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= 008667
(557 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 = 379 bits (974), Expect = e-105, Method: Compositional matrix adjust.
Identities = 202/490 (41%), Positives = 303/490 (61%), Gaps = 13/490 (2%)
Query: 37 FLEELNRKWNDHNKALQMIRDILMYMDRTYIPSTHKTP-VHELGLNLWRDNIVRSNKIQT 95
FL+++N W DH + + MIR I +++DRTY+ P + ++GL L+R +I+ +Q+
Sbjct: 131 FLKKINTCWQDHCRQMIMIRSIFLFLDRTYVLQNSTLPSIWDMGLELFRTHIISDKMVQS 190
Query: 96 RLLNTLLELVHRERTGEVINRGLMRNIIKMLMDLGPSVYQEDFEKPFLEVSAEFYKVESQ 155
+ ++ +L L+ RER+GE ++R L+R+++ ML DL VY++ FE FLE + Y E Q
Sbjct: 191 KTIDGILLLIERERSGEAVDRSLLRSLLGMLSDL--QVYKDSFELKFLEETNCLYAAEGQ 248
Query: 156 KFIECCDCGEYLKKAERRLNEEMERVTHYLDAKSEAKITNVVEKEMIANHMPRLVHMDNS 215
+ ++ + EYL +RL EE +RV YLD ++ + VEK+++ H+ ++
Sbjct: 249 RLMQEREVPEYLNHVSKRLEEEGDRVITYLDHSTQKPLIACVEKQLLGEHLTAILQ---K 305
Query: 216 GLVNMLLDDKYEDLGRMYNLFRRVPSGLLTIREVMTSHLRETGKQLVTDPERLKDPVEFV 275
GL ++L +++ DL +MY LF RV G + + + +++ G +V +PE+ KD V
Sbjct: 306 GLDHLLDENRVPDLAQMYQLFSRVRGGQQALLQHWSEYIKTFGTAIVINPEKDKD---MV 362
Query: 276 QRLLDEKDKYDNIISSAFNNDKTFQNALNSSFEYFINLNPRSP-EFISLFVDDKLRKGLK 334
Q LLD KDK D++I F ++ F N + SFE FIN P P E I+ VD KLR G K
Sbjct: 363 QDLLDFKDKVDHVIEVCFQKNERFVNLMKESFETFINKRPNKPAELIAKHVDSKLRAGNK 422
Query: 335 GVSEEDVETILDKVMMLFRYLQEKDVFEKYYKQHLAKRLLSGKTVSDDAERSLIVKLKTE 394
++E++E LDK+M+LFR++ KDVFE +YK+ LAKRLL GK+ S DAE+S++ KLK E
Sbjct: 423 EATDEELERTLDKIMILFRFIHGKDVFEAFYKKDLAKRLLVGKSASVDAEKSMLSKLKHE 482
Query: 395 CGYQFTSKLEGMFTDMKTSQDTMHEFYASHPELGDSRT--LVVQVLTTGSWPTQPSVTCN 452
CG FTSKLEGMF DM+ S+D M F DS L V +LT G WPT + +
Sbjct: 483 CGAAFTSKLEGMFKDMELSKDIMVHFKQHMQNQSDSGPIDLTVNILTMGYWPTYTPMEVH 542
Query: 453 LPAEMSALCEKFRSYYLGTHTGRRLSWQTNMGSADIKATFGKGQKHELNVSTYQMCVLML 512
L EM L E F+++YLG H+GR+L WQT +G A +KA F +G+K E VS +Q VL++
Sbjct: 543 LTPEMIKLQEVFKAFYLGKHSGRKLQWQTTLGHAVLKAEFKEGKK-EFQVSLFQTLVLLM 601
Query: 513 FNNADRLSYQ 522
FN D S++
Sbjct: 602 FNEGDGFSFE 611
>pdb|4A0K|A Chain A, Structure Of Ddb1-Ddb2-Cul4a-Rbx1 Bound To A 12 Bp Abasic
Site Containing Dna-Duplex
Length = 742
Score = 379 bits (974), Expect = e-105, Method: Compositional matrix adjust.
Identities = 202/490 (41%), Positives = 303/490 (61%), Gaps = 13/490 (2%)
Query: 37 FLEELNRKWNDHNKALQMIRDILMYMDRTYIPSTHKTP-VHELGLNLWRDNIVRSNKIQT 95
FL+++N W DH + + MIR I +++DRTY+ P + ++GL L+R +I+ +Q+
Sbjct: 114 FLKKINTCWQDHCRQMIMIRSIFLFLDRTYVLQNSTLPSIWDMGLELFRTHIISDKMVQS 173
Query: 96 RLLNTLLELVHRERTGEVINRGLMRNIIKMLMDLGPSVYQEDFEKPFLEVSAEFYKVESQ 155
+ ++ +L L+ RER+GE ++R L+R+++ ML DL VY++ FE FLE + Y E Q
Sbjct: 174 KTIDGILLLIERERSGEAVDRSLLRSLLGMLSDL--QVYKDSFELKFLEETNCLYAAEGQ 231
Query: 156 KFIECCDCGEYLKKAERRLNEEMERVTHYLDAKSEAKITNVVEKEMIANHMPRLVHMDNS 215
+ ++ + EYL +RL EE +RV YLD ++ + VEK+++ H+ ++
Sbjct: 232 RLMQEREVPEYLNHVSKRLEEEGDRVITYLDHSTQKPLIACVEKQLLGEHLTAILQ---K 288
Query: 216 GLVNMLLDDKYEDLGRMYNLFRRVPSGLLTIREVMTSHLRETGKQLVTDPERLKDPVEFV 275
GL ++L +++ DL +MY LF RV G + + + +++ G +V +PE+ KD V
Sbjct: 289 GLDHLLDENRVPDLAQMYQLFSRVRGGQQALLQHWSEYIKTFGTAIVINPEKDKD---MV 345
Query: 276 QRLLDEKDKYDNIISSAFNNDKTFQNALNSSFEYFINLNPRSP-EFISLFVDDKLRKGLK 334
Q LLD KDK D++I F ++ F N + SFE FIN P P E I+ VD KLR G K
Sbjct: 346 QDLLDFKDKVDHVIEVCFQKNERFVNLMKESFETFINKRPNKPAELIAKHVDSKLRAGNK 405
Query: 335 GVSEEDVETILDKVMMLFRYLQEKDVFEKYYKQHLAKRLLSGKTVSDDAERSLIVKLKTE 394
++E++E LDK+M+LFR++ KDVFE +YK+ LAKRLL GK+ S DAE+S++ KLK E
Sbjct: 406 EATDEELERTLDKIMILFRFIHGKDVFEAFYKKDLAKRLLVGKSASVDAEKSMLSKLKHE 465
Query: 395 CGYQFTSKLEGMFTDMKTSQDTMHEFYASHPELGDSRT--LVVQVLTTGSWPTQPSVTCN 452
CG FTSKLEGMF DM+ S+D M F DS L V +LT G WPT + +
Sbjct: 466 CGAAFTSKLEGMFKDMELSKDIMVHFKQHMQNQSDSGPIDLTVNILTMGYWPTYTPMEVH 525
Query: 453 LPAEMSALCEKFRSYYLGTHTGRRLSWQTNMGSADIKATFGKGQKHELNVSTYQMCVLML 512
L EM L E F+++YLG H+GR+L WQT +G A +KA F +G+K E VS +Q VL++
Sbjct: 526 LTPEMIKLQEVFKAFYLGKHSGRKLQWQTTLGHAVLKAEFKEGKK-EFQVSLFQTLVLLM 584
Query: 513 FNNADRLSYQ 522
FN D S++
Sbjct: 585 FNEGDGFSFE 594
>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 = 364 bits (935), Expect = e-101, Method: Compositional matrix adjust.
