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= 013029
(451 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 = 259 bits (663), Expect = 2e-69, Method: Compositional matrix adjust.
Identities = 156/452 (34%), Positives = 244/452 (53%), Gaps = 38/452 (8%)
Query: 3 SQFFVLSQRGDNIVFRDYRGEVQKGSAEIFFRKVKFWKDDGEEEA--PPVFNVDGVNYFH 60
S +VL +G ++ R+YRG+V E F + + EEE P+ GV +
Sbjct: 4 SAVYVLDLKGKVLICRNYRGDVDMSEVEHFMPILM----EKEEEGMLSPILAHGGVRFMW 59
Query: 61 VKVVGLLFVATTRVNVSPSLVLELLQRIARVIKDYLGVLNEDSLRKNFVLVYELLDEVID 120
+K L VAT++ N SLV L ++ +V +Y L E+S+R NFV++YELLDE++D
Sbjct: 60 IKHNNLYLVATSKKNACVSLVFSFLYKVVQVFSEYFKELEEESIRDNFVIIYELLDELMD 119
Query: 121 FGYVQTTSTEVLKSYVFNEPIVVDAVRLQPLSPAAIFMQGTKRMPGTAVTKSVVANEPGG 180
FGY QTT +++L+ ++ E ++ G R P T VT +V G
Sbjct: 120 FGYPQTTDSKILQEFITQEGHKLET--------------GAPRPPAT-VTNAVSWRSEGI 164
Query: 181 RKRE-EIFVDIIEKISVTFSSSGYILTSEIDGTIQMKSYLTGNPEIRLALNDDLLIGKGG 239
+ R+ E+F+D+IE +++ S++G +L SEI G+I+M+ +L+G PE+RL LND +L G
Sbjct: 165 KYRKNEVFLDVIEAVNLLVSANGNVLRSEIVGSIKMRVFLSGMPELRLGLNDKVLFDNTG 224
Query: 240 RSIYDYRSSTGSGAVVLDDCNFHESVRLDSFDVDRTLSLVPPDGEFPVMNYRMTQEFKPP 299
R S +V L+D FH+ VRL F+ DRT+S +PPDGEF +M+YR+ KP
Sbjct: 225 RG--------KSKSVELEDVKFHQCVRLSRFENDRTISFIPPDGEFELMSYRLNTHVKPL 276
Query: 300 FRINTLVEEAGALKAEVIIKISAEFSASITANTIVVEMPLPKYTTRVSFGLEPGAVGQRT 359
I +++E+ + E ++K ++F TAN + + +P+P F G+V
Sbjct: 277 IWIESVIEKHSHSRIEYMVKAKSQFKRRSTANNVEIHIPVPNDADSPKFKTTVGSV---- 332
Query: 360 DFKEANRRLEWGLKKIVGGSEHTLRAKLTF-SQESHGNITKEVGPVNMTFTIPMYNASKL 418
+ N + W +K GG E+ +RA S E+ K P+++ F IP + S +
Sbjct: 333 KWVPENSEIVWSVKSFPGGKEYLMRAHFGLPSVEAEDKEGKP--PISVKFEIPYFTTSGI 390
Query: 419 QVKYLQIAKKSSTYNPYRWVRYVTQANSYVAR 450
QV+YL+I +KS Y WVRY+TQ Y R
Sbjct: 391 QVRYLKIIEKSG-YQAIPWVRYITQNGDYQLR 421
>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 = 259 bits (662), Expect = 2e-69, Method: Compositional matrix adjust.
