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= 022308
(299 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 = 218 bits (556), Expect = 3e-57, Method: Compositional matrix adjust.
Identities = 104/254 (40%), Positives = 163/254 (64%), Gaps = 5/254 (1%)
Query: 51 VPWRPTDVKYANNEVYVDLVEEMDAIINRDGVLVKCEIYGEVQVNCLLSGLPDLTLSFAN 110
+PWR VKY NNE Y D+VEE+DAII++ G V EI G + LSG+PDL+LSF N
Sbjct: 8 IPWRRAGVKYTNNEAYFDVVEEIDAIIDKSGSTVFAEIQGVIDACIKLSGMPDLSLSFMN 67
Query: 111 PSILHDVRFHPCVRFRPWESHQILSFVPPDGQFKLMSYRV--KKLKSTPIYVKPQLT-SD 167
P +L DV FHPC+RF+ WES ++LSF+PPDG F+L+SYRV + L + P+YVK ++ +
Sbjct: 68 PRLLDDVSFHPCIRFKRWESERVLSFIPPDGNFRLISYRVSSQNLVAIPVYVKHNISFKE 127
Query: 168 AGTC-RISVMVGIRNDPGKTIDSIILQFQLPPCILSADLTSNHGTVNVLS-NKICTWSIG 225
+C R + +G + + GKTI+ I + +P +L+ +LT G+ K+ W +G
Sbjct: 128 NSSCGRFDITIGPKQNMGKTIEGITVTVHMPKVVLNMNLTPTQGSYTFDPVTKVLAWDVG 187
Query: 226 RIPKDKAPSLSGTMVLETGLETLRVFPTFQVEFRIMGVALSGLQIDKLDLQNVPNRLYKG 285
+I K PSL G + L++G P ++F+I +A+SGL++++LD+ + +KG
Sbjct: 188 KITPQKLPSLKGLVNLQSGAPKPEENPNLNIQFKIQQLAISGLKVNRLDMYGEKYKPFKG 247
Query: 286 FRAVTRAGEYEVRS 299
+ +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 = 120 bits (302), Expect = 8e-28, Method: Compositional matrix adjust.
Identities = 88/323 (27%), Positives = 153/323 (47%), Gaps = 41/323 (12%)
Query: 1 MIDNGFPLTTEPNILREMIAPPNIVSKMLSVVTGNSSNVSDILPGATAS-CVPWRPTDVK 59
++D G+P TT+ IL+E I G+ P AT + V WR +K
Sbjct: 117 LMDFGYPQTTDSKILQEFITQ-----------EGHKLETGAPRPPATVTNAVSWRSEGIK 165
Query: 60 YANNEVYVDLVEEMDAIINRDGVLVKCEIYGEVQVNCLLSGLPDLTLSFANPSI------ 113
Y NEV++D++E ++ +++ +G +++ EI G +++ LSG+P+L L + +
Sbjct: 166 YRKNEVFLDVIEAVNLLVSANGNVLRSEIVGSIKMRVFLSGMPELRLGLNDKVLFDNTGR 225
Query: 114 -------LHDVRFHPCVRFRPWESHQILSFVPPDGQFKLMSYRVKKLKSTPIYVKPQLTS 166
L DV+FH CVR +E+ + +SF+PPDG+F+LMSYR+ I+++ +
Sbjct: 226 GKSKSVELEDVKFHQCVRLSRFENDRTISFIPPDGEFELMSYRLNTHVKPLIWIESVIEK 285
Query: 167 DAGTCRISVMVGIRNDPGK--TIDSIILQFQLPPCILSADLTSNHGTVN-VLSNKICTWS 223
+ + RI MV ++ + T +++ + +P S + G+V V N WS
Sbjct: 286 HSHS-RIEYMVKAKSQFKRRSTANNVEIHIPVPNDADSPKFKTTVGSVKWVPENSEIVWS 344
Query: 224 IGRIPKDKAPSLSGTMVL-ETGLETLRVFPTFQVEFRIMGVALSGLQ------IDKLDLQ 276
+ P K + L E P V+F I SG+Q I+K Q
Sbjct: 345 VKSFPGGKEYLMRAHFGLPSVEAEDKEGKPPISVKFEIPYFTTSGIQVRYLKIIEKSGYQ 404
Query: 277 NVPNRLYKGFRAVTRAGEYEVRS 299
+P R +T+ G+Y++R+
Sbjct: 405 AIP-----WVRYITQNGDYQLRT 422
>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 (271), Expect = 3e-24, Method: Compositional matrix adjust.
