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= psy2915
(883 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2VGL|B Chain B, Ap2 Clathrin Adaptor Core
pdb|2JKR|B Chain B, Ap2 Clathrin Adaptor Core With Dileucine Peptide Rm(
Phosphos)qikrllse
pdb|2JKR|E Chain E, Ap2 Clathrin Adaptor Core With Dileucine Peptide Rm(
Phosphos)qikrllse
pdb|2JKT|B Chain B, Ap2 Clathrin Adaptor Core With Cd4 Dileucine Peptide Rm(
Phosphos)eikrllse Q To E Mutant
pdb|2JKT|E Chain E, Ap2 Clathrin Adaptor Core With Cd4 Dileucine Peptide Rm(
Phosphos)eikrllse Q To E Mutant
Length = 591
Score = 674 bits (1738), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 334/436 (76%), Positives = 368/436 (84%), Gaps = 50/436 (11%)
Query: 497 VIASMTVGKDVSALFPDVVNCMQTDNLELKKLVYLYLMNYAKSHPDMAIMAVNTFVKDCE 556
VIA+MTVGKDVS+LFPDVVNCMQTDNLELKKLVYLYLMNYAKS PDMAIMAVN+FVKDCE
Sbjct: 37 VIAAMTVGKDVSSLFPDVVNCMQTDNLELKKLVYLYLMNYAKSQPDMAIMAVNSFVKDCE 96
Query: 557 DSNPLIRALAVRTMGCIRVDKITEYLCEPLRKCLKDEDPYVRKTAAVCVAKLYDINAQLV 616
D NPLIRALAVRTMGCIRVDKITEYLCEPLRKCLKDEDPYVRKTAAVCVAKL+DINAQ+V
Sbjct: 97 DPNPLIRALAVRTMGCIRVDKITEYLCEPLRKCLKDEDPYVRKTAAVCVAKLHDINAQMV 156
Query: 617 EDQGFLDQLKDLLSDSNPMVVANAVAALSEMNEASTSGVALIEMNAQTINKLLTALNECT 676
EDQGFLD L+DL++DSNPMVVANAVAALSE++E+ + L+++N Q INKLLTALNECT
Sbjct: 157 EDQGFLDSLRDLIADSNPMVVANAVAALSEISESHPNS-NLLDLNPQNINKLLTALNECT 215
Query: 677 EWGQVFILDSLSNYSPKDDREAQSICERITPRLAHANAAVVLSAVKVLMKLMEMLPGEGD 736
EWGQ+FILD LSNY+PKDDREAQSICER+TPRL+HAN+AVVLSAVKVLMK +E+LP + D
Sbjct: 216 EWGQIFILDCLSNYNPKDDREAQSICERVTPRLSHANSAVVLSAVKVLMKFLELLPKDSD 275
Query: 737 FVSTLTKKLAPPLVTLLSSEPEVQYVALRNINLIVQKRPDILKHEMKVFFVKYNDPIYVK 796
+ + L KKLAPPLVTLLS EPEVQYVALRNINLIVQKRP+ILK E+KVFFVKYNDPIYVK
Sbjct: 276 YYNMLLKKLAPPLVTLLSGEPEVQYVALRNINLIVQKRPEILKQEIKVFFVKYNDPIYVK 335
Query: 797 LEKLDIMIRLASQANIAQ------------------------------------------ 814
LEKLDIMIRLASQANIAQ
Sbjct: 336 LEKLDIMIRLASQANIAQVLAELKEYATEVDVDFVRKAVRAIGRCAIKVEQSAERCVSTL 395
Query: 815 -------VNYVVQEAIVVIKDIFRKYPNKYETIISTLCENLDTLDEPEARASMIWIIGEY 867
VNYVVQEAIVVI+DIFRKYPNKYE+II+TLCENLD+LDEP+ARA+MIWI+GEY
Sbjct: 396 LDLIQTKVNYVVQEAIVVIRDIFRKYPNKYESIIATLCENLDSLDEPDARAAMIWIVGEY 455
Query: 868 AERIDNADELLESFLE 883
AERIDNADELLESFLE
Sbjct: 456 AERIDNADELLESFLE 471
Score = 631 bits (1628), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 351/563 (62%), Positives = 375/563 (66%), Gaps = 111/563 (19%)
Query: 1 MTDSKYFTTTKKGEIFELKGELNSDXXXXXXXXXXXXIASMTVGKDVSALFPDVVNCMQT 60
MTDSKYFTT KKGEIFELK ELN++ IA+MTVGKDVS+LFPDVVNCMQT
Sbjct: 1 MTDSKYFTTNKKGEIFELKAELNNEKKEKRKEAVKKVIAAMTVGKDVSSLFPDVVNCMQT 60
Query: 61 DNLELKKLVYLYLMNYAKSHPDMAIMAFSTFFYQKSSSSFQCMIDIRSIPLFDLCSSVGV 120
DNLELKKLVYLYLMNYAKS PDMAIMA V
Sbjct: 61 DNLELKKLVYLYLMNYAKSQPDMAIMA------------------------------VNS 90
