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= 012914
(453 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 = 327 bits (837), Expect = 1e-89, Method: Compositional matrix adjust.
Identities = 179/457 (39%), Positives = 273/457 (59%), Gaps = 23/457 (5%)
Query: 1 MYRLYHKIPKGLEPVANVFKQHITAEGTVLVQQAEDAATNQGGSSGAVQEQVLIRKIIEL 60
+Y+L+ ++ G++ + + ++I A G+ +V E +++ +++++++
Sbjct: 304 LYQLFSRVRGGVQVLLQQWIEYIKAFGSTIVINPE-------------KDKTMVQELLDF 350
Query: 61 HDKYMEYVTNCFINHTLFHKALKEAFEIFCNKAVGGSSSSELLATFCDNILKKGGNEKLS 120
DK + CF+ + F A+KEAFE F NK + +EL+A + D+ L+ GN++ +
Sbjct: 351 KDKVDHIIDICFLKNEKFINAMKEAFETFINKR--PNKPAELIAKYVDSKLR-AGNKEAT 407
Query: 121 DEAIEETLEKVVKLLAYISDKDLFAEFYRKKLARRLLFDRSANDDHERSILTKLKQQCGG 180
DE +E+ L+K++ + +I KD+F FY+K LA+RLL +SA+ D E+S+L+KLK +CG
Sbjct: 408 DEELEKMLDKIMIIFRFIYGKDVFEAFYKKDLAKRLLVGKSASVDAEKSMLSKLKHECGA 467
Query: 181 QFTSKMEGMVTDLTLARENQTSFEEYLSNNQNAHPGIDLSVTVLTTGFWPSYKSSDLNLP 240
FTSK+EGM D+ L+++ F++Y+ N QN I+L+V +LT G+WP+Y +++LP
Sbjct: 468 AFTSKLEGMFKDMELSKDIMIQFKQYMQN-QNVPGNIELTVNILTMGYWPTYVPMEVHLP 526
Query: 241 SEMVKCVEVFKGFYETKTKHRKLTWIYSLGQCNINGKFEQKNIELIVSTYQAATLLLFNT 300
EMVK E+FK FY K RKL W +LG C + +F++ EL VS +Q LL+FN
Sbjct: 527 PEMVKLQEIFKTFYLGKHSGRKLQWQSTLGHCVLKAEFKEGKKELQVSLFQTLVLLMFNE 586
Query: 301 SDRLSYSEIMTQLNLTHDDLVRLLHSLSCAKYKILLKEPNTKTISQSDHFEFNSKFTDRM 360
+ S EI + +L R L SL+C K ++L K P K I D F N F ++
Sbjct: 587 GEEFSLEEIKQATGIEDGELRRTLQSLACGKARVLAKNPKGKDIEDGDKFICNDDFKHKL 646
Query: 361 RRIKIPL----PPVDERKKIVEDVDKDRRYAIDAALVRIMKSRKVLGHQQLVSECVEQLS 416
RIKI V+E+ E V +DR+Y IDAA+VRIMK RK L H LVSE QL
Sbjct: 647 FRIKINQIQMKETVEEQASTTERVFQDRQYQIDAAIVRIMKMRKTLSHNLLVSEVYNQLK 706
Query: 417 RMFKPDIKAIKKRMEDLITRDYLERDKENPNMFRYLA 453
KP +KKR+E LI RDY+ERDKENPN + Y+A
Sbjct: 707 FPVKP--ADLKKRIESLIDRDYMERDKENPNQYNYIA 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 = 327 bits (837), Expect = 1e-89, Method: Compositional matrix adjust.
Identities = 179/457 (39%), Positives = 273/457 (59%), Gaps = 23/457 (5%)
Query: 1 MYRLYHKIPKGLEPVANVFKQHITAEGTVLVQQAEDAATNQGGSSGAVQEQVLIRKIIEL 60
+Y+L+ ++ G++ + + ++I A G+ +V E +++ +++++++
Sbjct: 289 LYQLFSRVRGGVQVLLQQWIEYIKAFGSTIVINPE-------------KDKTMVQELLDF 335
Query: 61 HDKYMEYVTNCFINHTLFHKALKEAFEIFCNKAVGGSSSSELLATFCDNILKKGGNEKLS 120
DK + CF+ + F A+KEAFE F NK + +EL+A + D+ L+ GN++ +
Sbjct: 336 KDKVDHIIDICFLKNEKFINAMKEAFETFINKR--PNKPAELIAKYVDSKLR-AGNKEAT 392
Query: 121 DEAIEETLEKVVKLLAYISDKDLFAEFYRKKLARRLLFDRSANDDHERSILTKLKQQCGG 180
DE +E+ L+K++ + +I KD+F FY+K LA+RLL +SA+ D E+S+L+KLK +CG
Sbjct: 393 DEELEKMLDKIMIIFRFIYGKDVFEAFYKKDLAKRLLVGKSASVDAEKSMLSKLKHECGA 452
Query: 181 QFTSKMEGMVTDLTLARENQTSFEEYLSNNQNAHPGIDLSVTVLTTGFWPSYKSSDLNLP 240
FTSK+EGM D+ L+++ F++Y+ N QN I+L+V +LT G+WP+Y +++LP
Sbjct: 453 AFTSKLEGMFKDMELSKDIMIQFKQYMQN-QNVPGNIELTVNILTMGYWPTYVPMEVHLP 511
Query: 241 SEMVKCVEVFKGFYETKTKHRKLTWIYSLGQCNINGKFEQKNIELIVSTYQAATLLLFNT 300
EMVK E+FK FY K RKL W +LG C + +F++ EL VS +Q LL+FN
Sbjct: 512 PEMVKLQEIFKTFYLGKHSGRKLQWQSTLGHCVLKAEFKEGKKELQVSLFQTLVLLMFNE 571
Query: 301 SDRLSYSEIMTQLNLTHDDLVRLLHSLSCAKYKILLKEPNTKTISQSDHFEFNSKFTDRM 360
+ S EI + +L R L SL+C K ++L K P K I D F N F ++
Sbjct: 572 GEEFSLEEIKQATGIEDGELRRTLQSLACGKARVLAKNPKGKDIEDGDKFICNDDFKHKL 631
Query: 361 RRIKIPL----PPVDERKKIVEDVDKDRRYAIDAALVRIMKSRKVLGHQQLVSECVEQLS 416
RIKI V+E+ E V +DR+Y IDAA+VRIMK RK L H LVSE QL
Sbjct: 632 FRIKINQIQMKETVEEQASTTERVFQDRQYQIDAAIVRIMKMRKTLSHNLLVSEVYNQLK 691
Query: 417 RMFKPDIKAIKKRMEDLITRDYLERDKENPNMFRYLA 453
KP +KKR+E LI RDY+ERDKENPN + Y+A
Sbjct: 692 FPVKP--ADLKKRIESLIDRDYMERDKENPNQYNYIA 726
>pdb|4A0K|A Chain A, Structure Of Ddb1-Ddb2-Cul4a-Rbx1 Bound To A 12 Bp Abasic
Site Containing Dna-Duplex
Length = 742
Score = 323 bits (828), Expect = 1e-88, Method: Compositional matrix adjust.
