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= 033114
(127 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3VH3|B Chain B, Crystal Structure Of Atg7ctd-Atg8 Complex
pdb|3VH4|B Chain B, Crystal Structure Of Atg7ctd-Atg8-Mgatp Complex
Length = 119
Score = 163 bits (413), Expect = 2e-41, Method: Compositional matrix adjust.
Identities = 81/119 (68%), Positives = 91/119 (76%)
Query: 4 GGMAKSYFKQEHDLXXXXXXXXXXXXXYPDRIPVIVEKAERSDIPNIDKKKYLVPADLTV 63
G KS FK E+ +P+RIPVI EKAE+SDIP IDK+KYLVPADLTV
Sbjct: 1 GPHMKSTFKSEYPFEKRKAESERIADRFPNRIPVICEKAEKSDIPEIDKRKYLVPADLTV 60
Query: 64 GQFVYVIRKRIKLSAEKAIFIFVDNVLPPTGAIMSAIYEEKKDEDGFLYVTYSGENTFG 122
GQFVYVIRKRI L EKAIFIFV++ LPPT A+MSAIY+E KD+DGFLYVTYSGENTFG
Sbjct: 61 GQFVYVIRKRIMLPPEKAIFIFVNDTLPPTAALMSAIYQEHKDKDGFLYVTYSGENTFG 119
>pdb|2KWC|A Chain A, The Nmr Structure Of The Autophagy-Related Protein Atg8
Length = 116
Score = 162 bits (411), Expect = 3e-41, Method: Compositional matrix adjust.
Identities = 80/115 (69%), Positives = 90/115 (78%)
Query: 8 KSYFKQEHDLXXXXXXXXXXXXXYPDRIPVIVEKAERSDIPNIDKKKYLVPADLTVGQFV 67
KS FK E+ +P+RIPVI EKAE+SDIP IDK+KYLVPADLTVGQFV
Sbjct: 2 KSTFKSEYPFEKRKAESERIADRFPNRIPVICEKAEKSDIPEIDKRKYLVPADLTVGQFV 61
Query: 68 YVIRKRIKLSAEKAIFIFVDNVLPPTGAIMSAIYEEKKDEDGFLYVTYSGENTFG 122
YVIRKRI L EKAIFIFV++ LPPT A+MSAIY+E KD+DGFLYVTYSGENTFG
Sbjct: 62 YVIRKRIMLPPEKAIFIFVNDTLPPTAALMSAIYQEHKDKDGFLYVTYSGENTFG 116
>pdb|2LI5|A Chain A, Nmr Structure Of Atg8-Atg7c30 Complex
Length = 117
Score = 162 bits (411), Expect = 3e-41, Method: Compositional matrix adjust.
Identities = 80/115 (69%), Positives = 90/115 (78%)
Query: 8 KSYFKQEHDLXXXXXXXXXXXXXYPDRIPVIVEKAERSDIPNIDKKKYLVPADLTVGQFV 67
KS FK E+ +P+RIPVI EKAE+SDIP IDK+KYLVPADLTVGQFV
Sbjct: 3 KSTFKSEYPFEKRKAESERIADRFPNRIPVICEKAEKSDIPEIDKRKYLVPADLTVGQFV 62
Query: 68 YVIRKRIKLSAEKAIFIFVDNVLPPTGAIMSAIYEEKKDEDGFLYVTYSGENTFG 122
YVIRKRI L EKAIFIFV++ LPPT A+MSAIY+E KD+DGFLYVTYSGENTFG
Sbjct: 63 YVIRKRIMLPPEKAIFIFVNDTLPPTAALMSAIYQEHKDKDGFLYVTYSGENTFG 117
>pdb|2ZPN|A Chain A, The Crystal Structure Of Saccharomyces Cerevisiae Atg8-
Atg19(412-415) Complex
pdb|2ZPN|B Chain B, The Crystal Structure Of Saccharomyces Cerevisiae Atg8-
Atg19(412-415) Complex
pdb|2ZPN|C Chain C, The Crystal Structure Of Saccharomyces Cerevisiae Atg8-
Atg19(412-415) Complex
pdb|2ZPN|D Chain D, The Crystal Structure Of Saccharomyces Cerevisiae Atg8-
Atg19(412-415) Complex
pdb|3VXW|A Chain A, Crystal Structure Of Saccharomyces Cerevisiae Atg8
Complexed With Atg32 Aim
Length = 119
Score = 161 bits (408), Expect = 8e-41, Method: Compositional matrix adjust.
