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= 018279
(358 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 = 500 bits (1287), Expect = e-142, Method: Compositional matrix adjust.
Identities = 225/357 (63%), Positives = 294/357 (82%), Gaps = 4/357 (1%)
Query: 1 MTASRQNCNAASLLFFLHRVVDVFKHYFEELEEESLRDNFVVVYELLDEMMDFGYPQYTE 60
+ S++N + + FL++VV VF YF+ELEEES+RDNFV++YELLDE+MDFGYPQ T+
Sbjct: 68 VATSKKNACVSLVFSFLYKVVQVFSEYFKELEEESIRDNFVIIYELLDELMDFGYPQTTD 127
Query: 61 ANILSEFIKTDAYRMEV-TQRPPMAVTNAVSWRSEGIQYKKNEVFLDVVEHVNILVNSNG 119
+ IL EFI + +++E RPP VTNAVSWRSEGI+Y+KNEVFLDV+E VN+LV++NG
Sbjct: 128 SKILQEFITQEGHKLETGAPRPPATVTNAVSWRSEGIKYRKNEVFLDVIEAVNLLVSANG 187
Query: 120 QIIRSDVVGALKMRTYLSGMPECKLGLNDRILLEAQGRSTKGKAIDLDDIKFHQCVRLAR 179
++RS++VG++KMR +LSGMPE +LGLND++L + GR K K+++L+D+KFHQCVRL+R
Sbjct: 188 NVLRSEIVGSIKMRVFLSGMPELRLGLNDKVLFDNTGRG-KSKSVELEDVKFHQCVRLSR 246
Query: 180 FENDRTISFIPPDGSFDLMTYRLNTQVKPLIWVEAQVERHSRSRVEILVKARSQFKERST 239
FENDRTISFIPPDG F+LM+YRLNT VKPLIW+E+ +E+HS SR+E +VKA+SQFK RST
Sbjct: 247 FENDRTISFIPPDGEFELMSYRLNTHVKPLIWIESVIEKHSHSRIEYMVKAKSQFKRRST 306
Query: 240 ATNVEIELPVSSDASNPDVRTSMGSASYVPEDEALIWKIRSFPGGKEYMLRAEFTLPSIT 299
A NVEI +PV +DA +P +T++GS +VPE+ ++W ++SFPGGKEY++RA F LPS+
Sbjct: 307 ANNVEIHIPVPNDADSPKFKTTVGSVKWVPENSEIVWSVKSFPGGKEYLMRAHFGLPSVE 366
Query: 300 AEEATPERKAPIRVKFEIPYFTVSGIQVRYLKIIEKSGYHALPWVRYITMAGEYELR 356
AE+ E K PI VKFEIPYFT SGIQVRYLKIIEKSGY A+PWVRYIT G+Y+LR
Sbjct: 367 AEDK--EGKPPISVKFEIPYFTTSGIQVRYLKIIEKSGYQAIPWVRYITQNGDYQLR 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 = 397 bits (1019), Expect = e-111, Method: Compositional matrix adjust.
Identities = 177/267 (66%), Positives = 227/267 (85%), Gaps = 3/267 (1%)
Query: 90 SWRSEGIQYKKNEVFLDVVEHVNILVNSNGQIIRSDVVGALKMRTYLSGMPECKLGLNDR 149
SWRSEGI+Y+KNEVFLDV+E VN+LV++NG ++RS++VG++KMR +LSGMPE +LGLND+
Sbjct: 1 SWRSEGIKYRKNEVFLDVIEAVNLLVSANGNVLRSEIVGSIKMRVFLSGMPELRLGLNDK 60
Query: 150 ILLEAQGRSTKGKAIDLDDIKFHQCVRLARFENDRTISFIPPDGSFDLMTYRLNTQVKPL 209
+L + GR K K+++L+D+KFHQCVRL+RFENDRTISFIPPDG F+LM+YRLNT VKPL
Sbjct: 61 VLFDNTGRG-KSKSVELEDVKFHQCVRLSRFENDRTISFIPPDGEFELMSYRLNTHVKPL 119
Query: 210 IWVEAQVERHSRSRVEILVKARSQFKERSTATNVEIELPVSSDASNPDVRTSMGSASYVP 269
IW+E+ +E+HS SR+E +VKA+SQFK RSTA NVEI +PV +DA +P +T++GS +VP
Sbjct: 120 IWIESVIEKHSHSRIEYMVKAKSQFKRRSTANNVEIHIPVPNDADSPKFKTTVGSVKWVP 179
Query: 270 EDEALIWKIRSFPGGKEYMLRAEFTLPSITAEEATPERKAPIRVKFEIPYFTVSGIQVRY 329
E+ ++W ++SFPGGKEY++RA F LPS+ AE+ E K PI VKFEIPYFT SGIQVRY
Sbjct: 180 ENSEIVWSVKSFPGGKEYLMRAHFGLPSVEAEDK--EGKPPISVKFEIPYFTTSGIQVRY 237
Query: 330 LKIIEKSGYHALPWVRYITMAGEYELR 356
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 = 386 bits (992), Expect = e-108, Method: Compositional matrix adjust.
