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= psy14846
(615 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2WZK|A Chain A, Structure Of The Cul5 N-Terminal Domain At 2.05a
Resolution
Length = 391
Score = 493 bits (1269), 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|3DPL|C Chain C, Structural Insights Into Nedd8 Activation Of Cullin-Ring
Ligases: Conformational Control Of Conjugation
Length = 382
Score = 343 bits (879), Expect = 2e-94, Method: Compositional matrix adjust.
Identities = 168/219 (76%), Positives = 194/219 (88%), Gaps = 3/219 (1%)
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 TITFSNEVGKYDLDVTTFQMAVLFAWNERPLDR--FQNL 615
ITF NEVG+YDL+VTTFQ+AVLFAWN+RP ++ F+NL
Sbjct: 183 IITFKNEVGQYDLEVTTFQLAVLFAWNQRPREKISFENL 221
>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 = 327 bits (838), Expect = 1e-89, Method: Compositional matrix adjust.
Identities = 162/219 (73%), Positives = 188/219 (85%), Gaps = 3/219 (1%)
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 TITFSNEVGKYDLDVTTFQMAVLFAWNERPLDR--FQNL 615
ITF NEVG+YDL+VTTFQ+AVLFAWN+RP ++ F+NL
Sbjct: 183 IITFKNEVGQYDLEVTTFQLAVLFAWNQRPREKISFENL 221
>pdb|1U6G|A Chain A, Crystal Structure Of The Cand1-Cul1-Roc1 Complex
Length = 776
Score = 280 bits (717), Expect = 1e-75, Method: Compositional matrix adjust.
Identities = 180/538 (33%), Positives = 279/538 (51%), Gaps = 47/538 (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 ELEDYIPEVEDFYKKKHSGRKLQWYHHMSNGTITFSNEVGKYDLDVTTFQMAVLFAWN 605
ELE FY +HSGRKL W + +S G + + +Y L +TFQMA+L +N
Sbjct: 558 ELERSYQRFTAFYASRHSGRKLTWLYQLSKGELVTNCFKNRYTLQASTFQMAILLQYN 615
>pdb|1LDJ|A Chain A, Structure Of The Cul1-rbx1-skp1-f Boxskp2 Scf Ubiquitin
Ligase Complex
Length = 760
Score = 280 bits (716), Expect = 2e-75, Method: Compositional matrix adjust.
Identities = 180/538 (33%), Positives = 279/538 (51%), Gaps = 47/538 (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 ELEDYIPEVEDFYKKKHSGRKLQWYHHMSNGTITFSNEVGKYDLDVTTFQMAVLFAWN 605
ELE FY +HSGRKL W + +S G + + +Y L +TFQMA+L +N
Sbjct: 542 ELERSYQRFTAFYASRHSGRKLTWLYQLSKGELVTNCFKNRYTLQASTFQMAILLQYN 599
>pdb|1LDK|B Chain B, Structure Of The Cul1-Rbx1-Skp1-F Boxskp2 Scf Ubiquitin
Ligase Complex
Length = 366
Score = 151 bits (381), Expect = 1e-36, Method: Compositional matrix adjust.
Identities = 83/205 (40%), Positives = 122/205 (59%), Gaps = 5/205 (2%)
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-ACGFEYTSKLQRMFQDIGVSKDLNEQFKKHLTNSE-PL 121
Query: 521 GDSINIKILNAGAWARGSERVTVSLPLELEDYIPEVEDFYKKKHSGRKLQWYHHMSNGTI 580
+I++L++G+W + T +LP ELE FY +HSGRKL W + +S G +
Sbjct: 122 DLDFSIQVLSSGSWP-FQQSCTFALPSELERSYQRFTAFYASRHSGRKLTWLYQLSKGEL 180
Query: 581 TFSNEVGKYDLDVTTFQMAVLFAWN 605
+ +Y L +TFQMA+L +N
Sbjct: 181 VTNCFKNRYTLQASTFQMAILLQYN 205
>pdb|2HYE|C Chain C, Crystal Structure Of The Ddb1-cul4a-rbx1-sv5v Complex
Length = 759
Score = 146 bits (369), Expect = 3e-35, Method: Compositional matrix adjust.
