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= psy4020
(530 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1W63|A Chain A, Ap1 Clathrin Adaptor Core
pdb|1W63|C Chain C, Ap1 Clathrin Adaptor Core
pdb|1W63|E Chain E, Ap1 Clathrin Adaptor Core
pdb|1W63|G Chain G, Ap1 Clathrin Adaptor Core
pdb|1W63|I Chain I, Ap1 Clathrin Adaptor Core
pdb|1W63|K Chain K, Ap1 Clathrin Adaptor Core
Length = 618
Score = 480 bits (1235), Expect = e-136, Method: Compositional matrix adjust.
Identities = 239/370 (64%), Positives = 282/370 (76%), Gaps = 54/370 (14%)
Query: 17 YLPKYPAHFGQLECLKLIASSRFTDKRIGYLGAMLLLDERQDVHLLITNSLKNDLNSSTQ 76
++ YPAHFGQLECLKLIAS +FTDKRIGYLGAMLLLDERQDVHLL+TN +KNDLN STQ
Sbjct: 62 HMLGYPAHFGQLECLKLIASQKFTDKRIGYLGAMLLLDERQDVHLLMTNCIKNDLNHSTQ 121
Query: 77 FVVGLALCTLGAIASPEMSRDLASEVERLMKSSNAYIRKKAALCAYRIILKVPELMEIFL 136
FV GLALCTLG + S EM RDLA EVE+L+K+SN+Y+RKKAALCA +I KVPELME+FL
Sbjct: 122 FVQGLALCTLGCMGSSEMCRDLAGEVEKLLKTSNSYLRKKAALCAVHVIRKVPELMEMFL 181
Query: 137 PATRLLLSDKNHAI--------------------------------------------HQ 152
PAT+ LL++KNH + H
Sbjct: 182 PATKNLLNEKNHGVLHTSVVLLTEMCERSPDMLAHFRKLVPQLVRILKNLIMSGYSPEHD 241
Query: 153 V----------KILKLLRILGKNDVEASEAMNDILAQVATNTETSKNVGNTILYETVLSI 202
V +IL+LLRILG+ND ++SEAMNDILAQVATNTETSKNVGN ILYETVL+I
Sbjct: 242 VSGISDPFLQVRILRLLRILGRNDDDSSEAMNDILAQVATNTETSKNVGNAILYETVLTI 301
Query: 203 MDIKSESGLRVLAVNILGRFLLNNDKNIRYVALNTLLRTVYIDTSAVQRHRNTILECLKD 262
MDIKSESGLRVLA+NILGRFLLNNDKNIRYVAL +LL+TV D +AVQRHR+TI++CLKD
Sbjct: 302 MDIKSESGLRVLAINILGRFLLNNDKNIRYVALTSLLKTVQTDHNAVQRHRSTIVDCLKD 361
Query: 263 PDVSIRRRALELSFALVNSANVRSMMKELLIFLEKSEPDFKAHCSSNIVLCAERFAPNKR 322
DVSI+RRA+ELSFALVN N+R MMKELL FL+ EP+FKA C+S I L AE++AP+KR
Sbjct: 362 LDVSIKRRAMELSFALVNGNNIRGMMKELLYFLDSCEPEFKADCASGIFLAAEKYAPSKR 421
Query: 323 WHLDTLLKVL 332
WH+DT+++VL
Sbjct: 422 WHIDTIMRVL 431
>pdb|2JKR|A Chain A, Ap2 Clathrin Adaptor Core With Dileucine Peptide Rm(
Phosphos)qikrllse
pdb|2JKR|L Chain L, Ap2 Clathrin Adaptor Core With Dileucine Peptide Rm(
Phosphos)qikrllse
pdb|2JKT|A Chain A, Ap2 Clathrin Adaptor Core With Cd4 Dileucine Peptide Rm(
Phosphos)eikrllse Q To E Mutant
pdb|2JKT|L Chain L, Ap2 Clathrin Adaptor Core With Cd4 Dileucine Peptide Rm(
Phosphos)eikrllse Q To E Mutant
Length = 623
Score = 89.4 bits (220), Expect = 5e-18, Method: Compositional matrix adjust.
