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= 014970
(415 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4IKN|A Chain A, Crystal Structure Of Adaptor Protein Complex 3 (ap-3) Mu3a
Subunit C- Terminal Domain, In Complex With A Sorting
Peptide From Tgn38
Length = 261
Score = 218 bits (556), Expect = 4e-57, Method: Compositional matrix adjust.
Identities = 104/254 (40%), Positives = 163/254 (64%), Gaps = 5/254 (1%)
Query: 167 VPWRPTDVKYANNEVYVDLVEEMDAIINRDGVLVKCEIYGEVQVNCLLSGLPDLTLSFAN 226
+PWR VKY NNE Y D+VEE+DAII++ G V EI G + LSG+PDL+LSF N
Sbjct: 8 IPWRRAGVKYTNNEAYFDVVEEIDAIIDKSGSTVFAEIQGVIDACIKLSGMPDLSLSFMN 67
Query: 227 PSILHDVRFHPCVRFRPWESHQILSFVPPDGQFKLMSYRV--KKLKSTPIYVKPQLT-SD 283
P +L DV FHPC+RF+ WES ++LSF+PPDG F+L+SYRV + L + P+YVK ++ +
Sbjct: 68 PRLLDDVSFHPCIRFKRWESERVLSFIPPDGNFRLISYRVSSQNLVAIPVYVKHNISFKE 127
Query: 284 AGTC-RISVMVGIRNDPGKTIDSIILQFQLPPCILSADLTSNHGTVNVLS-NKICTWSIG 341
+C R + +G + + GKTI+ I + +P +L+ +LT G+ K+ W +G
Sbjct: 128 NSSCGRFDITIGPKQNMGKTIEGITVTVHMPKVVLNMNLTPTQGSYTFDPVTKVLAWDVG 187
Query: 342 RIPKDKAPSLSGTMVLETGLETLRVFPTFQVEFRIMGVALSGLQIDKLDLQNVPNRLYKG 401
+I K PSL G + L++G P ++F+I +A+SGL++++LD+ + +KG
Sbjct: 188 KITPQKLPSLKGLVNLQSGAPKPEENPNLNIQFKIQQLAISGLKVNRLDMYGEKYKPFKG 247
Query: 402 FRAVTRAGEYEVRS 415
+ +T+AG+++VR+
Sbjct: 248 VKYITKAGKFQVRT 261
>pdb|1W63|M Chain M, Ap1 Clathrin Adaptor Core
pdb|1W63|N Chain N, Ap1 Clathrin Adaptor Core
pdb|1W63|O Chain O, Ap1 Clathrin Adaptor Core
pdb|1W63|P Chain P, Ap1 Clathrin Adaptor Core
pdb|1W63|R Chain R, Ap1 Clathrin Adaptor Core
pdb|1W63|V Chain V, Ap1 Clathrin Adaptor Core
Length = 423
Score = 168 bits (426), Expect = 5e-42, Method: Compositional matrix adjust.
Identities = 120/436 (27%), Positives = 210/436 (48%), Gaps = 42/436 (9%)
Query: 4 CIFLLADNGAVILEKQLTGHRVDRSICDWFWDHVISQGDSFKSMPVIASPTHYIFQIVRA 63
+++L G V++ + G VD S + F ++ + + P++A I
Sbjct: 5 AVYVLDLKGKVLICRNYRGD-VDMSEVEHFMPILMEKEEEGMLSPILAHGGVRFMWIKHN 63
Query: 64 GITFLACTQVEMPPLMGIEFLCRVADILSDYLGELNEDLIKDNFVIVYELLDEMIDNGFP 123
+ +A ++ + FL +V + S+Y EL E+ I+DNFVI+YELLDE++D G+P
Sbjct: 64 NLYLVATSKKNACVSLVFSFLYKVVQVFSEYFKELEEESIRDNFVIIYELLDELMDFGYP 123
Query: 124 LTTEPNILREMIAPPNIVSKMLSVVTGNSSNVSDILPGATAS-CVPWRPTDVKYANNEVY 182
TT+ IL+E I G+ P AT + V WR +KY NEV+
Sbjct: 124 QTTDSKILQEFITQ-----------EGHKLETGAPRPPATVTNAVSWRSEGIKYRKNEVF 172
Query: 183 VDLVEEMDAIINRDGVLVKCEIYGEVQVNCLLSGLPDLTLSFANPSI------------- 229
+D++E ++ +++ +G +++ EI G +++ LSG+P+L L + +
Sbjct: 173 LDVIEAVNLLVSANGNVLRSEIVGSIKMRVFLSGMPELRLGLNDKVLFDNTGRGKSKSVE 232
Query: 230 LHDVRFHPCVRFRPWESHQILSFVPPDGQFKLMSYRVKKLKSTPIYVKPQLTSDAGTCRI 289
L DV+FH CVR +E+ + +SF+PPDG+F+LMSYR+ I+++ + + + RI
Sbjct: 233 LEDVKFHQCVRLSRFENDRTISFIPPDGEFELMSYRLNTHVKPLIWIESVIEKHSHS-RI 291
Query: 290 SVMVGIRNDPGK--TIDSIILQFQLPPCILSADLTSNHGTVN-VLSNKICTWSIGRIPKD 346
