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= 043775
(554 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 = 192 bits (489), Expect = 3e-49, Method: Compositional matrix adjust.
Identities = 159/602 (26%), Positives = 261/602 (43%), Gaps = 128/602 (21%)
Query: 68 IPGFDEFGLACFR-DLVYDA-LKHKAKDAVIDEREREQVDRALLANVL------------ 113
+P + GL FR ++ D +++K D ++ ERE+ A+ ++L
Sbjct: 149 LPSIWDMGLELFRAHIISDQKVQNKTIDGILLLIERERNGEAIDRSLLRSLLSMLSDLQI 208
Query: 114 --DIFVEHMLQDTSSYYSRISTNWILKDPCPDYMRKAEECLKKERDRVSRYLQSNGEEKL 171
D F + L++T+ Y+ + + P+Y+ + L++E DR+ YL ++ L
Sbjct: 209 YQDSFEQRFLEETNRLYAAEGQKLMQEREVPEYLHHVNKRLEEEADRLITYLDQTTQKSL 268
Query: 172 VEKVQHELLVVYATQLLEKEQSGCGALFRGNKVDDLSRMYRFYRTIRAGPH---DNYMEY 228
+ V+ +LL + T +L+K G L N++ DLS +Y+ + +R G ++EY
Sbjct: 269 IATVEKQLLGEHLTAILQK---GLNNLLDENRIQDLSLLYQLFSRVRGGVQVLLQQWIEY 325
Query: 229 VTN--------------------------------CFMDHSLFQRALKEAFKIFCNKTVG 256
+ CF+ + F A+KEAF+ F NK
Sbjct: 326 IKAFGSTIVINPEKDKTMVQELLDFKDKVDHIIDICFLKNEKFINAMKEAFETFINKRPN 385
Query: 257 GFSSSEQLATFCDNILKKSGNEKLSDEAIXXXXXXXXXXXXYISDKDLFAEFYRKKLARR 316
+E +A + D+ L+ +GN++ +DE + +I KD+F FY+K LA+R
Sbjct: 386 --KPAELIAKYVDSKLR-AGNKEATDEELEKMLDKIMIIFRFIYGKDVFEAFYKKDLAKR 442
Query: 317 LLFDRSRT-------------------------------LARKNQTGFEKYLRYNKNAHA 345
LL +S + L++ F++Y++ N+N
Sbjct: 443 LLVGKSASVDAEKSMLSKLKHECGAAFTSKLEGMFKDMELSKDIMIQFKQYMQ-NQNVPG 501
Query: 346 GIDLSVTVLATGFWPSYKSSDLNPIFNLPSQMIKCVEVFKRFYETKTKHRKLSWIYSLGQ 405
I+L+V +L G+WP+Y +++ LP +M+K E+FK FY K RKL W +LG
Sbjct: 502 NIELTVNILTMGYWPTYVPMEVH----LPPEMVKLQEIFKTFYLGKHSGRKLQWQSTLGH 557
Query: 406 CHINAKFELKNIELIISTYHAAILDLFNASNRLSYSQVITQLNLTHDDLVRLLHSLSILY 465
C + A+F+ EL +S + +L +FN S ++ + +L R L SL+
Sbjct: 558 CVLKAEFKEGKKELQVSLFQTLVLLMFNEGEEFSLEEIKQATGIEDGELRRTLQSLACGK 617
Query: 466 YKILIKEPDTKSISRSDYFELNSKF------------------------TDRMRGSRS-- 499
++L K P K I D F N F T+R+ R
Sbjct: 618 ARVLAKNPKGKDIEDGDKFICNDDFKHKLFRIKINQIQMKETVEEQASTTERVFQDRQYQ 677
Query: 500 -------LSHHRKVLGHQQLVSECIELLGRMFKPAVKAFKKRIEGLISQDYLERYPENPN 552
+ RK L H LVSE L KPA KKRIE LI +DY+ER ENPN
Sbjct: 678 IDAAIVRIMKMRKTLSHNLLVSEVYNQLKFPVKPA--DLKKRIESLIDRDYMERDKENPN 735
Query: 553 TF 554
+
Sbjct: 736 QY 737
>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 = 192 bits (488), Expect = 4e-49, Method: Compositional matrix adjust.
Identities = 159/602 (26%), Positives = 261/602 (43%), Gaps = 128/602 (21%)
Query: 68 IPGFDEFGLACFR-DLVYDA-LKHKAKDAVIDEREREQVDRALLANVL------------ 113
+P + GL FR ++ D +++K D ++ ERE+ A+ ++L
Sbjct: 134 LPSIWDMGLELFRAHIISDQKVQNKTIDGILLLIERERNGEAIDRSLLRSLLSMLSDLQI 193
Query: 114 --DIFVEHMLQDTSSYYSRISTNWILKDPCPDYMRKAEECLKKERDRVSRYLQSNGEEKL 171
D F + L++T+ Y+ + + P+Y+ + L++E DR+ YL ++ L
Sbjct: 194 YQDSFEQRFLEETNRLYAAEGQKLMQEREVPEYLHHVNKRLEEEADRLITYLDQTTQKSL 253
Query: 172 VEKVQHELLVVYATQLLEKEQSGCGALFRGNKVDDLSRMYRFYRTIRAGPH---DNYMEY 228
+ V+ +LL + T +L+K G L N++ DLS +Y+ + +R G ++EY
Sbjct: 254 IATVEKQLLGEHLTAILQK---GLNNLLDENRIQDLSLLYQLFSRVRGGVQVLLQQWIEY 310
Query: 229 VTN--------------------------------CFMDHSLFQRALKEAFKIFCNKTVG 256
+ CF+ + F A+KEAF+ F NK
Sbjct: 311 IKAFGSTIVINPEKDKTMVQELLDFKDKVDHIIDICFLKNEKFINAMKEAFETFINKRPN 370
Query: 257 GFSSSEQLATFCDNILKKSGNEKLSDEAIXXXXXXXXXXXXYISDKDLFAEFYRKKLARR 316
+E +A + D+ L+ +GN++ +DE + +I KD+F FY+K LA+R
Sbjct: 371 --KPAELIAKYVDSKLR-AGNKEATDEELEKMLDKIMIIFRFIYGKDVFEAFYKKDLAKR 427
Query: 317 LLFDRSRT-------------------------------LARKNQTGFEKYLRYNKNAHA 345
LL +S + L++ F++Y++ N+N
Sbjct: 428 LLVGKSASVDAEKSMLSKLKHECGAAFTSKLEGMFKDMELSKDIMIQFKQYMQ-NQNVPG 486
Query: 346 GIDLSVTVLATGFWPSYKSSDLNPIFNLPSQMIKCVEVFKRFYETKTKHRKLSWIYSLGQ 405
I+L+V +L G+WP+Y +++ LP +M+K E+FK FY K RKL W +LG
Sbjct: 487 NIELTVNILTMGYWPTYVPMEVH----LPPEMVKLQEIFKTFYLGKHSGRKLQWQSTLGH 542
Query: 406 CHINAKFELKNIELIISTYHAAILDLFNASNRLSYSQVITQLNLTHDDLVRLLHSLSILY 465
C + A+F+ EL +S + +L +FN S ++ + +L R L SL+
Sbjct: 543 CVLKAEFKEGKKELQVSLFQTLVLLMFNEGEEFSLEEIKQATGIEDGELRRTLQSLACGK 602
Query: 466 YKILIKEPDTKSISRSDYFELNSKF------------------------TDRMRGSRS-- 499
++L K P K I D F N F T+R+ R
Sbjct: 603 ARVLAKNPKGKDIEDGDKFICNDDFKHKLFRIKINQIQMKETVEEQASTTERVFQDRQYQ 662
Query: 500 -------LSHHRKVLGHQQLVSECIELLGRMFKPAVKAFKKRIEGLISQDYLERYPENPN 552
+ RK L H LVSE L KPA KKRIE LI +DY+ER ENPN
Sbjct: 663 IDAAIVRIMKMRKTLSHNLLVSEVYNQLKFPVKPA--DLKKRIESLIDRDYMERDKENPN 720
Query: 553 TF 554
+
Sbjct: 721 QY 722
>pdb|4A0K|A Chain A, Structure Of Ddb1-Ddb2-Cul4a-Rbx1 Bound To A 12 Bp Abasic
Site Containing Dna-Duplex
Length = 742
Score = 190 bits (483), Expect = 2e-48, Method: Compositional matrix adjust.
