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= 021678
(309 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 441 bits (1135), Expect = e-124, Method: Compositional matrix adjust.
Identities = 198/308 (64%), Positives = 256/308 (83%), Gaps = 4/308 (1%)
Query: 1 MMDFGYPQYTEANILSEFIKTDAYRMEV-TQRPPMAVTNAVSWRSEGIQYKKNEVFLDVV 59
+MDFGYPQ T++ IL EFI + +++E RPP VTNAVSWRSEGI+Y+KNEVFLDV+
Sbjct: 117 LMDFGYPQTTDSKILQEFITQEGHKLETGAPRPPATVTNAVSWRSEGIKYRKNEVFLDVI 176
Query: 60 EHVNILVNSNGQIIRSDVVGALKMRTYLSGMPECKLGLNDRILLEAQGRSTKGKAIDLDD 119
E VN+LV++NG ++RS++VG++KMR +LSGMPE +LGLND++L + GR K K+++L+D
Sbjct: 177 EAVNLLVSANGNVLRSEIVGSIKMRVFLSGMPELRLGLNDKVLFDNTGRG-KSKSVELED 235
Query: 120 IKFHQCVRLARFENDRTISFIPPDGSFDLMTYRLNTQVKPLIWVEAQVERHSRSRVEILV 179
+KFHQCVRL+RFENDRTISFIPPDG F+LM+YRLNT VKPLIW+E+ +E+HS SR+E +V
Sbjct: 236 VKFHQCVRLSRFENDRTISFIPPDGEFELMSYRLNTHVKPLIWIESVIEKHSHSRIEYMV 295
Query: 180 KARSQFKERSTATNVEIELPVSSDASNPDVRTSMGSASYVPEDEALIWKIRSFPGGKEYM 239
KA+SQFK RSTA NVEI +PV +DA +P +T++GS +VPE+ ++W ++SFPGGKEY+
Sbjct: 296 KAKSQFKRRSTANNVEIHIPVPNDADSPKFKTTVGSVKWVPENSEIVWSVKSFPGGKEYL 355
Query: 240 LRAEFTLPSITAEEATPERKAPIRVKFEIPYFTVSGIQVRYLKIIEKSGYHALPWVRYIT 299
+RA F LPS+ AE+ E K PI VKFEIPYFT SGIQVRYLKIIEKSGY A+PWVRYIT
Sbjct: 356 MRAHFGLPSVEAEDK--EGKPPISVKFEIPYFTTSGIQVRYLKIIEKSGYQAIPWVRYIT 413
Query: 300 MAGEYELR 307
G+Y+LR
Sbjct: 414 QNGDYQLR 421
>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 = 396 bits (1017), Expect = e-110, Method: Compositional matrix adjust.
Identities = 177/267 (66%), Positives = 227/267 (85%), Gaps = 3/267 (1%)
Query: 41 SWRSEGIQYKKNEVFLDVVEHVNILVNSNGQIIRSDVVGALKMRTYLSGMPECKLGLNDR 100
SWRSEGI+Y+KNEVFLDV+E VN+LV++NG ++RS++VG++KMR +LSGMPE +LGLND+
Sbjct: 1 SWRSEGIKYRKNEVFLDVIEAVNLLVSANGNVLRSEIVGSIKMRVFLSGMPELRLGLNDK 60
Query: 101 ILLEAQGRSTKGKAIDLDDIKFHQCVRLARFENDRTISFIPPDGSFDLMTYRLNTQVKPL 160
+L + GR K K+++L+D+KFHQCVRL+RFENDRTISFIPPDG F+LM+YRLNT VKPL
Sbjct: 61 VLFDNTGRG-KSKSVELEDVKFHQCVRLSRFENDRTISFIPPDGEFELMSYRLNTHVKPL 119
Query: 161 IWVEAQVERHSRSRVEILVKARSQFKERSTATNVEIELPVSSDASNPDVRTSMGSASYVP 220
IW+E+ +E+HS SR+E +VKA+SQFK RSTA NVEI +PV +DA +P +T++GS +VP
Sbjct: 120 IWIESVIEKHSHSRIEYMVKAKSQFKRRSTANNVEIHIPVPNDADSPKFKTTVGSVKWVP 179
Query: 221 EDEALIWKIRSFPGGKEYMLRAEFTLPSITAEEATPERKAPIRVKFEIPYFTVSGIQVRY 280
E+ ++W ++SFPGGKEY++RA F LPS+ AE+ E K PI VKFEIPYFT SGIQVRY
Sbjct: 180 ENSEIVWSVKSFPGGKEYLMRAHFGLPSVEAEDK--EGKPPISVKFEIPYFTTSGIQVRY 237
Query: 281 LKIIEKSGYHALPWVRYITMAGEYELR 307
LKIIEKSGY ALPWVRYIT G+Y+LR
Sbjct: 238 LKIIEKSGYQALPWVRYITQNGDYQLR 264
>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 = 385 bits (990), Expect = e-107, Method: Compositional matrix adjust.
