK 654
Query: 668 QEFALVKMGKILKRGKINLIGRLQLSTEKSKEEDNESIVQLRILRVQEAIIKILKMRKRI 727
+ +G K+ ++N+ ++ ++ +E +++I + R L +Q AI++I+KMRK +
Sbjct: 655 -----LYLGYKNKKLRVNINVPMKTEQKQEQETTHKNIEEDRKLLIQAAIVRIMKMRKVL 709
Query: 728 SNAQLQTELVDILKNMFLPSKKMIKEQIEWLIEQKYMRRDDDDINVFVYLA 778
+ QL E++ L + F P +IK+ I+ LIE++Y+ R D + + + YLA
Sbjct: 710 KHQQLLGEVLTQLSSRFKPRVPVIKKCIDILIEKEYLERVDGEKDTYSYLA 760
>pdb|4A0K|A Chain A, Structure Of Ddb1-Ddb2-Cul4a-Rbx1 Bound To A 12 Bp Abasic
Site Containing Dna-Duplex
Length = 742
Score = 205 bits (521), Expect = 9e-53, Method: Compositional matrix adjust.
Identities = 179/646 (27%), Positives = 309/646 (47%), Gaps = 71/646 (10%)
Query: 143 LDSWNQSIFND--IKQRLQDSAMKLVQSERNGEAFDSQLVIGVRESYVNLCSNPEDKLQI 200
L+ + I +D ++ + D + L++ ER+GEA D L+ S + + S+ LQ+
Sbjct: 158 LELFRTHIISDKMVQSKTIDGILLLIERERSGEAVDRSLL----RSLLGMLSD----LQV 209
Query: 201 YREHFEKAYIAATESFYTVKAAEFLQNNGVESYMKYADAKLHEEELRACKYLESSSSVQL 260
Y++ FE ++ T Y + +Q V Y+ + +L EE R YL+ S+ L
Sbjct: 210 YKDSFELKFLEETNCLYAAEGQRLMQEREVPEYLNHVSKRLEEEGDRVITYLDHSTQKPL 269
Query: 261 LTDCCVTVLVSSFKNTILAE-CPKMIXXXXXXXXXXXXXXXDRIKDGITPMLQDLEAHIV 319
+ C L+ IL + ++ R++ G +LQ +I
Sbjct: 270 IA-CVEKQLLGEHLTAILQKGLDHLLDENRVPDLAQMYQLFSRVRGGQQALLQHWSEYIK 328
Query: 320 NAGLADMIASADIITQDSEK-YVERLLELFNQFSKLVKDAFKDDPRFLTARDKAYKNVVN 378
G +A +I + +K V+ LL+ ++ +++ F+ + RF+ ++++ +N
Sbjct: 329 TFG------TAIVINPEKDKDMVQDLLDFKDKVDHVIEVCFQKNERFVNLMKESFETFIN 382
Query: 379 DTTVFKLELPTKQCTGIKTLPESKCPELLANYCDMLLRKTPLSKRLTADEIESKLRNVLL 438
+K EL+A + D LR +K T +E+E L +++
Sbjct: 383 KRP-------------------NKPAELIAKHVDSKLRAG--NKEATDEELERTLDKIMI 421
Query: 439 VLKYVQNKDVFMRFHKAHLTRRLILDTSADSEKEENMVEWLR-DVGMPADYVNKLARMFQ 497
+ +++ KDVF F+K L +RL++ SA + E++M+ L+ + G A + +KL MF+
Sbjct: 422 LFRFIHGKDVFEAFYKKDLAKRLLVGKSASVDAEKSMLSKLKHECG--AAFTSKLEGMFK 479
Query: 498 DIKVSQDLNYQFKQSYRGSKGSIGDSINIKILNAGAWARGSERVTVSLPLELEDYIPEVE 557
D+++S+D+ FKQ + S + + IL G W + + V L E+ +
Sbjct: 480 DMELSKDIMVHFKQHMQNQSDSGPIDLTVNILTMGYWPTYTP-MEVHLTPEMIKLQEVFK 538
Query: 558 DFYKKKHSGRKLQWYHHMSNGTITFSNEVGKYDLDVTTFQMAVLFAWNERPLDRLSFENL 617
FY KHSGRKLQW + + + + GK + V+ FQ VL +NE D SFE +
Sbjct: 539 AFYLGKHSGRKLQWQTTLGHAVLKAEFKEGKKEFQVSLFQTLVLLMFNEG--DGFSFEEI 596
Query: 618 LLATELPDPELRRTLWSLVAFPKIKRQILLYSEEVQSP--KDFTEHTSFWINQEFALVKM 675
+AT + D ELRRTL SL K ++L ++SP K+ + F N EF
Sbjct: 597 KMATGIEDSELRRTLQSLACG---KARVL-----IKSPKGKEVEDGDKFIFNGEFK---- 644
Query: 676 GKILKRGKINLIGRLQLSTEKSKEED---NESIVQLRILRVQEAIIKILKMRKRISNAQL 732
L R KIN Q+ +++ EE E + Q R ++ AI++I+KMRK + + L
Sbjct: 645 -HKLFRIKIN-----QIQMKETVEEQVSTTERVFQDRQYQIDAAIVRIMKMRKTLGHNLL 698
Query: 733 QTELVDILKNMFLPSKKMIKEQIEWLIEQKYMRRDDDDINVFVYLA 778
+EL + LK P +K++IE LI++ YM RD D+ N + Y+A
Sbjct: 699 VSELYNQLKFPVKPGD--LKKRIESLIDRDYMERDKDNPNQYHYVA 742
>pdb|2HYE|C Chain C, Crystal Structure Of The Ddb1-cul4a-rbx1-sv5v Complex
Length = 759
Score = 205 bits (521), Expect = 9e-53, Method: Compositional matrix adjust.