Identities = 80/119 (67%), Positives = 90/119 (75%)
Query: 4 GGMAKSYFKQEHDLXXXXXXXXXXXXXYPDRIPVIVEKAERSDIPNIDKKKYLVPADLTV 63
G KS FK E+ + +RIPVI EKAE+SDIP IDK+KYLVPADLTV
Sbjct: 1 GAHMKSTFKSEYPFEKRKAESERIADRFKNRIPVICEKAEKSDIPEIDKRKYLVPADLTV 60
Query: 64 GQFVYVIRKRIKLSAEKAIFIFVDNVLPPTGAIMSAIYEEKKDEDGFLYVTYSGENTFG 122
GQFVYVIRKRI L EKAIFIFV++ LPPT A+MSAIY+E KD+DGFLYVTYSGENTFG
Sbjct: 61 GQFVYVIRKRIMLPPEKAIFIFVNDTLPPTAALMSAIYQEHKDKDGFLYVTYSGENTFG 119
>pdb|2KQ7|A Chain A, Solution Structure Of The Autophagy-Related Protein Atg8
Length = 119
Score = 161 bits (407), Expect = 9e-41, Method: Compositional matrix adjust.
Identities = 80/118 (67%), Positives = 90/118 (76%)
Query: 5 GMAKSYFKQEHDLXXXXXXXXXXXXXYPDRIPVIVEKAERSDIPNIDKKKYLVPADLTVG 64
G KS FK E+ + +RIPVI EKAE+SDIP IDK+KYLVPADLTVG
Sbjct: 1 GSMKSTFKSEYPFEKRKAESERIADRFKNRIPVICEKAEKSDIPEIDKRKYLVPADLTVG 60
Query: 65 QFVYVIRKRIKLSAEKAIFIFVDNVLPPTGAIMSAIYEEKKDEDGFLYVTYSGENTFG 122
QFVYVIRKRI L EKAIFIFV++ LPPT A+MSAIY+E KD+DGFLYVTYSGENTFG
Sbjct: 61 QFVYVIRKRIMLPPEKAIFIFVNDTLPPTAALMSAIYQEHKDKDGFLYVTYSGENTFG 118
>pdb|3RUI|B Chain B, Crystal Structure Of Atg7c-Atg8 Complex
Length = 118
Score = 161 bits (407), Expect = 1e-40, Method: Compositional matrix adjust.
Identities = 80/118 (67%), Positives = 90/118 (76%)
Query: 5 GMAKSYFKQEHDLXXXXXXXXXXXXXYPDRIPVIVEKAERSDIPNIDKKKYLVPADLTVG 64
G KS FK E+ + +RIPVI EKAE+SDIP IDK+KYLVPADLTVG
Sbjct: 1 GSMKSTFKSEYPFEKRKAESERIADRFKNRIPVICEKAEKSDIPEIDKRKYLVPADLTVG 60
Query: 65 QFVYVIRKRIKLSAEKAIFIFVDNVLPPTGAIMSAIYEEKKDEDGFLYVTYSGENTFG 122
QFVYVIRKRI L EKAIFIFV++ LPPT A+MSAIY+E KD+DGFLYVTYSGENTFG
Sbjct: 61 QFVYVIRKRIMLPPEKAIFIFVNDTLPPTAALMSAIYQEHKDKDGFLYVTYSGENTFG 118
>pdb|1EO6|A Chain A, Crystal Structure Of Gate-16
pdb|1EO6|B Chain B, Crystal Structure Of Gate-16
Length = 117
Score = 140 bits (352), Expect = 2e-34, Method: Compositional matrix adjust.
