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= 018183
(359 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 346 bits (888), Expect = 1e-95, Method: Compositional matrix adjust.
Identities = 166/355 (46%), Positives = 240/355 (67%), Gaps = 6/355 (1%)
Query: 7 AIYFLNLRGDVLINRLYRDDVGGNMVDAFRTHIMQTKELGTCPVRQIGGCSFFYMRXXXX 66
++ N +G+VLI+R+YRDD+G N VDAFR +++ ++ PV I SFF+++
Sbjct: 4 GLFIYNHKGEVLISRVYRDDIGRNAVDAFRVNVIHARQQVRSPVTNIARTSFFHVKRSNI 63
Query: 67 XXXXXXXXXXXXXXXFKFVVEAVALFKSYFGGAFDEDAIRNNFVLIYELLDEIMDFGYPQ 126
F+F+ + + +YFG E+ I+NNFVLIYELLDEI+DFGYPQ
Sbjct: 64 WLAAVTKQNVNAAMVFEFLYKMCDVMAAYFG-KISEENIKNNFVLIYELLDEILDFGYPQ 122
Query: 127 NLSPEILKLYITQEGVRSPFSSKPTDRPVPNATLQVTGAVGWRREGLVYKKNEVFLDIVE 186
N LK +ITQ+G++S +K + T QVTG +GWRREG+ Y++NE+FLD++E
Sbjct: 123 NSETGALKTFITQQGIKSQHQTKEEQSQI---TSQVTGQIGWRREGIKYRRNELFLDVLE 179
Query: 187 SVNLLMSSKGSVLRCDVTGKILMKCFLSGMPDLKLGLNDKIGLEKESQLKSRPT-KSGK- 244
SVNLLMS +G VL V+G+++MK +LSGMP+ K G+NDKI +EK+ + + T KSGK
Sbjct: 180 SVNLLMSPQGQVLSAHVSGRVVMKSYLSGMPECKFGMNDKIVIEKQGKGTADETSKSGKQ 239
Query: 245 TIELDDVTFHQCVNLTRFNSEKTVSFVPPDGEFELMKYRITEGVNLPFRVLPTIKELGRT 304
+I +DD TFHQCV L++F+SE+++SF+PPDGEFELM+YR T+ + LPFRV+P ++E+GRT
Sbjct: 240 SIAIDDCTFHQCVRLSKFDSERSISFIPPDGEFELMRYRTTKDIILPFRVIPLVREVGRT 299
Query: 305 RMEVNVKIKSVFGAKMFALGVVIKIPVPKQTAKTSFQVTSGRAKYNASIDCLVWK 359
++EV V IKS F + A + ++IP P T+ G+AKY AS + +VWK
Sbjct: 300 KLEVKVVIKSNFKPSLLAQKIEVRIPTPLNTSGVQVICMKGKAKYKASENAIVWK 354
>pdb|2XA7|M Chain M, Ap2 Clathrin Adaptor Core In Active Complex With Cargo
Peptides
Length = 446
Score = 340 bits (873), Expect = 5e-94, Method: Compositional matrix adjust.
Identities = 164/366 (44%), Positives = 237/366 (64%), Gaps = 17/366 (4%)
Query: 7 AIYFLNLRGDVLINRLYRDDVGGNMVDAFRTHIMQTKELGTCPVRQIGGCSFFYMRXXXX 66
++ N +G+VLI+R+YRDD+G N VDAFR +++ ++ PV I SFF+++
Sbjct: 4 GLFIYNHKGEVLISRVYRDDIGRNAVDAFRVNVIHARQQVRSPVTNIARTSFFHVKRSNI 63
Query: 67 XXXXXXXXXXXXXXXFKFVVEAVALFKSYFGGAFDEDAIRNNFVLIYELLDEIMDFGYPQ 126
F+F+ + + +YFG E+ I+NNFVLIYELLDEI+DFGYPQ
Sbjct: 64 WLAAVTKQNVNAAMVFEFLYKMCDVMAAYFG-KISEENIKNNFVLIYELLDEILDFGYPQ 122
Query: 127 NLSPEILKLYITQEGVRSPFSSKPTDRPVPNATLQVTGAVGWRREGLVYKKNEVFLDIVE 186
N LK +ITQ+G++S +K + T QVTG +GWRREG+ Y++NE+FLD++E
Sbjct: 123 NSETGALKTFITQQGIKSQHQTKEEQSQI---TSQVTGQIGWRREGIKYRRNELFLDVLE 179