Identities = 72/267 (26%), Positives = 132/267 (49%), Gaps = 23/267 (8%)
Query: 53 WRPTDVKYANNEVYVDLVEEMDAIINRDGVLVKCEIYGEVQVNCLLSGLPDLTLSFANPS 112
WR +KY NEV++D++E ++ +++ +G +++ EI G +++ LSG+P+L L +
Sbjct: 2 WRSEGIKYRKNEVFLDVIEAVNLLVSANGNVLRSEIVGSIKMRVFLSGMPELRLGLNDKV 61
Query: 113 I-------------LHDVRFHPCVRFRPWESHQILSFVPPDGQFKLMSYRVKKLKSTPIY 159
+ L DV+FH CVR +E+ + +SF+PPDG+F+LMSYR+ I+
Sbjct: 62 LFDNTGRGKSKSVELEDVKFHQCVRLSRFENDRTISFIPPDGEFELMSYRLNTHVKPLIW 121
Query: 160 VKPQLTSDAGTCRISVMVGIRNDPGK--TIDSIILQFQLPPCILSADLTSNHGTVN-VLS 216
++ + + + RI MV ++ + T +++ + +P S + G+V V
Sbjct: 122 IESVIEKHSHS-RIEYMVKAKSQFKRRSTANNVEIHIPVPNDADSPKFKTTVGSVKWVPE 180
Query: 217 NKICTWSIGRIPKDKAPSLSGTMVL-ETGLETLRVFPTFQVEFRIMGVALSGLQIDKLDL 275
N WS+ P K + L E P V+F I SG+Q+ L +
Sbjct: 181 NSEIVWSVKSFPGGKEYLMRAHFGLPSVEAEDKEGKPPISVKFEIPYFTTSGIQVRYLKI 240
Query: 276 QNVPNRLYKGF---RAVTRAGEYEVRS 299
+ 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 (249), Expect = 1e-21, Method: Compositional matrix adjust.
Identities = 70/267 (26%), Positives = 127/267 (47%), Gaps = 23/267 (8%)
Query: 53 WRPTDVKYANNEVYVDLVEEMDAIINRDGVLVKCEIYGEVQVNCLLSGLPDLTLSFANPS 112
WR +KY NEV++D++E ++ +++ +G +++ EI G ++ LSG P+L L +
Sbjct: 2 WRSEGIKYRKNEVFLDVIEAVNLLVSANGNVLRSEIVGSIKXRVFLSGXPELRLGLNDKV 61
Query: 113 I-------------LHDVRFHPCVRFRPWESHQILSFVPPDGQFKLMSYRVKKLKSTPIY 159
+ L DV+FH CVR +E+ + +SF+PPDG+F+L SYR+ I+
Sbjct: 62 LFDNTGRGKSKSVELEDVKFHQCVRLSRFENDRTISFIPPDGEFELXSYRLNTHVKPLIW 121
Query: 160 VKPQLTSDAGTCRISVMVGIRNDPGK--TIDSIILQFQLPPCILSADLTSNHGTVN-VLS 216
++ + + + RI V ++ + T +++ + +P S + G+V V
Sbjct: 122 IESVIEKHSHS-RIEYXVKAKSQFKRRSTANNVEIHIPVPNDADSPKFKTTVGSVKWVPE 180
Query: 217 NKICTWSIGRIPKDKAPSLSGTMVL-ETGLETLRVFPTFQVEFRIMGVALSGLQIDKLDL 275
N WS+ P K L E P V+F I SG+Q+ L +
Sbjct: 181 NSEIVWSVKSFPGGKEYLXRAHFGLPSVEAEDKEGKPPISVKFEIPYFTTSGIQVRYLKI 240
Query: 276 QNVPNRLYKGF---RAVTRAGEYEVRS 299
+ Y+ R +T+ G+Y++R+
Sbjct: 241 --IEKSGYQALPWVRYITQNGDYQLRT 265
>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 = 95.5 bits (236), Expect = 3e-20, Method: Compositional matrix adjust.
