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= 033317
(122 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2LI5|A Chain A, Nmr Structure Of Atg8-Atg7c30 Complex
Length = 117
Score = 162 bits (410), Expect = 5e-41, Method: Compositional matrix adjust.
Identities = 80/115 (69%), Positives = 90/115 (78%)
Query: 3 KSYFKQEHDLXXXXXXXXXXXXXYPDRIPVIVEKAERSDIPNIDKKKYLVPADLTVGQFV 62
KS FK E+ +P+RIPVI EKAE+SDIP IDK+KYLVPADLTVGQFV
Sbjct: 3 KSTFKSEYPFEKRKAESERIADRFPNRIPVICEKAEKSDIPEIDKRKYLVPADLTVGQFV 62
Query: 63 YVIRKRIKLSAEKAIFIFVDNVLPPTGAIMSAIYEEKKDEDGFLYVTYSGENTFG 117
YVIRKRI L EKAIFIFV++ LPPT A+MSAIY+E KD+DGFLYVTYSGENTFG
Sbjct: 63 YVIRKRIMLPPEKAIFIFVNDTLPPTAALMSAIYQEHKDKDGFLYVTYSGENTFG 117
>pdb|2KWC|A Chain A, The Nmr Structure Of The Autophagy-Related Protein Atg8
Length = 116
Score = 162 bits (410), Expect = 5e-41, Method: Compositional matrix adjust.
Identities = 80/115 (69%), Positives = 90/115 (78%)
Query: 3 KSYFKQEHDLXXXXXXXXXXXXXYPDRIPVIVEKAERSDIPNIDKKKYLVPADLTVGQFV 62
KS FK E+ +P+RIPVI EKAE+SDIP IDK+KYLVPADLTVGQFV
Sbjct: 2 KSTFKSEYPFEKRKAESERIADRFPNRIPVICEKAEKSDIPEIDKRKYLVPADLTVGQFV 61
Query: 63 YVIRKRIKLSAEKAIFIFVDNVLPPTGAIMSAIYEEKKDEDGFLYVTYSGENTFG 117
YVIRKRI L EKAIFIFV++ LPPT A+MSAIY+E KD+DGFLYVTYSGENTFG
Sbjct: 62 YVIRKRIMLPPEKAIFIFVNDTLPPTAALMSAIYQEHKDKDGFLYVTYSGENTFG 116
>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 = 162 bits (409), Expect = 5e-41, Method: Compositional matrix adjust.
Identities = 80/115 (69%), Positives = 90/115 (78%)
Query: 3 KSYFKQEHDLXXXXXXXXXXXXXYPDRIPVIVEKAERSDIPNIDKKKYLVPADLTVGQFV 62
KS FK E+ +P+RIPVI EKAE+SDIP IDK+KYLVPADLTVGQFV
Sbjct: 5 KSTFKSEYPFEKRKAESERIADRFPNRIPVICEKAEKSDIPEIDKRKYLVPADLTVGQFV 64
Query: 63 YVIRKRIKLSAEKAIFIFVDNVLPPTGAIMSAIYEEKKDEDGFLYVTYSGENTFG 117
YVIRKRI L EKAIFIFV++ LPPT A+MSAIY+E KD+DGFLYVTYSGENTFG
Sbjct: 65 YVIRKRIMLPPEKAIFIFVNDTLPPTAALMSAIYQEHKDKDGFLYVTYSGENTFG 119
>pdb|2KQ7|A Chain A, Solution Structure Of The Autophagy-Related Protein Atg8
Length = 119
Score = 159 bits (402), Expect = 4e-40, Method: Compositional matrix adjust.