Identities = 177/457 (38%), Positives = 270/457 (59%), Gaps = 23/457 (5%)
Query: 1 MYRLYHKIPKGLEPVANVFKQHITAEGTVLVQQAEDAATNQGGSSGAVQEQVLIRKIIEL 60
MY+L+ ++ G + + + ++I GT +V E +++ +++ +++
Sbjct: 305 MYQLFSRVRGGQQALLQHWSEYIKTFGTAIVINPE-------------KDKDMVQDLLDF 351
Query: 61 HDKYMEYVTNCFINHTLFHKALKEAFEIFCNKAVGGSSSSELLATFCDNILKKGGNEKLS 120
DK + CF + F +KE+FE F NK + +EL+A D+ L+ GN++ +
Sbjct: 352 KDKVDHVIEVCFQKNERFVNLMKESFETFINKR--PNKPAELIAKHVDSKLR-AGNKEAT 408
Query: 121 DEAIEETLEKVVKLLAYISDKDLFAEFYRKKLARRLLFDRSANDDHERSILTKLKQQCGG 180
DE +E TL+K++ L +I KD+F FY+K LA+RLL +SA+ D E+S+L+KLK +CG
Sbjct: 409 DEELERTLDKIMILFRFIHGKDVFEAFYKKDLAKRLLVGKSASVDAEKSMLSKLKHECGA 468
Query: 181 QFTSKMEGMVTDLTLARENQTSFEEYLSNNQNAHPGIDLSVTVLTTGFWPSYKSSDLNLP 240
FTSK+EGM D+ L+++ F++++ N ++ P IDL+V +LT G+WP+Y +++L
Sbjct: 469 AFTSKLEGMFKDMELSKDIMVHFKQHMQNQSDSGP-IDLTVNILTMGYWPTYTPMEVHLT 527
Query: 241 SEMVKCVEVFKGFYETKTKHRKLTWIYSLGQCNINGKFEQKNIELIVSTYQAATLLLFNT 300
EM+K EVFK FY K RKL W +LG + +F++ E VS +Q LL+FN
Sbjct: 528 PEMIKLQEVFKAFYLGKHSGRKLQWQTTLGHAVLKAEFKEGKKEFQVSLFQTLVLLMFNE 587
Query: 301 SDRLSYSEIMTQLNLTHDDLVRLLHSLSCAKYKILLKEPNTKTISQSDHFEFNSKFTDRM 360
D S+ EI + +L R L SL+C K ++L+K P K + D F FN +F ++
Sbjct: 588 GDGFSFEEIKMATGIEDSELRRTLQSLACGKARVLIKSPKGKEVEDGDKFIFNGEFKHKL 647
Query: 361 RRIKIPL----PPVDERKKIVEDVDKDRRYAIDAALVRIMKSRKVLGHQQLVSECVEQLS 416
RIKI V+E+ E V +DR+Y IDAA+VRIMK RK LGH LVSE QL
Sbjct: 648 FRIKINQIQMKETVEEQVSTTERVFQDRQYQIDAAIVRIMKMRKTLGHNLLVSELYNQLK 707
Query: 417 RMFKPDIKAIKKRMEDLITRDYLERDKENPNMFRYLA 453
KP +KKR+E LI RDY+ERDK+NPN + Y+A
Sbjct: 708 FPVKPG--DLKKRIESLIDRDYMERDKDNPNQYHYVA 742
>pdb|2HYE|C Chain C, Crystal Structure Of The Ddb1-cul4a-rbx1-sv5v Complex
Length = 759
Score = 323 bits (827), Expect = 2e-88, Method: Compositional matrix adjust.