Identities = 143/466 (30%), Positives = 251/466 (53%), Gaps = 46/466 (9%)
Query: 1 MISQFFVLSQRGDNIVFRDYRGEVQKGSAEIFFRKVKFWKDDGEEEAPPVFNVDGVNYFH 60
MI F+ + +G+ ++ R YR ++ + + + F V + ++ PV N+ ++FH
Sbjct: 1 MIGGLFIYNHKGEVLISRVYRDDIGRNAVDAFRVNVIHAR---QQVRSPVTNIARTSFFH 57
Query: 61 VKVVGLLFVATTRVNVSPSLVLELLQRIARVIKDYLGVLNEDSLRKNFVLVYELLDEVID 120
VK + A T+ NV+ ++V E L ++ V+ Y G ++E++++ NFVL+YELLDE++D
Sbjct: 58 VKRSNIWLAAVTKQNVNAAMVFEFLYKMCDVMAAYFGKISEENIKNNFVLIYELLDEILD 117
Query: 121 FGYVQTTSTEVLKSYVFNEPIVVDAVRLQPLSPAAIFMQGTKRMPGTAVTKSVVANEPGG 180
FGY Q + T LK++ I QG K T +S + ++ G
Sbjct: 118 FGYPQNSETGALKTF--------------------ITQQGIKSQHQTKEEQSQITSQVTG 157
Query: 181 R----------KREEIFVDIIEKISVTFSSSGYILTSEIDGTIQMKSYLTGNPEIRLALN 230
+ +R E+F+D++E +++ S G +L++ + G + MKSYL+G PE + +N
Sbjct: 158 QIGWRREGIKYRRNELFLDVLESVNLLMSPQGQVLSAHVSGRVVMKSYLSGMPECKFGMN 217
Query: 231 DDLLIGKGGRSIYDYRSSTGSGAVVLDDCNFHESVRLDSFDVDRTLSLVPPDGEFPVMNY 290
D ++I K G+ D S +G ++ +DDC FH+ VRL FD +R++S +PPDGEF +M Y
Sbjct: 218 DKIVIEKQGKGTADETSKSGKQSIAIDDCTFHQCVRLSKFDSERSISFIPPDGEFELMRY 277
Query: 291 RMTQEFKPPFRINTLVEEAGALKAEVIIKISAEFSASITANTIVVEMPLPKYTTRVSFGL 350
R T++ PFR+ LV E G K EV + I + F S+ A I V +P P T+ G+
Sbjct: 278 RTTKDIILPFRVIPLVREVGRTKLEVKVVIKSNFKPSLLAQKIEVRIPTPLNTS----GV 333
Query: 351 EPGAVGQRTDFKEANRRLEWGLKKIVGGSEHTLRAKLTFSQESHGNITKEVG--PVNMTF 408
+ + + +K + + W +K++ G E + A++ N K+ P++M F
Sbjct: 334 QVICMKGKAKYKASENAIVWKIKRMAGMKESQISAEIELLPT---NDKKKWARPPISMNF 390
Query: 409 TIPMYNASKLQVKYLQIAKKSSTYNPY---RWVRYVTQANSYVARI 451
+P + S L+V+YL++ + Y+ + +WVRY+ ++ Y R
Sbjct: 391 EVP-FAPSGLKVRYLKVFEPKLNYSDHDVIKWVRYIGRSGIYETRC 435
>pdb|2XA7|M Chain M, Ap2 Clathrin Adaptor Core In Active Complex With Cargo
Peptides
Length = 446
Score = 251 bits (641), Expect = 6e-67, Method: Compositional matrix adjust.
Identities = 143/477 (29%), Positives = 251/477 (52%), Gaps = 57/477 (11%)
Query: 1 MISQFFVLSQRGDNIVFRDYRGEVQKGSAEIFFRKVKFWKDDGEEEAPPVFNVDGVNYFH 60
MI F+ + +G+ ++ R YR ++ + + + F V + ++ PV N+ ++FH
Sbjct: 1 MIGGLFIYNHKGEVLISRVYRDDIGRNAVDAFRVNVIHAR---QQVRSPVTNIARTSFFH 57
Query: 61 VKVVGLLFVATTRVNVSPSLVLELLQRIARVIKDYLGVLNEDSLRKNFVLVYELLDEVID 120
VK + A T+ NV+ ++V E L ++ V+ Y G ++E++++ NFVL+YELLDE++D
Sbjct: 58 VKRSNIWLAAVTKQNVNAAMVFEFLYKMCDVMAAYFGKISEENIKNNFVLIYELLDEILD 117
Query: 121 FGYVQTTSTEVLKSYVFNEPIVVDAVRLQPLSPAAIFMQGTKRMPGTAVTKSVVANEPGG 180
FGY Q + T LK++ I QG K T +S + ++ G
Sbjct: 118 FGYPQNSETGALKTF--------------------ITQQGIKSQHQTKEEQSQITSQVTG 157
Query: 181 R----------KREEIFVDIIEKISVTFSSSGYILTSEIDGTIQMKSYLTGNPEIRLALN 230
+ +R E+F+D++E +++ S G +L++ + G + MKSYL+G PE + +N
Sbjct: 158 QIGWRREGIKYRRNELFLDVLESVNLLMSPQGQVLSAHVSGRVVMKSYLSGMPECKFGMN 217
Query: 231 DDLLIGKGGRSIYDYRSST-----------GSGAVVLDDCNFHESVRLDSFDVDRTLSLV 279
D ++I K G+ D S + G ++ +DDC FH+ VRL FD +R++S +
Sbjct: 218 DKIVIEKQGKGTADETSKSMEQKLISEEDLGKQSIAIDDCTFHQCVRLSKFDSERSISFI 277
Query: 280 PPDGEFPVMNYRMTQEFKPPFRINTLVEEAGALKAEVIIKISAEFSASITANTIVVEMPL 339
PPDGEF +M YR T++ PFR+ LV E G K EV + I + F S+ A I V +P
Sbjct: 278 PPDGEFELMRYRTTKDIILPFRVIPLVREVGRTKLEVKVVIKSNFKPSLLAQKIEVRIPT 337
Query: 340 PKYTTRVSFGLEPGAVGQRTDFKEANRRLEWGLKKIVGGSEHTLRAKLTFSQESHGNITK 399
P T+ G++ + + +K + + W +K++ G E + A++ N K
Sbjct: 338 PLNTS----GVQVICMKGKAKYKASENAIVWKIKRMAGMKESQISAEIELLPT---NDKK 390
Query: 400 EVG--PVNMTFTIPMYNASKLQVKYLQIAKKSSTYNPY---RWVRYVTQANSYVARI 451
+ P++M F +P + S L+V+YL++ + Y+ + +WVRY+ ++ Y R
Sbjct: 391 KWARPPISMNFEVP-FAPSGLKVRYLKVFEPKLNYSDHDVIKWVRYIGRSGIYETRC 446
>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 = 180 bits (457), Expect = 1e-45, Method: Compositional matrix adjust.
