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= 014910
(416 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 319 bits (818), Expect = 2e-87, Method: Compositional matrix adjust.
Identities = 171/409 (41%), Positives = 252/409 (61%), Gaps = 10/409 (2%)
Query: 12 QEQVLIRKIIELHDKYMEYVTNCFINHTLFHKALKEAFEIFCNKAVGGSSSSELLATFCD 71
+++ +++++++ DK + CF+ + F A+KEAFE F NK + +EL+A + D
Sbjct: 324 KDKTMVQELLDFKDKVDHIIDICFLKNEKFINAMKEAFETFINKR--PNKPAELIAKYVD 381
Query: 72 NILKKGGNEKLSDEAIEETLEKVVKLLAYISDKDLFAEFYRKKLARRLLFDRSANDDHER 131
+ L+ GN++ +DE +E+ L+K++ + +I KD+F FY+K LA+RLL +SA+ D E+
Sbjct: 382 SKLR-AGNKEATDEELEKMLDKIMIIFRFIYGKDVFEAFYKKDLAKRLLVGKSASVDAEK 440
Query: 132 SILTKLKQQCGGQFTSKMEGMVTDLTLARENQTSFEEYLSNNQNAHPGIDLSVTVLTTGF 191
S+L+KLK +CG FTSK+EGM D+ L+++ F++Y+ N QN I+L+V +LT G+
Sbjct: 441 SMLSKLKHECGAAFTSKLEGMFKDMELSKDIMIQFKQYMQN-QNVPGNIELTVNILTMGY 499
Query: 192 WPSYKSSDLNLPSEMVKCVEVFKGFYETKTKHRKLTWIYSLGQCNINGKFEQKNIELIVS 251
WP+Y +++LP EMVK E+FK FY K RKL W +LG C + +F++ EL VS
Sbjct: 500 WPTYVPMEVHLPPEMVKLQEIFKTFYLGKHSGRKLQWQSTLGHCVLKAEFKEGKKELQVS 559
Query: 252 TYQAATLLLFNTSDRLSYSEIMTQLNLTHDDLVRLLHSLSCAKYKILLKEPNTKTISQSD 311
+Q LL+FN + S EI + +L R L SL+C K ++L K P K I D
Sbjct: 560 LFQTLVLLMFNEGEEFSLEEIKQATGIEDGELRRTLQSLACGKARVLAKNPKGKDIEDGD 619
Query: 312 HFEFNSKFTDRMRRIKIPL----PPVDERKKIVEDVDKDRRYAIDAALVRIMKSRKVLGH 367
F N F ++ RIKI V+E+ E V +DR+Y IDAA+VRIMK RK L H
Sbjct: 620 KFICNDDFKHKLFRIKINQIQMKETVEEQASTTERVFQDRQYQIDAAIVRIMKMRKTLSH 679
Query: 368 QQLVSECVEQLSRMFKPDIKAIKKRMEDLITRDYLERDKENPNMFRYLA 416
LVSE QL KP +KKR+E LI RDY+ERDKENPN + Y+A
Sbjct: 680 NLLVSEVYNQLKFPVKP--ADLKKRIESLIDRDYMERDKENPNQYNYIA 726
>pdb|4A0C|C Chain C, Structure Of The Cand1-Cul4b-Rbx1 Complex
pdb|4A0C|E Chain E, Structure Of The Cand1-Cul4b-Rbx1 Complex
Length = 741
Score = 319 bits (817), Expect = 2e-87, Method: Compositional matrix adjust.