Identities = 177/457 (38%), Positives = 270/457 (59%), Gaps = 23/457 (5%)
Query: 1 MYRLYHKIPKGLEPVANVFKQHITAEGTVLVQQAEDAATNQGGSSGAVQEQVLIRKIIEL 60
MY+L+ ++ G + + + ++I GT +V E +++ +++ +++
Sbjct: 322 MYQLFSRVRGGQQALLQHWSEYIKTFGTAIVINPE-------------KDKDMVQDLLDF 368
Query: 61 HDKYMEYVTNCFINHTLFHKALKEAFEIFCNKAVGGSSSSELLATFCDNILKKGGNEKLS 120
DK + CF + F +KE+FE F NK + +EL+A D+ L+ GN++ +
Sbjct: 369 KDKVDHVIEVCFQKNERFVNLMKESFETFINKR--PNKPAELIAKHVDSKLR-AGNKEAT 425
Query: 121 DEAIEETLEKVVKLLAYISDKDLFAEFYRKKLARRLLFDRSANDDHERSILTKLKQQCGG 180
DE +E TL+K++ L +I KD+F FY+K LA+RLL +SA+ D E+S+L+KLK +CG
Sbjct: 426 DEELERTLDKIMILFRFIHGKDVFEAFYKKDLAKRLLVGKSASVDAEKSMLSKLKHECGA 485
Query: 181 QFTSKMEGMVTDLTLARENQTSFEEYLSNNQNAHPGIDLSVTVLTTGFWPSYKSSDLNLP 240
FTSK+EGM D+ L+++ F++++ N ++ P IDL+V +LT G+WP+Y +++L
Sbjct: 486 AFTSKLEGMFKDMELSKDIMVHFKQHMQNQSDSGP-IDLTVNILTMGYWPTYTPMEVHLT 544
Query: 241 SEMVKCVEVFKGFYETKTKHRKLTWIYSLGQCNINGKFEQKNIELIVSTYQAATLLLFNT 300
EM+K EVFK FY K RKL W +LG + +F++ E VS +Q LL+FN
Sbjct: 545 PEMIKLQEVFKAFYLGKHSGRKLQWQTTLGHAVLKAEFKEGKKEFQVSLFQTLVLLMFNE 604
Query: 301 SDRLSYSEIMTQLNLTHDDLVRLLHSLSCAKYKILLKEPNTKTISQSDHFEFNSKFTDRM 360
D S+ EI + +L R L SL+C K ++L+K P K + D F FN +F ++
Sbjct: 605 GDGFSFEEIKMATGIEDSELRRTLQSLACGKARVLIKSPKGKEVEDGDKFIFNGEFKHKL 664
Query: 361 RRIKIPL----PPVDERKKIVEDVDKDRRYAIDAALVRIMKSRKVLGHQQLVSECVEQLS 416
RIKI V+E+ E V +DR+Y IDAA+VRIMK RK LGH LVSE QL
Sbjct: 665 FRIKINQIQMKETVEEQVSTTERVFQDRQYQIDAAIVRIMKMRKTLGHNLLVSELYNQLK 724
Query: 417 RMFKPDIKAIKKRMEDLITRDYLERDKENPNMFRYLA 453
KP +KKR+E LI RDY+ERDK+NPN + Y+A
Sbjct: 725 FPVKPG--DLKKRIESLIDRDYMERDKDNPNQYHYVA 759
>pdb|1U6G|A Chain A, Crystal Structure Of The Cand1-Cul1-Roc1 Complex
Length = 776
Score = 252 bits (643), Expect = 3e-67, Method: Compositional matrix adjust.
Identities = 159/469 (33%), Positives = 260/469 (55%), Gaps = 30/469 (6%)
Query: 1 MYRLYHKIPKGLEPVANVFKQHITAEGTVLVQQAEDAATNQGGSSGAVQEQVLIRKIIEL 60
MY L +I GL + + + HI +G +++ +AA N ++ ++ ++++
Sbjct: 322 MYNLVSRIQDGLGELKKLLETHIHNQGLAAIEKCGEAALND--------PKMYVQTVLDV 373
Query: 61 HDKYMEYVTNCFINHTLFHKALKEAFEIFCNK------AVGGSSSSELLATFCDNILKKG 114
H KY V + F N F AL +A F N A S S ELLA +CD++LKK
Sbjct: 374 HKKYNALVMSAFNNDAGFVAALDKACGRFINNNAVTKMAQSSSKSPELLARYCDSLLKKS 433
Query: 115 GNEKLSDEA-IEETLEKVVKLLAYISDKDLFAEFYRKKLARRLLFDRSANDDHERSILTK 173
K +EA +E+TL +V+ + YI DKD+F +FY K LA+RL+ SA+DD E S+++K
Sbjct: 434 S--KNPEEAELEDTLNQVMVVFKYIEDKDVFQKFYAKMLAKRLVHQNSASDDAEASMISK 491
Query: 174 LKQQCGGQFTSKMEGMVTDLTLARENQTSFEEYLSNNQNAHPGIDLSVTVLTTGFWPSYK 233
LKQ CG ++TSK++ M D+ ++++ F+++L+N++ +D S+ VL++G WP +
Sbjct: 492 LKQACGFEYTSKLQRMFQDIGVSKDLNEQFKKHLTNSEPL--DLDFSIQVLSSGSWPFQQ 549
Query: 234 SSDLNLPSEMVKCVEVFKGFYETKTKHRKLTWIYSLGQCNINGKFEQKNIELIVSTYQAA 293
S LPSE+ + + F FY ++ RKLTW+Y L + + + L ST+Q A
Sbjct: 550 SCTFALPSELERSYQRFTAFYASRHSGRKLTWLYQLSKGELVTNCFKNRYTLQASTFQMA 609
Query: 294 TLLLFNTSDRLSYSEIMTQLNLTHDDLVRLLHSLSCAKYKILLKEPNTKTISQSD----- 348
LL +NT D + ++ + D L ++L L K K+L+ E + + +
Sbjct: 610 ILLQYNTEDAYTVQQLTDSTQIKMDILAQVLQIL--LKSKLLVLEDENANVDEVELKPDT 667
Query: 349 HFEFNSKFTDRMRRIKIPLPPVDERKKIVE----DVDKDRRYAIDAALVRIMKSRKVLGH 404
+ + ++ R+ I +P E+K+ E ++++DR+ I AA+VRIMK RKVL H
Sbjct: 668 LIKLYLGYKNKKLRVNINVPMKTEQKQEQETTHKNIEEDRKLLIQAAIVRIMKMRKVLKH 727
Query: 405 QQLVSECVEQLSRMFKPDIKAIKKRMEDLITRDYLERDKENPNMFRYLA 453
QQL+ E + QLS FKP + IKK ++ LI ++YLER + + YLA
Sbjct: 728 QQLLGEVLTQLSSRFKPRVPVIKKCIDILIEKEYLERVDGEKDTYSYLA 776
>pdb|1LDJ|A Chain A, Structure Of The Cul1-rbx1-skp1-f Boxskp2 Scf Ubiquitin
Ligase Complex
Length = 760
Score = 252 bits (643), Expect = 4e-67, Method: Compositional matrix adjust.