Identities = 98/311 (31%), Positives = 169/311 (54%), Gaps = 23/311 (7%)
Query: 156 IFMQGTKRMPGTAVTKSVVANEPGGR----------KREEIFVDIIEKISVTFSSSGYIL 205
I QG K T +S + ++ G+ +R E+F+D++E +++ S G +L
Sbjct: 12 ITQQGIKSQHQTKEEQSQITSQVTGQIGWRREGIKYRRNELFLDVLESVNLLMSPQGQVL 71
Query: 206 TSEIDGTIQMKSYLTGNPEIRLALNDDLLIGKGGRSIYDYRSSTGSGAVVLDDCNFHESV 265
++ + G + MKSYL+G PE + +ND ++I K G+ D S +G ++ +DDC FH+ V
Sbjct: 72 SAHVSGRVVMKSYLSGMPECKFGMNDKIVIEKQGKGTADETSKSGKQSIAIDDCTFHQCV 131
Query: 266 RLDSFDVDRTLSLVPPDGEFPVMNYRMTQEFKPPFRINTLVEEAGALKAEVIIKISAEFS 325
RL FD +R++S +PPDGEF +M YR T++ PFR+ LV E G K EV + I + F
Sbjct: 132 RLSKFDSERSISFIPPDGEFELMRYRTTKDIILPFRVIPLVREVGRTKLEVKVVIKSNFK 191
Query: 326 ASITANTIVVEMPLPKYTTRVSFGLEPGAVGQRTDFKEANRRLEWGLKKIVGGSEHTLRA 385
S+ A I V +P P T+ G++ + + +K + + W +K++ G E + A
Sbjct: 192 PSLLAQKIEVRIPTPLNTS----GVQVICMKGKAKYKASENAIVWKIKRMAGMKESQISA 247
Query: 386 KLTFSQESHGNITKEVG--PVNMTFTIPMYNASKLQVKYLQIAKKSSTYNPY---RWVRY 440
++ N K+ P++M F +P + S L+V+YL++ + Y+ + +WVRY
Sbjct: 248 EIELLPT---NDKKKWARPPISMNFEVP-FAPSGLKVRYLKVFEPKLNYSDHDVIKWVRY 303
Query: 441 VTQANSYVARI 451
+ ++ Y R
Sbjct: 304 IGRSGIYETRC 314
>pdb|1BW8|A Chain A, Mu2 Adaptin Subunit (Ap50) Of Ap2 Adaptor (Second Domain),
Complexed With Egfr Internalization Peptide Fyralm
Length = 321
Score = 180 bits (457), Expect = 1e-45, Method: Compositional matrix adjust.
Identities = 98/311 (31%), Positives = 169/311 (54%), Gaps = 23/311 (7%)
Query: 156 IFMQGTKRMPGTAVTKSVVANEPGGR----------KREEIFVDIIEKISVTFSSSGYIL 205
I QG K T +S + ++ G+ +R E+F+D++E +++ S G +L
Sbjct: 19 ITQQGIKSQHQTKEEQSQITSQVTGQIGWRREGIKYRRNELFLDVLESVNLLMSPQGQVL 78
Query: 206 TSEIDGTIQMKSYLTGNPEIRLALNDDLLIGKGGRSIYDYRSSTGSGAVVLDDCNFHESV 265
++ + G + MKSYL+G PE + +ND ++I K G+ D S +G ++ +DDC FH+ V
Sbjct: 79 SAHVSGRVVMKSYLSGMPECKFGMNDKIVIEKQGKGTADETSKSGKQSIAIDDCTFHQCV 138
Query: 266 RLDSFDVDRTLSLVPPDGEFPVMNYRMTQEFKPPFRINTLVEEAGALKAEVIIKISAEFS 325
RL FD +R++S +PPDGEF +M YR T++ PFR+ LV E G K EV + I + F
Sbjct: 139 RLSKFDSERSISFIPPDGEFELMRYRTTKDIILPFRVIPLVREVGRTKLEVKVVIKSNFK 198
Query: 326 ASITANTIVVEMPLPKYTTRVSFGLEPGAVGQRTDFKEANRRLEWGLKKIVGGSEHTLRA 385
S+ A I V +P P T+ G++ + + +K + + W +K++ G E + A
Sbjct: 199 PSLLAQKIEVRIPTPLNTS----GVQVICMKGKAKYKASENAIVWKIKRMAGMKESQISA 254
Query: 386 KLTFSQESHGNITKEVG--PVNMTFTIPMYNASKLQVKYLQIAKKSSTYNPY---RWVRY 440
++ N K+ P++M F +P + S L+V+YL++ + Y+ + +WVRY
Sbjct: 255 EIELLPT---NDKKKWARPPISMNFEVP-FAPSGLKVRYLKVFEPKLNYSDHDVIKWVRY 310
Query: 441 VTQANSYVARI 451
+ ++ Y R
Sbjct: 311 IGRSGIYETRC 321
>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 = 180 bits (456), Expect = 1e-45, Method: Compositional matrix adjust.
