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= 008709
(557 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 376 bits (965), Expect = e-104, Method: Compositional matrix adjust.
Identities = 209/555 (37%), Positives = 328/555 (59%), Gaps = 26/555 (4%)
Query: 7 YEKDFEEHMLQDTGAYYSRKASNWILEDSCPEYMIKAEECLKKERDRVSHYLHSSSEPKL 66
Y+ FE+ L++T Y+ + + E PEY+ + L++E DR+ YL +++ L
Sbjct: 209 YQDSFEQRFLEETNRLYAAEGQKLMQEREVPEYLHHVNKRLEEEADRLITYLDQTTQKSL 268
Query: 67 VEKVQHELLVVYATELLEKEQSGCRALLREDKVEDLSRMYRLYHKIPKGLEPVANVFKQH 126
+ V+ +LL + T +L+K G LL E++++DLS +Y+L+ ++ G++ + + ++
Sbjct: 269 IATVEKQLLGEHLTAILQK---GLNNLLDENRIQDLSLLYQLFSRVRGGVQVLLQQWIEY 325
Query: 127 ITAEGTVLVQQAEDAATNQGGSSGAVQEQVLIRKIIELHDKYMEYVTNCFINHTLFHKAL 186
I A G+ +V E +++ +++++++ DK + CF+ + F A+
Sbjct: 326 IKAFGSTIVINPE-------------KDKTMVQELLDFKDKVDHIIDICFLKNEKFINAM 372
Query: 187 KEAFEIFCNKAVGGSSSSELLATFCDNILKKGGNEKLSDEAIEETLEKVVKLLAYISDKD 246
KEAFE F NK + +EL+A + D+ L+ GN++ +DE +E+ L+K++ + +I KD
Sbjct: 373 KEAFETFINKR--PNKPAELIAKYVDSKLR-AGNKEATDEELEKMLDKIMIIFRFIYGKD 429
Query: 247 LFAEFYRKKLARRLLFDRSANDDHERSILTKLKQQCGGQFTSKMEGMVTDLTLARENQTS 306
+F FY+K LA+RLL +SA+ D E+S+L+KLK +CG FTSK+EGM D+ L+++
Sbjct: 430 VFEAFYKKDLAKRLLVGKSASVDAEKSMLSKLKHECGAAFTSKLEGMFKDMELSKDIMIQ 489
Query: 307 FEEYLSNNQNAHPGIDLSVTVLTTGFWPSYKSSDLNLPSEMVKCVEVFKGFYETKTKHRK 366
F++Y+ N QN I+L+V +LT G+WP+Y +++LP EMVK E+FK FY K RK
Sbjct: 490 FKQYMQN-QNVPGNIELTVNILTMGYWPTYVPMEVHLPPEMVKLQEIFKTFYLGKHSGRK 548
Query: 367 LTWIYSLGQCNINGKFEQKNIELIVSTYQAATLLLFNTSDRLSYSEIMTQLNLTHDDLVR 426
L W +LG C + +F++ EL VS +Q LL+FN + S EI + +L R
Sbjct: 549 LQWQSTLGHCVLKAEFKEGKKELQVSLFQTLVLLMFNEGEEFSLEEIKQATGIEDGELRR 608
Query: 427 LLHSLSCAKYKILLKEPNTKTISQSDHFEFNSKFTDRMRRIKIPL----PPVDERKKIVE 482
L SL+C K ++L K P K I D F N F ++ RIKI V+E+ E
Sbjct: 609 TLQSLACGKARVLAKNPKGKDIEDGDKFICNDDFKHKLFRIKINQIQMKETVEEQASTTE 668
Query: 483 DVDKDRRYAIDAALVRIMKSRKVLGHQQLVSECVEQLSRMFKPDIKAIKKRMEDLITRDY 542
V +DR+Y IDAA+VRIMK RK L H LVSE QL KP +KKR+E LI RDY
Sbjct: 669 RVFQDRQYQIDAAIVRIMKMRKTLSHNLLVSEVYNQLKFPVKP--ADLKKRIESLIDRDY 726
Query: 543 LERDKENPNMFRYLA 557
+ERDKENPN + Y+A
Sbjct: 727 MERDKENPNQYNYIA 741
>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 = 375 bits (964), Expect = e-104, Method: Compositional matrix adjust.
Identities = 209/555 (37%), Positives = 328/555 (59%), Gaps = 26/555 (4%)
Query: 7 YEKDFEEHMLQDTGAYYSRKASNWILEDSCPEYMIKAEECLKKERDRVSHYLHSSSEPKL 66
Y+ FE+ L++T Y+ + + E PEY+ + L++E DR+ YL +++ L
Sbjct: 194 YQDSFEQRFLEETNRLYAAEGQKLMQEREVPEYLHHVNKRLEEEADRLITYLDQTTQKSL 253
Query: 67 VEKVQHELLVVYATELLEKEQSGCRALLREDKVEDLSRMYRLYHKIPKGLEPVANVFKQH 126
+ V+ +LL + T +L+K G LL E++++DLS +Y+L+ ++ G++ + + ++
Sbjct: 254 IATVEKQLLGEHLTAILQK---GLNNLLDENRIQDLSLLYQLFSRVRGGVQVLLQQWIEY 310
Query: 127 ITAEGTVLVQQAEDAATNQGGSSGAVQEQVLIRKIIELHDKYMEYVTNCFINHTLFHKAL 186
I A G+ +V E +++ +++++++ DK + CF+ + F A+
Sbjct: 311 IKAFGSTIVINPE-------------KDKTMVQELLDFKDKVDHIIDICFLKNEKFINAM 357
Query: 187 KEAFEIFCNKAVGGSSSSELLATFCDNILKKGGNEKLSDEAIEETLEKVVKLLAYISDKD 246
KEAFE F NK + +EL+A + D+ L+ GN++ +DE +E+ L+K++ + +I KD
Sbjct: 358 KEAFETFINKR--PNKPAELIAKYVDSKLR-AGNKEATDEELEKMLDKIMIIFRFIYGKD 414
Query: 247 LFAEFYRKKLARRLLFDRSANDDHERSILTKLKQQCGGQFTSKMEGMVTDLTLARENQTS 306
+F FY+K LA+RLL +SA+ D E+S+L+KLK +CG FTSK+EGM D+ L+++
Sbjct: 415 VFEAFYKKDLAKRLLVGKSASVDAEKSMLSKLKHECGAAFTSKLEGMFKDMELSKDIMIQ 474
Query: 307 FEEYLSNNQNAHPGIDLSVTVLTTGFWPSYKSSDLNLPSEMVKCVEVFKGFYETKTKHRK 366
F++Y+ N QN I+L+V +LT G+WP+Y +++LP EMVK E+FK FY K RK
Sbjct: 475 FKQYMQN-QNVPGNIELTVNILTMGYWPTYVPMEVHLPPEMVKLQEIFKTFYLGKHSGRK 533
Query: 367 LTWIYSLGQCNINGKFEQKNIELIVSTYQAATLLLFNTSDRLSYSEIMTQLNLTHDDLVR 426
L W +LG C + +F++ EL VS +Q LL+FN + S EI + +L R
Sbjct: 534 LQWQSTLGHCVLKAEFKEGKKELQVSLFQTLVLLMFNEGEEFSLEEIKQATGIEDGELRR 593
Query: 427 LLHSLSCAKYKILLKEPNTKTISQSDHFEFNSKFTDRMRRIKIPL----PPVDERKKIVE 482
L SL+C K ++L K P K I D F N F ++ RIKI V+E+ E
Sbjct: 594 TLQSLACGKARVLAKNPKGKDIEDGDKFICNDDFKHKLFRIKINQIQMKETVEEQASTTE 653
Query: 483 DVDKDRRYAIDAALVRIMKSRKVLGHQQLVSECVEQLSRMFKPDIKAIKKRMEDLITRDY 542
V +DR+Y IDAA+VRIMK RK L H LVSE QL KP +KKR+E LI RDY
Sbjct: 654 RVFQDRQYQIDAAIVRIMKMRKTLSHNLLVSEVYNQLKFPVKP--ADLKKRIESLIDRDY 711
Query: 543 LERDKENPNMFRYLA 557
+ERDKENPN + Y+A
Sbjct: 712 MERDKENPNQYNYIA 726
>pdb|2HYE|C Chain C, Crystal Structure Of The Ddb1-cul4a-rbx1-sv5v Complex
Length = 759
Score = 370 bits (949), Expect = e-102, Method: Compositional matrix adjust.