Identities = 179/646 (27%), Positives = 309/646 (47%), Gaps = 71/646 (10%)
Query: 143 LDSWNQSIFND--IKQRLQDSAMKLVQSERNGEAFDSQLVIGVRESYVNLCSNPEDKLQI 200
L+ + I +D ++ + D + L++ ER+GEA D L+ S + + S+ LQ+
Sbjct: 175 LELFRTHIISDKMVQSKTIDGILLLIERERSGEAVDRSLL----RSLLGMLSD----LQV 226
Query: 201 YREHFEKAYIAATESFYTVKAAEFLQNNGVESYMKYADAKLHEEELRACKYLESSSSVQL 260
Y++ FE ++ T Y + +Q V Y+ + +L EE R YL+ S+ L
Sbjct: 227 YKDSFELKFLEETNCLYAAEGQRLMQEREVPEYLNHVSKRLEEEGDRVITYLDHSTQKPL 286
Query: 261 LTDCCVTVLVSSFKNTILAE-CPKMIXXXXXXXXXXXXXXXDRIKDGITPMLQDLEAHIV 319
+ C L+ IL + ++ R++ G +LQ +I
Sbjct: 287 IA-CVEKQLLGEHLTAILQKGLDHLLDENRVPDLAQMYQLFSRVRGGQQALLQHWSEYIK 345
Query: 320 NAGLADMIASADIITQDSEK-YVERLLELFNQFSKLVKDAFKDDPRFLTARDKAYKNVVN 378
G +A +I + +K V+ LL+ ++ +++ F+ + RF+ ++++ +N
Sbjct: 346 TFG------TAIVINPEKDKDMVQDLLDFKDKVDHVIEVCFQKNERFVNLMKESFETFIN 399
Query: 379 DTTVFKLELPTKQCTGIKTLPESKCPELLANYCDMLLRKTPLSKRLTADEIESKLRNVLL 438
+K EL+A + D LR +K T +E+E L +++
Sbjct: 400 KRP-------------------NKPAELIAKHVDSKLRAG--NKEATDEELERTLDKIMI 438
Query: 439 VLKYVQNKDVFMRFHKAHLTRRLILDTSADSEKEENMVEWLR-DVGMPADYVNKLARMFQ 497
+ +++ KDVF F+K L +RL++ SA + E++M+ L+ + G A + +KL MF+
Sbjct: 439 LFRFIHGKDVFEAFYKKDLAKRLLVGKSASVDAEKSMLSKLKHECG--AAFTSKLEGMFK 496
Query: 498 DIKVSQDLNYQFKQSYRGSKGSIGDSINIKILNAGAWARGSERVTVSLPLELEDYIPEVE 557
D+++S+D+ FKQ + S + + IL G W + + V L E+ +
Sbjct: 497 DMELSKDIMVHFKQHMQNQSDSGPIDLTVNILTMGYWPTYTP-MEVHLTPEMIKLQEVFK 555
Query: 558 DFYKKKHSGRKLQWYHHMSNGTITFSNEVGKYDLDVTTFQMAVLFAWNERPLDRLSFENL 617
FY KHSGRKLQW + + + + GK + V+ FQ VL +NE D SFE +
Sbjct: 556 AFYLGKHSGRKLQWQTTLGHAVLKAEFKEGKKEFQVSLFQTLVLLMFNEG--DGFSFEEI 613
Query: 618 LLATELPDPELRRTLWSLVAFPKIKRQILLYSEEVQSP--KDFTEHTSFWINQEFALVKM 675
+AT + D ELRRTL SL K ++L ++SP K+ + F N EF
Sbjct: 614 KMATGIEDSELRRTLQSLACG---KARVL-----IKSPKGKEVEDGDKFIFNGEFK---- 661
Query: 676 GKILKRGKINLIGRLQLSTEKSKEED---NESIVQLRILRVQEAIIKILKMRKRISNAQL 732
L R KIN Q+ +++ EE E + Q R ++ AI++I+KMRK + + L
Sbjct: 662 -HKLFRIKIN-----QIQMKETVEEQVSTTERVFQDRQYQIDAAIVRIMKMRKTLGHNLL 715
Query: 733 QTELVDILKNMFLPSKKMIKEQIEWLIEQKYMRRDDDDINVFVYLA 778
+EL + LK P +K++IE LI++ YM RD D+ N + Y+A
Sbjct: 716 VSELYNQLKFPVKPGD--LKKRIESLIDRDYMERDKDNPNQYHYVA 759
>pdb|4A0L|E Chain E, Structure Of Ddb1-Ddb2-Cul4b-Rbx1 Bound To A 12 Bp Abasic
Site Containing Dna-Duplex
pdb|4A0L|H Chain H, Structure Of Ddb1-Ddb2-Cul4b-Rbx1 Bound To A 12 Bp Abasic
Site Containing Dna-Duplex
Length = 726
Score = 193 bits (491), Expect = 3e-49, Method: Compositional matrix adjust.