Identities = 76/328 (23%), Positives = 146/328 (44%), Gaps = 38/328 (11%)
Query: 1 MIDNGFPLTTEPNILREMIAPPNIVSKMLSVVTGNSSNVSDILPGATASCVPWRPTDVKY 60
++D G+P +E L+ I I S+ + S ++ + G + WR +KY
Sbjct: 115 ILDFGYPQNSETGALKTFITQQGIKSQHQT--KEEQSQITSQVTGQ----IGWRREGIKY 168
Query: 61 ANNEVYVDLVEEMDAIINRDGVLVKCEIYGEVQVNCLLSGLPDLTLSFANPSILH----- 115
NE+++D++E ++ +++ G ++ + G V + LSG+P+ + ++
Sbjct: 169 RRNELFLDVLESVNLLMSPQGQVLSAHVSGRVVMKSYLSGMPECKFGMNDKIVIEKQGKG 228
Query: 116 ----------------DVRFHPCVRFRPWESHQILSFVPPDGQFKLMSYRVKKLKSTPIY 159
D FH CVR ++S + +SF+PPDG+F+LM YR K P
Sbjct: 229 TADETSKSGKQSIAIDDCTFHQCVRLSKFDSERSISFIPPDGEFELMRYRTTKDIILPFR 288
Query: 160 VKPQLTSDAGTCRISVMVGIRNDPGKTIDSIILQFQLPPCILSADLT----SNHGTVNVL 215
V P L + G ++ V V I+++ ++ + ++ ++P + ++ +
Sbjct: 289 VIP-LVREVGRTKLEVKVVIKSNFKPSLLAQKIEVRIPTPLNTSGVQVICMKGKAKYKAS 347
Query: 216 SNKICTWSIGRIPKDKAPSLSGTM-VLETGLETLRVFP----TFQVEFRIMGVALSGLQI 270
N I W I R+ K +S + +L T + P F+V F G+ + L++
Sbjct: 348 ENAI-VWKIKRMAGMKESQISAEIELLPTNDKKKWARPPISMNFEVPFAPSGLKVRYLKV 406
Query: 271 DKLDLQNVPNRLYKGFRAVTRAGEYEVR 298
+ L + + K R + R+G YE R
Sbjct: 407 FEPKLNYSDHDVIKWVRYIGRSGIYETR 434
>pdb|2XA7|M Chain M, Ap2 Clathrin Adaptor Core In Active Complex With Cargo
Peptides
Length = 446
Score = 91.3 bits (225), Expect = 7e-19, Method: Compositional matrix adjust.
Identities = 76/339 (22%), Positives = 146/339 (43%), Gaps = 49/339 (14%)
Query: 1 MIDNGFPLTTEPNILREMIAPPNIVSKMLSVVTGNSSNVSDILPGATASCVPWRPTDVKY 60
++D G+P +E L+ I I S+ + S ++ + G + WR +KY
Sbjct: 115 ILDFGYPQNSETGALKTFITQQGIKSQHQT--KEEQSQITSQVTGQ----IGWRREGIKY 168
Query: 61 ANNEVYVDLVEEMDAIINRDGVLVKCEIYGEVQVNCLLSGLPDLTLSFANPSILH----- 115
NE+++D++E ++ +++ G ++ + G V + LSG+P+ + ++
Sbjct: 169 RRNELFLDVLESVNLLMSPQGQVLSAHVSGRVVMKSYLSGMPECKFGMNDKIVIEKQGKG 228
Query: 116 ---------------------------DVRFHPCVRFRPWESHQILSFVPPDGQFKLMSY 148
D FH CVR ++S + +SF+PPDG+F+LM Y
Sbjct: 229 TADETSKSMEQKLISEEDLGKQSIAIDDCTFHQCVRLSKFDSERSISFIPPDGEFELMRY 288
Query: 149 RVKKLKSTPIYVKPQLTSDAGTCRISVMVGIRNDPGKTIDSIILQFQLPPCILSADLT-- 206
R K P V P L + G ++ V V I+++ ++ + ++ ++P + ++ +
Sbjct: 289 RTTKDIILPFRVIP-LVREVGRTKLEVKVVIKSNFKPSLLAQKIEVRIPTPLNTSGVQVI 347
Query: 207 --SNHGTVNVLSNKICTWSIGRIPKDKAPSLSGTM-VLETGLETLRVFP----TFQVEFR 259
N I W I R+ K +S + +L T + P F+V F
Sbjct: 348 CMKGKAKYKASENAIV-WKIKRMAGMKESQISAEIELLPTNDKKKWARPPISMNFEVPFA 406
Query: 260 IMGVALSGLQIDKLDLQNVPNRLYKGFRAVTRAGEYEVR 298
G+ + L++ + L + + K R + R+G YE R
Sbjct: 407 PSGLKVRYLKVFEPKLNYSDHDVIKWVRYIGRSGIYETR 445
>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 = 1e-18, Method: Compositional matrix adjust.