Identities = 209/561 (37%), Positives = 326/561 (58%), Gaps = 26/561 (4%)
Query: 1 MGQMDSYEKDFEEHMLQDTGAYYSRKASNWILEDSCPEYMIKAEECLKKERDRVSHYLHS 60
+ + Y+ FE L++T Y+ + + E PEY+ + L++E DRV YL
Sbjct: 221 LSDLQVYKDSFELKFLEETNCLYAAEGQRLMQEREVPEYLNHVSKRLEEEGDRVITYLDH 280
Query: 61 SSEPKLVEKVQHELLVVYATELLEKEQSGCRALLREDKVEDLSRMYRLYHKIPKGLEPVA 120
S++ L+ V+ +LL + T +L+K G LL E++V DL++MY+L+ ++ G + +
Sbjct: 281 STQKPLIACVEKQLLGEHLTAILQK---GLDHLLDENRVPDLAQMYQLFSRVRGGQQALL 337
Query: 121 NVFKQHITAEGTVLVQQAEDAATNQGGSSGAVQEQVLIRKIIELHDKYMEYVTNCFINHT 180
+ ++I GT +V E +++ +++ +++ DK + CF +
Sbjct: 338 QHWSEYIKTFGTAIVINPE-------------KDKDMVQDLLDFKDKVDHVIEVCFQKNE 384
Query: 181 LFHKALKEAFEIFCNKAVGGSSSSELLATFCDNILKKGGNEKLSDEAIEETLEKVVKLLA 240
F +KE+FE F NK + +EL+A D+ L+ GN++ +DE +E TL+K++ L
Sbjct: 385 RFVNLMKESFETFINKR--PNKPAELIAKHVDSKLR-AGNKEATDEELERTLDKIMILFR 441
Query: 241 YISDKDLFAEFYRKKLARRLLFDRSANDDHERSILTKLKQQCGGQFTSKMEGMVTDLTLA 300
+I KD+F FY+K LA+RLL +SA+ D E+S+L+KLK +CG FTSK+EGM D+ L+
Sbjct: 442 FIHGKDVFEAFYKKDLAKRLLVGKSASVDAEKSMLSKLKHECGAAFTSKLEGMFKDMELS 501
Query: 301 RENQTSFEEYLSNNQNAHPGIDLSVTVLTTGFWPSYKSSDLNLPSEMVKCVEVFKGFYET 360
++ F++++ N ++ P IDL+V +LT G+WP+Y +++L EM+K EVFK FY
Sbjct: 502 KDIMVHFKQHMQNQSDSGP-IDLTVNILTMGYWPTYTPMEVHLTPEMIKLQEVFKAFYLG 560
Query: 361 KTKHRKLTWIYSLGQCNINGKFEQKNIELIVSTYQAATLLLFNTSDRLSYSEIMTQLNLT 420
K RKL W +LG + +F++ E VS +Q LL+FN D S+ EI +
Sbjct: 561 KHSGRKLQWQTTLGHAVLKAEFKEGKKEFQVSLFQTLVLLMFNEGDGFSFEEIKMATGIE 620
Query: 421 HDDLVRLLHSLSCAKYKILLKEPNTKTISQSDHFEFNSKFTDRMRRIKIPL----PPVDE 476
+L R L SL+C K ++L+K P K + D F FN +F ++ RIKI V+E
Sbjct: 621 DSELRRTLQSLACGKARVLIKSPKGKEVEDGDKFIFNGEFKHKLFRIKINQIQMKETVEE 680
Query: 477 RKKIVEDVDKDRRYAIDAALVRIMKSRKVLGHQQLVSECVEQLSRMFKPDIKAIKKRMED 536
+ E V +DR+Y IDAA+VRIMK RK LGH LVSE QL KP +KKR+E
Sbjct: 681 QVSTTERVFQDRQYQIDAAIVRIMKMRKTLGHNLLVSELYNQLKFPVKPG--DLKKRIES 738
Query: 537 LITRDYLERDKENPNMFRYLA 557
LI RDY+ERDK+NPN + Y+A
Sbjct: 739 LIDRDYMERDKDNPNQYHYVA 759
>pdb|4A0K|A Chain A, Structure Of Ddb1-Ddb2-Cul4a-Rbx1 Bound To A 12 Bp Abasic
Site Containing Dna-Duplex
Length = 742
Score = 370 bits (949), Expect = e-102, Method: Compositional matrix adjust.