Identities = 162/603 (26%), Positives = 264/603 (43%), Gaps = 128/603 (21%)
Query: 67 NIPGFDEFGLACFRD-LVYDAL-KHKAKDAVI--DERER--EQVDRALLANVL------- 113
+P + GL FR ++ D + + K D ++ ERER E VDR+LL ++L
Sbjct: 149 TLPSIWDMGLELFRTHIISDKMVQSKTIDGILLLIERERSGEAVDRSLLRSLLGMLSDLQ 208
Query: 114 ---DIFVEHMLQDTSSYYSRISTNWILKDPCPDYMRKAEECLKKERDRVSRYLQSNGEEK 170
D F L++T+ Y+ + + P+Y+ + L++E DRV YL + ++
Sbjct: 209 VYKDSFELKFLEETNCLYAAEGQRLMQEREVPEYLNHVSKRLEEEGDRVITYLDHSTQKP 268
Query: 171 LVEKVQHELLVVYATQLLEKEQSGCGALFRGNKVDDLSRMYRFYRTIRAGPH---DNYME 227
L+ V+ +LL + T +L+K G L N+V DL++MY+ + +R G ++ E
Sbjct: 269 LIACVEKQLLGEHLTAILQK---GLDHLLDENRVPDLAQMYQLFSRVRGGQQALLQHWSE 325
Query: 228 YVTN--------------------------------CFMDHSLFQRALKEAFKIFCNKTV 255
Y+ CF + F +KE+F+ F NK
Sbjct: 326 YIKTFGTAIVINPEKDKDMVQDLLDFKDKVDHVIEVCFQKNERFVNLMKESFETFINKRP 385
Query: 256 GGFSSSEQLATFCDNILKKSGNEKLSDEAIXXXXXXXXXXXXYISDKDLFAEFYRKKLAR 315
+E +A D+ L+ +GN++ +DE + +I KD+F FY+K LA+
Sbjct: 386 N--KPAELIAKHVDSKLR-AGNKEATDEELERTLDKIMILFRFIHGKDVFEAFYKKDLAK 442
Query: 316 RLLFDRSRT-------------------------------LARKNQTGFEKYLRYNKNAH 344
RLL +S + L++ F+++++ N++
Sbjct: 443 RLLVGKSASVDAEKSMLSKLKHECGAAFTSKLEGMFKDMELSKDIMVHFKQHMQ-NQSDS 501
Query: 345 AGIDLSVTVLATGFWPSYKSSDLNPIFNLPSQMIKCVEVFKRFYETKTKHRKLSWIYSLG 404
IDL+V +L G+WP+Y +++ L +MIK EVFK FY K RKL W +LG
Sbjct: 502 GPIDLTVNILTMGYWPTYTPMEVH----LTPEMIKLQEVFKAFYLGKHSGRKLQWQTTLG 557
Query: 405 QCHINAKFELKNIELIISTYHAAILDLFNASNRLSYSQVITQLNLTHDDLVRLLHSLSIL 464
+ A+F+ E +S + +L +FN + S+ ++ + +L R L SL+
Sbjct: 558 HAVLKAEFKEGKKEFQVSLFQTLVLLMFNEGDGFSFEEIKMATGIEDSELRRTLQSLACG 617
Query: 465 YYKILIKEPDTKSISRSDYFELNSKF------------------------TDRMRGSRS- 499
++LIK P K + D F N +F T+R+ R
Sbjct: 618 KARVLIKSPKGKEVEDGDKFIFNGEFKHKLFRIKINQIQMKETVEEQVSTTERVFQDRQY 677
Query: 500 --------LSHHRKVLGHQQLVSECIELLGRMFKPAVKAFKKRIEGLISQDYLERYPENP 551
+ RK LGH LVSE L KP KKRIE LI +DY+ER +NP
Sbjct: 678 QIDAAIVRIMKMRKTLGHNLLVSELYNQLKFPVKPG--DLKKRIESLIDRDYMERDKDNP 735
Query: 552 NTF 554
N +
Sbjct: 736 NQY 738
>pdb|2HYE|C Chain C, Crystal Structure Of The Ddb1-cul4a-rbx1-sv5v Complex
Length = 759
Score = 190 bits (482), Expect = 2e-48, Method: Compositional matrix adjust.