Identities = 197/488 (40%), Positives = 304/488 (62%), Gaps = 13/488 (2%)
Query: 37 FLEELNRKWNDHNKALQMIRDILMYMDRTYIPSTHKTP-VHELGLNLWRDNIVRSNKIQT 95
FL++++R W +H + + MIR I +++DRTY+ P + ++GL L+R +I+ K+Q
Sbjct: 98 FLKKIDRCWQNHCRQMIMIRSIFLFLDRTYVLQNSMLPSIWDMGLELFRAHIISDQKVQN 157
Query: 96 RLLNTLLELVHRERTGEVINRGLMRNIIKMLMDLGPSVYQEDFEKPFLEVSAEFYKVESQ 155
+ ++ +L L+ RER GE I+R L+R+ + M +YQ+ FE+ FLE + Y E Q
Sbjct: 158 KTIDGILLLIERERNGEAIDRSLLRS--LLSMLSDLQIYQDSFEQRFLEETNRLYAAEGQ 215
Query: 156 KFIECCDCGEYLKKAERRLNEEMERVTHYLDAKSEAKITNVVEKEMIANHMPRLVHMDNS 215
K ++ + EYL +RL EE +R+ YLD ++ + VEK+++ H+ ++
Sbjct: 216 KLMQEREVPEYLHHVNKRLEEEADRLITYLDQTTQKSLIATVEKQLLGEHLTAILQ---K 272
Query: 216 GLVNMLLDDKYEDLGRMYNLFRRVPSGLLTIREVMTSHLRETGKQLVTDPERLKDPVEFV 275
GL N+L +++ +DL +Y LF RV G+ + + +++ G +V +PE+ K V
Sbjct: 273 GLNNLLDENRIQDLSLLYQLFSRVRGGVQVLLQQWIEYIKAFGSTIVINPEKDKT---MV 329
Query: 276 QRLLDEKDKYDNIISSAFNNDKTFQNALNSSFEYFINLNPRSP-EFISLFVDDKLRKGLK 334
Q LLD KDK D+II F ++ F NA+ +FE FIN P P E I+ +VD KLR G K
Sbjct: 330 QELLDFKDKVDHIIDICFLKNEKFINAMKEAFETFINKRPNKPAELIAKYVDSKLRAGNK 389
Query: 335 GVSEEDVETILDKVMMLFRYLQEKDVFEKYYKQHLAKRLLSGKTVSDDAERSLIVKLKTE 394
++E++E +LDK+M++FR++ KDVFE +YK+ LAKRLL GK+ S DAE+S++ KLK E
Sbjct: 390 EATDEELEKMLDKIMIIFRFIYGKDVFEAFYKKDLAKRLLVGKSASVDAEKSMLSKLKHE 449
Query: 395 CGYQFTSKLEGMFTDMKTSQDTMHEF--YASHPELGDSRTLVVQVLTTGSWPTQPSVTCN 452
CG FTSKLEGMF DM+ S+D M +F Y + + + L V +LT G WPT + +
Sbjct: 450 CGAAFTSKLEGMFKDMELSKDIMIQFKQYMQNQNVPGNIELTVNILTMGYWPTYVPMEVH 509
Query: 453 LPAEMSALCEKFRSYYLGTHTGRRLSWQTNMGSADIKATFGKGQKHELNVSTYQMCVLML 512
LP EM L E F+++YLG H+GR+L WQ+ +G +KA F +G+K EL VS +Q VL++
Sbjct: 510 LPPEMVKLQEIFKTFYLGKHSGRKLQWQSTLGHCVLKAEFKEGKK-ELQVSLFQTLVLLM 568
Query: 513 FNNADRLS 520
FN + S
Sbjct: 569 FNEGEEFS 576
>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 = 364 bits (934), Expect = e-101, Method: Compositional matrix adjust.