Identities = 159/469 (33%), Positives = 260/469 (55%), Gaps = 30/469 (6%)
Query: 1 MYRLYHKIPKGLEPVANVFKQHITAEGTVLVQQAEDAATNQGGSSGAVQEQVLIRKIIEL 60
MY L +I GL + + + HI +G +++ +AA N ++ ++ ++++
Sbjct: 306 MYNLVSRIQDGLGELKKLLETHIHNQGLAAIEKCGEAALND--------PKMYVQTVLDV 357
Query: 61 HDKYMEYVTNCFINHTLFHKALKEAFEIFCNK------AVGGSSSSELLATFCDNILKKG 114
H KY V + F N F AL +A F N A S S ELLA +CD++LKK
Sbjct: 358 HKKYNALVMSAFNNDAGFVAALDKACGRFINNNAVTKMAQSSSKSPELLARYCDSLLKKS 417
Query: 115 GNEKLSDEA-IEETLEKVVKLLAYISDKDLFAEFYRKKLARRLLFDRSANDDHERSILTK 173
K +EA +E+TL +V+ + YI DKD+F +FY K LA+RL+ SA+DD E S+++K
Sbjct: 418 S--KNPEEAELEDTLNQVMVVFKYIEDKDVFQKFYAKMLAKRLVHQNSASDDAEASMISK 475
Query: 174 LKQQCGGQFTSKMEGMVTDLTLARENQTSFEEYLSNNQNAHPGIDLSVTVLTTGFWPSYK 233
LKQ CG ++TSK++ M D+ ++++ F+++L+N++ +D S+ VL++G WP +
Sbjct: 476 LKQACGFEYTSKLQRMFQDIGVSKDLNEQFKKHLTNSEPL--DLDFSIQVLSSGSWPFQQ 533
Query: 234 SSDLNLPSEMVKCVEVFKGFYETKTKHRKLTWIYSLGQCNINGKFEQKNIELIVSTYQAA 293
S LPSE+ + + F FY ++ RKLTW+Y L + + + L ST+Q A
Sbjct: 534 SCTFALPSELERSYQRFTAFYASRHSGRKLTWLYQLSKGELVTNCFKNRYTLQASTFQMA 593
Query: 294 TLLLFNTSDRLSYSEIMTQLNLTHDDLVRLLHSLSCAKYKILLKEPNTKTISQSD----- 348
LL +NT D + ++ + D L ++L L K K+L+ E + + +
Sbjct: 594 ILLQYNTEDAYTVQQLTDSTQIKMDILAQVLQIL--LKSKLLVLEDENANVDEVELKPDT 651
Query: 349 HFEFNSKFTDRMRRIKIPLPPVDERKKIVE----DVDKDRRYAIDAALVRIMKSRKVLGH 404
+ + ++ R+ I +P E+K+ E ++++DR+ I AA+VRIMK RKVL H
Sbjct: 652 LIKLYLGYKNKKLRVNINVPMKTEQKQEQETTHKNIEEDRKLLIQAAIVRIMKMRKVLKH 711
Query: 405 QQLVSECVEQLSRMFKPDIKAIKKRMEDLITRDYLERDKENPNMFRYLA 453
QQL+ E + QLS FKP + IKK ++ LI ++YLER + + YLA
Sbjct: 712 QQLLGEVLTQLSSRFKPRVPVIKKCIDILIEKEYLERVDGEKDTYSYLA 760
>pdb|1LDK|B Chain B, Structure Of The Cul1-Rbx1-Skp1-F Boxskp2 Scf Ubiquitin
Ligase Complex
Length = 366
Score = 225 bits (573), Expect = 5e-59, Method: Compositional matrix adjust.
Identities = 137/374 (36%), Positives = 216/374 (57%), Gaps = 22/374 (5%)
Query: 93 AVGGSSSSELLATFCDNILKKGGNEKLSDEA-IEETLEKVVKLLAYISDKDLFAEFYRKK 151
A S S ELLA +CD++LKK K +EA +E+TL +V+ + YI DKD+F +FY K
Sbjct: 2 AQSSSKSPELLARYCDSLLKKSS--KNPEEAELEDTLNQVMVVFKYIEDKDVFQKFYAKM 59
Query: 152 LARRLLFDRSANDDHERSILTKLKQQCGGQFTSKMEGMVTDLTLARENQTSFEEYLSNNQ 211
LA+RL+ SA+DD E S+++KLKQ CG ++TSK++ M D+ ++++ F+++L+N++
Sbjct: 60 LAKRLVHQNSASDDAEASMISKLKQACGFEYTSKLQRMFQDIGVSKDLNEQFKKHLTNSE 119
Query: 212 NAHPGIDLSVTVLTTGFWPSYKSSDLNLPSEMVKCVEVFKGFYETKTKHRKLTWIYSLGQ 271
+D S+ VL++G WP +S LPSE+ + + F FY ++ RKLTW+Y L +
Sbjct: 120 PL--DLDFSIQVLSSGSWPFQQSCTFALPSELERSYQRFTAFYASRHSGRKLTWLYQLSK 177
Query: 272 CNINGKFEQKNIELIVSTYQAATLLLFNTSDRLSYSEIMTQLNLTHDDLVRLLHSLSCAK 331
+ + L ST+Q A LL +NT D + ++ + D L ++L L K
Sbjct: 178 GELVTNCFKNRYTLQASTFQMAILLQYNTEDAYTVQQLTDSTQIKMDILAQVLQIL--LK 235
Query: 332 YKILLKEPNTKTISQSDHFEFNSK--------FTDRMRRIKIPLPPVDERKKIVE----D 379
K+L+ E + D E + ++ R+ I +P E+K+ E +
Sbjct: 236 SKLLVLEDENANV---DEVELKPDTLIKLYLGYKNKKLRVNINVPMKTEQKQEQETTHKN 292
Query: 380 VDKDRRYAIDAALVRIMKSRKVLGHQQLVSECVEQLSRMFKPDIKAIKKRMEDLITRDYL 439
+++DR+ I AA+VRIMK RKVL HQQL+ E + QLS FKP + IKK ++ LI ++YL
Sbjct: 293 IEEDRKLLIQAAIVRIMKMRKVLKHQQLLGEVLTQLSSRFKPRVPVIKKCIDILIEKEYL 352
Query: 440 ERDKENPNMFRYLA 453
ER + + YLA
Sbjct: 353 ERVDGEKDTYSYLA 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 = 218 bits (554), Expect = 7e-57, Method: Compositional matrix adjust.
