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= 004648
(740 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2HYE|C Chain C, Crystal Structure Of The Ddb1-cul4a-rbx1-sv5v Complex
Length = 759
Score = 357 bits (917), Expect = 1e-98, Method: Compositional matrix adjust.
Identities = 223/706 (31%), Positives = 373/706 (52%), Gaps = 40/706 (5%)
Query: 43 LYTIVYDLCSIELPSAQDCSYSQRLYVKYGEVFEEHMQSDVLPSFEDKRGEFM-LREFVK 101
LY V +LCS ++ S LY + + E+H+Q+ +LP ED + L++
Sbjct: 86 LYQAVENLCSHKV--------SPMLYKQLRQACEDHVQAQILPFREDSLDSVLFLKKINT 137
Query: 102 QWENINVMGRWLLRFFEYLDRFYVRSQAGLASLIEVPVVVFRDRVYKD--LKRDVRDTVI 159
W++ + F +LDR YV + L S+ ++ + +FR + D ++ D ++
Sbjct: 138 CWQDHCRQMIMIRSIFLFLDRTYVLQNSTLPSIWDMGLELFRTHIISDKMVQSKTIDGIL 197
Query: 160 ALIDEEREGEKIDRALVKKAVDIFVGIGIL-DMDFYRQDFEEQMIDDAGCYYLRKASSWI 218
LI+ ER GE +DR+L++ +G+L D+ Y+ FE + +++ C Y + +
Sbjct: 198 LLIERERSGEAVDRSLLRSL------LGMLSDLQVYKDSFELKFLEETNCLYAAEGQRLM 251
Query: 219 LNDSCPEYMIKAEECLKKERDRAVYYFHTRSESKLIEKVQHELLVVHRNQLLENEKSGCR 278
PEY+ + L++E DR + Y ++ LI V+ +LL H +L+ G
Sbjct: 252 QEREVPEYLNHVSKRLEEEGDRVITYLDHSTQKPLIACVEKQLLGEHLTAILQK---GLD 308
Query: 279 ALISQEKFDDLSRIFRLYDETRTGLEPVAGIFKQYFIDQGKALVHQAEEDVRNKTANMEQ 338
L+ + + DL+++++L+ R G + + + +Y G A+V E+D +
Sbjct: 309 HLLDENRVPDLAQMYQLFSRVRGGQQALLQHWSEYIKTFGTAIVINPEKD---------K 359
Query: 339 NLVGKILELHDKFMAYVSICFGDHKLFLMALKEAFEVFCNESIVEISSAEILATFCDNLF 398
++V +L+ DK + +CF ++ F+ +KE+FE F N+ AE++A D+
Sbjct: 360 DMVQDLLDFKDKVDHVIEVCFQKNERFVNLMKESFETFINKR--PNKPAELIAKHVDSKL 417
Query: 399 KNSDAEKLSDETVERTMDKVIVLLGYFKYKDLFAEFYRKKLARRLLFDKGGNKDYDKTFL 458
+ + E +DE +ERT+DK+++L + KD+F FY+K LA+RLL K + D +K+ L
Sbjct: 418 RAGNKEA-TDEELERTLDKIMILFRFIHGKDVFEAFYKKDLAKRLLVGKSASVDAEKSML 476
Query: 459 SKLKQHSGGHFTTKMEGMITDVVLARENQTALDDWFSSNLNEKPQFDLSVMVLTTGSWPS 518
SKLK G FT+K+EGM D+ L+++ + + P DL+V +LT G WP+
Sbjct: 477 SKLKHECGAAFTSKLEGMFKDMELSKDIMVHFKQHMQNQSDSGP-IDLTVNILTMGYWPT 535
Query: 519 YKFFGLNLPSEMVKGVESFKKFYGTKTKARKLTWIYSLGNCHVNGKFELKAIELIVSTYQ 578
Y ++L EM+K E FK FY K RKL W +LG+ + +F+ E VS +Q
Sbjct: 536 YTPMEVHLTPEMIKLQEVFKAFYLGKHSGRKLQWQTTLGHAVLKAEFKEGKKEFQVSLFQ 595
Query: 579 AACLMLFNDADRLSFSEILTQLNLNKGDLIRVLHSLSCSKHKILNKEPNTKTISQSDSFE 638
L++FN+ D SF EI + +L R L SL+C K ++L K P K + D F
Sbjct: 596 TLVLLMFNEGDGFSFEEIKMATGIEDSELRRTLQSLACGKARVLIKSPKGKEVEDGDKFI 655
Query: 639 FNAKFTDRMRRIRIPL----PPVDDRREINEDVGKDRRHNIDAALVRIMKSRKVLGYQQL 694
FN +F ++ RI+I V+++ E V +DR++ IDAA+VRIMK RK LG+ L
Sbjct: 656 FNGEFKHKLFRIKINQIQMKETVEEQVSTTERVFQDRQYQIDAAIVRIMKMRKTLGHNLL 715
Query: 695 ISECVEMLSHSFKPEIKAIKSRIDDLINREFIERDSKDPTMFNYSA 740
+SE L KP +K RI+ LI+R+++ERD +P ++Y A
Sbjct: 716 VSELYNQLKFPVKP--GDLKKRIESLIDRDYMERDKDNPNQYHYVA 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 = 357 bits (916), Expect = 2e-98, Method: Compositional matrix adjust.
Identities = 223/706 (31%), Positives = 373/706 (52%), Gaps = 40/706 (5%)
Query: 43 LYTIVYDLCSIELPSAQDCSYSQRLYVKYGEVFEEHMQSDVLPSFEDKRGEFM-LREFVK 101
LY V +LCS ++ S LY + + E+H+Q+ +LP ED + L++
Sbjct: 69 LYQAVENLCSHKV--------SPMLYKQLRQACEDHVQAQILPFREDSLDSVLFLKKINT 120
Query: 102 QWENINVMGRWLLRFFEYLDRFYVRSQAGLASLIEVPVVVFRDRVYKD--LKRDVRDTVI 159
W++ + F +LDR YV + L S+ ++ + +FR + D ++ D ++
Sbjct: 121 CWQDHCRQMIMIRSIFLFLDRTYVLQNSTLPSIWDMGLELFRTHIISDKMVQSKTIDGIL 180
Query: 160 ALIDEEREGEKIDRALVKKAVDIFVGIGIL-DMDFYRQDFEEQMIDDAGCYYLRKASSWI 218
LI+ ER GE +DR+L++ +G+L D+ Y+ FE + +++ C Y + +
Sbjct: 181 LLIERERSGEAVDRSLLRSL------LGMLSDLQVYKDSFELKFLEETNCLYAAEGQRLM 234
Query: 219 LNDSCPEYMIKAEECLKKERDRAVYYFHTRSESKLIEKVQHELLVVHRNQLLENEKSGCR 278
PEY+ + L++E DR + Y ++ LI V+ +LL H +L+ G
Sbjct: 235 QEREVPEYLNHVSKRLEEEGDRVITYLDHSTQKPLIACVEKQLLGEHLTAILQK---GLD 291
Query: 279 ALISQEKFDDLSRIFRLYDETRTGLEPVAGIFKQYFIDQGKALVHQAEEDVRNKTANMEQ 338
L+ + + DL+++++L+ R G + + + +Y G A+V E+D +
Sbjct: 292 HLLDENRVPDLAQMYQLFSRVRGGQQALLQHWSEYIKTFGTAIVINPEKD---------K 342
Query: 339 NLVGKILELHDKFMAYVSICFGDHKLFLMALKEAFEVFCNESIVEISSAEILATFCDNLF 398
++V +L+ DK + +CF ++ F+ +KE+FE F N+ AE++A D+
Sbjct: 343 DMVQDLLDFKDKVDHVIEVCFQKNERFVNLMKESFETFINKR--PNKPAELIAKHVDSKL 400
Query: 399 KNSDAEKLSDETVERTMDKVIVLLGYFKYKDLFAEFYRKKLARRLLFDKGGNKDYDKTFL 458
+ + E +DE +ERT+DK+++L + KD+F FY+K LA+RLL K + D +K+ L
Sbjct: 401 RAGNKEA-TDEELERTLDKIMILFRFIHGKDVFEAFYKKDLAKRLLVGKSASVDAEKSML 459
Query: 459 SKLKQHSGGHFTTKMEGMITDVVLARENQTALDDWFSSNLNEKPQFDLSVMVLTTGSWPS 518
SKLK G FT+K+EGM D+ L+++ + + P DL+V +LT G WP+
Sbjct: 460 SKLKHECGAAFTSKLEGMFKDMELSKDIMVHFKQHMQNQSDSGP-IDLTVNILTMGYWPT 518
Query: 519 YKFFGLNLPSEMVKGVESFKKFYGTKTKARKLTWIYSLGNCHVNGKFELKAIELIVSTYQ 578
Y ++L EM+K E FK FY K RKL W +LG+ + +F+ E VS +Q
Sbjct: 519 YTPMEVHLTPEMIKLQEVFKAFYLGKHSGRKLQWQTTLGHAVLKAEFKEGKKEFQVSLFQ 578
Query: 579 AACLMLFNDADRLSFSEILTQLNLNKGDLIRVLHSLSCSKHKILNKEPNTKTISQSDSFE 638
L++FN+ D SF EI + +L R L SL+C K ++L K P K + D F
Sbjct: 579 TLVLLMFNEGDGFSFEEIKMATGIEDSELRRTLQSLACGKARVLIKSPKGKEVEDGDKFI 638
Query: 639 FNAKFTDRMRRIRIPL----PPVDDRREINEDVGKDRRHNIDAALVRIMKSRKVLGYQQL 694
FN +F ++ RI+I V+++ E V +DR++ IDAA+VRIMK RK LG+ L
Sbjct: 639 FNGEFKHKLFRIKINQIQMKETVEEQVSTTERVFQDRQYQIDAAIVRIMKMRKTLGHNLL 698
Query: 695 ISECVEMLSHSFKPEIKAIKSRIDDLINREFIERDSKDPTMFNYSA 740
+SE L KP +K RI+ LI+R+++ERD +P ++Y A
Sbjct: 699 VSELYNQLKFPVKP--GDLKKRIESLIDRDYMERDKDNPNQYHYVA 742
>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 = 340 bits (873), Expect = 1e-93, Method: Compositional matrix adjust.