MV ++ + T +++ + +P S + G+V V N WS+ P
Sbjct: 292 EYMVKAKSQFKRRSTANNVEIHIPVPNDADSPKFKTTVGSVKWVPENSEIVWSVKSFPGG 351
Query: 347 KAPSLSGTMVLET-GLETLRVFPTFQVEFRIMGVALSGLQ------IDKLDLQNVPNRLY 399
K + L + E P V+F I SG+Q I+K Q +P
Sbjct: 352 KEYLMRAHFGLPSVEAEDKEGKPPISVKFEIPYFTTSGIQVRYLKIIEKSGYQAIP---- 407
Query: 400 KGFRAVTRAGEYEVRS 415
R +T+ G+Y++R+
Sbjct: 408 -WVRYITQNGDYQLRT 422
>pdb|2BP5|M Chain M, Mu2 Adaptin Subunit (Ap50) Of Ap2 Adaptor (Second Domain),
Complexed With Non-Canonical Internalization Peptide
Vedyeqglsg
pdb|2VGL|M Chain M, Ap2 Clathrin Adaptor Core
pdb|2JKR|M Chain M, Ap2 Clathrin Adaptor Core With Dileucine Peptide Rm(
Phosphos)qikrllse
pdb|2JKR|U Chain U, Ap2 Clathrin Adaptor Core With Dileucine Peptide Rm(
Phosphos)qikrllse
pdb|2JKT|M Chain M, Ap2 Clathrin Adaptor Core With Cd4 Dileucine Peptide Rm(
Phosphos)eikrllse Q To E Mutant
pdb|2JKT|U Chain U, Ap2 Clathrin Adaptor Core With Cd4 Dileucine Peptide Rm(
Phosphos)eikrllse Q To E Mutant
Length = 435
Score = 154 bits (389), Expect = 8e-38, Method: Compositional matrix adjust.
Identities = 112/444 (25%), Positives = 209/444 (47%), Gaps = 40/444 (9%)
Query: 1 MLQCIFLLADNGAVILEKQLTGHRVDRSICDWFWDHVISQGDSFKSMPVIASPTHYIFQI 60
M+ +F+ G V++ + + + R+ D F +VI +S PV F +
Sbjct: 1 MIGGLFIYNHKGEVLISR-VYRDDIGRNAVDAFRVNVIHARQQVRS-PVTNIARTSFFHV 58
Query: 61 VRAGITFLACTQVEMPPLMGIEFLCRVADILSDYLGELNEDLIKDNFVIVYELLDEMIDN 120
R+ I A T+ + M EFL ++ D+++ Y G+++E+ IK+NFV++YELLDE++D
Sbjct: 59 KRSNIWLAAVTKQNVNAAMVFEFLYKMCDVMAAYFGKISEENIKNNFVLIYELLDEILDF 118
Query: 121 GFPLTTEPNILREMIAPPNIVSKMLSVVTGNSSNVSDILPGATASCVPWRPTDVKYANNE 180
G+P +E L+ I I S+ + S ++ + G + WR +KY NE
Sbjct: 119 GYPQNSETGALKTFITQQGIKSQHQT--KEEQSQITSQVTGQ----IGWRREGIKYRRNE 172
Query: 181 VYVDLVEEMDAIINRDGVLVKCEIYGEVQVNCLLSGLPDLTLSFANPSILH--------- 231
+++D++E ++ +++ G ++ + G V + LSG+P+ + ++
Sbjct: 173 LFLDVLESVNLLMSPQGQVLSAHVSGRVVMKSYLSGMPECKFGMNDKIVIEKQGKGTADE 232
Query: 232 ------------DVRFHPCVRFRPWESHQILSFVPPDGQFKLMSYRVKKLKSTPIYVKPQ 279
D FH CVR ++S + +SF+PPDG+F+LM YR K P V P
Sbjct: 233 TSKSGKQSIAIDDCTFHQCVRLSKFDSERSISFIPPDGEFELMRYRTTKDIILPFRVIP- 291
Query: 280 LTSDAGTCRISVMVGIRNDPGKTIDSIILQFQLPPCILSADLT----SNHGTVNVLSNKI 335
L + G ++ V V I+++ ++ + ++ ++P + ++ + N I
Sbjct: 292 LVREVGRTKLEVKVVIKSNFKPSLLAQKIEVRIPTPLNTSGVQVICMKGKAKYKASENAI 351
Query: 336 CTWSIGRIPKDKAPSLSGTM-VLETGLETLRVFP----TFQVEFRIMGVALSGLQIDKLD 390
W I R+ K +S + +L T + P F+V F G+ + L++ +
Sbjct: 352 V-WKIKRMAGMKESQISAEIELLPTNDKKKWARPPISMNFEVPFAPSGLKVRYLKVFEPK 410
Query: 391 LQNVPNRLYKGFRAVTRAGEYEVR 414
L + + K R + R+G YE R
Sbjct: 411 LNYSDHDVIKWVRYIGRSGIYETR 434
>pdb|2XA7|M Chain M, Ap2 Clathrin Adaptor Core In Active Complex With Cargo
Peptides
Length = 446
Score = 150 bits (379), Expect = 1e-36, Method: Compositional matrix adjust.