Query: 187 SVNLLMSSKGSVLRCDVTGKILMKCFLSGMPDLKLGLNDKIGLEK-------------ES 233
SVNLLMS +G VL V+G+++MK +LSGMP+ K G+NDKI +EK E
Sbjct: 180 SVNLLMSPQGQVLSAHVSGRVVMKSYLSGMPECKFGMNDKIVIEKQGKGTADETSKSMEQ 239
Query: 234 QLKSRPTKSGKTIELDDVTFHQCVNLTRFNSEKTVSFVPPDGEFELMKYRITEGVNLPFR 293
+L S ++I +DD TFHQCV L++F+SE+++SF+PPDGEFELM+YR T+ + LPFR
Sbjct: 240 KLISEEDLGKQSIAIDDCTFHQCVRLSKFDSERSISFIPPDGEFELMRYRTTKDIILPFR 299
Query: 294 VLPTIKELGRTRMEVNVKIKSVFGAKMFALGVVIKIPVPKQTAKTSFQVTSGRAKYNASI 353
V+P ++E+GRT++EV V IKS F + A + ++IP P T+ G+AKY AS
Sbjct: 300 VIPLVREVGRTKLEVKVVIKSNFKPSLLAQKIEVRIPTPLNTSGVQVICMKGKAKYKASE 359
Query: 354 DCLVWK 359
+ +VWK
Sbjct: 360 NAIVWK 365
>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 = 286 bits (732), Expect = 1e-77, Method: Compositional matrix adjust.
Identities = 155/357 (43%), Positives = 217/357 (60%), Gaps = 15/357 (4%)
Query: 3 VAASAIYFLNLRGDVLINRLYRDDVGGNMVDAFRTHIMQTKELGT-CPVRQIGGCSFFYM 61
++ASA+Y L+L+G VLI R YR DV + V+ F +M+ +E G P+ GG F ++
Sbjct: 1 MSASAVYVLDLKGKVLICRNYRGDVDMSEVEHFMPILMEKEEEGMLSPILAHGGVRFMWI 60
Query: 62 RXXXXXXXXXXXXXXXXXXXFKFVVEAVALFKSYFGGAFDEDAIRNNFVLIYELLDEIMD 121
+ F F+ + V +F YF +E++IR+NFV+IYELLDE+MD
Sbjct: 61 KHNNLYLVATSKKNACVSLVFSFLYKVVQVFSEYFK-ELEEESIRDNFVIIYELLDELMD 119
Query: 122 FGYPQNLSPEILKLYITQEGVRSPFSSKPTDRPVPNATLQVTGAVGWRREGLVYKKNEVF 181
FGYPQ +IL+ +ITQEG + T P P AT VT AV WR EG+ Y+KNEVF
Sbjct: 120 FGYPQTTDSKILQEFITQEGHKLE-----TGAPRPPAT--VTNAVSWRSEGIKYRKNEVF 172
Query: 182 LDIVESVNLLMSSKGSVLRCDVTGKILMKCFLSGMPDLKLGLNDKIGLEKESQLKSRPTK 241
LD++E+VNLL+S+ G+VLR ++ G I M+ FLSGMP+L+LGLNDK+ + + KS
Sbjct: 173 LDVIEAVNLLVSANGNVLRSEIVGSIKMRVFLSGMPELRLGLNDKVLFDNTGRGKS---- 228
Query: 242 SGKTIELDDVTFHQCVNLTRFNSEKTVSFVPPDGEFELMKYRITEGVNLPFRVLPTIKEL 301
K++EL+DV FHQCV L+RF +++T+SF+PPDGEFELM YR+ V + I++
Sbjct: 229 --KSVELEDVKFHQCVRLSRFENDRTISFIPPDGEFELMSYRLNTHVKPLIWIESVIEKH 286
Query: 302 GRTRMEVNVKIKSVFGAKMFALGVVIKIPVPKQTAKTSFQVTSGRAKYNASIDCLVW 358
+R+E VK KS F + A V I IPVP F+ T G K+ +VW
Sbjct: 287 SHSRIEYMVKAKSQFKRRSTANNVEIHIPVPNDADSPKFKTTVGSVKWVPENSEIVW 343
>pdb|1BW8|A Chain A, Mu2 Adaptin Subunit (Ap50) Of Ap2 Adaptor (Second Domain),
Complexed With Egfr Internalization Peptide Fyralm
Length = 321
Score = 246 bits (629), Expect = 1e-65, Method: Compositional matrix adjust.