Identities = 174/267 (65%), Positives = 222/267 (83%), Gaps = 3/267 (1%)
Query: 41 SWRSEGIQYKKNEVFLDVVEHVNILVNSNGQIIRSDVVGALKMRTYLSGMPECKLGLNDR 100
SWRSEGI+Y+KNEVFLDV+E VN+LV++NG ++RS++VG++K R +LSG PE +LGLND+
Sbjct: 1 SWRSEGIKYRKNEVFLDVIEAVNLLVSANGNVLRSEIVGSIKXRVFLSGXPELRLGLNDK 60
Query: 101 ILLEAQGRSTKGKAIDLDDIKFHQCVRLARFENDRTISFIPPDGSFDLMTYRLNTQVKPL 160
+L + GR K K+++L+D+KFHQCVRL+RFENDRTISFIPPDG F+L +YRLNT VKPL
Sbjct: 61 VLFDNTGRG-KSKSVELEDVKFHQCVRLSRFENDRTISFIPPDGEFELXSYRLNTHVKPL 119
Query: 161 IWVEAQVERHSRSRVEILVKARSQFKERSTATNVEIELPVSSDASNPDVRTSMGSASYVP 220
IW+E+ +E+HS SR+E VKA+SQFK RSTA NVEI +PV +DA +P +T++GS +VP
Sbjct: 120 IWIESVIEKHSHSRIEYXVKAKSQFKRRSTANNVEIHIPVPNDADSPKFKTTVGSVKWVP 179
Query: 221 EDEALIWKIRSFPGGKEYMLRAEFTLPSITAEEATPERKAPIRVKFEIPYFTVSGIQVRY 280
E+ ++W ++SFPGGKEY+ RA F LPS+ AE+ E K PI VKFEIPYFT SGIQVRY
Sbjct: 180 ENSEIVWSVKSFPGGKEYLXRAHFGLPSVEAEDK--EGKPPISVKFEIPYFTTSGIQVRY 237
Query: 281 LKIIEKSGYHALPWVRYITMAGEYELR 307
LKIIEKSGY ALPWVRYIT G+Y+LR
Sbjct: 238 LKIIEKSGYQALPWVRYITQNGDYQLR 264
>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 = 241 bits (614), Expect = 5e-64, Method: Compositional matrix adjust.