Identities = 174/267 (65%), Positives = 222/267 (83%), Gaps = 3/267 (1%)
Query: 90 SWRSEGIQYKKNEVFLDVVEHVNILVNSNGQIIRSDVVGALKMRTYLSGMPECKLGLNDR 149
SWRSEGI+Y+KNEVFLDV+E VN+LV++NG ++RS++VG++K R +LSG PE +LGLND+
Sbjct: 1 SWRSEGIKYRKNEVFLDVIEAVNLLVSANGNVLRSEIVGSIKXRVFLSGXPELRLGLNDK 60
Query: 150 ILLEAQGRSTKGKAIDLDDIKFHQCVRLARFENDRTISFIPPDGSFDLMTYRLNTQVKPL 209
+L + GR K K+++L+D+KFHQCVRL+RFENDRTISFIPPDG F+L +YRLNT VKPL
Sbjct: 61 VLFDNTGRG-KSKSVELEDVKFHQCVRLSRFENDRTISFIPPDGEFELXSYRLNTHVKPL 119
Query: 210 IWVEAQVERHSRSRVEILVKARSQFKERSTATNVEIELPVSSDASNPDVRTSMGSASYVP 269
IW+E+ +E+HS SR+E VKA+SQFK RSTA NVEI +PV +DA +P +T++GS +VP
Sbjct: 120 IWIESVIEKHSHSRIEYXVKAKSQFKRRSTANNVEIHIPVPNDADSPKFKTTVGSVKWVP 179
Query: 270 EDEALIWKIRSFPGGKEYMLRAEFTLPSITAEEATPERKAPIRVKFEIPYFTVSGIQVRY 329
E+ ++W ++SFPGGKEY+ RA F LPS+ AE+ E K PI VKFEIPYFT SGIQVRY
Sbjct: 180 ENSEIVWSVKSFPGGKEYLXRAHFGLPSVEAEDK--EGKPPISVKFEIPYFTTSGIQVRY 237
Query: 330 LKIIEKSGYHALPWVRYITMAGEYELR 356
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 = 292 bits (748), Expect = 1e-79, Method: Compositional matrix adjust.
Identities = 151/369 (40%), Positives = 225/369 (60%), Gaps = 19/369 (5%)
Query: 4 SRQNCNAASLLFFLHRVVDVFKHYFEELEEESLRDNFVVVYELLDEMMDFGYPQYTEANI 63
++QN NAA + FL+++ DV YF ++ EE++++NFV++YELLDE++DFGYPQ +E
Sbjct: 69 TKQNVNAAMVFEFLYKMCDVMAAYFGKISEENIKNNFVLIYELLDEILDFGYPQNSETGA 128
Query: 64 LSEFI-----KTDAYRMEVTQRPPMAVTNAVSWRSEGIQYKKNEVFLDVVEHVNILVNSN 118
L FI K+ E + VT + WR EGI+Y++NE+FLDV+E VN+L++
Sbjct: 129 LKTFITQQGIKSQHQTKEEQSQITSQVTGQIGWRREGIKYRRNELFLDVLESVNLLMSPQ 188
Query: 119 GQIIRSDVVGALKMRTYLSGMPECKLGLNDRILLEAQGRST------KGK-AIDLDDIKF 171
GQ++ + V G + M++YLSGMPECK G+ND+I++E QG+ T GK +I +DD F
Sbjct: 189 GQVLSAHVSGRVVMKSYLSGMPECKFGMNDKIVIEKQGKGTADETSKSGKQSIAIDDCTF 248
Query: 172 HQCVRLARFENDRTISFIPPDGSFDLMTYRLNTQVKPLIWVEAQVERHSRSRVEILVKAR 231
HQCVRL++F+++R+ISFIPPDG F+LM YR + V V R+++E+ V +
Sbjct: 249 HQCVRLSKFDSERSISFIPPDGEFELMRYRTTKDIILPFRVIPLVREVGRTKLEVKVVIK 308
Query: 232 SQFKERSTATNVEIELPVSSDASNPDVRTSMGSASYVPEDEALIWKIRSFPGGKEYMLRA 291
S FK A +E+ +P + S V G A Y + A++WKI+ G KE + A
Sbjct: 309 SNFKPSLLAQKIEVRIPTPLNTSGVQVICMKGKAKYKASENAIVWKIKRMAGMKESQISA 368
Query: 292 EFTLPSITAEEATPERKAPIRVKFEIPYFTVSGIQVRYLKIIEK----SGYHALPWVRYI 347
E L + + + PI + FE+P F SG++VRYLK+ E S + + WVRYI
Sbjct: 369 EIEL--LPTNDKKKWARPPISMNFEVP-FAPSGLKVRYLKVFEPKLNYSDHDVIKWVRYI 425
Query: 348 TMAGEYELR 356
+G YE R
Sbjct: 426 GRSGIYETR 434
>pdb|2XA7|M Chain M, Ap2 Clathrin Adaptor Core In Active Complex With Cargo
Peptides
Length = 446
Score = 288 bits (737), Expect = 4e-78, Method: Compositional matrix adjust.