Identities = 95/428 (22%), Positives = 194/428 (45%), Gaps = 92/428 (21%)
Query: 25 FGQLECLKLIASSRFTDKRIGYLGAMLLLDERQDVHLLITNSLKNDLNSSTQFVVGLALC 84
FG +E + L++S+R+T+K+IGYL +L++ ++ LI N++KNDL S +GLAL
Sbjct: 74 FGHMEAVNLLSSNRYTEKQIGYLFISVLVNSNSELIRLINNAIKNDLASRNPTFMGLALH 133
Query: 85 TLGAIASPEMSRDLASEVERLMKSSNAY--IRKKAALCAYRIILKVPELMEIFLPATRL- 141
+ + S EM+ A E+ +++ + + +++ AALC R+ P+L+ + +R+
Sbjct: 134 CIANVGSREMAEAFAGEIPKILVAGDTMDSVKQSAALCLLRLYRTSPDLVPMGDWTSRVV 193
Query: 142 -LLSDKNHAIHQVKILKLLRILGKNDVEASEAMNDILAQVATNTETSKNVGNTILYETVL 200
LL+D++ + V A+ ++ LAQ N E ++T +
Sbjct: 194 HLLNDQHLGV----------------VTAATSLITTLAQ--KNPEE---------FKTSV 226
Query: 201 SIMDIKSESGLRVLAVNILGRFLLNNDKNIRYVALNTLLRTVYIDTSAVQRHRNTILECL 260
S LAV+ L R + + +++ ++ + +L+C
Sbjct: 227 S------------LAVSRLSRIVTSASTDLQDYTY------YFVPAPWLSVKLLRLLQCY 268
Query: 261 KDP-DVSIRRRALELSFALVNSANVRSMMKEL---------------LIFLEKSEPD--- 301
P D ++R R E ++N A K++ LI SEP+
Sbjct: 269 PPPEDPAVRGRLTECLETILNKAQEPPKSKKVQHSNAKNAVLFEAISLIIHHDSEPNLLV 328
Query: 302 --------FKAHCSSNI---------VLCAERFAPNK-RWHLDTLLKVLVANLLGFSNRA 343
F H +N+ L + F+ + H++T++ L + R
Sbjct: 329 RACNQLGQFLQHRETNLRYLALESMCTLASSEFSHEAVKTHIETVINALK------TERD 382
Query: 344 LRDQRRALELSFALVNSANVRSMMKELLIFLEKSEPDFKAHCSSNIVLCAERFAPNKRWH 403
+ ++RA++L +A+ + +N + ++ E+L +LE ++ + + + AE++A + W+
Sbjct: 383 VSVRQRAVDLLYAMCDRSNAQQIVAEMLSYLETADYSIREEIVLKVAILAEKYAVDYTWY 442
Query: 404 LDTLLKVL 411
+DT+L ++
Sbjct: 443 VDTILNLI 450
>pdb|3ZY7|A Chain A, Crystal Structure Of Computationally Redesigned Gamma-
Adaptin Appendage Domain Forming A Symmetric Homodimer
pdb|3ZY7|B Chain B, Crystal Structure Of Computationally Redesigned Gamma-
Adaptin Appendage Domain Forming A Symmetric Homodimer
Length = 122
Score = 89.0 bits (219), Expect = 6e-18, Method: Composition-based stats.