Identities = 65/115 (56%), Positives = 83/115 (72%)
Query: 8 KSYFKQEHDLXXXXXXXXXXXXXYPDRIPVIVEKAERSDIPNIDKKKYLVPADLTVGQFV 67
K FK++H L YPDR+PVIVEK S I +IDK+KYLVP+D+TV QF+
Sbjct: 2 KWMFKEDHSLEHRCVESAKIRAKYPDRVPVIVEKVSGSQIVDIDKRKYLVPSDITVAQFM 61
Query: 68 YVIRKRIKLSAEKAIFIFVDNVLPPTGAIMSAIYEEKKDEDGFLYVTYSGENTFG 122
++IRKRI+L +EKAIF+FVD +P + M +YE++KDEDGFLYV YSGENTFG
Sbjct: 62 WIIRKRIQLPSEKAIFLFVDKTVPQSSLTMGQLYEKEKDEDGFLYVAYSGENTFG 116
>pdb|3M95|A Chain A, Crystal Structure Of Autophagy-Related Protein Atg8 From
The Silkworm Bombyx Mori
pdb|3M95|B Chain B, Crystal Structure Of Autophagy-Related Protein Atg8 From
The Silkworm Bombyx Mori
Length = 125
Score = 130 bits (326), Expect = 3e-31, Method: Compositional matrix adjust.
Identities = 62/119 (52%), Positives = 83/119 (69%), Gaps = 1/119 (0%)
Query: 5 GMAKSYFKQEHDLXXXXXXXXXXXXXYPDRIPVIVEKAERSDIPNIDKKKYLVPADLTVG 64
GM K +K+EH YPDR+PVIVEKA ++ + ++DKKKYLVP+DLTVG
Sbjct: 8 GM-KFQYKEEHSFEKRKAEGEKIRRKYPDRVPVIVEKAPKARLGDLDKKKYLVPSDLTVG 66
Query: 65 QFVYVIRKRIKLSAEKAIFIFVDNVLPPTGAIMSAIYEEKKDEDGFLYVTYSGENTFGS 123
QF ++IRKRI L E A+F FV+NV+PPT A M ++Y+E DED FLY+ +S EN +G+
Sbjct: 67 QFYFLIRKRIHLRPEDALFFFVNNVIPPTSATMGSLYQEHHDEDFFLYIAFSDENVYGN 125
>pdb|1KOT|A Chain A, Solution Structure Of Human Gaba Receptor Associated
Protein Gabarap
pdb|3D32|A Chain A, Complex Of Gaba(a) Receptor-associated Protein (gabarap)
With A Synthetic Peptide
pdb|3D32|B Chain B, Complex Of Gaba(a) Receptor-associated Protein (gabarap)
With A Synthetic Peptide
pdb|3DOW|A Chain A, Complex Structure Of Gaba Type A Receptor Associated
Protein And Its Binding Epitope On Calreticulin
Length = 119
Score = 130 bits (326), Expect = 3e-31, Method: Compositional matrix adjust.
Identities = 62/118 (52%), Positives = 81/118 (68%)
Query: 5 GMAKSYFKQEHDLXXXXXXXXXXXXXYPDRIPVIVEKAERSDIPNIDKKKYLVPADLTVG 64
G K +K+EH YPDR+PVIVEKA ++ I ++DKKKYLVP+DLTVG
Sbjct: 1 GSMKFVYKEEHPFEKRRSEGEKIRKKYPDRVPVIVEKAPKARIGDLDKKKYLVPSDLTVG 60
Query: 65 QFVYVIRKRIKLSAEKAIFIFVDNVLPPTGAIMSAIYEEKKDEDGFLYVTYSGENTFG 122
QF ++IRKRI L AE A+F FV+NV+PPT A M +Y+E +ED FLY+ YS E+ +G
Sbjct: 61 QFYFLIRKRIHLRAEDALFFFVNNVIPPTSATMGQLYQEHHEEDFFLYIAYSDESVYG 118
>pdb|1KJT|A Chain A, Crystal Structure Of The Gaba(A) Receptor Associated
Protein, Gabarap
Length = 119
Score = 128 bits (322), Expect = 6e-31, Method: Compositional matrix adjust.
