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= 007158
(615 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 = 402 bits (1033), Expect = e-112, Method: Compositional matrix adjust.
Identities = 221/576 (38%), Positives = 339/576 (58%), Gaps = 15/576 (2%)
Query: 11 IEAFKHRVVVDPKYAEKTWKILEHAIHEIYNHNASGLSFEELYRNAYNMVLHKFGEKLYS 70
I+ F+ R + Y + TW+ L A+ + + + + EELY+ N+ HK LY
Sbjct: 45 IKNFRDRPRLPDNYTQDTWRKLHEAVRAVQSSTSIRYNLEELYQAVENLCSHKVSPMLYK 104
Query: 71 GLVSTMTLHLKE--ISKSIEAAQGGSFLEELNRKWNDHNKALQMIRDILMYMDRTYIPST 128
L H++ + ++ FL+++N W DH + + MIR I +++DRTY+
Sbjct: 105 QLRQACEDHVQAQILPFREDSLDSVLFLKKINTCWQDHCRQMIMIRSIFLFLDRTYVLQN 164
Query: 129 HKTP-VHELGLNLWRDNIVRSNKIQTRLLNTLLELVHRERTGEVINRGLMRNIIKMLMDL 187
P + ++GL L+R +I+ +Q++ ++ +L L+ RER+GE ++R L+R+++ ML DL
Sbjct: 165 STLPSIWDMGLELFRTHIISDKMVQSKTIDGILLLIERERSGEAVDRSLLRSLLGMLSDL 224
Query: 188 GPSVYQEDFEKPFLEVSAEFYKVESQKFIECCDCGEYLKKAERRLNEEMERVTHYLDAKS 247
VY++ FE FLE + Y E Q+ ++ + EYL +RL EE +RV YLD +
Sbjct: 225 --QVYKDSFELKFLEETNCLYAAEGQRLMQEREVPEYLNHVSKRLEEEGDRVITYLDHST 282
Query: 248 EAKITNVVEKEMIANHMPRLVHMDNSGLVNMLLDDKYEDLGRMYNLFRRVPSGLLTIREV 307
+ + VEK+++ H+ ++ GL ++L +++ DL +MY LF RV G + +
Sbjct: 283 QKPLIACVEKQLLGEHLTAILQ---KGLDHLLDENRVPDLAQMYQLFSRVRGGQQALLQH 339
Query: 308 MTSHLRETGKQLVTDPERLKDPVEFVQRLLDEKDKYDNIISSAFNNDKTFQNALNSSFEY 367
+ +++ G +V +PE+ KD VQ LLD KDK D++I F ++ F N + SFE
Sbjct: 340 WSEYIKTFGTAIVINPEKDKD---MVQDLLDFKDKVDHVIEVCFQKNERFVNLMKESFET 396
Query: 368 FINLNPRSP-EFISLFVDDKLRKGLKGVSEEDVETILDKVMMLFRYLQEKDVFEKYYKQH 426
FIN P P E I+ VD KLR G K ++E++E LDK+M+LFR++ KDVFE +YK+
Sbjct: 397 FINKRPNKPAELIAKHVDSKLRAGNKEATDEELERTLDKIMILFRFIHGKDVFEAFYKKD 456
Query: 427 LAKRLLSGKTVSDDAERSLIVKLKTECGYQFTSKLEGMFTDMKTSQDTMHEFYASHPELG 486
LAKRLL GK+ S DAE+S++ KLK ECG FTSKLEGMF DM+ S+D M F
Sbjct: 457 LAKRLLVGKSASVDAEKSMLSKLKHECGAAFTSKLEGMFKDMELSKDIMVHFKQHMQNQS 516
Query: 487 DSRT--LVVQVLTTGSWPTQPSVTCNLPAEMSALCEKFRSYYLGTHTGRRLSWQTNMGSA 544
DS L V +LT G WPT + +L EM L E F+++YLG H+GR+L WQT +G A
Sbjct: 517 DSGPIDLTVNILTMGYWPTYTPMEVHLTPEMIKLQEVFKAFYLGKHSGRKLQWQTTLGHA 576
Query: 545 DIKATFGKGQKHELNVSTYQMCVLMLFNNADRLSYQ 580
+KA F +G+K E VS +Q VL++FN D S++
Sbjct: 577 VLKAEFKEGKK-EFQVSLFQTLVLLMFNEGDGFSFE 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 = 401 bits (1030), Expect = e-112, Method: Compositional matrix adjust.
Identities = 221/576 (38%), Positives = 339/576 (58%), Gaps = 15/576 (2%)
Query: 11 IEAFKHRVVVDPKYAEKTWKILEHAIHEIYNHNASGLSFEELYRNAYNMVLHKFGEKLYS 70
I+ F+ R + Y + TW+ L A+ + + + + EELY+ N+ HK LY
Sbjct: 28 IKNFRDRPRLPDNYTQDTWRKLHEAVRAVQSSTSIRYNLEELYQAVENLCSHKVSPMLYK 87
Query: 71 GLVSTMTLHLKE--ISKSIEAAQGGSFLEELNRKWNDHNKALQMIRDILMYMDRTYIPST 128
L H++ + ++ FL+++N W DH + + MIR I +++DRTY+
Sbjct: 88 QLRQACEDHVQAQILPFREDSLDSVLFLKKINTCWQDHCRQMIMIRSIFLFLDRTYVLQN 147
Query: 129 HKTP-VHELGLNLWRDNIVRSNKIQTRLLNTLLELVHRERTGEVINRGLMRNIIKMLMDL 187
P + ++GL L+R +I+ +Q++ ++ +L L+ RER+GE ++R L+R+++ ML DL
Sbjct: 148 STLPSIWDMGLELFRTHIISDKMVQSKTIDGILLLIERERSGEAVDRSLLRSLLGMLSDL 207
Query: 188 GPSVYQEDFEKPFLEVSAEFYKVESQKFIECCDCGEYLKKAERRLNEEMERVTHYLDAKS 247
VY++ FE FLE + Y E Q+ ++ + EYL +RL EE +RV YLD +
Sbjct: 208 --QVYKDSFELKFLEETNCLYAAEGQRLMQEREVPEYLNHVSKRLEEEGDRVITYLDHST 265
Query: 248 EAKITNVVEKEMIANHMPRLVHMDNSGLVNMLLDDKYEDLGRMYNLFRRVPSGLLTIREV 307
+ + VEK+++ H+ ++ GL ++L +++ DL +MY LF RV G + +
Sbjct: 266 QKPLIACVEKQLLGEHLTAILQ---KGLDHLLDENRVPDLAQMYQLFSRVRGGQQALLQH 322
Query: 308 MTSHLRETGKQLVTDPERLKDPVEFVQRLLDEKDKYDNIISSAFNNDKTFQNALNSSFEY 367
+ +++ G +V +PE+ KD VQ LLD KDK D++I F ++ F N + SFE
Sbjct: 323 WSEYIKTFGTAIVINPEKDKD---MVQDLLDFKDKVDHVIEVCFQKNERFVNLMKESFET 379
Query: 368 FINLNPRSP-EFISLFVDDKLRKGLKGVSEEDVETILDKVMMLFRYLQEKDVFEKYYKQH 426
FIN P P E I+ VD KLR G K ++E++E LDK+M+LFR++ KDVFE +YK+
Sbjct: 380 FINKRPNKPAELIAKHVDSKLRAGNKEATDEELERTLDKIMILFRFIHGKDVFEAFYKKD 439
Query: 427 LAKRLLSGKTVSDDAERSLIVKLKTECGYQFTSKLEGMFTDMKTSQDTMHEFYASHPELG 486
LAKRLL GK+ S DAE+S++ KLK ECG FTSKLEGMF DM+ S+D M F
Sbjct: 440 LAKRLLVGKSASVDAEKSMLSKLKHECGAAFTSKLEGMFKDMELSKDIMVHFKQHMQNQS 499
Query: 487 DSRT--LVVQVLTTGSWPTQPSVTCNLPAEMSALCEKFRSYYLGTHTGRRLSWQTNMGSA 544
DS L V +LT G WPT + +L EM L E F+++YLG H+GR+L WQT +G A
Sbjct: 500 DSGPIDLTVNILTMGYWPTYTPMEVHLTPEMIKLQEVFKAFYLGKHSGRKLQWQTTLGHA 559
Query: 545 DIKATFGKGQKHELNVSTYQMCVLMLFNNADRLSYQ 580
+KA F +G+K E VS +Q VL++FN D S++
Sbjct: 560 VLKAEFKEGKK-EFQVSLFQTLVLLMFNEGDGFSFE 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 = 390 bits (1002), Expect = e-108, Method: Compositional matrix adjust.