Identities = 223/705 (31%), Positives = 372/705 (52%), Gaps = 38/705 (5%)
Query: 43 LYTIVYDLCSIELPSAQDCSYSQRLYVKYGEVFEEHMQSDVLPSFEDKRGEFM-LREFVK 101
LY V +LCS ++ S LY + ++ E+H+++ + ED + L++ +
Sbjct: 68 LYQAVENLCSYKI--------SANLYKQLRQICEDHIKAQIHQFREDSLDSVLFLKKIDR 119
Query: 102 QWENINVMGRWLLRFFEYLDRFYVRSQAGLASLIEVPVVVFRDRVYKDLKRDVR--DTVI 159
W+N + F +LDR YV + L S+ ++ + +FR + D K + D ++
Sbjct: 120 CWQNHCRQMIMIRSIFLFLDRTYVLQNSMLPSIWDMGLELFRAHIISDQKVQNKTIDGIL 179
Query: 160 ALIDEEREGEKIDRALVKKAVDIFVGIGILDMDFYRQDFEEQMIDDAGCYYLRKASSWIL 219
LI+ ER GE IDR+L++ + + + I Y+ FE++ +++ Y + +
Sbjct: 180 LLIERERNGEAIDRSLLRSLLSMLSDLQI-----YQDSFEQRFLEETNRLYAAEGQKLMQ 234
Query: 220 NDSCPEYMIKAEECLKKERDRAVYYFHTRSESKLIEKVQHELLVVHRNQLLENEKSGCRA 279
PEY+ + L++E DR + Y ++ LI V+ +LL H +L+ G
Sbjct: 235 EREVPEYLHHVNKRLEEEADRLITYLDQTTQKSLIATVEKQLLGEHLTAILQ---KGLNN 291
Query: 280 LISQEKFDDLSRIFRLYDETRTGLEPVAGIFKQYFIDQGKALVHQAEEDVRNKTANMEQN 339
L+ + + DLS +++L+ R G++ + + +Y G +V E+D +
Sbjct: 292 LLDENRIQDLSLLYQLFSRVRGGVQVLLQQWIEYIKAFGSTIVINPEKD---------KT 342
Query: 340 LVGKILELHDKFMAYVSICFGDHKLFLMALKEAFEVFCNESIVEISSAEILATFCDNLFK 399
+V ++L+ DK + ICF ++ F+ A+KEAFE F N+ AE++A + D+ +
Sbjct: 343 MVQELLDFKDKVDHIIDICFLKNEKFINAMKEAFETFINKR--PNKPAELIAKYVDSKLR 400
Query: 400 NSDAEKLSDETVERTMDKVIVLLGYFKYKDLFAEFYRKKLARRLLFDKGGNKDYDKTFLS 459
+ E +DE +E+ +DK++++ + KD+F FY+K LA+RLL K + D +K+ LS
Sbjct: 401 AGNKEA-TDEELEKMLDKIMIIFRFIYGKDVFEAFYKKDLAKRLLVGKSASVDAEKSMLS 459
Query: 460 KLKQHSGGHFTTKMEGMITDVVLARENQTALDDWFSSNLNEKPQFDLSVMVLTTGSWPSY 519
KLK G FT+K+EGM D+ L+++ + N N +L+V +LT G WP+Y
Sbjct: 460 KLKHECGAAFTSKLEGMFKDMELSKDIMIQFKQYMQ-NQNVPGNIELTVNILTMGYWPTY 518
Query: 520 KFFGLNLPSEMVKGVESFKKFYGTKTKARKLTWIYSLGNCHVNGKFELKAIELIVSTYQA 579
++LP EMVK E FK FY K RKL W +LG+C + +F+ EL VS +Q
Sbjct: 519 VPMEVHLPPEMVKLQEIFKTFYLGKHSGRKLQWQSTLGHCVLKAEFKEGKKELQVSLFQT 578
Query: 580 ACLMLFNDADRLSFSEILTQLNLNKGDLIRVLHSLSCSKHKILNKEPNTKTISQSDSFEF 639
L++FN+ + S EI + G+L R L SL+C K ++L K P K I D F
Sbjct: 579 LVLLMFNEGEEFSLEEIKQATGIEDGELRRTLQSLACGKARVLAKNPKGKDIEDGDKFIC 638
Query: 640 NAKFTDRMRRIRIPL----PPVDDRREINEDVGKDRRHNIDAALVRIMKSRKVLGYQQLI 695
N F ++ RI+I V+++ E V +DR++ IDAA+VRIMK RK L + L+
Sbjct: 639 NDDFKHKLFRIKINQIQMKETVEEQASTTERVFQDRQYQIDAAIVRIMKMRKTLSHNLLV 698
Query: 696 SECVEMLSHSFKPEIKAIKSRIDDLINREFIERDSKDPTMFNYSA 740
SE L KP +K RI+ LI+R+++ERD ++P +NY A
Sbjct: 699 SEVYNQLKFPVKP--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 = 340 bits (872), Expect = 2e-93, Method: Compositional matrix adjust.