Identities = 48/109 (44%), Positives = 70/109 (64%), Gaps = 1/109 (0%)
Query: 422 SVKAYDNHGVVINLLLDSQTPGDSVTIVTMQATNENLTLVSDFLFQAAVPKTFQLQMLPP 481
S+ AYD G+ I + SVT++T+QA+N ++DF+FQAAVPKTFQLQ+L P
Sbjct: 6 SITAYDALGLKIEFTFERSNTNPSVTVITIQASNSTELDMTDFVFQAAVPKTFQLQLLSP 65
Query: 482 SDTNIPPGSQVTQTLRVAKANNNVQASLRMRIKVSYNVNGTFIQDQAEI 530
S + +P + T T +V K N + LRMRIK+++N NG +Q +AE+
Sbjct: 66 SSSVVPAFNTGTIT-QVIKVLNPQKQQLRMRIKLTFNWNGYKVQSEAEV 113
>pdb|2VGL|A Chain A, Ap2 Clathrin Adaptor Core
pdb|2XA7|A Chain A, Ap2 Clathrin Adaptor Core In Active Complex With Cargo
Peptides
Length = 621
Score = 89.0 bits (219), Expect = 6e-18, Method: Compositional matrix adjust.
Identities = 95/428 (22%), Positives = 194/428 (45%), Gaps = 92/428 (21%)
Query: 25 FGQLECLKLIASSRFTDKRIGYLGAMLLLDERQDVHLLITNSLKNDLNSSTQFVVGLALC 84
FG +E + L++S+R+T+K+IGYL +L++ ++ LI N++KNDL S +GLAL
Sbjct: 74 FGHMEAVNLLSSNRYTEKQIGYLFISVLVNSNSELIRLINNAIKNDLASRNPTFMGLALH 133
Query: 85 TLGAIASPEMSRDLASEVERLMKSSNAY--IRKKAALCAYRIILKVPELMEIFLPATRL- 141
+ + S EM+ A E+ +++ + + +++ AALC R+ P+L+ + +R+
Sbjct: 134 CIANVGSREMAEAFAGEIPKILVAGDTMDSVKQSAALCLLRLYRTSPDLVPMGDWTSRVV 193
Query: 142 -LLSDKNHAIHQVKILKLLRILGKNDVEASEAMNDILAQVATNTETSKNVGNTILYETVL 200
LL+D++ + V A+ ++ LAQ N E ++T +
Sbjct: 194 HLLNDQHLGV----------------VTAATSLITTLAQ--KNPEE---------FKTSV 226
Query: 201 SIMDIKSESGLRVLAVNILGRFLLNNDKNIRYVALNTLLRTVYIDTSAVQRHRNTILECL 260
S LAV+ L R + + +++ ++ + +L+C
Sbjct: 227 S------------LAVSRLSRIVTSASTDLQDYTY------YFVPAPWLSVKLLRLLQCY 268
Query: 261 KDP-DVSIRRRALELSFALVNSANVRSMMKEL---------------LIFLEKSEPD--- 301
P D ++R R E ++N A K++ LI SEP+
Sbjct: 269 PPPEDPAVRGRLTECLETILNKAQEPPKSKKVQHSNAKNAVLFEAISLIIHHDSEPNLLV 328
Query: 302 --------FKAHCSSNI---------VLCAERFAPNK-RWHLDTLLKVLVANLLGFSNRA 343
F H +N+ L + F+ + H++T++ L + R
Sbjct: 329 RACNQLGQFLQHRETNLRYLALESMCTLASSEFSHEAVKTHIETVINALK------TERD 382
Query: 344 LRDQRRALELSFALVNSANVRSMMKELLIFLEKSEPDFKAHCSSNIVLCAERFAPNKRWH 403
+ ++RA++L +A+ + +N + ++ E+L +LE ++ + + + AE++A + W+
Sbjct: 383 VSVRQRAVDLLYAMCDRSNAQQIVAEMLSYLETADYSIREEIVLKVAILAEKYAVDYTWY 442
Query: 404 LDTLLKVL 411
+DT+L ++
Sbjct: 443 VDTILNLI 450
>pdb|2A7B|A Chain A, On The Routine Use Of Soft X-Rays In Macromolecular
Crystallography, Part Iii- The Optimal Data Collection
Wavelength
Length = 120
Score = 86.3 bits (212), Expect = 4e-17, Method: Compositional matrix adjust.
