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= psy11818
(331 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 = 158 bits (399), Expect = 5e-39, Method: Compositional matrix adjust.
Identities = 95/221 (42%), Positives = 129/221 (58%), Gaps = 26/221 (11%)
Query: 66 FYLAKHSGRQLTLQPQMGSADLNAVFFGPRREEGEGKDGASSSTSPPAPRKHIIQVSTYQ 125
FYL KHSGR+L Q +G L A F ++E +QVS +Q
Sbjct: 539 FYLGKHSGRKLQWQSTLGHCVLKAEFKEGKKE---------------------LQVSLFQ 577
Query: 126 MCVLLLFNNREKLTYEEIQSETDIPERDLIRALQSLAMGKASQRILIRYPKTKEIEPNHV 185
VLL+FN E+ + EEI+ T I + +L R LQSLA GKA R+L + PK K+IE
Sbjct: 578 TLVLLMFNEGEEFSLEEIKQATGIEDGELRRTLQSLACGKA--RVLAKNPKGKDIEDGDK 635
Query: 186 FFVNDSFTSKLHRVKIQTVAAKGESEPERRETRSKVDEDRKHEIEAAVVRIMKARKRMQH 245
F ND F KL R+KI + K E+ E+ T +V +DR+++I+AA+VRIMK RK + H
Sbjct: 636 FICNDDFKHKLFRIKINQIQMK-ETVEEQASTTERVFQDRQYQIDAAIVRIMKMRKTLSH 694
Query: 246 NTLITEVTEQLKSRFLPSPVIIKKRIESLIEREYLARTPED 286
N L++EV QLK F P +KKRIESLI+R+Y+ R E+
Sbjct: 695 NLLVSEVYNQLK--FPVKPADLKKRIESLIDRDYMERDKEN 733
Score = 53.1 bits (126), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 26/40 (65%), Positives = 33/40 (82%)
Query: 287 RFLQEKDVFERYYKQHLAKRLLLDKSVSDDSEKNMISKLK 326
RF+ KDVFE +YK+ LAKRLL+ KS S D+EK+M+SKLK
Sbjct: 423 RFIYGKDVFEAFYKKDLAKRLLVGKSASVDAEKSMLSKLK 462
Score = 35.8 bits (81), Expect = 0.032, Method: Compositional matrix adjust.
Identities = 22/63 (34%), Positives = 35/63 (55%), Gaps = 5/63 (7%)
Query: 19 DLFK-FYLAKHSGRQLTLQPQMGSADLNAVFFGPRRE-EVHIFSIYPLRFYLAKHSGRQL 76
++FK FYL KHSGR+L Q +G L A F ++E +V +F L + + G +
Sbjct: 534 EIFKTFYLGKHSGRKLQWQSTLGHCVLKAEFKEGKKELQVSLFQTLVLLMF---NEGEEF 590
Query: 77 TLQ 79
+L+
Sbjct: 591 SLE 593
>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 = 157 bits (398), Expect = 5e-39, Method: Compositional matrix adjust.
Identities = 95/221 (42%), Positives = 129/221 (58%), Gaps = 26/221 (11%)
Query: 66 FYLAKHSGRQLTLQPQMGSADLNAVFFGPRREEGEGKDGASSSTSPPAPRKHIIQVSTYQ 125
FYL KHSGR+L Q +G L A F ++E +QVS +Q
Sbjct: 524 FYLGKHSGRKLQWQSTLGHCVLKAEFKEGKKE---------------------LQVSLFQ 562
Query: 126 MCVLLLFNNREKLTYEEIQSETDIPERDLIRALQSLAMGKASQRILIRYPKTKEIEPNHV 185
VLL+FN E+ + EEI+ T I + +L R LQSLA GKA R+L + PK K+IE
Sbjct: 563 TLVLLMFNEGEEFSLEEIKQATGIEDGELRRTLQSLACGKA--RVLAKNPKGKDIEDGDK 620
Query: 186 FFVNDSFTSKLHRVKIQTVAAKGESEPERRETRSKVDEDRKHEIEAAVVRIMKARKRMQH 245
F ND F KL R+KI + K E+ E+ T +V +DR+++I+AA+VRIMK RK + H
Sbjct: 621 FICNDDFKHKLFRIKINQIQMK-ETVEEQASTTERVFQDRQYQIDAAIVRIMKMRKTLSH 679
Query: 246 NTLITEVTEQLKSRFLPSPVIIKKRIESLIEREYLARTPED 286
N L++EV QLK F P +KKRIESLI+R+Y+ R E+
Sbjct: 680 NLLVSEVYNQLK--FPVKPADLKKRIESLIDRDYMERDKEN 718
Score = 53.1 bits (126), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 26/40 (65%), Positives = 33/40 (82%)
Query: 287 RFLQEKDVFERYYKQHLAKRLLLDKSVSDDSEKNMISKLK 326
RF+ KDVFE +YK+ LAKRLL+ KS S D+EK+M+SKLK
Sbjct: 408 RFIYGKDVFEAFYKKDLAKRLLVGKSASVDAEKSMLSKLK 447
Score = 35.8 bits (81), Expect = 0.032, Method: Compositional matrix adjust.