Identities = 162/603 (26%), Positives = 264/603 (43%), Gaps = 128/603 (21%)
Query: 67 NIPGFDEFGLACFRD-LVYDAL-KHKAKDAVI--DERER--EQVDRALLANVL------- 113
+P + GL FR ++ D + + K D ++ ERER E VDR+LL ++L
Sbjct: 166 TLPSIWDMGLELFRTHIISDKMVQSKTIDGILLLIERERSGEAVDRSLLRSLLGMLSDLQ 225
Query: 114 ---DIFVEHMLQDTSSYYSRISTNWILKDPCPDYMRKAEECLKKERDRVSRYLQSNGEEK 170
D F L++T+ Y+ + + P+Y+ + L++E DRV YL + ++
Sbjct: 226 VYKDSFELKFLEETNCLYAAEGQRLMQEREVPEYLNHVSKRLEEEGDRVITYLDHSTQKP 285
Query: 171 LVEKVQHELLVVYATQLLEKEQSGCGALFRGNKVDDLSRMYRFYRTIRAGPH---DNYME 227
L+ V+ +LL + T +L+K G L N+V DL++MY+ + +R G ++ E
Sbjct: 286 LIACVEKQLLGEHLTAILQK---GLDHLLDENRVPDLAQMYQLFSRVRGGQQALLQHWSE 342
Query: 228 YVTN--------------------------------CFMDHSLFQRALKEAFKIFCNKTV 255
Y+ CF + F +KE+F+ F NK
Sbjct: 343 YIKTFGTAIVINPEKDKDMVQDLLDFKDKVDHVIEVCFQKNERFVNLMKESFETFINKRP 402
Query: 256 GGFSSSEQLATFCDNILKKSGNEKLSDEAIXXXXXXXXXXXXYISDKDLFAEFYRKKLAR 315
+E +A D+ L+ +GN++ +DE + +I KD+F FY+K LA+
Sbjct: 403 N--KPAELIAKHVDSKLR-AGNKEATDEELERTLDKIMILFRFIHGKDVFEAFYKKDLAK 459
Query: 316 RLLFDRSRT-------------------------------LARKNQTGFEKYLRYNKNAH 344
RLL +S + L++ F+++++ N++
Sbjct: 460 RLLVGKSASVDAEKSMLSKLKHECGAAFTSKLEGMFKDMELSKDIMVHFKQHMQ-NQSDS 518
Query: 345 AGIDLSVTVLATGFWPSYKSSDLNPIFNLPSQMIKCVEVFKRFYETKTKHRKLSWIYSLG 404
IDL+V +L G+WP+Y +++ L +MIK EVFK FY K RKL W +LG
Sbjct: 519 GPIDLTVNILTMGYWPTYTPMEVH----LTPEMIKLQEVFKAFYLGKHSGRKLQWQTTLG 574
Query: 405 QCHINAKFELKNIELIISTYHAAILDLFNASNRLSYSQVITQLNLTHDDLVRLLHSLSIL 464
+ A+F+ E +S + +L +FN + S+ ++ + +L R L SL+
Sbjct: 575 HAVLKAEFKEGKKEFQVSLFQTLVLLMFNEGDGFSFEEIKMATGIEDSELRRTLQSLACG 634
Query: 465 YYKILIKEPDTKSISRSDYFELNSKF------------------------TDRMRGSRS- 499
++LIK P K + D F N +F T+R+ R
Sbjct: 635 KARVLIKSPKGKEVEDGDKFIFNGEFKHKLFRIKINQIQMKETVEEQVSTTERVFQDRQY 694
Query: 500 --------LSHHRKVLGHQQLVSECIELLGRMFKPAVKAFKKRIEGLISQDYLERYPENP 551
+ RK LGH LVSE L KP KKRIE LI +DY+ER +NP
Sbjct: 695 QIDAAIVRIMKMRKTLGHNLLVSELYNQLKFPVKPG--DLKKRIESLIDRDYMERDKDNP 752
Query: 552 NTF 554
N +
Sbjct: 753 NQY 755
>pdb|1LDJ|A Chain A, Structure Of The Cul1-rbx1-skp1-f Boxskp2 Scf Ubiquitin
Ligase Complex
Length = 760
Score = 143 bits (361), Expect = 2e-34, Method: Compositional matrix adjust.
Identities = 153/632 (24%), Positives = 249/632 (39%), Gaps = 154/632 (24%)
Query: 65 RRNIPGFDEFGLACFRDLVYDALKHKAKDAVID----EREREQVDRALLANVLDIFVE-- 118
R+ I L +RD ++ L + +AV+ ER E ++ L++ V+ +VE
Sbjct: 137 RKGIYEIYSLALVTWRDCLFRPLNKQVTNAVLKLIEKERNGETINTRLISGVVQSYVELG 196
Query: 119 ----------------------HMLQDTSSYYSRISTNWILKDPCPDYMRKAEECLKKER 156
L DT +Y+R ST ++ ++P +YM+KAE L +E+
Sbjct: 197 LNEDDAFAKGPTLTVYKESFESQFLADTERFYTRESTEFLQQNPVTEYMKKAEARLLEEQ 256
Query: 157 DRVSRYLQSNGEEKLVEKVQHELLVVYATQLLEKEQSGCGALFRGNKVDDLSRMYRFYRT 216
RV YL + +++L K + L+ + LE + L +K +DL RMY
Sbjct: 257 RRVQVYLHESTQDELARKCEQVLIEKH----LEIFHTEFQNLLDADKNEDLGRMYNLVSR 312
Query: 217 IRAG----------------------------------------PHDNYMEYVTNCFMDH 236
I+ G H Y V + F +
Sbjct: 313 IQDGLGELKKLLETHIHNQGLAAIEKCGEAALNDPKMYVQTVLDVHKKYNALVMSAFNND 372
Query: 237 SLFQRALKEAFKIFCNKTV------GGFSSSEQLATFCDNILKKSGNEKLSDEA-IXXXX 289
+ F AL +A F N S E LA +CD++LKKS K +EA +
Sbjct: 373 AGFVAALDKACGRFINNNAVTKMAQSSSKSPELLARYCDSLLKKSS--KNPEEAELEDTL 430
Query: 290 XXXXXXXXYISDKDLFAEFYRKKLARRLLFDRSRT-------LAR-KNQTGFE------- 334
YI DKD+F +FY K LA+RL+ S + +++ K GFE
Sbjct: 431 NQVMVVFKYIEDKDVFQKFYAKMLAKRLVHQNSASDDAEASMISKLKQACGFEYTSKLQR 490
Query: 335 -------------KYLRYNKNAHA-GIDLSVTVLATGFWPSYKSSDLNPIFNLPSQMIKC 380
++ ++ N+ +D S+ VL++G WP +S F LPS++ +
Sbjct: 491 MFQDIGVSKDLNEQFKKHLTNSEPLDLDFSIQVLSSGSWPFQQSC----TFALPSELERS 546
Query: 381 VEVFKRFYETKTKHRKLSWIYSLGQCHINAKFELKNIELIISTYHAAILDLFNASNRLSY 440
+ F FY ++ RKL+W+Y L + + L ST+ AIL +N + +
Sbjct: 547 YQRFTAFYASRHSGRKLTWLYQLSKGELVTNCFKNRYTLQASTFQMAILLQYNTEDAYTV 606
Query: 441 SQVITQLNLTHDDLVRLLHSLSILYYKILIKEPDTKSISRSDY----------------- 483
Q+ + D L ++L L L K+L+ E + ++ +
Sbjct: 607 QQLTDSTQIKMDILAQVLQIL--LKSKLLVLEDENANVDEVELKPDTLIKLYLGYKNKKL 664
Query: 484 -FELNSKFTDRMRGSRSLSHH--------------------RKVLGHQQLVSECIELLGR 522
+N + + +H RKVL HQQL+ E + L
Sbjct: 665 RVNINVPMKTEQKQEQETTHKNIEEDRKLLIQAAIVRIMKMRKVLKHQQLLGEVLTQLSS 724
Query: 523 MFKPAVKAFKKRIEGLISQDYLERYPENPNTF 554
FKP V KK I+ LI ++YLER +T+
Sbjct: 725 RFKPRVPVIKKCIDILIEKEYLERVDGEKDTY 756
>pdb|1U6G|A Chain A, Crystal Structure Of The Cand1-Cul1-Roc1 Complex
Length = 776
Score = 143 bits (360), Expect = 3e-34, Method: Compositional matrix adjust.
