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= 014251
(428 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 = 571 bits (1472), Expect = e-163, Method: Compositional matrix adjust.
Identities = 262/424 (61%), Positives = 344/424 (81%), Gaps = 5/424 (1%)
Query: 4 AASALFLLDIKGRVLIWRDYRGDVSAIQAERFFTKFIEKEGDPQSQNPVVFDNGVTYMFI 63
+ASA+++LD+KG+VLI R+YRGDV + E F +EKE + +P++ GV +M+I
Sbjct: 2 SASAVYVLDLKGKVLICRNYRGDVDMSEVEHFMPILMEKE-EEGMLSPILAHGGVRFMWI 60
Query: 64 QHNNVYLMAASRQNCNAASILLFLHRVADVFKHYFEELEEESLRDNFVVVYELLDEIMDF 123
+HNN+YL+A S++N + + FL++V VF YF+ELEEES+RDNFV++YELLDE+MDF
Sbjct: 61 KHNNLYLVATSKKNACVSLVFSFLYKVVQVFSEYFKELEEESIRDNFVIIYELLDELMDF 120
Query: 124 GFPQFTEAKILSEFIKTDAYRMEV-TQRPPMAVTNAVSWRSEGIRYKKNEVFLDVVESVN 182
G+PQ T++KIL EFI + +++E RPP VTNAVSWRSEGI+Y+KNEVFLDV+E+VN
Sbjct: 121 GYPQTTDSKILQEFITQEGHKLETGAPRPPATVTNAVSWRSEGIKYRKNEVFLDVIEAVN 180
Query: 183 ILVNSNGQIVRSDVVGALKMRTYLSGMPECKLGLNDRVLLEAQGRSTKGKAIDLDDIKFH 242
+LV++NG ++RS++VG++KMR +LSGMPE +LGLND+VL + GR K K+++L+D+KFH
Sbjct: 181 LLVSANGNVLRSEIVGSIKMRVFLSGMPELRLGLNDKVLFDNTGRG-KSKSVELEDVKFH 239
Query: 243 QCVRLARFENDRTISFIPPDGSFDLMTYRLSTQVKPLIWVEAQIERHSRSRIEIMVKARS 302
QCVRL+RFENDRTISFIPPDG F+LM+YRL+T VKPLIW+E+ IE+HS SRIE MVKA+S
Sbjct: 240 QCVRLSRFENDRTISFIPPDGEFELMSYRLNTHVKPLIWIESVIEKHSHSRIEYMVKAKS 299
Query: 303 QFKERSTATNVEIELPVPADATNPNVRTSMGSARYAPENDALVWKIKSFPGNKEYMLRAE 362
QFK RSTA NVEI +PVP DA +P +T++GS ++ PEN +VW +KSFPG KEY++RA
Sbjct: 300 QFKRRSTANNVEIHIPVPNDADSPKFKTTVGSVKWVPENSEIVWSVKSFPGGKEYLMRAH 359
Query: 363 FSLPSITAEEAAPERKAPIRVKFEIPYFTVSGIQVRYLKIIEKSGYQALPWVRYITMAGE 422
F LPS+ AE+ E K PI VKFEIPYFT SGIQVRYLKIIEKSGYQA+PWVRYIT G+
Sbjct: 360 FGLPSVEAEDK--EGKPPISVKFEIPYFTTSGIQVRYLKIIEKSGYQAIPWVRYITQNGD 417
Query: 423 YELR 426
Y+LR
Sbjct: 418 YQLR 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 (1037), Expect = e-113, Method: Compositional matrix adjust.
