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= 014235
(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 = 559 bits (1440), Expect = e-159, Method: Compositional matrix adjust.
Identities = 252/424 (59%), Positives = 341/424 (80%), Gaps = 5/424 (1%)
Query: 4 AVSALFLLDIKGRVLVWRDYRGDVSAKQAERFFTKLIEKDGDAQSQDPVVYDNGVSYLFI 63
+ SA+++LD+KG+VL+ R+YRGDV + E F L+EK+ + P++ GV +++I
Sbjct: 2 SASAVYVLDLKGKVLICRNYRGDVDMSEVEHFMPILMEKEEEGM-LSPILAHGGVRFMWI 60
Query: 64 QHSNVYLMTASRQNCNAASLLFFLHRVVDVFKHYFEELEEESLRDNFVVVYELLDEMMDF 123
+H+N+YL+ S++N + + FL++VV VF YF+ELEEES+RDNFV++YELLDE+MDF
Sbjct: 61 KHNNLYLVATSKKNACVSLVFSFLYKVVQVFSEYFKELEEESIRDNFVIIYELLDELMDF 120
Query: 124 GYPQYTEANILSEFIKTDAYRMEV-TQRPPMAVTNAVSWRSEGIQYKKNEVFLDVVEHVN 182
GYPQ T++ IL EFI + +++E RPP VTNAVSWRSEGI+Y+KNEVFLDV+E VN
Sbjct: 121 GYPQTTDSKILQEFITQEGHKLETGAPRPPATVTNAVSWRSEGIKYRKNEVFLDVIEAVN 180
Query: 183 ILVNSNGQIIRSDVVGALKMRTYLSGMPECKLGLNDRILLEAQGRSTKGKAIDLDDIKFH 242
+LV++NG ++RS++VG++KMR +LSGMPE +LGLND++L + GR K K+++L+D+KFH
Sbjct: 181 LLVSANGNVLRSEIVGSIKMRVFLSGMPELRLGLNDKVLFDNTGRG-KSKSVELEDVKFH 239
Query: 243 QCVRLARFENDRTISFIPPDGSFDLMTYRLNTQVKPLIWVEAQVERHSRSRVEILVKARS 302
QCVRL+RFENDRTISFIPPDG F+LM+YRLNT VKPLIW+E+ +E+HS SR+E +VKA+S
Sbjct: 240 QCVRLSRFENDRTISFIPPDGEFELMSYRLNTHVKPLIWIESVIEKHSHSRIEYMVKAKS 299
Query: 303 QFKERSTATNVEIELPVSSDASNPDVRTSMGSASYVPEDEALIWKIRSFPGGKEYMLRAE 362
QFK RSTA NVEI +PV +DA +P +T++GS +VPE+ ++W ++SFPGGKEY++RA
Sbjct: 300 QFKRRSTANNVEIHIPVPNDADSPKFKTTVGSVKWVPENSEIVWSVKSFPGGKEYLMRAH 359
Query: 363 FTLPSITAEEATPERKAPIRVKFEIPYFTVSGIQVRYLKIIEKSGYHALPWVRYITMAGE 422
F LPS+ AE+ E K PI VKFEIPYFT SGIQVRYLKIIEKSGY A+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 = 397 bits (1019), Expect = e-111, Method: Compositional matrix adjust.
Identities = 177/267 (66%), Positives = 227/267 (85%), Gaps = 3/267 (1%)
Query: 160 SWRSEGIQYKKNEVFLDVVEHVNILVNSNGQIIRSDVVGALKMRTYLSGMPECKLGLNDR 219
SWRSEGI+Y+KNEVFLDV+E VN+LV++NG ++RS++VG++KMR +LSGMPE +LGLND+
Sbjct: 1 SWRSEGIKYRKNEVFLDVIEAVNLLVSANGNVLRSEIVGSIKMRVFLSGMPELRLGLNDK 60
Query: 220 ILLEAQGRSTKGKAIDLDDIKFHQCVRLARFENDRTISFIPPDGSFDLMTYRLNTQVKPL 279
+L + GR K K+++L+D+KFHQCVRL+RFENDRTISFIPPDG F+LM+YRLNT VKPL
Sbjct: 61 VLFDNTGRG-KSKSVELEDVKFHQCVRLSRFENDRTISFIPPDGEFELMSYRLNTHVKPL 119
Query: 280 IWVEAQVERHSRSRVEILVKARSQFKERSTATNVEIELPVSSDASNPDVRTSMGSASYVP 339
IW+E+ +E+HS SR+E +VKA+SQFK RSTA NVEI +PV +DA +P +T++GS +VP
Sbjct: 120 IWIESVIEKHSHSRIEYMVKAKSQFKRRSTANNVEIHIPVPNDADSPKFKTTVGSVKWVP 179
Query: 340 EDEALIWKIRSFPGGKEYMLRAEFTLPSITAEEATPERKAPIRVKFEIPYFTVSGIQVRY 399
E+ ++W ++SFPGGKEY++RA F LPS+ AE+ E K PI VKFEIPYFT SGIQVRY
Sbjct: 180 ENSEIVWSVKSFPGGKEYLMRAHFGLPSVEAEDK--EGKPPISVKFEIPYFTTSGIQVRY 237
Query: 400 LKIIEKSGYHALPWVRYITMAGEYELR 426
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-107, Method: Compositional matrix adjust.