Identities = 112/455 (24%), Positives = 209/455 (45%), Gaps = 51/455 (11%)
Query: 1 MLQCIFLLADNGAVILEKQLTGHRVDRSICDWFWDHVISQGDSFKSMPVIASPTHYIFQI 60
M+ +F+ G V++ + + + R+ D F +VI +S PV F +
Sbjct: 1 MIGGLFIYNHKGEVLISR-VYRDDIGRNAVDAFRVNVIHARQQVRS-PVTNIARTSFFHV 58
Query: 61 VRAGITFLACTQVEMPPLMGIEFLCRVADILSDYLGELNEDLIKDNFVIVYELLDEMIDN 120
R+ I A T+ + M EFL ++ D+++ Y G+++E+ IK+NFV++YELLDE++D
Sbjct: 59 KRSNIWLAAVTKQNVNAAMVFEFLYKMCDVMAAYFGKISEENIKNNFVLIYELLDEILDF 118
Query: 121 GFPLTTEPNILREMIAPPNIVSKMLSVVTGNSSNVSDILPGATASCVPWRPTDVKYANNE 180
G+P +E L+ I I S+ + S ++ + G + WR +KY NE
Sbjct: 119 GYPQNSETGALKTFITQQGIKSQHQT--KEEQSQITSQVTGQ----IGWRREGIKYRRNE 172
Query: 181 VYVDLVEEMDAIINRDGVLVKCEIYGEVQVNCLLSGLPDLTLSFANPSILH--------- 231
+++D++E ++ +++ G ++ + G V + LSG+P+ + ++
Sbjct: 173 LFLDVLESVNLLMSPQGQVLSAHVSGRVVMKSYLSGMPECKFGMNDKIVIEKQGKGTADE 232
Query: 232 -----------------------DVRFHPCVRFRPWESHQILSFVPPDGQFKLMSYRVKK 268
D FH CVR ++S + +SF+PPDG+F+LM YR K
Sbjct: 233 TSKSMEQKLISEEDLGKQSIAIDDCTFHQCVRLSKFDSERSISFIPPDGEFELMRYRTTK 292
Query: 269 LKSTPIYVKPQLTSDAGTCRISVMVGIRNDPGKTIDSIILQFQLPPCILSADLT----SN 324
P V P L + G ++ V V I+++ ++ + ++ ++P + ++ +
Sbjct: 293 DIILPFRVIP-LVREVGRTKLEVKVVIKSNFKPSLLAQKIEVRIPTPLNTSGVQVICMKG 351
Query: 325 HGTVNVLSNKICTWSIGRIPKDKAPSLSGTM-VLETGLETLRVFP----TFQVEFRIMGV 379
N I W I R+ K +S + +L T + P F+V F G+
Sbjct: 352 KAKYKASENAIV-WKIKRMAGMKESQISAEIELLPTNDKKKWARPPISMNFEVPFAPSGL 410
Query: 380 ALSGLQIDKLDLQNVPNRLYKGFRAVTRAGEYEVR 414
+ L++ + L + + K R + R+G YE R
Sbjct: 411 KVRYLKVFEPKLNYSDHDVIKWVRYIGRSGIYETR 445
>pdb|4EN2|M Chain M, Hiv-1 Nef In Complex With Mhc-I Cytoplasmic Domain And Mu1
Adaptin Subunit Of Ap1 Adaptor (Second Domain)
pdb|4EN2|A Chain A, Hiv-1 Nef In Complex With Mhc-I Cytoplasmic Domain And Mu1
Adaptin Subunit Of Ap1 Adaptor (Second Domain)
Length = 266
Score = 108 bits (271), Expect = 5e-24, Method: Compositional matrix adjust.
Identities = 72/267 (26%), Positives = 133/267 (49%), Gaps = 23/267 (8%)
Query: 169 WRPTDVKYANNEVYVDLVEEMDAIINRDGVLVKCEIYGEVQVNCLLSGLPDLTLSFANPS 228
WR +KY NEV++D++E ++ +++ +G +++ EI G +++ LSG+P+L L +
Sbjct: 2 WRSEGIKYRKNEVFLDVIEAVNLLVSANGNVLRSEIVGSIKMRVFLSGMPELRLGLNDKV 61
Query: 229 I-------------LHDVRFHPCVRFRPWESHQILSFVPPDGQFKLMSYRVKKLKSTPIY 275
+ L DV+FH CVR +E+ + +SF+PPDG+F+LMSYR+ I+
Sbjct: 62 LFDNTGRGKSKSVELEDVKFHQCVRLSRFENDRTISFIPPDGEFELMSYRLNTHVKPLIW 121
Query: 276 VKPQLTSDAGTCRISVMVGIRNDPGK--TIDSIILQFQLPPCILSADLTSNHGTVN-VLS 332
++ + + + RI MV ++ + T +++ + +P S + G+V V
Sbjct: 122 IESVIEKHSHS-RIEYMVKAKSQFKRRSTANNVEIHIPVPNDADSPKFKTTVGSVKWVPE 180
Query: 333 NKICTWSIGRIPKDKAPSLSGTMVLET-GLETLRVFPTFQVEFRIMGVALSGLQIDKLDL 391
N WS+ P K + L + E P V+F I SG+Q+ L +
Sbjct: 181 NSEIVWSVKSFPGGKEYLMRAHFGLPSVEAEDKEGKPPISVKFEIPYFTTSGIQVRYLKI 240
Query: 392 QNVPNRLYKGF---RAVTRAGEYEVRS 415
+ Y+ R +T+ G+Y++R+
Sbjct: 241 --IEKSGYQALPWVRYITQNGDYQLRT 265
>pdb|4EMZ|A Chain A, Hiv-1 Nef In Complex With Mhc-I Cytoplasmic Domain And Mu1
Adaptin Subunit Of Ap1 Adaptor (Second Domain)
pdb|4EMZ|M Chain M, Hiv-1 Nef In Complex With Mhc-I Cytoplasmic Domain And Mu1
Adaptin Subunit Of Ap1 Adaptor (Second Domain)
Length = 266
Score = 100 bits (249), Expect = 1e-21, Method: Compositional matrix adjust.