Identities = 129/323 (39%), Positives = 189/323 (58%), Gaps = 19/323 (5%)
Query: 1 MMDFGYPQYTEANILSEFI-----KTDAYRMEVTQRPPMAVTNAVSWRSEGIQYKKNEVF 55
++DFGYPQ +E L FI K+ E + VT + WR EGI+Y++NE+F
Sbjct: 115 ILDFGYPQNSETGALKTFITQQGIKSQHQTKEEQSQITSQVTGQIGWRREGIKYRRNELF 174
Query: 56 LDVVEHVNILVNSNGQIIRSDVVGALKMRTYLSGMPECKLGLNDRILLEAQGRST----- 110
LDV+E VN+L++ GQ++ + V G + M++YLSGMPECK G+ND+I++E QG+ T
Sbjct: 175 LDVLESVNLLMSPQGQVLSAHVSGRVVMKSYLSGMPECKFGMNDKIVIEKQGKGTADETS 234
Query: 111 -KGK-AIDLDDIKFHQCVRLARFENDRTISFIPPDGSFDLMTYRLNTQVKPLIWVEAQVE 168
GK +I +DD FHQCVRL++F+++R+ISFIPPDG F+LM YR + V V
Sbjct: 235 KSGKQSIAIDDCTFHQCVRLSKFDSERSISFIPPDGEFELMRYRTTKDIILPFRVIPLVR 294
Query: 169 RHSRSRVEILVKARSQFKERSTATNVEIELPVSSDASNPDVRTSMGSASYVPEDEALIWK 228
R+++E+ V +S FK A +E+ +P + S V G A Y + A++WK
Sbjct: 295 EVGRTKLEVKVVIKSNFKPSLLAQKIEVRIPTPLNTSGVQVICMKGKAKYKASENAIVWK 354
Query: 229 IRSFPGGKEYMLRAEFTLPSITAEEATPERKAPIRVKFEIPYFTVSGIQVRYLKIIEK-- 286
I+ G KE + AE L + + + PI + FE+P F SG++VRYLK+ E
Sbjct: 355 IKRMAGMKESQISAEIEL--LPTNDKKKWARPPISMNFEVP-FAPSGLKVRYLKVFEPKL 411
Query: 287 --SGYHALPWVRYITMAGEYELR 307
S + + WVRYI +G YE R
Sbjct: 412 NYSDHDVIKWVRYIGRSGIYETR 434
>pdb|2XA7|M Chain M, Ap2 Clathrin Adaptor Core In Active Complex With Cargo
Peptides
Length = 446
Score = 236 bits (603), Expect = 1e-62, Method: Compositional matrix adjust.
Identities = 129/334 (38%), Positives = 189/334 (56%), Gaps = 30/334 (8%)
Query: 1 MMDFGYPQYTEANILSEFI-----KTDAYRMEVTQRPPMAVTNAVSWRSEGIQYKKNEVF 55
++DFGYPQ +E L FI K+ E + VT + WR EGI+Y++NE+F
Sbjct: 115 ILDFGYPQNSETGALKTFITQQGIKSQHQTKEEQSQITSQVTGQIGWRREGIKYRRNELF 174
Query: 56 LDVVEHVNILVNSNGQIIRSDVVGALKMRTYLSGMPECKLGLNDRILLEAQGRSTK---- 111
LDV+E VN+L++ GQ++ + V G + M++YLSGMPECK G+ND+I++E QG+ T
Sbjct: 175 LDVLESVNLLMSPQGQVLSAHVSGRVVMKSYLSGMPECKFGMNDKIVIEKQGKGTADETS 234
Query: 112 -------------GK-AIDLDDIKFHQCVRLARFENDRTISFIPPDGSFDLMTYRLNTQV 157
GK +I +DD FHQCVRL++F+++R+ISFIPPDG F+LM YR +
Sbjct: 235 KSMEQKLISEEDLGKQSIAIDDCTFHQCVRLSKFDSERSISFIPPDGEFELMRYRTTKDI 294
Query: 158 KPLIWVEAQVERHSRSRVEILVKARSQFKERSTATNVEIELPVSSDASNPDVRTSMGSAS 217
V V R+++E+ V +S FK A +E+ +P + S V G A
Sbjct: 295 ILPFRVIPLVREVGRTKLEVKVVIKSNFKPSLLAQKIEVRIPTPLNTSGVQVICMKGKAK 354
Query: 218 YVPEDEALIWKIRSFPGGKEYMLRAEFTLPSITAEEATPERKAPIRVKFEIPYFTVSGIQ 277
Y + A++WKI+ G KE + AE L + + + PI + FE+P F SG++
Sbjct: 355 YKASENAIVWKIKRMAGMKESQISAEIEL--LPTNDKKKWARPPISMNFEVP-FAPSGLK 411
Query: 278 VRYLKIIEK----SGYHALPWVRYITMAGEYELR 307
VRYLK+ E S + + WVRYI +G YE R
Sbjct: 412 VRYLKVFEPKLNYSDHDVIKWVRYIGRSGIYETR 445
>pdb|1BW8|A Chain A, Mu2 Adaptin Subunit (Ap50) Of Ap2 Adaptor (Second Domain),
Complexed With Egfr Internalization Peptide Fyralm
Length = 321
Score = 227 bits (578), Expect = 8e-60, Method: Compositional matrix adjust.
