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= 017238
(375 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 219 bits (557), Expect = 3e-57, Method: Compositional matrix adjust.
Identities = 104/254 (40%), Positives = 163/254 (64%), Gaps = 5/254 (1%)
Query: 127 VPWRPTDVKYANNEVYVDLVEEMDAIINRDGVLVKCEIYGEVQVNCLLSGLPDLTLSFAN 186
+PWR VKY NNE Y D+VEE+DAII++ G V EI G + LSG+PDL+LSF N
Sbjct: 8 IPWRRAGVKYTNNEAYFDVVEEIDAIIDKSGSTVFAEIQGVIDACIKLSGMPDLSLSFMN 67
Query: 187 PSILHDVRFHPCVRFRPWESHQILSFVPPDGQFKLMSYRV--KKLKSTPIYVKPQLT-SD 243
P +L DV FHPC+RF+ WES ++LSF+PPDG F+L+SYRV + L + P+YVK ++ +
Sbjct: 68 PRLLDDVSFHPCIRFKRWESERVLSFIPPDGNFRLISYRVSSQNLVAIPVYVKHNISFKE 127
Query: 244 AGTC-RISVMVGIRNDPGKTIDSIILQFQLPPCILSADLTSNHGTVNVLS-NKICTWSIG 301
+C R + +G + + GKTI+ I + +P +L+ +LT G+ K+ W +G
Sbjct: 128 NSSCGRFDITIGPKQNMGKTIEGITVTVHMPKVVLNMNLTPTQGSYTFDPVTKVLAWDVG 187
Query: 302 RIPKDKAPSLSGTMVLETGLETLRVFPTFQVEFRIMGVALSGLQIDKLDLQNVPNRLYKG 361
+I K PSL G + L++G P ++F+I +A+SGL++++LD+ + +KG
Sbjct: 188 KITPQKLPSLKGLVNLQSGAPKPEENPNLNIQFKIQQLAISGLKVNRLDMYGEKYKPFKG 247
Query: 362 FRAVTRAGEYEVRS 375
+ +T+AG+++VR+
Sbjct: 248 VKYITKAGKFQVRT 261
>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 = 165 bits (417), Expect = 4e-41, Method: Compositional matrix adjust.
Identities = 112/392 (28%), Positives = 190/392 (48%), Gaps = 41/392 (10%)
Query: 8 PVIASPTHYIFQIVRAGITFLACTQVEMPPLMGIEFLCRVADILSDYLGELNEDLIKDNF 67
P++A I + +A ++ + FL +V + S+Y EL E+ I+DNF
Sbjct: 48 PILAHGGVRFMWIKHNNLYLVATSKKNACVSLVFSFLYKVVQVFSEYFKELEEESIRDNF 107
Query: 68 VIVYELLDEMIDNGFPLTTEPNILREMIAPPNIVSKMLSVVTGNSSNVSDILPGATAS-C 126
VI+YELLDE++D G+P TT+ IL+E I G+ P AT +
Sbjct: 108 VIIYELLDELMDFGYPQTTDSKILQEFITQ-----------EGHKLETGAPRPPATVTNA 156
Query: 127 VPWRPTDVKYANNEVYVDLVEEMDAIINRDGVLVKCEIYGEVQVNCLLSGLPDLTLSFAN 186
V WR +KY NEV++D++E ++ +++ +G +++ EI G +++ LSG+P+L L +
Sbjct: 157 VSWRSEGIKYRKNEVFLDVIEAVNLLVSANGNVLRSEIVGSIKMRVFLSGMPELRLGLND 216
Query: 187 PSI-------------LHDVRFHPCVRFRPWESHQILSFVPPDGQFKLMSYRVKKLKSTP 233
+ L DV+FH CVR +E+ + +SF+PPDG+F+LMSYR+
Sbjct: 217 KVLFDNTGRGKSKSVELEDVKFHQCVRLSRFENDRTISFIPPDGEFELMSYRLNTHVKPL 276
Query: 234 IYVKPQLTSDAGTCRISVMVGIRNDPGK--TIDSIILQFQLPPCILSADLTSNHGTVN-V 290
I+++ + + + RI MV ++ + T +++ + +P S + G+V V
Sbjct: 277 IWIESVIEKHSHS-RIEYMVKAKSQFKRRSTANNVEIHIPVPNDADSPKFKTTVGSVKWV 335
Query: 291 LSNKICTWSIGRIPKDKAPSLSGTMVL-ETGLETLRVFPTFQVEFRIMGVALSGLQ---- 345
N WS+ P K + L E P V+F I SG+Q
Sbjct: 336 PENSEIVWSVKSFPGGKEYLMRAHFGLPSVEAEDKEGKPPISVKFEIPYFTTSGIQVRYL 395
Query: 346 --IDKLDLQNVPNRLYKGFRAVTRAGEYEVRS 375
I+K Q +P R +T+ G+Y++R+
Sbjct: 396 KIIEKSGYQAIP-----WVRYITQNGDYQLRT 422
>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 = 148 bits (373), Expect = 5e-36, Method: Compositional matrix adjust.