Identities = 170/623 (27%), Positives = 293/623 (47%), Gaps = 61/623 (9%)
Query: 160 DSAMKLVQSERNGEAFDSQLVIGVRESYVNLCSNPEDKLQIYREHFEKAYIAATESFYTV 219
D + L++ ERNGEA + S + + LQIY++ FE+ ++ T Y
Sbjct: 161 DGILLLIERERNGEA--------IDRSLLRSLLSMLSDLQIYQDSFEQRFLEETNRLYAA 212
Query: 220 KAAEFLQNNGVESYMKYADAKLHEEELRACKYLESSSSVQLLTDCCVTVLVSSFKNTILA 279
+ + +Q V Y+ + + +L EE R YL+ ++ L+ +L +
Sbjct: 213 EGQKLMQEREVPEYLHHVNKRLEEEADRLITYLDQTTQKSLIATVEKQLLGEHLTAILQK 272
Query: 280 ECPKMIXXXXXXXXXXXXXXXDRIKDGITPMLQDLEAHIVNAGLADMIASADIITQDSEK 339
++ R++ G+ +LQ +I G S +I + +K
Sbjct: 273 GLNNLLDENRIQDLSLLYQLFSRVRGGVQVLLQQWIEYIKAFG------STIVINPEKDK 326
Query: 340 -YVERLLELFNQFSKLVKDAFKDDPRFLTARDKAYKNVVNDTTVFKLELPTKQCTGIKTL 398
V+ LL+ ++ ++ F + +F+ A +A++ +N
Sbjct: 327 TMVQELLDFKDKVDHIIDICFLKNEKFINAMKEAFETFINKRP----------------- 369
Query: 399 PESKCPELLANYCDMLLRKTPLSKRLTADEIESKLRNVLLVLKYVQNKDVFMRFHKAHLT 458
+K EL+A Y D LR +K T +E+E L ++++ +++ KDVF F+K L
Sbjct: 370 --NKPAELIAKYVDSKLRAG--NKEATDEELEKMLDKIMIIFRFIYGKDVFEAFYKKDLA 425
Query: 459 RRLILDTSADSEKEENMVEWLR-DVGMPADYVNKLARMFQDIKVSQDLNYQFKQSYRGSK 517
+RL++ SA + E++M+ L+ + G A + +KL MF+D+++S+D+ QFKQ +
Sbjct: 426 KRLLVGKSASVDAEKSMLSKLKHECG--AAFTSKLEGMFKDMELSKDIMIQFKQYMQNQN 483
Query: 518 GSIGDSINIKILNAGAWARGSERVTVSLPLELEDYIPEVEDFYKKKHSGRKLQWYHHMSN 577
+ + IL G W + V LP E+ + FY KHSGRKLQW + +
Sbjct: 484 VPGNIELTVNILTMGYWPTYVP-MEVHLPPEMVKLQEIFKTFYLGKHSGRKLQWQSTLGH 542
Query: 578 GTITFSNEVGKYDLDVTTFQMAVLFAWNERPLDRLSFENLLLATELPDPELRRTLWSLVA 637
+ + GK +L V+ FQ VL +NE + S E + AT + D ELRRTL SL
Sbjct: 543 CVLKAEFKEGKKELQVSLFQTLVLLMFNEG--EEFSLEEIKQATGIEDGELRRTLQSLAC 600
Query: 638 FPKIKRQILLYSEEVQSP--KDFTEHTSFWINQEFALVKMGKILKRGKINLIGRLQLSTE 695
K ++L ++P KD + F N +F L R KIN I + E
Sbjct: 601 G---KARVL-----AKNPKGKDIEDGDKFICNDDFK-----HKLFRIKINQIQMKETVEE 647
Query: 696 KSKEEDNESIVQLRILRVQEAIIKILKMRKRISNAQLQTELVDILKNMFLPSKKMIKEQI 755
++ E + Q R ++ AI++I+KMRK +S+ L +E+ + LK P+ +K++I
Sbjct: 648 QA--STTERVFQDRQYQIDAAIVRIMKMRKTLSHNLLVSEVYNQLKFPVKPAD--LKKRI 703
Query: 756 EWLIEQKYMRRDDDDINVFVYLA 778
E LI++ YM RD ++ N + Y+A
Sbjct: 704 ESLIDRDYMERDKENPNQYNYIA 726
>pdb|4A0C|C Chain C, Structure Of The Cand1-Cul4b-Rbx1 Complex
pdb|4A0C|E Chain E, Structure Of The Cand1-Cul4b-Rbx1 Complex
Length = 741
Score = 193 bits (490), Expect = 3e-49, Method: Compositional matrix adjust.
Identities = 170/623 (27%), Positives = 293/623 (47%), Gaps = 61/623 (9%)
Query: 160 DSAMKLVQSERNGEAFDSQLVIGVRESYVNLCSNPEDKLQIYREHFEKAYIAATESFYTV 219
D + L++ ERNGEA + S + + LQIY++ FE+ ++ T Y
Sbjct: 176 DGILLLIERERNGEA--------IDRSLLRSLLSMLSDLQIYQDSFEQRFLEETNRLYAA 227
Query: 220 KAAEFLQNNGVESYMKYADAKLHEEELRACKYLESSSSVQLLTDCCVTVLVSSFKNTILA 279
+ + +Q V Y+ + + +L EE R YL+ ++ L+ +L +
Sbjct: 228 EGQKLMQEREVPEYLHHVNKRLEEEADRLITYLDQTTQKSLIATVEKQLLGEHLTAILQK 287
Query: 280 ECPKMIXXXXXXXXXXXXXXXDRIKDGITPMLQDLEAHIVNAGLADMIASADIITQDSEK 339
++ R++ G+ +LQ +I G S +I + +K
Sbjct: 288 GLNNLLDENRIQDLSLLYQLFSRVRGGVQVLLQQWIEYIKAFG------STIVINPEKDK 341
Query: 340 -YVERLLELFNQFSKLVKDAFKDDPRFLTARDKAYKNVVNDTTVFKLELPTKQCTGIKTL 398
V+ LL+ ++ ++ F + +F+ A +A++ +N
Sbjct: 342 TMVQELLDFKDKVDHIIDICFLKNEKFINAMKEAFETFINKRP----------------- 384
Query: 399 PESKCPELLANYCDMLLRKTPLSKRLTADEIESKLRNVLLVLKYVQNKDVFMRFHKAHLT 458
+K EL+A Y D LR +K T +E+E L ++++ +++ KDVF F+K L