Identities = 22/63 (34%), Positives = 35/63 (55%), Gaps = 5/63 (7%)
Query: 19 DLFK-FYLAKHSGRQLTLQPQMGSADLNAVFFGPRRE-EVHIFSIYPLRFYLAKHSGRQL 76
++FK FYL KHSGR+L Q +G L A F ++E +V +F L + + G +
Sbjct: 519 EIFKTFYLGKHSGRKLQWQSTLGHCVLKAEFKEGKKELQVSLFQTLVLLMF---NEGEEF 575
Query: 77 TLQ 79
+L+
Sbjct: 576 SLE 578
>pdb|4A0K|A Chain A, Structure Of Ddb1-Ddb2-Cul4a-Rbx1 Bound To A 12 Bp Abasic
Site Containing Dna-Duplex
Length = 742
Score = 153 bits (387), Expect = 1e-37, Method: Compositional matrix adjust.
Identities = 93/221 (42%), Positives = 129/221 (58%), Gaps = 26/221 (11%)
Query: 66 FYLAKHSGRQLTLQPQMGSADLNAVFFGPRREEGEGKDGASSSTSPPAPRKHIIQVSTYQ 125
FYL KHSGR+L Q +G A L A F ++E QVS +Q
Sbjct: 540 FYLGKHSGRKLQWQTTLGHAVLKAEFKEGKKE---------------------FQVSLFQ 578
Query: 126 MCVLLLFNNREKLTYEEIQSETDIPERDLIRALQSLAMGKASQRILIRYPKTKEIEPNHV 185
VLL+FN + ++EEI+ T I + +L R LQSLA GKA R+LI+ PK KE+E
Sbjct: 579 TLVLLMFNEGDGFSFEEIKMATGIEDSELRRTLQSLACGKA--RVLIKSPKGKEVEDGDK 636
Query: 186 FFVNDSFTSKLHRVKIQTVAAKGESEPERRETRSKVDEDRKHEIEAAVVRIMKARKRMQH 245
F N F KL R+KI + K E+ E+ T +V +DR+++I+AA+VRIMK RK + H
Sbjct: 637 FIFNGEFKHKLFRIKINQIQMK-ETVEEQVSTTERVFQDRQYQIDAAIVRIMKMRKTLGH 695
Query: 246 NTLITEVTEQLKSRFLPSPVIIKKRIESLIEREYLARTPED 286
N L++E+ QLK F P +KKRIESLI+R+Y+ R ++
Sbjct: 696 NLLVSELYNQLK--FPVKPGDLKKRIESLIDRDYMERDKDN 734
Score = 53.9 bits (128), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 26/40 (65%), Positives = 33/40 (82%)
Query: 287 RFLQEKDVFERYYKQHLAKRLLLDKSVSDDSEKNMISKLK 326
RF+ KDVFE +YK+ LAKRLL+ KS S D+EK+M+SKLK
Sbjct: 424 RFIHGKDVFEAFYKKDLAKRLLVGKSASVDAEKSMLSKLK 463
Score = 35.8 bits (81), Expect = 0.031, Method: Compositional matrix adjust.
Identities = 20/56 (35%), Positives = 31/56 (55%), Gaps = 1/56 (1%)
Query: 13 VLRLENDLFKFYLAKHSGRQLTLQPQMGSADLNAVFFGPRRE-EVHIFSIYPLRFY 67
+++L+ FYL KHSGR+L Q +G A L A F ++E +V +F L +
Sbjct: 530 MIKLQEVFKAFYLGKHSGRKLQWQTTLGHAVLKAEFKEGKKEFQVSLFQTLVLLMF 585
>pdb|2HYE|C Chain C, Crystal Structure Of The Ddb1-cul4a-rbx1-sv5v Complex
Length = 759
Score = 153 bits (386), Expect = 2e-37, Method: Compositional matrix adjust.
Identities = 93/221 (42%), Positives = 129/221 (58%), Gaps = 26/221 (11%)
Query: 66 FYLAKHSGRQLTLQPQMGSADLNAVFFGPRREEGEGKDGASSSTSPPAPRKHIIQVSTYQ 125
FYL KHSGR+L Q +G A L A F ++E QVS +Q
Sbjct: 557 FYLGKHSGRKLQWQTTLGHAVLKAEFKEGKKE---------------------FQVSLFQ 595
Query: 126 MCVLLLFNNREKLTYEEIQSETDIPERDLIRALQSLAMGKASQRILIRYPKTKEIEPNHV 185
VLL+FN + ++EEI+ T I + +L R LQSLA GKA R+LI+ PK KE+E
Sbjct: 596 TLVLLMFNEGDGFSFEEIKMATGIEDSELRRTLQSLACGKA--RVLIKSPKGKEVEDGDK 653
Query: 186 FFVNDSFTSKLHRVKIQTVAAKGESEPERRETRSKVDEDRKHEIEAAVVRIMKARKRMQH 245
F N F KL R+KI + K E+ E+ T +V +DR+++I+AA+VRIMK RK + H
Sbjct: 654 FIFNGEFKHKLFRIKINQIQMK-ETVEEQVSTTERVFQDRQYQIDAAIVRIMKMRKTLGH 712
Query: 246 NTLITEVTEQLKSRFLPSPVIIKKRIESLIEREYLARTPED 286
N L++E+ QLK F P +KKRIESLI+R+Y+ R ++
Sbjct: 713 NLLVSELYNQLK--FPVKPGDLKKRIESLIDRDYMERDKDN 751
Score = 53.9 bits (128), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 26/40 (65%), Positives = 33/40 (82%)
Query: 287 RFLQEKDVFERYYKQHLAKRLLLDKSVSDDSEKNMISKLK 326
RF+ KDVFE +YK+ LAKRLL+ KS S D+EK+M+SKLK
Sbjct: 441 RFIHGKDVFEAFYKKDLAKRLLVGKSASVDAEKSMLSKLK 480
Score = 36.2 bits (82), Expect = 0.028, Method: Compositional matrix adjust.
