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= 014292
(427 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 = 210 bits (534), Expect = 1e-54, Method: Compositional matrix adjust.
Identities = 104/266 (39%), Positives = 163/266 (61%), Gaps = 17/266 (6%)
Query: 167 VPWRPTDVKYANNEVYVDLVEEMDAIINSTKQFSLLHARFRDGVLVKCEIYGEVQVNCLL 226
+PWR VKY NNE Y D+VEE+DAII+ + G V EI G + L
Sbjct: 8 IPWRRAGVKYTNNEAYFDVVEEIDAIID------------KSGSTVFAEIQGVIDACIKL 55
Query: 227 SGLPDLTLSFANPSILHDVRFHPCVRFRPWESHQILSFVPPDGQFKLMSYRV--KKLKST 284
SG+PDL+LSF NP +L DV FHPC+RF+ WES ++LSF+PPDG F+L+SYRV + L +
Sbjct: 56 SGMPDLSLSFMNPRLLDDVSFHPCIRFKRWESERVLSFIPPDGNFRLISYRVSSQNLVAI 115
Query: 285 PIYVKPQLT-SDAGTC-RISVMVGIRNDPGKTIDSIILQFQLPPCILSADLTSNHGTVNV 342
P+YVK ++ + +C R + +G + + GKTI+ I + +P +L+ +LT G+
Sbjct: 116 PVYVKHNISFKENSSCGRFDITIGPKQNMGKTIEGITVTVHMPKVVLNMNLTPTQGSYTF 175
Query: 343 LS-NKICTWSIGRIPKDKAPSLSGTMVLETGLETLRVFPTFQVEFRIMGVALSGLQIDKL 401
K+ W +G+I K PSL G + L++G P ++F+I +A+SGL++++L
Sbjct: 176 DPVTKVLAWDVGKITPQKLPSLKGLVNLQSGAPKPEENPNLNIQFKIQQLAISGLKVNRL 235
Query: 402 DLQNVPNRLYKGFRAVTRAGEYEVRS 427
D+ + +KG + +T+AG+++VR+
Sbjct: 236 DMYGEKYKPFKGVKYITKAGKFQVRT 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 = 160 bits (406), Expect = 1e-39, Method: Compositional matrix adjust.
Identities = 120/448 (26%), Positives = 211/448 (47%), Gaps = 54/448 (12%)
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 VDLVEEMDAIINSTKQFSLLHARFRDGVLVKCEIYGEVQVNCLLSGLPDLTLSFANPSI- 241
+D++E ++ ++++ +G +++ EI G +++ LSG+P+L L + +
Sbjct: 173 LDVIEAVNLLVSA------------NGNVLRSEIVGSIKMRVFLSGMPELRLGLNDKVLF 220
Query: 242 ------------LHDVRFHPCVRFRPWESHQILSFVPPDGQFKLMSYRVKKLKSTPIYVK 289
L DV+FH CVR +E+ + +SF+PPDG+F+LMSYR+ I+++
Sbjct: 221 DNTGRGKSKSVELEDVKFHQCVRLSRFENDRTISFIPPDGEFELMSYRLNTHVKPLIWIE 280
Query: 290 PQLTSDAGTCRISVMVGIRNDPGK--TIDSIILQFQLPPCILSADLTSNHGTVN-VLSNK 346
+ + + RI MV ++ + T +++ + +P S + G+V V N
Sbjct: 281 SVIEKHSHS-RIEYMVKAKSQFKRRSTANNVEIHIPVPNDADSPKFKTTVGSVKWVPENS 339
Query: 347 ICTWSIGRIPKDKAPSLSGTMVLET-GLETLRVFPTFQVEFRIMGVALSGLQ------ID 399
WS+ P K + L + E P V+F I SG+Q I+
Sbjct: 340 EIVWSVKSFPGGKEYLMRAHFGLPSVEAEDKEGKPPISVKFEIPYFTTSGIQVRYLKIIE 399
Query: 400 KLDLQNVPNRLYKGFRAVTRAGEYEVRS 427
K Q +P R +T+ G+Y++R+
Sbjct: 400 KSGYQAIP-----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 = 147 bits (372), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 116/446 (26%), Positives = 212/446 (47%), Gaps = 32/446 (7%)