Identities = 70/267 (26%), Positives = 128/267 (47%), Gaps = 23/267 (8%)
Query: 169 WRPTDVKYANNEVYVDLVEEMDAIINRDGVLVKCEIYGEVQVNCLLSGLPDLTLSFANPS 228
WR +KY NEV++D++E ++ +++ +G +++ EI G ++ LSG P+L L +
Sbjct: 2 WRSEGIKYRKNEVFLDVIEAVNLLVSANGNVLRSEIVGSIKXRVFLSGXPELRLGLNDKV 61
Query: 229 I-------------LHDVRFHPCVRFRPWESHQILSFVPPDGQFKLMSYRVKKLKSTPIY 275
+ L DV+FH CVR +E+ + +SF+PPDG+F+L SYR+ I+
Sbjct: 62 LFDNTGRGKSKSVELEDVKFHQCVRLSRFENDRTISFIPPDGEFELXSYRLNTHVKPLIW 121
Query: 276 VKPQLTSDAGTCRISVMVGIRNDPGK--TIDSIILQFQLPPCILSADLTSNHGTVN-VLS 332
++ + + + RI V ++ + T +++ + +P S + G+V V
Sbjct: 122 IESVIEKHSHS-RIEYXVKAKSQFKRRSTANNVEIHIPVPNDADSPKFKTTVGSVKWVPE 180
Query: 333 NKICTWSIGRIPKDKAPSLSGTMVLET-GLETLRVFPTFQVEFRIMGVALSGLQIDKLDL 391
N WS+ P K L + E P V+F I SG+Q+ L +
Sbjct: 181 NSEIVWSVKSFPGGKEYLXRAHFGLPSVEAEDKEGKPPISVKFEIPYFTTSGIQVRYLKI 240
Query: 392 QNVPNRLYKGF---RAVTRAGEYEVRS 415
+ Y+ R +T+ G+Y++R+
Sbjct: 241 --IEKSGYQALPWVRYITQNGDYQLRT 265
>pdb|2PR9|A Chain A, Mu2 Adaptin Subunit (Ap50) Of Ap2 Adaptor (Second Domain),
Complexed With Gabaa Receptor-Gamma2 Subunit-Derived
Internalization Peptide Deeygyecl
pdb|3H85|A Chain A, Molecular Basis For The Association Of Pipki Gamma-P90
With The Clathrin Adaptor Ap-2
Length = 299
Score = 90.1 bits (222), Expect = 2e-18, Method: Compositional matrix adjust.
Identities = 67/287 (23%), Positives = 130/287 (45%), Gaps = 32/287 (11%)
Query: 158 ILPGATASCVPWRPTDVKYANNEVYVDLVEEMDAIINRDGVLVKCEIYGEVQVNCLLSGL 217
++P + + WR +KY NE+++D++E ++ +++ G ++ + G V + LSG+
Sbjct: 14 LVPRGSHMQIGWRREGIKYRRNELFLDVLESVNLLMSPQGQVLSAHVSGRVVMKSYLSGM 73
Query: 218 PDLTLSFANPSILH---------------------DVRFHPCVRFRPWESHQILSFVPPD 256
P+ + ++ D FH CVR ++S + +SF+PPD
Sbjct: 74 PECKFGMNDKIVIEKQGKGTADETSKSGKQSIAIDDCTFHQCVRLSKFDSERSISFIPPD 133
Query: 257 GQFKLMSYRVKKLKSTPIYVKPQLTSDAGTCRISVMVGIRNDPGKTIDSIILQFQLPPCI 316
G+F+LM YR K P V P L + G ++ V V I+++ ++ + ++ ++P +
Sbjct: 134 GEFELMRYRTTKDIILPFRVIP-LVREVGRTKLEVKVVIKSNFKPSLLAQKIEVRIPTPL 192
Query: 317 LSADLT----SNHGTVNVLSNKICTWSIGRIPKDKAPSLSGTM-VLETGLETLRVFP--- 368
++ + N I W I R+ K +S + +L T + P
Sbjct: 193 NTSGVQVICMKGKAKYKASENAI-VWKIKRMAGMKESQISAEIELLPTNDKKKWARPPIS 251
Query: 369 -TFQVEFRIMGVALSGLQIDKLDLQNVPNRLYKGFRAVTRAGEYEVR 414
F+V F G+ + L++ + L + + K R + R+G YE R
Sbjct: 252 MNFEVPFAPSGLKVRYLKVFEPKLNYSDHDVIKWVRYIGRSGIYETR 298
>pdb|1BXX|A Chain A, Mu2 Adaptin Subunit (Ap50) Of Ap2 Adaptor (Second Domain),
Complexed With Tgn38 Internalization Peptide Dyqrln
pdb|1HES|A Chain A, Mu2 Adaptin Subunit (Ap50) Of Ap2 Adaptor (Second Domain),
Complexed With P-Selectin Internalization Peptide
Shlgtygvftnaa
Length = 285
Score = 88.6 bits (218), Expect = 6e-18, Method: Compositional matrix adjust.