Identities = 220/576 (38%), Positives = 345/576 (59%), Gaps = 15/576 (2%)
Query: 11 IEAFKHRVVVDPKYAEKTWKILEHAIHEIYNHNASGLSFEELYRNAYNMVLHKFGEKLYS 70
I+ FK + + Y ++TW+ L+ A+ I N + + EELY+ N+ +K LY
Sbjct: 12 IKNFKDKPKLPENYTDETWQKLKEAVEAIQNSTSIKYNLEELYQAVENLCSYKISANLYK 71
Query: 71 GLVSTMTLHLK-EISKSIEAAQGGS-FLEELNRKWNDHNKALQMIRDILMYMDRTYIPST 128
L H+K +I + E + FL++++R W +H + + MIR I +++DRTY+
Sbjct: 72 QLRQICEDHIKAQIHQFREDSLDSVLFLKKIDRCWQNHCRQMIMIRSIFLFLDRTYVLQN 131
Query: 129 HKTP-VHELGLNLWRDNIVRSNKIQTRLLNTLLELVHRERTGEVINRGLMRNIIKMLMDL 187
P + ++GL L+R +I+ K+Q + ++ +L L+ RER GE I+R L+R+ + M
Sbjct: 132 SMLPSIWDMGLELFRAHIISDQKVQNKTIDGILLLIERERNGEAIDRSLLRS--LLSMLS 189
Query: 188 GPSVYQEDFEKPFLEVSAEFYKVESQKFIECCDCGEYLKKAERRLNEEMERVTHYLDAKS 247
+YQ+ FE+ FLE + Y E QK ++ + EYL +RL EE +R+ YLD +
Sbjct: 190 DLQIYQDSFEQRFLEETNRLYAAEGQKLMQEREVPEYLHHVNKRLEEEADRLITYLDQTT 249
Query: 248 EAKITNVVEKEMIANHMPRLVHMDNSGLVNMLLDDKYEDLGRMYNLFRRVPSGLLTIREV 307
+ + VEK+++ H+ ++ GL N+L +++ +DL +Y LF RV G+ + +
Sbjct: 250 QKSLIATVEKQLLGEHLTAILQ---KGLNNLLDENRIQDLSLLYQLFSRVRGGVQVLLQQ 306
Query: 308 MTSHLRETGKQLVTDPERLKDPVEFVQRLLDEKDKYDNIISSAFNNDKTFQNALNSSFEY 367
+++ G +V +PE+ K VQ LLD KDK D+II F ++ F NA+ +FE
Sbjct: 307 WIEYIKAFGSTIVINPEKDKT---MVQELLDFKDKVDHIIDICFLKNEKFINAMKEAFET 363
Query: 368 FINLNPRSP-EFISLFVDDKLRKGLKGVSEEDVETILDKVMMLFRYLQEKDVFEKYYKQH 426
FIN P P E I+ +VD KLR G K ++E++E +LDK+M++FR++ KDVFE +YK+
Sbjct: 364 FINKRPNKPAELIAKYVDSKLRAGNKEATDEELEKMLDKIMIIFRFIYGKDVFEAFYKKD 423
Query: 427 LAKRLLSGKTVSDDAERSLIVKLKTECGYQFTSKLEGMFTDMKTSQDTMHEF--YASHPE 484
LAKRLL GK+ S DAE+S++ KLK ECG FTSKLEGMF DM+ S+D M +F Y +
Sbjct: 424 LAKRLLVGKSASVDAEKSMLSKLKHECGAAFTSKLEGMFKDMELSKDIMIQFKQYMQNQN 483
Query: 485 LGDSRTLVVQVLTTGSWPTQPSVTCNLPAEMSALCEKFRSYYLGTHTGRRLSWQTNMGSA 544
+ + L V +LT G WPT + +LP EM L E F+++YLG H+GR+L WQ+ +G
Sbjct: 484 VPGNIELTVNILTMGYWPTYVPMEVHLPPEMVKLQEIFKTFYLGKHSGRKLQWQSTLGHC 543
Query: 545 DIKATFGKGQKHELNVSTYQMCVLMLFNNADRLSYQ 580
+KA F +G+K EL VS +Q VL++FN + S +
Sbjct: 544 VLKAEFKEGKK-ELQVSLFQTLVLLMFNEGEEFSLE 578
>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 = 390 bits (1001), Expect = e-108, Method: Compositional matrix adjust.