Identities = 151/380 (39%), Positives = 225/380 (59%), Gaps = 30/380 (7%)
Query: 4 SRQNCNAASLLFFLHRVVDVFKHYFEELEEESLRDNFVVVYELLDEMMDFGYPQYTEANI 63
++QN NAA + FL+++ DV YF ++ EE++++NFV++YELLDE++DFGYPQ +E
Sbjct: 69 TKQNVNAAMVFEFLYKMCDVMAAYFGKISEENIKNNFVLIYELLDEILDFGYPQNSETGA 128
Query: 64 LSEFI-----KTDAYRMEVTQRPPMAVTNAVSWRSEGIQYKKNEVFLDVVEHVNILVNSN 118
L FI K+ E + VT + WR EGI+Y++NE+FLDV+E VN+L++
Sbjct: 129 LKTFITQQGIKSQHQTKEEQSQITSQVTGQIGWRREGIKYRRNELFLDVLESVNLLMSPQ 188
Query: 119 GQIIRSDVVGALKMRTYLSGMPECKLGLNDRILLEAQGRSTK-----------------G 161
GQ++ + V G + M++YLSGMPECK G+ND+I++E QG+ T G
Sbjct: 189 GQVLSAHVSGRVVMKSYLSGMPECKFGMNDKIVIEKQGKGTADETSKSMEQKLISEEDLG 248
Query: 162 K-AIDLDDIKFHQCVRLARFENDRTISFIPPDGSFDLMTYRLNTQVKPLIWVEAQVERHS 220
K +I +DD FHQCVRL++F+++R+ISFIPPDG F+LM YR + V V
Sbjct: 249 KQSIAIDDCTFHQCVRLSKFDSERSISFIPPDGEFELMRYRTTKDIILPFRVIPLVREVG 308
Query: 221 RSRVEILVKARSQFKERSTATNVEIELPVSSDASNPDVRTSMGSASYVPEDEALIWKIRS 280
R+++E+ V +S FK A +E+ +P + S V G A Y + A++WKI+
Sbjct: 309 RTKLEVKVVIKSNFKPSLLAQKIEVRIPTPLNTSGVQVICMKGKAKYKASENAIVWKIKR 368
Query: 281 FPGGKEYMLRAEFTLPSITAEEATPERKAPIRVKFEIPYFTVSGIQVRYLKIIEK----S 336
G KE + AE L + + + PI + FE+P F SG++VRYLK+ E S
Sbjct: 369 MAGMKESQISAEIEL--LPTNDKKKWARPPISMNFEVP-FAPSGLKVRYLKVFEPKLNYS 425
Query: 337 GYHALPWVRYITMAGEYELR 356
+ + WVRYI +G YE R
Sbjct: 426 DHDVIKWVRYIGRSGIYETR 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 = 121/305 (39%), Positives = 179/305 (58%), Gaps = 14/305 (4%)
Query: 63 ILSEFIKTDAYRMEVTQRPPMAVTNAVSWRSEGIQYKKNEVFLDVVEHVNILVNSNGQII 122
I + IK+ E + VT + WR EGI+Y++NE+FLDV+E VN+L++ GQ++
Sbjct: 19 ITQQGIKSQHQTKEEQSQITSQVTGQIGWRREGIKYRRNELFLDVLESVNLLMSPQGQVL 78
Query: 123 RSDVVGALKMRTYLSGMPECKLGLNDRILLEAQGRST------KGK-AIDLDDIKFHQCV 175
+ V G + M++YLSGMPECK G+ND+I++E QG+ T GK +I +DD FHQCV
Sbjct: 79 SAHVSGRVVMKSYLSGMPECKFGMNDKIVIEKQGKGTADETSKSGKQSIAIDDCTFHQCV 138
Query: 176 RLARFENDRTISFIPPDGSFDLMTYRLNTQVKPLIWVEAQVERHSRSRVEILVKARSQFK 235
RL++F+++R+ISFIPPDG F+LM YR + V V R+++E+ V +S FK
Sbjct: 139 RLSKFDSERSISFIPPDGEFELMRYRTTKDIILPFRVIPLVREVGRTKLEVKVVIKSNFK 198
Query: 236 ERSTATNVEIELPVSSDASNPDVRTSMGSASYVPEDEALIWKIRSFPGGKEYMLRAEFTL 295
A +E+ +P + S V G A Y + A++WKI+ G KE + AE L
Sbjct: 199 PSLLAQKIEVRIPTPLNTSGVQVICMKGKAKYKASENAIVWKIKRMAGMKESQISAEIEL 258
Query: 296 PSITAEEATPERKAPIRVKFEIPYFTVSGIQVRYLKIIEK----SGYHALPWVRYITMAG 351
+ + + PI + FE+P F SG++VRYLK+ E S + + WVRYI +G
Sbjct: 259 --LPTNDKKKWARPPISMNFEVP-FAPSGLKVRYLKVFEPKLNYSDHDVIKWVRYIGRSG 315
Query: 352 EYELR 356
YE R
Sbjct: 316 IYETR 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 = 227 bits (578), Expect = 9e-60, Method: Compositional matrix adjust.