Identities = 153/632 (24%), Positives = 249/632 (39%), Gaps = 154/632 (24%)
Query: 65 RRNIPGFDEFGLACFRDLVYDALKHKAKDAVID----EREREQVDRALLANVLDIFVE-- 118
R+ I L +RD ++ L + +AV+ ER E ++ L++ V+ +VE
Sbjct: 153 RKGIYEIYSLALVTWRDCLFRPLNKQVTNAVLKLIEKERNGETINTRLISGVVQSYVELG 212
Query: 119 ----------------------HMLQDTSSYYSRISTNWILKDPCPDYMRKAEECLKKER 156
L DT +Y+R ST ++ ++P +YM+KAE L +E+
Sbjct: 213 LNEDDAFAKGPTLTVYKESFESQFLADTERFYTRESTEFLQQNPVTEYMKKAEARLLEEQ 272
Query: 157 DRVSRYLQSNGEEKLVEKVQHELLVVYATQLLEKEQSGCGALFRGNKVDDLSRMYRFYRT 216
RV YL + +++L K + L+ + LE + L +K +DL RMY
Sbjct: 273 RRVQVYLHESTQDELARKCEQVLIEKH----LEIFHTEFQNLLDADKNEDLGRMYNLVSR 328
Query: 217 IRAG----------------------------------------PHDNYMEYVTNCFMDH 236
I+ G H Y V + F +
Sbjct: 329 IQDGLGELKKLLETHIHNQGLAAIEKCGEAALNDPKMYVQTVLDVHKKYNALVMSAFNND 388
Query: 237 SLFQRALKEAFKIFCNKTV------GGFSSSEQLATFCDNILKKSGNEKLSDEA-IXXXX 289
+ F AL +A F N S E LA +CD++LKKS K +EA +
Sbjct: 389 AGFVAALDKACGRFINNNAVTKMAQSSSKSPELLARYCDSLLKKSS--KNPEEAELEDTL 446
Query: 290 XXXXXXXXYISDKDLFAEFYRKKLARRLLFDRSRT-------LAR-KNQTGFE------- 334
YI DKD+F +FY K LA+RL+ S + +++ K GFE
Sbjct: 447 NQVMVVFKYIEDKDVFQKFYAKMLAKRLVHQNSASDDAEASMISKLKQACGFEYTSKLQR 506
Query: 335 -------------KYLRYNKNAHA-GIDLSVTVLATGFWPSYKSSDLNPIFNLPSQMIKC 380
++ ++ N+ +D S+ VL++G WP +S F LPS++ +
Sbjct: 507 MFQDIGVSKDLNEQFKKHLTNSEPLDLDFSIQVLSSGSWPFQQSC----TFALPSELERS 562
Query: 381 VEVFKRFYETKTKHRKLSWIYSLGQCHINAKFELKNIELIISTYHAAILDLFNASNRLSY 440
+ F FY ++ RKL+W+Y L + + L ST+ AIL +N + +
Sbjct: 563 YQRFTAFYASRHSGRKLTWLYQLSKGELVTNCFKNRYTLQASTFQMAILLQYNTEDAYTV 622
Query: 441 SQVITQLNLTHDDLVRLLHSLSILYYKILIKEPDTKSISRSDY----------------- 483
Q+ + D L ++L L L K+L+ E + ++ +
Sbjct: 623 QQLTDSTQIKMDILAQVLQIL--LKSKLLVLEDENANVDEVELKPDTLIKLYLGYKNKKL 680
Query: 484 -FELNSKFTDRMRGSRSLSHH--------------------RKVLGHQQLVSECIELLGR 522
+N + + +H RKVL HQQL+ E + L
Sbjct: 681 RVNINVPMKTEQKQEQETTHKNIEEDRKLLIQAAIVRIMKMRKVLKHQQLLGEVLTQLSS 740
Query: 523 MFKPAVKAFKKRIEGLISQDYLERYPENPNTF 554
FKP V KK I+ LI ++YLER +T+
Sbjct: 741 RFKPRVPVIKKCIDILIEKEYLERVDGEKDTY 772
>pdb|1LDK|B Chain B, Structure Of The Cul1-Rbx1-Skp1-F Boxskp2 Scf Ubiquitin
Ligase Complex
Length = 366
Score = 102 bits (253), Expect = 8e-22, Method: Compositional matrix adjust.
