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= 004666
(738 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 = 435 bits (1118), Expect = e-122, Method: Compositional matrix adjust.
Identities = 251/705 (35%), Positives = 407/705 (57%), Gaps = 39/705 (5%)
Query: 42 LYTTIYNMCTQKPPHDYSQQLYDKYKQAFEEYISSMVLPSLSEKHDEYM-LRELVKRWAN 100
LY + N+C+ H S LY + +QA E+++ + +LP + D + L+++ W +
Sbjct: 86 LYQAVENLCS----HKVSPMLYKQLRQACEDHVQAQILPFREDSLDSVLFLKKINTCWQD 141
Query: 101 HKVMVRWLSRFFHYLDRYFIARRS-LPALNEVGLTCFREQVYD--ALKNKAKDAIIALID 157
H + + F +LDR ++ + S LP++ ++GL FR + +++K D I+ LI+
Sbjct: 142 HCRQMIMIRSIFLFLDRTYVLQNSTLPSIWDMGLELFRTHIISDKMVQSKTIDGILLLIE 201
Query: 158 KEREGEQIDRALLKNVLDIFVEIGMGQMDSYEKDFEEHMLQDTGAYYSRKASNWILEDSC 217
+ER GE +DR+LL+++L + + + Y+ FE L++T Y+ + + E
Sbjct: 202 RERSGEAVDRSLLRSLLGM-----LSDLQVYKDSFELKFLEETNCLYAAEGQRLMQEREV 256
Query: 218 PEYMIKAEECLKKERDRVSHYLHSSSEPKLVEKVQHELLVVYATELLEKEQSGCRALLRE 277
PEY+ + L++E DRV YL S++ L+ V+ +LL + T +L+K G LL E
Sbjct: 257 PEYLNHVSKRLEEEGDRVITYLDHSTQKPLIACVEKQLLGEHLTAILQK---GLDHLLDE 313
Query: 278 DKVEDLSRMYRLYHKIPKGLEPVANVFKQHITAEGTVLVQQAEDAATNQGGSSGAVQEQV 337
++V DL++MY+L+ ++ G + + + ++I GT +V E +++
Sbjct: 314 NRVPDLAQMYQLFSRVRGGQQALLQHWSEYIKTFGTAIVINPE-------------KDKD 360
Query: 338 LIRKIIELHDKYMEYVTNCFINHTLFHKALKEAFEIFCNKAVGGSSSSELLATFCDNILK 397
+++ +++ DK + CF + F +KE+FE F NK + +EL+A D+ L+
Sbjct: 361 MVQDLLDFKDKVDHVIEVCFQKNERFVNLMKESFETFINKR--PNKPAELIAKHVDSKLR 418
Query: 398 KGGNEKLSDEAIEETLEKVVKLLAYISDKDLFAEFYRKKLARRLLFDRSANDDHERSILT 457
GN++ +DE +E TL+K++ L +I KD+F FY+K LA+RLL +SA+ D E+S+L+
Sbjct: 419 -AGNKEATDEELERTLDKIMILFRFIHGKDVFEAFYKKDLAKRLLVGKSASVDAEKSMLS 477
Query: 458 KLKQQCGGQFTSKMEGMVTDLTLARENQTSFEEYLSNNQNAHPGIDLSVTVLTTGFWPSY 517
KLK +CG FTSK+EGM D+ L+++ F++++ N ++ P IDL+V +LT G+WP+Y
Sbjct: 478 KLKHECGAAFTSKLEGMFKDMELSKDIMVHFKQHMQNQSDSGP-IDLTVNILTMGYWPTY 536
Query: 518 KSSDLNLPSEMVKCVEVFKGFYETKTKHRKLTWIYSLGQCNINGKFEQKNIELIVSTYQA 577
+++L EM+K EVFK FY K RKL W +LG + +F++ E VS +Q
Sbjct: 537 TPMEVHLTPEMIKLQEVFKAFYLGKHSGRKLQWQTTLGHAVLKAEFKEGKKEFQVSLFQT 596
Query: 578 ATLLLFNTSDRLSYSEIMTQLNLTHDDLVRLLHSLSCAKYKILLKEPNTKTISQSDHFEF 637
LL+FN D S+ EI + +L R L SL+C K ++L+K P K + D F F
Sbjct: 597 LVLLMFNEGDGFSFEEIKMATGIEDSELRRTLQSLACGKARVLIKSPKGKEVEDGDKFIF 656
Query: 638 NSKFTDRMRRIKIPL----PPVDERKKIVEDVDKDRRYAIDAALVRIMKSRKVLGHQQLV 693
N +F ++ RIKI V+E+ E V +DR+Y IDAA+VRIMK RK LGH LV
Sbjct: 657 NGEFKHKLFRIKINQIQMKETVEEQVSTTERVFQDRQYQIDAAIVRIMKMRKTLGHNLLV 716
Query: 694 SECVEQLSRMFKPDIKAIKKRMEDLITRDYLERDKENPNMFRYLA 738
SE QL KP +KKR+E LI RDY+ERDK+NPN + Y+A
Sbjct: 717 SELYNQLKFPVKPG--DLKKRIESLIDRDYMERDKDNPNQYHYVA 759
>pdb|4A0K|A Chain A, Structure Of Ddb1-Ddb2-Cul4a-Rbx1 Bound To A 12 Bp Abasic
Site Containing Dna-Duplex
Length = 742
Score = 434 bits (1117), Expect = e-122, Method: Compositional matrix adjust.
Identities = 251/705 (35%), Positives = 407/705 (57%), Gaps = 39/705 (5%)
Query: 42 LYTTIYNMCTQKPPHDYSQQLYDKYKQAFEEYISSMVLPSLSEKHDEYM-LRELVKRWAN 100
LY + N+C+ H S LY + +QA E+++ + +LP + D + L+++ W +
Sbjct: 69 LYQAVENLCS----HKVSPMLYKQLRQACEDHVQAQILPFREDSLDSVLFLKKINTCWQD 124
Query: 101 HKVMVRWLSRFFHYLDRYFIARRS-LPALNEVGLTCFREQVYD--ALKNKAKDAIIALID 157
H + + F +LDR ++ + S LP++ ++GL FR + +++K D I+ LI+
Sbjct: 125 HCRQMIMIRSIFLFLDRTYVLQNSTLPSIWDMGLELFRTHIISDKMVQSKTIDGILLLIE 184
Query: 158 KEREGEQIDRALLKNVLDIFVEIGMGQMDSYEKDFEEHMLQDTGAYYSRKASNWILEDSC 217
+ER GE +DR+LL+++L + + + Y+ FE L++T Y+ + + E
Sbjct: 185 RERSGEAVDRSLLRSLLGM-----LSDLQVYKDSFELKFLEETNCLYAAEGQRLMQEREV 239
Query: 218 PEYMIKAEECLKKERDRVSHYLHSSSEPKLVEKVQHELLVVYATELLEKEQSGCRALLRE 277
PEY+ + L++E DRV YL S++ L+ V+ +LL + T +L+K G LL E
Sbjct: 240 PEYLNHVSKRLEEEGDRVITYLDHSTQKPLIACVEKQLLGEHLTAILQK---GLDHLLDE 296
Query: 278 DKVEDLSRMYRLYHKIPKGLEPVANVFKQHITAEGTVLVQQAEDAATNQGGSSGAVQEQV 337
++V DL++MY+L+ ++ G + + + ++I GT +V E +++
Sbjct: 297 NRVPDLAQMYQLFSRVRGGQQALLQHWSEYIKTFGTAIVINPE-------------KDKD 343
Query: 338 LIRKIIELHDKYMEYVTNCFINHTLFHKALKEAFEIFCNKAVGGSSSSELLATFCDNILK 397
+++ +++ DK + CF + F +KE+FE F NK + +EL+A D+ L+
Sbjct: 344 MVQDLLDFKDKVDHVIEVCFQKNERFVNLMKESFETFINKR--PNKPAELIAKHVDSKLR 401
Query: 398 KGGNEKLSDEAIEETLEKVVKLLAYISDKDLFAEFYRKKLARRLLFDRSANDDHERSILT 457
GN++ +DE +E TL+K++ L +I KD+F FY+K LA+RLL +SA+ D E+S+L+
Sbjct: 402 -AGNKEATDEELERTLDKIMILFRFIHGKDVFEAFYKKDLAKRLLVGKSASVDAEKSMLS 460
Query: 458 KLKQQCGGQFTSKMEGMVTDLTLARENQTSFEEYLSNNQNAHPGIDLSVTVLTTGFWPSY 517
KLK +CG FTSK+EGM D+ L+++ F++++ N ++ P IDL+V +LT G+WP+Y
Sbjct: 461 KLKHECGAAFTSKLEGMFKDMELSKDIMVHFKQHMQNQSDSGP-IDLTVNILTMGYWPTY 519
Query: 518 KSSDLNLPSEMVKCVEVFKGFYETKTKHRKLTWIYSLGQCNINGKFEQKNIELIVSTYQA 577
+++L EM+K EVFK FY K RKL W +LG + +F++ E VS +Q
Sbjct: 520 TPMEVHLTPEMIKLQEVFKAFYLGKHSGRKLQWQTTLGHAVLKAEFKEGKKEFQVSLFQT 579
Query: 578 ATLLLFNTSDRLSYSEIMTQLNLTHDDLVRLLHSLSCAKYKILLKEPNTKTISQSDHFEF 637
LL+FN D S+ EI + +L R L SL+C K ++L+K P K + D F F
Sbjct: 580 LVLLMFNEGDGFSFEEIKMATGIEDSELRRTLQSLACGKARVLIKSPKGKEVEDGDKFIF 639
Query: 638 NSKFTDRMRRIKIPL----PPVDERKKIVEDVDKDRRYAIDAALVRIMKSRKVLGHQQLV 693
N +F ++ RIKI V+E+ E V +DR+Y IDAA+VRIMK RK LGH LV
Sbjct: 640 NGEFKHKLFRIKINQIQMKETVEEQVSTTERVFQDRQYQIDAAIVRIMKMRKTLGHNLLV 699
Query: 694 SECVEQLSRMFKPDIKAIKKRMEDLITRDYLERDKENPNMFRYLA 738
SE QL KP +KKR+E LI RDY+ERDK+NPN + Y+A
Sbjct: 700 SELYNQLKFPVKPG--DLKKRIESLIDRDYMERDKDNPNQYHYVA 742
>pdb|4A0C|C Chain C, Structure Of The Cand1-Cul4b-Rbx1 Complex
pdb|4A0C|E Chain E, Structure Of The Cand1-Cul4b-Rbx1 Complex
Length = 741
Score = 420 bits (1080), Expect = e-117, Method: Compositional matrix adjust.