Identities = 135/374 (36%), Positives = 214/374 (57%), Gaps = 22/374 (5%)
Query: 93 AVGGSSSSELLATFCDNILKKGGNEKLSDEA-IEETLEKVVKLLAYISDKDLFAEFYRKK 151
A S S E LA +CD++LKK K +EA +E+TL +V++ I DKD+F +FY K
Sbjct: 4 AQSSSKSPEELARYCDSLLKKSS--KNPEEAELEDTLNQVMEKFKKIEDKDVFQKFYAKM 61
Query: 152 LARRLLFDRSANDDHERSILTKLKQQCGGQFTSKMEGMVTDLTLARENQTSFEEYLSNNQ 211
LA+RL+ SA+DD E S+++KLKQ CG ++TSK++ M D+ ++++ F+++L+N++
Sbjct: 62 LAKRLVHQNSASDDAEASMISKLKQACGFEYTSKLQRMFQDIGVSKDLNEQFKKHLTNSE 121
Query: 212 NAHPGIDLSVTVLTTGFWPSYKSSDLNLPSEMVKCVEVFKGFYETKTKHRKLTWIYSLGQ 271
+D S+ VL++G WP +S LPSE+ + + F FY ++ RKLTW+Y L +
Sbjct: 122 PL--DLDFSIQVLSSGSWPFQQSCTFALPSELERSYQRFTAFYASRHSGRKLTWLYQLSK 179
Query: 272 CNINGKFEQKNIELIVSTYQAATLLLFNTSDRLSYSEIMTQLNLTHDDLVRLLHSLSCAK 331
+ + L ST+Q A LL +NT D + ++ + D L ++L L K
Sbjct: 180 GELVTNCFKNRYTLQASTFQMAILLQYNTEDAYTVQQLTDSTQIKMDILAQVLQIL--LK 237
Query: 332 YKILLKEPNTKTISQSDHFEFNSK--------FTDRMRRIKIPLPPVDERKKIVE----D 379
K+L+ E + D E + ++ R+ I +P E+K+ E +
Sbjct: 238 SKLLVLEDENANV---DEVELKPDTLIKLYLGYKNKKLRVNINVPMKTEQKQEQETTHKN 294
Query: 380 VDKDRRYAIDAALVRIMKSRKVLGHQQLVSECVEQLSRMFKPDIKAIKKRMEDLITRDYL 439
+++DR+ I AA+VRIMK RKVL HQQL+ E + QLS FKP + IKK ++ LI ++YL
Sbjct: 295 IEEDRKLLIQAAIVRIMKMRKVLKHQQLLGEVLTQLSSRFKPRVPVIKKCIDILIEKEYL 354
Query: 440 ERDKENPNMFRYLA 453
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 = 154 bits (388), Expect = 1e-37, Method: Compositional matrix adjust.
Identities = 88/244 (36%), Positives = 144/244 (59%), Gaps = 5/244 (2%)
Query: 93 AVGGSSSSELLATFCDNILKKGGNEKLSDEA-IEETLEKVVKLLAYISDKDLFAEFYRKK 151
A S S E LA +CD++LKK K +EA +E+TL +V++ I DKD+F +FY K
Sbjct: 4 AQSSSKSPEELARYCDSLLKKSS--KNPEEAELEDTLNQVMEKFKKIEDKDVFQKFYAKM 61
Query: 152 LARRLLFDRSANDDHERSILTKLKQQCGGQFTSKMEGMVTDLTLARENQTSFEEYLSNNQ 211
LA+RL+ SA+DD E S+++KLKQ CG ++TSK++ M D+ ++++ F+++L+N++
Sbjct: 62 LAKRLVHQNSASDDAEASMISKLKQACGFEYTSKLQRMFQDIGVSKDLNEQFKKHLTNSE 121
Query: 212 NAHPGIDLSVTVLTTGFWPSYKSSDLNLPSEMVKCVEVFKGFYETKTKHRKLTWIYSLGQ 271
+D S+ VL++G WP +S LPSE+ + + F FY ++ RKLTW+Y L +
Sbjct: 122 PL--DLDFSIQVLSSGSWPFQQSCTFALPSELERSYQRFTAFYASRHSGRKLTWLYQLSK 179
Query: 272 CNINGKFEQKNIELIVSTYQAATLLLFNTSDRLSYSEIMTQLNLTHDDLVRLLHSLSCAK 331
+ + L ST+Q A LL +NT D + ++ + D L ++L L +K
Sbjct: 180 GELVTNCFKNRYTLQASTFQMAILLQYNTEDAYTVQQLTDSTQIKMDILAQVLQILLKSK 239
Query: 332 YKIL 335
+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 = 8e-33, Method: Compositional matrix adjust.