Identities = 174/267 (65%), Positives = 222/267 (83%), Gaps = 3/267 (1%)
Query: 160 SWRSEGIQYKKNEVFLDVVEHVNILVNSNGQIIRSDVVGALKMRTYLSGMPECKLGLNDR 219
SWRSEGI+Y+KNEVFLDV+E VN+LV++NG ++RS++VG++K R +LSG PE +LGLND+
Sbjct: 1 SWRSEGIKYRKNEVFLDVIEAVNLLVSANGNVLRSEIVGSIKXRVFLSGXPELRLGLNDK 60
Query: 220 ILLEAQGRSTKGKAIDLDDIKFHQCVRLARFENDRTISFIPPDGSFDLMTYRLNTQVKPL 279
+L + GR K K+++L+D+KFHQCVRL+RFENDRTISFIPPDG F+L +YRLNT VKPL
Sbjct: 61 VLFDNTGRG-KSKSVELEDVKFHQCVRLSRFENDRTISFIPPDGEFELXSYRLNTHVKPL 119
Query: 280 IWVEAQVERHSRSRVEILVKARSQFKERSTATNVEIELPVSSDASNPDVRTSMGSASYVP 339
IW+E+ +E+HS SR+E VKA+SQFK RSTA NVEI +PV +DA +P +T++GS +VP
Sbjct: 120 IWIESVIEKHSHSRIEYXVKAKSQFKRRSTANNVEIHIPVPNDADSPKFKTTVGSVKWVP 179
Query: 340 EDEALIWKIRSFPGGKEYMLRAEFTLPSITAEEATPERKAPIRVKFEIPYFTVSGIQVRY 399
E+ ++W ++SFPGGKEY+ RA F LPS+ AE+ E K PI VKFEIPYFT SGIQVRY
Sbjct: 180 ENSEIVWSVKSFPGGKEYLXRAHFGLPSVEAEDK--EGKPPISVKFEIPYFTTSGIQVRY 237
Query: 400 LKIIEKSGYHALPWVRYITMAGEYELR 426
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 = 323 bits (828), Expect = 1e-88, Method: Compositional matrix adjust.
Identities = 170/439 (38%), Positives = 257/439 (58%), Gaps = 21/439 (4%)
Query: 5 VSALFLLDIKGRVLVWRDYRGDVSAKQAERFFTKLIEKDGDAQSQDPVVYDNGVSYLFIQ 64
+ LF+ + KG VL+ R YR D+ + F +I Q + PV S+ ++
Sbjct: 2 IGGLFIYNHKGEVLISRVYRDDIGRNAVDAFRVNVIH--ARQQVRSPVTNIARTSFFHVK 59
Query: 65 HSNVYLMTASRQNCNAASLLFFLHRVVDVFKHYFEELEEESLRDNFVVVYELLDEMMDFG 124
SN++L ++QN NAA + FL+++ DV YF ++ EE++++NFV++YELLDE++DFG
Sbjct: 60 RSNIWLAAVTKQNVNAAMVFEFLYKMCDVMAAYFGKISEENIKNNFVLIYELLDEILDFG 119
Query: 125 YPQYTEANILSEFI-----KTDAYRMEVTQRPPMAVTNAVSWRSEGIQYKKNEVFLDVVE 179
YPQ +E L FI K+ E + VT + WR EGI+Y++NE+FLDV+E
Sbjct: 120 YPQNSETGALKTFITQQGIKSQHQTKEEQSQITSQVTGQIGWRREGIKYRRNELFLDVLE 179
Query: 180 HVNILVNSNGQIIRSDVVGALKMRTYLSGMPECKLGLNDRILLEAQGRST------KGK- 232
VN+L++ GQ++ + V G + M++YLSGMPECK G+ND+I++E QG+ T GK
Sbjct: 180 SVNLLMSPQGQVLSAHVSGRVVMKSYLSGMPECKFGMNDKIVIEKQGKGTADETSKSGKQ 239
Query: 233 AIDLDDIKFHQCVRLARFENDRTISFIPPDGSFDLMTYRLNTQVKPLIWVEAQVERHSRS 292
+I +DD FHQCVRL++F+++R+ISFIPPDG F+LM YR + V V R+
Sbjct: 240 SIAIDDCTFHQCVRLSKFDSERSISFIPPDGEFELMRYRTTKDIILPFRVIPLVREVGRT 299
Query: 293 RVEILVKARSQFKERSTATNVEIELPVSSDASNPDVRTSMGSASYVPEDEALIWKIRSFP 352
