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= 021745
(308 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 = 449 bits (1154), Expect = e-126, Method: Compositional matrix adjust.
Identities = 204/307 (66%), Positives = 257/307 (83%), Gaps = 4/307 (1%)
Query: 1 MDFGFPQFTEAKILSEFIKTDAYRMEV-TQRPPMAVTNAVSWRSEGIRYKKNEVFLDVVE 59
MDFG+PQ T++KIL EFI + +++E RPP VTNAVSWRSEGI+Y+KNEVFLDV+E
Sbjct: 118 MDFGYPQTTDSKILQEFITQEGHKLETGAPRPPATVTNAVSWRSEGIKYRKNEVFLDVIE 177
Query: 60 SVNILVNSNGQIVRSDVVGALKMRTYLSGMPECKLGLNDRVLLEAQGRSTKGKAIDLDDI 119
+VN+LV++NG ++RS++VG++KMR +LSGMPE +LGLND+VL + GR K K+++L+D+
Sbjct: 178 AVNLLVSANGNVLRSEIVGSIKMRVFLSGMPELRLGLNDKVLFDNTGRG-KSKSVELEDV 236
Query: 120 KFHQCVRLARFENDRTISFIPPDGSFDLMTYRLSTQVKPLIWVEAQIERHSRSRIEIMVK 179
KFHQCVRL+RFENDRTISFIPPDG F+LM+YRL+T VKPLIW+E+ IE+HS SRIE MVK
Sbjct: 237 KFHQCVRLSRFENDRTISFIPPDGEFELMSYRLNTHVKPLIWIESVIEKHSHSRIEYMVK 296
Query: 180 ARSQFKERSTATNVEIELPVPADATNPNVRTSMGSARYAPENDALVWKIKSFPGNKEYML 239
A+SQFK RSTA NVEI +PVP DA +P +T++GS ++ PEN +VW +KSFPG KEY++
Sbjct: 297 AKSQFKRRSTANNVEIHIPVPNDADSPKFKTTVGSVKWVPENSEIVWSVKSFPGGKEYLM 356
Query: 240 RAEFSLPSITAEEAAPERKAPIRVKFEIPYFTVSGIQVRYLKIIEKSGYQALPWVRYITM 299
RA F LPS+ AE+ E K PI VKFEIPYFT SGIQVRYLKIIEKSGYQA+PWVRYIT
Sbjct: 357 RAHFGLPSVEAEDK--EGKPPISVKFEIPYFTTSGIQVRYLKIIEKSGYQAIPWVRYITQ 414
Query: 300 AGEYELR 306
G+Y+LR
Sbjct: 415 NGDYQLR 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 = 404 bits (1038), Expect = e-113, Method: Compositional matrix adjust.
Identities = 183/267 (68%), Positives = 228/267 (85%), Gaps = 3/267 (1%)
Query: 40 SWRSEGIRYKKNEVFLDVVESVNILVNSNGQIVRSDVVGALKMRTYLSGMPECKLGLNDR 99
SWRSEGI+Y+KNEVFLDV+E+VN+LV++NG ++RS++VG++KMR +LSGMPE +LGLND+
Sbjct: 1 SWRSEGIKYRKNEVFLDVIEAVNLLVSANGNVLRSEIVGSIKMRVFLSGMPELRLGLNDK 60
Query: 100 VLLEAQGRSTKGKAIDLDDIKFHQCVRLARFENDRTISFIPPDGSFDLMTYRLSTQVKPL 159
VL + GR K K+++L+D+KFHQCVRL+RFENDRTISFIPPDG F+LM+YRL+T VKPL
Sbjct: 61 VLFDNTGRG-KSKSVELEDVKFHQCVRLSRFENDRTISFIPPDGEFELMSYRLNTHVKPL 119
Query: 160 IWVEAQIERHSRSRIEIMVKARSQFKERSTATNVEIELPVPADATNPNVRTSMGSARYAP 219
IW+E+ IE+HS SRIE MVKA+SQFK RSTA NVEI +PVP DA +P +T++GS ++ P
Sbjct: 120 IWIESVIEKHSHSRIEYMVKAKSQFKRRSTANNVEIHIPVPNDADSPKFKTTVGSVKWVP 179
Query: 220 ENDALVWKIKSFPGNKEYMLRAEFSLPSITAEEAAPERKAPIRVKFEIPYFTVSGIQVRY 279
EN +VW +KSFPG KEY++RA F LPS+ AE+ E K PI VKFEIPYFT SGIQVRY
Sbjct: 180 ENSEIVWSVKSFPGGKEYLMRAHFGLPSVEAEDK--EGKPPISVKFEIPYFTTSGIQVRY 237
Query: 280 LKIIEKSGYQALPWVRYITMAGEYELR 306
LKIIEKSGYQALPWVRYIT 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 = 392 bits (1008), Expect = e-109, Method: Compositional matrix adjust.