Identities = 209/561 (37%), Positives = 326/561 (58%), Gaps = 26/561 (4%)
Query: 1 MGQMDSYEKDFEEHMLQDTGAYYSRKASNWILEDSCPEYMIKAEECLKKERDRVSHYLHS 60
+ + Y+ FE L++T Y+ + + E PEY+ + L++E DRV YL
Sbjct: 204 LSDLQVYKDSFELKFLEETNCLYAAEGQRLMQEREVPEYLNHVSKRLEEEGDRVITYLDH 263
Query: 61 SSEPKLVEKVQHELLVVYATELLEKEQSGCRALLREDKVEDLSRMYRLYHKIPKGLEPVA 120
S++ L+ V+ +LL + T +L+K G LL E++V DL++MY+L+ ++ G + +
Sbjct: 264 STQKPLIACVEKQLLGEHLTAILQK---GLDHLLDENRVPDLAQMYQLFSRVRGGQQALL 320
Query: 121 NVFKQHITAEGTVLVQQAEDAATNQGGSSGAVQEQVLIRKIIELHDKYMEYVTNCFINHT 180
+ ++I GT +V E +++ +++ +++ DK + CF +
Sbjct: 321 QHWSEYIKTFGTAIVINPE-------------KDKDMVQDLLDFKDKVDHVIEVCFQKNE 367
Query: 181 LFHKALKEAFEIFCNKAVGGSSSSELLATFCDNILKKGGNEKLSDEAIEETLEKVVKLLA 240
F +KE+FE F NK + +EL+A D+ L+ GN++ +DE +E TL+K++ L
Sbjct: 368 RFVNLMKESFETFINKR--PNKPAELIAKHVDSKLR-AGNKEATDEELERTLDKIMILFR 424
Query: 241 YISDKDLFAEFYRKKLARRLLFDRSANDDHERSILTKLKQQCGGQFTSKMEGMVTDLTLA 300
+I KD+F FY+K LA+RLL +SA+ D E+S+L+KLK +CG FTSK+EGM D+ L+
Sbjct: 425 FIHGKDVFEAFYKKDLAKRLLVGKSASVDAEKSMLSKLKHECGAAFTSKLEGMFKDMELS 484
Query: 301 RENQTSFEEYLSNNQNAHPGIDLSVTVLTTGFWPSYKSSDLNLPSEMVKCVEVFKGFYET 360
++ F++++ N ++ P IDL+V +LT G+WP+Y +++L EM+K EVFK FY
Sbjct: 485 KDIMVHFKQHMQNQSDSGP-IDLTVNILTMGYWPTYTPMEVHLTPEMIKLQEVFKAFYLG 543
Query: 361 KTKHRKLTWIYSLGQCNINGKFEQKNIELIVSTYQAATLLLFNTSDRLSYSEIMTQLNLT 420
K RKL W +LG + +F++ E VS +Q LL+FN D S+ EI +
Sbjct: 544 KHSGRKLQWQTTLGHAVLKAEFKEGKKEFQVSLFQTLVLLMFNEGDGFSFEEIKMATGIE 603
Query: 421 HDDLVRLLHSLSCAKYKILLKEPNTKTISQSDHFEFNSKFTDRMRRIKIPL----PPVDE 476
+L R L SL+C K ++L+K P K + D F FN +F ++ RIKI V+E
Sbjct: 604 DSELRRTLQSLACGKARVLIKSPKGKEVEDGDKFIFNGEFKHKLFRIKINQIQMKETVEE 663
Query: 477 RKKIVEDVDKDRRYAIDAALVRIMKSRKVLGHQQLVSECVEQLSRMFKPDIKAIKKRMED 536
+ E V +DR+Y IDAA+VRIMK RK LGH LVSE QL KP +KKR+E
Sbjct: 664 QVSTTERVFQDRQYQIDAAIVRIMKMRKTLGHNLLVSELYNQLKFPVKPG--DLKKRIES 721
Query: 537 LITRDYLERDKENPNMFRYLA 557
LI RDY+ERDK+NPN + Y+A
Sbjct: 722 LIDRDYMERDKDNPNQYHYVA 742
>pdb|1LDJ|A Chain A, Structure Of The Cul1-rbx1-skp1-f Boxskp2 Scf Ubiquitin
Ligase Complex
Length = 760
Score = 303 bits (776), Expect = 2e-82, Method: Compositional matrix adjust.
Identities = 195/571 (34%), Positives = 316/571 (55%), Gaps = 42/571 (7%)
Query: 7 YEKDFEEHMLQDTGAYYSRKASNWILEDSCPEYMIKAEECLKKERDRVSHYLHSSSEPKL 66
Y++ FE L DT +Y+R+++ ++ ++ EYM KAE L +E+ RV YLH S++ +L
Sbjct: 212 YKESFESQFLADTERFYTRESTEFLQQNPVTEYMKKAEARLLEEQRRVQVYLHESTQDEL 271
Query: 67 VEKVQHEL----LVVYATELLEKEQSGCRALLREDKVEDLSRMYRLYHKIPKGLEPVANV 122
K + L L ++ TE + LL DK EDL RMY L +I GL + +
Sbjct: 272 ARKCEQVLIEKHLEIFHTEF--------QNLLDADKNEDLGRMYNLVSRIQDGLGELKKL 323
Query: 123 FKQHITAEGTVLVQQAEDAATNQGGSSGAVQEQVLIRKIIELHDKYMEYVTNCFINHTLF 182
+ HI +G +++ +AA N ++ ++ ++++H KY V + F N F
Sbjct: 324 LETHIHNQGLAAIEKCGEAALND--------PKMYVQTVLDVHKKYNALVMSAFNNDAGF 375
Query: 183 HKALKEAFEIFCNK------AVGGSSSSELLATFCDNILKKGGNEKLSDEA-IEETLEKV 235
AL +A F N A S S ELLA +CD++LKK K +EA +E+TL +V
Sbjct: 376 VAALDKACGRFINNNAVTKMAQSSSKSPELLARYCDSLLKKSS--KNPEEAELEDTLNQV 433
Query: 236 VKLLAYISDKDLFAEFYRKKLARRLLFDRSANDDHERSILTKLKQQCGGQFTSKMEGMVT 295
+ + YI DKD+F +FY K LA+RL+ SA+DD E S+++KLKQ CG ++TSK++ M
Sbjct: 434 MVVFKYIEDKDVFQKFYAKMLAKRLVHQNSASDDAEASMISKLKQACGFEYTSKLQRMFQ 493
Query: 296 DLTLARENQTSFEEYLSNNQNAHPGIDLSVTVLTTGFWPSYKSSDLNLPSEMVKCVEVFK 355
D+ ++++ F+++L+N++ +D S+ VL++G WP +S LPSE+ + + F
Sbjct: 494 DIGVSKDLNEQFKKHLTNSEPL--DLDFSIQVLSSGSWPFQQSCTFALPSELERSYQRFT 551
Query: 356 GFYETKTKHRKLTWIYSLGQCNINGKFEQKNIELIVSTYQAATLLLFNTSDRLSYSEIMT 415
FY ++ RKLTW+Y L + + + L ST+Q A LL +NT D + ++
Sbjct: 552 AFYASRHSGRKLTWLYQLSKGELVTNCFKNRYTLQASTFQMAILLQYNTEDAYTVQQLTD 611
Query: 416 QLNLTHDDLVRLLHSLSCAKYKILLKEPNTKTISQSD-----HFEFNSKFTDRMRRIKIP 470
+ D L ++L L K K+L+ E + + + + + ++ R+ I
Sbjct: 612 STQIKMDILAQVLQIL--LKSKLLVLEDENANVDEVELKPDTLIKLYLGYKNKKLRVNIN 669
Query: 471 LPPVDERKKIVE----DVDKDRRYAIDAALVRIMKSRKVLGHQQLVSECVEQLSRMFKPD 526
+P E+K+ E ++++DR+ I AA+VRIMK RKVL HQQL+ E + QLS FKP
Sbjct: 670 VPMKTEQKQEQETTHKNIEEDRKLLIQAAIVRIMKMRKVLKHQQLLGEVLTQLSSRFKPR 729
Query: 527 IKAIKKRMEDLITRDYLERDKENPNMFRYLA 557
+ IKK ++ LI ++YLER + + YLA
Sbjct: 730 VPVIKKCIDILIEKEYLERVDGEKDTYSYLA 760
>pdb|1U6G|A Chain A, Crystal Structure Of The Cand1-Cul1-Roc1 Complex
Length = 776
Score = 303 bits (775), Expect = 2e-82, Method: Compositional matrix adjust.