Sbjct: 385 --NKPAELIAKYVDSKLRAG--NKEATDEELEKMLDKIMIIFRFIYGKDVFEAFYKKDLA 440
Query: 459 RRLILDTSADSEKEENMVEWLR-DVGMPADYVNKLARMFQDIKVSQDLNYQFKQSYRGSK 517
+RL++ SA + E++M+ L+ + G A + +KL MF+D+++S+D+ QFKQ +
Sbjct: 441 KRLLVGKSASVDAEKSMLSKLKHECG--AAFTSKLEGMFKDMELSKDIMIQFKQYMQNQN 498
Query: 518 GSIGDSINIKILNAGAWARGSERVTVSLPLELEDYIPEVEDFYKKKHSGRKLQWYHHMSN 577
+ + IL G W + V LP E+ + FY KHSGRKLQW + +
Sbjct: 499 VPGNIELTVNILTMGYWPTYVP-MEVHLPPEMVKLQEIFKTFYLGKHSGRKLQWQSTLGH 557
Query: 578 GTITFSNEVGKYDLDVTTFQMAVLFAWNERPLDRLSFENLLLATELPDPELRRTLWSLVA 637
+ + GK +L V+ FQ VL +NE + S E + AT + D ELRRTL SL
Sbjct: 558 CVLKAEFKEGKKELQVSLFQTLVLLMFNEG--EEFSLEEIKQATGIEDGELRRTLQSLAC 615
Query: 638 FPKIKRQILLYSEEVQSP--KDFTEHTSFWINQEFALVKMGKILKRGKINLIGRLQLSTE 695
K ++L ++P KD + F N +F L R KIN I + E
Sbjct: 616 G---KARVL-----AKNPKGKDIEDGDKFICNDDFK-----HKLFRIKINQIQMKETVEE 662
Query: 696 KSKEEDNESIVQLRILRVQEAIIKILKMRKRISNAQLQTELVDILKNMFLPSKKMIKEQI 755
++ E + Q R ++ AI++I+KMRK +S+ L +E+ + LK P+ +K++I
Sbjct: 663 QA--STTERVFQDRQYQIDAAIVRIMKMRKTLSHNLLVSEVYNQLKFPVKPAD--LKKRI 718
Query: 756 EWLIEQKYMRRDDDDINVFVYLA 778
E LI++ YM RD ++ N + Y+A
Sbjct: 719 ESLIDRDYMERDKENPNQYNYIA 741
>pdb|1LDK|B Chain B, Structure Of The Cul1-Rbx1-Skp1-F Boxskp2 Scf Ubiquitin
Ligase Complex
Length = 366
Score = 190 bits (482), Expect = 3e-48, Method: Compositional matrix adjust.
Identities = 127/378 (33%), Positives = 211/378 (55%), Gaps = 17/378 (4%)
Query: 401 SKCPELLANYCDMLLRKTPLSKRLTADEIESKLRNVLLVLKYVQNKDVFMRFHKAHLTRR 460
SK PELLA YCD LL+K+ SK E+E L V++V KY+++KDVF +F+ L +R
Sbjct: 6 SKSPELLARYCDSLLKKS--SKNPEEAELEDTLNQVMVVFKYIEDKDVFQKFYAKMLAKR 63
Query: 461 LILDTSADSEKEENMVEWLRDVGMPADYVNKLARMFQDIKVSQDLNYQFKQSYRGSKGSI 520
L+ SA + E +M+ L+ +Y +KL RMFQDI VS+DLN QFK+ S+
Sbjct: 64 LVHQNSASDDAEASMISKLKQ-ACGFEYTSKLQRMFQDIGVSKDLNEQFKKHLTNSEPLD 122
Query: 521 GDSINIKILNAGAWARGSERVTVSLPLELEDYIPEVEDFYKKKHSGRKLQWYHHMSNGTI 580
D +I++L++G+W + T +LP ELE FY +HSGRKL W + +S G +
Sbjct: 123 LD-FSIQVLSSGSWP-FQQSCTFALPSELERSYQRFTAFYASRHSGRKLTWLYQLSKGEL 180
Query: 581 TFSNEVGKYDLDVTTFQMAVLFAWNERPLDRLSFENLLLATELPDPELRRTLWSLVAFPK 640
+ +Y L +TFQMA+L +N D + + L +T++ L + L L
Sbjct: 181 VTNCFKNRYTLQASTFQMAILLQYNTE--DAYTVQQLTDSTQIKMDILAQVLQIL----- 233
Query: 641 IKRQILLYSEEVQSPKDFTEHTSFWINQEFALVKMGKILKRGKINLIGRLQLSTEKSKEE 700
+K ++L+ +E + + I + +G K+ ++N+ ++ ++ +E
Sbjct: 234 LKSKLLVLEDENANVDEVELKPDTLIK-----LYLGYKNKKLRVNINVPMKTEQKQEQET 288
Query: 701 DNESIVQLRILRVQEAIIKILKMRKRISNAQLQTELVDILKNMFLPSKKMIKEQIEWLIE 760
+++I + R L +Q AI++I+KMRK + + QL E++ L + F P +IK+ I+ LIE
Sbjct: 289 THKNIEEDRKLLIQAAIVRIMKMRKVLKHQQLLGEVLTQLSSRFKPRVPVIKKCIDILIE 348
Query: 761 QKYMRRDDDDINVFVYLA 778
++Y+ R D + + + YLA
Sbjct: 349 KEYLERVDGEKDTYSYLA 366
>pdb|3RTR|A Chain A, A Ring E3-Substrate Complex Poised For Ubiquitin-Like
Protein Transfer: Structural Insights Into Cullin-Ring
Ligases
pdb|3RTR|C Chain C, A Ring E3-Substrate Complex Poised For Ubiquitin-Like
Protein Transfer: Structural Insights Into Cullin-Ring
Ligases
pdb|3RTR|E Chain E, A Ring E3-Substrate Complex Poised For Ubiquitin-Like
Protein Transfer: Structural Insights Into Cullin-Ring
Ligases
pdb|3RTR|G Chain G, A Ring E3-Substrate Complex Poised For Ubiquitin-Like
Protein Transfer: Structural Insights Into Cullin-Ring
Ligases
Length = 368
Score = 179 bits (453), Expect = 6e-45, Method: Compositional matrix adjust.