Identities = 20/56 (35%), Positives = 31/56 (55%), Gaps = 1/56 (1%)
Query: 13 VLRLENDLFKFYLAKHSGRQLTLQPQMGSADLNAVFFGPRRE-EVHIFSIYPLRFY 67
+++L+ FYL KHSGR+L Q +G A L A F ++E +V +F L +
Sbjct: 547 MIKLQEVFKAFYLGKHSGRKLQWQTTLGHAVLKAEFKEGKKEFQVSLFQTLVLLMF 602
>pdb|1IUY|A Chain A, Solution Structure Of The Cullin-3 Homologue
Length = 92
Score = 144 bits (363), Expect = 8e-35, Method: Compositional matrix adjust.
Identities = 67/83 (80%), Positives = 78/83 (93%)
Query: 205 AAKGESEPERRETRSKVDEDRKHEIEAAVVRIMKARKRMQHNTLITEVTEQLKSRFLPSP 264
A +GES+PER+ETR KVD+DRKHEIEAA+VRIMK+RK+MQHN L+ EVT+QLK+RFLPSP
Sbjct: 3 AKQGESDPERKETRQKVDDDRKHEIEAAIVRIMKSRKKMQHNVLVAEVTQQLKARFLPSP 62
Query: 265 VIIKKRIESLIEREYLARTPEDR 287
V+IKKRIE LIEREYLARTPEDR
Sbjct: 63 VVIKKRIEGLIEREYLARTPEDR 85
>pdb|1U6G|A Chain A, Crystal Structure Of The Cand1-Cul1-Roc1 Complex
Length = 776
Score = 105 bits (262), Expect = 3e-23, Method: Compositional matrix adjust.
Identities = 78/235 (33%), Positives = 116/235 (49%), Gaps = 36/235 (15%)
Query: 66 FYLAKHSGRQLTLQPQMGSADLNAVFFGPRREEGEGKDGASSSTSPPAPRKHIIQVSTYQ 125
FY ++HSGR+LT Q+ +L F R + +Q ST+Q
Sbjct: 569 FYASRHSGRKLTWLYQLSKGELVTNCFKNR---------------------YTLQASTFQ 607
Query: 126 MCVLLLFNNREKLTYEEIQSETDIPERDLIRALQSLAMGKASQRILIRYPKTK-----EI 180
M +LL +N + T +++ T I L + LQ L K +L+ + E+
Sbjct: 608 MAILLQYNTEDAYTVQQLTDSTQIKMDILAQVLQILLKSK----LLVLEDENANVDEVEL 663
Query: 181 EPNHVFFVNDSFTSKLHRVKIQTVAAKGESEPERRETRSKVDEDRKHEIEAAVVRIMKAR 240
+P+ + + + +K RV I V K E + E+ T ++EDRK I+AA+VRIMK R
Sbjct: 664 KPDTLIKLYLGYKNKKLRVNI-NVPMKTEQKQEQETTHKNIEEDRKLLIQAAIVRIMKMR 722
Query: 241 KRMQHNTLITEVTEQLKSRFLPSPVIIKKRIESLIEREYLARTPEDRFLQEKDVF 295
K ++H L+ EV QL SRF P +IKK I+ LIE+EYL R EKD +
Sbjct: 723 KVLKHQQLLGEVLTQLSSRFKPRVPVIKKCIDILIEKEYLERVD-----GEKDTY 772
Score = 53.5 bits (127), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 35/108 (32%), Positives = 63/108 (58%), Gaps = 20/108 (18%)
Query: 233 VVRIMKARKRMQHNTLITEVTEQLKSRFLPSPVIIKKRIESLIEREYLARTPED------ 286
V + KA R +N +T++ Q S+ SP ++ + +SL+++ ++ PE+
Sbjct: 392 VAALDKACGRFINNNAVTKMA-QSSSK---SPELLARYCDSLLKKS--SKNPEEAELEDT 445
Query: 287 --------RFLQEKDVFERYYKQHLAKRLLLDKSVSDDSEKNMISKLK 326
+++++KDVF+++Y + LAKRL+ S SDD+E +MISKLK
Sbjct: 446 LNQVMVVFKYIEDKDVFQKFYAKMLAKRLVHQNSASDDAEASMISKLK 493
>pdb|1LDK|B Chain B, Structure Of The Cul1-Rbx1-Skp1-F Boxskp2 Scf Ubiquitin
Ligase Complex
Length = 366
Score = 105 bits (262), Expect = 4e-23, Method: Compositional matrix adjust.