Identities = 171/409 (41%), Positives = 252/409 (61%), Gaps = 10/409 (2%)
Query: 12 QEQVLIRKIIELHDKYMEYVTNCFINHTLFHKALKEAFEIFCNKAVGGSSSSELLATFCD 71
+++ +++++++ DK + CF+ + F A+KEAFE F NK + +EL+A + D
Sbjct: 339 KDKTMVQELLDFKDKVDHIIDICFLKNEKFINAMKEAFETFINKR--PNKPAELIAKYVD 396
Query: 72 NILKKGGNEKLSDEAIEETLEKVVKLLAYISDKDLFAEFYRKKLARRLLFDRSANDDHER 131
+ L+ GN++ +DE +E+ L+K++ + +I KD+F FY+K LA+RLL +SA+ D E+
Sbjct: 397 SKLR-AGNKEATDEELEKMLDKIMIIFRFIYGKDVFEAFYKKDLAKRLLVGKSASVDAEK 455
Query: 132 SILTKLKQQCGGQFTSKMEGMVTDLTLARENQTSFEEYLSNNQNAHPGIDLSVTVLTTGF 191
S+L+KLK +CG FTSK+EGM D+ L+++ F++Y+ N QN I+L+V +LT G+
Sbjct: 456 SMLSKLKHECGAAFTSKLEGMFKDMELSKDIMIQFKQYMQN-QNVPGNIELTVNILTMGY 514
Query: 192 WPSYKSSDLNLPSEMVKCVEVFKGFYETKTKHRKLTWIYSLGQCNINGKFEQKNIELIVS 251
WP+Y +++LP EMVK E+FK FY K RKL W +LG C + +F++ EL VS
Sbjct: 515 WPTYVPMEVHLPPEMVKLQEIFKTFYLGKHSGRKLQWQSTLGHCVLKAEFKEGKKELQVS 574
Query: 252 TYQAATLLLFNTSDRLSYSEIMTQLNLTHDDLVRLLHSLSCAKYKILLKEPNTKTISQSD 311
+Q LL+FN + S EI + +L R L SL+C K ++L K P K I D
Sbjct: 575 LFQTLVLLMFNEGEEFSLEEIKQATGIEDGELRRTLQSLACGKARVLAKNPKGKDIEDGD 634
Query: 312 HFEFNSKFTDRMRRIKIPL----PPVDERKKIVEDVDKDRRYAIDAALVRIMKSRKVLGH 367
F N F ++ RIKI V+E+ E V +DR+Y IDAA+VRIMK RK L H
Sbjct: 635 KFICNDDFKHKLFRIKINQIQMKETVEEQASTTERVFQDRQYQIDAAIVRIMKMRKTLSH 694
Query: 368 QQLVSECVEQLSRMFKPDIKAIKKRMEDLITRDYLERDKENPNMFRYLA 416
LVSE QL KP +KKR+E LI RDY+ERDKENPN + Y+A
Sbjct: 695 NLLVSEVYNQLKFPVKP--ADLKKRIESLIDRDYMERDKENPNQYNYIA 741
>pdb|2HYE|C Chain C, Crystal Structure Of The Ddb1-cul4a-rbx1-sv5v Complex
Length = 759
Score = 315 bits (808), Expect = 2e-86, Method: Compositional matrix adjust.
Identities = 168/405 (41%), Positives = 248/405 (61%), Gaps = 10/405 (2%)
Query: 16 LIRKIIELHDKYMEYVTNCFINHTLFHKALKEAFEIFCNKAVGGSSSSELLATFCDNILK 75
+++ +++ DK + CF + F +KE+FE F NK + +EL+A D+ L+
Sbjct: 361 MVQDLLDFKDKVDHVIEVCFQKNERFVNLMKESFETFINKR--PNKPAELIAKHVDSKLR 418
Query: 76 KGGNEKLSDEAIEETLEKVVKLLAYISDKDLFAEFYRKKLARRLLFDRSANDDHERSILT 135
GN++ +DE +E TL+K++ L +I KD+F FY+K LA+RLL +SA+ D E+S+L+
Sbjct: 419 -AGNKEATDEELERTLDKIMILFRFIHGKDVFEAFYKKDLAKRLLVGKSASVDAEKSMLS 477
Query: 136 KLKQQCGGQFTSKMEGMVTDLTLARENQTSFEEYLSNNQNAHPGIDLSVTVLTTGFWPSY 195
KLK +CG FTSK+EGM D+ L+++ F++++ N ++ P IDL+V +LT G+WP+Y
Sbjct: 478 KLKHECGAAFTSKLEGMFKDMELSKDIMVHFKQHMQNQSDSGP-IDLTVNILTMGYWPTY 536
Query: 196 KSSDLNLPSEMVKCVEVFKGFYETKTKHRKLTWIYSLGQCNINGKFEQKNIELIVSTYQA 255
+++L EM+K EVFK FY K RKL W +LG + +F++ E VS +Q
Sbjct: 537 TPMEVHLTPEMIKLQEVFKAFYLGKHSGRKLQWQTTLGHAVLKAEFKEGKKEFQVSLFQT 596
Query: 256 ATLLLFNTSDRLSYSEIMTQLNLTHDDLVRLLHSLSCAKYKILLKEPNTKTISQSDHFEF 315
LL+FN D S+ EI + +L R L SL+C K ++L+K P K + D F F
Sbjct: 597 LVLLMFNEGDGFSFEEIKMATGIEDSELRRTLQSLACGKARVLIKSPKGKEVEDGDKFIF 656
Query: 316 NSKFTDRMRRIKIPL----PPVDERKKIVEDVDKDRRYAIDAALVRIMKSRKVLGHQQLV 371
N +F ++ RIKI V+E+ E V +DR+Y IDAA+VRIMK RK LGH LV
Sbjct: 657 NGEFKHKLFRIKINQIQMKETVEEQVSTTERVFQDRQYQIDAAIVRIMKMRKTLGHNLLV 716
Query: 372 SECVEQLSRMFKPDIKAIKKRMEDLITRDYLERDKENPNMFRYLA 416
SE QL KP +KKR+E LI RDY+ERDK+NPN + Y+A
Sbjct: 717 SELYNQLKFPVKPG--DLKKRIESLIDRDYMERDKDNPNQYHYVA 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 = 315 bits (807), Expect = 3e-86, Method: Compositional matrix adjust.