Identities = 67/287 (23%), Positives = 130/287 (45%), Gaps = 32/287 (11%)
Query: 42 ILPGATASCVPWRPTDVKYANNEVYVDLVEEMDAIINRDGVLVKCEIYGEVQVNCLLSGL 101
++P + + WR +KY NE+++D++E ++ +++ G ++ + G V + LSG+
Sbjct: 14 LVPRGSHMQIGWRREGIKYRRNELFLDVLESVNLLMSPQGQVLSAHVSGRVVMKSYLSGM 73
Query: 102 PDLTLSFANPSILH---------------------DVRFHPCVRFRPWESHQILSFVPPD 140
P+ + ++ D FH CVR ++S + +SF+PPD
Sbjct: 74 PECKFGMNDKIVIEKQGKGTADETSKSGKQSIAIDDCTFHQCVRLSKFDSERSISFIPPD 133
Query: 141 GQFKLMSYRVKKLKSTPIYVKPQLTSDAGTCRISVMVGIRNDPGKTIDSIILQFQLPPCI 200
G+F+LM YR K P V P L + G ++ V V I+++ ++ + ++ ++P +
Sbjct: 134 GEFELMRYRTTKDIILPFRVIP-LVREVGRTKLEVKVVIKSNFKPSLLAQKIEVRIPTPL 192
Query: 201 LSADLT----SNHGTVNVLSNKICTWSIGRIPKDKAPSLSGTM-VLETGLETLRVFP--- 252
++ + N I W I R+ K +S + +L T + P
Sbjct: 193 NTSGVQVICMKGKAKYKASENAI-VWKIKRMAGMKESQISAEIELLPTNDKKKWARPPIS 251
Query: 253 -TFQVEFRIMGVALSGLQIDKLDLQNVPNRLYKGFRAVTRAGEYEVR 298
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 = 88.6 bits (218), Expect = 4e-18, Method: Compositional matrix adjust.
Identities = 66/278 (23%), Positives = 126/278 (45%), Gaps = 32/278 (11%)
Query: 51 VPWRPTDVKYANNEVYVDLVEEMDAIINRDGVLVKCEIYGEVQVNCLLSGLPDLTLSFAN 110
+ WR +KY NE+++D++E ++ +++ G ++ + G V + LSG+P+ +
Sbjct: 9 IGWRREGIKYRRNELFLDVLESVNLLMSPQGQVLSAHVSGRVVMKSYLSGMPECKFGMND 68
Query: 111 PSILH---------------------DVRFHPCVRFRPWESHQILSFVPPDGQFKLMSYR 149
++ D FH CVR ++S + +SF+PPDG+F+LM YR
Sbjct: 69 KIVIEKQGKGTADETSKSGKQSIAIDDCTFHQCVRLSKFDSERSISFIPPDGEFELMRYR 128
Query: 150 VKKLKSTPIYVKPQLTSDAGTCRISVMVGIRNDPGKTIDSIILQFQLPPCILSADLT--- 206
K P V P L + G ++ V V I+++ ++ + ++ ++P + ++ +
Sbjct: 129 TTKDIILPFRVIP-LVREVGRTKLEVKVVIKSNFKPSLLAQKIEVRIPTPLNTSGVQVIC 187
Query: 207 -SNHGTVNVLSNKICTWSIGRIPKDKAPSLSGTM-VLETGLETLRVFP----TFQVEFRI 260
N I W I R+ K +S + +L T + P F+V F
Sbjct: 188 MKGKAKYKASENAI-VWKIKRMAGMKESQISAEIELLPTNDKKKWARPPISMNFEVPFAP 246
Query: 261 MGVALSGLQIDKLDLQNVPNRLYKGFRAVTRAGEYEVR 298
G+ + L++ + L + + K R + R+G YE R
Sbjct: 247 SGLKVRYLKVFEPKLNYSDHDVIKWVRYIGRSGIYETR 284
>pdb|1BW8|A Chain A, Mu2 Adaptin Subunit (Ap50) Of Ap2 Adaptor (Second Domain),
Complexed With Egfr Internalization Peptide Fyralm
Length = 321
Score = 88.2 bits (217), Expect = 5e-18, Method: Compositional matrix adjust.