Identities = 258/734 (35%), Positives = 418/734 (56%), Gaps = 39/734 (5%)
Query: 13 DYMQKGITKLKRILEGLPESPFSSEEYMMLYTTIYNMCTQKPPHDYSQQLYDKYKQAFEE 72
+Y + KLK +E + S LY + N+C+ K S LY + +Q E+
Sbjct: 39 NYTDETWQKLKEAVEAIQNSTSIKYNLEELYQAVENLCSYK----ISANLYKQLRQICED 94
Query: 73 YISSMVLPSLSEKHDEYMLRELVKR-WANHKVMVRWLSRFFHYLDRYFIARRS-LPALNE 130
+I + + + D + + + R W NH + + F +LDR ++ + S LP++ +
Sbjct: 95 HIKAQIHQFREDSLDSVLFLKKIDRCWQNHCRQMIMIRSIFLFLDRTYVLQNSMLPSIWD 154
Query: 131 VGLTCFREQVYD--ALKNKAKDAIIALIDKEREGEQIDRALLKNVLDIFVEIGMGQMDSY 188
+GL FR + ++NK D I+ LI++ER GE IDR+LL+++L + ++ + Y
Sbjct: 155 MGLELFRAHIISDQKVQNKTIDGILLLIERERNGEAIDRSLLRSLLSMLSDLQI-----Y 209
Query: 189 EKDFEEHMLQDTGAYYSRKASNWILEDSCPEYMIKAEECLKKERDRVSHYLHSSSEPKLV 248
+ FE+ L++T Y+ + + E PEY+ + L++E DR+ YL +++ L+
Sbjct: 210 QDSFEQRFLEETNRLYAAEGQKLMQEREVPEYLHHVNKRLEEEADRLITYLDQTTQKSLI 269
Query: 249 EKVQHELLVVYATELLEKEQSGCRALLREDKVEDLSRMYRLYHKIPKGLEPVANVFKQHI 308
V+ +LL + T +L+K G LL E++++DLS +Y+L+ ++ G++ + + ++I
Sbjct: 270 ATVEKQLLGEHLTAILQK---GLNNLLDENRIQDLSLLYQLFSRVRGGVQVLLQQWIEYI 326
Query: 309 TAEGTVLVQQAEDAATNQGGSSGAVQEQVLIRKIIELHDKYMEYVTNCFINHTLFHKALK 368
A G+ +V E +++ +++++++ DK + CF+ + F A+K
Sbjct: 327 KAFGSTIVINPE-------------KDKTMVQELLDFKDKVDHIIDICFLKNEKFINAMK 373
Query: 369 EAFEIFCNKAVGGSSSSELLATFCDNILKKGGNEKLSDEAIEETLEKVVKLLAYISDKDL 428
EAFE F NK + +EL+A + D+ L+ GN++ +DE +E+ L+K++ + +I KD+
Sbjct: 374 EAFETFINKR--PNKPAELIAKYVDSKLR-AGNKEATDEELEKMLDKIMIIFRFIYGKDV 430
Query: 429 FAEFYRKKLARRLLFDRSANDDHERSILTKLKQQCGGQFTSKMEGMVTDLTLARENQTSF 488
F FY+K LA+RLL +SA+ D E+S+L+KLK +CG FTSK+EGM D+ L+++ F
Sbjct: 431 FEAFYKKDLAKRLLVGKSASVDAEKSMLSKLKHECGAAFTSKLEGMFKDMELSKDIMIQF 490
Query: 489 EEYLSNNQNAHPGIDLSVTVLTTGFWPSYKSSDLNLPSEMVKCVEVFKGFYETKTKHRKL 548
++Y+ N QN I+L+V +LT G+WP+Y +++LP EMVK E+FK FY K RKL
Sbjct: 491 KQYMQN-QNVPGNIELTVNILTMGYWPTYVPMEVHLPPEMVKLQEIFKTFYLGKHSGRKL 549
Query: 549 TWIYSLGQCNINGKFEQKNIELIVSTYQAATLLLFNTSDRLSYSEIMTQLNLTHDDLVRL 608
W +LG C + +F++ EL VS +Q LL+FN + S EI + +L R
Sbjct: 550 QWQSTLGHCVLKAEFKEGKKELQVSLFQTLVLLMFNEGEEFSLEEIKQATGIEDGELRRT 609
Query: 609 LHSLSCAKYKILLKEPNTKTISQSDHFEFNSKFTDRMRRIKIPL----PPVDERKKIVED 664
L SL+C K ++L K P K I D F N F ++ RIKI V+E+ E
Sbjct: 610 LQSLACGKARVLAKNPKGKDIEDGDKFICNDDFKHKLFRIKINQIQMKETVEEQASTTER 669
Query: 665 VDKDRRYAIDAALVRIMKSRKVLGHQQLVSECVEQLSRMFKPDIKAIKKRMEDLITRDYL 724
V +DR+Y IDAA+VRIMK RK L H LVSE QL KP +KKR+E LI RDY+
Sbjct: 670 VFQDRQYQIDAAIVRIMKMRKTLSHNLLVSEVYNQLKFPVKP--ADLKKRIESLIDRDYM 727
Query: 725 ERDKENPNMFRYLA 738
ERDKENPN + Y+A
Sbjct: 728 ERDKENPNQYNYIA 741
>pdb|4A0L|E Chain E, Structure Of Ddb1-Ddb2-Cul4b-Rbx1 Bound To A 12 Bp Abasic
Site Containing Dna-Duplex
pdb|4A0L|H Chain H, Structure Of Ddb1-Ddb2-Cul4b-Rbx1 Bound To A 12 Bp Abasic
Site Containing Dna-Duplex
Length = 726
Score = 420 bits (1080), Expect = e-117, Method: Compositional matrix adjust.