Identities = 102/397 (25%), Positives = 188/397 (47%), Gaps = 38/397 (9%)
Query: 8 PVIASPTHYIFQIVRAGITFLACTQVEMPPLMGIEFLCRVADILSDYLGELNEDLIKDNF 67
PV F + R+ I A T+ + M EFL ++ D+++ Y G+++E+ IK+NF
Sbjct: 46 PVTNIARTSFFHVKRSNIWLAAVTKQNVNAAMVFEFLYKMCDVMAAYFGKISEENIKNNF 105
Query: 68 VIVYELLDEMIDNGFPLTTEPNILREMIAPPNIVSKMLSVVTGNSSNVSDILPGATASCV 127
V++YELLDE++D G+P +E L+ I I S+ + S ++ + G +
Sbjct: 106 VLIYELLDEILDFGYPQNSETGALKTFITQQGIKSQHQT--KEEQSQITSQVTGQ----I 159
Query: 128 PWRPTDVKYANNEVYVDLVEEMDAIINRDGVLVKCEIYGEVQVNCLLSGLPDLTLSFANP 187
WR +KY NE+++D++E ++ +++ G ++ + G V + LSG+P+ +
Sbjct: 160 GWRREGIKYRRNELFLDVLESVNLLMSPQGQVLSAHVSGRVVMKSYLSGMPECKFGMNDK 219
Query: 188 SILH---------------------DVRFHPCVRFRPWESHQILSFVPPDGQFKLMSYRV 226
++ D FH CVR ++S + +SF+PPDG+F+LM YR
Sbjct: 220 IVIEKQGKGTADETSKSGKQSIAIDDCTFHQCVRLSKFDSERSISFIPPDGEFELMRYRT 279
Query: 227 KKLKSTPIYVKPQLTSDAGTCRISVMVGIRNDPGKTIDSIILQFQLPPCILSADLT---- 282
K P V P L + G ++ V V I+++ ++ + ++ ++P + ++ +
Sbjct: 280 TKDIILPFRVIP-LVREVGRTKLEVKVVIKSNFKPSLLAQKIEVRIPTPLNTSGVQVICM 338
Query: 283 SNHGTVNVLSNKICTWSIGRIPKDKAPSLSGTM-VLETGLETLRVFP----TFQVEFRIM 337
N I W I R+ K +S + +L T + P F+V F
Sbjct: 339 KGKAKYKASENAIV-WKIKRMAGMKESQISAEIELLPTNDKKKWARPPISMNFEVPFAPS 397
Query: 338 GVALSGLQIDKLDLQNVPNRLYKGFRAVTRAGEYEVR 374
G+ + L++ + L + + K R + R+G YE R
Sbjct: 398 GLKVRYLKVFEPKLNYSDHDVIKWVRYIGRSGIYETR 434
>pdb|2XA7|M Chain M, Ap2 Clathrin Adaptor Core In Active Complex With Cargo
Peptides
Length = 446
Score = 144 bits (362), Expect = 1e-34, Method: Compositional matrix adjust.