Identities = 89/273 (32%), Positives = 156/273 (57%), Gaps = 9/273 (3%)
Query: 182 KREEIFVDIIEKISVTFSSSGYILTSEIDGTIQMKSYLTGNPEIRLALNDDLLIGKGGRS 241
+R E+F+D++E +++ S G +L++ + G + MKSYL+G PE + +ND ++I K G+
Sbjct: 19 RRNELFLDVLESVNLLMSPQGQVLSAHVSGRVVMKSYLSGMPECKFGMNDKIVIEKQGKG 78
Query: 242 IYDYRSSTGSGAVVLDDCNFHESVRLDSFDVDRTLSLVPPDGEFPVMNYRMTQEFKPPFR 301
D S +G ++ +DDC FH+ VRL FD +R++S +PPDGEF +M YR T++ PFR
Sbjct: 79 TADETSKSGKQSIAIDDCTFHQCVRLSKFDSERSISFIPPDGEFELMRYRTTKDIILPFR 138
Query: 302 INTLVEEAGALKAEVIIKISAEFSASITANTIVVEMPLPKYTTRVSFGLEPGAVGQRTDF 361
+ LV E G K EV + I + F S+ A I V +P P T+ G++ + + +
Sbjct: 139 VIPLVREVGRTKLEVKVVIKSNFKPSLLAQKIEVRIPTPLNTS----GVQVICMKGKAKY 194
Query: 362 KEANRRLEWGLKKIVGGSEHTLRAKLTFSQESHGNITKEVGPVNMTFTIPMYNASKLQVK 421
K + + W +K++ G E + A++ ++ P++M F +P + S L+V+
Sbjct: 195 KASENAIVWKIKRMAGMKESQISAEIEL-LPTNDKKKWARPPISMNFEVP-FAPSGLKVR 252
Query: 422 YLQIAKKSSTYNPY---RWVRYVTQANSYVARI 451
YL++ + Y+ + +WVRY+ ++ Y R
Sbjct: 253 YLKVFEPKLNYSDHDVIKWVRYIGRSGIYETRC 285
>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 = 180 bits (456), Expect = 1e-45, Method: Compositional matrix adjust.
Identities = 92/277 (33%), Positives = 157/277 (56%), Gaps = 13/277 (4%)
Query: 180 GRKREEIFVDIIEKISVTFSSSGYILTSEIDGTIQMKSYLTGNPEIRLALNDDLLIGKGG 239
G R E+F+D++E +++ S G +L++ + G + MKSYL+G PE + +ND ++I K G
Sbjct: 117 GGSRNELFLDVLESVNLLMSPQGQVLSAHVSGRVVMKSYLSGMPECKFGMNDKIVIEKQG 176
Query: 240 RSIYDYRSSTGSGAVVLDDCNFHESVRLDSFDVDRTLSLVPPDGEFPVMNYRMTQEFKPP 299
+ D S +G ++ +DDC FH+ VRL FD +R++S +PPDGEF +M YR T++ P
Sbjct: 177 KGTADETSKSGKQSIAIDDCTFHQCVRLSKFDSERSISFIPPDGEFELMRYRTTKDIILP 236
Query: 300 FRINTLVEEAGALKAEVIIKISAEFSASITANTIVVEMPLPKYTTRVSFGLEPGAVGQRT 359
FR+ LV E G K EV + I + F S+ A I V +P P T+ G++ + +
Sbjct: 237 FRVIPLVREVGRTKLEVKVVIKSNFKPSLLAQKIEVRIPTPLNTS----GVQVICMKGKA 292
Query: 360 DFKEANRRLEWGLKKIVGGSEHTLRAKLTFSQESHGNITKEVG--PVNMTFTIPMYNASK 417
+K + + W +K++ G E + A++ N K+ P++M F +P + S
Sbjct: 293 KYKASENAIVWKIKRMAGMKESQISAEIELLPT---NDKKKWARPPISMNFEVP-FAPSG 348
Query: 418 LQVKYLQIAKKSSTYNPY---RWVRYVTQANSYVARI 451
L+V+YL++ + Y+ + +WVRY+ ++ Y R
Sbjct: 349 LKVRYLKVFEPKLNYSDHDVIKWVRYIGRSGIYETRC 385
>pdb|1H6E|A Chain A, Mu2 Adaptin Subunit (Ap50) Of Ap2 Adaptor (Second Domain),
Complexed With Ctla-4 Internalization Peptide
Ttgvyvkmppt
Length = 288
Score = 180 bits (456), Expect = 2e-45, Method: Compositional matrix adjust.