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 VYVDLVEEMDAIINSTKQFSLLHARFRDGVLVKCEIYG----------EVQVNCLLSGLP 230
+++D++E ++ +++ Q +L A V++K + G ++ + G
Sbjct: 173 LFLDVLESVNLLMSPQGQ--VLSAHVSGRVVMKSYLSGMPECKFGMNDKIVIEKQGKGTA 230
Query: 231 DLTLSFANPSI-LHDVRFHPCVRFRPWESHQILSFVPPDGQFKLMSYRVKKLKSTPIYVK 289
D T SI + D FH CVR ++S + +SF+PPDG+F+LM YR K P V
Sbjct: 231 DETSKSGKQSIAIDDCTFHQCVRLSKFDSERSISFIPPDGEFELMRYRTTKDIILPFRVI 290
Query: 290 PQLTSDAGTCRISVMVGIRNDPGKTIDSIILQFQLPPCILSADLT----SNHGTVNVLSN 345
P L + G ++ V V I+++ ++ + ++ ++P + ++ + N
Sbjct: 291 P-LVREVGRTKLEVKVVIKSNFKPSLLAQKIEVRIPTPLNTSGVQVICMKGKAKYKASEN 349
Query: 346 KICTWSIGRIPKDKAPSLSGTM-VLETGLETLRVFP----TFQVEFRIMGVALSGLQIDK 400
I W I R+ K +S + +L T + P F+V F G+ + L++ +
Sbjct: 350 AIV-WKIKRMAGMKESQISAEIELLPTNDKKKWARPPISMNFEVPFAPSGLKVRYLKVFE 408
Query: 401 LDLQNVPNRLYKGFRAVTRAGEYEVR 426
L + + K R + R+G YE R
Sbjct: 409 PKLNYSDHDVIKWVRYIGRSGIYETR 434
>pdb|2XA7|M Chain M, Ap2 Clathrin Adaptor Core In Active Complex With Cargo
Peptides
Length = 446
Score = 142 bits (357), Expect = 5e-34, Method: Compositional matrix adjust.
Identities = 112/467 (23%), Positives = 209/467 (44%), Gaps = 63/467 (13%)
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 VYVDLVEEMDAIINSTKQFSLLHARFRDGVLVKCEIYGEVQVNCLLSGLPDLTLSFANPS 240
+++D++E ++ +++ G ++ + G V + LSG+P+ +
Sbjct: 173 LFLDVLESVNLLMSP------------QGQVLSAHVSGRVVMKSYLSGMPECKFGMNDKI 220
Query: 241 ILH--------------------------------DVRFHPCVRFRPWESHQILSFVPPD 268
++ D FH CVR ++S + +SF+PPD
Sbjct: 221 VIEKQGKGTADETSKSMEQKLISEEDLGKQSIAIDDCTFHQCVRLSKFDSERSISFIPPD 280
Query: 269 GQFKLMSYRVKKLKSTPIYVKPQLTSDAGTCRISVMVGIRNDPGKTIDSIILQFQLPPCI 328
G+F+LM YR K P V P L + G ++ V V I+++ ++ + ++ ++P +
Sbjct: 281 GEFELMRYRTTKDIILPFRVIP-LVREVGRTKLEVKVVIKSNFKPSLLAQKIEVRIPTPL 339
Query: 329 LSADLT----SNHGTVNVLSNKICTWSIGRIPKDKAPSLSGTM-VLETGLETLRVFP--- 380
++ + N I W I R+ K +S + +L T + P
Sbjct: 340 NTSGVQVICMKGKAKYKASENAIV-WKIKRMAGMKESQISAEIELLPTNDKKKWARPPIS 398
Query: 381 -TFQVEFRIMGVALSGLQIDKLDLQNVPNRLYKGFRAVTRAGEYEVR 426
F+V F G+ + L++ + L + + K R + R+G YE R
Sbjct: 399 MNFEVPFAPSGLKVRYLKVFEPKLNYSDHDVIKWVRYIGRSGIYETR 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 = 100 bits (250), Expect = 1e-21, Method: Compositional matrix adjust.