Identities = 118/236 (50%), Positives = 169/236 (71%), Gaps = 5/236 (2%)
Query: 126 QNLSPEILKLYITQEGVRSPFSSKPTDRPVPNATLQVTGAVGWRREGLVYKKNEVFLDIV 185
QN LK +ITQ+G++S +K + T QVTG +GWRREG+ Y++NE+FLD++
Sbjct: 8 QNSETGALKTFITQQGIKSQHQTKEEQSQI---TSQVTGQIGWRREGIKYRRNELFLDVL 64
Query: 186 ESVNLLMSSKGSVLRCDVTGKILMKCFLSGMPDLKLGLNDKIGLEKESQLKSRPT-KSGK 244
ESVNLLMS +G VL V+G+++MK +LSGMP+ K G+NDKI +EK+ + + T KSGK
Sbjct: 65 ESVNLLMSPQGQVLSAHVSGRVVMKSYLSGMPECKFGMNDKIVIEKQGKGTADETSKSGK 124
Query: 245 -TIELDDVTFHQCVNLTRFNSEKTVSFVPPDGEFELMKYRITEGVNLPFRVLPTIKELGR 303
+I +DD TFHQCV L++F+SE+++SF+PPDGEFELM+YR T+ + LPFRV+P ++E+GR
Sbjct: 125 QSIAIDDCTFHQCVRLSKFDSERSISFIPPDGEFELMRYRTTKDIILPFRVIPLVREVGR 184
Query: 304 TRMEVNVKIKSVFGAKMFALGVVIKIPVPKQTAKTSFQVTSGRAKYNASIDCLVWK 359
T++EV V IKS F + A + ++IP P T+ G+AKY AS + +VWK
Sbjct: 185 TKLEVKVVIKSNFKPSLLAQKIEVRIPTPLNTSGVQVICMKGKAKYKASENAIVWK 240
>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 = 246 bits (628), Expect = 1e-65, Method: Compositional matrix adjust.
Identities = 118/236 (50%), Positives = 169/236 (71%), Gaps = 5/236 (2%)
Query: 126 QNLSPEILKLYITQEGVRSPFSSKPTDRPVPNATLQVTGAVGWRREGLVYKKNEVFLDIV 185
QN LK +ITQ+G++S +K + T QVTG +GWRREG+ Y++NE+FLD++
Sbjct: 1 QNSETGALKTFITQQGIKSQHQTKEEQSQI---TSQVTGQIGWRREGIKYRRNELFLDVL 57
Query: 186 ESVNLLMSSKGSVLRCDVTGKILMKCFLSGMPDLKLGLNDKIGLEKESQLKSRPT-KSGK 244
ESVNLLMS +G VL V+G+++MK +LSGMP+ K G+NDKI +EK+ + + T KSGK
Sbjct: 58 ESVNLLMSPQGQVLSAHVSGRVVMKSYLSGMPECKFGMNDKIVIEKQGKGTADETSKSGK 117
Query: 245 -TIELDDVTFHQCVNLTRFNSEKTVSFVPPDGEFELMKYRITEGVNLPFRVLPTIKELGR 303
+I +DD TFHQCV L++F+SE+++SF+PPDGEFELM+YR T+ + LPFRV+P ++E+GR
Sbjct: 118 QSIAIDDCTFHQCVRLSKFDSERSISFIPPDGEFELMRYRTTKDIILPFRVIPLVREVGR 177
Query: 304 TRMEVNVKIKSVFGAKMFALGVVIKIPVPKQTAKTSFQVTSGRAKYNASIDCLVWK 359
T++EV V IKS F + A + ++IP P T+ G+AKY AS + +VWK
Sbjct: 178 TKLEVKVVIKSNFKPSLLAQKIEVRIPTPLNTSGVQVICMKGKAKYKASENAIVWK 233
>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 = 224 bits (570), Expect = 8e-59, Method: Compositional matrix adjust.