Identities = 258/734 (35%), Positives = 418/734 (56%), Gaps = 39/734 (5%)
Query: 13 DYMQKGITKLKRILEGLPESPFSSEEYMMLYTTIYNMCTQKPPHDYSQQLYDKYKQAFEE 72
+Y + KLK +E + S LY + N+C+ K S LY + +Q E+
Sbjct: 24 NYTDETWQKLKEAVEAIQNSTSIKYNLEELYQAVENLCSYK----ISANLYKQLRQICED 79
Query: 73 YISSMVLPSLSEKHDEYMLRELVKR-WANHKVMVRWLSRFFHYLDRYFIARRS-LPALNE 130
+I + + + D + + + R W NH + + F +LDR ++ + S LP++ +
Sbjct: 80 HIKAQIHQFREDSLDSVLFLKKIDRCWQNHCRQMIMIRSIFLFLDRTYVLQNSMLPSIWD 139
Query: 131 VGLTCFREQVYD--ALKNKAKDAIIALIDKEREGEQIDRALLKNVLDIFVEIGMGQMDSY 188
+GL FR + ++NK D I+ LI++ER GE IDR+LL+++L + ++ + Y
Sbjct: 140 MGLELFRAHIISDQKVQNKTIDGILLLIERERNGEAIDRSLLRSLLSMLSDLQI-----Y 194
Query: 189 EKDFEEHMLQDTGAYYSRKASNWILEDSCPEYMIKAEECLKKERDRVSHYLHSSSEPKLV 248
+ FE+ L++T Y+ + + E PEY+ + L++E DR+ YL +++ L+
Sbjct: 195 QDSFEQRFLEETNRLYAAEGQKLMQEREVPEYLHHVNKRLEEEADRLITYLDQTTQKSLI 254
Query: 249 EKVQHELLVVYATELLEKEQSGCRALLREDKVEDLSRMYRLYHKIPKGLEPVANVFKQHI 308
V+ +LL + T +L+K G LL E++++DLS +Y+L+ ++ G++ + + ++I
Sbjct: 255 ATVEKQLLGEHLTAILQK---GLNNLLDENRIQDLSLLYQLFSRVRGGVQVLLQQWIEYI 311
Query: 309 TAEGTVLVQQAEDAATNQGGSSGAVQEQVLIRKIIELHDKYMEYVTNCFINHTLFHKALK 368
A G+ +V E +++ +++++++ DK + CF+ + F A+K
Sbjct: 312 KAFGSTIVINPE-------------KDKTMVQELLDFKDKVDHIIDICFLKNEKFINAMK 358
Query: 369 EAFEIFCNKAVGGSSSSELLATFCDNILKKGGNEKLSDEAIEETLEKVVKLLAYISDKDL 428
EAFE F NK + +EL+A + D+ L+ GN++ +DE +E+ L+K++ + +I KD+
Sbjct: 359 EAFETFINKR--PNKPAELIAKYVDSKLR-AGNKEATDEELEKMLDKIMIIFRFIYGKDV 415
Query: 429 FAEFYRKKLARRLLFDRSANDDHERSILTKLKQQCGGQFTSKMEGMVTDLTLARENQTSF 488
F FY+K LA+RLL +SA+ D E+S+L+KLK +CG FTSK+EGM D+ L+++ F
Sbjct: 416 FEAFYKKDLAKRLLVGKSASVDAEKSMLSKLKHECGAAFTSKLEGMFKDMELSKDIMIQF 475
Query: 489 EEYLSNNQNAHPGIDLSVTVLTTGFWPSYKSSDLNLPSEMVKCVEVFKGFYETKTKHRKL 548
++Y+ N QN I+L+V +LT G+WP+Y +++LP EMVK E+FK FY K RKL
Sbjct: 476 KQYMQN-QNVPGNIELTVNILTMGYWPTYVPMEVHLPPEMVKLQEIFKTFYLGKHSGRKL 534
Query: 549 TWIYSLGQCNINGKFEQKNIELIVSTYQAATLLLFNTSDRLSYSEIMTQLNLTHDDLVRL 608
W +LG C + +F++ EL VS +Q LL+FN + S EI + +L R
Sbjct: 535 QWQSTLGHCVLKAEFKEGKKELQVSLFQTLVLLMFNEGEEFSLEEIKQATGIEDGELRRT 594
Query: 609 LHSLSCAKYKILLKEPNTKTISQSDHFEFNSKFTDRMRRIKIPL----PPVDERKKIVED 664
L SL+C K ++L K P K I D F N F ++ RIKI V+E+ E
Sbjct: 595 LQSLACGKARVLAKNPKGKDIEDGDKFICNDDFKHKLFRIKINQIQMKETVEEQASTTER 654
Query: 665 VDKDRRYAIDAALVRIMKSRKVLGHQQLVSECVEQLSRMFKPDIKAIKKRMEDLITRDYL 724
V +DR+Y IDAA+VRIMK RK L H LVSE QL KP +KKR+E LI RDY+
Sbjct: 655 VFQDRQYQIDAAIVRIMKMRKTLSHNLLVSEVYNQLKFPVKP--ADLKKRIESLIDRDYM 712
Query: 725 ERDKENPNMFRYLA 738
ERDKENPN + Y+A
Sbjct: 713 ERDKENPNQYNYIA 726
>pdb|1U6G|A Chain A, Crystal Structure Of The Cand1-Cul1-Roc1 Complex
Length = 776
Score = 368 bits (945), Expect = e-102, Method: Compositional matrix adjust.
Identities = 247/793 (31%), Positives = 418/793 (52%), Gaps = 87/793 (10%)
Query: 4 KTIDLDQGWDYMQKGITKLKRILEGLPESPFSSEEYMMLYTTIYNMCTQK---------- 53
K I LDQ WD ++ GI ++ + YM LYT +YN CT
Sbjct: 13 KQIGLDQIWDDLRAGIQQV------YTRQSMAKSRYMELYTHVYNYCTSVHQSNQARGAG 66
Query: 54 -PPHDYSQ------------QLYDKYKQAFEEYISSMVLPSLSEKHDEYMLRELVKRWAN 100
PP + +LY + K+ + Y++++ L + DE +L+ ++W +
Sbjct: 67 VPPSKSKKGQTPGGAQFVGLELYKRLKEFLKNYLTNL-LKDGEDLMDESVLKFYTQQWED 125
Query: 101 HKVMVRWLSRFFHYLDRYFI------ARRSLPALNEVGLTCFREQVYDALKNKAKDAIIA 154
++ + L+ YL+R+++ R+ + + + L +R+ ++ L + +A++
Sbjct: 126 YRFSSKVLNGICAYLNRHWVRRECDEGRKGIYEIYSLALVTWRDCLFRPLNKQVTNAVLK 185
Query: 155 LIDKEREGEQIDRALLKNVLDIFVEIGMGQMDS---------YEKDFEEHMLQDTGAYYS 205
LI+KER GE I+ L+ V+ +VE+G+ + D+ Y++ FE L DT +Y+
Sbjct: 186 LIEKERNGETINTRLISGVVQSYVELGLNEDDAFAKGPTLTVYKESFESQFLADTERFYT 245
Query: 206 RKASNWILEDSCPEYMIKAEECLKKERDRVSHYLHSSSEPKLVEKVQHEL----LVVYAT 261
R+++ ++ ++ EYM KAE L +E+ RV YLH S++ +L K + L L ++ T
Sbjct: 246 RESTEFLQQNPVTEYMKKAEARLLEEQRRVQVYLHESTQDELARKCEQVLIEKHLEIFHT 305
Query: 262 ELLEKEQSGCRALLREDKVEDLSRMYRLYHKIPKGLEPVANVFKQHITAEGTVLVQQAED 321
E + LL DK EDL RMY L +I GL + + + HI +G +++ +
Sbjct: 306 EF--------QNLLDADKNEDLGRMYNLVSRIQDGLGELKKLLETHIHNQGLAAIEKCGE 357
Query: 322 AATNQGGSSGAVQEQVLIRKIIELHDKYMEYVTNCFINHTLFHKALKEAFEIFCNK---- 377
AA N ++ ++ ++++H KY V + F N F AL +A F N
Sbjct: 358 AALND--------PKMYVQTVLDVHKKYNALVMSAFNNDAGFVAALDKACGRFINNNAVT 409
Query: 378 --AVGGSSSSELLATFCDNILKKGGNEKLSDEA-IEETLEKVVKLLAYISDKDLFAEFYR 434
A S S ELLA +CD++LKK K +EA +E+TL +V+ + YI DKD+F +FY
Sbjct: 410 KMAQSSSKSPELLARYCDSLLKKSS--KNPEEAELEDTLNQVMVVFKYIEDKDVFQKFYA 467
Query: 435 KKLARRLLFDRSANDDHERSILTKLKQQCGGQFTSKMEGMVTDLTLARENQTSFEEYLSN 494
K LA+RL+ SA+DD E S+++KLKQ CG ++TSK++ M D+ ++++ F+++L+N
Sbjct: 468 KMLAKRLVHQNSASDDAEASMISKLKQACGFEYTSKLQRMFQDIGVSKDLNEQFKKHLTN 527
Query: 495 NQNAHPGIDLSVTVLTTGFWPSYKSSDLNLPSEMVKCVEVFKGFYETKTKHRKLTWIYSL 554
++ +D S+ VL++G WP +S LPSE+ + + F FY ++ RKLTW+Y L
Sbjct: 528 SEPL--DLDFSIQVLSSGSWPFQQSCTFALPSELERSYQRFTAFYASRHSGRKLTWLYQL 585
Query: 555 GQCNINGKFEQKNIELIVSTYQAATLLLFNTSDRLSYSEIMTQLNLTHDDLVRLLHSLSC 614
+ + + L ST+Q A LL +NT D + ++ + D L ++L L
Sbjct: 586 SKGELVTNCFKNRYTLQASTFQMAILLQYNTEDAYTVQQLTDSTQIKMDILAQVLQIL-- 643
Query: 615 AKYKILLKEPNTKTISQSD-----HFEFNSKFTDRMRRIKIPLPPVDERKKIVE----DV 665
K K+L+ E + + + + + ++ R+ I +P E+K+ E ++
Sbjct: 644 LKSKLLVLEDENANVDEVELKPDTLIKLYLGYKNKKLRVNINVPMKTEQKQEQETTHKNI 703
Query: 666 DKDRRYAIDAALVRIMKSRKVLGHQQLVSECVEQLSRMFKPDIKAIKKRMEDLITRDYLE 725
++DR+ I AA+VRIMK RKVL HQQL+ E + QLS FKP + IKK ++ LI ++YLE
Sbjct: 704 EEDRKLLIQAAIVRIMKMRKVLKHQQLLGEVLTQLSSRFKPRVPVIKKCIDILIEKEYLE 763
Query: 726 RDKENPNMFRYLA 738
R + + YLA
Sbjct: 764 RVDGEKDTYSYLA 776
>pdb|1LDJ|A Chain A, Structure Of The Cul1-rbx1-skp1-f Boxskp2 Scf Ubiquitin
Ligase Complex
Length = 760
Score = 366 bits (939), Expect = e-101, Method: Compositional matrix adjust.