Identities = 179/267 (67%), Positives = 223/267 (83%), Gaps = 3/267 (1%)
Query: 40 SWRSEGIRYKKNEVFLDVVESVNILVNSNGQIVRSDVVGALKMRTYLSGMPECKLGLNDR 99
SWRSEGI+Y+KNEVFLDV+E+VN+LV++NG ++RS++VG++K R +LSG PE +LGLND+
Sbjct: 1 SWRSEGIKYRKNEVFLDVIEAVNLLVSANGNVLRSEIVGSIKXRVFLSGXPELRLGLNDK 60
Query: 100 VLLEAQGRSTKGKAIDLDDIKFHQCVRLARFENDRTISFIPPDGSFDLMTYRLSTQVKPL 159
VL + GR K K+++L+D+KFHQCVRL+RFENDRTISFIPPDG F+L +YRL+T VKPL
Sbjct: 61 VLFDNTGRG-KSKSVELEDVKFHQCVRLSRFENDRTISFIPPDGEFELXSYRLNTHVKPL 119
Query: 160 IWVEAQIERHSRSRIEIMVKARSQFKERSTATNVEIELPVPADATNPNVRTSMGSARYAP 219
IW+E+ IE+HS SRIE VKA+SQFK RSTA NVEI +PVP DA +P +T++GS ++ P
Sbjct: 120 IWIESVIEKHSHSRIEYXVKAKSQFKRRSTANNVEIHIPVPNDADSPKFKTTVGSVKWVP 179
Query: 220 ENDALVWKIKSFPGNKEYMLRAEFSLPSITAEEAAPERKAPIRVKFEIPYFTVSGIQVRY 279
EN +VW +KSFPG KEY+ RA F LPS+ AE+ E K PI VKFEIPYFT SGIQVRY
Sbjct: 180 ENSEIVWSVKSFPGGKEYLXRAHFGLPSVEAEDK--EGKPPISVKFEIPYFTTSGIQVRY 237
Query: 280 LKIIEKSGYQALPWVRYITMAGEYELR 306
LKIIEKSGYQALPWVRYIT 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 = 246 bits (629), Expect = 1e-65, Method: Compositional matrix adjust.