Identities = 79/115 (68%), Positives = 89/115 (77%)
Query: 3 KSYFKQEHDLXXXXXXXXXXXXXYPDRIPVIVEKAERSDIPNIDKKKYLVPADLTVGQFV 62
KS FK E+ + +RIPVI EKAE+SDIP IDK+KYLVPADLTVGQFV
Sbjct: 4 KSTFKSEYPFEKRKAESERIADRFKNRIPVICEKAEKSDIPEIDKRKYLVPADLTVGQFV 63
Query: 63 YVIRKRIKLSAEKAIFIFVDNVLPPTGAIMSAIYEEKKDEDGFLYVTYSGENTFG 117
YVIRKRI L EKAIFIFV++ LPPT A+MSAIY+E KD+DGFLYVTYSGENTFG
Sbjct: 64 YVIRKRIMLPPEKAIFIFVNDTLPPTAALMSAIYQEHKDKDGFLYVTYSGENTFG 118
>pdb|3RUI|B Chain B, Crystal Structure Of Atg7c-Atg8 Complex
Length = 118
Score = 159 bits (401), Expect = 4e-40, Method: Compositional matrix adjust.
Identities = 79/115 (68%), Positives = 89/115 (77%)
Query: 3 KSYFKQEHDLXXXXXXXXXXXXXYPDRIPVIVEKAERSDIPNIDKKKYLVPADLTVGQFV 62
KS FK E+ + +RIPVI EKAE+SDIP IDK+KYLVPADLTVGQFV
Sbjct: 4 KSTFKSEYPFEKRKAESERIADRFKNRIPVICEKAEKSDIPEIDKRKYLVPADLTVGQFV 63
Query: 63 YVIRKRIKLSAEKAIFIFVDNVLPPTGAIMSAIYEEKKDEDGFLYVTYSGENTFG 117
YVIRKRI L EKAIFIFV++ LPPT A+MSAIY+E KD+DGFLYVTYSGENTFG
Sbjct: 64 YVIRKRIMLPPEKAIFIFVNDTLPPTAALMSAIYQEHKDKDGFLYVTYSGENTFG 118
>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 = 159 bits (401), Expect = 4e-40, Method: Compositional matrix adjust.
Identities = 79/115 (68%), Positives = 89/115 (77%)
Query: 3 KSYFKQEHDLXXXXXXXXXXXXXYPDRIPVIVEKAERSDIPNIDKKKYLVPADLTVGQFV 62
KS FK E+ + +RIPVI EKAE+SDIP IDK+KYLVPADLTVGQFV
Sbjct: 5 KSTFKSEYPFEKRKAESERIADRFKNRIPVICEKAEKSDIPEIDKRKYLVPADLTVGQFV 64
Query: 63 YVIRKRIKLSAEKAIFIFVDNVLPPTGAIMSAIYEEKKDEDGFLYVTYSGENTFG 117
YVIRKRI L EKAIFIFV++ LPPT A+MSAIY+E KD+DGFLYVTYSGENTFG
Sbjct: 65 YVIRKRIMLPPEKAIFIFVNDTLPPTAALMSAIYQEHKDKDGFLYVTYSGENTFG 119
>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: 3 KSYFKQEHDLXXXXXXXXXXXXXYPDRIPVIVEKAERSDIPNIDKKKYLVPADLTVGQFV 62
K FK++H L YPDR+PVIVEK S I +IDK+KYLVP+D+TV QF+
Sbjct: 2 KWMFKEDHSLEHRCVESAKIRAKYPDRVPVIVEKVSGSQIVDIDKRKYLVPSDITVAQFM 61
Query: 63 YVIRKRIKLSAEKAIFIFVDNVLPPTGAIMSAIYEEKKDEDGFLYVTYSGENTFG 117
++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 = 129 bits (324), Expect = 4e-31, Method: Compositional matrix adjust.