Query: 121 FVKDCEDSNPLIRALAVRTMGCIRVDKITEYLCEPLRKCLKDEDPYVRKTAAVCVAKLYD 180
FVKDCED NPLIRALAVRTMGCIRVDKITEYLCEPLRKCLKDEDPYVRKTAAVCVAKL+D
Sbjct: 91 FVKDCEDPNPLIRALAVRTMGCIRVDKITEYLCEPLRKCLKDEDPYVRKTAAVCVAKLHD 150
Query: 181 INAQLVEDQGFLDQLKDLLSDSNPMXXXXXXXXXXXXPRKSYWQRNLSSRKKQICWNLPY 240
INAQ+VEDQGFLD L+DL++DSNPM +S+ NL Q L
Sbjct: 151 INAQMVEDQGFLDSLRDLIADSNPMVVANAVAALSEI-SESHPNSNLLDLNPQNINKLLT 209
Query: 241 LMN----LSVIYPAWPLSTINPH------------TPXXXXXXXXXXXX----------- 273
+N I+ LS NP TP
Sbjct: 210 ALNECTEWGQIFILDCLSNYNPKDDREAQSICERVTPRLSHANSAVVLSAVKVLMKFLEL 269
Query: 274 -PGEGDFVSTLTKKLAPPLVTLLSSEPEVQYVALRNINLIVQKRPDILKHEMKVFFVKYN 332
P + D+ + L KKLAPPLVTLLS EPEVQYVALRNINLIVQKRP+ILK E+KVFFVKYN
Sbjct: 270 LPKDSDYYNMLLKKLAPPLVTLLSGEPEVQYVALRNINLIVQKRPEILKQEIKVFFVKYN 329
Query: 333 DPIYVKLEKLDIMIRLASQANIAQVLSELKEYATEVDVDFVRKAVRAIGRCAIKVEQSAE 392
DPIYVKLEKLDIMIRLASQANIAQVL+ELKEYATEVDVDFVRKAVRAIGRCAIKVEQSAE
Sbjct: 330 DPIYVKLEKLDIMIRLASQANIAQVLAELKEYATEVDVDFVRKAVRAIGRCAIKVEQSAE 389
Query: 393 RCVSTLLDLIQTK----------------------------------------------- 405
RCVSTLLDLIQTK
Sbjct: 390 RCVSTLLDLIQTKVNYVVQEAIVVIRDIFRKYPNKYESIIATLCENLDSLDEPDARAAMI 449
Query: 406 -----YAERIDNADELLESFLEGFHDENTQVQLQLLTAIVKLFLKRPTDTQELVQQVLSL 460
YAERIDNADELLESFLEGFHDE+TQVQL LLTAIVKLFLK+P++TQELVQQVLSL
Sbjct: 450 WIVGEYAERIDNADELLESFLEGFHDESTQVQLTLLTAIVKLFLKKPSETQELVQQVLSL 509
Query: 461 ATQDSDNPDLRDRGFIYWRLLST 483
ATQDSDNPDLRDRG+IYWRLLST
Sbjct: 510 ATQDSDNPDLRDRGYIYWRLLST 532
>pdb|2XA7|B Chain B, Ap2 Clathrin Adaptor Core In Active Complex With Cargo
Peptides
Length = 592
Score = 674 bits (1738), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 334/436 (76%), Positives = 368/436 (84%), Gaps = 50/436 (11%)
Query: 497 VIASMTVGKDVSALFPDVVNCMQTDNLELKKLVYLYLMNYAKSHPDMAIMAVNTFVKDCE 556
VIA+MTVGKDVS+LFPDVVNCMQTDNLELKKLVYLYLMNYAKS PDMAIMAVN+FVKDCE
Sbjct: 37 VIAAMTVGKDVSSLFPDVVNCMQTDNLELKKLVYLYLMNYAKSQPDMAIMAVNSFVKDCE 96
Query: 557 DSNPLIRALAVRTMGCIRVDKITEYLCEPLRKCLKDEDPYVRKTAAVCVAKLYDINAQLV 616
D NPLIRALAVRTMGCIRVDKITEYLCEPLRKCLKDEDPYVRKTAAVCVAKL+DINAQ+V
Sbjct: 97 DPNPLIRALAVRTMGCIRVDKITEYLCEPLRKCLKDEDPYVRKTAAVCVAKLHDINAQMV 156
Query: 617 EDQGFLDQLKDLLSDSNPMVVANAVAALSEMNEASTSGVALIEMNAQTINKLLTALNECT 676
EDQGFLD L+DL++DSNPMVVANAVAALSE++E+ + L+++N Q INKLLTALNECT
Sbjct: 157 EDQGFLDSLRDLIADSNPMVVANAVAALSEISESHPNS-NLLDLNPQNINKLLTALNECT 215
Query: 677 EWGQVFILDSLSNYSPKDDREAQSICERITPRLAHANAAVVLSAVKVLMKLMEMLPGEGD 736
EWGQ+FILD LSNY+PKDDREAQSICER+TPRL+HAN+AVVLSAVKVLMK +E+LP + D
Sbjct: 216 EWGQIFILDCLSNYNPKDDREAQSICERVTPRLSHANSAVVLSAVKVLMKFLELLPKDSD 275
Query: 737 FVSTLTKKLAPPLVTLLSSEPEVQYVALRNINLIVQKRPDILKHEMKVFFVKYNDPIYVK 796
+ + L KKLAPPLVTLLS EPEVQYVALRNINLIVQKRP+ILK E+KVFFVKYNDPIYVK
Sbjct: 276 YYNMLLKKLAPPLVTLLSGEPEVQYVALRNINLIVQKRPEILKQEIKVFFVKYNDPIYVK 335