Identities = 123/378 (32%), Positives = 207/378 (54%), Gaps = 17/378 (4%)
Query: 401 SKCPELLANYCDMLLRKTPLSKRLTADEIESKLRNVLLVLKYVQNKDVFMRFHKAHLTRR 460
SK PE LA YCD LL+K+ SK E+E L V+ K +++KDVF +F+ L +R
Sbjct: 8 SKSPEELARYCDSLLKKS--SKNPEEAELEDTLNQVMEKFKKIEDKDVFQKFYAKMLAKR 65
Query: 461 LILDTSADSEKEENMVEWLRDVGMPADYVNKLARMFQDIKVSQDLNYQFKQSYRGSKGSI 520
L+ SA + E +M+ L+ +Y +KL RMFQDI VS+DLN QFK+ S+ +
Sbjct: 66 LVHQNSASDDAEASMISKLKQ-ACGFEYTSKLQRMFQDIGVSKDLNEQFKKHLTNSE-PL 123
Query: 521 GDSINIKILNAGAWARGSERVTVSLPLELEDYIPEVEDFYKKKHSGRKLQWYHHMSNGTI 580
+I++L++G+W + T +LP ELE FY +HSGRKL W + +S G +
Sbjct: 124 DLDFSIQVLSSGSWP-FQQSCTFALPSELERSYQRFTAFYASRHSGRKLTWLYQLSKGEL 182
Query: 581 TFSNEVGKYDLDVTTFQMAVLFAWNERPLDRLSFENLLLATELPDPELRRTLWSLVAFPK 640
+ +Y L +TFQMA+L +N D + + L +T++ L + L L
Sbjct: 183 VTNCFKNRYTLQASTFQMAILLQYNTE--DAYTVQQLTDSTQIKMDILAQVLQIL----- 235
Query: 641 IKRQILLYSEEVQSPKDFTEHTSFWINQEFALVKMGKILKRGKINLIGRLQLSTEKSKEE 700
+K ++L+ +E + + I + +G K+ ++N+ ++ ++ +E
Sbjct: 236 LKSKLLVLEDENANVDEVELKPDTLIK-----LYLGYKNKKLRVNINVPMKTEQKQEQET 290
Query: 701 DNESIVQLRILRVQEAIIKILKMRKRISNAQLQTELVDILKNMFLPSKKMIKEQIEWLIE 760
+++I + R L +Q AI++I+KMRK + + QL E++ L + F P +IK+ I+ LIE
Sbjct: 291 THKNIEEDRKLLIQAAIVRIMKMRKVLKHQQLLGEVLTQLSSRFKPRVPVIKKCIDILIE 350
Query: 761 QKYMRRDDDDINVFVYLA 778
++Y+ R D + + + YLA
Sbjct: 351 KEYLERVDGEKDTYSYLA 368
>pdb|1LDK|A Chain A, Structure Of The Cul1-Rbx1-Skp1-F Boxskp2 Scf Ubiquitin
Ligase Complex
Length = 396
Score = 144 bits (363), Expect = 2e-34, Method: Compositional matrix adjust.
Identities = 97/317 (30%), Positives = 155/317 (48%), Gaps = 31/317 (9%)
Query: 81 DQALLKAYIQEW------SKFL-AQCSYLPTPFRQLETSLVNKSVSTSLTNNNNKQKISA 133
D+++LK Y Q+W SK L C+YL + + E K +
Sbjct: 98 DESVLKFYTQQWEDYRFSSKVLNGICAYLNRHWVRRECDEGRKGIYE------------- 144
Query: 134 EESTVRVLMLDSWNQSIFNDIKQRLQDSAMKLVQSERNGEAFDSQLVIGVRESYVNLCSN 193
+ L L +W +F + +++ ++ +KL++ ERNGE +++L+ GV +SYV L N
Sbjct: 145 ----IYSLALVTWRDCLFRPLNKQVTNAVLKLIEKERNGETINTRLISGVVQSYVELGLN 200
Query: 194 PEDK------LQIYREHFEKAYIAATESFYTVKAAEFLQNNGVESYMKYADAKLHEEELR 247
+D L +Y+E FE ++A TE FYT ++ EFLQ N V YMK A+A+L EE+ R
Sbjct: 201 EDDAFAKGPTLTVYKESFESQFLADTERFYTRESTEFLQQNPVTEYMKKAEARLLEEQRR 260
Query: 248 ACKYLESSSSVQLLTDCCVTVLVSSFKNTILAECPKMIXXXXXXXXXXXXXXXDRIKDGI 307
YL S+ +L C VL+ E ++ RI+DG+
Sbjct: 261 VQVYLHESTQDELARK-CEQVLIEKHLEIFHTEFQNLLDADKNEDLGRMYNLVSRIQDGL 319
Query: 308 TPMLQDLEAHIVNAGLADMIASADIITQDSEKYVERLLELFNQFSKLVKDAFKDDPRFLT 367
+ + LE HI N GLA + + D + YV+ +L++ +++ LV AF +D F+
Sbjct: 320 GELKKLLETHIHNQGLAAIEKCGEAALNDPKMYVQTVLDVHKKYNALVMSAFNNDAGFVA 379
Query: 368 ARDKAYKNVVNDTTVFK 384
A DKA +N+ V K
Sbjct: 380 ALDKACGRFINNNAVTK 396
>pdb|4F52|A Chain A, Structure Of A Glomulin-Rbx1-Cul1 Complex
pdb|4F52|C Chain C, Structure Of A Glomulin-Rbx1-Cul1 Complex
Length = 282
Score = 141 bits (355), Expect = 2e-33, Method: Compositional matrix adjust.