++E+ V +S FK A +E+ +P + S V G A Y + A++WKI+
Sbjct: 300 KLEVKVVIKSNFKPSLLAQKIEVRIPTPLNTSGVQVICMKGKAKYKASENAIVWKIKRMA 359
Query: 353 GGKEYMLRAEFTLPSITAEEATPERKAPIRVKFEIPYFTVSGIQVRYLKIIEK----SGY 408
G KE + AE L + + + PI + FE+P F SG++VRYLK+ E S +
Sbjct: 360 GMKESQISAEIEL--LPTNDKKKWARPPISMNFEVP-FAPSGLKVRYLKVFEPKLNYSDH 416
Query: 409 HALPWVRYITMAGEYELRL 427
+ WVRYI +G YE R
Sbjct: 417 DVIKWVRYIGRSGIYETRC 435
>pdb|2XA7|M Chain M, Ap2 Clathrin Adaptor Core In Active Complex With Cargo
Peptides
Length = 446
Score = 319 bits (817), Expect = 2e-87, Method: Compositional matrix adjust.
Identities = 170/449 (37%), Positives = 257/449 (57%), Gaps = 32/449 (7%)
Query: 5 VSALFLLDIKGRVLVWRDYRGDVSAKQAERFFTKLIEKDGDAQSQDPVVYDNGVSYLFIQ 64
+ LF+ + KG VL+ R YR D+ + F +I Q + PV S+ ++
Sbjct: 2 IGGLFIYNHKGEVLISRVYRDDIGRNAVDAFRVNVIH--ARQQVRSPVTNIARTSFFHVK 59
Query: 65 HSNVYLMTASRQNCNAASLLFFLHRVVDVFKHYFEELEEESLRDNFVVVYELLDEMMDFG 124
SN++L ++QN NAA + FL+++ DV YF ++ EE++++NFV++YELLDE++DFG
Sbjct: 60 RSNIWLAAVTKQNVNAAMVFEFLYKMCDVMAAYFGKISEENIKNNFVLIYELLDEILDFG 119
Query: 125 YPQYTEANILSEFI-----KTDAYRMEVTQRPPMAVTNAVSWRSEGIQYKKNEVFLDVVE 179
YPQ +E L FI K+ E + VT + WR EGI+Y++NE+FLDV+E
Sbjct: 120 YPQNSETGALKTFITQQGIKSQHQTKEEQSQITSQVTGQIGWRREGIKYRRNELFLDVLE 179
Query: 180 HVNILVNSNGQIIRSDVVGALKMRTYLSGMPECKLGLNDRILLEAQGRSTK--------- 230
VN+L++ GQ++ + V G + M++YLSGMPECK G+ND+I++E QG+ T
Sbjct: 180 SVNLLMSPQGQVLSAHVSGRVVMKSYLSGMPECKFGMNDKIVIEKQGKGTADETSKSMEQ 239
Query: 231 --------GK-AIDLDDIKFHQCVRLARFENDRTISFIPPDGSFDLMTYRLNTQVKPLIW 281
GK +I +DD FHQCVRL++F+++R+ISFIPPDG F+LM YR +
Sbjct: 240 KLISEEDLGKQSIAIDDCTFHQCVRLSKFDSERSISFIPPDGEFELMRYRTTKDIILPFR 299
Query: 282 VEAQVERHSRSRVEILVKARSQFKERSTATNVEIELPVSSDASNPDVRTSMGSASYVPED 341
V V R+++E+ V +S FK A +E+ +P + S V G A Y +
Sbjct: 300 VIPLVREVGRTKLEVKVVIKSNFKPSLLAQKIEVRIPTPLNTSGVQVICMKGKAKYKASE 359
Query: 342 EALIWKIRSFPGGKEYMLRAEFTLPSITAEEATPERKAPIRVKFEIPYFTVSGIQVRYLK 401
A++WKI+ G KE + AE L + + + PI + FE+P F SG++VRYLK
Sbjct: 360 NAIVWKIKRMAGMKESQISAEIEL--LPTNDKKKWARPPISMNFEVP-FAPSGLKVRYLK 416
Query: 402 IIEK----SGYHALPWVRYITMAGEYELR 426
+ E S + + WVRYI +G YE R
Sbjct: 417 VFEPKLNYSDHDVIKWVRYIGRSGIYETR 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 (579), Expect = 9e-60, Method: Compositional matrix adjust.