Identities = 66/278 (23%), Positives = 126/278 (45%), Gaps = 32/278 (11%)
Query: 51 VPWRPTDVKYANNEVYVDLVEEMDAIINRDGVLVKCEIYGEVQVNCLLSGLPDLTLSFAN 110
+ WR +KY NE+++D++E ++ +++ G ++ + G V + LSG+P+ +
Sbjct: 45 IGWRREGIKYRRNELFLDVLESVNLLMSPQGQVLSAHVSGRVVMKSYLSGMPECKFGMND 104
Query: 111 PSILH---------------------DVRFHPCVRFRPWESHQILSFVPPDGQFKLMSYR 149
++ D FH CVR ++S + +SF+PPDG+F+LM YR
Sbjct: 105 KIVIEKQGKGTADETSKSGKQSIAIDDCTFHQCVRLSKFDSERSISFIPPDGEFELMRYR 164
Query: 150 VKKLKSTPIYVKPQLTSDAGTCRISVMVGIRNDPGKTIDSIILQFQLPPCILSADLT--- 206
K P V P L + G ++ V V I+++ ++ + ++ ++P + ++ +
Sbjct: 165 TTKDIILPFRVIP-LVREVGRTKLEVKVVIKSNFKPSLLAQKIEVRIPTPLNTSGVQVIC 223
Query: 207 -SNHGTVNVLSNKICTWSIGRIPKDKAPSLSGTM-VLETGLETLRVFP----TFQVEFRI 260
N I W I R+ K +S + +L T + P F+V F
Sbjct: 224 MKGKAKYKASENAI-VWKIKRMAGMKESQISAEIELLPTNDKKKWARPPISMNFEVPFAP 282
Query: 261 MGVALSGLQIDKLDLQNVPNRLYKGFRAVTRAGEYEVR 298
G+ + L++ + L + + K R + R+G YE R
Sbjct: 283 SGLKVRYLKVFEPKLNYSDHDVIKWVRYIGRSGIYETR 320
>pdb|1I31|A Chain A, Mu2 Adaptin Subunit (Ap50) Of Ap2 Clathrin Adaptor,
Complexed With Egfr Internalization Peptide Fyralm At
2.5 A Resolution
Length = 314
Score = 88.2 bits (217), Expect = 5e-18, Method: Compositional matrix adjust.
Identities = 66/278 (23%), Positives = 126/278 (45%), Gaps = 32/278 (11%)
Query: 51 VPWRPTDVKYANNEVYVDLVEEMDAIINRDGVLVKCEIYGEVQVNCLLSGLPDLTLSFAN 110
+ WR +KY NE+++D++E ++ +++ G ++ + G V + LSG+P+ +
Sbjct: 38 IGWRREGIKYRRNELFLDVLESVNLLMSPQGQVLSAHVSGRVVMKSYLSGMPECKFGMND 97
Query: 111 PSILH---------------------DVRFHPCVRFRPWESHQILSFVPPDGQFKLMSYR 149
++ D FH CVR ++S + +SF+PPDG+F+LM YR
Sbjct: 98 KIVIEKQGKGTADETSKSGKQSIAIDDCTFHQCVRLSKFDSERSISFIPPDGEFELMRYR 157
Query: 150 VKKLKSTPIYVKPQLTSDAGTCRISVMVGIRNDPGKTIDSIILQFQLPPCILSADLT--- 206
K P V P L + G ++ V V I+++ ++ + ++ ++P + ++ +
Sbjct: 158 TTKDIILPFRVIP-LVREVGRTKLEVKVVIKSNFKPSLLAQKIEVRIPTPLNTSGVQVIC 216
Query: 207 -SNHGTVNVLSNKICTWSIGRIPKDKAPSLSGTM-VLETGLETLRVFP----TFQVEFRI 260
N I W I R+ K +S + +L T + P F+V F
Sbjct: 217 MKGKAKYKASENAI-VWKIKRMAGMKESQISAEIELLPTNDKKKWARPPISMNFEVPFAP 275
Query: 261 MGVALSGLQIDKLDLQNVPNRLYKGFRAVTRAGEYEVR 298
G+ + L++ + L + + K R + R+G YE R
Sbjct: 276 SGLKVRYLKVFEPKLNYSDHDVIKWVRYIGRSGIYETR 313
>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 = 2e-16, Method: Compositional matrix adjust.