Identities = 102/408 (25%), Positives = 188/408 (46%), Gaps = 49/408 (12%)
Query: 8 PVIASPTHYIFQIVRAGITFLACTQVEMPPLMGIEFLCRVADILSDYLGELNEDLIKDNF 67
PV F + R+ I A T+ + M EFL ++ D+++ Y G+++E+ IK+NF
Sbjct: 46 PVTNIARTSFFHVKRSNIWLAAVTKQNVNAAMVFEFLYKMCDVMAAYFGKISEENIKNNF 105
Query: 68 VIVYELLDEMIDNGFPLTTEPNILREMIAPPNIVSKMLSVVTGNSSNVSDILPGATASCV 127
V++YELLDE++D G+P +E L+ I I S+ + S ++ + G +
Sbjct: 106 VLIYELLDEILDFGYPQNSETGALKTFITQQGIKSQHQT--KEEQSQITSQVTGQ----I 159
Query: 128 PWRPTDVKYANNEVYVDLVEEMDAIINRDGVLVKCEIYGEVQVNCLLSGLPDLTLSFANP 187
WR +KY NE+++D++E ++ +++ G ++ + G V + LSG+P+ +
Sbjct: 160 GWRREGIKYRRNELFLDVLESVNLLMSPQGQVLSAHVSGRVVMKSYLSGMPECKFGMNDK 219
Query: 188 SILH--------------------------------DVRFHPCVRFRPWESHQILSFVPP 215
++ D FH CVR ++S + +SF+PP
Sbjct: 220 IVIEKQGKGTADETSKSMEQKLISEEDLGKQSIAIDDCTFHQCVRLSKFDSERSISFIPP 279
Query: 216 DGQFKLMSYRVKKLKSTPIYVKPQLTSDAGTCRISVMVGIRNDPGKTIDSIILQFQLPPC 275
DG+F+LM YR K P V P L + G ++ V V I+++ ++ + ++ ++P
Sbjct: 280 DGEFELMRYRTTKDIILPFRVIP-LVREVGRTKLEVKVVIKSNFKPSLLAQKIEVRIPTP 338
Query: 276 ILSADLT----SNHGTVNVLSNKICTWSIGRIPKDKAPSLSGTM-VLETGLETLRVFP-- 328
+ ++ + N I W I R+ K +S + +L T + P
Sbjct: 339 LNTSGVQVICMKGKAKYKASENAIV-WKIKRMAGMKESQISAEIELLPTNDKKKWARPPI 397
Query: 329 --TFQVEFRIMGVALSGLQIDKLDLQNVPNRLYKGFRAVTRAGEYEVR 374
F+V F G+ + L++ + L + + K R + R+G YE R
Sbjct: 398 SMNFEVPFAPSGLKVRYLKVFEPKLNYSDHDVIKWVRYIGRSGIYETR 445
>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 = 108 bits (269), Expect = 6e-24, Method: Compositional matrix adjust.
Identities = 72/267 (26%), Positives = 133/267 (49%), Gaps = 23/267 (8%)
Query: 129 WRPTDVKYANNEVYVDLVEEMDAIINRDGVLVKCEIYGEVQVNCLLSGLPDLTLSFANPS 188
WR +KY NEV++D++E ++ +++ +G +++ EI G +++ LSG+P+L L +
Sbjct: 2 WRSEGIKYRKNEVFLDVIEAVNLLVSANGNVLRSEIVGSIKMRVFLSGMPELRLGLNDKV 61
Query: 189 I-------------LHDVRFHPCVRFRPWESHQILSFVPPDGQFKLMSYRVKKLKSTPIY 235
+ L DV+FH CVR +E+ + +SF+PPDG+F+LMSYR+ I+
Sbjct: 62 LFDNTGRGKSKSVELEDVKFHQCVRLSRFENDRTISFIPPDGEFELMSYRLNTHVKPLIW 121
Query: 236 VKPQLTSDAGTCRISVMVGIRNDPGK--TIDSIILQFQLPPCILSADLTSNHGTVN-VLS 292
++ + + + RI MV ++ + T +++ + +P S + G+V V
Sbjct: 122 IESVIEKHSHS-RIEYMVKAKSQFKRRSTANNVEIHIPVPNDADSPKFKTTVGSVKWVPE 180
Query: 293 NKICTWSIGRIPKDKAPSLSGTMVLET-GLETLRVFPTFQVEFRIMGVALSGLQIDKLDL 351
N WS+ P K + L + E P V+F I SG+Q+ L +
Sbjct: 181 NSEIVWSVKSFPGGKEYLMRAHFGLPSVEAEDKEGKPPISVKFEIPYFTTSGIQVRYLKI 240
Query: 352 QNVPNRLYKGF---RAVTRAGEYEVRS 375
+ Y+ R +T+ G+Y++R+
Sbjct: 241 --IEKSGYQALPWVRYITQNGDYQLRT 265
>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 = 100 bits (248), Expect = 2e-21, Method: Compositional matrix adjust.