Identities = 124/317 (39%), Positives = 182/317 (57%), Gaps = 19/317 (5%)
Query: 127 QYTEANILSEFI-----KTDAYRMEVTQRPPMAVTNAVSWRSEGIQYKKNEVFLDVVEHV 181
Q +E L FI K+ E + VT + WR EGI+Y++NE+FLDV+E V
Sbjct: 8 QNSETGALKTFITQQGIKSQHQTKEEQSQITSQVTGQIGWRREGIKYRRNELFLDVLESV 67
Query: 182 NILVNSNGQIIRSDVVGALKMRTYLSGMPECKLGLNDRILLEAQGRST------KGK-AI 234
N+L++ GQ++ + V G + M++YLSGMPECK G+ND+I++E QG+ T GK +I
Sbjct: 68 NLLMSPQGQVLSAHVSGRVVMKSYLSGMPECKFGMNDKIVIEKQGKGTADETSKSGKQSI 127
Query: 235 DLDDIKFHQCVRLARFENDRTISFIPPDGSFDLMTYRLNTQVKPLIWVEAQVERHSRSRV 294
+DD FHQCVRL++F+++R+ISFIPPDG F+LM YR + V V R+++
Sbjct: 128 AIDDCTFHQCVRLSKFDSERSISFIPPDGEFELMRYRTTKDIILPFRVIPLVREVGRTKL 187
Query: 295 EILVKARSQFKERSTATNVEIELPVSSDASNPDVRTSMGSASYVPEDEALIWKIRSFPGG 354
E+ V +S FK A +E+ +P + S V G A Y + A++WKI+ G
Sbjct: 188 EVKVVIKSNFKPSLLAQKIEVRIPTPLNTSGVQVICMKGKAKYKASENAIVWKIKRMAGM 247
Query: 355 KEYMLRAEFTLPSITAEEATPERKAPIRVKFEIPYFTVSGIQVRYLKIIEK----SGYHA 410
KE + AE L + + + PI + FE+P F SG++VRYLK+ E S +
Sbjct: 248 KESQISAEIEL--LPTNDKKKWARPPISMNFEVP-FAPSGLKVRYLKVFEPKLNYSDHDV 304
Query: 411 LPWVRYITMAGEYELRL 427
+ WVRYI +G YE R
Sbjct: 305 IKWVRYIGRSGIYETRC 321
>pdb|1I31|A Chain A, Mu2 Adaptin Subunit (Ap50) Of Ap2 Clathrin Adaptor,
Complexed With Egfr Internalization Peptide Fyralm At
2.5 A Resolution
Length = 314
Score = 227 bits (578), Expect = 1e-59, Method: Compositional matrix adjust.
Identities = 124/317 (39%), Positives = 182/317 (57%), Gaps = 19/317 (5%)
Query: 127 QYTEANILSEFI-----KTDAYRMEVTQRPPMAVTNAVSWRSEGIQYKKNEVFLDVVEHV 181
Q +E L FI K+ E + VT + WR EGI+Y++NE+FLDV+E V
Sbjct: 1 QNSETGALKTFITQQGIKSQHQTKEEQSQITSQVTGQIGWRREGIKYRRNELFLDVLESV 60
Query: 182 NILVNSNGQIIRSDVVGALKMRTYLSGMPECKLGLNDRILLEAQGRST------KGK-AI 234
N+L++ GQ++ + V G + M++YLSGMPECK G+ND+I++E QG+ T GK +I
Sbjct: 61 NLLMSPQGQVLSAHVSGRVVMKSYLSGMPECKFGMNDKIVIEKQGKGTADETSKSGKQSI 120
Query: 235 DLDDIKFHQCVRLARFENDRTISFIPPDGSFDLMTYRLNTQVKPLIWVEAQVERHSRSRV 294
+DD FHQCVRL++F+++R+ISFIPPDG F+LM YR + V V R+++
Sbjct: 121 AIDDCTFHQCVRLSKFDSERSISFIPPDGEFELMRYRTTKDIILPFRVIPLVREVGRTKL 180
Query: 295 EILVKARSQFKERSTATNVEIELPVSSDASNPDVRTSMGSASYVPEDEALIWKIRSFPGG 354
E+ V +S FK A +E+ +P + S V G A Y + A++WKI+ G
Sbjct: 181 EVKVVIKSNFKPSLLAQKIEVRIPTPLNTSGVQVICMKGKAKYKASENAIVWKIKRMAGM 240
Query: 355 KEYMLRAEFTLPSITAEEATPERKAPIRVKFEIPYFTVSGIQVRYLKIIEK----SGYHA 410
KE + AE L + + + PI + FE+P F SG++VRYLK+ E S +
Sbjct: 241 KESQISAEIEL--LPTNDKKKWARPPISMNFEVP-FAPSGLKVRYLKVFEPKLNYSDHDV 297
Query: 411 LPWVRYITMAGEYELRL 427
+ WVRYI +G YE R
Sbjct: 298 IKWVRYIGRSGIYETRC 314
>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 = 2e-58, Method: Compositional matrix adjust.