Identities = 195/571 (34%), Positives = 316/571 (55%), Gaps = 42/571 (7%)
Query: 7 YEKDFEEHMLQDTGAYYSRKASNWILEDSCPEYMIKAEECLKKERDRVSHYLHSSSEPKL 66
Y++ FE L DT +Y+R+++ ++ ++ EYM KAE L +E+ RV YLH S++ +L
Sbjct: 228 YKESFESQFLADTERFYTRESTEFLQQNPVTEYMKKAEARLLEEQRRVQVYLHESTQDEL 287
Query: 67 VEKVQHEL----LVVYATELLEKEQSGCRALLREDKVEDLSRMYRLYHKIPKGLEPVANV 122
K + L L ++ TE + LL DK EDL RMY L +I GL + +
Sbjct: 288 ARKCEQVLIEKHLEIFHTEF--------QNLLDADKNEDLGRMYNLVSRIQDGLGELKKL 339
Query: 123 FKQHITAEGTVLVQQAEDAATNQGGSSGAVQEQVLIRKIIELHDKYMEYVTNCFINHTLF 182
+ HI +G +++ +AA N ++ ++ ++++H KY V + F N F
Sbjct: 340 LETHIHNQGLAAIEKCGEAALND--------PKMYVQTVLDVHKKYNALVMSAFNNDAGF 391
Query: 183 HKALKEAFEIFCNK------AVGGSSSSELLATFCDNILKKGGNEKLSDEA-IEETLEKV 235
AL +A F N A S S ELLA +CD++LKK K +EA +E+TL +V
Sbjct: 392 VAALDKACGRFINNNAVTKMAQSSSKSPELLARYCDSLLKKSS--KNPEEAELEDTLNQV 449
Query: 236 VKLLAYISDKDLFAEFYRKKLARRLLFDRSANDDHERSILTKLKQQCGGQFTSKMEGMVT 295
+ + YI DKD+F +FY K LA+RL+ SA+DD E S+++KLKQ CG ++TSK++ M
Sbjct: 450 MVVFKYIEDKDVFQKFYAKMLAKRLVHQNSASDDAEASMISKLKQACGFEYTSKLQRMFQ 509
Query: 296 DLTLARENQTSFEEYLSNNQNAHPGIDLSVTVLTTGFWPSYKSSDLNLPSEMVKCVEVFK 355
D+ ++++ F+++L+N++ +D S+ VL++G WP +S LPSE+ + + F
Sbjct: 510 DIGVSKDLNEQFKKHLTNSEPL--DLDFSIQVLSSGSWPFQQSCTFALPSELERSYQRFT 567
Query: 356 GFYETKTKHRKLTWIYSLGQCNINGKFEQKNIELIVSTYQAATLLLFNTSDRLSYSEIMT 415
FY ++ RKLTW+Y L + + + L ST+Q A LL +NT D + ++
Sbjct: 568 AFYASRHSGRKLTWLYQLSKGELVTNCFKNRYTLQASTFQMAILLQYNTEDAYTVQQLTD 627
Query: 416 QLNLTHDDLVRLLHSLSCAKYKILLKEPNTKTISQSD-----HFEFNSKFTDRMRRIKIP 470
+ D L ++L L K K+L+ E + + + + + ++ R+ I
Sbjct: 628 STQIKMDILAQVLQIL--LKSKLLVLEDENANVDEVELKPDTLIKLYLGYKNKKLRVNIN 685
Query: 471 LPPVDERKKIVE----DVDKDRRYAIDAALVRIMKSRKVLGHQQLVSECVEQLSRMFKPD 526
+P E+K+ E ++++DR+ I AA+VRIMK RKVL HQQL+ E + QLS FKP
Sbjct: 686 VPMKTEQKQEQETTHKNIEEDRKLLIQAAIVRIMKMRKVLKHQQLLGEVLTQLSSRFKPR 745
Query: 527 IKAIKKRMEDLITRDYLERDKENPNMFRYLA 557
+ IKK ++ LI ++YLER + + YLA
Sbjct: 746 VPVIKKCIDILIEKEYLERVDGEKDTYSYLA 776
>pdb|1LDK|B Chain B, Structure Of The Cul1-Rbx1-Skp1-F Boxskp2 Scf Ubiquitin
Ligase Complex
Length = 366
Score = 224 bits (572), Expect = 8e-59, Method: Compositional matrix adjust.
Identities = 135/371 (36%), Positives = 217/371 (58%), Gaps = 16/371 (4%)
Query: 197 AVGGSSSSELLATFCDNILKKGGNEKLSDEA-IEETLEKVVKLLAYISDKDLFAEFYRKK 255
A S S ELLA +CD++LKK K +EA +E+TL +V+ + YI DKD+F +FY K
Sbjct: 2 AQSSSKSPELLARYCDSLLKKSS--KNPEEAELEDTLNQVMVVFKYIEDKDVFQKFYAKM 59
Query: 256 LARRLLFDRSANDDHERSILTKLKQQCGGQFTSKMEGMVTDLTLARENQTSFEEYLSNNQ 315
LA+RL+ SA+DD E S+++KLKQ CG ++TSK++ M D+ ++++ F+++L+N++
Sbjct: 60 LAKRLVHQNSASDDAEASMISKLKQACGFEYTSKLQRMFQDIGVSKDLNEQFKKHLTNSE 119
Query: 316 NAHPGIDLSVTVLTTGFWPSYKSSDLNLPSEMVKCVEVFKGFYETKTKHRKLTWIYSLGQ 375
+D S+ VL++G WP +S LPSE+ + + F FY ++ RKLTW+Y L +
Sbjct: 120 PL--DLDFSIQVLSSGSWPFQQSCTFALPSELERSYQRFTAFYASRHSGRKLTWLYQLSK 177
Query: 376 CNINGKFEQKNIELIVSTYQAATLLLFNTSDRLSYSEIMTQLNLTHDDLVRLLHSLSCAK 435
+ + L ST+Q A LL +NT D + ++ + D L ++L L K
Sbjct: 178 GELVTNCFKNRYTLQASTFQMAILLQYNTEDAYTVQQLTDSTQIKMDILAQVLQIL--LK 235
Query: 436 YKILLKEPNTKTISQSD-----HFEFNSKFTDRMRRIKIPLPPVDERKKIVE----DVDK 486
K+L+ E + + + + + ++ R+ I +P E+K+ E ++++
Sbjct: 236 SKLLVLEDENANVDEVELKPDTLIKLYLGYKNKKLRVNINVPMKTEQKQEQETTHKNIEE 295
Query: 487 DRRYAIDAALVRIMKSRKVLGHQQLVSECVEQLSRMFKPDIKAIKKRMEDLITRDYLERD 546
DR+ I AA+VRIMK RKVL HQQL+ E + QLS FKP + IKK ++ LI ++YLER
Sbjct: 296 DRKLLIQAAIVRIMKMRKVLKHQQLLGEVLTQLSSRFKPRVPVIKKCIDILIEKEYLERV 355
Query: 547 KENPNMFRYLA 557
+ + YLA
Sbjct: 356 DGEKDTYSYLA 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 = 217 bits (553), Expect = 1e-56, Method: Compositional matrix adjust.