Identities = 129/322 (40%), Positives = 192/322 (59%), Gaps = 19/322 (5%)
Query: 1 MDFGFPQFTEAKILSEFI-----KTDAYRMEVTQRPPMAVTNAVSWRSEGIRYKKNEVFL 55
+DFG+PQ +E L FI K+ E + VT + WR EGI+Y++NE+FL
Sbjct: 116 LDFGYPQNSETGALKTFITQQGIKSQHQTKEEQSQITSQVTGQIGWRREGIKYRRNELFL 175
Query: 56 DVVESVNILVNSNGQIVRSDVVGALKMRTYLSGMPECKLGLNDRVLLEAQGRST------ 109
DV+ESVN+L++ GQ++ + V G + M++YLSGMPECK G+ND++++E QG+ T
Sbjct: 176 DVLESVNLLMSPQGQVLSAHVSGRVVMKSYLSGMPECKFGMNDKIVIEKQGKGTADETSK 235
Query: 110 KGK-AIDLDDIKFHQCVRLARFENDRTISFIPPDGSFDLMTYRLSTQVKPLIWVEAQIER 168
GK +I +DD FHQCVRL++F+++R+ISFIPPDG F+LM YR + + V +
Sbjct: 236 SGKQSIAIDDCTFHQCVRLSKFDSERSISFIPPDGEFELMRYRTTKDIILPFRVIPLVRE 295
Query: 169 HSRSRIEIMVKARSQFKERSTATNVEIELPVPADATNPNVRTSMGSARYAPENDALVWKI 228
R+++E+ V +S FK A +E+ +P P + + V G A+Y +A+VWKI
Sbjct: 296 VGRTKLEVKVVIKSNFKPSLLAQKIEVRIPTPLNTSGVQVICMKGKAKYKASENAIVWKI 355
Query: 229 KSFPGNKEYMLRAEFSLPSITAEEAAPERKAPIRVKFEIPYFTVSGIQVRYLKIIEK--- 285
K G KE + AE L + + + PI + FE+P F SG++VRYLK+ E
Sbjct: 356 KRMAGMKESQISAEIEL--LPTNDKKKWARPPISMNFEVP-FAPSGLKVRYLKVFEPKLN 412
Query: 286 -SGYQALPWVRYITMAGEYELR 306
S + + WVRYI +G YE R
Sbjct: 413 YSDHDVIKWVRYIGRSGIYETR 434
>pdb|2XA7|M Chain M, Ap2 Clathrin Adaptor Core In Active Complex With Cargo
Peptides
Length = 446
Score = 242 bits (618), Expect = 2e-64, Method: Compositional matrix adjust.
Identities = 129/333 (38%), Positives = 192/333 (57%), Gaps = 30/333 (9%)
Query: 1 MDFGFPQFTEAKILSEFI-----KTDAYRMEVTQRPPMAVTNAVSWRSEGIRYKKNEVFL 55
+DFG+PQ +E L FI K+ E + VT + WR EGI+Y++NE+FL
Sbjct: 116 LDFGYPQNSETGALKTFITQQGIKSQHQTKEEQSQITSQVTGQIGWRREGIKYRRNELFL 175
Query: 56 DVVESVNILVNSNGQIVRSDVVGALKMRTYLSGMPECKLGLNDRVLLEAQGRSTK----- 110
DV+ESVN+L++ GQ++ + V G + M++YLSGMPECK G+ND++++E QG+ T
Sbjct: 176 DVLESVNLLMSPQGQVLSAHVSGRVVMKSYLSGMPECKFGMNDKIVIEKQGKGTADETSK 235
Query: 111 ------------GK-AIDLDDIKFHQCVRLARFENDRTISFIPPDGSFDLMTYRLSTQVK 157
GK +I +DD FHQCVRL++F+++R+ISFIPPDG F+LM YR + +
Sbjct: 236 SMEQKLISEEDLGKQSIAIDDCTFHQCVRLSKFDSERSISFIPPDGEFELMRYRTTKDII 295
Query: 158 PLIWVEAQIERHSRSRIEIMVKARSQFKERSTATNVEIELPVPADATNPNVRTSMGSARY 217
V + R+++E+ V +S FK A +E+ +P P + + V G A+Y
Sbjct: 296 LPFRVIPLVREVGRTKLEVKVVIKSNFKPSLLAQKIEVRIPTPLNTSGVQVICMKGKAKY 355
Query: 218 APENDALVWKIKSFPGNKEYMLRAEFSLPSITAEEAAPERKAPIRVKFEIPYFTVSGIQV 277
+A+VWKIK G KE + AE L + + + PI + FE+P F SG++V
Sbjct: 356 KASENAIVWKIKRMAGMKESQISAEIEL--LPTNDKKKWARPPISMNFEVP-FAPSGLKV 412
Query: 278 RYLKIIEK----SGYQALPWVRYITMAGEYELR 306
RYLK+ E S + + WVRYI +G YE R
Sbjct: 413 RYLKVFEPKLNYSDHDVIKWVRYIGRSGIYETR 445
>pdb|1BW8|A Chain A, Mu2 Adaptin Subunit (Ap50) Of Ap2 Adaptor (Second Domain),
Complexed With Egfr Internalization Peptide Fyralm
Length = 321
Score = 236 bits (601), Expect = 2e-62, Method: Compositional matrix adjust.