Identities = 48/109 (44%), Positives = 70/109 (64%), Gaps = 1/109 (0%)
Query: 422 SVKAYDNHGVVINLLLDSQTPGDSVTIVTMQATNENLTLVSDFLFQAAVPKTFQLQMLPP 481
S+ AY +G+ I + SVT++T+QA+N ++DF+FQAAVPKTFQLQ+L P
Sbjct: 4 SITAYSKNGLKIEFTFERSNTNPSVTVITIQASNSTELDMTDFVFQAAVPKTFQLQLLSP 63
Query: 482 SDTNIPPGSQVTQTLRVAKANNNVQASLRMRIKVSYNVNGTFIQDQAEI 530
S + +P + T T +V K N + LRMRIK++YN G+ +QD AE+
Sbjct: 64 SSSVVPAFNTGTIT-QVIKVLNPQKQQLRMRIKLTYNHKGSAMQDLAEV 111
>pdb|1GYU|A Chain A, Gamma-Adaptin Appendage Domain From Clathrin Adaptor Ap1
Length = 140
Score = 85.9 bits (211), Expect = 5e-17, Method: Compositional matrix adjust.
Identities = 48/109 (44%), Positives = 70/109 (64%), Gaps = 1/109 (0%)
Query: 422 SVKAYDNHGVVINLLLDSQTPGDSVTIVTMQATNENLTLVSDFLFQAAVPKTFQLQMLPP 481
S+ AY +G+ I + SVT++T+QA+N ++DF+FQAAVPKTFQLQ+L P
Sbjct: 24 SITAYSKNGLKIEFTFERSNTNPSVTVITIQASNSTELDMTDFVFQAAVPKTFQLQLLSP 83
Query: 482 SDTNIPPGSQVTQTLRVAKANNNVQASLRMRIKVSYNVNGTFIQDQAEI 530
S + +P + T T +V K N + LRMRIK++YN G+ +QD AE+
Sbjct: 84 SSSVVPAFNTGTIT-QVIKVLNPQKQQLRMRIKLTYNHKGSAMQDLAEV 131
>pdb|1IU1|A Chain A, Crystal Structure Of Human Gamma1-Adaptin Ear Domain
pdb|1IU1|B Chain B, Crystal Structure Of Human Gamma1-Adaptin Ear Domain
Length = 146
Score = 85.5 bits (210), Expect = 7e-17, Method: Compositional matrix adjust.
Identities = 48/109 (44%), Positives = 70/109 (64%), Gaps = 1/109 (0%)
Query: 422 SVKAYDNHGVVINLLLDSQTPGDSVTIVTMQATNENLTLVSDFLFQAAVPKTFQLQMLPP 481
S+ AY +G+ I + SVT++T+QA+N ++DF+FQAAVPKTFQLQ+L P
Sbjct: 30 SITAYSKNGLKIEFTFERSNTNPSVTVITIQASNSTELDMTDFVFQAAVPKTFQLQLLSP 89
Query: 482 SDTNIPPGSQVTQTLRVAKANNNVQASLRMRIKVSYNVNGTFIQDQAEI 530
S + +P + T T +V K N + LRMRIK++YN G+ +QD AE+
Sbjct: 90 SSSIVPAFNTGTIT-QVIKVLNPQKQQLRMRIKLTYNHKGSAMQDLAEV 137
>pdb|1GYV|A Chain A, Gamma-Adaptin Appendage Domain From Clathrin Adaptor Ap1,
L762e Mutant
Length = 120
Score = 84.7 bits (208), Expect = 1e-16, Method: Compositional matrix adjust.