Identities = 121/305 (39%), Positives = 179/305 (58%), Gaps = 14/305 (4%)
Query: 63 ILSEFIKTDAYRMEVTQRPPMAVTNAVSWRSEGIQYKKNEVFLDVVEHVNILVNSNGQII 122
I + IK+ E + VT + WR EGI+Y++NE+FLDV+E VN+L++ GQ++
Sbjct: 12 ITQQGIKSQHQTKEEQSQITSQVTGQIGWRREGIKYRRNELFLDVLESVNLLMSPQGQVL 71
Query: 123 RSDVVGALKMRTYLSGMPECKLGLNDRILLEAQGRST------KGK-AIDLDDIKFHQCV 175
+ V G + M++YLSGMPECK G+ND+I++E QG+ T GK +I +DD FHQCV
Sbjct: 72 SAHVSGRVVMKSYLSGMPECKFGMNDKIVIEKQGKGTADETSKSGKQSIAIDDCTFHQCV 131
Query: 176 RLARFENDRTISFIPPDGSFDLMTYRLNTQVKPLIWVEAQVERHSRSRVEILVKARSQFK 235
RL++F+++R+ISFIPPDG F+LM YR + V V R+++E+ V +S FK
Sbjct: 132 RLSKFDSERSISFIPPDGEFELMRYRTTKDIILPFRVIPLVREVGRTKLEVKVVIKSNFK 191
Query: 236 ERSTATNVEIELPVSSDASNPDVRTSMGSASYVPEDEALIWKIRSFPGGKEYMLRAEFTL 295
A +E+ +P + S V G A Y + A++WKI+ G KE + AE L
Sbjct: 192 PSLLAQKIEVRIPTPLNTSGVQVICMKGKAKYKASENAIVWKIKRMAGMKESQISAEIEL 251
Query: 296 PSITAEEATPERKAPIRVKFEIPYFTVSGIQVRYLKIIEK----SGYHALPWVRYITMAG 351
+ + + PI + FE+P F SG++VRYLK+ E S + + WVRYI +G
Sbjct: 252 --LPTNDKKKWARPPISMNFEVP-FAPSGLKVRYLKVFEPKLNYSDHDVIKWVRYIGRSG 308
Query: 352 EYELR 356
YE R
Sbjct: 309 IYETR 313
>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 = 223 bits (568), Expect = 1e-58, Method: Compositional matrix adjust.