Identities = 70/267 (26%), Positives = 128/267 (47%), Gaps = 23/267 (8%)
Query: 129 WRPTDVKYANNEVYVDLVEEMDAIINRDGVLVKCEIYGEVQVNCLLSGLPDLTLSFANPS 188
WR +KY NEV++D++E ++ +++ +G +++ EI G ++ LSG P+L L +
Sbjct: 2 WRSEGIKYRKNEVFLDVIEAVNLLVSANGNVLRSEIVGSIKXRVFLSGXPELRLGLNDKV 61
Query: 189 I-------------LHDVRFHPCVRFRPWESHQILSFVPPDGQFKLMSYRVKKLKSTPIY 235
+ L DV+FH CVR +E+ + +SF+PPDG+F+L SYR+ I+
Sbjct: 62 LFDNTGRGKSKSVELEDVKFHQCVRLSRFENDRTISFIPPDGEFELXSYRLNTHVKPLIW 121
Query: 236 VKPQLTSDAGTCRISVMVGIRNDPGK--TIDSIILQFQLPPCILSADLTSNHGTVN-VLS 292
++ + + + RI V ++ + T +++ + +P S + G+V V
Sbjct: 122 IESVIEKHSHS-RIEYXVKAKSQFKRRSTANNVEIHIPVPNDADSPKFKTTVGSVKWVPE 180
Query: 293 NKICTWSIGRIPKDKAPSLSGTMVLET-GLETLRVFPTFQVEFRIMGVALSGLQIDKLDL 351
N WS+ P K L + E P V+F I SG+Q+ L +
Sbjct: 181 NSEIVWSVKSFPGGKEYLXRAHFGLPSVEAEDKEGKPPISVKFEIPYFTTSGIQVRYLKI 240
Query: 352 QNVPNRLYKGF---RAVTRAGEYEVRS 375
+ Y+ R +T+ G+Y++R+
Sbjct: 241 --IEKSGYQALPWVRYITQNGDYQLRT 265
>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 = 90.1 bits (222), Expect = 2e-18, Method: Compositional matrix adjust.
Identities = 67/287 (23%), Positives = 130/287 (45%), Gaps = 32/287 (11%)
Query: 118 ILPGATASCVPWRPTDVKYANNEVYVDLVEEMDAIINRDGVLVKCEIYGEVQVNCLLSGL 177
++P + + WR +KY NE+++D++E ++ +++ G ++ + G V + LSG+
Sbjct: 14 LVPRGSHMQIGWRREGIKYRRNELFLDVLESVNLLMSPQGQVLSAHVSGRVVMKSYLSGM 73
Query: 178 PDLTLSFANPSILH---------------------DVRFHPCVRFRPWESHQILSFVPPD 216
P+ + ++ D FH CVR ++S + +SF+PPD
Sbjct: 74 PECKFGMNDKIVIEKQGKGTADETSKSGKQSIAIDDCTFHQCVRLSKFDSERSISFIPPD 133
Query: 217 GQFKLMSYRVKKLKSTPIYVKPQLTSDAGTCRISVMVGIRNDPGKTIDSIILQFQLPPCI 276
G+F+LM YR K P V P L + G ++ V V I+++ ++ + ++ ++P +
Sbjct: 134 GEFELMRYRTTKDIILPFRVIP-LVREVGRTKLEVKVVIKSNFKPSLLAQKIEVRIPTPL 192
Query: 277 LSADLT----SNHGTVNVLSNKICTWSIGRIPKDKAPSLSGTM-VLETGLETLRVFP--- 328
++ + N I W I R+ K +S + +L T + P
Sbjct: 193 NTSGVQVICMKGKAKYKASENAI-VWKIKRMAGMKESQISAEIELLPTNDKKKWARPPIS 251
Query: 329 -TFQVEFRIMGVALSGLQIDKLDLQNVPNRLYKGFRAVTRAGEYEVR 374
F+V F G+ + L++ + L + + K R + R+G YE R
Sbjct: 252 MNFEVPFAPSGLKVRYLKVFEPKLNYSDHDVIKWVRYIGRSGIYETR 298
>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 = 88.2 bits (217), Expect = 6e-18, Method: Compositional matrix adjust.
Identities = 66/278 (23%), Positives = 126/278 (45%), Gaps = 32/278 (11%)
Query: 127 VPWRPTDVKYANNEVYVDLVEEMDAIINRDGVLVKCEIYGEVQVNCLLSGLPDLTLSFAN 186
+ WR +KY NE+++D++E ++ +++ G ++ + G V + LSG+P+ +
Sbjct: 9 IGWRREGIKYRRNELFLDVLESVNLLMSPQGQVLSAHVSGRVVMKSYLSGMPECKFGMND 68
Query: 187 PSILH---------------------DVRFHPCVRFRPWESHQILSFVPPDGQFKLMSYR 225
++ D FH CVR ++S + +SF+PPDG+F+LM YR
Sbjct: 69 KIVIEKQGKGTADETSKSGKQSIAIDDCTFHQCVRLSKFDSERSISFIPPDGEFELMRYR 128
Query: 226 VKKLKSTPIYVKPQLTSDAGTCRISVMVGIRNDPGKTIDSIILQFQLPPCILSADLT--- 282
K P V P L + G ++ V V I+++ ++ + ++ ++P + ++ +
Sbjct: 129 TTKDIILPFRVIP-LVREVGRTKLEVKVVIKSNFKPSLLAQKIEVRIPTPLNTSGVQVIC 187
Query: 283 -SNHGTVNVLSNKICTWSIGRIPKDKAPSLSGTM-VLETGLETLRVFP----TFQVEFRI 336
N I W I R+ K +S + +L T + P F+V F
Sbjct: 188 MKGKAKYKASENAI-VWKIKRMAGMKESQISAEIELLPTNDKKKWARPPISMNFEVPFAP 246
Query: 337 MGVALSGLQIDKLDLQNVPNRLYKGFRAVTRAGEYEVR 374
G+ + L++ + L + + K R + R+G YE R
Sbjct: 247 SGLKVRYLKVFEPKLNYSDHDVIKWVRYIGRSGIYETR 284
>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 = 87.8 bits (216), Expect = 1e-17, Method: Compositional matrix adjust.