Identities = 183/267 (68%), Positives = 228/267 (85%), Gaps = 3/267 (1%)
Query: 160 SWRSEGIRYKKNEVFLDVVESVNILVNSNGQIVRSDVVGALKMRTYLSGMPECKLGLNDR 219
SWRSEGI+Y+KNEVFLDV+E+VN+LV++NG ++RS++VG++KMR +LSGMPE +LGLND+
Sbjct: 1 SWRSEGIKYRKNEVFLDVIEAVNLLVSANGNVLRSEIVGSIKMRVFLSGMPELRLGLNDK 60
Query: 220 VLLEAQGRSTKGKAIDLDDIKFHQCVRLARFENDRTISFIPPDGSFDLMTYRLSTQVKPL 279
VL + GR K K+++L+D+KFHQCVRL+RFENDRTISFIPPDG F+LM+YRL+T VKPL
Sbjct: 61 VLFDNTGRG-KSKSVELEDVKFHQCVRLSRFENDRTISFIPPDGEFELMSYRLNTHVKPL 119
Query: 280 IWVEAQIERHSRSRIEIMVKARSQFKERSTATNVEIELPVPADATNPNVRTSMGSARYAP 339
IW+E+ IE+HS SRIE MVKA+SQFK RSTA NVEI +PVP DA +P +T++GS ++ P
Sbjct: 120 IWIESVIEKHSHSRIEYMVKAKSQFKRRSTANNVEIHIPVPNDADSPKFKTTVGSVKWVP 179
Query: 340 ENDALVWKIKSFPGNKEYMLRAEFSLPSITAEEAAPERKAPIRVKFEIPYFTVSGIQVRY 399
EN +VW +KSFPG KEY++RA F LPS+ AE+ E K PI VKFEIPYFT SGIQVRY
Sbjct: 180 ENSEIVWSVKSFPGGKEYLMRAHFGLPSVEAEDK--EGKPPISVKFEIPYFTTSGIQVRY 237
Query: 400 LKIIEKSGYQALPWVRYITMAGEYELR 426
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: 160 SWRSEGIRYKKNEVFLDVVESVNILVNSNGQIVRSDVVGALKMRTYLSGMPECKLGLNDR 219
SWRSEGI+Y+KNEVFLDV+E+VN+LV++NG ++RS++VG++K R +LSG PE +LGLND+
Sbjct: 1 SWRSEGIKYRKNEVFLDVIEAVNLLVSANGNVLRSEIVGSIKXRVFLSGXPELRLGLNDK 60
Query: 220 VLLEAQGRSTKGKAIDLDDIKFHQCVRLARFENDRTISFIPPDGSFDLMTYRLSTQVKPL 279
VL + GR K K+++L+D+KFHQCVRL+RFENDRTISFIPPDG F+L +YRL+T VKPL
Sbjct: 61 VLFDNTGRG-KSKSVELEDVKFHQCVRLSRFENDRTISFIPPDGEFELXSYRLNTHVKPL 119
Query: 280 IWVEAQIERHSRSRIEIMVKARSQFKERSTATNVEIELPVPADATNPNVRTSMGSARYAP 339
IW+E+ IE+HS SRIE VKA+SQFK RSTA NVEI +PVP DA +P +T++GS ++ P
Sbjct: 120 IWIESVIEKHSHSRIEYXVKAKSQFKRRSTANNVEIHIPVPNDADSPKFKTTVGSVKWVP 179
Query: 340 ENDALVWKIKSFPGNKEYMLRAEFSLPSITAEEAAPERKAPIRVKFEIPYFTVSGIQVRY 399
EN +VW +KSFPG KEY+ RA F LPS+ AE+ E K PI VKFEIPYFT SGIQVRY
Sbjct: 180 ENSEIVWSVKSFPGGKEYLXRAHFGLPSVEAEDK--EGKPPISVKFEIPYFTTSGIQVRY 237
Query: 400 LKIIEKSGYQALPWVRYITMAGEYELR 426
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 = 328 bits (840), Expect = 4e-90, Method: Compositional matrix adjust.