Identities = 168/405 (41%), Positives = 248/405 (61%), Gaps = 10/405 (2%)
Query: 16 LIRKIIELHDKYMEYVTNCFINHTLFHKALKEAFEIFCNKAVGGSSSSELLATFCDNILK 75
+++ +++ DK + CF + F +KE+FE F NK + +EL+A D+ L+
Sbjct: 344 MVQDLLDFKDKVDHVIEVCFQKNERFVNLMKESFETFINKR--PNKPAELIAKHVDSKLR 401
Query: 76 KGGNEKLSDEAIEETLEKVVKLLAYISDKDLFAEFYRKKLARRLLFDRSANDDHERSILT 135
GN++ +DE +E TL+K++ L +I KD+F FY+K LA+RLL +SA+ D E+S+L+
Sbjct: 402 -AGNKEATDEELERTLDKIMILFRFIHGKDVFEAFYKKDLAKRLLVGKSASVDAEKSMLS 460
Query: 136 KLKQQCGGQFTSKMEGMVTDLTLARENQTSFEEYLSNNQNAHPGIDLSVTVLTTGFWPSY 195
KLK +CG FTSK+EGM D+ L+++ F++++ N ++ P IDL+V +LT G+WP+Y
Sbjct: 461 KLKHECGAAFTSKLEGMFKDMELSKDIMVHFKQHMQNQSDSGP-IDLTVNILTMGYWPTY 519
Query: 196 KSSDLNLPSEMVKCVEVFKGFYETKTKHRKLTWIYSLGQCNINGKFEQKNIELIVSTYQA 255
+++L EM+K EVFK FY K RKL W +LG + +F++ E VS +Q
Sbjct: 520 TPMEVHLTPEMIKLQEVFKAFYLGKHSGRKLQWQTTLGHAVLKAEFKEGKKEFQVSLFQT 579
Query: 256 ATLLLFNTSDRLSYSEIMTQLNLTHDDLVRLLHSLSCAKYKILLKEPNTKTISQSDHFEF 315
LL+FN D S+ EI + +L R L SL+C K ++L+K P K + D F F
Sbjct: 580 LVLLMFNEGDGFSFEEIKMATGIEDSELRRTLQSLACGKARVLIKSPKGKEVEDGDKFIF 639
Query: 316 NSKFTDRMRRIKIPL----PPVDERKKIVEDVDKDRRYAIDAALVRIMKSRKVLGHQQLV 371
N +F ++ RIKI V+E+ E V +DR+Y IDAA+VRIMK RK LGH LV
Sbjct: 640 NGEFKHKLFRIKINQIQMKETVEEQVSTTERVFQDRQYQIDAAIVRIMKMRKTLGHNLLV 699
Query: 372 SECVEQLSRMFKPDIKAIKKRMEDLITRDYLERDKENPNMFRYLA 416
SE QL KP +KKR+E LI RDY+ERDK+NPN + Y+A
Sbjct: 700 SELYNQLKFPVKPG--DLKKRIESLIDRDYMERDKDNPNQYHYVA 742
>pdb|1U6G|A Chain A, Crystal Structure Of The Cand1-Cul1-Roc1 Complex
Length = 776
Score = 238 bits (607), Expect = 5e-63, Method: Compositional matrix adjust.
Identities = 148/427 (34%), Positives = 241/427 (56%), Gaps = 22/427 (5%)
Query: 6 GSSGAVQEQVLIRKIIELHDKYMEYVTNCFINHTLFHKALKEAFEIFCNK------AVGG 59
G + ++ ++ ++++H KY V + F N F AL +A F N A
Sbjct: 356 GEAALNDPKMYVQTVLDVHKKYNALVMSAFNNDAGFVAALDKACGRFINNNAVTKMAQSS 415
Query: 60 SSSSELLATFCDNILKKGGNEKLSDEA-IEETLEKVVKLLAYISDKDLFAEFYRKKLARR 118
S S ELLA +CD++LKK K +EA +E+TL +V+ + YI DKD+F +FY K LA+R
Sbjct: 416 SKSPELLARYCDSLLKKSS--KNPEEAELEDTLNQVMVVFKYIEDKDVFQKFYAKMLAKR 473
Query: 119 LLFDRSANDDHERSILTKLKQQCGGQFTSKMEGMVTDLTLARENQTSFEEYLSNNQNAHP 178
L+ SA+DD E S+++KLKQ CG ++TSK++ M D+ ++++ F+++L+N++
Sbjct: 474 LVHQNSASDDAEASMISKLKQACGFEYTSKLQRMFQDIGVSKDLNEQFKKHLTNSEPL-- 531
Query: 179 GIDLSVTVLTTGFWPSYKSSDLNLPSEMVKCVEVFKGFYETKTKHRKLTWIYSLGQCNIN 238
+D S+ VL++G WP +S LPSE+ + + F FY ++ RKLTW+Y L + +
Sbjct: 532 DLDFSIQVLSSGSWPFQQSCTFALPSELERSYQRFTAFYASRHSGRKLTWLYQLSKGELV 591