Identities = 135/374 (36%), Positives = 214/374 (57%), Gaps = 22/374 (5%)
Query: 197 AVGGSSSSELLATFCDNILKKGGNEKLSDEA-IEETLEKVVKLLAYISDKDLFAEFYRKK 255
A S S E LA +CD++LKK K +EA +E+TL +V++ I DKD+F +FY K
Sbjct: 4 AQSSSKSPEELARYCDSLLKKSS--KNPEEAELEDTLNQVMEKFKKIEDKDVFQKFYAKM 61
Query: 256 LARRLLFDRSANDDHERSILTKLKQQCGGQFTSKMEGMVTDLTLARENQTSFEEYLSNNQ 315
LA+RL+ SA+DD E S+++KLKQ CG ++TSK++ M D+ ++++ F+++L+N++
Sbjct: 62 LAKRLVHQNSASDDAEASMISKLKQACGFEYTSKLQRMFQDIGVSKDLNEQFKKHLTNSE 121
Query: 316 NAHPGIDLSVTVLTTGFWPSYKSSDLNLPSEMVKCVEVFKGFYETKTKHRKLTWIYSLGQ 375
+D S+ VL++G WP +S LPSE+ + + F FY ++ RKLTW+Y L +
Sbjct: 122 PL--DLDFSIQVLSSGSWPFQQSCTFALPSELERSYQRFTAFYASRHSGRKLTWLYQLSK 179
Query: 376 CNINGKFEQKNIELIVSTYQAATLLLFNTSDRLSYSEIMTQLNLTHDDLVRLLHSLSCAK 435
+ + L ST+Q A LL +NT D + ++ + D L ++L L K
Sbjct: 180 GELVTNCFKNRYTLQASTFQMAILLQYNTEDAYTVQQLTDSTQIKMDILAQVLQIL--LK 237
Query: 436 YKILLKEPNTKTISQSDHFEFNSK--------FTDRMRRIKIPLPPVDERKKIVE----D 483
K+L+ E + D E + ++ R+ I +P E+K+ E +
Sbjct: 238 SKLLVLEDENANV---DEVELKPDTLIKLYLGYKNKKLRVNINVPMKTEQKQEQETTHKN 294
Query: 484 VDKDRRYAIDAALVRIMKSRKVLGHQQLVSECVEQLSRMFKPDIKAIKKRMEDLITRDYL 543
+++DR+ I AA+VRIMK RKVL HQQL+ E + QLS FKP + IKK ++ LI ++YL
Sbjct: 295 IEEDRKLLIQAAIVRIMKMRKVLKHQQLLGEVLTQLSSRFKPRVPVIKKCIDILIEKEYL 354
Query: 544 ERDKENPNMFRYLA 557
ER + + YLA
Sbjct: 355 ERVDGEKDTYSYLA 368
>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 = 153 bits (387), Expect = 2e-37, Method: Compositional matrix adjust.
Identities = 88/244 (36%), Positives = 144/244 (59%), Gaps = 5/244 (2%)
Query: 197 AVGGSSSSELLATFCDNILKKGGNEKLSDEA-IEETLEKVVKLLAYISDKDLFAEFYRKK 255
A S S E LA +CD++LKK K +EA +E+TL +V++ I DKD+F +FY K
Sbjct: 4 AQSSSKSPEELARYCDSLLKKSS--KNPEEAELEDTLNQVMEKFKKIEDKDVFQKFYAKM 61
Query: 256 LARRLLFDRSANDDHERSILTKLKQQCGGQFTSKMEGMVTDLTLARENQTSFEEYLSNNQ 315
LA+RL+ SA+DD E S+++KLKQ CG ++TSK++ M D+ ++++ F+++L+N++
Sbjct: 62 LAKRLVHQNSASDDAEASMISKLKQACGFEYTSKLQRMFQDIGVSKDLNEQFKKHLTNSE 121
Query: 316 NAHPGIDLSVTVLTTGFWPSYKSSDLNLPSEMVKCVEVFKGFYETKTKHRKLTWIYSLGQ 375
+D S+ VL++G WP +S LPSE+ + + F FY ++ RKLTW+Y L +
Sbjct: 122 PL--DLDFSIQVLSSGSWPFQQSCTFALPSELERSYQRFTAFYASRHSGRKLTWLYQLSK 179
Query: 376 CNINGKFEQKNIELIVSTYQAATLLLFNTSDRLSYSEIMTQLNLTHDDLVRLLHSLSCAK 435
+ + L ST+Q A LL +NT D + ++ + D L ++L L +K
Sbjct: 180 GELVTNCFKNRYTLQASTFQMAILLQYNTEDAYTVQQLTDSTQIKMDILAQVLQILLKSK 239
Query: 436 YKIL 439
+L
Sbjct: 240 LLVL 243
>pdb|3DPL|C Chain C, Structural Insights Into Nedd8 Activation Of Cullin-Ring
Ligases: Conformational Control Of Conjugation
Length = 382
Score = 137 bits (346), Expect = 1e-32, Method: Compositional matrix adjust.
Identities = 113/384 (29%), Positives = 196/384 (51%), Gaps = 28/384 (7%)
Query: 200 GSSS--SELLATFCDNILKKGG-NEKLSDEAIEETLEKVVKLLAYISDKDLFAEFYRKKL 256
GS S E LA +CD +L+K ++KL+ E IE L++V+K L Y+ +KD+F +++ L
Sbjct: 1 GSESKCPEELANYCDMLLRKTPLSKKLTSEEIEAKLKEVLKKLKYVQNKDVFMRYHKAHL 60
Query: 257 ARRLLFDRSANDDHERSILTKLKQ-QCGGQFTSKMEGMVTDLTLARENQTSFEEYLSNNQ 315
RRL+ D SA+ + E +++ L++ + +K+ M D+ ++ + +F+E NN+
Sbjct: 61 TRRLILDISADSEIEENMVEWLREVGMPADYVNKLARMFQDIKVSEDLNQAFKEMHKNNK 120
Query: 316 NAHPGIDLSVTVLTTGFWP-SYKSSDLNLPSEMVKCVEVFKGFYETKTKHRKLTWIYSLG 374
A P +++ +L G W S + ++LP+E+ + + FY+ RKL W + +
Sbjct: 121 LALPADSVNIKILNAGAWSRSSEKVFVSLPTELEDLIPEVEEFYKKNHSGRKLHWHHLMS 180
Query: 375 QCNINGKFEQKNIELIVSTYQAATLLLFNTSDR--LSYSEIMTQLNLTHDDLVRLLHSLS 432
I K E +L V+T+Q A L +N R +S+ + L +L R L SL
Sbjct: 181 NGIITFKNEVGQYDLEVTTFQLAVLFAWNQRPREKISFENLKLATELPDAELRRTLWSLV 240
Query: 433 C---AKYKILLKEPNT---KTISQSDHFEFNSKFT-------------DRMRRIKIPLPP 473
K ++LL EP K ++ F N +F+ + + R+++
Sbjct: 241 AFPKLKRQVLLYEPQVNSPKDFTEGTLFSVNQEFSLIKNAKVQKRGKINLIGRLQLTTER 300
Query: 474 VDERKKIVEDVDKDRRYAIDAALVRIMKSRKVLGHQQLVSECVEQLSRMFKPDIKAIKKR 533
+ E + E + + R A+++IMK RK + + QL +E VE L MF P K IK++
Sbjct: 301 MREEEN--EGIVQLRILRTQEAIIQIMKMRKKISNAQLQTELVEILKNMFLPQKKMIKEQ 358
Query: 534 MEDLITRDYLERDKENPNMFRYLA 557
+E LI Y+ RD+ + N F Y+A
Sbjct: 359 IEWLIEHKYIRRDESDINTFIYMA 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 = 124 bits (312), Expect = 1e-28, Method: Compositional matrix adjust.