Identities = 171/438 (39%), Positives = 261/438 (59%), Gaps = 21/438 (4%)
Query: 6 SALFLLDIKGRVLIWRDYRGDVSAIQAERFFTKFIEKEGDPQSQNPVVFDNGVTYMFIQH 65
LF+ + KG VLI R YR D+ + F I Q ++PV ++ ++
Sbjct: 3 GGLFIYNHKGEVLISRVYRDDIGRNAVDAFRVNVIH--ARQQVRSPVTNIARTSFFHVKR 60
Query: 66 NNVYLMAASRQNCNAASILLFLHRVADVFKHYFEELEEESLRDNFVVVYELLDEIMDFGF 125
+N++L A ++QN NAA + FL+++ DV YF ++ EE++++NFV++YELLDEI+DFG+
Sbjct: 61 SNIWLAAVTKQNVNAAMVFEFLYKMCDVMAAYFGKISEENIKNNFVLIYELLDEILDFGY 120
Query: 126 PQFTEAKILSEFI-----KTDAYRMEVTQRPPMAVTNAVSWRSEGIRYKKNEVFLDVVES 180
PQ +E L FI K+ E + VT + WR EGI+Y++NE+FLDV+ES
Sbjct: 121 PQNSETGALKTFITQQGIKSQHQTKEEQSQITSQVTGQIGWRREGIKYRRNELFLDVLES 180
Query: 181 VNILVNSNGQIVRSDVVGALKMRTYLSGMPECKLGLNDRVLLEAQGRST------KGK-A 233
VN+L++ GQ++ + V G + M++YLSGMPECK G+ND++++E QG+ T GK +
Sbjct: 181 VNLLMSPQGQVLSAHVSGRVVMKSYLSGMPECKFGMNDKIVIEKQGKGTADETSKSGKQS 240
Query: 234 IDLDDIKFHQCVRLARFENDRTISFIPPDGSFDLMTYRLSTQVKPLIWVEAQIERHSRSR 293
I +DD FHQCVRL++F+++R+ISFIPPDG F+LM YR + + V + R++
Sbjct: 241 IAIDDCTFHQCVRLSKFDSERSISFIPPDGEFELMRYRTTKDIILPFRVIPLVREVGRTK 300
Query: 294 IEIMVKARSQFKERSTATNVEIELPVPADATNPNVRTSMGSARYAPENDALVWKIKSFPG 353
+E+ V +S FK A +E+ +P P + + V G A+Y +A+VWKIK G
Sbjct: 301 LEVKVVIKSNFKPSLLAQKIEVRIPTPLNTSGVQVICMKGKAKYKASENAIVWKIKRMAG 360
Query: 354 NKEYMLRAEFSLPSITAEEAAPERKAPIRVKFEIPYFTVSGIQVRYLKIIEK----SGYQ 409
KE + AE L + + + PI + FE+P F SG++VRYLK+ E S +
Sbjct: 361 MKESQISAEIEL--LPTNDKKKWARPPISMNFEVP-FAPSGLKVRYLKVFEPKLNYSDHD 417
Query: 410 ALPWVRYITMAGEYELRL 427
+ WVRYI +G YE R
Sbjct: 418 VIKWVRYIGRSGIYETRC 435
>pdb|2XA7|M Chain M, Ap2 Clathrin Adaptor Core In Active Complex With Cargo
Peptides
Length = 446
Score = 323 bits (829), Expect = 1e-88, Method: Compositional matrix adjust.
Identities = 171/448 (38%), Positives = 261/448 (58%), Gaps = 32/448 (7%)
Query: 6 SALFLLDIKGRVLIWRDYRGDVSAIQAERFFTKFIEKEGDPQSQNPVVFDNGVTYMFIQH 65
LF+ + KG VLI R YR D+ + F I Q ++PV ++ ++
Sbjct: 3 GGLFIYNHKGEVLISRVYRDDIGRNAVDAFRVNVIH--ARQQVRSPVTNIARTSFFHVKR 60
Query: 66 NNVYLMAASRQNCNAASILLFLHRVADVFKHYFEELEEESLRDNFVVVYELLDEIMDFGF 125
+N++L A ++QN NAA + FL+++ DV YF ++ EE++++NFV++YELLDEI+DFG+
Sbjct: 61 SNIWLAAVTKQNVNAAMVFEFLYKMCDVMAAYFGKISEENIKNNFVLIYELLDEILDFGY 120
Query: 126 PQFTEAKILSEFI-----KTDAYRMEVTQRPPMAVTNAVSWRSEGIRYKKNEVFLDVVES 180
PQ +E L FI K+ E + VT + WR EGI+Y++NE+FLDV+ES
Sbjct: 121 PQNSETGALKTFITQQGIKSQHQTKEEQSQITSQVTGQIGWRREGIKYRRNELFLDVLES 180
Query: 181 VNILVNSNGQIVRSDVVGALKMRTYLSGMPECKLGLNDRVLLEAQGRSTK---------- 230
VN+L++ GQ++ + V G + M++YLSGMPECK G+ND++++E QG+ T
Sbjct: 181 VNLLMSPQGQVLSAHVSGRVVMKSYLSGMPECKFGMNDKIVIEKQGKGTADETSKSMEQK 240
Query: 231 -------GK-AIDLDDIKFHQCVRLARFENDRTISFIPPDGSFDLMTYRLSTQVKPLIWV 282
GK +I +DD FHQCVRL++F+++R+ISFIPPDG F+LM YR + + V
Sbjct: 241 LISEEDLGKQSIAIDDCTFHQCVRLSKFDSERSISFIPPDGEFELMRYRTTKDIILPFRV 300
Query: 283 EAQIERHSRSRIEIMVKARSQFKERSTATNVEIELPVPADATNPNVRTSMGSARYAPEND 342
+ R+++E+ V +S FK A +E+ +P P + + V G A+Y +
Sbjct: 301 IPLVREVGRTKLEVKVVIKSNFKPSLLAQKIEVRIPTPLNTSGVQVICMKGKAKYKASEN 360
Query: 343 ALVWKIKSFPGNKEYMLRAEFSLPSITAEEAAPERKAPIRVKFEIPYFTVSGIQVRYLKI 402
A+VWKIK G KE + AE L + + + PI + FE+P F SG++VRYLK+
Sbjct: 361 AIVWKIKRMAGMKESQISAEIEL--LPTNDKKKWARPPISMNFEVP-FAPSGLKVRYLKV 417
Query: 403 IEK----SGYQALPWVRYITMAGEYELR 426
E S + + WVRYI +G YE R
Sbjct: 418 FEPKLNYSDHDVIKWVRYIGRSGIYETR 445
>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 = 236 bits (602), Expect = 2e-62, Method: Compositional matrix adjust.