Identities = 80/205 (39%), Positives = 118/205 (57%), Gaps = 5/205 (2%)
Query: 401 SKCPELLANYCDMLLRKTPLSKRLTADEIESKLRNVLLVLKYVQNKDVFMRFHKAHLTRR 460
SK PE LA YCD LL+K+ SK E+E L V+ K +++KDVF +F+ L +R
Sbjct: 8 SKSPEELARYCDSLLKKS--SKNPEEAELEDTLNQVMEKFKKIEDKDVFQKFYAKMLAKR 65
Query: 461 LILDTSADSEKEENMVEWLRDVGMPADYVNKLARMFQDIKVSQDLNYQFKQSYRGSKGSI 520
L+ SA + E +M+ L+ +Y +KL RMFQDI VS+DLN QFK+ S+ +
Sbjct: 66 LVHQNSASDDAEASMISKLKQ-ACGFEYTSKLQRMFQDIGVSKDLNEQFKKHLTNSE-PL 123
Query: 521 GDSINIKILNAGAWARGSERVTVSLPLELEDYIPEVEDFYKKKHSGRKLQWYHHMSNGTI 580
+I++L++G+W + T +LP ELE FY +HSGRKL W + +S G +
Sbjct: 124 DLDFSIQVLSSGSWP-FQQSCTFALPSELERSYQRFTAFYASRHSGRKLTWLYQLSKGEL 182
Query: 581 TFSNEVGKYDLDVTTFQMAVLFAWN 605
+ +Y L +TFQMA+L +N
Sbjct: 183 VTNCFKNRYTLQASTFQMAILLQYN 207
>pdb|1IUY|A Chain A, Solution Structure Of The Cullin-3 Homologue
Length = 92
Score = 55.5 bits (132), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 30/88 (34%), Positives = 54/88 (61%)
Query: 691 QLSTEKSKEEDNESIVQLRILRVQEAIIKILKMRKRISNAQLQTELVDILKNMFLPSKKM 750
Q ++ ++E + + R ++ AI++I+K RK++ + L E+ LK FLPS +
Sbjct: 5 QGESDPERKETRQKVDDDRKHEIEAAIVRIMKSRKKMQHNVLVAEVTQQLKARFLPSPVV 64
Query: 751 IKEQIEWLIEQKYMRRDDDDINVFVYLA 778
IK++IE LIE++Y+ R +D V+ Y+A
Sbjct: 65 IKKRIEGLIEREYLARTPEDRKVYTYVA 92
>pdb|3TDU|C Chain C, N-Terminal Acetylation Acts As An Avidity Enhancer Within
An Interconnected Multiprotein Complex: Structure Of A
Human Cul1whb- Dcn1p-Acetylated Ubc12n Complex
pdb|3TDU|D Chain D, N-Terminal Acetylation Acts As An Avidity Enhancer Within
An Interconnected Multiprotein Complex: Structure Of A
Human Cul1whb- Dcn1p-Acetylated Ubc12n Complex
pdb|3TDZ|C Chain C, N-Terminal Acetylation Acts As An Avidity Enhancer Within
An Interconnected Multiprotein Complex: Structure Of A
Human Cul1whb- Dcn1p-Stapled Acetylated Ubc12n Complex
pdb|3TDZ|D Chain D, N-Terminal Acetylation Acts As An Avidity Enhancer Within
An Interconnected Multiprotein Complex: Structure Of A
Human Cul1whb- Dcn1p-Stapled Acetylated Ubc12n Complex
Length = 77
Score = 51.2 bits (121), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 28/70 (40%), Positives = 46/70 (65%)
Query: 709 RILRVQEAIIKILKMRKRISNAQLQTELVDILKNMFLPSKKMIKEQIEWLIEQKYMRRDD 768
R L +Q AI++I+KMRK + + QL E++ L + F P +IK+ I+ LIE++Y+ R D
Sbjct: 8 RKLLIQAAIVRIMKMRKVLKHQQLLGEVLTQLSSRFKPRVPVIKKCIDILIEKEYLERVD 67
Query: 769 DDINVFVYLA 778
+ + + YLA
Sbjct: 68 GEKDTYSYLA 77
>pdb|4A64|A Chain A, Crystal Structure Of The N-Terminal Domain Of Human Cul4b
At 2.57a Resolution
pdb|4A64|B Chain B, Crystal Structure Of The N-Terminal Domain Of Human Cul4b
At 2.57a Resolution
pdb|4A64|C Chain C, Crystal Structure Of The N-Terminal Domain Of Human Cul4b
At 2.57a Resolution
pdb|4A64|D Chain D, Crystal Structure Of The N-Terminal Domain Of Human Cul4b
At 2.57a Resolution
Length = 354
Score = 50.4 bits (119), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 44/220 (20%), Positives = 92/220 (41%), Gaps = 15/220 (6%)
Query: 160 DSAMKLVQSERNGEAFDSQLVIGVRESYVNLCSNPEDKLQIYREHFEKAYIAATESFYTV 219
D + L++ ERNGEA + S + + LQIY++ FE+ ++ T Y
Sbjct: 145 DGILLLIERERNGEA--------IDRSLLRSLLSMLSDLQIYQDSFEQRFLEETNRLYAA 196
Query: 220 KAAEFLQNNGVESYMKYADAKLHEEELRACKYLESSSSVQLLTDCCVTVLVSSFKNTILA 279
+ + +Q V Y+ + + +L EE R YL+ ++ L+ +L +
Sbjct: 197 EGQKLMQEREVPEYLHHVNKRLEEEADRLITYLDQTTQKSLIATVEKQLLGEHLTAILQK 256
Query: 280 ECPKMIXXXXXXXXXXXXXXXDRIKDGITPMLQDLEAHIVNAGLADMIASADIITQDSEK 339
++ R++ G+ +LQ +I G S +I + +K
Sbjct: 257 GLNNLLDENRIQDLSLLYQLFSRVRGGVQVLLQQWIEYIKAFG------STIVINPEKDK 310
Query: 340 YVERLLELF-NQFSKLVKDAFKDDPRFLTARDKAYKNVVN 378
+ + L+ F ++ ++ F + +F+ A +A++ +N
Sbjct: 311 TMRQELDDFKDKVDHIIDICFLKNEKFINAMKEAFETFIN 350
>pdb|2DO7|A Chain A, Solution Structure Of The Winged Helix-Turn-Helix Motif Of