Identities = 245/789 (31%), Positives = 416/789 (52%), Gaps = 87/789 (11%)
Query: 8 LDQGWDYMQKGITKLKRILEGLPESPFSSEEYMMLYTTIYNMCTQK-----------PPH 56
LDQ WD ++ GI ++ + YM LYT +YN CT PP
Sbjct: 1 LDQIWDDLRAGIQQV------YTRQSMAKSRYMELYTHVYNYCTSVHQSNQARGAGVPPS 54
Query: 57 DYSQ------------QLYDKYKQAFEEYISSMVLPSLSEKHDEYMLRELVKRWANHKVM 104
+ +LY + K+ + Y++++ L + DE +L+ ++W +++
Sbjct: 55 KSKKGQTPGGAQFVGLELYKRLKEFLKNYLTNL-LKDGEDLMDESVLKFYTQQWEDYRFS 113
Query: 105 VRWLSRFFHYLDRYFI------ARRSLPALNEVGLTCFREQVYDALKNKAKDAIIALIDK 158
+ L+ YL+R+++ R+ + + + L +R+ ++ L + +A++ LI+K
Sbjct: 114 SKVLNGICAYLNRHWVRRECDEGRKGIYEIYSLALVTWRDCLFRPLNKQVTNAVLKLIEK 173
Query: 159 EREGEQIDRALLKNVLDIFVEIGMGQMDS---------YEKDFEEHMLQDTGAYYSRKAS 209
ER GE I+ L+ V+ +VE+G+ + D+ Y++ FE L DT +Y+R+++
Sbjct: 174 ERNGETINTRLISGVVQSYVELGLNEDDAFAKGPTLTVYKESFESQFLADTERFYTREST 233
Query: 210 NWILEDSCPEYMIKAEECLKKERDRVSHYLHSSSEPKLVEKVQHEL----LVVYATELLE 265
++ ++ EYM KAE L +E+ RV YLH S++ +L K + L L ++ TE
Sbjct: 234 EFLQQNPVTEYMKKAEARLLEEQRRVQVYLHESTQDELARKCEQVLIEKHLEIFHTEF-- 291
Query: 266 KEQSGCRALLREDKVEDLSRMYRLYHKIPKGLEPVANVFKQHITAEGTVLVQQAEDAATN 325
+ LL DK EDL RMY L +I GL + + + HI +G +++ +AA N
Sbjct: 292 ------QNLLDADKNEDLGRMYNLVSRIQDGLGELKKLLETHIHNQGLAAIEKCGEAALN 345
Query: 326 QGGSSGAVQEQVLIRKIIELHDKYMEYVTNCFINHTLFHKALKEAFEIFCNK------AV 379
++ ++ ++++H KY V + F N F AL +A F N A
Sbjct: 346 D--------PKMYVQTVLDVHKKYNALVMSAFNNDAGFVAALDKACGRFINNNAVTKMAQ 397
Query: 380 GGSSSSELLATFCDNILKKGGNEKLSDEA-IEETLEKVVKLLAYISDKDLFAEFYRKKLA 438
S S ELLA +CD++LKK K +EA +E+TL +V+ + YI DKD+F +FY K LA
Sbjct: 398 SSSKSPELLARYCDSLLKKSS--KNPEEAELEDTLNQVMVVFKYIEDKDVFQKFYAKMLA 455
Query: 439 RRLLFDRSANDDHERSILTKLKQQCGGQFTSKMEGMVTDLTLARENQTSFEEYLSNNQNA 498
+RL+ SA+DD E S+++KLKQ CG ++TSK++ M D+ ++++ F+++L+N++
Sbjct: 456 KRLVHQNSASDDAEASMISKLKQACGFEYTSKLQRMFQDIGVSKDLNEQFKKHLTNSEPL 515
Query: 499 HPGIDLSVTVLTTGFWPSYKSSDLNLPSEMVKCVEVFKGFYETKTKHRKLTWIYSLGQCN 558
+D S+ VL++G WP +S LPSE+ + + F FY ++ RKLTW+Y L +
Sbjct: 516 --DLDFSIQVLSSGSWPFQQSCTFALPSELERSYQRFTAFYASRHSGRKLTWLYQLSKGE 573
Query: 559 INGKFEQKNIELIVSTYQAATLLLFNTSDRLSYSEIMTQLNLTHDDLVRLLHSLSCAKYK 618
+ + L ST+Q A LL +NT D + ++ + D L ++L L K K
Sbjct: 574 LVTNCFKNRYTLQASTFQMAILLQYNTEDAYTVQQLTDSTQIKMDILAQVLQIL--LKSK 631
Query: 619 ILLKEPNTKTISQSD-----HFEFNSKFTDRMRRIKIPLPPVDERKKIVE----DVDKDR 669
+L+ E + + + + + ++ R+ I +P E+K+ E ++++DR
Sbjct: 632 LLVLEDENANVDEVELKPDTLIKLYLGYKNKKLRVNINVPMKTEQKQEQETTHKNIEEDR 691
Query: 670 RYAIDAALVRIMKSRKVLGHQQLVSECVEQLSRMFKPDIKAIKKRMEDLITRDYLERDKE 729
+ I AA+VRIMK RKVL HQQL+ E + QLS FKP + IKK ++ LI ++YLER
Sbjct: 692 KLLIQAAIVRIMKMRKVLKHQQLLGEVLTQLSSRFKPRVPVIKKCIDILIEKEYLERVDG 751
Query: 730 NPNMFRYLA 738
+ + YLA
Sbjct: 752 EKDTYSYLA 760
>pdb|1LDK|B Chain B, Structure Of The Cul1-Rbx1-Skp1-F Boxskp2 Scf Ubiquitin
Ligase Complex
Length = 366
Score = 224 bits (571), Expect = 1e-58, Method: Compositional matrix adjust.
Identities = 137/374 (36%), Positives = 216/374 (57%), Gaps = 22/374 (5%)
Query: 378 AVGGSSSSELLATFCDNILKKGGNEKLSDEA-IEETLEKVVKLLAYISDKDLFAEFYRKK 436
A S S ELLA +CD++LKK K +EA +E+TL +V+ + YI DKD+F +FY K
Sbjct: 2 AQSSSKSPELLARYCDSLLKKSS--KNPEEAELEDTLNQVMVVFKYIEDKDVFQKFYAKM 59
Query: 437 LARRLLFDRSANDDHERSILTKLKQQCGGQFTSKMEGMVTDLTLARENQTSFEEYLSNNQ 496
LA+RL+ SA+DD E S+++KLKQ CG ++TSK++ M D+ ++++ F+++L+N++
Sbjct: 60 LAKRLVHQNSASDDAEASMISKLKQACGFEYTSKLQRMFQDIGVSKDLNEQFKKHLTNSE 119
Query: 497 NAHPGIDLSVTVLTTGFWPSYKSSDLNLPSEMVKCVEVFKGFYETKTKHRKLTWIYSLGQ 556
+D S+ VL++G WP +S LPSE+ + + F FY ++ RKLTW+Y L +
Sbjct: 120 PL--DLDFSIQVLSSGSWPFQQSCTFALPSELERSYQRFTAFYASRHSGRKLTWLYQLSK 177
Query: 557 CNINGKFEQKNIELIVSTYQAATLLLFNTSDRLSYSEIMTQLNLTHDDLVRLLHSLSCAK 616
+ + L ST+Q A LL +NT D + ++ + D L ++L L K
Sbjct: 178 GELVTNCFKNRYTLQASTFQMAILLQYNTEDAYTVQQLTDSTQIKMDILAQVLQIL--LK 235
Query: 617 YKILLKEPNTKTISQSDHFEFNSK--------FTDRMRRIKIPLPPVDERKKIVE----D 664
K+L+ E + D E + ++ R+ I +P E+K+ E +
Sbjct: 236 SKLLVLEDENANV---DEVELKPDTLIKLYLGYKNKKLRVNINVPMKTEQKQEQETTHKN 292
Query: 665 VDKDRRYAIDAALVRIMKSRKVLGHQQLVSECVEQLSRMFKPDIKAIKKRMEDLITRDYL 724
+++DR+ I AA+VRIMK RKVL HQQL+ E + QLS FKP + IKK ++ LI ++YL
Sbjct: 293 IEEDRKLLIQAAIVRIMKMRKVLKHQQLLGEVLTQLSSRFKPRVPVIKKCIDILIEKEYL 352
Query: 725 ERDKENPNMFRYLA 738
ER + + YLA
Sbjct: 353 ERVDGEKDTYSYLA 366
>pdb|3RTR|A Chain A, A Ring E3-Substrate Complex Poised For Ubiquitin-Like
Protein Transfer: Structural Insights Into Cullin-Ring
Ligases
pdb|3RTR|C Chain C, A Ring E3-Substrate Complex Poised For Ubiquitin-Like
Protein Transfer: Structural Insights Into Cullin-Ring
Ligases
pdb|3RTR|E Chain E, A Ring E3-Substrate Complex Poised For Ubiquitin-Like
Protein Transfer: Structural Insights Into Cullin-Ring
Ligases
pdb|3RTR|G Chain G, A Ring E3-Substrate Complex Poised For Ubiquitin-Like
Protein Transfer: Structural Insights Into Cullin-Ring
Ligases
Length = 368
Score = 217 bits (552), Expect = 2e-56, Method: Compositional matrix adjust.