Identities = 124/307 (40%), Positives = 186/307 (60%), Gaps = 16/307 (5%)
Query: 133 ILSEFIKTDAYRMEVTQRPPMAVTNAVSWRSEGIRYKKNEVFLDVVESVNILVNSNGQIV 192
I + IK+ E + VT + WR EGI+Y++NE+FLDV+ESVN+L++ GQ++
Sbjct: 12 ITQQGIKSQHQTKEEQSQITSQVTGQIGWRREGIKYRRNELFLDVLESVNLLMSPQGQVL 71
Query: 193 RSDVVGALKMRTYLSGMPECKLGLNDRVLLEAQGRST------KGK-AIDLDDIKFHQCV 245
+ V G + M++YLSGMPECK G+ND++++E QG+ T GK +I +DD FHQCV
Sbjct: 72 SAHVSGRVVMKSYLSGMPECKFGMNDKIVIEKQGKGTADETSKSGKQSIAIDDCTFHQCV 131
Query: 246 RLARFENDRTISFIPPDGSFDLMTYRLSTQVKPLIWVEAQIERHSRSRIEIMVKARSQFK 305
RL++F+++R+ISFIPPDG F+LM YR + + V + R+++E+ V +S FK
Sbjct: 132 RLSKFDSERSISFIPPDGEFELMRYRTTKDIILPFRVIPLVREVGRTKLEVKVVIKSNFK 191
Query: 306 ERSTATNVEIELPVPADATNPNVRTSMGSARYAPENDALVWKIKSFPGNKEYMLRAEFS- 364
A +E+ +P P + + V G A+Y +A+VWKIK G KE + AE
Sbjct: 192 PSLLAQKIEVRIPTPLNTSGVQVICMKGKAKYKASENAIVWKIKRMAGMKESQISAEIEL 251
Query: 365 LPSITAEEAAPERKAPIRVKFEIPYFTVSGIQVRYLKIIEK----SGYQALPWVRYITMA 420
LP+ ++ A + PI + FE+P F SG++VRYLK+ E S + + WVRYI +
Sbjct: 252 LPTNDKKKWA---RPPISMNFEVP-FAPSGLKVRYLKVFEPKLNYSDHDVIKWVRYIGRS 307
Query: 421 GEYELRL 427
G YE R
Sbjct: 308 GIYETRC 314
>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 = 124/307 (40%), Positives = 186/307 (60%), Gaps = 16/307 (5%)
Query: 133 ILSEFIKTDAYRMEVTQRPPMAVTNAVSWRSEGIRYKKNEVFLDVVESVNILVNSNGQIV 192
I + IK+ E + VT + WR EGI+Y++NE+FLDV+ESVN+L++ GQ++
Sbjct: 19 ITQQGIKSQHQTKEEQSQITSQVTGQIGWRREGIKYRRNELFLDVLESVNLLMSPQGQVL 78
Query: 193 RSDVVGALKMRTYLSGMPECKLGLNDRVLLEAQGRST------KGK-AIDLDDIKFHQCV 245
+ V G + M++YLSGMPECK G+ND++++E QG+ T GK +I +DD FHQCV
Sbjct: 79 SAHVSGRVVMKSYLSGMPECKFGMNDKIVIEKQGKGTADETSKSGKQSIAIDDCTFHQCV 138
Query: 246 RLARFENDRTISFIPPDGSFDLMTYRLSTQVKPLIWVEAQIERHSRSRIEIMVKARSQFK 305
RL++F+++R+ISFIPPDG F+LM YR + + V + R+++E+ V +S FK
Sbjct: 139 RLSKFDSERSISFIPPDGEFELMRYRTTKDIILPFRVIPLVREVGRTKLEVKVVIKSNFK 198
Query: 306 ERSTATNVEIELPVPADATNPNVRTSMGSARYAPENDALVWKIKSFPGNKEYMLRAEFS- 364
A +E+ +P P + + V G A+Y +A+VWKIK G KE + AE
Sbjct: 199 PSLLAQKIEVRIPTPLNTSGVQVICMKGKAKYKASENAIVWKIKRMAGMKESQISAEIEL 258
Query: 365 LPSITAEEAAPERKAPIRVKFEIPYFTVSGIQVRYLKIIEK----SGYQALPWVRYITMA 420
LP+ ++ A + PI + FE+P F SG++VRYLK+ E S + + WVRYI +
Sbjct: 259 LPTNDKKKWA---RPPISMNFEVP-FAPSGLKVRYLKVFEPKLNYSDHDVIKWVRYIGRS 314
Query: 421 GEYELRL 427
G YE R
Sbjct: 315 GIYETRC 321
>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 = 5e-61, Method: Compositional matrix adjust.