Identities = 75/223 (33%), Positives = 112/223 (50%), Gaps = 31/223 (13%)
Query: 66 FYLAKHSGRQLTLQPQMGSADLNAVFFGPRREEGEGKDGASSSTSPPAPRKHIIQVSTYQ 125
FY ++HSGR+LT Q+ +L F R + +Q ST+Q
Sbjct: 159 FYASRHSGRKLTWLYQLSKGELVTNCFKNR---------------------YTLQASTFQ 197
Query: 126 MCVLLLFNNREKLTYEEIQSETDIPERDLIRALQSLAMGKASQRILIRYPKTK-----EI 180
M +LL +N + T +++ T I L + LQ L K +L+ + E+
Sbjct: 198 MAILLQYNTEDAYTVQQLTDSTQIKMDILAQVLQILLKSK----LLVLEDENANVDEVEL 253
Query: 181 EPNHVFFVNDSFTSKLHRVKIQTVAAKGESEPERRETRSKVDEDRKHEIEAAVVRIMKAR 240
+P+ + + + +K RV I V K E + E+ T ++EDRK I+AA+VRIMK R
Sbjct: 254 KPDTLIKLYLGYKNKKLRVNI-NVPMKTEQKQEQETTHKNIEEDRKLLIQAAIVRIMKMR 312
Query: 241 KRMQHNTLITEVTEQLKSRFLPSPVIIKKRIESLIEREYLART 283
K ++H L+ EV QL SRF P +IKK I+ LIE+EYL R
Sbjct: 313 KVLKHQQLLGEVLTQLSSRFKPRVPVIKKCIDILIEKEYLERV 355
Score = 50.4 bits (119), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 27/78 (34%), Positives = 49/78 (62%), Gaps = 16/78 (20%)
Query: 263 SPVIIKKRIESLIEREYLARTPED--------------RFLQEKDVFERYYKQHLAKRLL 308
SP ++ + +SL+++ ++ PE+ +++++KDVF+++Y + LAKRL+
Sbjct: 8 SPELLARYCDSLLKKS--SKNPEEAELEDTLNQVMVVFKYIEDKDVFQKFYAKMLAKRLV 65
Query: 309 LDKSVSDDSEKNMISKLK 326
S SDD+E +MISKLK
Sbjct: 66 HQNSASDDAEASMISKLK 83
>pdb|1LDJ|A Chain A, Structure Of The Cul1-rbx1-skp1-f Boxskp2 Scf Ubiquitin
Ligase Complex
Length = 760
Score = 105 bits (262), Expect = 4e-23, Method: Compositional matrix adjust.
Identities = 78/235 (33%), Positives = 116/235 (49%), Gaps = 36/235 (15%)
Query: 66 FYLAKHSGRQLTLQPQMGSADLNAVFFGPRREEGEGKDGASSSTSPPAPRKHIIQVSTYQ 125
FY ++HSGR+LT Q+ +L F R + +Q ST+Q
Sbjct: 553 FYASRHSGRKLTWLYQLSKGELVTNCFKNR---------------------YTLQASTFQ 591
Query: 126 MCVLLLFNNREKLTYEEIQSETDIPERDLIRALQSLAMGKASQRILIRYPKTK-----EI 180
M +LL +N + T +++ T I L + LQ L K +L+ + E+
Sbjct: 592 MAILLQYNTEDAYTVQQLTDSTQIKMDILAQVLQILLKSK----LLVLEDENANVDEVEL 647
Query: 181 EPNHVFFVNDSFTSKLHRVKIQTVAAKGESEPERRETRSKVDEDRKHEIEAAVVRIMKAR 240
+P+ + + + +K RV I V K E + E+ T ++EDRK I+AA+VRIMK R
Sbjct: 648 KPDTLIKLYLGYKNKKLRVNI-NVPMKTEQKQEQETTHKNIEEDRKLLIQAAIVRIMKMR 706
Query: 241 KRMQHNTLITEVTEQLKSRFLPSPVIIKKRIESLIEREYLARTPEDRFLQEKDVF 295
K ++H L+ EV QL SRF P +IKK I+ LIE+EYL R EKD +
Sbjct: 707 KVLKHQQLLGEVLTQLSSRFKPRVPVIKKCIDILIEKEYLERVD-----GEKDTY 756
Score = 53.1 bits (126), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 35/108 (32%), Positives = 63/108 (58%), Gaps = 20/108 (18%)
Query: 233 VVRIMKARKRMQHNTLITEVTEQLKSRFLPSPVIIKKRIESLIEREYLARTPED------ 286
V + KA R +N +T++ Q S+ SP ++ + +SL+++ ++ PE+
Sbjct: 376 VAALDKACGRFINNNAVTKMA-QSSSK---SPELLARYCDSLLKKS--SKNPEEAELEDT 429
Query: 287 --------RFLQEKDVFERYYKQHLAKRLLLDKSVSDDSEKNMISKLK 326
+++++KDVF+++Y + LAKRL+ S SDD+E +MISKLK
Sbjct: 430 LNQVMVVFKYIEDKDVFQKFYAKMLAKRLVHQNSASDDAEASMISKLK 477
>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 = 105 bits (261), Expect = 4e-23, Method: Compositional matrix adjust.