Identities = 220/576 (38%), Positives = 345/576 (59%), Gaps = 15/576 (2%)
Query: 11 IEAFKHRVVVDPKYAEKTWKILEHAIHEIYNHNASGLSFEELYRNAYNMVLHKFGEKLYS 70
I+ FK + + Y ++TW+ L+ A+ I N + + EELY+ N+ +K LY
Sbjct: 27 IKNFKDKPKLPENYTDETWQKLKEAVEAIQNSTSIKYNLEELYQAVENLCSYKISANLYK 86
Query: 71 GLVSTMTLHLK-EISKSIEAAQGGS-FLEELNRKWNDHNKALQMIRDILMYMDRTYIPST 128
L H+K +I + E + FL++++R W +H + + MIR I +++DRTY+
Sbjct: 87 QLRQICEDHIKAQIHQFREDSLDSVLFLKKIDRCWQNHCRQMIMIRSIFLFLDRTYVLQN 146
Query: 129 HKTP-VHELGLNLWRDNIVRSNKIQTRLLNTLLELVHRERTGEVINRGLMRNIIKMLMDL 187
P + ++GL L+R +I+ K+Q + ++ +L L+ RER GE I+R L+R+ + M
Sbjct: 147 SMLPSIWDMGLELFRAHIISDQKVQNKTIDGILLLIERERNGEAIDRSLLRS--LLSMLS 204
Query: 188 GPSVYQEDFEKPFLEVSAEFYKVESQKFIECCDCGEYLKKAERRLNEEMERVTHYLDAKS 247
+YQ+ FE+ FLE + Y E QK ++ + EYL +RL EE +R+ YLD +
Sbjct: 205 DLQIYQDSFEQRFLEETNRLYAAEGQKLMQEREVPEYLHHVNKRLEEEADRLITYLDQTT 264
Query: 248 EAKITNVVEKEMIANHMPRLVHMDNSGLVNMLLDDKYEDLGRMYNLFRRVPSGLLTIREV 307
+ + VEK+++ H+ ++ GL N+L +++ +DL +Y LF RV G+ + +
Sbjct: 265 QKSLIATVEKQLLGEHLTAILQ---KGLNNLLDENRIQDLSLLYQLFSRVRGGVQVLLQQ 321
Query: 308 MTSHLRETGKQLVTDPERLKDPVEFVQRLLDEKDKYDNIISSAFNNDKTFQNALNSSFEY 367
+++ G +V +PE+ K VQ LLD KDK D+II F ++ F NA+ +FE
Sbjct: 322 WIEYIKAFGSTIVINPEKDKT---MVQELLDFKDKVDHIIDICFLKNEKFINAMKEAFET 378
Query: 368 FINLNPRSP-EFISLFVDDKLRKGLKGVSEEDVETILDKVMMLFRYLQEKDVFEKYYKQH 426
FIN P P E I+ +VD KLR G K ++E++E +LDK+M++FR++ KDVFE +YK+
Sbjct: 379 FINKRPNKPAELIAKYVDSKLRAGNKEATDEELEKMLDKIMIIFRFIYGKDVFEAFYKKD 438
Query: 427 LAKRLLSGKTVSDDAERSLIVKLKTECGYQFTSKLEGMFTDMKTSQDTMHEF--YASHPE 484
LAKRLL GK+ S DAE+S++ KLK ECG FTSKLEGMF DM+ S+D M +F Y +
Sbjct: 439 LAKRLLVGKSASVDAEKSMLSKLKHECGAAFTSKLEGMFKDMELSKDIMIQFKQYMQNQN 498
Query: 485 LGDSRTLVVQVLTTGSWPTQPSVTCNLPAEMSALCEKFRSYYLGTHTGRRLSWQTNMGSA 544
+ + L V +LT G WPT + +LP EM L E F+++YLG H+GR+L WQ+ +G
Sbjct: 499 VPGNIELTVNILTMGYWPTYVPMEVHLPPEMVKLQEIFKTFYLGKHSGRKLQWQSTLGHC 558
Query: 545 DIKATFGKGQKHELNVSTYQMCVLMLFNNADRLSYQ 580
+KA F +G+K EL VS +Q VL++FN + S +
Sbjct: 559 VLKAEFKEGKK-ELQVSLFQTLVLLMFNEGEEFSLE 593
>pdb|4AP2|B Chain B, Crystal Structure Of The Human Klhl11-cul3 Complex At 2.8a
Resolution
Length = 410
Score = 375 bits (964), Expect = e-104, Method: Compositional matrix adjust.
Identities = 192/383 (50%), Positives = 262/383 (68%), Gaps = 6/383 (1%)
Query: 2 SNQKKRNFQIEAFKHRVVVDPKYAEKTWKILEHAIHEIYNHNASGLSFEELYRNAYNMVL 61
++K +I AF + +D KY W +L++AI EI N SGLSFEELYRNAY MVL
Sbjct: 9 GSRKDTKMRIRAFP--MTMDEKYVNSIWDLLKNAIQEIQRKNNSGLSFEELYRNAYTMVL 66
Query: 62 HKFGEKLYSGLVSTMTLHL-KEISKSIEAAQGGSFLEELNRKWNDHNKALQMIRDILMYM 120
HK GEKLY+GL +T HL ++ + + + +FL+ LN+ WNDH A+ MIRDILMYM
Sbjct: 67 HKHGEKLYTGLREVVTEHLINKVREDVLNSLNNNFLQTLNQAWNDHQTAMVMIRDILMYM 126
Query: 121 DRTYIPSTHKTPVHELGLNLWRDNIVRSNKIQTRLLNTLLELVHRERTGEVINRGLMRNI 180
DR Y+ + V+ LGL ++RD +VR I+ L TLL+++ RER GEV++RG +RN
Sbjct: 127 DRVYVQQNNVENVYNLGLIIFRDQVVRYGCIRDHLRQTLLDMIARERKGEVVDRGAIRNA 186
Query: 181 IKMLMDLG---PSVYQEDFEKPFLEVSAEFYKVESQKFIECCDCGEYLKKAERRLNEEME 237
+MLM LG SVY+EDFE PFLE+SAEF+++ESQKF+ Y+KK E R+NEE+E
Sbjct: 187 CQMLMILGLEGRSVYEEDFEAPFLEMSAEFFQMESQKFLAENSASVYIKKVEARINEEIE 246
Query: 238 RVTHYLDAKSEAKITNVVEKEMIANHMPRLVHMDNSGLVNMLLDDKYEDLGRMYNLFRRV 297
RV H LD +E I VVE+E+I+ HM +V M+NSGLV+ML + K EDLG MY LF RV
Sbjct: 247 RVMHCLDKSTEEPIVKVVERELISKHMKTIVEMENSGLVHMLKNGKTEDLGCMYKLFSRV 306
Query: 298 PSGLLTIREVMTSHLRETGKQLVTDPERLKDPVEFVQRLLDEKDKYDNIISSAFNNDKTF 357
P+GL T+ E M+S+LRE GK LV++ K+PV++ Q L D K ++D + +FNND+ F
Sbjct: 307 PNGLKTMCECMSSYLREQGKALVSEEGEGKNPVDYRQGLDDLKSRFDRFLLESFNNDRLF 366
Query: 358 QNALNSSFEYFINLNPRSPEFIS 380
+ + FEYF+NLN RSPE+++
Sbjct: 367 KQTIAGDFEYFLNLNSRSPEYLA 389
>pdb|4APF|B Chain B, Crystal Structure Of The Human Klhl11-cul3 Complex At 3.1a
Resolution
Length = 388
Score = 374 bits (960), Expect = e-104, Method: Compositional matrix adjust.