Identities = 223/705 (31%), Positives = 372/705 (52%), Gaps = 38/705 (5%)
Query: 43 LYTIVYDLCSIELPSAQDCSYSQRLYVKYGEVFEEHMQSDVLPSFEDKRGEFM-LREFVK 101
LY V +LCS ++ S LY + ++ E+H+++ + ED + L++ +
Sbjct: 53 LYQAVENLCSYKI--------SANLYKQLRQICEDHIKAQIHQFREDSLDSVLFLKKIDR 104
Query: 102 QWENINVMGRWLLRFFEYLDRFYVRSQAGLASLIEVPVVVFRDRVYKDLKRDVR--DTVI 159
W+N + F +LDR YV + L S+ ++ + +FR + D K + D ++
Sbjct: 105 CWQNHCRQMIMIRSIFLFLDRTYVLQNSMLPSIWDMGLELFRAHIISDQKVQNKTIDGIL 164
Query: 160 ALIDEEREGEKIDRALVKKAVDIFVGIGILDMDFYRQDFEEQMIDDAGCYYLRKASSWIL 219
LI+ ER GE IDR+L++ + + + I Y+ FE++ +++ Y + +
Sbjct: 165 LLIERERNGEAIDRSLLRSLLSMLSDLQI-----YQDSFEQRFLEETNRLYAAEGQKLMQ 219
Query: 220 NDSCPEYMIKAEECLKKERDRAVYYFHTRSESKLIEKVQHELLVVHRNQLLENEKSGCRA 279
PEY+ + L++E DR + Y ++ LI V+ +LL H +L+ G
Sbjct: 220 EREVPEYLHHVNKRLEEEADRLITYLDQTTQKSLIATVEKQLLGEHLTAILQ---KGLNN 276
Query: 280 LISQEKFDDLSRIFRLYDETRTGLEPVAGIFKQYFIDQGKALVHQAEEDVRNKTANMEQN 339
L+ + + DLS +++L+ R G++ + + +Y G +V E+D +
Sbjct: 277 LLDENRIQDLSLLYQLFSRVRGGVQVLLQQWIEYIKAFGSTIVINPEKD---------KT 327
Query: 340 LVGKILELHDKFMAYVSICFGDHKLFLMALKEAFEVFCNESIVEISSAEILATFCDNLFK 399
+V ++L+ DK + ICF ++ F+ A+KEAFE F N+ AE++A + D+ +
Sbjct: 328 MVQELLDFKDKVDHIIDICFLKNEKFINAMKEAFETFINKR--PNKPAELIAKYVDSKLR 385
Query: 400 NSDAEKLSDETVERTMDKVIVLLGYFKYKDLFAEFYRKKLARRLLFDKGGNKDYDKTFLS 459
+ E +DE +E+ +DK++++ + KD+F FY+K LA+RLL K + D +K+ LS
Sbjct: 386 AGNKEA-TDEELEKMLDKIMIIFRFIYGKDVFEAFYKKDLAKRLLVGKSASVDAEKSMLS 444
Query: 460 KLKQHSGGHFTTKMEGMITDVVLARENQTALDDWFSSNLNEKPQFDLSVMVLTTGSWPSY 519
KLK G FT+K+EGM D+ L+++ + N N +L+V +LT G WP+Y
Sbjct: 445 KLKHECGAAFTSKLEGMFKDMELSKDIMIQFKQYMQ-NQNVPGNIELTVNILTMGYWPTY 503
Query: 520 KFFGLNLPSEMVKGVESFKKFYGTKTKARKLTWIYSLGNCHVNGKFELKAIELIVSTYQA 579
++LP EMVK E FK FY K RKL W +LG+C + +F+ EL VS +Q
Sbjct: 504 VPMEVHLPPEMVKLQEIFKTFYLGKHSGRKLQWQSTLGHCVLKAEFKEGKKELQVSLFQT 563
Query: 580 ACLMLFNDADRLSFSEILTQLNLNKGDLIRVLHSLSCSKHKILNKEPNTKTISQSDSFEF 639
L++FN+ + S EI + G+L R L SL+C K ++L K P K I D F
Sbjct: 564 LVLLMFNEGEEFSLEEIKQATGIEDGELRRTLQSLACGKARVLAKNPKGKDIEDGDKFIC 623
Query: 640 NAKFTDRMRRIRIPL----PPVDDRREINEDVGKDRRHNIDAALVRIMKSRKVLGYQQLI 695
N F ++ RI+I V+++ E V +DR++ IDAA+VRIMK RK L + L+
Sbjct: 624 NDDFKHKLFRIKINQIQMKETVEEQASTTERVFQDRQYQIDAAIVRIMKMRKTLSHNLLV 683
Query: 696 SECVEMLSHSFKPEIKAIKSRIDDLINREFIERDSKDPTMFNYSA 740
SE L KP +K RI+ LI+R+++ERD ++P +NY A
Sbjct: 684 SEVYNQLKFPVKP--ADLKKRIESLIDRDYMERDKENPNQYNYIA 726
>pdb|1LDJ|A Chain A, Structure Of The Cul1-rbx1-skp1-f Boxskp2 Scf Ubiquitin
Ligase Complex
Length = 760
Score = 298 bits (762), Expect = 9e-81, Method: Compositional matrix adjust.
Identities = 221/760 (29%), Positives = 385/760 (50%), Gaps = 74/760 (9%)
Query: 35 FASEECMTLYTIVYDLCSIELPSAQ------DCSYSQR-------------LYVKYGEVF 75
A M LYT VY+ C+ S Q S S++ LY + E
Sbjct: 21 MAKSRYMELYTHVYNYCTSVHQSNQARGAGVPPSKSKKGQTPGGAQFVGLELYKRLKEFL 80
Query: 76 EEHMQSDVLPSFEDKRGEFMLREFVKQWENINVMGRWLLRFFEYLDRFYVRSQA-----G 130
+ ++ +++L ED E +L+ + +QWE+ + L YL+R +VR + G
Sbjct: 81 KNYL-TNLLKDGEDLMDESVLKFYTQQWEDYRFSSKVLNGICAYLNRHWVRRECDEGRKG 139
Query: 131 LASLIEVPVVVFRDRVYKDLKRDVRDTVIALIDEEREGEKIDRALVKKAVDIFVGIGILD 190
+ + + +V +RD +++ L + V + V+ LI++ER GE I+ L+ V +V +G+ +
Sbjct: 140 IYEIYSLALVTWRDCLFRPLNKQVTNAVLKLIEKERNGETINTRLISGVVQSYVELGLNE 199
Query: 191 MD---------FYRQDFEEQMIDDAGCYYLRKASSWILNDSCPEYMIKAEECLKKERDRA 241
D Y++ FE Q + D +Y R+++ ++ + EYM KAE L +E+ R
Sbjct: 200 DDAFAKGPTLTVYKESFESQFLADTERFYTRESTEFLQQNPVTEYMKKAEARLLEEQRRV 259
Query: 242 VYYFHTRSESKLIEKVQHELLVVHRNQLLENEKSGCRALISQEKFDDLSRIFRLYDETRT 301
Y H ++ +L K + L+ H LE + + L+ +K +DL R++ L +
Sbjct: 260 QVYLHESTQDELARKCEQVLIEKH----LEIFHTEFQNLLDADKNEDLGRMYNLVSRIQD 315
Query: 302 GLEPVAGIFKQYFIDQGKALVHQAEEDVRNKTANMEQNLVGKILELHDKFMAYVSICFGD 361
GL + + + + +QG A + + E N + V +L++H K+ A V F +
Sbjct: 316 GLGELKKLLETHIHNQGLAAIEKCGEAALNDP----KMYVQTVLDVHKKYNALVMSAFNN 371
Query: 362 HKLFLMALKEAFEVFCNESIV------EISSAEILATFCDNLFKNSDAEKLSDETVERTM 415
F+ AL +A F N + V S E+LA +CD+L K S ++ + +E T+
Sbjct: 372 DAGFVAALDKACGRFINNNAVTKMAQSSSKSPELLARYCDSLLKKS-SKNPEEAELEDTL 430
Query: 416 DKVIVLLGYFKYKDLFAEFYRKKLARRLLFDKGGNKDYDKTFLSKLKQHSGGHFTTKMEG 475
++V+V+ Y + KD+F +FY K LA+RL+ + D + + +SKLKQ G +T+K++
Sbjct: 431 NQVMVVFKYIEDKDVFQKFYAKMLAKRLVHQNSASDDAEASMISKLKQACGFEYTSKLQR 490
Query: 476 MITDVVLARENQTALDDWFSSNL-NEKP-QFDLSVMVLTTGSWPSYKFFGLNLPSEMVKG 533
M D+ ++++ L++ F +L N +P D S+ VL++GSWP + LPSE+ +
Sbjct: 491 MFQDIGVSKD----LNEQFKKHLTNSEPLDLDFSIQVLSSGSWPFQQSCTFALPSELERS 546
Query: 534 VESFKKFYGTKTKARKLTWIYSLG------NCHVNGKFELKAIELIVSTYQAACLMLFND 587
+ F FY ++ RKLTW+Y L NC N ++ L+A ST+Q A L+ +N
Sbjct: 547 YQRFTAFYASRHSGRKLTWLYQLSKGELVTNCFKN-RYTLQA-----STFQMAILLQYNT 600
Query: 588 ADRLSFSEILTQLNLNKGDLIRVLHSLSCSKHKILNKE-PNTKTIS-QSDSF-EFNAKFT 644
D + ++ + L +VL L SK +L E N + + D+ + +
Sbjct: 601 EDAYTVQQLTDSTQIKMDILAQVLQILLKSKLLVLEDENANVDEVELKPDTLIKLYLGYK 660
Query: 645 DRMRRIRIPLPPVDDRREINE----DVGKDRRHNIDAALVRIMKSRKVLGYQQLISECVE 700
++ R+ I +P ++++ E ++ +DR+ I AA+VRIMK RKVL +QQL+ E +
Sbjct: 661 NKKLRVNINVPMKTEQKQEQETTHKNIEEDRKLLIQAAIVRIMKMRKVLKHQQLLGEVLT 720
Query: 701 MLSHSFKPEIKAIKSRIDDLINREFIERDSKDPTMFNYSA 740
LS FKP + IK ID LI +E++ER + ++Y A
Sbjct: 721 QLSSRFKPRVPVIKKCIDILIEKEYLERVDGEKDTYSYLA 760
>pdb|1U6G|A Chain A, Crystal Structure Of The Cand1-Cul1-Roc1 Complex
Length = 776
Score = 298 bits (762), Expect = 1e-80, Method: Compositional matrix adjust.