Identities = 124/317 (39%), Positives = 182/317 (57%), Gaps = 19/317 (5%)
Query: 8 QYTEANILSEFI-----KTDAYRMEVTQRPPMAVTNAVSWRSEGIQYKKNEVFLDVVEHV 62
Q +E L FI K+ E + VT + WR EGI+Y++NE+FLDV+E V
Sbjct: 8 QNSETGALKTFITQQGIKSQHQTKEEQSQITSQVTGQIGWRREGIKYRRNELFLDVLESV 67
Query: 63 NILVNSNGQIIRSDVVGALKMRTYLSGMPECKLGLNDRILLEAQGRST------KGK-AI 115
N+L++ GQ++ + V G + M++YLSGMPECK G+ND+I++E QG+ T GK +I
Sbjct: 68 NLLMSPQGQVLSAHVSGRVVMKSYLSGMPECKFGMNDKIVIEKQGKGTADETSKSGKQSI 127
Query: 116 DLDDIKFHQCVRLARFENDRTISFIPPDGSFDLMTYRLNTQVKPLIWVEAQVERHSRSRV 175
+DD FHQCVRL++F+++R+ISFIPPDG F+LM YR + V V R+++
Sbjct: 128 AIDDCTFHQCVRLSKFDSERSISFIPPDGEFELMRYRTTKDIILPFRVIPLVREVGRTKL 187
Query: 176 EILVKARSQFKERSTATNVEIELPVSSDASNPDVRTSMGSASYVPEDEALIWKIRSFPGG 235
E+ V +S FK A +E+ +P + S V G A Y + A++WKI+ G
Sbjct: 188 EVKVVIKSNFKPSLLAQKIEVRIPTPLNTSGVQVICMKGKAKYKASENAIVWKIKRMAGM 247
Query: 236 KEYMLRAEFTLPSITAEEATPERKAPIRVKFEIPYFTVSGIQVRYLKIIEK----SGYHA 291
KE + AE L + + + PI + FE+P F SG++VRYLK+ E S +
Sbjct: 248 KESQISAEIEL--LPTNDKKKWARPPISMNFEVP-FAPSGLKVRYLKVFEPKLNYSDHDV 304
Query: 292 LPWVRYITMAGEYELRL 308
+ WVRYI +G YE R
Sbjct: 305 IKWVRYIGRSGIYETRC 321
>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 = 226 bits (577), Expect = 9e-60, Method: Compositional matrix adjust.