Query: 239 GKFEQKNIELIVSTYQAATLLLFNTSDRLSYSEIMTQLNLTHDDLVRLLHSLSCAKYKIL 298
+ L ST+Q A LL +NT D + ++ + D L ++L L K K+L
Sbjct: 592 TNCFKNRYTLQASTFQMAILLQYNTEDAYTVQQLTDSTQIKMDILAQVLQIL--LKSKLL 649
Query: 299 LKEPNTKTISQSD-----HFEFNSKFTDRMRRIKIPLPPVDERKKIVE----DVDKDRRY 349
+ E + + + + + ++ R+ I +P E+K+ E ++++DR+
Sbjct: 650 VLEDENANVDEVELKPDTLIKLYLGYKNKKLRVNINVPMKTEQKQEQETTHKNIEEDRKL 709
Query: 350 AIDAALVRIMKSRKVLGHQQLVSECVEQLSRMFKPDIKAIKKRMEDLITRDYLERDKENP 409
I AA+VRIMK RKVL HQQL+ E + QLS FKP + IKK ++ LI ++YLER
Sbjct: 710 LIQAAIVRIMKMRKVLKHQQLLGEVLTQLSSRFKPRVPVIKKCIDILIEKEYLERVDGEK 769
Query: 410 NMFRYLA 416
+ + YLA
Sbjct: 770 DTYSYLA 776
>pdb|1LDJ|A Chain A, Structure Of The Cul1-rbx1-skp1-f Boxskp2 Scf Ubiquitin
Ligase Complex
Length = 760
Score = 238 bits (607), Expect = 5e-63, Method: Compositional matrix adjust.
Identities = 148/427 (34%), Positives = 241/427 (56%), Gaps = 22/427 (5%)
Query: 6 GSSGAVQEQVLIRKIIELHDKYMEYVTNCFINHTLFHKALKEAFEIFCNK------AVGG 59
G + ++ ++ ++++H KY V + F N F AL +A F N A
Sbjct: 340 GEAALNDPKMYVQTVLDVHKKYNALVMSAFNNDAGFVAALDKACGRFINNNAVTKMAQSS 399
Query: 60 SSSSELLATFCDNILKKGGNEKLSDEA-IEETLEKVVKLLAYISDKDLFAEFYRKKLARR 118
S S ELLA +CD++LKK K +EA +E+TL +V+ + YI DKD+F +FY K LA+R
Sbjct: 400 SKSPELLARYCDSLLKKSS--KNPEEAELEDTLNQVMVVFKYIEDKDVFQKFYAKMLAKR 457
Query: 119 LLFDRSANDDHERSILTKLKQQCGGQFTSKMEGMVTDLTLARENQTSFEEYLSNNQNAHP 178
L+ SA+DD E S+++KLKQ CG ++TSK++ M D+ ++++ F+++L+N++
Sbjct: 458 LVHQNSASDDAEASMISKLKQACGFEYTSKLQRMFQDIGVSKDLNEQFKKHLTNSEPL-- 515
Query: 179 GIDLSVTVLTTGFWPSYKSSDLNLPSEMVKCVEVFKGFYETKTKHRKLTWIYSLGQCNIN 238
+D S+ VL++G WP +S LPSE+ + + F FY ++ RKLTW+Y L + +
Sbjct: 516 DLDFSIQVLSSGSWPFQQSCTFALPSELERSYQRFTAFYASRHSGRKLTWLYQLSKGELV 575
Query: 239 GKFEQKNIELIVSTYQAATLLLFNTSDRLSYSEIMTQLNLTHDDLVRLLHSLSCAKYKIL 298
+ L ST+Q A LL +NT D + ++ + D L ++L L K K+L
Sbjct: 576 TNCFKNRYTLQASTFQMAILLQYNTEDAYTVQQLTDSTQIKMDILAQVLQIL--LKSKLL 633
Query: 299 LKEPNTKTISQSD-----HFEFNSKFTDRMRRIKIPLPPVDERKKIVE----DVDKDRRY 349
+ E + + + + + ++ R+ I +P E+K+ E ++++DR+
Sbjct: 634 VLEDENANVDEVELKPDTLIKLYLGYKNKKLRVNINVPMKTEQKQEQETTHKNIEEDRKL 693
Query: 350 AIDAALVRIMKSRKVLGHQQLVSECVEQLSRMFKPDIKAIKKRMEDLITRDYLERDKENP 409
I AA+VRIMK RKVL HQQL+ E + QLS FKP + IKK ++ LI ++YLER
Sbjct: 694 LIQAAIVRIMKMRKVLKHQQLLGEVLTQLSSRFKPRVPVIKKCIDILIEKEYLERVDGEK 753
Query: 410 NMFRYLA 416
+ + YLA
Sbjct: 754 DTYSYLA 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 = 4e-59, Method: Compositional matrix adjust.