Identities = 197/488 (40%), Positives = 304/488 (62%), Gaps = 13/488 (2%)
Query: 37 FLEELNRKWNDHNKALQMIRDILMYMDRTYIPSTHKTP-VHELGLNLWRDNIVRSNKIQT 95
FL++++R W +H + + MIR I +++DRTY+ P + ++GL L+R +I+ K+Q
Sbjct: 113 FLKKIDRCWQNHCRQMIMIRSIFLFLDRTYVLQNSMLPSIWDMGLELFRAHIISDQKVQN 172
Query: 96 RLLNTLLELVHRERTGEVINRGLMRNIIKMLMDLGPSVYQEDFEKPFLEVSAEFYKVESQ 155
+ ++ +L L+ RER GE I+R L+R+ + M +YQ+ FE+ FLE + Y E Q
Sbjct: 173 KTIDGILLLIERERNGEAIDRSLLRS--LLSMLSDLQIYQDSFEQRFLEETNRLYAAEGQ 230
Query: 156 KFIECCDCGEYLKKAERRLNEEMERVTHYLDAKSEAKITNVVEKEMIANHMPRLVHMDNS 215
K ++ + EYL +RL EE +R+ YLD ++ + VEK+++ H+ ++
Sbjct: 231 KLMQEREVPEYLHHVNKRLEEEADRLITYLDQTTQKSLIATVEKQLLGEHLTAILQ---K 287
Query: 216 GLVNMLLDDKYEDLGRMYNLFRRVPSGLLTIREVMTSHLRETGKQLVTDPERLKDPVEFV 275
GL N+L +++ +DL +Y LF RV G+ + + +++ G +V +PE+ K V
Sbjct: 288 GLNNLLDENRIQDLSLLYQLFSRVRGGVQVLLQQWIEYIKAFGSTIVINPEKDKT---MV 344
Query: 276 QRLLDEKDKYDNIISSAFNNDKTFQNALNSSFEYFINLNPRSP-EFISLFVDDKLRKGLK 334
Q LLD KDK D+II F ++ F NA+ +FE FIN P P E I+ +VD KLR G K
Sbjct: 345 QELLDFKDKVDHIIDICFLKNEKFINAMKEAFETFINKRPNKPAELIAKYVDSKLRAGNK 404
Query: 335 GVSEEDVETILDKVMMLFRYLQEKDVFEKYYKQHLAKRLLSGKTVSDDAERSLIVKLKTE 394
++E++E +LDK+M++FR++ KDVFE +YK+ LAKRLL GK+ S DAE+S++ KLK E
Sbjct: 405 EATDEELEKMLDKIMIIFRFIYGKDVFEAFYKKDLAKRLLVGKSASVDAEKSMLSKLKHE 464
Query: 395 CGYQFTSKLEGMFTDMKTSQDTMHEF--YASHPELGDSRTLVVQVLTTGSWPTQPSVTCN 452
CG FTSKLEGMF DM+ S+D M +F Y + + + L V +LT G WPT + +
Sbjct: 465 CGAAFTSKLEGMFKDMELSKDIMIQFKQYMQNQNVPGNIELTVNILTMGYWPTYVPMEVH 524
Query: 453 LPAEMSALCEKFRSYYLGTHTGRRLSWQTNMGSADIKATFGKGQKHELNVSTYQMCVLML 512
LP EM L E F+++YLG H+GR+L WQ+ +G +KA F +G+K EL VS +Q VL++
Sbjct: 525 LPPEMVKLQEIFKTFYLGKHSGRKLQWQSTLGHCVLKAEFKEGKK-ELQVSLFQTLVLLM 583
Query: 513 FNNADRLS 520
FN + S
Sbjct: 584 FNEGEEFS 591
>pdb|4AP2|B Chain B, Crystal Structure Of The Human Klhl11-cul3 Complex At 2.8a
Resolution
Length = 410
Score = 327 bits (837), Expect = 1e-89, Method: Compositional matrix adjust.
Identities = 165/326 (50%), Positives = 227/326 (69%), Gaps = 4/326 (1%)
Query: 1 MVLHKFGEKLYSGLVSTMTLHL-KEISKSIEAAQGGSFLEELNRKWNDHNKALQMIRDIL 59
MVLHK GEKLY+GL +T HL ++ + + + +FL+ LN+ WNDH A+ MIRDIL
Sbjct: 64 MVLHKHGEKLYTGLREVVTEHLINKVREDVLNSLNNNFLQTLNQAWNDHQTAMVMIRDIL 123
Query: 60 MYMDRTYIPSTHKTPVHELGLNLWRDNIVRSNKIQTRLLNTLLELVHRERTGEVINRGLM 119
MYMDR Y+ + V+ LGL ++RD +VR I+ L TLL+++ RER GEV++RG +
Sbjct: 124 MYMDRVYVQQNNVENVYNLGLIIFRDQVVRYGCIRDHLRQTLLDMIARERKGEVVDRGAI 183
Query: 120 RNIIKMLMDLG---PSVYQEDFEKPFLEVSAEFYKVESQKFIECCDCGEYLKKAERRLNE 176
RN +MLM LG SVY+EDFE PFLE+SAEF+++ESQKF+ Y+KK E R+NE
Sbjct: 184 RNACQMLMILGLEGRSVYEEDFEAPFLEMSAEFFQMESQKFLAENSASVYIKKVEARINE 243
Query: 177 EMERVTHYLDAKSEAKITNVVEKEMIANHMPRLVHMDNSGLVNMLLDDKYEDLGRMYNLF 236
E+ERV H LD +E I VVE+E+I+ HM +V M+NSGLV+ML + K EDLG MY LF
Sbjct: 244 EIERVMHCLDKSTEEPIVKVVERELISKHMKTIVEMENSGLVHMLKNGKTEDLGCMYKLF 303
Query: 237 RRVPSGLLTIREVMTSHLRETGKQLVTDPERLKDPVEFVQRLLDEKDKYDNIISSAFNND 296
RVP+GL T+ E M+S+LRE GK LV++ K+PV++ Q L D K ++D + +FNND
Sbjct: 304 SRVPNGLKTMCECMSSYLREQGKALVSEEGEGKNPVDYRQGLDDLKSRFDRFLLESFNND 363
Query: 297 KTFQNALNSSFEYFINLNPRSPEFIS 322
+ F+ + FEYF+NLN RSPE+++
Sbjct: 364 RLFKQTIAGDFEYFLNLNSRSPEYLA 389
>pdb|4APF|B Chain B, Crystal Structure Of The Human Klhl11-cul3 Complex At 3.1a
Resolution
Length = 388
Score = 327 bits (837), Expect = 1e-89, Method: Compositional matrix adjust.
Identities = 165/326 (50%), Positives = 227/326 (69%), Gaps = 4/326 (1%)
Query: 1 MVLHKFGEKLYSGLVSTMTLHL-KEISKSIEAAQGGSFLEELNRKWNDHNKALQMIRDIL 59
MVLHK GEKLY+GL +T HL ++ + + + +FL+ LN+ WNDH A+ MIRDIL
Sbjct: 42 MVLHKHGEKLYTGLREVVTEHLINKVREDVLNSLNNNFLQTLNQAWNDHQTAMVMIRDIL 101
Query: 60 MYMDRTYIPSTHKTPVHELGLNLWRDNIVRSNKIQTRLLNTLLELVHRERTGEVINRGLM 119
MYMDR Y+ + V+ LGL ++RD +VR I+ L TLL+++ RER GEV++RG +
Sbjct: 102 MYMDRVYVQQNNVENVYNLGLIIFRDQVVRYGCIRDHLRQTLLDMIARERKGEVVDRGAI 161
Query: 120 RNIIKMLMDLG---PSVYQEDFEKPFLEVSAEFYKVESQKFIECCDCGEYLKKAERRLNE 176
RN +MLM LG SVY+EDFE PFLE+SAEF+++ESQKF+ Y+KK E R+NE
Sbjct: 162 RNACQMLMILGLEGRSVYEEDFEAPFLEMSAEFFQMESQKFLAENSASVYIKKVEARINE 221
Query: 177 EMERVTHYLDAKSEAKITNVVEKEMIANHMPRLVHMDNSGLVNMLLDDKYEDLGRMYNLF 236
E+ERV H LD +E I VVE+E+I+ HM +V M+NSGLV+ML + K EDLG MY LF
Sbjct: 222 EIERVMHCLDKSTEEPIVKVVERELISKHMKTIVEMENSGLVHMLKNGKTEDLGCMYKLF 281
Query: 237 RRVPSGLLTIREVMTSHLRETGKQLVTDPERLKDPVEFVQRLLDEKDKYDNIISSAFNND 296
RVP+GL T+ E M+S+LRE GK LV++ K+PV++ Q L D K ++D + +FNND
Sbjct: 282 SRVPNGLKTMCECMSSYLREQGKALVSEEGEGKNPVDYRQGLDDLKSRFDRFLLESFNND 341
Query: 297 KTFQNALNSSFEYFINLNPRSPEFIS 322
+ F+ + FEYF+NLN RSPE+++
Sbjct: 342 RLFKQTIAGDFEYFLNLNSRSPEYLA 367
>pdb|1U6G|A Chain A, Crystal Structure Of The Cand1-Cul1-Roc1 Complex
Length = 776
Score = 301 bits (771), Expect = 6e-82, Method: Compositional matrix adjust.