Identities = 70/278 (25%), Positives = 127/278 (45%), Gaps = 32/278 (11%)
Query: 127 VPWRPTDVKYANNEVYVDLVEEMDAIINRDGVLVKCEIYGEVQVNCLLSGLP-------- 178
+ WR +KY NE+++D++E ++ +++ G ++ + G V + LSG+P
Sbjct: 38 IGWRREGIKYRRNELFLDVLESVNLLMSPQGQVLSAHVSGRVVMKSYLSGMPECKFGMND 97
Query: 179 ------------DLTLSFANPSI-LHDVRFHPCVRFRPWESHQILSFVPPDGQFKLMSYR 225
D T SI + D FH CVR ++S + +SF+PPDG+F+LM YR
Sbjct: 98 KIVIEKQGKGTADETSKSGKQSIAIDDCTFHQCVRLSKFDSERSISFIPPDGEFELMRYR 157
Query: 226 VKKLKSTPIYVKPQLTSDAGTCRISVMVGIRNDPGKTIDSIILQFQLPPCILSADLT--- 282
K P V P L + G ++ V V I+++ ++ + ++ ++P + ++ +
Sbjct: 158 TTKDIILPFRVIP-LVREVGRTKLEVKVVIKSNFKPSLLAQKIEVRIPTPLNTSGVQVIC 216
Query: 283 -SNHGTVNVLSNKICTWSIGRIPKDKAPSLSGTM-VLETGLETLRVFP----TFQVEFRI 336
N I W I R+ K +S + +L T + P F+V F
Sbjct: 217 MKGKAKYKASENAIV-WKIKRMAGMKESQISAEIELLPTNDKKKWARPPISMNFEVPFAP 275
Query: 337 MGVALSGLQIDKLDLQNVPNRLYKGFRAVTRAGEYEVR 374
G+ + L++ + L + + K R + R+G YE R
Sbjct: 276 SGLKVRYLKVFEPKLNYSDHDVIKWVRYIGRSGIYETR 313
>pdb|1BW8|A Chain A, Mu2 Adaptin Subunit (Ap50) Of Ap2 Adaptor (Second Domain),
Complexed With Egfr Internalization Peptide Fyralm
Length = 321
Score = 87.8 bits (216), Expect = 1e-17, Method: Compositional matrix adjust.
Identities = 70/278 (25%), Positives = 127/278 (45%), Gaps = 32/278 (11%)
Query: 127 VPWRPTDVKYANNEVYVDLVEEMDAIINRDGVLVKCEIYGEVQVNCLLSGLP-------- 178
+ WR +KY NE+++D++E ++ +++ G ++ + G V + LSG+P
Sbjct: 45 IGWRREGIKYRRNELFLDVLESVNLLMSPQGQVLSAHVSGRVVMKSYLSGMPECKFGMND 104
Query: 179 ------------DLTLSFANPSI-LHDVRFHPCVRFRPWESHQILSFVPPDGQFKLMSYR 225
D T SI + D FH CVR ++S + +SF+PPDG+F+LM YR
Sbjct: 105 KIVIEKQGKGTADETSKSGKQSIAIDDCTFHQCVRLSKFDSERSISFIPPDGEFELMRYR 164
Query: 226 VKKLKSTPIYVKPQLTSDAGTCRISVMVGIRNDPGKTIDSIILQFQLPPCILSADLT--- 282
K P V P L + G ++ V V I+++ ++ + ++ ++P + ++ +
Sbjct: 165 TTKDIILPFRVIP-LVREVGRTKLEVKVVIKSNFKPSLLAQKIEVRIPTPLNTSGVQVIC 223
Query: 283 -SNHGTVNVLSNKICTWSIGRIPKDKAPSLSGTM-VLETGLETLRVFP----TFQVEFRI 336
N I W I R+ K +S + +L T + P F+V F
Sbjct: 224 MKGKAKYKASENAI-VWKIKRMAGMKESQISAEIELLPTNDKKKWARPPISMNFEVPFAP 282
Query: 337 MGVALSGLQIDKLDLQNVPNRLYKGFRAVTRAGEYEVR 374
G+ + L++ + L + + K R + R+G YE R
Sbjct: 283 SGLKVRYLKVFEPKLNYSDHDVIKWVRYIGRSGIYETR 320
>pdb|1H6E|A Chain A, Mu2 Adaptin Subunit (Ap50) Of Ap2 Adaptor (Second Domain),
Complexed With Ctla-4 Internalization Peptide
Ttgvyvkmppt
Length = 288
Score = 82.8 bits (203), Expect = 3e-16, Method: Compositional matrix adjust.