Query: 797 LEKLDIMIRLASQANIAQ------------------------------------------ 814
LEKLDIMIRLASQANIAQ
Sbjct: 336 LEKLDIMIRLASQANIAQVLAELKEYATEVDVDFVRKAVRAIGRCAIKVEQSAERCVSTL 395
Query: 815 -------VNYVVQEAIVVIKDIFRKYPNKYETIISTLCENLDTLDEPEARASMIWIIGEY 867
VNYVVQEAIVVI+DIFRKYPNKYE+II+TLCENLD+LDEP+ARA+MIWI+GEY
Sbjct: 396 LDLIQTKVNYVVQEAIVVIRDIFRKYPNKYESIIATLCENLDSLDEPDARAAMIWIVGEY 455
Query: 868 AERIDNADELLESFLE 883
AERIDNADELLESFLE
Sbjct: 456 AERIDNADELLESFLE 471
Score = 631 bits (1628), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 351/563 (62%), Positives = 375/563 (66%), Gaps = 111/563 (19%)
Query: 1 MTDSKYFTTTKKGEIFELKGELNSDXXXXXXXXXXXXIASMTVGKDVSALFPDVVNCMQT 60
MTDSKYFTT KKGEIFELK ELN++ IA+MTVGKDVS+LFPDVVNCMQT
Sbjct: 1 MTDSKYFTTNKKGEIFELKAELNNEKKEKRKEAVKKVIAAMTVGKDVSSLFPDVVNCMQT 60
Query: 61 DNLELKKLVYLYLMNYAKSHPDMAIMAFSTFFYQKSSSSFQCMIDIRSIPLFDLCSSVGV 120
DNLELKKLVYLYLMNYAKS PDMAIMA V
Sbjct: 61 DNLELKKLVYLYLMNYAKSQPDMAIMA------------------------------VNS 90
Query: 121 FVKDCEDSNPLIRALAVRTMGCIRVDKITEYLCEPLRKCLKDEDPYVRKTAAVCVAKLYD 180
FVKDCED NPLIRALAVRTMGCIRVDKITEYLCEPLRKCLKDEDPYVRKTAAVCVAKL+D
Sbjct: 91 FVKDCEDPNPLIRALAVRTMGCIRVDKITEYLCEPLRKCLKDEDPYVRKTAAVCVAKLHD 150
Query: 181 INAQLVEDQGFLDQLKDLLSDSNPMXXXXXXXXXXXXPRKSYWQRNLSSRKKQICWNLPY 240
INAQ+VEDQGFLD L+DL++DSNPM +S+ NL Q L
Sbjct: 151 INAQMVEDQGFLDSLRDLIADSNPMVVANAVAALSEI-SESHPNSNLLDLNPQNINKLLT 209
Query: 241 LMN----LSVIYPAWPLSTINPH------------TPXXXXXXXXXXXX----------- 273
+N I+ LS NP TP
Sbjct: 210 ALNECTEWGQIFILDCLSNYNPKDDREAQSICERVTPRLSHANSAVVLSAVKVLMKFLEL 269
Query: 274 -PGEGDFVSTLTKKLAPPLVTLLSSEPEVQYVALRNINLIVQKRPDILKHEMKVFFVKYN 332
P + D+ + L KKLAPPLVTLLS EPEVQYVALRNINLIVQKRP+ILK E+KVFFVKYN
Sbjct: 270 LPKDSDYYNMLLKKLAPPLVTLLSGEPEVQYVALRNINLIVQKRPEILKQEIKVFFVKYN 329
Query: 333 DPIYVKLEKLDIMIRLASQANIAQVLSELKEYATEVDVDFVRKAVRAIGRCAIKVEQSAE 392
DPIYVKLEKLDIMIRLASQANIAQVL+ELKEYATEVDVDFVRKAVRAIGRCAIKVEQSAE
Sbjct: 330 DPIYVKLEKLDIMIRLASQANIAQVLAELKEYATEVDVDFVRKAVRAIGRCAIKVEQSAE 389
Query: 393 RCVSTLLDLIQTK----------------------------------------------- 405
RCVSTLLDLIQTK
Sbjct: 390 RCVSTLLDLIQTKVNYVVQEAIVVIRDIFRKYPNKYESIIATLCENLDSLDEPDARAAMI 449
Query: 406 -----YAERIDNADELLESFLEGFHDENTQVQLQLLTAIVKLFLKRPTDTQELVQQVLSL 460
YAERIDNADELLESFLEGFHDE+TQVQL LLTAIVKLFLK+P++TQELVQQVLSL
Sbjct: 450 WIVGEYAERIDNADELLESFLEGFHDESTQVQLTLLTAIVKLFLKKPSETQELVQQVLSL 509
Query: 461 ATQDSDNPDLRDRGFIYWRLLST 483
ATQDSDNPDLRDRG+IYWRLLST
Sbjct: 510 ATQDSDNPDLRDRGYIYWRLLST 532
>pdb|1W63|B Chain B, Ap1 Clathrin Adaptor Core
pdb|1W63|D Chain D, Ap1 Clathrin Adaptor Core
pdb|1W63|F Chain F, Ap1 Clathrin Adaptor Core
pdb|1W63|H Chain H, Ap1 Clathrin Adaptor Core
pdb|1W63|J Chain J, Ap1 Clathrin Adaptor Core
pdb|1W63|L Chain L, Ap1 Clathrin Adaptor Core
Length = 584