Identities = 89/273 (32%), Positives = 156/273 (57%), Gaps = 9/273 (3%)
Query: 182 KREEIFVDIIEKISVTFSSSGYILTSEIDGTIQMKSYLTGNPEIRLALNDDLLIGKGGRS 241
+R E+F+D++E +++ S G +L++ + G + MKSYL+G PE + +ND ++I K G+
Sbjct: 22 RRNELFLDVLESVNLLMSPQGQVLSAHVSGRVVMKSYLSGMPECKFGMNDKIVIEKQGKG 81
Query: 242 IYDYRSSTGSGAVVLDDCNFHESVRLDSFDVDRTLSLVPPDGEFPVMNYRMTQEFKPPFR 301
D S +G ++ +DDC FH+ VRL FD +R++S +PPDGEF +M YR T++ PFR
Sbjct: 82 TADETSKSGKQSIAIDDCTFHQCVRLSKFDSERSISFIPPDGEFELMRYRTTKDIILPFR 141
Query: 302 INTLVEEAGALKAEVIIKISAEFSASITANTIVVEMPLPKYTTRVSFGLEPGAVGQRTDF 361
+ LV E G K EV + I + F S+ A I V +P P T+ G++ + + +
Sbjct: 142 VIPLVREVGRTKLEVKVVIKSNFKPSLLAQKIEVRIPTPLNTS----GVQVICMKGKAKY 197
Query: 362 KEANRRLEWGLKKIVGGSEHTLRAKLTFSQESHGNITKEVGPVNMTFTIPMYNASKLQVK 421
K + + W +K++ G E + A++ ++ P++M F +P + S L+V+
Sbjct: 198 KASENAIVWKIKRMAGMKESQISAEIEL-LPTNDKKKWARPPISMNFEVP-FAPSGLKVR 255
Query: 422 YLQIAKKSSTYNPY---RWVRYVTQANSYVARI 451
YL++ + Y+ + +WVRY+ ++ Y R
Sbjct: 256 YLKVFEPKLNYSDHDVIKWVRYIGRSGIYETRC 288
>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 = 180 bits (456), Expect = 2e-45, Method: Compositional matrix adjust.
Identities = 91/275 (33%), Positives = 157/275 (57%), Gaps = 13/275 (4%)
Query: 182 KREEIFVDIIEKISVTFSSSGYILTSEIDGTIQMKSYLTGNPEIRLALNDDLLIGKGGRS 241
+R E+F+D++E +++ S G +L++ + G + MKSYL+G PE + +ND ++I K G+
Sbjct: 33 RRNELFLDVLESVNLLMSPQGQVLSAHVSGRVVMKSYLSGMPECKFGMNDKIVIEKQGKG 92
Query: 242 IYDYRSSTGSGAVVLDDCNFHESVRLDSFDVDRTLSLVPPDGEFPVMNYRMTQEFKPPFR 301
D S +G ++ +DDC FH+ VRL FD +R++S +PPDGEF +M YR T++ PFR
Sbjct: 93 TADETSKSGKQSIAIDDCTFHQCVRLSKFDSERSISFIPPDGEFELMRYRTTKDIILPFR 152
Query: 302 INTLVEEAGALKAEVIIKISAEFSASITANTIVVEMPLPKYTTRVSFGLEPGAVGQRTDF 361
+ LV E G K EV + I + F S+ A I V +P P T+ G++ + + +
Sbjct: 153 VIPLVREVGRTKLEVKVVIKSNFKPSLLAQKIEVRIPTPLNTS----GVQVICMKGKAKY 208
Query: 362 KEANRRLEWGLKKIVGGSEHTLRAKLTFSQESHGNITKEVG--PVNMTFTIPMYNASKLQ 419
K + + W +K++ G E + A++ N K+ P++M F +P + S L+
Sbjct: 209 KASENAIVWKIKRMAGMKESQISAEIELLPT---NDKKKWARPPISMNFEVP-FAPSGLK 264
Query: 420 VKYLQIAKKSSTYNPY---RWVRYVTQANSYVARI 451
V+YL++ + Y+ + +WVRY+ ++ Y R
Sbjct: 265 VRYLKVFEPKLNYSDHDVIKWVRYIGRSGIYETRC 299
>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 = 176 bits (447), Expect = 2e-44, Method: Compositional matrix adjust.