Identities = 66/278 (23%), Positives = 126/278 (45%), Gaps = 32/278 (11%)
Query: 167 VPWRPTDVKYANNEVYVDLVEEMDAIINRDGVLVKCEIYGEVQVNCLLSGLPDLTLSFAN 226
+ WR +KY NE+++D++E ++ +++ G ++ + G V + LSG+P+ +
Sbjct: 9 IGWRREGIKYRRNELFLDVLESVNLLMSPQGQVLSAHVSGRVVMKSYLSGMPECKFGMND 68
Query: 227 PSILH---------------------DVRFHPCVRFRPWESHQILSFVPPDGQFKLMSYR 265
++ D FH CVR ++S + +SF+PPDG+F+LM YR
Sbjct: 69 KIVIEKQGKGTADETSKSGKQSIAIDDCTFHQCVRLSKFDSERSISFIPPDGEFELMRYR 128
Query: 266 VKKLKSTPIYVKPQLTSDAGTCRISVMVGIRNDPGKTIDSIILQFQLPPCILSADLT--- 322
K P V P L + G ++ V V I+++ ++ + ++ ++P + ++ +
Sbjct: 129 TTKDIILPFRVIP-LVREVGRTKLEVKVVIKSNFKPSLLAQKIEVRIPTPLNTSGVQVIC 187
Query: 323 -SNHGTVNVLSNKICTWSIGRIPKDKAPSLSGTM-VLETGLETLRVFP----TFQVEFRI 376
N I W I R+ K +S + +L T + P F+V F
Sbjct: 188 MKGKAKYKASENAI-VWKIKRMAGMKESQISAEIELLPTNDKKKWARPPISMNFEVPFAP 246
Query: 377 MGVALSGLQIDKLDLQNVPNRLYKGFRAVTRAGEYEVR 414
G+ + L++ + L + + K R + R+G YE R
Sbjct: 247 SGLKVRYLKVFEPKLNYSDHDVIKWVRYIGRSGIYETR 284
>pdb|1BW8|A Chain A, Mu2 Adaptin Subunit (Ap50) Of Ap2 Adaptor (Second Domain),
Complexed With Egfr Internalization Peptide Fyralm
Length = 321
Score = 88.2 bits (217), Expect = 8e-18, Method: Compositional matrix adjust.
Identities = 70/278 (25%), Positives = 127/278 (45%), Gaps = 32/278 (11%)
Query: 167 VPWRPTDVKYANNEVYVDLVEEMDAIINRDGVLVKCEIYGEVQVNCLLSGLP-------- 218
+ WR +KY NE+++D++E ++ +++ G ++ + G V + LSG+P
Sbjct: 45 IGWRREGIKYRRNELFLDVLESVNLLMSPQGQVLSAHVSGRVVMKSYLSGMPECKFGMND 104
Query: 219 ------------DLTLSFANPSI-LHDVRFHPCVRFRPWESHQILSFVPPDGQFKLMSYR 265
D T SI + D FH CVR ++S + +SF+PPDG+F+LM YR
Sbjct: 105 KIVIEKQGKGTADETSKSGKQSIAIDDCTFHQCVRLSKFDSERSISFIPPDGEFELMRYR 164
Query: 266 VKKLKSTPIYVKPQLTSDAGTCRISVMVGIRNDPGKTIDSIILQFQLPPCILSADLT--- 322
K P V P L + G ++ V V I+++ ++ + ++ ++P + ++ +
Sbjct: 165 TTKDIILPFRVIP-LVREVGRTKLEVKVVIKSNFKPSLLAQKIEVRIPTPLNTSGVQVIC 223
Query: 323 -SNHGTVNVLSNKICTWSIGRIPKDKAPSLSGTM-VLETGLETLRVFP----TFQVEFRI 376
N I W I R+ K +S + +L T + P F+V F
Sbjct: 224 MKGKAKYKASENAIV-WKIKRMAGMKESQISAEIELLPTNDKKKWARPPISMNFEVPFAP 282
Query: 377 MGVALSGLQIDKLDLQNVPNRLYKGFRAVTRAGEYEVR 414
G+ + L++ + L + + K R + R+G YE R
Sbjct: 283 SGLKVRYLKVFEPKLNYSDHDVIKWVRYIGRSGIYETR 320
>pdb|1I31|A Chain A, Mu2 Adaptin Subunit (Ap50) Of Ap2 Clathrin Adaptor,
Complexed With Egfr Internalization Peptide Fyralm At
2.5 A Resolution
Length = 314
Score = 88.2 bits (217), Expect = 8e-18, Method: Compositional matrix adjust.