Score = 667 bits (1721), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 336/435 (77%), Positives = 361/435 (82%), Gaps = 50/435 (11%)
Query: 498 IASMTVGKDVSALFPDVVNCMQTDNLELKKLVYLYLMNYAKSHPDMAIMAVNTFVKDCED 557
IASMTVGKDVSALFPDVVNCMQTDNLELKKLVYLYLMNYAKS PDMAIMAVNTFVKDCED
Sbjct: 38 IASMTVGKDVSALFPDVVNCMQTDNLELKKLVYLYLMNYAKSQPDMAIMAVNTFVKDCED 97
Query: 558 SNPLIRALAVRTMGCIRVDKITEYLCEPLRKCLKDEDPYVRKTAAVCVAKLYDINAQLVE 617
NPLIRALAVRTMGCIRVDKITEYLCEPLRKCLKDEDPYVRKTAAVCVAKL+DINAQ+VE
Sbjct: 98 PNPLIRALAVRTMGCIRVDKITEYLCEPLRKCLKDEDPYVRKTAAVCVAKLHDINAQMVE 157
Query: 618 DQGFLDQLKDLLSDSNPMVVANAVAALSEMNEASTSGVALIEMNAQTINKLLTALNECTE 677
DQGFLD LKDL+SDSNPMVVAN VAALSE+ E+ S L+++ AQ+INKLLTALNECTE
Sbjct: 158 DQGFLDTLKDLISDSNPMVVANRVAALSEIAESHPSS-NLLDLKAQSINKLLTALNECTE 216
Query: 678 WGQVFILDSLSNYSPKDDREAQSICERITPRLAHANAAVVLSAVKVLMKLMEMLPGEGDF 737
W Q+FILD L NY PKDDREAQSICER+TPRL+HAN+AVVLSAVKVLMK MEML + D+
Sbjct: 217 WAQIFILDCLGNYMPKDDREAQSICERVTPRLSHANSAVVLSAVKVLMKFMEMLSKDLDY 276
Query: 738 VSTLTKKLAPPLVTLLSSEPEVQYVALRNINLIVQKRPDILKHEMKVFFVKYNDPIYVKL 797
+TL KKLAPPLVTLLS+EPE QYV LRNINLIVQKRP+ILKHEMKVFFVKYNDPIYVKL
Sbjct: 277 YATLLKKLAPPLVTLLSAEPEPQYVPLRNINLIVQKRPEILKHEMKVFFVKYNDPIYVKL 336
Query: 798 EKLDIMIRLASQANIAQ------------------------------------------- 814
EKLDIMIRLASQANIAQ
Sbjct: 337 EKLDIMIRLASQANIAQVLAELKEYATEVDVDFVRKAVRAIGRCAIKVEQSAERCVSTLL 396
Query: 815 ------VNYVVQEAIVVIKDIFRKYPNKYETIISTLCENLDTLDEPEARASMIWIIGEYA 868
VNYVVQEAIVVIKDIFRKYPNKYE++I+TLCENLD+ DEPEARA+MIWI+GEYA
Sbjct: 397 DLIQTKVNYVVQEAIVVIKDIFRKYPNKYESVIATLCENLDSDDEPEARAAMIWIVGEYA 456
Query: 869 ERIDNADELLESFLE 883
ER DNADELLESFL+
Sbjct: 457 ERSDNADELLESFLD 471
Score = 364 bits (934), Expect = e-100, Method: Compositional matrix adjust.
Identities = 191/258 (74%), Positives = 201/258 (77%), Gaps = 52/258 (20%)
Query: 278 DFVSTLTKKLAPPLVTLLSSEPEVQYVALRNINLIVQKRPDILKHEMKVFFVKYNDPIYV 337
D+ +TL KKLAPPLVTLLS+EPE QYV LRNINLIVQKRP+ILKHEMKVFFVKYNDPIYV
Sbjct: 275 DYYATLLKKLAPPLVTLLSAEPEPQYVPLRNINLIVQKRPEILKHEMKVFFVKYNDPIYV 334
Query: 338 KLEKLDIMIRLASQANIAQVLSELKEYATEVDVDFVRKAVRAIGRCAIKVEQSAERCVST 397
KLEKLDIMIRLASQANIAQVL+ELKEYATEVDVDFVRKAVRAIGRCAIKVEQSAERCVST
Sbjct: 335 KLEKLDIMIRLASQANIAQVLAELKEYATEVDVDFVRKAVRAIGRCAIKVEQSAERCVST 394
Query: 398 LLDLIQTK---------------------------------------------------- 405
LLDLIQTK
Sbjct: 395 LLDLIQTKVNYVVQEAIVVIKDIFRKYPNKYESVIATLCENLDSDDEPEARAAMIWIVGE 454
Query: 406 YAERIDNADELLESFLEGFHDENTQVQLQLLTAIVKLFLKRPTDTQELVQQVLSLATQDS 465
YAER DNADELLESFL+GFHDE+TQVQLQLLTAIVKLFLK+PT+TQELVQQVLSLATQDS
Sbjct: 455 YAERSDNADELLESFLDGFHDESTQVQLQLLTAIVKLFLKKPTETQELVQQVLSLATQDS 514
Query: 466 DNPDLRDRGFIYWRLLST 483
DNPDLRDRG+IYWRLLST
Sbjct: 515 DNPDLRDRGYIYWRLLST 532
Score = 303 bits (777), Expect = 2e-82, Method: Compositional matrix adjust.