Identities = 124/317 (39%), Positives = 182/317 (57%), Gaps = 19/317 (5%)
Query: 8 QYTEANILSEFI-----KTDAYRMEVTQRPPMAVTNAVSWRSEGIQYKKNEVFLDVVEHV 62
Q +E L FI K+ E + VT + WR EGI+Y++NE+FLDV+E V
Sbjct: 1 QNSETGALKTFITQQGIKSQHQTKEEQSQITSQVTGQIGWRREGIKYRRNELFLDVLESV 60
Query: 63 NILVNSNGQIIRSDVVGALKMRTYLSGMPECKLGLNDRILLEAQGRST------KGK-AI 115
N+L++ GQ++ + V G + M++YLSGMPECK G+ND+I++E QG+ T GK +I
Sbjct: 61 NLLMSPQGQVLSAHVSGRVVMKSYLSGMPECKFGMNDKIVIEKQGKGTADETSKSGKQSI 120
Query: 116 DLDDIKFHQCVRLARFENDRTISFIPPDGSFDLMTYRLNTQVKPLIWVEAQVERHSRSRV 175
+DD FHQCVRL++F+++R+ISFIPPDG F+LM YR + V V R+++
Sbjct: 121 AIDDCTFHQCVRLSKFDSERSISFIPPDGEFELMRYRTTKDIILPFRVIPLVREVGRTKL 180
Query: 176 EILVKARSQFKERSTATNVEIELPVSSDASNPDVRTSMGSASYVPEDEALIWKIRSFPGG 235
E+ V +S FK A +E+ +P + S V G A Y + A++WKI+ G
Sbjct: 181 EVKVVIKSNFKPSLLAQKIEVRIPTPLNTSGVQVICMKGKAKYKASENAIVWKIKRMAGM 240
Query: 236 KEYMLRAEFTLPSITAEEATPERKAPIRVKFEIPYFTVSGIQVRYLKIIEK----SGYHA 291
KE + AE L + + + PI + FE+P F SG++VRYLK+ E S +
Sbjct: 241 KESQISAEIEL--LPTNDKKKWARPPISMNFEVP-FAPSGLKVRYLKVFEPKLNYSDHDV 297
Query: 292 LPWVRYITMAGEYELRL 308
+ WVRYI +G YE R
Sbjct: 298 IKWVRYIGRSGIYETRC 314
>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 = 222 bits (566), Expect = 2e-58, Method: Compositional matrix adjust.
Identities = 115/280 (41%), Positives = 170/280 (60%), Gaps = 14/280 (5%)
Query: 40 VSWRSEGIQYKKNEVFLDVVEHVNILVNSNGQIIRSDVVGALKMRTYLSGMPECKLGLND 99
+ WR EGI+Y++NE+FLDV+E VN+L++ GQ++ + V G + M++YLSGMPECK G+ND
Sbjct: 9 IGWRREGIKYRRNELFLDVLESVNLLMSPQGQVLSAHVSGRVVMKSYLSGMPECKFGMND 68
Query: 100 RILLEAQGRST------KGK-AIDLDDIKFHQCVRLARFENDRTISFIPPDGSFDLMTYR 152
+I++E QG+ T GK +I +DD FHQCVRL++F+++R+ISFIPPDG F+LM YR
Sbjct: 69 KIVIEKQGKGTADETSKSGKQSIAIDDCTFHQCVRLSKFDSERSISFIPPDGEFELMRYR 128
Query: 153 LNTQVKPLIWVEAQVERHSRSRVEILVKARSQFKERSTATNVEIELPVSSDASNPDVRTS 212
+ V V R+++E+ V +S FK A +E+ +P + S V
Sbjct: 129 TTKDIILPFRVIPLVREVGRTKLEVKVVIKSNFKPSLLAQKIEVRIPTPLNTSGVQVICM 188
Query: 213 MGSASYVPEDEALIWKIRSFPGGKEYMLRAEFTLPSITAEEATPERKAPIRVKFEIPYFT 272
G A Y + A++WKI+ G KE + AE L + + + PI + FE+P F
Sbjct: 189 KGKAKYKASENAIVWKIKRMAGMKESQISAEIEL--LPTNDKKKWARPPISMNFEVP-FA 245
Query: 273 VSGIQVRYLKIIEK----SGYHALPWVRYITMAGEYELRL 308
SG++VRYLK+ E S + + WVRYI +G YE R
Sbjct: 246 PSGLKVRYLKVFEPKLNYSDHDVIKWVRYIGRSGIYETRC 285
>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 = 222 bits (566), Expect = 2e-58, Method: Compositional matrix adjust.