Identities = 72/279 (25%), Positives = 134/279 (48%), Gaps = 35/279 (12%)
Query: 169 WRPTDVKYANNEVYVDLVEEMDAIINSTKQFSLLHARFRDGVLVKCEIYGEVQVNCLLSG 228
WR +KY NEV++D++E ++ ++++ +G +++ EI G +++ LSG
Sbjct: 2 WRSEGIKYRKNEVFLDVIEAVNLLVSA------------NGNVLRSEIVGSIKMRVFLSG 49
Query: 229 LPDLTLSFANPSI-------------LHDVRFHPCVRFRPWESHQILSFVPPDGQFKLMS 275
+P+L L + + L DV+FH CVR +E+ + +SF+PPDG+F+LMS
Sbjct: 50 MPELRLGLNDKVLFDNTGRGKSKSVELEDVKFHQCVRLSRFENDRTISFIPPDGEFELMS 109
Query: 276 YRVKKLKSTPIYVKPQLTSDAGTCRISVMVGIRNDPGK--TIDSIILQFQLPPCILSADL 333
YR+ I+++ + + + RI MV ++ + T +++ + +P S
Sbjct: 110 YRLNTHVKPLIWIESVIEKHSHS-RIEYMVKAKSQFKRRSTANNVEIHIPVPNDADSPKF 168
Query: 334 TSNHGTVN-VLSNKICTWSIGRIPKDKAPSLSGTMVLET-GLETLRVFPTFQVEFRIMGV 391
+ G+V V N WS+ P K + L + E P V+F I
Sbjct: 169 KTTVGSVKWVPENSEIVWSVKSFPGGKEYLMRAHFGLPSVEAEDKEGKPPISVKFEIPYF 228
Query: 392 ALSGLQIDKLDLQNVPNRLYKGF---RAVTRAGEYEVRS 427
SG+Q+ L + + Y+ R +T+ G+Y++R+
Sbjct: 229 TTSGIQVRYLKI--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 = 92.8 bits (229), Expect = 3e-19, Method: Compositional matrix adjust.
Identities = 70/279 (25%), Positives = 129/279 (46%), Gaps = 35/279 (12%)
Query: 169 WRPTDVKYANNEVYVDLVEEMDAIINSTKQFSLLHARFRDGVLVKCEIYGEVQVNCLLSG 228
WR +KY NEV++D++E ++ ++++ +G +++ EI G ++ LSG
Sbjct: 2 WRSEGIKYRKNEVFLDVIEAVNLLVSA------------NGNVLRSEIVGSIKXRVFLSG 49
Query: 229 LPDLTLSFANPSI-------------LHDVRFHPCVRFRPWESHQILSFVPPDGQFKLMS 275
P+L L + + L DV+FH CVR +E+ + +SF+PPDG+F+L S
Sbjct: 50 XPELRLGLNDKVLFDNTGRGKSKSVELEDVKFHQCVRLSRFENDRTISFIPPDGEFELXS 109
Query: 276 YRVKKLKSTPIYVKPQLTSDAGTCRISVMVGIRNDPGK--TIDSIILQFQLPPCILSADL 333
YR+ I+++ + + + RI V ++ + T +++ + +P S
Sbjct: 110 YRLNTHVKPLIWIESVIEKHSHS-RIEYXVKAKSQFKRRSTANNVEIHIPVPNDADSPKF 168
Query: 334 TSNHGTVN-VLSNKICTWSIGRIPKDKAPSLSGTMVLET-GLETLRVFPTFQVEFRIMGV 391
+ G+V V N WS+ P K L + E P V+F I
Sbjct: 169 KTTVGSVKWVPENSEIVWSVKSFPGGKEYLXRAHFGLPSVEAEDKEGKPPISVKFEIPYF 228
Query: 392 ALSGLQIDKLDLQNVPNRLYKGF---RAVTRAGEYEVRS 427
SG+Q+ L + + Y+ R +T+ G+Y++R+
Sbjct: 229 TTSGIQVRYLKI--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 = 83.2 bits (204), Expect = 3e-16, Method: Compositional matrix adjust.