Identities = 154/205 (75%), Positives = 158/205 (77%), Gaps = 30/205 (14%)
Query: 1 MTDSKYFTTTKKGEIFELKGELNSDXXXXXXXXXXXXIASMTVGKDVSALFPDVVNCMQT 60
MTDSKYFTTTKKGEIFELK ELNSD IASMTVGKDVSALFPDVVNCMQT
Sbjct: 1 MTDSKYFTTTKKGEIFELKAELNSDKKEKKKEAVKKVIASMTVGKDVSALFPDVVNCMQT 60
Query: 61 DNLELKKLVYLYLMNYAKSHPDMAIMAFSTFFYQKSSSSFQCMIDIRSIPLFDLCSSVGV 120
DNLELKKLVYLYLMNYAKS PDMAIMA +TF
Sbjct: 61 DNLELKKLVYLYLMNYAKSQPDMAIMAVNTF----------------------------- 91
Query: 121 FVKDCEDSNPLIRALAVRTMGCIRVDKITEYLCEPLRKCLKDEDPYVRKTAAVCVAKLYD 180
VKDCED NPLIRALAVRTMGCIRVDKITEYLCEPLRKCLKDEDPYVRKTAAVCVAKL+D
Sbjct: 92 -VKDCEDPNPLIRALAVRTMGCIRVDKITEYLCEPLRKCLKDEDPYVRKTAAVCVAKLHD 150
Query: 181 INAQLVEDQGFLDQLKDLLSDSNPM 205
INAQ+VEDQGFLD LKDL+SDSNPM
Sbjct: 151 INAQMVEDQGFLDTLKDLISDSNPM 175
>pdb|1W63|A Chain A, Ap1 Clathrin Adaptor Core
pdb|1W63|C Chain C, Ap1 Clathrin Adaptor Core
pdb|1W63|E Chain E, Ap1 Clathrin Adaptor Core
pdb|1W63|G Chain G, Ap1 Clathrin Adaptor Core
pdb|1W63|I Chain I, Ap1 Clathrin Adaptor Core
pdb|1W63|K Chain K, Ap1 Clathrin Adaptor Core
Length = 618
Score = 58.9 bits (141), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 51/172 (29%), Positives = 80/172 (46%), Gaps = 19/172 (11%)
Query: 526 KKLVYLYLMNYAKSHPDMAIMAVNTFVKDCEDSNPLIRALAVRTMGCIRVDKITEYLCEP 585
K++ YL M D+ ++ N D S ++ LA+ T+GC+ ++ L
Sbjct: 87 KRIGYLGAMLLLDERQDVHLLMTNCIKNDLNHSTQFVQGLALCTLGCMGSSEMCRDLAGE 146
Query: 586 LRKCLKDEDPYVRKTAAVCVAKLYDINAQLVEDQGFLDQLKDLLSDSNPMVVANAVAALS 645
+ K LK + Y+RK AA+C + +L+E FL K+LL++ N V+ +V L+
Sbjct: 147 VEKLLKTSNSYLRKKAALCAVHVIRKVPELME--MFLPATKNLLNEKNHGVLHTSVVLLT 204
Query: 646 EMNEASTSGVALIEMNAQTINKLLTALNECTEWGQVFILDSL--SNYSPKDD 695
EM E S +A KL+ L V IL +L S YSP+ D
Sbjct: 205 EMCERSPDMLA-------HFRKLVPQL--------VRILKNLIMSGYSPEHD 241
Score = 44.3 bits (103), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 36/144 (25%), Positives = 64/144 (44%), Gaps = 15/144 (10%)
Query: 67 KLVYLYLMNYAKSHPDMAIMAF--STFFYQKSSSSFQCMIDIRSIPLFDLCSSVGVFVKD 124
KL+Y++++ Y + + S F K M+ L D V + + +
Sbjct: 57 KLLYMHMLGYPAHFGQLECLKLIASQKFTDKRIGYLGAML------LLDERQDVHLLMTN 110
Query: 125 C-----EDSNPLIRALAVRTMGCIRVDKITEYLCEPLRKCLKDEDPYVRKTAAVCVAKLY 179
C S ++ LA+ T+GC+ ++ L + K LK + Y+RK AA+C +
Sbjct: 111 CIKNDLNHSTQFVQGLALCTLGCMGSSEMCRDLAGEVEKLLKTSNSYLRKKAALCAVHVI 170
Query: 180 DINAQLVEDQGFLDQLKDLLSDSN 203
+L+E FL K+LL++ N
Sbjct: 171 RKVPELME--MFLPATKNLLNEKN 192
>pdb|2VGL|A Chain A, Ap2 Clathrin Adaptor Core
pdb|2XA7|A Chain A, Ap2 Clathrin Adaptor Core In Active Complex With Cargo
Peptides
Length = 621
Score = 46.6 bits (109), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 47/206 (22%), Positives = 89/206 (43%), Gaps = 13/206 (6%)
Query: 503 VGKDVSALFPDVVNCMQTDNLELKKLVYLYLMNYAKSHPDMAIMAVNTFVKDCEDSNPLI 562
+G D+ + VN + ++ K++ YL++ S+ ++ + N D NP
Sbjct: 68 LGHDIDFGHMEAVNLLSSNRYTEKQIGYLFISVLVNSNSELIRLINNAIKNDLASRNPTF 127
Query: 563 RALAVRTMGCIRVDKITEYLCEPLRKCLKDEDPY--VRKTAAVCVAKLYDINAQLVEDQG 620
LA+ + + ++ E + K L D V+++AA+C+ +LY + LV
Sbjct: 128 MGLALHCIANVGSREMAEAFAGEIPKILVAGDTMDSVKQSAALCLLRLYRTSPDLVPMGD 187
Query: 621 FLDQLKDLLSDSNPMVVANA---VAALSEMN--EASTSGVALIEMNAQTINKLLTALNEC 675
+ ++ LL+D + VV A + L++ N E TS + ++ + T L +
Sbjct: 188 WTSRVVHLLNDQHLGVVTAATSLITTLAQKNPEEFKTSVSLAVSRLSRIVTSASTDLQDY 247
Query: 676 T------EWGQVFILDSLSNYSPKDD 695
T W V +L L Y P +D
Sbjct: 248 TYYFVPAPWLSVKLLRLLQCYPPPED 273
Score = 29.3 bits (64), Expect = 9.2, Method: Compositional matrix adjust.