Identities = 97/363 (26%), Positives = 148/363 (40%), Gaps = 76/363 (20%)
Query: 260 SSEQLATFCDNILKKSGNEKLSDEA-IXXXXXXXXXXXXYISDKDLFAEFYRKKLARRLL 318
S E LA +CD++LKKS K +EA + YI DKD+F +FY K LA+RL+
Sbjct: 8 SPELLARYCDSLLKKSS--KNPEEAELEDTLNQVMVVFKYIEDKDVFQKFYAKMLAKRLV 65
Query: 319 ----------------------FDRSRTLARKNQ-TGFEKYLRYNKNAHA------GIDL 349
F+ + L R Q G K L H +D
Sbjct: 66 HQNSASDDAEASMISKLKQACGFEYTSKLQRMFQDIGVSKDLNEQFKKHLTNSEPLDLDF 125
Query: 350 SVTVLATGFWPSYKSSDLNPIFNLPSQMIKCVEVFKRFYETKTKHRKLSWIYSLGQCHIN 409
S+ VL++G WP +S F LPS++ + + F FY ++ RKL+W+Y L + +
Sbjct: 126 SIQVLSSGSWPFQQSC----TFALPSELERSYQRFTAFYASRHSGRKLTWLYQLSKGELV 181
Query: 410 AKFELKNIELIISTYHAAILDLFNASNRLSYSQVITQLNLTHDDLVRLLHSLSILYYKIL 469
L ST+ AIL +N + + Q+ + D L ++L L L K+L
Sbjct: 182 TNCFKNRYTLQASTFQMAILLQYNTEDAYTVQQLTDSTQIKMDILAQVLQIL--LKSKLL 239
Query: 470 IKEPDTKSISRSDY------------------FELNSKFTDRMRGSRSLSHH-------- 503
+ E + ++ + +N + + +H
Sbjct: 240 VLEDENANVDEVELKPDTLIKLYLGYKNKKLRVNINVPMKTEQKQEQETTHKNIEEDRKL 299
Query: 504 ------------RKVLGHQQLVSECIELLGRMFKPAVKAFKKRIEGLISQDYLERYPENP 551
RKVL HQQL+ E + L FKP V KK I+ LI ++YLER
Sbjct: 300 LIQAAIVRIMKMRKVLKHQQLLGEVLTQLSSRFKPRVPVIKKCIDILIEKEYLERVDGEK 359
Query: 552 NTF 554
+T+
Sbjct: 360 DTY 362
>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 = 100 bits (248), Expect = 3e-21, Method: Compositional matrix adjust.
Identities = 94/363 (25%), Positives = 153/363 (42%), Gaps = 76/363 (20%)
Query: 260 SSEQLATFCDNILKKSGNEKLSDEA-IXXXXXXXXXXXXYISDKDLFAEFYRKKLARRLL 318
S E+LA +CD++LKKS K +EA + I DKD+F +FY K LA+RL+
Sbjct: 10 SPEELARYCDSLLKKSS--KNPEEAELEDTLNQVMEKFKKIEDKDVFQKFYAKMLAKRLV 67
Query: 319 FDRSRT-------LARKNQT-GFE--------------------KYLRYNKNAHA-GIDL 349
S + +++ Q GFE ++ ++ N+ +D
Sbjct: 68 HQNSASDDAEASMISKLKQACGFEYTSKLQRMFQDIGVSKDLNEQFKKHLTNSEPLDLDF 127
Query: 350 SVTVLATGFWPSYKSSDLNPIFNLPSQMIKCVEVFKRFYETKTKHRKLSWIYSLGQCHIN 409
S+ VL++G WP +S F LPS++ + + F FY ++ RKL+W+Y L + +
Sbjct: 128 SIQVLSSGSWPFQQSC----TFALPSELERSYQRFTAFYASRHSGRKLTWLYQLSKGELV 183
Query: 410 AKFELKNIELIISTYHAAILDLFNASNRLSYSQVITQLNLTHDDLVRLLHSLSILYYKIL 469
L ST+ AIL +N + + Q+ + D L ++L L L K+L
Sbjct: 184 TNCFKNRYTLQASTFQMAILLQYNTEDAYTVQQLTDSTQIKMDILAQVLQIL--LKSKLL 241
Query: 470 IKEPDTKSISRSDY------------------FELNSKFTDRMRGSRSLSHH-------- 503
+ E + ++ + +N + + +H
Sbjct: 242 VLEDENANVDEVELKPDTLIKLYLGYKNKKLRVNINVPMKTEQKQEQETTHKNIEEDRKL 301
Query: 504 ------------RKVLGHQQLVSECIELLGRMFKPAVKAFKKRIEGLISQDYLERYPENP 551
RKVL HQQL+ E + L FKP V KK I+ LI ++YLER
Sbjct: 302 LIQAAIVRIMKMRKVLKHQQLLGEVLTQLSSRFKPRVPVIKKCIDILIEKEYLERVDGEK 361
Query: 552 NTF 554
+T+
Sbjct: 362 DTY 364
>pdb|3DPL|C Chain C, Structural Insights Into Nedd8 Activation Of Cullin-Ring
Ligases: Conformational Control Of Conjugation
Length = 382
Score = 87.8 bits (216), Expect = 1e-17, Method: Compositional matrix adjust.
Identities = 91/374 (24%), Positives = 153/374 (40%), Gaps = 84/374 (22%)
Query: 262 EQLATFCDNILKKSG-NEKLSDEAIXXXXXXXXXXXXYISDKDLFAEFYRKKLARRLLFD 320
E+LA +CD +L+K+ ++KL+ E I Y+ +KD+F +++ L RRL+ D
Sbjct: 8 EELANYCDMLLRKTPLSKKLTSEEIEAKLKEVLKKLKYVQNKDVFMRYHKAHLTRRLILD 67
Query: 321 RS-----------------------RTLARKNQ---------TGFEKYLRYNKNAHAGID 348
S LAR Q F++ + NK A
Sbjct: 68 ISADSEIEENMVEWLREVGMPADYVNKLARMFQDIKVSEDLNQAFKEMHKNNKLALPADS 127
Query: 349 LSVTVLATGFWPSYKSSDLNPIFNLPSQMIKCVEVFKRFYETKTKHRKLSWIYSLGQCHI 408
+++ +L G W +SS+ +LP+++ + + FY+ RKL W + + I
Sbjct: 128 VNIKILNAGAWS--RSSE-KVFVSLPTELEDLIPEVEEFYKKNHSGRKLHWHHLMSNGII 184
Query: 409 NAKFELKNIELIISTYHAAILDLFNASNR--LSYSQVITQLNLTHDDLVRLLHSLSI--- 463
K E+ +L ++T+ A+L +N R +S+ + L +L R L SL
Sbjct: 185 TFKNEVGQYDLEVTTFQLAVLFAWNQRPREKISFENLKLATELPDAELRRTLWSLVAFPK 244
Query: 464 LYYKILIKEPDT---KSISRSDYFELNSKF-----------------------TDRMRGS 497
L ++L+ EP K + F +N +F T+RMR
Sbjct: 245 LKRQVLLYEPQVNSPKDFTEGTLFSVNQEFSLIKNAKVQKRGKINLIGRLQLTTERMREE 304
Query: 498 RS-----------------LSHHRKVLGHQQLVSECIELLGRMFKPAVKAFKKRIEGLIS 540
+ + RK + + QL +E +E+L MF P K K++IE LI
Sbjct: 305 ENEGIVQLRILRTQEAIIQIMKMRKKISNAQLQTELVEILKNMFLPQKKMIKEQIEWLIE 364
Query: 541 QDYLERYPENPNTF 554
Y+ R + NTF
Sbjct: 365 HKYIRRDESDINTF 378
>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 = 79.3 bits (194), Expect = 5e-15, Method: Compositional matrix adjust.