Identities = 60/112 (53%), Positives = 79/112 (70%)
Query: 11 FKQEHDLXXXXXXXXXXXXXYPDRIPVIVEKAERSDIPNIDKKKYLVPADLTVGQFVYVI 70
+K+EH YPDR+PVIVEKA ++ I ++DKKKYLVP+DLTVGQF ++I
Sbjct: 7 YKEEHPFEKRRSEGEKIRKKYPDRVPVIVEKAPKARIGDLDKKKYLVPSDLTVGQFYFLI 66
Query: 71 RKRIKLSAEKAIFIFVDNVLPPTGAIMSAIYEEKKDEDGFLYVTYSGENTFG 122
RKRI L AE A+F FV+NV+PPT A M +Y+E +ED FLY+ YS E+ +G
Sbjct: 67 RKRIHLRAEDALFFFVNNVIPPTSATMGQLYQEHHEEDFFLYIAYSDESVYG 118
>pdb|1GNU|A Chain A, Gaba(a) Receptor Associated Protein Gabarap
pdb|1KLV|A Chain A, Solution Structure And Backbone Dynamics Of Gabarap, Gabaa
Receptor Associated Protein
pdb|1KM7|A Chain A, Solution Structure And Backbone Dynamics Of Gabarap, Gabaa
Receptor Associated Protein
Length = 117
Score = 128 bits (322), Expect = 8e-31, Method: Compositional matrix adjust.
Identities = 60/112 (53%), Positives = 79/112 (70%)
Query: 11 FKQEHDLXXXXXXXXXXXXXYPDRIPVIVEKAERSDIPNIDKKKYLVPADLTVGQFVYVI 70
+K+EH YPDR+PVIVEKA ++ I ++DKKKYLVP+DLTVGQF ++I
Sbjct: 5 YKEEHPFEKRRSEGEKIRKKYPDRVPVIVEKAPKARIGDLDKKKYLVPSDLTVGQFYFLI 64
Query: 71 RKRIKLSAEKAIFIFVDNVLPPTGAIMSAIYEEKKDEDGFLYVTYSGENTFG 122
RKRI L AE A+F FV+NV+PPT A M +Y+E +ED FLY+ YS E+ +G
Sbjct: 65 RKRIHLRAEDALFFFVNNVIPPTSATMGQLYQEHHEEDFFLYIAYSDESVYG 116
>pdb|2L8J|A Chain A, Gabarapl-1 Nbr1-Lir Complex Structure
Length = 119
Score = 122 bits (305), Expect = 7e-29, Method: Compositional matrix adjust.
Identities = 56/109 (51%), Positives = 76/109 (69%)
Query: 11 FKQEHDLXXXXXXXXXXXXXYPDRIPVIVEKAERSDIPNIDKKKYLVPADLTVGQFVYVI 70
+K++H YPDR+PVIVEKA ++ +P++DK+KYLVP+DLTVGQF ++I
Sbjct: 9 YKEDHPFEYRKKEGEKIRKKYPDRVPVIVEKAPKARVPDLDKRKYLVPSDLTVGQFYFLI 68
Query: 71 RKRIKLSAEKAIFIFVDNVLPPTGAIMSAIYEEKKDEDGFLYVTYSGEN 119
RKRI L E A+F FV+N +PPT A M +YE+ +ED FLYV YS E+
Sbjct: 69 RKRIHLRPEDALFFFVNNTIPPTSATMGQLYEDNHEEDYFLYVAYSDES 117
>pdb|3H9D|A Chain A, Crystal Structure Of Trypanosoma Brucei Atg8
pdb|3H9D|B Chain B, Crystal Structure Of Trypanosoma Brucei Atg8
Length = 119
Score = 120 bits (301), Expect = 2e-28, Method: Compositional matrix adjust.
Identities = 55/114 (48%), Positives = 76/114 (66%)
Query: 9 SYFKQEHDLXXXXXXXXXXXXXYPDRIPVIVEKAERSDIPNIDKKKYLVPADLTVGQFVY 68
S +K H +PDR+P+I EK SDI +D+ K+LVP+DLTVGQFV
Sbjct: 6 SKYKMSHTFESRQSDAAKVRERHPDRLPIICEKVYNSDIGELDRCKFLVPSDLTVGQFVS 65
Query: 69 VIRKRIKLSAEKAIFIFVDNVLPPTGAIMSAIYEEKKDEDGFLYVTYSGENTFG 122
V+RKR++L AE A+F++ ++ + P+ A M+ IY + KDEDGFLY+ YSGE TFG
Sbjct: 66 VLRKRVQLEAESALFVYTNDTVLPSSAQMADIYSKYKDEDGFLYMKYSGEATFG 119
>pdb|2R2Q|A Chain A, Crystal Structure Of Human Gamma-Aminobutyric Acid
Receptor- Associated Protein-Like 1 (Gabarap1), Isoform
Cra_a
pdb|2R2Q|B Chain B, Crystal Structure Of Human Gamma-Aminobutyric Acid
Receptor- Associated Protein-Like 1 (Gabarap1), Isoform
Cra_a
Length = 110
Score = 120 bits (300), Expect = 2e-28, Method: Compositional matrix adjust.