Identities = 60/116 (51%), Positives = 81/116 (69%)
Query: 3 KSYFKQEHDLXXXXXXXXXXXXXYPDRIPVIVEKAERSDIPNIDKKKYLVPADLTVGQFV 62
K +K+EH YPDR+PVIVEKA ++ + ++DKKKYLVP+DLTVGQF
Sbjct: 10 KFQYKEEHSFEKRKAEGEKIRRKYPDRVPVIVEKAPKARLGDLDKKKYLVPSDLTVGQFY 69
Query: 63 YVIRKRIKLSAEKAIFIFVDNVLPPTGAIMSAIYEEKKDEDGFLYVTYSGENTFGS 118
++IRKRI L E A+F FV+NV+PPT A M ++Y+E DED FLY+ +S EN +G+
Sbjct: 70 FLIRKRIHLRPEDALFFFVNNVIPPTSATMGSLYQEHHDEDFFLYIAFSDENVYGN 125
>pdb|1KJT|A Chain A, Crystal Structure Of The Gaba(A) Receptor Associated
Protein, Gabarap
Length = 119
Score = 128 bits (321), Expect = 9e-31, Method: Compositional matrix adjust.
Identities = 60/112 (53%), Positives = 79/112 (70%)
Query: 6 FKQEHDLXXXXXXXXXXXXXYPDRIPVIVEKAERSDIPNIDKKKYLVPADLTVGQFVYVI 65
+K+EH YPDR+PVIVEKA ++ I ++DKKKYLVP+DLTVGQF ++I
Sbjct: 7 YKEEHPFEKRRSEGEKIRKKYPDRVPVIVEKAPKARIGDLDKKKYLVPSDLTVGQFYFLI 66
Query: 66 RKRIKLSAEKAIFIFVDNVLPPTGAIMSAIYEEKKDEDGFLYVTYSGENTFG 117
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 (321), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 60/112 (53%), Positives = 79/112 (70%)
Query: 6 FKQEHDLXXXXXXXXXXXXXYPDRIPVIVEKAERSDIPNIDKKKYLVPADLTVGQFVYVI 65
+K+EH YPDR+PVIVEKA ++ I ++DKKKYLVP+DLTVGQF ++I
Sbjct: 5 YKEEHPFEKRRSEGEKIRKKYPDRVPVIVEKAPKARIGDLDKKKYLVPSDLTVGQFYFLI 64
Query: 66 RKRIKLSAEKAIFIFVDNVLPPTGAIMSAIYEEKKDEDGFLYVTYSGENTFG 117
RKRI L AE A+F FV+NV+PPT A M +Y+E +ED FLY+ YS E+ +G
Sbjct: 65 RKRIHLRAEDALFFFVNNVIPPTSATMGQLYQEHHEEDFFLYIAYSDESVYG 116
>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 = 128 bits (321), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 60/112 (53%), Positives = 79/112 (70%)
Query: 6 FKQEHDLXXXXXXXXXXXXXYPDRIPVIVEKAERSDIPNIDKKKYLVPADLTVGQFVYVI 65
+K+EH YPDR+PVIVEKA ++ I ++DKKKYLVP+DLTVGQF ++I
Sbjct: 7 YKEEHPFEKRRSEGEKIRKKYPDRVPVIVEKAPKARIGDLDKKKYLVPSDLTVGQFYFLI 66
Query: 66 RKRIKLSAEKAIFIFVDNVLPPTGAIMSAIYEEKKDEDGFLYVTYSGENTFG 117
RKRI L AE A+F FV+NV+PPT A M +Y+E +ED FLY+ YS E+ +G
Sbjct: 67 RKRIHLRAEDALFFFVNNVIPPTSATMGQLYQEHHEEDFFLYIAYSDESVYG 118
>pdb|2L8J|A Chain A, Gabarapl-1 Nbr1-Lir Complex Structure
Length = 119
Score = 121 bits (304), Expect = 9e-29, Method: Compositional matrix adjust.