Identities = 89/374 (23%), Positives = 150/374 (40%), Gaps = 84/374 (22%)
Query: 262 EQLATFCDNILKKSG-NEKLSDEAIXXXXXXXXXXXXYISDKDLFAEFYRKKLARRLLFD 320
E+LA +CD +L+K+ ++KL+ E I Y+ +KD+F +++ L RRL+ D
Sbjct: 8 EELANYCDXLLRKTPLSKKLTSEEIEAKLKEVLKKLKYVQNKDVFXRYHKAHLTRRLILD 67
Query: 321 RS-----------------------RTLARKNQ---------TGFEKYLRYNKNAHAGID 348
S LAR Q F++ + NK A
Sbjct: 68 ISADSEIEENXVEWLREVGXPADYVNKLARXFQDIKVSEDLNQAFKEXHKNNKLALPADS 127
Query: 349 LSVTVLATGFWPSYKSSDLNPIFNLPSQMIKCVEVFKRFYETKTKHRKLSWIYSLGQCHI 408
+++ +L G W +SS+ +LP+++ + + FY+ RKL W + I
Sbjct: 128 VNIKILNAGAWS--RSSE-KVFVSLPTELEDLIPEVEEFYKKNHSGRKLHWHHLXSNGII 184
Query: 409 NAKFELKNIELIISTYHAAILDLFNASNR--LSYSQVITQLNLTHDDLVRLLHSLSI--- 463
K E+ +L ++T+ A+L +N R +S+ + L +L R L SL
Sbjct: 185 TFKNEVGQYDLEVTTFQLAVLFAWNQRPREKISFENLKLATELPDAELRRTLWSLVAFPK 244
Query: 464 LYYKILIKEPDT---KSISRSDYFELNSKFT------DRMRGSRSL-------------- 500
L ++L+ EP K + F +N +F+ + RG +L
Sbjct: 245 LKRQVLLYEPQVNSPKDFTEGTLFSVNQEFSLIKNAKVQKRGKINLIGRLQLTTERXREE 304
Query: 501 --------------------SHHRKVLGHQQLVSECIELLGRMFKPAVKAFKKRIEGLIS 540
RK + + QL +E +E+L F P K K++IE LI
Sbjct: 305 ENEGIVQLRILRTQEAIIQIXKXRKKISNAQLQTELVEILKNXFLPQKKXIKEQIEWLIE 364
Query: 541 QDYLERYPENPNTF 554
Y+ R + NTF
Sbjct: 365 HKYIRRDESDINTF 378
>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 = 78.2 bits (191), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 68/249 (27%), Positives = 115/249 (46%), Gaps = 38/249 (15%)
Query: 260 SSEQLATFCDNILKKSGNEKLSDEA-IXXXXXXXXXXXXYISDKDLFAEFYRKKLARRLL 318
S E+LA +CD++LKKS K +EA + I DKD+F +FY K LA+RL+
Sbjct: 10 SPEELARYCDSLLKKSS--KNPEEAELEDTLNQVMEKFKKIEDKDVFQKFYAKMLAKRLV 67
Query: 319 FDRSRT-------LAR-KNQTGFE--------------------KYLRYNKNAHA-GIDL 349
S + +++ K GFE ++ ++ N+ +D
Sbjct: 68 HQNSASDDAEASMISKLKQACGFEYTSKLQRMFQDIGVSKDLNEQFKKHLTNSEPLDLDF 127
Query: 350 SVTVLATGFWPSYKSSDLNPIFNLPSQMIKCVEVFKRFYETKTKHRKLSWIYSLGQCHIN 409
S+ VL++G WP +S F LPS++ + + F FY ++ RKL+W+Y L + +
Sbjct: 128 SIQVLSSGSWPFQQSC----TFALPSELERSYQRFTAFYASRHSGRKLTWLYQLSKGELV 183
Query: 410 AKFELKNIELIISTYHAAILDLFNASNRLSYSQVITQLNLTHDDLVRLLHSLSILYYKIL 469
L ST+ AIL +N + + Q+ + D L ++L L L K+L
Sbjct: 184 TNCFKNRYTLQASTFQMAILLQYNTEDAYTVQQLTDSTQIKMDILAQVLQIL--LKSKLL 241
Query: 470 IKEPDTKSI 478
+ E + ++
Sbjct: 242 VLEDENANV 250
>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 = 62.0 bits (149), Expect = 9e-10, Method: Compositional matrix adjust.
Identities = 55/237 (23%), Positives = 102/237 (43%), Gaps = 54/237 (22%)
Query: 68 IPGFDEFGLACFR-DLVYDA-LKHKAKDAVIDEREREQVDRALLANVL------------ 113
+P + GL FR ++ D +++K D ++ ERE+ A+ ++L
Sbjct: 118 LPSIWDMGLELFRAHIISDQKVQNKTIDGILLLIERERNGEAIDRSLLRSLLSMLSDLQI 177
Query: 114 --DIFVEHMLQDTSSYYSRISTNWILKDPCPDYMRKAEECLKKERDRVSRYLQSNGEEKL 171
D F + L++T+ Y+ + + P+Y+ + L++E DR+ YL ++ L
Sbjct: 178 YQDSFEQRFLEETNRLYAAEGQKLMQEREVPEYLHHVNKRLEEEADRLITYLDQTTQKSL 237
Query: 172 VEKVQHELLVVYATQLLEKEQSGCGALFRGNKVDDLSRMYRFYRTIRAGPH---DNYMEY 228
+ V+ +LL + T +L+K G L N++ DLS +Y+ + +R G ++EY
Sbjct: 238 IATVEKQLLGEHLTAILQK---GLNNLLDENRIQDLSLLYQLFSRVRGGVQVLLQQWIEY 294
Query: 229 VTN--------------------------------CFMDHSLFQRALKEAFKIFCNK 253
+ CF+ + F A+KEAF+ F NK
Sbjct: 295 IKAFGSTIVINPEKDKTMRQELDDFKDKVDHIIDICFLKNEKFINAMKEAFETFINK 351
>pdb|1LDK|A Chain A, Structure Of The Cul1-Rbx1-Skp1-F Boxskp2 Scf Ubiquitin
Ligase Complex
Length = 396
Score = 60.1 bits (144), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 48/184 (26%), Positives = 82/184 (44%), Gaps = 32/184 (17%)
Query: 65 RRNIPGFDEFGLACFRDLVYDALKHKAKDAVID----EREREQVDRALLANVLDIFVE-- 118
R+ I L +RD ++ L + +AV+ ER E ++ L++ V+ +VE
Sbjct: 139 RKGIYEIYSLALVTWRDCLFRPLNKQVTNAVLKLIEKERNGETINTRLISGVVQSYVELG 198