Identities = 71/289 (24%), Positives = 133/289 (46%), Gaps = 24/289 (8%)
Query: 158 ILPGATASCVPWRPTDVKYANNEVYVDLVEEMDAIINSTKQFSLLHARFRDGVLVKCEIY 217
++P + + WR +KY NE+++D++E ++ +++ Q +L A V++K +
Sbjct: 14 LVPRGSHMQIGWRREGIKYRRNELFLDVLESVNLLMSPQGQ--VLSAHVSGRVVMKSYLS 71
Query: 218 G----------EVQVNCLLSGLPDLTLSFANPSI-LHDVRFHPCVRFRPWESHQILSFVP 266
G ++ + G D T SI + D FH CVR ++S + +SF+P
Sbjct: 72 GMPECKFGMNDKIVIEKQGKGTADETSKSGKQSIAIDDCTFHQCVRLSKFDSERSISFIP 131
Query: 267 PDGQFKLMSYRVKKLKSTPIYVKPQLTSDAGTCRISVMVGIRNDPGKTIDSIILQFQLPP 326
PDG+F+LM YR K P V P L + G ++ V V I+++ ++ + ++ ++P
Sbjct: 132 PDGEFELMRYRTTKDIILPFRVIP-LVREVGRTKLEVKVVIKSNFKPSLLAQKIEVRIPT 190
Query: 327 CILSADLT----SNHGTVNVLSNKICTWSIGRIPKDKAPSLSGTM-VLETGLETLRVFP- 380
+ ++ + N I W I R+ K +S + +L T + P
Sbjct: 191 PLNTSGVQVICMKGKAKYKASENAI-VWKIKRMAGMKESQISAEIELLPTNDKKKWARPP 249
Query: 381 ---TFQVEFRIMGVALSGLQIDKLDLQNVPNRLYKGFRAVTRAGEYEVR 426
F+V F G+ + L++ + L + + K R + R+G YE R
Sbjct: 250 ISMNFEVPFAPSGLKVRYLKVFEPKLNYSDHDVIKWVRYIGRSGIYETR 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 = 81.3 bits (199), Expect = 9e-16, Method: Compositional matrix adjust.
Identities = 70/280 (25%), Positives = 129/280 (46%), Gaps = 24/280 (8%)
Query: 167 VPWRPTDVKYANNEVYVDLVEEMDAIINSTKQFSLLHARFRDGVLVKCEIYG-------- 218
+ WR +KY NE+++D++E ++ +++ Q +L A V++K + G
Sbjct: 9 IGWRREGIKYRRNELFLDVLESVNLLMSPQGQ--VLSAHVSGRVVMKSYLSGMPECKFGM 66
Query: 219 --EVQVNCLLSGLPDLTLSFANPSI-LHDVRFHPCVRFRPWESHQILSFVPPDGQFKLMS 275
++ + G D T SI + D FH CVR ++S + +SF+PPDG+F+LM
Sbjct: 67 NDKIVIEKQGKGTADETSKSGKQSIAIDDCTFHQCVRLSKFDSERSISFIPPDGEFELMR 126
Query: 276 YRVKKLKSTPIYVKPQLTSDAGTCRISVMVGIRNDPGKTIDSIILQFQLPPCILSADLT- 334
YR K P V P L + G ++ V V I+++ ++ + ++ ++P + ++ +
Sbjct: 127 YRTTKDIILPFRVIP-LVREVGRTKLEVKVVIKSNFKPSLLAQKIEVRIPTPLNTSGVQV 185
Query: 335 ---SNHGTVNVLSNKICTWSIGRIPKDKAPSLSGTM-VLETGLETLRVFP----TFQVEF 386
N I W I R+ K +S + +L T + P F+V F
Sbjct: 186 ICMKGKAKYKASENAI-VWKIKRMAGMKESQISAEIELLPTNDKKKWARPPISMNFEVPF 244
Query: 387 RIMGVALSGLQIDKLDLQNVPNRLYKGFRAVTRAGEYEVR 426
G+ + L++ + L + + K R + R+G YE R
Sbjct: 245 APSGLKVRYLKVFEPKLNYSDHDVIKWVRYIGRSGIYETR 284
>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 = 81.3 bits (199), Expect = 1e-15, Method: Compositional matrix adjust.