Identities = 137/374 (36%), Positives = 216/374 (57%), Gaps = 22/374 (5%)
Query: 56 AVGGSSSSELLATFCDNILKKGGNEKLSDEA-IEETLEKVVKLLAYISDKDLFAEFYRKK 114
A S S ELLA +CD++LKK K +EA +E+TL +V+ + YI DKD+F +FY K
Sbjct: 2 AQSSSKSPELLARYCDSLLKKSS--KNPEEAELEDTLNQVMVVFKYIEDKDVFQKFYAKM 59
Query: 115 LARRLLFDRSANDDHERSILTKLKQQCGGQFTSKMEGMVTDLTLARENQTSFEEYLSNNQ 174
LA+RL+ SA+DD E S+++KLKQ CG ++TSK++ M D+ ++++ F+++L+N++
Sbjct: 60 LAKRLVHQNSASDDAEASMISKLKQACGFEYTSKLQRMFQDIGVSKDLNEQFKKHLTNSE 119
Query: 175 NAHPGIDLSVTVLTTGFWPSYKSSDLNLPSEMVKCVEVFKGFYETKTKHRKLTWIYSLGQ 234
+D S+ VL++G WP +S LPSE+ + + F FY ++ RKLTW+Y L +
Sbjct: 120 PL--DLDFSIQVLSSGSWPFQQSCTFALPSELERSYQRFTAFYASRHSGRKLTWLYQLSK 177
Query: 235 CNINGKFEQKNIELIVSTYQAATLLLFNTSDRLSYSEIMTQLNLTHDDLVRLLHSLSCAK 294
+ + L ST+Q A LL +NT D + ++ + D L ++L L K
Sbjct: 178 GELVTNCFKNRYTLQASTFQMAILLQYNTEDAYTVQQLTDSTQIKMDILAQVLQIL--LK 235
Query: 295 YKILLKEPNTKTISQSDHFEFNSK--------FTDRMRRIKIPLPPVDERKKIVE----D 342
K+L+ E + D E + ++ R+ I +P E+K+ E +
Sbjct: 236 SKLLVLEDENANV---DEVELKPDTLIKLYLGYKNKKLRVNINVPMKTEQKQEQETTHKN 292
Query: 343 VDKDRRYAIDAALVRIMKSRKVLGHQQLVSECVEQLSRMFKPDIKAIKKRMEDLITRDYL 402
+++DR+ I AA+VRIMK RKVL HQQL+ E + QLS FKP + IKK ++ LI ++YL
Sbjct: 293 IEEDRKLLIQAAIVRIMKMRKVLKHQQLLGEVLTQLSSRFKPRVPVIKKCIDILIEKEYL 352
Query: 403 ERDKENPNMFRYLA 416
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 = 6e-57, Method: Compositional matrix adjust.
Identities = 135/374 (36%), Positives = 214/374 (57%), Gaps = 22/374 (5%)
Query: 56 AVGGSSSSELLATFCDNILKKGGNEKLSDEA-IEETLEKVVKLLAYISDKDLFAEFYRKK 114
A S S E LA +CD++LKK K +EA +E+TL +V++ I DKD+F +FY K
Sbjct: 4 AQSSSKSPEELARYCDSLLKKSS--KNPEEAELEDTLNQVMEKFKKIEDKDVFQKFYAKM 61
Query: 115 LARRLLFDRSANDDHERSILTKLKQQCGGQFTSKMEGMVTDLTLARENQTSFEEYLSNNQ 174
LA+RL+ SA+DD E S+++KLKQ CG ++TSK++ M D+ ++++ F+++L+N++
Sbjct: 62 LAKRLVHQNSASDDAEASMISKLKQACGFEYTSKLQRMFQDIGVSKDLNEQFKKHLTNSE 121
Query: 175 NAHPGIDLSVTVLTTGFWPSYKSSDLNLPSEMVKCVEVFKGFYETKTKHRKLTWIYSLGQ 234
+D S+ VL++G WP +S LPSE+ + + F FY ++ RKLTW+Y L +
Sbjct: 122 PL--DLDFSIQVLSSGSWPFQQSCTFALPSELERSYQRFTAFYASRHSGRKLTWLYQLSK 179
Query: 235 CNINGKFEQKNIELIVSTYQAATLLLFNTSDRLSYSEIMTQLNLTHDDLVRLLHSLSCAK 294
+ + L ST+Q A LL +NT D + ++ + D L ++L L K
Sbjct: 180 GELVTNCFKNRYTLQASTFQMAILLQYNTEDAYTVQQLTDSTQIKMDILAQVLQIL--LK 237
Query: 295 YKILLKEPNTKTISQSDHFEFNSK--------FTDRMRRIKIPLPPVDERKKIVE----D 342
K+L+ E + D E + ++ R+ I +P E+K+ E +
Sbjct: 238 SKLLVLEDENANV---DEVELKPDTLIKLYLGYKNKKLRVNINVPMKTEQKQEQETTHKN 294
Query: 343 VDKDRRYAIDAALVRIMKSRKVLGHQQLVSECVEQLSRMFKPDIKAIKKRMEDLITRDYL 402