Identities = 75/222 (33%), Positives = 112/222 (50%), Gaps = 31/222 (13%)
Query: 66 FYLAKHSGRQLTLQPQMGSADLNAVFFGPRREEGEGKDGASSSTSPPAPRKHIIQVSTYQ 125
FY ++HSGR+LT Q+ +L F R + +Q ST+Q
Sbjct: 161 FYASRHSGRKLTWLYQLSKGELVTNCFKNR---------------------YTLQASTFQ 199
Query: 126 MCVLLLFNNREKLTYEEIQSETDIPERDLIRALQSLAMGKASQRILIRYPKTK-----EI 180
M +LL +N + T +++ T I L + LQ L K +L+ + E+
Sbjct: 200 MAILLQYNTEDAYTVQQLTDSTQIKMDILAQVLQILLKSK----LLVLEDENANVDEVEL 255
Query: 181 EPNHVFFVNDSFTSKLHRVKIQTVAAKGESEPERRETRSKVDEDRKHEIEAAVVRIMKAR 240
+P+ + + + +K RV I V K E + E+ T ++EDRK I+AA+VRIMK R
Sbjct: 256 KPDTLIKLYLGYKNKKLRVNI-NVPMKTEQKQEQETTHKNIEEDRKLLIQAAIVRIMKMR 314
Query: 241 KRMQHNTLITEVTEQLKSRFLPSPVIIKKRIESLIEREYLAR 282
K ++H L+ EV QL SRF P +IKK I+ LIE+EYL R
Sbjct: 315 KVLKHQQLLGEVLTQLSSRFKPRVPVIKKCIDILIEKEYLER 356
Score = 47.0 bits (110), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 21/38 (55%), Positives = 31/38 (81%)
Query: 289 LQEKDVFERYYKQHLAKRLLLDKSVSDDSEKNMISKLK 326
+++KDVF+++Y + LAKRL+ S SDD+E +MISKLK
Sbjct: 48 IEDKDVFQKFYAKMLAKRLVHQNSASDDAEASMISKLK 85
>pdb|3DPL|C Chain C, Structural Insights Into Nedd8 Activation Of Cullin-Ring
Ligases: Conformational Control Of Conjugation
Length = 382
Score = 82.4 bits (202), Expect = 3e-16, Method: Compositional matrix adjust.
Identities = 69/233 (29%), Positives = 119/233 (51%), Gaps = 33/233 (14%)
Query: 66 FYLAKHSGRQLTLQPQMGSADLNAVFFGPRREEGEGKDGASSSTSPPAPRKHIIQVSTYQ 125
FY HSGR+L M + + + E G+ + ++V+T+Q
Sbjct: 163 FYKKNHSGRKLHWHHLMSNGIITF-----KNEVGQ----------------YDLEVTTFQ 201
Query: 126 MCVLLLFNNR--EKLTYEEIQSETDIPERDLIRALQSL-AMGKASQRILIRYPKT---KE 179
+ VL +N R EK+++E ++ T++P+ +L R L SL A K +++L+ P+ K+
Sbjct: 202 LAVLFAWNQRPREKISFENLKLATELPDAELRRTLWSLVAFPKLKRQVLLYEPQVNSPKD 261
Query: 180 IEPNHVFFVNDSFT----SKLH-RVKIQTVA-AKGESEPERRETRSKVDEDRKHEIEAAV 233
+F VN F+ +K+ R KI + + +E R E + + R + A+
Sbjct: 262 FTEGTLFSVNQEFSLIKNAKVQKRGKINLIGRLQLTTERMREEENEGIVQLRILRTQEAI 321
Query: 234 VRIMKARKRMQHNTLITEVTEQLKSRFLPSPVIIKKRIESLIEREYLARTPED 286
++IMK RK++ + L TE+ E LK+ FLP +IK++IE LIE +Y+ R D
Sbjct: 322 IQIMKMRKKISNAQLQTELVEILKNMFLPQKKMIKEQIEWLIEHKYIRRDESD 374
Score = 46.6 bits (109), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 20/44 (45%), Positives = 30/44 (68%)
Query: 288 FLQEKDVFERYYKQHLAKRLLLDKSVSDDSEKNMISKLKVRNLP 331
++Q KDVF RY+K HL +RL+LD S + E+NM+ L+ +P
Sbjct: 45 YVQNKDVFMRYHKAHLTRRLILDISADSEIEENMVEWLREVGMP 88
>pdb|2DO7|A Chain A, Solution Structure Of The Winged Helix-Turn-Helix Motif Of
Human Cul-4b
Length = 101
Score = 72.4 bits (176), Expect = 3e-13, Method: Compositional matrix adjust.