Identities = 221/760 (29%), Positives = 385/760 (50%), Gaps = 74/760 (9%)
Query: 35 FASEECMTLYTIVYDLCSIELPSAQ------DCSYSQR-------------LYVKYGEVF 75
A M LYT VY+ C+ S Q S S++ LY + E
Sbjct: 37 MAKSRYMELYTHVYNYCTSVHQSNQARGAGVPPSKSKKGQTPGGAQFVGLELYKRLKEFL 96
Query: 76 EEHMQSDVLPSFEDKRGEFMLREFVKQWENINVMGRWLLRFFEYLDRFYVRSQA-----G 130
+ ++ +++L ED E +L+ + +QWE+ + L YL+R +VR + G
Sbjct: 97 KNYL-TNLLKDGEDLMDESVLKFYTQQWEDYRFSSKVLNGICAYLNRHWVRRECDEGRKG 155
Query: 131 LASLIEVPVVVFRDRVYKDLKRDVRDTVIALIDEEREGEKIDRALVKKAVDIFVGIGILD 190
+ + + +V +RD +++ L + V + V+ LI++ER GE I+ L+ V +V +G+ +
Sbjct: 156 IYEIYSLALVTWRDCLFRPLNKQVTNAVLKLIEKERNGETINTRLISGVVQSYVELGLNE 215
Query: 191 MD---------FYRQDFEEQMIDDAGCYYLRKASSWILNDSCPEYMIKAEECLKKERDRA 241
D Y++ FE Q + D +Y R+++ ++ + EYM KAE L +E+ R
Sbjct: 216 DDAFAKGPTLTVYKESFESQFLADTERFYTRESTEFLQQNPVTEYMKKAEARLLEEQRRV 275
Query: 242 VYYFHTRSESKLIEKVQHELLVVHRNQLLENEKSGCRALISQEKFDDLSRIFRLYDETRT 301
Y H ++ +L K + L+ H LE + + L+ +K +DL R++ L +
Sbjct: 276 QVYLHESTQDELARKCEQVLIEKH----LEIFHTEFQNLLDADKNEDLGRMYNLVSRIQD 331
Query: 302 GLEPVAGIFKQYFIDQGKALVHQAEEDVRNKTANMEQNLVGKILELHDKFMAYVSICFGD 361
GL + + + + +QG A + + E N + V +L++H K+ A V F +
Sbjct: 332 GLGELKKLLETHIHNQGLAAIEKCGEAALNDP----KMYVQTVLDVHKKYNALVMSAFNN 387
Query: 362 HKLFLMALKEAFEVFCNESIV------EISSAEILATFCDNLFKNSDAEKLSDETVERTM 415
F+ AL +A F N + V S E+LA +CD+L K S ++ + +E T+
Sbjct: 388 DAGFVAALDKACGRFINNNAVTKMAQSSSKSPELLARYCDSLLKKS-SKNPEEAELEDTL 446
Query: 416 DKVIVLLGYFKYKDLFAEFYRKKLARRLLFDKGGNKDYDKTFLSKLKQHSGGHFTTKMEG 475
++V+V+ Y + KD+F +FY K LA+RL+ + D + + +SKLKQ G +T+K++
Sbjct: 447 NQVMVVFKYIEDKDVFQKFYAKMLAKRLVHQNSASDDAEASMISKLKQACGFEYTSKLQR 506
Query: 476 MITDVVLARENQTALDDWFSSNL-NEKP-QFDLSVMVLTTGSWPSYKFFGLNLPSEMVKG 533
M D+ ++++ L++ F +L N +P D S+ VL++GSWP + LPSE+ +
Sbjct: 507 MFQDIGVSKD----LNEQFKKHLTNSEPLDLDFSIQVLSSGSWPFQQSCTFALPSELERS 562
Query: 534 VESFKKFYGTKTKARKLTWIYSLG------NCHVNGKFELKAIELIVSTYQAACLMLFND 587
+ F FY ++ RKLTW+Y L NC N ++ L+A ST+Q A L+ +N
Sbjct: 563 YQRFTAFYASRHSGRKLTWLYQLSKGELVTNCFKN-RYTLQA-----STFQMAILLQYNT 616
Query: 588 ADRLSFSEILTQLNLNKGDLIRVLHSLSCSKHKILNKE-PNTKTIS-QSDSF-EFNAKFT 644
D + ++ + L +VL L SK +L E N + + D+ + +
Sbjct: 617 EDAYTVQQLTDSTQIKMDILAQVLQILLKSKLLVLEDENANVDEVELKPDTLIKLYLGYK 676
Query: 645 DRMRRIRIPLPPVDDRREINE----DVGKDRRHNIDAALVRIMKSRKVLGYQQLISECVE 700
++ R+ I +P ++++ E ++ +DR+ I AA+VRIMK RKVL +QQL+ E +
Sbjct: 677 NKKLRVNINVPMKTEQKQEQETTHKNIEEDRKLLIQAAIVRIMKMRKVLKHQQLLGEVLT 736
Query: 701 MLSHSFKPEIKAIKSRIDDLINREFIERDSKDPTMFNYSA 740
LS FKP + IK ID LI +E++ER + ++Y A
Sbjct: 737 QLSSRFKPRVPVIKKCIDILIEKEYLERVDGEKDTYSYLA 776
>pdb|1LDK|B Chain B, Structure Of The Cul1-Rbx1-Skp1-F Boxskp2 Scf Ubiquitin
Ligase Complex
Length = 366
Score = 188 bits (478), Expect = 8e-48, Method: Compositional matrix adjust.