Identities = 111/379 (29%), Positives = 187/379 (49%), Gaps = 22/379 (5%)
Query: 201 SSSSELLATFCDNILKKGG-NEKLSDEAIEETLEKVVKLLAYISDKDLFAEFYRKKLARR 259
S E LA +CD +L+K ++KL+ E IE L++V+K L Y+ +KD+F +++ L RR
Sbjct: 4 SKCPEELANYCDXLLRKTPLSKKLTSEEIEAKLKEVLKKLKYVQNKDVFXRYHKAHLTRR 63
Query: 260 LLFDRSANDDHERSILTKLKQ-QCGGQFTSKMEGMVTDLTLARENQTSFEEYLSNNQNAH 318
L+ D SA+ + E + + L++ + +K+ D+ ++ + +F+E NN+ A
Sbjct: 64 LILDISADSEIEENXVEWLREVGXPADYVNKLARXFQDIKVSEDLNQAFKEXHKNNKLAL 123
Query: 319 PGIDLSVTVLTTGFWP-SYKSSDLNLPSEMVKCVEVFKGFYETKTKHRKLTWIYSLGQCN 377
P +++ +L G W S + ++LP+E+ + + FY+ RKL W +
Sbjct: 124 PADSVNIKILNAGAWSRSSEKVFVSLPTELEDLIPEVEEFYKKNHSGRKLHWHHLXSNGI 183
Query: 378 INGKFEQKNIELIVSTYQAATLLLFNTSDR--LSYSEIMTQLNLTHDDLVRLLHSLSC-- 433
I K E +L V+T+Q A L +N R +S+ + L +L R L SL
Sbjct: 184 ITFKNEVGQYDLEVTTFQLAVLFAWNQRPREKISFENLKLATELPDAELRRTLWSLVAFP 243
Query: 434 -AKYKILLKEPNT---KTISQSDHFEFNSKFT-----DRMRRIKI------PLPPVDERK 478
K ++LL EP K ++ F N +F+ +R KI L R+
Sbjct: 244 KLKRQVLLYEPQVNSPKDFTEGTLFSVNQEFSLIKNAKVQKRGKINLIGRLQLTTERXRE 303
Query: 479 KIVEDVDKDRRYAIDAALVRIMKSRKVLGHQQLVSECVEQLSRMFKPDIKAIKKRMEDLI 538
+ E + + R A+++I K RK + + QL +E VE L F P K IK+++E LI
Sbjct: 304 EENEGIVQLRILRTQEAIIQIXKXRKKISNAQLQTELVEILKNXFLPQKKXIKEQIEWLI 363
Query: 539 TRDYLERDKENPNMFRYLA 557
Y+ RD+ + N F Y A
Sbjct: 364 EHKYIRRDESDINTFIYXA 382
>pdb|2DO7|A Chain A, Solution Structure Of The Winged Helix-Turn-Helix Motif Of
Human Cul-4b
Length = 101
Score = 90.5 bits (223), Expect = 2e-18, Method: Compositional matrix adjust.
Identities = 47/84 (55%), Positives = 57/84 (67%), Gaps = 2/84 (2%)
Query: 474 VDERKKIVEDVDKDRRYAIDAALVRIMKSRKVLGHQQLVSECVEQLSRMFKPDIKAIKKR 533
V+E+ E V +DR+Y IDAA+VRIMK RK L H LVSE QL KP +KKR
Sbjct: 14 VEEQASTTERVFQDRQYQIDAAIVRIMKMRKTLSHNLLVSEVYNQLKFPVKP--ADLKKR 71
Query: 534 MEDLITRDYLERDKENPNMFRYLA 557
+E LI RDY+ERDKENPN + Y+A
Sbjct: 72 IESLIDRDYMERDKENPNQYNYIA 95
>pdb|1LDK|A Chain A, Structure Of The Cul1-Rbx1-Skp1-F Boxskp2 Scf Ubiquitin
Ligase Complex
Length = 396
Score = 90.5 bits (223), Expect = 2e-18, Method: Compositional matrix adjust.
Identities = 60/193 (31%), Positives = 99/193 (51%), Gaps = 20/193 (10%)
Query: 7 YEKDFEEHMLQDTGAYYSRKASNWILEDSCPEYMIKAEECLKKERDRVSHYLHSSSEPKL 66
Y++ FE L DT +Y+R+++ ++ ++ EYM KAE L +E+ RV YLH S++ +L
Sbjct: 214 YKESFESQFLADTERFYTRESTEFLQQNPVTEYMKKAEARLLEEQRRVQVYLHESTQDEL 273
Query: 67 VEKVQHEL----LVVYATELLEKEQSGCRALLREDKVEDLSRMYRLYHKIPKGLEPVANV 122
K + L L ++ TE + LL DK EDL RMY L +I GL + +
Sbjct: 274 ARKCEQVLIEKHLEIFHTEF--------QNLLDADKNEDLGRMYNLVSRIQDGLGELKKL 325
Query: 123 FKQHITAEGTVLVQQAEDAATNQGGSSGAVQEQVLIRKIIELHDKYMEYVTNCFINHTLF 182
+ HI +G +++ +AA N ++ ++ ++++H KY V + F N F
Sbjct: 326 LETHIHNQGLAAIEKCGEAALN--------DPKMYVQTVLDVHKKYNALVMSAFNNDAGF 377
Query: 183 HKALKEAFEIFCN 195
AL +A F N
Sbjct: 378 VAALDKACGRFIN 390
>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 = 85.9 bits (211), Expect = 5e-17, Method: Compositional matrix adjust.
Identities = 52/190 (27%), Positives = 102/190 (53%), Gaps = 16/190 (8%)
Query: 7 YEKDFEEHMLQDTGAYYSRKASNWILEDSCPEYMIKAEECLKKERDRVSHYLHSSSEPKL 66
Y+ FE+ L++T Y+ + + E PEY+ + L++E DR+ YL +++ L
Sbjct: 178 YQDSFEQRFLEETNRLYAAEGQKLMQEREVPEYLHHVNKRLEEEADRLITYLDQTTQKSL 237
Query: 67 VEKVQHELLVVYATELLEKEQSGCRALLREDKVEDLSRMYRLYHKIPKGLEPVANVFKQH 126
+ V+ +LL + T +L+K G LL E++++DLS +Y+L+ ++ G++ + + ++
Sbjct: 238 IATVEKQLLGEHLTAILQK---GLNNLLDENRIQDLSLLYQLFSRVRGGVQVLLQQWIEY 294
Query: 127 ITAEGTVLVQQAEDAATNQGGSSGAVQEQVLIRKIIELHDKYMEYVTNCFINHTLFHKAL 186
I A G+ +V E +++ + +++ + DK + CF+ + F A+
Sbjct: 295 IKAFGSTIVINPE-------------KDKTMRQELDDFKDKVDHIIDICFLKNEKFINAM 341
Query: 187 KEAFEIFCNK 196
KEAFE F NK
Sbjct: 342 KEAFETFINK 351
>pdb|4AP2|B Chain B, Crystal Structure Of The Human Klhl11-cul3 Complex At 2.8a
Resolution
Length = 410
Score = 85.5 bits (210), Expect = 7e-17, Method: Compositional matrix adjust.