Identities = 122/306 (39%), Positives = 183/306 (59%), Gaps = 14/306 (4%)
Query: 13 ILSEFIKTDAYRMEVTQRPPMAVTNAVSWRSEGIRYKKNEVFLDVVESVNILVNSNGQIV 72
I + IK+ E + VT + WR EGI+Y++NE+FLDV+ESVN+L++ GQ++
Sbjct: 19 ITQQGIKSQHQTKEEQSQITSQVTGQIGWRREGIKYRRNELFLDVLESVNLLMSPQGQVL 78
Query: 73 RSDVVGALKMRTYLSGMPECKLGLNDRVLLEAQGRST------KGK-AIDLDDIKFHQCV 125
+ V G + M++YLSGMPECK G+ND++++E QG+ T GK +I +DD FHQCV
Sbjct: 79 SAHVSGRVVMKSYLSGMPECKFGMNDKIVIEKQGKGTADETSKSGKQSIAIDDCTFHQCV 138
Query: 126 RLARFENDRTISFIPPDGSFDLMTYRLSTQVKPLIWVEAQIERHSRSRIEIMVKARSQFK 185
RL++F+++R+ISFIPPDG F+LM YR + + V + R+++E+ V +S FK
Sbjct: 139 RLSKFDSERSISFIPPDGEFELMRYRTTKDIILPFRVIPLVREVGRTKLEVKVVIKSNFK 198
Query: 186 ERSTATNVEIELPVPADATNPNVRTSMGSARYAPENDALVWKIKSFPGNKEYMLRAEFSL 245
A +E+ +P P + + V G A+Y +A+VWKIK G KE + AE L
Sbjct: 199 PSLLAQKIEVRIPTPLNTSGVQVICMKGKAKYKASENAIVWKIKRMAGMKESQISAEIEL 258
Query: 246 PSITAEEAAPERKAPIRVKFEIPYFTVSGIQVRYLKIIEK----SGYQALPWVRYITMAG 301
+ + + PI + FE+P F SG++VRYLK+ E S + + WVRYI +G
Sbjct: 259 --LPTNDKKKWARPPISMNFEVP-FAPSGLKVRYLKVFEPKLNYSDHDVIKWVRYIGRSG 315
Query: 302 EYELRL 307
YE R
Sbjct: 316 IYETRC 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 = 235 bits (600), Expect = 2e-62, Method: Compositional matrix adjust.