Identities = 117/384 (30%), Positives = 197/384 (51%), Gaps = 28/384 (7%)
Query: 96 GSSS--SELLATFCDNILKKGG-NEKLSDEAIEETLEKVVKLLAYISDKDLFAEFYRKKL 152
GS S E LA +CD +L+K ++KL+ E IE L++V+K L Y+ +KD+F +++ L
Sbjct: 1 GSESKCPEELANYCDMLLRKTPLSKKLTSEEIEAKLKEVLKKLKYVQNKDVFMRYHKAHL 60
Query: 153 ARRLLFDRSANDDHERSILTKLKQ-QCGGQFTSKMEGMVTDLTLARENQTSFEEYLSNNQ 211
RRL+ D SA+ + E +++ L++ + +K+ M D+ ++ + +F+E NN+
Sbjct: 61 TRRLILDISADSEIEENMVEWLREVGMPADYVNKLARMFQDIKVSEDLNQAFKEMHKNNK 120
Query: 212 NAHPGIDLSVTVLTTGFWPSYKSSD---LNLPSEMVKCVEVFKGFYETKTKHRKLTWIYS 268
A P +++ +L G W +SS+ ++LP+E+ + + FY+ RKL W +
Sbjct: 121 LALPADSVNIKILNAGAWS--RSSEKVFVSLPTELEDLIPEVEEFYKKNHSGRKLHWHHL 178
Query: 269 LGQCNINGKFEQKNIELIVSTYQAATLLLFNTSDR--LSYSEIMTQLNLTHDDLVRLLHS 326
+ I K E +L V+T+Q A L +N R +S+ + L +L R L S
Sbjct: 179 MSNGIITFKNEVGQYDLEVTTFQLAVLFAWNQRPREKISFENLKLATELPDAELRRTLWS 238
Query: 327 LSC---AKYKILLKEPNT---KTISQSDHFEFNSKFT-----DRMRRIKI------PLPP 369
L K ++LL EP K ++ F N +F+ +R KI L
Sbjct: 239 LVAFPKLKRQVLLYEPQVNSPKDFTEGTLFSVNQEFSLIKNAKVQKRGKINLIGRLQLTT 298
Query: 370 VDERKKIVEDVDKDRRYAIDAALVRIMKSRKVLGHQQLVSECVEQLSRMFKPDIKAIKKR 429
R++ E + + R A+++IMK RK + + QL +E VE L MF P K IK++
Sbjct: 299 ERMREEENEGIVQLRILRTQEAIIQIMKMRKKISNAQLQTELVEILKNMFLPQKKMIKEQ 358
Query: 430 MEDLITRDYLERDKENPNMFRYLA 453
+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 = 125 bits (313), Expect = 6e-29, Method: Compositional matrix adjust.
Identities = 112/381 (29%), Positives = 189/381 (49%), Gaps = 26/381 (6%)
Query: 97 SSSSELLATFCDNILKKGG-NEKLSDEAIEETLEKVVKLLAYISDKDLFAEFYRKKLARR 155
S E LA +CD +L+K ++KL+ E IE L++V+K L Y+ +KD+F +++ L RR
Sbjct: 4 SKCPEELANYCDXLLRKTPLSKKLTSEEIEAKLKEVLKKLKYVQNKDVFXRYHKAHLTRR 63
Query: 156 LLFDRSANDDHERSILTKLKQ-QCGGQFTSKMEGMVTDLTLARENQTSFEEYLSNNQNAH 214
L+ D SA+ + E + + L++ + +K+ D+ ++ + +F+E NN+ A
Sbjct: 64 LILDISADSEIEENXVEWLREVGXPADYVNKLARXFQDIKVSEDLNQAFKEXHKNNKLAL 123
Query: 215 PGIDLSVTVLTTGFWPSYKSSD---LNLPSEMVKCVEVFKGFYETKTKHRKLTWIYSLGQ 271
P +++ +L G W +SS+ ++LP+E+ + + FY+ RKL W +
Sbjct: 124 PADSVNIKILNAGAWS--RSSEKVFVSLPTELEDLIPEVEEFYKKNHSGRKLHWHHLXSN 181
Query: 272 CNINGKFEQKNIELIVSTYQAATLLLFNTSDR--LSYSEIMTQLNLTHDDLVRLLHSLSC 329
I K E +L V+T+Q A L +N R +S+ + L +L R L SL
Sbjct: 182 GIITFKNEVGQYDLEVTTFQLAVLFAWNQRPREKISFENLKLATELPDAELRRTLWSLVA 241
Query: 330 ---AKYKILLKEPNT---KTISQSDHFEFNSKFT-----DRMRRIKI------PLPPVDE 372
K ++LL EP K ++ F N +F+ +R KI L
Sbjct: 242 FPKLKRQVLLYEPQVNSPKDFTEGTLFSVNQEFSLIKNAKVQKRGKINLIGRLQLTTERX 301
Query: 373 RKKIVEDVDKDRRYAIDAALVRIMKSRKVLGHQQLVSECVEQLSRMFKPDIKAIKKRMED 432
R++ E + + R A+++I K RK + + QL +E VE L F P K IK+++E
Sbjct: 302 REEENEGIVQLRILRTQEAIIQIXKXRKKISNAQLQTELVEILKNXFLPQKKXIKEQIEW 361
Query: 433 LITRDYLERDKENPNMFRYLA 453
LI Y+ RD+ + N F Y A
Sbjct: 362 LIEHKYIRRDESDINTFIYXA 382
>pdb|2DO7|A Chain A, Solution Structure Of The Winged Helix-Turn-Helix Motif Of
Human Cul-4b
Length = 101
Score = 90.1 bits (222), Expect = 2e-18, Method: Compositional matrix adjust.