Identities = 64/271 (23%), Positives = 123/271 (45%), Gaps = 32/271 (11%)
Query: 58 VKYANNEVYVDLVEEMDAIINRDGVLVKCEIYGEVQVNCLLSGLPDLTLSFANPSILH-- 115
+KY NE+++D++E ++ +++ G ++ + G V + LSG+P+ + ++
Sbjct: 19 IKYRRNELFLDVLESVNLLMSPQGQVLSAHVSGRVVMKSYLSGMPECKFGMNDKIVIEKQ 78
Query: 116 -------------------DVRFHPCVRFRPWESHQILSFVPPDGQFKLMSYRVKKLKST 156
D FH CVR ++S + +SF+PPDG+F+LM YR K
Sbjct: 79 GKGTADETSKSGKQSIAIDDCTFHQCVRLSKFDSERSISFIPPDGEFELMRYRTTKDIIL 138
Query: 157 PIYVKPQLTSDAGTCRISVMVGIRNDPGKTIDSIILQFQLPPCILSADLT----SNHGTV 212
P V P L + G ++ V V I+++ ++ + ++ ++P + ++ +
Sbjct: 139 PFRVIP-LVREVGRTKLEVKVVIKSNFKPSLLAQKIEVRIPTPLNTSGVQVICMKGKAKY 197
Query: 213 NVLSNKICTWSIGRIPKDKAPSLSGTM-VLETGLETLRVFP----TFQVEFRIMGVALSG 267
N I W I R+ K +S + +L T + P F+V F G+ +
Sbjct: 198 KASENAI-VWKIKRMAGMKESQISAEIELLPTNDKKKWARPPISMNFEVPFAPSGLKVRY 256
Query: 268 LQIDKLDLQNVPNRLYKGFRAVTRAGEYEVR 298
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 = 77.8 bits (190), Expect = 8e-15, Method: Compositional matrix adjust.
Identities = 62/268 (23%), Positives = 121/268 (45%), Gaps = 32/268 (11%)
Query: 61 ANNEVYVDLVEEMDAIINRDGVLVKCEIYGEVQVNCLLSGLPDLTLSFANPSILH----- 115
+ NE+++D++E ++ +++ G ++ + G V + LSG+P+ + ++
Sbjct: 119 SRNELFLDVLESVNLLMSPQGQVLSAHVSGRVVMKSYLSGMPECKFGMNDKIVIEKQGKG 178
Query: 116 ----------------DVRFHPCVRFRPWESHQILSFVPPDGQFKLMSYRVKKLKSTPIY 159
D FH CVR ++S + +SF+PPDG+F+LM YR K P
Sbjct: 179 TADETSKSGKQSIAIDDCTFHQCVRLSKFDSERSISFIPPDGEFELMRYRTTKDIILPFR 238
Query: 160 VKPQLTSDAGTCRISVMVGIRNDPGKTIDSIILQFQLPPCILSADLT----SNHGTVNVL 215
V P L + G ++ V V I+++ ++ + ++ ++P + ++ +
Sbjct: 239 VIP-LVREVGRTKLEVKVVIKSNFKPSLLAQKIEVRIPTPLNTSGVQVICMKGKAKYKAS 297
Query: 216 SNKICTWSIGRIPKDKAPSLSGTM-VLETGLETLRVFP----TFQVEFRIMGVALSGLQI 270
N I W I R+ K +S + +L T + P F+V F G+ + L++
Sbjct: 298 ENAI-VWKIKRMAGMKESQISAEIELLPTNDKKKWARPPISMNFEVPFAPSGLKVRYLKV 356
Query: 271 DKLDLQNVPNRLYKGFRAVTRAGEYEVR 298
+ 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 = 68.2 bits (165), Expect = 5e-12, Method: Compositional matrix adjust.