Identities = 115/280 (41%), Positives = 170/280 (60%), Gaps = 14/280 (5%)
Query: 159 VSWRSEGIQYKKNEVFLDVVEHVNILVNSNGQIIRSDVVGALKMRTYLSGMPECKLGLND 218
+ WR EGI+Y++NE+FLDV+E VN+L++ GQ++ + V G + M++YLSGMPECK G+ND
Sbjct: 9 IGWRREGIKYRRNELFLDVLESVNLLMSPQGQVLSAHVSGRVVMKSYLSGMPECKFGMND 68
Query: 219 RILLEAQGRST------KGK-AIDLDDIKFHQCVRLARFENDRTISFIPPDGSFDLMTYR 271
+I++E QG+ T GK +I +DD FHQCVRL++F+++R+ISFIPPDG F+LM YR
Sbjct: 69 KIVIEKQGKGTADETSKSGKQSIAIDDCTFHQCVRLSKFDSERSISFIPPDGEFELMRYR 128
Query: 272 LNTQVKPLIWVEAQVERHSRSRVEILVKARSQFKERSTATNVEIELPVSSDASNPDVRTS 331
+ V V R+++E+ V +S FK A +E+ +P + S V
Sbjct: 129 TTKDIILPFRVIPLVREVGRTKLEVKVVIKSNFKPSLLAQKIEVRIPTPLNTSGVQVICM 188
Query: 332 MGSASYVPEDEALIWKIRSFPGGKEYMLRAEFTLPSITAEEATPERKAPIRVKFEIPYFT 391
G A Y + A++WKI+ G KE + AE L + + + PI + FE+P F
Sbjct: 189 KGKAKYKASENAIVWKIKRMAGMKESQISAEIEL--LPTNDKKKWARPPISMNFEVP-FA 245
Query: 392 VSGIQVRYLKIIEK----SGYHALPWVRYITMAGEYELRL 427
SG++VRYLK+ E S + + WVRYI +G YE R
Sbjct: 246 PSGLKVRYLKVFEPKLNYSDHDVIKWVRYIGRSGIYETRC 285
>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 (568), Expect = 2e-58, Method: Compositional matrix adjust.
Identities = 116/287 (40%), Positives = 171/287 (59%), Gaps = 14/287 (4%)
Query: 152 PMAVTNAVSWRSEGIQYKKNEVFLDVVEHVNILVNSNGQIIRSDVVGALKMRTYLSGMPE 211
P + WR EGI+Y++NE+FLDV+E VN+L++ GQ++ + V G + M++YLSGMPE
Sbjct: 16 PRGSHMQIGWRREGIKYRRNELFLDVLESVNLLMSPQGQVLSAHVSGRVVMKSYLSGMPE 75
Query: 212 CKLGLNDRILLEAQGRST------KGK-AIDLDDIKFHQCVRLARFENDRTISFIPPDGS 264
CK G+ND+I++E QG+ T GK +I +DD FHQCVRL++F+++R+ISFIPPDG
Sbjct: 76 CKFGMNDKIVIEKQGKGTADETSKSGKQSIAIDDCTFHQCVRLSKFDSERSISFIPPDGE 135
Query: 265 FDLMTYRLNTQVKPLIWVEAQVERHSRSRVEILVKARSQFKERSTATNVEIELPVSSDAS 324
F+LM YR + V V R+++E+ V +S FK A +E+ +P + S
Sbjct: 136 FELMRYRTTKDIILPFRVIPLVREVGRTKLEVKVVIKSNFKPSLLAQKIEVRIPTPLNTS 195
Query: 325 NPDVRTSMGSASYVPEDEALIWKIRSFPGGKEYMLRAEFTLPSITAEEATPERKAPIRVK 384
V G A Y + A++WKI+ G KE + AE L + + + PI +
Sbjct: 196 GVQVICMKGKAKYKASENAIVWKIKRMAGMKESQISAEIEL--LPTNDKKKWARPPISMN 253
Query: 385 FEIPYFTVSGIQVRYLKIIEK----SGYHALPWVRYITMAGEYELRL 427
FE+P F SG++VRYLK+ E S + + WVRYI +G YE R
Sbjct: 254 FEVP-FAPSGLKVRYLKVFEPKLNYSDHDVIKWVRYIGRSGIYETRC 299