+++DR+ I AA+VRIMK RKVL HQQL+ E + QLS FKP + IKK ++ LI ++YL
Sbjct: 295 IEEDRKLLIQAAIVRIMKMRKVLKHQQLLGEVLTQLSSRFKPRVPVIKKCIDILIEKEYL 354
Query: 403 ERDKENPNMFRYLA 416
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: 56 AVGGSSSSELLATFCDNILKKGGNEKLSDEA-IEETLEKVVKLLAYISDKDLFAEFYRKK 114
A S S E LA +CD++LKK K +EA +E+TL +V++ I DKD+F +FY K
Sbjct: 4 AQSSSKSPEELARYCDSLLKKSS--KNPEEAELEDTLNQVMEKFKKIEDKDVFQKFYAKM 61
Query: 115 LARRLLFDRSANDDHERSILTKLKQQCGGQFTSKMEGMVTDLTLARENQTSFEEYLSNNQ 174
LA+RL+ SA+DD E S+++KLKQ CG ++TSK++ M D+ ++++ F+++L+N++
Sbjct: 62 LAKRLVHQNSASDDAEASMISKLKQACGFEYTSKLQRMFQDIGVSKDLNEQFKKHLTNSE 121
Query: 175 NAHPGIDLSVTVLTTGFWPSYKSSDLNLPSEMVKCVEVFKGFYETKTKHRKLTWIYSLGQ 234
+D S+ VL++G WP +S LPSE+ + + F FY ++ RKLTW+Y L +
Sbjct: 122 PL--DLDFSIQVLSSGSWPFQQSCTFALPSELERSYQRFTAFYASRHSGRKLTWLYQLSK 179
Query: 235 CNINGKFEQKNIELIVSTYQAATLLLFNTSDRLSYSEIMTQLNLTHDDLVRLLHSLSCAK 294
+ + L ST+Q A LL +NT D + ++ + D L ++L L +K
Sbjct: 180 GELVTNCFKNRYTLQASTFQMAILLQYNTEDAYTVQQLTDSTQIKMDILAQVLQILLKSK 239
Query: 295 YKIL 298
+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 = 138 bits (347), Expect = 7e-33, Method: Compositional matrix adjust.
Identities = 117/384 (30%), Positives = 197/384 (51%), Gaps = 28/384 (7%)
Query: 59 GSSS--SELLATFCDNILKKGG-NEKLSDEAIEETLEKVVKLLAYISDKDLFAEFYRKKL 115
GS S E LA +CD +L+K ++KL+ E IE L++V+K L Y+ +KD+F +++ L
Sbjct: 1 GSESKCPEELANYCDMLLRKTPLSKKLTSEEIEAKLKEVLKKLKYVQNKDVFMRYHKAHL 60
Query: 116 ARRLLFDRSANDDHERSILTKLKQ-QCGGQFTSKMEGMVTDLTLARENQTSFEEYLSNNQ 174
RRL+ D SA+ + E +++ L++ + +K+ M D+ ++ + +F+E NN+
Sbjct: 61 TRRLILDISADSEIEENMVEWLREVGMPADYVNKLARMFQDIKVSEDLNQAFKEMHKNNK 120
Query: 175 NAHPGIDLSVTVLTTGFWPSYKSSD---LNLPSEMVKCVEVFKGFYETKTKHRKLTWIYS 231
A P +++ +L G W +SS+ ++LP+E+ + + FY+ RKL W +
Sbjct: 121 LALPADSVNIKILNAGAWS--RSSEKVFVSLPTELEDLIPEVEEFYKKNHSGRKLHWHHL 178
Query: 232 LGQCNINGKFEQKNIELIVSTYQAATLLLFNTSDR--LSYSEIMTQLNLTHDDLVRLLHS 289
+ I K E +L V+T+Q A L +N R +S+ + L +L R L S
Sbjct: 179 MSNGIITFKNEVGQYDLEVTTFQLAVLFAWNQRPREKISFENLKLATELPDAELRRTLWS 238
Query: 290 LSC---AKYKILLKEPNT---KTISQSDHFEFNSKFT-----DRMRRIKI------PLPP 332
L K ++LL EP K ++ F N +F+ +R KI L
Sbjct: 239 LVAFPKLKRQVLLYEPQVNSPKDFTEGTLFSVNQEFSLIKNAKVQKRGKINLIGRLQLTT 298
Query: 333 VDERKKIVEDVDKDRRYAIDAALVRIMKSRKVLGHQQLVSECVEQLSRMFKPDIKAIKKR 392
R++ E + + R A+++IMK RK + + QL +E VE L MF P K IK++
Sbjct: 299 ERMREEENEGIVQLRILRTQEAIIQIMKMRKKISNAQLQTELVEILKNMFLPQKKMIKEQ 358
Query: 393 MEDLITRDYLERDKENPNMFRYLA 416
+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 = 5e-29, Method: Compositional matrix adjust.