Identities = 116/287 (40%), Positives = 171/287 (59%), Gaps = 14/287 (4%)
Query: 33 PMAVTNAVSWRSEGIQYKKNEVFLDVVEHVNILVNSNGQIIRSDVVGALKMRTYLSGMPE 92
P + WR EGI+Y++NE+FLDV+E VN+L++ GQ++ + V G + M++YLSGMPE
Sbjct: 16 PRGSHMQIGWRREGIKYRRNELFLDVLESVNLLMSPQGQVLSAHVSGRVVMKSYLSGMPE 75
Query: 93 CKLGLNDRILLEAQGRST------KGK-AIDLDDIKFHQCVRLARFENDRTISFIPPDGS 145
CK G+ND+I++E QG+ T GK +I +DD FHQCVRL++F+++R+ISFIPPDG
Sbjct: 76 CKFGMNDKIVIEKQGKGTADETSKSGKQSIAIDDCTFHQCVRLSKFDSERSISFIPPDGE 135
Query: 146 FDLMTYRLNTQVKPLIWVEAQVERHSRSRVEILVKARSQFKERSTATNVEIELPVSSDAS 205
F+LM YR + V V R+++E+ V +S FK A +E+ +P + S
Sbjct: 136 FELMRYRTTKDIILPFRVIPLVREVGRTKLEVKVVIKSNFKPSLLAQKIEVRIPTPLNTS 195
Query: 206 NPDVRTSMGSASYVPEDEALIWKIRSFPGGKEYMLRAEFTLPSITAEEATPERKAPIRVK 265
V G A Y + A++WKI+ G KE + AE L + + + PI +
Sbjct: 196 GVQVICMKGKAKYKASENAIVWKIKRMAGMKESQISAEIEL--LPTNDKKKWARPPISMN 253
Query: 266 FEIPYFTVSGIQVRYLKIIEK----SGYHALPWVRYITMAGEYELRL 308
FE+P F SG++VRYLK+ E S + + WVRYI +G YE R
Sbjct: 254 FEVP-FAPSGLKVRYLKVFEPKLNYSDHDVIKWVRYIGRSGIYETRC 299
>pdb|1H6E|A Chain A, Mu2 Adaptin Subunit (Ap50) Of Ap2 Adaptor (Second Domain),
Complexed With Ctla-4 Internalization Peptide
Ttgvyvkmppt
Length = 288
Score = 215 bits (548), Expect = 2e-56, Method: Compositional matrix adjust.
Identities = 113/274 (41%), Positives = 167/274 (60%), Gaps = 14/274 (5%)
Query: 45 EGIQYKKNEVFLDVVEHVNILVNSNGQIIRSDVVGALKMRTYLSGMPECKLGLNDRILLE 104
EGI+Y++NE+FLDV+E VN+L++ GQ++ + V G + M++YLSGMPECK G+ND+I++E
Sbjct: 17 EGIKYRRNELFLDVLESVNLLMSPQGQVLSAHVSGRVVMKSYLSGMPECKFGMNDKIVIE 76
Query: 105 AQGRST------KGK-AIDLDDIKFHQCVRLARFENDRTISFIPPDGSFDLMTYRLNTQV 157
QG+ T GK +I +DD FHQCVRL++F+++R+ISFIPPDG F+LM YR +
Sbjct: 77 KQGKGTADETSKSGKQSIAIDDCTFHQCVRLSKFDSERSISFIPPDGEFELMRYRTTKDI 136
Query: 158 KPLIWVEAQVERHSRSRVEILVKARSQFKERSTATNVEIELPVSSDASNPDVRTSMGSAS 217
V V R+++E+ V +S FK A +E+ +P + S V G A
Sbjct: 137 ILPFRVIPLVREVGRTKLEVKVVIKSNFKPSLLAQKIEVRIPTPLNTSGVQVICMKGKAK 196
Query: 218 YVPEDEALIWKIRSFPGGKEYMLRAEFTLPSITAEEATPERKAPIRVKFEIPYFTVSGIQ 277
Y + A++WKI+ G KE + AE L + + + PI + FE+P F SG++
Sbjct: 197 YKASENAIVWKIKRMAGMKESQISAEIEL--LPTNDKKKWARPPISMNFEVP-FAPSGLK 253
Query: 278 VRYLKIIEK----SGYHALPWVRYITMAGEYELR 307
VRYLK+ E S + + WVRYI +G YE R
Sbjct: 254 VRYLKVFEPKLNYSDHDVIKWVRYIGRSGIYETR 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 = 205 bits (522), Expect = 2e-53, Method: Compositional matrix adjust.