Identities = 48/109 (44%), Positives = 69/109 (63%), Gaps = 1/109 (0%)
Query: 422 SVKAYDNHGVVINLLLDSQTPGDSVTIVTMQATNENLTLVSDFLFQAAVPKTFQLQMLPP 481
S+ AY +G+ I + SVT++T+QA+N ++DF+FQAAVPKTFQLQ L P
Sbjct: 4 SITAYSKNGLKIEFTFERSNTNPSVTVITIQASNSTELDMTDFVFQAAVPKTFQLQELSP 63
Query: 482 SDTNIPPGSQVTQTLRVAKANNNVQASLRMRIKVSYNVNGTFIQDQAEI 530
S + +P + T T +V K N + LRMRIK++YN G+ +QD AE+
Sbjct: 64 SSSVVPAFNTGTIT-QVIKVLNPQKQQLRMRIKLTYNHKGSAMQDLAEV 111
>pdb|1GYW|A Chain A, Gamma-Adaptin Appendage Domain From Clathrin Adaptor Ap1
A753d Mutant
pdb|1GYW|B Chain B, Gamma-Adaptin Appendage Domain From Clathrin Adaptor Ap1
A753d Mutant
Length = 128
Score = 82.8 bits (203), Expect = 4e-16, Method: Compositional matrix adjust.
Identities = 47/109 (43%), Positives = 69/109 (63%), Gaps = 1/109 (0%)
Query: 422 SVKAYDNHGVVINLLLDSQTPGDSVTIVTMQATNENLTLVSDFLFQAAVPKTFQLQMLPP 481
S+ AY +G+ I + SVT++T+QA+N ++DF+FQA VPKTFQLQ+L P
Sbjct: 12 SITAYSKNGLKIEFTFERSNTNPSVTVITIQASNSTELDMTDFVFQADVPKTFQLQLLSP 71
Query: 482 SDTNIPPGSQVTQTLRVAKANNNVQASLRMRIKVSYNVNGTFIQDQAEI 530
S + +P + T T +V K N + LRMRIK++YN G+ +QD AE+
Sbjct: 72 SSSVVPAFNTGTIT-QVIKVLNPQKQQLRMRIKLTYNHKGSAMQDLAEV 119
>pdb|2E9G|A Chain A, Solution Structure Of The Alpha Adaptinc2 Domain From
Human Adapter-Related Protein Complex 1 Gamma 2 Subunit
Length = 131
Score = 55.8 bits (133), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 34/110 (30%), Positives = 62/110 (56%), Gaps = 5/110 (4%)
Query: 423 VKAYDNHGVVINLLLDSQTPGDSVTIVTMQATNENLTLVSDFLFQAAVPKTFQLQMLPPS 482
+K ++ GV +NL ++ ++T+ ATN + V+ F+ QAAVPK+ QLQ+ PS
Sbjct: 16 LKVFEREGVQLNLSFIRPPENPALLLITITATNFSEGDVTHFICQAAVPKSLQLQLQAPS 75
Query: 483 DTNIPP--GSQVTQTLRVAKANNNVQASLRMRIKVSYNVNGTFIQDQAEI 530
+P G +TQ R+ N +A LR++++++Y+ +Q+ E+
Sbjct: 76 GNTVPARGGLPITQLFRILNPN---KAPLRLKLRLTYDHFHQSVQEIFEV 122
>pdb|2XA7|B Chain B, Ap2 Clathrin Adaptor Core In Active Complex With Cargo
Peptides
Length = 592
Score = 44.3 bits (103), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 28/108 (25%), Positives = 54/108 (50%), Gaps = 2/108 (1%)
Query: 42 KRIGYLGAMLLLDERQDVHLLITNSLKNDLNSSTQFVVGLALCTLGAIASPEMSRDLASE 101
K++ YL M + D+ ++ NS D + LA+ T+G I +++ L
Sbjct: 66 KKLVYLYLMNYAKSQPDMAIMAVNSFVKDCEDPNPLIRALAVRTMGCIRVDKITEYLCEP 125
Query: 102 VERLMKSSNAYIRKKAALCAYRIILKVPELMEI--FLPATRLLLSDKN 147
+ + +K + Y+RK AA+C ++ +++E FL + R L++D N
Sbjct: 126 LRKCLKDEDPYVRKTAAVCVAKLHDINAQMVEDQGFLDSLRDLIADSN 173
>pdb|2VGL|B Chain B, Ap2 Clathrin Adaptor Core
pdb|2JKR|B Chain B, Ap2 Clathrin Adaptor Core With Dileucine Peptide Rm(
Phosphos)qikrllse
pdb|2JKR|E Chain E, Ap2 Clathrin Adaptor Core With Dileucine Peptide Rm(
Phosphos)qikrllse
pdb|2JKT|B Chain B, Ap2 Clathrin Adaptor Core With Cd4 Dileucine Peptide Rm(