Identities = 135/374 (36%), Positives = 214/374 (57%), Gaps = 22/374 (5%)
Query: 378 AVGGSSSSELLATFCDNILKKGGNEKLSDEA-IEETLEKVVKLLAYISDKDLFAEFYRKK 436
A S S E LA +CD++LKK K +EA +E+TL +V++ I DKD+F +FY K
Sbjct: 4 AQSSSKSPEELARYCDSLLKKSS--KNPEEAELEDTLNQVMEKFKKIEDKDVFQKFYAKM 61
Query: 437 LARRLLFDRSANDDHERSILTKLKQQCGGQFTSKMEGMVTDLTLARENQTSFEEYLSNNQ 496
LA+RL+ SA+DD E S+++KLKQ CG ++TSK++ M D+ ++++ F+++L+N++
Sbjct: 62 LAKRLVHQNSASDDAEASMISKLKQACGFEYTSKLQRMFQDIGVSKDLNEQFKKHLTNSE 121
Query: 497 NAHPGIDLSVTVLTTGFWPSYKSSDLNLPSEMVKCVEVFKGFYETKTKHRKLTWIYSLGQ 556
+D S+ VL++G WP +S LPSE+ + + F FY ++ RKLTW+Y L +
Sbjct: 122 PL--DLDFSIQVLSSGSWPFQQSCTFALPSELERSYQRFTAFYASRHSGRKLTWLYQLSK 179
Query: 557 CNINGKFEQKNIELIVSTYQAATLLLFNTSDRLSYSEIMTQLNLTHDDLVRLLHSLSCAK 616
+ + L ST+Q A LL +NT D + ++ + D L ++L L K
Sbjct: 180 GELVTNCFKNRYTLQASTFQMAILLQYNTEDAYTVQQLTDSTQIKMDILAQVLQIL--LK 237
Query: 617 YKILLKEPNTKTISQSDHFEFNSK--------FTDRMRRIKIPLPPVDERKKIVE----D 664
K+L+ E + D E + ++ R+ I +P E+K+ E +
Sbjct: 238 SKLLVLEDENANV---DEVELKPDTLIKLYLGYKNKKLRVNINVPMKTEQKQEQETTHKN 294
Query: 665 VDKDRRYAIDAALVRIMKSRKVLGHQQLVSECVEQLSRMFKPDIKAIKKRMEDLITRDYL 724
+++DR+ I AA+VRIMK RKVL HQQL+ E + QLS FKP + IKK ++ LI ++YL
Sbjct: 295 IEEDRKLLIQAAIVRIMKMRKVLKHQQLLGEVLTQLSSRFKPRVPVIKKCIDILIEKEYL 354
Query: 725 ERDKENPNMFRYLA 738
ER + + YLA
Sbjct: 355 ERVDGEKDTYSYLA 368
>pdb|1LDK|A Chain A, Structure Of The Cul1-Rbx1-Skp1-F Boxskp2 Scf Ubiquitin
Ligase Complex
Length = 396
Score = 155 bits (392), Expect = 7e-38, Method: Compositional matrix adjust.
Identities = 111/413 (26%), Positives = 200/413 (48%), Gaps = 65/413 (15%)
Query: 6 IDLDQGWDYMQKGITKLKRILEGLPESPFSSEEYMMLYTTIYNMCTQK-----------P 54
I LDQ WD ++ GI ++ + YM LYT +YN CT P
Sbjct: 1 IGLDQIWDDLRAGIQQV------YTRQSMAKSRYMELYTHVYNYCTSVHQSNQARGAGVP 54
Query: 55 PHDYSQ------------QLYDKYKQAFEEYISSMVLPSLSEKHDEYMLRELVKRWANHK 102
P + +LY + K+ + Y++++ L + DE +L+ ++W +++
Sbjct: 55 PSKSKKGQTPGGAQFVGLELYKRLKEFLKNYLTNL-LKDGEDLMDESVLKFYTQQWEDYR 113
Query: 103 VMVRWLSRFFHYLDRYFI------ARRSLPALNEVGLTCFREQVYDALKNKAKDAIIALI 156
+ L+ YL+R+++ R+ + + + L +R+ ++ L + +A++ LI
Sbjct: 114 FSSKVLNGICAYLNRHWVRRECDEGRKGIYEIYSLALVTWRDCLFRPLNKQVTNAVLKLI 173
Query: 157 DKEREGEQIDRALLKNVLDIFVEIGMGQMDS---------YEKDFEEHMLQDTGAYYSRK 207
+KER GE I+ L+ V+ +VE+G+ + D+ Y++ FE L DT +Y+R+
Sbjct: 174 EKERNGETINTRLISGVVQSYVELGLNEDDAFAKGPTLTVYKESFESQFLADTERFYTRE 233
Query: 208 ASNWILEDSCPEYMIKAEECLKKERDRVSHYLHSSSEPKLVEKVQHEL----LVVYATEL 263
++ ++ ++ EYM KAE L +E+ RV YLH S++ +L K + L L ++ TE
Sbjct: 234 STEFLQQNPVTEYMKKAEARLLEEQRRVQVYLHESTQDELARKCEQVLIEKHLEIFHTEF 293
Query: 264 LEKEQSGCRALLREDKVEDLSRMYRLYHKIPKGLEPVANVFKQHITAEGTVLVQQAEDAA 323
+ LL DK EDL RMY L +I GL + + + HI +G +++ +AA
Sbjct: 294 --------QNLLDADKNEDLGRMYNLVSRIQDGLGELKKLLETHIHNQGLAAIEKCGEAA 345
Query: 324 TNQGGSSGAVQEQVLIRKIIELHDKYMEYVTNCFINHTLFHKALKEAFEIFCN 376
N ++ ++ ++++H KY V + F N F AL +A F N
Sbjct: 346 LN--------DPKMYVQTVLDVHKKYNALVMSAFNNDAGFVAALDKACGRFIN 390
>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 (386), Expect = 4e-37, Method: Compositional matrix adjust.
Identities = 88/244 (36%), Positives = 144/244 (59%), Gaps = 5/244 (2%)
Query: 378 AVGGSSSSELLATFCDNILKKGGNEKLSDEA-IEETLEKVVKLLAYISDKDLFAEFYRKK 436
A S S E LA +CD++LKK K +EA +E+TL +V++ I DKD+F +FY K
Sbjct: 4 AQSSSKSPEELARYCDSLLKKSS--KNPEEAELEDTLNQVMEKFKKIEDKDVFQKFYAKM 61
Query: 437 LARRLLFDRSANDDHERSILTKLKQQCGGQFTSKMEGMVTDLTLARENQTSFEEYLSNNQ 496
LA+RL+ SA+DD E S+++KLKQ CG ++TSK++ M D+ ++++ F+++L+N++
Sbjct: 62 LAKRLVHQNSASDDAEASMISKLKQACGFEYTSKLQRMFQDIGVSKDLNEQFKKHLTNSE 121
Query: 497 NAHPGIDLSVTVLTTGFWPSYKSSDLNLPSEMVKCVEVFKGFYETKTKHRKLTWIYSLGQ 556
+D S+ VL++G WP +S LPSE+ + + F FY ++ RKLTW+Y L +
Sbjct: 122 PL--DLDFSIQVLSSGSWPFQQSCTFALPSELERSYQRFTAFYASRHSGRKLTWLYQLSK 179
Query: 557 CNINGKFEQKNIELIVSTYQAATLLLFNTSDRLSYSEIMTQLNLTHDDLVRLLHSLSCAK 616
+ + L ST+Q A LL +NT D + ++ + D L ++L L +K
Sbjct: 180 GELVTNCFKNRYTLQASTFQMAILLQYNTEDAYTVQQLTDSTQIKMDILAQVLQILLKSK 239
Query: 617 YKIL 620
+L
Sbjct: 240 LLVL 243
>pdb|4AP2|B Chain B, Crystal Structure Of The Human Klhl11-cul3 Complex At 2.8a
Resolution
Length = 410
Score = 147 bits (370), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 99/391 (25%), Positives = 192/391 (49%), Gaps = 28/391 (7%)
Query: 1 MDRKTIDLDQGWDYMQKGITKLKRILEGLPESPFSSEEYMMLYTTIYNMCTQKPPHDYSQ 60
MD K ++ WD ++ I +++R S S EE LY Y M H + +
Sbjct: 25 MDEKYVN--SIWDLLKNAIQEIQR----KNNSGLSFEE---LYRNAYTMVL----HKHGE 71
Query: 61 QLYDKYKQAFEEYISSMVLPSLSEKHDEYMLRELVKRWANHKVMVRWLSRFFHYLDRYFI 120
+LY ++ E++ + V + + L+ L + W +H+ + + Y+DR ++
Sbjct: 72 KLYTGLREVVTEHLINKVREDVLNSLNNNFLQTLNQAWNDHQTAMVMIRDILMYMDRVYV 131
Query: 121 ARRSLPALNEVGLTCFREQV--YDALKNKAKDAIIALIDKEREGEQIDRALLKNVLDIFV 178
+ ++ + +GL FR+QV Y +++ + ++ +I +ER+GE +DR ++N + +
Sbjct: 132 QQNNVENVYNLGLIIFRDQVVRYGCIRDHLRQTLLDMIARERKGEVVDRGAIRNACQMLM 191
Query: 179 EIGMGQMDSYEKDFEEHMLQDTGAYYSRKASNWILEDSCPEYMIKAEECLKKERDRVSHY 238
+G+ YE+DFE L+ + ++ ++ ++ E+S Y+ K E + +E +RV H
Sbjct: 192 ILGLEGRSVYEEDFEAPFLEMSAEFFQMESQKFLAENSASVYIKKVEARINEEIERVMHC 251
Query: 239 LHSSSEPKLVEKVQHELLVVYATELLEKEQSGCRALLREDKVEDLSRMYRLYHKIPKGLE 298
L S+E +V+ V+ EL+ + ++E E SG +L+ K EDL MY+L+ ++P GL+
Sbjct: 252 LDKSTEEPIVKVVERELISKHMKTIVEMENSGLVHMLKNGKTEDLGCMYKLFSRVPNGLK 311
Query: 299 PVANVFKQHITAEGTVLVQQAEDAATNQGGSSGAVQEQVLIRKIIELHDKYMEYVTNCFI 358
+ ++ +G LV + +G V + + + +L ++ ++ F
Sbjct: 312 TMCECMSSYLREQGKALVSE-------EGEGKNPVDYR---QGLDDLKSRFDRFLLESFN 361
Query: 359 NHTLFHKALKEAFEIFCNKAVGGSSSSELLA 389
N LF + + FE F N S S E LA
Sbjct: 362 NDRLFKQTIAGDFEYFLNL---NSRSPEYLA 389
>pdb|4APF|B Chain B, Crystal Structure Of The Human Klhl11-cul3 Complex At 3.1a
Resolution
Length = 388
Score = 147 bits (370), Expect = 3e-35, Method: Compositional matrix adjust.