Identities = 103/196 (52%), Positives = 148/196 (75%), Gaps = 2/196 (1%)
Query: 166 VGWRREGLVYKKNEVFLDIVESVNLLMSSKGSVLRCDVTGKILMKCFLSGMPDLKLGLND 225
+GWRREG+ Y++NE+FLD++ESVNLLMS +G VL V+G+++MK +LSGMP+ K G+ND
Sbjct: 9 IGWRREGIKYRRNELFLDVLESVNLLMSPQGQVLSAHVSGRVVMKSYLSGMPECKFGMND 68
Query: 226 KIGLEKESQLKSRPT-KSGK-TIELDDVTFHQCVNLTRFNSEKTVSFVPPDGEFELMKYR 283
KI +EK+ + + T KSGK +I +DD TFHQCV L++F+SE+++SF+PPDGEFELM+YR
Sbjct: 69 KIVIEKQGKGTADETSKSGKQSIAIDDCTFHQCVRLSKFDSERSISFIPPDGEFELMRYR 128
Query: 284 ITEGVNLPFRVLPTIKELGRTRMEVNVKIKSVFGAKMFALGVVIKIPVPKQTAKTSFQVT 343
T+ + LPFRV+P ++E+GRT++EV V IKS F + A + ++IP P T+
Sbjct: 129 TTKDIILPFRVIPLVREVGRTKLEVKVVIKSNFKPSLLAQKIEVRIPTPLNTSGVQVICM 188
Query: 344 SGRAKYNASIDCLVWK 359
G+AKY AS + +VWK
Sbjct: 189 KGKAKYKASENAIVWK 204
>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 = 224 bits (570), Expect = 8e-59, Method: Compositional matrix adjust.
Identities = 103/196 (52%), Positives = 148/196 (75%), Gaps = 2/196 (1%)
Query: 166 VGWRREGLVYKKNEVFLDIVESVNLLMSSKGSVLRCDVTGKILMKCFLSGMPDLKLGLND 225
+GWRREG+ Y++NE+FLD++ESVNLLMS +G VL V+G+++MK +LSGMP+ K G+ND
Sbjct: 23 IGWRREGIKYRRNELFLDVLESVNLLMSPQGQVLSAHVSGRVVMKSYLSGMPECKFGMND 82
Query: 226 KIGLEKESQLKSRPT-KSGK-TIELDDVTFHQCVNLTRFNSEKTVSFVPPDGEFELMKYR 283
KI +EK+ + + T KSGK +I +DD TFHQCV L++F+SE+++SF+PPDGEFELM+YR
Sbjct: 83 KIVIEKQGKGTADETSKSGKQSIAIDDCTFHQCVRLSKFDSERSISFIPPDGEFELMRYR 142
Query: 284 ITEGVNLPFRVLPTIKELGRTRMEVNVKIKSVFGAKMFALGVVIKIPVPKQTAKTSFQVT 343
T+ + LPFRV+P ++E+GRT++EV V IKS F + A + ++IP P T+
Sbjct: 143 TTKDIILPFRVIPLVREVGRTKLEVKVVIKSNFKPSLLAQKIEVRIPTPLNTSGVQVICM 202
Query: 344 SGRAKYNASIDCLVWK 359
G+AKY AS + +VWK
Sbjct: 203 KGKAKYKASENAIVWK 218
>pdb|1H6E|A Chain A, Mu2 Adaptin Subunit (Ap50) Of Ap2 Adaptor (Second Domain),
Complexed With Ctla-4 Internalization Peptide
Ttgvyvkmppt
Length = 288
Score = 211 bits (538), Expect = 3e-55, Method: Compositional matrix adjust.
Identities = 99/191 (51%), Positives = 143/191 (74%), Gaps = 2/191 (1%)
Query: 171 EGLVYKKNEVFLDIVESVNLLMSSKGSVLRCDVTGKILMKCFLSGMPDLKLGLNDKIGLE 230
EG+ Y++NE+FLD++ESVNLLMS +G VL V+G+++MK +LSGMP+ K G+NDKI +E
Sbjct: 17 EGIKYRRNELFLDVLESVNLLMSPQGQVLSAHVSGRVVMKSYLSGMPECKFGMNDKIVIE 76
Query: 231 KESQLKSRPT-KSGK-TIELDDVTFHQCVNLTRFNSEKTVSFVPPDGEFELMKYRITEGV 288
K+ + + T KSGK +I +DD TFHQCV L++F+SE+++SF+PPDGEFELM+YR T+ +
Sbjct: 77 KQGKGTADETSKSGKQSIAIDDCTFHQCVRLSKFDSERSISFIPPDGEFELMRYRTTKDI 136
Query: 289 NLPFRVLPTIKELGRTRMEVNVKIKSVFGAKMFALGVVIKIPVPKQTAKTSFQVTSGRAK 348
LPFRV+P ++E+GRT++EV V IKS F + A + ++IP P T+ G+AK
Sbjct: 137 ILPFRVIPLVREVGRTKLEVKVVIKSNFKPSLLAQKIEVRIPTPLNTSGVQVICMKGKAK 196
Query: 349 YNASIDCLVWK 359
Y AS + +VWK
Sbjct: 197 YKASENAIVWK 207
>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 = 204 bits (520), Expect = 4e-53, Method: Compositional matrix adjust.