Identities = 38/78 (48%), Positives = 55/78 (70%), Gaps = 2/78 (2%)
Query: 209 ESEPERRETRSKVDEDRKHEIEAAVVRIMKARKRMQHNTLITEVTEQLKSRFLPSPVIIK 268
E+ E+ T +V +DR+++I+AA+VRIMK RK + HN L++EV QLK F P +K
Sbjct: 12 ETVEEQASTTERVFQDRQYQIDAAIVRIMKMRKTLSHNLLVSEVYNQLK--FPVKPADLK 69
Query: 269 KRIESLIEREYLARTPED 286
KRIESLI+R+Y+ R E+
Sbjct: 70 KRIESLIDRDYMERDKEN 87
>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 = 71.6 bits (174), Expect = 6e-13, Method: Compositional matrix adjust.
Identities = 58/180 (32%), Positives = 101/180 (56%), Gaps = 12/180 (6%)
Query: 119 IQVSTYQMCVLLLFNNR--EKLTYEEIQSETDIPERDLIRALQSL-AMGKASQRILIRYP 175
++V+T+Q+ VL +N R EK+++E ++ T++P+ +L R L SL A K +++L+ P
Sbjct: 195 LEVTTFQLAVLFAWNQRPREKISFENLKLATELPDAELRRTLWSLVAFPKLKRQVLLYEP 254
Query: 176 KT---KEIEPNHVFFVNDSFT----SKLH-RVKIQTVA-AKGESEPERRETRSKVDEDRK 226
+ K+ +F VN F+ +K+ R KI + + +E R E + + R
Sbjct: 255 QVNSPKDFTEGTLFSVNQEFSLIKNAKVQKRGKINLIGRLQLTTERXREEENEGIVQLRI 314
Query: 227 HEIEAAVVRIMKARKRMQHNTLITEVTEQLKSRFLPSPVIIKKRIESLIEREYLARTPED 286
+ A+++I K RK++ + L TE+ E LK+ FLP IK++IE LIE +Y+ R D
Sbjct: 315 LRTQEAIIQIXKXRKKISNAQLQTELVEILKNXFLPQKKXIKEQIEWLIEHKYIRRDESD 374
Score = 42.7 bits (99), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 19/44 (43%), Positives = 28/44 (63%)
Query: 288 FLQEKDVFERYYKQHLAKRLLLDKSVSDDSEKNMISKLKVRNLP 331
++Q KDVF RY+K HL +RL+LD S + E+N + L+ P
Sbjct: 45 YVQNKDVFXRYHKAHLTRRLILDISADSEIEENXVEWLREVGXP 88
>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 = 68.9 bits (167), Expect = 4e-12, Method: Compositional matrix adjust.
Identities = 39/77 (50%), Positives = 50/77 (64%), Gaps = 5/77 (6%)
Query: 219 SKVDEDRKHEIEAAVVRIMKARKRMQHNTLITEVTEQLKSRFLPSPVIIKKRIESLIERE 278
S ++EDRK I+AA+VRIMK RK ++H L+ EV QL SRF P +IKK I+ LIE+E
Sbjct: 2 SNIEEDRKLLIQAAIVRIMKMRKVLKHQQLLGEVLTQLSSRFKPRVPVIKKCIDILIEKE 61
Query: 279 YLARTPEDRFLQEKDVF 295
YL R EKD +
Sbjct: 62 YLERVD-----GEKDTY 73
>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 = 53.5 bits (127), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 25/67 (37%), Positives = 43/67 (64%)
Query: 219 SKVDEDRKHEIEAAVVRIMKARKRMQHNTLITEVTEQLKSRFLPSPVIIKKRIESLIERE 278
S+++ +R+ +EA +VRIMKA++ + H TL+ E Q RF ++K+ I+SLI++
Sbjct: 2 SELNTERQIFLEACIVRIMKAKRNLPHTTLVNECIAQSHQRFNAKVSMVKRAIDSLIQKG 61
Query: 279 YLARTPE 285
YL R +
Sbjct: 62 YLQRGDD 68
>pdb|3O2P|E Chain E, A Dual E3 Mechanism For Rub1 Ligation To Cdc53:
Dcn1(P)-Cdc53(Whb)
Length = 88
Score = 52.0 bits (123), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 28/76 (36%), Positives = 47/76 (61%), Gaps = 2/76 (2%)
Query: 210 SEPERRETRSKVDEDRKHEIEAAVVRIMKARKRMQHNTLITEVTEQLKSRFLPSPVIIKK 269
+E ER E +++ +R+ +EA +VRIMKA++ + H TL+ E Q RF ++K+
Sbjct: 7 TEDERIE--KELNTERQIFLEACIVRIMKAKRNLPHTTLVNECIAQSHQRFNAKVSMVKR 64
Query: 270 RIESLIEREYLARTPE 285
I+SLI++ YL R +
Sbjct: 65 AIDSLIQKGYLQRGDD 80
>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 = 47.4 bits (111), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 21/38 (55%), Positives = 31/38 (81%)
Query: 289 LQEKDVFERYYKQHLAKRLLLDKSVSDDSEKNMISKLK 326
+++KDVF+++Y + LAKRL+ S SDD+E +MISKLK
Sbjct: 48 IEDKDVFQKFYAKMLAKRLVHQNSASDDAEASMISKLK 85