Identities = 99/391 (25%), Positives = 192/391 (49%), Gaps = 28/391 (7%)
Query: 1 MDRKTIDLDQGWDYMQKGITKLKRILEGLPESPFSSEEYMMLYTTIYNMCTQKPPHDYSQ 60
MD K ++ WD ++ I +++R S S EE LY Y M H + +
Sbjct: 3 MDEKYVN--SIWDLLKNAIQEIQR----KNNSGLSFEE---LYRNAYTMVL----HKHGE 49
Query: 61 QLYDKYKQAFEEYISSMVLPSLSEKHDEYMLRELVKRWANHKVMVRWLSRFFHYLDRYFI 120
+LY ++ E++ + V + + L+ L + W +H+ + + Y+DR ++
Sbjct: 50 KLYTGLREVVTEHLINKVREDVLNSLNNNFLQTLNQAWNDHQTAMVMIRDILMYMDRVYV 109
Query: 121 ARRSLPALNEVGLTCFREQV--YDALKNKAKDAIIALIDKEREGEQIDRALLKNVLDIFV 178
+ ++ + +GL FR+QV Y +++ + ++ +I +ER+GE +DR ++N + +
Sbjct: 110 QQNNVENVYNLGLIIFRDQVVRYGCIRDHLRQTLLDMIARERKGEVVDRGAIRNACQMLM 169
Query: 179 EIGMGQMDSYEKDFEEHMLQDTGAYYSRKASNWILEDSCPEYMIKAEECLKKERDRVSHY 238
+G+ YE+DFE L+ + ++ ++ ++ E+S Y+ K E + +E +RV H
Sbjct: 170 ILGLEGRSVYEEDFEAPFLEMSAEFFQMESQKFLAENSASVYIKKVEARINEEIERVMHC 229
Query: 239 LHSSSEPKLVEKVQHELLVVYATELLEKEQSGCRALLREDKVEDLSRMYRLYHKIPKGLE 298
L S+E +V+ V+ EL+ + ++E E SG +L+ K EDL MY+L+ ++P GL+
Sbjct: 230 LDKSTEEPIVKVVERELISKHMKTIVEMENSGLVHMLKNGKTEDLGCMYKLFSRVPNGLK 289
Query: 299 PVANVFKQHITAEGTVLVQQAEDAATNQGGSSGAVQEQVLIRKIIELHDKYMEYVTNCFI 358
+ ++ +G LV + +G V + + + +L ++ ++ F
Sbjct: 290 TMCECMSSYLREQGKALVSE-------EGEGKNPVDYR---QGLDDLKSRFDRFLLESFN 339
Query: 359 NHTLFHKALKEAFEIFCNKAVGGSSSSELLA 389
N LF + + FE F N S S E LA
Sbjct: 340 NDRLFKQTIAGDFEYFLNL---NSRSPEYLA 367
>pdb|3DPL|C Chain C, Structural Insights Into Nedd8 Activation Of Cullin-Ring
Ligases: Conformational Control Of Conjugation
Length = 382
Score = 137 bits (345), Expect = 2e-32, Method: Compositional matrix adjust.
Identities = 111/381 (29%), Positives = 194/381 (50%), Gaps = 26/381 (6%)
Query: 382 SSSSELLATFCDNILKKGG-NEKLSDEAIEETLEKVVKLLAYISDKDLFAEFYRKKLARR 440
S E LA +CD +L+K ++KL+ E IE L++V+K L Y+ +KD+F +++ L RR
Sbjct: 4 SKCPEELANYCDMLLRKTPLSKKLTSEEIEAKLKEVLKKLKYVQNKDVFMRYHKAHLTRR 63
Query: 441 LLFDRSANDDHERSILTKLKQ-QCGGQFTSKMEGMVTDLTLARENQTSFEEYLSNNQNAH 499
L+ D SA+ + E +++ L++ + +K+ M D+ ++ + +F+E NN+ A
Sbjct: 64 LILDISADSEIEENMVEWLREVGMPADYVNKLARMFQDIKVSEDLNQAFKEMHKNNKLAL 123
Query: 500 PGIDLSVTVLTTGFWP-SYKSSDLNLPSEMVKCVEVFKGFYETKTKHRKLTWIYSLGQCN 558
P +++ +L G W S + ++LP+E+ + + FY+ RKL W + +
Sbjct: 124 PADSVNIKILNAGAWSRSSEKVFVSLPTELEDLIPEVEEFYKKNHSGRKLHWHHLMSNGI 183
Query: 559 INGKFEQKNIELIVSTYQAATLLLFNTSDR--LSYSEIMTQLNLTHDDLVRLLHSLSC-- 614
I K E +L V+T+Q A L +N R +S+ + L +L R L SL
Sbjct: 184 ITFKNEVGQYDLEVTTFQLAVLFAWNQRPREKISFENLKLATELPDAELRRTLWSLVAFP 243
Query: 615 -AKYKILLKEPNT---KTISQSDHFEFNSKFT-------------DRMRRIKIPLPPVDE 657
K ++LL EP K ++ F N +F+ + + R+++ + E
Sbjct: 244 KLKRQVLLYEPQVNSPKDFTEGTLFSVNQEFSLIKNAKVQKRGKINLIGRLQLTTERMRE 303
Query: 658 RKKIVEDVDKDRRYAIDAALVRIMKSRKVLGHQQLVSECVEQLSRMFKPDIKAIKKRMED 717
+ E + + R A+++IMK RK + + QL +E VE L MF P K IK+++E
Sbjct: 304 EEN--EGIVQLRILRTQEAIIQIMKMRKKISNAQLQTELVEILKNMFLPQKKMIKEQIEW 361
Query: 718 LITRDYLERDKENPNMFRYLA 738
LI Y+ RD+ + N F Y+A
Sbjct: 362 LIEHKYIRRDESDINTFIYMA 382
>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 = 135 bits (341), Expect = 7e-32, Method: Compositional matrix adjust.
Identities = 89/368 (24%), Positives = 174/368 (47%), Gaps = 25/368 (6%)
Query: 12 WDYMQKGITKLKRILEGLPESPFSSEE-YMMLYTTIYNMCTQKPPHDYSQQLYDKYKQAF 70
WD ++ I +++R S S EE Y YT + H + ++LY ++
Sbjct: 17 WDLLKNAIQEIQR----KNNSGLSFEELYRNAYTXVL--------HKHGEKLYTGLREVV 64
Query: 71 EEYISSMVLPSLSEKHDEYMLRELVKRWANHKVMVRWLSRFFHYLDRYFIARRSLPALNE 130
E++ + V + + L+ L + W +H+ + Y DR ++ + ++ +
Sbjct: 65 TEHLINKVREDVLNSLNNNFLQTLNQAWNDHQTAXVXIRDILXYXDRVYVQQNNVENVYN 124
Query: 131 VGLTCFREQV--YDALKNKAKDAIIALIDKEREGEQIDRALLKNVLDIFVEIGMGQMDSY 188
+GL FR+QV Y +++ + ++ I +ER+GE +DR ++N +G+ Y
Sbjct: 125 LGLIIFRDQVVRYGCIRDHLRQTLLDXIARERKGEVVDRGAIRNACQXLXILGLEGRSVY 184
Query: 189 EKDFEEHMLQDTGAYYSRKASNWILEDSCPEYMIKAEECLKKERDRVSHYLHSSSEPKLV 248
E+DFE L+ + ++ ++ ++ E+S Y+ K E + +E +RV H L S+E +V
Sbjct: 185 EEDFEAPFLEXSAEFFQXESQKFLAENSASVYIKKVEARINEEIERVXHCLDKSTEEPIV 244
Query: 249 EKVQHELLVVYATELLEKEQSGCRALLREDKVEDLSRMYRLYHKIPKGLEPVANVFKQHI 308
+ V+ EL+ + ++E E SG L+ K EDL Y+L+ ++P GL+ ++
Sbjct: 245 KVVERELISKHXKTIVEXENSGLVHXLKNGKTEDLGCXYKLFSRVPNGLKTXCECXSSYL 304
Query: 309 TAEGTVLVQQAEDAATNQGGSSGAVQEQVLIRKIIELHDKYMEYVTNCFINHTLFHKALK 368
+G LV + +G V + + + +L ++ ++ F N LF + +
Sbjct: 305 REQGKALVSE-------EGEGKNPVDYR---QGLDDLKSRFDRFLLESFNNDRLFKQTIA 354
Query: 369 EAFEIFCN 376
FE F N
Sbjct: 355 GDFEYFLN 362
>pdb|4A64|A Chain A, Crystal Structure Of The N-Terminal Domain Of Human Cul4b
At 2.57a Resolution
pdb|4A64|B Chain B, Crystal Structure Of The N-Terminal Domain Of Human Cul4b
At 2.57a Resolution
pdb|4A64|C Chain C, Crystal Structure Of The N-Terminal Domain Of Human Cul4b
At 2.57a Resolution
pdb|4A64|D Chain D, Crystal Structure Of The N-Terminal Domain Of Human Cul4b
At 2.57a Resolution
Length = 354
Score = 131 bits (330), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 101/369 (27%), Positives = 192/369 (52%), Gaps = 29/369 (7%)