Identities = 70/280 (25%), Positives = 129/280 (46%), Gaps = 24/280 (8%)
Query: 167 VPWRPTDVKYANNEVYVDLVEEMDAIINSTKQFSLLHARFRDGVLVKCEIYG-------- 218
+ WR +KY NE+++D++E ++ +++ Q +L A V++K + G
Sbjct: 38 IGWRREGIKYRRNELFLDVLESVNLLMSP--QGQVLSAHVSGRVVMKSYLSGMPECKFGM 95
Query: 219 --EVQVNCLLSGLPDLTLSFANPSI-LHDVRFHPCVRFRPWESHQILSFVPPDGQFKLMS 275
++ + G D T SI + D FH CVR ++S + +SF+PPDG+F+LM
Sbjct: 96 NDKIVIEKQGKGTADETSKSGKQSIAIDDCTFHQCVRLSKFDSERSISFIPPDGEFELMR 155
Query: 276 YRVKKLKSTPIYVKPQLTSDAGTCRISVMVGIRNDPGKTIDSIILQFQLPPCILSADLT- 334
YR K P V P L + G ++ V V I+++ ++ + ++ ++P + ++ +
Sbjct: 156 YRTTKDIILPFRVIP-LVREVGRTKLEVKVVIKSNFKPSLLAQKIEVRIPTPLNTSGVQV 214
Query: 335 ---SNHGTVNVLSNKICTWSIGRIPKDKAPSLSGTM-VLETGLETLRVFP----TFQVEF 386
N I W I R+ K +S + +L T + P F+V F
Sbjct: 215 ICMKGKAKYKASENAIV-WKIKRMAGMKESQISAEIELLPTNDKKKWARPPISMNFEVPF 273
Query: 387 RIMGVALSGLQIDKLDLQNVPNRLYKGFRAVTRAGEYEVR 426
G+ + L++ + L + + K R + R+G YE R
Sbjct: 274 APSGLKVRYLKVFEPKLNYSDHDVIKWVRYIGRSGIYETR 313
>pdb|1BW8|A Chain A, Mu2 Adaptin Subunit (Ap50) Of Ap2 Adaptor (Second Domain),
Complexed With Egfr Internalization Peptide Fyralm
Length = 321
Score = 81.3 bits (199), Expect = 1e-15, Method: Compositional matrix adjust.
Identities = 70/280 (25%), Positives = 129/280 (46%), Gaps = 24/280 (8%)
Query: 167 VPWRPTDVKYANNEVYVDLVEEMDAIINSTKQFSLLHARFRDGVLVKCEIYG-------- 218
+ WR +KY NE+++D++E ++ +++ Q +L A V++K + G
Sbjct: 45 IGWRREGIKYRRNELFLDVLESVNLLMSPQGQ--VLSAHVSGRVVMKSYLSGMPECKFGM 102
Query: 219 --EVQVNCLLSGLPDLTLSFANPSI-LHDVRFHPCVRFRPWESHQILSFVPPDGQFKLMS 275
++ + G D T SI + D FH CVR ++S + +SF+PPDG+F+LM
Sbjct: 103 NDKIVIEKQGKGTADETSKSGKQSIAIDDCTFHQCVRLSKFDSERSISFIPPDGEFELMR 162
Query: 276 YRVKKLKSTPIYVKPQLTSDAGTCRISVMVGIRNDPGKTIDSIILQFQLPPCILSADLT- 334
YR K P V P L + G ++ V V I+++ ++ + ++ ++P + ++ +
Sbjct: 163 YRTTKDIILPFRVIP-LVREVGRTKLEVKVVIKSNFKPSLLAQKIEVRIPTPLNTSGVQV 221
Query: 335 ---SNHGTVNVLSNKICTWSIGRIPKDKAPSLSGTM-VLETGLETLRVFP----TFQVEF 386
N I W I R+ K +S + +L T + P F+V F
Sbjct: 222 ICMKGKAKYKASENAIV-WKIKRMAGMKESQISAEIELLPTNDKKKWARPPISMNFEVPF 280
Query: 387 RIMGVALSGLQIDKLDLQNVPNRLYKGFRAVTRAGEYEVR 426
G+ + L++ + L + + K R + R+G YE R
Sbjct: 281 APSGLKVRYLKVFEPKLNYSDHDVIKWVRYIGRSGIYETR 320
>pdb|1H6E|A Chain A, Mu2 Adaptin Subunit (Ap50) Of Ap2 Adaptor (Second Domain),
Complexed With Ctla-4 Internalization Peptide
Ttgvyvkmppt
Length = 288
Score = 76.3 bits (186), Expect = 4e-14, Method: Compositional matrix adjust.