>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 = 113/275 (41%), Positives = 167/275 (60%), Gaps = 14/275 (5%)
Query: 164 EGIQYKKNEVFLDVVEHVNILVNSNGQIIRSDVVGALKMRTYLSGMPECKLGLNDRILLE 223
EGI+Y++NE+FLDV+E VN+L++ GQ++ + V G + M++YLSGMPECK G+ND+I++E
Sbjct: 17 EGIKYRRNELFLDVLESVNLLMSPQGQVLSAHVSGRVVMKSYLSGMPECKFGMNDKIVIE 76
Query: 224 AQGRST------KGK-AIDLDDIKFHQCVRLARFENDRTISFIPPDGSFDLMTYRLNTQV 276
QG+ T GK +I +DD FHQCVRL++F+++R+ISFIPPDG F+LM YR +
Sbjct: 77 KQGKGTADETSKSGKQSIAIDDCTFHQCVRLSKFDSERSISFIPPDGEFELMRYRTTKDI 136
Query: 277 KPLIWVEAQVERHSRSRVEILVKARSQFKERSTATNVEIELPVSSDASNPDVRTSMGSAS 336
V V R+++E+ V +S FK A +E+ +P + S V G A
Sbjct: 137 ILPFRVIPLVREVGRTKLEVKVVIKSNFKPSLLAQKIEVRIPTPLNTSGVQVICMKGKAK 196
Query: 337 YVPEDEALIWKIRSFPGGKEYMLRAEFTLPSITAEEATPERKAPIRVKFEIPYFTVSGIQ 396
Y + A++WKI+ G KE + AE L + + + PI + FE+P F SG++
Sbjct: 197 YKASENAIVWKIKRMAGMKESQISAEIEL--LPTNDKKKWARPPISMNFEVP-FAPSGLK 253
Query: 397 VRYLKIIEK----SGYHALPWVRYITMAGEYELRL 427
VRYLK+ E S + + WVRYI +G YE R
Sbjct: 254 VRYLKVFEPKLNYSDHDVIKWVRYIGRSGIYETRC 288
>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 (524), Expect = 2e-53, Method: Compositional matrix adjust.
Identities = 109/269 (40%), Positives = 161/269 (59%), Gaps = 14/269 (5%)
Query: 170 KNEVFLDVVEHVNILVNSNGQIIRSDVVGALKMRTYLSGMPECKLGLNDRILLEAQGRST 229
+NE+FLDV+E VN+L++ GQ++ + V G + M++YLSGMPECK G+ND+I++E QG+ T
Sbjct: 120 RNELFLDVLESVNLLMSPQGQVLSAHVSGRVVMKSYLSGMPECKFGMNDKIVIEKQGKGT 179
Query: 230 ------KGK-AIDLDDIKFHQCVRLARFENDRTISFIPPDGSFDLMTYRLNTQVKPLIWV 282
GK +I +DD FHQCVRL++F+++R+ISFIPPDG F+LM YR + V
Sbjct: 180 ADETSKSGKQSIAIDDCTFHQCVRLSKFDSERSISFIPPDGEFELMRYRTTKDIILPFRV 239
Query: 283 EAQVERHSRSRVEILVKARSQFKERSTATNVEIELPVSSDASNPDVRTSMGSASYVPEDE 342
V R+++E+ V +S FK A +E+ +P + S V G A Y +
Sbjct: 240 IPLVREVGRTKLEVKVVIKSNFKPSLLAQKIEVRIPTPLNTSGVQVICMKGKAKYKASEN 299
Query: 343 ALIWKIRSFPGGKEYMLRAEFTLPSITAEEATPERKAPIRVKFEIPYFTVSGIQVRYLKI 402
A++WKI+ G KE + AE L + + + PI + FE+P F SG++VRYLK+
Sbjct: 300 AIVWKIKRMAGMKESQISAEIEL--LPTNDKKKWARPPISMNFEVP-FAPSGLKVRYLKV 356
Query: 403 IEK----SGYHALPWVRYITMAGEYELRL 427
E S + + WVRYI +G YE R
Sbjct: 357 FEPKLNYSDHDVIKWVRYIGRSGIYETRC 385
>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 = 128 bits (322), Expect = 5e-30, Method: Compositional matrix adjust.