Identities = 109/268 (40%), Positives = 161/268 (60%), Gaps = 14/268 (5%)
Query: 51 KNEVFLDVVEHVNILVNSNGQIIRSDVVGALKMRTYLSGMPECKLGLNDRILLEAQGRST 110
+NE+FLDV+E VN+L++ GQ++ + V G + M++YLSGMPECK G+ND+I++E QG+ T
Sbjct: 120 RNELFLDVLESVNLLMSPQGQVLSAHVSGRVVMKSYLSGMPECKFGMNDKIVIEKQGKGT 179
Query: 111 ------KGK-AIDLDDIKFHQCVRLARFENDRTISFIPPDGSFDLMTYRLNTQVKPLIWV 163
GK +I +DD FHQCVRL++F+++R+ISFIPPDG F+LM YR + V
Sbjct: 180 ADETSKSGKQSIAIDDCTFHQCVRLSKFDSERSISFIPPDGEFELMRYRTTKDIILPFRV 239
Query: 164 EAQVERHSRSRVEILVKARSQFKERSTATNVEIELPVSSDASNPDVRTSMGSASYVPEDE 223
V R+++E+ V +S FK A +E+ +P + S V G A Y +
Sbjct: 240 IPLVREVGRTKLEVKVVIKSNFKPSLLAQKIEVRIPTPLNTSGVQVICMKGKAKYKASEN 299
Query: 224 ALIWKIRSFPGGKEYMLRAEFTLPSITAEEATPERKAPIRVKFEIPYFTVSGIQVRYLKI 283
A++WKI+ G KE + AE L + + + PI + FE+P F SG++VRYLK+
Sbjct: 300 AIVWKIKRMAGMKESQISAEIEL--LPTNDKKKWARPPISMNFEVP-FAPSGLKVRYLKV 356
Query: 284 IEK----SGYHALPWVRYITMAGEYELR 307
E S + + WVRYI +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 = 128 bits (322), Expect = 4e-30, Method: Compositional matrix adjust.
Identities = 89/314 (28%), Positives = 154/314 (49%), Gaps = 40/314 (12%)
Query: 17 EFIKTDAYRMEVTQRPPMAVTNAVSWRSEGIQYKKNEVFLDVVEHVNILVNSNGQIIRSD 76
EF ++ RP +S RS+ Q +KNEVFLDVVE +++L+ SNG +++ D
Sbjct: 6 EFQQSKVAPSSAASRP------VLSSRSD--QSQKNEVFLDVVERLSVLIASNGSLLKVD 57
Query: 77 VVGALKMRTYLSGMPECKLGLNDRILLEAQGRSTKGKAIDLDDIKFHQCVRLARFENDRT 136
V G ++++++L E ++GL + + G I +D++ FH V L FE+ R
Sbjct: 58 VQGEIRLKSFLPSGSEMRIGLTEEFSVGKSELRGYGPGIRVDEVSFHSSVNLDEFESHRI 117
Query: 137 ISFIPPDGSFDLMTYRLNTQV-KPL---IWVEAQVERHSRSRVEILVKARSQFKERSTAT 192
+ PP G +M Y+L+ + PL ++ Q +R S R+++ +K R +S A
Sbjct: 118 LRLQPPQGELTVMRYQLSDDLPSPLPFRLFPSVQWDRGS-GRLQVYLKLRCDLLSKSQAL 176
Query: 193 NVEIELP-------VSSDASNPDVRTSMGSASYVPEDEALIWKIRSFPGGKEYMLRAEFT 245
NV + LP +S + S+P+ + + AL W + GG + L F
Sbjct: 177 NVRLHLPLPRGVVSLSQELSSPEQKAELAEG-------ALRWDLPRVQGGSQ--LSGLFQ 227
Query: 246 LPSIT---------AEEATPERKAPIRVKFEIPYFTVSGIQVRYLKIIEKSGYHALP--W 294
+ + A+P P + FE+P T SG+QVR+L++ + +A P W
Sbjct: 228 MDVPGPPGPPSHGLSTSASPLGLGPASLSFELPRHTCSGLQVRFLRLAFRPSGNANPHKW 287
Query: 295 VRYITMAGEYELRL 308
VR+++ + Y +R+
Sbjct: 288 VRHLSHSDAYVIRI 301
>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 = 128 bits (322), Expect = 4e-30, Method: Compositional matrix adjust.