Identities = 122/306 (39%), Positives = 183/306 (59%), Gaps = 14/306 (4%)
Query: 13 ILSEFIKTDAYRMEVTQRPPMAVTNAVSWRSEGIRYKKNEVFLDVVESVNILVNSNGQIV 72
I + IK+ E + VT + WR EGI+Y++NE+FLDV+ESVN+L++ GQ++
Sbjct: 12 ITQQGIKSQHQTKEEQSQITSQVTGQIGWRREGIKYRRNELFLDVLESVNLLMSPQGQVL 71
Query: 73 RSDVVGALKMRTYLSGMPECKLGLNDRVLLEAQGRST------KGK-AIDLDDIKFHQCV 125
+ V G + M++YLSGMPECK G+ND++++E QG+ T GK +I +DD FHQCV
Sbjct: 72 SAHVSGRVVMKSYLSGMPECKFGMNDKIVIEKQGKGTADETSKSGKQSIAIDDCTFHQCV 131
Query: 126 RLARFENDRTISFIPPDGSFDLMTYRLSTQVKPLIWVEAQIERHSRSRIEIMVKARSQFK 185
RL++F+++R+ISFIPPDG F+LM YR + + V + R+++E+ V +S FK
Sbjct: 132 RLSKFDSERSISFIPPDGEFELMRYRTTKDIILPFRVIPLVREVGRTKLEVKVVIKSNFK 191
Query: 186 ERSTATNVEIELPVPADATNPNVRTSMGSARYAPENDALVWKIKSFPGNKEYMLRAEFSL 245
A +E+ +P P + + V G A+Y +A+VWKIK G KE + AE L
Sbjct: 192 PSLLAQKIEVRIPTPLNTSGVQVICMKGKAKYKASENAIVWKIKRMAGMKESQISAEIEL 251
Query: 246 PSITAEEAAPERKAPIRVKFEIPYFTVSGIQVRYLKIIEK----SGYQALPWVRYITMAG 301
+ + + PI + FE+P F SG++VRYLK+ E S + + WVRYI +G
Sbjct: 252 --LPTNDKKKWARPPISMNFEVP-FAPSGLKVRYLKVFEPKLNYSDHDVIKWVRYIGRSG 308
Query: 302 EYELRL 307
YE R
Sbjct: 309 IYETRC 314
>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 = 231 bits (589), Expect = 4e-61, Method: Compositional matrix adjust.
Identities = 117/287 (40%), Positives = 175/287 (60%), Gaps = 14/287 (4%)
Query: 32 PMAVTNAVSWRSEGIRYKKNEVFLDVVESVNILVNSNGQIVRSDVVGALKMRTYLSGMPE 91
P + WR EGI+Y++NE+FLDV+ESVN+L++ GQ++ + V G + M++YLSGMPE
Sbjct: 16 PRGSHMQIGWRREGIKYRRNELFLDVLESVNLLMSPQGQVLSAHVSGRVVMKSYLSGMPE 75
Query: 92 CKLGLNDRVLLEAQGRST------KGK-AIDLDDIKFHQCVRLARFENDRTISFIPPDGS 144
CK G+ND++++E QG+ T GK +I +DD FHQCVRL++F+++R+ISFIPPDG
Sbjct: 76 CKFGMNDKIVIEKQGKGTADETSKSGKQSIAIDDCTFHQCVRLSKFDSERSISFIPPDGE 135
Query: 145 FDLMTYRLSTQVKPLIWVEAQIERHSRSRIEIMVKARSQFKERSTATNVEIELPVPADAT 204
F+LM YR + + V + R+++E+ V +S FK A +E+ +P P + +
Sbjct: 136 FELMRYRTTKDIILPFRVIPLVREVGRTKLEVKVVIKSNFKPSLLAQKIEVRIPTPLNTS 195
Query: 205 NPNVRTSMGSARYAPENDALVWKIKSFPGNKEYMLRAEFSLPSITAEEAAPERKAPIRVK 264
V G A+Y +A+VWKIK G KE + AE L + + + PI +
Sbjct: 196 GVQVICMKGKAKYKASENAIVWKIKRMAGMKESQISAEIEL--LPTNDKKKWARPPISMN 253
Query: 265 FEIPYFTVSGIQVRYLKIIEK----SGYQALPWVRYITMAGEYELRL 307
FE+P F SG++VRYLK+ E S + + WVRYI +G YE R
Sbjct: 254 FEVP-FAPSGLKVRYLKVFEPKLNYSDHDVIKWVRYIGRSGIYETRC 299
>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 = 231 bits (588), Expect = 5e-61, Method: Compositional matrix adjust.