Identities = 64/271 (23%), Positives = 123/271 (45%), Gaps = 32/271 (11%)
Query: 134 VKYANNEVYVDLVEEMDAIINRDGVLVKCEIYGEVQVNCLLSGLPDLTLSFANPSILH-- 191
+KY NE+++D++E ++ +++ G ++ + G V + LSG+P+ + ++
Sbjct: 19 IKYRRNELFLDVLESVNLLMSPQGQVLSAHVSGRVVMKSYLSGMPECKFGMNDKIVIEKQ 78
Query: 192 -------------------DVRFHPCVRFRPWESHQILSFVPPDGQFKLMSYRVKKLKST 232
D FH CVR ++S + +SF+PPDG+F+LM YR K
Sbjct: 79 GKGTADETSKSGKQSIAIDDCTFHQCVRLSKFDSERSISFIPPDGEFELMRYRTTKDIIL 138
Query: 233 PIYVKPQLTSDAGTCRISVMVGIRNDPGKTIDSIILQFQLPPCILSADLT----SNHGTV 288
P V P L + G ++ V V I+++ ++ + ++ ++P + ++ +
Sbjct: 139 PFRVIP-LVREVGRTKLEVKVVIKSNFKPSLLAQKIEVRIPTPLNTSGVQVICMKGKAKY 197
Query: 289 NVLSNKICTWSIGRIPKDKAPSLSGTM-VLETGLETLRVFP----TFQVEFRIMGVALSG 343
N I W I R+ K +S + +L T + P F+V F G+ +
Sbjct: 198 KASENAI-VWKIKRMAGMKESQISAEIELLPTNDKKKWARPPISMNFEVPFAPSGLKVRY 256
Query: 344 LQIDKLDLQNVPNRLYKGFRAVTRAGEYEVR 374
L++ + L + + K R + R+G YE R
Sbjct: 257 LKVFEPKLNYSDHDVIKWVRYIGRSGIYETR 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 = 77.4 bits (189), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 62/268 (23%), Positives = 121/268 (45%), Gaps = 32/268 (11%)
Query: 137 ANNEVYVDLVEEMDAIINRDGVLVKCEIYGEVQVNCLLSGLPDLTLSFANPSILH----- 191
+ NE+++D++E ++ +++ G ++ + G V + LSG+P+ + ++
Sbjct: 119 SRNELFLDVLESVNLLMSPQGQVLSAHVSGRVVMKSYLSGMPECKFGMNDKIVIEKQGKG 178
Query: 192 ----------------DVRFHPCVRFRPWESHQILSFVPPDGQFKLMSYRVKKLKSTPIY 235
D FH CVR ++S + +SF+PPDG+F+LM YR K P
Sbjct: 179 TADETSKSGKQSIAIDDCTFHQCVRLSKFDSERSISFIPPDGEFELMRYRTTKDIILPFR 238
Query: 236 VKPQLTSDAGTCRISVMVGIRNDPGKTIDSIILQFQLPPCILSADLT----SNHGTVNVL 291
V P L + G ++ V V I+++ ++ + ++ ++P + ++ +
Sbjct: 239 VIP-LVREVGRTKLEVKVVIKSNFKPSLLAQKIEVRIPTPLNTSGVQVICMKGKAKYKAS 297
Query: 292 SNKICTWSIGRIPKDKAPSLSGTM-VLETGLETLRVFP----TFQVEFRIMGVALSGLQI 346
N I W I R+ K +S + +L T + P F+V F G+ + L++
Sbjct: 298 ENAI-VWKIKRMAGMKESQISAEIELLPTNDKKKWARPPISMNFEVPFAPSGLKVRYLKV 356
Query: 347 DKLDLQNVPNRLYKGFRAVTRAGEYEVR 374
+ L + + K R + R+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 = 67.8 bits (164), Expect = 9e-12, Method: Compositional matrix adjust.