Identities = 75/274 (27%), Positives = 140/274 (51%), Gaps = 27/274 (9%)
Query: 40 VSWRSEGIQYKKNEVFLDVVEHVNILVNSNGQIIRSDVVGALKMRTYLSGMPECKLG-LN 98
+ WR G++Y NE + DVVE ++ +++ +G + +++ G + LSGMP+ L +N
Sbjct: 8 IPWRRAGVKYTNNEAYFDVVEEIDAIIDKSGSTVFAEIQGVIDACIKLSGMPDLSLSFMN 67
Query: 99 DRILLEAQGRSTKGKAIDLDDIKFHQCVRLARFENDRTISFIPPDGSFDLMTYRLNTQ-- 156
R+L DD+ FH C+R R+E++R +SFIPPDG+F L++YR+++Q
Sbjct: 68 PRLL---------------DDVSFHPCIRFKRWESERVLSFIPPDGNFRLISYRVSSQNL 112
Query: 157 VKPLIWVEAQV---ERHSRSRVEILVKARSQFKERSTATNVEIELPVSSDASNPDVRTSM 213
V ++V+ + E S R +I + + + V + +P N ++ +
Sbjct: 113 VAIPVYVKHNISFKENSSCGRFDITIGPKQNMGKTIEGITVTVHMP--KVVLNMNLTPTQ 170
Query: 214 GSASYVPEDEALIWKIRSFPGGKEYMLRAEFTLPSITAEEATPERKAPIRVKFEIPYFTV 273
GS ++ P + L W + K L+ L ++ + PE + ++F+I +
Sbjct: 171 GSYTFDPVTKVLAWDVGKITPQKLPSLKG---LVNLQSGAPKPEENPNLNIQFKIQQLAI 227
Query: 274 SGIQVRYLKIIEKSGYHALPWVRYITMAGEYELR 307
SG++V L + + Y V+YIT AG++++R
Sbjct: 228 SGLKVNRLDMYGEK-YKPFKGVKYITKAGKFQVR 260
>pdb|3G0O|A Chain A, Crystal Structure Of 3-Hydroxyisobutyrate Dehydrogenase
(Ygbj) From Salmonella Typhimurium
Length = 303
Score = 29.3 bits (64), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 30/102 (29%), Positives = 44/102 (43%), Gaps = 16/102 (15%)
Query: 140 IPPDGSFDLMTYRLNTQVKPLIWVEAQVERH-------SRSRVEILVKARSQFKERSTAT 192
IP D +D++T+ W +H RS V+I VK + TA
Sbjct: 205 IPLDVXYDVVTHAAGNS-----WXFENRXQHVVDGDYTPRSAVDIFVKDLGLVAD--TAK 257
Query: 193 NVEIELPVSSDASNPDVRTSMGSASYVPEDEALIWKIRSFPG 234
+ LP++S A N TS +A Y ED++ + KI S G
Sbjct: 258 ALRFPLPLASTALN--XFTSASNAGYGKEDDSAVIKIFSGEG 297
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.319 0.135 0.390
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,037,305
Number of Sequences: 62578
Number of extensions: 357215
Number of successful extensions: 1075
Number of sequences better than 100.0: 22
Number of HSP's better than 100.0 without gapping: 18
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 1020
Number of HSP's gapped (non-prelim): 22
length of query: 309
length of database: 14,973,337
effective HSP length: 99
effective length of query: 210
effective length of database: 8,778,115
effective search space: 1843404150
effective search space used: 1843404150
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: 51 (24.3 bits)