Identities = 20/82 (24%), Positives = 38/82 (46%), Gaps = 2/82 (2%)
Query: 124 DCEDSNPLIRALAVRTMGCIRVDKITEYLCEPLRKCLKDEDPY--VRKTAAVCVAKLYDI 181
D NP LA+ + + ++ E + K L D V+++AA+C+ +LY
Sbjct: 119 DLASRNPTFMGLALHCIANVGSREMAEAFAGEIPKILVAGDTMDSVKQSAALCLLRLYRT 178
Query: 182 NAQLVEDQGFLDQLKDLLSDSN 203
+ LV + ++ LL+D +
Sbjct: 179 SPDLVPMGDWTSRVVHLLNDQH 200
>pdb|2JKR|A Chain A, Ap2 Clathrin Adaptor Core With Dileucine Peptide Rm(
Phosphos)qikrllse
pdb|2JKR|L Chain L, Ap2 Clathrin Adaptor Core With Dileucine Peptide Rm(
Phosphos)qikrllse
pdb|2JKT|A Chain A, Ap2 Clathrin Adaptor Core With Cd4 Dileucine Peptide Rm(
Phosphos)eikrllse Q To E Mutant
pdb|2JKT|L Chain L, Ap2 Clathrin Adaptor Core With Cd4 Dileucine Peptide Rm(
Phosphos)eikrllse Q To E Mutant
Length = 623
Score = 46.6 bits (109), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 47/206 (22%), Positives = 89/206 (43%), Gaps = 13/206 (6%)
Query: 503 VGKDVSALFPDVVNCMQTDNLELKKLVYLYLMNYAKSHPDMAIMAVNTFVKDCEDSNPLI 562
+G D+ + VN + ++ K++ YL++ S+ ++ + N D NP
Sbjct: 68 LGHDIDFGHMEAVNLLSSNRYTEKQIGYLFISVLVNSNSELIRLINNAIKNDLASRNPTF 127
Query: 563 RALAVRTMGCIRVDKITEYLCEPLRKCLKDEDPY--VRKTAAVCVAKLYDINAQLVEDQG 620
LA+ + + ++ E + K L D V+++AA+C+ +LY + LV
Sbjct: 128 MGLALHCIANVGSREMAEAFAGEIPKILVAGDTMDSVKQSAALCLLRLYRTSPDLVPMGD 187
Query: 621 FLDQLKDLLSDSNPMVVANA---VAALSEMN--EASTSGVALIEMNAQTINKLLTALNEC 675
+ ++ LL+D + VV A + L++ N E TS + ++ + T L +
Sbjct: 188 WTSRVVHLLNDQHLGVVTAATSLITTLAQKNPEEFKTSVSLAVSRLSRIVTSASTDLQDY 247
Query: 676 T------EWGQVFILDSLSNYSPKDD 695
T W V +L L Y P +D
Sbjct: 248 TYYFVPAPWLSVKLLRLLQCYPPPED 273
Score = 29.3 bits (64), Expect = 9.0, Method: Compositional matrix adjust.
Identities = 20/82 (24%), Positives = 38/82 (46%), Gaps = 2/82 (2%)
Query: 124 DCEDSNPLIRALAVRTMGCIRVDKITEYLCEPLRKCLKDEDPY--VRKTAAVCVAKLYDI 181
D NP LA+ + + ++ E + K L D V+++AA+C+ +LY
Sbjct: 119 DLASRNPTFMGLALHCIANVGSREMAEAFAGEIPKILVAGDTMDSVKQSAALCLLRLYRT 178
Query: 182 NAQLVEDQGFLDQLKDLLSDSN 203
+ LV + ++ LL+D +
Sbjct: 179 SPDLVPMGDWTSRVVHLLNDQH 200
>pdb|3LTM|A Chain A, Structure Of A New Family Of Artificial Alpha Helicoidal
Repeat Proteins (Alpha-Rep) Based On Thermostable
Heat-Like Repeats
pdb|3LTM|B Chain B, Structure Of A New Family Of Artificial Alpha Helicoidal
Repeat Proteins (Alpha-Rep) Based On Thermostable
Heat-Like Repeats
Length = 211
Score = 42.7 bits (99), Expect = 9e-04, Method: Composition-based stats.
Identities = 33/103 (32%), Positives = 49/103 (47%), Gaps = 12/103 (11%)
Query: 547 AVNTFVKDCEDSNPLIRALAVRTMGCIRVDKITEYLCEPLRKCLKDEDPYVRKTAAVCVA 606
AV +K +D + +R A +G I E EPL K LKDED +VR++AAV +
Sbjct: 51 AVEPLIKALKDEDAWVRRAAADALGQIG----DERAVEPLIKALKDEDGWVRQSAAVALG 106
Query: 607 KLYDINAQLVEDQGFLDQLKDLLSDSNPMVVANAVAALSEMNE 649
++ D A ++ L L D + V A AL E+ +
Sbjct: 107 QIGDERA--------VEPLIKALKDEDWFVRIAAAFALGEIGD 141
Score = 41.2 bits (95), Expect = 0.002, Method: Composition-based stats.
Identities = 35/122 (28%), Positives = 54/122 (44%), Gaps = 21/122 (17%)
Query: 537 AKSHPDMAIMA---------VNTFVKDCEDSNPLIRALAVRTMGCIRVDKITEYLCEPLR 587
A SHP A V ++K+ +D + +R A +G I E EPL
Sbjct: 1 AWSHPQFEKAAAPLRADPEKVEMYIKNLQDDSYYVRRAAAYALGKIG----DERAVEPLI 56
Query: 588 KCLKDEDPYVRKTAAVCVAKLYDINAQLVEDQGFLDQLKDLLSDSNPMVVANAVAALSEM 647
K LKDED +VR+ AA + ++ D A ++ L L D + V +A AL ++
Sbjct: 57 KALKDEDAWVRRAAADALGQIGDERA--------VEPLIKALKDEDGWVRQSAAVALGQI 108
Query: 648 NE 649
+
Sbjct: 109 GD 110
Score = 38.5 bits (88), Expect = 0.015, Method: Composition-based stats.