Identities = 56/202 (27%), Positives = 101/202 (50%), Gaps = 13/202 (6%)
Query: 7 YEKDFEEHMLQDTGAYYSRKASNWILEDSCPEYMIKAEECLKKERDRVSHYLHSSSEPKL 66
YE+DFE L+ + ++ ++ ++ E+S Y+ K E + +E +RV H L S+E +
Sbjct: 201 YEEDFEAPFLEMSAEFFQMESQKFLAENSASVYIKKVEARINEEIERVMHCLDKSTEEPI 260
Query: 67 VEKVQHELLVVYATELLEKEQSGCRALLREDKVEDLSRMYRLYHKIPKGLEPVANVFKQH 126
V+ V+ EL+ + ++E E SG +L+ K EDL MY+L+ ++P GL+ + +
Sbjct: 261 VKVVERELISKHMKTIVEMENSGLVHMLKNGKTEDLGCMYKLFSRVPNGLKTMCECMSSY 320
Query: 127 ITAEGTVLVQQAEDAATNQGGSSGAVQEQVLIRKIIELHDKYMEYVTNCFINHTLFHKAL 186
+ +G LV + +G V + + + +L ++ ++ F N LF + +
Sbjct: 321 LREQGKALVSE-------EGEGKNPVDYR---QGLDDLKSRFDRFLLESFNNDRLFKQTI 370
Query: 187 KEAFEIFCNKAVGGSSSSELLA 208
FE F N S S E LA
Sbjct: 371 AGDFEYFLNL---NSRSPEYLA 389
>pdb|4APF|B Chain B, Crystal Structure Of The Human Klhl11-cul3 Complex At 3.1a
Resolution
Length = 388
Score = 85.1 bits (209), Expect = 1e-16, Method: Compositional matrix adjust.
Identities = 56/202 (27%), Positives = 101/202 (50%), Gaps = 13/202 (6%)
Query: 7 YEKDFEEHMLQDTGAYYSRKASNWILEDSCPEYMIKAEECLKKERDRVSHYLHSSSEPKL 66
YE+DFE L+ + ++ ++ ++ E+S Y+ K E + +E +RV H L S+E +
Sbjct: 179 YEEDFEAPFLEMSAEFFQMESQKFLAENSASVYIKKVEARINEEIERVMHCLDKSTEEPI 238
Query: 67 VEKVQHELLVVYATELLEKEQSGCRALLREDKVEDLSRMYRLYHKIPKGLEPVANVFKQH 126
V+ V+ EL+ + ++E E SG +L+ K EDL MY+L+ ++P GL+ + +
Sbjct: 239 VKVVERELISKHMKTIVEMENSGLVHMLKNGKTEDLGCMYKLFSRVPNGLKTMCECMSSY 298
Query: 127 ITAEGTVLVQQAEDAATNQGGSSGAVQEQVLIRKIIELHDKYMEYVTNCFINHTLFHKAL 186
+ +G LV + +G V + + + +L ++ ++ F N LF + +
Sbjct: 299 LREQGKALVSE-------EGEGKNPVDYR---QGLDDLKSRFDRFLLESFNNDRLFKQTI 348
Query: 187 KEAFEIFCNKAVGGSSSSELLA 208
FE F N S S E LA
Sbjct: 349 AGDFEYFLNL---NSRSPEYLA 367
>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 = 80.9 bits (198), Expect = 2e-15, Method: Compositional matrix adjust.
Identities = 50/189 (26%), Positives = 93/189 (49%), Gaps = 10/189 (5%)
Query: 7 YEKDFEEHMLQDTGAYYSRKASNWILEDSCPEYMIKAEECLKKERDRVSHYLHSSSEPKL 66
YE+DFE L+ + ++ ++ ++ E+S Y+ K E + +E +RV H L S+E +
Sbjct: 184 YEEDFEAPFLEXSAEFFQXESQKFLAENSASVYIKKVEARINEEIERVXHCLDKSTEEPI 243
Query: 67 VEKVQHELLVVYATELLEKEQSGCRALLREDKVEDLSRMYRLYHKIPKGLEPVANVFKQH 126
V+ V+ EL+ + ++E E SG L+ K EDL Y+L+ ++P GL+ +
Sbjct: 244 VKVVERELISKHXKTIVEXENSGLVHXLKNGKTEDLGCXYKLFSRVPNGLKTXCECXSSY 303
Query: 127 ITAEGTVLVQQAEDAATNQGGSSGAVQEQVLIRKIIELHDKYMEYVTNCFINHTLFHKAL 186
+ +G LV + +G V + + + +L ++ ++ F N LF + +
Sbjct: 304 LREQGKALVSE-------EGEGKNPVDYR---QGLDDLKSRFDRFLLESFNNDRLFKQTI 353
Query: 187 KEAFEIFCN 195
FE F N
Sbjct: 354 AGDFEYFLN 362
>pdb|1IUY|A Chain A, Solution Structure Of The Cullin-3 Homologue
Length = 92
Score = 76.3 bits (186), Expect = 4e-14, Method: Compositional matrix adjust.
Identities = 40/82 (48%), Positives = 55/82 (67%)
Query: 476 ERKKIVEDVDKDRRYAIDAALVRIMKSRKVLGHQQLVSECVEQLSRMFKPDIKAIKKRME 535
ERK+ + VD DR++ I+AA+VRIMKSRK + H LV+E +QL F P IKKR+E
Sbjct: 11 ERKETRQKVDDDRKHEIEAAIVRIMKSRKKMQHNVLVAEVTQQLKARFLPSPVVIKKRIE 70
Query: 536 DLITRDYLERDKENPNMFRYLA 557
LI R+YL R E+ ++ Y+A
Sbjct: 71 GLIEREYLARTPEDRKVYTYVA 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 = 73.2 bits (178), Expect = 3e-13, Method: Compositional matrix adjust.
Identities = 37/75 (49%), Positives = 52/75 (69%)
Query: 483 DVDKDRRYAIDAALVRIMKSRKVLGHQQLVSECVEQLSRMFKPDIKAIKKRMEDLITRDY 542
++++DR+ I AA+VRIMK RKVL HQQL+ E + QLS FKP + IKK ++ LI ++Y
Sbjct: 3 NIEEDRKLLIQAAIVRIMKMRKVLKHQQLLGEVLTQLSSRFKPRVPVIKKCIDILIEKEY 62
Query: 543 LERDKENPNMFRYLA 557
LER + + YLA
Sbjct: 63 LERVDGEKDTYSYLA 77
>pdb|2WZK|A Chain A, Structure Of The Cul5 N-Terminal Domain At 2.05a
Resolution
Length = 391
Score = 65.5 bits (158), Expect = 7e-11, Method: Compositional matrix adjust.