Query: 13 DYMQKGITKLKRILEGLPESPFSSEEYMMLYTTIYNMCTQKPPHDYSQQLYDKYKQAFEE 72
+Y + KLK +E + S LY + N+C+ K S LY + +Q E+
Sbjct: 8 NYTDETWQKLKEAVEAIQNSTSIKYNLEELYQAVENLCSYK----ISANLYKQLRQICED 63
Query: 73 YISSMVLPSLSEKHDEYMLRELVKR-WANHKVMVRWLSRFFHYLDRYFIARRS-LPALNE 130
+I + + + D + + + R W NH + + F +LDR ++ + S LP++ +
Sbjct: 64 HIKAQIHQFREDSLDSVLFLKKIDRCWQNHCRQMIMIRSIFLFLDRTYVLQNSMLPSIWD 123
Query: 131 VGLTCFREQVYD--ALKNKAKDAIIALIDKEREGEQIDRALLKNVLDIFVEIGMGQMDSY 188
+GL FR + ++NK D I+ LI++ER GE IDR+LL+++L + ++ + Y
Sbjct: 124 MGLELFRAHIISDQKVQNKTIDGILLLIERERNGEAIDRSLLRSLLSMLSDLQI-----Y 178
Query: 189 EKDFEEHMLQDTGAYYSRKASNWILEDSCPEYMIKAEECLKKERDRVSHYLHSSSEPKLV 248
+ FE+ L++T Y+ + + E PEY+ + L++E DR+ YL +++ L+
Sbjct: 179 QDSFEQRFLEETNRLYAAEGQKLMQEREVPEYLHHVNKRLEEEADRLITYLDQTTQKSLI 238
Query: 249 EKVQHELLVVYATELLEKEQSGCRALLREDKVEDLSRMYRLYHKIPKGLEPVANVFKQHI 308
V+ +LL + T +L+K G LL E++++DLS +Y+L+ ++ G++ + + ++I
Sbjct: 239 ATVEKQLLGEHLTAILQK---GLNNLLDENRIQDLSLLYQLFSRVRGGVQVLLQQWIEYI 295
Query: 309 TAEGTVLVQQAEDAATNQGGSSGAVQEQVLIRKIIELHDKYMEYVTNCFINHTLFHKALK 368
A G+ +V E +++ + +++ + DK + CF+ + F A+K
Sbjct: 296 KAFGSTIVINPE-------------KDKTMRQELDDFKDKVDHIIDICFLKNEKFINAMK 342
Query: 369 EAFEIFCNK 377
EAFE F NK
Sbjct: 343 EAFETFINK 351
>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 = 124 bits (312), Expect = 2e-28, Method: Compositional matrix adjust.
Identities = 111/379 (29%), Positives = 187/379 (49%), Gaps = 22/379 (5%)
Query: 382 SSSSELLATFCDNILKKGG-NEKLSDEAIEETLEKVVKLLAYISDKDLFAEFYRKKLARR 440
S E LA +CD +L+K ++KL+ E IE L++V+K L Y+ +KD+F +++ L RR
Sbjct: 4 SKCPEELANYCDXLLRKTPLSKKLTSEEIEAKLKEVLKKLKYVQNKDVFXRYHKAHLTRR 63
Query: 441 LLFDRSANDDHERSILTKLKQ-QCGGQFTSKMEGMVTDLTLARENQTSFEEYLSNNQNAH 499
L+ D SA+ + E + + L++ + +K+ D+ ++ + +F+E NN+ A
Sbjct: 64 LILDISADSEIEENXVEWLREVGXPADYVNKLARXFQDIKVSEDLNQAFKEXHKNNKLAL 123
Query: 500 PGIDLSVTVLTTGFWP-SYKSSDLNLPSEMVKCVEVFKGFYETKTKHRKLTWIYSLGQCN 558
P +++ +L G W S + ++LP+E+ + + FY+ RKL W +
Sbjct: 124 PADSVNIKILNAGAWSRSSEKVFVSLPTELEDLIPEVEEFYKKNHSGRKLHWHHLXSNGI 183
Query: 559 INGKFEQKNIELIVSTYQAATLLLFNTSDR--LSYSEIMTQLNLTHDDLVRLLHSLSC-- 614
I K E +L V+T+Q A L +N R +S+ + L +L R L SL
Sbjct: 184 ITFKNEVGQYDLEVTTFQLAVLFAWNQRPREKISFENLKLATELPDAELRRTLWSLVAFP 243
Query: 615 -AKYKILLKEPNT---KTISQSDHFEFNSKFT-----DRMRRIKI------PLPPVDERK 659
K ++LL EP K ++ F N +F+ +R KI L R+
Sbjct: 244 KLKRQVLLYEPQVNSPKDFTEGTLFSVNQEFSLIKNAKVQKRGKINLIGRLQLTTERXRE 303
Query: 660 KIVEDVDKDRRYAIDAALVRIMKSRKVLGHQQLVSECVEQLSRMFKPDIKAIKKRMEDLI 719
+ E + + R A+++I K RK + + QL +E VE L F P K IK+++E LI
Sbjct: 304 EENEGIVQLRILRTQEAIIQIXKXRKKISNAQLQTELVEILKNXFLPQKKXIKEQIEWLI 363
Query: 720 TRDYLERDKENPNMFRYLA 738
Y+ RD+ + N F Y A
Sbjct: 364 EHKYIRRDESDINTFIYXA 382
>pdb|2WZK|A Chain A, Structure Of The Cul5 N-Terminal Domain At 2.05a
Resolution
Length = 391
Score = 101 bits (251), Expect = 2e-21, Method: Compositional matrix adjust.
Identities = 85/390 (21%), Positives = 172/390 (44%), Gaps = 29/390 (7%)
Query: 2 DRKTIDLDQGWDYMQKGITKLKRILEGLPESPFSSEEYMMLYTTIYNMCTQKPPHDYSQQ 61
++ ++ + WD+M + KL R + + +++ L++ ++ +C S +
Sbjct: 9 NKGSLQFEDKWDFMHPIVLKLLR------QESVTKQQWFDLFSDVHAVCLWDDKG--SSK 60
Query: 62 LYDKYKQAFEEYISSMVLPSLSEKHDEYMLRELVKRWANHKVMVRWLSRFFHYLDRYFIA 121
++ K+ E+I LS + D +L+ + W L + F L+ +
Sbjct: 61 IHQALKEDILEFIKQAQARVLSHQDDTALLKAYIVEWRKFFTQCDILPKPFCQLEVTLLG 120
Query: 122 RRSL--------PALNEVGLTCFREQVYDALKNKAKDAIIALIDKEREGEQIDRALLKNV 173
++S + ++ L + E ++ +KN+ +D+ + L+ ER GE D L+ V
Sbjct: 121 KQSSNKKSNMEDSIVRKLMLDTWNESIFSNIKNRLQDSAMKLVHAERLGEAFDSQLVIGV 180
Query: 174 LDIFVEIGMGQMDS---YEKDFEEHMLQDTGAYYSRKASNWILEDSCPEYMIKAEECLKK 230
+ +V + D Y +FE+ L T +Y +A +++ ++ YM A+ LK+
Sbjct: 181 RESYVNLCSNPEDKLQIYRDNFEKAYLDSTERFYRTQAPSYLQQNGVQNYMKYADAKLKE 240
Query: 231 ERDRVSHYLHSSSEPKLVEKVQHELLVVYATELLEKEQSGCRALLREDKVEDLSRMYRLY 290
E R YL + E VE + + T E + C+ +++ ++ E L M+ L
Sbjct: 241 EEKRALRYLETRRECNSVEALMECCVNALVTSFKETILAECQGMIKRNETEKLHLMFSLM 300
Query: 291 HKIPKGLEPVANVFKQHITAEGTV-LVQQAEDAATNQGGSSGAVQEQVLIRKIIELHDKY 349
K+P G+EP+ ++HI + G +V AE T+ S +EQ + L +++
Sbjct: 301 DKVPNGIEPMLKDLEEHIISAGLADMVAAAETITTD----SEKYREQ-----LDTLFNRF 351
Query: 350 MEYVTNCFINHTLFHKALKEAFEIFCNKAV 379
+ V F + F A +A++ N A
Sbjct: 352 SKLVKEAFQDDPRFLTARDKAYKAVVNDAT 381
>pdb|2DO7|A Chain A, Solution Structure Of The Winged Helix-Turn-Helix Motif Of
Human Cul-4b
Length = 101
Score = 89.7 bits (221), Expect = 5e-18, Method: Compositional matrix adjust.
Identities = 47/84 (55%), Positives = 57/84 (67%), Gaps = 2/84 (2%)
Query: 655 VDERKKIVEDVDKDRRYAIDAALVRIMKSRKVLGHQQLVSECVEQLSRMFKPDIKAIKKR 714
V+E+ E V +DR+Y IDAA+VRIMK RK L H LVSE QL KP +KKR
Sbjct: 14 VEEQASTTERVFQDRQYQIDAAIVRIMKMRKTLSHNLLVSEVYNQLKFPVKP--ADLKKR 71
Query: 715 MEDLITRDYLERDKENPNMFRYLA 738
+E LI RDY+ERDKENPN + Y+A
Sbjct: 72 IESLIDRDYMERDKENPNQYNYIA 95
>pdb|1IUY|A Chain A, Solution Structure Of The Cullin-3 Homologue
Length = 92
Score = 76.3 bits (186), Expect = 6e-14, Method: Compositional matrix adjust.