Identities = 184/549 (33%), Positives = 302/549 (55%), Gaps = 43/549 (7%)
Query: 7 GEKLYSGLVSTMTLHLKEISKSIEAAQGGSFLEELNRKWNDHNKALQMIRDILMYMDRTY 66
G +LY L + +L + K E S L+ ++W D+ + +++ I Y++R +
Sbjct: 85 GLELYKRLKEFLKNYLTNLLKDGEDLMDESVLKFYTQQWEDYRFSSKVLNGICAYLNRHW 144
Query: 67 IPSTHKT------PVHELGLNLWRDNIVRSNKIQTRLLNTLLELVHRERTGEVINRGLMR 120
+ ++ L L WRD + R + ++ N +L+L+ +ER GE IN L+
Sbjct: 145 VRRECDEGRKGIYEIYSLALVTWRDCLFRP--LNKQVTNAVLKLIEKERNGETINTRLIS 202
Query: 121 NIIKMLMDLG----------PS--VYQEDFEKPFLEVSAEFYKVESQKFIECCDCGEYLK 168
+++ ++LG P+ VY+E FE FL + FY ES +F++ EY+K
Sbjct: 203 GVVQSYVELGLNEDDAFAKGPTLTVYKESFESQFLADTERFYTRESTEFLQQNPVTEYMK 262
Query: 169 KAERRLNEEMERVTHYLDAKSEAKITNVVEKEMIANHMPRLVHMDNSGLVNMLLDDKYED 228
KAE RL EE RV YL ++ ++ E+ +I H+ + H + N+L DK ED
Sbjct: 263 KAEARLLEEQRRVQVYLHESTQDELARKCEQVLIEKHL-EIFHTE---FQNLLDADKNED 318
Query: 229 LGRMYNLFRRVPSGLLTIREVMTSHLRETGKQLV--TDPERLKDPVEFVQRLLDEKDKYD 286
LGRMYNL R+ GL +++++ +H+ G + L DP +VQ +LD KY+
Sbjct: 319 LGRMYNLVSRIQDGLGELKKLLETHIHNQGLAAIEKCGEAALNDPKMYVQTVLDVHKKYN 378
Query: 287 NIISSAFNNDKTFQNALNSSFEYFINLNP---------RSPEFISLFVDDKLRKGLKGVS 337
++ SAFNND F AL+ + FIN N +SPE ++ + D L+K K
Sbjct: 379 ALVMSAFNNDAGFVAALDKACGRFINNNAVTKMAQSSSKSPELLARYCDSLLKKSSKNPE 438
Query: 338 EEDVETILDKVMMLFRYLQEKDVFEKYYKQHLAKRLLSGKTVSDDAERSLIVKLKTECGY 397
E ++E L++VM++F+Y+++KDVF+K+Y + LAKRL+ + SDDAE S+I KLK CG+
Sbjct: 439 EAELEDTLNQVMVVFKYIEDKDVFQKFYAKMLAKRLVHQNSASDDAEASMISKLKQACGF 498
Query: 398 QFTSKLEGMFTDMKTSQDTMHEFYASHPELGDSRTL----VVQVLTTGSWPTQPSVTCNL 453
++TSKL+ MF D+ S+D ++E + H L +S L +QVL++GSWP Q S T L
Sbjct: 499 EYTSKLQRMFQDIGVSKD-LNEQFKKH--LTNSEPLDLDFSIQVLSSGSWPFQQSCTFAL 555
Query: 454 PAEMSALCEKFRSYYLGTHTGRRLSWQTNMGSADIKATFGKGQKHELNVSTYQMCVLMLF 513
P+E+ ++F ++Y H+GR+L+W + ++ K ++ L ST+QM +L+ +
Sbjct: 556 PSELERSYQRFTAFYASRHSGRKLTWLYQLSKGELVTNCFKN-RYTLQASTFQMAILLQY 614
Query: 514 NNADRLSYQ 522
N D + Q
Sbjct: 615 NTEDAYTVQ 623
>pdb|1LDJ|A Chain A, Structure Of The Cul1-rbx1-skp1-f Boxskp2 Scf Ubiquitin
Ligase Complex
Length = 760
Score = 301 bits (771), Expect = 7e-82, Method: Compositional matrix adjust.