Score = 42.7 bits (99), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 28/100 (28%), Positives = 43/100 (43%), Gaps = 21/100 (21%)
Query: 66 FYLAKHSGRQLTLQPQMGSADLNAVFFGPRREEGEGKDGASSSTSPPAPRKHIIQVSTYQ 125
FY ++HSGR+LT Q+ +L F R + +Q ST+Q
Sbjct: 161 FYASRHSGRKLTWLYQLSKGELVTNCFKNR---------------------YTLQASTFQ 199
Query: 126 MCVLLLFNNREKLTYEEIQSETDIPERDLIRALQSLAMGK 165
M +LL +N + T +++ T I L + LQ L K
Sbjct: 200 MAILLQYNTEDAYTVQQLTDSTQIKMDILAQVLQILLKSK 239
>pdb|2GIV|A Chain A, Human Myst Histone Acetyltransferase 1
Length = 295
Score = 30.0 bits (66), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 26/80 (32%), Positives = 40/80 (50%), Gaps = 6/80 (7%)
Query: 106 SSSTSPPAPRKHIIQVS--TYQMCVLL--LFNNREKLTYEEIQSETDIPERDLIRALQSL 161
S+ SP P + ++S +Y VLL L + R L+ +++ T I + D+I LQSL
Sbjct: 190 STVGSPEKPLSDLGKLSYRSYWSWVLLENLRDFRGTLSIKDLSQMTSITQNDIISTLQSL 249
Query: 162 AMGK--ASQRILIRYPKTKE 179
M K Q ++ PK E
Sbjct: 250 NMVKYWKGQHVICVTPKLVE 269
>pdb|2PQ8|A Chain A, Myst Histone Acetyltransferase 1
Length = 278
Score = 30.0 bits (66), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 26/80 (32%), Positives = 40/80 (50%), Gaps = 6/80 (7%)
Query: 106 SSSTSPPAPRKHIIQVS--TYQMCVLL--LFNNREKLTYEEIQSETDIPERDLIRALQSL 161
S+ SP P + ++S +Y VLL L + R L+ +++ T I + D+I LQSL
Sbjct: 173 STVGSPEKPLSDLGKLSYRSYWSWVLLENLRDFRGTLSIKDLSQMTSITQNDIISTLQSL 232
Query: 162 AMGK--ASQRILIRYPKTKE 179
M K Q ++ PK E
Sbjct: 233 NMVKYWKGQHVICVTPKLVE 252
>pdb|4DNC|A Chain A, Crystal Structure Of Human Mof In Complex With Msl1
pdb|4DNC|B Chain B, Crystal Structure Of Human Mof In Complex With Msl1
Length = 289
Score = 30.0 bits (66), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 26/80 (32%), Positives = 40/80 (50%), Gaps = 6/80 (7%)
Query: 106 SSSTSPPAPRKHIIQVS--TYQMCVLL--LFNNREKLTYEEIQSETDIPERDLIRALQSL 161
S+ SP P + ++S +Y VLL L + R L+ +++ T I + D+I LQSL
Sbjct: 175 STVGSPEKPLSDLGKLSYRSYWSWVLLEILRDFRGTLSIKDLSQMTSITQNDIISTLQSL 234
Query: 162 AMGK--ASQRILIRYPKTKE 179
M K Q ++ PK E
Sbjct: 235 NMVKYWKGQHVICVTPKLVE 254
>pdb|3QAH|A Chain A, Crystal Structure Of Apo-Form Human Mof Catalytic Domain
Length = 304
Score = 30.0 bits (66), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 26/80 (32%), Positives = 40/80 (50%), Gaps = 6/80 (7%)
Query: 106 SSSTSPPAPRKHIIQVS--TYQMCVLL--LFNNREKLTYEEIQSETDIPERDLIRALQSL 161
S+ SP P + ++S +Y VLL L + R L+ +++ T I + D+I LQSL
Sbjct: 199 STVGSPEKPLSDLGKLSYRSYWSWVLLEILRDFRGTLSIKDLSQMTSITQNDIISTLQSL 258
Query: 162 AMGK--ASQRILIRYPKTKE 179
M K Q ++ PK E
Sbjct: 259 NMVKYWKGQHVICVTPKLVE 278
>pdb|2Y0M|A Chain A, Crystal Structure Of The Complex Between Dosage
Compensation Factors Msl1 And Mof
Length = 287
Score = 29.6 bits (65), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 26/80 (32%), Positives = 40/80 (50%), Gaps = 6/80 (7%)
Query: 106 SSSTSPPAPRKHIIQVS--TYQMCVLL--LFNNREKLTYEEIQSETDIPERDLIRALQSL 161
S+ SP P + ++S +Y VLL L + R L+ +++ T I + D+I LQSL
Sbjct: 173 STVGSPEKPLSDLGKLSYRSYWSWVLLEILRDFRGTLSIKDLSQMTSITQNDIISTLQSL 232
Query: 162 AMGK--ASQRILIRYPKTKE 179
M K Q ++ PK E
Sbjct: 233 NMVKYWKGQHVIXVTPKLVE 252
>pdb|3TOA|A Chain A, Human Mof Crystal Structure With Active Site Lysine
Partially Acetylated
Length = 266