Identities = 114/384 (29%), Positives = 192/384 (50%), Gaps = 28/384 (7%)
Query: 59 GSSS--SELLATFCDNILKKGG-NEKLSDEAIEETLEKVVKLLAYISDKDLFAEFYRKKL 115
GS S E LA +CD +L+K ++KL+ E IE L++V+K L Y+ +KD+F +++ L
Sbjct: 1 GSESKCPEELANYCDXLLRKTPLSKKLTSEEIEAKLKEVLKKLKYVQNKDVFXRYHKAHL 60
Query: 116 ARRLLFDRSANDDHERSILTKLKQ-QCGGQFTSKMEGMVTDLTLARENQTSFEEYLSNNQ 174
RRL+ D SA+ + E + + L++ + +K+ D+ ++ + +F+E NN+
Sbjct: 61 TRRLILDISADSEIEENXVEWLREVGXPADYVNKLARXFQDIKVSEDLNQAFKEXHKNNK 120
Query: 175 NAHPGIDLSVTVLTTGFWPSYKSSD---LNLPSEMVKCVEVFKGFYETKTKHRKLTWIYS 231
A P +++ +L G W +SS+ ++LP+E+ + + FY+ RKL W +
Sbjct: 121 LALPADSVNIKILNAGAWS--RSSEKVFVSLPTELEDLIPEVEEFYKKNHSGRKLHWHHL 178
Query: 232 LGQCNINGKFEQKNIELIVSTYQAATLLLFNTSDR--LSYSEIMTQLNLTHDDLVRLLHS 289
I K E +L V+T+Q A L +N R +S+ + L +L R L S
Sbjct: 179 XSNGIITFKNEVGQYDLEVTTFQLAVLFAWNQRPREKISFENLKLATELPDAELRRTLWS 238
Query: 290 LSC---AKYKILLKEP---NTKTISQSDHFEFNSKFT-----DRMRRIKI------PLPP 332
L K ++LL EP + K ++ F N +F+ +R KI L
Sbjct: 239 LVAFPKLKRQVLLYEPQVNSPKDFTEGTLFSVNQEFSLIKNAKVQKRGKINLIGRLQLTT 298
Query: 333 VDERKKIVEDVDKDRRYAIDAALVRIMKSRKVLGHQQLVSECVEQLSRMFKPDIKAIKKR 392
R++ E + + R A+++I K RK + + QL +E VE L F P K IK++
Sbjct: 299 ERXREEENEGIVQLRILRTQEAIIQIXKXRKKISNAQLQTELVEILKNXFLPQKKXIKEQ 358
Query: 393 MEDLITRDYLERDKENPNMFRYLA 416
+E LI Y+ RD+ + N F Y A
Sbjct: 359 IEWLIEHKYIRRDESDINTFIYXA 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: 333 VDERKKIVEDVDKDRRYAIDAALVRIMKSRKVLGHQQLVSECVEQLSRMFKPDIKAIKKR 392
V+E+ E V +DR+Y IDAA+VRIMK RK L H LVSE QL KP +KKR
Sbjct: 14 VEEQASTTERVFQDRQYQIDAAIVRIMKMRKTLSHNLLVSEVYNQLKFPVKP--ADLKKR 71
Query: 393 MEDLITRDYLERDKENPNMFRYLA 416
+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: 335 ERKKIVEDVDKDRRYAIDAALVRIMKSRKVLGHQQLVSECVEQLSRMFKPDIKAIKKRME 394
ERK+ + VD DR++ I+AA+VRIMKSRK + H LV+E +QL F P IKKR+E
Sbjct: 11 ERKETRQKVDDDRKHEIEAAIVRIMKSRKKMQHNVLVAEVTQQLKARFLPSPVVIKKRIE 70
Query: 395 DLITRDYLERDKENPNMFRYLA 416
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 = 2e-13, Method: Compositional matrix adjust.