Identities = 184/549 (33%), Positives = 302/549 (55%), Gaps = 43/549 (7%)
Query: 7 GEKLYSGLVSTMTLHLKEISKSIEAAQGGSFLEELNRKWNDHNKALQMIRDILMYMDRTY 66
G +LY L + +L + K E S L+ ++W D+ + +++ I Y++R +
Sbjct: 69 GLELYKRLKEFLKNYLTNLLKDGEDLMDESVLKFYTQQWEDYRFSSKVLNGICAYLNRHW 128
Query: 67 IPSTHKT------PVHELGLNLWRDNIVRSNKIQTRLLNTLLELVHRERTGEVINRGLMR 120
+ ++ L L WRD + R + ++ N +L+L+ +ER GE IN L+
Sbjct: 129 VRRECDEGRKGIYEIYSLALVTWRDCLFRP--LNKQVTNAVLKLIEKERNGETINTRLIS 186
Query: 121 NIIKMLMDLG----------PS--VYQEDFEKPFLEVSAEFYKVESQKFIECCDCGEYLK 168
+++ ++LG P+ VY+E FE FL + FY ES +F++ EY+K
Sbjct: 187 GVVQSYVELGLNEDDAFAKGPTLTVYKESFESQFLADTERFYTRESTEFLQQNPVTEYMK 246
Query: 169 KAERRLNEEMERVTHYLDAKSEAKITNVVEKEMIANHMPRLVHMDNSGLVNMLLDDKYED 228
KAE RL EE RV YL ++ ++ E+ +I H+ + H + N+L DK ED
Sbjct: 247 KAEARLLEEQRRVQVYLHESTQDELARKCEQVLIEKHL-EIFHTE---FQNLLDADKNED 302
Query: 229 LGRMYNLFRRVPSGLLTIREVMTSHLRETGKQLV--TDPERLKDPVEFVQRLLDEKDKYD 286
LGRMYNL R+ GL +++++ +H+ G + L DP +VQ +LD KY+
Sbjct: 303 LGRMYNLVSRIQDGLGELKKLLETHIHNQGLAAIEKCGEAALNDPKMYVQTVLDVHKKYN 362
Query: 287 NIISSAFNNDKTFQNALNSSFEYFINLNP---------RSPEFISLFVDDKLRKGLKGVS 337
++ SAFNND F AL+ + FIN N +SPE ++ + D L+K K
Sbjct: 363 ALVMSAFNNDAGFVAALDKACGRFINNNAVTKMAQSSSKSPELLARYCDSLLKKSSKNPE 422
Query: 338 EEDVETILDKVMMLFRYLQEKDVFEKYYKQHLAKRLLSGKTVSDDAERSLIVKLKTECGY 397
E ++E L++VM++F+Y+++KDVF+K+Y + LAKRL+ + SDDAE S+I KLK CG+
Sbjct: 423 EAELEDTLNQVMVVFKYIEDKDVFQKFYAKMLAKRLVHQNSASDDAEASMISKLKQACGF 482
Query: 398 QFTSKLEGMFTDMKTSQDTMHEFYASHPELGDSRTL----VVQVLTTGSWPTQPSVTCNL 453
++TSKL+ MF D+ S+D ++E + H L +S L +QVL++GSWP Q S T L
Sbjct: 483 EYTSKLQRMFQDIGVSKD-LNEQFKKH--LTNSEPLDLDFSIQVLSSGSWPFQQSCTFAL 539
Query: 454 PAEMSALCEKFRSYYLGTHTGRRLSWQTNMGSADIKATFGKGQKHELNVSTYQMCVLMLF 513
P+E+ ++F ++Y H+GR+L+W + ++ K ++ L ST+QM +L+ +
Sbjct: 540 PSELERSYQRFTAFYASRHSGRKLTWLYQLSKGELVTNCFKN-RYTLQASTFQMAILLQY 598
Query: 514 NNADRLSYQ 522
N D + Q
Sbjct: 599 NTEDAYTVQ 607
>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 = 284 bits (726), Expect = 1e-76, Method: Compositional matrix adjust.
Identities = 150/317 (47%), Positives = 204/317 (64%), Gaps = 4/317 (1%)
Query: 2 VLHKFGEKLYSGLVSTMTLHL-KEISKSIEAAQGGSFLEELNRKWNDHNKALQMIRDILM 60
VLHK GEKLY+GL +T HL ++ + + + +FL+ LN+ WNDH A IRDIL
Sbjct: 48 VLHKHGEKLYTGLREVVTEHLINKVREDVLNSLNNNFLQTLNQAWNDHQTAXVXIRDILX 107
Query: 61 YMDRTYIPSTHKTPVHELGLNLWRDNIVRSNKIQTRLLNTLLELVHRERTGEVINRGLMR 120
Y DR Y+ + V+ LGL ++RD +VR I+ L TLL+ + RER GEV++RG +R
Sbjct: 108 YXDRVYVQQNNVENVYNLGLIIFRDQVVRYGCIRDHLRQTLLDXIARERKGEVVDRGAIR 167
Query: 121 NIIKMLMDLG---PSVYQEDFEKPFLEVSAEFYKVESQKFIECCDCGEYLKKAERRLNEE 177
N + L LG SVY+EDFE PFLE SAEF++ ESQKF+ Y+KK E R+NEE
Sbjct: 168 NACQXLXILGLEGRSVYEEDFEAPFLEXSAEFFQXESQKFLAENSASVYIKKVEARINEE 227
Query: 178 MERVTHYLDAKSEAKITNVVEKEMIANHMPRLVHMDNSGLVNMLLDDKYEDLGRMYNLFR 237
+ERV H LD +E I VVE+E+I+ H +V +NSGLV+ L + K EDLG Y LF
Sbjct: 228 IERVXHCLDKSTEEPIVKVVERELISKHXKTIVEXENSGLVHXLKNGKTEDLGCXYKLFS 287
Query: 238 RVPSGLLTIREVMTSHLRETGKQLVTDPERLKDPVEFVQRLLDEKDKYDNIISSAFNNDK 297
RVP+GL T E +S+LRE GK LV++ K+PV++ Q L D K ++D + +FNND+
Sbjct: 288 RVPNGLKTXCECXSSYLREQGKALVSEEGEGKNPVDYRQGLDDLKSRFDRFLLESFNNDR 347
Query: 298 TFQNALNSSFEYFINLN 314
F+ + FEYF+NLN
Sbjct: 348 LFKQTIAGDFEYFLNLN 364
>pdb|1LDK|B Chain B, Structure Of The Cul1-Rbx1-Skp1-F Boxskp2 Scf Ubiquitin
Ligase Complex
Length = 366
Score = 162 bits (410), Expect = 4e-40, Method: Compositional matrix adjust.
Identities = 81/213 (38%), Positives = 135/213 (63%), Gaps = 8/213 (3%)
Query: 314 NPRSPEFISLFVDDKLRKGLKGVSEEDVETILDKVMMLFRYLQEKDVFEKYYKQHLAKRL 373
+ +SPE ++ + D L+K K E ++E L++VM++F+Y+++KDVF+K+Y + LAKRL
Sbjct: 5 SSKSPELLARYCDSLLKKSSKNPEEAELEDTLNQVMVVFKYIEDKDVFQKFYAKMLAKRL 64
Query: 374 LSGKTVSDDAERSLIVKLKTECGYQFTSKLEGMFTDMKTSQDTMHEFYASHPELGDSRTL 433
+ + SDDAE S+I KLK CG+++TSKL+ MF D+ S+D ++E + H L +S L
Sbjct: 65 VHQNSASDDAEASMISKLKQACGFEYTSKLQRMFQDIGVSKD-LNEQFKKH--LTNSEPL 121
Query: 434 ----VVQVLTTGSWPTQPSVTCNLPAEMSALCEKFRSYYLGTHTGRRLSWQTNMGSADIK 489
+QVL++GSWP Q S T LP+E+ ++F ++Y H+GR+L+W + ++
Sbjct: 122 DLDFSIQVLSSGSWPFQQSCTFALPSELERSYQRFTAFYASRHSGRKLTWLYQLSKGELV 181
Query: 490 ATFGKGQKHELNVSTYQMCVLMLFNNADRLSYQ 522
K ++ L ST+QM +L+ +N D + Q
Sbjct: 182 TNCFKN-RYTLQASTFQMAILLQYNTEDAYTVQ 213
>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 = 162 bits (409), Expect = 6e-40, Method: Compositional matrix adjust.