Score = 29.3 bits (64), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 24/78 (30%), Positives = 37/78 (47%), Gaps = 4/78 (5%)
Query: 106 SSSTSPPAPRKHIIQVS--TYQMCVLLLFNNREKLTYEEIQSETDIPERDLIRALQSLAM 163
S+ SP P + ++S +Y VLL L+ +++ T I + D+I LQSL M
Sbjct: 169 STVGSPEKPLSDLGKLSYRSYWSWVLLEILRDGTLSIKDLSQMTSITQNDIISTLQSLNM 228
Query: 164 GKA--SQRILIRYPKTKE 179
K Q ++ PK E
Sbjct: 229 VKYWKGQHVICVTPKLVE 246
>pdb|3TOB|A Chain A, Human Mof E350q Crystal Structure With Active Site Lysine
Partially Acetylated
Length = 270
Score = 29.3 bits (64), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 24/78 (30%), Positives = 37/78 (47%), Gaps = 4/78 (5%)
Query: 106 SSSTSPPAPRKHIIQVS--TYQMCVLLLFNNREKLTYEEIQSETDIPERDLIRALQSLAM 163
S+ SP P + ++S +Y VLL L+ +++ T I + D+I LQSL M
Sbjct: 169 STVGSPQKPLSDLGKLSYRSYWSWVLLEILRDGTLSIKDLSQMTSITQNDIISTLQSLNM 228
Query: 164 GKA--SQRILIRYPKTKE 179
K Q ++ PK E
Sbjct: 229 VKYWKGQHVICVTPKLVE 246
>pdb|3V7N|A Chain A, Crystal Structure Of Threonine Synthase (Thrc) From From
Burkholderia Thailandensis
Length = 487
Score = 28.5 bits (62), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 21/81 (25%), Positives = 38/81 (46%), Gaps = 1/81 (1%)
Query: 12 LVLRLENDLFKFYLAKHSGRQLTLQPQMGSADLNAVFFGPRREEVHIFSIYPLRFYLAKH 71
+ ++L +LF++ LAKH L G A + +E V +F + P + A
Sbjct: 132 MAMQLLGNLFEYTLAKHGETLNILGATSGDTGSAAEYAMRGKEGVRVFMLSPHKKMSAFQ 191
Query: 72 SGRQLTLQ-PQMGSADLNAVF 91
+ + +LQ P + + +N VF
Sbjct: 192 TAQMYSLQDPNIFNLAVNGVF 212
>pdb|1WKC|A Chain A, Crystal Structure Of A 5-Formyltetrahydrofolate
Cycloligase-Related Protein From Thermus Thermophilus
Hb8
Length = 184
Score = 28.5 bits (62), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 20/69 (28%), Positives = 31/69 (44%), Gaps = 17/69 (24%)
Query: 47 VFFGPRREEVHIFSI---YPLRFYLAKHSGRQLTLQPQMGSADLNAVFFGPRREEGEGKD 103
+ + P E+++ + YP R+YL K +G+ LT+ P FGP G
Sbjct: 43 LLYHPLPHELNLLPLXEAYPARYYLPKVAGKGLTVHP-----------FGPL---APGPF 88
Query: 104 GASSSTSPP 112
G T+PP
Sbjct: 89 GLLEPTTPP 97
>pdb|3I1J|A Chain A, Structure Of A Putative Short Chain Dehydrogenase From
Pseudomonas Syringae
pdb|3I1J|B Chain B, Structure Of A Putative Short Chain Dehydrogenase From
Pseudomonas Syringae
Length = 247
Score = 27.7 bits (60), Expect = 8.1, Method: Compositional matrix adjust.
Identities = 11/31 (35%), Positives = 20/31 (64%)
Query: 249 ITEVTEQLKSRFLPSPVIIKKRIESLIEREY 279
+ EV++Q+KS P P+II +E+ ++Y
Sbjct: 51 LAEVSDQIKSAGQPQPLIIALNLENATAQQY 81
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
0.318 0.134 0.372
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,697,521
Number of Sequences: 62578
Number of extensions: 329930
Number of successful extensions: 905
Number of sequences better than 100.0: 28
Number of HSP's better than 100.0 without gapping: 16
Number of HSP's successfully gapped in prelim test: 12
Number of HSP's that attempted gapping in prelim test: 838
Number of HSP's gapped (non-prelim): 49
length of query: 331
length of database: 14,973,337
effective HSP length: 99
effective length of query: 232
effective length of database: 8,778,115
effective search space: 2036522680
effective search space used: 2036522680
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 52 (24.6 bits)