Identities = 47/84 (55%), Positives = 57/84 (67%), Gaps = 2/84 (2%)
Query: 370 VDERKKIVEDVDKDRRYAIDAALVRIMKSRKVLGHQQLVSECVEQLSRMFKPDIKAIKKR 429
V+E+ E V +DR+Y IDAA+VRIMK RK L H LVSE QL KP +KKR
Sbjct: 14 VEEQASTTERVFQDRQYQIDAAIVRIMKMRKTLSHNLLVSEVYNQLKFPVKP--ADLKKR 71
Query: 430 MEDLITRDYLERDKENPNMFRYLA 453
+E LI RDY+ERDKENPN + Y+A
Sbjct: 72 IESLIDRDYMERDKENPNQYNYIA 95
>pdb|1IUY|A Chain A, Solution Structure Of The Cullin-3 Homologue
Length = 92
Score = 76.3 bits (186), Expect = 3e-14, Method: Compositional matrix adjust.
Identities = 40/82 (48%), Positives = 55/82 (67%)
Query: 372 ERKKIVEDVDKDRRYAIDAALVRIMKSRKVLGHQQLVSECVEQLSRMFKPDIKAIKKRME 431
ERK+ + VD DR++ I+AA+VRIMKSRK + H LV+E +QL F P IKKR+E
Sbjct: 11 ERKETRQKVDDDRKHEIEAAIVRIMKSRKKMQHNVLVAEVTQQLKARFLPSPVVIKKRIE 70
Query: 432 DLITRDYLERDKENPNMFRYLA 453
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: 379 DVDKDRRYAIDAALVRIMKSRKVLGHQQLVSECVEQLSRMFKPDIKAIKKRMEDLITRDY 438
++++DR+ I AA+VRIMK RKVL HQQL+ E + QLS FKP + IKK ++ LI ++Y
Sbjct: 3 NIEEDRKLLIQAAIVRIMKMRKVLKHQQLLGEVLTQLSSRFKPRVPVIKKCIDILIEKEY 62
Query: 439 LERDKENPNMFRYLA 453
LER + + YLA
Sbjct: 63 LERVDGEKDTYSYLA 77
>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: 372 ERKKIVEDVDKDRRYAIDAALVRIMKSRKVLGHQQLVSECVEQLSRMFKPDIKAIKKRME 431
E ++I ++++ +R+ ++A +VRIMK+++ L H LV+EC+ Q + F + +K+ ++
Sbjct: 8 EDERIEKELNTERQIFLEACIVRIMKAKRNLPHTTLVNECIAQSHQRFNAKVSMVKRAID 67
Query: 432 DLITRDYLERDKENPNMFRYLA 453
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 = 4e-07, Method: Compositional matrix adjust.
Identities = 24/75 (32%), Positives = 48/75 (64%), Gaps = 1/75 (1%)
Query: 379 DVDKDRRYAIDAALVRIMKSRKVLGHQQLVSECVEQLSRMFKPDIKAIKKRMEDLITRDY 438
+++ +R+ ++A +VRIMK+++ L H LV+EC+ Q + F + +K+ ++ LI + Y
Sbjct: 3 ELNTERQIFLEACIVRIMKAKRNLPHTTLVNECIAQSHQRFNAKVSMVKRAIDSLIQKGY 62
Query: 439 LERDKENPNMFRYLA 453
L+R + + + YLA
Sbjct: 63 LQRGDDGES-YAYLA 76
>pdb|1LDK|A Chain A, Structure Of The Cul1-Rbx1-Skp1-F Boxskp2 Scf Ubiquitin
Ligase Complex
Length = 396
Score = 39.3 bits (90), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 24/91 (26%), Positives = 43/91 (47%), Gaps = 8/91 (8%)
Query: 1 MYRLYHKIPKGLEPVANVFKQHITAEGTVLVQQAEDAATNQGGSSGAVQEQVLIRKIIEL 60
MY L +I GL + + + HI +G +++ +AA N ++ ++ ++++
Sbjct: 308 MYNLVSRIQDGLGELKKLLETHIHNQGLAAIEKCGEAALND--------PKMYVQTVLDV 359
Query: 61 HDKYMEYVTNCFINHTLFHKALKEAFEIFCN 91
H KY V + F N F AL +A F N
Sbjct: 360 HKKYNALVMSAFNNDAGFVAALDKACGRFIN 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 = 37.4 bits (85), Expect = 0.019, Method: Compositional matrix adjust.