Identities = 95/280 (33%), Positives = 161/280 (57%), Gaps = 9/280 (3%)
Query: 37 FLEELNRKWNDHNKALQMIRDILMYMDRTYIPSTHKTP-VHELGLNLWRDNIVRSNKIQT 95
FL++++R W +H + + MIR I +++DRTY+ P + ++GL L+R +I+ K+Q
Sbjct: 82 FLKKIDRCWQNHCRQMIMIRSIFLFLDRTYVLQNSMLPSIWDMGLELFRAHIISDQKVQN 141
Query: 96 RLLNTLLELVHRERTGEVINRGLMRNIIKMLMDLGPSVYQEDFEKPFLEVSAEFYKVESQ 155
+ ++ +L L+ RER GE I+R L+R+ + M +YQ+ FE+ FLE + Y E Q
Sbjct: 142 KTIDGILLLIERERNGEAIDRSLLRS--LLSMLSDLQIYQDSFEQRFLEETNRLYAAEGQ 199
Query: 156 KFIECCDCGEYLKKAERRLNEEMERVTHYLDAKSEAKITNVVEKEMIANHMPRLVHMDNS 215
K ++ + EYL +RL EE +R+ YLD ++ + VEK+++ H+ ++
Sbjct: 200 KLMQEREVPEYLHHVNKRLEEEADRLITYLDQTTQKSLIATVEKQLLGEHLTAILQ---K 256
Query: 216 GLVNMLLDDKYEDLGRMYNLFRRVPSGLLTIREVMTSHLRETGKQLVTDPERLKDPVEFV 275
GL N+L +++ +DL +Y LF RV G+ + + +++ G +V +PE+ K
Sbjct: 257 GLNNLLDENRIQDLSLLYQLFSRVRGGVQVLLQQWIEYIKAFGSTIVINPEKDKT---MR 313
Query: 276 QRLLDEKDKYDNIISSAFNNDKTFQNALNSSFEYFINLNP 315
Q L D KDK D+II F ++ F NA+ +FE FIN P
Sbjct: 314 QELDDFKDKVDHIIDICFLKNEKFINAMKEAFETFINKRP 353
>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 = 154 bits (390), Expect = 8e-38, Method: Compositional matrix adjust.
Identities = 80/213 (37%), Positives = 132/213 (61%), Gaps = 8/213 (3%)
Query: 314 NPRSPEFISLFVDDKLRKGLKGVSEEDVETILDKVMMLFRYLQEKDVFEKYYKQHLAKRL 373
+ +SPE ++ + D L+K K E ++E L++VM F+ +++KDVF+K+Y + LAKRL
Sbjct: 7 SSKSPEELARYCDSLLKKSSKNPEEAELEDTLNQVMEKFKKIEDKDVFQKFYAKMLAKRL 66
Query: 374 LSGKTVSDDAERSLIVKLKTECGYQFTSKLEGMFTDMKTSQDTMHEFYASHPELGDSRTL 433
+ + SDDAE S+I KLK CG+++TSKL+ MF D+ S+D ++E + H L +S L
Sbjct: 67 VHQNSASDDAEASMISKLKQACGFEYTSKLQRMFQDIGVSKD-LNEQFKKH--LTNSEPL 123
Query: 434 ----VVQVLTTGSWPTQPSVTCNLPAEMSALCEKFRSYYLGTHTGRRLSWQTNMGSADIK 489
+QVL++GSWP Q S T LP+E+ ++F ++Y H+GR+L+W + ++
Sbjct: 124 DLDFSIQVLSSGSWPFQQSCTFALPSELERSYQRFTAFYASRHSGRKLTWLYQLSKGELV 183
Query: 490 ATFGKGQKHELNVSTYQMCVLMLFNNADRLSYQ 522
K ++ L ST+QM +L+ +N D + Q
Sbjct: 184 TNCFKN-RYTLQASTFQMAILLQYNTEDAYTVQ 215
>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 = 80/213 (37%), Positives = 132/213 (61%), Gaps = 8/213 (3%)
Query: 314 NPRSPEFISLFVDDKLRKGLKGVSEEDVETILDKVMMLFRYLQEKDVFEKYYKQHLAKRL 373
+ +SPE ++ + D L+K K E ++E L++VM F+ +++KDVF+K+Y + LAKRL
Sbjct: 7 SSKSPEELARYCDSLLKKSSKNPEEAELEDTLNQVMEKFKKIEDKDVFQKFYAKMLAKRL 66
Query: 374 LSGKTVSDDAERSLIVKLKTECGYQFTSKLEGMFTDMKTSQDTMHEFYASHPELGDSRTL 433
+ + SDDAE S+I KLK CG+++TSKL+ MF D+ S+D ++E + H L +S L
Sbjct: 67 VHQNSASDDAEASMISKLKQACGFEYTSKLQRMFQDIGVSKD-LNEQFKKH--LTNSEPL 123
Query: 434 ----VVQVLTTGSWPTQPSVTCNLPAEMSALCEKFRSYYLGTHTGRRLSWQTNMGSADIK 489
+QVL++GSWP Q S T LP+E+ ++F ++Y H+GR+L+W + ++
Sbjct: 124 DLDFSIQVLSSGSWPFQQSCTFALPSELERSYQRFTAFYASRHSGRKLTWLYQLSKGELV 183
Query: 490 ATFGKGQKHELNVSTYQMCVLMLFNNADRLSYQ 522
K ++ L ST+QM +L+ +N D + Q
Sbjct: 184 TNCFKN-RYTLQASTFQMAILLQYNTEDAYTVQ 215
>pdb|1LDK|A Chain A, Structure Of The Cul1-Rbx1-Skp1-F Boxskp2 Scf Ubiquitin
Ligase Complex
Length = 396
Score = 152 bits (383), Expect = 6e-37, Method: Compositional matrix adjust.