Identities = 188/367 (51%), Positives = 255/367 (69%), Gaps = 4/367 (1%)
Query: 18 VVVDPKYAEKTWKILEHAIHEIYNHNASGLSFEELYRNAYNMVLHKFGEKLYSGLVSTMT 77
+ +D KY W +L++AI EI N SGLSFEELYRNAY MVLHK GEKLY+GL +T
Sbjct: 1 MTMDEKYVNSIWDLLKNAIQEIQRKNNSGLSFEELYRNAYTMVLHKHGEKLYTGLREVVT 60
Query: 78 LHL-KEISKSIEAAQGGSFLEELNRKWNDHNKALQMIRDILMYMDRTYIPSTHKTPVHEL 136
HL ++ + + + +FL+ LN+ WNDH A+ MIRDILMYMDR Y+ + V+ L
Sbjct: 61 EHLINKVREDVLNSLNNNFLQTLNQAWNDHQTAMVMIRDILMYMDRVYVQQNNVENVYNL 120
Query: 137 GLNLWRDNIVRSNKIQTRLLNTLLELVHRERTGEVINRGLMRNIIKMLMDLG---PSVYQ 193
GL ++RD +VR I+ L TLL+++ RER GEV++RG +RN +MLM LG SVY+
Sbjct: 121 GLIIFRDQVVRYGCIRDHLRQTLLDMIARERKGEVVDRGAIRNACQMLMILGLEGRSVYE 180
Query: 194 EDFEKPFLEVSAEFYKVESQKFIECCDCGEYLKKAERRLNEEMERVTHYLDAKSEAKITN 253
EDFE PFLE+SAEF+++ESQKF+ Y+KK E R+NEE+ERV H LD +E I
Sbjct: 181 EDFEAPFLEMSAEFFQMESQKFLAENSASVYIKKVEARINEEIERVMHCLDKSTEEPIVK 240
Query: 254 VVEKEMIANHMPRLVHMDNSGLVNMLLDDKYEDLGRMYNLFRRVPSGLLTIREVMTSHLR 313
VVE+E+I+ HM +V M+NSGLV+ML + K EDLG MY LF RVP+GL T+ E M+S+LR
Sbjct: 241 VVERELISKHMKTIVEMENSGLVHMLKNGKTEDLGCMYKLFSRVPNGLKTMCECMSSYLR 300
Query: 314 ETGKQLVTDPERLKDPVEFVQRLLDEKDKYDNIISSAFNNDKTFQNALNSSFEYFINLNP 373
E GK LV++ K+PV++ Q L D K ++D + +FNND+ F+ + FEYF+NLN
Sbjct: 301 EQGKALVSEEGEGKNPVDYRQGLDDLKSRFDRFLLESFNNDRLFKQTIAGDFEYFLNLNS 360
Query: 374 RSPEFIS 380
RSPE+++
Sbjct: 361 RSPEYLA 367
>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 = 330 bits (846), Expect = 1e-90, Method: Compositional matrix adjust.
Identities = 173/356 (48%), Positives = 230/356 (64%), Gaps = 4/356 (1%)
Query: 21 DPKYAEKTWKILEHAIHEIYNHNASGLSFEELYRNAYNMVLHKFGEKLYSGLVSTMTLHL 80
D KY W +L++AI EI N SGLSFEELYRNAY VLHK GEKLY+GL +T HL
Sbjct: 9 DEKYVNSIWDLLKNAIQEIQRKNNSGLSFEELYRNAYTXVLHKHGEKLYTGLREVVTEHL 68
Query: 81 -KEISKSIEAAQGGSFLEELNRKWNDHNKALQMIRDILMYMDRTYIPSTHKTPVHELGLN 139
++ + + + +FL+ LN+ WNDH A IRDIL Y DR Y+ + V+ LGL
Sbjct: 69 INKVREDVLNSLNNNFLQTLNQAWNDHQTAXVXIRDILXYXDRVYVQQNNVENVYNLGLI 128
Query: 140 LWRDNIVRSNKIQTRLLNTLLELVHRERTGEVINRGLMRNIIKMLMDLG---PSVYQEDF 196
++RD +VR I+ L TLL+ + RER GEV++RG +RN + L LG SVY+EDF
Sbjct: 129 IFRDQVVRYGCIRDHLRQTLLDXIARERKGEVVDRGAIRNACQXLXILGLEGRSVYEEDF 188
Query: 197 EKPFLEVSAEFYKVESQKFIECCDCGEYLKKAERRLNEEMERVTHYLDAKSEAKITNVVE 256
E PFLE SAEF++ ESQKF+ Y+KK E R+NEE+ERV H LD +E I VVE
Sbjct: 189 EAPFLEXSAEFFQXESQKFLAENSASVYIKKVEARINEEIERVXHCLDKSTEEPIVKVVE 248
Query: 257 KEMIANHMPRLVHMDNSGLVNMLLDDKYEDLGRMYNLFRRVPSGLLTIREVMTSHLRETG 316
+E+I+ H +V +NSGLV+ L + K EDLG Y LF RVP+GL T E +S+LRE G
Sbjct: 249 RELISKHXKTIVEXENSGLVHXLKNGKTEDLGCXYKLFSRVPNGLKTXCECXSSYLREQG 308
Query: 317 KQLVTDPERLKDPVEFVQRLLDEKDKYDNIISSAFNNDKTFQNALNSSFEYFINLN 372
K LV++ K+PV++ Q L D K ++D + +FNND+ F+ + FEYF+NLN
Sbjct: 309 KALVSEEGEGKNPVDYRQGLDDLKSRFDRFLLESFNNDRLFKQTIAGDFEYFLNLN 364
>pdb|1U6G|A Chain A, Crystal Structure Of The Cand1-Cul1-Roc1 Complex
Length = 776
Score = 302 bits (774), Expect = 3e-82, Method: Compositional matrix adjust.