Human Cul-4b
Length = 101
Score = 49.3 bits (116), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 28/76 (36%), Positives = 49/76 (64%), Gaps = 2/76 (2%)
Query: 703 ESIVQLRILRVQEAIIKILKMRKRISNAQLQTELVDILKNMFLPSKKMIKEQIEWLIEQK 762
E + Q R ++ AI++I+KMRK +S+ L +E+ + LK P+ +K++IE LI++
Sbjct: 22 ERVFQDRQYQIDAAIVRIMKMRKTLSHNLLVSEVYNQLKFPVKPAD--LKKRIESLIDRD 79
Query: 763 YMRRDDDDINVFVYLA 778
YM RD ++ N + Y+A
Sbjct: 80 YMERDKENPNQYNYIA 95
>pdb|4AP2|B Chain B, Crystal Structure Of The Human Klhl11-cul3 Complex At 2.8a
Resolution
Length = 410
Score = 46.2 bits (108), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 43/219 (19%), Positives = 96/219 (43%), Gaps = 10/219 (4%)
Query: 151 FNDIKQRLQDSAMKLVQSERNGEAFDSQLVIGVRESYVNLCSNPEDKLQIYREHFEKAYI 210
+ I+ L+ + + ++ ER GE D +R + L + +Y E FE ++
Sbjct: 154 YGCIRDHLRQTLLDMIARERKGEVVDRG---AIRNACQMLMILGLEGRSVYEEDFEAPFL 210
Query: 211 AATESFYTVKAAEFLQNNGVESYMKYADAKLHEEELRACKYLESSSSVQLLTDCCVTVLV 270
+ F+ +++ +FL N Y+K +A+++EE R L+ S+ + + L+
Sbjct: 211 EMSAEFFQMESQKFLAENSASVYIKKVEARINEEIERVMHCLDKSTE-EPIVKVVERELI 269
Query: 271 SSFKNTIL----AECPKMIXXXXXXXXXXXXXXXDRIKDGITPMLQDLEAHIVNAGLADM 326
S TI+ + M+ R+ +G+ M + + +++ G A
Sbjct: 270 SKHMKTIVEMENSGLVHMLKNGKTEDLGCMYKLFSRVPNGLKTMCECMSSYLREQGKA-- 327
Query: 327 IASADIITQDSEKYVERLLELFNQFSKLVKDAFKDDPRF 365
+ S + ++ Y + L +L ++F + + ++F +D F
Sbjct: 328 LVSEEGEGKNPVDYRQGLDDLKSRFDRFLLESFNNDRLF 366
>pdb|4APF|B Chain B, Crystal Structure Of The Human Klhl11-cul3 Complex At 3.1a
Resolution
Length = 388
Score = 46.2 bits (108), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 43/219 (19%), Positives = 96/219 (43%), Gaps = 10/219 (4%)
Query: 151 FNDIKQRLQDSAMKLVQSERNGEAFDSQLVIGVRESYVNLCSNPEDKLQIYREHFEKAYI 210
+ I+ L+ + + ++ ER GE D +R + L + +Y E FE ++
Sbjct: 132 YGCIRDHLRQTLLDMIARERKGEVVDRG---AIRNACQMLMILGLEGRSVYEEDFEAPFL 188
Query: 211 AATESFYTVKAAEFLQNNGVESYMKYADAKLHEEELRACKYLESSSSVQLLTDCCVTVLV 270
+ F+ +++ +FL N Y+K +A+++EE R L+ S+ + + L+
Sbjct: 189 EMSAEFFQMESQKFLAENSASVYIKKVEARINEEIERVMHCLDKSTE-EPIVKVVERELI 247
Query: 271 SSFKNTIL----AECPKMIXXXXXXXXXXXXXXXDRIKDGITPMLQDLEAHIVNAGLADM 326
S TI+ + M+ R+ +G+ M + + +++ G A
Sbjct: 248 SKHMKTIVEMENSGLVHMLKNGKTEDLGCMYKLFSRVPNGLKTMCECMSSYLREQGKA-- 305
Query: 327 IASADIITQDSEKYVERLLELFNQFSKLVKDAFKDDPRF 365
+ S + ++ Y + L +L ++F + + ++F +D F
Sbjct: 306 LVSEEGEGKNPVDYRQGLDDLKSRFDRFLLESFNNDRLF 344
>pdb|4EOZ|B Chain B, Crystal Structure Of The Spop Btb Domain Complexed With
The Cul3 N- Terminal Domain
pdb|4EOZ|D Chain D, Crystal Structure Of The Spop Btb Domain Complexed With
The Cul3 N- Terminal Domain
Length = 364
Score = 39.3 bits (90), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 25/103 (24%), Positives = 48/103 (46%), Gaps = 3/103 (2%)
Query: 154 IKQRLQDSAMKLVQSERNGEAFDSQLVIGVRESYVNLCSNPEDKLQIYREHFEKAYIAAT 213
I+ L+ + + + ER GE D +R + L + +Y E FE ++ +
Sbjct: 140 IRDHLRQTLLDXIARERKGEVVDRG---AIRNACQXLXILGLEGRSVYEEDFEAPFLEXS 196
Query: 214 ESFYTVKAAEFLQNNGVESYMKYADAKLHEEELRACKYLESSS 256
F+ ++ +FL N Y+K +A+++EE R L+ S+
Sbjct: 197 AEFFQXESQKFLAENSASVYIKKVEARINEEIERVXHCLDKST 239
>pdb|3O6B|B Chain B, A Dual E3 Mechanism For Rub1 Ligation To Cdc53:
Dcn1(P)-Cdc53(Whb) Low Resolution
pdb|3O6B|D Chain D, A Dual E3 Mechanism For Rub1 Ligation To Cdc53:
Dcn1(P)-Cdc53(Whb) Low Resolution
pdb|3O6B|F Chain F, A Dual E3 Mechanism For Rub1 Ligation To Cdc53:
Dcn1(P)-Cdc53(Whb) Low Resolution
pdb|3O6B|H Chain H, A Dual E3 Mechanism For Rub1 Ligation To Cdc53:
Dcn1(P)-Cdc53(Whb) Low Resolution
pdb|3O6B|J Chain J, A Dual E3 Mechanism For Rub1 Ligation To Cdc53:
Dcn1(P)-Cdc53(Whb) Low Resolution
Length = 76
Score = 35.8 bits (81), Expect = 0.095, Method: Compositional matrix adjust.