Identities = 22/92 (23%), Positives = 47/92 (51%), Gaps = 13/92 (14%)
Query: 1 MYRLYHKIPKGLEPVANVFKQHITAEGTVLVQQAEDAATNQGGSSGAVQEQVLIRKIIEL 60
+Y+L+ ++ G++ + + ++I A G+ +V E +++ + +++ +
Sbjct: 273 LYQLFSRVRGGVQVLLQQWIEYIKAFGSTIVINPE-------------KDKTMRQELDDF 319
Query: 61 HDKYMEYVTNCFINHTLFHKALKEAFEIFCNK 92
DK + CF+ + F A+KEAFE F NK
Sbjct: 320 KDKVDHIIDICFLKNEKFINAMKEAFETFINK 351
>pdb|4AP2|B Chain B, Crystal Structure Of The Human Klhl11-cul3 Complex At 2.8a
Resolution
Length = 410
Score = 34.7 bits (78), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 25/104 (24%), Positives = 46/104 (44%), Gaps = 13/104 (12%)
Query: 1 MYRLYHKIPKGLEPVANVFKQHITAEGTVLVQQAEDAATNQGGSSGAVQEQVLIRKIIEL 60
MY+L+ ++P GL+ + ++ +G LV + +G V + + + +L
Sbjct: 299 MYKLFSRVPNGLKTMCECMSSYLREQGKALVSE-------EGEGKNPVDYR---QGLDDL 348
Query: 61 HDKYMEYVTNCFINHTLFHKALKEAFEIFCNKAVGGSSSSELLA 104
++ ++ F N LF + + FE F N S S E LA
Sbjct: 349 KSRFDRFLLESFNNDRLFKQTIAGDFEYFLNL---NSRSPEYLA 389
>pdb|4APF|B Chain B, Crystal Structure Of The Human Klhl11-cul3 Complex At 3.1a
Resolution
Length = 388
Score = 34.3 bits (77), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 25/104 (24%), Positives = 46/104 (44%), Gaps = 13/104 (12%)
Query: 1 MYRLYHKIPKGLEPVANVFKQHITAEGTVLVQQAEDAATNQGGSSGAVQEQVLIRKIIEL 60
MY+L+ ++P GL+ + ++ +G LV + +G V + + + +L
Sbjct: 277 MYKLFSRVPNGLKTMCECMSSYLREQGKALVSE-------EGEGKNPVDYR---QGLDDL 326
Query: 61 HDKYMEYVTNCFINHTLFHKALKEAFEIFCNKAVGGSSSSELLA 104
++ ++ F N LF + + FE F N S S E LA
Sbjct: 327 KSRFDRFLLESFNNDRLFKQTIAGDFEYFLNL---NSRSPEYLA 367
>pdb|2WZK|A Chain A, Structure Of The Cul5 N-Terminal Domain At 2.05a
Resolution
Length = 391
Score = 32.7 bits (73), Expect = 0.38, Method: Compositional matrix adjust.
Identities = 25/95 (26%), Positives = 44/95 (46%), Gaps = 10/95 (10%)
Query: 1 MYRLYHKIPKGLEPVANVFKQHITAEGTV-LVQQAEDAATNQGGSSGAVQEQVLIRKIIE 59
M+ L K+P G+EP+ ++HI + G +V AE T+ S +EQ +
Sbjct: 296 MFSLMDKVPNGIEPMLKDLEEHIISAGLADMVAAAETITTD----SEKYREQ-----LDT 346
Query: 60 LHDKYMEYVTNCFINHTLFHKALKEAFEIFCNKAV 94
L +++ + V F + F A +A++ N A
Sbjct: 347 LFNRFSKLVKEAFQDDPRFLTARDKAYKAVVNDAT 381
>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 = 31.2 bits (69), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 30/126 (23%), Positives = 52/126 (41%), Gaps = 7/126 (5%)
Query: 189 MVTDL-TLARENQTSFEEYLSNNQNAHPGIDLSVTVLTTGFWPSYKSSDLNLPSEMVKCV 247
+V D+ LA ++ E Y H DL + + + SY L S ++ +
Sbjct: 186 LVEDVPALANIDRILDEHYEIEKSKGHILKDLRIMIARSDTAMSY-----GLISGVLSVL 240
Query: 248 EVFKGFYETKTKHR-KLTWIYSLGQCNINGKFEQKNIELIVSTYQAATLLLFNTSDRLSY 306
G Y+ KH ++ I G G F ++NI+ I++TY F ++ R +
Sbjct: 241 MAVDGAYKWGEKHGVTISPILGCGSLPFRGHFSEENIDEILATYSGIKTFTFQSALRYDH 300
Query: 307 SEIMTQ 312
E T+
Sbjct: 301 GEEATK 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 = 30.4 bits (67), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 31/113 (27%), Positives = 59/113 (52%), Gaps = 9/113 (7%)
Query: 332 YKILLKEPN--TKTISQSDHFEFNSKFTDRMRRIKIPLPPVDERKKIVEDVDK--DRRYA 387
Y IL K N +K Q+ N++ ++ KIPLPP++E+K+I + + K +
Sbjct: 131 YYILAKNKNYYSKLGMQTTQKNLNAQI---VKSFKIPLPPLEEQKQIAKILTKIDEGIEI 187
Query: 388 IDAALVRIMKSRKVLGHQQLVSECVEQLSRMFKPDIKAIKKRMEDLITRDYLE 440
I+ ++ ++ + +K L H +L+++ + SR K +I I + E +D E
Sbjct: 188 IEKSINKLERIKKGLMH-KLLTKGIGH-SRFKKSEIGEIPEDWEVFEIKDIFE 238
>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 = 30.0 bits (66), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 19/90 (21%), Positives = 39/90 (43%), Gaps = 10/90 (11%)
Query: 2 YRLYHKIPKGLEPVANVFKQHITAEGTVLVQQAEDAATNQGGSSGAVQEQVLIRKIIELH 61
Y+L+ ++P GL+ ++ +G LV + +G V + + + +L
Sbjct: 283 YKLFSRVPNGLKTXCECXSSYLREQGKALVSE-------EGEGKNPVDYR---QGLDDLK 332
Query: 62 DKYMEYVTNCFINHTLFHKALKEAFEIFCN 91
++ ++ F N LF + + FE F N
Sbjct: 333 SRFDRFLLESFNNDRLFKQTIAGDFEYFLN 362
>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 = 3.7, Method: Compositional matrix adjust.
Identities = 13/37 (35%), Positives = 23/37 (62%)
Query: 387 AIDAALVRIMKSRKVLGHQQLVSECVEQLSRMFKPDI 423
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
0.319 0.134 0.379
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,499,929
Number of Sequences: 62578
Number of extensions: 493319
Number of successful extensions: 1585
Number of sequences better than 100.0: 27
Number of HSP's better than 100.0 without gapping: 20
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 1513
Number of HSP's gapped (non-prelim): 29
length of query: 453
length of database: 14,973,337
effective HSP length: 102
effective length of query: 351
effective length of database: 8,590,381
effective search space: 3015223731
effective search space used: 3015223731
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 53 (25.0 bits)