Identities = 195/616 (31%), Positives = 322/616 (52%), Gaps = 71/616 (11%)
Query: 26 EKTWKILEHAIHEIYNHNASGLS-FEELYRNAYNMV--LHK------------------- 63
++ W L I ++Y + S + ELY + YN +H+
Sbjct: 18 DQIWDDLRAGIQQVYTRQSMAKSRYMELYTHVYNYCTSVHQSNQARGAGVPPSKSKKGQT 77
Query: 64 ------FGEKLYSGLVSTMTLHLKEISKSIEAAQGGSFLEELNRKWNDHNKALQMIRDIL 117
G +LY L + +L + K E S L+ ++W D+ + +++ I
Sbjct: 78 PGGAQFVGLELYKRLKEFLKNYLTNLLKDGEDLMDESVLKFYTQQWEDYRFSSKVLNGIC 137
Query: 118 MYMDRTYIPSTHKT------PVHELGLNLWRDNIVRSNKIQTRLLNTLLELVHRERTGEV 171
Y++R ++ ++ L L WRD + R + ++ N +L+L+ +ER GE
Sbjct: 138 AYLNRHWVRRECDEGRKGIYEIYSLALVTWRDCLFRP--LNKQVTNAVLKLIEKERNGET 195
Query: 172 INRGLMRNIIKMLMDLG----------PS--VYQEDFEKPFLEVSAEFYKVESQKFIECC 219
IN L+ +++ ++LG P+ VY+E FE FL + FY ES +F++
Sbjct: 196 INTRLISGVVQSYVELGLNEDDAFAKGPTLTVYKESFESQFLADTERFYTRESTEFLQQN 255
Query: 220 DCGEYLKKAERRLNEEMERVTHYLDAKSEAKITNVVEKEMIANHMPRLVHMDNSGLVNML 279
EY+KKAE RL EE RV YL ++ ++ E+ +I H+ + H + N+L
Sbjct: 256 PVTEYMKKAEARLLEEQRRVQVYLHESTQDELARKCEQVLIEKHL-EIFHTE---FQNLL 311
Query: 280 LDDKYEDLGRMYNLFRRVPSGLLTIREVMTSHLRETGKQLV--TDPERLKDPVEFVQRLL 337
DK EDLGRMYNL R+ GL +++++ +H+ G + L DP +VQ +L
Sbjct: 312 DADKNEDLGRMYNLVSRIQDGLGELKKLLETHIHNQGLAAIEKCGEAALNDPKMYVQTVL 371
Query: 338 DEKDKYDNIISSAFNNDKTFQNALNSSFEYFINLNP---------RSPEFISLFVDDKLR 388
D KY+ ++ SAFNND F AL+ + FIN N +SPE ++ + D L+
Sbjct: 372 DVHKKYNALVMSAFNNDAGFVAALDKACGRFINNNAVTKMAQSSSKSPELLARYCDSLLK 431
Query: 389 KGLKGVSEEDVETILDKVMMLFRYLQEKDVFEKYYKQHLAKRLLSGKTVSDDAERSLIVK 448
K K E ++E L++VM++F+Y+++KDVF+K+Y + LAKRL+ + SDDAE S+I K
Sbjct: 432 KSSKNPEEAELEDTLNQVMVVFKYIEDKDVFQKFYAKMLAKRLVHQNSASDDAEASMISK 491
Query: 449 LKTECGYQFTSKLEGMFTDMKTSQDTMHEFYASHPELGDSRTL----VVQVLTTGSWPTQ 504
LK CG+++TSKL+ MF D+ S+D ++E + H L +S L +QVL++GSWP Q
Sbjct: 492 LKQACGFEYTSKLQRMFQDIGVSKD-LNEQFKKH--LTNSEPLDLDFSIQVLSSGSWPFQ 548
Query: 505 PSVTCNLPAEMSALCEKFRSYYLGTHTGRRLSWQTNMGSADIKATFGKGQKHELNVSTYQ 564
S T LP+E+ ++F ++Y H+GR+L+W + ++ K ++ L ST+Q
Sbjct: 549 QSCTFALPSELERSYQRFTAFYASRHSGRKLTWLYQLSKGELVTNCFKN-RYTLQASTFQ 607
Query: 565 MCVLMLFNNADRLSYQ 580
M +L+ +N D + Q
Sbjct: 608 MAILLQYNTEDAYTVQ 623
>pdb|1LDJ|A Chain A, Structure Of The Cul1-rbx1-skp1-f Boxskp2 Scf Ubiquitin
Ligase Complex
Length = 760
Score = 302 bits (774), Expect = 3e-82, Method: Compositional matrix adjust.
Identities = 195/616 (31%), Positives = 322/616 (52%), Gaps = 71/616 (11%)
Query: 26 EKTWKILEHAIHEIYNHNASGLS-FEELYRNAYNMV--LHK------------------- 63
++ W L I ++Y + S + ELY + YN +H+
Sbjct: 2 DQIWDDLRAGIQQVYTRQSMAKSRYMELYTHVYNYCTSVHQSNQARGAGVPPSKSKKGQT 61
Query: 64 ------FGEKLYSGLVSTMTLHLKEISKSIEAAQGGSFLEELNRKWNDHNKALQMIRDIL 117
G +LY L + +L + K E S L+ ++W D+ + +++ I
Sbjct: 62 PGGAQFVGLELYKRLKEFLKNYLTNLLKDGEDLMDESVLKFYTQQWEDYRFSSKVLNGIC 121
Query: 118 MYMDRTYIPSTHKT------PVHELGLNLWRDNIVRSNKIQTRLLNTLLELVHRERTGEV 171
Y++R ++ ++ L L WRD + R + ++ N +L+L+ +ER GE
Sbjct: 122 AYLNRHWVRRECDEGRKGIYEIYSLALVTWRDCLFRP--LNKQVTNAVLKLIEKERNGET 179
Query: 172 INRGLMRNIIKMLMDLG----------PS--VYQEDFEKPFLEVSAEFYKVESQKFIECC 219
IN L+ +++ ++LG P+ VY+E FE FL + FY ES +F++
Sbjct: 180 INTRLISGVVQSYVELGLNEDDAFAKGPTLTVYKESFESQFLADTERFYTRESTEFLQQN 239
Query: 220 DCGEYLKKAERRLNEEMERVTHYLDAKSEAKITNVVEKEMIANHMPRLVHMDNSGLVNML 279
EY+KKAE RL EE RV YL ++ ++ E+ +I H+ + H + N+L
Sbjct: 240 PVTEYMKKAEARLLEEQRRVQVYLHESTQDELARKCEQVLIEKHL-EIFHTE---FQNLL 295
Query: 280 LDDKYEDLGRMYNLFRRVPSGLLTIREVMTSHLRETGKQLV--TDPERLKDPVEFVQRLL 337
DK EDLGRMYNL R+ GL +++++ +H+ G + L DP +VQ +L
Sbjct: 296 DADKNEDLGRMYNLVSRIQDGLGELKKLLETHIHNQGLAAIEKCGEAALNDPKMYVQTVL 355
Query: 338 DEKDKYDNIISSAFNNDKTFQNALNSSFEYFINLNP---------RSPEFISLFVDDKLR 388
D KY+ ++ SAFNND F AL+ + FIN N +SPE ++ + D L+
Sbjct: 356 DVHKKYNALVMSAFNNDAGFVAALDKACGRFINNNAVTKMAQSSSKSPELLARYCDSLLK 415
Query: 389 KGLKGVSEEDVETILDKVMMLFRYLQEKDVFEKYYKQHLAKRLLSGKTVSDDAERSLIVK 448
K K E ++E L++VM++F+Y+++KDVF+K+Y + LAKRL+ + SDDAE S+I K
Sbjct: 416 KSSKNPEEAELEDTLNQVMVVFKYIEDKDVFQKFYAKMLAKRLVHQNSASDDAEASMISK 475
Query: 449 LKTECGYQFTSKLEGMFTDMKTSQDTMHEFYASHPELGDSRTL----VVQVLTTGSWPTQ 504
LK CG+++TSKL+ MF D+ S+D ++E + H L +S L +QVL++GSWP Q
Sbjct: 476 LKQACGFEYTSKLQRMFQDIGVSKD-LNEQFKKH--LTNSEPLDLDFSIQVLSSGSWPFQ 532
Query: 505 PSVTCNLPAEMSALCEKFRSYYLGTHTGRRLSWQTNMGSADIKATFGKGQKHELNVSTYQ 564
S T LP+E+ ++F ++Y H+GR+L+W + ++ K ++ L ST+Q
Sbjct: 533 QSCTFALPSELERSYQRFTAFYASRHSGRKLTWLYQLSKGELVTNCFKN-RYTLQASTFQ 591
Query: 565 MCVLMLFNNADRLSYQ 580
M +L+ +N D + Q
Sbjct: 592 MAILLQYNTEDAYTVQ 607
>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 = 185 bits (470), Expect = 6e-47, Method: Compositional matrix adjust.