Identities = 70/278 (25%), Positives = 127/278 (45%), Gaps = 32/278 (11%)
Query: 167 VPWRPTDVKYANNEVYVDLVEEMDAIINRDGVLVKCEIYGEVQVNCLLSGLP-------- 218
+ WR +KY NE+++D++E ++ +++ G ++ + G V + LSG+P
Sbjct: 38 IGWRREGIKYRRNELFLDVLESVNLLMSPQGQVLSAHVSGRVVMKSYLSGMPECKFGMND 97
Query: 219 ------------DLTLSFANPSI-LHDVRFHPCVRFRPWESHQILSFVPPDGQFKLMSYR 265
D T SI + D FH CVR ++S + +SF+PPDG+F+LM YR
Sbjct: 98 KIVIEKQGKGTADETSKSGKQSIAIDDCTFHQCVRLSKFDSERSISFIPPDGEFELMRYR 157
Query: 266 VKKLKSTPIYVKPQLTSDAGTCRISVMVGIRNDPGKTIDSIILQFQLPPCILSADLT--- 322
K P V P L + G ++ V V I+++ ++ + ++ ++P + ++ +
Sbjct: 158 TTKDIILPFRVIP-LVREVGRTKLEVKVVIKSNFKPSLLAQKIEVRIPTPLNTSGVQVIC 216
Query: 323 -SNHGTVNVLSNKICTWSIGRIPKDKAPSLSGTM-VLETGLETLRVFP----TFQVEFRI 376
N I W I R+ K +S + +L T + P F+V F
Sbjct: 217 MKGKAKYKASENAIV-WKIKRMAGMKESQISAEIELLPTNDKKKWARPPISMNFEVPFAP 275
Query: 377 MGVALSGLQIDKLDLQNVPNRLYKGFRAVTRAGEYEVR 414
G+ + L++ + L + + K R + R+G YE R
Sbjct: 276 SGLKVRYLKVFEPKLNYSDHDVIKWVRYIGRSGIYETR 313
>pdb|1H6E|A Chain A, Mu2 Adaptin Subunit (Ap50) Of Ap2 Adaptor (Second Domain),
Complexed With Ctla-4 Internalization Peptide
Ttgvyvkmppt
Length = 288
Score = 83.2 bits (204), Expect = 3e-16, Method: Compositional matrix adjust.
Identities = 64/271 (23%), Positives = 123/271 (45%), Gaps = 32/271 (11%)
Query: 174 VKYANNEVYVDLVEEMDAIINRDGVLVKCEIYGEVQVNCLLSGLPDLTLSFANPSILH-- 231
+KY NE+++D++E ++ +++ G ++ + G V + LSG+P+ + ++
Sbjct: 19 IKYRRNELFLDVLESVNLLMSPQGQVLSAHVSGRVVMKSYLSGMPECKFGMNDKIVIEKQ 78
Query: 232 -------------------DVRFHPCVRFRPWESHQILSFVPPDGQFKLMSYRVKKLKST 272
D FH CVR ++S + +SF+PPDG+F+LM YR K
Sbjct: 79 GKGTADETSKSGKQSIAIDDCTFHQCVRLSKFDSERSISFIPPDGEFELMRYRTTKDIIL 138
Query: 273 PIYVKPQLTSDAGTCRISVMVGIRNDPGKTIDSIILQFQLPPCILSADLT----SNHGTV 328
P V P L + G ++ V V I+++ ++ + ++ ++P + ++ +
Sbjct: 139 PFRVIP-LVREVGRTKLEVKVVIKSNFKPSLLAQKIEVRIPTPLNTSGVQVICMKGKAKY 197
Query: 329 NVLSNKICTWSIGRIPKDKAPSLSGTM-VLETGLETLRVFP----TFQVEFRIMGVALSG 383
N I W I R+ K +S + +L T + P F+V F G+ +
Sbjct: 198 KASENAI-VWKIKRMAGMKESQISAEIELLPTNDKKKWARPPISMNFEVPFAPSGLKVRY 256
Query: 384 LQIDKLDLQNVPNRLYKGFRAVTRAGEYEVR 414
L++ + L + + K R + R+G YE R
Sbjct: 257 LKVFEPKLNYSDHDVIKWVRYIGRSGIYETR 287
>pdb|3ML6|A Chain A, A Complex Between Dishevlled2 And Clathrin Adaptor Ap-2
pdb|3ML6|B Chain B, A Complex Between Dishevlled2 And Clathrin Adaptor Ap-2
pdb|3ML6|C Chain C, A Complex Between Dishevlled2 And Clathrin Adaptor Ap-2
pdb|3ML6|D Chain D, A Complex Between Dishevlled2 And Clathrin Adaptor Ap-2
pdb|3ML6|E Chain E, A Complex Between Dishevlled2 And Clathrin Adaptor Ap-2
pdb|3ML6|F Chain F, A Complex Between Dishevlled2 And Clathrin Adaptor Ap-2
Length = 385
Score = 78.2 bits (191), Expect = 7e-15, Method: Compositional matrix adjust.
Identities = 62/268 (23%), Positives = 121/268 (45%), Gaps = 32/268 (11%)
Query: 177 ANNEVYVDLVEEMDAIINRDGVLVKCEIYGEVQVNCLLSGLPDLTLSFANPSILH----- 231
+ NE+++D++E ++ +++ G ++ + G V + LSG+P+ + ++
Sbjct: 119 SRNELFLDVLESVNLLMSPQGQVLSAHVSGRVVMKSYLSGMPECKFGMNDKIVIEKQGKG 178
Query: 232 ----------------DVRFHPCVRFRPWESHQILSFVPPDGQFKLMSYRVKKLKSTPIY 275
D FH CVR ++S + +SF+PPDG+F+LM YR K P
Sbjct: 179 TADETSKSGKQSIAIDDCTFHQCVRLSKFDSERSISFIPPDGEFELMRYRTTKDIILPFR 238
Query: 276 VKPQLTSDAGTCRISVMVGIRNDPGKTIDSIILQFQLPPCILSADLT----SNHGTVNVL 331
V P L + G ++ V V I+++ ++ + ++ ++P + ++ +
Sbjct: 239 VIP-LVREVGRTKLEVKVVIKSNFKPSLLAQKIEVRIPTPLNTSGVQVICMKGKAKYKAS 297
Query: 332 SNKICTWSIGRIPKDKAPSLSGTM-VLETGLETLRVFP----TFQVEFRIMGVALSGLQI 386
N I W I R+ K +S + +L T + P F+V F G+ + L++
Sbjct: 298 ENAI-VWKIKRMAGMKESQISAEIELLPTNDKKKWARPPISMNFEVPFAPSGLKVRYLKV 356
Query: 387 DKLDLQNVPNRLYKGFRAVTRAGEYEVR 414
+ L + + K R + R+G YE R
Sbjct: 357 FEPKLNYSDHDVIKWVRYIGRSGIYETR 384
>pdb|3L81|A Chain A, Crystal Structure Of Adaptor Protein Complex 4 (Ap-4) Mu4
Su Terminal Domain, In Complex With A Sorting Peptide
From The Precursor Protein (App)
Length = 301
Score = 68.2 bits (165), Expect = 8e-12, Method: Compositional matrix adjust.