Identities = 55/106 (51%), Positives = 74/106 (69%)
Query: 11 FKQEHDLXXXXXXXXXXXXXYPDRIPVIVEKAERSDIPNIDKKKYLVPADLTVGQFVYVI 70
+K++H YPDR+PVIVEKA ++ +P++DK+KYLVP+DLTVGQF ++I
Sbjct: 4 YKEDHPFEYRKKEGEKIRKKYPDRVPVIVEKAPKARVPDLDKRKYLVPSDLTVGQFYFLI 63
Query: 71 RKRIKLSAEKAIFIFVDNVLPPTGAIMSAIYEEKKDEDGFLYVTYS 116
RKRI L E A+F FV+N +PPT A M +YE+ +ED FLYV YS
Sbjct: 64 RKRIHLRPEDALFFFVNNTIPPTSATMGQLYEDNHEEDYFLYVAYS 109
>pdb|4EOY|A Chain A, Plasmodium Falciparum Atg8 In Complex With Plasmodium
Falciparum Atg3 Peptide
pdb|4EOY|B Chain B, Plasmodium Falciparum Atg8 In Complex With Plasmodium
Falciparum Atg3 Peptide
pdb|4EOY|C Chain C, Plasmodium Falciparum Atg8 In Complex With Plasmodium
Falciparum Atg3 Peptide
Length = 128
Score = 106 bits (264), Expect = 4e-24, Method: Compositional matrix adjust.
Identities = 50/128 (39%), Positives = 77/128 (60%), Gaps = 9/128 (7%)
Query: 4 GGMAKSYFKQEHDLXXXXXXXXXXXXXYPDRIPVIVEKAERSDIPNIDKKKYLVPADLTV 63
G M K E YP+RIPV++E+A RS++P I+KKK+LVP ++ V
Sbjct: 1 GAMGMPSLKDEVSFENRVAETHKIRSKYPNRIPVVIERANRSNLPIIEKKKFLVPMNMLV 60
Query: 64 GQFVYVIRKRIKLSA---------EKAIFIFVDNVLPPTGAIMSAIYEEKKDEDGFLYVT 114
G+F +++ + I SA E+ I++FV+N++P TG +M +YE KDEDG+LY+
Sbjct: 61 GEFKFILHQHINQSAYGSNMKLFRERTIYLFVNNIVPKTGLLMQDLYEMYKDEDGYLYME 120
Query: 115 YSGENTFG 122
YS E++ G
Sbjct: 121 YSSESSLG 128
>pdb|3VVW|B Chain B, Ndp52 In Complex With Lc3c
Length = 128
Score = 92.4 bits (228), Expect = 6e-20, Method: Compositional matrix adjust.
Identities = 47/114 (41%), Positives = 70/114 (61%), Gaps = 2/114 (1%)
Query: 11 FKQEHDLXXXXXXXXXXXXXYPDRIPVIVEKAERSD-IPNIDKKKYLVPADLTVGQFVYV 69
FKQ L +P++IPV+VE+ R +P +DK K+LVP +LT+ QF+ +
Sbjct: 15 FKQRKSLAIRQEEVAGIRAKFPNKIPVVVERYPRETFLPPLDKTKFLVPQELTMTQFLSI 74
Query: 70 IRKRIKLSAEKAIFIFVDN-VLPPTGAIMSAIYEEKKDEDGFLYVTYSGENTFG 122
IR R+ L A +A ++ V+N L A M+ IY + KDEDGF+Y+TY+ + TFG
Sbjct: 75 IRSRMVLRATEAFYLLVNNKSLVSMSATMAEIYRDYKDEDGFVYMTYASQETFG 128
>pdb|2ZJD|A Chain A, Crystal Structure Of Lc3-P62 Complex
pdb|2ZJD|C Chain C, Crystal Structure Of Lc3-P62 Complex
Length = 130
Score = 82.4 bits (202), Expect = 5e-17, Method: Compositional matrix adjust.