Identities = 115/353 (32%), Positives = 195/353 (55%), Gaps = 11/353 (3%)
Query: 24 YAEKTWKILEHAIHEIYNHNASGLSFEELYRNAYNMVLHKFGEKLYSGLVSTMTLHLK-E 82
Y ++TW+ L+ A+ I N + + EELY+ N+ +K LY L H+K +
Sbjct: 9 YTDETWQKLKEAVEAIQNSTSIKYNLEELYQAVENLCSYKISANLYKQLRQICEDHIKAQ 68
Query: 83 ISKSIEAAQGGS-FLEELNRKWNDHNKALQMIRDILMYMDRTYIPSTHKTP-VHELGLNL 140
I + E + FL++++R W +H + + MIR I +++DRTY+ P + ++GL L
Sbjct: 69 IHQFREDSLDSVLFLKKIDRCWQNHCRQMIMIRSIFLFLDRTYVLQNSMLPSIWDMGLEL 128
Query: 141 WRDNIVRSNKIQTRLLNTLLELVHRERTGEVINRGLMRNIIKMLMDLGPSVYQEDFEKPF 200
+R +I+ K+Q + ++ +L L+ RER GE I+R L+R+ + M +YQ+ FE+ F
Sbjct: 129 FRAHIISDQKVQNKTIDGILLLIERERNGEAIDRSLLRS--LLSMLSDLQIYQDSFEQRF 186
Query: 201 LEVSAEFYKVESQKFIECCDCGEYLKKAERRLNEEMERVTHYLDAKSEAKITNVVEKEMI 260
LE + Y E QK ++ + EYL +RL EE +R+ YLD ++ + VEK+++
Sbjct: 187 LEETNRLYAAEGQKLMQEREVPEYLHHVNKRLEEEADRLITYLDQTTQKSLIATVEKQLL 246
Query: 261 ANHMPRLVHMDNSGLVNMLLDDKYEDLGRMYNLFRRVPSGLLTIREVMTSHLRETGKQLV 320
H+ ++ GL N+L +++ +DL +Y LF RV G+ + + +++ G +V
Sbjct: 247 GEHLTAILQ---KGLNNLLDENRIQDLSLLYQLFSRVRGGVQVLLQQWIEYIKAFGSTIV 303
Query: 321 TDPERLKDPVEFVQRLLDEKDKYDNIISSAFNNDKTFQNALNSSFEYFINLNP 373
+PE+ K Q L D KDK D+II F ++ F NA+ +FE FIN P
Sbjct: 304 INPEKDKT---MRQELDDFKDKVDHIIDICFLKNEKFINAMKEAFETFINKRP 353
>pdb|1LDK|B Chain B, Structure Of The Cul1-Rbx1-Skp1-F Boxskp2 Scf Ubiquitin
Ligase Complex
Length = 366
Score = 162 bits (410), Expect = 5e-40, Method: Compositional matrix adjust.
Identities = 81/213 (38%), Positives = 135/213 (63%), Gaps = 8/213 (3%)
Query: 372 NPRSPEFISLFVDDKLRKGLKGVSEEDVETILDKVMMLFRYLQEKDVFEKYYKQHLAKRL 431
+ +SPE ++ + D L+K K E ++E L++VM++F+Y+++KDVF+K+Y + LAKRL
Sbjct: 5 SSKSPELLARYCDSLLKKSSKNPEEAELEDTLNQVMVVFKYIEDKDVFQKFYAKMLAKRL 64
Query: 432 LSGKTVSDDAERSLIVKLKTECGYQFTSKLEGMFTDMKTSQDTMHEFYASHPELGDSRTL 491
+ + SDDAE S+I KLK CG+++TSKL+ MF D+ S+D ++E + H L +S L
Sbjct: 65 VHQNSASDDAEASMISKLKQACGFEYTSKLQRMFQDIGVSKD-LNEQFKKH--LTNSEPL 121
Query: 492 ----VVQVLTTGSWPTQPSVTCNLPAEMSALCEKFRSYYLGTHTGRRLSWQTNMGSADIK 547
+QVL++GSWP Q S T LP+E+ ++F ++Y H+GR+L+W + ++
Sbjct: 122 DLDFSIQVLSSGSWPFQQSCTFALPSELERSYQRFTAFYASRHSGRKLTWLYQLSKGELV 181
Query: 548 ATFGKGQKHELNVSTYQMCVLMLFNNADRLSYQ 580
K ++ L ST+QM +L+ +N D + Q
Sbjct: 182 TNCFKN-RYTLQASTFQMAILLQYNTEDAYTVQ 213
>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 (389), Expect = 2e-37, Method: Compositional matrix adjust.
Identities = 80/213 (37%), Positives = 132/213 (61%), Gaps = 8/213 (3%)
Query: 372 NPRSPEFISLFVDDKLRKGLKGVSEEDVETILDKVMMLFRYLQEKDVFEKYYKQHLAKRL 431
+ +SPE ++ + D L+K K E ++E L++VM F+ +++KDVF+K+Y + LAKRL
Sbjct: 7 SSKSPEELARYCDSLLKKSSKNPEEAELEDTLNQVMEKFKKIEDKDVFQKFYAKMLAKRL 66
Query: 432 LSGKTVSDDAERSLIVKLKTECGYQFTSKLEGMFTDMKTSQDTMHEFYASHPELGDSRTL 491
+ + SDDAE S+I KLK CG+++TSKL+ MF D+ S+D ++E + H L +S L
Sbjct: 67 VHQNSASDDAEASMISKLKQACGFEYTSKLQRMFQDIGVSKD-LNEQFKKH--LTNSEPL 123
Query: 492 ----VVQVLTTGSWPTQPSVTCNLPAEMSALCEKFRSYYLGTHTGRRLSWQTNMGSADIK 547
+QVL++GSWP Q S T LP+E+ ++F ++Y H+GR+L+W + ++
Sbjct: 124 DLDFSIQVLSSGSWPFQQSCTFALPSELERSYQRFTAFYASRHSGRKLTWLYQLSKGELV 183
Query: 548 ATFGKGQKHELNVSTYQMCVLMLFNNADRLSYQ 580
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 = 153 bits (387), Expect = 2e-37, Method: Compositional matrix adjust.