Identities = 117/287 (40%), Positives = 175/287 (60%), Gaps = 14/287 (4%)
Query: 152 PMAVTNAVSWRSEGIRYKKNEVFLDVVESVNILVNSNGQIVRSDVVGALKMRTYLSGMPE 211
P + WR EGI+Y++NE+FLDV+ESVN+L++ GQ++ + V G + M++YLSGMPE
Sbjct: 16 PRGSHMQIGWRREGIKYRRNELFLDVLESVNLLMSPQGQVLSAHVSGRVVMKSYLSGMPE 75
Query: 212 CKLGLNDRVLLEAQGRST------KGK-AIDLDDIKFHQCVRLARFENDRTISFIPPDGS 264
CK G+ND++++E QG+ T GK +I +DD FHQCVRL++F+++R+ISFIPPDG
Sbjct: 76 CKFGMNDKIVIEKQGKGTADETSKSGKQSIAIDDCTFHQCVRLSKFDSERSISFIPPDGE 135
Query: 265 FDLMTYRLSTQVKPLIWVEAQIERHSRSRIEIMVKARSQFKERSTATNVEIELPVPADAT 324
F+LM YR + + V + R+++E+ V +S FK A +E+ +P P + +
Sbjct: 136 FELMRYRTTKDIILPFRVIPLVREVGRTKLEVKVVIKSNFKPSLLAQKIEVRIPTPLNTS 195
Query: 325 NPNVRTSMGSARYAPENDALVWKIKSFPGNKEYMLRAEFSLPSITAEEAAPERKAPIRVK 384
V G A+Y +A+VWKIK G KE + AE L + + + PI +
Sbjct: 196 GVQVICMKGKAKYKASENAIVWKIKRMAGMKESQISAEIEL--LPTNDKKKWARPPISMN 253
Query: 385 FEIPYFTVSGIQVRYLKIIEK----SGYQALPWVRYITMAGEYELRL 427
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 (589), Expect = 5e-61, Method: Compositional matrix adjust.
Identities = 116/280 (41%), Positives = 174/280 (62%), Gaps = 14/280 (5%)
Query: 159 VSWRSEGIRYKKNEVFLDVVESVNILVNSNGQIVRSDVVGALKMRTYLSGMPECKLGLND 218
+ WR EGI+Y++NE+FLDV+ESVN+L++ GQ++ + V G + M++YLSGMPECK G+ND
Sbjct: 9 IGWRREGIKYRRNELFLDVLESVNLLMSPQGQVLSAHVSGRVVMKSYLSGMPECKFGMND 68
Query: 219 RVLLEAQGRST------KGK-AIDLDDIKFHQCVRLARFENDRTISFIPPDGSFDLMTYR 271
++++E QG+ T GK +I +DD FHQCVRL++F+++R+ISFIPPDG F+LM YR
Sbjct: 69 KIVIEKQGKGTADETSKSGKQSIAIDDCTFHQCVRLSKFDSERSISFIPPDGEFELMRYR 128
Query: 272 LSTQVKPLIWVEAQIERHSRSRIEIMVKARSQFKERSTATNVEIELPVPADATNPNVRTS 331
+ + V + R+++E+ V +S FK A +E+ +P P + + V
Sbjct: 129 TTKDIILPFRVIPLVREVGRTKLEVKVVIKSNFKPSLLAQKIEVRIPTPLNTSGVQVICM 188
Query: 332 MGSARYAPENDALVWKIKSFPGNKEYMLRAEFSLPSITAEEAAPERKAPIRVKFEIPYFT 391
G A+Y +A+VWKIK G KE + AE L + + + PI + FE+P F
Sbjct: 189 KGKAKYKASENAIVWKIKRMAGMKESQISAEIEL--LPTNDKKKWARPPISMNFEVP-FA 245
Query: 392 VSGIQVRYLKIIEK----SGYQALPWVRYITMAGEYELRL 427
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 = 7e-59, Method: Compositional matrix adjust.