Identities = 116/280 (41%), Positives = 174/280 (62%), Gaps = 14/280 (5%)
Query: 39 VSWRSEGIRYKKNEVFLDVVESVNILVNSNGQIVRSDVVGALKMRTYLSGMPECKLGLND 98
+ WR EGI+Y++NE+FLDV+ESVN+L++ GQ++ + V G + M++YLSGMPECK G+ND
Sbjct: 9 IGWRREGIKYRRNELFLDVLESVNLLMSPQGQVLSAHVSGRVVMKSYLSGMPECKFGMND 68
Query: 99 RVLLEAQGRST------KGK-AIDLDDIKFHQCVRLARFENDRTISFIPPDGSFDLMTYR 151
++++E QG+ T GK +I +DD FHQCVRL++F+++R+ISFIPPDG F+LM YR
Sbjct: 69 KIVIEKQGKGTADETSKSGKQSIAIDDCTFHQCVRLSKFDSERSISFIPPDGEFELMRYR 128
Query: 152 LSTQVKPLIWVEAQIERHSRSRIEIMVKARSQFKERSTATNVEIELPVPADATNPNVRTS 211
+ + V + R+++E+ V +S FK A +E+ +P P + + V
Sbjct: 129 TTKDIILPFRVIPLVREVGRTKLEVKVVIKSNFKPSLLAQKIEVRIPTPLNTSGVQVICM 188
Query: 212 MGSARYAPENDALVWKIKSFPGNKEYMLRAEFSLPSITAEEAAPERKAPIRVKFEIPYFT 271
G A+Y +A+VWKIK G KE + AE L + + + PI + FE+P F
Sbjct: 189 KGKAKYKASENAIVWKIKRMAGMKESQISAEIEL--LPTNDKKKWARPPISMNFEVP-FA 245
Query: 272 VSGIQVRYLKIIEK----SGYQALPWVRYITMAGEYELRL 307
SG++VRYLK+ E S + + WVRYI +G YE R
Sbjct: 246 PSGLKVRYLKVFEPKLNYSDHDVIKWVRYIGRSGIYETRC 285
>pdb|1H6E|A Chain A, Mu2 Adaptin Subunit (Ap50) Of Ap2 Adaptor (Second Domain),
Complexed With Ctla-4 Internalization Peptide
Ttgvyvkmppt
Length = 288
Score = 224 bits (571), Expect = 5e-59, Method: Compositional matrix adjust.
Identities = 114/274 (41%), Positives = 171/274 (62%), Gaps = 14/274 (5%)
Query: 44 EGIRYKKNEVFLDVVESVNILVNSNGQIVRSDVVGALKMRTYLSGMPECKLGLNDRVLLE 103
EGI+Y++NE+FLDV+ESVN+L++ GQ++ + V G + M++YLSGMPECK G+ND++++E
Sbjct: 17 EGIKYRRNELFLDVLESVNLLMSPQGQVLSAHVSGRVVMKSYLSGMPECKFGMNDKIVIE 76
Query: 104 AQGRST------KGK-AIDLDDIKFHQCVRLARFENDRTISFIPPDGSFDLMTYRLSTQV 156
QG+ T GK +I +DD FHQCVRL++F+++R+ISFIPPDG F+LM YR + +
Sbjct: 77 KQGKGTADETSKSGKQSIAIDDCTFHQCVRLSKFDSERSISFIPPDGEFELMRYRTTKDI 136
Query: 157 KPLIWVEAQIERHSRSRIEIMVKARSQFKERSTATNVEIELPVPADATNPNVRTSMGSAR 216
V + R+++E+ V +S FK A +E+ +P P + + V G A+
Sbjct: 137 ILPFRVIPLVREVGRTKLEVKVVIKSNFKPSLLAQKIEVRIPTPLNTSGVQVICMKGKAK 196
Query: 217 YAPENDALVWKIKSFPGNKEYMLRAEFSLPSITAEEAAPERKAPIRVKFEIPYFTVSGIQ 276
Y +A+VWKIK G KE + AE L + + + PI + FE+P F SG++
Sbjct: 197 YKASENAIVWKIKRMAGMKESQISAEIEL--LPTNDKKKWARPPISMNFEVP-FAPSGLK 253
Query: 277 VRYLKIIEK----SGYQALPWVRYITMAGEYELR 306
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 = 214 bits (544), Expect = 7e-56, Method: Compositional matrix adjust.