Identities = 49/193 (25%), Positives = 89/193 (46%), Gaps = 10/193 (5%)
Query: 7 YEKDFEEHMLQDTGAYYSRKASNWILEDSCPEYMIKAEECLKKERDRVSHYLHSSSEPKL 66
Y +FE+ L T +Y +A +++ ++ YM A+ LK+E R YL + E
Sbjct: 198 YRDNFEKAYLDSTERFYRTQAPSYLQQNGVQNYMKYADAKLKEEEKRALRYLETRRECNS 257
Query: 67 VEKVQHELLVVYATELLEKEQSGCRALLREDKVEDLSRMYRLYHKIPKGLEPVANVFKQH 126
VE + + T E + C+ +++ ++ E L M+ L K+P G+EP+ ++H
Sbjct: 258 VEALMECCVNALVTSFKETILAECQGMIKRNETEKLHLMFSLMDKVPNGIEPMLKDLEEH 317
Query: 127 ITAEGTV-LVQQAEDAATNQGGSSGAVQEQVLIRKIIELHDKYMEYVTNCFINHTLFHKA 185
I + G +V AE T+ S +EQ + L +++ + V F + F A
Sbjct: 318 IISAGLADMVAAAETITTD----SEKYREQ-----LDTLFNRFSKLVKEAFQDDPRFLTA 368
Query: 186 LKEAFEIFCNKAV 198
+A++ N A
Sbjct: 369 RDKAYKAVVNDAT 381
>pdb|3O2P|E Chain E, A Dual E3 Mechanism For Rub1 Ligation To Cdc53:
Dcn1(P)-Cdc53(Whb)
Length = 88
Score = 53.9 bits (128), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 26/82 (31%), Positives = 53/82 (64%), Gaps = 1/82 (1%)
Query: 476 ERKKIVEDVDKDRRYAIDAALVRIMKSRKVLGHQQLVSECVEQLSRMFKPDIKAIKKRME 535
E ++I ++++ +R+ ++A +VRIMK+++ L H LV+EC+ Q + F + +K+ ++
Sbjct: 8 EDERIEKELNTERQIFLEACIVRIMKAKRNLPHTTLVNECIAQSHQRFNAKVSMVKRAID 67
Query: 536 DLITRDYLERDKENPNMFRYLA 557
LI + YL+R + + + YLA
Sbjct: 68 SLIQKGYLQRGDDGES-YAYLA 88
>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 = 52.8 bits (125), Expect = 5e-07, Method: Compositional matrix adjust.
Identities = 24/75 (32%), Positives = 48/75 (64%), Gaps = 1/75 (1%)
Query: 483 DVDKDRRYAIDAALVRIMKSRKVLGHQQLVSECVEQLSRMFKPDIKAIKKRMEDLITRDY 542
+++ +R+ ++A +VRIMK+++ L H LV+EC+ Q + F + +K+ ++ LI + Y
Sbjct: 3 ELNTERQIFLEACIVRIMKAKRNLPHTTLVNECIAQSHQRFNAKVSMVKRAIDSLIQKGY 62
Query: 543 LERDKENPNMFRYLA 557
L+R + + + YLA
Sbjct: 63 LQRGDDGES-YAYLA 76
>pdb|3ODM|A Chain A, Archaeal-Type Phosphoenolpyruvate Carboxylase
pdb|3ODM|B Chain B, Archaeal-Type Phosphoenolpyruvate Carboxylase
pdb|3ODM|C Chain C, Archaeal-Type Phosphoenolpyruvate Carboxylase
pdb|3ODM|D Chain D, Archaeal-Type Phosphoenolpyruvate Carboxylase
pdb|3ODM|E Chain E, Archaeal-Type Phosphoenolpyruvate Carboxylase
pdb|3ODM|F Chain F, Archaeal-Type Phosphoenolpyruvate Carboxylase
pdb|3ODM|G Chain G, Archaeal-Type Phosphoenolpyruvate Carboxylase
pdb|3ODM|H Chain H, Archaeal-Type Phosphoenolpyruvate Carboxylase
Length = 560
Score = 30.8 bits (68), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 19/76 (25%), Positives = 34/76 (44%), Gaps = 1/76 (1%)
Query: 342 NLPSEMVKCVEVFKGFYETKTKHR-KLTWIYSLGQCNINGKFEQKNIELIVSTYQAATLL 400
L S ++ + G Y+ KH ++ I G G F ++NI+ I++TY
Sbjct: 231 GLISGVLSVLMAVDGAYKWGEKHGVTISPILGCGSLPFRGHFSEENIDEILATYSGIKTF 290
Query: 401 LFNTSDRLSYSEIMTQ 416
F ++ R + E T+
Sbjct: 291 TFQSALRYDHGEEATK 306
>pdb|1YF2|A Chain A, Three-dimensional Structure Of Dna Sequence Specificity
(s) Subunit Of A Type I Restriction-modification Enzyme
And Its Functional Implications
pdb|1YF2|B Chain B, Three-dimensional Structure Of Dna Sequence Specificity
(s) Subunit Of A Type I Restriction-modification Enzyme
And Its Functional Implications
Length = 425
Score = 30.0 bits (66), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 31/113 (27%), Positives = 59/113 (52%), Gaps = 9/113 (7%)
Query: 436 YKILLKEPN--TKTISQSDHFEFNSKFTDRMRRIKIPLPPVDERKKIVEDVDK--DRRYA 491
Y IL K N +K Q+ N++ ++ KIPLPP++E+K+I + + K +
Sbjct: 131 YYILAKNKNYYSKLGMQTTQKNLNAQI---VKSFKIPLPPLEEQKQIAKILTKIDEGIEI 187
Query: 492 IDAALVRIMKSRKVLGHQQLVSECVEQLSRMFKPDIKAIKKRMEDLITRDYLE 544
I+ ++ ++ + +K L H +L+++ + SR K +I I + E +D E
Sbjct: 188 IEKSINKLERIKKGLMH-KLLTKGIGH-SRFKKSEIGEIPEDWEVFEIKDIFE 238
>pdb|3BIC|A Chain A, Crystal Structure Of Human Methylmalonyl-Coa Mutase
pdb|3BIC|B Chain B, Crystal Structure Of Human Methylmalonyl-Coa Mutase
pdb|2XIJ|A Chain A, Crystal Structure Of Human Methylmalonyl-Coa Mutase In
Complex With Adenosylcobalamin
pdb|2XIQ|A Chain A, Crystal Structure Of Human Methylmalonyl-Coa Mutase In
Complex With Adenosylcobalamin And Malonyl-Coa
pdb|2XIQ|B Chain B, Crystal Structure Of Human Methylmalonyl-Coa Mutase In
Complex With Adenosylcobalamin And Malonyl-Coa
Length = 762
Score = 29.6 bits (65), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 13/37 (35%), Positives = 23/37 (62%)
Query: 491 AIDAALVRIMKSRKVLGHQQLVSECVEQLSRMFKPDI 527
A+DA + + S GH+ LV E +++L+ + +PDI
Sbjct: 651 AVDADVHAVGVSTLAAGHKTLVPELIKELNSLGRPDI 687
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 0.377
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 15,595,246
Number of Sequences: 62578
Number of extensions: 628700
Number of successful extensions: 1992
Number of sequences better than 100.0: 32
Number of HSP's better than 100.0 without gapping: 25
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 1904
Number of HSP's gapped (non-prelim): 34
length of query: 557
length of database: 14,973,337
effective HSP length: 104
effective length of query: 453
effective length of database: 8,465,225
effective search space: 3834746925
effective search space used: 3834746925
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)