Identities = 116/275 (42%), Positives = 174/275 (63%), Gaps = 16/275 (5%)
Query: 164 EGIRYKKNEVFLDVVESVNILVNSNGQIVRSDVVGALKMRTYLSGMPECKLGLNDRVLLE 223
EGI+Y++NE+FLDV+ESVN+L++ GQ++ + V G + M++YLSGMPECK G+ND++++E
Sbjct: 17 EGIKYRRNELFLDVLESVNLLMSPQGQVLSAHVSGRVVMKSYLSGMPECKFGMNDKIVIE 76
Query: 224 AQGRST------KGK-AIDLDDIKFHQCVRLARFENDRTISFIPPDGSFDLMTYRLSTQV 276
QG+ T GK +I +DD FHQCVRL++F+++R+ISFIPPDG F+LM YR + +
Sbjct: 77 KQGKGTADETSKSGKQSIAIDDCTFHQCVRLSKFDSERSISFIPPDGEFELMRYRTTKDI 136
Query: 277 KPLIWVEAQIERHSRSRIEIMVKARSQFKERSTATNVEIELPVPADATNPNVRTSMGSAR 336
V + R+++E+ V +S FK A +E+ +P P + + V G A+
Sbjct: 137 ILPFRVIPLVREVGRTKLEVKVVIKSNFKPSLLAQKIEVRIPTPLNTSGVQVICMKGKAK 196
Query: 337 YAPENDALVWKIKSFPGNKEYMLRAEFS-LPSITAEEAAPERKAPIRVKFEIPYFTVSGI 395
Y +A+VWKIK G KE + AE LP+ ++ A + PI + FE+P F SG+
Sbjct: 197 YKASENAIVWKIKRMAGMKESQISAEIELLPTNDKKKWA---RPPISMNFEVP-FAPSGL 252
Query: 396 QVRYLKIIEK----SGYQALPWVRYITMAGEYELR 426
+VRYLK+ E S + + WVRYI +G YE R
Sbjct: 253 KVRYLKVFEPKLNYSDHDVIKWVRYIGRSGIYETR 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 (546), Expect = 6e-56, Method: Compositional matrix adjust.
Identities = 110/268 (41%), Positives = 165/268 (61%), Gaps = 14/268 (5%)
Query: 170 KNEVFLDVVESVNILVNSNGQIVRSDVVGALKMRTYLSGMPECKLGLNDRVLLEAQGRST 229
+NE+FLDV+ESVN+L++ GQ++ + V G + M++YLSGMPECK G+ND++++E QG+ T
Sbjct: 120 RNELFLDVLESVNLLMSPQGQVLSAHVSGRVVMKSYLSGMPECKFGMNDKIVIEKQGKGT 179
Query: 230 ------KGK-AIDLDDIKFHQCVRLARFENDRTISFIPPDGSFDLMTYRLSTQVKPLIWV 282
GK +I +DD FHQCVRL++F+++R+ISFIPPDG F+LM YR + + V
Sbjct: 180 ADETSKSGKQSIAIDDCTFHQCVRLSKFDSERSISFIPPDGEFELMRYRTTKDIILPFRV 239
Query: 283 EAQIERHSRSRIEIMVKARSQFKERSTATNVEIELPVPADATNPNVRTSMGSARYAPEND 342
+ R+++E+ V +S FK A +E+ +P P + + V G A+Y +
Sbjct: 240 IPLVREVGRTKLEVKVVIKSNFKPSLLAQKIEVRIPTPLNTSGVQVICMKGKAKYKASEN 299
Query: 343 ALVWKIKSFPGNKEYMLRAEFSLPSITAEEAAPERKAPIRVKFEIPYFTVSGIQVRYLKI 402
A+VWKIK G KE + AE L + + + PI + FE+P F SG++VRYLK+
Sbjct: 300 AIVWKIKRMAGMKESQISAEIEL--LPTNDKKKWARPPISMNFEVP-FAPSGLKVRYLKV 356
Query: 403 IEK----SGYQALPWVRYITMAGEYELR 426
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 = 4e-32, Method: Compositional matrix adjust.