Phosphos)eikrllse Q To E Mutant
pdb|2JKT|E Chain E, Ap2 Clathrin Adaptor Core With Cd4 Dileucine Peptide Rm(
Phosphos)eikrllse Q To E Mutant
Length = 591
Score = 44.3 bits (103), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 28/108 (25%), Positives = 54/108 (50%), Gaps = 2/108 (1%)
Query: 42 KRIGYLGAMLLLDERQDVHLLITNSLKNDLNSSTQFVVGLALCTLGAIASPEMSRDLASE 101
K++ YL M + D+ ++ NS D + LA+ T+G I +++ L
Sbjct: 66 KKLVYLYLMNYAKSQPDMAIMAVNSFVKDCEDPNPLIRALAVRTMGCIRVDKITEYLCEP 125
Query: 102 VERLMKSSNAYIRKKAALCAYRIILKVPELMEI--FLPATRLLLSDKN 147
+ + +K + Y+RK AA+C ++ +++E FL + R L++D N
Sbjct: 126 LRKCLKDEDPYVRKTAAVCVAKLHDINAQMVEDQGFLDSLRDLIADSN 173
>pdb|1P4U|A Chain A, Crystal Structure Of Gga3 Gae Domain In Complex With
Rabaptin-5 Peptide
Length = 153
Score = 42.7 bits (99), Expect = 5e-04, Method: Composition-based stats.
Identities = 30/116 (25%), Positives = 54/116 (46%), Gaps = 11/116 (9%)
Query: 423 VKAYDNHGVVINLLLDSQTPGD--SVTIVTMQATNENLTLVSDFLFQAAVPKTFQLQMLP 480
V AYD +G I + P V +V + N V + QAA PK+ ++++ P
Sbjct: 29 VTAYDKNGFRILFHFAKECPPGRPDVLVVVVSMLNMAPLPVKSIVLQAAAPKSMKVKLQP 88
Query: 481 PSDTN------IPPGSQVTQTLRVAKANNNVQASLRMRIKVSYNVNGTFIQDQAEI 530
PS T I P + +TQ + +A N ++ +R+R K+++ + + E+
Sbjct: 89 PSGTELSPFSPIQPPAAITQVMLLA---NPLKEKVRLRYKLTFALGEQLSTEVGEV 141
>pdb|1W63|B Chain B, Ap1 Clathrin Adaptor Core
pdb|1W63|D Chain D, Ap1 Clathrin Adaptor Core
pdb|1W63|F Chain F, Ap1 Clathrin Adaptor Core
pdb|1W63|H Chain H, Ap1 Clathrin Adaptor Core
pdb|1W63|J Chain J, Ap1 Clathrin Adaptor Core
pdb|1W63|L Chain L, Ap1 Clathrin Adaptor Core
Length = 584
Score = 42.4 bits (98), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 27/111 (24%), Positives = 54/111 (48%), Gaps = 2/111 (1%)
Query: 42 KRIGYLGAMLLLDERQDVHLLITNSLKNDLNSSTQFVVGLALCTLGAIASPEMSRDLASE 101
K++ YL M + D+ ++ N+ D + LA+ T+G I +++ L
Sbjct: 66 KKLVYLYLMNYAKSQPDMAIMAVNTFVKDCEDPNPLIRALAVRTMGCIRVDKITEYLCEP 125
Query: 102 VERLMKSSNAYIRKKAALCAYRIILKVPELMEI--FLPATRLLLSDKNHAI 150
+ + +K + Y+RK AA+C ++ +++E FL + L+SD N +
Sbjct: 126 LRKCLKDEDPYVRKTAAVCVAKLHDINAQMVEDQGFLDTLKDLISDSNPMV 176
>pdb|2DWX|A Chain A, Co-Crystal Structure Analysis Of Gga1-Gae With The Wnsf
Motif
pdb|2DWX|B Chain B, Co-Crystal Structure Analysis Of Gga1-Gae With The Wnsf
Motif
pdb|2DWX|C Chain C, Co-Crystal Structure Analysis Of Gga1-Gae With The Wnsf
Motif
pdb|2DWX|D Chain D, Co-Crystal Structure Analysis Of Gga1-Gae With The Wnsf
Motif
pdb|2DWY|A Chain A, Crystal Structure Analysis Of Gga1-Gae
pdb|2DWY|B Chain B, Crystal Structure Analysis Of Gga1-Gae
pdb|2DWY|C Chain C, Crystal Structure Analysis Of Gga1-Gae
pdb|2DWY|D Chain D, Crystal Structure Analysis Of Gga1-Gae
Length = 133
Score = 39.7 bits (91), Expect = 0.004, Method: Composition-based stats.