Identities = 42/127 (33%), Positives = 73/127 (57%), Gaps = 3/127 (2%)
Query: 4 GGM-AKSYFKQEHDLXXXXXXXXXXXXXYPDRIPVIVEKAE-RSDIPNIDKKKYLVPADL 61
G M ++ FKQ +P +IPVI+E+ + +P +DK K+LVP +
Sbjct: 4 GSMPSEKTFKQRRTFEQRVEDVRLIREQHPTKIPVIIERYKGEKQLPVLDKTKFLVPDHV 63
Query: 62 TVGQFVYVIRKRIKLSAEKAIFIFVD-NVLPPTGAIMSAIYEEKKDEDGFLYVTYSGENT 120
+ + + +IR+R++L+A +A F+ V+ + + +S +YE +KDEDGFLY+ Y+ + T
Sbjct: 64 NMSELIKIIRRRLQLNANQAFFLLVNGHSMVSVSTPISEVYESEKDEDGFLYMVYASQET 123
Query: 121 FGSHIPV 127
FG + V
Sbjct: 124 FGMKLSV 130
>pdb|2Z0E|B Chain B, The Crystal Structure Of Human Atg4b- Lc3(1-124) Complex
pdb|2ZZP|B Chain B, The Crystal Structure Of Human Atg4b(C74s)- Lc3(1-124)
Complex
Length = 129
Score = 81.6 bits (200), Expect = 9e-17, Method: Compositional matrix adjust.
Identities = 40/125 (32%), Positives = 73/125 (58%), Gaps = 3/125 (2%)
Query: 4 GGM-AKSYFKQEHDLXXXXXXXXXXXXXYPDRIPVIVEKAE-RSDIPNIDKKKYLVPADL 61
G M ++ FKQ +P +IPVI+E+ + +P +DK K+LVP +
Sbjct: 4 GSMPSEKTFKQRRSFEQRVEDVRLIREQHPTKIPVIIERYKGEKQLPVLDKTKFLVPDHV 63
Query: 62 TVGQFVYVIRKRIKLSAEKAIFIFVD-NVLPPTGAIMSAIYEEKKDEDGFLYVTYSGENT 120
+ + + +IR+R++L+A +A F+ V+ + + +S +YE ++DEDGFLY+ Y+ + T
Sbjct: 64 NMSELIKIIRRRLQLNANQAFFLLVNGHSMVSVSTPISEVYESERDEDGFLYMVYASQET 123
Query: 121 FGSHI 125
FG+ +
Sbjct: 124 FGTAL 128
>pdb|1V49|A Chain A, Solution Structure Of Microtubule-Associated Protein Light
Chain-3
Length = 120
Score = 81.3 bits (199), Expect = 1e-16, Method: Compositional matrix adjust.
Identities = 39/118 (33%), Positives = 69/118 (58%), Gaps = 2/118 (1%)
Query: 7 AKSYFKQEHDLXXXXXXXXXXXXXYPDRIPVIVEKAE-RSDIPNIDKKKYLVPADLTVGQ 65
++ FKQ +P +IPVI+E+ + +P +DK K+LVP + + +
Sbjct: 3 SEKTFKQRRTFEQRVEDVRLIREQHPTKIPVIIERYKGEKQLPVLDKTKFLVPDHVNMSE 62
Query: 66 FVYVIRKRIKLSAEKAIFIFVD-NVLPPTGAIMSAIYEEKKDEDGFLYVTYSGENTFG 122
+ +IR+R++L+A +A F+ V+ + + +S +YE +KDEDGFLY+ Y+ + TFG
Sbjct: 63 LIKIIRRRLQLNANQAFFLLVNGHSMVSVSTPISEVYESEKDEDGFLYMVYASQETFG 120
>pdb|1UGM|A Chain A, Crystal Structure Of Lc3
pdb|2Z0D|B Chain B, The Crystal Structure Of Human Atg4b- Lc3(1-120) Complex
Length = 125
Score = 80.9 bits (198), Expect = 2e-16, Method: Compositional matrix adjust.