Identities = 115/279 (41%), Positives = 170/279 (60%), Gaps = 14/279 (5%)
Query: 89 VSWRSEGIQYKKNEVFLDVVEHVNILVNSNGQIIRSDVVGALKMRTYLSGMPECKLGLND 148
+ WR EGI+Y++NE+FLDV+E VN+L++ GQ++ + V G + M++YLSGMPECK G+ND
Sbjct: 9 IGWRREGIKYRRNELFLDVLESVNLLMSPQGQVLSAHVSGRVVMKSYLSGMPECKFGMND 68
Query: 149 RILLEAQGRST------KGK-AIDLDDIKFHQCVRLARFENDRTISFIPPDGSFDLMTYR 201
+I++E QG+ T GK +I +DD FHQCVRL++F+++R+ISFIPPDG F+LM YR
Sbjct: 69 KIVIEKQGKGTADETSKSGKQSIAIDDCTFHQCVRLSKFDSERSISFIPPDGEFELMRYR 128
Query: 202 LNTQVKPLIWVEAQVERHSRSRVEILVKARSQFKERSTATNVEIELPVSSDASNPDVRTS 261
+ V V R+++E+ V +S FK A +E+ +P + S V
Sbjct: 129 TTKDIILPFRVIPLVREVGRTKLEVKVVIKSNFKPSLLAQKIEVRIPTPLNTSGVQVICM 188
Query: 262 MGSASYVPEDEALIWKIRSFPGGKEYMLRAEFTLPSITAEEATPERKAPIRVKFEIPYFT 321
G A Y + A++WKI+ G KE + AE L + + + PI + FE+P F
Sbjct: 189 KGKAKYKASENAIVWKIKRMAGMKESQISAEIEL--LPTNDKKKWARPPISMNFEVP-FA 245
Query: 322 VSGIQVRYLKIIEK----SGYHALPWVRYITMAGEYELR 356
SG++VRYLK+ E S + + WVRYI +G YE R
Sbjct: 246 PSGLKVRYLKVFEPKLNYSDHDVIKWVRYIGRSGIYETR 284
>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 = 223 bits (567), Expect = 1e-58, Method: Compositional matrix adjust.
Identities = 116/286 (40%), Positives = 171/286 (59%), Gaps = 14/286 (4%)
Query: 82 PMAVTNAVSWRSEGIQYKKNEVFLDVVEHVNILVNSNGQIIRSDVVGALKMRTYLSGMPE 141
P + WR EGI+Y++NE+FLDV+E VN+L++ GQ++ + V G + M++YLSGMPE
Sbjct: 16 PRGSHMQIGWRREGIKYRRNELFLDVLESVNLLMSPQGQVLSAHVSGRVVMKSYLSGMPE 75
Query: 142 CKLGLNDRILLEAQGRST------KGK-AIDLDDIKFHQCVRLARFENDRTISFIPPDGS 194
CK G+ND+I++E QG+ T GK +I +DD FHQCVRL++F+++R+ISFIPPDG
Sbjct: 76 CKFGMNDKIVIEKQGKGTADETSKSGKQSIAIDDCTFHQCVRLSKFDSERSISFIPPDGE 135
Query: 195 FDLMTYRLNTQVKPLIWVEAQVERHSRSRVEILVKARSQFKERSTATNVEIELPVSSDAS 254
F+LM YR + V V R+++E+ V +S FK A +E+ +P + S
Sbjct: 136 FELMRYRTTKDIILPFRVIPLVREVGRTKLEVKVVIKSNFKPSLLAQKIEVRIPTPLNTS 195
Query: 255 NPDVRTSMGSASYVPEDEALIWKIRSFPGGKEYMLRAEFTLPSITAEEATPERKAPIRVK 314
V G A Y + A++WKI+ G KE + AE L + + + PI +
Sbjct: 196 GVQVICMKGKAKYKASENAIVWKIKRMAGMKESQISAEIEL--LPTNDKKKWARPPISMN 253
Query: 315 FEIPYFTVSGIQVRYLKIIEK----SGYHALPWVRYITMAGEYELR 356
FE+P F SG++VRYLK+ E S + + WVRYI +G YE R
Sbjct: 254 FEVP-FAPSGLKVRYLKVFEPKLNYSDHDVIKWVRYIGRSGIYETR 298
>pdb|1H6E|A Chain A, Mu2 Adaptin Subunit (Ap50) Of Ap2 Adaptor (Second Domain),
Complexed With Ctla-4 Internalization Peptide
Ttgvyvkmppt
Length = 288
Score = 216 bits (550), Expect = 2e-56, Method: Compositional matrix adjust.
Identities = 113/274 (41%), Positives = 167/274 (60%), Gaps = 14/274 (5%)
Query: 94 EGIQYKKNEVFLDVVEHVNILVNSNGQIIRSDVVGALKMRTYLSGMPECKLGLNDRILLE 153
EGI+Y++NE+FLDV+E VN+L++ GQ++ + V G + M++YLSGMPECK G+ND+I++E
Sbjct: 17 EGIKYRRNELFLDVLESVNLLMSPQGQVLSAHVSGRVVMKSYLSGMPECKFGMNDKIVIE 76
Query: 154 AQGRST------KGK-AIDLDDIKFHQCVRLARFENDRTISFIPPDGSFDLMTYRLNTQV 206
QG+ T GK +I +DD FHQCVRL++F+++R+ISFIPPDG F+LM YR +
Sbjct: 77 KQGKGTADETSKSGKQSIAIDDCTFHQCVRLSKFDSERSISFIPPDGEFELMRYRTTKDI 136
Query: 207 KPLIWVEAQVERHSRSRVEILVKARSQFKERSTATNVEIELPVSSDASNPDVRTSMGSAS 266
V V R+++E+ V +S FK A +E+ +P + S V G A
Sbjct: 137 ILPFRVIPLVREVGRTKLEVKVVIKSNFKPSLLAQKIEVRIPTPLNTSGVQVICMKGKAK 196
Query: 267 YVPEDEALIWKIRSFPGGKEYMLRAEFTLPSITAEEATPERKAPIRVKFEIPYFTVSGIQ 326
Y + A++WKI+ G KE + AE L + + + PI + FE+P F SG++
Sbjct: 197 YKASENAIVWKIKRMAGMKESQISAEIEL--LPTNDKKKWARPPISMNFEVP-FAPSGLK 253
Query: 327 VRYLKIIEK----SGYHALPWVRYITMAGEYELR 356
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 = 206 bits (523), Expect = 2e-53, Method: Compositional matrix adjust.