Identities = 96/270 (35%), Positives = 152/270 (56%), Gaps = 16/270 (5%)
Query: 182 KREEIFVDIIEKISVTFSSSGYILTSEIDGTIQMKSYLTGNPEIRLALNDDLLIGKGGRS 241
++ E+F+D+IE +++ S++G +L SEI G+I+M+ +L+G PE+RL LND +L GR
Sbjct: 10 RKNEVFLDVIEAVNLLVSANGNVLRSEIVGSIKMRVFLSGMPELRLGLNDKVLFDNTGRG 69
Query: 242 IYDYRSSTGSGAVVLDDCNFHESVRLDSFDVDRTLSLVPPDGEFPVMNYRMTQEFKPPFR 301
S +V L+D FH+ VRL F+ DRT+S +PPDGEF +M+YR+ KP
Sbjct: 70 --------KSKSVELEDVKFHQCVRLSRFENDRTISFIPPDGEFELMSYRLNTHVKPLIW 121
Query: 302 INTLVEEAGALKAEVIIKISAEFSASITANTIVVEMPLPKYTTRVSFGLEPGAVGQRTDF 361
I +++E+ + E ++K ++F TAN + + +P+P F G+V +
Sbjct: 122 IESVIEKHSHSRIEYMVKAKSQFKRRSTANNVEIHIPVPNDADSPKFKTTVGSV----KW 177
Query: 362 KEANRRLEWGLKKIVGGSEHTLRAKLTF-SQESHGNITKEVGPVNMTFTIPMYNASKLQV 420
N + W +K GG E+ +RA S E+ K P+++ F IP + S +QV
Sbjct: 178 VPENSEIVWSVKSFPGGKEYLMRAHFGLPSVEAEDKEGKP--PISVKFEIPYFTTSGIQV 235
Query: 421 KYLQIAKKSSTYNPYRWVRYVTQANSYVAR 450
+YL+I +KS Y WVRY+TQ Y R
Sbjct: 236 RYLKIIEKSG-YQALPWVRYITQNGDYQLR 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 = 169 bits (428), Expect = 3e-42, Method: Compositional matrix adjust.
Identities = 94/270 (34%), Positives = 148/270 (54%), Gaps = 16/270 (5%)
Query: 182 KREEIFVDIIEKISVTFSSSGYILTSEIDGTIQMKSYLTGNPEIRLALNDDLLIGKGGRS 241
++ E+F+D+IE +++ S++G +L SEI G+I+ + +L+G PE+RL LND +L GR
Sbjct: 10 RKNEVFLDVIEAVNLLVSANGNVLRSEIVGSIKXRVFLSGXPELRLGLNDKVLFDNTGRG 69
Query: 242 IYDYRSSTGSGAVVLDDCNFHESVRLDSFDVDRTLSLVPPDGEFPVMNYRMTQEFKPPFR 301
S +V L+D FH+ VRL F+ DRT+S +PPDGEF + +YR+ KP
Sbjct: 70 --------KSKSVELEDVKFHQCVRLSRFENDRTISFIPPDGEFELXSYRLNTHVKPLIW 121
Query: 302 INTLVEEAGALKAEVIIKISAEFSASITANTIVVEMPLPKYTTRVSFGLEPGAVGQRTDF 361
I +++E+ + E +K ++F TAN + + +P+P F G+V +
Sbjct: 122 IESVIEKHSHSRIEYXVKAKSQFKRRSTANNVEIHIPVPNDADSPKFKTTVGSV----KW 177
Query: 362 KEANRRLEWGLKKIVGGSEHTLRAKLTF-SQESHGNITKEVGPVNMTFTIPMYNASKLQV 420
N + W +K GG E+ RA S E+ K P+++ F IP + S +QV
Sbjct: 178 VPENSEIVWSVKSFPGGKEYLXRAHFGLPSVEAEDKEGKP--PISVKFEIPYFTTSGIQV 235
Query: 421 KYLQIAKKSSTYNPYRWVRYVTQANSYVAR 450
+YL+I +KS Y WVRY+TQ Y R
Sbjct: 236 RYLKIIEKSG-YQALPWVRYITQNGDYQLR 264
>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 = 158 bits (400), Expect = 5e-39, Method: Compositional matrix adjust.