Identities = 75/274 (27%), Positives = 140/274 (51%), Gaps = 27/274 (9%)
Query: 159 VSWRSEGIQYKKNEVFLDVVEHVNILVNSNGQIIRSDVVGALKMRTYLSGMPECKLG-LN 217
+ WR G++Y NE + DVVE ++ +++ +G + +++ G + LSGMP+ L +N
Sbjct: 8 IPWRRAGVKYTNNEAYFDVVEEIDAIIDKSGSTVFAEIQGVIDACIKLSGMPDLSLSFMN 67
Query: 218 DRILLEAQGRSTKGKAIDLDDIKFHQCVRLARFENDRTISFIPPDGSFDLMTYRLNTQ-- 275
R+L DD+ FH C+R R+E++R +SFIPPDG+F L++YR+++Q
Sbjct: 68 PRLL---------------DDVSFHPCIRFKRWESERVLSFIPPDGNFRLISYRVSSQNL 112
Query: 276 VKPLIWVEAQV---ERHSRSRVEILVKARSQFKERSTATNVEIELPVSSDASNPDVRTSM 332
V ++V+ + E S R +I + + + V + +P N ++ +
Sbjct: 113 VAIPVYVKHNISFKENSSCGRFDITIGPKQNMGKTIEGITVTVHMP--KVVLNMNLTPTQ 170
Query: 333 GSASYVPEDEALIWKIRSFPGGKEYMLRAEFTLPSITAEEATPERKAPIRVKFEIPYFTV 392
GS ++ P + L W + K L+ L ++ + PE + ++F+I +
Sbjct: 171 GSYTFDPVTKVLAWDVGKITPQKLPSLKG---LVNLQSGAPKPEENPNLNIQFKIQQLAI 227
Query: 393 SGIQVRYLKIIEKSGYHALPWVRYITMAGEYELR 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 = 8e-30, Method: Compositional matrix adjust.
Identities = 89/314 (28%), Positives = 155/314 (49%), Gaps = 40/314 (12%)
Query: 136 EFIKTDAYRMEVTQRPPMAVTNAVSWRSEGIQYKKNEVFLDVVEHVNILVNSNGQIIRSD 195
EF ++ RP +S RS+ Q +KNEVFLDVVE +++L+ SNG +++ D
Sbjct: 6 EFQQSKVAPSSAASRP------VLSSRSD--QSQKNEVFLDVVERLSVLIASNGSLLKVD 57
Query: 196 VVGALKMRTYLSGMPECKLGLNDRILLEAQGRSTKGKAIDLDDIKFHQCVRLARFENDRT 255
V G ++++++L E ++GL + + G I +D++ FH V L FE+ R
Sbjct: 58 VQGEIRLKSFLPSGSEMRIGLTEEFSVGKSELRGYGPGIRVDEVSFHSSVNLDEFESHRI 117
Query: 256 ISFIPPDGSFDLMTYRLNTQV-KPL---IWVEAQVERHSRSRVEILVKARSQFKERSTAT 311
+ PP G +M Y+L+ + PL ++ Q +R S R+++ +K R +S A
Sbjct: 118 LRLQPPQGELTVMRYQLSDDLPSPLPFRLFPSVQWDRGS-GRLQVYLKLRCDLLSKSQAL 176
Query: 312 NVEIELP-------VSSDASNPDVRTSMGSASYVPEDEALIWKIRSFPGGKEYMLRAEFT 364
NV + LP +S + S+P+ + + + AL W + GG + L F
Sbjct: 177 NVRLHLPLPRGVVSLSQELSSPEQKAELA-------EGALRWDLPRVQGGSQ--LSGLFQ 227
Query: 365 LPSIT---------AEEATPERKAPIRVKFEIPYFTVSGIQVRYLKIIEKSGYHALP--W 413
+ + A+P P + FE+P T SG+QVR+L++ + +A P W
Sbjct: 228 MDVPGPPGPPSHGLSTSASPLGLGPASLSFELPRHTCSGLQVRFLRLAFRPSGNANPHKW 287
Query: 414 VRYITMAGEYELRL 427
VR+++ + Y +R+
Sbjct: 288 VRHLSHSDAYVIRI 301
>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 = 33.1 bits (74), Expect = 0.28, Method: Composition-based stats.
Identities = 22/76 (28%), Positives = 37/76 (48%), Gaps = 1/76 (1%)
Query: 45 DAQSQDPVVYDNGVSYLFIQHSNVYLMTASRQNCNAASLLFFLHRVVDVFKHYFEELEEE 104
DA+ + V + N ++ +++ +Y N N + L +H V+V YF + E
Sbjct: 43 DAKHTNFVEFRN-FKIIYRRYAGLYFCICVDVNDNNLAYLEAIHNFVEVLNEYFHNVCEL 101
Query: 105 SLRDNFVVVYELLDEM 120
L NF VY ++DEM
Sbjct: 102 DLVFNFYKVYTVVDEM 117
>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 = 1.1, Method: Compositional matrix adjust.