Identities = 110/273 (40%), Positives = 162/273 (59%), Gaps = 14/273 (5%)
Query: 95 GIQYKKNEVFLDVVEHVNILVNSNGQIIRSDVVGALKMRTYLSGMPECKLGLNDRILLEA 154
G +NE+FLDV+E VN+L++ GQ++ + V G + M++YLSGMPECK G+ND+I++E
Sbjct: 115 GSGGSRNELFLDVLESVNLLMSPQGQVLSAHVSGRVVMKSYLSGMPECKFGMNDKIVIEK 174
Query: 155 QGRST------KGK-AIDLDDIKFHQCVRLARFENDRTISFIPPDGSFDLMTYRLNTQVK 207
QG+ T GK +I +DD FHQCVRL++F+++R+ISFIPPDG F+LM YR +
Sbjct: 175 QGKGTADETSKSGKQSIAIDDCTFHQCVRLSKFDSERSISFIPPDGEFELMRYRTTKDII 234
Query: 208 PLIWVEAQVERHSRSRVEILVKARSQFKERSTATNVEIELPVSSDASNPDVRTSMGSASY 267
V V R+++E+ V +S FK A +E+ +P + S V G A Y
Sbjct: 235 LPFRVIPLVREVGRTKLEVKVVIKSNFKPSLLAQKIEVRIPTPLNTSGVQVICMKGKAKY 294
Query: 268 VPEDEALIWKIRSFPGGKEYMLRAEFTLPSITAEEATPERKAPIRVKFEIPYFTVSGIQV 327
+ A++WKI+ G KE + AE L + + + PI + FE+P F SG++V
Sbjct: 295 KASENAIVWKIKRMAGMKESQISAEIEL--LPTNDKKKWARPPISMNFEVP-FAPSGLKV 351
Query: 328 RYLKIIEK----SGYHALPWVRYITMAGEYELR 356
RYLK+ E S + + WVRYI +G YE R
Sbjct: 352 RYLKVFEPKLNYSDHDVIKWVRYIGRSGIYETR 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 = 129 bits (323), Expect = 4e-30, Method: Compositional matrix adjust.
Identities = 75/274 (27%), Positives = 140/274 (51%), Gaps = 27/274 (9%)
Query: 89 VSWRSEGIQYKKNEVFLDVVEHVNILVNSNGQIIRSDVVGALKMRTYLSGMPECKLG-LN 147
+ WR G++Y NE + DVVE ++ +++ +G + +++ G + LSGMP+ L +N
Sbjct: 8 IPWRRAGVKYTNNEAYFDVVEEIDAIIDKSGSTVFAEIQGVIDACIKLSGMPDLSLSFMN 67
Query: 148 DRILLEAQGRSTKGKAIDLDDIKFHQCVRLARFENDRTISFIPPDGSFDLMTYRLNTQ-- 205
R+L DD+ FH C+R R+E++R +SFIPPDG+F L++YR+++Q
Sbjct: 68 PRLL---------------DDVSFHPCIRFKRWESERVLSFIPPDGNFRLISYRVSSQNL 112
Query: 206 VKPLIWVEAQV---ERHSRSRVEILVKARSQFKERSTATNVEIELPVSSDASNPDVRTSM 262
V ++V+ + E S R +I + + + V + +P N ++ +
Sbjct: 113 VAIPVYVKHNISFKENSSCGRFDITIGPKQNMGKTIEGITVTVHMP--KVVLNMNLTPTQ 170
Query: 263 GSASYVPEDEALIWKIRSFPGGKEYMLRAEFTLPSITAEEATPERKAPIRVKFEIPYFTV 322
GS ++ P + L W + K L+ L ++ + PE + ++F+I +
Sbjct: 171 GSYTFDPVTKVLAWDVGKITPQKLPSLKG---LVNLQSGAPKPEENPNLNIQFKIQQLAI 227
Query: 323 SGIQVRYLKIIEKSGYHALPWVRYITMAGEYELR 356
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 = 128 bits (321), Expect = 6e-30, Method: Compositional matrix adjust.