Identities = 68/273 (24%), Positives = 126/273 (46%), Gaps = 24/273 (8%)
Query: 174 VKYANNEVYVDLVEEMDAIINSTKQFSLLHARFRDGVLVKCEIYG----------EVQVN 223
+KY NE+++D++E ++ +++ Q +L A V++K + G ++ +
Sbjct: 19 IKYRRNELFLDVLESVNLLMSPQGQ--VLSAHVSGRVVMKSYLSGMPECKFGMNDKIVIE 76
Query: 224 CLLSGLPDLTLSFANPSI-LHDVRFHPCVRFRPWESHQILSFVPPDGQFKLMSYRVKKLK 282
G D T SI + D FH CVR ++S + +SF+PPDG+F+LM YR K
Sbjct: 77 KQGKGTADETSKSGKQSIAIDDCTFHQCVRLSKFDSERSISFIPPDGEFELMRYRTTKDI 136
Query: 283 STPIYVKPQLTSDAGTCRISVMVGIRNDPGKTIDSIILQFQLPPCILSADLT----SNHG 338
P V P L + G ++ V V I+++ ++ + ++ ++P + ++ +
Sbjct: 137 ILPFRVIP-LVREVGRTKLEVKVVIKSNFKPSLLAQKIEVRIPTPLNTSGVQVICMKGKA 195
Query: 339 TVNVLSNKICTWSIGRIPKDKAPSLSGTM-VLETGLETLRVFP----TFQVEFRIMGVAL 393
N I W I R+ K +S + +L T + P F+V F G+ +
Sbjct: 196 KYKASENAI-VWKIKRMAGMKESQISAEIELLPTNDKKKWARPPISMNFEVPFAPSGLKV 254
Query: 394 SGLQIDKLDLQNVPNRLYKGFRAVTRAGEYEVR 426
L++ + L + + K R + R+G YE R
Sbjct: 255 RYLKVFEPKLNYSDHDVIKWVRYIGRSGIYETR 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 = 71.2 bits (173), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 66/270 (24%), Positives = 124/270 (45%), Gaps = 24/270 (8%)
Query: 177 ANNEVYVDLVEEMDAIINSTKQFSLLHARFRDGVLVKCEIYG----------EVQVNCLL 226
+ NE+++D++E ++ +++ Q +L A V++K + G ++ +
Sbjct: 119 SRNELFLDVLESVNLLMSPQGQ--VLSAHVSGRVVMKSYLSGMPECKFGMNDKIVIEKQG 176
Query: 227 SGLPDLTLSFANPSI-LHDVRFHPCVRFRPWESHQILSFVPPDGQFKLMSYRVKKLKSTP 285
G D T SI + D FH CVR ++S + +SF+PPDG+F+LM YR K P
Sbjct: 177 KGTADETSKSGKQSIAIDDCTFHQCVRLSKFDSERSISFIPPDGEFELMRYRTTKDIILP 236
Query: 286 IYVKPQLTSDAGTCRISVMVGIRNDPGKTIDSIILQFQLPPCILSADLT----SNHGTVN 341
V P L + G ++ V V I+++ ++ + ++ ++P + ++ +
Sbjct: 237 FRVIP-LVREVGRTKLEVKVVIKSNFKPSLLAQKIEVRIPTPLNTSGVQVICMKGKAKYK 295
Query: 342 VLSNKICTWSIGRIPKDKAPSLSGTM-VLETGLETLRVFP----TFQVEFRIMGVALSGL 396
N I W I R+ K +S + +L T + P F+V F G+ + L
Sbjct: 296 ASENAI-VWKIKRMAGMKESQISAEIELLPTNDKKKWARPPISMNFEVPFAPSGLKVRYL 354
Query: 397 QIDKLDLQNVPNRLYKGFRAVTRAGEYEVR 426
++ + L + + K R + R+G YE R
Sbjct: 355 KVFEPKLNYSDHDVIKWVRYIGRSGIYETR 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 = 60.8 bits (146), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 54/220 (24%), Positives = 96/220 (43%), Gaps = 33/220 (15%)
Query: 156 SDILPGATASCVPWRPTDVKYANNEVYVDLVEEMDAIINSTKQFSLLHARFRDGVLVKCE 215
S + P + AS + NEV++D+VE + +I S +G L+K +
Sbjct: 10 SKVAPSSAASRPVLSSRSDQSQKNEVFLDVVERLSVLIAS------------NGSLLKVD 57