Identities = 122/370 (32%), Positives = 206/370 (55%), Gaps = 26/370 (7%)
Query: 386 SAEILATFCDNLFKNSDAEKLSDETVERTMDKVIVLLGYFKYKDLFAEFYRKKLARRLLF 445
S E+LA +CD+L K S ++ + +E T+++V+V+ Y + KD+F +FY K LA+RL+
Sbjct: 8 SPELLARYCDSLLKKS-SKNPEEAELEDTLNQVMVVFKYIEDKDVFQKFYAKMLAKRLVH 66
Query: 446 DKGGNKDYDKTFLSKLKQHSGGHFTTKMEGMITDVVLARENQTALDDWFSSNL-NEKP-Q 503
+ D + + +SKLKQ G +T+K++ M D+ ++++ L++ F +L N +P
Sbjct: 67 QNSASDDAEASMISKLKQACGFEYTSKLQRMFQDIGVSKD----LNEQFKKHLTNSEPLD 122
Query: 504 FDLSVMVLTTGSWPSYKFFGLNLPSEMVKGVESFKKFYGTKTKARKLTWIYSLG------ 557
D S+ VL++GSWP + LPSE+ + + F FY ++ RKLTW+Y L
Sbjct: 123 LDFSIQVLSSGSWPFQQSCTFALPSELERSYQRFTAFYASRHSGRKLTWLYQLSKGELVT 182
Query: 558 NCHVNGKFELKAIELIVSTYQAACLMLFNDADRLSFSEILTQLNLNKGDLIRVLHSLSCS 617
NC N ++ L+A ST+Q A L+ +N D + ++ + L +VL L S
Sbjct: 183 NCFKN-RYTLQA-----STFQMAILLQYNTEDAYTVQQLTDSTQIKMDILAQVLQILLKS 236
Query: 618 KHKILNKE-PNTKTIS-QSDSF-EFNAKFTDRMRRIRIPLPPVDDRREINE----DVGKD 670
K +L E N + + D+ + + ++ R+ I +P ++++ E ++ +D
Sbjct: 237 KLLVLEDENANVDEVELKPDTLIKLYLGYKNKKLRVNINVPMKTEQKQEQETTHKNIEED 296
Query: 671 RRHNIDAALVRIMKSRKVLGYQQLISECVEMLSHSFKPEIKAIKSRIDDLINREFIERDS 730
R+ I AA+VRIMK RKVL +QQL+ E + LS FKP + IK ID LI +E++ER
Sbjct: 297 RKLLIQAAIVRIMKMRKVLKHQQLLGEVLTQLSSRFKPRVPVIKKCIDILIEKEYLERVD 356
Query: 731 KDPTMFNYSA 740
+ ++Y A
Sbjct: 357 GEKDTYSYLA 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 = 178 bits (452), Expect = 9e-45, Method: Compositional matrix adjust.
Identities = 120/370 (32%), Positives = 202/370 (54%), Gaps = 26/370 (7%)
Query: 386 SAEILATFCDNLFKNSDAEKLSDETVERTMDKVIVLLGYFKYKDLFAEFYRKKLARRLLF 445
S E LA +CD+L K S ++ + +E T+++V+ + KD+F +FY K LA+RL+
Sbjct: 10 SPEELARYCDSLLKKS-SKNPEEAELEDTLNQVMEKFKKIEDKDVFQKFYAKMLAKRLVH 68
Query: 446 DKGGNKDYDKTFLSKLKQHSGGHFTTKMEGMITDVVLARENQTALDDWFSSNL-NEKP-Q 503
+ D + + +SKLKQ G +T+K++ M D+ ++++ L++ F +L N +P
Sbjct: 69 QNSASDDAEASMISKLKQACGFEYTSKLQRMFQDIGVSKD----LNEQFKKHLTNSEPLD 124
Query: 504 FDLSVMVLTTGSWPSYKFFGLNLPSEMVKGVESFKKFYGTKTKARKLTWIYSLG------ 557
D S+ VL++GSWP + LPSE+ + + F FY ++ RKLTW+Y L
Sbjct: 125 LDFSIQVLSSGSWPFQQSCTFALPSELERSYQRFTAFYASRHSGRKLTWLYQLSKGELVT 184
Query: 558 NCHVNGKFELKAIELIVSTYQAACLMLFNDADRLSFSEILTQLNLNKGDLIRVLHSLSCS 617
NC N ++ L+A ST+Q A L+ +N D + ++ + L +VL L S
Sbjct: 185 NCFKN-RYTLQA-----STFQMAILLQYNTEDAYTVQQLTDSTQIKMDILAQVLQILLKS 238
Query: 618 KHKILNKE-PNTKTIS-QSDSF-EFNAKFTDRMRRIRIPLPPVDDRREINE----DVGKD 670
K +L E N + + D+ + + ++ R+ I +P ++++ E ++ +D
Sbjct: 239 KLLVLEDENANVDEVELKPDTLIKLYLGYKNKKLRVNINVPMKTEQKQEQETTHKNIEED 298
Query: 671 RRHNIDAALVRIMKSRKVLGYQQLISECVEMLSHSFKPEIKAIKSRIDDLINREFIERDS 730
R+ I AA+VRIMK RKVL +QQL+ E + LS FKP + IK ID LI +E++ER
Sbjct: 299 RKLLIQAAIVRIMKMRKVLKHQQLLGEVLTQLSSRFKPRVPVIKKCIDILIEKEYLERVD 358
Query: 731 KDPTMFNYSA 740
+ ++Y A
Sbjct: 359 GEKDTYSYLA 368
>pdb|3DPL|C Chain C, Structural Insights Into Nedd8 Activation Of Cullin-Ring
Ligases: Conformational Control Of Conjugation
Length = 382
Score = 127 bits (318), Expect = 3e-29, Method: Compositional matrix adjust.
Identities = 107/381 (28%), Positives = 182/381 (47%), Gaps = 24/381 (6%)
Query: 383 EISSAEILATFCDNLFKNSD-AEKLSDETVERTMDKVIVLLGYFKYKDLFAEFYRKKLAR 441
E E LA +CD L + + ++KL+ E +E + +V+ L Y + KD+F +++ L R
Sbjct: 3 ESKCPEELANYCDMLLRKTPLSKKLTSEEIEAKLKEVLKKLKYVQNKDVFMRYHKAHLTR 62
Query: 442 RLLFDKGGNKDYDKTFLSKLKQHS-GGHFTTKMEGMITDVVLARENQTALDDWFSSNLNE 500
RL+ D + + ++ + L++ + K+ M D+ ++ + A + +N
Sbjct: 63 RLILDISADSEIEENMVEWLREVGMPADYVNKLARMFQDIKVSEDLNQAFKEMHKNNKLA 122
Query: 501 KPQFDLSVMVLTTGSWP--SYKFFGLNLPSEMVKGVESFKKFYGTKTKARKLTWIYSLGN 558
P +++ +L G+W S K F ++LP+E+ + ++FY RKL W + + N
Sbjct: 123 LPADSVNIKILNAGAWSRSSEKVF-VSLPTELEDLIPEVEEFYKKNHSGRKLHWHHLMSN 181
Query: 559 CHVNGKFELKAIELIVSTYQAACLMLFNDADR--LSFSEILTQLNLNKGDLIRVLHSLSC 616
+ K E+ +L V+T+Q A L +N R +SF + L +L R L SL
Sbjct: 182 GIITFKNEVGQYDLEVTTFQLAVLFAWNQRPREKISFENLKLATELPDAELRRTLWSLVA 241
Query: 617 ---SKHKILNKEPNTKT-----------ISQSDSFEFNAKFTDRMRRI---RIPLPPVDD 659
K ++L EP + ++Q S NAK R + R+ L
Sbjct: 242 FPKLKRQVLLYEPQVNSPKDFTEGTLFSVNQEFSLIKNAKVQKRGKINLIGRLQLTTERM 301
Query: 660 RREINEDVGKDRRHNIDAALVRIMKSRKVLGYQQLISECVEMLSHSFKPEIKAIKSRIDD 719
R E NE + + R A+++IMK RK + QL +E VE+L + F P+ K IK +I+
Sbjct: 302 REEENEGIVQLRILRTQEAIIQIMKMRKKISNAQLQTELVEILKNMFLPQKKMIKEQIEW 361
Query: 720 LINREFIERDSKDPTMFNYSA 740
LI ++I RD D F Y A
Sbjct: 362 LIEHKYIRRDESDINTFIYMA 382
>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 = 122 bits (306), Expect = 8e-28, Method: Compositional matrix adjust.