Identities = 73/295 (24%), Positives = 127/295 (43%), Gaps = 40/295 (13%)
Query: 116 SDILPGATASCVPWRPTDVKYANNEVYVDLVEEMDAIINRDGVLVKCEIYGEVQVNCLLS 175
S + P + AS + NEV++D+VE + +I +G L+K ++ GE+++ L
Sbjct: 10 SKVAPSSAASRPVLSSRSDQSQKNEVFLDVVERLSVLIASNGSLLKVDVQGEIRLKSFLP 69
Query: 176 GLPD----LTLSFA---------NPSI-LHDVRFHPCVRFRPWESHQILSFVPPDGQFKL 221
+ LT F+ P I + +V FH V +ESH+IL PP G+ +
Sbjct: 70 SGSEMRIGLTEEFSVGKSELRGYGPGIRVDEVSFHSSVNLDEFESHRILRLQPPQGELTV 129
Query: 222 MSYRVKKLKSTPIYVK--PQLTSDAGTCRISVMVGIRNDPGKTIDSIILQFQLP----PC 275
M Y++ +P+ + P + D G+ R+ V + +R D ++ ++ LP
Sbjct: 130 MRYQLSDDLPSPLPFRLFPSVQWDRGSGRLQVYLKLRCDLLSKSQALNVRLHLPLPRGVV 189
Query: 276 ILSADLTSNHGTVNVLSNKICTWSIGRIPKDKAPSLSGTMVLET---------GLET--- 323
LS +L+S L+ W + R+ LSG ++ GL T
Sbjct: 190 SLSQELSSPEQKAE-LAEGALRWDLPRV--QGGSQLSGLFQMDVPGPPGPPSHGLSTSAS 246
Query: 324 -LRVFPTFQVEFRIMGVALSGLQIDKLDLQNVPN---RLYKGFRAVTRAGEYEVR 374
L + P + F + SGLQ+ L L P+ +K R ++ + Y +R
Sbjct: 247 PLGLGPA-SLSFELPRHTCSGLQVRFLRLAFRPSGNANPHKWVRHLSHSDAYVIR 300
>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 = 31.6 bits (70), Expect = 0.73, Method: Compositional matrix adjust.
Identities = 20/74 (27%), Positives = 38/74 (51%), Gaps = 1/74 (1%)
Query: 23 AGITFLACTQVEMPPLMGIEFLCRVADILSDYLGELNEDLIKDNFVIVYELLDEMIDNG- 81
AG+ F C V L +E + ++L++Y + E + NF VY ++DEM G
Sbjct: 63 AGLYFCICVDVNDNNLAYLEAIHNFVEVLNEYFHNVCELDLVFNFYKVYTVVDEMFLAGE 122
Query: 82 FPLTTEPNILREMI 95
T++ +L++++
Sbjct: 123 IRETSQTKVLKQLL 136
>pdb|3BIC|A Chain A, Crystal Structure Of Human Methylmalonyl-Coa Mutase
pdb|3BIC|B Chain B, Crystal Structure Of Human Methylmalonyl-Coa Mutase
pdb|2XIJ|A Chain A, Crystal Structure Of Human Methylmalonyl-Coa Mutase In
Complex With Adenosylcobalamin
pdb|2XIQ|A Chain A, Crystal Structure Of Human Methylmalonyl-Coa Mutase In
Complex With Adenosylcobalamin And Malonyl-Coa
pdb|2XIQ|B Chain B, Crystal Structure Of Human Methylmalonyl-Coa Mutase In
Complex With Adenosylcobalamin And Malonyl-Coa
Length = 762
Score = 31.2 bits (69), Expect = 0.88, Method: Compositional matrix adjust.