Identities = 96/185 (51%), Positives = 138/185 (74%), Gaps = 2/185 (1%)
Query: 177 KNEVFLDIVESVNLLMSSKGSVLRCDVTGKILMKCFLSGMPDLKLGLNDKIGLEKESQLK 236
+NE+FLD++ESVNLLMS +G VL V+G+++MK +LSGMP+ K G+NDKI +EK+ +
Sbjct: 120 RNELFLDVLESVNLLMSPQGQVLSAHVSGRVVMKSYLSGMPECKFGMNDKIVIEKQGKGT 179
Query: 237 SRPT-KSGK-TIELDDVTFHQCVNLTRFNSEKTVSFVPPDGEFELMKYRITEGVNLPFRV 294
+ T KSGK +I +DD TFHQCV L++F+SE+++SF+PPDGEFELM+YR T+ + LPFRV
Sbjct: 180 ADETSKSGKQSIAIDDCTFHQCVRLSKFDSERSISFIPPDGEFELMRYRTTKDIILPFRV 239
Query: 295 LPTIKELGRTRMEVNVKIKSVFGAKMFALGVVIKIPVPKQTAKTSFQVTSGRAKYNASID 354
+P ++E+GRT++EV V IKS F + A + ++IP P T+ G+AKY AS +
Sbjct: 240 IPLVREVGRTKLEVKVVIKSNFKPSLLAQKIEVRIPTPLNTSGVQVICMKGKAKYKASEN 299
Query: 355 CLVWK 359
+VWK
Sbjct: 300 AIVWK 304
>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 = 181 bits (459), Expect = 5e-46, Method: Compositional matrix adjust.
Identities = 89/192 (46%), Positives = 124/192 (64%), Gaps = 6/192 (3%)
Query: 167 GWRREGLVYKKNEVFLDIVESVNLLMSSKGSVLRCDVTGKILMKCFLSGMPDLKLGLNDK 226
WR EG+ Y+KNEVFLD++E+VNLL+S+ G+VLR ++ G I M+ FLSGMP+L+LGLNDK
Sbjct: 1 SWRSEGIKYRKNEVFLDVIEAVNLLVSANGNVLRSEIVGSIKMRVFLSGMPELRLGLNDK 60
Query: 227 IGLEKESQLKSRPTKSGKTIELDDVTFHQCVNLTRFNSEKTVSFVPPDGEFELMKYRITE 286
+ + + KS K++EL+DV FHQCV L+RF +++T+SF+PPDGEFELM YR+
Sbjct: 61 VLFDNTGRGKS------KSVELEDVKFHQCVRLSRFENDRTISFIPPDGEFELMSYRLNT 114
Query: 287 GVNLPFRVLPTIKELGRTRMEVNVKIKSVFGAKMFALGVVIKIPVPKQTAKTSFQVTSGR 346
V + I++ +R+E VK KS F + A V I IPVP F+ T G
Sbjct: 115 HVKPLIWIESVIEKHSHSRIEYMVKAKSQFKRRSTANNVEIHIPVPNDADSPKFKTTVGS 174
Query: 347 AKYNASIDCLVW 358
K+ +VW
Sbjct: 175 VKWVPENSEIVW 186
>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 = 174 bits (442), Expect = 5e-44, Method: Compositional matrix adjust.