Identities = 73/295 (24%), Positives = 127/295 (43%), Gaps = 40/295 (13%)
Query: 40 SDILPGATASCVPWRPTDVKYANNEVYVDLVEEMDAIINRDGVLVKCEIYGEVQVNCLLS 99
S + P + AS + NEV++D+VE + +I +G L+K ++ GE+++ L
Sbjct: 10 SKVAPSSAASRPVLSSRSDQSQKNEVFLDVVERLSVLIASNGSLLKVDVQGEIRLKSFLP 69
Query: 100 GLPD----LTLSFA---------NPSI-LHDVRFHPCVRFRPWESHQILSFVPPDGQFKL 145
+ LT F+ P I + +V FH V +ESH+IL PP G+ +
Sbjct: 70 SGSEMRIGLTEEFSVGKSELRGYGPGIRVDEVSFHSSVNLDEFESHRILRLQPPQGELTV 129
Query: 146 MSYRVKKLKSTPIYVK--PQLTSDAGTCRISVMVGIRNDPGKTIDSIILQFQLP----PC 199
M Y++ +P+ + P + D G+ R+ V + +R D ++ ++ LP
Sbjct: 130 MRYQLSDDLPSPLPFRLFPSVQWDRGSGRLQVYLKLRCDLLSKSQALNVRLHLPLPRGVV 189
Query: 200 ILSADLTSNHGTVNVLSNKICTWSIGRIPKDKAPSLSGTMVLET---------GLET--- 247
LS +L+S L+ W + R+ LSG ++ GL T
Sbjct: 190 SLSQELSSPEQKAE-LAEGALRWDLPRV--QGGSQLSGLFQMDVPGPPGPPSHGLSTSAS 246
Query: 248 -LRVFPTFQVEFRIMGVALSGLQIDKLDLQNVPN---RLYKGFRAVTRAGEYEVR 298
L + P + F + SGLQ+ L L P+ +K R ++ + Y +R
Sbjct: 247 PLGLGPA-SLSFELPRHTCSGLQVRFLRLAFRPSGNANPHKWVRHLSHSDAYVIR 300
>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 = 31.6 bits (70), Expect = 0.57, Method: Compositional matrix adjust.
Identities = 32/119 (26%), Positives = 50/119 (42%), Gaps = 7/119 (5%)
Query: 125 FRPWESHQILSFVPPDGQFKLMSYRVKKLK---STPIYVKPQLTSDAGTCRISVMVGIRN 181
FRPW Q F + K +K + S + D+ R+ VG+
Sbjct: 92 FRPWTIRQYAGFSTVEESNKFYKDNIKAGQQGLSVAFDLATHRGYDSDNPRVRGDVGMAG 151
Query: 182 DPGKTI-DSIILQFQLPPCILSADLTSNHGTVNVLSNKICTWSIGRIPKDKAPSLSGTM 239
T+ D+ IL +P +S +T N + VL+N I T +PK+K L+GT+
Sbjct: 152 VAIDTVEDTKILFDGIPLEKMSVSMTMNGAVIPVLANFIVTGEEQGVPKEK---LTGTI 207
>pdb|1HDM|A Chain A, Histocompatibility Antigen Hla-Dm
Length = 201
Score = 29.3 bits (64), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 16/56 (28%), Positives = 22/56 (39%), Gaps = 5/56 (8%)
Query: 203 ADLTSNHGTVNVLSNKICTWSIGRIPKDKAPSLSGTMVLETGLETLRVFPTFQVEF 258
AD G + + C W I +IPK L G + + G VF +EF
Sbjct: 60 ADWAQEQGDAILFDKEFCEWMIQQIPK-----LDGKIPVSRGFPIAEVFTLKPLEF 110
>pdb|4HJH|A Chain A, Iodide Sad Phased Crystal Structure Of A
Phosphoglucomutase From Brucella Melitensis Complexed
With Glucose-6-Phosphate
pdb|4HJH|B Chain B, Iodide Sad Phased Crystal Structure Of A
Phosphoglucomutase From Brucella Melitensis Complexed
With Glucose-6-Phosphate
Length = 481
Score = 27.7 bits (60), Expect = 8.3, Method: Compositional matrix adjust.
Identities = 11/28 (39%), Positives = 16/28 (57%)
Query: 12 PNILREMIAPPNIVSKMLSVVTGNSSNV 39
P +LR + P +++ M V TGNS V
Sbjct: 295 PKVLRTRVGSPYVIASMAQVSTGNSGPV 322
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 0.138 0.414
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,788,407
Number of Sequences: 62578
Number of extensions: 350491
Number of successful extensions: 816
Number of sequences better than 100.0: 21
Number of HSP's better than 100.0 without gapping: 14
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 780
Number of HSP's gapped (non-prelim): 22
length of query: 299
length of database: 14,973,337
effective HSP length: 98
effective length of query: 201
effective length of database: 8,840,693
effective search space: 1776979293
effective search space used: 1776979293
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: 51 (24.3 bits)