Identities = 32/119 (26%), Positives = 50/119 (42%), Gaps = 7/119 (5%)
Query: 201 FRPWESHQILSFVPPDGQFKLMSYRVKKLK---STPIYVKPQLTSDAGTCRISVMVGIRN 257
FRPW Q F + K +K + S + D+ R+ VG+
Sbjct: 92 FRPWTIRQYAGFSTVEESNKFYKDNIKAGQQGLSVAFDLATHRGYDSDNPRVRGDVGMAG 151
Query: 258 DPGKTI-DSIILQFQLPPCILSADLTSNHGTVNVLSNKICTWSIGRIPKDKAPSLSGTM 315
T+ D+ IL +P +S +T N + VL+N I T +PK+K L+GT+
Sbjct: 152 VAIDTVEDTKILFDGIPLEKMSVSMTMNGAVIPVLANFIVTGEEQGVPKEK---LTGTI 207
>pdb|3NWI|A Chain A, The Soluble Domain Structure Of The Zntb Zn2+ Efflux
System
pdb|3NWI|B Chain B, The Soluble Domain Structure Of The Zntb Zn2+ Efflux
System
pdb|3NWI|C Chain C, The Soluble Domain Structure Of The Zntb Zn2+ Efflux
System
pdb|3NWI|D Chain D, The Soluble Domain Structure Of The Zntb Zn2+ Efflux
System
pdb|3NWI|E Chain E, The Soluble Domain Structure Of The Zntb Zn2+ Efflux
System
Length = 263
Score = 30.0 bits (66), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 30/124 (24%), Positives = 53/124 (42%), Gaps = 23/124 (18%)
Query: 43 FLCRVADILSDYLGELNEDLIKDNFVIVYELLDEMIDNGFPLTTEPNILREMIAPPNIVS 102
+L V D L+D+ E + EL D++ID E N+L + I P ++
Sbjct: 147 WLVDVCDALTDHASEF-----------IEELHDKIID------LEDNLLDQQIPPRGFLA 189
Query: 103 ---KMLSVVTGNSSNVSDILPGATASCVPWRPTDVKYANNEVYVDL---VEEMDAIINRD 156
K L V+ + D+ + +PW D + ++ L ++E+DA I R
Sbjct: 190 LLRKQLIVMRRYMAPQRDVYARLASERLPWMSDDHRRRMQDIADRLGRGLDEIDACIART 249
Query: 157 GVLV 160
G++
Sbjct: 250 GIMA 253
>pdb|3NVO|A Chain A, The Soluble Domain Structure Of The Zntb Zn2+ Efflux
System
pdb|3NVO|B Chain B, The Soluble Domain Structure Of The Zntb Zn2+ Efflux
System
Length = 264
Score = 30.0 bits (66), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 30/124 (24%), Positives = 53/124 (42%), Gaps = 23/124 (18%)
Query: 43 FLCRVADILSDYLGELNEDLIKDNFVIVYELLDEMIDNGFPLTTEPNILREMIAPPNIVS 102
+L V D L+D+ E + EL D++ID E N+L + I P ++
Sbjct: 148 WLVDVCDALTDHASEF-----------IEELHDKIID------LEDNLLDQQIPPRGFLA 190
Query: 103 ---KMLSVVTGNSSNVSDILPGATASCVPWRPTDVKYANNEVYVDL---VEEMDAIINRD 156
K L V+ + D+ + +PW D + ++ L ++E+DA I R
Sbjct: 191 LLRKQLIVMRRYMAPQRDVYARLASERLPWMSDDHRRRMQDIADRLGRGLDEIDACIART 250
Query: 157 GVLV 160
G++
Sbjct: 251 GIMA 254
>pdb|1JWY|B Chain B, Crystal Structure Of The Dynamin A Gtpase Domain Complexed
With Gdp, Determined As Myosin Fusion
pdb|1JX2|B Chain B, Crystal Structure Of The Nucleotide-Free Dynamin A Gtpase
Domain, Determined As Myosin Fusion
Length = 315
Score = 28.9 bits (63), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 29/112 (25%), Positives = 54/112 (48%), Gaps = 22/112 (19%)
Query: 42 EFLCRVADILSDYLGELNEDLIKDNFVIVYELLDEMIDNGFPLTTEPNILREMIAPPNIV 101
EFL + D+ D+ E+ E++I+D D M ++ +P L+ I P++V
Sbjct: 83 EFLHKPNDMFYDF-SEIREEIIRDT--------DRMTGKNKGISAQPINLK--IYSPHVV 131
Query: 102 SKMLSVVTGNSSNVSDILPGATASCVPWRPTDVKYANNEVYVDLVEEMDAII 153
+ L++V LPG T V +PTD++ + + +++ +AII
Sbjct: 132 N--LTLVD---------LPGITKVPVGDQPTDIEQQIRRMVMAYIKKQNAII 172
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 0.418
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,831,300
Number of Sequences: 62578
Number of extensions: 441733
Number of successful extensions: 1038
Number of sequences better than 100.0: 27
Number of HSP's better than 100.0 without gapping: 15
Number of HSP's successfully gapped in prelim test: 12
Number of HSP's that attempted gapping in prelim test: 999
Number of HSP's gapped (non-prelim): 28
length of query: 375
length of database: 14,973,337
effective HSP length: 100
effective length of query: 275
effective length of database: 8,715,537
effective search space: 2396772675
effective search space used: 2396772675
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)