Identities = 86/192 (44%), Positives = 121/192 (63%), Gaps = 6/192 (3%)
Query: 167 GWRREGLVYKKNEVFLDIVESVNLLMSSKGSVLRCDVTGKILMKCFLSGMPDLKLGLNDK 226
WR EG+ Y+KNEVFLD++E+VNLL+S+ G+VLR ++ G I + FLSG P+L+LGLNDK
Sbjct: 1 SWRSEGIKYRKNEVFLDVIEAVNLLVSANGNVLRSEIVGSIKXRVFLSGXPELRLGLNDK 60
Query: 227 IGLEKESQLKSRPTKSGKTIELDDVTFHQCVNLTRFNSEKTVSFVPPDGEFELMKYRITE 286
+ + + KS K++EL+DV FHQCV L+RF +++T+SF+PPDGEFEL YR+
Sbjct: 61 VLFDNTGRGKS------KSVELEDVKFHQCVRLSRFENDRTISFIPPDGEFELXSYRLNT 114
Query: 287 GVNLPFRVLPTIKELGRTRMEVNVKIKSVFGAKMFALGVVIKIPVPKQTAKTSFQVTSGR 346
V + I++ +R+E VK KS F + A V I IPVP F+ T G
Sbjct: 115 HVKPLIWIESVIEKHSHSRIEYXVKAKSQFKRRSTANNVEIHIPVPNDADSPKFKTTVGS 174
Query: 347 AKYNASIDCLVW 358
K+ +VW
Sbjct: 175 VKWVPENSEIVW 186
>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 = 119 bits (298), Expect = 3e-27, Method: Compositional matrix adjust.
Identities = 63/186 (33%), Positives = 114/186 (61%), Gaps = 8/186 (4%)
Query: 176 KKNEVFLDIVESVNLLMSSKGSVLRCDVTGKILMKCFLSGMPDLKLGLNDKIGLEKESQL 235
+KNEVFLD+VE +++L++S GS+L+ DV G+I +K FL ++++GL ++ + K S+L
Sbjct: 31 QKNEVFLDVVERLSVLIASNGSLLKVDVQGEIRLKSFLPSGSEMRIGLTEEFSVGK-SEL 89
Query: 236 KSRPTKSGKTIELDDVTFHQCVNLTRFNSEKTVSFVPPDGEFELMKYRITEGV--NLPFR 293
+ G I +D+V+FH VNL F S + + PP GE +M+Y++++ + LPFR
Sbjct: 90 RGY----GPGIRVDEVSFHSSVNLDEFESHRILRLQPPQGELTVMRYQLSDDLPSPLPFR 145
Query: 294 VLPTIK-ELGRTRMEVNVKIKSVFGAKMFALGVVIKIPVPKQTAKTSFQVTSGRAKYNAS 352
+ P+++ + G R++V +K++ +K AL V + +P+P+ S +++S K +
Sbjct: 146 LFPSVQWDRGSGRLQVYLKLRCDLLSKSQALNVRLHLPLPRGVVSLSQELSSPEQKAELA 205
Query: 353 IDCLVW 358
L W
Sbjct: 206 EGALRW 211
>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 = 96.3 bits (238), Expect = 2e-20, Method: Compositional matrix adjust.
Identities = 59/199 (29%), Positives = 94/199 (47%), Gaps = 28/199 (14%)
Query: 166 VGWRREGLVYKKNEVFLDIVESVNLLMSSKGSVLRCDVTGKILMKCFLSGMPDLKLG-LN 224
+ WRR G+ Y NE + D+VE ++ ++ GS + ++ G I LSGMPDL L +N
Sbjct: 8 IPWRRAGVKYTNNEAYFDVVEEIDAIIDKSGSTVFAEIQGVIDACIKLSGMPDLSLSFMN 67
Query: 225 DKIGLEKESQLKSRPTKSGKTIELDDVTFHQCVNLTRFNSEKTVSFVPPDGEFELMKYRI 284
++ LDDV+FH C+ R+ SE+ +SF+PPDG F L+ YR+
Sbjct: 68 PRL--------------------LDDVSFHPCIRFKRWESERVLSFIPPDGNFRLISYRV 107
Query: 285 TEG--VNLPFRVLPTI--KELGRT-RMEVNVKIKSVFGAKMFALGVVIKIPVPKQTAKTS 339
+ V +P V I KE R ++ + K G + G+ + + +PK +
Sbjct: 108 SSQNLVAIPVYVKHNISFKENSSCGRFDITIGPKQNMGKTI--EGITVTVHMPKVVLNMN 165
Query: 340 FQVTSGRAKYNASIDCLVW 358
T G ++ L W
Sbjct: 166 LTPTQGSYTFDPVTKVLAW 184
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
0.322 0.139 0.409
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,597,250
Number of Sequences: 62578
Number of extensions: 374493
Number of successful extensions: 740
Number of sequences better than 100.0: 13
Number of HSP's better than 100.0 without gapping: 13
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 705
Number of HSP's gapped (non-prelim): 13
length of query: 359
length of database: 14,973,337
effective HSP length: 100
effective length of query: 259
effective length of database: 8,715,537
effective search space: 2257324083
effective search space used: 2257324083
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 52 (24.6 bits)