Identities = 72/295 (24%), Positives = 125/295 (42%), Gaps = 40/295 (13%)
Query: 156 SDILPGATASCVPWRPTDVKYANNEVYVDLVEEMDAIINRDGVLVKCEIYGEVQVNCLLS 215
S + P + AS + NEV++D+VE + +I +G L+K ++ GE+++ L
Sbjct: 10 SKVAPSSAASRPVLSSRSDQSQKNEVFLDVVERLSVLIASNGSLLKVDVQGEIRLKSFLP 69
Query: 216 GLPD----LTLSFA---------NPSI-LHDVRFHPCVRFRPWESHQILSFVPPDGQFKL 261
+ LT F+ P I + +V FH V +ESH+IL PP G+ +
Sbjct: 70 SGSEMRIGLTEEFSVGKSELRGYGPGIRVDEVSFHSSVNLDEFESHRILRLQPPQGELTV 129
Query: 262 MSYRVKKLKSTPIYVK--PQLTSDAGTCRISVMVGIRNDPGKTIDSIILQFQLP----PC 315
M Y++ +P+ + P + D G+ R+ V + +R D ++ ++ LP
Sbjct: 130 MRYQLSDDLPSPLPFRLFPSVQWDRGSGRLQVYLKLRCDLLSKSQALNVRLHLPLPRGVV 189
Query: 316 ILSADLTSNHGTVNVLSNKICTWSIGRIPKDKAPSLSG-------------TMVLETGLE 362
LS +L+S L+ W + R+ LSG + L T
Sbjct: 190 SLSQELSSPEQKAE-LAEGALRWDLPRV--QGGSQLSGLFQMDVPGPPGPPSHGLSTSAS 246
Query: 363 TLRVFPTFQVEFRIMGVALSGLQIDKLDLQNVPN---RLYKGFRAVTRAGEYEVR 414
L + P + F + SGLQ+ L L P+ +K R ++ + Y +R
Sbjct: 247 PLGLGPA-SLSFELPRHTCSGLQVRFLRLAFRPSGNANPHKWVRHLSHSDAYVIR 300
>pdb|2VGL|S Chain S, Ap2 Clathrin Adaptor Core
pdb|2JKR|I Chain I, Ap2 Clathrin Adaptor Core With Dileucine Peptide Rm(
Phosphos)qikrllse
pdb|2JKR|S Chain S, Ap2 Clathrin Adaptor Core With Dileucine Peptide Rm(
Phosphos)qikrllse
pdb|2JKT|I Chain I, Ap2 Clathrin Adaptor Core With Cd4 Dileucine Peptide Rm(
Phosphos)eikrllse Q To E Mutant
pdb|2JKT|S Chain S, Ap2 Clathrin Adaptor Core With Cd4 Dileucine Peptide Rm(
Phosphos)eikrllse Q To E Mutant
pdb|2XA7|S Chain S, Ap2 Clathrin Adaptor Core In Active Complex With Cargo
Peptides
Length = 142
Score = 31.6 bits (70), Expect = 0.82, Method: Compositional matrix adjust.
Identities = 20/74 (27%), Positives = 38/74 (51%), Gaps = 1/74 (1%)
Query: 63 AGITFLACTQVEMPPLMGIEFLCRVADILSDYLGELNEDLIKDNFVIVYELLDEMIDNG- 121
AG+ F C V L +E + ++L++Y + E + NF VY ++DEM G
Sbjct: 63 AGLYFCICVDVNDNNLAYLEAIHNFVEVLNEYFHNVCELDLVFNFYKVYTVVDEMFLAGE 122
Query: 122 FPLTTEPNILREMI 135
T++ +L++++
Sbjct: 123 IRETSQTKVLKQLL 136
>pdb|3BIC|A Chain A, Crystal Structure Of Human Methylmalonyl-Coa Mutase
pdb|3BIC|B Chain B, Crystal Structure Of Human Methylmalonyl-Coa Mutase
pdb|2XIJ|A Chain A, Crystal Structure Of Human Methylmalonyl-Coa Mutase In
Complex With Adenosylcobalamin
pdb|2XIQ|A Chain A, Crystal Structure Of Human Methylmalonyl-Coa Mutase In
Complex With Adenosylcobalamin And Malonyl-Coa
pdb|2XIQ|B Chain B, Crystal Structure Of Human Methylmalonyl-Coa Mutase In
Complex With Adenosylcobalamin And Malonyl-Coa
Length = 762
Score = 31.6 bits (70), Expect = 0.89, Method: Compositional matrix adjust.