Identities = 80/213 (37%), Positives = 132/213 (61%), Gaps = 8/213 (3%)
Query: 372 NPRSPEFISLFVDDKLRKGLKGVSEEDVETILDKVMMLFRYLQEKDVFEKYYKQHLAKRL 431
+ +SPE ++ + D L+K K E ++E L++VM F+ +++KDVF+K+Y + LAKRL
Sbjct: 7 SSKSPEELARYCDSLLKKSSKNPEEAELEDTLNQVMEKFKKIEDKDVFQKFYAKMLAKRL 66
Query: 432 LSGKTVSDDAERSLIVKLKTECGYQFTSKLEGMFTDMKTSQDTMHEFYASHPELGDSRTL 491
+ + SDDAE S+I KLK CG+++TSKL+ MF D+ S+D ++E + H L +S L
Sbjct: 67 VHQNSASDDAEASMISKLKQACGFEYTSKLQRMFQDIGVSKD-LNEQFKKH--LTNSEPL 123
Query: 492 ----VVQVLTTGSWPTQPSVTCNLPAEMSALCEKFRSYYLGTHTGRRLSWQTNMGSADIK 547
+QVL++GSWP Q S T LP+E+ ++F ++Y H+GR+L+W + ++
Sbjct: 124 DLDFSIQVLSSGSWPFQQSCTFALPSELERSYQRFTAFYASRHSGRKLTWLYQLSKGELV 183
Query: 548 ATFGKGQKHELNVSTYQMCVLMLFNNADRLSYQ 580
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 = 153 bits (387), Expect = 3e-37, Method: Compositional matrix adjust.
Identities = 114/396 (28%), Positives = 188/396 (47%), Gaps = 54/396 (13%)
Query: 26 EKTWKILEHAIHEIYNHNASGLS-FEELYRNAYNMV--LHK------------------- 63
++ W L I ++Y + S + ELY + YN +H+
Sbjct: 4 DQIWDDLRAGIQQVYTRQSMAKSRYMELYTHVYNYCTSVHQSNQARGAGVPPSKSKKGQT 63
Query: 64 ------FGEKLYSGLVSTMTLHLKEISKSIEAAQGGSFLEELNRKWNDHNKALQMIRDIL 117
G +LY L + +L + K E S L+ ++W D+ + +++ I
Sbjct: 64 PGGAQFVGLELYKRLKEFLKNYLTNLLKDGEDLMDESVLKFYTQQWEDYRFSSKVLNGIC 123
Query: 118 MYMDRTYIPSTHKT------PVHELGLNLWRDNIVRSNKIQTRLLNTLLELVHRERTGEV 171
Y++R ++ ++ L L WRD + R + ++ N +L+L+ +ER GE
Sbjct: 124 AYLNRHWVRRECDEGRKGIYEIYSLALVTWRDCLFRP--LNKQVTNAVLKLIEKERNGET 181
Query: 172 INRGLMRNIIKMLMDLG----------PS--VYQEDFEKPFLEVSAEFYKVESQKFIECC 219
IN L+ +++ ++LG P+ VY+E FE FL + FY ES +F++
Sbjct: 182 INTRLISGVVQSYVELGLNEDDAFAKGPTLTVYKESFESQFLADTERFYTRESTEFLQQN 241
Query: 220 DCGEYLKKAERRLNEEMERVTHYLDAKSEAKITNVVEKEMIANHMPRLVHMDNSGLVNML 279
EY+KKAE RL EE RV YL ++ ++ E+ +I H+ + H + N+L
Sbjct: 242 PVTEYMKKAEARLLEEQRRVQVYLHESTQDELARKCEQVLIEKHL-EIFHTE---FQNLL 297
Query: 280 LDDKYEDLGRMYNLFRRVPSGLLTIREVMTSHLRETGKQLV--TDPERLKDPVEFVQRLL 337
DK EDLGRMYNL R+ GL +++++ +H+ G + L DP +VQ +L
Sbjct: 298 DADKNEDLGRMYNLVSRIQDGLGELKKLLETHIHNQGLAAIEKCGEAALNDPKMYVQTVL 357
Query: 338 DEKDKYDNIISSAFNNDKTFQNALNSSFEYFINLNP 373
D KY+ ++ SAFNND F AL+ + FIN N
Sbjct: 358 DVHKKYNALVMSAFNNDAGFVAALDKACGRFINNNA 393
>pdb|3DPL|C Chain C, Structural Insights Into Nedd8 Activation Of Cullin-Ring
Ligases: Conformational Control Of Conjugation
Length = 382
Score = 92.0 bits (227), Expect = 8e-19, Method: Compositional matrix adjust.
Identities = 64/211 (30%), Positives = 112/211 (53%), Gaps = 10/211 (4%)
Query: 374 RSPEFISLFVDDKLRKGL--KGVSEEDVETILDKVMMLFRYLQEKDVFEKYYKQHLAKRL 431
+ PE ++ + D LRK K ++ E++E L +V+ +Y+Q KDVF +Y+K HL +RL
Sbjct: 5 KCPEELANYCDMLLRKTPLSKKLTSEEIEAKLKEVLKKLKYVQNKDVFMRYHKAHLTRRL 64
Query: 432 LSGKTVSDDAERSLIVKLKTECGY--QFTSKLEGMFTDMKTSQDTMHEFYASHP--ELG- 486
+ + + E +++ L+ E G + +KL MF D+K S+D F H +L
Sbjct: 65 ILDISADSEIEENMVEWLR-EVGMPADYVNKLARMFQDIKVSEDLNQAFKEMHKNNKLAL 123
Query: 487 DSRTLVVQVLTTGSWP-TQPSVTCNLPAEMSALCEKFRSYYLGTHTGRRLSWQTNMGSAD 545
+ ++ +++L G+W + V +LP E+ L + +Y H+GR+L W M +
Sbjct: 124 PADSVNIKILNAGAWSRSSEKVFVSLPTELEDLIPEVEEFYKKNHSGRKLHWHHLMSNGI 183
Query: 546 IKATFGKGQKHELNVSTYQMCVLMLFNNADR 576
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 = 87.4 bits (215), Expect = 2e-17, Method: Compositional matrix adjust.