Identities = 24/67 (35%), Positives = 36/67 (53%), Gaps = 4/67 (5%)
Query: 117 SVGVFVKDCEDSNPLIRALAVRTMGCIRVDKITEYLCEPLRKCLKDEDPYVRKTAAVCVA 176
+V +K +D + +R A +G I E EPL K LKDED +VR++AAV +
Sbjct: 51 AVEPLIKALKDEDAWVRRAAADALGQIG----DERAVEPLIKALKDEDGWVRQSAAVALG 106
Query: 177 KLYDINA 183
++ D A
Sbjct: 107 QIGDERA 113
Score = 38.5 bits (88), Expect = 0.016, Method: Composition-based stats.
Identities = 23/66 (34%), Positives = 36/66 (54%), Gaps = 4/66 (6%)
Query: 118 VGVFVKDCEDSNPLIRALAVRTMGCIRVDKITEYLCEPLRKCLKDEDPYVRKTAAVCVAK 177
V +++K+ +D + +R A +G I E EPL K LKDED +VR+ AA + +
Sbjct: 21 VEMYIKNLQDDSYYVRRAAAYALGKIG----DERAVEPLIKALKDEDAWVRRAAADALGQ 76
Query: 178 LYDINA 183
+ D A
Sbjct: 77 IGDERA 82
Score = 34.7 bits (78), Expect = 0.25, Method: Composition-based stats.
Identities = 24/60 (40%), Positives = 32/60 (53%), Gaps = 6/60 (10%)
Query: 130 PLIRALA-----VRTMGCIRVDKI-TEYLCEPLRKCLKDEDPYVRKTAAVCVAKLYDINA 183
PLI+AL VR + + +I E EPL K LKDED +VR AA + ++ D A
Sbjct: 85 PLIKALKDEDGWVRQSAAVALGQIGDERAVEPLIKALKDEDWFVRIAAAFALGEIGDERA 144
Score = 33.9 bits (76), Expect = 0.40, Method: Composition-based stats.
Identities = 22/49 (44%), Positives = 28/49 (57%), Gaps = 6/49 (12%)
Query: 130 PLIRALA-----VRTMGCIRVDKI-TEYLCEPLRKCLKDEDPYVRKTAA 172
PLI+AL VR + +I E EPL K LKDED +VR++AA
Sbjct: 116 PLIKALKDEDWFVRIAAAFALGEIGDERAVEPLIKALKDEDGWVRQSAA 164
>pdb|3LTJ|A Chain A, Structure Of A New Family Of Artificial Alpha Helicoidal
Repeat Proteins (Alpha-Rep) Based On Thermostable
Heat-Like Repeats
Length = 201
Score = 42.7 bits (99), Expect = 0.001, Method: Composition-based stats.
Identities = 33/103 (32%), Positives = 49/103 (47%), Gaps = 12/103 (11%)
Query: 547 AVNTFVKDCEDSNPLIRALAVRTMGCIRVDKITEYLCEPLRKCLKDEDPYVRKTAAVCVA 606
AV +K +D + +R A +G I E EPL K LKDED +VR++AAV +
Sbjct: 46 AVEPLIKALKDEDAWVRRAAADALGQIG----DERAVEPLIKALKDEDGWVRQSAAVALG 101
Query: 607 KLYDINAQLVEDQGFLDQLKDLLSDSNPMVVANAVAALSEMNE 649
++ D A ++ L L D + V A AL E+ +
Sbjct: 102 QIGDERA--------VEPLIKALKDEDWFVRIAAAFALGEIGD 136
Score = 41.2 bits (95), Expect = 0.003, Method: Composition-based stats.
Identities = 30/102 (29%), Positives = 49/102 (48%), Gaps = 12/102 (11%)
Query: 548 VNTFVKDCEDSNPLIRALAVRTMGCIRVDKITEYLCEPLRKCLKDEDPYVRKTAAVCVAK 607
V ++K+ +D + +R A +G I E EPL K LKDED +VR+ AA + +
Sbjct: 16 VEMYIKNLQDDSYYVRRAAAYALGKIG----DERAVEPLIKALKDEDAWVRRAAADALGQ 71
Query: 608 LYDINAQLVEDQGFLDQLKDLLSDSNPMVVANAVAALSEMNE 649
+ D A ++ L L D + V +A AL ++ +
Sbjct: 72 IGDERA--------VEPLIKALKDEDGWVRQSAAVALGQIGD 105
Score = 38.5 bits (88), Expect = 0.015, Method: Composition-based stats.
Identities = 24/67 (35%), Positives = 36/67 (53%), Gaps = 4/67 (5%)
Query: 117 SVGVFVKDCEDSNPLIRALAVRTMGCIRVDKITEYLCEPLRKCLKDEDPYVRKTAAVCVA 176
+V +K +D + +R A +G I E EPL K LKDED +VR++AAV +
Sbjct: 46 AVEPLIKALKDEDAWVRRAAADALGQIG----DERAVEPLIKALKDEDGWVRQSAAVALG 101
Query: 177 KLYDINA 183
++ D A
Sbjct: 102 QIGDERA 108
Score = 38.5 bits (88), Expect = 0.016, Method: Composition-based stats.
Identities = 23/66 (34%), Positives = 36/66 (54%), Gaps = 4/66 (6%)
Query: 118 VGVFVKDCEDSNPLIRALAVRTMGCIRVDKITEYLCEPLRKCLKDEDPYVRKTAAVCVAK 177
V +++K+ +D + +R A +G I E EPL K LKDED +VR+ AA + +
Sbjct: 16 VEMYIKNLQDDSYYVRRAAAYALGKIG----DERAVEPLIKALKDEDAWVRRAAADALGQ 71
Query: 178 LYDINA 183
+ D A
Sbjct: 72 IGDERA 77
Score = 34.7 bits (78), Expect = 0.25, Method: Composition-based stats.