Identities = 89/314 (28%), Positives = 155/314 (49%), Gaps = 40/314 (12%)
Query: 66 EFIKTDAYRMEVTQRPPMAVTNAVSWRSEGIQYKKNEVFLDVVEHVNILVNSNGQIIRSD 125
EF ++ RP +S RS+ Q +KNEVFLDVVE +++L+ SNG +++ D
Sbjct: 6 EFQQSKVAPSSAASRP------VLSSRSD--QSQKNEVFLDVVERLSVLIASNGSLLKVD 57
Query: 126 VVGALKMRTYLSGMPECKLGLNDRILLEAQGRSTKGKAIDLDDIKFHQCVRLARFENDRT 185
V G ++++++L E ++GL + + G I +D++ FH V L FE+ R
Sbjct: 58 VQGEIRLKSFLPSGSEMRIGLTEEFSVGKSELRGYGPGIRVDEVSFHSSVNLDEFESHRI 117
Query: 186 ISFIPPDGSFDLMTYRLNTQV-KPL---IWVEAQVERHSRSRVEILVKARSQFKERSTAT 241
+ PP G +M Y+L+ + PL ++ Q +R S R+++ +K R +S A
Sbjct: 118 LRLQPPQGELTVMRYQLSDDLPSPLPFRLFPSVQWDRGS-GRLQVYLKLRCDLLSKSQAL 176
Query: 242 NVEIELP-------VSSDASNPDVRTSMGSASYVPEDEALIWKIRSFPGGKEYMLRAEFT 294
NV + LP +S + S+P+ + + + AL W + GG + L F
Sbjct: 177 NVRLHLPLPRGVVSLSQELSSPEQKAELA-------EGALRWDLPRVQGGSQ--LSGLFQ 227
Query: 295 LPSIT---------AEEATPERKAPIRVKFEIPYFTVSGIQVRYLKIIEKSGYHALP--W 343
+ + A+P P + FE+P T SG+QVR+L++ + +A P W
Sbjct: 228 MDVPGPPGPPSHGLSTSASPLGLGPASLSFELPRHTCSGLQVRFLRLAFRPSGNANPHKW 287
Query: 344 VRYITMAGEYELRL 357
VR+++ + Y +R+
Sbjct: 288 VRHLSHSDAYVIRI 301
>pdb|2H31|A Chain A, Crystal Structure Of Human Paics, A Bifunctional
Carboxylase And Synthetase In Purine Biosynthesis
Length = 425
Score = 31.2 bits (69), Expect = 0.87, Method: Compositional matrix adjust.
Identities = 32/111 (28%), Positives = 50/111 (45%), Gaps = 16/111 (14%)
Query: 21 VDVFKH----YFEELEEESLRDNFVVVYELLDEMMDFGYPQYTEANILSEFIKTDAYRM- 75
VD+ H FE LE+ L N L+D ++FG T+ +L++ I D++R+
Sbjct: 162 VDIXSHATQAIFEILEKSWLPQNCT----LVDXKIEFGVDVTTKEIVLADVIDNDSWRLW 217
Query: 76 ----EVTQRPPMAVTNAVSWRSEGIQ-YKKNEVFLDVVEHVNILVNSNGQI 121
Q+ + + EG+Q KKN F V E V +L+ S Q
Sbjct: 218 PSGDRSQQKDKQSYRDLKEVTPEGLQXVKKN--FEWVAERVELLLKSESQC 266
>pdb|3PGK|A Chain A, The Structure Of Yeast Phosphoglycerate Kinase At 0.25 Nm
Resolution
Length = 416
Score = 28.9 bits (63), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 23/93 (24%), Positives = 38/93 (40%), Gaps = 3/93 (3%)
Query: 21 VDVFKHYFEELEEESLRDNFVVVYELLDEMMDFGYPQYTEANILSEFIKTDAYRMEVTQR 80
V F+H L + + D F + M+ F PQ +L + +K +E R
Sbjct: 145 VQKFRHELSSLADVYINDAFGTAHRAHSSMVGFDLPQRAAGFLLEKELKYFGKALENPTR 204
Query: 81 PPMAVTNAVSWRSEGIQYKKNEVFLDVVEHVNI 113
P +A+ ++ IQ N LD V+ + I
Sbjct: 205 PFLAILGGAKV-ADKIQLIDN--LLDKVDSIII 234
>pdb|1FW8|A Chain A, Circularly Permuted Phosphoglycerate Kinase From Yeast:
Pgk P72
Length = 416
Score = 28.9 bits (63), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 23/93 (24%), Positives = 38/93 (40%), Gaps = 3/93 (3%)
Query: 21 VDVFKHYFEELEEESLRDNFVVVYELLDEMMDFGYPQYTEANILSEFIKTDAYRMEVTQR 80
V F+H L + + D F + M+ F PQ +L + +K +E R
Sbjct: 74 VQKFRHELSSLADVYINDAFGTAHRAHSSMVGFDLPQRAAGFLLEKELKYFGKALENPTR 133