Query: 119 ----------------------HMLQDTSSYYSRISTNWILKDPCPDYMRKAEECLKKER 156
L DT +Y+R ST ++ ++P +YM+KAE L +E+
Sbjct: 199 LNEDDAFAKGPTLTVYKESFESQFLADTERFYTRESTEFLQQNPVTEYMKKAEARLLEEQ 258
Query: 157 DRVSRYLQSNGEEKLVEKVQHELLVVYATQLLEKEQSGCGALFRGNKVDDLSRMYRFYRT 216
RV YL + +++L K + L+ + LE + L +K +DL RMY
Sbjct: 259 RRVQVYLHESTQDELARKCEQVLI----EKHLEIFHTEFQNLLDADKNEDLGRMYNLVSR 314
Query: 217 IRAG 220
I+ G
Sbjct: 315 IQDG 318
>pdb|4AP2|B Chain B, Crystal Structure Of The Human Klhl11-cul3 Complex At 2.8a
Resolution
Length = 410
Score = 60.1 bits (144), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 43/179 (24%), Positives = 79/179 (44%), Gaps = 21/179 (11%)
Query: 63 CKRRNIPGFDEFGLACFRDLVY------DALKHKAKDAVIDEREREQVDRALLANVLDI- 115
++ N+ GL FRD V D L+ D + ER+ E VDR + N +
Sbjct: 131 VQQNNVENVYNLGLIIFRDQVVRYGCIRDHLRQTLLDMIARERKGEVVDRGAIRNACQML 190
Query: 116 --------------FVEHMLQDTSSYYSRISTNWILKDPCPDYMRKAEECLKKERDRVSR 161
F L+ ++ ++ S ++ ++ Y++K E + +E +RV
Sbjct: 191 MILGLEGRSVYEEDFEAPFLEMSAEFFQMESQKFLAENSASVYIKKVEARINEEIERVMH 250
Query: 162 YLQSNGEEKLVEKVQHELLVVYATQLLEKEQSGCGALFRGNKVDDLSRMYRFYRTIRAG 220
L + EE +V+ V+ EL+ + ++E E SG + + K +DL MY+ + + G
Sbjct: 251 CLDKSTEEPIVKVVERELISKHMKTIVEMENSGLVHMLKNGKTEDLGCMYKLFSRVPNG 309
>pdb|4APF|B Chain B, Crystal Structure Of The Human Klhl11-cul3 Complex At 3.1a
Resolution
Length = 388
Score = 60.1 bits (144), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 43/179 (24%), Positives = 79/179 (44%), Gaps = 21/179 (11%)
Query: 63 CKRRNIPGFDEFGLACFRDLVY------DALKHKAKDAVIDEREREQVDRALLANVLDI- 115
++ N+ GL FRD V D L+ D + ER+ E VDR + N +
Sbjct: 109 VQQNNVENVYNLGLIIFRDQVVRYGCIRDHLRQTLLDMIARERKGEVVDRGAIRNACQML 168
Query: 116 --------------FVEHMLQDTSSYYSRISTNWILKDPCPDYMRKAEECLKKERDRVSR 161
F L+ ++ ++ S ++ ++ Y++K E + +E +RV
Sbjct: 169 MILGLEGRSVYEEDFEAPFLEMSAEFFQMESQKFLAENSASVYIKKVEARINEEIERVMH 228
Query: 162 YLQSNGEEKLVEKVQHELLVVYATQLLEKEQSGCGALFRGNKVDDLSRMYRFYRTIRAG 220
L + EE +V+ V+ EL+ + ++E E SG + + K +DL MY+ + + G
Sbjct: 229 CLDKSTEEPIVKVVERELISKHMKTIVEMENSGLVHMLKNGKTEDLGCMYKLFSRVPNG 287
>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 = 56.6 bits (135), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 43/179 (24%), Positives = 79/179 (44%), Gaps = 21/179 (11%)
Query: 63 CKRRNIPGFDEFGLACFRDLVY------DALKHKAKDAVIDEREREQVDRALLAN----- 111
++ N+ GL FRD V D L+ D + ER+ E VDR + N
Sbjct: 114 VQQNNVENVYNLGLIIFRDQVVRYGCIRDHLRQTLLDXIARERKGEVVDRGAIRNACQXL 173
Query: 112 -VLDI---------FVEHMLQDTSSYYSRISTNWILKDPCPDYMRKAEECLKKERDRVSR 161
+L + F L+ ++ ++ S ++ ++ Y++K E + +E +RV
Sbjct: 174 XILGLEGRSVYEEDFEAPFLEXSAEFFQXESQKFLAENSASVYIKKVEARINEEIERVXH 233
Query: 162 YLQSNGEEKLVEKVQHELLVVYATQLLEKEQSGCGALFRGNKVDDLSRMYRFYRTIRAG 220
L + EE +V+ V+ EL+ + ++E E SG + K +DL Y+ + + G
Sbjct: 234 CLDKSTEEPIVKVVERELISKHXKTIVEXENSGLVHXLKNGKTEDLGCXYKLFSRVPNG 292
>pdb|2DO7|A Chain A, Solution Structure Of The Winged Helix-Turn-Helix Motif Of
Human Cul-4b
Length = 101
Score = 47.8 bits (112), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 27/51 (52%), Positives = 30/51 (58%), Gaps = 2/51 (3%)
Query: 504 RKVLGHQQLVSECIELLGRMFKPAVKAFKKRIEGLISQDYLERYPENPNTF 554
RK L H LVSE L KPA KKRIE LI +DY+ER ENPN +
Sbjct: 43 RKTLSHNLLVSEVYNQLKFPVKPA--DLKKRIESLIDRDYMERDKENPNQY 91
>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 = 46.2 bits (108), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 24/51 (47%), Positives = 31/51 (60%)
Query: 504 RKVLGHQQLVSECIELLGRMFKPAVKAFKKRIEGLISQDYLERYPENPNTF 554
RKVL HQQL+ E + L FKP V KK I+ LI ++YLER +T+
Sbjct: 23 RKVLKHQQLLGEVLTQLSSRFKPRVPVIKKCIDILIEKEYLERVDGEKDTY 73
>pdb|1IUY|A Chain A, Solution Structure Of The Cullin-3 Homologue
Length = 92
Score = 42.7 bits (99), Expect = 5e-04, Method: Composition-based stats.