Identities = 40/122 (32%), Positives = 71/122 (58%), Gaps = 3/122 (2%)
Query: 4 GGM-AKSYFKQEHDLXXXXXXXXXXXXXYPDRIPVIVEKAE-RSDIPNIDKKKYLVPADL 61
G M ++ FKQ +P +IPVI+E+ + +P +DK K+LVP +
Sbjct: 4 GSMPSEKTFKQRRSFEQRVEDVRLIREQHPTKIPVIIERYKGEKQLPVLDKTKFLVPDHV 63
Query: 62 TVGQFVYVIRKRIKLSAEKAIFIFVD-NVLPPTGAIMSAIYEEKKDEDGFLYVTYSGENT 120
+ + + +IR+R++L+A +A F+ V+ + + +S +YE ++DEDGFLY+ Y+ + T
Sbjct: 64 NMSELIKIIRRRLQLNANQAFFLLVNGHSMVSVSTPISEVYESERDEDGFLYMVYASQET 123
Query: 121 FG 122
FG
Sbjct: 124 FG 125
>pdb|2K6Q|A Chain A, Lc3 P62 Complex Structure
Length = 121
Score = 80.9 bits (198), Expect = 2e-16, Method: Compositional matrix adjust.
Identities = 38/118 (32%), Positives = 69/118 (58%), Gaps = 2/118 (1%)
Query: 7 AKSYFKQEHDLXXXXXXXXXXXXXYPDRIPVIVEKAE-RSDIPNIDKKKYLVPADLTVGQ 65
++ FKQ +P +IPVI+E+ + +P +DK K+LVP + + +
Sbjct: 4 SEKTFKQRRSFEQRVEDVRLIREQHPTKIPVIIERYKGEKQLPVLDKTKFLVPDHVNMSE 63
Query: 66 FVYVIRKRIKLSAEKAIFIFVD-NVLPPTGAIMSAIYEEKKDEDGFLYVTYSGENTFG 122
+ +IR+R++L+A +A F+ V+ + + +S +YE ++DEDGFLY+ Y+ + TFG
Sbjct: 64 LIKIIRRRLQLNANQAFFLLVNGHSMVSVSTPISEVYESERDEDGFLYMVYASQETFG 121
>pdb|3ECI|A Chain A, Microtubule-Associated Protein 1 Light Chain 3 Alpha
Isoform A (Map1alc3)
pdb|3ECI|B Chain B, Microtubule-Associated Protein 1 Light Chain 3 Alpha
Isoform A (Map1alc3)
Length = 122
Score = 79.7 bits (195), Expect = 4e-16, Method: Compositional matrix adjust.
Identities = 39/114 (34%), Positives = 67/114 (58%), Gaps = 2/114 (1%)
Query: 11 FKQEHDLXXXXXXXXXXXXXYPDRIPVIVEKAE-RSDIPNIDKKKYLVPADLTVGQFVYV 69
FKQ +P +IPVI+E+ + +P +DK K+LVP + + + V +
Sbjct: 8 FKQRRSFADRCKEVQQIRDQHPSKIPVIIERYKGEKQLPVLDKTKFLVPDHVNMSELVKI 67
Query: 70 IRKRIKLSAEKAIFIFVD-NVLPPTGAIMSAIYEEKKDEDGFLYVTYSGENTFG 122
IR+R++L+ +A F+ V+ + + ++ IYE++KDEDGFLY+ Y+ + TFG
Sbjct: 68 IRRRLQLNPTQAFFLLVNQHSMVSVSTPIADIYEQEKDEDGFLYMVYASQETFG 121
>pdb|4GDK|A Chain A, Crystal Structure Of Human Atg12~atg5 Conjugate In Complex
With An N- Terminal Fragment Of Atg16l1
pdb|4GDK|D Chain D, Crystal Structure Of Human Atg12~atg5 Conjugate In Complex
With An N- Terminal Fragment Of Atg16l1
pdb|4GDL|A Chain A, Crystal Structure Of Human Atg12~atg5 Conjugate In Complex
With An N- Terminal Fragment Of Atg16l1
Length = 91
Score = 33.9 bits (76), Expect = 0.023, Method: Compositional matrix adjust.