Identities = 32/119 (26%), Positives = 50/119 (42%), Gaps = 7/119 (5%)
Query: 241 FRPWESHQILSFVPPDGQFKLMSYRVKKLK---STPIYVKPQLTSDAGTCRISVMVGIRN 297
FRPW Q F + K +K + S + D+ R+ VG+
Sbjct: 92 FRPWTIRQYAGFSTVEESNKFYKDNIKAGQQGLSVAFDLATHRGYDSDNPRVRGDVGMAG 151
Query: 298 DPGKTI-DSIILQFQLPPCILSADLTSNHGTVNVLSNKICTWSIGRIPKDKAPSLSGTM 355
T+ D+ IL +P +S +T N + VL+N I T +PK+K L+GT+
Sbjct: 152 VAIDTVEDTKILFDGIPLEKMSVSMTMNGAVIPVLANFIVTGEEQGVPKEK---LTGTI 207
>pdb|3NVO|A Chain A, The Soluble Domain Structure Of The Zntb Zn2+ Efflux
System
pdb|3NVO|B Chain B, The Soluble Domain Structure Of The Zntb Zn2+ Efflux
System
Length = 264
Score = 29.6 bits (65), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 30/124 (24%), Positives = 53/124 (42%), Gaps = 23/124 (18%)
Query: 83 FLCRVADILSDYLGELNEDLIKDNFVIVYELLDEMIDNGFPLTTEPNILREMIAPPN--- 139
+L V D L+D+ E + EL D++ID E N+L + I P
Sbjct: 148 WLVDVCDALTDHASEF-----------IEELHDKIID------LEDNLLDQQIPPRGFLA 190
Query: 140 IVSKMLSVVTGNSSNVSDILPGATASCVPWRPTDVKYANNEVYVDL---VEEMDAIINRD 196
++ K L V+ + D+ + +PW D + ++ L ++E+DA I R
Sbjct: 191 LLRKQLIVMRRYMAPQRDVYARLASERLPWMSDDHRRRMQDIADRLGRGLDEIDACIART 250
Query: 197 GVLV 200
G++
Sbjct: 251 GIMA 254
>pdb|3NWI|A Chain A, The Soluble Domain Structure Of The Zntb Zn2+ Efflux
System
pdb|3NWI|B Chain B, The Soluble Domain Structure Of The Zntb Zn2+ Efflux
System
pdb|3NWI|C Chain C, The Soluble Domain Structure Of The Zntb Zn2+ Efflux
System
pdb|3NWI|D Chain D, The Soluble Domain Structure Of The Zntb Zn2+ Efflux
System
pdb|3NWI|E Chain E, The Soluble Domain Structure Of The Zntb Zn2+ Efflux
System
Length = 263
Score = 29.6 bits (65), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 30/124 (24%), Positives = 53/124 (42%), Gaps = 23/124 (18%)
Query: 83 FLCRVADILSDYLGELNEDLIKDNFVIVYELLDEMIDNGFPLTTEPNILREMIAPPNIVS 142
+L V D L+D+ E + EL D++ID E N+L + I P ++
Sbjct: 147 WLVDVCDALTDHASEF-----------IEELHDKIID------LEDNLLDQQIPPRGFLA 189
Query: 143 ---KMLSVVTGNSSNVSDILPGATASCVPWRPTDVKYANNEVYVDL---VEEMDAIINRD 196
K L V+ + D+ + +PW D + ++ L ++E+DA I R
Sbjct: 190 LLRKQLIVMRRYMAPQRDVYARLASERLPWMSDDHRRRMQDIADRLGRGLDEIDACIART 249
Query: 197 GVLV 200
G++
Sbjct: 250 GIMA 253
>pdb|1JWY|B Chain B, Crystal Structure Of The Dynamin A Gtpase Domain Complexed
With Gdp, Determined As Myosin Fusion
pdb|1JX2|B Chain B, Crystal Structure Of The Nucleotide-Free Dynamin A Gtpase
Domain, Determined As Myosin Fusion
Length = 315
Score = 28.9 bits (63), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 29/112 (25%), Positives = 54/112 (48%), Gaps = 22/112 (19%)
Query: 82 EFLCRVADILSDYLGELNEDLIKDNFVIVYELLDEMIDNGFPLTTEPNILREMIAPPNIV 141
EFL + D+ D+ E+ E++I+D D M ++ +P L+ I P++V
Sbjct: 83 EFLHKPNDMFYDF-SEIREEIIRDT--------DRMTGKNKGISAQPINLK--IYSPHVV 131
Query: 142 SKMLSVVTGNSSNVSDILPGATASCVPWRPTDVKYANNEVYVDLVEEMDAII 193
+ L++V LPG T V +PTD++ + + +++ +AII
Sbjct: 132 N--LTLVD---------LPGITKVPVGDQPTDIEQQIRRMVMAYIKKQNAII 172
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
0.323 0.140 0.424
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,117,606
Number of Sequences: 62578
Number of extensions: 492034
Number of successful extensions: 1123
Number of sequences better than 100.0: 27
Number of HSP's better than 100.0 without gapping: 15
Number of HSP's successfully gapped in prelim test: 12
Number of HSP's that attempted gapping in prelim test: 1084
Number of HSP's gapped (non-prelim): 28
length of query: 415
length of database: 14,973,337
effective HSP length: 101
effective length of query: 314
effective length of database: 8,652,959
effective search space: 2717029126
effective search space used: 2717029126
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 53 (25.0 bits)