Identities = 19/70 (27%), Positives = 37/70 (52%), Gaps = 1/70 (1%)
Query: 709 RILRVQEAIIKILKMRKRISNAQLQTELVDILKNMFLPSKKMIKEQIEWLIEQKYMRRDD 768
R + ++ I++I+K ++ + + L E + F M+K I+ LI++ Y++R D
Sbjct: 8 RQIFLEACIVRIMKAKRNLPHTTLVNECIAQSHQRFNAKVSMVKRAIDSLIQKGYLQRGD 67
Query: 769 DDINVFVYLA 778
D + YLA
Sbjct: 68 DG-ESYAYLA 76
>pdb|3O2P|E Chain E, A Dual E3 Mechanism For Rub1 Ligation To Cdc53:
Dcn1(P)-Cdc53(Whb)
Length = 88
Score = 35.0 bits (79), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 18/66 (27%), Positives = 35/66 (53%), Gaps = 1/66 (1%)
Query: 713 VQEAIIKILKMRKRISNAQLQTELVDILKNMFLPSKKMIKEQIEWLIEQKYMRRDDDDIN 772
++ I++I+K ++ + + L E + F M+K I+ LI++ Y++R DD
Sbjct: 24 LEACIVRIMKAKRNLPHTTLVNECIAQSHQRFNAKVSMVKRAIDSLIQKGYLQRGDDG-E 82
Query: 773 VFVYLA 778
+ YLA
Sbjct: 83 SYAYLA 88
>pdb|3KOF|A Chain A, Crystal Structure Of The Double Mutant F178yR181E OF
E.COLI Transaldolase B
pdb|3KOF|B Chain B, Crystal Structure Of The Double Mutant F178yR181E OF
E.COLI Transaldolase B
Length = 337
Score = 32.0 bits (71), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 28/103 (27%), Positives = 47/103 (45%), Gaps = 16/103 (15%)
Query: 460 RLILDTSADSEKEENMVEWLRDVGMPADYV-NKLARMFQDIKVSQDLNYQFKQSYRGSKG 518
RL DT A K + +++ D G+ D + KLA +Q I+ ++ L +
Sbjct: 120 RLSYDTEASIAKAKRLIKLYNDAGISNDRILIKLASTWQGIRAAEQLEKE---------- 169
Query: 519 SIGDSINIKILNAGAWARGSERVTVSLPLELEDYIPEVEDFYK 561
G + N+ +L + A AR V L + Y+ E+ D+YK
Sbjct: 170 --GINCNLTLLFSFAQARACAEAGVFL---ISPYVGEILDWYK 207
>pdb|3SZT|A Chain A, Quorum Sensing Control Repressor, Qscr, Bound To
N-3-Oxo-Dodecanoyl-L- Homoserine Lactone
pdb|3SZT|B Chain B, Quorum Sensing Control Repressor, Qscr, Bound To
N-3-Oxo-Dodecanoyl-L- Homoserine Lactone
Length = 237
Score = 30.4 bits (67), Expect = 3.8, Method: Composition-based stats.
Identities = 29/113 (25%), Positives = 46/113 (40%), Gaps = 15/113 (13%)
Query: 639 PKIKRQILLYSEEVQSPKDFTEHTSFWINQEFALVKMG-KILKRGKINLIGRLQLSTEKS 697
P ++ +L Y+ + + +DF E+ FW ++ G I RGK LI L L
Sbjct: 76 PIVRHGLLEYTPLIWNGEDFQENRFFWEEALHHGIRHGWSIPVRGKYGLISMLSLV---- 131
Query: 698 KEEDNESIVQLRILRVQEAIIKILKMRKRISNAQLQTELVDILKNMFLPSKKM 750
+ESI IL + ++ I M LQ D+L +P +
Sbjct: 132 --RSSESIAATEILEKESFLLWITSM--------LQATFGDLLAPRIVPESNV 174
>pdb|3CWN|A Chain A, Escherichia Coli Transaldolase B Mutant F178y
pdb|3CWN|B Chain B, Escherichia Coli Transaldolase B Mutant F178y
Length = 337
Score = 30.0 bits (66), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 27/103 (26%), Positives = 46/103 (44%), Gaps = 16/103 (15%)
Query: 460 RLILDTSADSEKEENMVEWLRDVGMPADYV-NKLARMFQDIKVSQDLNYQFKQSYRGSKG 518
RL DT A K + +++ D G+ D + KLA +Q I+ ++ L +
Sbjct: 120 RLSYDTEASIAKAKRLIKLYNDAGISNDRILIKLASTWQGIRAAEQLEKE---------- 169
Query: 519 SIGDSINIKILNAGAWARGSERVTVSLPLELEDYIPEVEDFYK 561
G + N+ +L + A AR V L + Y+ + D+YK
Sbjct: 170 --GINCNLTLLFSFAQARACAEAGVFL---ISPYVGRILDWYK 207
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.318 0.133 0.381
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 21,478,654
Number of Sequences: 62578
Number of extensions: 864124
Number of successful extensions: 2713
Number of sequences better than 100.0: 35
Number of HSP's better than 100.0 without gapping: 22
Number of HSP's successfully gapped in prelim test: 13
Number of HSP's that attempted gapping in prelim test: 2624
Number of HSP's gapped (non-prelim): 38
length of query: 778
length of database: 14,973,337
effective HSP length: 106
effective length of query: 672
effective length of database: 8,340,069
effective search space: 5604526368
effective search space used: 5604526368
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: 55 (25.8 bits)