Query: 81 PPMAVTNAVSWRSEGIQYKKNEVFLDVVEHVNI 113
P +A+ ++ IQ N LD V+ + I
Sbjct: 134 PFLAILGGAKV-ADKIQLIDN--LLDKVDSIII 163
>pdb|3G0O|A Chain A, Crystal Structure Of 3-Hydroxyisobutyrate Dehydrogenase
(Ygbj) From Salmonella Typhimurium
Length = 303
Score = 28.9 bits (63), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 30/102 (29%), Positives = 44/102 (43%), Gaps = 16/102 (15%)
Query: 189 IPPDGSFDLMTYRLNTQVKPLIWVEAQVERH-------SRSRVEILVKARSQFKERSTAT 241
IP D +D++T+ W +H RS V+I VK + TA
Sbjct: 205 IPLDVXYDVVTHAAGNS-----WXFENRXQHVVDGDYTPRSAVDIFVKDLGLVAD--TAK 257
Query: 242 NVEIELPVSSDASNPDVRTSMGSASYVPEDEALIWKIRSFPG 283
+ LP++S A N TS +A Y ED++ + KI S G
Sbjct: 258 ALRFPLPLASTALN--XFTSASNAGYGKEDDSAVIKIFSGEG 297
>pdb|1QPG|A Chain A, 3-Phosphoglycerate Kinase, Mutation R65q
Length = 415
Score = 28.9 bits (63), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 23/93 (24%), Positives = 38/93 (40%), Gaps = 3/93 (3%)
Query: 21 VDVFKHYFEELEEESLRDNFVVVYELLDEMMDFGYPQYTEANILSEFIKTDAYRMEVTQR 80
V F+H L + + D F + M+ F PQ +L + +K +E R
Sbjct: 144 VQKFRHELSSLADVYINDAFGTAHRAHSSMVGFDLPQRAAGFLLEKELKYFGKALENPTR 203
Query: 81 PPMAVTNAVSWRSEGIQYKKNEVFLDVVEHVNI 113
P +A+ ++ IQ N LD V+ + I
Sbjct: 204 PFLAILGGAKV-ADKIQLIDN--LLDKVDSIII 233
>pdb|1WQL|B Chain B, Cumene Dioxygenase (Cuma1a2) From Pseudomonas Fluorescens
Ip01
Length = 186
Score = 28.5 bits (62), Expect = 6.7, Method: Compositional matrix adjust.
Identities = 17/67 (25%), Positives = 32/67 (47%), Gaps = 9/67 (13%)
Query: 163 AIDLDDIKFHQCVRLARFENDRTISFIPPDG------SFDLMTYRLNTQVKPLIWVEAQV 216
A+ DI++ +R ++ + ++PP G +++ M R+ +V L W E
Sbjct: 46 ALLTQDIQYWMPIRTTHTSRNKAMEYVPPGGNAHFDETYESMRARIRARVSGLNWTE--- 102
Query: 217 ERHSRSR 223
+ SRSR
Sbjct: 103 DPPSRSR 109
>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 = 28.1 bits (61), Expect = 8.3, Method: Compositional matrix adjust.
Identities = 18/48 (37%), Positives = 24/48 (50%)
Query: 7 NCNAASLLFFLHRVVDVFKHYFEELEEESLRDNFVVVYELLDEMMDFG 54
N N + L +H V+V YF + E L NF VY ++DEM G
Sbjct: 74 NDNNLAYLEAIHNFVEVLNEYFHNVCELDLVFNFYKVYTVVDEMFLAG 121
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 0.135 0.391
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,313,153
Number of Sequences: 62578
Number of extensions: 417004
Number of successful extensions: 1248
Number of sequences better than 100.0: 25
Number of HSP's better than 100.0 without gapping: 22
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 1189
Number of HSP's gapped (non-prelim): 25
length of query: 358
length of database: 14,973,337
effective HSP length: 100
effective length of query: 258
effective length of database: 8,715,537
effective search space: 2248608546
effective search space used: 2248608546
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: 52 (24.6 bits)