Identities = 32/111 (28%), Positives = 50/111 (45%), Gaps = 16/111 (14%)
Query: 91 VDVFKH----YFEELEEESLRDNFVVVYELLDEMMDFGYPQYTEANILSEFIKTDAYRM- 145
VD+ H FE LE+ L N L+D ++FG T+ +L++ I D++R+
Sbjct: 162 VDIXSHATQAIFEILEKSWLPQNCT----LVDXKIEFGVDVTTKEIVLADVIDNDSWRLW 217
Query: 146 ----EVTQRPPMAVTNAVSWRSEGIQY-KKNEVFLDVVEHVNILVNSNGQI 191
Q+ + + EG+Q KKN F V E V +L+ S Q
Sbjct: 218 PSGDRSQQKDKQSYRDLKEVTPEGLQXVKKN--FEWVAERVELLLKSESQC 266
>pdb|1FW8|A Chain A, Circularly Permuted Phosphoglycerate Kinase From Yeast:
Pgk P72
Length = 416
Score = 28.9 bits (63), Expect = 5.9, Method: Compositional matrix adjust.
Identities = 23/93 (24%), Positives = 38/93 (40%), Gaps = 3/93 (3%)
Query: 91 VDVFKHYFEELEEESLRDNFVVVYELLDEMMDFGYPQYTEANILSEFIKTDAYRMEVTQR 150
V F+H L + + D F + M+ F PQ +L + +K +E R
Sbjct: 74 VQKFRHELSSLADVYINDAFGTAHRAHSSMVGFDLPQRAAGFLLEKELKYFGKALENPTR 133
Query: 151 PPMAVTNAVSWRSEGIQYKKNEVFLDVVEHVNI 183
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 = 6.2, Method: Compositional matrix adjust.
Identities = 30/102 (29%), Positives = 44/102 (43%), Gaps = 16/102 (15%)
Query: 259 IPPDGSFDLMTYRLNTQVKPLIWVEAQVERH-------SRSRVEILVKARSQFKERSTAT 311
IP D +D++T+ W +H RS V+I VK + TA
Sbjct: 205 IPLDVXYDVVTHAAGNS-----WXFENRXQHVVDGDYTPRSAVDIFVKDLGLVAD--TAK 257
Query: 312 NVEIELPVSSDASNPDVRTSMGSASYVPEDEALIWKIRSFPG 353
+ LP++S A N TS +A Y ED++ + KI S G
Sbjct: 258 ALRFPLPLASTALN--XFTSASNAGYGKEDDSAVIKIFSGEG 297
>pdb|3PGK|A Chain A, The Structure Of Yeast Phosphoglycerate Kinase At 0.25 Nm
Resolution
Length = 416
Score = 28.9 bits (63), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 23/93 (24%), Positives = 38/93 (40%), Gaps = 3/93 (3%)
Query: 91 VDVFKHYFEELEEESLRDNFVVVYELLDEMMDFGYPQYTEANILSEFIKTDAYRMEVTQR 150
V F+H L + + D F + M+ F PQ +L + +K +E R
Sbjct: 145 VQKFRHELSSLADVYINDAFGTAHRAHSSMVGFDLPQRAAGFLLEKELKYFGKALENPTR 204
Query: 151 PPMAVTNAVSWRSEGIQYKKNEVFLDVVEHVNI 183
P +A+ ++ IQ N LD V+ + I
Sbjct: 205 PFLAILGGAKV-ADKIQLIDN--LLDKVDSIII 234
>pdb|1QPG|A Chain A, 3-Phosphoglycerate Kinase, Mutation R65q
Length = 415
Score = 28.5 bits (62), Expect = 6.8, Method: Compositional matrix adjust.
Identities = 23/93 (24%), Positives = 38/93 (40%), Gaps = 3/93 (3%)
Query: 91 VDVFKHYFEELEEESLRDNFVVVYELLDEMMDFGYPQYTEANILSEFIKTDAYRMEVTQR 150
V F+H L + + D F + M+ F PQ +L + +K +E R
Sbjct: 144 VQKFRHELSSLADVYINDAFGTAHRAHSSMVGFDLPQRAAGFLLEKELKYFGKALENPTR 203
Query: 151 PPMAVTNAVSWRSEGIQYKKNEVFLDVVEHVNI 183
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 = 6.9, Method: Compositional matrix adjust.
Identities = 17/67 (25%), Positives = 32/67 (47%), Gaps = 9/67 (13%)
Query: 233 AIDLDDIKFHQCVRLARFENDRTISFIPPDG------SFDLMTYRLNTQVKPLIWVEAQV 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: 12,418,970
Number of Sequences: 62578
Number of extensions: 504782
Number of successful extensions: 1431
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: 1368
Number of HSP's gapped (non-prelim): 26
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 (21.8 bits)
S2: 53 (25.0 bits)