Identities = 103/329 (31%), Positives = 168/329 (51%), Gaps = 26/329 (7%)
Query: 7 GEKLYSGLVSTMTLHLKEISKSIEAAQGGSFLEELNRKWNDHNKALQMIRDILMYMDRTY 66
G +LY L + +L + K E S L+ ++W D+ + +++ I Y++R +
Sbjct: 71 GLELYKRLKEFLKNYLTNLLKDGEDLMDESVLKFYTQQWEDYRFSSKVLNGICAYLNRHW 130
Query: 67 IPSTHKT------PVHELGLNLWRDNIVRSNKIQTRLLNTLLELVHRERTGEVINRGLMR 120
+ ++ L L WRD + R + ++ N +L+L+ +ER GE IN L+
Sbjct: 131 VRRECDEGRKGIYEIYSLALVTWRDCLFRP--LNKQVTNAVLKLIEKERNGETINTRLIS 188
Query: 121 NIIKMLMDLG----------PS--VYQEDFEKPFLEVSAEFYKVESQKFIECCDCGEYLK 168
+++ ++LG P+ VY+E FE FL + FY ES +F++ EY+K
Sbjct: 189 GVVQSYVELGLNEDDAFAKGPTLTVYKESFESQFLADTERFYTRESTEFLQQNPVTEYMK 248
Query: 169 KAERRLNEEMERVTHYLDAKSEAKITNVVEKEMIANHMPRLVHMDNSGLVNMLLDDKYED 228
KAE RL EE RV YL ++ ++ E+ +I H+ + H + N+L DK ED
Sbjct: 249 KAEARLLEEQRRVQVYLHESTQDELARKCEQVLIEKHL-EIFHTE---FQNLLDADKNED 304
Query: 229 LGRMYNLFRRVPSGLLTIREVMTSHLRETGKQLV--TDPERLKDPVEFVQRLLDEKDKYD 286
LGRMYNL R+ GL +++++ +H+ G + L DP +VQ +LD KY+
Sbjct: 305 LGRMYNLVSRIQDGLGELKKLLETHIHNQGLAAIEKCGEAALNDPKMYVQTVLDVHKKYN 364
Query: 287 NIISSAFNNDKTFQNALNSSFEYFINLNP 315
++ SAFNND F AL+ + FIN N
Sbjct: 365 ALVMSAFNNDAGFVAALDKACGRFINNNA 393
>pdb|3DPL|C Chain C, Structural Insights Into Nedd8 Activation Of Cullin-Ring
Ligases: Conformational Control Of Conjugation
Length = 382
Score = 92.4 bits (228), Expect = 5e-19, Method: Compositional matrix adjust.
Identities = 64/211 (30%), Positives = 112/211 (53%), Gaps = 10/211 (4%)
Query: 316 RSPEFISLFVDDKLRKGL--KGVSEEDVETILDKVMMLFRYLQEKDVFEKYYKQHLAKRL 373
+ PE ++ + D LRK K ++ E++E L +V+ +Y+Q KDVF +Y+K HL +RL
Sbjct: 5 KCPEELANYCDMLLRKTPLSKKLTSEEIEAKLKEVLKKLKYVQNKDVFMRYHKAHLTRRL 64
Query: 374 LSGKTVSDDAERSLIVKLKTECGY--QFTSKLEGMFTDMKTSQDTMHEFYASHP--ELG- 428
+ + + E +++ L+ E G + +KL MF D+K S+D F H +L
Sbjct: 65 ILDISADSEIEENMVEWLR-EVGMPADYVNKLARMFQDIKVSEDLNQAFKEMHKNNKLAL 123
Query: 429 DSRTLVVQVLTTGSWP-TQPSVTCNLPAEMSALCEKFRSYYLGTHTGRRLSWQTNMGSAD 487
+ ++ +++L G+W + V +LP E+ L + +Y H+GR+L W M +
Sbjct: 124 PADSVNIKILNAGAWSRSSEKVFVSLPTELEDLIPEVEEFYKKNHSGRKLHWHHLMSNGI 183
Query: 488 IKATFGKGQKHELNVSTYQMCVLMLFNNADR 518
I GQ ++L V+T+Q+ VL +N R
Sbjct: 184 ITFKNEVGQ-YDLEVTTFQLAVLFAWNQRPR 213
>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 = 88.2 bits (217), Expect = 1e-17, Method: Compositional matrix adjust.
Identities = 62/211 (29%), Positives = 109/211 (51%), Gaps = 10/211 (4%)
Query: 316 RSPEFISLFVDDKLRKGL--KGVSEEDVETILDKVMMLFRYLQEKDVFEKYYKQHLAKRL 373
+ PE ++ + D LRK K ++ E++E L +V+ +Y+Q KDVF +Y+K HL +RL
Sbjct: 5 KCPEELANYCDXLLRKTPLSKKLTSEEIEAKLKEVLKKLKYVQNKDVFXRYHKAHLTRRL 64
Query: 374 LSGKTVSDDAERSLIVKLKTECGY--QFTSKLEGMFTDMKTSQDTMHEFYASHP--ELG- 428
+ + + E + + L+ E G + +KL F D+K S+D F H +L
Sbjct: 65 ILDISADSEIEENXVEWLR-EVGXPADYVNKLARXFQDIKVSEDLNQAFKEXHKNNKLAL 123
Query: 429 DSRTLVVQVLTTGSWP-TQPSVTCNLPAEMSALCEKFRSYYLGTHTGRRLSWQTNMGSAD 487
+ ++ +++L G+W + V +LP E+ L + +Y H+GR+L W +
Sbjct: 124 PADSVNIKILNAGAWSRSSEKVFVSLPTELEDLIPEVEEFYKKNHSGRKLHWHHLXSNGI 183
Query: 488 IKATFGKGQKHELNVSTYQMCVLMLFNNADR 518
I GQ ++L V+T+Q+ VL +N R
Sbjct: 184 ITFKNEVGQ-YDLEVTTFQLAVLFAWNQRPR 213
>pdb|2WZK|A Chain A, Structure Of The Cul5 N-Terminal Domain At 2.05a
Resolution
Length = 391
Score = 78.2 bits (191), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 60/249 (24%), Positives = 124/249 (49%), Gaps = 16/249 (6%)
Query: 75 VHELGLNLWRDNIVRSNKIQTRLLNTLLELVHRERTGEVINRGLMRNIIKMLMDLGPS-- 132
V +L L+ W ++I + I+ RL ++ ++LVH ER GE + L+ + + ++L +
Sbjct: 135 VRKLMLDTWNESIF--SNIKNRLQDSAMKLVHAERLGEAFDSQLVIGVRESYVNLCSNPE 192
Query: 133 ----VYQEDFEKPFLEVSAEFYKVESQKFIECCDCGEYLKKAERRLNEEMERVTHYLDAK 188
+Y+++FEK +L+ + FY+ ++ +++ Y+K A+ +L EE +R YL+ +
Sbjct: 193 DKLQIYRDNFEKAYLDSTERFYRTQAPSYLQQNGVQNYMKYADAKLKEEEKRALRYLETR 252
Query: 189 SEAKITNVVEKEMIANHMPRLVHMDNSGLV---NMLLDDKYEDLGRMYNLFRRVPSGLLT 245
E N VE M + + L M+ ++ E L M++L +VP+G+
Sbjct: 253 REC---NSVEALMECCVNALVTSFKETILAECQGMIKRNETEKLHLMFSLMDKVPNGIEP 309
Query: 246 IREVMTSHLRETG-KQLVTDPERLKDPVEFVQRLLDEK-DKYDNIISSAFNNDKTFQNAL 303
+ + + H+ G +V E + E + LD +++ ++ AF +D F A
Sbjct: 310 MLKDLEEHIISAGLADMVAAAETITTDSEKYREQLDTLFNRFSKLVKEAFQDDPRFLTAR 369