Identities = 118/469 (25%), Positives = 217/469 (46%), Gaps = 44/469 (9%)
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 DFYKKKHSGRKLQWYHHMSNGTITFSNEVGKYDLDVTTFQMAVLFAWNE 606
FY KHSGRKLQW + + + + GK + V+ FQ VL +NE
Sbjct: 556 AFYLGKHSGRKLQWQTTLGHAVLKAEFKEGKKEFQVSLFQTLVLLMFNE 604
>pdb|4A0K|A Chain A, Structure Of Ddb1-Ddb2-Cul4a-Rbx1 Bound To A 12 Bp Abasic
Site Containing Dna-Duplex
Length = 742
Score = 146 bits (368), Expect = 4e-35, Method: Compositional matrix adjust.
Identities = 118/469 (25%), Positives = 217/469 (46%), Gaps = 44/469 (9%)
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 DFYKKKHSGRKLQWYHHMSNGTITFSNEVGKYDLDVTTFQMAVLFAWNE 606
FY KHSGRKLQW + + + + GK + V+ FQ VL +NE
Sbjct: 539 AFYLGKHSGRKLQWQTTLGHAVLKAEFKEGKKEFQVSLFQTLVLLMFNE 587
>pdb|1LDK|A Chain A, Structure Of The Cul1-Rbx1-Skp1-F Boxskp2 Scf Ubiquitin
Ligase Complex
Length = 396
Score = 144 bits (364), Expect = 1e-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|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 = 144 bits (362), Expect = 2e-34, Method: Compositional matrix adjust.
Identities = 117/468 (25%), Positives = 213/468 (45%), Gaps = 42/468 (8%)
Query: 143 LDSWNQSIFND--IKQRLQDSAMKLVQSERNGEAFDSQLVIGVRESYVNLCSNPEDKLQI 200
L+ + I +D ++ + D + L++ ERNGEA + S + + LQI
Sbjct: 142 LELFRAHIISDQKVQNKTIDGILLLIERERNGEA--------IDRSLLRSLLSMLSDLQI 193
Query: 201 YREHFEKAYIAATESFYTVKAAEFLQNNGVESYMKYADAKLHEEELRACKYLESSSSVQL 260
Y++ FE+ ++ T Y + + +Q V Y+ + + +L EE R YL+ ++ L
Sbjct: 194 YQDSFEQRFLEETNRLYAAEGQKLMQEREVPEYLHHVNKRLEEEADRLITYLDQTTQKSL 253
Query: 261 LTDCCVTVLVSSFKNTILAECPKMIXXXXXXXXXXXXXXXDRIKDGITPMLQDLEAHIVN 320
+ +L + ++ R++ G+ +LQ +I
Sbjct: 254 IATVEKQLLGEHLTAILQKGLNNLLDENRIQDLSLLYQLFSRVRGGVQVLLQQWIEYIKA 313
Query: 321 AGLADMIASADIITQDSEK-YVERLLELFNQFSKLVKDAFKDDPRFLTARDKAYKNVVND 379
G S +I + +K V+ LL+ ++ ++ F + +F+ A +A++ +N
Sbjct: 314 FG------STIVINPEKDKTMVQELLDFKDKVDHIIDICFLKNEKFINAMKEAFETFINK 367
Query: 380 TTVFKLELPTKQCTGIKTLPESKCPELLANYCDMLLRKTPLSKRLTADEIESKLRNVLLV 439
+K EL+A Y D LR +K T +E+E L ++++
Sbjct: 368 RP-------------------NKPAELIAKYVDSKLRAG--NKEATDEELEKMLDKIMII 406
Query: 440 LKYVQNKDVFMRFHKAHLTRRLILDTSADSEKEENMVEWLR-DVGMPADYVNKLARMFQD 498
+++ KDVF F+K L +RL++ SA + E++M+ L+ + G A + +KL MF+D
Sbjct: 407 FRFIYGKDVFEAFYKKDLAKRLLVGKSASVDAEKSMLSKLKHECG--AAFTSKLEGMFKD 464
Query: 499 IKVSQDLNYQFKQSYRGSKGSIGDSINIKILNAGAWARGSERVTVSLPLELEDYIPEVED 558
+++S+D+ QFKQ + + + IL G W + V LP E+ +
Sbjct: 465 MELSKDIMIQFKQYMQNQNVPGNIELTVNILTMGYWPTYVP-MEVHLPPEMVKLQEIFKT 523
Query: 559 FYKKKHSGRKLQWYHHMSNGTITFSNEVGKYDLDVTTFQMAVLFAWNE 606
FY KHSGRKLQW + + + + GK +L V+ FQ VL +NE
Sbjct: 524 FYLGKHSGRKLQWQSTLGHCVLKAEFKEGKKELQVSLFQTLVLLMFNE 571
>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 = 144 bits (362), Expect = 2e-34, Method: Compositional matrix adjust.