Identities = 56/109 (51%), Positives = 76/109 (69%)
Query: 6 FKQEHDLXXXXXXXXXXXXXYPDRIPVIVEKAERSDIPNIDKKKYLVPADLTVGQFVYVI 65
+K++H YPDR+PVIVEKA ++ +P++DK+KYLVP+DLTVGQF ++I
Sbjct: 9 YKEDHPFEYRKKEGEKIRKKYPDRVPVIVEKAPKARVPDLDKRKYLVPSDLTVGQFYFLI 68
Query: 66 RKRIKLSAEKAIFIFVDNVLPPTGAIMSAIYEEKKDEDGFLYVTYSGEN 114
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: 4 SYFKQEHDLXXXXXXXXXXXXXYPDRIPVIVEKAERSDIPNIDKKKYLVPADLTVGQFVY 63
S +K H +PDR+P+I EK SDI +D+ K+LVP+DLTVGQFV
Sbjct: 6 SKYKMSHTFESRQSDAAKVRERHPDRLPIICEKVYNSDIGELDRCKFLVPSDLTVGQFVS 65
Query: 64 VIRKRIKLSAEKAIFIFVDNVLPPTGAIMSAIYEEKKDEDGFLYVTYSGENTFG 117
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 = 119 bits (299), Expect = 3e-28, Method: Compositional matrix adjust.
Identities = 55/106 (51%), Positives = 74/106 (69%)
Query: 6 FKQEHDLXXXXXXXXXXXXXYPDRIPVIVEKAERSDIPNIDKKKYLVPADLTVGQFVYVI 65
+K++H YPDR+PVIVEKA ++ +P++DK+KYLVP+DLTVGQF ++I
Sbjct: 4 YKEDHPFEYRKKEGEKIRKKYPDRVPVIVEKAPKARVPDLDKRKYLVPSDLTVGQFYFLI 63
Query: 66 RKRIKLSAEKAIFIFVDNVLPPTGAIMSAIYEEKKDEDGFLYVTYS 111
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 = 105 bits (262), Expect = 7e-24, Method: Compositional matrix adjust.
Identities = 46/101 (45%), Positives = 73/101 (72%), Gaps = 9/101 (8%)
Query: 26 YPDRIPVIVEKAERSDIPNIDKKKYLVPADLTVGQFVYVIRKRIKLSA---------EKA 76
YP+RIPV++E+A RS++P I+KKK+LVP ++ VG+F +++ + I SA E+
Sbjct: 28 YPNRIPVVIERANRSNLPIIEKKKFLVPMNMLVGEFKFILHQHINQSAYGSNMKLFRERT 87
Query: 77 IFIFVDNVLPPTGAIMSAIYEEKKDEDGFLYVTYSGENTFG 117
I++FV+N++P TG +M +YE KDEDG+LY+ YS E++ G
Sbjct: 88 IYLFVNNIVPKTGLLMQDLYEMYKDEDGYLYMEYSSESSLG 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: 6 FKQEHDLXXXXXXXXXXXXXYPDRIPVIVEKAERSD-IPNIDKKKYLVPADLTVGQFVYV 64
FKQ L +P++IPV+VE+ R +P +DK K+LVP +LT+ QF+ +
Sbjct: 15 FKQRKSLAIRQEEVAGIRAKFPNKIPVVVERYPRETFLPPLDKTKFLVPQELTMTQFLSI 74
Query: 65 IRKRIKLSAEKAIFIFVDN-VLPPTGAIMSAIYEEKKDEDGFLYVTYSGENTFG 117
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 = 81.6 bits (200), Expect = 9e-17, Method: Compositional matrix adjust.
Identities = 40/123 (32%), Positives = 71/123 (57%), Gaps = 2/123 (1%)
Query: 2 AKSYFKQEHDLXXXXXXXXXXXXXYPDRIPVIVEKAE-RSDIPNIDKKKYLVPADLTVGQ 60
++ FKQ +P +IPVI+E+ + +P +DK K+LVP + + +
Sbjct: 8 SEKTFKQRRTFEQRVEDVRLIREQHPTKIPVIIERYKGEKQLPVLDKTKFLVPDHVNMSE 67
Query: 61 FVYVIRKRIKLSAEKAIFIFVD-NVLPPTGAIMSAIYEEKKDEDGFLYVTYSGENTFGSH 119
+ +IR+R++L+A +A F+ V+ + + +S +YE +KDEDGFLY+ Y+ + TFG
Sbjct: 68 LIKIIRRRLQLNANQAFFLLVNGHSMVSVSTPISEVYESEKDEDGFLYMVYASQETFGMK 127
Query: 120 IPV 122
+ V
Sbjct: 128 LSV 130
>pdb|1V49|A Chain A, Solution Structure Of Microtubule-Associated Protein Light
Chain-3
Length = 120
Score = 80.9 bits (198), Expect = 2e-16, Method: Compositional matrix adjust.