Identities = 62/211 (29%), Positives = 109/211 (51%), Gaps = 10/211 (4%)
Query: 374 RSPEFISLFVDDKLRKGL--KGVSEEDVETILDKVMMLFRYLQEKDVFEKYYKQHLAKRL 431
+ PE ++ + D LRK K ++ E++E L +V+ +Y+Q KDVF +Y+K HL +RL
Sbjct: 5 KCPEELANYCDXLLRKTPLSKKLTSEEIEAKLKEVLKKLKYVQNKDVFXRYHKAHLTRRL 64
Query: 432 LSGKTVSDDAERSLIVKLKTECGY--QFTSKLEGMFTDMKTSQDTMHEFYASHP--ELG- 486
+ + + E + + L+ E G + +KL F D+K S+D F H +L
Sbjct: 65 ILDISADSEIEENXVEWLR-EVGXPADYVNKLARXFQDIKVSEDLNQAFKEXHKNNKLAL 123
Query: 487 DSRTLVVQVLTTGSWP-TQPSVTCNLPAEMSALCEKFRSYYLGTHTGRRLSWQTNMGSAD 545
+ ++ +++L G+W + V +LP E+ L + +Y H+GR+L W +
Sbjct: 124 PADSVNIKILNAGAWSRSSEKVFVSLPTELEDLIPEVEEFYKKNHSGRKLHWHHLXSNGI 183
Query: 546 IKATFGKGQKHELNVSTYQMCVLMLFNNADR 576
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 = 77.8 bits (190), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 60/249 (24%), Positives = 124/249 (49%), Gaps = 16/249 (6%)
Query: 133 VHELGLNLWRDNIVRSNKIQTRLLNTLLELVHRERTGEVINRGLMRNIIKMLMDLGPS-- 190
V +L L+ W ++I + I+ RL ++ ++LVH ER GE + L+ + + ++L +
Sbjct: 135 VRKLMLDTWNESIF--SNIKNRLQDSAMKLVHAERLGEAFDSQLVIGVRESYVNLCSNPE 192
Query: 191 ----VYQEDFEKPFLEVSAEFYKVESQKFIECCDCGEYLKKAERRLNEEMERVTHYLDAK 246
+Y+++FEK +L+ + FY+ ++ +++ Y+K A+ +L EE +R YL+ +
Sbjct: 193 DKLQIYRDNFEKAYLDSTERFYRTQAPSYLQQNGVQNYMKYADAKLKEEEKRALRYLETR 252
Query: 247 SEAKITNVVEKEMIANHMPRLVHMDNSGLV---NMLLDDKYEDLGRMYNLFRRVPSGLLT 303
E N VE M + + L M+ ++ E L M++L +VP+G+
Sbjct: 253 REC---NSVEALMECCVNALVTSFKETILAECQGMIKRNETEKLHLMFSLMDKVPNGIEP 309
Query: 304 IREVMTSHLRETG-KQLVTDPERLKDPVEFVQRLLDEK-DKYDNIISSAFNNDKTFQNAL 361
+ + + H+ G +V E + E + LD +++ ++ AF +D F A
Sbjct: 310 MLKDLEEHIISAGLADMVAAAETITTDSEKYREQLDTLFNRFSKLVKEAFQDDPRFLTAR 369
Query: 362 NSSFEYFIN 370
+ +++ +N
Sbjct: 370 DKAYKAVVN 378
>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 = 31.6 bits (70), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 37/142 (26%), Positives = 61/142 (42%), Gaps = 21/142 (14%)
Query: 327 KDPVEFVQRLLDEKDKYDNIISSAFNNDKTFQNALNSSFEYFINLNPRSPEFISLFVDDK 386
D VEF DE KYD + F KT Q+ L Y + + FI+ + K
Sbjct: 113 PDSVEFWAFSFDEMAKYDLPATIDFILKKTGQDKL----HYVGHSQGTTIGFIAFSTNPK 168
Query: 387 LRKGLKG-------VSEEDVETILDKVMM----LFRYLQEKDVF--EKYYKQHLAKRLLS 433
L K +K + + ET+++K+M+ LF+ + +F ++ Q LA + S
Sbjct: 169 LAKRIKTFYALAPVATVKYTETLINKLMLVPSFLFKLIFGNKIFYPHHFFDQFLATEVCS 228
Query: 434 GKTVSDDAERSLIVKLKTECGY 455
+TV +L + CG+
Sbjct: 229 RETVDLLCSNALFII----CGF 246
>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 = 1.5, Method: Compositional matrix adjust.
Identities = 22/92 (23%), Positives = 43/92 (46%), Gaps = 17/92 (18%)
Query: 66 EKLYSGLVSTMTLHLK---EISKSI---EAAQGGSFLEELNRKWNDHNKALQ-------- 111
++ + G++ T+ L + +I+ ++ EA Q S +E+L D NKA+Q
Sbjct: 90 KRFFGGVIGTIALGVATSAQITAAVALVEAKQARSDIEKLKEAIRDTNKAVQSVQSSIGN 149
Query: 112 ---MIRDILMYMDRTYIPSTHKTPVHELGLNL 140
I+ + Y+++ +PS + GL L
Sbjct: 150 LIVAIKSVQDYVNKEIVPSIARLGCEAAGLQL 181
>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 = 2.2, Method: Compositional matrix adjust.
Identities = 16/36 (44%), Positives = 20/36 (55%)
Query: 157 NTLLELVHRERTGEVINRGLMRNIIKMLMDLGPSVY 192
+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 = 2.9, Method: Compositional matrix adjust.
Identities = 23/74 (31%), Positives = 36/74 (48%), Gaps = 4/74 (5%)
Query: 270 MDNSGLVNMLLDDKYEDLGRMYNLFRRVPSGLLTIREVMTSHLRETGKQLVTDPERLKDP 329
+ G V LL + EDL +Y + + L ++ TS L E GK+ TD +LK
Sbjct: 11 FNKGGAVITLLPEDKEDLFTVYQIVDK--DDELIFKKKFTSKLDEAGKKKSTDLVKLK-- 66
Query: 330 VEFVQRLLDEKDKY 343
++ + 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 = 5.9, Method: Compositional matrix adjust.
Identities = 23/71 (32%), Positives = 35/71 (49%), Gaps = 4/71 (5%)
Query: 273 SGLVNMLLDDKYEDLGRMYNLFRRVPSGLLTIREVMTSHLRETGKQLVTDPERLKDPVEF 332
G V LL + EDL +Y + + L ++ TS L E GK+ TD +LK ++
Sbjct: 14 GGAVITLLPEDKEDLFTVYQIVDK--DDELIFKKKFTSKLDEAGKKKSTDLVKLK--IKV 69
Query: 333 VQRLLDEKDKY 343
+ D KD+Y
Sbjct: 70 ISEDFDMKDEY 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: 17,671,697
Number of Sequences: 62578
Number of extensions: 745592
Number of successful extensions: 2208
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: 2124
Number of HSP's gapped (non-prelim): 26
length of query: 615
length of database: 14,973,337
effective HSP length: 105
effective length of query: 510
effective length of database: 8,402,647
effective search space: 4285349970
effective search space used: 4285349970
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)