Identities = 80/248 (32%), Positives = 134/248 (54%), Gaps = 19/248 (7%)
Query: 386 SAEILATFCDNLFKNSDAEKLSDETVERTMDKVIVLLGYFKYKDLFAEFYRKKLARRLLF 445
S E LA +CD+L K S ++ + +E T+++V+ + KD+F +FY K LA+RL+
Sbjct: 10 SPEELARYCDSLLKKS-SKNPEEAELEDTLNQVMEKFKKIEDKDVFQKFYAKMLAKRLVH 68
Query: 446 DKGGNKDYDKTFLSKLKQHSGGHFTTKMEGMITDVVLARENQTALDDWFSSNL-NEKP-Q 503
+ D + + +SKLKQ G +T+K++ M D+ ++++ L++ F +L N +P
Sbjct: 69 QNSASDDAEASMISKLKQACGFEYTSKLQRMFQDIGVSKD----LNEQFKKHLTNSEPLD 124
Query: 504 FDLSVMVLTTGSWPSYKFFGLNLPSEMVKGVESFKKFYGTKTKARKLTWIYSLG------ 557
D S+ VL++GSWP + LPSE+ + + F FY ++ RKLTW+Y L
Sbjct: 125 LDFSIQVLSSGSWPFQQSCTFALPSELERSYQRFTAFYASRHSGRKLTWLYQLSKGELVT 184
Query: 558 NCHVNGKFELKAIELIVSTYQAACLMLFNDADRLSFSEILTQLNLNKGDLIRVLHSLSCS 617
NC N ++ L+A ST+Q A L+ +N D + ++ + L +VL L S
Sbjct: 185 NCFKN-RYTLQA-----STFQMAILLQYNTEDAYTVQQLTDSTQIKMDILAQVLQILLKS 238
Query: 618 KHKILNKE 625
K +L E
Sbjct: 239 KLLVLEDE 246
>pdb|1LDK|A Chain A, Structure Of The Cul1-Rbx1-Skp1-F Boxskp2 Scf Ubiquitin
Ligase Complex
Length = 396
Score = 122 bits (305), Expect = 1e-27, Method: Compositional matrix adjust.
Identities = 99/381 (25%), Positives = 179/381 (46%), Gaps = 42/381 (11%)
Query: 35 FASEECMTLYTIVYDLCSIELPSAQ------DCSYSQR-------------LYVKYGEVF 75
A M LYT VY+ C+ S Q S S++ LY + E
Sbjct: 23 MAKSRYMELYTHVYNYCTSVHQSNQARGAGVPPSKSKKGQTPGGAQFVGLELYKRLKEFL 82
Query: 76 EEHMQSDVLPSFEDKRGEFMLREFVKQWENINVMGRWLLRFFEYLDRFYVRSQA-----G 130
+ ++ +++L ED E +L+ + +QWE+ + L YL+R +VR + G
Sbjct: 83 KNYL-TNLLKDGEDLMDESVLKFYTQQWEDYRFSSKVLNGICAYLNRHWVRRECDEGRKG 141
Query: 131 LASLIEVPVVVFRDRVYKDLKRDVRDTVIALIDEEREGEKIDRALVKKAVDIFVGIGILD 190
+ + + +V +RD +++ L + V + V+ LI++ER GE I+ L+ V +V +G+ +
Sbjct: 142 IYEIYSLALVTWRDCLFRPLNKQVTNAVLKLIEKERNGETINTRLISGVVQSYVELGLNE 201
Query: 191 MD---------FYRQDFEEQMIDDAGCYYLRKASSWILNDSCPEYMIKAEECLKKERDRA 241
D Y++ FE Q + D +Y R+++ ++ + EYM KAE L +E+ R
Sbjct: 202 DDAFAKGPTLTVYKESFESQFLADTERFYTRESTEFLQQNPVTEYMKKAEARLLEEQRRV 261
Query: 242 VYYFHTRSESKLIEKVQHELLVVHRNQLLENEKSGCRALISQEKFDDLSRIFRLYDETRT 301
Y H ++ +L K + L+ H LE + + L+ +K +DL R++ L +
Sbjct: 262 QVYLHESTQDELARKCEQVLIEKH----LEIFHTEFQNLLDADKNEDLGRMYNLVSRIQD 317
Query: 302 GLEPVAGIFKQYFIDQGKALVHQAEEDVRNKTANMEQNLVGKILELHDKFMAYVSICFGD 361
GL + + + + +QG A + + E N + V +L++H K+ A V F +
Sbjct: 318 GLGELKKLLETHIHNQGLAAIEKCGEAALNDP----KMYVQTVLDVHKKYNALVMSAFNN 373
Query: 362 HKLFLMALKEAFEVFCNESIV 382
F+ AL +A F N + V
Sbjct: 374 DAGFVAALDKACGRFINNNAV 394
>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 = 114 bits (285), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 105/381 (27%), Positives = 179/381 (46%), Gaps = 24/381 (6%)
Query: 383 EISSAEILATFCDNLFKNSD-AEKLSDETVERTMDKVIVLLGYFKYKDLFAEFYRKKLAR 441
E E LA +CD L + + ++KL+ E +E + +V+ L Y + KD+F +++ L R
Sbjct: 3 ESKCPEELANYCDXLLRKTPLSKKLTSEEIEAKLKEVLKKLKYVQNKDVFXRYHKAHLTR 62
Query: 442 RLLFDKGGNKDYDKTFLSKLKQ-HSGGHFTTKMEGMITDVVLARENQTALDDWFSSNLNE 500
RL+ D + + ++ + L++ + K+ D+ ++ + A + +N
Sbjct: 63 RLILDISADSEIEENXVEWLREVGXPADYVNKLARXFQDIKVSEDLNQAFKEXHKNNKLA 122
Query: 501 KPQFDLSVMVLTTGSWP--SYKFFGLNLPSEMVKGVESFKKFYGTKTKARKLTWIYSLGN 558
P +++ +L G+W S K F ++LP+E+ + ++FY RKL W + N
Sbjct: 123 LPADSVNIKILNAGAWSRSSEKVF-VSLPTELEDLIPEVEEFYKKNHSGRKLHWHHLXSN 181
Query: 559 CHVNGKFELKAIELIVSTYQAACLMLFNDADR--LSFSEILTQLNLNKGDLIRVLHSLSC 616
+ K E+ +L V+T+Q A L +N R +SF + L +L R L SL
Sbjct: 182 GIITFKNEVGQYDLEVTTFQLAVLFAWNQRPREKISFENLKLATELPDAELRRTLWSLVA 241
Query: 617 ---SKHKILNKEPNTKT-----------ISQSDSFEFNAKFTDRMRRI---RIPLPPVDD 659
K ++L EP + ++Q S NAK R + R+ L
Sbjct: 242 FPKLKRQVLLYEPQVNSPKDFTEGTLFSVNQEFSLIKNAKVQKRGKINLIGRLQLTTERX 301
Query: 660 RREINEDVGKDRRHNIDAALVRIMKSRKVLGYQQLISECVEMLSHSFKPEIKAIKSRIDD 719
R E NE + + R A+++I K RK + QL +E VE+L + F P+ K IK +I+
Sbjct: 302 REEENEGIVQLRILRTQEAIIQIXKXRKKISNAQLQTELVEILKNXFLPQKKXIKEQIEW 361
Query: 720 LINREFIERDSKDPTMFNYSA 740
LI ++I RD D F Y A
Sbjct: 362 LIEHKYIRRDESDINTFIYXA 382
>pdb|4AP2|B Chain B, Crystal Structure Of The Human Klhl11-cul3 Complex At 2.8a
Resolution
Length = 410
Score = 113 bits (283), Expect = 3e-25, Method: Compositional matrix adjust.