Identities = 39/118 (33%), Positives = 69/118 (58%), Gaps = 2/118 (1%)
Query: 2 AKSYFKQEHDLXXXXXXXXXXXXXYPDRIPVIVEKAE-RSDIPNIDKKKYLVPADLTVGQ 60
++ FKQ +P +IPVI+E+ + +P +DK K+LVP + + +
Sbjct: 3 SEKTFKQRRTFEQRVEDVRLIREQHPTKIPVIIERYKGEKQLPVLDKTKFLVPDHVNMSE 62
Query: 61 FVYVIRKRIKLSAEKAIFIFVD-NVLPPTGAIMSAIYEEKKDEDGFLYVTYSGENTFG 117
+ +IR+R++L+A +A F+ V+ + + +S +YE +KDEDGFLY+ Y+ + TFG
Sbjct: 63 LIKIIRRRLQLNANQAFFLLVNGHSMVSVSTPISEVYESEKDEDGFLYMVYASQETFG 120
>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 = 80.9 bits (198), Expect = 2e-16, Method: Compositional matrix adjust.
Identities = 38/121 (31%), Positives = 71/121 (58%), Gaps = 2/121 (1%)
Query: 2 AKSYFKQEHDLXXXXXXXXXXXXXYPDRIPVIVEKAE-RSDIPNIDKKKYLVPADLTVGQ 60
++ FKQ +P +IPVI+E+ + +P +DK K+LVP + + +
Sbjct: 8 SEKTFKQRRSFEQRVEDVRLIREQHPTKIPVIIERYKGEKQLPVLDKTKFLVPDHVNMSE 67
Query: 61 FVYVIRKRIKLSAEKAIFIFVD-NVLPPTGAIMSAIYEEKKDEDGFLYVTYSGENTFGSH 119
+ +IR+R++L+A +A F+ V+ + + +S +YE ++DEDGFLY+ Y+ + TFG+
Sbjct: 68 LIKIIRRRLQLNANQAFFLLVNGHSMVSVSTPISEVYESERDEDGFLYMVYASQETFGTA 127
Query: 120 I 120
+
Sbjct: 128 L 128
>pdb|2K6Q|A Chain A, Lc3 P62 Complex Structure
Length = 121
Score = 80.5 bits (197), Expect = 2e-16, Method: Compositional matrix adjust.
Identities = 38/118 (32%), Positives = 69/118 (58%), Gaps = 2/118 (1%)
Query: 2 AKSYFKQEHDLXXXXXXXXXXXXXYPDRIPVIVEKAE-RSDIPNIDKKKYLVPADLTVGQ 60
++ FKQ +P +IPVI+E+ + +P +DK K+LVP + + +
Sbjct: 4 SEKTFKQRRSFEQRVEDVRLIREQHPTKIPVIIERYKGEKQLPVLDKTKFLVPDHVNMSE 63
Query: 61 FVYVIRKRIKLSAEKAIFIFVD-NVLPPTGAIMSAIYEEKKDEDGFLYVTYSGENTFG 117
+ +IR+R++L+A +A F+ V+ + + +S +YE ++DEDGFLY+ Y+ + TFG
Sbjct: 64 LIKIIRRRLQLNANQAFFLLVNGHSMVSVSTPISEVYESERDEDGFLYMVYASQETFG 121
>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 = 80.1 bits (196), Expect = 3e-16, Method: Compositional matrix adjust.