Identities = 91/305 (29%), Positives = 169/305 (55%), Gaps = 23/305 (7%)
Query: 159 QGTKRMPGTAVTKSVVANEPGGRKREEIFVDIIEKISVTFSSSGYILTSEIDGTIQMKSY 218
Q +K P +A ++ V+++ ++ E+F+D++E++SV +S+G +L ++ G I++KS+
Sbjct: 8 QQSKVAPSSAASRPVLSSRSDQSQKNEVFLDVVERLSVLIASNGSLLKVDVQGEIRLKSF 67
Query: 219 LTGNPEIRLALNDDLLIGKGGRSIYDYRSSTGSGAVVLDDCNFHESVRLDSFDVDRTLSL 278
L E+R+ L ++ +GK Y G G + +D+ +FH SV LD F+ R L L
Sbjct: 68 LPSGSEMRIGLTEEFSVGKSELRGY------GPG-IRVDEVSFHSSVNLDEFESHRILRL 120
Query: 279 VPPDGEFPVMNYRMTQEFKP--PFRINTLVE-EAGALKAEVIIKISAEFSASITANTIVV 335
PP GE VM Y+++ + PFR+ V+ + G+ + +V +K+ + + A + +
Sbjct: 121 QPPQGELTVMRYQLSDDLPSPLPFRLFPSVQWDRGSGRLQVYLKLRCDLLSKSQALNVRL 180
Query: 336 EMPLPKYTTRVSFGLEPGAVGQRTDFKEANRRLEWGLKKIVGGSEHT----LRAKLTFSQ 391
+PLP+ VS E + Q+ + E L W L ++ GGS+ + +
Sbjct: 181 HLPLPRGV--VSLSQELSSPEQKAELAEGA--LRWDLPRVQGGSQLSGLFQMDVPGPPGP 236
Query: 392 ESHGNITKE----VGPVNMTFTIPMYNASKLQVKYLQIA-KKSSTYNPYRWVRYVTQANS 446
SHG T +GP +++F +P + S LQV++L++A + S NP++WVR+++ +++
Sbjct: 237 PSHGLSTSASPLGLGPASLSFELPRHTCSGLQVRFLRLAFRPSGNANPHKWVRHLSHSDA 296
Query: 447 YVARI 451
YV RI
Sbjct: 297 YVIRI 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 = 77.4 bits (189), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 62/271 (22%), Positives = 112/271 (41%), Gaps = 36/271 (13%)
Query: 185 EIFVDIIEKISVTFSSSGYILTSEIDGTIQMKSYLTGNPEIRLALNDDLLIGKGGRSIYD 244
E + D++E+I SG + +EI G I L+G P++ L+ + L
Sbjct: 21 EAYFDVVEEIDAIIDKSGSTVFAEIQGVIDACIKLSGMPDLSLSFMNPRL---------- 70
Query: 245 YRSSTGSGAVVLDDCNFHESVRLDSFDVDRTLSLVPPDGEFPVMNYRMTQE--FKPPFRI 302
LDD +FH +R ++ +R LS +PPDG F +++YR++ + P +
Sbjct: 71 -----------LDDVSFHPCIRFKRWESERVLSFIPPDGNFRLISYRVSSQNLVAIPVYV 119
Query: 303 N---TLVEEAGALKAEVIIKISAEFSASITANTIVVEMPLPKYTTRVSFGLEPGAVGQRT 359
+ E + + ++ I +I T+ V MP +V +
Sbjct: 120 KHNISFKENSSCGRFDITIGPKQNMGKTIEGITVTVHMP------KVVLNMNLTPTQGSY 173
Query: 360 DFKEANRRLEWGLKKIVGGSEHTLRAKLTFSQESHGNITKEVGPVNMTFTIPMYNASKLQ 419
F + L W + KI +L+ + +S +E +N+ F I S L+
Sbjct: 174 TFDPVTKVLAWDVGKITPQKLPSLKGLVNL--QSGAPKPEENPNLNIQFKIQQLAISGLK 231
Query: 420 VKYLQIAKKSSTYNPYRWVRYVTQANSYVAR 450
V L + Y P++ V+Y+T+A + R
Sbjct: 232 VNRLDMY--GEKYKPFKGVKYITKAGKFQVR 260
>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 = 33.5 bits (75), Expect = 0.24, Method: Composition-based stats.