Identities = 24/60 (40%), Positives = 32/60 (53%), Gaps = 6/60 (10%)
Query: 130 PLIRALA-----VRTMGCIRVDKI-TEYLCEPLRKCLKDEDPYVRKTAAVCVAKLYDINA 183
PLI+AL VR + + +I E EPL K LKDED +VR AA + ++ D A
Sbjct: 80 PLIKALKDEDGWVRQSAAVALGQIGDERAVEPLIKALKDEDWFVRIAAAFALGEIGDERA 139
Score = 33.9 bits (76), Expect = 0.42, Method: Composition-based stats.
Identities = 22/49 (44%), Positives = 28/49 (57%), Gaps = 6/49 (12%)
Query: 130 PLIRALA-----VRTMGCIRVDKI-TEYLCEPLRKCLKDEDPYVRKTAA 172
PLI+AL VR + +I E EPL K LKDED +VR++AA
Sbjct: 111 PLIKALKDEDWFVRIAAAFALGEIGDERAVEPLIKALKDEDGWVRQSAA 159
>pdb|1BBU|A Chain A, Lysyl-Trna Synthetase (Lyss) Complexed With Lysine
pdb|1BBW|A Chain A, Lysyl-Trna Synthetase (Lyss)
Length = 504
Score = 31.6 bits (70), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 43/186 (23%), Positives = 78/186 (41%), Gaps = 24/186 (12%)
Query: 306 LRNINLIVQKRPDILKHEMKVFFVKYNDPIYVKLEKLDIMIRLASQANIAQVLSELKEYA 365
RN + V+ P+ E+ + + Y D I E + + R +Q +L + +
Sbjct: 261 FRNEGISVRHNPEFTMMELYMAYADYKDLI----ELTESLFRTLAQ----DILGKTEVTY 312
Query: 366 TEVDVDFVRKAVRAIGRCAIKVEQSAERCVSTLLDLIQTKYAERIDNADELLESFLEGFH 425
+V +DF + + R AIK R + + DL + D+A + ES G H
Sbjct: 313 GDVTLDFGKPFEKLTMREAIK----KYRPETDMADL------DNFDSAKAIAESI--GIH 360
Query: 426 DENT----QVQLQLLTAIVKLFLKRPTDTQELVQQVLSLATQDSDNPDLRDRGFIYWRLL 481
E + ++ ++ + + L +PT E +V LA ++ NP++ DR +
Sbjct: 361 VEKSWGLGRIVTEIFEEVAEAHLIQPTFITEYPAEVSPLARRNDVNPEITDRFEFFIGGR 420
Query: 482 STGNTF 487
GN F
Sbjct: 421 EIGNGF 426
>pdb|4DB6|A Chain A, Designed Armadillo Repeat Protein (Yiiim3aii)
Length = 210
Score = 29.6 bits (65), Expect = 7.7, Method: Composition-based stats.
Identities = 30/119 (25%), Positives = 52/119 (43%), Gaps = 6/119 (5%)
Query: 614 QLVEDQGFLDQLKDLLSDSNPMVVANAVAALSEMNEASTSGVALIEMNAQTINKLLTALN 673
Q V D G L L LLS N ++ A+ ALS + + + ++A + L+ L+
Sbjct: 90 QAVIDAGALPALVQLLSSPNEQILQEALWALSNIASGGNEQIQAV-IDAGALPALVQLLS 148
Query: 674 ECTEWGQVFILDSLSNYSPKDDREAQSI-----CERITPRLAHANAAVVLSAVKVLMKL 727
E L +LSN + + + Q++ E++ +H N + A + L KL
Sbjct: 149 SPNEQILQEALWALSNIASGGNEQKQAVKEAGALEKLEQLQSHENEKIQKEAQEALEKL 207
>pdb|4DBA|A Chain A, Designed Armadillo Repeat Protein (Yiim3aii)
pdb|4DBA|B Chain B, Designed Armadillo Repeat Protein (Yiim3aii)
pdb|4DBA|C Chain C, Designed Armadillo Repeat Protein (Yiim3aii)
pdb|4DBA|D Chain D, Designed Armadillo Repeat Protein (Yiim3aii)
Length = 210
Score = 29.3 bits (64), Expect = 9.5, Method: Composition-based stats.
Identities = 30/119 (25%), Positives = 52/119 (43%), Gaps = 6/119 (5%)
Query: 614 QLVEDQGFLDQLKDLLSDSNPMVVANAVAALSEMNEASTSGVALIEMNAQTINKLLTALN 673
Q V D G L L LLS N ++ A+ ALS + + + ++A + L+ L+
Sbjct: 90 QAVIDAGALPALVQLLSSPNEQILQEALWALSNIASGGNEQIQAV-IDAGALPALVQLLS 148
Query: 674 ECTEWGQVFILDSLSNYSPKDDREAQSI-----CERITPRLAHANAAVVLSAVKVLMKL 727
E L +LSN + + + Q++ E++ +H N + A + L KL
Sbjct: 149 SPNEQILQEALWALSNIASGGNEQKQAVKEAGALEKLEQLQSHENEKIQKEAQEALEKL 207
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
0.321 0.135 0.388
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 22,444,402
Number of Sequences: 62578
Number of extensions: 831317
Number of successful extensions: 2010
Number of sequences better than 100.0: 21
Number of HSP's better than 100.0 without gapping: 10
Number of HSP's successfully gapped in prelim test: 11
Number of HSP's that attempted gapping in prelim test: 1944
Number of HSP's gapped (non-prelim): 56
length of query: 883
length of database: 14,973,337
effective HSP length: 107
effective length of query: 776
effective length of database: 8,277,491
effective search space: 6423333016
effective search space used: 6423333016
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: 56 (26.2 bits)