Identities = 79/322 (24%), Positives = 157/322 (48%), Gaps = 17/322 (5%)
Query: 63 YSQRLYVKYGEVFEEHM----QSDVLPSFEDKRGEFMLREFVKQWENINVMGRWLLRFFE 118
+ ++LY EV EH+ + DVL S + L+ + W + +
Sbjct: 69 HGEKLYTGLREVVTEHLINKVREDVLNSLNNN----FLQTLNQAWNDHQTAMVMIRDILM 124
Query: 119 YLDRFYVRSQAGLASLIEVPVVVFRDRV--YKDLKRDVRDTVIALIDEEREGEKIDRALV 176
Y+DR YV+ Q + ++ + +++FRD+V Y ++ +R T++ +I ER+GE +DR +
Sbjct: 125 YMDRVYVQ-QNNVENVYNLGLIIFRDQVVRYGCIRDHLRQTLLDMIARERKGEVVDRGAI 183
Query: 177 KKAVDIFVGIGILDMDFYRQDFEEQMIDDAGCYYLRKASSWILNDSCPEYMIKAEECLKK 236
+ A + + +G+ Y +DFE ++ + ++ ++ ++ +S Y+ K E + +
Sbjct: 184 RNACQMLMILGLEGRSVYEEDFEAPFLEMSAEFFQMESQKFLAENSASVYIKKVEARINE 243
Query: 237 ERDRAVYYFHTRSESKLIEKVQHELLVVHRNQLLENEKSGCRALISQEKFDDLSRIFRLY 296
E +R ++ +E +++ V+ EL+ H ++E E SG ++ K +DL +++L+
Sbjct: 244 EIERVMHCLDKSTEEPIVKVVERELISKHMKTIVEMENSGLVHMLKNGKTEDLGCMYKLF 303
Query: 297 DETRTGLEPVAGIFKQYFIDQGKALVHQAEEDVRNKTANMEQNLVGKILELHDKFMAYVS 356
GL+ + Y +QGKALV +EE + Q L +L +F ++
Sbjct: 304 SRVPNGLKTMCECMSSYLREQGKALV--SEEGEGKNPVDYRQGLD----DLKSRFDRFLL 357
Query: 357 ICFGDHKLFLMALKEAFEVFCN 378
F + +LF + FE F N
Sbjct: 358 ESFNNDRLFKQTIAGDFEYFLN 379
>pdb|4APF|B Chain B, Crystal Structure Of The Human Klhl11-cul3 Complex At 3.1a
Resolution
Length = 388
Score = 112 bits (281), Expect = 6e-25, Method: Compositional matrix adjust.
Identities = 79/322 (24%), Positives = 157/322 (48%), Gaps = 17/322 (5%)
Query: 63 YSQRLYVKYGEVFEEHM----QSDVLPSFEDKRGEFMLREFVKQWENINVMGRWLLRFFE 118
+ ++LY EV EH+ + DVL S + L+ + W + +
Sbjct: 47 HGEKLYTGLREVVTEHLINKVREDVLNSLNNN----FLQTLNQAWNDHQTAMVMIRDILM 102
Query: 119 YLDRFYVRSQAGLASLIEVPVVVFRDRV--YKDLKRDVRDTVIALIDEEREGEKIDRALV 176
Y+DR YV+ Q + ++ + +++FRD+V Y ++ +R T++ +I ER+GE +DR +
Sbjct: 103 YMDRVYVQ-QNNVENVYNLGLIIFRDQVVRYGCIRDHLRQTLLDMIARERKGEVVDRGAI 161
Query: 177 KKAVDIFVGIGILDMDFYRQDFEEQMIDDAGCYYLRKASSWILNDSCPEYMIKAEECLKK 236
+ A + + +G+ Y +DFE ++ + ++ ++ ++ +S Y+ K E + +
Sbjct: 162 RNACQMLMILGLEGRSVYEEDFEAPFLEMSAEFFQMESQKFLAENSASVYIKKVEARINE 221
Query: 237 ERDRAVYYFHTRSESKLIEKVQHELLVVHRNQLLENEKSGCRALISQEKFDDLSRIFRLY 296
E +R ++ +E +++ V+ EL+ H ++E E SG ++ K +DL +++L+
Sbjct: 222 EIERVMHCLDKSTEEPIVKVVERELISKHMKTIVEMENSGLVHMLKNGKTEDLGCMYKLF 281
Query: 297 DETRTGLEPVAGIFKQYFIDQGKALVHQAEEDVRNKTANMEQNLVGKILELHDKFMAYVS 356
GL+ + Y +QGKALV +EE + Q L +L +F ++
Sbjct: 282 SRVPNGLKTMCECMSSYLREQGKALV--SEEGEGKNPVDYRQGLD----DLKSRFDRFLL 335
Query: 357 ICFGDHKLFLMALKEAFEVFCN 378
F + +LF + FE F N
Sbjct: 336 ESFNNDRLFKQTIAGDFEYFLN 357
>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 = 107 bits (268), Expect = 2e-23, Method: Compositional matrix adjust.
Identities = 79/322 (24%), Positives = 149/322 (46%), Gaps = 17/322 (5%)
Query: 63 YSQRLYVKYGEVFEEHM----QSDVLPSFEDKRGEFMLREFVKQWENINVMGRWLLRFFE 118
+ ++LY EV EH+ + DVL S + L+ + W + +
Sbjct: 52 HGEKLYTGLREVVTEHLINKVREDVLNSLNNN----FLQTLNQAWNDHQTAXVXIRDILX 107
Query: 119 YLDRFYVRSQAGLASLIEVPVVVFRDRV--YKDLKRDVRDTVIALIDEEREGEKIDRALV 176
Y DR YV+ Q + ++ + +++FRD+V Y ++ +R T++ I ER+GE +DR +
Sbjct: 108 YXDRVYVQ-QNNVENVYNLGLIIFRDQVVRYGCIRDHLRQTLLDXIARERKGEVVDRGAI 166
Query: 177 KKAVDIFVGIGILDMDFYRQDFEEQMIDDAGCYYLRKASSWILNDSCPEYMIKAEECLKK 236
+ A +G+ Y +DFE ++ + ++ ++ ++ +S Y+ K E + +
Sbjct: 167 RNACQXLXILGLEGRSVYEEDFEAPFLEXSAEFFQXESQKFLAENSASVYIKKVEARINE 226
Query: 237 ERDRAVYYFHTRSESKLIEKVQHELLVVHRNQLLENEKSGCRALISQEKFDDLSRIFRLY 296
E +R + +E +++ V+ EL+ H ++E E SG + K +DL ++L+
Sbjct: 227 EIERVXHCLDKSTEEPIVKVVERELISKHXKTIVEXENSGLVHXLKNGKTEDLGCXYKLF 286
Query: 297 DETRTGLEPVAGIFKQYFIDQGKALVHQAEEDVRNKTANMEQNLVGKILELHDKFMAYVS 356
GL+ Y +QGKALV +EE + Q L +L +F ++
Sbjct: 287 SRVPNGLKTXCECXSSYLREQGKALV--SEEGEGKNPVDYRQGLD----DLKSRFDRFLL 340
Query: 357 ICFGDHKLFLMALKEAFEVFCN 378
F + +LF + FE F N
Sbjct: 341 ESFNNDRLFKQTIAGDFEYFLN 362
>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 = 102 bits (255), Expect = 6e-22, Method: Compositional matrix adjust.
Identities = 89/339 (26%), Positives = 164/339 (48%), Gaps = 28/339 (8%)
Query: 43 LYTIVYDLCSIELPSAQDCSYSQRLYVKYGEVFEEHMQSDVLPSFEDKRGEFM-LREFVK 101
LY V +LCS ++ S LY + ++ E+H+++ + ED + L++ +
Sbjct: 37 LYQAVENLCSYKI--------SANLYKQLRQICEDHIKAQIHQFREDSLDSVLFLKKIDR 88
Query: 102 QWENINVMGRWLLRFFEYLDRFYVRSQAGLASLIEVPVVVFRDRVYKDLKRDVR--DTVI 159
W+N + F +LDR YV + L S+ ++ + +FR + D K + D ++
Sbjct: 89 CWQNHCRQMIMIRSIFLFLDRTYVLQNSMLPSIWDMGLELFRAHIISDQKVQNKTIDGIL 148
Query: 160 ALIDEEREGEKIDRALVKKAVDIFVGIGILDMDFYRQDFEEQMIDDAGCYYLRKASSWIL 219
LI+ ER GE IDR+L++ + + + I Y+ FE++ +++ Y + +
Sbjct: 149 LLIERERNGEAIDRSLLRSLLSMLSDLQI-----YQDSFEQRFLEETNRLYAAEGQKLMQ 203
Query: 220 NDSCPEYMIKAEECLKKERDRAVYYFHTRSESKLIEKVQHELLVVHRNQLLENEKSGCRA 279
PEY+ + L++E DR + Y ++ LI V+ +LL H +L+ G
Sbjct: 204 EREVPEYLHHVNKRLEEEADRLITYLDQTTQKSLIATVEKQLLGEHLTAILQ---KGLNN 260
Query: 280 LISQEKFDDLSRIFRLYDETRTGLEPVAGIFKQYFIDQGKALVHQAEEDVRNKTANMEQN 339
L+ + + DLS +++L+ R G++ + + +Y G +V E+D KT E +
Sbjct: 261 LLDENRIQDLSLLYQLFSRVRGGVQVLLQQWIEYIKAFGSTIVINPEKD---KTMRQELD 317
Query: 340 LVGKILELHDKFMAYVSICFGDHKLFLMALKEAFEVFCN 378
+ DK + ICF ++ F+ A+KEAFE F N
Sbjct: 318 ------DFKDKVDHIIDICFLKNEKFINAMKEAFETFIN 350
>pdb|2WZK|A Chain A, Structure Of The Cul5 N-Terminal Domain At 2.05a
Resolution
Length = 391
Score = 82.4 bits (202), Expect = 8e-16, Method: Compositional matrix adjust.