Identities = 79/274 (28%), Positives = 141/274 (51%), Gaps = 27/274 (9%)
Query: 159 VSWRSEGIRYKKNEVFLDVVESVNILVNSNGQIVRSDVVGALKMRTYLSGMPECKLG-LN 217
+ WR G++Y NE + DVVE ++ +++ +G V +++ G + LSGMP+ L +N
Sbjct: 8 IPWRRAGVKYTNNEAYFDVVEEIDAIIDKSGSTVFAEIQGVIDACIKLSGMPDLSLSFMN 67
Query: 218 DRVLLEAQGRSTKGKAIDLDDIKFHQCVRLARFENDRTISFIPPDGSFDLMTYRLSTQ-- 275
R+L DD+ FH C+R R+E++R +SFIPPDG+F L++YR+S+Q
Sbjct: 68 PRLL---------------DDVSFHPCIRFKRWESERVLSFIPPDGNFRLISYRVSSQNL 112
Query: 276 VKPLIWVEAQI---ERHSRSRIEIMVKARSQFKERSTATNVEIELPVPADATNPNVRTSM 332
V ++V+ I E S R +I + + + T + + + +P N N+ +
Sbjct: 113 VAIPVYVKHNISFKENSSCGRFDITIGPKQNMGK--TIEGITVTVHMPKVVLNMNLTPTQ 170
Query: 333 GSARYAPENDALVWKIKSFPGNKEYMLRAEFSLPSITAEEAAPERKAPIRVKFEIPYFTV 392
GS + P L W + K L+ L ++ + PE + ++F+I +
Sbjct: 171 GSYTFDPVTKVLAWDVGKITPQKLPSLKG---LVNLQSGAPKPEENPNLNIQFKIQQLAI 227
Query: 393 SGIQVRYLKIIEKSGYQALPWVRYITMAGEYELR 426
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 = 7e-30, Method: Compositional matrix adjust.
Identities = 87/307 (28%), Positives = 149/307 (48%), Gaps = 26/307 (8%)
Query: 136 EFIKTDAYRMEVTQRPPMAVTNAVSWRSEGIRYKKNEVFLDVVESVNILVNSNGQIVRSD 195
EF ++ RP +S RS+ + +KNEVFLDVVE +++L+ SNG +++ D
Sbjct: 6 EFQQSKVAPSSAASRP------VLSSRSD--QSQKNEVFLDVVERLSVLIASNGSLLKVD 57
Query: 196 VVGALKMRTYLSGMPECKLGLNDRVLLEAQGRSTKGKAIDLDDIKFHQCVRLARFENDRT 255
V G ++++++L E ++GL + + G I +D++ FH V L FE+ R
Sbjct: 58 VQGEIRLKSFLPSGSEMRIGLTEEFSVGKSELRGYGPGIRVDEVSFHSSVNLDEFESHRI 117
Query: 256 ISFIPPDGSFDLMTYRLSTQV-KPL---IWVEAQIERHSRSRIEIMVKARSQFKERSTAT 311
+ PP G +M Y+LS + PL ++ Q +R S R+++ +K R +S A
Sbjct: 118 LRLQPPQGELTVMRYQLSDDLPSPLPFRLFPSVQWDRGS-GRLQVYLKLRCDLLSKSQAL 176
Query: 312 NVEIELPVPADATNPNVRTSMGSARYAPENDALVWKIKSFPGNKEYMLRAEFSLPSIT-- 369
NV + LP+P + + S + AL W + G + L F +
Sbjct: 177 NVRLHLPLPRGVVSLSQELSSPEQKAELAEGALRWDLPRVQGGSQ--LSGLFQMDVPGPP 234
Query: 370 -------AEEAAPERKAPIRVKFEIPYFTVSGIQVRYLKIIEKSGYQALP--WVRYITMA 420
+ A+P P + FE+P T SG+QVR+L++ + A P WVR+++ +
Sbjct: 235 GPPSHGLSTSASPLGLGPASLSFELPRHTCSGLQVRFLRLAFRPSGNANPHKWVRHLSHS 294
Query: 421 GEYELRL 427
Y +R+
Sbjct: 295 DAYVIRI 301
>pdb|3G0O|A Chain A, Crystal Structure Of 3-Hydroxyisobutyrate Dehydrogenase
(Ygbj) From Salmonella Typhimurium
Length = 303
Score = 31.6 bits (70), Expect = 0.99, Method: Compositional matrix adjust.