Identities = 38/118 (32%), Positives = 69/118 (58%), Gaps = 2/118 (1%)
Query: 2 AKSYFKQEHDLXXXXXXXXXXXXXYPDRIPVIVEKAE-RSDIPNIDKKKYLVPADLTVGQ 60
++ FKQ +P +IPVI+E+ + +P +DK K+LVP + + +
Sbjct: 8 SEKTFKQRRSFEQRVEDVRLIREQHPTKIPVIIERYKGEKQLPVLDKTKFLVPDHVNMSE 67
Query: 61 FVYVIRKRIKLSAEKAIFIFVD-NVLPPTGAIMSAIYEEKKDEDGFLYVTYSGENTFG 117
+ +IR+R++L+A +A F+ V+ + + +S +YE ++DEDGFLY+ Y+ + TFG
Sbjct: 68 LIKIIRRRLQLNANQAFFLLVNGHSMVSVSTPISEVYESERDEDGFLYMVYASQETFG 125
>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 = 79.3 bits (194), Expect = 5e-16, Method: Compositional matrix adjust.
Identities = 39/114 (34%), Positives = 67/114 (58%), Gaps = 2/114 (1%)
Query: 6 FKQEHDLXXXXXXXXXXXXXYPDRIPVIVEKAE-RSDIPNIDKKKYLVPADLTVGQFVYV 64
FKQ +P +IPVI+E+ + +P +DK K+LVP + + + V +
Sbjct: 8 FKQRRSFADRCKEVQQIRDQHPSKIPVIIERYKGEKQLPVLDKTKFLVPDHVNMSELVKI 67
Query: 65 IRKRIKLSAEKAIFIFVD-NVLPPTGAIMSAIYEEKKDEDGFLYVTYSGENTFG 117
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 = 0.024, Method: Compositional matrix adjust.
Identities = 21/78 (26%), Positives = 34/78 (43%)
Query: 40 SDIPNIDKKKYLVPADLTVGQFVYVIRKRIKLSAEKAIFIFVDNVLPPTGAIMSAIYEEK 99
D P + KK+ V T+ + I+K +KL A + +FI+V+ P+ E
Sbjct: 14 GDTPIMKTKKWAVERTRTIQGLIDFIKKFLKLVASEQLFIYVNQSFAPSPDQEVGTLYEC 73
Query: 100 KDEDGFLYVTYSGENTFG 117
DG L + Y +G
Sbjct: 74 FGSDGKLVLHYCKSQAWG 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 = 1.2, Method: Compositional matrix adjust.
Identities = 13/51 (25%), Positives = 22/51 (43%)
Query: 37 AERSDIPNIDKKKYLVPADLTVGQFVYVIRKRIKLSAEKAIFIFVDNVLPP 87
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 = 1.4, Method: Compositional matrix adjust.
Identities = 13/51 (25%), Positives = 22/51 (43%)
Query: 37 AERSDIPNIDKKKYLVPADLTVGQFVYVIRKRIKLSAEKAIFIFVDNVLPP 87
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 = 28.1 bits (61), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 13/51 (25%), Positives = 22/51 (43%)
Query: 37 AERSDIPNIDKKKYLVPADLTVGQFVYVIRKRIKLSAEKAIFIFVDNVLPP 87
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 = 3.2, Method: Compositional matrix adjust.
Identities = 13/56 (23%), Positives = 26/56 (46%), Gaps = 12/56 (21%)
Query: 32 VIVEKAERSDIPNIDKKKYLVPADLTVGQFVYVIRKRIKLSAEKAIFIFVDNVLPP 87
++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 = 25.4 bits (54), Expect = 7.6, Method: Compositional matrix adjust.
Identities = 10/26 (38%), Positives = 17/26 (65%)
Query: 87 PTGAIMSAIYEEKKDEDGFLYVTYSG 112
P GAI+ + +E +D+DGF ++G
Sbjct: 28 PEGAIIRILNKENQDDDGFWEGEFNG 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
0.320 0.139 0.398
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,248,712
Number of Sequences: 62578
Number of extensions: 114222
Number of successful extensions: 263
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: 219
Number of HSP's gapped (non-prelim): 31
length of query: 122
length of database: 14,973,337
effective HSP length: 84
effective length of query: 38
effective length of database: 9,716,785
effective search space: 369237830
effective search space used: 369237830
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)