Identities = 22/51 (43%), Positives = 30/51 (58%)
Query: 504 RKVLGHQQLVSECIELLGRMFKPAVKAFKKRIEGLISQDYLERYPENPNTF 554
RK + H LV+E + L F P+ KKRIEGLI ++YL R PE+ +
Sbjct: 38 RKKMQHNVLVAEVTQQLKARFLPSPVVIKKRIEGLIEREYLARTPEDRKVY 88
>pdb|2WZK|A Chain A, Structure Of The Cul5 N-Terminal Domain At 2.05a
Resolution
Length = 391
Score = 37.7 bits (86), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 25/107 (23%), Positives = 48/107 (44%)
Query: 114 DIFVEHMLQDTSSYYSRISTNWILKDPCPDYMRKAEECLKKERDRVSRYLQSNGEEKLVE 173
D F + L T +Y + +++ ++ +YM+ A+ LK+E R RYL++ E VE
Sbjct: 200 DNFEKAYLDSTERFYRTQAPSYLQQNGVQNYMKYADAKLKEEEKRALRYLETRRECNSVE 259
Query: 174 KVQHELLVVYATQLLEKEQSGCGALFRGNKVDDLSRMYRFYRTIRAG 220
+ + T E + C + + N+ + L M+ + G
Sbjct: 260 ALMECCVNALVTSFKETILAECQGMIKRNETEKLHLMFSLMDKVPNG 306
>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 = 32.0 bits (71), Expect = 0.91, Method: Compositional matrix adjust.
Identities = 16/43 (37%), Positives = 24/43 (55%)
Query: 504 RKVLGHQQLVSECIELLGRMFKPAVKAFKKRIEGLISQDYLER 546
++ L H LV+ECI + F V K+ I+ LI + YL+R
Sbjct: 23 KRNLPHTTLVNECIAQSHQRFNAKVSMVKRAIDSLIQKGYLQR 65
>pdb|3O2P|E Chain E, A Dual E3 Mechanism For Rub1 Ligation To Cdc53:
Dcn1(P)-Cdc53(Whb)
Length = 88
Score = 32.0 bits (71), Expect = 0.91, Method: Compositional matrix adjust.
Identities = 16/43 (37%), Positives = 24/43 (55%)
Query: 504 RKVLGHQQLVSECIELLGRMFKPAVKAFKKRIEGLISQDYLER 546
++ L H LV+ECI + F V K+ I+ LI + YL+R
Sbjct: 35 KRNLPHTTLVNECIAQSHQRFNAKVSMVKRAIDSLIQKGYLQR 77
>pdb|3OOI|A Chain A, Crystal Structure Of Human Histone-Lysine
N-Methyltransferase Nsd1 Set Domain In Complex With
S-Adenosyl-L-Methionine
Length = 232
Score = 29.6 bits (65), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 27/109 (24%), Positives = 46/109 (42%), Gaps = 10/109 (9%)
Query: 141 CPDYMRKAEECLKKER---DRVSRYLQSN-GEEKLVEKVQHELLVVYATQLLEKEQSGCG 196
CP R +C K + + R LQ G + + E + Y +L+++E+ C
Sbjct: 75 CPAGGRCQNQCFSKRQYPEVEIFRTLQRGWGLRTKTDIKKGEFVNEYVGELIDEEE--CR 132
Query: 197 ALFRGNKVDDLSRMYRFY----RTIRAGPHDNYMEYVTNCFMDHSLFQR 241
A R + D++ Y R I AGP NY ++ +C + Q+
Sbjct: 133 ARIRYAQEHDITNFYMLTLDKDRIIDAGPKGNYARFMNHCCQPNCETQK 181
>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 = 29.6 bits (65), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 14/29 (48%), Positives = 20/29 (68%)
Query: 2 VQRRLIEFDEGWEYIQKGIGKLKRILEGL 30
+ + L + DEG E I+K I KL+RI +GL
Sbjct: 174 IAKILTKIDEGIEIIEKSINKLERIKKGL 202
>pdb|2VDV|E Chain E, Structure Of Trm8, M7g Methylation Enzyme
pdb|2VDV|F Chain F, Structure Of Trm8, M7g Methylation Enzyme
Length = 246
Score = 29.6 bits (65), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 28/111 (25%), Positives = 48/111 (43%), Gaps = 17/111 (15%)
Query: 68 IPGFDEFG-----LACFRDLVYDALKHKAK---DAVIDEREREQVDRALLANVLDI---- 115
+P F E G CF D + KHKA+ + ++ E + ++ + D+
Sbjct: 120 LPNFFEKGQLSKMFFCFPDPHFKQRKHKARIITNTLLSEYAYVLKEGGVVYTITDVKDLH 179
Query: 116 --FVEHMLQDTSSYYSRISTNWILKDPCPDYMRKA-EECLKKERDRVSRYL 163
V+H+ + + R+S W D C MR A EE K ER + +++
Sbjct: 180 EWMVKHL--EEHPLFERLSKEWEENDECVKIMRNATEEGKKVERKKGDKFV 228
>pdb|2VDU|E Chain E, Structure Of Trm8-Trm82, The Yeast Trna M7g Methylation
Complex
pdb|2VDU|F Chain F, Structure Of Trm8-Trm82, The Yeast Trna M7g Methylation
Complex
Length = 254
Score = 29.6 bits (65), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 28/111 (25%), Positives = 48/111 (43%), Gaps = 17/111 (15%)
Query: 68 IPGFDEFG-----LACFRDLVYDALKHKAK---DAVIDEREREQVDRALLANVLDI---- 115
+P F E G CF D + KHKA+ + ++ E + ++ + D+
Sbjct: 128 LPNFFEKGQLSKMFFCFPDPHFKQRKHKARIITNTLLSEYAYVLKEGGVVYTITDVKDLH 187
Query: 116 --FVEHMLQDTSSYYSRISTNWILKDPCPDYMRKA-EECLKKERDRVSRYL 163
V+H+ + + R+S W D C MR A EE K ER + +++
Sbjct: 188 EWMVKHL--EEHPLFERLSKEWEENDECVKIMRNATEEGKKVERKKGDKFV 236
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 0.136 0.401
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 15,716,773
Number of Sequences: 62578
Number of extensions: 630804
Number of successful extensions: 1596
Number of sequences better than 100.0: 29
Number of HSP's better than 100.0 without gapping: 24
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 1508
Number of HSP's gapped (non-prelim): 58
length of query: 554
length of database: 14,973,337
effective HSP length: 104
effective length of query: 450
effective length of database: 8,465,225
effective search space: 3809351250
effective search space used: 3809351250
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: 54 (25.4 bits)