Query: 216 IYGEVQVNCLLSGLPD----LTLSFA---------NPSI-LHDVRFHPCVRFRPWESHQI 261
+ GE+++ L + LT F+ P I + +V FH V +ESH+I
Sbjct: 58 VQGEIRLKSFLPSGSEMRIGLTEEFSVGKSELRGYGPGIRVDEVSFHSSVNLDEFESHRI 117
Query: 262 LSFVPPDGQFKLMSYRVKKLKSTPIYVK--PQLTSDAGTCRISVMVGIRNDPGKTIDSII 319
L PP G+ +M Y++ +P+ + P + D G+ R+ V + +R D ++
Sbjct: 118 LRLQPPQGELTVMRYQLSDDLPSPLPFRLFPSVQWDRGSGRLQVYLKLRCDLLSKSQALN 177
Query: 320 LQFQLP----PCILSADLTSNHGTVNVLSNKICTWSIGRI 355
++ LP LS +L+S L+ W + R+
Sbjct: 178 VRLHLPLPRGVVSLSQELSSPEQKAE-LAEGALRWDLPRV 216
>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 = 0.80, Method: Composition-based stats.
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 = 0.85, Method: Compositional matrix adjust.
Identities = 32/119 (26%), Positives = 50/119 (42%), Gaps = 7/119 (5%)
Query: 253 FRPWESHQILSFVPPDGQFKLMSYRVKKLK---STPIYVKPQLTSDAGTCRISVMVGIRN 309
FRPW Q F + K +K + S + D+ R+ VG+
Sbjct: 92 FRPWTIRQYAGFSTVEESNKFYKDNIKAGQQGLSVAFDLATHRGYDSDNPRVRGDVGMAG 151
Query: 310 DPGKTI-DSIILQFQLPPCILSADLTSNHGTVNVLSNKICTWSIGRIPKDKAPSLSGTM 367
T+ D+ IL +P +S +T N + VL+N I T +PK+K L+GT+
Sbjct: 152 VAIDTVEDTKILFDGIPLEKMSVSMTMNGAVIPVLANFIVTGEEQGVPKEK---LTGTI 207
>pdb|3O21|A Chain A, High Resolution Structure Of Glua3 N-Terminal Domain (Ntd)
pdb|3O21|B Chain B, High Resolution Structure Of Glua3 N-Terminal Domain (Ntd)
pdb|3O21|C Chain C, High Resolution Structure Of Glua3 N-Terminal Domain (Ntd)
pdb|3O21|D Chain D, High Resolution Structure Of Glua3 N-Terminal Domain (Ntd)
pdb|3P3W|A Chain A, Structure Of A Dimeric Glua3 N-Terminal Domain (Ntd) At
4.2 A Resolution
pdb|3P3W|B Chain B, Structure Of A Dimeric Glua3 N-Terminal Domain (Ntd) At
4.2 A Resolution
pdb|3P3W|C Chain C, Structure Of A Dimeric Glua3 N-Terminal Domain (Ntd) At
4.2 A Resolution
pdb|3P3W|D Chain D, Structure Of A Dimeric Glua3 N-Terminal Domain (Ntd) At
4.2 A Resolution
Length = 389
Score = 30.0 bits (66), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 22/76 (28%), Positives = 34/76 (44%), Gaps = 3/76 (3%)
Query: 193 INSTKQFSLLHA---RFRDGVLVKCEIYGEVQVNCLLSGLPDLTLSFANPSILHDVRFHP 249
++S+ FS+ +A +F GV Y ++ +N L S L SF PS D
Sbjct: 50 LDSSNSFSVTNAFCSQFSRGVYAIFGFYDQMSMNTLTSFCGALHTSFVTPSFPTDADVQF 109
Query: 250 CVRFRPWESHQILSFV 265
++ RP ILS +
Sbjct: 110 VIQMRPALKGAILSLL 125
>pdb|3O2J|A Chain A, Structure Of The Glua2 Ntd-Dimer Interface Mutant, N54a