Identities = 59/245 (24%), Positives = 112/245 (45%), Gaps = 7/245 (2%)
Query: 141 VFRDRVYKDLKRDVRDTVIALIDEEREGEKIDRALVKKAVDIFVGIGILDMD---FYRQD 197
+ + ++ ++K ++D+ + L+ ER GE D LV + +V + D YR +
Sbjct: 142 TWNESIFSNIKNRLQDSAMKLVHAERLGEAFDSQLVIGVRESYVNLCSNPEDKLQIYRDN 201
Query: 198 FEEQMIDDAGCYYLRKASSWILNDSCPEYMIKAEECLKKERDRAVYYFHTRSESKLIEKV 257
FE+ +D +Y +A S++ + YM A+ LK+E RA+ Y TR E +E +
Sbjct: 202 FEKAYLDSTERFYRTQAPSYLQQNGVQNYMKYADAKLKEEEKRALRYLETRRECNSVEAL 261
Query: 258 QHELLVVHRNQLLENEKSGCRALISQEKFDDLSRIFRLYDETRTGLEPVAGIFKQYFIDQ 317
+ E + C+ +I + + + L +F L D+ G+EP+ +++ I
Sbjct: 262 MECCVNALVTSFKETILAECQGMIKRNETEKLHLMFSLMDKVPNGIEPMLKDLEEHIISA 321
Query: 318 GKALVHQAEEDVRNKTANMEQNLVGKILELHDKFMAYVSICFGDHKLFLMALKEAFEVFC 377
G A + A E + + + L L ++F V F D FL A +A++
Sbjct: 322 GLADMVAAAETITTDSEKYREQLDT----LFNRFSKLVKEAFQDDPRFLTARDKAYKAVV 377
Query: 378 NESIV 382
N++ +
Sbjct: 378 NDATI 382
>pdb|2DO7|A Chain A, Solution Structure Of The Winged Helix-Turn-Helix Motif Of
Human Cul-4b
Length = 101
Score = 70.1 bits (170), Expect = 4e-12, Method: Compositional matrix adjust.
Identities = 36/84 (42%), Positives = 54/84 (64%), Gaps = 2/84 (2%)
Query: 657 VDDRREINEDVGKDRRHNIDAALVRIMKSRKVLGYQQLISECVEMLSHSFKPEIKAIKSR 716
V+++ E V +DR++ IDAA+VRIMK RK L + L+SE L KP +K R
Sbjct: 14 VEEQASTTERVFQDRQYQIDAAIVRIMKMRKTLSHNLLVSEVYNQLKFPVKP--ADLKKR 71
Query: 717 IDDLINREFIERDSKDPTMFNYSA 740
I+ LI+R+++ERD ++P +NY A
Sbjct: 72 IESLIDRDYMERDKENPNQYNYIA 95
>pdb|1IUY|A Chain A, Solution Structure Of The Cullin-3 Homologue
Length = 92
Score = 70.1 bits (170), Expect = 4e-12, Method: Compositional matrix adjust.
Identities = 34/82 (41%), Positives = 51/82 (62%)
Query: 659 DRREINEDVGKDRRHNIDAALVRIMKSRKVLGYQQLISECVEMLSHSFKPEIKAIKSRID 718
+R+E + V DR+H I+AA+VRIMKSRK + + L++E + L F P IK RI+
Sbjct: 11 ERKETRQKVDDDRKHEIEAAIVRIMKSRKKMQHNVLVAEVTQQLKARFLPSPVVIKKRIE 70
Query: 719 DLINREFIERDSKDPTMFNYSA 740
LI RE++ R +D ++ 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 = 66.2 bits (160), Expect = 6e-11, Method: Compositional matrix adjust.
Identities = 34/77 (44%), Positives = 49/77 (63%)
Query: 664 NEDVGKDRRHNIDAALVRIMKSRKVLGYQQLISECVEMLSHSFKPEIKAIKSRIDDLINR 723
++ +DR+ I AA+VRIMK RKVL +QQL+ E + LS FKP + IK ID LI +
Sbjct: 1 GSNIEEDRKLLIQAAIVRIMKMRKVLKHQQLLGEVLTQLSSRFKPRVPVIKKCIDILIEK 60
Query: 724 EFIERDSKDPTMFNYSA 740
E++ER + ++Y A
Sbjct: 61 EYLERVDGEKDTYSYLA 77
>pdb|3O2P|E Chain E, A Dual E3 Mechanism For Rub1 Ligation To Cdc53:
Dcn1(P)-Cdc53(Whb)
Length = 88
Score = 44.7 bits (104), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 19/66 (28%), Positives = 41/66 (62%)
Query: 663 INEDVGKDRRHNIDAALVRIMKSRKVLGYQQLISECVEMLSHSFKPEIKAIKSRIDDLIN 722
I +++ +R+ ++A +VRIMK+++ L + L++EC+ F ++ +K ID LI
Sbjct: 12 IEKELNTERQIFLEACIVRIMKAKRNLPHTTLVNECIAQSHQRFNAKVSMVKRAIDSLIQ 71
Query: 723 REFIER 728
+ +++R
Sbjct: 72 KGYLQR 77
>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 = 43.9 bits (102), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 18/63 (28%), Positives = 39/63 (61%)
Query: 666 DVGKDRRHNIDAALVRIMKSRKVLGYQQLISECVEMLSHSFKPEIKAIKSRIDDLINREF 725
++ +R+ ++A +VRIMK+++ L + L++EC+ F ++ +K ID LI + +
Sbjct: 3 ELNTERQIFLEACIVRIMKAKRNLPHTTLVNECIAQSHQRFNAKVSMVKRAIDSLIQKGY 62
Query: 726 IER 728
++R
Sbjct: 63 LQR 65
>pdb|3PC2|A Chain A, Full Length Structure Of Cystathionine Beta-Synthase From
Drosophila
pdb|3PC3|A Chain A, Full Length Structure Of Cystathionine Beta-Synthase From
Drosophila In Complex With Aminoacrylate
pdb|3PC4|A Chain A, Full Length Structure Of Cystathionine Beta-Synthase From
Drosophila In Complex With Serine
Length = 527
Score = 30.8 bits (68), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 24/96 (25%), Positives = 44/96 (45%), Gaps = 9/96 (9%)
Query: 650 IRIPLPPVDDRRE--INEDVGKDRRHNIDAALVRIMKSRKVLGY---QQLISECVEMLSH 704
+ +P PPV + + + E + ++H +D V VLG + LI++ V M
Sbjct: 389 LELPAPPVILKSDATVGEAIALMKKHRVDQLPVVDQDDGSVLGVVGQETLITQIVSMNRQ 448
Query: 705 SFKPEIKAIKSRIDDLINREFIERDSK----DPTMF 736
P IKA+ R+ L E + + ++ DP++
Sbjct: 449 QSDPAIKALNKRVIRLNESEILGKLARVLEVDPSVL 484
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
0.322 0.137 0.399
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 20,857,737
Number of Sequences: 62578
Number of extensions: 863025
Number of successful extensions: 2157
Number of sequences better than 100.0: 39
Number of HSP's better than 100.0 without gapping: 30
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 2047
Number of HSP's gapped (non-prelim): 42
length of query: 740
length of database: 14,973,337
effective HSP length: 106
effective length of query: 634
effective length of database: 8,340,069
effective search space: 5287603746
effective search space used: 5287603746
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 55 (25.8 bits)