Identities = 117/468 (25%), Positives = 213/468 (45%), Gaps = 42/468 (8%)
Query: 143 LDSWNQSIFND--IKQRLQDSAMKLVQSERNGEAFDSQLVIGVRESYVNLCSNPEDKLQI 200
L+ + I +D ++ + D + L++ ERNGEA + S + + LQI
Sbjct: 157 LELFRAHIISDQKVQNKTIDGILLLIERERNGEA--------IDRSLLRSLLSMLSDLQI 208
Query: 201 YREHFEKAYIAATESFYTVKAAEFLQNNGVESYMKYADAKLHEEELRACKYLESSSSVQL 260
Y++ FE+ ++ T Y + + +Q V Y+ + + +L EE R YL+ ++ L
Sbjct: 209 YQDSFEQRFLEETNRLYAAEGQKLMQEREVPEYLHHVNKRLEEEADRLITYLDQTTQKSL 268
Query: 261 LTDCCVTVLVSSFKNTILAECPKMIXXXXXXXXXXXXXXXDRIKDGITPMLQDLEAHIVN 320
+ +L + ++ R++ G+ +LQ +I
Sbjct: 269 IATVEKQLLGEHLTAILQKGLNNLLDENRIQDLSLLYQLFSRVRGGVQVLLQQWIEYIKA 328
Query: 321 AGLADMIASADIITQDSEK-YVERLLELFNQFSKLVKDAFKDDPRFLTARDKAYKNVVND 379
G S +I + +K V+ LL+ ++ ++ F + +F+ A +A++ +N
Sbjct: 329 FG------STIVINPEKDKTMVQELLDFKDKVDHIIDICFLKNEKFINAMKEAFETFINK 382
Query: 380 TTVFKLELPTKQCTGIKTLPESKCPELLANYCDMLLRKTPLSKRLTADEIESKLRNVLLV 439
+K EL+A Y D LR +K T +E+E L ++++
Sbjct: 383 RP-------------------NKPAELIAKYVDSKLRAG--NKEATDEELEKMLDKIMII 421
Query: 440 LKYVQNKDVFMRFHKAHLTRRLILDTSADSEKEENMVEWLR-DVGMPADYVNKLARMFQD 498
+++ KDVF F+K L +RL++ SA + E++M+ L+ + G A + +KL MF+D
Sbjct: 422 FRFIYGKDVFEAFYKKDLAKRLLVGKSASVDAEKSMLSKLKHECG--AAFTSKLEGMFKD 479
Query: 499 IKVSQDLNYQFKQSYRGSKGSIGDSINIKILNAGAWARGSERVTVSLPLELEDYIPEVED 558
+++S+D+ QFKQ + + + IL G W + V LP E+ +
Sbjct: 480 MELSKDIMIQFKQYMQNQNVPGNIELTVNILTMGYWPTYVP-MEVHLPPEMVKLQEIFKT 538
Query: 559 FYKKKHSGRKLQWYHHMSNGTITFSNEVGKYDLDVTTFQMAVLFAWNE 606
FY KHSGRKLQW + + + + GK +L V+ FQ VL +NE
Sbjct: 539 FYLGKHSGRKLQWQSTLGHCVLKAEFKEGKKELQVSLFQTLVLLMFNE 586
>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 = 140 bits (353), 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|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 = 140 bits (353), 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|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 = 51.2 bits (121), Expect = 2e-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|4AP2|B Chain B, Crystal Structure Of The Human Klhl11-cul3 Complex At 2.8a
Resolution
Length = 410
Score = 47.0 bits (110), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 43/216 (19%), Positives = 95/216 (43%), Gaps = 10/216 (4%)
Query: 154 IKQRLQDSAMKLVQSERNGEAFDSQLVIGVRESYVNLCSNPEDKLQIYREHFEKAYIAAT 213
I+ L+ + + ++ ER GE D +R + L + +Y E FE ++ +
Sbjct: 157 IRDHLRQTLLDMIARERKGEVVDRG---AIRNACQMLMILGLEGRSVYEEDFEAPFLEMS 213
Query: 214 ESFYTVKAAEFLQNNGVESYMKYADAKLHEEELRACKYLESSSSVQLLTDCCVTVLVSSF 273