Identities = 110/268 (41%), Positives = 165/268 (61%), Gaps = 14/268 (5%)
Query: 50 KNEVFLDVVESVNILVNSNGQIVRSDVVGALKMRTYLSGMPECKLGLNDRVLLEAQGRST 109
+NE+FLDV+ESVN+L++ GQ++ + V G + M++YLSGMPECK G+ND++++E QG+ T
Sbjct: 120 RNELFLDVLESVNLLMSPQGQVLSAHVSGRVVMKSYLSGMPECKFGMNDKIVIEKQGKGT 179
Query: 110 ------KGK-AIDLDDIKFHQCVRLARFENDRTISFIPPDGSFDLMTYRLSTQVKPLIWV 162
GK +I +DD FHQCVRL++F+++R+ISFIPPDG F+LM YR + + V
Sbjct: 180 ADETSKSGKQSIAIDDCTFHQCVRLSKFDSERSISFIPPDGEFELMRYRTTKDIILPFRV 239
Query: 163 EAQIERHSRSRIEIMVKARSQFKERSTATNVEIELPVPADATNPNVRTSMGSARYAPEND 222
+ R+++E+ V +S FK A +E+ +P P + + V G A+Y +
Sbjct: 240 IPLVREVGRTKLEVKVVIKSNFKPSLLAQKIEVRIPTPLNTSGVQVICMKGKAKYKASEN 299
Query: 223 ALVWKIKSFPGNKEYMLRAEFSLPSITAEEAAPERKAPIRVKFEIPYFTVSGIQVRYLKI 282
A+VWKIK G KE + AE L + + + PI + FE+P F SG++VRYLK+
Sbjct: 300 AIVWKIKRMAGMKESQISAEIEL--LPTNDKKKWARPPISMNFEVP-FAPSGLKVRYLKV 356
Query: 283 IEK----SGYQALPWVRYITMAGEYELR 306
E S + + WVRYI +G YE R
Sbjct: 357 FEPKLNYSDHDVIKWVRYIGRSGIYETR 384
>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 = 135 bits (340), Expect = 3e-32, Method: Compositional matrix adjust.
Identities = 79/274 (28%), Positives = 141/274 (51%), Gaps = 27/274 (9%)
Query: 39 VSWRSEGIRYKKNEVFLDVVESVNILVNSNGQIVRSDVVGALKMRTYLSGMPECKLG-LN 97
+ WR G++Y NE + DVVE ++ +++ +G V +++ G + LSGMP+ L +N
Sbjct: 8 IPWRRAGVKYTNNEAYFDVVEEIDAIIDKSGSTVFAEIQGVIDACIKLSGMPDLSLSFMN 67
Query: 98 DRVLLEAQGRSTKGKAIDLDDIKFHQCVRLARFENDRTISFIPPDGSFDLMTYRLSTQ-- 155
R+L DD+ FH C+R R+E++R +SFIPPDG+F L++YR+S+Q
Sbjct: 68 PRLL---------------DDVSFHPCIRFKRWESERVLSFIPPDGNFRLISYRVSSQNL 112
Query: 156 VKPLIWVEAQI---ERHSRSRIEIMVKARSQFKERSTATNVEIELPVPADATNPNVRTSM 212
V ++V+ I E S R +I + + + T + + + +P N N+ +
Sbjct: 113 VAIPVYVKHNISFKENSSCGRFDITIGPKQNMGK--TIEGITVTVHMPKVVLNMNLTPTQ 170
Query: 213 GSARYAPENDALVWKIKSFPGNKEYMLRAEFSLPSITAEEAAPERKAPIRVKFEIPYFTV 272
GS + P L W + K L+ L ++ + PE + ++F+I +
Sbjct: 171 GSYTFDPVTKVLAWDVGKITPQKLPSLKG---LVNLQSGAPKPEENPNLNIQFKIQQLAI 227
Query: 273 SGIQVRYLKIIEKSGYQALPWVRYITMAGEYELR 306
SG++V L + + Y+ V+YIT AG++++R
Sbjct: 228 SGLKVNRLDMYGEK-YKPFKGVKYITKAGKFQVR 260
>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 = 129 bits (323), Expect = 3e-30, Method: Compositional matrix adjust.