Identities = 33/107 (30%), Positives = 54/107 (50%), Gaps = 15/107 (14%)
Query: 423 VKAYDNHGVVINL-LLDSQTPGDS---VTIVTMQATNENLTLVSDFLFQAAVPKTFQLQM 478
V YD HG I PG S V +V+M +T + + +FQ+AVPK ++++
Sbjct: 9 VTVYDQHGFRILFHFARDPLPGRSDVLVVVVSMLSTAPQP--IRNIVFQSAVPKVMKVKL 66
Query: 479 LPPSDTNIPP------GSQVTQTLRVAKANNNVQASLRMRIKVSYNV 519
PPS T +P S +TQ L +A N + +R+R K+++ +
Sbjct: 67 QPPSGTELPAFNPIVHPSAITQVLLLA---NPQKEKVRLRYKLTFTM 110
>pdb|1OM9|A Chain A, Structure Of The Gga1-Appendage In Complex With The P56
Binding Peptide
pdb|1OM9|B Chain B, Structure Of The Gga1-Appendage In Complex With The P56
Binding Peptide
Length = 154
Score = 39.3 bits (90), Expect = 0.006, Method: Composition-based stats.
Identities = 33/107 (30%), Positives = 54/107 (50%), Gaps = 15/107 (14%)
Query: 423 VKAYDNHGVVINL-LLDSQTPGDS---VTIVTMQATNENLTLVSDFLFQAAVPKTFQLQM 478
V YD HG I PG S V +V+M +T + + +FQ+AVPK ++++
Sbjct: 30 VTVYDQHGFRILFHFARDPLPGRSDVLVVVVSMLSTAPQP--IRNIVFQSAVPKVMKVKL 87
Query: 479 LPPSDTNIPP------GSQVTQTLRVAKANNNVQASLRMRIKVSYNV 519
PPS T +P S +TQ L +A N + +R+R K+++ +
Sbjct: 88 QPPSGTELPAFNPIVHPSAITQVLLLA---NPQKEKVRLRYKLTFTM 131
>pdb|1NA8|A Chain A, Crystal Structure Of Adp-Ribosylation Factor Binding
Protein Gga1
pdb|1NA8|B Chain B, Crystal Structure Of Adp-Ribosylation Factor Binding
Protein Gga1
Length = 154
Score = 37.0 bits (84), Expect = 0.027, Method: Composition-based stats.