F+ +++ +FL N Y+K +A+++EE R L+ S+ + + L+S
Sbjct: 214 AEFFQMESQKFLAENSASVYIKKVEARINEEIERVMHCLDKSTE-EPIVKVVERELISKH 272
Query: 274 KNTIL----AECPKMIXXXXXXXXXXXXXXXDRIKDGITPMLQDLEAHIVNAGLADMIAS 329
TI+ + M+ R+ +G+ M + + +++ G A + S
Sbjct: 273 MKTIVEMENSGLVHMLKNGKTEDLGCMYKLFSRVPNGLKTMCECMSSYLREQGKA--LVS 330
Query: 330 ADIITQDSEKYVERLLELFNQFSKLVKDAFKDDPRF 365
+ ++ Y + L +L ++F + + ++F +D F
Sbjct: 331 EEGEGKNPVDYRQGLDDLKSRFDRFLLESFNNDRLF 366
>pdb|4APF|B Chain B, Crystal Structure Of The Human Klhl11-cul3 Complex At 3.1a
Resolution
Length = 388
Score = 46.6 bits (109), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 43/216 (19%), Positives = 95/216 (43%), Gaps = 10/216 (4%)
Query: 154 IKQRLQDSAMKLVQSERNGEAFDSQLVIGVRESYVNLCSNPEDKLQIYREHFEKAYIAAT 213
I+ L+ + + ++ ER GE D +R + L + +Y E FE ++ +
Sbjct: 135 IRDHLRQTLLDMIARERKGEVVDRG---AIRNACQMLMILGLEGRSVYEEDFEAPFLEMS 191
Query: 214 ESFYTVKAAEFLQNNGVESYMKYADAKLHEEELRACKYLESSSSVQLLTDCCVTVLVSSF 273
F+ +++ +FL N Y+K +A+++EE R L+ S+ + + L+S
Sbjct: 192 AEFFQMESQKFLAENSASVYIKKVEARINEEIERVMHCLDKSTE-EPIVKVVERELISKH 250
Query: 274 KNTIL----AECPKMIXXXXXXXXXXXXXXXDRIKDGITPMLQDLEAHIVNAGLADMIAS 329
TI+ + M+ R+ +G+ M + + +++ G A + S
Sbjct: 251 MKTIVEMENSGLVHMLKNGKTEDLGCMYKLFSRVPNGLKTMCECMSSYLREQGKA--LVS 308
Query: 330 ADIITQDSEKYVERLLELFNQFSKLVKDAFKDDPRF 365
+ ++ Y + L +L ++F + + ++F +D F
Sbjct: 309 EEGEGKNPVDYRQGLDDLKSRFDRFLLESFNNDRLF 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 = 39.7 bits (91), Expect = 0.004, 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|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 = 1.2, 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|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 = 4.4, 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 0.132 0.382
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 17,156,353
Number of Sequences: 62578
Number of extensions: 690565
Number of successful extensions: 2213
Number of sequences better than 100.0: 29
Number of HSP's better than 100.0 without gapping: 17
Number of HSP's successfully gapped in prelim test: 12
Number of HSP's that attempted gapping in prelim test: 2147
Number of HSP's gapped (non-prelim): 31
length of query: 615
length of database: 14,973,337
effective HSP length: 105
effective length of query: 510
effective length of database: 8,402,647
effective search space: 4285349970
effective search space used: 4285349970
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 54 (25.4 bits)