Identities = 37/75 (49%), Positives = 52/75 (69%)
Query: 342 DVDKDRRYAIDAALVRIMKSRKVLGHQQLVSECVEQLSRMFKPDIKAIKKRMEDLITRDY 401
++++DR+ I AA+VRIMK RKVL HQQL+ E + QLS FKP + IKK ++ LI ++Y
Sbjct: 3 NIEEDRKLLIQAAIVRIMKMRKVLKHQQLLGEVLTQLSSRFKPRVPVIKKCIDILIEKEY 62
Query: 402 LERDKENPNMFRYLA 416
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: 335 ERKKIVEDVDKDRRYAIDAALVRIMKSRKVLGHQQLVSECVEQLSRMFKPDIKAIKKRME 394
E ++I ++++ +R+ ++A +VRIMK+++ L H LV+EC+ Q + F + +K+ ++
Sbjct: 8 EDERIEKELNTERQIFLEACIVRIMKAKRNLPHTTLVNECIAQSHQRFNAKVSMVKRAID 67
Query: 395 DLITRDYLERDKENPNMFRYLA 416
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: 342 DVDKDRRYAIDAALVRIMKSRKVLGHQQLVSECVEQLSRMFKPDIKAIKKRMEDLITRDY 401
+++ +R+ ++A +VRIMK+++ L H LV+EC+ Q + F + +K+ ++ LI + Y
Sbjct: 3 ELNTERQIFLEACIVRIMKAKRNLPHTTLVNECIAQSHQRFNAKVSMVKRAIDSLIQKGY 62
Query: 402 LERDKENPNMFRYLA 416
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 = 31.2 bits (69), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 26/110 (23%), Positives = 44/110 (40%), Gaps = 6/110 (5%)
Query: 167 EEYLSNNQNAHPGIDLSVTVLTTGFWPSYKSSDLNLPSEMVKCVEVFKGFYETKTKHR-K 225
E Y H DL + + + SY L S ++ + G Y+ KH
Sbjct: 202 EHYEIEKSKGHILKDLRIMIARSDTAMSY-----GLISGVLSVLMAVDGAYKWGEKHGVT 256
Query: 226 LTWIYSLGQCNINGKFEQKNIELIVSTYQAATLLLFNTSDRLSYSEIMTQ 275
++ I G G F ++NI+ I++TY F ++ R + E T+
Sbjct: 257 ISPILGCGSLPFRGHFSEENIDEILATYSGIKTFTFQSALRYDHGEEATK 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 = 2.0, Method: Compositional matrix adjust.
Identities = 31/113 (27%), Positives = 59/113 (52%), Gaps = 9/113 (7%)
Query: 295 YKILLKEPN--TKTISQSDHFEFNSKFTDRMRRIKIPLPPVDERKKIVEDVDK--DRRYA 350
Y IL K N +K Q+ N++ ++ KIPLPP++E+K+I + + K +
Sbjct: 131 YYILAKNKNYYSKLGMQTTQKNLNAQI---VKSFKIPLPPLEEQKQIAKILTKIDEGIEI 187
Query: 351 IDAALVRIMKSRKVLGHQQLVSECVEQLSRMFKPDIKAIKKRMEDLITRDYLE 403
I+ ++ ++ + +K L H +L+++ + SR K +I I + E +D E
Sbjct: 188 IEKSINKLERIKKGLMH-KLLTKGIGH-SRFKKSEIGEIPEDWEVFEIKDIFE 238
Score = 28.1 bits (61), Expect = 9.9, Method: Compositional matrix adjust.
Identities = 13/26 (50%), Positives = 18/26 (69%), Gaps = 3/26 (11%)
Query: 323 MRRIKIPLPPVDERK---KIVEDVDK 345
+ KIPLPP++E+K KI+ VDK
Sbjct: 368 LENFKIPLPPLEEQKQIAKILSSVDK 393
>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 = 30.0 bits (66), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 14/31 (45%), Positives = 18/31 (58%)
Query: 25 DKYMEYVTNCFINHTLFHKALKEAFEIFCNK 55
DK + CF+ + F A+KEAFE F NK
Sbjct: 321 DKVDHIIDICFLKNEKFINAMKEAFETFINK 351
>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 = 2.9, Method: Compositional matrix adjust.
Identities = 13/37 (35%), Positives = 23/37 (62%)
Query: 350 AIDAALVRIMKSRKVLGHQQLVSECVEQLSRMFKPDI 386
A+DA + + S GH+ LV E +++L+ + +PDI
Sbjct: 651 AVDADVHAVGVSTLAAGHKTLVPELIKELNSLGRPDI 687
>pdb|3OKG|A Chain A, Crystal Structure Of Hsds Subunit From Thermoanaerobacter
Tengcongensis
pdb|3OKG|B Chain B, Crystal Structure Of Hsds Subunit From Thermoanaerobacter
Tengcongensis
Length = 412
Score = 28.1 bits (61), Expect = 9.2, Method: Compositional matrix adjust.
Identities = 11/31 (35%), Positives = 22/31 (70%)
Query: 315 FNSKFTDRMRRIKIPLPPVDERKKIVEDVDK 345
FN+ ++ + IPLPP++E+++IV +D+
Sbjct: 347 FNAITKKDLQNVFIPLPPLEEQRRIVAYLDQ 377
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 0.380
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 11,422,218
Number of Sequences: 62578
Number of extensions: 450028
Number of successful extensions: 1462
Number of sequences better than 100.0: 28
Number of HSP's better than 100.0 without gapping: 21
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 1393
Number of HSP's gapped (non-prelim): 31
length of query: 416
length of database: 14,973,337
effective HSP length: 101
effective length of query: 315
effective length of database: 8,652,959
effective search space: 2725682085
effective search space used: 2725682085
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)