Identities = 24/73 (32%), Positives = 36/73 (49%), Gaps = 1/73 (1%)
Query: 62 KVVGLLFVATTRVNVSPSLVLELLQRIARVIKDYLGVLNEDSLRKNFVLVYELLDEVIDF 121
+ GL F VN + LE + V+ +Y + E L NF VY ++DE+
Sbjct: 61 RYAGLYFCICVDVNDNNLAYLEAIHNFVEVLNEYFHNVCELDLVFNFYKVYTVVDEMFLA 120
Query: 122 GYVQTTS-TEVLK 133
G ++ TS T+VLK
Sbjct: 121 GEIRETSQTKVLK 133
>pdb|1W63|Q Chain Q, Ap1 Clathrin Adaptor Core
pdb|1W63|S Chain S, Ap1 Clathrin Adaptor Core
pdb|1W63|T Chain T, Ap1 Clathrin Adaptor Core
pdb|1W63|U Chain U, Ap1 Clathrin Adaptor Core
pdb|1W63|W Chain W, Ap1 Clathrin Adaptor Core
pdb|1W63|X Chain X, Ap1 Clathrin Adaptor Core
Length = 158
Score = 31.2 bits (69), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 23/74 (31%), Positives = 35/74 (47%), Gaps = 1/74 (1%)
Query: 62 KVVGLLFVATTRVNVSPSLVLELLQRIARVIKDYLGVLNEDSLRKNFVLVYELLDEVIDF 121
+ L F + + LEL+ R ++ Y G + E + NF Y +LDE +
Sbjct: 61 RYASLYFCCAIEGQDNELITLELIHRYVELLDKYFGSVCELDIIFNFEKAYFILDEFLMG 120
Query: 122 GYVQTTSTE-VLKS 134
G VQ TS + VLK+
Sbjct: 121 GDVQDTSKKSVLKA 134
>pdb|3NOX|A Chain A, Crystal Structure Of Human Dpp-Iv In Complex With
Sa-(+)-(6-
(Aminomethyl)-5-(2,4-Dichlorophenyl)-7-Methylimidazo[1,
2-A]pyrimidin- 2-Yl)(Morpholino)methanone
pdb|3NOX|B Chain B, Crystal Structure Of Human Dpp-Iv In Complex With
Sa-(+)-(6-
(Aminomethyl)-5-(2,4-Dichlorophenyl)-7-Methylimidazo[1,
2-A]pyrimidin- 2-Yl)(Morpholino)methanone
pdb|3SWW|A Chain A, Crystal Structure Of Human Dpp-Iv In Complex With
Sa-(+)-3-
(Aminomethyl)-4-(2,
4-Dichlorophenyl)-6-(2-Methoxyphenyl)- 2-Methyl-
5h-Pyrrolo[3,4-B]pyridin-7(6h)-One
pdb|3SWW|B Chain B, Crystal Structure Of Human Dpp-Iv In Complex With
Sa-(+)-3-
(Aminomethyl)-4-(2,
4-Dichlorophenyl)-6-(2-Methoxyphenyl)- 2-Methyl-
5h-Pyrrolo[3,4-B]pyridin-7(6h)-One
pdb|3SX4|A Chain A, Crystal Structure Of Human Dpp-Iv In Complex With
Sa-(+)-3-
(Aminomethyl)-4-(2,
4-Dichlorophenyl)-6-(2-Methoxyphenyl)- 2-Methyl-
5h-Pyrrolo[3,4-B]pyridin-7(6h)-One
pdb|3SX4|B Chain B, Crystal Structure Of Human Dpp-Iv In Complex With
Sa-(+)-3-
(Aminomethyl)-4-(2,
4-Dichlorophenyl)-6-(2-Methoxyphenyl)- 2-Methyl-
5h-Pyrrolo[3,4-B]pyridin-7(6h)-One
pdb|3Q0T|A Chain A, Crystal Structure Of Human Dpp-iv In Complex Withsa-(+)-
Methyl2-(3-
(aminomethyl)-4-(2,4-dichlorophenyl)-2-methyl-
7-oxo-5h-pyrrolo[3,4- B]pyridin-6(7h)-yl)acetate
pdb|3Q0T|B Chain B, Crystal Structure Of Human Dpp-iv In Complex Withsa-(+)-
Methyl2-(3-
(aminomethyl)-4-(2,4-dichlorophenyl)-2-methyl-
7-oxo-5h-pyrrolo[3,4- B]pyridin-6(7h)-yl)acetate
Length = 753
Score = 29.3 bits (64), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 23/103 (22%), Positives = 46/103 (44%), Gaps = 12/103 (11%)
Query: 198 FSSSGYILTSEIDGTIQMKSYLTGNPEIRLALNDDLLIGKGGRSIYDYRSSTGSGAVVLD 257
FS Y LT + T ++K Y +R ++D + K +I + + G+ +V L+
Sbjct: 2 FSRKTYTLTDYLKNTYRLKLY-----SLRW-ISDHEYLYKQENNILVFNAEYGNSSVFLE 55
Query: 258 DCNFHESVRLDSFDVDRTLSLVPPDGEFPVMNYRMTQEFKPPF 300
+ F D F + PDG+F ++ Y ++++ +
Sbjct: 56 NSTF------DEFGHSINDYSISPDGQFILLEYNYVKQWRHSY 92
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 0.136 0.387
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,926,819
Number of Sequences: 62578
Number of extensions: 529961
Number of successful extensions: 1321
Number of sequences better than 100.0: 18
Number of HSP's better than 100.0 without gapping: 15
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 1276
Number of HSP's gapped (non-prelim): 18
length of query: 451
length of database: 14,973,337
effective HSP length: 102
effective length of query: 349
effective length of database: 8,590,381
effective search space: 2998042969
effective search space used: 2998042969
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 53 (25.0 bits)