Identities = 80/274 (29%), Positives = 137/274 (50%), Gaps = 18/274 (6%)
Query: 49 KKNEVFLDVVESVNILVNSNGQIVRSDVVGALKMRTYLSGMPECKLGLNDRVLLEAQGRS 108
+KNEVFLDVVE +++L+ SNG +++ DV G ++++++L E ++GL + +
Sbjct: 31 QKNEVFLDVVERLSVLIASNGSLLKVDVQGEIRLKSFLPSGSEMRIGLTEEFSVGKSELR 90
Query: 109 TKGKAIDLDDIKFHQCVRLARFENDRTISFIPPDGSFDLMTYRLSTQV-KPL---IWVEA 164
G I +D++ FH V L FE+ R + PP G +M Y+LS + PL ++
Sbjct: 91 GYGPGIRVDEVSFHSSVNLDEFESHRILRLQPPQGELTVMRYQLSDDLPSPLPFRLFPSV 150
Query: 165 QIERHSRSRIEIMVKARSQFKERSTATNVEIELPVPADATNPNVRTSMGSARYAPENDAL 224
Q +R S R+++ +K R +S A NV + LP+P + + S + AL
Sbjct: 151 QWDRGS-GRLQVYLKLRCDLLSKSQALNVRLHLPLPRGVVSLSQELSSPEQKAELAEGAL 209
Query: 225 VWKIKSFPGNKEYMLRAEFSLPSIT---------AEEAAPERKAPIRVKFEIPYFTVSGI 275
W + G + L F + + A+P P + FE+P T SG+
Sbjct: 210 RWDLPRVQGGSQ--LSGLFQMDVPGPPGPPSHGLSTSASPLGLGPASLSFELPRHTCSGL 267
Query: 276 QVRYLKIIEKSGYQALP--WVRYITMAGEYELRL 307
QVR+L++ + A P WVR+++ + Y +R+
Sbjct: 268 QVRFLRLAFRPSGNANPHKWVRHLSHSDAYVIRI 301
>pdb|3G0O|A Chain A, Crystal Structure Of 3-Hydroxyisobutyrate Dehydrogenase
(Ygbj) From Salmonella Typhimurium
Length = 303
Score = 32.0 bits (71), Expect = 0.45, Method: Compositional matrix adjust.
Identities = 28/102 (27%), Positives = 43/102 (42%), Gaps = 16/102 (15%)
Query: 139 IPPDGSFDLMTYRLSTQVKPLIWVEAQIERH-------SRSRIEIMVKARSQFKERSTAT 191
IP D +D++T+ W +H RS ++I VK + + A
Sbjct: 205 IPLDVXYDVVTHAAGNS-----WXFENRXQHVVDGDYTPRSAVDIFVKDLGLVADTAKA- 258
Query: 192 NVEIELPVPADATNPNVRTSMGSARYAPENDALVWKIKSFPG 233
+ P+P +T N TS +A Y E+D+ V KI S G
Sbjct: 259 ---LRFPLPLASTALNXFTSASNAGYGKEDDSAVIKIFSGEG 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
0.320 0.134 0.388
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,680,274
Number of Sequences: 62578
Number of extensions: 333759
Number of successful extensions: 923
Number of sequences better than 100.0: 20
Number of HSP's better than 100.0 without gapping: 19
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 866
Number of HSP's gapped (non-prelim): 20
length of query: 308
length of database: 14,973,337
effective HSP length: 99
effective length of query: 209
effective length of database: 8,778,115
effective search space: 1834626035
effective search space used: 1834626035
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)