Identities = 32/107 (29%), Positives = 53/107 (49%), Gaps = 15/107 (14%)
Query: 423 VKAYDNHGVVINL-LLDSQTPGDS---VTIVTMQATNENLTLVSDFLFQAAVPKTFQLQM 478
V YD HG I PG S V +V+M +T + + +FQ+AVPK ++++
Sbjct: 30 VTVYDQHGFRILFHFARDPLPGRSDVLVVVVSMLSTAPQP--IRNIVFQSAVPKVMKVKL 87
Query: 479 LPPSDTNIPP------GSQVTQTLRVAKANNNVQASLRMRIKVSYNV 519
PPS +P S +TQ L +A N + +R+R K+++ +
Sbjct: 88 QPPSGMELPAFNPIVHPSAITQVLLLA---NPQKEKVRLRYKLTFTM 131
>pdb|3MNM|A Chain A, Crystal Structure Of Gae Domain Of Gga2p From
Saccharomyces Cerevisiae
pdb|3MNM|B Chain B, Crystal Structure Of Gae Domain Of Gga2p From
Saccharomyces Cerevisiae
pdb|3MNM|C Chain C, Crystal Structure Of Gae Domain Of Gga2p From
Saccharomyces Cerevisiae
Length = 123
Score = 30.4 bits (67), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 24/78 (30%), Positives = 42/78 (53%), Gaps = 4/78 (5%)
Query: 454 TNENLTLVSDFLFQAAVPKTFQLQMLPPSDTNIPPGSQ---VTQTLRVAKANNNVQASLR 510
TN + + +S+ +F AVPK+ L L P +N G+ ++Q + A N +L
Sbjct: 40 TNLSSSPISNLVFLLAVPKSMSL-XLQPQSSNFMIGNAKDGISQEGTIENAPANPSKALX 98
Query: 511 MRIKVSYNVNGTFIQDQA 528
++ KV+Y+VN T ++ A
Sbjct: 99 VKWKVNYSVNSTQAEETA 116
>pdb|3BVO|A Chain A, Crystal Structure Of Human Co-Chaperone Protein Hscb
pdb|3BVO|B Chain B, Crystal Structure Of Human Co-Chaperone Protein Hscb
Length = 207
Score = 29.3 bits (64), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 24/78 (30%), Positives = 34/78 (43%), Gaps = 1/78 (1%)
Query: 221 RFLLNNDKNIRYVALNTLLRTVYIDTSAVQRHRNTILECLKDPDVSIRRRALELSFALVN 280
R L D Y +L R+ +DT+ +Q HR L+ L PD +R E F+ +
Sbjct: 34 RALQAPDPTRDYFSLXDCNRSFRVDTAKLQ-HRYQQLQRLVHPDFFSQRSQTEKDFSEKH 92
Query: 281 SANVRSMMKELLIFLEKS 298
S V K LL L +
Sbjct: 93 STLVNDAYKTLLAPLSRG 110
>pdb|2VXX|A Chain A, X-Ray Structure Of Dpsa From Thermosynechococcus Elongatus
pdb|2VXX|B Chain B, X-Ray Structure Of Dpsa From Thermosynechococcus Elongatus
pdb|2VXX|C Chain C, X-Ray Structure Of Dpsa From Thermosynechococcus Elongatus
pdb|2VXX|D Chain D, X-Ray Structure Of Dpsa From Thermosynechococcus Elongatus
Length = 192
Score = 28.5 bits (62), Expect = 9.8, Method: Compositional matrix adjust.
Identities = 22/71 (30%), Positives = 36/71 (50%), Gaps = 9/71 (12%)
Query: 165 NDVEASEAMNDILAQVATNTETSKNVGNTILYETVLSIMDIKSESGLRVLAVNILGRFLL 224
ND++A +A+ +L Q AT E+ + LY+ +L +K+E A +I G FL
Sbjct: 120 NDLQAEQAIIGVLRQQATQAESLGDRATAYLYDQIL----LKTEE----RAYHI-GHFLA 170
Query: 225 NNDKNIRYVAL 235
N+ + V L
Sbjct: 171 NDSLKVLKVKL 181
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
0.320 0.133 0.369
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 13,070,927
Number of Sequences: 62578
Number of extensions: 480535
Number of successful extensions: 1255
Number of sequences better than 100.0: 26
Number of HSP's better than 100.0 without gapping: 17
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 1218
Number of HSP's gapped (non-prelim): 37
length of query: 530
length of database: 14,973,337
effective HSP length: 103
effective length of query: 427
effective length of database: 8,527,803
effective search space: 3641371881
effective search space used: 3641371881
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: 54 (25.4 bits)