Identities = 21/77 (27%), Positives = 34/77 (44%)
Query: 46 DIPNIDKKKYLVPADLTVGQFVYVIRKRIKLSAEKAIFIFVDNVLPPTGAIMSAIYEEKK 105
D P + KK+ V T+ + I+K +KL A + +FI+V+ P+ E
Sbjct: 15 DTPIMKTKKWAVERTRTIQGLIDFIKKFLKLVASEQLFIYVNQSFAPSPDQEVGTLYECF 74
Query: 106 DEDGFLYVTYSGENTFG 122
DG L + Y +G
Sbjct: 75 GSDGKLVLHYCKSQAWG 91
>pdb|1F3J|A Chain A, Histocompatibility Antigen I-Ag7
pdb|1F3J|D Chain D, Histocompatibility Antigen I-Ag7
Length = 182
Score = 28.1 bits (61), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 13/51 (25%), Positives = 22/51 (43%)
Query: 42 AERSDIPNIDKKKYLVPADLTVGQFVYVIRKRIKLSAEKAIFIFVDNVLPP 92
AE+ ++ + K+ PA Q + + L + FVDN+ PP
Sbjct: 66 AEKHNLGILTKRSNFTPATNEAPQATVFPKSPVLLGQPNTLICFVDNIFPP 116
>pdb|1IAO|A Chain A, Class Ii Mhc I-Ad In Complex With Ovalbumin Peptide
323-339
pdb|2IAD|A Chain A, Class Ii Mhc I-ad In Complex With An Influenza
Hemagglutinin Peptide 126-138
Length = 194
Score = 28.1 bits (61), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 13/51 (25%), Positives = 22/51 (43%)
Query: 42 AERSDIPNIDKKKYLVPADLTVGQFVYVIRKRIKLSAEKAIFIFVDNVLPP 92
AE+ ++ + K+ PA Q + + L + FVDN+ PP
Sbjct: 69 AEKHNLGILTKRSNFTPATNEAPQATVFPKSPVLLGQPNTLICFVDNIFPP 119
>pdb|1ES0|A Chain A, Crystal Structure Of The Murine Class Ii Allele I-A(G7)
Complexed With The Glutamic Acid Decarboxylase (Gad65)
Peptide 207-220
pdb|3CUP|A Chain A, Crystal Structure Of The Mhc Class Ii Molecule I-Ag7 In
Complex With The Peptide Gad221-235
pdb|3MBE|A Chain A, Tcr 21.30 In Complex With Mhc Class Ii I-Ag7hel(11-27)
pdb|3MBE|E Chain E, Tcr 21.30 In Complex With Mhc Class Ii I-Ag7hel(11-27)
Length = 190
Score = 27.7 bits (60), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 13/51 (25%), Positives = 22/51 (43%)
Query: 42 AERSDIPNIDKKKYLVPADLTVGQFVYVIRKRIKLSAEKAIFIFVDNVLPP 92
AE+ ++ + K+ PA Q + + L + FVDN+ PP
Sbjct: 69 AEKHNLGILTKRSNFTPATNEAPQATVFPKSPVLLGQPNTLICFVDNIFPP 119
>pdb|4I0P|C Chain C, Hla-do In Complex With Hla-dm
pdb|4I0P|G Chain G, Hla-do In Complex With Hla-dm
Length = 181
Score = 26.9 bits (58), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 13/56 (23%), Positives = 26/56 (46%), Gaps = 12/56 (21%)
Query: 37 VIVEKAERSDIPNIDKKKYLVPADLTVGQFVYVIRKRIKLSAEKAIFIFVDNVLPP 92
++VE++ RS N+ + ++P + R++L + VDN+ PP
Sbjct: 72 ILVERSNRSRAINVPPRVTVLP------------KSRVELGQPNILICIVDNIFPP 115
>pdb|2DL7|A Chain A, Solution Structure Of The Second Sh3 Domain Of Human
Kiaa0769 Protein
Length = 73
Score = 25.8 bits (55), Expect = 6.7, Method: Compositional matrix adjust.
Identities = 11/31 (35%), Positives = 19/31 (61%)
Query: 87 DNVLPPTGAIMSAIYEEKKDEDGFLYVTYSG 117
D + P GAI+ + +E +D+DGF ++G
Sbjct: 23 DELSFPEGAIIRILNKENQDDDGFWEGEFNG 53
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
0.319 0.138 0.395
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,442,826
Number of Sequences: 62578
Number of extensions: 119235
Number of successful extensions: 265
Number of sequences better than 100.0: 31
Number of HSP's better than 100.0 without gapping: 29
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 221
Number of HSP's gapped (non-prelim): 31
length of query: 127
length of database: 14,973,337
effective HSP length: 87
effective length of query: 40
effective length of database: 9,529,051
effective search space: 381162040
effective search space used: 381162040
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 45 (21.9 bits)