Identities = 28/102 (27%), Positives = 43/102 (42%), Gaps = 16/102 (15%)
Query: 259 IPPDGSFDLMTYRLSTQVKPLIWVEAQIERH-------SRSRIEIMVKARSQFKERSTAT 311
IP D +D++T+ W +H RS ++I VK + + A
Sbjct: 205 IPLDVXYDVVTHAAGNS-----WXFENRXQHVVDGDYTPRSAVDIFVKDLGLVADTAKA- 258
Query: 312 NVEIELPVPADATNPNVRTSMGSARYAPENDALVWKIKSFPG 353
+ P+P +T N TS +A Y E+D+ V KI S G
Sbjct: 259 ---LRFPLPLASTALNXFTSASNAGYGKEDDSAVIKIFSGEG 297
>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 = 30.8 bits (68), Expect = 1.4, Method: Composition-based stats.
Identities = 24/95 (25%), Positives = 43/95 (45%), Gaps = 2/95 (2%)
Query: 45 DPQSQNPVVFDNGVTYMFIQHNNVYLMAASRQNCNAASILLFLHRVADVFKHYFEELEEE 104
D + N V F N ++ ++ +Y N N + L +H +V YF + E
Sbjct: 43 DAKHTNFVEFRN-FKIIYRRYAGLYFCICVDVNDNNLAYLEAIHNFVEVLNEYFHNVCEL 101
Query: 105 SLRDNFVVVYELLDEIMDFG-FPQFTEAKILSEFI 138
L NF VY ++DE+ G + ++ K+L + +
Sbjct: 102 DLVFNFYKVYTVVDEMFLAGEIRETSQTKVLKQLL 136
>pdb|2H31|A Chain A, Crystal Structure Of Human Paics, A Bifunctional
Carboxylase And Synthetase In Purine Biosynthesis
Length = 425
Score = 28.5 bits (62), Expect = 8.5, Method: Compositional matrix adjust.
Identities = 32/118 (27%), Positives = 51/118 (43%), Gaps = 16/118 (13%)
Query: 84 LLFLHRVADVFKH----YFEELEEESLRDNFVVVYELLDEIMDFGFPQFTEAKILSEFIK 139
LL D+ H FE LE+ L N L+D ++FG T+ +L++ I
Sbjct: 155 LLIGQTEVDIXSHATQAIFEILEKSWLPQNCT----LVDXKIEFGVDVTTKEIVLADVID 210
Query: 140 TDAYRM-----EVTQRPPMAVTNAVSWRSEGIR-YKKNEVFLDVVESVNILVNSNGQI 191
D++R+ Q+ + + EG++ KKN F V E V +L+ S Q
Sbjct: 211 NDSWRLWPSGDRSQQKDKQSYRDLKEVTPEGLQXVKKN--FEWVAERVELLLKSESQC 266
>pdb|1WQL|B Chain B, Cumene Dioxygenase (Cuma1a2) From Pseudomonas Fluorescens
Ip01
Length = 186
Score = 28.1 bits (61), Expect = 8.9, Method: Compositional matrix adjust.
Identities = 17/67 (25%), Positives = 32/67 (47%), Gaps = 9/67 (13%)
Query: 233 AIDLDDIKFHQCVRLARFENDRTISFIPPDG------SFDLMTYRLSTQVKPLIWVEAQI 286
A+ DI++ +R ++ + ++PP G +++ M R+ +V L W E
Sbjct: 46 ALLTQDIQYWMPIRTTHTSRNKAMEYVPPGGNAHFDETYESMRARIRARVSGLNWTE--- 102
Query: 287 ERHSRSR 293
+ SRSR
Sbjct: 103 DPPSRSR 109
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
0.321 0.136 0.393
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,065,629
Number of Sequences: 62578
Number of extensions: 478967
Number of successful extensions: 1235
Number of sequences better than 100.0: 24
Number of HSP's better than 100.0 without gapping: 22
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 1171
Number of HSP's gapped (non-prelim): 25
length of query: 428
length of database: 14,973,337
effective HSP length: 102
effective length of query: 326
effective length of database: 8,590,381
effective search space: 2800464206
effective search space used: 2800464206
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: 53 (25.0 bits)