Identities = 40/82 (48%), Positives = 55/82 (67%)
Query: 657 ERKKIVEDVDKDRRYAIDAALVRIMKSRKVLGHQQLVSECVEQLSRMFKPDIKAIKKRME 716
ERK+ + VD DR++ I+AA+VRIMKSRK + H LV+E +QL F P IKKR+E
Sbjct: 11 ERKETRQKVDDDRKHEIEAAIVRIMKSRKKMQHNVLVAEVTQQLKARFLPSPVVIKKRIE 70
Query: 717 DLITRDYLERDKENPNMFRYLA 738
LI R+YL R E+ ++ Y+A
Sbjct: 71 GLIEREYLARTPEDRKVYTYVA 92
>pdb|3TDU|C Chain C, N-Terminal Acetylation Acts As An Avidity Enhancer Within
An Interconnected Multiprotein Complex: Structure Of A
Human Cul1whb- Dcn1p-Acetylated Ubc12n Complex
pdb|3TDU|D Chain D, N-Terminal Acetylation Acts As An Avidity Enhancer Within
An Interconnected Multiprotein Complex: Structure Of A
Human Cul1whb- Dcn1p-Acetylated Ubc12n Complex
pdb|3TDZ|C Chain C, N-Terminal Acetylation Acts As An Avidity Enhancer Within
An Interconnected Multiprotein Complex: Structure Of A
Human Cul1whb- Dcn1p-Stapled Acetylated Ubc12n Complex
pdb|3TDZ|D Chain D, N-Terminal Acetylation Acts As An Avidity Enhancer Within
An Interconnected Multiprotein Complex: Structure Of A
Human Cul1whb- Dcn1p-Stapled Acetylated Ubc12n Complex
Length = 77
Score = 73.2 bits (178), Expect = 5e-13, Method: Compositional matrix adjust.
Identities = 37/75 (49%), Positives = 52/75 (69%)
Query: 664 DVDKDRRYAIDAALVRIMKSRKVLGHQQLVSECVEQLSRMFKPDIKAIKKRMEDLITRDY 723
++++DR+ I AA+VRIMK RKVL HQQL+ E + QLS FKP + IKK ++ LI ++Y
Sbjct: 3 NIEEDRKLLIQAAIVRIMKMRKVLKHQQLLGEVLTQLSSRFKPRVPVIKKCIDILIEKEY 62
Query: 724 LERDKENPNMFRYLA 738
LER + + YLA
Sbjct: 63 LERVDGEKDTYSYLA 77
>pdb|3O2P|E Chain E, A Dual E3 Mechanism For Rub1 Ligation To Cdc53:
Dcn1(P)-Cdc53(Whb)
Length = 88
Score = 53.9 bits (128), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 26/82 (31%), Positives = 53/82 (64%), Gaps = 1/82 (1%)
Query: 657 ERKKIVEDVDKDRRYAIDAALVRIMKSRKVLGHQQLVSECVEQLSRMFKPDIKAIKKRME 716
E ++I ++++ +R+ ++A +VRIMK+++ L H LV+EC+ Q + F + +K+ ++
Sbjct: 8 EDERIEKELNTERQIFLEACIVRIMKAKRNLPHTTLVNECIAQSHQRFNAKVSMVKRAID 67
Query: 717 DLITRDYLERDKENPNMFRYLA 738
LI + YL+R + + + YLA
Sbjct: 68 SLIQKGYLQRGDDGES-YAYLA 88
>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 = 52.8 bits (125), Expect = 7e-07, Method: Compositional matrix adjust.
Identities = 24/75 (32%), Positives = 48/75 (64%), Gaps = 1/75 (1%)
Query: 664 DVDKDRRYAIDAALVRIMKSRKVLGHQQLVSECVEQLSRMFKPDIKAIKKRMEDLITRDY 723
+++ +R+ ++A +VRIMK+++ L H LV+EC+ Q + F + +K+ ++ LI + Y
Sbjct: 3 ELNTERQIFLEACIVRIMKAKRNLPHTTLVNECIAQSHQRFNAKVSMVKRAIDSLIQKGY 62
Query: 724 LERDKENPNMFRYLA 738
L+R + + + YLA
Sbjct: 63 LQRGDDGES-YAYLA 76
>pdb|2D6F|C Chain C, Crystal Structure Of Glu-Trna(Gln) Amidotransferase In The
Complex With Trna(Gln)
pdb|2D6F|D Chain D, Crystal Structure Of Glu-Trna(Gln) Amidotransferase In The
Complex With Trna(Gln)
Length = 619
Score = 32.0 bits (71), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 51/203 (25%), Positives = 82/203 (40%), Gaps = 22/203 (10%)
Query: 22 LKRILEGLPESPFSSEEYMMLYTTIYNMCTQKPPHDYSQQLYDKYKQAFEEYISSMVLPS 81
L+ I LPE P +E +M Y + + L D+++ E + + V+ S
Sbjct: 436 LEGIRRNLPELPSEKKERIM---RDYGLSEDLASQLVKRNLVDEFEALTEFRVDTTVIAS 492
Query: 82 LSEKHDEYMLRELVKRWANHKVMVRWLSRFFHYLDRYFIARRSLPALNEVGLTCFREQVY 141
L Y LREL R H V L + + + S AL ++ + C ++
Sbjct: 493 LLA----YTLREL--RREGHDVDGLGLDELRDAIKLLEVGKISKDALRDI-VACMADEGL 545
Query: 142 DALKNKAKDAIIALIDKEREGEQIDRALLKNVLDIFVEIGMGQMDSYEKDFEEHMLQDTG 201
A ++ A+ + L+ E E E I + +++ LD+ E GMG M M Q G
Sbjct: 546 -AAEDAARKLNLLLL-AEDEIESIIQEIVEGNLDMISERGMGAMGPL-------MGQAMG 596
Query: 202 AYYSR---KASNWILEDSCPEYM 221
R K N IL + E +
Sbjct: 597 RLRGRADGKVVNRILREKIQERL 619
>pdb|3ODM|A Chain A, Archaeal-Type Phosphoenolpyruvate Carboxylase
pdb|3ODM|B Chain B, Archaeal-Type Phosphoenolpyruvate Carboxylase
pdb|3ODM|C Chain C, Archaeal-Type Phosphoenolpyruvate Carboxylase
pdb|3ODM|D Chain D, Archaeal-Type Phosphoenolpyruvate Carboxylase
pdb|3ODM|E Chain E, Archaeal-Type Phosphoenolpyruvate Carboxylase
pdb|3ODM|F Chain F, Archaeal-Type Phosphoenolpyruvate Carboxylase
pdb|3ODM|G Chain G, Archaeal-Type Phosphoenolpyruvate Carboxylase
pdb|3ODM|H Chain H, Archaeal-Type Phosphoenolpyruvate Carboxylase
Length = 560
Score = 30.8 bits (68), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 19/76 (25%), Positives = 34/76 (44%), Gaps = 1/76 (1%)
Query: 523 NLPSEMVKCVEVFKGFYETKTKHR-KLTWIYSLGQCNINGKFEQKNIELIVSTYQAATLL 581
L S ++ + G Y+ KH ++ I G G F ++NI+ I++TY
Sbjct: 231 GLISGVLSVLMAVDGAYKWGEKHGVTISPILGCGSLPFRGHFSEENIDEILATYSGIKTF 290
Query: 582 LFNTSDRLSYSEIMTQ 597
F ++ R + E T+
Sbjct: 291 TFQSALRYDHGEEATK 306
>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 = 30.0 bits (66), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 31/113 (27%), Positives = 59/113 (52%), Gaps = 9/113 (7%)
Query: 617 YKILLKEPN--TKTISQSDHFEFNSKFTDRMRRIKIPLPPVDERKKIVEDVDK--DRRYA 672
Y IL K N +K Q+ N++ ++ KIPLPP++E+K+I + + K +
Sbjct: 131 YYILAKNKNYYSKLGMQTTQKNLNAQI---VKSFKIPLPPLEEQKQIAKILTKIDEGIEI 187
Query: 673 IDAALVRIMKSRKVLGHQQLVSECVEQLSRMFKPDIKAIKKRMEDLITRDYLE 725
I+ ++ ++ + +K L H +L+++ + SR K +I I + E +D E
Sbjct: 188 IEKSINKLERIKKGLMH-KLLTKGIGH-SRFKKSEIGEIPEDWEVFEIKDIFE 238
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 0.385
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 21,052,786
Number of Sequences: 62578
Number of extensions: 869724
Number of successful extensions: 2815
Number of sequences better than 100.0: 34
Number of HSP's better than 100.0 without gapping: 23
Number of HSP's successfully gapped in prelim test: 11
Number of HSP's that attempted gapping in prelim test: 2694
Number of HSP's gapped (non-prelim): 37
length of query: 738
length of database: 14,973,337
effective HSP length: 106
effective length of query: 632
effective length of database: 8,340,069
effective search space: 5270923608
effective search space used: 5270923608
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: 55 (25.8 bits)