Query: 304 NSSFEYFIN 312
+ +++ +N
Sbjct: 370 DKAYKAVVN 378
>pdb|1ZTM|A Chain A, Structure Of The Uncleaved Paramyxovirus (hpiv3) Fusion
Protein
pdb|1ZTM|B Chain B, Structure Of The Uncleaved Paramyxovirus (hpiv3) Fusion
Protein
pdb|1ZTM|C Chain C, Structure Of The Uncleaved Paramyxovirus (hpiv3) Fusion
Protein
Length = 490
Score = 31.6 bits (70), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 22/92 (23%), Positives = 43/92 (46%), Gaps = 17/92 (18%)
Query: 8 EKLYSGLVSTMTLHLK---EISKSI---EAAQGGSFLEELNRKWNDHNKALQ-------- 53
++ + G++ T+ L + +I+ ++ EA Q S +E+L D NKA+Q
Sbjct: 90 KRFFGGVIGTIALGVATSAQITAAVALVEAKQARSDIEKLKEAIRDTNKAVQSVQSSIGN 149
Query: 54 ---MIRDILMYMDRTYIPSTHKTPVHELGLNL 82
I+ + Y+++ +PS + GL L
Sbjct: 150 LIVAIKSVQDYVNKEIVPSIARLGCEAAGLQL 181
>pdb|1K8Q|A Chain A, Crystal Structure Of Dog Gastric Lipase In Complex With A
Phosphonate Inhibitor
pdb|1K8Q|B Chain B, Crystal Structure Of Dog Gastric Lipase In Complex With A
Phosphonate Inhibitor
Length = 377
Score = 31.2 bits (69), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 37/142 (26%), Positives = 61/142 (42%), Gaps = 21/142 (14%)
Query: 269 KDPVEFVQRLLDEKDKYDNIISSAFNNDKTFQNALNSSFEYFINLNPRSPEFISLFVDDK 328
D VEF DE KYD + F KT Q+ L Y + + FI+ + K
Sbjct: 113 PDSVEFWAFSFDEMAKYDLPATIDFILKKTGQDKL----HYVGHSQGTTIGFIAFSTNPK 168
Query: 329 LRKGLKG-------VSEEDVETILDKVMM----LFRYLQEKDVF--EKYYKQHLAKRLLS 375
L K +K + + ET+++K+M+ LF+ + +F ++ Q LA + S
Sbjct: 169 LAKRIKTFYALAPVATVKYTETLINKLMLVPSFLFKLIFGNKIFYPHHFFDQFLATEVCS 228
Query: 376 GKTVSDDAERSLIVKLKTECGY 397
+TV +L + CG+
Sbjct: 229 RETVDLLCSNALFII----CGF 246
>pdb|2Y8U|A Chain A, A. Nidulans Chitin Deacetylase
pdb|2Y8U|B Chain B, A. Nidulans Chitin Deacetylase
Length = 230
Score = 30.8 bits (68), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 16/36 (44%), Positives = 20/36 (55%)
Query: 99 NTLLELVHRERTGEVINRGLMRNIIKMLMDLGPSVY 134
+T L LV R TG+VI + N I + D GPS Y
Sbjct: 11 STPLPLVRRVPTGQVITQCTTPNTIALTFDDGPSEY 46
>pdb|2VGN|A Chain A, Structure Of Yeast Dom34 : A Protein Related To
Translation Termination Factor Erf1 And Involved In
No-go Decay.
pdb|2VGN|B Chain B, Structure Of Yeast Dom34 : A Protein Related To
Translation Termination Factor Erf1 And Involved In
No-go Decay
Length = 386
Score = 30.4 bits (67), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 23/74 (31%), Positives = 36/74 (48%), Gaps = 4/74 (5%)
Query: 212 MDNSGLVNMLLDDKYEDLGRMYNLFRRVPSGLLTIREVMTSHLRETGKQLVTDPERLKDP 271
+ G V LL + EDL +Y + + L ++ TS L E GK+ TD +LK
Sbjct: 11 FNKGGAVITLLPEDKEDLFTVYQIVDK--DDELIFKKKFTSKLDEAGKKKSTDLVKLK-- 66
Query: 272 VEFVQRLLDEKDKY 285
++ + D KD+Y
Sbjct: 67 IKVISEDFDXKDEY 80
>pdb|2VGM|A Chain A, Structure Of Yeast Dom34 : A Protein Related To
Translation Termination Factor Erf1 And Involved In
No-Go Decay.
pdb|3IZQ|0 Chain 0, Structure Of The Dom34-Hbs1-Gdpnp Complex Bound To A
Translating Ribosome
pdb|3J16|A Chain A, Models Of Ribosome-Bound Dom34p And Rli1p And Their
Ribosomal Binding Partners
Length = 386
Score = 29.3 bits (64), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 23/74 (31%), Positives = 36/74 (48%), Gaps = 4/74 (5%)
Query: 212 MDNSGLVNMLLDDKYEDLGRMYNLFRRVPSGLLTIREVMTSHLRETGKQLVTDPERLKDP 271
+ G V LL + EDL +Y + + L ++ TS L E GK+ TD +LK
Sbjct: 11 FNKGGAVITLLPEDKEDLFTVYQIVDK--DDELIFKKKFTSKLDEAGKKKSTDLVKLK-- 66
Query: 272 VEFVQRLLDEKDKY 285
++ + D KD+Y
Sbjct: 67 IKVISEDFDMKDEY 80
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 0.388
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 15,704,495
Number of Sequences: 62578
Number of extensions: 649982
Number of successful extensions: 1917
Number of sequences better than 100.0: 26
Number of HSP's better than 100.0 without gapping: 20
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 1838
Number of HSP's gapped (non-prelim): 26
length of query: 557
length of database: 14,973,337
effective HSP length: 104
effective length of query: 453
effective length of database: 8,465,225
effective search space: 3834746925
effective search space used: 3834746925
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 54 (25.4 bits)