pdb|3O2J|B Chain B, Structure Of The Glua2 Ntd-Dimer Interface Mutant, N54a
Length = 388
Score = 28.9 bits (63), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 30/123 (24%), Positives = 52/123 (42%), Gaps = 9/123 (7%)
Query: 148 VTGNSSNVSDILP-GATASCVPWRPTDVKYANNEV----YVDLVEEMDAIINSTKQFSLL 202
V+ NS + + P GA +R V+++ +E ++D +E + NS +
Sbjct: 1 VSSNSIQIGGLFPRGADQEYSAFRVGMVQFSTSEFRLTPHIDNLE----VANSFAVTAAF 56
Query: 203 HARFRDGVLVKCEIYGEVQVNCLLSGLPDLTLSFANPSILHDVRFHPCVRFRPWESHQIL 262
++F GV Y + VN + S L +SF PS D ++ RP +L
Sbjct: 57 CSQFSRGVYAIFGFYDKKSVNTITSFCGTLHVSFITPSFPTDGTHPFVIQMRPDLKGALL 116
Query: 263 SFV 265
S +
Sbjct: 117 SLI 119
>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 = 5.3, 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
>pdb|3H5V|A Chain A, Crystal Structure Of The Glur2-atd
pdb|3H5V|B Chain B, Crystal Structure Of The Glur2-atd
pdb|3H5V|C Chain C, Crystal Structure Of The Glur2-atd
pdb|3H5W|A Chain A, Crystal Structure Of The Glur2-Atd In Space Group P212121
Without Solvent
pdb|3H5W|B Chain B, Crystal Structure Of The Glur2-Atd In Space Group P212121
Without Solvent
Length = 394
Score = 28.9 bits (63), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 30/123 (24%), Positives = 52/123 (42%), Gaps = 9/123 (7%)
Query: 148 VTGNSSNVSDILP-GATASCVPWRPTDVKYANNEV----YVDLVEEMDAIINSTKQFSLL 202
V+ NS + + P GA +R V+++ +E ++D +E + NS +
Sbjct: 6 VSSNSIQIGGLFPRGADQEYSAFRVGMVQFSTSEFRLTPHIDNLE----VANSFAVTNAF 61
Query: 203 HARFRDGVLVKCEIYGEVQVNCLLSGLPDLTLSFANPSILHDVRFHPCVRFRPWESHQIL 262
++F GV Y + VN + S L +SF PS D ++ RP +L
Sbjct: 62 CSQFSRGVYAIFGFYDKKSVNTITSFCGTLHVSFITPSFPTDGTHPFVIQMRPDLKGALL 121
Query: 263 SFV 265
S +
Sbjct: 122 SLI 124
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 0.139 0.423
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,371,232
Number of Sequences: 62578
Number of extensions: 499545
Number of successful extensions: 1105
Number of sequences better than 100.0: 24
Number of HSP's better than 100.0 without gapping: 15
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 1063
Number of HSP's gapped (non-prelim): 25
length of query: 427
length of database: 14,973,337
effective HSP length: 102
effective length of query: 325
effective length of database: 8,590,381
effective search space: 2791873825
effective search space used: 2791873825
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 53 (25.0 bits)